Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 117 of 167
Found at i:39083003 original size:9 final size:9
Alignment explanation
Indices: 39082986--39083022 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
39082976 TGAGTTTTCG
39082986 AATTCGAAT
1 AATTCGAAT
*
39082995 AACTCGAAT
1 AATTCGAAT
39083004 AATTCGAAT
1 AATTCGAAT
39083013 AATTCGAAT
1 AATTCGAAT
39083022 A
1 A
39083023 TTAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:39086063 original size:16 final size:17
Alignment explanation
Indices: 39086034--39086067 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
39086024 ATAAGTATAA
39086034 AAAAGTTTAAAATAATT
1 AAAAGTTTAAAATAATT
*
39086051 AAAA-TTTATAATAATT
1 AAAAGTTTAAAATAATT
39086067 A
1 A
39086068 TTAAAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
AAAAGTTTAAAATAATT
Found at i:39086070 original size:19 final size:19
Alignment explanation
Indices: 39086042--39086101 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
39086032 AAAAAAGTTT
*
39086042 AAAATAATTAAAATTTATA
1 AAAATCATTAAAATTTATA
* * *
39086061 ATAATTATTAAAAATTAATTA
1 AAAATCATT-AAAATTTA-TA
39086082 AAAATCA-TAAAATTTATA
1 AAAATCATTAAAATTTATA
39086100 AA
1 AA
39086102 CAAATTTATT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
18 4 0.12
19 14 0.42
20 8 0.24
21 7 0.21
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATCATTAAAATTTATA
Found at i:39086076 original size:10 final size:10
Alignment explanation
Indices: 39086042--39086115 Score: 53
Period size: 10 Copynumber: 7.3 Consensus size: 10
39086032 AAAAAAGTTT
*
39086042 AAAATAATTA
1 AAAATTATTA
*
39086052 AAATTTA-TA
1 AAAATTATTA
*
39086061 ATAATTATTA
1 AAAATTATTA
39086071 AAAATTAATTA
1 AAAATT-ATTA
*
39086082 AAAATCA-TA
1 AAAATTATTA
* *
39086091 AAATTTATAA
1 AAAATTATTA
39086101 ACAAATTTATTA
1 A-AAA-TTATTA
39086113 AAA
1 AAA
39086116 CCATTAAAAA
Statistics
Matches: 48, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
9 14 0.29
10 15 0.31
11 13 0.27
12 6 0.12
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAATTATTA
Found at i:39089460 original size:18 final size:18
Alignment explanation
Indices: 39089423--39089471 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
39089413 CCAAGCTCAT
*
39089423 TATCAATCAATATTTTTCAA
1 TATCAATC-A-ATTTATCAA
39089443 TATCAATCAATTTATCAA
1 TATCAATCAATTTATCAA
*
39089461 TATCATTCAAT
1 TATCAATCAAT
39089472 AACAGGCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 18 0.67
19 1 0.04
20 8 0.30
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (18 bp):
TATCAATCAATTTATCAA
Found at i:39089517 original size:48 final size:48
Alignment explanation
Indices: 39089430--39089524 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
39089420 CATTATCAAT
* *
39089430 CAATATTTTTCAATATCAATCAATTTATCAATATCATTCAATAACAGG
1 CAATATTTTTCAATAGCAATCAATTGATCAATATCATTCAATAACAGG
* ** * *
39089478 CAATATTTTTCAGTAGCAATCAATTGATCTTTATTATTCAGTAACAG
1 CAATATTTTTCAATAGCAATCAATTGATCAATATCATTCAATAACAG
39089525 TCAACCATTA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (48 bp):
CAATATTTTTCAATAGCAATCAATTGATCAATATCATTCAATAACAGG
Found at i:39089687 original size:47 final size:47
Alignment explanation
Indices: 39089618--39089716 Score: 121
Period size: 47 Copynumber: 2.1 Consensus size: 47
39089608 ACCAACACAC
**
39089618 CAGTACGGCACTCAGTGTCTCATC-GACT-ATGCCGAAATAAATAGTAA
1 CAGTACGGCACTCAGTACCTCATCAGACTAAT-CCGAAAT-AATAGTAA
* * *
39089665 CAGTACGGTACTCAGTACCTCATCAGATTAATCCGAAGTAATAGTAA
1 CAGTACGGCACTCAGTACCTCATCAGACTAATCCGAAATAATAGTAA
39089712 CAGTA
1 CAGTA
39089717 TGACACACAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
47 34 0.76
48 9 0.20
49 2 0.04
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.24
Consensus pattern (47 bp):
CAGTACGGCACTCAGTACCTCATCAGACTAATCCGAAATAATAGTAA
Found at i:39090938 original size:13 final size:14
Alignment explanation
Indices: 39090921--39090949 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
39090911 TCTCTTTTTA
39090921 TTTTTATT-TTTCT
1 TTTTTATTCTTTCT
39090934 TTTTTATTCTTTCT
1 TTTTTATTCTTTCT
39090948 TT
1 TT
39090950 CCCACTTCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTATTCTTTCT
Found at i:39091324 original size:33 final size:30
Alignment explanation
Indices: 39091278--39091338 Score: 77
Period size: 33 Copynumber: 1.9 Consensus size: 30
39091268 CTTGTCTTTA
*
39091278 ATTTAATTTAATAATTATAAATAATAAATATCT
1 ATTTAATTAAATAA-T-TAAATAA-AAATATCT
*
39091311 ATTTACTTAAATAATTAAATAAAAATAT
1 ATTTAATTAAATAATTAAATAAAAATAT
39091339 TACAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 6 0.23
31 7 0.27
32 1 0.04
33 12 0.46
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (30 bp):
ATTTAATTAAATAATTAAATAAAAATATCT
Found at i:39091590 original size:16 final size:16
Alignment explanation
Indices: 39091569--39091608 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
39091559 AAATTGTTTC
*
39091569 ATAATATAATATAATT-
1 ATAATATAAT-CAATTA
39091585 ATAATATAATCAATTA
1 ATAATATAATCAATTA
39091601 ATAATATA
1 ATAATATA
39091609 TAATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAATATAATCAATTA
Found at i:39092934 original size:19 final size:19
Alignment explanation
Indices: 39092908--39092981 Score: 71
Period size: 19 Copynumber: 3.8 Consensus size: 19
39092898 CATAACAAAA
*
39092908 TTAT-ATTTTTATAAAGTT
1 TTATGATTTTTATAAAATT
39092926 TTATGATTTTT-TAATTAATT
1 TTATGATTTTTATAA--AATT
*
39092946 TCTAATAATTTTTATAAAATT
1 T-T-ATGATTTTTATAAAATT
*
39092967 TTATGTTTTTTATAA
1 TTATGATTTTTATAA
39092982 TTCTAGAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
18 7 0.15
19 17 0.37
20 5 0.11
21 6 0.13
22 8 0.17
23 3 0.07
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (19 bp):
TTATGATTTTTATAAAATT
Found at i:39097669 original size:104 final size:104
Alignment explanation
Indices: 39097468--39097689 Score: 241
Period size: 104 Copynumber: 2.1 Consensus size: 104
39097458 CAGGGTTCAT
* * * * **
39097468 ACGGGTAATAGACACTAGTGTGTGTCTAGGTCGTGTAACTCACTATTTGGGACTTAAGACCACAT
1 ACGGGTAA-GGACACTAGTGTATGTCTAGGCCATGTAACTCACTATTTAAGACTTAAGACCACAT
** * * *
39097533 GGCCAGGGACATGGGCGTGTGCCTATGTCGTGTGAGTCAC
65 GGCCAAAGACATGGGCATGTGCCTATGCCGTGTGAGCCAC
* * *
39097573 ACGGGTAAGGACACTGGTGTATGTCTAGGCCATGTAACTCACTATTTAAG-TTTTAGAACCACAT
1 ACGGGTAAGGACACTAGTGTATGTCTAGGCCATGTAACTCACTATTTAAGACTTAAG-ACCACAT
* * *
39097637 GGGCAAAGACATGGGCATGTGTCT-TAGCCGTGTGAGCCAT
65 GGCCAAAGACATGGGCATGTGCCTAT-GCCGTGTGAGCCAC
*
39097677 ACGGGCAAGGACA
1 ACGGGTAAGGACA
39097690 TAGGCGTGTG
Statistics
Matches: 97, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
103 5 0.05
104 84 0.87
105 8 0.08
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (104 bp):
ACGGGTAAGGACACTAGTGTATGTCTAGGCCATGTAACTCACTATTTAAGACTTAAGACCACATG
GCCAAAGACATGGGCATGTGCCTATGCCGTGTGAGCCAC
Found at i:39098585 original size:40 final size:40
Alignment explanation
Indices: 39098528--39098604 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
39098518 CTACTTTGCT
*
39098528 CCGTACTGTTCTATTCCATTAAGTATTATTCTGCTTTACG
1 CCGTACTGGTCTATTCCATTAAGTATTATTCTGCTTTACG
* *
39098568 CCGTACTGGTCTGTTCCATTCAGTATTATTCTGCTTT
1 CCGTACTGGTCTATTCCATTAAGTATTATTCTGCTTT
39098605 GTTCTACCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.45
Consensus pattern (40 bp):
CCGTACTGGTCTATTCCATTAAGTATTATTCTGCTTTACG
Found at i:39099595 original size:30 final size:30
Alignment explanation
Indices: 39099561--39099619 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
39099551 ATACAATATA
39099561 TTTCATCTTTTCTCCTTTTAAAATTAACCG
1 TTTCATCTTTTCTCCTTTTAAAATTAACCG
*
39099591 TTTCATCTTTTCTTCTTTTAAAATTAACC
1 TTTCATCTTTTCTCCTTTTAAAATTAACC
39099620 CTCAATGTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.24, C:0.22, G:0.02, T:0.53
Consensus pattern (30 bp):
TTTCATCTTTTCTCCTTTTAAAATTAACCG
Found at i:39100715 original size:16 final size:15
Alignment explanation
Indices: 39100684--39100725 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
39100674 TATGTAAATT
39100684 AAGTTAT-TAAACAA
1 AAGTTATATAAACAA
*
39100698 AAGATTATATAAAGAA
1 AAG-TTATATAAACAA
*
39100714 AAGTTGTATAAA
1 AAGTTATATAAA
39100726 AAGTATGCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 12 0.50
16 9 0.38
ACGTcount: A:0.57, C:0.02, G:0.12, T:0.29
Consensus pattern (15 bp):
AAGTTATATAAACAA
Found at i:39121218 original size:55 final size:55
Alignment explanation
Indices: 39121117--39121254 Score: 206
Period size: 55 Copynumber: 2.5 Consensus size: 55
39121107 TCTTACATGC
* *
39121117 AATCACATATCGATGCCACT-ATCCCTAACAGGGGCTTACTCACACACATATATCGA
1 AATCACATATCGATGCCA-TGGT-CTTAACAGGGGCTTACTCACACACATATATCGA
* *
39121173 AATCACATATCGATGCCATGGTCTTAACAGGGTCTTACTCGCACACATATATCGA
1 AATCACATATCGATGCCATGGTCTTAACAGGGGCTTACTCACACACATATATCGA
*
39121228 AATCTCATATCGATGCCATGGTCTTAA
1 AATCACATATCGATGCCATGGTCTTAA
39121255 TCGCACACAT
Statistics
Matches: 76, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
55 57 0.75
56 19 0.25
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (55 bp):
AATCACATATCGATGCCATGGTCTTAACAGGGGCTTACTCACACACATATATCGA
Found at i:39128786 original size:13 final size:14
Alignment explanation
Indices: 39128756--39128803 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
39128746 TTTTAATTTA
*
39128756 ATTTTTTTATATGAT
1 ATTTTATTATAT-AT
39128771 ATTTTATTATATTATT
1 ATTTTATTATA-TA-T
39128787 ATTTTATTAGTATAT
1 ATTTTATTA-TATAT
39128802 AT
1 AT
39128804 AAAGAAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 14 0.48
16 13 0.45
17 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (14 bp):
ATTTTATTATATAT
Found at i:39128791 original size:16 final size:15
Alignment explanation
Indices: 39128756--39128795 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
39128746 TTTTAATTTA
*
39128756 ATTTTTTTATATGAT
1 ATTTTATTATATGAT
*
39128771 ATTTTATTATATTATT
1 ATTTTATTATATGA-T
39128787 ATTTTATTA
1 ATTTTATTA
39128796 GTATATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
ATTTTATTATATGAT
Found at i:39135104 original size:16 final size:16
Alignment explanation
Indices: 39135083--39135116 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
39135073 CCAATATCCA
* *
39135083 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
39135099 ATTATCACATTTACAC
1 ATTATCACATTTACAC
39135115 AT
1 AT
39135117 ATATATTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:39135445 original size:14 final size:14
Alignment explanation
Indices: 39135426--39135455 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
