Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 119 of 125
Found at i:37301789 original size:17 final size:17
Alignment explanation
Indices: 37301769--37301801 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
37301759 TTTTAACTTA
37301769 TTTAAATTTAAATTTAT
1 TTTAAATTTAAATTTAT
37301786 TTTAAATTTAAATTTA
1 TTTAAATTTAAATTTA
37301802 AATCAAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTAAATTTAAATTTAT
Found at i:37303798 original size:30 final size:31
Alignment explanation
Indices: 37303762--37303874 Score: 160
Period size: 30 Copynumber: 3.7 Consensus size: 31
37303752 GTAGGTCCCT
37303762 AAACTTTTCCAAAATTACATTTTGACCCT-A
1 AAACTTTTCCAAAATTACATTTTGACCCTCA
37303792 AAACTTTTCCAAAATTACATTTTGA-CCTCA
1 AAACTTTTCCAAAATTACATTTTGACCCTCA
* * * *
37303822 AAACTTTTCTAATATTATATTTT-AACCTCA
1 AAACTTTTCCAAAATTACATTTTGACCCTCA
*
37303852 AAACTTTTCCAATATTACATTTT
1 AAACTTTTCCAAAATTACATTTT
37303875 TGATCTCGAT
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
29 4 0.05
30 72 0.95
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.42
Consensus pattern (31 bp):
AAACTTTTCCAAAATTACATTTTGACCCTCA
Found at i:37303921 original size:60 final size:58
Alignment explanation
Indices: 37303857--37303973 Score: 130
Period size: 60 Copynumber: 2.0 Consensus size: 58
37303847 CCTCAAAACT
* ** *
37303857 TTTCCAATA-TTACATTTTT-GATCTCGATTTTGCCAAAATTTATCATTTTATCCCCCGAAC
1 TTTCCAA-AGTTACATTTTTAG-CCTCGATTTCACCAAAA-TTACCATTTTA-CCCCCGAAC
* *
37303917 TTTCCAAAGTTCCATTTTTAGCCTCGATTTCACGAAAATTACCATTTTACCCCCGAA
1 TTTCCAAAGTTACATTTTTAGCCTCGATTTCACCAAAATTACCATTTTACCCCCGAA
37303974 AGTCCAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
58 8 0.16
59 11 0.22
60 29 0.59
61 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.39
Consensus pattern (58 bp):
TTTCCAAAGTTACATTTTTAGCCTCGATTTCACCAAAATTACCATTTTACCCCCGAAC
Found at i:37304100 original size:15 final size:16
Alignment explanation
Indices: 37304073--37304118 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
37304063 ATTTATTTGC
*
37304073 ATCTGCATCTTATATT
1 ATCTGCATATTATATT
*
37304089 TTC-GCATATTAT-TT
1 ATCTGCATATTATATT
*
37304103 ATCTGCTTATTATATT
1 ATCTGCATATTATATT
37304119 GCTTCGTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.24, C:0.15, G:0.07, T:0.54
Consensus pattern (16 bp):
ATCTGCATATTATATT
Found at i:37304116 original size:30 final size:30
Alignment explanation
Indices: 37304058--37304118 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
37304048 CTCACCAATA
*
37304058 TTCGCATTTATTTGCATCTGCATCTTATATT
1 TTCGCATTTATTT-CATCTGCATATTATATT
*
37304089 TTCGCATATTATTT-ATCTGCTTATTATATT
1 TTCGCAT-TTATTTCATCTGCATATTATATT
37304119 GCTTCGTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 14 0.52
31 7 0.26
32 6 0.22
ACGTcount: A:0.21, C:0.16, G:0.08, T:0.54
Consensus pattern (30 bp):
TTCGCATTTATTTCATCTGCATATTATATT
Found at i:37305875 original size:59 final size:57
Alignment explanation
Indices: 37305807--37306060 Score: 237
Period size: 59 Copynumber: 4.3 Consensus size: 57
37305797 CTCGGGGGCA
* *
37305807 AAAAT-GTAATTTTGGGAAAATTC-GGAGTTAAAAATGGGATTTTAG-AAGATTCGAGGGT
1 AAAATGGTAATTTT-GGAAAA-TCAAG-GTTAAAAATGGAATTTTAGAAAG-TTCGAGGGT
* * * * *
37305865 AAAGTGGTAATTTTTGATGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTC-AGGGGT
1 AAAATGGTAATTTTGGA--AAATCAAGGTTAAAAATGGAATTTTAGAAAGTTCGA-GGGT
* * * *
37305924 AAAATGGTATTTTTTGGTGAAATCAAGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGT
1 AAAATGGTA-ATTTTGG-AAAATCAAGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGT
* * * *
37305983 AAAATGGTAATTTTTGATGAAATCAAGGTTAAAAATAGAATTTTAGAAGGTTCGGGGGT
1 AAAATGGTAATTTTGGA--AAATCAAGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGT
37306042 AAAATGGTAATTTTTGGAA
1 AAAATGGTAA-TTTTGGAA
37306061 GTTTCGAGGT
Statistics
Matches: 164, Mismatches: 20, Indels: 24
0.79 0.10 0.12
Matches are distributed among these distances:
58 13 0.08
59 132 0.80
60 19 0.12
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.33
Consensus pattern (57 bp):
AAAATGGTAATTTTGGAAAATCAAGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGT
Found at i:37305908 original size:30 final size:30
Alignment explanation
Indices: 37305833--37306018 Score: 88
Period size: 30 Copynumber: 6.3 Consensus size: 30
37305823 AAAATTCGGA
* * *
37305833 GTTAAAAATGGGATTTTAGAAG-ATTCGAG
1 GTTAAAAATGGGATTTTTGATGAAATCGAG
* * *
37305862 GGT-AAAGTGGTAATTTTTGATGAAATCGAG
1 GTTAAAAATGG-GATTTTTGATGAAATCGAG
37305892 GTTAAAAATGGGA-TTTTG--GAAAGTTC-AGG
1 GTTAAAAATGGGATTTTTGATGAAA--TCGA-G
* * * *
37305921 GGT-AAAATGGTATTTTTTGGTGAAATCAAG
1 GTTAAAAATGGGA-TTTTTGATGAAATCGAG
* *
37305951 GTTAAAAAT-GGAATTTTG--GAAAGTTTGAG
1 GTTAAAAATGGGATTTTTGATGAAA--TCGAG
* * *
37305980 GGT-AAAATGGTAATTTTTGATGAAATCAAG
1 GTTAAAAATGG-GATTTTTGATGAAATCGAG
37306010 GTTAAAAAT
1 GTTAAAAAT
37306019 AGAATTTTAG
Statistics
Matches: 116, Mismatches: 22, Indels: 36
0.67 0.13 0.21
Matches are distributed among these distances:
27 8 0.07
28 20 0.17
29 31 0.27
30 32 0.28
31 17 0.15
32 8 0.07
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.33
Consensus pattern (30 bp):
GTTAAAAATGGGATTTTTGATGAAATCGAG
Found at i:37305981 original size:118 final size:118
Alignment explanation
Indices: 37305833--37306058 Score: 337
Period size: 118 Copynumber: 1.9 Consensus size: 118
37305823 AAAATTCGGA
* * *
37305833 GTTAAAAATGGGATTTTAGAAGATTCGAGGGTAAAGTGGTAATTTTTGATGAAATCGAGGTTAAA
1 GTTAAAAATGGAATTTTAGAAGATTCGAGGGTAAAATGGTAATTTTTGATGAAATCAAGGTTAAA
* * * *
37305898 AATGGGATTTTGGAAAGTTCAGGGGTAAAATGGTATTTTTTGGTGAAATCAAG
66 AATAGAATTTTAGAAAGTTCAGGGGTAAAATGGTAATTTTTGGTGAAATCAAG
* *
37305951 GTTAAAAATGGAATTTTGGAA-AGTTTGAGGGTAAAATGGTAATTTTTGATGAAATCAAGGTTAA
1 GTTAAAAATGGAATTTTAGAAGA-TTCGAGGGTAAAATGGTAATTTTTGATGAAATCAAGGTTAA
* *
37306015 AAATAGAATTTTAGAAGGTTCGGGGGTAAAATGGTAATTTTTGG
65 AAATAGAATTTTAGAAAGTTCAGGGGTAAAATGGTAATTTTTGG
37306059 AAGTTTCGAG
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
117 1 0.01
118 95 0.99
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.34
Consensus pattern (118 bp):
GTTAAAAATGGAATTTTAGAAGATTCGAGGGTAAAATGGTAATTTTTGATGAAATCAAGGTTAAA
AATAGAATTTTAGAAAGTTCAGGGGTAAAATGGTAATTTTTGGTGAAATCAAG
Found at i:37306025 original size:30 final size:29
Alignment explanation
Indices: 37305873--37306026 Score: 104
Period size: 30 Copynumber: 5.2 Consensus size: 29
37305863 GTAAAGTGGT
*
37305873 AATTTTTGATGAAATCGAGGTTAAAAATGG
1 AATTTTTG-TGAAATCAAGGTTAAAAATGG
* * *
37305903 GA-TTTTG-GAAAGTTCAGGGGT-AAAATGG
1 AATTTTTGTGAAA--TCAAGGTTAAAAATGG
*
37305931 TATTTTTTGGTGAAATCAAGGTTAAAAATGG
1 -AATTTTT-GTGAAATCAAGGTTAAAAATGG
** *
37305962 AA-TTTTG-GAAAGTTTGAGGGT-AAAATGG
1 AATTTTTGTGAAA--TCAAGGTTAAAAATGG
*
37305990 TAATTTTTGATGAAATCAAGGTTAAAAATAG
1 -AATTTTTG-TGAAATCAAGGTTAAAAATGG
37306021 AATTTT
1 AATTTT
37306027 AGAAGGTTCG
Statistics
Matches: 94, Mismatches: 16, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
27 8 0.09
28 15 0.16
29 21 0.22
30 28 0.30
31 14 0.15
32 8 0.09
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.35
Consensus pattern (29 bp):
AATTTTTGTGAAATCAAGGTTAAAAATGG
Found at i:37306071 original size:59 final size:58
Alignment explanation
Indices: 37305833--37306075 Score: 283
Period size: 59 Copynumber: 4.1 Consensus size: 58
37305823 AAAATTCGGA
* * *
37305833 GTTAAAAATGGGATTTTAG-AAGATTCGAGGGTAAAGTGGTAATTTTTGATGAAATCGAG
1 GTTAAAAATGGAATTTTAGAAAG-TTCGGGGGTAAAATGGTAATTTTTG-TGAAATCGAG
* * * * *
37305892 GTTAAAAATGGGATTTTGGAAAGTTCAGGGGTAAAATGGTATTTTTTGGTGAAATCAAG
1 GTTAAAAATGGAATTTTAGAAAGTTCGGGGGTAAAATGGTAATTTTT-GTGAAATCGAG
* * * *
37305951 GTTAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTTGATGAAATCAAG
1 GTTAAAAATGGAATTTTAGAAAGTTCGGGGGTAAAATGGTAATTTTTG-TGAAATCGAG
* * *
37306010 GTTAAAAATAGAATTTTAGAAGGTTCGGGGGTAAAATGGTAATTTTTG-GAAGTTTCGAG
1 GTTAAAAATGGAATTTTAGAAAGTTCGGGGGTAAAATGGTAATTTTTGTGAA--ATCGAG
37306069 GTTAAAA
1 GTTAAAA
37306076 CGTAATTTTT
Statistics
Matches: 161, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
57 3 0.02
58 1 0.01
59 153 0.95
60 4 0.02
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.33
Consensus pattern (58 bp):
GTTAAAAATGGAATTTTAGAAAGTTCGGGGGTAAAATGGTAATTTTTGTGAAATCGAG
Found at i:37306071 original size:118 final size:116
Alignment explanation
Indices: 37305798--37306075 Score: 319
Period size: 118 Copynumber: 2.3 Consensus size: 116
37305788 TTTTTGACTC
* * *
37305798 TCGGGGGCAAAAAT-GTAATTTTGGGAAAATTCG-GAGTTAAAAATGGGATTTTAGAAGATTCGA
1 TCGGGGG-TAAAATGGTAATTTTTGG--AATTCGAG-GTTAAAAATGGAATTTTAGAAGATTCGA
* * * * *
37305861 GGGTAAAGTGGTAATTTTTGATGAAATCGAGGTTAAAAATGGGATTTTGGAAAGT
62 GGGTAAAATGGTAATTTTTGATGAAATCAAGGTTAAAAATAGAATTTTAGAAAGT
* * * * * *
37305916 TCAGGGGTAAAATGGTATTTTTTGGTGAAATCAAGGTTAAAAATGGAATTTTGGAA-AGTTTGAG
1 TCGGGGGTAAAATGGTAATTTTT-G-GAATTCGAGGTTAAAAATGGAATTTTAGAAGA-TTCGAG
*
37305980 GGTAAAATGGTAATTTTTGATGAAATCAAGGTTAAAAATAGAATTTTAGAAGGT
63 GGTAAAATGGTAATTTTTGATGAAATCAAGGTTAAAAATAGAATTTTAGAAAGT
37306034 TCGGGGGTAAAATGGTAATTTTTGGAAGTTTCGAGGTTAAAA
1 TCGGGGGTAAAATGGTAATTTTTGGAA--TTCGAGGTTAAAA
37306076 CGTAATTTTT
Statistics
Matches: 134, Mismatches: 19, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
116 3 0.02
117 7 0.05
118 121 0.90
119 2 0.01
120 1 0.01
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.32
Consensus pattern (116 bp):
TCGGGGGTAAAATGGTAATTTTTGGAATTCGAGGTTAAAAATGGAATTTTAGAAGATTCGAGGGT
AAAATGGTAATTTTTGATGAAATCAAGGTTAAAAATAGAATTTTAGAAAGT
Found at i:37306104 original size:29 final size:29
Alignment explanation
Indices: 37306048--37306104 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
37306038 GGGTAAAATG
*
37306048 GTAATTTTTGGAAGTTTCGAGGTTAAAAC
1 GTAATTTTTGGAAGTTTCGAGGTCAAAAC
* *
37306077 GTAATTTTTTGAAGATTT-GGGGTCAAAA
1 GTAATTTTTGGAAG-TTTCGAGGTCAAAA
37306105 ATATAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.39
Consensus pattern (29 bp):
GTAATTTTTGGAAGTTTCGAGGTCAAAAC
Found at i:37306963 original size:22 final size:21
Alignment explanation
Indices: 37306938--37306980 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
37306928 TATTATTCTT
*
37306938 AAAATTAATTAATATCATTTAA
1 AAAATCAATTAATA-CATTTAA
37306960 AAAATCAATTAATACATTTAA
1 AAAATCAATTAATACATTTAA
37306981 TATACATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAATCAATTAATACATTTAA
Found at i:37307736 original size:18 final size:18
