Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 77 of 121
Found at i:13211592 original size:12 final size:13
Alignment explanation
Indices: 13211561--13211594 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
13211551 TTTTGTTATT
13211561 TTATTATTTTGAA
1 TTATTATTTTGAA
*
13211574 TTTTTATTTT-AA
1 TTATTATTTTGAA
13211586 TTATTATTT
1 TTATTATTT
13211595 GGAGAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (13 bp):
TTATTATTTTGAA
Found at i:13212581 original size:15 final size:15
Alignment explanation
Indices: 13212557--13212590 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
13212547 TTTCAAACCA
13212557 AAAAATAATAAAAAAT
1 AAAAATAAT-AAAAAT
13212573 AAAAA-AATAAAAAT
1 AAAAATAATAAAAAT
13212587 AAAA
1 AAAA
13212591 TTTTGGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
15 3 0.17
16 5 0.28
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (15 bp):
AAAAATAATAAAAAT
Found at i:13213060 original size:3 final size:3
Alignment explanation
Indices: 13213052--13213083 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
13213042 ATTTTCAACA
*
13213052 AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13213084 ACGATTAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13213888 original size:23 final size:23
Alignment explanation
Indices: 13213862--13213906 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
13213852 CTTTTAATAA
13213862 AACTATAAAAACGAGTTTAAAGT
1 AACTATAAAAACGAGTTTAAAGT
*
13213885 AACTATAAAAATGAGTTTAAAG
1 AACTATAAAAACGAGTTTAAAG
13213907 GTCTTATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (23 bp):
AACTATAAAAACGAGTTTAAAGT
Found at i:13216164 original size:14 final size:13
Alignment explanation
Indices: 13216121--13216214 Score: 59
Period size: 14 Copynumber: 6.8 Consensus size: 13
13216111 TTTTGTTCTC
13216121 TTTTT-TTTTGGTA
1 TTTTTATTTT-GTA
*
13216134 TTTATTATTTTTTTA
1 TTT-TTA-TTTTGTA
13216149 TTTTGTATTTTGTA
1 TTTT-TATTTTGTA
*
13216163 TTATTTTTTTTGTA
1 TT-TTTATTTTGTA
*
13216177 TTTCATATTTTGTAATA
1 TTT-TTATTTTG---TA
13216194 TTTTTATTTT-TA
1 TTTTTATTTTGTA
13216206 -TTTTATTTT
1 TTTTTATTTT
13216215 ATTTTGGGAC
Statistics
Matches: 66, Mismatches: 6, Indels: 20
0.72 0.07 0.22
Matches are distributed among these distances:
11 9 0.14
12 2 0.03
13 4 0.06
14 27 0.41
15 9 0.14
16 10 0.15
17 5 0.08
ACGTcount: A:0.17, C:0.01, G:0.06, T:0.76
Consensus pattern (13 bp):
TTTTTATTTTGTA
Found at i:13216167 original size:28 final size:27
Alignment explanation
Indices: 13216126--13216211 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 27
13216116 TTCTCTTTTT
*
13216126 TTTTGGTATTTATTATTTTTTTATTTTGTA
1 TTTT-GTA-TTATT-TTTTTTTATTTTATA
*
13216156 TTTTGTATTATTTTTTTTGTATTTCATA
1 TTTTGTATTATTTTTTTT-TATTTTATA
*
13216184 TTTTGTAATATTTTTATTTTTATTTTAT
1 TTTTGTATTA-TTTT-TTTTTATTTTAT
13216212 TTTATTTTGG
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
27 6 0.12
28 21 0.43
29 14 0.29
30 8 0.16
ACGTcount: A:0.19, C:0.01, G:0.07, T:0.73
Consensus pattern (27 bp):
TTTTGTATTATTTTTTTTTATTTTATA
Found at i:13216728 original size:34 final size:34
Alignment explanation
Indices: 13216689--13217652 Score: 283
Period size: 35 Copynumber: 26.9 Consensus size: 34
13216679 GAAATTAATG
* *
13216689 AAATGATCAGGATTAAACCACGAGCCAAAGATTA
1 AAATGATCGGGATTAAACCACGAGTCAAAGATTA
* * * * * * * *
13216723 AAATGA-CTGGGATTGAATCGCAAGTTAGAGAATG
1 AAATGATC-GGGATTAAACCACGAGTCAAAGATTA
13216757 AAATGATCGGGATTAAACCACGAGTCAAAGATTA
1 AAATGATCGGGATTAAACCACGAGTCAAAGATTA
* * ****
13216791 AAGATGA-CTGAGATTGAACTTTAAGTCAAGAGATTAA
1 AA-ATGATC-GGGATTAAACCACGAGTCAA-AGATT-A
* *
13216828 TGAAATGACCGGGATTAAACCACGAGTCAAGGATTA
1 --AAATGATCGGGATTAAACCACGAGTCAAAGATTA
* * * *
13216864 AAGATGA-CTGGGACTAAACCGCAAGTCAGGAA-ATAATG
1 AA-ATGATC-GGGATTAAACCACGAGTCA--AAGAT--TA
* **
13216902 AAATGACCGGGATTAAACCGTGAGTCAAAGATTA
1 AAATGATCGGGATTAAACCACGAGTCAAAGATTA
* * * * * * *
13216936 AAGATGA-CTGGGACTAAATCGCAAGTTAAAGAATG
1 AA-ATGATC-GGGATTAAACCACGAGTCAAAGATTA
* * *
13216971 AAATGATCGGGATTAAATCATGAGTTAAAGATTA
1 AAATGATCGGGATTAAACCACGAGTCAAAGATTA
* ** * * *
13217005 AAGATTGA-CGGGATTGAACTGCAAGTCAGAGAATGA
1 AA-A-TGATCGGGATTAAACCACGAGTCAAAG-ATTA
* *
13217041 AAATGACCAGGATTAAACCCACGAGTCCAAAGATTA
1 AAATGATCGGGATTAAA-CCACGAGT-CAAAGATTA
* ****
13217077 AAGATGA-CTGGGATTGAACTTTAAGTCAAGAGATTAA
1 AA-ATGATC-GGGATTAAACCACGAGTCAA-AGATT-A
* * *
13217114 TGAAATGACCGAGATTAAACCACGAGTCAAGGATTA
1 --AAATGATCGGGATTAAACCACGAGTCAAAGATTA
* * * * * *
13217150 AAGATGA-CTGGGACTAAATCGCAAGTTAG-GAAATAATG
1 AA-ATGATC-GGGATTAAA-C-CACG--AGTCAAAGATTA
*
13217188 AAATGATCGGGATTAAACCGCGAGTCAAAGATTA
1 AAATGATCGGGATTAAACCACGAGTCAAAGATTA
* * * * *
13217222 AAGATGA-CTGAGACTAAATTGCA-AAGTCAAGAAATTAA
1 AA-ATGATC-GGGATTAAA--CCACGAGTCAA-AGATT-A
* *
13217260 TGAAATGATC-GGATTAAACCGCGAGTTAAAGATTA
1 --AAATGATCGGGATTAAACCACGAGTCAAAGATTA
* *** *
13217295 AAGATGA-CTGGGGTTAAACCGTAAGTCAAGAAATTAA
1 AA-ATGATC-GGGATTAAACCACGAGTCAA-AGATT-A
*
13217332 TGAAATGACCGGGATTAAACCACGAGTCAAAGATTA
1 --AAATGATCGGGATTAAACCACGAGTCAAAGATTA
* *** *
13217368 AAGATGA-CTGGGACTAAACCGTAAGTCAGGAA-ATAATG
1 AA-ATGATC-GGGATTAAACCACGAGTCA--AAGAT--TA
**
13217406 AAATGATCGGGATTAAACCGTGAGTCAAAGATTA
1 AAATGATCGGGATTAAACCACGAGTCAAAGATTA
* * * * *
13217440 AAGATGATTGGGACTAAACCGCAAGTCAAGAAATTAA
1 AA-ATGATCGGGATTAAACCACGAGTCAA-AGATT-A
* *
13217477 TGAAATGATCGAGATTAAACCACGAGTCAAGGATTA
1 --AAATGATCGGGATTAAACCACGAGTCAAAGATTA
* * * *
13217513 AAGATGA-CTGGGACTAAACCGCAAGTCAGGAA-ATAATG
1 AA-ATGATC-GGGATTAAACCACGAGTCA--AAGAT--TA
* * * *
13217551 AAATGACCGAGATTAAACCGCGAGTCCAAGATTA
1 AAATGATCGGGATTAAACCACGAGTCAAAGATTA
* * * *
13217585 AAGATGA-CTGAGACTAAACCGC-ACGTCAGAAAATTAA
1 AA-ATGATC-GGGATTAAACCACGA-GTCA-AAGATT-A
*
13217622 TGAAATGATCGGGATTAAACCACGAGCCAAA
1 --AAATGATCGGGATTAAACCACGAGTCAAA
13217653 AGGTAAAGAT
Statistics
Matches: 683, Mismatches: 158, Indels: 175
0.67 0.16 0.17
Matches are distributed among these distances:
33 6 0.01
34 114 0.17
35 218 0.32
36 75 0.11
37 126 0.18
38 120 0.18
39 21 0.03
40 3 0.00
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.21
Consensus pattern (34 bp):
AAATGATCGGGATTAAACCACGAGTCAAAGATTA
Found at i:13216848 original size:73 final size:73
Alignment explanation
Indices: 13216618--13217693 Score: 1222
Period size: 73 Copynumber: 14.9 Consensus size: 73
13216608 AAAATAAGAA
* * * ** * *
13216618 GATCGGGATTAAACCACGAATCAAATATTAAACGATGACTGGGACTGAACCATAAATCGAGGAAA
1 GATCGGGATTAAACCACGAGTCAAAGATTAAA-GATGACTGGGACTAAACCGCAAGTC-AAGAAA
13216683 TTAATGAAAT
64 TTAATGAAAT
* * * * * * *
13216693 GATCAGGATTAAACCACGAGCCAAAGATTAAA-ATGACTGGGATTGAATCGCAAGT-TAG--A-G
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
13216753 AATGAAAT
66 AATGAAAT
* * * *** *
13216761 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGAGATTGAACTTTAAGTCAAGAGATT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
13216826 AATGAAAT
66 AATGAAAT
* * *
13216834 GACCGGGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTAAACCGCAAGTCAGGAAA-T
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
13216898 AATGAAAT
66 AATGAAAT
* ** * * *
13216906 GACCGGGATTAAACCGTGAGTCAAAGATTAAAGATGACTGGGACTAAATCGCAAGT---TAAA-G
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
13216967 AATGAAAT
66 AATGAAAT
* * * * * *
13216975 GATCGGGATTAAATCATGAGTTAAAGATTAAAGATTGAC-GGGATTGAACTGCAAGTC-AG--A-
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGA-TGACTGGGACTAAACCGCAAGTCAAGAAAT
*
13217035 GAATGAAAAT
65 TAATG-AAAT
* * * * *** *
13217045 GACCAGGATTAAACCCACGAGTCCAAAGATTAAAGATGACTGGGATTGAACTTTAAGTCAAGAGA
1 GATCGGGATTAAA-CCACGAGT-CAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAA
13217110 TTAATGAAAT
64 TTAATGAAAT
* * * * * *
13217120 GACCGAGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTAAATCGCAAGTTAGGAAA-T
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
13217184 AATGAAAT
66 AATGAAAT
* * **
13217192 GATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGAGACTAAATTGCAAAGTCAAGAAAT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGC-AAGTCAAGAAAT
13217257 TAATGAAAT
65 TAATGAAAT
* * ** *
13217266 GATC-GGATTAAACCGCGAGTTAAAGATTAAAGATGACTGGGGTTAAACCGTAAGTCAAGAAATT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
13217330 AATGAAAT
66 AATGAAAT
* * *
