Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 28 of 141
Found at i:8568839 original size:58 final size:58
Alignment explanation
Indices: 8568776--8569235 Score: 457
Period size: 58 Copynumber: 8.4 Consensus size: 58
8568766 ACTAACAATT
* *
8568776 AACTAACTTAATTAAAAACCCTAACCCTAATCTAATTTAATTAAAAACCCTAACCCTA
1 AACTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTA
* * * * *
8568834 AACTAATTTAATTAAAAACCCTAA---T---TTAATTTTACTAACAA--TTAA--CT-
1 AACTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTA
* *
8568881 AACTTAA-TTAA-AAACCCTAACCCTAAC------CTAATTTAATTAAAAACCCTAACCCTA
1 AAC-TAATTTAATTAA---AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTA
* * *
8568935 ATCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCATAACCCTA
1 AACTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTA
*
8568993 AACTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTA
1 AACTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTA
* **
8569051 AACTAATTTAATTAAAAACCCTAA---T---TTAA-TT--TTACTAACCCTAA--C--
1 AACTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTA
8569096 --CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTA
1 AACTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTA
* * * * *
8569152 ACCTAACTTAATTAAAAACCCTAACCCTAAACTAACTTAACTAAAAACCCTAACCCTA
1 AACTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTA
8569210 AACTAATTTAATTAAAAACCCTAACC
1 AACTAATTTAATTAAAAACCCTAACC
8569236 ATTAACACCA
Statistics
Matches: 334, Mismatches: 35, Indels: 66
0.77 0.08 0.15
Matches are distributed among these distances:
43 22 0.07
46 3 0.01
47 8 0.02
48 5 0.01
49 34 0.10
50 5 0.01
51 5 0.01
52 35 0.10
53 5 0.01
54 7 0.02
55 4 0.01
58 201 0.60
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.28
Consensus pattern (58 bp):
AACTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTA
Found at i:8568872 original size:72 final size:72
Alignment explanation
Indices: 8568802--8569016 Score: 223
Period size: 72 Copynumber: 2.8 Consensus size: 72
8568792 AACCCTAACC
*
8568802 CTAATCTAATTTAATTAAAAACCCTAACCCTAAACTAATTTAATTAAAAACCCTAATTTAATTTT
1 CTAA-CTAACTTAATTAAAAACCCTAACCCTAAACTAATTTAATTAAAAACCCTAATTTAATTTT
8568867 ACTAACAA
65 ACTAACAA
* *
8568875 TTAACTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAATCTA
1 CTAACTAACTTAATTAAAAACCCTAACCCTAAACTAATTTAATTAAAAACCCTAA---T--T-TA
**
8568940 ATTTAATTAAAAACCCTAA
60 A-TT--TTACTAA--C-AA
* *
8568959 CCCTAACCTAACTTAATTAAAAACCATAACCCTAAACTAACTTAATTAAAAACCCTAA
1 --CTAA-CTAACTTAATTAAAAACCCTAACCCTAAACTAATTTAATTAAAAACCCTAA
8569017 CCCTAACCTA
Statistics
Matches: 118, Mismatches: 9, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
72 49 0.42
73 3 0.03
75 1 0.01
77 1 0.01
78 3 0.03
79 2 0.02
81 5 0.04
83 1 0.01
84 2 0.02
86 3 0.03
87 48 0.41
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (72 bp):
CTAACTAACTTAATTAAAAACCCTAACCCTAAACTAATTTAATTAAAAACCCTAATTTAATTTTA
CTAACAA
Found at i:8568976 original size:87 final size:86
Alignment explanation
Indices: 8568877--8569235 Score: 460
Period size: 87 Copynumber: 4.3 Consensus size: 86
8568867 ACTAACAATT
* *
8568877 AACTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAATCTAAT
1 AACTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAA-CTAAT
8568942 TTAATTAAAAACCCTAACCCTA
65 TTAATTAAAAACCCTAACCCTA
* * * *
8568964 ACCTAACTTAATTAAAAACCATAACCCTAAACTAACTTAATTAAAAACCCTAACCCTAACCTAAT
1 AACTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAA-CTAAT
8569029 TTAATTAAAAACCCTAACCCTA
65 TTAATTAAAAACCCTAACCCTA
* ** *
8569051 AACTAATTTAATTAAAAACCCTAA---T---TTAA-TT--TTACTAACCCTAA-CCTAATTTAA-
1 AACTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAA-CTAAT
8569105 TT----AAAAACCCTAACCCTA
65 TTAATTAAAAACCCTAACCCTA
* *
8569123 ACCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAAACTAAC
1 AACTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCT-AACTAAT
*
8569188 TTAACTAAAAACCCTAACCCTA
65 TTAATTAAAAACCCTAACCCTA
8569210 AACTAATTTAATTAAAAACCCTAACC
1 AACTAATTTAATTAAAAACCCTAACC
8569236 ATTAACACCA
Statistics
Matches: 237, Mismatches: 19, Indels: 32
0.82 0.07 0.11
Matches are distributed among these distances:
72 39 0.16
75 1 0.00
76 2 0.01
77 8 0.03
78 14 0.06
79 2 0.01
80 2 0.01
81 14 0.06
82 6 0.03
83 4 0.02
84 1 0.00
87 144 0.61
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.27
Consensus pattern (86 bp):
AACTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACTAATT
TAATTAAAAACCCTAACCCTA
Found at i:8569089 original size:159 final size:159
Alignment explanation
Indices: 8568926--8569233 Score: 553
Period size: 159 Copynumber: 1.9 Consensus size: 159
8568916 ATTAAAAACC
*
8568926 CTAACCCTAATCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCATAACCC
1 CTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCATAACCC
* * *
8568991 TAAACTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAACTA
66 TAAACTAACTTAATTAAAAACCCTAACCCTAAACTAACTTAACTAAAAACCCTAACCCTAAACTA
8569056 ATTTAATTAAAAACCCTAATTTAATTTTA
131 ATTTAATTAAAAACCCTAATTTAATTTTA
* *
8569085 CTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCC
1 CTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCATAACCC
*
8569150 TAACCTAACTTAATTAAAAACCCTAACCCTAAACTAACTTAACTAAAAACCCTAACCCTAAACTA
66 TAAACTAACTTAATTAAAAACCCTAACCCTAAACTAACTTAACTAAAAACCCTAACCCTAAACTA
8569215 ATTTAATTAAAAACCCTAA
131 ATTTAATTAAAAACCCTAA
8569234 CCATTAACAC
Statistics
Matches: 142, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
159 142 1.00
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (159 bp):
CTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCATAACCC
TAAACTAACTTAATTAAAAACCCTAACCCTAAACTAACTTAACTAAAAACCCTAACCCTAAACTA
ATTTAATTAAAAACCCTAATTTAATTTTA
Found at i:8569151 original size:217 final size:217
Alignment explanation
Indices: 8568776--8569235 Score: 814
Period size: 217 Copynumber: 2.1 Consensus size: 217
8568766 ACTAACAATT
*
8568776 AACTAACTTAATTAAAAACCCTAACCCTAATCTAATTTAATTAAAAACCCTAACCCTAAACTAAT
1 AACTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAACTAAT
*
8568841 TTAATTAAAAACCCTAATTTAATTTTACTAACAATTAACTAACTTAATTAAAAACCCTAACCCTA
66 TTAATTAAAAACCCTAATTTAATTTTACTAACAACTAACTAACTTAATTAAAAACCCTAACCCTA
* * *
8568906 ACCTAATTTAATTAAAAACCCTAACCCTAATCTAATTTAATTAAAAACCCTAACCCTAACCTAAC
131 ACCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAAACTAAC
*
8568971 TTAATTAAAAACCATAACCCTA
196 TTAACTAAAAACCATAACCCTA
8568993 AACTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAACTAAT
1 AACTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAACTAAT
* *
8569058 TTAATTAAAAACCCTAATTTAATTTTACTAAC-CCTAACCTAATTTAATTAAAAACCCTAACCCT
66 TTAATTAAAAACCCTAATTTAATTTTACTAACAACTAA-CTAACTTAATTAAAAACCCTAACCCT
8569122 AACCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAAACTAA
130 AACCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAAACTAA
*
8569187 CTTAACTAAAAACCCTAACCCTA
195 CTTAACTAAAAACCATAACCCTA
*
8569210 AACTAATTTAATTAAAAACCCTAACC
1 AACTAACTTAATTAAAAACCCTAACC
8569236 ATTAACACCA
Statistics
Matches: 232, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
216 3 0.01
217 229 0.99
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.28
Consensus pattern (217 bp):
AACTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAACTAAT
TTAATTAAAAACCCTAATTTAATTTTACTAACAACTAACTAACTTAATTAAAAACCCTAACCCTA
ACCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAAACTAAC
TTAACTAAAAACCATAACCCTA
Found at i:8569298 original size:55 final size:55
Alignment explanation
Indices: 8569230--8569381 Score: 234
Period size: 55 Copynumber: 2.7 Consensus size: 55
8569220 ATTAAAAACC
* *
8569230 CTAACCATTAACACCATTTTTGGACTTAATAATTTTACATAATTTGATAATTTTA
1 CTAACCATTAACACAATTTTTGGACTTAATAATTTTACATAATTTGATAATGTTA
*
8569285 CTAACCATTAACACAATTTTTGGACTTAATAATTTTACATATTTTGATAATGTTA
1 CTAACCATTAACACAATTTTTGGACTTAATAATTTTACATAATTTGATAATGTTA
* *
8569340 CTAAGCATTAACAAAAATTTTTTGG-CTTAATAATTTTACATA
1 CTAACCATTAAC-ACAA-TTTTTGGACTTAATAATTTTACATA
8569382 CTTTTACATA
Statistics
Matches: 90, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
55 63 0.70
56 20 0.22
57 7 0.08
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.43
Consensus pattern (55 bp):
CTAACCATTAACACAATTTTTGGACTTAATAATTTTACATAATTTGATAATGTTA
Found at i:8570075 original size:13 final size:13
Alignment explanation
Indices: 8570057--8570081 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8570047 TATTTTAATA
8570057 TTATTTTGTGTGT
1 TTATTTTGTGTGT
8570070 TTATTTTGTGTG
1 TTATTTTGTGTG
8570082 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:8571624 original size:84 final size:80
Alignment explanation
Indices: 8571492--8571642 Score: 196
Period size: 84 Copynumber: 1.8 Consensus size: 80
8571482 GTAAGAATGT
* ** *
8571492 TATATATATATAAGATTTGAAAATGTATATATATATGTATAAGATTTTGAATTTAATTAAAGGTA
1 TATATATATATAAGATTTGAAAATATATATATATATGTATAAGATTTTGAATAGAATTAAAAGTA
8571557 TGGACGATATATTTA
66 TGGACGATATATTTA
* *
8571572 TATATATATATAAGGTTT-AAATATATATATGTATATATAGGTATAAGTTTTTGAATAGAATTAA
1 TATATATATATAAGATTTGAAA-ATATATA--TATATAT--GTATAAGATTTTGAATAGAATTAA
8571636 AAGTATG
61 AAGTATG
8571643 AATTATATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 23 0.38
82 7 0.12
84 27 0.45
ACGTcount: A:0.43, C:0.01, G:0.14, T:0.42
Consensus pattern (80 bp):
TATATATATATAAGATTTGAAAATATATATATATATGTATAAGATTTTGAATAGAATTAAAAGTA
TGGACGATATATTTA
Found at i:8588243 original size:124 final size:124
Alignment explanation
Indices: 8588018--8588366 Score: 592
Period size: 123 Copynumber: 2.8 Consensus size: 124
8588008 CCCAAACTTG
*
8588018 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTTTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
8588083 TAGAAGCGATTTTATACTATTTGCTCAGAAAAGTCAAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
* * *
8588142 CTACTGTAGCAAAATCGCGTCCATGAGGGCGCGATTTCACAATTTCTACTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
**
8588207 TAGAAGTAATTTTATACTATTTGATCAGAAACGTC-AAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
*
8588265 CTACTATAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
8588330 TAGAAGCGATTTTATACAATTTGACCAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAA
8588367 CTCGAAATAA
Statistics
Matches: 208, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
123 115 0.55
124 93 0.45
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (124 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
Found at i:8591542 original size:13 final size:13
Alignment explanation
Indices: 8591524--8591550 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8591514 CCCTAAACCC
8591524 TAAAATTTGGGAA
1 TAAAATTTGGGAA
8591537 TAAAATTTGGGAA
1 TAAAATTTGGGAA
8591550 T
1 T
8591551 TTTTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (13 bp):
TAAAATTTGGGAA
Found at i:8591760 original size:26 final size:27
Alignment explanation
Indices: 8591725--8591785 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
8591715 CTTTTTTAAT
*
8591725 TTGTTCTAGGT-ATCTTTTTTT-TTTCAG
1 TTGTTATAGGTAAT-TTTTTTTCTTT-AG
8591752 TT-TTATAGGTAATTTTTTTTCTTTAG