Alignment explanation
Indices: 37307710--37307744 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
37307700 TGGGCCTATA
37307710 TTTTATAATTGGACTTTC
1 TTTTATAATTGGACTTTC
*
37307728 TTTTGTAATTGGACTTT
1 TTTTATAATTGGACTTT
37307745 TTAATTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.09, G:0.14, T:0.57
Consensus pattern (18 bp):
TTTTATAATTGGACTTTC
Found at i:37307840 original size:17 final size:17
Alignment explanation
Indices: 37307762--37307840 Score: 54
Period size: 17 Copynumber: 4.7 Consensus size: 17
37307752 ATATTTATTT
* * *
37307762 TAAATTTAAAATTATAT
1 TAAATTTAAATTTAAAA
* *
37307779 TAAGTTTAAATTTTGAAA
1 TAAATTTAAA-TTTAAAA
* **
37307797 -AAACTTAAACCTAAAA
1 TAAATTTAAATTTAAAA
*
37307813 TAAGTTT-AATTTAAAA
1 TAAATTTAAATTTAAAA
37307829 TAAATTTAAATT
1 TAAATTTAAATT
37307841 CTGTTGGGTC
Statistics
Matches: 44, Mismatches: 15, Indels: 6
0.68 0.23 0.09
Matches are distributed among these distances:
16 17 0.39
17 24 0.55
18 3 0.07
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:37309859 original size:19 final size:18
Alignment explanation
Indices: 37309822--37309860 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
37309812 TTGAGATTAA
*
37309822 AATATTATATTATTTTTT
1 AATATTATATTATTATTT
*
37309840 AATATCTATTTTATTATTT
1 AATAT-TATATTATTATTT
37309859 AA
1 AA
37309861 AAGTTTGAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
AATATTATATTATTATTT
Found at i:37311744 original size:13 final size:12
Alignment explanation
Indices: 37311718--37311751 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
37311708 ATTTTCATGA
37311718 AAAAAAT-AATT
1 AAAAAATAAATT
37311729 AAAAAATAAATAT
1 AAAAAATAAAT-T
37311742 AAAAAATAAA
1 AAAAAATAAA
37311752 GAAAAACCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.33
12 3 0.14
13 11 0.52
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAAAATAAATT
Found at i:37312637 original size:27 final size:29
Alignment explanation
Indices: 37312602--37312669 Score: 77
Period size: 30 Copynumber: 2.4 Consensus size: 29
37312592 TTCGTTAAGA
*
37312602 ATTTCAAATTT-T-TGTTCATGCTCGTTT
1 ATTTAAAATTTGTGTGTTCATGCTCGTTT
*
37312629 ATTTAAAATTATGTGTGTTCATGTTCGTTT
1 ATTTAAAATT-TGTGTGTTCATGCTCGTTT
* *
37312659 GTTTAATATTT
1 ATTTAAAATTT
37312670 ACGAACATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
27 9 0.26
28 1 0.03
29 2 0.06
30 22 0.65
ACGTcount: A:0.22, C:0.09, G:0.13, T:0.56
Consensus pattern (29 bp):
ATTTAAAATTTGTGTGTTCATGCTCGTTT
Found at i:37312697 original size:23 final size:23
Alignment explanation
Indices: 37312671--37312781 Score: 125
Period size: 23 Copynumber: 4.8 Consensus size: 23
37312661 TTAATATTTA
**
37312671 CGAACATGTTCATTTAAC-TTAAT
1 CGAACATGTTCA-CGAACATTAAT
37312694 CGAACATGTTCACGAACATTAAT
1 CGAACATGTTCACGAACATTAAT
* * *
37312717 CAAACATGTTCACGAATATTAAA
1 CGAACATGTTCACGAACATTAAT
*
37312740 CGAACATGTTCATGAACATATAAT
1 CGAACATGTTCACGAACAT-TAAT
* *
37312764 TGAACACGTTCACGAACA
1 CGAACATGTTCACGAACA
37312782 ATGTTAATGA
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
22 3 0.04
23 53 0.72
24 18 0.24
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.28
Consensus pattern (23 bp):
CGAACATGTTCACGAACATTAAT
Found at i:37318181 original size:18 final size:17
Alignment explanation
Indices: 37318158--37318212 Score: 56
Period size: 19 Copynumber: 3.0 Consensus size: 17
37318148 TAAAATATAT
*
37318158 AAAATTTAAAACTTATTA
1 AAAATTTAAAA-TTATGA
*
37318176 AAAATTAAAAAATATATGA
1 AAAATT-TAAAAT-TATGA
37318195 AAAATTTTAAAATTATGA
1 AAAA-TTTAAAATTATGA
37318213 TACTTTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 12 0.39
19 17 0.55
20 2 0.06
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (17 bp):
AAAATTTAAAATTATGA
Found at i:37322277 original size:34 final size:34
Alignment explanation
Indices: 37322234--37322305 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
37322224 TACCTAAACC
37322234 GGTCCTGTCGGTTGGAATTGGGCTGATCAGATTG
1 GGTCCTGTCGGTTGGAATTGGGCTGATCAGATTG
*
37322268 GGTCCTGTCGGTTGGAATTGGGCTGATCATATTG
1 GGTCCTGTCGGTTGGAATTGGGCTGATCAGATTG
37322302 GGTC
1 GGTC
37322306 GGGCTGCGGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.14, C:0.15, G:0.38, T:0.33
Consensus pattern (34 bp):
GGTCCTGTCGGTTGGAATTGGGCTGATCAGATTG
Found at i:37322679 original size:49 final size:49
Alignment explanation
Indices: 37322626--37322774 Score: 129
Period size: 49 Copynumber: 3.2 Consensus size: 49
37322616 TTATAACAGG
37322626 ACAAATTAAGAACTGGAATAAAGTGTAAAACCAAACAATTACAATACAA
1 ACAAATTAAGAACTGGAATAAAGTGTAAAACCAAACAATTACAATACAA
* * * ** * * **
37322675 ACAAATTAAGAATTAGAA-CAA-T-TTGAA-CTAA-AATT----GA-GG
1 ACAAATTAAGAACTGGAATAAAGTGTAAAACCAAACAATTACAATACAA
*
37322714 ACAAATTAAGAACCGGAATAAAGTGTAAAACCAAACAATTACAATACAA
1 ACAAATTAAGAACTGGAATAAAGTGTAAAACCAAACAATTACAATACAA
*
37322763 ATAAATTAAGAA
1 ACAAATTAAGAA
37322775 TTAGAACAAT
Statistics
Matches: 70, Mismatches: 20, Indels: 20
0.64 0.18 0.18
Matches are distributed among these distances:
39 15 0.21
40 3 0.04
41 1 0.01
42 3 0.04
43 3 0.04
44 8 0.11
45 3 0.04
46 3 0.04
47 1 0.01
48 3 0.04
49 27 0.39
ACGTcount: A:0.56, C:0.12, G:0.11, T:0.20
Consensus pattern (49 bp):
ACAAATTAAGAACTGGAATAAAGTGTAAAACCAAACAATTACAATACAA
Found at i:37322718 original size:88 final size:88
Alignment explanation
Indices: 37322623--37322799 Score: 336
Period size: 88 Copynumber: 2.0 Consensus size: 88
37322613 TTGTTATAAC
*
37322623 AGGACAAATTAAGAACTGGAATAAAGTGTAAAACCAAACAATTACAATACAAACAAATTAAGAAT
1 AGGACAAATTAAGAACCGGAATAAAGTGTAAAACCAAACAATTACAATACAAACAAATTAAGAAT
37322688 TAGAACAATTTGAACTAAAATTG
66 TAGAACAATTTGAACTAAAATTG
*
37322711 AGGACAAATTAAGAACCGGAATAAAGTGTAAAACCAAACAATTACAATACAAATAAATTAAGAAT
1 AGGACAAATTAAGAACCGGAATAAAGTGTAAAACCAAACAATTACAATACAAACAAATTAAGAAT
37322776 TAGAACAATTTGAACTAAAATTG
66 TAGAACAATTTGAACTAAAATTG
37322799 A
1 A
37322800 CTAACCAAAC
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 87 1.00
ACGTcount: A:0.55, C:0.11, G:0.12, T:0.21
Consensus pattern (88 bp):
AGGACAAATTAAGAACCGGAATAAAGTGTAAAACCAAACAATTACAATACAAACAAATTAAGAAT
TAGAACAATTTGAACTAAAATTG
Found at i:37324738 original size:7 final size:7
Alignment explanation
Indices: 37324722--37324752 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
37324712 GGTTTTTTCC
37324722 TTCT-AT
1 TTCTAAT
37324728 TTCTAAT
1 TTCTAAT
37324735 TTCTAAT
1 TTCTAAT
37324742 TTCTAAT
1 TTCTAAT
37324749 TTCT
1 TTCT
37324753 CTGTATTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (7 bp):
TTCTAAT
Found at i:37326716 original size:124 final size:124
Alignment explanation
Indices: 37326378--37326723 Score: 321
Period size: 124 Copynumber: 2.8 Consensus size: 124
37326368 TAAAAAGGAA
* * *
37326378 CATAAAACTTAGCTTCA-ATGCATGCAGTCTGTTGAATCTCGAAATA-TCG-A-ATGTTAGATCA
1 CATACAACTTAGCTT-AGATGCATGCAGTCAGTTGAATCTCGAAAAACT-GAACAT-TTAGATCA
* ** * * * *
37326439 TATAAACATCTATTATTTACTTGGGAAGCAAGAAACAATCAGATATCAATCTAGGAAACCAG
63 TATCAACATCTATTATTTACTAAGGAAGCAAGAATCAACCAGACATCAATCTAGAAAACCAG
* * * * * * * *
37326501 CATACAACTTGGCTTTGATCCCTGCAATCAGTTGATTCTCGAAATAGC-GAACATTTCGATCATA
1 CATACAACTTAGCTTAGATGCATGCAGTCAGTTGAATCTCGAAA-AACTGAACATTTAGATCATA
* * * ** *
37326565 TCAACATCTGTTACTTGCTAAACAAGCAAGCATCAACCA-ACCATCAATC-AGAAAAACTC-G
65 TCAACATCTATTATTTACTAAGGAAGCAAGAATCAACCAGA-CATCAATCTAG-AAAAC-CAG
* * *
37326625 CATACAGCTTAGCTTAGATGCATGCAGTCAGTTGAATCTCGAAAAACTGAACATTTTGATTATAT
1 CATACAACTTAGCTTAGATGCATGCAGTCAGTTGAATCTCGAAAAACTGAACATTTAGATCATAT
*
37326690 CAACATCTACTATTTACTAAGGAAGCAAGAATCA
66 CAACATCTATTATTTACTAAGGAAGCAAGAATCA
37326724 GCATTAAATC
Statistics
Matches: 173, Mismatches: 41, Indels: 17
0.75 0.18 0.07
Matches are distributed among these distances:
123 41 0.24
124 129 0.75
125 3 0.02
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (124 bp):
CATACAACTTAGCTTAGATGCATGCAGTCAGTTGAATCTCGAAAAACTGAACATTTAGATCATAT
CAACATCTATTATTTACTAAGGAAGCAAGAATCAACCAGACATCAATCTAGAAAACCAG
Found at i:37333361 original size:207 final size:207
Alignment explanation
Indices: 37332859--37333370 Score: 633
Period size: 212 Copynumber: 2.4 Consensus size: 207
37332849 ATAAATTCGT
*
37332859 TTGAAGCACTTGATAATCATCAATTTTCGCTTTCTGGGTAATTATTATTCACCCATAATTATTGA
1 TTGAAGCACTTGATAATCATCAATTTTCGCTTTCTGGGTAATTATTATTTA-CCATAATTATTGA
* * * * *
37332924 TTTTTAGTGTGCAAAACTGAAAATTTTGTTCATGTACTTATTGTTTGAAGTCAATTATTTACTGA
65 TTTTTAGTGTTCAAAACTGAAAATTCTGTTCATCTACTTATTGTTCGAAGTCAATTACTTACTGA
** * * *
37332989 ATAATTGAATGAGTAAAATTATATATTTTGCTACCTCTAAAGTTGAATTTTTGTTTCCATCGAAT
130 ATAATTGAATGAGTAAAACGATACATTGTGCTA-CTCTAAAG-T--ATTTTTGTTTCCATCGAAA
37333054 TATGTAATAGTTTAGGC
191 TATGTAATAGTTTAGGC
37333071 TTGAAGCACTTGATAATCATCAATTTTCGCTTTCTGGGTAATTATTATTTACTCATAATTATTGA
1 TTGAAGCACTTGATAATCATCAATTTTCGCTTTCTGGGTAATTATTATTTAC-CATAATTATTGA
* * *
37333136 TTTTTAGTGTTCAAAACTGAGAATTCTG-TCAATCTAGTTATTGTTCGAAGTCAGTTACTTACTG
65 TTTTTAGTGTTCAAAACTGAAAATTCTGTTC-ATCTACTTATTGTTCGAAGTCAATTACTTACTG
** * * *
37333200 AATAATTGAATTTGTAAGACGATACATTGTGCT-GTCTCAA-T-TTTTT-TTT-CATCGAAATAT
129 AATAATTGAATGAGTAAAACGATACATTGTGCTACTCTAAAGTATTTTTGTTTCCATCGAAATAT
37333260 GTCTAAGTAGTTTTAGGC
194 G--TAA-TAG-TTTAGGC
* ** * * *
37333278 TTGAAGCACTTGATAACCATCCGTTTTTGCTTTCTGGGTAATTATTATTTACCATCATTGTTGAT
1 TTGAAGCACTTGATAATCATCAATTTTCGCTTTCTGGGTAATTATTATTTACCATAATTATTGAT
37333343 TTTTAGT-TCTCAAAAACTGAAAATTCTG
66 TTTTAGTGT-TC-AAAACTGAAAATTCTG
37333371 CTTAATTTAC
Statistics
Matches: 266, Mismatches: 26, Indels: 21
0.85 0.08 0.07
Matches are distributed among these distances:
203 11 0.04
204 3 0.01
205 9 0.03
206 23 0.09
207 70 0.26
208 1 0.00
210 5 0.02
211 3 0.01
212 141 0.53
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (207 bp):
TTGAAGCACTTGATAATCATCAATTTTCGCTTTCTGGGTAATTATTATTTACCATAATTATTGAT
TTTTAGTGTTCAAAACTGAAAATTCTGTTCATCTACTTATTGTTCGAAGTCAATTACTTACTGAA
TAATTGAATGAGTAAAACGATACATTGTGCTACTCTAAAGTATTTTTGTTTCCATCGAAATATGT
AATAGTTTAGGC
Found at i:37343755 original size:29 final size:27
Alignment explanation
Indices: 37343703--37343760 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
37343693 AGCTAATTTT
* *
37343703 TTTTTAAAATATTAAAATTAAATTATAA
1 TTTTTAAAATAATAAAAATAAATT-TAA
37343731 TTTTTAAAATAATAAAAATATAATTTAA
1 TTTTTAAAATAATAAAAATA-AATTTAA
37343759 TT
1 TT
37343761 ATTTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
TTTTTAAAATAATAAAAATAAATTTAA