13217338 GACCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGTAAGTCAGGAAA-T
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
13217402 AATGAAAT
66 AATGAAAT
** *
13217410 GATCGGGATTAAACCGTGAGTCAAAGATTAAAGATGATTGGGACTAAACCGCAAGTCAAGAAATT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
13217475 AATGAAAT
66 AATGAAAT
* * *
13217483 GATCGAGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTAAACCGCAAGTCAGGAAA-T
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
13217547 AATGAAAT
66 AATGAAAT
* * * * * *
13217555 GACCGAGATTAAACCGCGAGTCCAAGATTAAAGATGACTGAGACTAAACCGCACGTC-AGAAAAT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAG-AAAT
13217619 TAATGAAAT
65 TAATGAAAT
* * *
13217628 GATCGGGATTAAACCACGAGCCAAA-AGGTAAAGATGACTGGGACTAAACCGCAAGTCAAAAAAT
1 GATCGGGATTAAACCACGAGTCAAAGA-TTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAAT
13217692 TA
65 TA
13217694 TATAAGACTG
Statistics
Matches: 862, Mismatches: 115, Indels: 50
0.84 0.11 0.05
Matches are distributed among these distances:
68 38 0.04
69 79 0.09
70 21 0.02
71 12 0.01
72 299 0.35
73 343 0.40
74 22 0.03
75 44 0.05
76 4 0.00
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (73 bp):
GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
AATGAAAT
Found at i:13216935 original size:145 final size:145
Alignment explanation
Indices: 13216618--13217686 Score: 1182
Period size: 145 Copynumber: 7.4 Consensus size: 145
13216608 AAAATAAGAA
* * ** * * *
13216618 GATCGGGATTAAACCACGAATCAAATATTAAACGATGACTGGGACTGAACCATAAATCGAGGAAA
1 GATCGGGATTAAACCACGAGTCAAAGATTAAA-GATGACTGGGACTGAACTGTAAGTC-AAGAGA
* * * * *
13216683 TTAATGAAATGATCAGGATTAAACCACGAGCCAAAGATTAAA-ATGACTGGGATTGAATCGCAAG
64 TTAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAG
* *
13216747 TTA-G--AGAATGAAAT
129 TCAGGAAATAATGAAAT
* * *
13216761 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGAGATTGAACTTTAAGTCAAGAGATT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTGAACTGTAAGTCAAGAGATT
* *
13216826 AATGAAATGACCGGGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTAAACCGCAAGTC
66 AATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTC
13216891 AGGAAATAATGAAAT
131 AGGAAATAATGAAAT
* ** * * *
13216906 GACCGGGATTAAACCGTGAGTCAAAGATTAAAGATGACTGGGACT-AAATCGCAAGTTAA-AG--
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTGAACT-GTAAGTCAAGAGAT
* * * * * *
13216967 -AATGAAATGATCGGGATTAAATCATGAGTTAAAGATTAAAGATTGAC-GGGATTGAACTGCAAG
65 TAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGA-TGACTGGGACTAAACCGCAAG
*
13217030 TCA-G--AGAATGAAAAT
129 TCAGGAAATAATG-AAAT
* * * *
13217045 GACCAGGATTAAACCCACGAGTCCAAAGATTAAAGATGACTGGGATTGAACTTTAAGTCAAGAGA
1 GATCGGGATTAAA-CCACGAGT-CAAAGATTAAAGATGACTGGGACTGAACTGTAAGTCAAGAGA
* * * *
13217110 TTAATGAAATGACCGAGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTAAATCGCAAG
64 TTAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAG
*
13217175 TTAGGAAATAATGAAAT
129 TCAGGAAATAATGAAAT
* * * * * *
13217192 GATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGAGACTAAATTGCAAAGTCAAGAAAT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTGAACTG-TAAGTCAAGAGAT
* * ** *
13217257 TAATGAAATGATC-GGATTAAACCGCGAGTTAAAGATTAAAGATGACTGGGGTTAAACCGTAAGT
65 TAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGT
*
13217321 CAAGAAATTAATGAAAT
130 CAGGAAA-TAATGAAAT
* * * * *
13217338 GACCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGTAAGTCAGGA-AAT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTGAACTGTAAGTCAAGAGATT
** *
13217402 AATGAAATGATCGGGATTAAACCGTGAGTCAAAGATTAAAGATGATTGGGACTAAACCGCAAGTC
66 AATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTC
*
13217467 AAGAAATTAATGAAAT
131 AGGAAA-TAATGAAAT
* * * * * * *
13217483 GATCGAGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTAAACCGCAAGTCAGGA-AAT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTGAACTGTAAGTCAAGAGATT
* * * * * *
13217547 AATGAAATGACCGAGATTAAACCGCGAGTCCAAGATTAAAGATGACTGAGACTAAACCGCACGTC
66 AATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTC
*
13217612 AGAAAATTAATGAAAT
131 AGGAAA-TAATGAAAT
* * * * *
13217628 GATCGGGATTAAACCACGAGCCAAA-AGGTAAAGATGACTGGGACTAAACCGCAAGTCAA
1 GATCGGGATTAAACCACGAGTCAAAGA-TTAAAGATGACTGGGACTGAACTGTAAGTCAA
13217687 AAAATTATAT
Statistics
Matches: 795, Mismatches: 109, Indels: 42
0.84 0.12 0.04
Matches are distributed among these distances:
138 5 0.01
139 16 0.02
140 7 0.01
141 124 0.16
142 50 0.06
143 31 0.04
144 24 0.03
145 432 0.54
146 86 0.11
147 15 0.02
148 5 0.01
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.20
Consensus pattern (145 bp):
GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTGAACTGTAAGTCAAGAGATT
AATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTC
AGGAAATAATGAAAT
Found at i:13218712 original size:10 final size:10
Alignment explanation
Indices: 13218697--13218777 Score: 51
Period size: 10 Copynumber: 7.7 Consensus size: 10
13218687 TCCTTTCTCA
13218697 TTTTTTTTTG
1 TTTTTTTTTG
*
13218707 TTTTTTTTTCA
1 TTTTTTTTT-G
13218718 TTTCATTTTTT-
1 TTT--TTTTTTG
13218729 TTCATTTTTGTTG
1 TT--TTTTT-TTG
13218742 -TTTTTTTTG
1 TTTTTTTTTG
13218751 TTGTTTTTTT-
1 TT-TTTTTTTG
* *
13218761 TATTTTTTTA
1 TTTTTTTTTG
13218771 TTTTTTT
1 TTTTTTT
13218778 AAGCAAAATA
Statistics
Matches: 58, Mismatches: 3, Indels: 20
0.72 0.04 0.25
Matches are distributed among these distances:
9 10 0.17
10 22 0.38
11 16 0.28
12 3 0.05
13 7 0.12
ACGTcount: A:0.06, C:0.04, G:0.06, T:0.84
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:13229290 original size:23 final size:23
Alignment explanation
Indices: 13229235--13229280 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
13229225 TTTTTAATAA
13229235 AACTATAAAAACGAGTTTAAAGT
1 AACTATAAAAACGAGTTTAAAGT
13229258 AACTATAAAAACGAGTTTAAAGT
1 AACTATAAAAACGAGTTTAAAGT
13229281 TTATTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.09, G:0.13, T:0.26
Consensus pattern (23 bp):
AACTATAAAAACGAGTTTAAAGT
Found at i:13231590 original size:23 final size:24
Alignment explanation
Indices: 13231564--13231625 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 24
13231554 TTCTGTTCTC
13231564 TTTTTTTTTTGTATTTATTATT-A
1 TTTTTTTTTTGTATTTATTATTGA
* * *
13231587 TTTTTATTTTGTA-TTATTTTTGG
1 TTTTTTTTTTGTATTTATTATTGA
*
13231610 TATTTTTTTTGTATTT
1 TTTTTTTTTTGTATTT
13231626 CGTATTTTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 7 0.22
23 23 0.72
24 2 0.06
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (24 bp):
TTTTTTTTTTGTATTTATTATTGA
Found at i:13231601 original size:16 final size:16
Alignment explanation
Indices: 13231582--13231666 Score: 55
Period size: 16 Copynumber: 5.0 Consensus size: 16
13231572 TTGTATTTAT
13231582 TATTATTTTTATTTTG
1 TATTATTTTTATTTTG
*
13231598 TATTATTTTTGGTATTTTT
1 TATTA-TTTT--TATTTTG
* *
13231617 TTTGTATTTCGTATTTTG
1 TAT-TATTT-TTATTTTG
* *
13231635 TAATATTATTATTTT-
1 TATTATTTTTATTTTG
*
13231650 TATTTTATTTTATTTTG
1 TATTAT-TTTTATTTTG
13231667 GGATAAAAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 13
0.68 0.15 0.17
Matches are distributed among these distances:
15 4 0.08
16 19 0.37
17 8 0.16
18 7 0.14
19 11 0.22
20 2 0.04
ACGTcount: A:0.19, C:0.01, G:0.08, T:0.72
Consensus pattern (16 bp):
TATTATTTTTATTTTG
Found at i:13232293 original size:101 final size:101
Alignment explanation
Indices: 13232118--13232319 Score: 314
Period size: 101 Copynumber: 2.0 Consensus size: 101
13232108 AGATAGCCTT
* *
13232118 AGGAATACATTGTTCTTGGTAGAGATAAATCTAATCCAGCACAAGTCCTTGATGATCTTGAAAAA
1 AGGAATACATTGTTCCTAGTAGAGATAAATCTAATCCAGCACAAGTCCTTGATGATCTTGAAAAA
* *
13232183 CTAAAAAAATTGAAGAAAAGTTCATTTAAAGCAACA
66 CTAAAAAAATTAAAAAAAAGTTCATTTAAAGCAACA
*** **
13232219 AGGAATACATTGTTCCTAGTAGAGATAAATCTAATCCAGTGTAAGTTTTTGATGATCTTGAAAAA
1 AGGAATACATTGTTCCTAGTAGAGATAAATCTAATCCAGCACAAGTCCTTGATGATCTTGAAAAA
*
13232284 CTAAAAAAATTAAAAAAAATTTCATTTAAAGCAACA
66 CTAAAAAAATTAAAAAAAAGTTCATTTAAAGCAACA
13232320 GAAGATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 91 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (101 bp):
AGGAATACATTGTTCCTAGTAGAGATAAATCTAATCCAGCACAAGTCCTTGATGATCTTGAAAAA
CTAAAAAAATTAAAAAAAAGTTCATTTAAAGCAACA
Found at i:13234432 original size:11 final size:10
Alignment explanation