1 TTGTTATAGGTAATTTTTTTTCTTTAG
8591778 TTGTTATA
1 TTGTTATA
8591786 ATATATTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
26 18 0.60
27 12 0.40
ACGTcount: A:0.16, C:0.07, G:0.13, T:0.64
Consensus pattern (27 bp):
TTGTTATAGGTAATTTTTTTTCTTTAG
Found at i:8591769 original size:27 final size:26
Alignment explanation
Indices: 8591725--8591785 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
8591715 CTTTTTTAAT
* *
8591725 TTGTTCTAGGTATCTTTTTTTTTTCAG
1 TTGTTATAGGTATCTTTTTTCTTT-AG
*
8591752 TT-TTATAGGTAATTTTTTTTCTTTAG
1 TTGTTATAGGT-ATCTTTTTTCTTTAG
8591778 TTGTTATA
1 TTGTTATA
8591786 ATATATTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 11 0.38
27 18 0.62
ACGTcount: A:0.16, C:0.07, G:0.13, T:0.64
Consensus pattern (26 bp):
TTGTTATAGGTATCTTTTTTCTTTAG
Found at i:8591793 original size:27 final size:25
Alignment explanation
Indices: 8591739--8591794 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 25
8591729 TCTAGGTATC
*
8591739 TTTTTTTTTTCAGTTTTATAGGTAA
1 TTTTTTTTTTCAGTTTTATAGATAA
*
8591764 TTTTTTTTCTTTAGTTGTTATA-ATATA
1 TTTTTTTT-TTCAGTT-TTATAGATA-A
8591791 TTTT
1 TTTT
8591795 CAAAAAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 8 0.31
26 8 0.31
27 10 0.38
ACGTcount: A:0.20, C:0.04, G:0.09, T:0.68
Consensus pattern (25 bp):
TTTTTTTTTTCAGTTTTATAGATAA
Found at i:8597539 original size:20 final size:20
Alignment explanation
Indices: 8597516--8597552 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8597506 AAATCGATTA
8597516 AAAAATA-ATTTGGAAAAAT
1 AAAAATATATTTGGAAAAAT
*
8597535 AAAAATATTTTTGGAAAA
1 AAAAATATATTTGGAAAA
8597553 TTAATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (20 bp):
AAAAATATATTTGGAAAAAT
Found at i:8598731 original size:15 final size:16
Alignment explanation
Indices: 8598711--8598743 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
8598701 AACTATATAT
8598711 AAATATA-TATAAAAA
1 AAATATAGTATAAAAA
8598726 AAATATAGTATAAAAA
1 AAATATAGTATAAAAA
8598742 AA
1 AA
8598744 GAAAAAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
AAATATAGTATAAAAA
Found at i:8598748 original size:23 final size:22
Alignment explanation
Indices: 8598722--8598778 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
8598712 AATATATATA
* *
8598722 AAAAAAATATAGTATAAAAAAAG
1 AAAAAAAGAGAGTA-AAAAAAAG
8598745 AAAAAAAGAGAGTAAAAAAATAG
1 AAAAAAAGAGAGTAAAAAAA-AG
* *
8598768 AGAAAGAGAGA
1 AAAAAAAGAGA
8598779 AGTTTTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 6 0.21
23 23 0.79
ACGTcount: A:0.72, C:0.00, G:0.18, T:0.11
Consensus pattern (22 bp):
AAAAAAAGAGAGTAAAAAAAAG
Found at i:8599337 original size:3 final size:3
Alignment explanation
Indices: 8599329--8599357 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8599319 AATTTGGATT
8599329 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
8599358 TATTATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:8599362 original size:3 final size:3
Alignment explanation
Indices: 8599356--8599392 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
8599346 CATCATCATC
8599356 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
8599393 ATATCACTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:8599518 original size:22 final size:22
Alignment explanation
Indices: 8599476--8599519 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
8599466 ACTTTTTTAG
*
8599476 TTTT-ATTTGTTTATTTATTTT
1 TTTTAATTAGTTTATTTATTTT
*
8599497 TTTTAATTAGTTTGTTT-TTTT
1 TTTTAATTAGTTTATTTATTTT
8599518 TT
1 TT
8599520 ATTTACTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.80
Consensus pattern (22 bp):
TTTTAATTAGTTTATTTATTTT
Found at i:8604171 original size:13 final size:13
Alignment explanation
Indices: 8604153--8604177 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8604143 TTTTTAAAAT
8604153 TATTATTTTAATG
1 TATTATTTTAATG
8604166 TATTATTTTAAT
1 TATTATTTTAAT
8604178 TGAAATAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TATTATTTTAATG
Found at i:8605845 original size:94 final size:93
Alignment explanation
Indices: 8605714--8605895 Score: 265
Period size: 94 Copynumber: 1.9 Consensus size: 93
8605704 TTTCACATTT
* * *
8605714 ATATTCACACTTACCCTATAAATAAGTGTCAACTTCTTCACTATTTTTATTAAAATGATAATTTT
1 ATATTCACACTTACCCTATAAATAAGTGACAACTTCTTCACTATTTTCATTAAAAAGATAATTTT
* *
8605779 AATCCCACATTGATTAGAGAATACTCTC
66 AATCCCACATTGACTAGAAAATACTCTC
* * * * *
8605807 ATATCTCACATTTACCTTATAAATAAGTGACAATTTCTTCTCTATTTTCATTAAAAAGCTAATTT
1 ATAT-TCACACTTACCCTATAAATAAGTGACAACTTCTTCACTATTTTCATTAAAAAGATAATTT
8605872 TAATCCCACATTGACTAGAAAATA
65 TAATCCCACATTGACTAGAAAATA
8605896 TTTCCATAGT
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
93 4 0.05
94 74 0.95
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.38
Consensus pattern (93 bp):
ATATTCACACTTACCCTATAAATAAGTGACAACTTCTTCACTATTTTCATTAAAAAGATAATTTT
AATCCCACATTGACTAGAAAATACTCTC
Found at i:8612734 original size:20 final size:20
Alignment explanation
Indices: 8612698--8612735 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8612688 CAAGATTCGT
8612698 TTTTGTTTTCTTTTTTGTTG
1 TTTTGTTTTCTTTTTTGTTG
8612718 TTTT-TTTTCTTTGTTTGT
1 TTTTGTTTTCTTT-TTTGT
8612736 CTGCTTCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.00, C:0.05, G:0.13, T:0.82
Consensus pattern (20 bp):
TTTTGTTTTCTTTTTTGTTG
Found at i:8613609 original size:44 final size:44
Alignment explanation
Indices: 8613561--8613906 Score: 145
Period size: 44 Copynumber: 7.8 Consensus size: 44
8613551 AGCTTTAATC
8613561 TGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACT
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACT
* ** *
8613605 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCAAT-TTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAA-GATTGGTATCTTCAACT
* * * * * * * * *
8613649 TGCCCCACTGTAATTTTAGGG-GATAAGGTTTG-AT-ATGATC-
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACT
* * * *
8613689 TGCTCTATTGCAACTTCAGAGAGATAGGATCTGCAATGTATAACTTCAATCT
1 TGCTCCACTGCAACTTCAGGGAGATAAGAT-TG----GTAT--CTTCAA-CT
* * * * * *
8613741 AT--TCCACTACAACTTCAGAGAAATAAGATTCGCTATCTT-TAGT
1 -TGCTCCACTGCAACTTCAGGGAGATAAGATT-GGTATCTTCAACT
* ** * * *
8613784 CTGCTTCTTTGCAACTTTAGGGAGATAAGACTT-GCATCTTCAACC
1 -TGCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTATCTTCAACT
* * * * ** * *
8613829 TGCTGCACTGTAACTTCAGAGAGATAAGATTTGTGGCTT-TAGT
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACT
* *
8613872 CTGCTCCATTGCAACTTCAGGGAGATAAGACTGGT
1 -TGCTCCACTGCAACTTCAGGGAGATAAGATTGGT
8613907 GGCTTAAATC
Statistics
Matches: 215, Mismatches: 66, Indels: 42
0.67 0.20 0.13
Matches are distributed among these distances:
40 14 0.07
41 11 0.05
42 4 0.02
43 10 0.05
44 111 0.52
45 29 0.13
46 3 0.01
47 5 0.02
50 3 0.01
51 24 0.11
53 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACT
Found at i:8613920 original size:88 final size:89
Alignment explanation
Indices: 8613751--8613920 Score: 216
Period size: 88 Copynumber: 1.9 Consensus size: 89
8613741 ATTCCACTAC
* * * *
8613751 AACTTCAGAGAAATAAGATTCGCTATCTTTAGTCTGCTTCTTTGCAACTTTAGGGAGATAAGACT
1 AACTTCAGAGAAATAAGATTCGCTAGCTTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACT
* * *
8613816 TGCATCTTCAACCTGCTGCACTGT
66 GGCAGCTTAAACCTGCTGCACTGT
* * *
8613840 AACTTCAGAGAGATAAGATTTG-TGGCTTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACT
1 AACTTCAGAGAAATAAGATTCGCTAGCTTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACT
** *
8613904 GGTGGCTTAAATCTGCT
66 GGCAGCTTAAACCTGCT
8613921 TCCCTACTAC
Statistics
Matches: 68, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
88 48 0.71
89 20 0.29
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (89 bp):
AACTTCAGAGAAATAAGATTCGCTAGCTTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACT
GGCAGCTTAAACCTGCTGCACTGT
Found at i:8614238 original size:51 final size:51
Alignment explanation
Indices: 8614143--8614239 Score: 131
Period size: 51 Copynumber: 1.9 Consensus size: 51
8614133 ATCTACTCCG
* *
8614143 CTTTAGCTTTAAGCTATTCCACTGCAACACCAGGGAAACGAGATTCGCTAC
1 CTTTAGCTTTAAGCTATTCCACTGCAACACCAAGGAAACAAGATTCGCTAC
* * * * *
8614194 CTTTAGCTTTAATCTGTTCCACTGCCACGCCAAGGAAATAAGATTC
1 CTTTAGCTTTAAGCTATTCCACTGCAACACCAAGGAAACAAGATTC
8614240 ACTGTTGTAG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 39 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (51 bp):
CTTTAGCTTTAAGCTATTCCACTGCAACACCAAGGAAACAAGATTCGCTAC
Found at i:8614349 original size:50 final size:50
Alignment explanation
Indices: 8614197--8614628 Score: 382
Period size: 50 Copynumber: 8.7 Consensus size: 50
8614187 TCGCTACCTT
* * * * ** *
8614197 TAGCTTTAATCTGTTCCACTGCCAC-GCCAAGGAAATAAGATTCACTGTTG
1 TAGCTTCAATCTATTCCACT-ACACTGCCAGGGAAGCAAGATTCGCTGTTG
** * * *** * * *
8614247 TAGCTTCAATCTATTTAACTGCAAT-TTGGGGAAGCAGGATTTGTTGTTG
1 TAGCTTCAATCTATTCCACTACACTGCCAGGGAAGCAAGATTCGCTGTTG
* * * *
8614296 TAGCTTCAATATGTTCCACTACACCGCCAGGGAAGTAAGATTCGCTGTTG
1 TAGCTTCAATCTATTCCACTACACTGCCAGGGAAGCAAGATTCGCTGTTG
** * * * * *
8614346 TAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCTGTAG
1 TAGCTTCAATCTATTCCACTACACTGCCAGGGAAGCAAGATTCGCTGTTG
* * *
8614396 TAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCTGTTG
1 TAGCTTCAATCTATTCCACTACACTGCCAGGGAAGCAAGATTCGCTGTTG
** ** * * *
8614446 TAGCTTCAATCTATTTAACTGTAATGTCGGGGAAGCAAGATTCGCTGTTG
1 TAGCTTCAATCTATTCCACTACACTGCCAGGGAAGCAAGATTCGCTGTTG
* * *
8614496 TAGCTTCAATCTATTCCACTACACCGCCAAGGAAGTAAGATTCGCTGTTG
1 TAGCTTCAATCTATTCCACTACACTGCCAGGGAAGCAAGATTCGCTGTTG
* * ** * * ** *
8614546 TAGCTTTAATCTTTTTAACTGCAATATCGGGGAAGCAAGATTCGCTGTTG
1 TAGCTTCAATCTATTCCACTACACTGCCAGGGAAGCAAGATTCGCTGTTG
*
8614596 TAGCTTCAATCTGTTCCACTACACTGCCAGGGA
1 TAGCTTCAATCTATTCCACTACACTGCCAGGGA
8614629 TATGGGTAAC
Statistics
Matches: 288, Mismatches: 92, Indels: 4
0.75 0.24 0.01
Matches are distributed among these distances:
49 34 0.12
50 254 0.88
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (50 bp):
TAGCTTCAATCTATTCCACTACACTGCCAGGGAAGCAAGATTCGCTGTTG
Found at i:8614425 original size:100 final size:100
Alignment explanation
Indices: 8614197--8614628 Score: 679
Period size: 100 Copynumber: 4.3 Consensus size: 100
8614187 TCGCTACCTT
* * * * *
8614197 TAGCTTTAATCTGTTCCACTGC-CACGCCAAGGAAATAAGATTCACTGTTGTAGCTTCAATCTAT
1 TAGCTTCAATCTGTTCCACTACAC-CGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTAT
* * * *
8614261 TTAACTGCAAT-TTGGGGAAGCAGGATTTGTTGTTG
65 TTAACTGCAATGTCGGGGAAGCAAGATTCGCTGTTG
*
8614296 TAGCTTCAATATGTTCCACTACACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATT
1 TAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATT
*
8614361 TAACTGCAATGTCGGGGAAGCAAGATTCGCTGTAG
66 TAACTGCAATGTCGGGGAAGCAAGATTCGCTGTTG
8614396 TAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATT
1 TAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATT
*
8614461 TAACTGTAATGTCGGGGAAGCAAGATTCGCTGTTG
66 TAACTGCAATGTCGGGGAAGCAAGATTCGCTGTTG
* * * *
8614496 TAGCTTCAATCTATTCCACTACACCGCCAAGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTT
1 TAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATT
*
8614561 TAACTGCAATATCGGGGAAGCAAGATTCGCTGTTG