Found at i:37343772 original size:17 final size:17
Alignment explanation
Indices: 37343750--37343792 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
37343740 TAATAAAAAT
37343750 ATAATTTAATTATTT-TA
1 ATAATTTAATT-TTTATA
37343767 ATAATTTATATTTTTATA
1 ATAATTTA-ATTTTTATA
37343785 AT-ATTTAA
1 ATAATTTAA
37343793 AATATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 1 0.04
17 16 0.67
18 7 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATAATTTAATTTTTATA
Found at i:37343860 original size:81 final size:81
Alignment explanation
Indices: 37343705--37343853 Score: 182
Period size: 81 Copynumber: 1.8 Consensus size: 81
37343695 CTAATTTTTT
37343705 TTTAAAATATTAAAATTAAATTATAATTTTTAAAATAATAAAAATATAATTTAATTATTTTAATA
1 TTTAAAATATTAAAATTAAATTATAATTTTT-AAATAATAAAAATATAATTT-ATTATTTTAATA
37343770 ATTTATATTTTTATAATA
64 ATTTATATTTTTATAATA
* * * *
37343788 TTTAAAATATT-AAATT-AATTATTATTATTT-TATGAATCAAAATATAA-TT-TTATTTATATT
1 TTTAAAATATTAAAATTAAATTATAATT-TTTAAAT-AATAAAAATATAATTTATTATTT-TAAT
37343848 AATTTA
63 AATTTA
37343854 AATATTTAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
78 6 0.10
79 9 0.15
80 4 0.07
81 21 0.36
82 8 0.14
83 11 0.19
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.51
Consensus pattern (81 bp):
TTTAAAATATTAAAATTAAATTATAATTTTTAAATAATAAAAATATAATTTATTATTTTAATAAT
TTATATTTTTATAATA
Found at i:37344966 original size:14 final size:14
Alignment explanation
Indices: 37344947--37344977 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
37344937 AAAATACTAA
37344947 AATATTTAAACAAT
1 AATATTTAAACAAT
*
37344961 AATATTTAAATAAT
1 AATATTTAAACAAT
37344975 AAT
1 AAT
37344978 TTAAAGCCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (14 bp):
AATATTTAAACAAT
Found at i:37352726 original size:10 final size:9
Alignment explanation
Indices: 37352682--37352762 Score: 51
Period size: 9 Copynumber: 8.7 Consensus size: 9
37352672 ATATTATAAA
37352682 ATAAAAAGTT
1 ATAAAAA-TT
37352692 -TAATAAATT
1 ATAA-AAATT
37352701 AT-AAAATT
1 ATAAAAATT
*
37352709 AATGAAAACTT
1 -AT-AAAAATT
*
37352720 ATAAAAA-C
1 ATAAAAATT
*
37352728 ATTAAAATT
1 ATAAAAATT
*
37352737 GATATAAATTT
1 -ATA-AAAATT
37352748 ATAAAAATT
1 ATAAAAATT
37352757 ATAAAA
1 ATAAAA
37352763 TAATCATAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 17
0.69 0.10 0.21
Matches are distributed among these distances:
8 11 0.20
9 23 0.42
10 11 0.20
11 10 0.18
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:37352761 original size:28 final size:28
Alignment explanation
Indices: 37352696--37352763 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
37352686 AAAGTTTAAT
37352696 AAATTATAAAATTAATGAAAACTTATAA
1 AAATTATAAAATTAATGAAAACTTATAA
* * *
37352724 AAA-CATTAAAATTGAT-ATAAATTTATAA
1 AAATTA-TAAAATTAATGA-AAACTTATAA
37352752 AAATTATAAAAT
1 AAATTATAAAAT
37352764 AATCATAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
27 2 0.06
28 30 0.91
29 1 0.03
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (28 bp):
AAATTATAAAATTAATGAAAACTTATAA
Found at i:37352771 original size:28 final size:28
Alignment explanation
Indices: 37352696--37352772 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 28
37352686 AAAGTTTAAT
37352696 AAATTATAAAATTAATGA-AAACTTATAAA
1 AAATTATAAAA-TAAT-ATAAACTTATAAA
* * *
37352725 AACATTA-AAATTGATATAAATTTAT-AA
1 AA-ATTATAAAATAATATAAACTTATAAA
37352752 AAATTATAAAATAATCATAAA
1 AAATTATAAAATAAT-ATAAA
37352773 ATTTTGCATT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
26 4 0.10
27 11 0.28
28 15 0.38
29 5 0.13
30 4 0.10
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (28 bp):
AAATTATAAAATAATATAAACTTATAAA
Found at i:37354683 original size:29 final size:29
Alignment explanation
Indices: 37354651--37354742 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 29
37354641 TATTTTGCGG
37354651 GTTTTTATTGCCTTTTGGCTTGATGGGTA
1 GTTTTTATTGCCTTTTGGCTTGATGGGTA
* * * **
37354680 GTTTTAATTTCTTGTTTGTTTTG-TGGGT-
1 GTTTTTATTGCCT-TTTGGCTTGATGGGTA
* * * *
37354708 TTTTCTTCTTGCCCTTTGGCTTGATGTGTA
1 GTTT-TTATTGCCTTTTGGCTTGATGGGTA
37354738 GTTTT
1 GTTTT
37354743 AATTTCTTTG
Statistics
Matches: 44, Mismatches: 15, Indels: 8
0.66 0.22 0.12
Matches are distributed among these distances:
28 10 0.23
29 24 0.55
30 10 0.23
ACGTcount: A:0.08, C:0.11, G:0.24, T:0.58
Consensus pattern (29 bp):
GTTTTTATTGCCTTTTGGCTTGATGGGTA
Found at i:37354687 original size:55 final size:55
Alignment explanation
Indices: 37354542--37354863 Score: 314
Period size: 58 Copynumber: 5.8 Consensus size: 55
37354532 TTTTTTTTGA
* * * * *
37354542 GTTTTTGTTGCCTTTTGACTTGATGGGTAGATTTAATTT-TTGGTTATATTGTGG
1 GTTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTTTGTTATTTTGTGG
* * * *
37354596 ATTTTTTTCTTGCCCTTCT-GCTTGAT--GTAGTGTTAATTTCTTTGTTATTTTGCGG
1 --GTTTTTCTTG-CCTTTTGGCTTGATGGGTAGTTTTAATTTCTTTGTTATTTTGTGG
* *
37354651 GTTTTTATTGCCTTTTGGCTTGATGGGTAGTTTTAATTTC-TTGTTTGTTTTGTGG
1 GTTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTTTG-TTATTTTGTGG
* *
37354706 GTTTTTCTTCTTGCCCTTTGGCTTGATGTGTAGTTTTAATTTCTTTGTTATTTTGTGG
1 G--TTT-TTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTTTGTTATTTTGTGG
* ** * * *
37354764 GATTTTTTTCTTGCCTTCTGATTTGATGGGTAATTTTAATTTCTTTGTTAGTTTGTAG
1 G---TTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTTTGTTATTTTGTGG
* *
37354822 GTTTATT-TTCCCTTTTGGCTTGATGGGTAGTTTTAGTTTCTT
1 GTTT-TTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTT
37354864 GTTTAATTTG
Statistics
Matches: 221, Mismatches: 33, Indels: 25
0.79 0.12 0.09
Matches are distributed among these distances:
52 5 0.02
53 15 0.07
54 14 0.06
55 67 0.30
56 16 0.07
57 8 0.04
58 88 0.40
59 8 0.04
ACGTcount: A:0.11, C:0.10, G:0.22, T:0.57
Consensus pattern (55 bp):
GTTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTTTGTTATTTTGTGG
Found at i:37354750 original size:33 final size:32
Alignment explanation
Indices: 37354658--37354750 Score: 76
Period size: 33 Copynumber: 3.1 Consensus size: 32
37354648 CGGGTTTTTA
*
37354658 TTGCCTTTTGGCTTGATGGGTAGTTTTAATTTC
1 TTGCC-TTTGGCTTGATGTGTAGTTTTAATTTC
* *
37354691 TTG--TTT-G-TT-TTGTG-GGTTTT--TCTTC
1 TTGCCTTTGGCTTGATGTGTAGTTTTAAT-TTC
37354716 TTGCCCTTTGGCTTGATGTGTAGTTTTAATTTC
1 TTG-CCTTTGGCTTGATGTGTAGTTTTAATTTC
37354749 TT
1 TT
37354751 TGTTATTTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 20
0.64 0.07 0.29
Matches are distributed among these distances:
24 1 0.02
25 6 0.13
26 5 0.11
27 3 0.07
28 5 0.11
29 2 0.04
30 5 0.11
31 4 0.09
32 5 0.11
33 8 0.18
34 1 0.02
ACGTcount: A:0.09, C:0.12, G:0.23, T:0.57
Consensus pattern (32 bp):
TTGCCTTTGGCTTGATGTGTAGTTTTAATTTC
Found at i:37354841 original size:171 final size:167
Alignment explanation
Indices: 37354549--37354867 Score: 444
Period size: 171 Copynumber: 1.9 Consensus size: 167
37354539 TGAGTTTTTG
*
37354549 TTGCCTTTTGACTTGATGGGTAGATTTAATTTTTGGTTATATTGTGGATTTTTTTCTTGCCCTTC
1 TTGCCCTTTGACTTGATGGGTAGATTTAATTTTTGGTTATATTGTGGATTTTTTTCTTGCCCTTC
* * * *
37354614 TGCTTGATGTAGTGTTAATTTCTTTGTTATTTTGCGGGTTTTTATTGCCTTTTGGCTTGATGGGT
66 TGCTTGATGTAATGTTAATTTCTTTGTTAGTTTGCAGGTTTTTATTCCCTTTTGGCTTGATGGGT
37354679 AGTTTTAATTTCTTGTTTGTTTTGTGGGTTTTTCTTC
131 AGTTTTAATTTCTTGTTTGTTTTGTGGGTTTTTCTTC
* * * * *
37354716 TTGCCCTTTGGCTTGATGTGTAGTTTTAATTTCTTTGTTATTTTGTGGGATTTTTTTCTTG-CCT
1 TTGCCCTTTGACTTGATGGGTAGATTTAATTT-TTGGTTATATTGT-GGATTTTTTTCTTGCCCT
* * *
37354780 TCTGATTTGATGGGTAATTTTAATTTCTTTGTTAGTTTGTAGGTTTATT-TTCCCTTTTGGCTTG
64 TCTG-CTTGAT--GTAATGTTAATTTCTTTGTTAGTTTGCAGGTTT-TTATTCCCTTTTGGCTTG
*
37354844 ATGGGTAGTTTTAGTTTCTTGTTT
125 ATGGGTAGTTTTAATTTCTTGTTT
37354868 AATTTGAGGG
Statistics
Matches: 132, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
167 28 0.21
168 18 0.14
169 19 0.14
171 65 0.49
172 2 0.02
ACGTcount: A:0.12, C:0.10, G:0.22, T:0.57
Consensus pattern (167 bp):
TTGCCCTTTGACTTGATGGGTAGATTTAATTTTTGGTTATATTGTGGATTTTTTTCTTGCCCTTC
TGCTTGATGTAATGTTAATTTCTTTGTTAGTTTGCAGGTTTTTATTCCCTTTTGGCTTGATGGGT
AGTTTTAATTTCTTGTTTGTTTTGTGGGTTTTTCTTC
Found at i:37354846 original size:113 final size:114
Alignment explanation
Indices: 37354543--37354882 Score: 323
Period size: 113 Copynumber: 3.0 Consensus size: 114
37354533 TTTTTTTGAG
* * *
37354543 TTTTTGTTGCCTTTTGACTTGATGGGTAGA-TTTAATTT-TTGGTTA-TATTGT-GGATTTTT-T
1 TTTTTATTGCCTTCTGACTTGATGGGTA-ATTTTAATTTCTT-GTTAGTTTTGTAGG-TTTTTCT
* *
37354603 TCTTGCCCTTCT-GCTTGA--TGTAGTGTTAATTTCTTTGTTATTTTGCGGG---
63 TC-T-CCCTT-TGGCTTGATGTGTAGTTTTAATTTCTTTGTTATTTTGAGGGATT
* * * * *
37354652 TTTTTATTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTTGTTTGTTTTGTGGGTTTTTCTTCT
1 TTTTTATTGCCTTCTGACTTGATGGGTAATTTTAATTTCTTGTTAGTTTTGTAGGTTTTTCTTC-
*
37354717 TGCCCTTTGGCTTGATGTGTAGTTTTAATTTCTTTGTTATTTTGTGGGATT
65 T-CCCTTTGGCTTGATGTGTAGTTTTAATTTCTTTGTTATTTTGAGGGATT
* *
37354768 TTTTTCTTGCCTTCTGATTTGATGGGTAATTTTAATTTCTTTGTTAG-TTTGTAGGTTTATT-TT
1 TTTTTATTGCCTTCTGACTTGATGGGTAATTTTAATTTC-TTGTTAGTTTTGTAGGTTT-TTCTT
* * * *
37354831 C-CCTTTTGGCTTGATGGGTAGTTTTAGTTTC-TTGTTTAATTTGAGGGATT
64 CTCCCTTTGGCTTGATGTGTAGTTTTAATTTCTTTG-TTATTTTGAGGGATT
37354881 TT
1 TT
37354883 CCCTCTTTTT
Statistics
Matches: 198, Mismatches: 19, Indels: 24
0.82 0.08 0.10
Matches are distributed among these distances:
109 37 0.19
110 13 0.07
111 19 0.10
112 3 0.02
113 71 0.36
116 47 0.24
117 8 0.04
ACGTcount: A:0.12, C:0.09, G:0.22, T:0.57
Consensus pattern (114 bp):
TTTTTATTGCCTTCTGACTTGATGGGTAATTTTAATTTCTTGTTAGTTTTGTAGGTTTTTCTTCT
CCCTTTGGCTTGATGTGTAGTTTTAATTTCTTTGTTATTTTGAGGGATT
Found at i:37360664 original size:152 final size:153
Alignment explanation
Indices: 37360381--37360687 Score: 510
Period size: 152 Copynumber: 2.0 Consensus size: 153
37360371 TCCAAAACTC
*
37360381 CTAGGTCTAGTGATGATAATATGAGATTTAGATGGATTGTGATCCATTGTGAATGGTTGGAATTC
1 CTAGGTCTAGTGATGATAATATGAGATTTAGATGGATTGTGATCCATTGTGAATGATTGGAATTC
*
37360446 CATGATCGTAGATGATAAGTTGTAGACAAAACAAACCAATGCTCAAGACCTAGAATAAGACCGAT
66 CATGATCGTAGATGATAAGTTGTAGACAAAACAAACCAATGCTCAAGACCTAGAATAAAACCGAT
* *
37360511 TGAACTACGGTTATATAGTCTCTA
131 TGAACTACAGTTATATA-ACTCTA
*
37360535 CTAGGTCTAGTGATGATAATATGAGATTTAGATGGA-T-TGATCCATTGTGAATGATTGGGATTC
1 CTAGGTCTAGTGATGATAATATGAGATTTAGATGGATTGTGATCCATTGTGAATGATTGGAATTC
* * *
37360598 CATGATTGTAGATGATAAGTTGTAGACAAAACGAACCAATGCTCAAGACCTAGAATAAAACTGAT
66 CATGATCGTAGATGATAAGTTGTAGACAAAACAAACCAATGCTCAAGACCTAGAATAAAACCGAT
*
37360663 TGAACTACAGTTGTATAACTCTA