Indices: 13234418--13234485 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 10
13234408 TGAAAAGTAC
*
13234418 AAAAAAATG-
1 AAAAAAAAGA
13234427 AAAAAAAA-A
1 AAAAAAAAGA
*
13234436 CAAAAAAA-A
1 AAAAAAAAGA
13234445 AAAAAAAAGA
1 AAAAAAAAGA
13234455 AAAAGGAAAAGA
1 AAAA--AAAAGA
*
13234467 ATGAAAAAAGA
1 A-AAAAAAAGA
13234478 AGAAAAAA
1 A-AAAAAA
13234486 TTGATAGGGC
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
9 22 0.46
10 5 0.10
11 12 0.25
12 7 0.15
13 2 0.04
ACGTcount: A:0.84, C:0.01, G:0.12, T:0.03
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:13234440 original size:17 final size:17
Alignment explanation
Indices: 13234419--13234485 Score: 57
Period size: 16 Copynumber: 3.9 Consensus size: 17
13234409 GAAAAGTACA
13234419 AAAAAATGAAAAAAAAAC
1 AAAAAA-GAAAAAAAAAC
13234437 AAAAAA-AAAAAAAAA-
1 AAAAAAGAAAAAAAAAC
* * **
13234452 AGAAAAAGGAAAAGAATG
1 A-AAAAAGAAAAAAAAAC
13234470 AAAAAAGAAGAAAAAA
1 AAAAAAGAA-AAAAAA
13234486 TTGATAGGGC
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
15 1 0.03
16 14 0.35
17 13 0.32
18 12 0.30
ACGTcount: A:0.84, C:0.01, G:0.12, T:0.03
Consensus pattern (17 bp):
AAAAAAGAAAAAAAAAC
Found at i:13234449 original size:19 final size:19
Alignment explanation
Indices: 13234416--13234452 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13234406 GATGAAAAGT
**
13234416 ACAAAAAAATGAAAAAAAA
1 ACAAAAAAAAAAAAAAAAA
13234435 ACAAAAAAAAAAAAAAAA
1 ACAAAAAAAAAAAAAAAA
13234453 GAAAAAGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.89, C:0.05, G:0.03, T:0.03
Consensus pattern (19 bp):
ACAAAAAAAAAAAAAAAAA
Found at i:13234463 original size:7 final size:7
Alignment explanation
Indices: 13234419--13234483 Score: 53
Period size: 7 Copynumber: 8.9 Consensus size: 7
13234409 GAAAAGTACA
13234419 AAAAAATG
1 AAAAAA-G
13234427 AAAAAA-
1 AAAAAAG
13234433 AAACAAA-
1 AAA-AAAG
*
13234440 AAAAAAA
1 AAAAAAG
13234447 AAAAAAG
1 AAAAAAG
*
13234454 AAAAAGG
1 AAAAAAG
13234461 AAAAGAATG
1 AAAA-AA-G
13234470 AAAAAAG
1 AAAAAAG
13234477 AAGAAAA
1 AA-AAAA
13234484 AATTGATAGG
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
6 6 0.12
7 25 0.51
8 13 0.27
9 5 0.10
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.03
Consensus pattern (7 bp):
AAAAAAG
Found at i:13236644 original size:6 final size:6
Alignment explanation
Indices: 13236618--13236665 Score: 62
Period size: 6 Copynumber: 8.0 Consensus size: 6
13236608 AGCTCAAACA
* *
13236618 AATTTT AAGTTTT GA-TTT AATTTT AATTTT AATTTT AATTTT GATTTT
1 AATTTT AA-TTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
13236666 TTGGTTTACT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
5 4 0.11
6 28 0.76
7 5 0.14
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (6 bp):
AATTTT
Found at i:13238293 original size:77 final size:77
Alignment explanation
Indices: 13238148--13238306 Score: 200
Period size: 77 Copynumber: 2.1 Consensus size: 77
13238138 AACAATAAAA
* * * *
13238148 TTTTCAATCCTTCCAAACTATTAGAGAATTAAATCTTGAATTAAGTTCTACCAAATTATTAAAGG
1 TTTTTAATCCTACCAAACTATTAGAGAATTAAATCTTGAATTAAATTCTACCAAACTATTAAAGG
13238213 ATTTAATGAA-TT
66 ATTTAAT-AAGTT
* *
13238225 TTTTTAATCCTACCAAACTATTAGAGGATCTAAATCTTGAATTAAATAT-TA-CAAACTATTGGA
1 TTTTTAATCCTACCAAACTATTAGAGAAT-TAAATCTTGAATTAAAT-TCTACCAAACTATT-AA
13238288 A-GATTTAATAAGTT
63 AGGATTTAATAAGTT
13238302 TTTTT
1 TTTTT
13238307 TAAGTAAAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
76 2 0.03
77 49 0.68
78 20 0.28
79 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (77 bp):
TTTTTAATCCTACCAAACTATTAGAGAATTAAATCTTGAATTAAATTCTACCAAACTATTAAAGG
ATTTAATAAGTT
Found at i:13238401 original size:38 final size:37
Alignment explanation
Indices: 13238331--13238402 Score: 99
Period size: 38 Copynumber: 1.9 Consensus size: 37
13238321 TAAATGGTTT
* *
13238331 TCAAATAAAATCTCATCAAACTATTAGGAGATTTGCA
1 TCAAATAAAATCTCACCAAACTATTAGAAGATTTGCA
* *
13238368 TCAAAGTAAAATCTTACCAAACTATTATAAGATTT
1 TCAAA-TAAAATCTCACCAAACTATTAGAAGATTT
13238403 TACTAATTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 5 0.17
38 25 0.83
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.32
Consensus pattern (37 bp):
TCAAATAAAATCTCACCAAACTATTAGAAGATTTGCA
Found at i:13242111 original size:29 final size:30
Alignment explanation
Indices: 13242074--13242142 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
13242064 TTTAAACATG
*
13242074 ACACAAATAAACATGAATGATAC-ATATAT
1 ACACAAATAAACATGAATAATACAATATAT
* * *
13242103 ACACGAATAGACATGACTAATACGAATATAT
1 ACACAAATAAACATGAATAATAC-AATATAT
*
13242134 ACAAAAATA
1 ACACAAATA
13242143 TGACTAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 19 0.59
31 13 0.41
ACGTcount: A:0.55, C:0.14, G:0.09, T:0.22
Consensus pattern (30 bp):
ACACAAATAAACATGAATAATACAATATAT
Found at i:13242280 original size:13 final size:13
Alignment explanation
Indices: 13242262--13242286 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13242252 TACTCATTTA
13242262 ATATGTATTTAAT
1 ATATGTATTTAAT
13242275 ATATGTATTTAA
1 ATATGTATTTAA
13242287 ATTTTAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
ATATGTATTTAAT
Found at i:13246990 original size:10 final size:11
Alignment explanation
Indices: 13246971--13247004 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
13246961 AATTTAACCG
13246971 AAATATTAAAA
1 AAATATTAAAA
13246982 AAA-ATTAAAA
1 AAATATTAAAA
*
13246992 AAATACTAAAA
1 AAATATTAAAA
13247003 AA
1 AA
13247005 GCTAGTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (11 bp):
AAATATTAAAA
Found at i:13247340 original size:19 final size:20
Alignment explanation
Indices: 13247302--13247341 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13247292 TTTTAAACTT
**
13247302 TTCTAAAAAAAAACTTCAAA
1 TTCTAAAAAAAAACAACAAA
13247322 TTCTAAAAAAAAA-AACAAA
1 TTCTAAAAAAAAACAACAAA
13247341 T
1 T
13247342 GGCCAACAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (20 bp):
TTCTAAAAAAAAACAACAAA
Found at i:13250778 original size:16 final size:17
Alignment explanation
Indices: 13250759--13250837 Score: 74
Period size: 17 Copynumber: 4.6 Consensus size: 17
13250749 TATTTCATCA
13250759 TTTCT-TTTTCTTTTTT
1 TTTCTCTTTTCTTTTTT
*
13250775 TTTCTATTCTTTCTTTTTAT
1 TTTCT-CT-TTTCTTTTT-T
13250795 TTT-TCTTTTCTTTTTT
1 TTTCTCTTTTCTTTTTT
* *
13250811 TTT-TGTTTCCCTTTTTT
1 TTTCTCTTT-TCTTTTTT
13250828 TTTCTCTTTT
1 TTTCTCTTTT
13250838 AATTAAATGG
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
16 13 0.25
17 19 0.37
18 6 0.12
19 10 0.19
20 4 0.08
ACGTcount: A:0.03, C:0.15, G:0.01, T:0.81
Consensus pattern (17 bp):
TTTCTCTTTTCTTTTTT
Found at i:13250784 original size:21 final size:20
Alignment explanation
Indices: 13250760--13250819 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
13250750 ATTTCATCAT
13250760 TTCTTTTTCTTTTTTTTTCTA
1 TTCTTTTT-TTTTTTTTTCTA
* *
13250781 TTCTTTCTTTTTATTTTTCTT
1 TTCTTT-TTTTTTTTTTTCTA
*
13250802 TTCTTTTTTTTTTGTTTC
1 TTCTTTTTTTTTTTTTTC
13250820 CCTTTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 10 0.29
21 22 0.65
22 2 0.06
ACGTcount: A:0.03, C:0.13, G:0.02, T:0.82
Consensus pattern (20 bp):
TTCTTTTTTTTTTTTTTCTA
Found at i:13250803 original size:26 final size:27
Alignment explanation
Indices: 13250735--13250805 Score: 80
Period size: 26 Copynumber: 2.7 Consensus size: 27
13250725 AGGATACTTG
13250735 TCTTTTTA-TTTTCTTATT-TCATCATT
1 TCTTTTTATTTTTCTT-TTCTCATCATT
*
13250761 TCTTTTTCTTTTT-TTTTCT-ATTC-TT
1 TCTTTTTATTTTTCTTTTCTCA-TCATT
13250786 TCTTTTTATTTTTCTTTTCT
1 TCTTTTTATTTTTCTTTTCT
13250806 TTTTTTTTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
25 17 0.44
26 18 0.46
27 4 0.10
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.76
Consensus pattern (27 bp):
TCTTTTTATTTTTCTTTTCTCATCATT
Found at i:13254749 original size:10 final size:10
Alignment explanation
Indices: 13254736--13254769 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
13254726 GGTCCAACTT
*
13254736 TAAAAATTTT
1 TAAAAATTTA
*
13254746 TAAATATTTA
1 TAAAAATTTA
13254756 TAAAAATTTA
1 TAAAAATTTA
13254766 TAAA
1 TAAA
13254770 GTGGATCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TAAAAATTTA
Found at i:13254912 original size:9 final size:9
Alignment explanation
Indices: 13254898--13254924 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
13254888 ATTATTAGTT
13254898 TATTTTATA
1 TATTTTATA