39135416 TCATTCTCCT
39135426 TTTCTTTATTTTTC
1 TTTCTTTATTTTTC
*
39135440 TTTCTTTTTTTTTC
1 TTTCTTTATTTTTC
39135454 TT
1 TT
39135456 AGTTTTGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTCTTTATTTTTC
Found at i:39138447 original size:49 final size:49
Alignment explanation
Indices: 39138355--39138578 Score: 185
Period size: 49 Copynumber: 4.7 Consensus size: 49
39138345 CATTAAAGTC
* ** *
39138355 GATGCCATGTCCCAGACAGGTCTTACACTAACTTTCGTATATCGAGGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTCGCATATATCGAGGCT
* * *
39138404 AATGCCATGTGCCAGACAGGTCTTACACTAGCTCGCATCTATCG-GTG-T
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTCGCATATATCGAG-GCT
* * * * *
39138452 CGATGCTATGTCTCAGACAGGTCTTACACTA--ACGCACA-A-C-AAGCT
1 -GATGCCATGTCCCAGACAGGTCTTACACTAGCTCGCATATATCGAGGCT
* * * * * *
39138497 GACGCCATGTCCCAGATAGGTCTTACACTAGCTTGTATATCTCGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTCGCATATATCGAGGCT
* * *
39138546 GATG-CATTTTCCAGACATGTCTTACACTAGCTC
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTC
39138579 ATATACCACA
Statistics
Matches: 134, Mismatches: 32, Indels: 19
0.72 0.17 0.10
Matches are distributed among these distances:
44 27 0.20
45 2 0.01
46 4 0.03
47 4 0.03
48 27 0.20
49 70 0.52
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (49 bp):
GATGCCATGTCCCAGACAGGTCTTACACTAGCTCGCATATATCGAGGCT
Found at i:39138549 original size:93 final size:92
Alignment explanation
Indices: 39138407--39138574 Score: 214
Period size: 93 Copynumber: 1.8 Consensus size: 92
39138397 CGAGGCTAAT
* * *
39138407 GCCATGTGCCAGACAGGTCTTACACTAGCTCGCATCTATCGGTGTCGATGCTATGTCT-CAGACA
1 GCCATGTCCCAGACAGGTCTTACACTAGCTCGCATATATCGGTGCCGATGC-AT-TCTCCAGACA
39138471 GGTCTTACACTAACGCACAACAAGCTGAC
64 GGTCTTACACTAACGCACAACAAGCTGAC
* * * * * *
39138500 GCCATGTCCCAGATAGGTCTTACACTAGCTTGTATATCTCGAG-GCCGATGCATTTTCCAGACAT
1 GCCATGTCCCAGACAGGTCTTACACTAGCTCGCATATATCG-GTGCCGATGCATTCTCCAGACAG
39138564 GTCTTACACTA
65 GTCTTACACTA
39138575 GCTCATATAC
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
91 2 0.03
92 19 0.30
93 42 0.66
94 1 0.02
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (92 bp):
GCCATGTCCCAGACAGGTCTTACACTAGCTCGCATATATCGGTGCCGATGCATTCTCCAGACAGG
TCTTACACTAACGCACAACAAGCTGAC
Found at i:39141487 original size:11 final size:10
Alignment explanation
Indices: 39141461--39141494 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
39141451 GGAGAGCACC
*
39141461 AAGAGTCAAA
1 AAGAGCCAAA
39141471 AAGAGCCAAA
1 AAGAGCCAAA
39141481 AACGAGCCAAA
1 AA-GAGCCAAA
39141492 AAG
1 AAG
39141495 GGACAAAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.59, C:0.18, G:0.21, T:0.03
Consensus pattern (10 bp):
AAGAGCCAAA
Found at i:39162091 original size:18 final size:18
Alignment explanation
Indices: 39162068--39162105 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
39162058 AATGTGGACT
39162068 ACACATTTTAAGTAATTG
1 ACACATTTTAAGTAATTG
39162086 ACACATTTTAAGTAATTG
1 ACACATTTTAAGTAATTG
39162104 AC
1 AC
39162106 TTTTTAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (18 bp):
ACACATTTTAAGTAATTG
Found at i:39163958 original size:61 final size:61
Alignment explanation
Indices: 39163892--39164042 Score: 284
Period size: 61 Copynumber: 2.5 Consensus size: 61
39163882 ATCCTAAATA
39163892 TAAAAAATTCAATAAATTTAGCTCTCAATGCTTACTAAACTTGCCATTCTAGTTCTAATTC
1 TAAAAAATTCAATAAATTTAGCTCTCAATGCTTACTAAACTTGCCATTCTAGTTCTAATTC
39163953 TAAAAAATTCAATAAATTTAGCTCTCAATGCTTACTAAACTTGCCATTCTAGTTCTAATTC
1 TAAAAAATTCAATAAATTTAGCTCTCAATGCTTACTAAACTTGCCATTCTAGTTCTAATTC
* *
39164014 TAAAAAATTCAATAAATTTGGCCCTCAAT
1 TAAAAAATTCAATAAATTTAGCTCTCAAT
39164043 ATTTACACAA
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 88 1.00
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (61 bp):
TAAAAAATTCAATAAATTTAGCTCTCAATGCTTACTAAACTTGCCATTCTAGTTCTAATTC
Found at i:39167198 original size:16 final size:16
Alignment explanation
Indices: 39167177--39167218 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
39167167 TTGAATAGAA
39167177 GATAGATTAACTTCAT
1 GATAGATTAACTTCAT
39167193 GATAGATTAACTTCAT
1 GATAGATTAACTTCAT
*
39167209 AATTAGATTA
1 GA-TAGATTA
39167219 TTCTTAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 17 0.71
17 7 0.29
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (16 bp):
GATAGATTAACTTCAT
Found at i:39173870 original size:20 final size:20
Alignment explanation
Indices: 39173847--39173895 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
39173837 TTAAATTCTA
*
39173847 AAAGATAAATACAAATAAAT
1 AAAGATAAATAAAAATAAAT
*
39173867 AAAGATAATTAAAAATAAAT
1 AAAGATAAATAAAAATAAAT
*
39173887 GAAGATAAA
1 AAAGATAAA
39173896 AGCTAAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.20
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAAT
Found at i:39173894 original size:10 final size:10
Alignment explanation
Indices: 39173847--39173895 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
39173837 TTAAATTCTA
39173847 AAAGATAAAT
1 AAAGATAAAT
39173857 ACAA-ATAAAT
1 A-AAGATAAAT
*
39173867 AAAGATAATT
1 AAAGATAAAT
*
39173877 AAAAATAAAT
1 AAAGATAAAT
*
39173887 GAAGATAAA
1 AAAGATAAA
39173896 AGCTAAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 2 0.06
10 28 0.88
11 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:39176897 original size:24 final size:21
Alignment explanation
Indices: 39176863--39176912 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
39176853 ATAGTAATAC
* *
39176863 AATAATATTAA-CAACATAAT
1 AATAATATTAATTAAAATAAT
*
39176883 AATGATATTAATTAAAATAAT
1 AATAATATTAATTAAAATAAT
39176904 AATAATATT
1 AATAATATT
39176913 TTCTTACCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (21 bp):
AATAATATTAATTAAAATAAT
Found at i:39177167 original size:21 final size:21
Alignment explanation
Indices: 39177127--39177167 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
39177117 AAAATTTGAG
* **
39177127 AGAAAATTGAGAGATTAGGAT
1 AGAAAATTAAGAGAAAAGGAT
39177148 AGAAAATTAAGAGAAAAGGA
1 AGAAAATTAAGAGAAAAGGA
39177168 ATTTGAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.27, T:0.17
Consensus pattern (21 bp):
AGAAAATTAAGAGAAAAGGAT
Found at i:39178580 original size:28 final size:28
Alignment explanation
Indices: 39178544--39178601 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
39178534 CCCAGAATGA
39178544 TGCCATTCAAGATCAAATCAAGGCAGGG
1 TGCCATTCAAGATCAAATCAAGGCAGGG
39178572 TGCCATTCAAGATCAAATCAAGGCAGGG
1 TGCCATTCAAGATCAAATCAAGGCAGGG
39178600 TG
1 TG
39178602 AGTTAAAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (28 bp):
TGCCATTCAAGATCAAATCAAGGCAGGG
Found at i:39180990 original size:13 final size:13
Alignment explanation
Indices: 39180972--39180997 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39180962 GTTATGGATT
39180972 AAGGAGAATTTGA
1 AAGGAGAATTTGA
39180985 AAGGAGAATTTGA
1 AAGGAGAATTTGA
39180998 TAAAAATGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (13 bp):
AAGGAGAATTTGA
Found at i:39184102 original size:14 final size:14
Alignment explanation
Indices: 39184083--39184110 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
39184073 TCAGAGAGTT
39184083 TTTTTTTTATATAA
1 TTTTTTTTATATAA
39184097 TTTTTTTTATATAA
1 TTTTTTTTATATAA
39184111 AACAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTTTTTATATAA
Found at i:39196484 original size:28 final size:29
Alignment explanation
Indices: 39196452--39196506 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
39196442 CACGGGCGAC
39196452 GACACG-G-GTGTGTCTAGGCCGTGTGAGG
1 GACACGAGCGTGTG-CTAGGCCGTGTGAGG
*
39196480 GACACGAGCGTGTGCTTGGCCGTGTGA
1 GACACGAGCGTGTGCTAGGCCGTGTGA
39196507 AAACCCCTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 6 0.25
29 13 0.54
30 5 0.21
ACGTcount: A:0.15, C:0.20, G:0.44, T:0.22
Consensus pattern (29 bp):
GACACGAGCGTGTGCTAGGCCGTGTGAGG
Found at i:39214024 original size:24 final size:24
Alignment explanation
Indices: 39213982--39214056 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 24
39213972 CCACTAGGAC
* * *
39213982 CATTCAGCCTAATATACTGGTCTG
1 CATTCAGCCCAAGACACTGGTCTG
**
39214006 CATTCAGCCCAAGACACTGG-CCA
1 CATTCAGCCCAAGACACTGGTCTG
*
39214029 CTATTCAGCCCAAGGCACTGGTCTG
1 C-ATTCAGCCCAAGACACTGGTCTG
39214054 CAT
1 CAT
39214057 CACTCAGCCT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
23 2 0.05
24 37 0.90
25 2 0.05
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (24 bp):
CATTCAGCCCAAGACACTGGTCTG
Found at i:39222302 original size:60 final size:59
Alignment explanation
Indices: 39222195--39222307 Score: 163
Period size: 60 Copynumber: 1.9 Consensus size: 59
39222185 TAGGGAAAGT
* * *
39222195 AGAGTTTTAAATTTTTTTCCAAAATAAGATATTAGTTGTGATCTCTAAAGTAAAAGACC
1 AGAGTTTTAAATTTTTTTCCAAAATAAGACATTAGTTGAGATATCTAAAGTAAAAGACC
* * *
39222254 AGAGTTTTAATTTTTTTTTCCAAAATAAGACCTTGGTTGAGATATCTAAAGTAA
1 AGAGTTTTAA-ATTTTTTTCCAAAATAAGACATTAGTTGAGATATCTAAAGTAA
39222308 TAAACACTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
59 10 0.21
60 37 0.79
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (59 bp):
AGAGTTTTAAATTTTTTTCCAAAATAAGACATTAGTTGAGATATCTAAAGTAAAAGACC
Found at i:39223977 original size:16 final size:16
Alignment explanation
Indices: 39223956--39223986 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39223946 GTATGCATGC
*
39223956 AAAATATAAAAGATAG
1 AAAATACAAAAGATAG
39223972 AAAATACAAAAGATA
1 AAAATACAAAAGATA
39223987 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.03, G:0.10, T:0.16
Consensus pattern (16 bp):
AAAATACAAAAGATAG
Found at i:39225911 original size:36 final size:36
Alignment explanation
Indices: 39225855--39225926 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
39225845 AAGTAGCATG
* *
39225855 AGTAGAAACTTAAATTGTATTATCTTTCAGATTGTA
1 AGTAGAAACTTAAATCGTATTATCTTTCAAATTGTA
*
39225891 AGTAGAAACTTGAATCGTATTATCTTTCAAATTGTA
1 AGTAGAAACTTAAATCGTATTATCTTTCAAATTGTA
39225927 GAATAATCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (36 bp):
AGTAGAAACTTAAATCGTATTATCTTTCAAATTGTA
Found at i:39229522 original size:68 final size:64
Alignment explanation
Indices: 39229375--39229559 Score: 205
Period size: 68 Copynumber: 2.8 Consensus size: 64
39229365 ATATAGTTCG
* *
39229375 GCTCTCTTGTACACATGGTGAACACTCAGTACCACCCATGTGACCGAGCTA-ATTTATCTCGTA
1 GCTCTCTTGTACACATGGTGTACACTCAGTACCACCCATGTGACCTAGCTACATTTATCTCGTA
* *
39229438 GCTCTCTTGT-CTACATGGTGTACACAT-AGTATCACCCATGTGACCTAGCTACATCATAATGTC
1 GCTCTCTTGTAC-ACATGGTGTACAC-TCAGTACCACCCATGTGACCTAGCTACAT--T--TATC