131 TGAACTACAGTTATATAACTCTA
37360686 CT
1 CT
37360688 GTAACTACAA
Statistics
Matches: 144, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
151 7 0.05
152 100 0.69
153 1 0.01
154 36 0.25
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.30
Consensus pattern (153 bp):
CTAGGTCTAGTGATGATAATATGAGATTTAGATGGATTGTGATCCATTGTGAATGATTGGAATTC
CATGATCGTAGATGATAAGTTGTAGACAAAACAAACCAATGCTCAAGACCTAGAATAAAACCGAT
TGAACTACAGTTATATAACTCTA
Found at i:37364284 original size:218 final size:215
Alignment explanation
Indices: 37363869--37364503 Score: 907
Period size: 218 Copynumber: 2.9 Consensus size: 215
37363859 TTTACATCAA
* * * * *
37363869 AAGACAAGATACATGAATAATGGACTTTTCCTTGTAGAATGTTTTAAATGCTACTACCATCCATA
1 AAGACAAGATACATGAATGATGGCCTTTTCCTTGTAAAATGTTTCAAATGCAACTACCATCCATA
* * *
37363934 TTGAAGACAAACACAACTTTACACAAAAGAACTACAAAAAGCAAACACT-CAGAGGCCAAGGAGC
66 TCGAAGACAAAAACAACTTTACACAAAAGAAATACAAAAA-CAAAC-CTCCA-AGGCCAAGGAGC
*
37363998 TTACACTAGTTTACAGGTCTTTTGTGACATAAAACACACTATCCCTACATATAAAATGTACAAAT
128 TTACACTAGTTTGCAGGTCTTTTGTGACATAAAACACACTATCCCTACATATAAAATGTACAAAT
*
37364063 CATGATGCATTCAACTGGGGATG
193 CATGATGCATTCAACTAGGGATG
* *
37364086 AAGACGAGATGCATGAATGATGGCCTTTTCCTTTGTAAAATGTTTCAAATGCAACTACCATCCAT
1 AAGACAAGATACATGAATGATGGCCTTTTCC-TTGTAAAATGTTTCAAATGCAACTACCATCCAT
** * *
37364151 ATCGAAGACAAAAACAACTTTATGCAAGAGAATTACAAAACACAAACCTTCCAAGGCCAAGGAGC
65 ATCGAAGACAAAAACAACTTTACACAAAAGAAATACAAAA-ACAAACC-TCCAAGGCCAAGGAGC
* * *
37364216 TTACACTAATTTGCAGGTCTATTGTGACATAAAACATACTATCCCTACATATAAAATGTACAAAT
128 TTACACTAGTTTGCAGGTCTTTTGTGACATAAAACACACTATCCCTACATATAAAATGTACAAAT
37364281 CATGATGCATTCAACTAGGGATG
193 CATGATGCATTCAACTAGGGATG
* * *
37364304 ACGACAAGATACATGAATGATGGCCTTTCTCCTTATAAAATGTTTCAAATGCAACTACCATCCAC
1 AAGACAAGATACATGAATGATGGCCTTT-TCCTTGTAAAATGTTTCAAATGCAACTACCATCCAT
* *
37364369 ATCGAAAAC-AAAACAACTTTACACAAAAGAAATCCAAAGAACAAACCCTCCAAGGCCAAGGAGC
65 ATCGAAGACAAAAACAACTTTACACAAAAGAAATACAAA-AACAAA-CCTCCAAGGCCAAGGAGC
* * * *
37364433 TTAAACTAGTTTGCAGGTTTTTTTATGAAATAAAACACACTAT-CCTACATATAAAATGTACAAA
128 TTACACTAGTTTGCAGG-TCTTTTGTGACATAAAACACACTATCCCTACATATAAAATGTACAAA
37364497 TCATGAT
192 TCATGAT
37364504 CCACCATGCT
Statistics
Matches: 374, Mismatches: 36, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
217 116 0.31
218 252 0.67
219 6 0.02
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.25
Consensus pattern (215 bp):
AAGACAAGATACATGAATGATGGCCTTTTCCTTGTAAAATGTTTCAAATGCAACTACCATCCATA
TCGAAGACAAAAACAACTTTACACAAAAGAAATACAAAAACAAACCTCCAAGGCCAAGGAGCTTA
CACTAGTTTGCAGGTCTTTTGTGACATAAAACACACTATCCCTACATATAAAATGTACAAATCAT
GATGCATTCAACTAGGGATG
Found at i:37365654 original size:106 final size:106
Alignment explanation
Indices: 37365469--37365679 Score: 377
Period size: 106 Copynumber: 2.0 Consensus size: 106
37365459 ACATTTGTTG
*
37365469 TTGTCAAAATGTAAAACGAAAAGAAAATTTTAGAATTGGCCAAGGATATGAAGACCTTTAATAGT
1 TTGTCAAAATGTAAAACGAAAAGAAAATTTTAGAATTGGCCAAGGATATGAAGACCTTTAATAAT
*
37365534 ATCAGAAAAAAACTCCTACATATCATGGTTTCCCAAGTACC
66 ATCAGAAAAAAACTCCTACATATCAGGGTTTCCCAAGTACC
37365575 TTGTCAAAATGTAAAACGAAAAGAAAATTTTAGAATTGGCCAAGGATATGAAGACCTTTAATAAT
1 TTGTCAAAATGTAAAACGAAAAGAAAATTTTAGAATTGGCCAAGGATATGAAGACCTTTAATAAT
* * *
37365640 ATCATAAAATAACTCCTATATATCAGGGTTTCCCAAGTAC
66 ATCAGAAAAAAACTCCTACATATCAGGGTTTCCCAAGTAC
37365680 TGACAAATTA
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
106 100 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (106 bp):
TTGTCAAAATGTAAAACGAAAAGAAAATTTTAGAATTGGCCAAGGATATGAAGACCTTTAATAAT
ATCAGAAAAAAACTCCTACATATCAGGGTTTCCCAAGTACC
Found at i:37365994 original size:76 final size:77
Alignment explanation
Indices: 37365854--37366011 Score: 273
Period size: 76 Copynumber: 2.0 Consensus size: 77
37365844 AATTGATTAG
37365854 TAATCAAACAGTAGACAACACAGGAATACTACAAATTGCAAGAGTATGCAGAGATATTTAACTCC
1 TAATCAAACAGTAGACAACACAGGAATACT---AATTGCAAGAGTATGCAGAGATATTTAACTCC
37365919 ATAAAGTAACTTCAC
63 ATAAAGTAACTTCAC
*
37365934 TAATCAAACAGTAGACAACACAGGAATACT-GTTGCAAGAGTATGCAGAGATATTTAACTCCATA
1 TAATCAAACAGTAGACAACACAGGAATACTAATTGCAAGAGTATGCAGAGATATTTAACTCCATA
37365998 AAGTAACTTCAC
66 AAGTAACTTCAC
37366010 TA
1 TA
37366012 TACAAAGCAA
Statistics
Matches: 77, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
76 47 0.61
80 30 0.39
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.23
Consensus pattern (77 bp):
TAATCAAACAGTAGACAACACAGGAATACTAATTGCAAGAGTATGCAGAGATATTTAACTCCATA
AAGTAACTTCAC
Found at i:37371705 original size:29 final size:28
Alignment explanation
Indices: 37371652--37371706 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
37371642 ACACATGATA
37371652 AAAATTTAAAATATATATATTTTTTTTT
1 AAAATTTAAAATATATATATTTTTTTTT
* * *
37371680 AAAATTTTAAATA-ATTTATTTATTTTT
1 AAAATTTAAAATATATATATTTTTTTTT
37371707 GTGACAGATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
AAAATTTAAAATATATATATTTTTTTTT
Found at i:37380058 original size:42 final size:42
Alignment explanation
Indices: 37379999--37380082 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
37379989 ATGTCGATCG
37379999 GAGCTAATACTCAACTCGATTCTACATTGACAGAATCAATGA
1 GAGCTAATACTCAACTCGATTCTACATTGACAGAATCAATGA
37380041 GAGCTAATACTCAACTCGATTCTACATTGACAGAATCAATGA
1 GAGCTAATACTCAACTCGATTCTACATTGACAGAATCAATGA
37380083 ACAACAAGAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.26
Consensus pattern (42 bp):
GAGCTAATACTCAACTCGATTCTACATTGACAGAATCAATGA
Found at i:37382269 original size:203 final size:201
Alignment explanation
Indices: 37381837--37382532 Score: 650
Period size: 203 Copynumber: 3.4 Consensus size: 201
37381827 TCTGTTTTTT
* ** *
37381837 CATCAAAGATCAACAGTGTTAATGAC-TAGGTCAACATA-TCAATGGATCAACAACAAAAACAAC
1 CATCAAAGATCAACATTGTTAAAAACTTAAGTCAACATATTC-ATGGATCAACAACAAAAACAA-
* * * * ** * * * *
37381900 CAAAATTTTGCATAAAAAATATTATTTTATTTAGAAAAAATTTGGAAGTGAAATGTAAAGCATCT
64 CTATACTTCGCATAAAAAATA--A-TTT-TTT-GAAAATTTTTGAAATTGTAACGTAAAGCATCT
* *
37381965 AAAAGTG-AAAAATTGAGAATCGAAGCATTCAAAATTTAACTCTAAAATGGAAAATCAAATTAG-
124 AAAAGTGAAAAAATGGA-AATCGAAGCATTCAAAA-TT--CTCTAAAATGGAAAATTAAATT-GC
*
37382028 GTAGCAACCTTTCGGCCAAC
184 GTA-AAACCTTTCGGCC-AC
* * ** * *
37382048 CATCAAAGATCAACATTGTTAAAAGCTTAAGTGAATGTATTCGTGGATCAAGAACAAAAACAACT
1 CATCAAAGATCAACATTGTTAAAAACTTAAGTCAACATATTCATGGATCAACAACAAAAACAACT
*
37382113 ATACTTCGCATAAAAAATGAATTTTTT-AAAATTTTTGAAATTGTAACGTAAAGCATCAAAAAAG
66 ATACTTCGCATAAAAAAT-AATTTTTTGAAAATTTTTGAAATTGTAACGTAAAGCATC-TAAAAG
* * *
37382177 TGAAAAAATGGAAATTGAAGCATTC-AAATTCTCTAAAAATGGAAAAATTATATTGCGTAAAACA
129 TGAAAAAATGGAAATCGAAGCATTCAAAATTCTCT-AAAATGG-AAAATTAAATTGCGTAAAACC
*
37382241 TTTCGGCCAT
192 TTTCGGCCAC
*
37382251 CATCAAAGATCAACATTGTTGAAAACTTAAGTCAACATATTCATGGATCAACAA-AAAAATCAA-
1 CATCAAAGATCAACATTGTTAAAAACTTAAGTCAACATATTCATGGATCAACAACAAAAA-CAAC
* * * *
37382314 TAATATTTCGC-T-----ATTATTTTTTGAAAATTTTTGAAATTGTAATGTAAAGCATCTAAGAG
65 T-ATACTTCGCATAAAAAATAATTTTTTGAAAATTTTTGAAATTGTAACGTAAAGCATCTAAAAG
* * * * *
37382373 TAAAAAAAAATCGG-AACCGAAGCATTCAAAATTCAACTGAAACT-GAAAATTAAATTACGTAAC
129 T--GAAAAAAT-GGAAATCGAAGCATTCAAAATTC-TCT-AAAATGGAAAATTAAATTGCGTAA-
* *
37382436 AACCTTCCGGTCAC
188 AACCTTTCGGCCAC
* *
37382450 CATCAAAGATCAATATTGTTAAAAATTTTAAGTCAACATATTCATGGATCAACAACAAAAACAAC
1 CATCAAAGATCAACATTGTTAAAAA-CTTAAGTCAACATATTCATGGATCAACAACAAAAACAAC
*
37382515 CATACTTCGCATAAAAAA
65 TATACTTCGCATAAAAAA
37382533 GAAAATTATT
Statistics
Matches: 402, Mismatches: 57, Indels: 57
0.78 0.11 0.11
Matches are distributed among these distances:
196 12 0.03
197 31 0.08
198 33 0.08
199 42 0.10
200 45 0.11
201 6 0.01
202 7 0.02
203 63 0.16
204 19 0.05
205 14 0.03
206 28 0.07
207 19 0.05
208 11 0.03
209 3 0.01
210 1 0.00
211 38 0.09
212 28 0.07
213 2 0.00
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (201 bp):
CATCAAAGATCAACATTGTTAAAAACTTAAGTCAACATATTCATGGATCAACAACAAAAACAACT
ATACTTCGCATAAAAAATAATTTTTTGAAAATTTTTGAAATTGTAACGTAAAGCATCTAAAAGTG
AAAAAATGGAAATCGAAGCATTCAAAATTCTCTAAAATGGAAAATTAAATTGCGTAAAACCTTTC
GGCCAC
Found at i:37384243 original size:12 final size:12
Alignment explanation
Indices: 37384193--37384243 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 12
37384183 AATTTAAAGG
*
37384193 TTAATTTATTAT
1 TTAATTTAATAT
37384205 TTAATACTTAA-AT
1 TTAAT--TTAATAT
37384218 TTAATTTCAATAT
1 TTAATTT-AATAT
*
37384231 TTGATTTAATAT
1 TTAATTTAATAT
37384243 T
1 T
37384244 CTTTCCAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
11 2 0.06
12 13 0.39
13 15 0.45
14 3 0.09
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (12 bp):
TTAATTTAATAT
Found at i:37384516 original size:17 final size:19
Alignment explanation
Indices: 37384491--37384528 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
37384481 ATAATAAAAC
*
37384491 ATAATTTTAT-TATTT-TA
1 ATAACTTTATATATTTATA
37384508 ATAACTTTATATATTTATA
1 ATAACTTTATATATTTATA
37384527 AT
1 AT
37384529 TTTTAAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 5 0.28
19 4 0.22
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
ATAACTTTATATATTTATA
Found at i:37385073 original size:20 final size:20
Alignment explanation
Indices: 37385048--37385085 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
37385038 TATTAGTATA
*
37385048 TTAATAATAAAATCTTAATT
1 TTAATAATAAAATATTAATT
*
37385068 TTAATATTAAAATATTAA
1 TTAATAATAAAATATTAA
37385086 AACATTAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
TTAATAATAAAATATTAATT
Found at i:37392585 original size:18 final size:19
Alignment explanation
Indices: 37392562--37392606 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
37392552 ATTTACTTTC
37392562 TTATATAATTTCAA-AAAT
1 TTATATAATTTCAATAAAT
* *
37392580 TTATATTATTTTTAATAAAT
1 TTATA-TAATTTCAATAAAT
37392600 TTATATA
1 TTATATA
37392607 TTAATTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 9 0.39
20 9 0.39
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
TTATATAATTTCAATAAAT
Found at i:37392616 original size:21 final size:21
Alignment explanation
Indices: 37392563--37392616 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
37392553 TTTACTTTCT
37392563 TATA-TAATTTCAA-AAATTTA
1 TATATTAATTT-AATAAATTTA
37392583 TATTATT--TTTAATAAATTTA
1 TA-TATTAATTTAATAAATTTA
37392603 TATATTAATTTAAT
1 TATATTAATTTAAT
37392617 GTTTAATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
19 6 0.21
20 14 0.48
21 8 0.28