13254907 TATTTTATA
1 TATTTTATA
13254916 TATTTTATA
1 TATTTTATA
13254925 AATAAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TATTTTATA
Found at i:13261081 original size:19 final size:19
Alignment explanation
Indices: 13261057--13261095 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
13261047 AAAATCGTGA
*
13261057 TTTTTTGTTCAATTCAAAT
1 TTTTTTATTCAATTCAAAT
**
13261076 TTTTTTATTTGATTCAAAT
1 TTTTTTATTCAATTCAAAT
13261095 T
1 T
13261096 AAATTTAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTTTTATTCAATTCAAAT
Found at i:13261277 original size:18 final size:20
Alignment explanation
Indices: 13261243--13261285 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
13261233 CTAAATCAAA
*
13261243 TTATATATTTTTATTAATTT
1 TTATATATTTTTATTAAATT
13261263 TTATATA-TTTT-TTAAATT
1 TTATATATTTTTATTAAATT
13261281 TTATA
1 TTATA
13261286 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.50
19 4 0.18
20 7 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATATATTTTTATTAAATT
Found at i:13262746 original size:2 final size:2
Alignment explanation
Indices: 13262741--13262769 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
13262731 GAAAAAACAG
13262741 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13262770 GGGCCTGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:13264037 original size:2 final size:2
Alignment explanation
Indices: 13264030--13264069 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
13264020 CATGAAACCC
*
13264030 CT CT CT CT CT CT CT CT CT CT GT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
13264070 GCTAGAACTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.47, G:0.03, T:0.50
Consensus pattern (2 bp):
CT
Found at i:13265877 original size:20 final size:21
Alignment explanation
Indices: 13265829--13265877 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
13265819 CTATTGTTCA
13265829 TTAATTGTATAATTTGATTATG
1 TTAATTG-ATAATTTGATTATG
* *
13265851 TT-TTTGATAGTTTGATTAT-
1 TTAATTGATAATTTGATTATG
13265870 TTAATTGA
1 TTAATTGA
13265878 ATTTAGAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 2 0.09
20 16 0.70
21 3 0.13
22 2 0.09
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (21 bp):
TTAATTGATAATTTGATTATG
Found at i:13266004 original size:7 final size:6
Alignment explanation
Indices: 13265988--13266028 Score: 52
Period size: 5 Copynumber: 7.2 Consensus size: 6
13265978 TGTGCTTAAA
13265988 ATATA- ATATAT AGTATAT AT-TAT AT-TAT ATATAT ATATAT A
1 ATATAT ATATAT A-TATAT ATATAT ATATAT ATATAT ATATAT A
13266029 GACAGACCCC
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
5 15 0.45
6 12 0.36
7 6 0.18
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (6 bp):
ATATAT
Found at i:13266006 original size:2 final size:2
Alignment explanation
Indices: 13265988--13266028 Score: 52
Period size: 2 Copynumber: 21.5 Consensus size: 2
13265978 TGTGCTTAAA
13265988 AT AT A- AT AT AT AGT AT AT AT -T AT AT -T AT AT AT AT AT AT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13266028 A
1 A
13266029 GACAGACCCC
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
1 3 0.09
2 30 0.86
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13266011 original size:12 final size:10
Alignment explanation
Indices: 13265988--13266028 Score: 52
Period size: 9 Copynumber: 4.3 Consensus size: 10
13265978 TGTGCTTAAA
13265988 ATATA-ATAT
1 ATATATATAT
13265997 ATAGTATATAT
1 ATA-TATATAT
13266008 -TATAT-TAT
1 ATATATATAT
13266016 ATATATATAT
1 ATATATATAT
13266026 ATA
1 ATA
13266029 GACAGACCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
8 3 0.11
9 11 0.39
10 10 0.36
11 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (10 bp):
ATATATATAT
Found at i:13268410 original size:3 final size:3
Alignment explanation
Indices: 13268402--13268442 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
13268392 ATTTTGATTG
13268402 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
13268443 TTTTTGTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13269346 original size:4 final size:5
Alignment explanation
Indices: 13269309--13269358 Score: 57
Period size: 5 Copynumber: 9.4 Consensus size: 5
13269299 CAAGTTTTTC
13269309 TTATT TTATT TTATT TTATGTT TTCATT TT-TAT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTA--TT TT-ATT TTAT-T TTATT TTATT TTATT
13269357 TT
1 TT
13269359 TTGTTTTACT
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
4 1 0.03
5 29 0.73
6 5 0.12
7 4 0.10
8 1 0.03
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:13269375 original size:33 final size:33
Alignment explanation
Indices: 13269309--13269416 Score: 100
Period size: 33 Copynumber: 3.3 Consensus size: 33
13269299 CAAGTTTTTC
*
13269309 TTATTTTATTTTATTTTATGTTTTCATTTTTAT
1 TTATTTTATTTTATTTTATGTTTTCATTATTAT
*
13269342 TTATTTTATTTTATTTTTTGTTTT-ACTTATTA-
1 TTATTTTATTTTATTTTATGTTTTCA-TTATTAT
* *
13269374 TTATTCTCATTATTATTATTAT-TATT-ATTATTA-
1 TTATT-TTATT-TTATT-TTATGTTTTCATTATTAT
13269407 TTATTATTAT
1 TTATT-TTAT
13269417 CATCATCATC
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
32 6 0.09
33 46 0.72
34 9 0.14
35 3 0.05
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (33 bp):
TTATTTTATTTTATTTTATGTTTTCATTATTAT
Found at i:13269376 original size:3 final size:3
Alignment explanation
Indices: 13269368--13269525 Score: 130
Period size: 3 Copynumber: 53.7 Consensus size: 3
13269358 TTTGTTTTAC
* *
13269368 TTA TTA TTA TTC TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * *
13269416 TCA TCA TCA TCA TCA TT- TTA TCT- TTA ATC TTA CTTA TT- TTA -AA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA -TTA TTA TTA TTA
** *
13269459 TTGA ACA AT- TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13269503 TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
13269526 TTAAATGCCT
Statistics
Matches: 130, Mismatches: 16, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
2 9 0.07
3 116 0.89
4 5 0.04
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:13271623 original size:19 final size:20
Alignment explanation
Indices: 13271583--13271627 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
13271573 CCCGAAATTA
13271583 ATAAAATATTATTTTTAAAAT
1 ATAAAATATTATTTTT-AAAT
13271604 ATAAAATATTATTTTT-AAT
1 ATAAAATATTATTTTTAAAT
13271623 ATAAA
1 ATAAA
13271628 TATAAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 8 0.33
21 16 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAAAATATTATTTTTAAAT
Found at i:13271665 original size:18 final size:18
Alignment explanation
Indices: 13271620--13271657 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
13271610 TATTATTTTT
13271620 AATATA-AATATAAAATTA
1 AATATATAA-ATAAAATTA
13271638 AATATATAAATAAAATTA
1 AATATATAAATAAAATTA
13271656 AA
1 AA
13271658 AGTTTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATATATAAATAAAATTA
Found at i:13278171 original size:12 final size:12
Alignment explanation
Indices: 13278156--13278196 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
13278146 AACTAACCAT
13278156 AAAAAATTGTTC
1 AAAAAATTGTTC
*
13278168 AAAAAA---TTA
1 AAAAAATTGTTC
13278177 AAAAAATTGTTC
1 AAAAAATTGTTC
13278189 AAAAAATT
1 AAAAAATT
13278197 AAAAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
9 8 0.33
12 16 0.67
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (12 bp):
AAAAAATTGTTC
Found at i:13278182 original size:21 final size:21
Alignment explanation
Indices: 13278156--13278205 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
13278146 AACTAACCAT
13278156 AAAAAATTGTTCAAAAAATTA
1 AAAAAATTGTTCAAAAAATTA
13278177 AAAAAATTGTTCAAAAAATTA
1 AAAAAATTGTTCAAAAAATTA
13278198 AAAAAATT
1 AAAAAATT
13278206 TTAGCTTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (21 bp):
AAAAAATTGTTCAAAAAATTA
Found at i:13281561 original size:28 final size:28
Alignment explanation
Indices: 13281521--13281575 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
13281511 TCGAACCTCG
*
13281521 CCTCTAGTCAGAGGATCATTTTAAAGTT
1 CCTCTAGTAAGAGGATCATTTTAAAGTT
*
13281549 CCTCTAGTAAGAGGATTATTTTAAAGT
1 CCTCTAGTAAGAGGATCATTTTAAAGT
13281576 AGTTTAGCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (28 bp):
CCTCTAGTAAGAGGATCATTTTAAAGTT
Found at i:13281804 original size:17 final size:18
Alignment explanation