*
39229501 TTGTA
60 TCGTA
* * * **
39229506 GCTCTCTTGTACACATGATGTGCACTCAGCACCATACATGTGACCTAGCTACAT
1 GCTCTCTTGTACACATGGTGTACACTCAGTACCACCCATGTGACCTAGCTACAT
39229560 ACTATCTGTA
Statistics
Matches: 102, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
62 1 0.01
63 44 0.43
64 3 0.03
66 1 0.01
67 1 0.01
68 51 0.50
69 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (64 bp):
GCTCTCTTGTACACATGGTGTACACTCAGTACCACCCATGTGACCTAGCTACATTTATCTCGTA
Found at i:39230259 original size:30 final size:30
Alignment explanation
Indices: 39230225--39230286 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
39230215 GTCCTTAACT
39230225 TAAACTTTGGAAAAATTACAATTTTGCCCC
1 TAAACTTTGGAAAAATTACAATTTTGCCCC
* * * * *
39230255 TAAACTTTTGCATATTTACACTTTTGCCCC
1 TAAACTTTGGAAAAATTACAATTTTGCCCC
39230285 TA
1 TA
39230287 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
TAAACTTTGGAAAAATTACAATTTTGCCCC
Found at i:39235522 original size:50 final size:48
Alignment explanation
Indices: 39235468--39235574 Score: 117
Period size: 50 Copynumber: 2.1 Consensus size: 48
39235458 GAAAGGAACT
** *
39235468 AAAAATAAT-AATTATAATAAGAATAAATATAAAATATAAAATAACAAACA
1 AAAAATAATGAAGAATAATAA-AATAAA-ATAAAATA-AAAATAAAAAACA
* *
39235518 AAAAATAATAGGAAGAATAATAAAGTAAAATAAAATAAAAATAAAAAACT
1 AAAAATAAT--GAAGAATAATAAAATAAAATAAAATAAAAATAAAAAACA
39235568 AAAAATA
1 AAAAATA
39235575 GGAAAATAGG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
50 27 0.55
51 8 0.16
52 5 0.10
53 9 0.18
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.21
Consensus pattern (48 bp):
AAAAATAATGAAGAATAATAAAATAAAATAAAATAAAAATAAAAAACA
Found at i:39238101 original size:2 final size:2
Alignment explanation
Indices: 39238094--39238123 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
39238084 GGATCATCTC
39238094 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39238124 CACAATTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 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:39243590 original size:3 final size:3
Alignment explanation
Indices: 39243582--39243729 Score: 54
Period size: 3 Copynumber: 48.7 Consensus size: 3
39243572 ATATAATATG
* * * *
39243582 ATA ATA ATA ATA ATGA ATAA ATA ATG ATA ATA AAA ATA ATA GTGA AGA
1 ATA ATA ATA ATA AT-A AT-A ATA ATA ATA ATA ATA ATA ATA AT-A ATA
* * * ** * *
39243630 A-A ATA GA-G ATA ACA CTA ATA ACG ATA TTAA AGA AT- ATA AGTA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA A-TA ATA
* * * * *
39243675 ATA GTA AAA ATA ATA A-A ATA ATG ATA ATA ATG ATA AAA ATA A-A AGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
39243722 ATA ATA AT
1 ATA ATA AT
39243730 GATACGTTAG
Statistics
Matches: 102, Mismatches: 32, Indels: 22
0.65 0.21 0.14
Matches are distributed among these distances:
2 9 0.09
3 79 0.77
4 14 0.14
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:39243600 original size:26 final size:26
Alignment explanation
Indices: 39243571--39243621 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
39243561 TATATGAAAA
*
39243571 AATATAAT-ATGATAATAATAATAATG
1 AATA-AATAATGATAATAAAAATAATG
39243597 AATAAATAATGATAATAAAAATAAT
1 AATAAATAATGATAATAAAAATAAT
39243622 AGTGAAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (26 bp):
AATAAATAATGATAATAAAAATAATG
Found at i:39243604 original size:17 final size:17
Alignment explanation
Indices: 39243564--39243622 Score: 58
Period size: 15 Copynumber: 3.8 Consensus size: 17
39243554 ATGAACGTAT
*
39243564 ATGAAAAAAT-ATAAT-
1 ATGAATAAATAATAATA
39243579 ATG-AT-AATAATAATA
1 ATGAATAAATAATAATA
*
39243594 ATGAATAAATAATGATA
1 ATGAATAAATAATAATA
39243611 AT-AA-AAATAATA
1 ATGAATAAATAATA
39243623 GTGAAGAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
13 3 0.08
14 6 0.16
15 13 0.35
16 4 0.11
17 11 0.30
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (17 bp):
ATGAATAAATAATAATA
Found at i:39243718 original size:35 final size:34
Alignment explanation
Indices: 39243679--39243811 Score: 92
Period size: 35 Copynumber: 3.9 Consensus size: 34
39243669 GTAATAATAG
39243679 TAAAAATAATAAAATAATGATAATAATGATAAAAA
1 TAAAAATAA-AAAATAATGATAATAATGATAAAAA
* * * * *
39243714 TAAAAGT-AATAATAATGATACGTTAGGTTATAAAAA
1 TAAAAATAAAAAATAATGATA--ATA-ATGATAAAAA
* * * **
39243750 T-AAAAT-AAAAATAGTGATAATAATAATGATGA
1 TAAAAATAAAAAATAATGATAATAATGATAAAAA
* *
39243782 TAATAATAAAAAATTAATGATAATAGTGAT
1 TAAAAATAAAAAA-TAATGATAATAATGAT
39243812 GTAAGTAAAA
Statistics
Matches: 74, Mismatches: 18, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
32 6 0.08
33 17 0.23
34 6 0.08
35 36 0.49
36 9 0.12
ACGTcount: A:0.59, C:0.01, G:0.11, T:0.29
Consensus pattern (34 bp):
TAAAAATAAAAAATAATGATAATAATGATAAAAA
Found at i:39254772 original size:29 final size:29
Alignment explanation
Indices: 39254730--39254790 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
39254720 AACATTTAAG
39254730 TTCCAAGTTATAAAAATGATAAAACTTTA
1 TTCCAAGTTATAAAAATGATAAAACTTTA
* *
39254759 TTCCAATTTATAAAAATGATAAAATTTTA
1 TTCCAAGTTATAAAAATGATAAAACTTTA
39254788 TTC
1 TTC
39254791 TAAAAATATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (29 bp):
TTCCAAGTTATAAAAATGATAAAACTTTA
Found at i:39262909 original size:6 final size:6
Alignment explanation
Indices: 39262860--39262908 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
39262850 ATGTGAGGTA
* * *
39262860 AGTATT AATATT AGTATT AGTATT AGTATT AGTATT ATTATT ATTATT
1 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT
39262908 A
1 A
39262909 TGAGTGGGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (6 bp):
AGTATT
Found at i:39268428 original size:17 final size:17
Alignment explanation
Indices: 39268406--39268438 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
39268396 TAAATGGACT
*
39268406 GTTTAATTTTATTTTTC
1 GTTTAATTTCATTTTTC
39268423 GTTTAATTTCATTTTT
1 GTTTAATTTCATTTTT
39268439 TAATTTTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (17 bp):
GTTTAATTTCATTTTTC
Found at i:39269396 original size:44 final size:44
Alignment explanation
Indices: 39268723--39269371 Score: 962
Period size: 44 Copynumber: 14.7 Consensus size: 44
39268713 CTTGGATCTG
* * * * *
39268723 GAGATGCCAAATTTGCT-TCTTGGATTTGCTCCTCGTCAAAATAC-
1 GAGATGCCAAATCTGCTATCTTCGATCTGCT-CTC-TGATAATACA
* *
39268767 GAAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACA
1 G-AGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGATAATACA
*
39268812 GAGATGCCAAATCTGCTATCTTTGATCTGCTCTCTGATAATACA
1 GAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGATAATACA
*
39268856 GAGATGCCAAATCTGCTATCTTTGATCTGCTCTCTGATAATACA
1 GAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGATAATACA
*
39268900 GAGATGCCAAATCTGCTATCTTTGATCTGCTCTCTGATAATACA
1 GAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGATAATACA
*
39268944 GAGATGCCAAATCTGCTATCTTTGATCTGCTCTCTGATAATACA
1 GAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGATAATACA
*
39268988 GAGATGCCAAATCTGCTATCTTTGATCTGCTCTCTGATAATACA
1 GAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGATAATACA
*
39269032 GAGATGCCAAATCTGCTATCTTTGATCTGCTCTCTGATAATACA
1 GAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGATAATACA
*
39269076 GAGATGCCAAATCTGCTATCTTTGATCTGCTCTCTGATAATACA
1 GAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGATAATACA
** * *
39269120 GAGATGCCAAATCTGCTATCTTCGATCTATTCTCTGACAATACT
1 GAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGATAATACA
* * *
39269164 GAGATGTCAAATCTGCTATCTTCGATCTGCTCTCTAACAATACA
1 GAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGATAATACA
* *
39269208 GAGATGCCAAATTTGCTATCTTCGAT-TCGCTCTCTGACAATACA
1 GAGATGCCAAATCTGCTATCTTCGATCT-GCTCTCTGATAATACA
* * *
39269252 GAGACGCCAAATCTGCTATCTTCAATCTGCTCTCTGACAATACA
1 GAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGATAATACA
* * * *
39269296 GAGACGCCAAATTTGCTATCTTCGATCTGTTCTCTGACAATACA
1 GAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGATAATACA
*
39269340 AAGATGCCAAATCTGCTATCTTCGATCTGCTC
1 GAGATGCCAAATCTGCTATCTTCGATCTGCTC
39269372 CTTGTAAATG
Statistics
Matches: 568, Mismatches: 32, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
43 1 0.00
44 537 0.95
45 19 0.03
46 11 0.02
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (44 bp):
GAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGATAATACA
Found at i:39273807 original size:35 final size:35
Alignment explanation
Indices: 39273759--39273836 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 35
39273749 CCGATTTTCA
*
39273759 GCTCTTTCTCTTCCTCTAGGGCTACATTCTCTATT
1 GCTCTTTCCCTTCCTCTAGGGCTACATTCTCTATT
*
39273794 GCTCTTTCCCTTCCTCTAGGGCTACATTTTCTATT
1 GCTCTTTCCCTTCCTCTAGGGCTACATTCTCTATT
39273829 GCCTCTTT
1 G-CTCTTT
39273837 TTCATAGGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
35 34 0.85
36 6 0.15
ACGTcount: A:0.10, C:0.32, G:0.12, T:0.46
Consensus pattern (35 bp):
GCTCTTTCCCTTCCTCTAGGGCTACATTCTCTATT
Found at i:39290466 original size:85 final size:86
Alignment explanation
Indices: 39290357--39290527 Score: 317
Period size: 85 Copynumber: 2.0 Consensus size: 86
39290347 TAAAAAAAAA
*
39290357 CTCCAATCCCATAATCTTCAATGATAAAAGATGGTAAAACAAAGTGAATGTTTTTTTCAGTTTAA
1 CTCCAATCCCATAATCTTCAATGATAAAAGAGGGTAAAACAAAGTGAATGTTTTTTTCAGTTTAA
39290422 TGTATTCGTGAACACCATGTT
66 TGTATTCGTGAACACCATGTT
39290443 CTCCAAT-CCATAATCTTCAATGATAAAAGAGGGTAAAACAAAGTGAATGTTTTTTTCAGTTTAA
1 CTCCAATCCCATAATCTTCAATGATAAAAGAGGGTAAAACAAAGTGAATGTTTTTTTCAGTTTAA
*
39290507 TGTATTCGTGAACACCGTGTT
66 TGTATTCGTGAACACCATGTT
39290528 TTCACTGCCG
Statistics
Matches: 83, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
85 76 0.92
86 7 0.08
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (86 bp):
CTCCAATCCCATAATCTTCAATGATAAAAGAGGGTAAAACAAAGTGAATGTTTTTTTCAGTTTAA
TGTATTCGTGAACACCATGTT
Found at i:39291645 original size:260 final size:260
Alignment explanation
Indices: 39291177--39291695 Score: 993
Period size: 260 Copynumber: 2.0 Consensus size: 260
39291167 TGTAATTCAT
39291177 TTTGTATTTACATCTTATTTAGTACATTTACCCGAGATTTGATCCTCACTTCTAATTTTTTTTCG
1 TTTGTATTTACATCTTATTTAGTACATTTACCCGAGATTTGATCCTCACTTCTAATTTTTTTTCG
39291242 ATGAATGGATATTATTTAAAAAACAAAAACCTTACCAATAAATTGAAATAAAATAAAAGCATACT
66 ATGAATGGATATTATTTAAAAAACAAAAACCTTACCAATAAATTGAAATAAAATAAAAGCATACT
39291307 TGCATATTACGTTTATTAACGATACTTAGTAGCATTATAACTAAACTTGTATACCATTGCTGATA
131 TGCATATTACGTTTATTAACGATACTTAGTAGCATTATAACTAAACTTGTATACCATTGCTGATA
* * *
39291372 CATGGACTAATTATATGAAATTGCAATAAGACTTTGAATTCAAGTAATCTACCGATCAAAGTTGA