22 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TATATTAATTTAATAAATTTA
Found at i:37394114 original size:19 final size:19
Alignment explanation
Indices: 37394079--37394123 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
37394069 AATTACTATC
*
37394079 ATAATAATATAATTTATTT
1 ATAATAATATAAGTTATTT
37394098 ATAA-AATATAAGGTTATTT
1 ATAATAATATAA-GTTATTT
37394117 -TAATAAT
1 ATAATAAT
37394124 TGTTTTGACC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (19 bp):
ATAATAATATAAGTTATTT
Found at i:37395544 original size:14 final size:16
Alignment explanation
Indices: 37395520--37395556 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
37395510 TAAAATTTTA
37395520 ATAAATAAAAAA-TAT
1 ATAAATAAAAAACTAT
*
37395535 -TAAATTAAAAACTAT
1 ATAAATAAAAAACTAT
37395550 ATAAATA
1 ATAAATA
37395557 TATTTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 3
0.78 0.09 0.13
Matches are distributed among these distances:
14 10 0.56
15 3 0.17
16 5 0.28
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
ATAAATAAAAAACTAT
Found at i:37403818 original size:58 final size:58
Alignment explanation
Indices: 37403723--37403834 Score: 206
Period size: 58 Copynumber: 1.9 Consensus size: 58
37403713 ATTCTTTACT
*
37403723 TAATTATAGAAGCTGCATCGATGTTTACATCCGTGAATCACTAATGTTTACTCTGTTA
1 TAATTATAGAAGCTGCATCAATGTTTACATCCGTGAATCACTAATGTTTACTCTGTTA
*
37403781 TAATTATAGAAGCTGCATCAATGTTTACATCCTTGAATCACTAATGTTTACTCT
1 TAATTATAGAAGCTGCATCAATGTTTACATCCGTGAATCACTAATGTTTACTCT
37403835 CATAATTTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.38
Consensus pattern (58 bp):
TAATTATAGAAGCTGCATCAATGTTTACATCCGTGAATCACTAATGTTTACTCTGTTA
Found at i:37410574 original size:104 final size:104
Alignment explanation
Indices: 37410456--37410664 Score: 418
Period size: 104 Copynumber: 2.0 Consensus size: 104
37410446 ACAGTATATG
37410456 TATATATGTGTGTGTATAACACCACAGCTCCATTTTGTATTTCTAAACAATTTCATTCACAGCAG
1 TATATATGTGTGTGTATAACACCACAGCTCCATTTTGTATTTCTAAACAATTTCATTCACAGCAG
37410521 AAAGCATGCATACACGTATGTGCTCTGGTATTAAAAAGA
66 AAAGCATGCATACACGTATGTGCTCTGGTATTAAAAAGA
37410560 TATATATGTGTGTGTATAACACCACAGCTCCATTTTGTATTTCTAAACAATTTCATTCACAGCAG
1 TATATATGTGTGTGTATAACACCACAGCTCCATTTTGTATTTCTAAACAATTTCATTCACAGCAG
37410625 AAAGCATGCATACACGTATGTGCTCTGGTATTAAAAAGA
66 AAAGCATGCATACACGTATGTGCTCTGGTATTAAAAAGA
37410664 T
1 T
37410665 TAAATATTAA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 105 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (104 bp):
TATATATGTGTGTGTATAACACCACAGCTCCATTTTGTATTTCTAAACAATTTCATTCACAGCAG
AAAGCATGCATACACGTATGTGCTCTGGTATTAAAAAGA
Found at i:37418991 original size:2 final size:2
Alignment explanation
Indices: 37418984--37419015 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
37418974 AAATTATGCT
37418984 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
37419016 TACCTTTGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:37420396 original size:24 final size:24
Alignment explanation
Indices: 37420361--37420408 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
37420351 ATGGATGTTC
37420361 AACCTTTCATCTCCCTTAACCTTT
1 AACCTTTCATCTCCCTTAACCTTT
* *
37420385 AACC-TTCTATCTTCTTTAACCTTT
1 AACCTTTC-ATCTCCCTTAACCTTT
37420409 CATATTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.21, C:0.33, G:0.00, T:0.46
Consensus pattern (24 bp):
AACCTTTCATCTCCCTTAACCTTT
Found at i:37423215 original size:314 final size:313
Alignment explanation
Indices: 37422622--37423254 Score: 977
Period size: 314 Copynumber: 2.0 Consensus size: 313
37422612 AGACATTTGT
* * * * *
37422622 TGTTCTAAAAAATTATTTCTCTTATTAACATCATCTTAGTATAACATAAAAAAAAAATTAGATCG
1 TGTTGTAAAAAAATATTTCACTTATTAACATCATCTTAATACAACATAAAAAAAAAATTAGATCG
* *
37422687 TATTAACATGTATATTTCATAACTTCAATCATAAGTAGAATTGGAATGATTCATGCTTCAAAGAG
66 TATTAACATGTATATTTCATAACTTCAATCATAAGTAGAATTGAAATGATTCACGCTTCAAAGAG
*
37422752 TACGTGGAAGGAGATCTTCATAATCTTAATGATGCAAATTCAAATTCAAATGATGATAATAAAGA
131 TACGTGGAAGGAAATCTTCATAATCTTAATGATGCAAATTCAAATTCAAATGATGATAATAAAGA
*
37422817 ACATACGTTAAATATTAAAGAGTGCACAACCTAACAAATATAATATATTAACAATGTGATTACAT
196 ACATACGTTAAATATTAAAGAGGGCACAACCTAACAAATATAATATATTAACAATGTGATTACAT
* *
37422882 TTTGTCAACCAATCACATCTAGAGAATTACAATTCTTGGTAATCACAA-A-AG
261 TTTATCAACCAAACACATCTAGAGAATTACAATTCTTGGTAATCACAAGAGAG
* *
37422933 TGTTGTAAAAAAATATTTCACTTATTAACATCATCTTAATACAGCATAAAAAAAAATTTAGATCG
1 TGTTGTAAAAAAATATTTCACTTATTAACATCATCTTAATACAACATAAAAAAAAAATTAGATCG
37422998 TATTAACATGTTGTATATTTCATAACTTCAATCAT-AGATAGAATTGAAATGATTCACGCTTCAA
66 TATTAACA---TGTATATTTCATAACTTCAATCATAAG-TAGAATTGAAATGATTCACGCTTCAA
* * * *
37423062 AGAGTATGTGGAAGGAAATCTTCATAATCTTAATTATGCAAATTTAAATTCAAATGATGATGATA
127 AGAGTACGTGGAAGGAAATCTTCATAATCTTAATGATGCAAATTCAAATTCAAATGATGATAATA
**
37423127 AA-AAGCATACGTTAAATATTAAAGAGGGCACAACCTAACAAATATAATATATTAATGATGTGAT
192 AAGAA-CATACGTTAAATATTAAAGAGGGCACAACCTAACAAATATAATATATTAACAATGTGAT
* * * * *
37423191 TATATTTTATCAGCTAAACACATCTAGAGAATTATAATTCTTGGTAATTACAAGAGAG
256 TACATTTTATCAACCAAACACATCTAGAGAATTACAATTCTTGGTAATCACAAGAGAG
37423249 TGTTGT
1 TGTTGT
37423255 TATTATCTTA
Statistics
Matches: 291, Mismatches: 24, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
311 66 0.23
313 4 0.01
314 212 0.73
315 1 0.00
316 8 0.03
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (313 bp):
TGTTGTAAAAAAATATTTCACTTATTAACATCATCTTAATACAACATAAAAAAAAAATTAGATCG
TATTAACATGTATATTTCATAACTTCAATCATAAGTAGAATTGAAATGATTCACGCTTCAAAGAG
TACGTGGAAGGAAATCTTCATAATCTTAATGATGCAAATTCAAATTCAAATGATGATAATAAAGA
ACATACGTTAAATATTAAAGAGGGCACAACCTAACAAATATAATATATTAACAATGTGATTACAT
TTTATCAACCAAACACATCTAGAGAATTACAATTCTTGGTAATCACAAGAGAG
Found at i:37430827 original size:47 final size:47
Alignment explanation
Indices: 37430758--37430848 Score: 137
Period size: 47 Copynumber: 1.9 Consensus size: 47
37430748 GGTTTCTAAA
* *
37430758 ATGAATAAACTTATGAAGCTCTTTGACATTTACCAATAATAGACAAC
1 ATGAATAAACTTAAGAAGCTCTTTGACATTTACCAAAAATAGACAAC
* * *
37430805 ATGAATAAATTTAAGAAGCTCTTTGGCATTTACTAAAAATAGAC
1 ATGAATAAACTTAAGAAGCTCTTTGACATTTACCAAAAATAGAC
37430849 TTGGTAATAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (47 bp):
ATGAATAAACTTAAGAAGCTCTTTGACATTTACCAAAAATAGACAAC
Found at i:37433006 original size:16 final size:16
Alignment explanation
Indices: 37432985--37433023 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
37432975 TCTCGTTCCT
37432985 CCGTCACAAAACCACG
1 CCGTCACAAAACCACG
37433001 CCGTCACAAAACCACG
1 CCGTCACAAAACCACG
37433017 CCGTCAC
1 CCGTCAC
37433024 TTTCGCCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.33, C:0.46, G:0.13, T:0.08
Consensus pattern (16 bp):
CCGTCACAAAACCACG
Found at i:37443655 original size:17 final size:15
Alignment explanation
Indices: 37443628--37443684 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
37443618 ATGTCACATT
*
37443628 AATAAATAAATTAAA
1 AATAAAAAAATTAAA
*
37443643 ATTATAAAAAAATCAAA
1 A--ATAAAAAAATTAAA
37443660 AATAAAAAAATGTAAA
1 AATAAAAAAAT-TAAA
37443676 AA-AAAAAAA
1 AATAAAAAAA
37443685 GAGCACGACT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 18 0.50
16 5 0.14
17 13 0.36
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (15 bp):
AATAAAAAAATTAAA
Found at i:37453745 original size:15 final size:15
Alignment explanation
Indices: 37453727--37453772 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
37453717 CTTAAATCTT
37453727 AAATTAAATTTTTTA
1 AAATTAAATTTTTTA
*
37453742 AAATT-ATTTTTTTA
1 AAATTAAATTTTTTA
37453756 AAA--AATATTTTTTA
1 AAATTAA-ATTTTTTA
37453770 AAA
1 AAA
37453773 GTAATGTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 1 0.04
14 21 0.78
15 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AAATTAAATTTTTTA
Found at i:37481382 original size:49 final size:49
Alignment explanation
Indices: 37481329--37481426 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
37481319 TGCAATTTAA
37481329 TACTAGAACTTTGATTTGATGCAATTATATAGATGAAACTTGAATTTTG
1 TACTAGAACTTTGATTTGATGCAATTATATAGATGAAACTTGAATTTTG
37481378 TACTAGAACTTTGATTTGATGCAATTATATAGATGAAACTTGAATTTTG
1 TACTAGAACTTTGATTTGATGCAATTATATAGATGAAACTTGAATTTTG
37481427 GTTCATATGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (49 bp):
TACTAGAACTTTGATTTGATGCAATTATATAGATGAAACTTGAATTTTG
Found at i:37481726 original size:17 final size:17
Alignment explanation
Indices: 37481700--37481738 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
37481690 TTATCTATAT
37481700 ACTAAAAAAAGCCTTAAA
1 ACTAAAAAAA-CCTTAAA
*
37481718 ACTAAAAAAACCTTACA
1 ACTAAAAAAACCTTAAA
37481735 ACTA
1 ACTA
37481739 TTATACATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.59, C:0.21, G:0.03, T:0.18
Consensus pattern (17 bp):
ACTAAAAAAACCTTAAA
Found at i:37496626 original size:59 final size:59
Alignment explanation
Indices: 37496534--37496654 Score: 215
Period size: 59 Copynumber: 2.1 Consensus size: 59
37496524 TTTTGCGGTT
37496534 GTTGATTGAGCCTTAGCTCAGTTGACATCGTTGCTATTGCAACAATTCAAAGGACATAG
1 GTTGATTGAGCCTTAGCTCAGTTGACATCGTTGCTATTGCAACAATTCAAAGGACATAG
* * *
37496593 GTTGATTGAGCCTTAGCTTAGTTGGCATCGTTGCTATTGCAACAATTCAAAGGACGTAG
1 GTTGATTGAGCCTTAGCTCAGTTGACATCGTTGCTATTGCAACAATTCAAAGGACATAG
37496652 GTT
1 GTT
37496655 CGAGCATGCT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (59 bp):
GTTGATTGAGCCTTAGCTCAGTTGACATCGTTGCTATTGCAACAATTCAAAGGACATAG
Found at i:37505908 original size:18 final size:18
Alignment explanation
Indices: 37505863--37505909 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
37505853 CCCATTTTTT
*
37505863 TAATTTTAATTTAAATAA
1 TAATTTTATTTTAAATAA
*
37505881 TTATTGTTATTTTAAA-AA
1 TAATT-TTATTTTAAATAA
37505899 TAATTATTATT
1 TAATT-TTATT
37505910 ATGGTGTGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
TAATTTTATTTTAAATAA
Found at i:37512161 original size:21 final size:21
Alignment explanation
Indices: 37512135--37512187 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
37512125 TTTATTTAAA
37512135 AATATAAATGATATAGAATAT
1 AATATAAATGATATAGAATAT
37512156 AATATAAATGATATAGAATAT
1 AATATAAATGATATAGAATAT
37512177 AATATAAATGA
1 AATATAAATGA
37512188 AATGAAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.32
Consensus pattern (21 bp):
AATATAAATGATATAGAATAT
Found at i:37512229 original size:21 final size:21
Alignment explanation
Indices: 37512203--37512243 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
37512193 AATTACTGAT
*
37512203 AAAAGTTCTATATATCTATAG