66 TAACTGCAATGTCGGGGAAGCAAGATTCGCTGTTG
*
8614596 TAGCTTCAATCTGTTCCACTACACTGCCAGGGA
1 TAGCTTCAATCTGTTCCACTACACCGCCAGGGA
8614629 TATGGGTAAC
Statistics
Matches: 308, Mismatches: 23, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
99 67 0.22
100 241 0.78
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (100 bp):
TAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATT
TAACTGCAATGTCGGGGAAGCAAGATTCGCTGTTG
Found at i:8615553 original size:108 final size:108
Alignment explanation
Indices: 8615403--8615624 Score: 304
Period size: 108 Copynumber: 2.1 Consensus size: 108
8615393 GAAAAATGTT
* *
8615403 TGAAAAATATTATCACAATGGACAAGATGAAATTTTAATGAGA-AAAAAGCTCAAAATGAATAAA
1 TGAAAAAGATTATCACAATAGACAAGATGAAATTTTAATGAGAGAAAAA-CTCAAAATGAATAAA
* *
8615467 TTAATCAAGATAGAAAATTTTGCTCA-GATACGAACTGAATAAGA
65 TTAATCAAGATAGAAAATTTTGCT-ATGATACAAAATGAATAAGA
* * ** *
8615511 TGAAAAAGATTATCACAATAGACAAGATGGAATTTTATTGAGAGCCAAACTCGAAATGAATAAAT
1 TGAAAAAGATTATCACAATAGACAAGATGAAATTTTAATGAGAGAAAAACTCAAAATGAATAAAT
** *
8615576 TAATCAAGATAGCCAATTTTGCTATGATTCAAAATGAATAAGA
66 TAATCAAGATAGAAAATTTTGCTATGATACAAAATGAATAAGA
8615619 TGAAAA
1 TGAAAA
8615625 CAGGTGCTCC
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
107 1 0.01
108 96 0.96
109 3 0.03
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (108 bp):
TGAAAAAGATTATCACAATAGACAAGATGAAATTTTAATGAGAGAAAAACTCAAAATGAATAAAT
TAATCAAGATAGAAAATTTTGCTATGATACAAAATGAATAAGA
Found at i:8615908 original size:14 final size:13
Alignment explanation
Indices: 8615889--8615939 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
8615879 GGCTTCTCCG
8615889 TTTTTCTTTTCTTC
1 TTTTTCTTTT-TTC
8615903 TTTTTC-TTTTTC
1 TTTTTCTTTTTTC
*
8615915 -CTTTCTTTTATTC
1 TTTTTCTTTT-TTC
*
8615928 TTCTTCTTTTTT
1 TTTTTCTTTTTT
8615940 GAAATATACT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
11 4 0.13
12 6 0.19
13 8 0.26
14 13 0.42
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:8615920 original size:25 final size:25
Alignment explanation
Indices: 8615891--8615938 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
8615881 CTTCTCCGTT
* *
8615891 TTTCTTTTCTTCTTTTTCTTTTTCC
1 TTTCTTTTATTCTTCTTCTTTTTCC
8615916 TTTCTTTTATTCTTCTTCTTTTT
1 TTTCTTTTATTCTTCTTCTTTTT
8615939 TGAAATATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (25 bp):
TTTCTTTTATTCTTCTTCTTTTTCC
Found at i:8621353 original size:23 final size:22
Alignment explanation
Indices: 8621324--8621367 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
8621314 TTTTCGTTTA
**
8621324 AAAAATAATTAAAAAACAATAAT
1 AAAAATAAAGAAAAAA-AATAAT
8621347 AAAAATAAAGAAAAAAAATAA
1 AAAAATAAAGAAAAAAAATAA
8621368 AGATTGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (22 bp):
AAAAATAAAGAAAAAAAATAAT
Found at i:8622780 original size:95 final size:97
Alignment explanation
Indices: 8622593--8622781 Score: 285
Period size: 95 Copynumber: 2.0 Consensus size: 97
8622583 GTTCTGGATA
** *
8622593 GCGACACTTGACATCTACCCAAGTAGCTATTGTAACTGCAATATTTACCTGGACATACTACCCTC
1 GCGACACTTGACATCTACCCAAGTAGCTATTGTAACTGCAATATTTACCAAGACATAATACCCTC
* *
8622658 CCTTCCTTGGATAACTAGTGTCCACAAAGCTG
66 CATTCCTGGGATAACTAGTGTCCACAAAGCTG
*
8622690 GCGACACTTGACATCTA-CCAAGTAGCTATTGTAACTGCAATCTTTACCAAGA-ATAATACCCTC
1 GCGACACTTGACATCTACCCAAGTAGCTATTGTAACTGCAATATTTACCAAGACATAATACCCTC
*
8622753 TATTCCTGGGATAACTAGT-TCCCACAAAG
66 CATTCCTGGGATAACTAGTGT-CCACAAAG
8622782 TAACACCATA
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
94 1 0.01
95 34 0.40
96 32 0.38
97 17 0.20
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (97 bp):
GCGACACTTGACATCTACCCAAGTAGCTATTGTAACTGCAATATTTACCAAGACATAATACCCTC
CATTCCTGGGATAACTAGTGTCCACAAAGCTG
Found at i:8629753 original size:26 final size:26
Alignment explanation
Indices: 8629717--8629773 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
8629707 TCTCATCCCT
*
8629717 ATTTTACCCCTAGC-AAAATTTTAATG
1 ATTTTACCCCT-GCTAAAATTTTAACG
*
8629743 ATTTTACCCCTGCTAAAATTTTGACG
1 ATTTTACCCCTGCTAAAATTTTAACG
8629769 ATTTT
1 ATTTT
8629774 GCCTTTGGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 2 0.07
26 26 0.93
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCTGCTAAAATTTTAACG
Found at i:8640596 original size:2 final size:2
Alignment explanation
Indices: 8640589--8640617 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8640579 ATTGTGTAAG
8640589 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8640618 GAGATGAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8644747 original size:14 final size:14
Alignment explanation
Indices: 8644728--8644755 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8644718 CATGCATATC
8644728 TTATTCATACCTAA
1 TTATTCATACCTAA
8644742 TTATTCATACCTAA
1 TTATTCATACCTAA
8644756 CATGTTGTAG
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:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (14 bp):
TTATTCATACCTAA
Found at i:8646766 original size:14 final size:14
Alignment explanation
Indices: 8646747--8646775 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
8646737 CCATATATGG
8646747 TGCATATAGAAAGA
1 TGCATATAGAAAGA
8646761 TGCATATAGAAAGA
1 TGCATATAGAAAGA
8646775 T
1 T
8646776 AGATAATATA
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:0.48, C:0.07, G:0.21, T:0.24
Consensus pattern (14 bp):
TGCATATAGAAAGA
Found at i:8658249 original size:214 final size:214
Alignment explanation
Indices: 8657880--8658301 Score: 790
Period size: 214 Copynumber: 2.0 Consensus size: 214
8657870 TTTTCTTTCA
8657880 AATTCTTAGTGTACTTTTAACTATTCATAACAACTTAAGGTAGCCATACCTTAGAAAATGAAATT
1 AATTCTTAGTGTACTTTTAACTATTCATAACAACTTAAGGTAGCCATACCTTAGAAAATGAAATT
8657945 GATGAAGTTTTGGTTAATTTTATCATTATTGATACATTAGAAAACTTAGATTTTAAGAGTTTGGA
66 GATGAAGTTTTGGTTAATTTTATCATTATTGATACATTAGAAAACTTAGATTTTAAGAGTTTGGA
* *
8658010 TTCATGCATATTTGGTGTAGAATAAATCATGCTAAAATCATGTTATAATGTGGTAGAAAGTATTG
131 TTCATGCATATTTGATGTAGAATAAATCATGCTAAAATCATGCTATAATGTGGTAGAAAGTATTG
8658075 AATCAAGCATGACCTCATC
196 AATCAAGCATGACCTCATC
* *
8658094 AATTCTTAGTGTACTTTTAACTGTTCATAATAACTTAAGGTAGCCATACCTTAGAAAATGAAATT
1 AATTCTTAGTGTACTTTTAACTATTCATAACAACTTAAGGTAGCCATACCTTAGAAAATGAAATT
*
8658159 GATGAAGTTTTGGTTAATTTTATCATTATTGATACTTTAGAAAACTTAGATTTTAAGAGTTTGGA
66 GATGAAGTTTTGGTTAATTTTATCATTATTGATACATTAGAAAACTTAGATTTTAAGAGTTTGGA
*
8658224 TTCATGCATATTTGATGTAGAATAAATCATGGTAAAATCATGCTATAATGTGGTAGAAAGTATTG
131 TTCATGCATATTTGATGTAGAATAAATCATGCTAAAATCATGCTATAATGTGGTAGAAAGTATTG
8658289 AATCAAGCATGAC
196 AATCAAGCATGAC
8658302 TTAATTTGGT
Statistics
Matches: 202, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
214 202 1.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.37
Consensus pattern (214 bp):
AATTCTTAGTGTACTTTTAACTATTCATAACAACTTAAGGTAGCCATACCTTAGAAAATGAAATT
GATGAAGTTTTGGTTAATTTTATCATTATTGATACATTAGAAAACTTAGATTTTAAGAGTTTGGA
TTCATGCATATTTGATGTAGAATAAATCATGCTAAAATCATGCTATAATGTGGTAGAAAGTATTG
AATCAAGCATGACCTCATC
Found at i:8662341 original size:24 final size:25
Alignment explanation
Indices: 8662306--8662367 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
8662296 CCCGTTATTA
*
8662306 GCTCTCACGAGCATCT-TGATAT-TG
1 GCTCTCATGAGC-TCTCTGATATATG
* *
8662330 GCTCTCTTGAGCTTTCTGATATATG
1 GCTCTCATGAGCTCTCTGATATATG
8662355 GCTCTCATGAGCT
1 GCTCTCATGAGCT
8662368 TCCCATTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 2 0.06
24 16 0.50
25 14 0.44
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (25 bp):
GCTCTCATGAGCTCTCTGATATATG
Found at i:8662365 original size:25 final size:24
Alignment explanation
Indices: 8662322--8662368 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
8662312 ACGAGCATCT
*
8662322 TGATATTGGCTCTCTTGAGCTTTC
1 TGATATTGGCTCTCATGAGCTTTC
8662346 TGATATATGGCTCTCATGAGCTT
1 TGATAT-TGGCTCTCATGAGCTT
8662369 CCCATTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (24 bp):
TGATATTGGCTCTCATGAGCTTTC
Found at i:8662550 original size:24 final size:23
Alignment explanation
Indices: 8662493--8662573 Score: 65
Period size: 24 Copynumber: 3.3 Consensus size: 23
8662483 AGGCTTTTAC
* *
8662493 TGAGCTTCTCGATTAATGGCTCTC
1 TGAGCTTCTCGA-TATTGGCTCTA
*
8662517 TGGAGTTTCTCGATATTGGCTCGTA
1 T-GAGCTTCTCGATATTGGCTC-TA
**
8662542 TGAGCTTCTTAAT-TATGGCTCTTA
1 TGAGCTTCTCGATAT-TGGCTC-TA
8662566 TGAGCTTC
1 TGAGCTTC
8662574 CCGTTATACA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
23 1 0.02
24 34 0.72
25 12 0.26
ACGTcount: A:0.17, C:0.20, G:0.22, T:0.41
Consensus pattern (23 bp):
TGAGCTTCTCGATATTGGCTCTA
Found at i:8663804 original size:72 final size:72
Alignment explanation
Indices: 8663670--8663850 Score: 299
Period size: 72 Copynumber: 2.5 Consensus size: 72
8663660 TTTCAAACAA
* * *
8663670 CCTAGAACACGAGCGTGTGGCTTGGCCATGTGACCCCTGCACTTATTTATTGCGAGTCAGTATGC
1 CCTAGCACACGGGCGTGTGGCTTGGCCATGTGA-CCCTGCACTTATTTATTGCAAGTCAGTATGC
8663735 TTACACGG
65 TTACACGG
* *
8663743 CCTAGCACATGGGCGTGTGGTTTGGCCATGTGACCCTGCACTTATTTATTGCAAGTCAGTATGCT
1 CCTAGCACACGGGCGTGTGGCTTGGCCATGTGACCCTGCACTTATTTATTGCAAGTCAGTATGCT
8663808 TACACGG
66 TACACGG
*
8663815 CCTAGCACACGGGCTTGTGGCTTGGCCATGTGACCC
1 CCTAGCACACGGGCGTGTGGCTTGGCCATGTGACCC
8663851 AAGACAGAGA
Statistics
Matches: 100, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
72 71 0.71
73 29 0.29
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.28
Consensus pattern (72 bp):
CCTAGCACACGGGCGTGTGGCTTGGCCATGTGACCCTGCACTTATTTATTGCAAGTCAGTATGCT
TACACGG
Found at i:8665730 original size:27 final size:27
Alignment explanation
Indices: 8665691--8665941 Score: 253
Period size: 27 Copynumber: 9.3 Consensus size: 27
8665681 ATTCGTGGGC
*
8665691 AAATGA-CAGAAATACTCTCGAAGGGTA
1 AAATGACCA-AAATACCCTCGAAGGGTA
* *
8665718 AAATGACTAAAATACCCTCGATGGGTA
1 AAATGACCAAAATACCCTCGAAGGGTA
* *
8665745 AAATGACCGAAATACCCTCGATGGGTA
1 AAATGACCAAAATACCCTCGAAGGGTA
*
8665772 AAATGACCGAAATACCCTC-AATGGGTA
1 AAATGACCAAAATACCCTCGAA-GGGTA
* * *
8665799 AAATAACAAAAATACCCTAGAAGGGTA
1 AAATGACCAAAATACCCTCGAAGGGTA
*
8665826 AAATGACCGAAATACTCCT-GAAGGGTA
1 AAATGACCAAAATAC-CCTCGAAGGGTA
* *
8665853 AAATGATCAAAATACGTCC-CGAATGGTA
1 AAATGACCAAAATAC--CCTCGAAGGGTA
* * *
8665881 AAATGACCGAAATACCC-CTAAAAGGTA
1 AAATGACCAAAATACCCTC-GAAGGGTA
*
8665908 AAATGACCAAAATACCC-CTATAGGGTA
1 AAATGACCAAAATACCCTCGA-AGGGTA
8665935 AAATGAC
1 AAATGAC
8665942 TGTTATACCC
Statistics
Matches: 193, Mismatches: 23, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.03
27 159 0.82
28 29 0.15
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.18
Consensus pattern (27 bp):
AAATGACCAAAATACCCTCGAAGGGTA
Found at i:8665826 original size:81 final size:82
Alignment explanation
Indices: 8665691--8665941 Score: 282
Period size: 81 Copynumber: 3.1 Consensus size: 82
8665681 ATTCGTGGGC
* * * * *
8665691 AAATGACAGAAATACTCTCGAA-GGGTAAAATGACTAAAATACCCTCGATGGGTAAAATGACCGA
1 AAATGACCGAAATACCCTCGAATGGGTAAAATGACAAAAATACCCTAGAAGGGTAAAATGACCGA
8665755 AATACCCTCGATGGGTA
66 AATACCCTCGATGGGTA
*
8665772 AAATGACCGAAATACCCTC-AATGGGTAAAATAACAAAAATACCCTAGAAGGGTAAAATGACCGA
1 AAATGACCGAAATACCCTCGAATGGGTAAAATGACAAAAATACCCTAGAAGGGTAAAATGACCGA
*
8665836 AATACTCCT-GAAGGGTA