Indices: 13281782--13281816 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
13281772 TTCCTATTTT
13281782 ATAGGAATG-TGCAAAAA
1 ATAGGAATGATGCAAAAA
13281799 ATAGGAATGATGCAAAAA
1 ATAGGAATGATGCAAAAA
13281817 GGGATAACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.54, C:0.06, G:0.23, T:0.17
Consensus pattern (18 bp):
ATAGGAATGATGCAAAAA
Found at i:13282999 original size:15 final size:15
Alignment explanation
Indices: 13282979--13283025 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
13282969 TTTACTTGTT
13282979 ATTATTATTATTTTC
1 ATTATTATTATTTTC
*
13282994 ATTATTATTGTTGTT-
1 ATTATTATTATT-TTC
* *
13283009 GTTATTATTATTATC
1 ATTATTATTATTTTC
13283024 AT
1 AT
13283026 CATCATCATC
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
14 1 0.04
15 22 0.88
16 2 0.08
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (15 bp):
ATTATTATTATTTTC
Found at i:13283000 original size:18 final size:18
Alignment explanation
Indices: 13282977--13283022 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
13282967 GTTTTACTTG
13282977 TTATTATTATTATT-TTCA
1 TTATTATTATTATTGTT-A
* *
13282995 TTATTATTGTTGTTGTTA
1 TTATTATTATTATTGTTA
13283013 TTATTATTAT
1 TTATTATTAT
13283023 CATCATCATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 22 0.92
19 2 0.08
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (18 bp):
TTATTATTATTATTGTTA
Found at i:13283085 original size:3 final size:3
Alignment explanation
Indices: 13283077--13283123 Score: 85
Period size: 3 Copynumber: 15.3 Consensus size: 3
13283067 ATTGAGCAAT
13283077 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
13283123 T
1 T
13283124 ATACATATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13286449 original size:19 final size:19
Alignment explanation
Indices: 13286404--13286464 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
13286394 TTTTTCTAGA
* *
13286404 TCTTCTTCTTTTTCTCTTC
1 TCTTTTTCTTTATCTCTTC
* **
13286423 CCAATTTCTTT-TCTTCTTC
1 TCTTTTTCTTTATC-TCTTC
13286442 TCTTTTTCTTTATCTCTTC
1 TCTTTTTCTTTATCTCTTC
13286461 TCTT
1 TCTT
13286465 CCATACACCC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
18 2 0.06
19 29 0.88
20 2 0.06
ACGTcount: A:0.05, C:0.30, G:0.00, T:0.66
Consensus pattern (19 bp):
TCTTTTTCTTTATCTCTTC
Found at i:13289048 original size:20 final size:20
Alignment explanation
Indices: 13289011--13289069 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 20
13289001 GTTGTTTCAA
13289011 TTAAAAATTACTTATTTTTTG
1 TTAAAAATTACTT-TTTTTTG
*
13289032 TTAAAAATTACTTTTTTTTT
1 TTAAAAATTACTTTTTTTTG
13289052 TTAAAAATATATCTTTTT
1 TTAAAAAT-TA-CTTTTT
13289070 GAAAGATTGT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 14 0.40
21 15 0.43
22 6 0.17
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (20 bp):
TTAAAAATTACTTTTTTTTG
Found at i:13290007 original size:2 final size:2
Alignment explanation
Indices: 13290000--13290025 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13289990 GTAATACATG
13290000 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
13290026 ACTTACATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13292380 original size:17 final size:16
Alignment explanation
Indices: 13292319--13292401 Score: 60
Period size: 17 Copynumber: 4.9 Consensus size: 16
13292309 AAATTTTAAA
*
13292319 AAATATTTTAAAATTCT
1 AAATATTTTAAAA-ACT
13292336 AAA-ATATTTAAAAACT
1 AAATAT-TTTAAAAACT
* **
13292352 ATAAAAAATTAAAAACT
1 A-AATATTTTAAAAACT
*
13292369 GAAATATTTTAAAAAAT
1 -AAATATTTTAAAAACT
13292386 AATATATATTTAAAAA
1 AA-ATAT-TTTAAAAA
13292402 AATCTCAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
16 7 0.13
17 36 0.68
18 10 0.19
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (16 bp):
AAATATTTTAAAAACT
Found at i:13292454 original size:31 final size:30
Alignment explanation
Indices: 13292397--13292454 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 30
13292387 ATATATATTT
* * *
13292397 AAAAAAATCTCAAAATTTTATTAAAAATCC
1 AAAAAAATCTCAAAAATTAATAAAAAATCC
*
13292427 AAAAAAATTCTGAAAAATTAATAAAAAA
1 AAAAAAA-TCTCAAAAATTAATAAAAAA
13292455 AGAAAGTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 7 0.30
31 16 0.70
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.26
Consensus pattern (30 bp):
AAAAAAATCTCAAAAATTAATAAAAAATCC
Found at i:13292692 original size:29 final size:30
Alignment explanation
Indices: 13292659--13292720 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
13292649 ATTTTTTGGA
*
13292659 TTTTTTGAATTTT-TTATTTTTTTCA-AAAT
1 TTTTTTGAATTTTATAATTTTTTT-AGAAAT
*
13292688 TTTTTTTAATTTTATAATTTTTTTAGAAAT
1 TTTTTTGAATTTTATAATTTTTTTAGAAAT
13292718 TTT
1 TTT
13292721 AAAATTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 13 0.45
30 16 0.55
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.69
Consensus pattern (30 bp):
TTTTTTGAATTTTATAATTTTTTTAGAAAT
Found at i:13292728 original size:17 final size:18
Alignment explanation
Indices: 13292707--13292769 Score: 65
Period size: 17 Copynumber: 3.4 Consensus size: 18
13292697 TTTTATAATT
*
13292707 TTTTTAGAAATTTTAAAA
1 TTTTCAGAAATTTTAAAA
* *
13292725 TTTTCA-AAATTTTTAAT
1 TTTTCAGAAATTTTAAAA
*
13292742 TTTTCAGAATTTTTAATAGA
1 TTTTCAGAAATTTTAA-A-A
13292762 TTTTCAGA
1 TTTTCAGA
13292770 TTTTTTTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
17 15 0.42
18 12 0.33
19 1 0.03
20 8 0.22
ACGTcount: A:0.37, C:0.05, G:0.06, T:0.52
Consensus pattern (18 bp):
TTTTCAGAAATTTTAAAA
Found at i:13292840 original size:35 final size:35
Alignment explanation
Indices: 13292773--13292840 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
13292763 TTTCAGATTT
* *
13292773 TTTTTAAAAATTTAGATGTTTATAATTTTCAAATC
1 TTTTCAAAAATTTAGATGTTTATAATTCTCAAATC
* *
13292808 TTTTCAAAAATTTTAGAT-TTTTTTATTCTCAAA
1 TTTTCAAAAA-TTTAGATGTTTATAATTCTCAAA
13292841 ATTTTAAAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 21 0.75
36 7 0.25
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.53
Consensus pattern (35 bp):
TTTTCAAAAATTTAGATGTTTATAATTCTCAAATC
Found at i:13292896 original size:17 final size:17
Alignment explanation
Indices: 13292870--13292914 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
13292860 TCTTTTTTTT
*
13292870 TTTTAATTTTAAGAAAG
1 TTTTATTTTTAAGAAAG
**
13292887 TTTTATTTTTATTAAAG
1 TTTTATTTTTAAGAAAG
13292904 TTTTCATTTTT
1 TTTT-ATTTTT
13292915 TGAATTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (17 bp):
TTTTATTTTTAAGAAAG
Found at i:13293034 original size:11 final size:10
Alignment explanation
Indices: 13293013--13293042 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
13293003 AAATATTTAT
13293013 TTTTTAAAAC
1 TTTTTAAAAC
13293023 TTTTTAATAAC
1 TTTTTAA-AAC
13293034 TTTTTAAAA
1 TTTTTAAAA
13293043 TATTTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (10 bp):
TTTTTAAAAC
Found at i:13295461 original size:7 final size:7
Alignment explanation
Indices: 13295451--13295476 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13295441 AATATTTAAT
13295451 AATTTTA
1 AATTTTA
13295458 AATTTTA
1 AATTTTA
13295465 AATTTTA
1 AATTTTA
13295472 AATTT
1 AATTT
13295477 CAAAGACTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTTA
Found at i:13298836 original size:10 final size:10
Alignment explanation
Indices: 13298812--13298841 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
13298802 TATTTTATCA
13298812 ATTAAAATA-
1 ATTAAAATAT
13298821 ATTAAAATAT
1 ATTAAAATAT
13298831 ATTAAAATAT
1 ATTAAAATAT
13298841 A
1 A
13298842 AAAATTCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:13298853 original size:19 final size:19
Alignment explanation
Indices: 13298808--13298854 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
13298798 GAAATATTTT
*
13298808 ATCAATTAAAATAATTAAA
1 ATCAATTAAAATAATAAAA
13298827 AT-ATATTAAAAT-ATAAAA
1 ATCA-ATTAAAATAATAAAA
13298845 ATTCAATTAA
1 A-TCAATTAA
13298855 GCTAGTGAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 7 0.29
19 16 0.67
20 1 0.04
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (19 bp):
ATCAATTAAAATAATAAAA
Found at i:13300131 original size:2 final size:2
Alignment explanation
Indices: 13300124--13300153 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13300114 ACATGCACAG
13300124 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