1 AAAAGTTCAATATATCTATAG
*
37512224 AAAAGTTGAATATATCTATA
1 AAAAGTTCAATATATCTATA
37512244 AAATTAATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (21 bp):
AAAAGTTCAATATATCTATAG
Found at i:37512246 original size:19 final size:19
Alignment explanation
Indices: 37512201--37512246 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
37512191 GAAATTACTG
*
37512201 ATAAAAGTTCTATATATCT
1 ATAAAAGTTCAATATATCT
*
37512220 ATAGAAAAGTTGAATATATCT
1 AT--AAAAGTTCAATATATCT
37512241 ATAAAA
1 ATAAAA
37512247 TTAATCTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 6 0.26
21 17 0.74
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.35
Consensus pattern (19 bp):
ATAAAAGTTCAATATATCT
Found at i:37512272 original size:21 final size:19
Alignment explanation
Indices: 37512234--37512272 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
37512224 AAAAGTTGAA
*
37512234 TATATCTATAAAATTAATC
1 TATATCTATAAAAATAATC
37512253 TATATCTATATAATAATAAT
1 TATATCTATA-AA-AATAAT
37512273 AAAATTTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 2 0.12
21 5 0.29
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (19 bp):
TATATCTATAAAAATAATC
Found at i:37512345 original size:14 final size:14
Alignment explanation
Indices: 37512326--37512354 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
37512316 TAGATAAATA
37512326 ATAATCTATATAAC
1 ATAATCTATATAAC
37512340 ATAATCTATATAAC
1 ATAATCTATATAAC
37512354 A
1 A
37512355 AAGTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATCTATATAAC
Found at i:37515086 original size:23 final size:23
Alignment explanation
Indices: 37514916--37515084 Score: 207
Period size: 23 Copynumber: 7.3 Consensus size: 23
37514906 ACACTAGCGC
* *
37514916 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
*
37514939 GCTCTCTGATTAGCAC-GTCTTGT
1 GCTCTCTGATTAGCACTGT-GTGT
*
37514962 GCTCTCTGATTAGCATTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
37514985 GCTCTCTGATTAGCACTTTGAGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
37515008 GCTCTCTGATTAGCACTTTGAGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
37515031 GCTCTCTGATTAGTACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
*
37515054 GCTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
37515077 GCTCTCTG
1 GCTCTCTG
37515085 TTGCCCAGCA
Statistics
Matches: 132, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
23 129 0.98
24 3 0.02
ACGTcount: A:0.12, C:0.23, G:0.23, T:0.41
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:37517357 original size:23 final size:23
Alignment explanation
Indices: 37517330--37517377 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
37517320 ATTCGCTTTT
37517330 GATTTGTTTCATAAAATTTTTGG
1 GATTTGTTTCATAAAATTTTTGG
* ** *
37517353 GATTTTTTTGTTAAGATTTTTGG
1 GATTTGTTTCATAAAATTTTTGG
37517376 GA
1 GA
37517378 ATTTTATGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.02, G:0.21, T:0.54
Consensus pattern (23 bp):
GATTTGTTTCATAAAATTTTTGG
Found at i:37526645 original size:3 final size:3
Alignment explanation
Indices: 37526637--37526671 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
37526627 GTGGTTGTGG
37526637 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
37526672 ATTATTATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:37530068 original size:18 final size:18
Alignment explanation
Indices: 37530045--37530079 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37530035 TGGTTTATAG
*
37530045 TATGAAATTATATTTAAT
1 TATGAAATTAAATTTAAT
*
37530063 TATGAACTTAAATTTAA
1 TATGAAATTAAATTTAA
37530080 GTTCTAGTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (18 bp):
TATGAAATTAAATTTAAT
Found at i:37542013 original size:170 final size:169
Alignment explanation
Indices: 37541606--37542100 Score: 629
Period size: 170 Copynumber: 2.9 Consensus size: 169
37541596 TTTAATCCCA
*
37541606 TTTTTGCA-TAAAGATCTTGTTTAGCAATGAACATTTGAGATATATGGTTGGTTTTATGTATGAT
1 TTTTTGCATTAAAAATCTTGTTTAGCAATGAACATTT--GATATAT-G-TGG--TTATGTATGAT
* * * * * *
37541670 GCTTCCTTGTGTGTATAGCTTTAAAATCAAGCGAA-TTTATCTTATAATTCTTCTTGTATGAATG
60 GTTTACTTGTATATATGGCTTTGAAATCAAGC-AATTTTATCTTATAA---TTCTTGTATGAATG
*
37541734 AACTACTTGCCAACCCCATGGTGTTGGTATCTTTTAATGTTTTAACTTT
121 AACTACTTGCCAACCCCATGGTGTTGATATCTTTTAATGTTTTAACTTT
* * *
37541783 TTTTTGCATTAAAAATATTGTTTAGCAATGATCATTTGATATATATGGTTATGTATGATGTTTAC
1 TTTTTGCATTAAAAATCTTGTTTAGCAATGAACATTTGATATATGTGGTTATGTATGATGTTTAC
37541848 TTGTATATATGGCTTTGAAATCAAGCAATTTTATCTTATAATT-TT-TATGAATGAACTACTTGC
66 TTGTATATATGGCTTTGAAATCAAGCAATTTTATCTTATAATTCTTGTATGAATGAACTACTTGC
*
37541911 CAACCCCATGGTGTTGATTTCTTTTAATGTTTTAACTTGGTT
131 CAACCCCATGGTGTTGATATCTTTTAATGTTTTAAC-T--TT
* **
37541953 TTTTTGCATTAAAAATCTTGTTTAGCAATGACCATTTGATATATGTGGTTATAAATGATGTTTAC
1 TTTTTGCATTAAAAATCTTGTTTAGCAATGAACATTTGATATATGTGGTTATGTATGATGTTTAC
* * * *
37542018 TTGTATATATGGCTTTGAAATCAAGCAATTTTATCGTATAATTGTTCTTGGATGAATGAATTGCT
66 TTGTATATATGGCTTTGAAATCAAGCAATTTTATCTTATAA---TTCTTGTATGAATGAACTACT
* *
37542083 TGCTAACCCCATGCTGTT
128 TGCCAACCCCATGGTGTT
37542101 ATAATATAAT
Statistics
Matches: 285, Mismatches: 23, Indels: 22
0.86 0.07 0.07
Matches are distributed among these distances:
167 52 0.18
168 3 0.01
169 2 0.01
170 102 0.36
171 2 0.01
172 49 0.17
173 2 0.01
174 5 0.02
175 28 0.10
176 7 0.02
177 8 0.03
178 25 0.09
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.44
Consensus pattern (169 bp):
TTTTTGCATTAAAAATCTTGTTTAGCAATGAACATTTGATATATGTGGTTATGTATGATGTTTAC
TTGTATATATGGCTTTGAAATCAAGCAATTTTATCTTATAATTCTTGTATGAATGAACTACTTGC
CAACCCCATGGTGTTGATATCTTTTAATGTTTTAACTTT
Found at i:37544372 original size:18 final size:18
Alignment explanation
Indices: 37544351--37544385 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37544341 TGGATTAAAA
*
37544351 TTTTTGTAACTTTTTTTT
1 TTTTTGTAAATTTTTTTT
*
37544369 TTTTTTTAAATTTTTTT
1 TTTTTGTAAATTTTTTT
37544386 ACATGCATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.80
Consensus pattern (18 bp):
TTTTTGTAAATTTTTTTT
Found at i:37544469 original size:22 final size:23
Alignment explanation
Indices: 37544437--37544479 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
37544427 TCCAGCTCTA
37544437 TCTTATA-TTTTATTTATTTTTCC
1 TCTTATATTTTTA-TTATTTTTCC
37544460 TCTTA-ATTTTTATTATTTTT
1 TCTTATATTTTTATTATTTTT
37544480 ATCATTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (23 bp):
TCTTATATTTTTATTATTTTTCC
Found at i:37548305 original size:19 final size:21
Alignment explanation
Indices: 37548283--37548322 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
37548273 ACAAATATAT
37548283 CAAACT-AAAA-ACATTAAAA
1 CAAACTGAAAACACATTAAAA
*
37548302 CAAATTGAAAACACATTAAAA
1 CAAACTGAAAACACATTAAAA
37548323 ATATTGAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 4 0.22
21 9 0.50
ACGTcount: A:0.65, C:0.15, G:0.03, T:0.17
Consensus pattern (21 bp):
CAAACTGAAAACACATTAAAA
Found at i:37548312 original size:20 final size:20
Alignment explanation
Indices: 37548289--37548331 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
37548279 ATATCAAACT
37548289 AAAA-ACATTAAAACAAATTG
1 AAAACACATTAAAA-AAATTG
*
37548309 AAAACACATTAAAAATATTG
1 AAAACACATTAAAAAAATTG
37548329 AAA
1 AAA
37548332 CAAATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.65, C:0.09, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAACACATTAAAAAAATTG
Found at i:37551052 original size:17 final size:18
Alignment explanation
Indices: 37551029--37551075 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
37551019 AAAATTTTGA
37551029 AAATATATTTCTAAAAA-T
1 AAATATATTT-TAAAAATT
37551047 -AATATA-TTTAAAAATT
1 AAATATATTTTAAAAATT
37551063 AAATATATTTTAA
1 AAATATATTTTAA
37551076 TGTTTTATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.23
16 3 0.12
17 12 0.46
18 5 0.19
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATATATTTTAAAAATT
Found at i:37560626 original size:30 final size:30
Alignment explanation
Indices: 37560591--37560648 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
37560581 AAAGAGCGCC
*
37560591 AAGTTTCAG-GACT-AATATGAATAAAAATAA
1 AAGTTT-AGAGACTAAAT-TGAAAAAAAATAA
37560621 AAGTTTAGAGACTAAATTGAAAAAAAAT
1 AAGTTTAGAGACTAAATTGAAAAAAAAT
37560649 TATCAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 2 0.08
30 20 0.80
31 3 0.12
ACGTcount: A:0.55, C:0.05, G:0.14, T:0.26
Consensus pattern (30 bp):
AAGTTTAGAGACTAAATTGAAAAAAAATAA
Found at i:37564988 original size:13 final size:13
Alignment explanation
Indices: 37564956--37565000 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
37564946 GTTTATTTTA
37564956 TTATTTTT-T-GT
1 TTATTTTTCTGGT
37564967 TTATTTTTCTGGGT
1 TTATTTTTCT-GGT
37564981 TT-TTTTTCTGGT
1 TTATTTTTCTGGT
37564993 TTATTTTT
1 TTATTTTT
37565001 TTTATTTTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 8 0.27
12 6 0.20
13 12 0.40
14 4 0.13
ACGTcount: A:0.07, C:0.04, G:0.13, T:0.76
Consensus pattern (13 bp):
TTATTTTTCTGGT
Found at i:37568186 original size:6 final size:6
Alignment explanation
Indices: 37568168--37568212 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
37568158 GTCATCACCA
* * * *
37568168 TCATCT TCTTTT TCATTT TCGTCT TCATCT TCATCT TCATCT TCA
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCA
37568213 ACATCATCCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.13, C:0.29, G:0.02, T:0.56
Consensus pattern (6 bp):
TCATCT
Found at i:37569434 original size:133 final size:131
Alignment explanation
Indices: 37569290--37569560 Score: 328
Period size: 133 Copynumber: 2.0 Consensus size: 131
37569280 AAAAAGCTTC
* * * *
37569290 ACATCTTTTTCCTTCAATTTCGGGTCGCAGCTTCTCACCTACACGAAAACATTGATATTTCATGA
1 ACATCTTTTTCCTTCAATTTCGGGTCACAGCTTCTCACCTACACGAAAACATTGAAATCTCAAGA
* ** *
37569355 CAAGAAA-ATCACTAATAAATTGACAAATTTTTCAGTTTCCACACCAATTAGCCAAAAAAAAAAC
66 CAA-AAAGATCACTAATAAATTAACAAAAATTTCAATTTCCACA-CAATTAG-CAAAAAAAAAAC
37569419 AAGA
128 AAGA
* * * * * *
37569423 ACATTTTTTTCCTTCTATTTCGGTTCACTGCTTCTCGCCTACATGAAAACATTGAAATCTCAAGA
1 ACATCTTTTTCCTTCAATTTCGGGTCACAGCTTCTCACCTACACGAAAACATTGAAATCTCAAGA
* * * * *
37569488 TAAAAAGATCACTAATAAATTAACAAAAATTTCAATTTTCACACAATTAGCAGAAAAACAACAAC
66 CAAAAAGATCACTAATAAATTAACAAAAATTTCAATTTCCACACAATTAGCAAAAAAAAAACAAG
37569553 A
131 A
37569554 ACGATCT
1 AC-ATCT
37569561 CAGATTACTA
Statistics
Matches: 116, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
131 15 0.13
132 13 0.11