196 CATGGAATAATTATATGAAATTGCAATAAGACTTTGAATTCAAGAAATCTACCGACCAAAGTTGA
39291437 TTTGTATTTACATCTTATTTAGTACATTTACCCGAGATTTGATCCTCACTTCTAATTTTTTTTCG
1 TTTGTATTTACATCTTATTTAGTACATTTACCCGAGATTTGATCCTCACTTCTAATTTTTTTTCG
39291502 ATGAATGGATATTATTTAAAAAACAAAAACCTTACCAATAAATTGAAATAAAATAAAAGCATACT
66 ATGAATGGATATTATTTAAAAAACAAAAACCTTACCAATAAATTGAAATAAAATAAAAGCATACT
*
39291567 TGCATATTATGTTTATTAACGATACTTAGTAGCATTATAACTAAACTTGTATACCATTGCTGATA
131 TGCATATTACGTTTATTAACGATACTTAGTAGCATTATAACTAAACTTGTATACCATTGCTGATA
*
39291632 CATGGAATAATTATATGAAATTGCAATGAGACTTTGAATTCAAGAAATCTACCGACCAAAGTTG
196 CATGGAATAATTATATGAAATTGCAATAAGACTTTGAATTCAAGAAATCTACCGACCAAAGTTG
39291696 GTTCCCCTTG
Statistics
Matches: 254, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
260 254 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.36
Consensus pattern (260 bp):
TTTGTATTTACATCTTATTTAGTACATTTACCCGAGATTTGATCCTCACTTCTAATTTTTTTTCG
ATGAATGGATATTATTTAAAAAACAAAAACCTTACCAATAAATTGAAATAAAATAAAAGCATACT
TGCATATTACGTTTATTAACGATACTTAGTAGCATTATAACTAAACTTGTATACCATTGCTGATA
CATGGAATAATTATATGAAATTGCAATAAGACTTTGAATTCAAGAAATCTACCGACCAAAGTTGA
Found at i:39292468 original size:297 final size:297
Alignment explanation
Indices: 39291934--39292525 Score: 1148
Period size: 297 Copynumber: 2.0 Consensus size: 297
39291924 TCAAGCTTAA
39291934 TATTATTATATTATTAATAAATTTTTATTTTTTAAAATATTTCAAATTAATAGAATACTATAATT
1 TATTATTATATTATTAATAAATTTTTATTTTTTAAAATATTTCAAATTAATAGAATACTATAATT
39291999 TTCAATACTATTAAACATACATATTTAATTATCTATATCTAACCATATAATAAATTATTAATACA
66 TTCAATACTATTAAACATACATATTTAATTATCTATATCTAACCATATAATAAATTATTAATACA
39292064 ATATAGAAAAGAAATTAGTAATGGATAATTTTACTCATCGTATTTTTATACATTGCCTAAAACTA
131 ATATAGAAAAGAAATTAGTAATGGATAATTTTACTCATCGTATTTTTATACATTGCCTAAAACTA
*
39292129 CTCATAACTCCTCCCCAACCCTTAATATAGGATATCATTAATGCCCTTCAACATGCTCGAACCCA
196 CTCATAACTCCTCCCCAACCCTTAATATAGGATATCATTAATGCCCTTCAACACGCTCGAACCCA
* *
39292194 CGATCTCCTGCATGTGCAACAAGGTTGATGCCAATTT
261 CGACCTCCTGCATGTGCAACAAGGTCGATGCCAATTT
39292231 TATTATTATATTATTAATAAATTTTTATTTTTTAAAATATTTCAAATTAATAGAATACTATAATT
1 TATTATTATATTATTAATAAATTTTTATTTTTTAAAATATTTCAAATTAATAGAATACTATAATT
39292296 TTCAATACTATTAAACATACATATTTAATTATCTATATCTAACCATATAATAAATTATTAATACA
66 TTCAATACTATTAAACATACATATTTAATTATCTATATCTAACCATATAATAAATTATTAATACA
39292361 ATATAGAAAAGAAATTAGTAATGGATAATTTTACTCATCGTATTTTTATACATTGCCTAAAACTA
131 ATATAGAAAAGAAATTAGTAATGGATAATTTTACTCATCGTATTTTTATACATTGCCTAAAACTA
39292426 CTCATAACTCCTCCCCAACCCTTAATATAGGATATCATTAATGCCCTTCAACACGCTCGAACCCA
196 CTCATAACTCCTCCCCAACCCTTAATATAGGATATCATTAATGCCCTTCAACACGCTCGAACCCA
*
39292491 CGGCCTCCTGCATGTGCAACAAGGTCGATGCCAAT
261 CGACCTCCTGCATGTGCAACAAGGTCGATGCCAAT
39292526 CGAGCTAAGT
Statistics
Matches: 291, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
297 291 1.00
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.37
Consensus pattern (297 bp):
TATTATTATATTATTAATAAATTTTTATTTTTTAAAATATTTCAAATTAATAGAATACTATAATT
TTCAATACTATTAAACATACATATTTAATTATCTATATCTAACCATATAATAAATTATTAATACA
ATATAGAAAAGAAATTAGTAATGGATAATTTTACTCATCGTATTTTTATACATTGCCTAAAACTA
CTCATAACTCCTCCCCAACCCTTAATATAGGATATCATTAATGCCCTTCAACACGCTCGAACCCA
CGACCTCCTGCATGTGCAACAAGGTCGATGCCAATTT
Found at i:39293089 original size:146 final size:146
Alignment explanation
Indices: 39292883--39293174 Score: 521
Period size: 146 Copynumber: 2.0 Consensus size: 146
39292873 ATACTAGTAC
*
39292883 TTCTGCCCATATCATCTGTTAAAGGTCAAGGAGGAGGAGGTGGTGGTGTTATTGATGTTGTTGCA
1 TTCTGCCCATATCATCCGTTAAAGGTCAAGGAGGAGGAGGTGGTGGTGTTATTGATGTTGTTGCA
* * *
39292948 AATTTTGGTGCAAAGGCAGACGAGAAAACAGATTTGAGTAAGGTAAGCCAAATATCATATAACTT
66 AAGTTTGGTGCAAAGGCAGACGAGAAAACAGATTTGAGTAAGGTAAGCAAAATATCATATAACGT
39293013 TATAGTCAGCAGATAA
131 TATAGTCAGCAGATAA
* *
39293029 TTCTGTCCATATCATCCGTTGAAGGTCAAGGAGGAGGAGGTGGTGGTGTTATTGATGTTGTTGCA
1 TTCTGCCCATATCATCCGTTAAAGGTCAAGGAGGAGGAGGTGGTGGTGTTATTGATGTTGTTGCA
39293094 AAGTTTGGTGCAAAGGCAGACGAGAAAACAGATTTGAGTAAGGTAAGCAAAATATCATATAACGT
66 AAGTTTGGTGCAAAGGCAGACGAGAAAACAGATTTGAGTAAGGTAAGCAAAATATCATATAACGT
*
39293159 TATAGTTAGCAGATAA
131 TATAGTCAGCAGATAA
39293175 AAGTATGCAT
Statistics
Matches: 139, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
146 139 1.00
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (146 bp):
TTCTGCCCATATCATCCGTTAAAGGTCAAGGAGGAGGAGGTGGTGGTGTTATTGATGTTGTTGCA
AAGTTTGGTGCAAAGGCAGACGAGAAAACAGATTTGAGTAAGGTAAGCAAAATATCATATAACGT
TATAGTCAGCAGATAA
Found at i:39293439 original size:60 final size:60
Alignment explanation
Indices: 39293346--39293464 Score: 229
Period size: 60 Copynumber: 2.0 Consensus size: 60
39293336 CCTTAGATGG
39293346 TCCTTGCAAGGCTCCTATTGAGCTTCAAGTTCAAGGCACTGTGAAGGCTCCGACAGACCA
1 TCCTTGCAAGGCTCCTATTGAGCTTCAAGTTCAAGGCACTGTGAAGGCTCCGACAGACCA
*
39293406 TCCTTGCAAGGCTCCTATTGAGCTTCAAGTTCAAGGCACTGTGAAGGCTCCGGCAGACC
1 TCCTTGCAAGGCTCCTATTGAGCTTCAAGTTCAAGGCACTGTGAAGGCTCCGACAGACC
39293465 CTGGTGCTTT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (60 bp):
TCCTTGCAAGGCTCCTATTGAGCTTCAAGTTCAAGGCACTGTGAAGGCTCCGACAGACCA
Found at i:39294842 original size:23 final size:24
Alignment explanation
Indices: 39294794--39294843 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
39294784 TTATTTAATT
*
39294794 ATTTTGTTTTTTTTCTTTATATAA
1 ATTTTGTTTTTTTTATTTATATAA
39294818 ATTTT-TTATTTTTTATTTATA-AA
1 ATTTTGTT-TTTTTTATTTATATAA
39294841 ATT
1 ATT
39294844 GGCATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (24 bp):
ATTTTGTTTTTTTTATTTATATAA
Found at i:39295710 original size:136 final size:136
Alignment explanation
Indices: 39295466--39295734 Score: 493
Period size: 136 Copynumber: 2.0 Consensus size: 136
39295456 ATTGAGAACA
39295466 AGTTACCCAAAAACCATCGTATACTCGAAGAAAATCCTTCCTAGATTAAACTCAAACATTATGAA
1 AGTTACCCAAAAACCATCGTATACTCGAAGAAAATCCTTCCTAGATTAAACTCAAACATTATGAA
* * *
39295531 ACTCCAATGTAAGGCCTCGTTGGCCTTACAATAAGGACCAATCCTTCATTGGTGCTATCATTGTT
66 ACTCCAACGTAAGGCCTCGTTGGCCTTACAATAAGGACCAATCCTTCATTGGCGCAATCATTGTT
39295596 ATGTTT
131 ATGTTT
39295602 AGTTACCCAAAAACCATCGTATACTCGAAGAAAATCCTTCCTAGATTAAACTCAAACATTATGAA
1 AGTTACCCAAAAACCATCGTATACTCGAAGAAAATCCTTCCTAGATTAAACTCAAACATTATGAA
* *
39295667 ACTCCAACGTAAGGTCTTGTTGGCCTTACAATAAGGACCAATCCTTCATTGGCGCAATCATTGTT
66 ACTCCAACGTAAGGCCTCGTTGGCCTTACAATAAGGACCAATCCTTCATTGGCGCAATCATTGTT
39295732 ATG
131 ATG
39295735 CTTCAAGGAA
Statistics
Matches: 128, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
136 128 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (136 bp):
AGTTACCCAAAAACCATCGTATACTCGAAGAAAATCCTTCCTAGATTAAACTCAAACATTATGAA
ACTCCAACGTAAGGCCTCGTTGGCCTTACAATAAGGACCAATCCTTCATTGGCGCAATCATTGTT
ATGTTT
Found at i:39298678 original size:51 final size:51
Alignment explanation
Indices: 39298618--39298719 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
39298608 GTGTTTTCTT
39298618 ATGTTGTGTACTTGTTTATTCACTTAGCTTTCACAAGCTCATCTCTTTTAG
1 ATGTTGTGTACTTGTTTATTCACTTAGCTTTCACAAGCTCATCTCTTTTAG
39298669 ATGTTGTGTACTTGTTTATTCACTTAGCTTTCACAAGCTCATCTCTTTTAG
1 ATGTTGTGTACTTGTTTATTCACTTAGCTTTCACAAGCTCATCTCTTTTAG
39298720 CAGTGGAAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.47
Consensus pattern (51 bp):
ATGTTGTGTACTTGTTTATTCACTTAGCTTTCACAAGCTCATCTCTTTTAG
Found at i:39306344 original size:23 final size:24
Alignment explanation
Indices: 39306296--39306345 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
39306286 TTATTTAATT
*
39306296 ATTTTGTTTTTTTTCTTTATATAA
1 ATTTTGTTTTTTTTATTTATATAA
39306320 ATTTT-TTATTTTTTATTTATA-AA
1 ATTTTGTT-TTTTTTATTTATATAA
39306343 ATT
1 ATT
39306346 GGCATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (24 bp):
ATTTTGTTTTTTTTATTTATATAA
Found at i:39308951 original size:22 final size:22
Alignment explanation
Indices: 39308926--39308976 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
39308916 TGCATGTGTG
39308926 AACCTCTTCCATGCATTGTGCA
1 AACCTCTTCCATGCATTGTGCA
* * * *
39308948 AACCTCATCTATGCGTTGTGCG
1 AACCTCTTCCATGCATTGTGCA
39308970 AA-CTCTT
1 AACCTCTT
39308977 AGCATGAATC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (22 bp):
AACCTCTTCCATGCATTGTGCA
Found at i:39309518 original size:66 final size:66
Alignment explanation
Indices: 39309412--39309542 Score: 244
Period size: 66 Copynumber: 2.0 Consensus size: 66
39309402 TTGTTTTATG
* *
39309412 CCTAATTTTCTATTTTGCAATCTATTCTATGATGTGTTGTGGTACTGTGAGCTCTATTAAAAATT
1 CCTAATTTTCTATTTTGCAAGCTATTCTATAATGTGTTGTGGTACTGTGAGCTCTATTAAAAATT
39309477 C
66 C
39309478 CCTAATTTTCTATTTTGCAAGCTATTCTATAATGTGTTGTGGTACTGTGAGCTCTATTAAAAATT
1 CCTAATTTTCTATTTTGCAAGCTATTCTATAATGTGTTGTGGTACTGTGAGCTCTATTAAAAATT
39309543 GTGAACCTAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (66 bp):
CCTAATTTTCTATTTTGCAAGCTATTCTATAATGTGTTGTGGTACTGTGAGCTCTATTAAAAATT
C
Found at i:39323276 original size:85 final size:85
Alignment explanation
Indices: 39323167--39323592 Score: 825
Period size: 85 Copynumber: 5.0 Consensus size: 85
39323157 TAAAAAAAAA
*
39323167 CTCCAATCCCATAATCTTCAATGATAAAAGATGGTAAAACAAAGTGAATGTTTTTTTCAGTTTAA
1 CTCCAAT-CCATAATCTTCAATGATAAAAGAGGGTAAAACAAAGTGAATGTTTTTTTCAGTTTAA
39323232 TGTATTCGTGAACACCATGTT
65 TGTATTCGTGAACACCATGTT
39323253 CTCCAATCCATAATCTTCAATGATAAAAGAGGGTAAAACAAAGTGAATGTTTTTTTCAGTTTAAT
1 CTCCAATCCATAATCTTCAATGATAAAAGAGGGTAAAACAAAGTGAATGTTTTTTTCAGTTTAAT
39323318 GTATTCGTGAACACCATGTT
66 GTATTCGTGAACACCATGTT
39323338 CTCCAATCCATAATCTTCAATGATAAAAGAGGGTAAAACAAAGTGAATGTTTTTTTCAGTTTAAT
1 CTCCAATCCATAATCTTCAATGATAAAAGAGGGTAAAACAAAGTGAATGTTTTTTTCAGTTTAAT
39323403 GTATTCGTGAACACCATGTT
66 GTATTCGTGAACACCATGTT
39323423 CTCCAATCCATAATCTTCAATGATAAAAGAGGGTAAAACAAAGTGAATGTTTTTTTCAGTTTAAT
1 CTCCAATCCATAATCTTCAATGATAAAAGAGGGTAAAACAAAGTGAATGTTTTTTTCAGTTTAAT
39323488 GTATTCGTGAACACCATGTT
66 GTATTCGTGAACACCATGTT
39323508 CTCCAATCCATAATCTTCAATGATAAAAGAGGGTAAAACAAAGTGAATGTTTTTTTCAGTTTAAT
1 CTCCAATCCATAATCTTCAATGATAAAAGAGGGTAAAACAAAGTGAATGTTTTTTTCAGTTTAAT
*
39323573 GTATTCGTGAACACCGTGTT
66 GTATTCGTGAACACCATGTT
39323593 TTCACTGCCG
Statistics
Matches: 338, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
85 331 0.98
86 7 0.02
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (85 bp):
CTCCAATCCATAATCTTCAATGATAAAAGAGGGTAAAACAAAGTGAATGTTTTTTTCAGTTTAAT
GTATTCGTGAACACCATGTT
Found at i:39324967 original size:41 final size:41
Alignment explanation
Indices: 39324911--39324992 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
39324901 ACTCATCATT
* *
39324911 TTTTTATACATTGCCTAGAACTACTCATAACTCTTCCCCAA