66 AATAC-CCTCGATGGGTA
* * ** *
8665853 AAATGATCAAAATACGTCC-CGAAT-GGTAAAATGACCGAAATACCCCTA-AAAGGTAAAATGAC
1 AAATGACCGAAATAC--CCTCGAATGGGTAAAATGACAAAAATA-CCCTAGAAGGGTAAAATGAC
* *
8665915 CAAAATACCC-CTATAGGGTA
63 CGAAATACCCTCGAT-GGGTA
8665935 AAATGAC
1 AAATGAC
8665942 TGTTATACCC
Statistics
Matches: 145, Mismatches: 17, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
80 2 0.01
81 83 0.57
82 50 0.34
83 10 0.07
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.18
Consensus pattern (82 bp):
AAATGACCGAAATACCCTCGAATGGGTAAAATGACAAAAATACCCTAGAAGGGTAAAATGACCGA
AATACCCTCGATGGGTA
Found at i:8666152 original size:26 final size:26
Alignment explanation
Indices: 8666119--8666192 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
8666109 CCATATATAT
* *
8666119 TGTTACTGGCAGCTTCGTTGCGTTAC
1 TGTTACTGGCAGCTTTGTTGCGTCAC
* * *
8666145 TGTTACTGACAGCTTTGTTGTGTCAT
1 TGTTACTGGCAGCTTTGTTGCGTCAC
* *
8666171 TATTACTGGCAACTTTGTTGCG
1 TGTTACTGGCAGCTTTGTTGCG
8666193 ATATTGGTGT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.15, C:0.19, G:0.24, T:0.42
Consensus pattern (26 bp):
TGTTACTGGCAGCTTTGTTGCGTCAC
Found at i:8666347 original size:28 final size:28
Alignment explanation
Indices: 8666298--8666389 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
8666288 ACTGCATTGT
8666298 ACTGATTACTGTATTGGGCTAAGGCCCAC
1 ACTG-TTACTGTATTGGGCTAAGGCCCAC
* *
8666327 ATTGTTATTGTATTGGGCTAAGGCCCACAC
1 ACTGTTACTGTATTGGGCTAAGG-CC-CAC
*
8666357 ACTGTTACTGTAATGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
8666385 ACTGT
1 ACTGT
8666390 ACTACTACTG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
28 26 0.46
29 7 0.12
30 23 0.41
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (28 bp):
ACTGTTACTGTATTGGGCTAAGGCCCAC
Found at i:8666374 original size:30 final size:30
Alignment explanation
Indices: 8666298--8666386 Score: 128
Period size: 30 Copynumber: 3.0 Consensus size: 30
8666288 ACTGCATTGT
8666298 ACTGATTACTGTATTGGGCTAAGG-CC-CAC
1 ACTG-TTACTGTATTGGGCTAAGGCCCACAC
* *
8666327 ATTGTTATTGTATTGGGCTAAGGCCCACAC
1 ACTGTTACTGTATTGGGCTAAGGCCCACAC
*
8666357 ACTGTTACTGTAATGGGCTAAGGCCCACAC
1 ACTGTTACTGTATTGGGCTAAGGCCCACAC
8666387 TGTACTACTA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
28 18 0.34
29 5 0.09
30 30 0.57
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.28
Consensus pattern (30 bp):
ACTGTTACTGTATTGGGCTAAGGCCCACAC
Found at i:8666408 original size:33 final size:33
Alignment explanation
Indices: 8666295--8666422 Score: 94
Period size: 33 Copynumber: 4.1 Consensus size: 33
8666285 ATTACTGCAT
* * *
8666295 TGTACTGATTACTGTATTGGGCTAAGGCCCACAT
1 TGTACT-ACTACTGTAATGGGCTAAGGCCCACAC
*
8666329 TGT--TA-T--TGTATTGGGCTAAGGCCCACAC
1 TGTACTACTACTGTAATGGGCTAAGGCCCACAC
**
8666357 ---ACTGTTACTGTAATGGGCTAAGGCCCACAC
1 TGTACTACTACTGTAATGGGCTAAGGCCCACAC
* * *
8666387 TGTACTACTACTG-AATAGGGCTTAGTCCCAGAC
1 TGTACTACTACTGTAAT-GGGCTAAGGCCCACAC
8666420 TGT
1 TGT
8666423 TACTGCATGT
Statistics
Matches: 77, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
27 1 0.01
28 22 0.29
30 22 0.29
31 1 0.01
32 4 0.05
33 24 0.31
34 3 0.04
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (33 bp):
TGTACTACTACTGTAATGGGCTAAGGCCCACAC
Found at i:8674619 original size:11 final size:11
Alignment explanation
Indices: 8674603--8674627 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8674593 GAACGATCAC
8674603 AAAGAAAAAGA
1 AAAGAAAAAGA
8674614 AAAGAAAAAGA
1 AAAGAAAAAGA
8674625 AAA
1 AAA
8674628 CACATAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAGA
Found at i:8685137 original size:84 final size:84
Alignment explanation
Indices: 8685020--8685174 Score: 213
Period size: 84 Copynumber: 1.8 Consensus size: 84
8685010 ATTAAATCCC
* * * * *
8685020 GAAACAAAATTATATCAAAATAAAATATGTTAAACGGTGAGAATGAATCCCAAAAAATATTTTAT
1 GAAACAAAATAAAATCAAAATAAAATATATTAAACGGTGAGAATAAATCCCAAAAAATATTTTAA
8685085 TTAATTGAATTCTAATTTG
66 TTAATTGAATTCTAATTTG
* * * *
8685104 GAAACAAAATAAAAT-AAAATAAAATCTTATTAAACGGTGGGAATAAATCCCGAAATATATTTTA
1 GAAACAAAATAAAATCAAAATAAAAT-ATATTAAACGGTGAGAATAAATCCCAAAAAATATTTTA
8685168 ATTAATT
65 ATTAATT
8685175 TTAATTTCTC
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
83 10 0.16
84 51 0.84
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.32
Consensus pattern (84 bp):
GAAACAAAATAAAATCAAAATAAAATATATTAAACGGTGAGAATAAATCCCAAAAAATATTTTAA
TTAATTGAATTCTAATTTG
Found at i:8685277 original size:87 final size:87
Alignment explanation
Indices: 8685136--8685414 Score: 366
Period size: 86 Copynumber: 3.2 Consensus size: 87
8685126 AATCTTATTA
* *
8685136 AACGGTGGGAATAAATCCCGAAATATATTTTAATTAATTTTAATTTCTCATTTTTGGCAACAAAA
1 AACGGTGGGAATAAATCCCGAAACAAATTTTAATTAATTTTAATTTCTCATTTTTGGCAACAAAA
8685201 TCAAAATGTAATAAATCCGTTG
66 TCAAAATGTAATAAATCCGTTG
* * * *
8685223 AACGGTGGGAATAAATCCTGAAA-AAAATTTATTTAATTTTAATTTCTCATTTTTTGCAACAAAA
1 AACGGTGGGAATAAATCCCGAAACAAATTTTAATTAATTTTAATTTCTCATTTTTGGCAACAAAA
8685287 TCAAAATGTAATAAATCCGTTG
66 TCAAAATGTAATAAATCCGTTG
* * * * * *
8685309 AACGGCGGGAATAAATCCCGAAACAGATTTTAAATTAATTTTAA-TACTCAGTTTTGGAAATAAA
1 AACGGTGGGAATAAATCCCGAAACAAATTTT-AATTAATTTTAATTTCTCATTTTTGGCAACAAA
*
8685373 ATCAAAATTGGAATAAAAT-CGTTG
65 ATCAAAA-TGTAAT-AAATCCGTTG
* * *
8685397 AATGGTGAGAATCAATCC
1 AACGGTGGGAATAAATCC
8685415 TAAAATGGAT
Statistics
Matches: 168, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
86 80 0.48
87 49 0.29
88 35 0.21
89 4 0.02
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (87 bp):
AACGGTGGGAATAAATCCCGAAACAAATTTTAATTAATTTTAATTTCTCATTTTTGGCAACAAAA
TCAAAATGTAATAAATCCGTTG
Found at i:8685647 original size:79 final size:79
Alignment explanation
Indices: 8685360--8685664 Score: 368
Period size: 79 Copynumber: 3.9 Consensus size: 79
8685350 TAATACTCAG
* * * * * *
8685360 TTTTGGAAATAAAATCAAAA-TTGGAATAAAATCGTTGAATGGTGAGAATCAATCCTAAAATGGA
1 TTTTGGAAATAAAA-CAAAATTTGGAATAAAATCGTTGAACGGAGAGAACCAATCCCAAAACGAA
8685424 TTTTATTTTACTCA-T
65 TTTTATTTTACT-AGT
* * * * * *
8685439 TTTTGGCAATAAAACAAAATTTGGAATAAAATTGTTGAACGGCGAAAATCAATCCCAAAACAAAT
1 TTTTGGAAATAAAACAAAATTTGGAATAAAATCGTTGAACGGAGAGAACCAATCCCAAAACGAAT
*
8685504 TTTATTTTACTTGT
66 TTTATTTTACTAGT
* * * *
8685518 TTTTGGAAATAAAACAAAATTTGAAATAAAATCGTTGAAC-GACG-GAAACCAATTCCGAAACGG
1 TTTTGGAAATAAAACAAAATTTGGAATAAAATCGTTGAACGGA-GAG-AACCAATCCCAAAACGA
8685581 ATTTTATTTTACTAGT
64 ATTTTATTTTACTAGT
*
8685597 TTTTGGAAATAAAACAAAATTTGGAATAAAATCATTGAACGGTAG-GAACCAATCCCAAAACGAA
1 TTTTGGAAATAAAACAAAATTTGGAATAAAATCGTTGAACGG-AGAGAACCAATCCCAAAACGAA
8685661 TTTT
65 TTTT
8685665 GTTTACCTTT
Statistics
Matches: 194, Mismatches: 26, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
78 6 0.03
79 184 0.95
80 3 0.02
81 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.31
Consensus pattern (79 bp):
TTTTGGAAATAAAACAAAATTTGGAATAAAATCGTTGAACGGAGAGAACCAATCCCAAAACGAAT
TTTATTTTACTAGT
Found at i:8685753 original size:89 final size:86
Alignment explanation
Indices: 8685598--8685768 Score: 207
Period size: 89 Copynumber: 2.0 Consensus size: 86
8685588 TTTACTAGTT
* * * * *
8685598 TTTGGAAATAAAACAAAATTTGGAATAAAATCATTGAACGGTAGGAACCAATCCCAAAACGAATT
1 TTTGAAAATAAAACAAAATATGAAATAAAATCATTGAACGGCAGGAACAAATCCCAAAACGAATT
*
8685663 TTGTTTACCTTTAATTTCCCA
66 TTATTTACCTTTAATTTCCCA
* * * * *
8685684 TTTGAAAATAAAATCAAAATAATGAAATAAAATCCGTTGAACGGCGGGAATAAATCCCGAAACGG
1 TTTGAAAATAAAA-CAAAAT-ATGAAATAAAAT-CATTGAACGGCAGGAACAAATCCCAAAACGA
*
8685749 ATTTTATTTACTTTTAATTT
63 ATTTTATTTACCTTTAATTT
8685769 TAAAACAAAA
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
86 12 0.17
87 6 0.09
88 10 0.14
89 42 0.60
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (86 bp):
TTTGAAAATAAAACAAAATATGAAATAAAATCATTGAACGGCAGGAACAAATCCCAAAACGAATT
TTATTTACCTTTAATTTCCCA
Found at i:8692105 original size:159 final size:159
Alignment explanation
Indices: 8691826--8692123 Score: 470
Period size: 159 Copynumber: 1.9 Consensus size: 159
8691816 TGTAGCTACA
* *
8691826 GCAAATAATCTTAAAGCAGGAAACAATTACCATGGATGCGAAGATGATGTTTCCTTGGATGAGAT
1 GCAAATAATCTTAAAGAAAGAAACAATTACCATGGATGCGAAGATGATGTTTCCTTGGATGAGAT
* *** *
8691891 GGATGTTTCAACTACACAATCACAACCGTTGAAGCCAAACCAAGATGGTTCCACATTTTCAAAGA
66 GGATGTCTCAACTACACAATCACAACCACCGAAGCCAAACCAAGATGGTTCCACATCTTCAAAGA
8691956 AGAAAAAAAAGATTTTTGATGTAACTATT
131 AGAAAAAAAAGATTTTTGATGTAACTATT
* *
8691985 GCAAATAATCTTGAAGAAAGAAACAATTACCGTGGATGCGAAGATGATGTTTCCTTGGATGAGAT
1 GCAAATAATCTTAAAGAAAGAAACAATTACCATGGATGCGAAGATGATGTTTCCTTGGATGAGAT
** * * *
8692050 GGATGTCTCATTTACACAATCGCAACCACCGAAGCCAAACTAAGATGGTTTCACATCTTCAAAGA
66 GGATGTCTCAACTACACAATCACAACCACCGAAGCCAAACCAAGATGGTTCCACATCTTCAAAGA
8692115 AGAAAAAAA
131 AGAAAAAAA
8692124 TGGATGATGG
Statistics
Matches: 125, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
159 125 1.00
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (159 bp):
GCAAATAATCTTAAAGAAAGAAACAATTACCATGGATGCGAAGATGATGTTTCCTTGGATGAGAT
GGATGTCTCAACTACACAATCACAACCACCGAAGCCAAACCAAGATGGTTCCACATCTTCAAAGA
AGAAAAAAAAGATTTTTGATGTAACTATT
Found at i:8698999 original size:43 final size:43
Alignment explanation
Indices: 8698948--8699085 Score: 165
Period size: 43 Copynumber: 3.2 Consensus size: 43
8698938 AGGGGGTTGC
*
8698948 TGCTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATG
1 TGCTGATTCCACCGTATCTTTGAATGTGAAAGGGGTTGCTATG
* * *
8698991 TGCTGATTCC-CCGTA-CTACTGAATAT-AAAGGTGGTTGCTAAG
1 TGCTGATTCCACCGTATCT-TTGAATGTGAAAGG-GGTTGCTATG
* * * *
8699033 TGCTGAATCCACCGTATTTTTTACTGTGAAAGGGGTTGCTATG
1 TGCTGATTCCACCGTATCTTTGAATGTGAAAGGGGTTGCTATG
8699076 TGCTGATTCC
1 TGCTGATTCC
8699086 CCGCATCACT
Statistics
Matches: 78, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
41 7 0.09
42 28 0.36
43 37 0.47
44 6 0.08
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (43 bp):
TGCTGATTCCACCGTATCTTTGAATGTGAAAGGGGTTGCTATG
Found at i:8699068 original size:85 final size:84
Alignment explanation
Indices: 8698948--8699126 Score: 279
Period size: 85 Copynumber: 2.1 Consensus size: 84
8698938 AGGGGGTTGC
* * *
8698948 TGCTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTA-CTACTG
1 TGCTGAATCCACCGTATCTTTGACTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGCATC-ACTG
8699012 AATATAAAGGTGGTTGCTAAG
65 AAT-TAAAGGTGGTTGCTAAG
* *
8699033 TGCTGAATCCACCGTATTTTTTACTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGCATCACTGA
1 TGCTGAATCCACCGTATCTTTGACTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGCATCACTGA
*
8699098 ATTTAAGGTGGTTGCTAAG
66 ATTAAAGGTGGTTGCTAAG
8699117 TGCTGAATCC
1 TGCTGAATCC
8699127 TCCGAGTAAC
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
84 26 0.30
85 60 0.69
86 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (84 bp):
TGCTGAATCCACCGTATCTTTGACTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGCATCACTGA
ATTAAAGGTGGTTGCTAAG
Found at i:8701393 original size:6 final size:6
Alignment explanation
Indices: 8701382--8701419 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
8701372 AGTTTATTTG
*
8701382 TTTTCT TTTTC- TTTTCT TTTTCT TTTTCT TTTTAT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTT
8701420 CTTATACTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:8701398 original size:11 final size:11
Alignment explanation
Indices: 8701382--8701422 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
8701372 AGTTTATTTG
8701382 TTTTCTTTTTC
1 TTTTCTTTTTC
8701393 TTTTCTTTTTC
1 TTTTCTTTTTC
*
8701404 TTTTTCTTTTTA
1 -TTTTCTTTTTC
8701416 TTTTCTT
1 TTTTCTT
8701423 ATACTTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:8701404 original size:17 final size:17
Alignment explanation
Indices: 8701382--8701422 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
8701372 AGTTTATTTG
8701382 TTTTCTTTTTCTTTTCT-
1 TTTTCTTTTTCTTTT-TA
8701399 TTTTCTTTTTCTTTTTA
1 TTTTCTTTTTCTTTTTA
8701416 TTTTCTT
1 TTTTCTT
8701423 ATACTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 1 0.04
17 22 0.96
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTCTTTTTCTTTTTA
Found at i:8702465 original size:24 final size:24
Alignment explanation
Indices: 8702437--8702486 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
8702427 TGAATAATTC
*
8702437 TTAATTTATGCACTTGTTT-TTTTT
1 TTAATTCA-GCACTTGTTTATTTTT
*
8702461 TTAATTCAGCATTTGTTTATTTTT
1 TTAATTCAGCACTTGTTTATTTTT
8702485 TT
1 TT
8702487 TCTAGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.18, C:0.08, G:0.08, T:0.66
Consensus pattern (24 bp):
TTAATTCAGCACTTGTTTATTTTT
Found at i:8704423 original size:58 final size:58
Alignment explanation
Indices: 8704358--8704513 Score: 165
Period size: 58 Copynumber: 2.6 Consensus size: 58
8704348 ATATTATGAT
* *
8704358 TTTTATT-AATTATATTTTAATAATTATTATATTAAGAA-TGTCATTAAACTATATATTG
1 TTTTATTAAATTATA-TTTAATAATAATTATATTAA-AATTATCATTAAACTATATATTG
* * * * *
8704416 TTTTATTAAATTGTATTTAATAATAATTATGTTAAAATTATGATTAAATTATTTATTG
1 TTTTATTAAATTATATTTAATAATAATTATATTAAAATTATCATTAAACTATATATTG
*
8704474 TTTTTTTATTAAATTATATTTAATATTAATCT-TATTAAAA
1 ---TTTTATTAAATTATATTTAATAATAAT-TATATTAAAA
8704514 ATTAATAACA
Statistics
Matches: 82, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
57 2 0.02
58 41 0.50
59 6 0.07
61 32 0.39
62 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (58 bp):
TTTTATTAAATTATATTTAATAATAATTATATTAAAATTATCATTAAACTATATATTG
Found at i:8716494 original size:23 final size:23
Alignment explanation
Indices: 8716468--8716511 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
8716458 CCTAGGCGCA
*
8716468 TGTAATATACCAAAAATTACTAC
1 TGTAATACACCAAAAATTACTAC
* *
8716491 TGTAATACCCCGAAAATTACT
1 TGTAATACACCAAAAATTACT
8716512 GCAGTAAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (23 bp):
TGTAATACACCAAAAATTACTAC
Found at i:8724649 original size:16 final size:16
Alignment explanation
Indices: 8724580--8724647 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
8724570 TTTGCTTCGC
8724580 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
8724596 TGTATTGGATTGGAGG
1 TGTATTGGATTAGAGG
8724612 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
8724628 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
8724644 TGTA
1 TGTA
8724648 ATAGCAAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.26, C:0.00, G:0.38, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:8724733 original size:39 final size:43
Alignment explanation
Indices: 8724628--8724737 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 43
8724618 GGATTAGAGG
8724628 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * *
8724673 TGTAATGGAATAGAGGCGTAATAG-TAATCTTA-TGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATC-AACTGTTTGGTTA
8724713 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
8724738 TAATGGAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
39 20 0.34
40 2 0.03
43 1 0.02
44 11 0.19
45 24 0.41
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:8724900 original size:16 final size:16
Alignment explanation
Indices: 8724863--8724904 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
8724853 TTAATCATAT
*
8724863 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
8724879 TT-AAATATATTATAA
1 TTAAAATATATTATAA
8724894 TTAAAATATAT
1 TTAAAATATAT
8724905 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:8724911 original size:14 final size:15
Alignment explanation
Indices: 8724872--8724913 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
8724862 TTTAAACATA
*
8724872 ATTATTATTAAATAT
1 ATTATAATTAAATAT
8724887 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
8724901 A-TATAATTTAATA
1 ATTATAATTAAATA
8724914 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:8725782 original size:13 final size:13
Alignment explanation
Indices: 8725764--8725790 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8725754 TGAATAAAAG
8725764 TATATGGTTGGAT
1 TATATGGTTGGAT
8725777 TATATGGTTGGAT
1 TATATGGTTGGAT
8725790 T
1 T
8725791 TCTAAGGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (13 bp):
TATATGGTTGGAT
Found at i:8729179 original size:19 final size:19
Alignment explanation
Indices: 8729152--8729189 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
8729142 ATAAAGATAA
*
8729152 CTCCGTTTGAGATCATTTG
1 CTCCATTTGAGATCATTTG
8729171 CTCCATTTGAGATCATTTG
1 CTCCATTTGAGATCATTTG
8729190 TTTAATGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.42
Consensus pattern (19 bp):
CTCCATTTGAGATCATTTG
Found at i:8731496 original size:84 final size:83
Alignment explanation
Indices: 8731387--8731794 Score: 573
Period size: 84 Copynumber: 5.0 Consensus size: 83
8731377 TACGTTTTTG
* * * *
8731387 TTTGGAAACAAAACAATATCGAATAAAATCTTGTTCAACGGCGGGAATAAATCCCGAAACAGATT
1 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGATT
8731452 TTATTTAATTCAATTCAAA
66 TTATTTAATT-AATTCAAA
** * *
8731471 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGATGGGAATAAATCTCAAAACAGATT
1 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGATT
8731536 TTATTTAATTTAATTCAAA
66 TTATTTAA-TTAATTCAAA
* *
8731555 TTTGGAAACAAAATAAAATCAAATAAAATCTTATTAAACGGCAGGAATAAATCCCGAAACAGA--
1 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGATT
*
8731618 -TATTTAATTATATTCTAA
66 TTATTTAATTA-ATTCAAA
8731636 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAA-----GGAATAAATCCCGAAACATG-T
1 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACA-GAT
*
8731695 TTTATTTAATTATATTCTAA
65 TTTATTTAATTA-ATTCAAA
* *
8731715 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATTCTGAAACAGATT
1 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGATT
8731780 TTATTTAATTTAATT
66 TTATTTAA-TTAATT
8731795 TCTCATTTTT
Statistics
Matches: 293, Mismatches: 18, Indels: 26
0.87 0.05 0.08
Matches are distributed among these distances:
76 18 0.06
77 1 0.00
79 56 0.19
80 3 0.01
81 50 0.17
83 1 0.00
84 159 0.54
85 5 0.02
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (83 bp):
TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGATT
TTATTTAATTAATTCAAA
Found at i:8731739 original size:160 final size:162
Alignment explanation
Indices: 8731387--8731795 Score: 571
Period size: 160 Copynumber: 2.5 Consensus size: 162
8731377 TACGTTTTTG
* * * *
8731387 TTTGGAAACAAAACAATATCGAATAAAATCTTGTTCAACGGCGGGAATAAATCCCGAAACAGATT
1 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGA--
*
8731452 TTATTTAATTCAATTCAAATTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGATGGGA
64 -TATTTAATT-AATTCTAATTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAAC-A-GGGA
*
8731517 ATAAATCTCAAAACAGATTTTATTTAATTTAATTCAAA
125 ATAAATCCCAAAACAGATTTTATTTAATTTAATTCAAA
* *
8731555 TTTGGAAACAAAATAAAATCAAATAAAATCTTATTAAACGGCAGGAATAAATCCCGAAACAGATA
1 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGATA
8731620 TTTAATTATATTCTAATTTGGAAACAAAATAAAATCAAATAAAATCTTGTT-AA-A-GGAATAAA
66 TTTAATTA-ATTCTAATTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACAGGGAATAAA
* *
8731682 TCCCGAAACATG-TTTTATTTAA-TTATATTCTAA
130 TCCCAAAACA-GATTTTATTTAATTTA-ATTCAAA
* *
8731715 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATTCTGAAACAGAT-
1 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGATA
*
8731779 TTTATTTAATT-TAATTT
66 TTTAATTAATTCTAATTT
8731796 CTCATTTTTG
Statistics
Matches: 223, Mismatches: 15, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
157 6 0.03
158 3 0.01
159 10 0.04
160 92 0.41
161 1 0.00
162 1 0.00
164 3 0.01
165 50 0.22
168 57 0.26
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (162 bp):
TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGATA
TTTAATTAATTCTAATTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACAGGGAATAAAT
CCCAAAACAGATTTTATTTAATTTAATTCAAA
Found at i:8731886 original size:244 final size:246
Alignment explanation
Indices: 8731387--8731898 Score: 648
Period size: 244 Copynumber: 2.1 Consensus size: 246
8731377 TACGTTTTTG
* * *
8731387 TTTGGAAACAAAACAATATCGAATAAAATCTTGTTCAACGGCGGGAATAAATCCCGAAACAGATT
1 TTTGGAAACAAAACAAAATCAAATAAAATCTTGTTCAA---CAGGAATAAATCCCGAAACAGATT
*
8731452 TTATTTAATTCAATTCAAATTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGATGGGA
63 TTATTTAATTCAATTCAAATTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGACGGGA
8731517 ATAAATCTCAAAACAGATTTTATTTAATTTAATTCAAATTTGGAAACAAAATAAAATCAAATAAA
128 ATAAATCTCAAAACAGATTTTATTTAATTTAATTCAAATTTGGAAACAAAATAAAATCAAATAAA
* *
8731582 ATCTTATTAAACGGCAGGAATAAATCCCGAAACAGATATTTAATTATATTCTAA
193 ATCTCATTAAACGGCAGGAATAAATCCCGAAACAGATATTTAATTATACTCTAA
*
8731636 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTT-AA-AGGAATAAATCCCGAAACATG-TTTT
1 TTTGGAAACAAAACAAAATCAAATAAAATCTTGTTCAACAGGAATAAATCCCGAAACA-GATTTT
* *
8731698 ATTTAATT-ATATTCTAATTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGGGAA
65 ATTTAATTCA-ATTCAAATTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGACGGGAA
* ** * **
8731762 TAAAT-TCTGAAACAGATTTTATTTAATTTAATTTCTCATTTTTGGCAACAAAATTAAAATGTAA
129 TAAATCTC-AAAACAGATTTTATTTAATTTAA--T-TCAAATTTGGAAACAAAA-TAAAATCAAA
* * * * * * *
8731826 T-AAATC-CGTTGAACGGCAGGAATTAATCCCGAAA-TGA-ATTTTATTTTACTCGT-T
189 TAAAATCTCATTAAACGGCAGGAATAAATCCCGAAACAGATATTTAATTATACTC-TAA
*
8731880 TTTGGAAATAAAACAAAAT
1 TTTGGAAACAAAACAAAAT
8731899 TTAGAATAAA
Statistics
Matches: 231, Mismatches: 24, Indels: 21
0.84 0.09 0.08
Matches are distributed among these distances:
243 3 0.01
244 136 0.59
245 4 0.02
246 25 0.11
247 20 0.09
248 11 0.05
249 32 0.14
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (246 bp):
TTTGGAAACAAAACAAAATCAAATAAAATCTTGTTCAACAGGAATAAATCCCGAAACAGATTTTA
TTTAATTCAATTCAAATTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGACGGGAATA
AATCTCAAAACAGATTTTATTTAATTTAATTCAAATTTGGAAACAAAATAAAATCAAATAAAATC
TCATTAAACGGCAGGAATAAATCCCGAAACAGATATTTAATTATACTCTAA
Found at i:8732104 original size:79 final size:79
Alignment explanation
Indices: 8731827--8732109 Score: 343
Period size: 79 Copynumber: 3.6 Consensus size: 79
8731817 AAAATGTAAT
* * ** * *
8731827 AAATCCGTTGAACGGCAGGAATTAATCCCGAAATGAATTTTATTTTACTCGTTTTTGGAAATAAA
1 AAAT-CGTTGAACGGCGGGAATCAATCTAGAAACGGATTTTATTTTACTCGTTTTTGGAAATAAA
*
8731892 ACAAAATTTAGAATA
65 ACAAAATTTGGAATA
* * * *
8731907 AAATCATTGAACGGCGAGAATCAATCCCA-AAACGGATTTTATTTTACTCGTTTTTGAAAAATAA