133 88 0.76
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.30
Consensus pattern (131 bp):
ACATCTTTTTCCTTCAATTTCGGGTCACAGCTTCTCACCTACACGAAAACATTGAAATCTCAAGA
CAAAAAGATCACTAATAAATTAACAAAAATTTCAATTTCCACACAATTAGCAAAAAAAAAACAAG
A
Found at i:37580507 original size:2 final size:2
Alignment explanation
Indices: 37580490--37580524 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
37580480 TTCAAACATC
*
37580490 TA TA CA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37580525 ACTTTCACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:37587685 original size:19 final size:19
Alignment explanation
Indices: 37587630--37587686 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 19
37587620 AAAATGTTTT
37587630 TTTAAAAAAATTATT-T--
1 TTTAAAAAAATTATTATAA
*
37587646 TTT-AAAAAATT-TGTAGAAA
1 TTTAAAAAAATTAT-TA-TAA
37587665 TTTAAAAAAATTATTATAA
1 TTTAAAAAAATTATTATAA
37587684 TTT
1 TTT
37587687 TGTAATGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
14 1 0.03
15 9 0.28
16 3 0.09
19 8 0.25
20 10 0.31
21 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (19 bp):
TTTAAAAAAATTATTATAA
Found at i:37588506 original size:21 final size:21
Alignment explanation
Indices: 37588467--37588506 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
37588457 AATATTTACA
*
37588467 TATTTTTGTTAATTTAATTCT
1 TATTTTTGTTAATTAAATTCT
37588488 TATTTTT-TTAAGTTAAATT
1 TATTTTTGTTAA-TTAAATT
37588507 TGACCCTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (21 bp):
TATTTTTGTTAATTAAATTCT
Found at i:37599301 original size:8 final size:8
Alignment explanation
Indices: 37599284--37599317 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
37599274 TTTATAATAG
*
37599284 TAATAATA
1 TAATATTA
37599292 TAATATTA
1 TAATATTA
37599300 TAATATTA
1 TAATATTA
37599308 TAATATTA
1 TAATATTA
37599316 TA
1 TA
37599318 CTACTAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
TAATATTA
Found at i:37600389 original size:7 final size:7
Alignment explanation
Indices: 37600377--37600403 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
37600367 TTCTTTTAAT
37600377 GGGTTTA
1 GGGTTTA
37600384 GGGTTTA
1 GGGTTTA
37600391 GGGTTTA
1 GGGTTTA
37600398 GGGTTT
1 GGGTTT
37600404 TAAGTGGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.44, T:0.44
Consensus pattern (7 bp):
GGGTTTA
Found at i:37601751 original size:37 final size:36
Alignment explanation
Indices: 37601658--37601755 Score: 97
Period size: 39 Copynumber: 2.6 Consensus size: 36
37601648 CATATTATTA
** * *
37601658 TTTAATTAATTAAAATAATTAAAATATTTTTATATTT
1 TTTAATTTTTTAAAAT-TTTAAAATATTTTTAAATTT
** *
37601695 TTTATACATTTTAATAATTTTAAAGATTTTTTTAAATTT
1 TTTA-ATTTTTTAA-AATTTTAAA-ATATTTTTAAATTT
37601734 TTTAATTTTTTAAAATTTTAAA
1 TTTAATTTTTTAAAATTTTAAA
37601756 TAATTAATCA
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
37 13 0.27
38 17 0.35
39 19 0.39
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (36 bp):
TTTAATTTTTTAAAATTTTAAAATATTTTTAAATTT
Found at i:37603707 original size:27 final size:26
Alignment explanation
Indices: 37603652--37603713 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
37603642 CAATTTAACT
* *
37603652 TTAATTTTAAACCAAATATTTGAGTA
1 TTAATTTTAAACCAAATAATTGAGCA
*
37603678 TTAATTCTTAAATCAAATAAATTGA-CA
1 TTAATT-TTAAACCAAAT-AATTGAGCA
*
37603705 TTAAATTTA
1 TTAATTTTA
37603714 TGAAACTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 9 0.30
27 16 0.53
28 5 0.17
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (26 bp):
TTAATTTTAAACCAAATAATTGAGCA
Found at i:37610780 original size:6 final size:6
Alignment explanation
Indices: 37610769--37610794 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
37610759 ATCAATGTGT
37610769 CTGCAA CTGCAA CTGCAA CTGCAA CT
1 CTGCAA CTGCAA CTGCAA CTGCAA CT
37610795 AATTAAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.35, G:0.15, T:0.19
Consensus pattern (6 bp):
CTGCAA
Found at i:37613697 original size:164 final size:164
Alignment explanation
Indices: 37613426--37613745 Score: 559
Period size: 164 Copynumber: 2.0 Consensus size: 164
37613416 AAATTTTAGG
* * * * *
37613426 ATCATGTGGTTTTTGATGTAGTATGGTGCAGAGGAAGTAAAACTTGATTGCTTATTGTCTTCCAA
1 ATCATGTGGTTTTAGATGTACTATGGTGCAGAGGAAGTAAAAATTGATTGCTTATTGTATGCCAA
*
37613491 TAAATAACATTTAAATTTGCTATGTTCTTGTTGGTTGAGAATCTTCTGTTTTGATTCTGATCGAG
66 TAAATAACATTTAAATTTGCTATGATCTTGTTGGTTGAGAATCTTCTGTTTTGATTCTGATCGAG
37613556 GTCATGGTCATTTTTATCAAGATAGTAACACTAA
131 GTCATGGTCATTTTTATCAAGATAGTAACACTAA
*
37613590 ATCATGTGGTTTTAGATGTACTATGGTGCAGAGGAAGTAAAAATTGGTTGCTTATTGTATGCCAA
1 ATCATGTGGTTTTAGATGTACTATGGTGCAGAGGAAGTAAAAATTGATTGCTTATTGTATGCCAA
*
37613655 TAAATAACATTTAAATTTGCTATGATCTTGTTGGTTGAGAATCTTCTGTTTTGATTCTGTTCGAG
66 TAAATAACATTTAAATTTGCTATGATCTTGTTGGTTGAGAATCTTCTGTTTTGATTCTGATCGAG
*
37613720 GTCATGGTCATTTTTATCAATATAGT
131 GTCATGGTCATTTTTATCAAGATAGT
37613746 TAAATTCTTT
Statistics
Matches: 147, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
164 147 1.00
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.41
Consensus pattern (164 bp):
ATCATGTGGTTTTAGATGTACTATGGTGCAGAGGAAGTAAAAATTGATTGCTTATTGTATGCCAA
TAAATAACATTTAAATTTGCTATGATCTTGTTGGTTGAGAATCTTCTGTTTTGATTCTGATCGAG
GTCATGGTCATTTTTATCAAGATAGTAACACTAA
Found at i:37618322 original size:47 final size:47
Alignment explanation
Indices: 37618270--37618371 Score: 132
Period size: 47 Copynumber: 2.2 Consensus size: 47
37618260 TAGTATTTTC
* * *
37618270 TGTAATTACACAAATACACATAACATTACCGAAGTTGTAATAGTTTG
1 TGTAATTACACAAATACACAAAACATTACAGAAGTTGTAATAATTTG
* * * * *
37618317 TGTAATTACATAAATATAGAAAACATTGCAGAAGTTGTAATAATTTT
1 TGTAATTACACAAATACACAAAACATTACAGAAGTTGTAATAATTTG
37618364 TGTAATTA
1 TGTAATTA
37618372 GGTAATATTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (47 bp):
TGTAATTACACAAATACACAAAACATTACAGAAGTTGTAATAATTTG
Found at i:37625805 original size:2 final size:2
Alignment explanation
Indices: 37625798--37625824 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
37625788 AACAGAGGTA
37625798 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
37625825 TTTGGTTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:37629142 original size:6 final size:6
Alignment explanation
Indices: 37629128--37629292 Score: 87
Period size: 6 Copynumber: 27.5 Consensus size: 6
37629118 CCCAGAGAGC
* * ** * * *
37629128 TGGATT TGGAAT TGGAAT TGGGAT TCAAAT CGGAAC TGGAAA TGGAAT
1 TGGAAT TGGAAT TGGAAT TGGAAT TGGAAT TGGAAT TGGAAT TGGAAT
* ** * * * * ** *
37629176 TGGGAT TCAAAT TGGAAC TAGAAA TGGAAT TGGGAT TCAAAT TGGAAA
1 TGGAAT TGGAAT TGGAAT TGGAAT TGGAAT TGGAAT TGGAAT TGGAAT
** * * * * **
37629224 TGGAAT TGGAAT TCAAAT CGGAAC TGGAAA TGGAAT TGGGAT TCAAAT
1 TGGAAT TGGAAT TGGAAT TGGAAT TGGAAT TGGAAT TGGAAT TGGAAT
* *
37629272 TGGAAA TGGAAT TGGATT TGG
1 TGGAAT TGGAAT TGGAAT TGG
37629293 GATTCATATT
Statistics
Matches: 110, Mismatches: 49, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
6 110 1.00
ACGTcount: A:0.36, C:0.06, G:0.30, T:0.28
Consensus pattern (6 bp):
TGGAAT
Found at i:37629174 original size:30 final size:30
Alignment explanation
Indices: 37629134--37629310 Score: 231
Period size: 30 Copynumber: 6.1 Consensus size: 30
37629124 GAGCTGGATT
* *
37629134 TGGAATTGGAATTGGGATTCAAATCGGAAC
1 TGGAAATGGAATTGGGATTCAAATTGGAAC
37629164 TGGAAATGGAATTGGGATTCAAATTGGAAC
1 TGGAAATGGAATTGGGATTCAAATTGGAAC
*
37629194 TAGAAATGGAATTGGGATTCAAA-T-----
1 TGGAAATGGAATTGGGATTCAAATTGGAAC
* *
37629218 TGGAAATGGAATTGGAATTCAAATCGGAAC
1 TGGAAATGGAATTGGGATTCAAATTGGAAC
*
37629248 TGGAAATGGAATTGGGATTCAAATTGGAAA
1 TGGAAATGGAATTGGGATTCAAATTGGAAC
* * *
37629278 TGGAATTGGATTTGGGATTCATATTGGAAC
1 TGGAAATGGAATTGGGATTCAAATTGGAAC
37629308 TGG
1 TGG
37629311 GAGTGGGATT
Statistics
Matches: 128, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
24 21 0.16
29 1 0.01
30 106 0.83
ACGTcount: A:0.36, C:0.07, G:0.29, T:0.28
Consensus pattern (30 bp):
TGGAAATGGAATTGGGATTCAAATTGGAAC
Found at i:37629222 original size:54 final size:54
Alignment explanation
Indices: 37629164--37629287 Score: 221
Period size: 54 Copynumber: 2.3 Consensus size: 54
37629154 AAATCGGAAC
* *
37629164 TGGAAATGGAATTGGGATTCAAATTGGAACTAGAAATGGAATTGGGATTCAAAT
1 TGGAAATGGAATTGGAATTCAAATCGGAACTAGAAATGGAATTGGGATTCAAAT
*
37629218 TGGAAATGGAATTGGAATTCAAATCGGAACTGGAAATGGAATTGGGATTCAAAT
1 TGGAAATGGAATTGGAATTCAAATCGGAACTAGAAATGGAATTGGGATTCAAAT
37629272 TGGAAATGGAATTGGA
1 TGGAAATGGAATTGGA
37629288 TTTGGGATTC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.39, C:0.06, G:0.29, T:0.27
Consensus pattern (54 bp):
TGGAAATGGAATTGGAATTCAAATCGGAACTAGAAATGGAATTGGGATTCAAAT
Found at i:37629306 original size:54 final size:53
Alignment explanation
Indices: 37629196--37629330 Score: 164
Period size: 54 Copynumber: 2.5 Consensus size: 53
37629186 ATTGGAACTA
** * *
37629196 GAAATGGAATTGGGATTCAAATTGGAAATGGAATTGGAATT-CAAATCGGAACTG
1 GAAATGGAATTGGGATTCAAATTGGAAATGGAATTGGAATTGGGATTC--AATTG
*
37629250 GAAATGGAATTGGGATTCAAATTGGAAATGGAATTGGATTTGGGATTCATATTG
1 GAAATGGAATTGGGATTCAAATTGGAAATGGAATTGGAATTGGGATTCA-ATTG
* * *
37629304 GAACTGGGAGTGGGATTCAAATTGGAA
1 GAAATGGAATTGGGATTCAAATTGGAA
37629331 TGTGCATCCC
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 67 0.94
55 3 0.04
ACGTcount: A:0.36, C:0.06, G:0.30, T:0.28
Consensus pattern (53 bp):
GAAATGGAATTGGGATTCAAATTGGAAATGGAATTGGAATTGGGATTCAATTG
Found at i:37639939 original size:39 final size:39
Alignment explanation
Indices: 37639885--37639960 Score: 118
Period size: 39 Copynumber: 1.9 Consensus size: 39
37639875 ATATGGCCAG
*
37639885 ACTATGACCTTGAATCTCT-ACCTTCCTCCAAGAAATCGT
1 ACTATGACCTTGAATCTCTAACATTCC-CCAAGAAATCGT
*
37639924 ACTATGACCTTGAATCTCTAACATTGCCCAAGAAATC
1 ACTATGACCTTGAATCTCTAACATTCCCCAAGAAATC
37639961 TTTATTTGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 29 0.85
40 5 0.15
ACGTcount: A:0.32, C:0.29, G:0.11, T:0.29
Consensus pattern (39 bp):
ACTATGACCTTGAATCTCTAACATTCCCCAAGAAATCGT
Found at i:37653430 original size:2 final size:2
Alignment explanation
Indices: 37653425--37653452 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
37653415 AAAACAACAA
37653425 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
37653453 TGTAAAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37664914 original size:29 final size:29
Alignment explanation
Indices: 37664761--37664914 Score: 157
Period size: 30 Copynumber: 5.2 Consensus size: 29