1 TTTTTATACATTGCCTAAAACTACTCATAACTCCTCCCCAA
39324952 TTTTTATACATTGCCTAAAACTACTCATAACTCCTCCCCAA
1 TTTTTATACATTGCCTAAAACTACTCATAACTCCTCCCCAA
39324993 CCCTTAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.30, C:0.30, G:0.04, T:0.35
Consensus pattern (41 bp):
TTTTTATACATTGCCTAAAACTACTCATAACTCCTCCCCAA
Found at i:39326719 original size:220 final size:220
Alignment explanation
Indices: 39326337--39326775 Score: 851
Period size: 220 Copynumber: 2.0 Consensus size: 220
39326327 AGGACATGGT
*
39326337 ATCAGTATTGGTAGTCTCGGATTGTTTAAAAATGAAGAACCAGTTGATGGAGTTACAGTAAAAAA
1 ATCAGTATTGGCAGTCTCGGATTGTTTAAAAATGAAGAACCAGTTGATGGAGTTACAGTAAAAAA
39326402 TTGCACCATGACTAATACTTCCAATGGTGTTAGAATCAAAACTTGGCCAGGTGCTGAACCTGGCA
66 TTGCACCATGACTAATACTTCCAATGGTGTTAGAATCAAAACTTGGCCAGGTGCTGAACCTGGCA
39326467 CTTGTTCGAACATTCACTTTGAGGATATTACCGTGACCAATGTCAGTTCTCCTATTATAATTGAT
131 CTTGTTCGAACATTCACTTTGAGGATATTACCGTGACCAATGTCAGTTCTCCTATTATAATTGAT
39326532 CAGAAATATTGCCCATGGAACAAAC
196 CAGAAATATTGCCCATGGAACAAAC
*
39326557 ATCAGTATTGGCAGTCTCGGATTGTTTAAAAATGAAGAACCAGTTGATGGAGTTAGAGTAAAAAA
1 ATCAGTATTGGCAGTCTCGGATTGTTTAAAAATGAAGAACCAGTTGATGGAGTTACAGTAAAAAA
*
39326622 TTGCACCATGACTAATATTTCCAATGGTGTTAGAATCAAAACTTGGCCAGGTGCTGAACCTGGCA
66 TTGCACCATGACTAATACTTCCAATGGTGTTAGAATCAAAACTTGGCCAGGTGCTGAACCTGGCA
39326687 CTTGTTCGAACATTCACTTTGAGGATATTACCGTGACCAATGTCAGTTCTCCTATTATAATTGAT
131 CTTGTTCGAACATTCACTTTGAGGATATTACCGTGACCAATGTCAGTTCTCCTATTATAATTGAT
39326752 CAGAAATATTGCCCATGGAACAAA
196 CAGAAATATTGCCCATGGAACAAA
39326776 TGCAAAATAA
Statistics
Matches: 216, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
220 216 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (220 bp):
ATCAGTATTGGCAGTCTCGGATTGTTTAAAAATGAAGAACCAGTTGATGGAGTTACAGTAAAAAA
TTGCACCATGACTAATACTTCCAATGGTGTTAGAATCAAAACTTGGCCAGGTGCTGAACCTGGCA
CTTGTTCGAACATTCACTTTGAGGATATTACCGTGACCAATGTCAGTTCTCCTATTATAATTGAT
CAGAAATATTGCCCATGGAACAAAC
Found at i:39327911 original size:291 final size:290
Alignment explanation
Indices: 39327382--39328240 Score: 1263
Period size: 291 Copynumber: 3.0 Consensus size: 290
39327372 AGTCACCGAC
*
39327382 TTCAAAAGATAACTGGTGGCTTCATGTTGTTTTTCTCTATATTCGGTATAAGTCCAACATTGATA
1 TTCAGAAGATAACTGGTGGCTTCATGTTGTTTTTCTCTATATTCGGTATAAGTCCAACATTGATA
39327447 CGCTCAATATTTTTATATATATATTTGAAATTCATATATATTGGAAATGAATTAAAATTTAGGTA
66 CGCTCAATATTTTTATATATATATTTGAAATTCATATATATTGGAAATGAATTAAAATTTAGGTA
39327512 ATATAAAGGGTTAGATTACTTTTTGGTACCTGAACTTGACAAATTTTCTCATATTGTGGAACCCT
131 ATATAAAGGGTTAGATTACTTTTTGGTACCTGAACTTGACAAATTTTCTCATATTGTGGAACCCT
39327577 AGACCTTAAATTTGACAATTGATTCTACTTTGAGGCTTGGATTTTTTTTATCTAAATTAAACCTT
196 AGACCTTAAATTTGACAATTGATTCTACTTTGAGGCTTGGATTTTTTTTATCTAAATTAAACCTT
39327642 GAATTTTGTAGTTGTTCTCACAATAGGGTT
261 GAATTTTGTAGTTGTTCTCACAATAGGGTT
*
39327672 GTTCAGAAGATAAGTGGTGGCTTCATGTTGTTTTTCTCTATATTCGGTATAAGTCCAACATTGAT
1 -TTCAGAAGATAACTGGTGGCTTCATGTTGTTTTTCTCTATATTCGGTATAAGTCCAACATTGAT
39327737 ACGCTCAATATTTTTATATATATATTTGAAATTCATATATATTGGAAATGAATTAAAATTTAGGT
65 ACGCTCAATATTTTTATATATATATTTGAAATTCATATATATTGGAAATGAATTAAAATTTAGGT
39327802 AATATAAAGGGTTAGATTACTTTTTGGTACCTGAACTTGACAAATTTTCTCATATTGTGGAACCC
130 AATATAAAGGGTTAGATTACTTTTTGGTACCTGAACTTGACAAATTTTCTCATATTGTGGAACCC
39327867 TAGACCTTAAATTTGACAATTGATTCTACTTTGAGGCTTGGATTTTTTTTATCTAAATTAAACCT
195 TAGACCTTAAATTTGACAATTGATTCTACTTTGAGGCTTGGATTTTTTTTATCTAAATTAAACCT
39327932 TGAATTTTGTAGTTGTTCTCACAATAGGG-T
260 TGAATTTTGTAGTTGTTCTCACAATAGGGTT
** ** * **** * ** ** *
39327962 TT--GAA-AT-TTTTTTGG-TTCAAGTTAGTCCTTAAAGCGACCTT-TTTATATA-T--ATATAT
1 TTCAGAAGATAACTGGTGGCTTCATGTT-GT--TTTTCTCTATATTCGGTATA-AGTCCA-ACA-
* * * * *
39328018 TTGAAAAG-TC-ATA--CTTATAT-TCATA--T---ATTCATATATGTTGGAAATAAATTAAAAT
60 TTGATACGCTCAATATTTTTATATAT-ATATTTGAAATTCATATATATTGGAAATGAATTAAAAT
* * *
39328073 TTAGGTAATATAAAGGGTTAGATTACTTTTTGGTATCTGAACCTAACAAATTTTCTCATATTGTG
124 TTAGGTAATATAAAGGGTTAGATTACTTTTTGGTACCTGAACTTGACAAATTTTCTCATATTGTG
*
39328138 GAACCCTAAACCTTAAATTTGACAATTGATTCTACTTTGAGGCTTGGATTTTTTTTATCTAAATT
189 GAACCCTAGACCTTAAATTTGACAATTGATTCTACTTTGAGGCTTGGATTTTTTTTATCTAAATT
*
39328203 AAAACTTGAATTTTGTAGTTGTTCTCACAATAGGGTT
254 AAACCTTGAATTTTGTAGTTGTTCTCACAATAGGGTT
39328240 T
1 T
39328241 GAAATTTTTT
Statistics
Matches: 533, Mismatches: 27, Indels: 29
0.90 0.05 0.05
Matches are distributed among these distances:
277 187 0.35
278 2 0.00
280 1 0.00
281 1 0.00
282 9 0.02
284 11 0.02
285 10 0.02
286 13 0.02
287 10 0.02
289 2 0.00
290 1 0.00
291 286 0.54
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (290 bp):
TTCAGAAGATAACTGGTGGCTTCATGTTGTTTTTCTCTATATTCGGTATAAGTCCAACATTGATA
CGCTCAATATTTTTATATATATATTTGAAATTCATATATATTGGAAATGAATTAAAATTTAGGTA
ATATAAAGGGTTAGATTACTTTTTGGTACCTGAACTTGACAAATTTTCTCATATTGTGGAACCCT
AGACCTTAAATTTGACAATTGATTCTACTTTGAGGCTTGGATTTTTTTTATCTAAATTAAACCTT
GAATTTTGTAGTTGTTCTCACAATAGGGTT
Found at i:39328261 original size:277 final size:277
Alignment explanation
Indices: 39327767--39328273 Score: 951
Period size: 277 Copynumber: 1.8 Consensus size: 277
39327757 TATATTTGAA
*
39327767 ATTCATATATATTGGAAATGAATTAAAATTTAGGTAATATAAAGGGTTAGATTACTTTTTGGTAC
1 ATTCATATATATTGGAAATAAATTAAAATTTAGGTAATATAAAGGGTTAGATTACTTTTTGGTAC
* * *
39327832 CTGAACTTGACAAATTTTCTCATATTGTGGAACCCTAGACCTTAAATTTGACAATTGATTCTACT
66 CTGAACCTAACAAATTTTCTCATATTGTGGAACCCTAAACCTTAAATTTGACAATTGATTCTACT
*
39327897 TTGAGGCTTGGATTTTTTTTATCTAAATTAAACCTTGAATTTTGTAGTTGTTCTCACAATAGGGT
131 TTGAGGCTTGGATTTTTTTTATCTAAATTAAAACTTGAATTTTGTAGTTGTTCTCACAATAGGGT
39327962 TTGAAATTTTTTTGGTTCAAGTTAGTCCTTAAAGCGACCTTTTTATATATATATATTTGAAAAGT
196 TTGAAATTTTTTTGGTTCAAGTTAGTCCTTAAAGCGACCTTTTTATATATATATATTTGAAAAGT
39328027 CATACTTATATTCATAT
261 CATACTTATATTCATAT
* *
39328044 ATTCATATATGTTGGAAATAAATTAAAATTTAGGTAATATAAAGGGTTAGATTACTTTTTGGTAT
1 ATTCATATATATTGGAAATAAATTAAAATTTAGGTAATATAAAGGGTTAGATTACTTTTTGGTAC
39328109 CTGAACCTAACAAATTTTCTCATATTGTGGAACCCTAAACCTTAAATTTGACAATTGATTCTACT
66 CTGAACCTAACAAATTTTCTCATATTGTGGAACCCTAAACCTTAAATTTGACAATTGATTCTACT
39328174 TTGAGGCTTGGATTTTTTTTATCTAAATTAAAACTTGAATTTTGTAGTTGTTCTCACAATAGGGT
131 TTGAGGCTTGGATTTTTTTTATCTAAATTAAAACTTGAATTTTGTAGTTGTTCTCACAATAGGGT
39328239 TTGAAATTTTTTTGGTTCAAGTTAGTCCTTAAAGC
196 TTGAAATTTTTTTGGTTCAAGTTAGTCCTTAAAGC
39328274 CCTAGAGTTT
Statistics
Matches: 223, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
277 223 1.00
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (277 bp):
ATTCATATATATTGGAAATAAATTAAAATTTAGGTAATATAAAGGGTTAGATTACTTTTTGGTAC
CTGAACCTAACAAATTTTCTCATATTGTGGAACCCTAAACCTTAAATTTGACAATTGATTCTACT
TTGAGGCTTGGATTTTTTTTATCTAAATTAAAACTTGAATTTTGTAGTTGTTCTCACAATAGGGT
TTGAAATTTTTTTGGTTCAAGTTAGTCCTTAAAGCGACCTTTTTATATATATATATTTGAAAAGT
CATACTTATATTCATAT
Found at i:39329816 original size:20 final size:18
Alignment explanation
Indices: 39329772--39329822 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
39329762 TTTATAATTT
* *
39329772 TGAATGCAAATGATGCAT
1 TGAATGCAAAAGATGCAA
39329790 TGAAATGCAATAAGATGCAAA
1 TG-AATGCAA-AAGATGC-AA
39329811 TGAATGCAAAAG
1 TGAATGCAAAAG
39329823 GTATCGATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 2 0.07
19 10 0.36
20 13 0.46
21 3 0.11
ACGTcount: A:0.47, C:0.10, G:0.22, T:0.22
Consensus pattern (18 bp):
TGAATGCAAAAGATGCAA
Found at i:39333868 original size:22 final size:21
Alignment explanation
Indices: 39333843--39333884 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
39333833 ATTATATTTC
39333843 CAAGATTACAATACCATATCTT
1 CAAGATTAC-ATACCATATCTT
* *
39333865 CAAGATTGCATATCATATCT
1 CAAGATTACATACCATATCT
39333885 AAAATTGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.33
Consensus pattern (21 bp):
CAAGATTACATACCATATCTT
Found at i:39333893 original size:19 final size:19
Alignment explanation
Indices: 39333869--39333933 Score: 98
Period size: 19 Copynumber: 3.5 Consensus size: 19
39333859 TATCTTCAAG
*
39333869 ATTGCATATCATATCTAAA
1 ATTGCATATCATCTCTAAA
39333888 ATTGCATATCATCTCTAAA
1 ATTGCATATCATCTCTAAA
*
39333907 ATTG--TATCATCTCTAAG
1 ATTGCATATCATCTCTAAA
39333924 ATTGCATATC
1 ATTGCATATC
39333934 CTTAAAGATT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.38
19 26 0.62
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.38
Consensus pattern (19 bp):
ATTGCATATCATCTCTAAA
Found at i:39335016 original size:288 final size:287
Alignment explanation
Indices: 39334499--39335367 Score: 1308
Period size: 288 Copynumber: 3.0 Consensus size: 287
39334489 CACTGTGAAG
*
39334499 GCTCCGGCAGACCCTGGTGCTTTCAAGGAGCCTAAATGGATTGCTTTCAATAGAATTGAAAATTT
1 GCTCCGGCAGATCCTGGTGCTTTCAAGGAGCCTAAATGGATTGCTTTCAATAGAATTGAAAATTT
39334564 CAAATTGTCTGGCGGAGGAGTTTTCGACGGCCAGGGAACCACTGCTTATAAAAGGGAAGGTTGCA
66 CAAATTGTCTGGCGGAGGAGTTTTCGACGGCCAGGGAACCACTGCTTATAAAAGGGAAGGTTGCA
39334629 AAGGTCATGATTATTGTGGTTCACTTCCTATTGTAAGTTACTTTCTTATTGAGAAGTTATGACTT
131 AAGGTCATGATTATTGTGGTTCACTTCCTATTGTAAGTTACTTTCTTATTGAGAAGTTATGACTT
39334694 TTGTTTTTATAAATAGAATTAAGTAATAATTATTTTTTGTTTCATTCTGGAATTAAACAGAACCT
196 TTGTTTTTATAAATAGAATTAAGTAATAATTATTTTTTGTTTCATTCTGGAATTAAACAGAACCT
39334759 AAGGTTTGATTTTTTAACCAACGCAAT
261 AAGGTTTGATTTTTTAACCAACGCAAT
39334786 GCCTCCGGCAGATCCTGGTGCTTTCAAGGAGCCTAAATGGATTGCTTTCAATAGAATTGAAAATT
1 G-CTCCGGCAGATCCTGGTGCTTTCAAGGAGCCTAAATGGATTGCTTTCAATAGAATTGAAAATT
39334851 TCAAATTGTCTGGCGGAGGAGTTTTCGACGGCCAGGGAACCACTGCTTATAAAAGGGAAGGTTGC
65 TCAAATTGTCTGGCGGAGGAGTTTTCGACGGCCAGGGAACCACTGCTTATAAAAGGGAAGGTTGC
39334916 AAAGGTCATGATTATTGTGGTTCACTTCCTATTGTAAGTTACTTTCTTATTGAGAAGTTATGACT
130 AAAGGTCATGATTATTGTGGTTCACTTCCTATTGTAAGTTACTTTCTTATTGAGAAGTTATGACT
39334981 TTTGTTTTTATAAATAGAATTAAGTAATAATTATTTTTTGTTTCATTCTGGAATTAAACAGAACC
195 TTTGTTTTTATAAATAGAATTAAGTAATAATTATTTTTTGTTTCATTCTGGAATTAAACAGAACC
39335046 TAAGGTTTGATTTTTTAACCAACGCAAT
260 TAAGGTTTGATTTTTTAACCAACGCAAT
* * ** * * * * * * ** *
39335074 GATACAAGATATAACTACCAAAGACAGCAAGCAGTTCCA-G-G-CT-AAT-GTTCTAGGATGCAA
1 GCT-C-CGGCA-GA-T-CC--TG---G--TGC-TTTCAAGGAGCCTAAATGGAT-T-GCTTTCAA
* * ** * * *
39335134 -AAACATT---ACTTTC-GTTTGTCTAGCGGAGGAGTTTTCGACGACCAGGGATCCACTGCTTAT
51 TAGA-ATTGAAAATTTCAAATTGTCTGGCGGAGGAGTTTTCGACGGCCAGGGAACCACTGCTTAT
39335194 AAAAGGGAAGGTTGCAAAGGTCATGATTATTGTGGTTCACTTCCTATTGTAAGTTACTTTCTTAT
115 AAAAGGGAAGGTTGCAAAGGTCATGATTATTGTGGTTCACTTCCTATTGTAAGTTACTTTCTTAT
*
39335259 TGAGAAGTTATGACTTTTGTTTTTATAAATAGAATTAAGTAATAATTATTTTTTGTTTTATTCTG
180 TGAGAAGTTATGACTTTTGTTTTTATAAATAGAATTAAGTAATAATTATTTTTTGTTTCATTCTG
*
39335324 GAATTAAACAGAACCTAAGGTCTGATTTTTTAACCAACGCAAT