1 AAATCGTTGAACGGCGGGAATCAAT-CTAGAAACGGATTTTATTTTACTCGTTTTTG-GAAATAA
* *
8731971 AACAAAATGTGGAACA
64 AACAAAATTTGGAATA
* * * *
8731987 AAATTGTTGAACGGTGGGAATCAATCTGGAAACAGATTTTATTTTACTCGTTTTTGGAAATAAAA
1 AAATCGTTGAACGGCGGGAATCAATCTAGAAACGGATTTTATTTTACTCGTTTTTGGAAATAAAA
8732052 CAAAATTTGGAATA
66 CAAAATTTGGAATA
* * * *
8732066 AAATCGTTAAACGGCGGGACTCACTCTAGAAATGGATTTTATTT
1 AAATCGTTGAACGGCGGGAATCAATCTAGAAACGGATTTTATTT
8732110 ACCTTTAATT
Statistics
Matches: 171, Mismatches: 29, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
79 99 0.58
80 72 0.42
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (79 bp):
AAATCGTTGAACGGCGGGAATCAATCTAGAAACGGATTTTATTTTACTCGTTTTTGGAAATAAAA
CAAAATTTGGAATA
Found at i:8732389 original size:17 final size:18
Alignment explanation
Indices: 8732358--8732391 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8732348 GATTTATTTA
8732358 ATTTTTAAAAGAAAATAG
1 ATTTTTAAAAGAAAATAG
*
8732376 ATTTTTGAAA-AAAATA
1 ATTTTTAAAAGAAAATA
8732392 TTTTTTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (18 bp):
ATTTTTAAAAGAAAATAG
Found at i:8734078 original size:31 final size:31
Alignment explanation
Indices: 8734042--8734112 Score: 110
Period size: 31 Copynumber: 2.3 Consensus size: 31
8734032 AACATCCCAA
*
8734042 TGACTTAAATGAAAACTTTTGAATAAG-TCAG
1 TGACTTAAATGAAAAATTTTGAAT-AGTTCAG
8734073 TGACTTAAATGAAAAATTTTGAATAGTTCAG
1 TGACTTAAATGAAAAATTTTGAATAGTTCAG
8734104 TGAC-TAAAT
1 TGACTTAAAT
8734113 TGTAACTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
30 7 0.18
31 31 0.82
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.34
Consensus pattern (31 bp):
TGACTTAAATGAAAAATTTTGAATAGTTCAG
Found at i:8737005 original size:17 final size:16
Alignment explanation
Indices: 8736968--8737020 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
8736958 ACATTCTAGA
8736968 AAATTTATAATAAATTTT
1 AAATTTATAA-AAA-TTT
*
8736986 AAATTTTTAAAAATTAT
1 AAATTTATAAAAATT-T
*
8737003 AAA-TTCTAAAAATTT
1 AAATTTATAAAAATTT
8737018 AAA
1 AAA
8737021 ATAATAGGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 4 0.12
16 12 0.38
17 7 0.22
18 9 0.28
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
AAATTTATAAAAATTT
Found at i:8737044 original size:45 final size:45
Alignment explanation
Indices: 8736942--8737044 Score: 120
Period size: 44 Copynumber: 2.3 Consensus size: 45
8736932 TAAATTCTAG
* * ** *
8736942 AAAATTTCAAAAA-TATACATTCTAGAAAATTTATAATAAATTTT
1 AAAATTTCAAAAATTATAAATTCTAGAAAATTTAAAATAAAGGTC
* *
8736986 AAATTTTTAAAAATTATAAATTCTA-AAAATTTAAAATAATAGGTC
1 AAAATTTCAAAAATTATAAATTCTAGAAAATTTAAAATAA-AGGTC
8737031 AAAATTTCAAAAAT
1 AAAATTTCAAAAAT
8737045 AGAAAAATGT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
44 24 0.50
45 24 0.50
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (45 bp):
AAAATTTCAAAAATTATAAATTCTAGAAAATTTAAAATAAAGGTC
Found at i:8737711 original size:13 final size:14
Alignment explanation
Indices: 8737679--8737713 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
8737669 GGGTATATTA
*
8737679 AAATATTTAAAAGT
1 AAATATATAAAAGT
8737693 AAATATATAAAAG-
1 AAATATATAAAAGT
8737706 AAATATAT
1 AAATATAT
8737714 TTATATCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (14 bp):
AAATATATAAAAGT
Found at i:8753770 original size:15 final size:15
Alignment explanation
Indices: 8753711--8753781 Score: 63
Period size: 15 Copynumber: 4.6 Consensus size: 15
8753701 ATATTATAAT
8753711 TTTTA-TTAATTCATA
1 TTTTATTTAATT-ATA
*
8753726 TTTTAATAATAATTATA
1 TTTT-AT-TTAATTATA
*
8753743 TTTTATTAAATTATA
1 TTTTATTTAATTATA
* * *
8753758 TATTATTTTATTAAA
1 TTTTATTTAATTATA
8753773 TTTTATTTA
1 TTTTATTTA
8753782 GTAAAAAATT
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
15 29 0.66
16 3 0.07
17 7 0.16
18 5 0.11
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTATTTAATTATA
Found at i:8754032 original size:16 final size:16
Alignment explanation
Indices: 8754013--8754069 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
8754003 ATTACAGTTT
* *
8754013 TATTCCATTATAGCTC
1 TATTCCATTACAACTC
*
8754029 TATTCTATTACAACTC
1 TATTCCATTACAACTC
*
8754045 TAGTT-CATTACAACCC
1 TA-TTCCATTACAACTC
8754061 TATTCCATT
1 TATTCCATT
8754070 CCCCCCAACC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 2 0.06
16 30 0.88
17 2 0.06
ACGTcount: A:0.28, C:0.26, G:0.04, T:0.42
Consensus pattern (16 bp):
TATTCCATTACAACTC
Found at i:8755071 original size:6 final size:6
Alignment explanation
Indices: 8755062--8755091 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
8755052 AATTCAGAAG
8755062 CAGAGA CAGAGA CAGAGA CAGAGA CAGAGA
1 CAGAGA CAGAGA CAGAGA CAGAGA CAGAGA
8755092 TGGCAACGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.33, T:0.00
Consensus pattern (6 bp):
CAGAGA
Found at i:8760028 original size:63 final size:63
Alignment explanation
Indices: 8759959--8760087 Score: 177
Period size: 63 Copynumber: 2.0 Consensus size: 63
8759949 TGACAAGCCG
* * * *
8759959 TGTAACTTACTGTTTATGAATCAGAGTCACACGGGCCAGGGAAACAGGTGTGTGTCCAGGCCA
1 TGTAACTCACTATTTATGAAACAGAGTCACACGGGCCAGAGAAACAGGTGTGTGTCCAGGCCA
* * ** *
8760022 TGTAACTCACTATTTGTGAAACAGAGTCACATGGGTTAGAGACACAGGTGTGTGTCCAGGCCA
1 TGTAACTCACTATTTATGAAACAGAGTCACACGGGCCAGAGAAACAGGTGTGTGTCCAGGCCA
8760085 TGT
1 TGT
8760088 GAGAGATATT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (63 bp):
TGTAACTCACTATTTATGAAACAGAGTCACACGGGCCAGAGAAACAGGTGTGTGTCCAGGCCA
Found at i:8761878 original size:31 final size:30
Alignment explanation
Indices: 8761837--8761945 Score: 130
Period size: 31 Copynumber: 3.6 Consensus size: 30
8761827 CAACAATATA
* *
8761837 TATATTCATATACGAATCAAAGTCCGCAATG
1 TATAATCATATACGAATC-AAGTCGGCAATG
* *
8761868 TATAATCATATACAAATCAATTCGGCAATG
1 TATAATCATATACGAATCAAGTCGGCAATG
* *
8761898 TATAA-CTATATATGAATCAAGTTTGGCAATG
1 TATAATC-ATATACGAATCAAG-TCGGCAATG
8761929 TATAATCATATACGAAT
1 TATAATCATATACGAAT
8761946 TAATTCGGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
29 1 0.02
30 26 0.39
31 38 0.58
32 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (30 bp):
TATAATCATATACGAATCAAGTCGGCAATG
Found at i:8761916 original size:61 final size:63
Alignment explanation
Indices: 8761817--8762339 Score: 189
Period size: 61 Copynumber: 8.5 Consensus size: 63
8761807 ATCTAATGCT
** *
8761817 CAAATCAATTCAACAATATATATATTCATATACGAATCAAAG-TCCGCAATGTATAATCATATA
1 CAAATCAATTCGGCAATATATATACTCATATACGAATC-AAGTTCCGCAATGTATAATCATATA
* * **
8761880 CAAATCAATTCGGCAATGTATA-ACT-ATATATGAATCAAGTTTGGCAATGTATAATCATATA
1 CAAATCAATTCGGCAATATATATACTCATATACGAATCAAGTTCCGCAATGTATAATCATATA
* * * * ** *
8761941 CGAATTAATTCGGTAACT-TATAT-C-CATATAC-AATTCAATTTCAACAATGTATAACCATATA
1 CAAATCAATTCGGCAA-TATATATACTCATATACGAA-TCAAGTTCCGCAATGTATAATCATATA
* * * * ** **
8762002 CAAATTAATTTCAGCAA-A-ATATAATCATATACAAATCAA-TTTGGCAACT-TATCTTCATATA
1 CAAATCAA-TTCGGCAATATATATACTCATATACGAATCAAGTTCCGCAA-TGTATAATCATATA
* * ** * * * * * * * *
8762063 CAAATAAATTTTGATAATGTATA-AC-CATATACAAATAAATTTCAGCAACGTACAACCATATA
1 CAAATCAA-TTCGGCAATATATATACTCATATACGAATCAAGTTCCGCAATGTATAATCATATA
* * * * ** *
8762125 CGAATTAATTCAGCAACT-TATAT-C-CATATAC-AATTCAATTTCAACAATGTATAACCATATA
1 CAAATCAATTCGGCAA-TATATATACTCATATACGAA-TCAAGTTCCGCAATGTATAATCATATA
* * * * * * * * **
8762186 CAAATTAATTTC--AAAAATGTATAATTATATACGAATTAA-TTCGGCAACT-TATCTTCATATA
1 CAAATCAA-TTCGGCAATATATATACTCATATACGAATCAAGTTCCGCAA-TGTATAATCATATA
** * * * * * * *
8762247 CAAATCAATTTCGATAATGTATA-A-TCATATACAAATAAATTTCAGCAATGTACAACCATATA
1 CAAATCAA-TTCGGCAATATATATACTCATATACGAATCAAGTTCCGCAATGTATAATCATATA
* * *
8762309 CGAATTAATTCAGCAACT-TATAT-C-CATATAC
1 CAAATCAATTCGGCAA-TATATATACTCATATAC
8762340 AATTCAATGT
Statistics
Matches: 348, Mismatches: 81, Indels: 64
0.71 0.16 0.13
Matches are distributed among these distances:
60 17 0.05
61 221 0.64
62 79 0.23
63 31 0.09
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.33
Consensus pattern (63 bp):
CAAATCAATTCGGCAATATATATACTCATATACGAATCAAGTTCCGCAATGTATAATCATATA
Found at i:8762001 original size:31 final size:30
Alignment explanation
Indices: 8761862--8762410 Score: 327
Period size: 31 Copynumber: 17.9 Consensus size: 30
8761852 ATCAAAGTCC
* * *
8761862 GCAATGTATAATCATATACAAATCAA-TTCG
1 GCAATGTATAACCATATAC-AATTAATTTCA
* * * *
8761892 GCAATGTATAACTATATATGAATCAAGTTT-G
1 GCAATGTATAACCATATA-CAATTAA-TTTCA
* *
8761923 GCAATGTATAATCATATACGAATTAA-TTCG
1 GCAATGTATAACCATATAC-AATTAATTTCA
* *
8761953 GTAACT-TATATCCATATACAATTCAATTTCA
1 GCAA-TGTATAACCATATACAATT-AATTTCA
*
8761984 ACAATGTATAACCATATACAAATTAATTTCA
1 GCAATGTATAACCATATAC-AATTAATTTCA
** * * *
8762015 GCAAAATATAATCATATACAAATCAATTT-G
1 GCAATGTATAACCATATAC-AATTAATTTCA
*** * *
8762045 GCAACT-TATCTTCATATACAAATAAATTT-T
1 GCAA-TGTATAACCATATAC-AATTAATTTCA
* *
8762075 GATAATGTATAACCATATACAAATAAATTTCA
1 G-CAATGTATAACCATATAC-AATTAATTTCA
* *
8762107 GCAACGTACAACCATATACGAATTAA-TTCA
1 GCAATGTATAACCATATAC-AATTAATTTCA
*
8762137 GCAACT-TATATCCATATACAATTCAATTTCA
1 GCAA-TGTATAACCATATACAATT-AATTTCA
*
8762168 ACAATGTATAACCATATACAAATTAATTTCA
1 GCAATGTATAACCATATAC-AATTAATTTCA
** ** *
8762199 AAAATGTATAATTATATACGAATTAA-TTCG
1 GCAATGTATAACCATATAC-AATTAATTTCA
*** *
8762229 GCAACT-TATCTTCATATACAAATCAATTTC-
1 GCAA-TGTATAACCATATAC-AATTAATTTCA
* * *
8762259 GATAATGTATAATCATATACAAATAAATTTCA
1 G-CAATGTATAACCATATAC-AATTAATTTCA
*
8762291 GCAATGTACAACCATATACGAATTAA-TTCA
1 GCAATGTATAACCATATAC-AATTAATTTCA
*
8762321 GCAACT-TATATCCATATACAATTCAATGTT-A
1 GCAA-TGTATAACCATATACAATT-AAT-TTCA
* * *
8762352 ACAACGTATAACCATATATAAATTAATTTCA
1 GCAATGTATAACCATATA-CAATTAATTTCA
**
8762383 GCAATGTATAATTATATACGAATTAATT
1 GCAATGTATAACCATATAC-AATTAATT
8762411 CGGCAATATA
Statistics
Matches: 415, Mismatches: 72, Indels: 63
0.75 0.13 0.11
Matches are distributed among these distances:
29 14 0.03
30 133 0.32
31 250 0.60
32 18 0.04
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.34
Consensus pattern (30 bp):
GCAATGTATAACCATATACAATTAATTTCA
Found at i:8762151 original size:184 final size:184
Alignment explanation
Indices: 8761873--8762416 Score: 792
Period size: 184 Copynumber: 3.0 Consensus size: 184
8761863 CAATGTATAA
* ** * ** * * * * *
8761873 TCATATACAAATCAA-TTCGGCAATGTATAACTATATATGAATCAAGTTT-GGCAATGTATAATC
1 TCATATACAAATAAATTTCGATAATGTATAACCATATACAAAT-AAATTTCAGCAACGTACAACC
* *
8761936 ATATACGAATTAATTCGGTAACTTATATCCATATACAATTCAATTTCAACAATGTATAACCATAT
65 ATATACGAATTAATTCAGCAACTTATATCCATATACAATTCAATTTCAACAATGTATAACCATAT
* * * *
8762001 ACAAATTAATTTCAGCAAAATATAATCATATACAAATCAATTTGGCAACTTATCT
130 ACAAATTAATTTCAGCAAAATATAATTATATACGAATTAATTCGGCAACTTATCT
*
8762056 TCATATACAAATAAATTTTGATAATGTATAACCATATACAAATAAATTTCAGCAACGTACAACCA
1 TCATATACAAATAAATTTCGATAATGTATAACCATATACAAATAAATTTCAGCAACGTACAACCA
8762121 TATACGAATTAATTCAGCAACTTATATCCATATACAATTCAATTTCAACAATGTATAACCATATA
66 TATACGAATTAATTCAGCAACTTATATCCATATACAATTCAATTTCAACAATGTATAACCATATA
8762186 CAAATTAATTTCA--AAAATGTATAATTATATACGAATTAATTCGGCAACTTATCT
131 CAAATTAATTTCAGCAAAA--TATAATTATATACGAATTAATTCGGCAACTTATCT
* * *
8762240 TCATATACAAATCAATTTCGATAATGTATAATCATATACAAATAAATTTCAGCAATGTACAACCA
1 TCATATACAAATAAATTTCGATAATGTATAACCATATACAAATAAATTTCAGCAACGTACAACCA