37664751 GTTTTATTTA
* *
37664761 AAAATTACATTTTAACCCTAAACTTTTCC
1 AAAATTACATTTTGACCCTAAACTTCTCC
* *
37664790 AAAGTTACATTTTGAGCCCTAAACTTCTAC
1 AAAATTACATTTTGA-CCCTAAACTTCTCC
* * *
37664820 AAAGTCACATTTTGACCCCCAAACTTCTCC
1 AAAATTACATTTTGA-CCCTAAACTTCTCC
* * *
37664850 AAAATCACATTTTGAACCTAAACTATC-CT
1 AAAATTACATTTTGACCCTAAACT-TCTCC
* * *
37664879 AAGATTACATTTTTACCCTAAACTTTTCC
1 AAAATTACATTTTGACCCTAAACTTCTCC
37664908 AAAATTA
1 AAAATTA
37664915 TGTTTGACCC
Statistics
Matches: 103, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
28 1 0.01
29 48 0.47
30 54 0.52
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (29 bp):
AAAATTACATTTTGACCCTAAACTTCTCC
Found at i:37667669 original size:22 final size:22
Alignment explanation
Indices: 37667638--37667692 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
37667628 TACAAGGCCG
37667638 ATGTCGCGACA-CTCTGGTGCCT
1 ATGTCGCGACACCT-TGGTGCCT
*
37667660 ATGTCACGACACCTTGGTGCCT
1 ATGTCGCGACACCTTGGTGCCT
*
37667682 GTGTCGCGACA
1 ATGTCGCGACA
37667693 TCGAAGGCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 27 0.93
23 2 0.07
ACGTcount: A:0.16, C:0.31, G:0.27, T:0.25
Consensus pattern (22 bp):
ATGTCGCGACACCTTGGTGCCT
Found at i:37668488 original size:30 final size:30
Alignment explanation
Indices: 37668452--37668515 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
37668442 CAACTTAATA
** *
37668452 AACAAATATTTCTAAAATAGTAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
* *
37668482 AACAAATGCCTCTAAAATAATAATAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
37668512 AACA
1 AACA
37668516 GTAAAATAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (30 bp):
AACAAATACCTCTAAAATAATAACAAAATT
Found at i:37670861 original size:5 final size:5
Alignment explanation
Indices: 37670818--37670847 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
37670808 GACAAAAAAA
37670818 TTTAGT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTA-T TTTAT TTTAT TTTAT TTTAT TTTA
37670848 AAATATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:37670890 original size:30 final size:29
Alignment explanation
Indices: 37670844--37670901 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
37670834 TTTATTTTAT
37670844 TTTAAAATATATTTTATTAGGATTTAATA
1 TTTAAAATATATTTTATTAGGATTTAATA
* *
37670873 TTTAAAGATAT-TATTTATTTGTATTTAAT
1 TTTAAA-ATATAT-TTTATTAGGATTTAAT
37670902 TTATGTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (29 bp):
TTTAAAATATATTTTATTAGGATTTAATA
Found at i:37671660 original size:22 final size:22
Alignment explanation
Indices: 37671634--37671693 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
37671624 TCGACTTTCC
37671634 TATTTTCTATTT-CTTTTAATTT
1 TATTTTCT-TTTACTTTTAATTT
* *
37671656 TATTTTCTTTTATTTTTAATTC
1 TATTTTCTTTTACTTTTAATTT
* *
37671678 T-GTTTCTTTTATTTTT
1 TATTTTCTTTTACTTTT
37671694 CCTCAGATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.50
22 17 0.50
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (22 bp):
TATTTTCTTTTACTTTTAATTT
Found at i:37671664 original size:16 final size:16
Alignment explanation
Indices: 37671643--37671673 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37671633 CTATTTTCTA
37671643 TTTCTTTTAATTTTAT
1 TTTCTTTTAATTTTAT
*
37671659 TTTCTTTTATTTTTA
1 TTTCTTTTAATTTTA
37671674 ATTCTGTTTC
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:0.16, C:0.06, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTCTTTTAATTTTAT
Found at i:37674972 original size:24 final size:24
Alignment explanation
Indices: 37674944--37674996 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
37674934 CGAAGTACTT
*
37674944 AACAGAAGCGCATAAGTGCTGGGA
1 AACAGAAGCACATAAGTGCTGGGA
*
37674968 AACAGAAGCACGTAAGTGCTGGGA
1 AACAGAAGCACATAAGTGCTGGGA
37674992 AACAG
1 AACAG
37674997 TAGGCACACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.40, C:0.17, G:0.32, T:0.11
Consensus pattern (24 bp):
AACAGAAGCACATAAGTGCTGGGA
Found at i:37675026 original size:22 final size:22
Alignment explanation
Indices: 37675000--37675060 Score: 95
Period size: 22 Copynumber: 2.8 Consensus size: 22
37674990 GAAACAGTAG
*
37675000 GCACACACAATGCTGAACAGAA
1 GCACACACAGTGCTGAACAGAA
*
37675022 GCACACACAGTACTGAACAGAA
1 GCACACACAGTGCTGAACAGAA
*
37675044 GAACACACAGTGCTGAA
1 GCACACACAGTGCTGAA
37675061 TAGTAAACGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.44, C:0.26, G:0.20, T:0.10
Consensus pattern (22 bp):
GCACACACAGTGCTGAACAGAA
Found at i:37682627 original size:5 final size:5
Alignment explanation
Indices: 37682617--37682641 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
37682607 TTCGGACCAT
37682617 GCATG GCATG GCATG GCATG GCATG
1 GCATG GCATG GCATG GCATG GCATG
37682642 TCAGGGCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.40, T:0.20
Consensus pattern (5 bp):
GCATG
Found at i:37683282 original size:2 final size:2
Alignment explanation
Indices: 37683275--37683304 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
37683265 AAGACGGGAC
37683275 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
37683305 TTCTCTTTGT
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:37689383 original size:109 final size:109
Alignment explanation
Indices: 37689234--37689446 Score: 286
Period size: 109 Copynumber: 2.0 Consensus size: 109
37689224 TCTACATGTG
* * *
37689234 AACCATGCTTTATGAATAGAACAAAGTCAAATATTCAACATGAATTAAAATATATTTAGAAAAT-
1 AACCATGCTTTAGGAATAGAACAAAGTCAAATATTCAACATAAACTAAAATATATTTAGAAAATA
* *
37689298 A-TACCTTTGTTTAAGTATGGAAATATTTTCAATGAATCACTGTC
66 ATTACCTTT-TTCAAGTAAGGAAATATTTTCAATGAATCACTGTC
* * * *
37689342 AACCATGTTTTACGGAATAGCACAATGTTAAATATTCAACATAAACTAAAATATATTTAGAAAAT
1 AACCATGCTTTA-GGAATAGAACAAAGTCAAATATTCAACATAAACTAAAATATATTTAGAAAAT
** *
37689407 AATTTTCTTTTTCAAGTAAGGAAATATTTTCAATTAATCA
65 AATTACCTTTTTCAAGTAAGGAAATATTTTCAATGAATCA
37689447 ATCTGGAGTG
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
108 11 0.12
109 46 0.51
110 28 0.31
111 5 0.06
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (109 bp):
AACCATGCTTTAGGAATAGAACAAAGTCAAATATTCAACATAAACTAAAATATATTTAGAAAATA
ATTACCTTTTTCAAGTAAGGAAATATTTTCAATGAATCACTGTC
Found at i:37690214 original size:54 final size:54
Alignment explanation
Indices: 37690130--37690234 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 54
37690120 CCTGTTGAGA
* *
37690130 ATTCAGATCACTGTGTTCACCCTGCCGAGTTTCAGTGTGAATAATAGTACCCTC
1 ATTCAGATCACTGTGTTCACCCAGCCGAGTTTCAGTGTGAACAATAGTACCCTC
** ** *
37690184 ATTCAGATCACTGTGTTCACCCAGTTGAGTTTTGGTGTGAACAGTAGTACC
1 ATTCAGATCACTGTGTTCACCCAGCCGAGTTTCAGTGTGAACAATAGTACC
37690235 AACAGATTGT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (54 bp):
ATTCAGATCACTGTGTTCACCCAGCCGAGTTTCAGTGTGAACAATAGTACCCTC
Found at i:37715684 original size:3 final size:3
Alignment explanation
Indices: 37715676--37715709 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
37715666 TCTGATTCTA
37715676 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
37715710 TAAGAGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:37717082 original size:18 final size:17
Alignment explanation
Indices: 37717059--37717096 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
37717049 TTATTTTTCT
37717059 TCTTCTTCTTTCTTTCCA
1 TCTTCTTC-TTCTTTCCA
*
37717077 TCTTCTTCTTCTTTCTA
1 TCTTCTTCTTCTTTCCA
37717094 TCT
1 TCT
37717097 GTTACTGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.05, C:0.32, G:0.00, T:0.63
Consensus pattern (17 bp):
TCTTCTTCTTCTTTCCA
Found at i:37718047 original size:18 final size:17
Alignment explanation
Indices: 37718015--37718052 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 17
37718005 AGGCAATAGC
37718015 AGATGGAAAAAAGAAGA
1 AGATGGAAAAAAGAAGA
37718032 AGATGGAAAGAAAGAAGA
1 AGATGGAAA-AAAGAAGA
37718050 AGA
1 AGA
37718053 AAAAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.32, T:0.05
Consensus pattern (17 bp):
AGATGGAAAAAAGAAGA
Found at i:37718063 original size:18 final size:18
Alignment explanation
Indices: 37718021--37718065 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
37718011 TAGCAGATGG
***
37718021 AAAAAAGAAGAAGATGGA
1 AAAAAAGAAGAAGAAAAA
*
37718039 AAGAAAGAAGAAGAAAAA
1 AAAAAAGAAGAAGAAAAA
37718057 AAAAAAGAA
1 AAAAAAGAA
37718066 CCGGGTTTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (18 bp):
AAAAAAGAAGAAGAAAAA
Found at i:37730889 original size:36 final size:36
Alignment explanation
Indices: 37730837--37731063 Score: 229
Period size: 36 Copynumber: 6.3 Consensus size: 36
37730827 CCGTGCTCCT
* * * * *
37730837 GGTGGTGGAGGTACAGCAGGAGCTTTTGGTGCAGGG
1 GGTGGAGGAGGCACAGCAGGACCTTTCGGTGGAGGG
*
37730873 GGTGGAGGAGGCACAGCAGGACCTTTCGGTGGAGGA
1 GGTGGAGGAGGCACAGCAGGACCTTTCGGTGGAGGG
* **
37730909 GGTGGAGGGGGCACAGCAGGACCTTTCGGTGGACAG
1 GGTGGAGGAGGCACAGCAGGACCTTTCGGTGGAGGG
37730945 GGTGGAGGAGGCACAGCAGGACCTTTCGGTGGAGGG
1 GGTGGAGGAGGCACAGCAGGACCTTTCGGTGGAGGG
* ** * * * *
37730981 GGTGGAGGGGGTGCTGGAGGAGCTTTTGGTGGAGGG
1 GGTGGAGGAGGCACAGCAGGACCTTTCGGTGGAGGG
* * ** * * * * *
37731017 GGCGGAGGGGGTGCTGGAGGAGCTTTTGGTGGCGGG
1 GGTGGAGGAGGCACAGCAGGACCTTTCGGTGGAGGG
37731053 GGTGGAGGAGG
1 GGTGGAGGAGG
37731064 AATAGAACCT
Statistics
Matches: 167, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 167 1.00
ACGTcount: A:0.16, C:0.13, G:0.54, T:0.17
Consensus pattern (36 bp):
GGTGGAGGAGGCACAGCAGGACCTTTCGGTGGAGGG
Found at i:37731048 original size:72 final size:72
Alignment explanation
Indices: 37730849--37731060 Score: 253
Period size: 72 Copynumber: 2.9 Consensus size: 72
37730839 TGGTGGAGGT
* *
37730849 ACAGCAGGAGCTTTTGGTGCAGGGGGTGGAGGAGGCACAGCAGGACCTTTCGGTGGAGGAGGTGG
1 ACAGCAGGAGCTTTTGGTGGAGGGGGTGGAGGAGGCACAGCAGGACCTTTCGGTGGAGGGGGTGG
37730914 AGGGGGC
66 AGGGGGC
* * **
37730921 ACAGCAGGACCTTTCGGTGGACAGGGTGGAGGAGGCACAGCAGGACCTTTCGGTGGAGGGGGTGG
1 ACAGCAGGAGCTTTTGGTGGAGGGGGTGGAGGAGGCACAGCAGGACCTTTCGGTGGAGGGGGTGG
*
37730986 AGGGGGT
66 AGGGGGC
* * * * * ** * * * * *
37730993 GCTGGAGGAGCTTTTGGTGGAGGGGGCGGAGGGGGTGCTGGAGGAGCTTTTGGTGGCGGGGGTGG
1 ACAGCAGGAGCTTTTGGTGGAGGGGGTGGAGGAGGCACAGCAGGACCTTTCGGTGGAGGGGGTGG
37731058 AGG
66 AGG
37731061 AGGAATAGAA
Statistics
Matches: 117, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
72 117 1.00
ACGTcount: A:0.17, C:0.14, G:0.53, T:0.17
Consensus pattern (72 bp):
ACAGCAGGAGCTTTTGGTGGAGGGGGTGGAGGAGGCACAGCAGGACCTTTCGGTGGAGGGGGTGG
AGGGGGC
Done.