245 GAATTAAACAGAACCTAAGGTTTGATTTTTTAACCAACGCAAT
39335367 G
1 G
39335368 ATACAAGATA
Statistics
Matches: 542, Mismatches: 23, Indels: 28
0.91 0.04 0.05
Matches are distributed among these distances:
287 2 0.00
288 287 0.53
289 2 0.00
290 1 0.00
291 1 0.00
292 2 0.00
293 214 0.39
294 6 0.01
295 2 0.00
296 6 0.01
297 11 0.02
298 1 0.00
299 3 0.01
300 4 0.01
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (287 bp):
GCTCCGGCAGATCCTGGTGCTTTCAAGGAGCCTAAATGGATTGCTTTCAATAGAATTGAAAATTT
CAAATTGTCTGGCGGAGGAGTTTTCGACGGCCAGGGAACCACTGCTTATAAAAGGGAAGGTTGCA
AAGGTCATGATTATTGTGGTTCACTTCCTATTGTAAGTTACTTTCTTATTGAGAAGTTATGACTT
TTGTTTTTATAAATAGAATTAAGTAATAATTATTTTTTGTTTCATTCTGGAATTAAACAGAACCT
AAGGTTTGATTTTTTAACCAACGCAAT
Found at i:39335390 original size:293 final size:293
Alignment explanation
Indices: 39334567--39335441 Score: 1341
Period size: 293 Copynumber: 3.0 Consensus size: 293
39334557 AAAATTTCAA
39334567 ATTGTCTGGCGGAGGAGTTTTCGACGGCCAGGGAACCACTGCTTATAAAAGGGAAGGTTGCAAAG
1 ATTGTCTGGCGGAGGAGTTTTCGACGGCCAGGGAACCACTGCTTATAAAAGGGAAGGTTGCAAAG
39334632 GTCATGATTATTGTGGTTCACTTCCTATTGTAAGTTACTTTCTTATTGAGAAGTTATGACTTTTG
66 GTCATGATTATTGTGGTTCACTTCCTATTGTAAGTTACTTTCTTATTGAGAAGTTATGACTTTTG
39334697 TTTTTATAAATAGAATTAAGTAATAATTATTTTTTGTTTCATTCTGGAATTAAACAGAACCTAAG
131 TTTTTATAAATAGAATTAAGTAATAATTATTTTTTGTTTCATTCTGGAATTAAACAGAACCTAAG
* * ** * * * * *
39334762 GTTTGATTTTTTAACCAACGCAATGCCT-C-CGGCA-GA-T-CC--TG---G--TGC-TTTCAAG
196 GTTTGATTTTTTAACCAACGCAATG-ATACAAGATATAACTACCAAAGACAGCAAGCAGTTCCA-
* ** * * * *
39334814 GAGCCTAAATGGAT-T-GCTTTCAATAGA-ATTGAAAATTTCAA
259 G-G-CT-AAT-GTTCTAGGATGCAA-AAACATT---ACTTTC-G
39334855 ATTGTCTGGCGGAGGAGTTTTCGACGGCCAGGGAACCACTGCTTATAAAAGGGAAGGTTGCAAAG
1 ATTGTCTGGCGGAGGAGTTTTCGACGGCCAGGGAACCACTGCTTATAAAAGGGAAGGTTGCAAAG
39334920 GTCATGATTATTGTGGTTCACTTCCTATTGTAAGTTACTTTCTTATTGAGAAGTTATGACTTTTG
66 GTCATGATTATTGTGGTTCACTTCCTATTGTAAGTTACTTTCTTATTGAGAAGTTATGACTTTTG
39334985 TTTTTATAAATAGAATTAAGTAATAATTATTTTTTGTTTCATTCTGGAATTAAACAGAACCTAAG
131 TTTTTATAAATAGAATTAAGTAATAATTATTTTTTGTTTCATTCTGGAATTAAACAGAACCTAAG
39335050 GTTTGATTTTTTAACCAACGCAATGATACAAGATATAACTACCAAAGACAGCAAGCAGTTCCAGG
196 GTTTGATTTTTTAACCAACGCAATGATACAAGATATAACTACCAAAGACAGCAAGCAGTTCCAGG
39335115 CTAATGTTCTAGGATGCAAAAACATTACTTTCG
261 CTAATGTTCTAGGATGCAAAAACATTACTTTCG
* * * *
39335148 TTTGTCTAGCGGAGGAGTTTTCGACGACCAGGGATCCACTGCTTATAAAAGGGAAGGTTGCAAAG
1 ATTGTCTGGCGGAGGAGTTTTCGACGGCCAGGGAACCACTGCTTATAAAAGGGAAGGTTGCAAAG
39335213 GTCATGATTATTGTGGTTCACTTCCTATTGTAAGTTACTTTCTTATTGAGAAGTTATGACTTTTG
66 GTCATGATTATTGTGGTTCACTTCCTATTGTAAGTTACTTTCTTATTGAGAAGTTATGACTTTTG
*
39335278 TTTTTATAAATAGAATTAAGTAATAATTATTTTTTGTTTTATTCTGGAATTAAACAGAACCTAAG
131 TTTTTATAAATAGAATTAAGTAATAATTATTTTTTGTTTCATTCTGGAATTAAACAGAACCTAAG
*
39335343 GTCTGATTTTTTAACCAACGCAATGATACAAGATATAACTACCAAAGACAGCAAGCAGTTCCAGG
196 GTTTGATTTTTTAACCAACGCAATGATACAAGATATAACTACCAAAGACAGCAAGCAGTTCCAGG
39335408 CTAATGTTCTAGGATGCAAAAACATTACTTTCG
261 CTAATGTTCTAGGATGCAAAAACATTACTTTCG
39335441 A
1 A
39335442 ACATTTCACC
Statistics
Matches: 548, Mismatches: 23, Indels: 27
0.92 0.04 0.05
Matches are distributed among these distances:
287 1 0.00
288 221 0.40
289 2 0.00
290 1 0.00
291 1 0.00
292 2 0.00
293 287 0.52
294 6 0.01
295 2 0.00
296 6 0.01
297 11 0.02
298 1 0.00
299 3 0.01
300 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.35
Consensus pattern (293 bp):
ATTGTCTGGCGGAGGAGTTTTCGACGGCCAGGGAACCACTGCTTATAAAAGGGAAGGTTGCAAAG
GTCATGATTATTGTGGTTCACTTCCTATTGTAAGTTACTTTCTTATTGAGAAGTTATGACTTTTG
TTTTTATAAATAGAATTAAGTAATAATTATTTTTTGTTTCATTCTGGAATTAAACAGAACCTAAG
GTTTGATTTTTTAACCAACGCAATGATACAAGATATAACTACCAAAGACAGCAAGCAGTTCCAGG
CTAATGTTCTAGGATGCAAAAACATTACTTTCG
Found at i:39335723 original size:293 final size:293
Alignment explanation
Indices: 39335424--39336004 Score: 1144
Period size: 293 Copynumber: 2.0 Consensus size: 293
39335414 TTCTAGGATG
* *
39335424 CAAAAACATTACTTTCGAACATTTCACCGTATCTGCACCTGACGAAAGCCCAAACACAGATGGGA
1 CAAAAACATTACTCTCGAACATTTCACCATATCTGCACCTGACGAAAGCCCAAACACAGATGGGA
39335489 TTCACATTGGGAGATCGGATGGGGTCAATGTTCTTAACTCGGAGATAAAAACTGGTGATGATTGT
66 TTCACATTGGGAGATCGGATGGGGTCAATGTTCTTAACTCGGAGATAAAAACTGGTGATGATTGT
39335554 GTTTCAATTGGGGATGGTTCCAAAAATTTGGTTATCAATGGAGTAACTTGTGGACCAGGACATGG
131 GTTTCAATTGGGGATGGTTCCAAAAATTTGGTTATCAATGGAGTAACTTGTGGACCAGGACATGG
39335619 TATCAGTATTGGCAGTCTCAGATTGTTTAAAAATGAAGAACTAGTTGATCGAGTTACAATAAAAA
196 TATCAGTATTGGCAGTCTCAGATTGTTTAAAAATGAAGAACTAGTTGATCGAGTTACAATAAAAA
39335684 ATTGCACCATGACTAATACTTCCAATGGAGATA
261 ATTGCACCATGACTAATACTTCCAATGGAGATA
39335717 CAAAAACATTACTCTCGAACATTTCACCATATCTGCACCTGACGAAAGCCCAAACACAGATGGGA
1 CAAAAACATTACTCTCGAACATTTCACCATATCTGCACCTGACGAAAGCCCAAACACAGATGGGA
39335782 TTCACATTGGGAGATCGGATGGGGTCAATGTTCTTAACTCGGAGATAAAAACTGGTGATGATTGT
66 TTCACATTGGGAGATCGGATGGGGTCAATGTTCTTAACTCGGAGATAAAAACTGGTGATGATTGT
39335847 GTTTCAATTGGGGATGGTTCCAAAAATTTGGTTATCAATGGAGTAACTTGTGGACCAGGACATGG
131 GTTTCAATTGGGGATGGTTCCAAAAATTTGGTTATCAATGGAGTAACTTGTGGACCAGGACATGG
39335912 TATCAGTATTGGCAGTCTCAGATTGTTTAAAAATGAAGAACTAGTTGATCGAGTTACAATAAAAA
196 TATCAGTATTGGCAGTCTCAGATTGTTTAAAAATGAAGAACTAGTTGATCGAGTTACAATAAAAA
39335977 ATTGCACCATGACTAATACTTCCAATGG
261 ATTGCACCATGACTAATACTTCCAATGG
39336005 TGTTAGAATC
Statistics
Matches: 286, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
293 286 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (293 bp):
CAAAAACATTACTCTCGAACATTTCACCATATCTGCACCTGACGAAAGCCCAAACACAGATGGGA
TTCACATTGGGAGATCGGATGGGGTCAATGTTCTTAACTCGGAGATAAAAACTGGTGATGATTGT
GTTTCAATTGGGGATGGTTCCAAAAATTTGGTTATCAATGGAGTAACTTGTGGACCAGGACATGG
TATCAGTATTGGCAGTCTCAGATTGTTTAAAAATGAAGAACTAGTTGATCGAGTTACAATAAAAA
ATTGCACCATGACTAATACTTCCAATGGAGATA
Found at i:39336767 original size:23 final size:24
Alignment explanation
Indices: 39336719--39336768 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
39336709 TTATTTAATT
*
39336719 ATTTTGTTTTTTTTCTTTATATAA
1 ATTTTGTTTTTTTTATTTATATAA
39336743 ATTTT-TTATTTTTTATTTATA-AA
1 ATTTTGTT-TTTTTTATTTATATAA
39336766 ATT
1 ATT
39336769 GGCATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (24 bp):
ATTTTGTTTTTTTTATTTATATAA
Found at i:39340747 original size:38 final size:38
Alignment explanation
Indices: 39340700--39341093 Score: 527
Period size: 38 Copynumber: 10.3 Consensus size: 38
39340690 GGCATGAAGG
* * * * *
39340700 CCCGAATATAATACCAGCACTAGGCCTGCAGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
39340738 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* ** * *
39340776 CCAGGATATTTTACCAGCACGAAGCCTACGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
*
39340815 GCCCGGATATAATACCCGCACGAAGCCTGCGGGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** * *
39340854 CCCGGATATTTTACCAGCACGAAGGCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
* *
39340893 GCTCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
39340932 CCCGGATATAATACCAGCACGAAGCCTTCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
39340970 CCCGGATATATTACCCGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
39341008 CCCAAATATAATACCAGCACGAAGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
39341046 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
39341084 CCCAGATATA
1 CCCGGATATA
39341094 CATTGAATAT
Statistics
Matches: 310, Mismatches: 42, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
38 236 0.76
39 20 0.06
40 54 0.17
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:39341009 original size:76 final size:76
Alignment explanation
Indices: 39340700--39341093 Score: 527
Period size: 78 Copynumber: 5.1 Consensus size: 76
39340690 GGCATGAAGG
* * * * *
39340700 CCCGAATATAATACCAGCACTAGGCCTGCAGGATTTATCCCGGATATAATACCAGCACGAAGCCT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
39340765 GCGGGATTTAA
66 GCGGGATTTAA
* ** * * *
39340776 CCAGGATATTTTACCAGCACGAAGCCTACGGGTCTTTAAGCCCGGATATAATACCCGCACGAAGC
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGGATATAATACCAGCACGAAGC
39340841 CTGCGGGATTTAA
64 CTGCGGGATTTAA
** * * *
39340854 CCCGGATATTTTACCAGCACGAAGGCTGCGGGTCTTTAAGCTCGGATATAATACCAGCACGAAGC
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGGATATAATACCAGCACGAAGC
*
39340919 CTGTGGGATTTAA
64 CTGCGGGATTTAA
* * *
39340932 CCCGGATATAATACCAGCACGAAGCCTTCGGGATTTAACCCGGATATATTACCCGCACGAAGCCT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
39340997 GCGGGATTTAA
66 GCGGGATTTAA
** * *
39341008 CCCAAATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGAATATAATACCAGCACGAAGCCT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
39341073 GCGGGATTTAA
66 GCGGGATTTAA
*
39341084 CCCAGATATA
1 CCCGGATATA
39341094 CATTGAATAT
Statistics
Matches: 282, Mismatches: 34, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
76 136 0.48
77 9 0.03
78 137 0.49
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (76 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
GCGGGATTTAA
Found at i:39348998 original size:37 final size:37
Alignment explanation
Indices: 39348957--39349029 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
39348947 GATCTTTCGA
*
39348957 AAGTTTTAAATCTAAAGTATATCTATAGTTTTCAAAC
1 AAGTTTTAAATCTAAAGTATATCTATAGTCTTCAAAC
39348994 AAGTTTTAAATCTAAAGTATATCTATAGTCTTCAAA
1 AAGTTTTAAATCTAAAGTATATCTATAGTCTTCAAA
39349030 GAAAAGTTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (37 bp):
AAGTTTTAAATCTAAAGTATATCTATAGTCTTCAAAC
Found at i:39351926 original size:16 final size:17
Alignment explanation
Indices: 39351887--39351937 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
39351877 AGCTTAATAT
39351887 TATTATATTATTAATAAA
1 TATT-TATTATTAATAAA
* *
39351905 TTTTTATTTTTAA-AAA
1 TATTTATTATTAATAAA
**
39351921 TATTTAAAATTAATAAA
1 TATTTATTATTAATAAA
39351938 ATACTATAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
16 12 0.46
17 11 0.42
18 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATTTATTATTAATAAA
Found at i:39366262 original size:13 final size:13
Alignment explanation
Indices: 39366244--39366272 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
39366234 GTATCAACTT
39366244 ATAAATTTTTTAA
1 ATAAATTTTTTAA
39366257 ATAAATTTTTTAA
1 ATAAATTTTTTAA
39366270 ATA
1 ATA
39366273 TTCAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATAAATTTTTTAA
Found at i:39375693 original size:49 final size:49
Alignment explanation
Indices: 39375615--39375722 Score: 171
Period size: 49 Copynumber: 2.2 Consensus size: 49
39375605 CGAATAATAA
* * * *