*
8762305 TATACGAATTAATTCAGCAACTTATATCCATATACAATTCAATGTT-AACAACGTATAACCATAT
66 TATACGAATTAATTCAGCAACTTATATCCATATACAATTCAAT-TTCAACAATGTATAACCATAT
* **
8762369 ATAAATTAATTTCAGCAATGTATAATTATATACGAATTAATTCGGCAA
130 ACAAATTAATTTCAGCAAAATATAATTATATACGAATTAATTCGGCAA
8762417 TATATATATA
Statistics
Matches: 328, Mismatches: 26, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
182 4 0.01
183 19 0.06
184 301 0.92
185 2 0.01
186 2 0.01
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (184 bp):
TCATATACAAATAAATTTCGATAATGTATAACCATATACAAATAAATTTCAGCAACGTACAACCA
TATACGAATTAATTCAGCAACTTATATCCATATACAATTCAATTTCAACAATGTATAACCATATA
CAAATTAATTTCAGCAAAATATAATTATATACGAATTAATTCGGCAACTTATCT
Found at i:8762423 original size:92 final size:92
Alignment explanation
Indices: 8761874--8762416 Score: 669
Period size: 92 Copynumber: 5.9 Consensus size: 92
8761864 AATGTATAAT
* ** * ** * *
8761874 CATATACAAATCAA-TTCGGCAATGTATAACTATATATGAATCAAGTTT-GGCAATGTATAATCA
1 CATATACAATTCAATTTCAACAATGTATAACCATATACAAATTAA-TTTCAGCAATGTATAATCA
*
8761937 TATACGAATTAATTCGGTAACTTATATC
65 TATACGAATTAATTCGGCAACTTATATC
**
8761965 CATATACAATTCAATTTCAACAATGTATAACCATATACAAATTAATTTCAGCAAAATATAATCAT
1 CATATACAATTCAATTTCAACAATGTATAACCATATACAAATTAATTTCAGCAATGTATAATCAT
* * * * *
8762030 ATACAAATCAATTTGGCAACTTATCTT
66 ATACGAATTAATTCGGCAACTTATATC
* * ** * * * * *
8762057 CATATACAAATAAATTTTGATAATGTATAACCATATACAAATAAATTTCAGCAACGTACAACCAT
1 CATATACAATTCAATTTCAACAATGTATAACCATATACAAATTAATTTCAGCAATGTATAATCAT
*
8762122 ATACGAATTAATTCAGCAACTTATATC
66 ATACGAATTAATTCGGCAACTTATATC
** *
8762149 CATATACAATTCAATTTCAACAATGTATAACCATATACAAATTAATTTCAAAAATGTATAATTAT
1 CATATACAATTCAATTTCAACAATGTATAACCATATACAAATTAATTTCAGCAATGTATAATCAT
* *
8762214 ATACGAATTAATTCGGCAACTTATCTT
66 ATACGAATTAATTCGGCAACTTATATC
* * * * * * *
8762241 CATATACAAATCAATTTCGATAATGTATAATCATATACAAATAAATTTCAGCAATGTACAACCAT
1 CATATACAATTCAATTTCAACAATGTATAACCATATACAAATTAATTTCAGCAATGTATAATCAT
*
8762306 ATACGAATTAATTCAGCAACTTATATC
66 ATACGAATTAATTCGGCAACTTATATC
* * *
8762333 CATATACAATTCAATGTT-AACAACGTATAACCATATATAAATTAATTTCAGCAATGTATAATTA
1 CATATACAATTCAAT-TTCAACAATGTATAACCATATACAAATTAATTTCAGCAATGTATAATCA
8762397 TATACGAATTAATTCGGCAA
65 TATACGAATTAATTCGGCAA
8762417 TATATATATA
Statistics
Matches: 378, Mismatches: 71, Indels: 5
0.83 0.16 0.01
Matches are distributed among these distances:
91 16 0.04
92 360 0.95
93 2 0.01
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (92 bp):
CATATACAATTCAATTTCAACAATGTATAACCATATACAAATTAATTTCAGCAATGTATAATCAT
ATACGAATTAATTCGGCAACTTATATC
Found at i:8771353 original size:50 final size:50
Alignment explanation
Indices: 8771274--8771411 Score: 186
Period size: 50 Copynumber: 2.8 Consensus size: 50
8771264 TTTCTTGTAC
* * *
8771274 TGCCAATGCCATATCCCAGATATGGTCTTACAAGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAAGGGACTTCTCATATCGG
* * * ** *
8771324 TGCCCATGTCATGTCTCAGACATGGTCTTACGGGGGACTTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAAGGGACTTCTCATATCGG
*
8771374 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAAGGGAC
8771412 CTCTTTACCC
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAAGGGACTTCTCATATCGG
Found at i:8771529 original size:13 final size:13
Alignment explanation
Indices: 8771511--8771535 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8771501 CTTGAGTCAA
8771511 CATTAAATAAATT
1 CATTAAATAAATT
8771524 CATTAAATAAAT
1 CATTAAATAAAT
8771536 ATATAATTGC
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:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (13 bp):
CATTAAATAAATT
Found at i:8771785 original size:30 final size:30
Alignment explanation
Indices: 8771751--8771810 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
8771741 ATCCTTGACT
8771751 TAAACTTTGGAAAAATTACAATTTTGCCCC
1 TAAACTTTGGAAAAATTACAATTTTGCCCC
* * * *
8771781 TAAACTTTTGCATAATTACACTTTTGCCCC
1 TAAACTTTGGAAAAATTACAATTTTGCCCC
8771811 AAAGCTCGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (30 bp):
TAAACTTTGGAAAAATTACAATTTTGCCCC
Found at i:8774643 original size:63 final size:62
Alignment explanation
Indices: 8774551--8774755 Score: 207
Period size: 63 Copynumber: 3.3 Consensus size: 62
8774541 TTACACGGCT
* * * *
8774551 ATGTGT-CAGTCCGTGTAACTCATTATTTGTGACTCAGAGTCACACGGGCCAGGGACACGGAC
1 ATGTGTCCAGGCCGTGTAACTCATTTTTTGTGAATCAGAGTCACACGGGCCAGGGACAAGG-C
* ** *
8774613 GTGTGTCCAGGCCGTGTAACTCATTTTTTGTGAATCAGAGTCACACGGATCAAGGACATAGGC
1 ATGTGTCCAGGCCGTGTAACTCATTTTTTGTGAATCAGAGTCACACGGGCCAGGGACA-AGGC
* * ** * * * *
8774676 CTGTGTTCAGGCTATGTAACTCATTTTTTGTAAATTC-GAGTCATATGGGCCAGGGACATGGGC
1 ATGTGTCCAGGCCGTGTAACTCATTTTTTGTGAA-TCAGAGTCACACGGGCCAGGGACA-AGGC
*
8774739 ATATGTCCAGGCCGTGT
1 ATGTGTCCAGGCCGTGT
8774756 GAGAGATATT
Statistics
Matches: 116, Mismatches: 24, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
62 5 0.04
63 107 0.92
64 4 0.03
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (62 bp):
ATGTGTCCAGGCCGTGTAACTCATTTTTTGTGAATCAGAGTCACACGGGCCAGGGACAAGGC
Found at i:8778322 original size:32 final size:31
Alignment explanation
Indices: 8778278--8778338 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
8778268 TTTGACTTTT
* *
8778278 TTTTAGAAGGTTGATGGCCAAATTCAGCTCA
1 TTTTAAAAGGTTGAGGGCCAAATTCAGCTCA
* *
8778309 TTTTAAAATGGTTGAGGGTCAAATTTAGCT
1 TTTTAAAA-GGTTGAGGGCCAAATTCAGCT
8778339 AAAAAGAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 7 0.28
32 18 0.72
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (31 bp):
TTTTAAAAGGTTGAGGGCCAAATTCAGCTCA
Found at i:8779243 original size:21 final size:21
Alignment explanation
Indices: 8779219--8779279 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
8779209 TGTTTATATG
8779219 AATCAATTGTTTGTTGTTTTA
1 AATCAATTGTTTGTTGTTTTA
* * *
8779240 AATCAATTTTTTGCTT-CTTTG
1 AATCAATTGTTTG-TTGTTTTA
* *
8779261 AATCGATTGTTTATTGTTT
1 AATCAATTGTTTGTTGTTT
8779280 GAATCGGTTC
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.57
Consensus pattern (21 bp):
AATCAATTGTTTGTTGTTTTA
Found at i:8779282 original size:20 final size:20
Alignment explanation
Indices: 8779257--8779310 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
8779247 TTTTTGCTTC
**
8779257 TTTGAATCGATTGTTTATTG
1 TTTGAATCGATTCATTATTG
*
8779277 TTTGAATCGGTTCATTATTG
1 TTTGAATCGATTCATTATTG
*
8779297 TTTAAATCGATTCA
1 TTTGAATCGATTCA
8779311 AACTCCAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.09, G:0.17, T:0.50
Consensus pattern (20 bp):
TTTGAATCGATTCATTATTG
Found at i:8782186 original size:13 final size:13
Alignment explanation
Indices: 8782151--8782179 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
8782141 CCAATCAATG
8782151 GTAATTAATTATT
1 GTAATTAATTATT
8782164 GTAATTAATTATT
1 GTAATTAATTATT
8782177 GTA
1 GTA
8782180 TGTAATTTGG
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:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (13 bp):
GTAATTAATTATT
Found at i:8786183 original size:26 final size:26
Alignment explanation
Indices: 8786147--8786201 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
8786137 TCTATTTATC
*
8786147 AATGTAAAGGAGATAACAGAAATCTA
1 AATGTAAAGGAGATAACAGAAATCAA
8786173 AATGTAAAGGAGATAACAGAAATCAA
1 AATGTAAAGGAGATAACAGAAATCAA
8786199 AAT
1 AAT
8786202 CAAAATCTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.56, C:0.07, G:0.18, T:0.18
Consensus pattern (26 bp):
AATGTAAAGGAGATAACAGAAATCAA
Found at i:8788602 original size:29 final size:29
Alignment explanation
Indices: 8788569--8788624 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
8788559 TATTTAATTT
*
8788569 TTTAATAGTATAAGG-ACTAAATTAATCTA
1 TTTAATAATA-AAGGAACTAAATTAATCTA
*
8788598 TTTAATAATAAAGGAACTAATTTAATC
1 TTTAATAATAAAGGAACTAAATTAATC
8788625 AGGACCCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.38
Consensus pattern (29 bp):
TTTAATAATAAAGGAACTAAATTAATCTA
Found at i:8791897 original size:29 final size:29
Alignment explanation
Indices: 8791838--8791896 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
8791828 ATCAATCCTT
*
8791838 AATCCTTGCATTCAAATGTTATAAAATAA
1 AATCCATGCATTCAAATGTTATAAAATAA
8791867 AATCCATGCATTCAAATGTTAT-AAATAA
1 AATCCATGCATTCAAATGTTATAAAATAA
8791895 AA
1 AA
8791897 ACAAAAAGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (29 bp):
AATCCATGCATTCAAATGTTATAAAATAA
Found at i:8795473 original size:43 final size:41
Alignment explanation
Indices: 8795380--8795603 Score: 161
Period size: 43 Copynumber: 5.3 Consensus size: 41
8795370 GGTGGATTCC
* *
8795380 GCACTTAGCAACCACC-ATAAATTTAGTGATACGGGGAATCA
1 GCACTTAGCAACCACCTTTAAATTAAG-GATACGGGGAATCA
* * *
8795421 ACACATAGCAACC-CCTTTCACAATTAAGGATTCGGTGGAATCA
1 GCACTTAGCAACCACCTTT-A-AATTAAGGATACGG-GGAATCA
* *
8795464 GCACTTAGCAACCACCTTTATATTCAACGATACGGGGAATCA
1 GCACTTAGCAACCACCTTTAAATT-AAGGATACGGGGAATCA
* ** *
8795506 ACA-TCTAGCAACTCA--TTTCACAATTAAAAATACGGTGGGATCA
1 GCACT-TAGCAAC-CACCTTT-A-AATTAAGGATACGG-GGAATCA
* * ** * *
8795549 GCACTTAGCAACCACCTTTAGAGTCAATAATTCAGGGAATCA
1 GCACTTAGCAACCACCTTTA-AATTAAGGATACGGGGAATCA
8795591 GCACTTAGCAACC
1 GCACTTAGCAACC
8795604 CCTCAGGGAA
Statistics
Matches: 146, Mismatches: 23, Indels: 27
0.74 0.12 0.14
Matches are distributed among these distances:
40 2 0.01
41 16 0.11
42 56 0.38
43 63 0.43
44 9 0.06
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.23
Consensus pattern (41 bp):
GCACTTAGCAACCACCTTTAAATTAAGGATACGGGGAATCA
Found at i:8795517 original size:85 final size:85
Alignment explanation
Indices: 8795368--8795604 Score: 262
Period size: 85 Copynumber: 2.8 Consensus size: 85
8795358 TATCCGTTAC
* * * * **
8795368 TCGGTGGATTCCGCACTTAGCAACCACC-ATAAATTTAGTGATACGGGGAATCAACACATAGCAA
1 TCGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAACGATACGGGGAATCAACACATAGCAA
* **
8795432 CCCCTTTCACAATTAAGGAT
66 CCCATTTCACAATTAAAAAT
*
8795452 TCGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAACGATACGGGGAATCAACATC-TAGCA
1 TCGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAACGATACGGGGAATCAACA-CATAGCA
*
8795516 ACTCATTTCACAATTAAAAAT
65 ACCCATTTCACAATTAAAAAT
* * * * ** * * * *
8795537 ACGGTGGGATCAGCACTTAGCAACCACCTTTAGAGTCAATAATTCAGGGAATCAGCACTTAGCAA
1 TCGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAACGATACGGGGAATCAACACATAGCAA
8795602 CCC
66 CCC
8795605 CTCAGGGAAT
Statistics
Matches: 129, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
84 27 0.21
85 101 0.78
86 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (85 bp):
TCGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAACGATACGGGGAATCAACACATAGCAA
CCCATTTCACAATTAAAAAT
Found at i:8795609 original size:26 final size:26
Alignment explanation
Indices: 8795580--8795632 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
8795570 AGTCAATAAT
8795580 TCAGGGAATCAGCACTTAGCAACCCC
1 TCAGGGAATCAGCACTTAGCAACCCC
8795606 TCAGGGAATCAGCACTTAGCAACCCC
1 TCAGGGAATCAGCACTTAGCAACCCC
8795632 T
1 T
8795633 TTTTATTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.34, G:0.19, T:0.17
Consensus pattern (26 bp):
TCAGGGAATCAGCACTTAGCAACCCC
Found at i:8805393 original size:9 final size:9