13300154 TTGCGTCCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:13305745 original size:14 final size:13
Alignment explanation
Indices: 13305722--13305751 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
13305712 GAAAATCTAA
13305722 ATATTACATATAT
1 ATATTACATATAT
13305735 ATATATACATATAT
1 ATAT-TACATATAT
13305749 ATA
1 ATA
13305752 ATCAAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATTACATATAT
Found at i:13308569 original size:21 final size:22
Alignment explanation
Indices: 13308528--13308579 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
13308518 TGTGGCCCAT
*
13308528 TTTTATTTTTATTGAAATTCA-A
1 TTTT-TTTTTATTCAAATTCACA
13308550 TTTTTTTTT-TTCAAATTTCACA
1 TTTTTTTTTATTCAAA-TTCACA
*
13308572 ATTTTTTT
1 TTTTTTTT
13308580 AAAATTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 5 0.19
21 9 0.35
22 12 0.46
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTTTTTTTATTCAAATTCACA
Found at i:13308672 original size:21 final size:21
Alignment explanation
Indices: 13308646--13308685 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
13308636 TTTATTATTA
13308646 TTTTTTATGT-ATTTTTATAAT
1 TTTTTTAT-TAATTTTTATAAT
13308667 TTTTTTATTAATTTTTATA
1 TTTTTTATTAATTTTTATA
13308686 TTATAGGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTTTATTAATTTTTATAAT
Found at i:13308993 original size:11 final size:11
Alignment explanation
Indices: 13308977--13309018 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
13308967 AATCTCATAA
13308977 GAGATTTGTTT
1 GAGATTTGTTT
*
13308988 GAGATTTGTTA
1 GAGATTTGTTT
*
13308999 GAGATTTATTT
1 GAGATTTGTTT
13309010 GAGATTTGT
1 GAGATTTGT
13309019 CAGATATTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:13309004 original size:22 final size:22
Alignment explanation
Indices: 13308976--13309018 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
13308966 AAATCTCATA
*
13308976 AGAGATTTGTTTGAGATTTGTT
1 AGAGATTTATTTGAGATTTGTT
13308998 AGAGATTTATTTGAGATTTGT
1 AGAGATTTATTTGAGATTTGT
13309019 CAGATATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (22 bp):
AGAGATTTATTTGAGATTTGTT
Found at i:13309136 original size:52 final size:52
Alignment explanation
Indices: 13309044--13309188 Score: 175
Period size: 52 Copynumber: 2.8 Consensus size: 52
13309034 GGACAAGAAA
* * * *
13309044 ACTTACAAAAGAAGAATTCCAAGA-GAAAGAAGATTTTTAATAAGTAAGTTTG
1 ACTTACAAGAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAAGTAAGTTTG
* * *
13309096 ACTTGCAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGTAAGTTTG
1 ACTTACAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAAGTAAGTTTG
* * * *
13309148 ACTTATAGGAGAAAAATTCTAAGAGGAGAGGGATTCTTAAT
1 ACTTACAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAAT
13309189 GGGCAAGTTT
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
52 74 0.94
53 5 0.06
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.27
Consensus pattern (52 bp):
ACTTACAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAAGTAAGTTTG
Found at i:13309721 original size:31 final size:31
Alignment explanation
Indices: 13309685--13309769 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
13309675 AGGCTTTTAG
* *
13309685 CCCAACAAATAGTATCAGAGCTGTGGTGATC
1 CCCAACAAGTGGTATCAGAGCTGTGGTGATC
* *
13309716 TCCAACAAGTGGTATCAGAGCTGTGGTGTTC
1 CCCAACAAGTGGTATCAGAGCTGTGGTGATC
*
13309747 CCCAACAAGTGGTATCAAAGCTG
1 CCCAACAAGTGGTATCAGAGCTG
13309770 AAAGTTCAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (31 bp):
CCCAACAAGTGGTATCAGAGCTGTGGTGATC
Found at i:13310137 original size:11 final size:11
Alignment explanation
Indices: 13310121--13310162 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
13310111 AATCCCATAA
13310121 GAGATTTGTTT
1 GAGATTTGTTT
*
13310132 GAGATTTGTTA
1 GAGATTTGTTT
13310143 GAGATTTGTTT
1 GAGATTTGTTT
13310154 GAGATTTGT
1 GAGATTTGT
13310163 CAGATATTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:13310148 original size:22 final size:22
Alignment explanation
Indices: 13310120--13310162 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
13310110 AAATCCCATA
13310120 AGAGATTTGTTTGAGATTTGTT
1 AGAGATTTGTTTGAGATTTGTT
13310142 AGAGATTTGTTTGAGATTTGT
1 AGAGATTTGTTTGAGATTTGT
13310163 CAGATATTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (22 bp):
AGAGATTTGTTTGAGATTTGTT
Found at i:13310303 original size:51 final size:51
Alignment explanation
Indices: 13310215--13310338 Score: 166
Period size: 51 Copynumber: 2.5 Consensus size: 51
13310205 TTCAAGAGAA
* *
13310215 AGAA-GATTCTTAATAGGTAAGTTTGACTTACAAGAGAATAATTCTAAAAG
1 AGAAGGATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAG
* *
13310265 -GAAAGGATTCTTTAATAGGCAAGTTTGA-TTACAGGAGAAGAATTCTAAGAG
1 AG-AAGGATTC-TTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAG
13310316 AGAAGGATTCTTAAT-GGCAAGTT
1 AGAAGGATTCTTAATAGGCAAGTT
13310339 GTATGGTTAT
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
49 9 0.14
50 7 0.11
51 33 0.50
52 17 0.26
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (51 bp):
AGAAGGATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAG
Found at i:13311092 original size:12 final size:11
Alignment explanation
Indices: 13311075--13311105 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
13311065 TCAAATTTGA
*
13311075 TTTTTTTCATC
1 TTTTTTTAATC
13311086 TTTTTTTAATC
1 TTTTTTTAATC
13311097 TTTTTTTAA
1 TTTTTTTAA
13311106 AAAATTCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTTTTAATC
Found at i:13311785 original size:20 final size:19
Alignment explanation
Indices: 13311757--13311809 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
13311747 TGACTATATA
*
13311757 TATTAAATTATATTTTATG
1 TATTTAATTATATTTTATG
*
13311776 TTATTTAATTTTATATTTATG
1 -TATTTAATTATAT-TTTATG
*
13311797 TATGT-ATTATATT
1 TATTTAATTATATT
13311810 AATAAGTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 1 0.04
19 6 0.21
20 15 0.54
21 6 0.21
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (19 bp):
TATTTAATTATATTTTATG
Found at i:13312513 original size:2 final size:2
Alignment explanation
Indices: 13312506--13312531 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13312496 TCCTAATTTG
13312506 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
13312532 GAAATGATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13315851 original size:24 final size:24
Alignment explanation
Indices: 13315816--13315861 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
13315806 GAATTCTCAA
13315816 ATGTCACCTCTTAAATGTGACTAC
1 ATGTCACCTCTTAAATGTGACTAC
*
13315840 ATGTCACTTCTTAAATGTGACT
1 ATGTCACCTCTTAAATGTGACT
13315862 TCATAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (24 bp):
ATGTCACCTCTTAAATGTGACTAC
Found at i:13321903 original size:21 final size:21
Alignment explanation
Indices: 13321879--13321921 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
13321869 CAAGCTCGAT
13321879 TCGTGATCGAATTCGAGCTAC
1 TCGTGATCGAATTCGAGCTAC
13321900 TCGTGATCGAATTCGAGCTAC
1 TCGTGATCGAATTCGAGCTAC
13321921 T
1 T
13321922 TAAGCTCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (21 bp):
TCGTGATCGAATTCGAGCTAC
Found at i:13322936 original size:16 final size:17
Alignment explanation
Indices: 13322903--13322938 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
13322893 TATTTAATAT
*
13322903 TAAAATTAAATTTTTTA
1 TAAAATTAAATGTTTTA
13322920 TAAAATTAAA-GTTTTA
1 TAAAATTAAATGTTTTA
13322936 TAA
1 TAA
13322939 TTTTTAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TAAAATTAAATGTTTTA
Found at i:13323023 original size:22 final size:23
Alignment explanation
Indices: 13322965--13323042 Score: 68
Period size: 23 Copynumber: 3.4 Consensus size: 23
13322955 GTAAAAAAAA
* * * *
13322965 ATCATAAAATATAATTTTAAAAT
1 ATCAAAAAATAAAACTTTGAAAT
* * *
13322988 ATAAAAAAATAAAAGTTTTAAAT
1 ATCAAAAAATAAAACTTTGAAAT
* *
13323011 GTTAAAAAA-AAAACTTTGAAAT
1 ATCAAAAAATAAAACTTTGAAAT
13323033 ATCAAAAAAT
1 ATCAAAAAAT
13323043 CCATACAAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
22 18 0.42
23 25 0.58
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (23 bp):
ATCAAAAAATAAAACTTTGAAAT
Found at i:13330709 original size:36 final size:36
Alignment explanation
Indices: 13330669--13330740 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
13330659 AACAATTATT
* *
13330669 AAGTTATTTAAATGGCATAAACAAATTGGCAGTAAA