39375615 ACTATGTTATGCATTTCTAAACTTGGTCTTCCACTGTTTACACTCTTATC
1 ACTAT-TTATACATTGCTAAACTTAGTCTTCCACTGTCTACACTCTTATC
39375665 ACTATTTATACATTGCTAAACTTAGTCTTCCACTGTCTACACTCTTATC
1 ACTATTTATACATTGCTAAACTTAGTCTTCCACTGTCTACACTCTTATC
39375714 ACTATTTAT
1 ACTATTTAT
39375723 CCCATCTAGA
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
49 49 0.91
50 5 0.09
ACGTcount: A:0.25, C:0.24, G:0.07, T:0.44
Consensus pattern (49 bp):
ACTATTTATACATTGCTAAACTTAGTCTTCCACTGTCTACACTCTTATC
Found at i:39375990 original size:21 final size:22
Alignment explanation
Indices: 39375961--39376002 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
39375951 GGACTAATTT
*
39375961 GAAACAATT-CTAAAATTTTGG
1 GAAACAATTACAAAAATTTTGG
*
39375982 GAAATAATTACAAAAATTTTG
1 GAAACAATTACAAAAATTTTG
39376003 ATTTCAGGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (22 bp):
GAAACAATTACAAAAATTTTGG
Found at i:39377086 original size:43 final size:43
Alignment explanation
Indices: 39377036--39377120 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
39377026 TTCATCTTTC
* *
39377036 ATTTCTCATCTCATAATCATTTCTCATATTTGTCATTTCAATT
1 ATTTCTCATCTCATAATCATTTCCCATATTTGCCATTTCAATT
* * *
39377079 ATTTCTCATCTCATATTCATTTCCCGTCTTTGCCATTTCAAT
1 ATTTCTCATCTCATAATCATTTCCCATATTTGCCATTTCAAT
39377121 ATCAATCACA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.22, C:0.25, G:0.04, T:0.49
Consensus pattern (43 bp):
ATTTCTCATCTCATAATCATTTCCCATATTTGCCATTTCAATT
Found at i:39377817 original size:18 final size:19
Alignment explanation
Indices: 39377794--39377834 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
39377784 AATATTACAC
39377794 ATTTCAA-TTTCACATTAA
1 ATTTCAATTTTCACATTAA
*
39377812 ATTTCAATTTTCACATTAT
1 ATTTCAATTTTCACATTAA
39377831 ATTT
1 ATTT
39377835 TTCTTATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.34, C:0.15, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTCAATTTTCACATTAA
Found at i:39378378 original size:11 final size:9
Alignment explanation
Indices: 39378362--39378387 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
39378352 TTAATACATG
39378362 TATATATAA
1 TATATATAA
39378371 TATATATAA
1 TATATATAA
39378380 TATATATA
1 TATATATA
39378388 CATGCATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
TATATATAA
Found at i:39379488 original size:15 final size:16
Alignment explanation
Indices: 39379452--39379489 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
39379442 CATAATAATA
* *
39379452 AAATTTAATTATAACG
1 AAATTTAATAAGAACG
39379468 AAATTTAATAAGAAC-
1 AAATTTAATAAGAACG
39379483 AAATTTA
1 AAATTTA
39379490 TCATATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.34
Consensus pattern (16 bp):
AAATTTAATAAGAACG
Found at i:39380120 original size:16 final size:16
Alignment explanation
Indices: 39380087--39380120 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
39380077 ACAGATTGTT
* *
39380087 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
39380103 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
39380119 AA
1 AA
39380121 TACAGAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:39391463 original size:15 final size:15
Alignment explanation
Indices: 39391443--39391473 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
39391433 GTCATGTAAG
39391443 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
39391458 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
39391473 T
1 T
39391474 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:39391663 original size:17 final size:17
Alignment explanation
Indices: 39391630--39391668 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
39391620 TAAGCTTTTG
39391630 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
39391647 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
39391664 ATTTT
1 ATTTT
39391669 CCACAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:39392434 original size:15 final size:15
Alignment explanation
Indices: 39392410--39392439 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
39392400 TGGAGATCGA
*
39392410 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
39392425 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
39392440 CAAGAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:39395821 original size:15 final size:15
Alignment explanation
Indices: 39395801--39395831 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
39395791 GTCATGTAAG
39395801 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
39395816 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
39395831 T
1 T
39395832 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:39396021 original size:17 final size:17
Alignment explanation
Indices: 39395988--39396026 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
39395978 TAAGCTTTTG
39395988 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
39396005 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
39396022 ATTTT
1 ATTTT
39396027 CCACACTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:39396367 original size:14 final size:14
Alignment explanation
Indices: 39396348--39396375 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
39396338 ACCTGCTACA
39396348 TATAAAAAATCTTG
1 TATAAAAAATCTTG
39396362 TATAAAAAATCTTG
1 TATAAAAAATCTTG
39396376 GAATGATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (14 bp):
TATAAAAAATCTTG
Found at i:39407773 original size:40 final size:40
Alignment explanation
Indices: 39407719--39407952 Score: 389
Period size: 40 Copynumber: 5.9 Consensus size: 40
39407709 GATATAGCTT
*
39407719 CTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
39407759 CTCGCATAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
39407799 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
39407839 CTCGCACAAATGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* * *
39407879 CTAGCACAAATGCCTTCGGGACGTAGCCCGGATATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
39407919 CTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
39407953 CAATCCGAAT
Statistics
Matches: 181, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 12 0.07
40 169 0.93
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:39412286 original size:11 final size:11
Alignment explanation
Indices: 39412272--39412312 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
39412262 TATTTTCTCC
39412272 CTATTTTGCTA
1 CTATTTTGCTA
*
39412283 CTATTTTACTA
1 CTATTTTGCTA
* *
39412294 TTATGTTGCTA
1 CTATTTTGCTA
39412305 CTATTTTG
1 CTATTTTG
39412313 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:39412558 original size:12 final size:13
Alignment explanation
Indices: 39412532--39412566 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
39412522 TATATATTTT
*
39412532 AAAATTATATAAA
1 AAAATAATATAAA
39412545 AAAATAATAT-AA
1 AAAATAATATAAA
39412557 AAAATAATAT
1 AAAATAATAT
39412567 GGGCGGGCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAATAATATAAA
Found at i:39413834 original size:16 final size:16
Alignment explanation
Indices: 39413800--39413852 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
39413790 ATGGCATCAG
39413800 TCATGCAATACTCAAT
1 TCATGCAATACTCAAT
*
39413816 TCATG-AATACATCATT
1 TCATGCAATAC-TCAAT
* *
39413832 TCATACCATACTCAAT
1 TCATGCAATACTCAAT
39413848 TCATG
1 TCATG
39413853 AGTATATAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 5 0.17
16 21 0.70
17 4 0.13
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
TCATGCAATACTCAAT
Found at i:39415008 original size:21 final size:21
Alignment explanation
Indices: 39414984--39415025 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
39414974 AACCCTAAAT
*
39414984 TTTCTCCTTTGTT-TTTCTTTC
1 TTTCT-CTTTCTTCTTTCTTTC
39415005 TTTCTCTTTCTTCTTTCTTTC
1 TTTCTCTTTCTTCTTTCTTTC
39415026 CCCTGTTTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTCTCTTTCTTCTTTCTTTC
Found at i:39415235 original size:5 final size:5
Alignment explanation
Indices: 39415227--39415324 Score: 196
Period size: 5 Copynumber: 19.6 Consensus size: 5
39415217 TTATTTATTT
39415227 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
39415277 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT
39415325 TTTCTAAAAT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 93 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:39419623 original size:38 final size:38
Alignment explanation
Indices: 39419571--39419767 Score: 241
Period size: 38 Copynumber: 5.1 Consensus size: 38
39419561 ATATTCGATG
* *
39419571 TATATCCAGGTTAAATCCCACAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
39419609 TATATCCGGTTTAAATCCCGTAGGCTTCGTGTTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
39419647 TATATCCAGGCTTAAAGACTCGCAGGCTTCGTGCTGGTAA
1 TATATCC-GGGTTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* * *
39419687 AATATCCGGGTTAAATCTCGCAGGCTTCGTGCTAGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
39419725 TATATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
39419763 TATAT
1 TATAT
39419768 TCGAGCCTTC
Statistics
Matches: 135, Mismatches: 22, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
38 97 0.72
39 14 0.10
40 24 0.18
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:39419678 original size:78 final size:76
Alignment explanation
Indices: 39419582--39419767 Score: 219
Period size: 78 Copynumber: 2.4 Consensus size: 76
39419572 ATATCCAGGT
* * * * * *
39419582 TAAATCCCACAGGCTTCGTGCTGGTATTATATCCGGTTTAAATCCCGTAGGCTTCGTGTTGGTAT
1 TAAAACCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAT
*
39419647 TATATCCAGGCT
66 TATATCC-GGCA
* ** *
39419659 TAAAGACTCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAATCTCGCAGGCTTCGTGCTAGTA
1 TAAA-ACCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTA
*
39419724 TTATATCCGGGA
65 TTATATCCGGCA
* * *
39419736 TAAATCCCGCAGGCCTAGTGCTGGTATTATAT
1 TAAAACCCGCAGGCTTCGTGCTGGTATTATAT
39419768 TCGAGCCTTC
Statistics
Matches: 90, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
76 22 0.24
77 10 0.11
78 58 0.64
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.32
Consensus pattern (76 bp):
TAAAACCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAT
TATATCCGGCA
Found at i:39419830 original size:43 final size:42
Alignment explanation
Indices: 39419744--39419876 Score: 160
Period size: 43 Copynumber: 3.1 Consensus size: 42
39419734 GATAAATCCC
* * * * *
39419744 GCAGGCCTAGTGCTGGT-ATTATATTCGAGCCTTCGTGCTTA
1 GCAGGCTTCGTGCTGGTGATTGTATTCGGGCCTTCGTGCCTA
*