Alignment explanation
Indices: 8805379--8805407 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
8805369 ATAAAATATG
8805379 TTATTCAAA
1 TTATTCAAA
8805388 TTATTCAAA
1 TTATTCAAA
8805397 TTATTCAAA
1 TTATTCAAA
8805406 TT
1 TT
8805408 GTAAAATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (9 bp):
TTATTCAAA
Found at i:8806060 original size:2 final size:2
Alignment explanation
Indices: 8806053--8806082 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
8806043 CGGGGAATGA
8806053 GT GT GT GT GT GT GT GT GT GT GT GT GT -T GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
8806083 ATGGTTGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:8811865 original size:8 final size:8
Alignment explanation
Indices: 8811852--8811887 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
8811842 TTAGAAATTC
8811852 AAAATAAT
1 AAAATAAT
8811860 AAAATAAT
1 AAAATAAT
8811868 AAAATAAT
1 AAAATAAT
8811876 AAAATAAT
1 AAAATAAT
8811884 AAAA
1 AAAA
8811888 GTTGATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (8 bp):
AAAATAAT
Found at i:8812518 original size:38 final size:38
Alignment explanation
Indices: 8812467--8812548 Score: 164
Period size: 38 Copynumber: 2.2 Consensus size: 38
8812457 TCATCCAAAC
8812467 GAATAAGTTGATTTGCCATTTAAAATTTTATAAGAAAA
1 GAATAAGTTGATTTGCCATTTAAAATTTTATAAGAAAA
8812505 GAATAAGTTGATTTGCCATTTAAAATTTTATAAGAAAA
1 GAATAAGTTGATTTGCCATTTAAAATTTTATAAGAAAA
8812543 GAATAA
1 GAATAA
8812549 AACCAAAGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.35
Consensus pattern (38 bp):
GAATAAGTTGATTTGCCATTTAAAATTTTATAAGAAAA
Found at i:8812649 original size:21 final size:21
Alignment explanation
Indices: 8812598--8812670 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
8812588 TATTTGAGGA
* *
8812598 TTGAGGATTGGAAATTCAAAA-
1 TTGAAGATTGAAAATT-AAAAT
* * *
8812619 TTAAAAATTGAAAATTTAAAT
1 TTGAAGATTGAAAATTAAAAT
8812640 TTGAAGATTGAAAATATAAAAT
1 TTGAAGATTGAAAAT-TAAAAT
8812662 TTGAA-ATTG
1 TTGAAGATTG
8812671 GGGATTGAAG
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 3 0.07
21 29 0.69
22 10 0.24
ACGTcount: A:0.49, C:0.01, G:0.15, T:0.34
Consensus pattern (21 bp):
TTGAAGATTGAAAATTAAAAT
Found at i:8812653 original size:28 final size:28
Alignment explanation
Indices: 8812608--8812699 Score: 73
Period size: 28 Copynumber: 3.3 Consensus size: 28
8812598 TTGAGGATTG
* * *
8812608 GAAATTCAAAATTAAAAATTGAAAATTT
1 GAAATTGAAGATTGAAAATTGAAAATTT
8812636 -AAATTTGAAGATTGAAAATAT-AAAATTT
1 GAAA-TTGAAGATTGAAAAT-TGAAAATTT
** * *
8812664 GAAATTGGGGATTGAAGATTGAAGA-TT
1 GAAATTGAAGATTGAAAATTGAAAATTT
8812691 GAGAATTGA
1 GA-AATTGA
8812700 GGAAGAAAGA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
27 8 0.16
28 39 0.76
29 4 0.08
ACGTcount: A:0.49, C:0.01, G:0.18, T:0.32
Consensus pattern (28 bp):
GAAATTGAAGATTGAAAATTGAAAATTT
Found at i:8822224 original size:21 final size:23
Alignment explanation
Indices: 8822180--8822227 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
8822170 TATAAAGATT
8822180 AATTTTTAATGATAAAATAAATAA
1 AATTTTTAAT-ATAAAATAAATAA
8822204 AATTTTTAAT-TAAAA-AAATAA
1 AATTTTTAATATAAAATAAATAA
8822225 AAT
1 AAT
8822228 ATAATTCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 9 0.38
22 5 0.21
24 10 0.42
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
AATTTTTAATATAAAATAAATAA
Found at i:8827052 original size:49 final size:50
Alignment explanation
Indices: 8826917--8827060 Score: 145
Period size: 49 Copynumber: 2.9 Consensus size: 50
8826907 AACCCTCTAT
* **
8826917 CAAGTCATATAAC-AGAAAGCTCATGTGAGCCATGTAAT-GGGAAGCTTATC
1 CAAGCCATATAACGAG-AAGCTCATAAGAGCCAT-TAATCGGGAAGCTTATC
** * * *
8826967 CGGGCTATATAACGGGAAGCTCATAAGAGCCA-TAATCGGGAAGCTTATG
1 CAAGCCATATAACGAGAAGCTCATAAGAGCCATTAATCGGGAAGCTTATC
*
8827016 CAAGCCA-ATAACGAGTAGCTC-TGAAGAGCCATTAATCGGGAAGCT
1 CAAGCCATATAACGAGAAGCTCAT-AAGAGCCATTAATCGGGAAGCT
8827061 CCGAATAGCC
Statistics
Matches: 77, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
47 1 0.01
48 24 0.31
49 28 0.36
50 23 0.30
51 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (50 bp):
CAAGCCATATAACGAGAAGCTCATAAGAGCCATTAATCGGGAAGCTTATC
Found at i:8827061 original size:25 final size:25
Alignment explanation
Indices: 8826979--8827086 Score: 82
Period size: 25 Copynumber: 4.4 Consensus size: 25
8826969 GGCTATATAA
8826979 CGGGAAGCTCAT-AAGAGCCA-TAAT
1 CGGGAAGCTC-TGAAGAGCCATTAAT
* * *
8827003 CGGGAAGCTTATGCA-AGCCAATAA-
1 CGGGAAGC-TCTGAAGAGCCATTAAT
* *
8827027 CGAGTAGCTCTGAAGAGCCATTAAT
1 CGGGAAGCTCTGAAGAGCCATTAAT
* * *
8827052 CGGGAAGCTCCGAATAGCCATATATT
1 CGGGAAGCTCTGAAGAGCCAT-TAAT
8827078 C-GGAAGCTC
1 CGGGAAGCTC
8827087 AAGTGAGCCA
Statistics
Matches: 66, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
23 4 0.06
24 28 0.42
25 30 0.45
26 4 0.06
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (25 bp):
CGGGAAGCTCTGAAGAGCCATTAAT
Found at i:8827266 original size:24 final size:26
Alignment explanation
Indices: 8827239--8827291 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 26
8827229 ATATCGTGAT
* *
8827239 GCTCCG-AAGAGCTAT-TAACGGGAA
1 GCTCCGCAAGAACTATATAACGGAAA
8827263 GCT-CGCAAGAACTATATAACGGAAA
1 GCTCCGCAAGAACTATATAACGGAAA
8827288 GCTC
1 GCTC
8827292 AAAAGGGCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
23 2 0.08
24 11 0.46
25 11 0.46
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.17
Consensus pattern (26 bp):
GCTCCGCAAGAACTATATAACGGAAA
Found at i:8827289 original size:25 final size:24
Alignment explanation
Indices: 8827245--8827291 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
8827235 TGATGCTCCG
* *
8827245 AAGAGCTATTAACGGGAAGCTCGC
1 AAGAACTATTAACGGAAAGCTCGC
8827269 AAGAACTATATAACGGAAAGCTC
1 AAGAACTAT-TAACGGAAAGCTC
8827292 AAAAGGGCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (24 bp):
AAGAACTATTAACGGAAAGCTCGC
Found at i:8830680 original size:18 final size:17
Alignment explanation
Indices: 8830643--8830686 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
8830633 TAAAAATTAT
**
8830643 TAAAAACATTAAAATTTG
1 TAAAAA-ATTAAAAAATG
8830661 TACAAAAATTAAAAAATG
1 TA-AAAAATTAAAAAATG
8830679 TAAAAAAT
1 TAAAAAAT
8830687 GATTAACAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 6 0.26
18 13 0.57
19 4 0.17
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.27
Consensus pattern (17 bp):
TAAAAAATTAAAAAATG
Found at i:8834221 original size:17 final size:18
Alignment explanation
Indices: 8834188--8834222 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8834178 TCGAATAATA
8834188 ATATGTAGCTGTGCTGAC
1 ATATGTAGCTGTGCTGAC
*
8834206 ATATGTATCT-TGCTGAC
1 ATATGTAGCTGTGCTGAC
8834223 GTACCGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (18 bp):
ATATGTAGCTGTGCTGAC
Found at i:8836059 original size:42 final size:42
Alignment explanation
Indices: 8836003--8836102 Score: 157
Period size: 42 Copynumber: 2.4 Consensus size: 42
8835993 TTATATGAAC
8836003 GGCACTAAGTGTGCGAAACTAAAAT-GACGAGGTTGAATAAAG
1 GGCACTAAGTGTGCGAAACTAAAATGGA-GAGGTTGAATAAAG
* * *
8836045 GGCACTAAGTGTGCGAAATTAAAATGGAGATGTTGAATAACG
1 GGCACTAAGTGTGCGAAACTAAAATGGAGAGGTTGAATAAAG
8836087 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
8836103 TACCGAGAGC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
42 52 0.96
43 2 0.04
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.21
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAACTAAAATGGAGAGGTTGAATAAAG
Found at i:8840723 original size:42 final size:42
Alignment explanation
Indices: 8840667--8840766 Score: 157
Period size: 42 Copynumber: 2.4 Consensus size: 42
8840657 TTATATGAAC
8840667 GGCACTAAGTGTGCGAAACTAAAAT-GACGAGGTTGAATAAAG
1 GGCACTAAGTGTGCGAAACTAAAATGGA-GAGGTTGAATAAAG
* * *
8840709 GGCACTAAGTGTGCGAAATTAAAATGGAGATGTTGAATAACG
1 GGCACTAAGTGTGCGAAACTAAAATGGAGAGGTTGAATAAAG
8840751 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
8840767 TACCGAGAGC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
42 52 0.96
43 2 0.04
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.21
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAACTAAAATGGAGAGGTTGAATAAAG
Found at i:8844888 original size:23 final size:21
Alignment explanation
Indices: 8844857--8844907 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
8844847 AAAAAAGGTT
**
8844857 TAAAAATATTTTTATAAAATTC
1 TAAAAATATAATTAT-AAATTC
*
8844879 TAAAATATATAATTATAAATTT
1 TAAAA-ATATAATTATAAATTC
8844901 TAAAAAT
1 TAAAAAT
8844908 TCAAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 15 0.60
23 8 0.32
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAAAATATAATTATAAATTC
Found at i:8844955 original size:17 final size:18
Alignment explanation
Indices: 8844901--8844955 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 18
8844891 TTATAAATTT
8844901 TAAAAATTCAAATAATATA
1 TAAAAATTCAAA-AATATA
* * * *
8844920 T-CAAATTGAAAAGTCTA
1 TAAAAATTCAAAAATATA
8844937 TAAAAATT-AAAAATATA
1 TAAAAATTCAAAAATATA
8844954 TA
1 TA
8844956 TTTAAATTTC
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
17 14 0.50
18 13 0.46
19 1 0.04
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (18 bp):
TAAAAATTCAAAAATATA
Found at i:8845926 original size:12 final size:12
Alignment explanation
Indices: 8845909--8845935 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8845899 TACTCTTATT
8845909 AAAAATTAGAAA
1 AAAAATTAGAAA
8845921 AAAAATTAGAAA
1 AAAAATTAGAAA
8845933 AAA
1 AAA
8845936 TAAAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (12 bp):
AAAAATTAGAAA
Found at i:8845933 original size:10 final size:9
Alignment explanation
Indices: 8845919--8845970 Score: 61
Period size: 10 Copynumber: 5.4 Consensus size: 9
8845909 AAAAATTAGA
8845919 AAAAAAATT
1 AAAAAAATT
8845928 AGAAAAAA-T
1 A-AAAAAATT
8845937 AAAAAAATTT
1 AAAAAAA-TT
8845947 AAAAAAATTT
1 AAAAAAA-TT
8845957 AAAAAAATTT
1 AAAAAAA-TT
8845967 AAAA
1 AAAA
8845971 TTTATTAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
8 6 0.15
9 3 0.08
10 31 0.77
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (9 bp):
AAAAAAATT
Found at i:8845950 original size:28 final size:27
Alignment explanation
Indices: 8845919--8845987 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 27
8845909 AAAAATTAGA
8845919 AAAAAAATTAGAAAAAATAAAAAAATTT
1 AAAAAAATTAGAAAAAAT-AAAAAATTT
**
8845947 AAAAAAATTTA-AAAAAATTTAAAATTT
1 AAAAAAA-TTAGAAAAAATAAAAAATTT
*
8845974 ATTAAAAATTAGAA
1 A-AAAAAATTAGAA
8845988 TTTTTTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 11 0.31
28 21 0.60
29 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (27 bp):
AAAAAAATTAGAAAAAATAAAAAATTT
Found at i:8845981 original size:20 final size:20
Alignment explanation
Indices: 8845918--8845970 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
8845908 TAAAAATTAG
*
8845918 AAAAAAAATTAGAAAAAA--T
1 AAAAAAATTTA-AAAAAATTT
8845937 AAAAAAATTTAAAAAAATTT
1 AAAAAAATTTAAAAAAATTT
8845957 AAAAAAATTTAAAA
1 AAAAAAATTTAAAA
8845971 TTTATTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
18 6 0.19
19 10 0.32
20 15 0.48
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (20 bp):
AAAAAAATTTAAAAAAATTT
Done.