1 AAGTTATATAAATGGCATAAACAAATTGACAGTAAA
**
13330705 AAGTTATATAAATGGCATAAATGAATTGACAGTAAA
1 AAGTTATATAAATGGCATAAACAAATTGACAGTAAA
13330741 CTTTGAATGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.49, C:0.07, G:0.17, T:0.28
Consensus pattern (36 bp):
AAGTTATATAAATGGCATAAACAAATTGACAGTAAA
Found at i:13338849 original size:21 final size:21
Alignment explanation
Indices: 13338825--13338867 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
13338815 TGAAGCGAAA
*
13338825 GAAA-CGAAGTTTTTCAGGTTT
1 GAAACCGAAGGTTTT-AGGTTT
*
13338846 GAAACCGTAGGTTTTAGGTTT
1 GAAACCGAAGGTTTTAGGTTT
13338867 G
1 G
13338868 GATTTAGACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.26, C:0.09, G:0.28, T:0.37
Consensus pattern (21 bp):
GAAACCGAAGGTTTTAGGTTT
Found at i:13349359 original size:5 final size:5
Alignment explanation
Indices: 13349349--13349377 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
13349339 TTTAACACAC
13349349 ATATT ATATT ATATT ATATT ATATT ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
13349378 ATAGATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:13349722 original size:2 final size:2
Alignment explanation
Indices: 13349715--13349759 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
13349705 CTTACCCAAC
13349715 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
13349757 CT C
1 CT C
13349760 AGCCATGGCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:13363529 original size:38 final size:38
Alignment explanation
Indices: 13363455--13363529 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 38
13363445 ATTTTGTTGA
*
13363455 TAAAAATTTCGTCAGTAATTGCATCAAAAATTCATCGG
1 TAAAAATTTCGTCAGTAATTGCATCAAAAATGCATCGG
* * **
13363493 TAAAAA-TTCTGTCGGTAATTGCGTCTGAAATGCATCG
1 TAAAAATTTC-GTCAGTAATTGCATCAAAAATGCATCG
13363530 ATGGTCCATC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 3 0.10
38 28 0.90
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (38 bp):
TAAAAATTTCGTCAGTAATTGCATCAAAAATGCATCGG
Found at i:13363815 original size:17 final size:19
Alignment explanation
Indices: 13363789--13363825 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
13363779 TTATCTACAT
*
13363789 AAATTCTAAA-TT-AATCC
1 AAATTATAAAGTTAAATCC
13363806 AAATTATAAAGTTAAATCC
1 AAATTATAAAGTTAAATCC
13363825 A
1 A
13363826 TAAGATCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.51, C:0.14, G:0.03, T:0.32
Consensus pattern (19 bp):
AAATTATAAAGTTAAATCC
Found at i:13364792 original size:39 final size:40
Alignment explanation
Indices: 13364748--13364832 Score: 102
Period size: 39 Copynumber: 2.2 Consensus size: 40
13364738 TATCGGTGTG
* * * *
13364748 AAAGATGGCCT-GTATGGTAGATCATGTTATATTGATGCT
1 AAAGATGGACTCGTATAGTAGATCATGCTATATCGATGCT
* *
13364787 GAAGAT-GACTCGTATAGTGGATCATGCTATATCGATGCT
1 AAAGATGGACTCGTATAGTAGATCATGCTATATCGATGCT
13364826 AAAGATG
1 AAAGATG
13364833 ATTTGGTATG
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
38 3 0.08
39 34 0.92
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.32
Consensus pattern (40 bp):
AAAGATGGACTCGTATAGTAGATCATGCTATATCGATGCT
Found at i:13365118 original size:11 final size:12
Alignment explanation
Indices: 13365100--13365156 Score: 73
Period size: 11 Copynumber: 4.9 Consensus size: 12
13365090 ACATATATTG
13365100 ACAACATTAAAT
1 ACAACATTAAAT
*
13365112 A-AACATTATAT
1 ACAACATTAAAT
*
13365123 ACAACATTGAAT
1 ACAACATTAAAT
*
13365135 A-AACATTATAT
1 ACAACATTAAAT
13365146 ACAACATTAAA
1 ACAACATTAAA
13365157 AGTCATACTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
11 19 0.51
12 18 0.49
ACGTcount: A:0.56, C:0.14, G:0.02, T:0.28
Consensus pattern (12 bp):
ACAACATTAAAT
Found at i:13365130 original size:23 final size:23
Alignment explanation
Indices: 13365100--13365156 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
13365090 ACATATATTG
13365100 ACAACATTAAATAAACATTATAT
1 ACAACATTAAATAAACATTATAT
*
13365123 ACAACATTGAATAAACATTATAT
1 ACAACATTAAATAAACATTATAT
13365146 ACAACATTAAA
1 ACAACATTAAA
13365157 AGTCATACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.56, C:0.14, G:0.02, T:0.28
Consensus pattern (23 bp):
ACAACATTAAATAAACATTATAT
Found at i:13365235 original size:6 final size:6
Alignment explanation
Indices: 13365224--13365257 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
13365214 CAGCATTATC
* *
13365224 ATCATG ATCATG ATCATA ATCATA ATCATG ATCA
1 ATCATG ATCATG ATCATG ATCATG ATCATG ATCA
13365258 CTATCTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (6 bp):
ATCATG
Found at i:13367623 original size:28 final size:30
Alignment explanation
Indices: 13367564--13367623 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 30
13367554 CTTTTATTGC
* ** *
13367564 AATAACAAAAAAATGCTTATTTCAAGTTCA
1 AATAACAAAAAAATACCCATTTCAAGTCCA
13367594 AATAA-AAAAAAATACCCATTTC-AGTCCA
1 AATAACAAAAAAATACCCATTTCAAGTCCA
13367622 AA
1 AA
13367624 GAAAGTAAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 7 0.27
29 14 0.54
30 5 0.19
ACGTcount: A:0.53, C:0.17, G:0.05, T:0.25
Consensus pattern (30 bp):
AATAACAAAAAAATACCCATTTCAAGTCCA
Found at i:13367765 original size:22 final size:22
Alignment explanation
Indices: 13367724--13367765 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13367714 GATTTTACTT
* *
13367724 TCCAACATAAGTACACAAATTC
1 TCCAACACAAGCACACAAATTC
*
13367746 TCCAACACAAGCACAGAAAT
1 TCCAACACAAGCACACAAAT
13367766 GCCTATTTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.29, G:0.07, T:0.17
Consensus pattern (22 bp):
TCCAACACAAGCACACAAATTC
Found at i:13371354 original size:21 final size:21
Alignment explanation
Indices: 13371308--13371354 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
13371298 CGACAAAAAC
* *
13371308 ATGATTTACTCATTTTAAATT
1 ATGATTTACTAATTTAAAATT
*
13371329 TTGATTTAC-AATTTAAAAGTT
1 ATGATTTACTAATTTAAAA-TT
13371350 ATGAT
1 ATGAT
13371355 ATAGCATAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (21 bp):
ATGATTTACTAATTTAAAATT
Found at i:13372244 original size:27 final size:28
Alignment explanation
Indices: 13372188--13372244 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
13372178 TTATTGTAAT
* *
13372188 AATAAAAAAAATACCTATTTCAAGTTCA
1 AATAAAAAAAATACCCATTTCAAGTCCA
*
13372216 AATAAAAAAAATGCCCATTTC-AGTCCA
1 AATAAAAAAAATACCCATTTCAAGTCCA
13372243 AA
1 AA
13372245 GAAAGTAAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.53, C:0.18, G:0.05, T:0.25
Consensus pattern (28 bp):
AATAAAAAAAATACCCATTTCAAGTCCA
Found at i:13372373 original size:22 final size:22
Alignment explanation
Indices: 13372332--13372373 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13372322 GATTTTACTT
* *
13372332 TCCAACAAAAGTACACAAATTC
1 TCCAACAAAAGCACAAAAATTC
*
13372354 TCCAACACAAGCACAAAAAT
1 TCCAACAAAAGCACAAAAAT
13372374 GCCTATTTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.29, G:0.05, T:0.14
Consensus pattern (22 bp):
TCCAACAAAAGCACAAAAATTC
Found at i:13375242 original size:19 final size:21
Alignment explanation
Indices: 13375220--13375264 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
13375210 AAAAAACAAA
*
13375220 AGAAGTTA-AAAAAAAG-TTG
1 AGAAATTAGAAAAAAAGCTTG
13375239 AGAAATTAGGAAAAAAAGCTTG
1 AGAAATTA-GAAAAAAAGCTTG
13375261 AGAA
1 AGAA
13375265 TCTGTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 7 0.32
21 8 0.36
22 7 0.32
ACGTcount: A:0.58, C:0.02, G:0.22, T:0.18
Consensus pattern (21 bp):
AGAAATTAGAAAAAAAGCTTG
Found at i:13376139 original size:16 final size:16
Alignment explanation
Indices: 13376114--13376148 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13376104 CAATCGTAGG
13376114 TTTTTGCTTTTC-TTT
1 TTTTTGCTTTTCATTT
13376129 TTTTATGCTTTTCATTT
1 TTTT-TGCTTTTCATTT
13376146 TTT
1 TTT
13376149 CATTTTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 8 0.44
17 6 0.33
ACGTcount: A:0.06, C:0.11, G:0.06, T:0.77
Consensus pattern (16 bp):
TTTTTGCTTTTCATTT
Found at i:13376148 original size:8 final size:8
Alignment explanation
Indices: 13376137--13376162 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
13376127 TTTTTTATGC
13376137 TTTTCATT
1 TTTTCATT
13376145 TTTTCATT
1 TTTTCATT
13376153 TTTTCATT
1 TTTTCATT
13376161 TT
1 TT
13376163 CTATTATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTCATT
Found at i:13376195 original size:21 final size:21
Alignment explanation