39419785 GCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCATGCCTA
1 GCAGGCTTCGTGCTGGTGAT-TGTATTCGGGCCTTCGTGCCTA
* * *
39419828 GCAGGCTTCGTACCGGTGATATGTATTTGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCTGGTGAT-TGTATTCGGGCCTTCGTGCCTA
39419871 GCAGGC
1 GCAGGC
39419877 ATAATGCAGG
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
41 15 0.19
42 2 0.03
43 62 0.78
ACGTcount: A:0.14, C:0.23, G:0.31, T:0.32
Consensus pattern (42 bp):
GCAGGCTTCGTGCTGGTGATTGTATTCGGGCCTTCGTGCCTA
Found at i:39420273 original size:45 final size:42
Alignment explanation
Indices: 39420204--39420313 Score: 132
Period size: 45 Copynumber: 2.5 Consensus size: 42
39420194 TGTTAACTTG
* *
39420204 ATTATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGA
1 ATTATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGA
* *
39420246 GATACTATTCGGGCCTTCGAGCCTAGCAGACTATAATGCTGGTGA
1 -AT--TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGA
39420291 ATTGATATCGGGCC-TCGAGCCTA
1 ATT-AT-TCGGGCCTTCGAGCCTA
39420314 ACAGGCGAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
42 1 0.02
43 13 0.22
44 9 0.15
45 36 0.61
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (42 bp):
ATTATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGA
Found at i:39420332 original size:42 final size:44
Alignment explanation
Indices: 39420209--39420337 Score: 113
Period size: 45 Copynumber: 3.0 Consensus size: 44
39420199 ACTTGATTAT
* * * * *
39420209 TCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGA-T-ACTA
1 TCGGGCCTTCGAGCCTAACAGACGATAATGCCGGTGA-ATTGA-TA
* * *
39420253 TTCGGGCCTTCGAGCCTAGCAGACTATAATGCTGGTGAATTGATA
1 -TCGGGCCTTCGAGCCTAACAGACGATAATGCCGGTGAATTGATA
* *
39420298 TCGGGCC-TCGAGCCTAACAGGCGA-AATGCCGGTGATTTGA
1 TCGGGCCTTCGAGCCTAACAGACGATAATGCCGGTGAATTGA
39420338 GAAAAGTCCA
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
42 14 0.19
43 14 0.19
44 8 0.11
45 36 0.49
46 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (44 bp):
TCGGGCCTTCGAGCCTAACAGACGATAATGCCGGTGAATTGATA
Found at i:39422496 original size:40 final size:40
Alignment explanation
Indices: 39422420--39422497 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
39422410 ACACACCATG
* * *
39422420 TGGGGATAAAATCGACCCACCCATCCCTGCATACCATATA
1 TGGGGATAAAATCGACCCACCCAACCCTACACACCATATA
* * *
39422460 TGGGGATATAATCGACCCATCCAACCCTATACACCATA
1 TGGGGATAAAATCGACCCACCCAACCCTACACACCATA
39422498 AAGTACCGCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.33, C:0.32, G:0.14, T:0.21
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCAACCCTACACACCATATA
Found at i:39427923 original size:13 final size:13
Alignment explanation
Indices: 39427905--39427933 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
39427895 TTTAGTTTAA
39427905 TTAGTTAATTAGT
1 TTAGTTAATTAGT
39427918 TTAGTTAATTAGT
1 TTAGTTAATTAGT
39427931 TTA
1 TTA
39427934 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:39436425 original size:13 final size:13
Alignment explanation
Indices: 39436409--39436434 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39436399 AATTTAATAT
39436409 GTTAATTAGTTTA
1 GTTAATTAGTTTA
39436422 GTTAATTAGTTTA
1 GTTAATTAGTTTA
39436435 ATAAACAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
GTTAATTAGTTTA
Found at i:39441818 original size:6 final size:6
Alignment explanation
Indices: 39441807--39441839 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
39441797 TCCTCCTATC
*
39441807 TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
39441840 CAATTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:39441845 original size:18 final size:18
Alignment explanation
Indices: 39441807--39441846 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
39441797 TCCTCCTATC
* **
39441807 TTTTTATTTTTATTTTTA
1 TTTTTATTTTCATTTCAA
39441825 TTTTTATTTTCATTTCAA
1 TTTTTATTTTCATTTCAA
39441843 TTTT
1 TTTT
39441847 ATTATTTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTATTTTCATTTCAA
Found at i:39459467 original size:23 final size:23
Alignment explanation
Indices: 39459424--39459471 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
39459414 AAGGAACAAG
* *
39459424 AAATATTCTCTGGCGTAAACAGT
1 AAATATTCCCTGGCGAAAACAGT
39459447 AAATATTCCCTGGC-AAGAACAGT
1 AAATATTCCCTGGCGAA-AACAGT
39459470 AA
1 AA
39459472 GATTCTCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.25
Consensus pattern (23 bp):
AAATATTCCCTGGCGAAAACAGT
Found at i:39459651 original size:20 final size:20
Alignment explanation
Indices: 39459626--39459664 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
39459616 TATTCTCTTA
39459626 AAAGTTTCAATTATGTAATC
1 AAAGTTTCAATTATGTAATC
39459646 AAAGTTTCAATTATGTAAT
1 AAAGTTTCAATTATGTAAT
39459665 GATGTAAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (20 bp):
AAAGTTTCAATTATGTAATC
Found at i:39463879 original size:16 final size:15
Alignment explanation
Indices: 39463851--39463901 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
39463841 TCAATCATGC
39463851 AGTACTCAATTCATA
1 AGTACTCAATTCATA
*
39463866 AGTACATCATTTCATA
1 AGTAC-TCAATTCATA
*
39463882 CCA-TACTCAATTCATG
1 --AGTACTCAATTCATA
39463898 AGTA
1 AGTA
39463902 TATAACTCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
14 1 0.03
15 7 0.24
16 17 0.59
17 3 0.10
18 1 0.03
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (15 bp):
AGTACTCAATTCATA
Found at i:39465084 original size:4 final size:4
Alignment explanation
Indices: 39465075--39465119 Score: 58
Period size: 4 Copynumber: 11.2 Consensus size: 4
39465065 AAATTTTCTC
39465075 CTTT CTTT C--T CTTT CTTT CTTT CTCTT CTTT CTCTT CTTT CTTT C
1 CTTT CTTT CTTT CTTT CTTT CTTT CT-TT CTTT CT-TT CTTT CTTT C
39465120 CCCTGTTTCG
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 2 0.05
4 27 0.73
5 8 0.22
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
CTTT
Found at i:39465094 original size:14 final size:14
Alignment explanation
Indices: 39465075--39465119 Score: 67
Period size: 13 Copynumber: 3.4 Consensus size: 14
39465065 AAATTTTCTC
39465075 CTTTCTTTCTCTTT
1 CTTTCTTTCTCTTT
39465089 CTTTCTTTCTC-TT
1 CTTTCTTTCTCTTT
*
39465102 CTTTCTCT-TCTTT
1 CTTTCTTTCTCTTT
39465115 CTTTC
1 CTTTC
39465120 CCCTGTTTCG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 2 0.07
13 16 0.55
14 11 0.38
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
CTTTCTTTCTCTTT
Found at i:39465105 original size:9 final size:9
Alignment explanation
Indices: 39465084--39465116 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
39465074 CCTTTCTTTC
39465084 TCTTTCT-T
1 TCTTTCTCT
39465092 TCTTTCTCT
1 TCTTTCTCT
39465101 TCTTTCTCT
1 TCTTTCTCT
39465110 TCTTTCT
1 TCTTTCT
39465117 TTCCCCTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (9 bp):
TCTTTCTCT
Found at i:39472013 original size:43 final size:42
Alignment explanation
Indices: 39471951--39472101 Score: 166
Period size: 43 Copynumber: 3.5 Consensus size: 42
39471941 TACAATGCCA
39471951 ATGTCCCAGACATGGTCTTACATGTAAA-CAAATATCGATGAC-
1 ATGTCCCAGACATGGTCTTACATGTAAATCAAATA-CGATG-CG
* *
39471993 ACTGTCCCAGACAAGGTCTTACACG-AAATCAAATACGATGCTG
1 A-TGTCCCAGACATGGTCTTACATGTAAATCAAATACGATGC-G
*
39472036 ATGTCCCAGACATGGTCTTACATGTAAATCATAAGT-CGATGCCA
1 ATGTCCCAGACATGGTCTTACATGTAAATCA-AA-TACGATG-CG
* *
39472080 ACGTCCCAGACGTGGTCTTACA
1 ATGTCCCAGACATGGTCTTACA
39472102 CGGTCACACA
Statistics
Matches: 94, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
41 1 0.01
42 30 0.32
43 34 0.36
44 27 0.29
45 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGTCCCAGACATGGTCTTACATGTAAATCAAATACGATGCG
Found at i:39473218 original size:13 final size:13
Alignment explanation
Indices: 39473200--39473224 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39473190 ACAAACGATT
39473200 AAATTTTCACACG
1 AAATTTTCACACG
39473213 AAATTTTCACAC
1 AAATTTTCACAC
39473225 ATACAGATTT
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:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:39478961 original size:67 final size:65
Alignment explanation
Indices: 39478826--39479077 Score: 205
Period size: 68 Copynumber: 3.8 Consensus size: 65
39478816 ATATAGTTCG
* * * * * *
39478826 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGT-TTATCTCG
1 GCTCTCTTGT-CTACATGGTGTACACATAGAACCACACATGCGACCTAGCTACA-TCATATCTCG
39478887 TA
64 TA
39478889 GCTCTCTTGTCTACATGGTGT-CATTCGAGTAGAACCACACATGCGACCTAGCTACAT-ATATCT
1 GCTCTCTTGTCTACATGGTGTACA--C-A-TAGAACCACACATGCGACCTAGCTACATCATATCT
39478952 CGTA
62 CGTA
* * * *
39478956 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTT
1 GCTCTCTTGTCTACATGGTGTACACATAGAACCACACATGCGACCTAGCTACATCAT-A--TCTC
39479021 GTA
63 GTA
* * * * * *
39479024 GCTCTCTTGTAC-ACATGATGTGCAC-TCAGCACTATACATGTGACCTAGCTACAT
1 GCTCTCTTGT-CTACATGGTGTACACAT-AGAACCACACATGCGACCTAGCTACAT
39479078 ACCATCTGTA
Statistics
Matches: 157, Mismatches: 18, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
62 3 0.02
63 18 0.11
64 26 0.17
65 3 0.02
66 22 0.14
67 32 0.20
68 52 0.33
69 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (65 bp):
GCTCTCTTGTCTACATGGTGTACACATAGAACCACACATGCGACCTAGCTACATCATATCTCGTA
Found at i:39479778 original size:30 final size:30
Alignment explanation
Indices: 39479744--39479804 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
39479734 TTTTTAACTC
39479744 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
39479774 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
39479804 A
1 A
39479805 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:39485369 original size:12 final size:13
Alignment explanation
Indices: 39485352--39485389 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
39485342 ATCCTGGAAT
39485352 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
39485364 ATTAAGAACACATA
1 ATTAAGAACA-AGA
39485378 ATTAAGAACAAG
1 ATTAAGAACAAG
39485390 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:39494712 original size:34 final size:35
Alignment explanation
Indices: 39494661--39494732 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
39494651 ATTCTGTAGT
*
39494661 TAGGGTAATACTGAAACTGTAGAA-ACTGAGACAG
1 TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAG
* *
39494695 TAGGG-AAAACTGAAAACTTTAGAAGACTGAGACTG
1 TAGGGTAAAACTG-AAACTGTAGAAGACTGAGACAG
39494730 TAG
1 TAG
39494733 CTAGGATACG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 6 0.18
34 15 0.45
35 12 0.36
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (35 bp):
TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAG
Done.