Indices: 13376151--13376196 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
13376141 CATTTTTTCA
*
13376151 TTTTTTCATTTTCTATTATCT
1 TTTTTTCATTTTCTATTATAT
* *
13376172 TTTTTTCCTTTTCTATTTTAT
1 TTTTTTCATTTTCTATTATAT
13376193 TTTT
1 TTTT
13376197 ATTTTTTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTTTCATTTTCTATTATAT
Found at i:13376351 original size:18 final size:18
Alignment explanation
Indices: 13376330--13376390 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
13376320 TTTATTTTTG
*
13376330 TGCATGAGTTTAATTAAT
1 TGCATGAGTTTAATTATT
*
13376348 TGCATG-TTTTAATATATT
1 TGCATGAGTTTAAT-TATT
* *
13376366 TGCTTGAGTTTGATTATT
1 TGCATGAGTTTAATTATT
13376384 TGCATGA
1 TGCATGA
13376391 TTACTTAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
17 6 0.17
18 24 0.69
19 5 0.14
ACGTcount: A:0.26, C:0.07, G:0.18, T:0.49
Consensus pattern (18 bp):
TGCATGAGTTTAATTATT
Found at i:13376463 original size:20 final size:20
Alignment explanation
Indices: 13376338--13376471 Score: 76
Period size: 20 Copynumber: 7.2 Consensus size: 20
13376328 TGTGCATGAG
*
13376338 TTTAAT-TAATTGCATG-T-
1 TTTAATATATTTGCATGATA
* *
13376355 TTTAATATATTTGCTTGA-G
1 TTTAATATATTTGCATGATA
*
13376374 TTTGAT-TATTTGCATGATTA
1 TTTAATATATTTGCATGA-TA
* *
13376394 CTTAATAT-TGTG--TG--A
1 TTTAATATATTTGCATGATA
*
13376409 -TTAATATATTTTCATGACTA
1 TTTAATATATTTGCATGA-TA
* *
13376429 -ATAATAATTTTTGCATGATA
1 TTTAAT-ATATTTGCATGATA
13376449 TTTAATATATTTGCATGATA
1 TTTAATATATTTGCATGATA
13376469 TTT
1 TTT
13376472 TTGGTATGAT
Statistics
Matches: 88, Mismatches: 15, Indels: 25
0.69 0.12 0.20
Matches are distributed among these distances:
14 7 0.08
15 3 0.03
17 8 0.09
18 20 0.23
19 5 0.06
20 30 0.34
21 15 0.17
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.51
Consensus pattern (20 bp):
TTTAATATATTTGCATGATA
Found at i:13377621 original size:12 final size:12
Alignment explanation
Indices: 13377604--13377643 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
13377594 TTAATACACA
13377604 CATTTTATTATT
1 CATTTTATTATT
13377616 CATTTTATTA-T
1 CATTTTATTATT
*
13377627 CTTTTTATTATT
1 CATTTTATTATT
*
13377639 TATTT
1 CATTT
13377644 AAGTTTTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (12 bp):
CATTTTATTATT
Found at i:13377634 original size:11 final size:11
Alignment explanation
Indices: 13377604--13377637 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
13377594 TTAATACACA
13377604 CATTTTATTATT
1 CATTTTATTA-T
13377616 CATTTTATTAT
1 CATTTTATTAT
*
13377627 CTTTTTATTAT
1 CATTTTATTAT
13377638 TTATTTAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.68
Consensus pattern (11 bp):
CATTTTATTAT
Found at i:13378199 original size:3 final size:3
Alignment explanation
Indices: 13378180--13378242 Score: 99
Period size: 3 Copynumber: 20.7 Consensus size: 3
13378170 TATATTATGG
* *
13378180 TAT TAT TTT TAT ATAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13378226 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
13378243 GTTTAAAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
3 52 0.95
4 3 0.05
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:13380812 original size:14 final size:16
Alignment explanation
Indices: 13380782--13380818 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
13380772 TTACGAGTAT
13380782 TAAAAAAAATCTTTTCA
1 TAAAAAAAATC-TTTCA
13380799 -AAAAAAAATC-TTCA
1 TAAAAAAAATCTTTCA
13380813 TAAAAA
1 TAAAAA
13380819 GTTTTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.21
15 5 0.26
16 10 0.53
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.27
Consensus pattern (16 bp):
TAAAAAAAATCTTTCA
Found at i:13381802 original size:23 final size:22
Alignment explanation
Indices: 13381776--13381819 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
13381766 TCTTTTTCTT
*
13381776 ATTGTATGCATGCTTCATGCATC
1 ATTGCATGCATGC-TCATGCATC
* *
13381799 ATTGCATTCATTCTCATGCAT
1 ATTGCATGCATGCTCATGCAT
13381820 AATTTGATAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.41
Consensus pattern (22 bp):
ATTGCATGCATGCTCATGCATC
Found at i:13384267 original size:47 final size:44
Alignment explanation
Indices: 13384136--13384281 Score: 141
Period size: 44 Copynumber: 3.2 Consensus size: 44
13384126 TTGACAAATG
* * * *
13384136 AAAAAATAAAAAAATTAATGGGGCAGAATACCAATATGCTCCAC-
1 AAAAAAAAAAAAAATTGAT-GGGCAAAATGCCAATATGCTCCACA
* * * * *
13384180 AAAAAAGAAAAGAATTGATATGGCAAAATGTCAAAATGCTCCATCA
1 AAAAAAAAAAAAAATTGAT-GGGCAAAATGCCAATATGCTCCA-CA
* *
13384226 AAAAGAAAAAAAAAATTGATGGGACAAAATGCCAATGTGCTCCACC
1 AAAA-AAAAAAAAAATTGATGGG-CAAAATGCCAATATGCTCCACA
13384272 AAAAAAAAAA
1 AAAAAAAAAA
13384282 TGACAGAGCA
Statistics
Matches: 82, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
44 34 0.41
45 7 0.09
46 11 0.13
47 30 0.37
ACGTcount: A:0.55, C:0.14, G:0.14, T:0.16
Consensus pattern (44 bp):
AAAAAAAAAAAAAATTGATGGGCAAAATGCCAATATGCTCCACA
Found at i:13384527 original size:8 final size:7
Alignment explanation
Indices: 13384516--13384610 Score: 56
Period size: 7 Copynumber: 13.4 Consensus size: 7
13384506 AAGTATCAGC
13384516 AAATGAAA
1 AAAT-AAA
13384524 AAAT-AA
1 AAATAAA
13384530 AAATAAAA
1 AAAT-AAA
13384538 AAGATATACA
1 AA-ATA-A-A
13384548 AAA-AAA
1 AAATAAA
13384554 AGAA-AAA
1 A-AATAAA
*
13384561 AAGTAAA
1 AAATAAA
*
13384568 ATA-AAA
1 AAATAAA
13384574 AAATAAA
1 AAATAAA
**
13384581 AAGCAAA
1 AAATAAA
13384588 AAA-AAA
1 AAATAAA
*
13384594 AAAAAAA
1 AAATAAA
13384601 AAATAAA
1 AAATAAA
13384608 AAA
1 AAA
13384611 AAAGAGAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
6 20 0.29
7 33 0.47
8 10 0.14
9 4 0.06
10 3 0.04
ACGTcount: A:0.83, C:0.02, G:0.05, T:0.09
Consensus pattern (7 bp):
AAATAAA
Found at i:13384551 original size:1 final size:1
Alignment explanation
Indices: 13384547--13384613 Score: 62
Period size: 1 Copynumber: 67.0 Consensus size: 1
13384537 AAAGATATAC
* ** * * ** *
13384547 AAAAAAAAGAAAAAAAGTAAAATAAAAAAATAAAAAGCAAAAAAAAAAAAAAAAAAATAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13384612 AA
1 AA
13384614 GAGAAAAGAA
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.88, C:0.01, G:0.04, T:0.06
Consensus pattern (1 bp):
A
Found at i:13384573 original size:20 final size:19
Alignment explanation
Indices: 13384521--13384613 Score: 87
Period size: 20 Copynumber: 4.5 Consensus size: 19
13384511 TCAGCAAATG
13384521 AAAAAATAAAAATAAAAAAGAT
1 AAAAAA-AAAAA-AAAAAAG-T
13384543 ATACAAAAAAAAGAAAAAAAGT
1 A-A-AAAAAAAA-AAAAAAAGT
* *
13384565 AAAATAAAAAAATAAAAAGCA
1 AAAA-AAAAAAAAAAAAAG-T
*
13384586 AAAAAAAAAAAAAAAAAAT
1 AAAAAAAAAAAAAAAAAGT
13384605 AAAAAAAAA
1 AAAAAAAAA
13384614 GAGAAAAGAA
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
19 9 0.15
20 21 0.34
21 11 0.18
22 3 0.05
23 12 0.20
24 5 0.08
ACGTcount: A:0.85, C:0.02, G:0.04, T:0.09
Consensus pattern (19 bp):
AAAAAAAAAAAAAAAAAGT
Found at i:13384574 original size:35 final size:35
Alignment explanation
Indices: 13384521--13384611 Score: 107
Period size: 36 Copynumber: 2.5 Consensus size: 35
13384511 TCAGCAAATG
*
13384521 AAAAAATAAAAATAAAAAAGAT-ATA-CAAAAAAAAGA
1 AAAAAAT-AAAATAAAAAA-ATAAAAGCAAAAAAAA-A
13384557 AAAAAAGTAAAATAAAAAAATAAAAAGCAAAAAAAAA
1 AAAAAA-TAAAATAAAAAAAT-AAAAGCAAAAAAAAA
13384594 AAAAAA-AAAATAAAAAAA
1 AAAAAATAAAATAAAAAAA
13384612 AAGAGAAAAG
Statistics
Matches: 50, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
35 14 0.28
36 17 0.34
37 10 0.20
38 9 0.18
ACGTcount: A:0.85, C:0.02, G:0.04, T:0.09
Consensus pattern (35 bp):
AAAAAATAAAATAAAAAAATAAAAGCAAAAAAAAA
Found at i:13384589 original size:50 final size:49
Alignment explanation
Indices: 13384516--13384611 Score: 120
Period size: 50 Copynumber: 1.9 Consensus size: 49
13384506 AAGTATCAGC
* * * * *
13384516 AAATGAAAAAATAAAAATAAAAAAGATATACAAAAAAAAGAAAAAAAGTA
1 AAATAAAAAAATAAAAAGAAAAAA-AAAAAAAAAAAAAAGAAAAAAAGTA
* *
13384566 AAATAAAAAAATAAAAAGCAAAAAAAAAAAAAAAAAAATAAAAAAA
1 AAATAAAAAAATAAAAAGAAAAAAAAAAAAAAAAAAAAGAAAAAAA
13384612 AAGAGAAAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
49 18 0.46
50 21 0.54
ACGTcount: A:0.83, C:0.02, G:0.05, T:0.09
Consensus pattern (49 bp):
AAATAAAAAAATAAAAAGAAAAAAAAAAAAAAAAAAAAGAAAAAAAGTA
Found at i:13384611 original size:36 final size:33
Alignment explanation
Indices: 13384521--13384612 Score: 103
Period size: 35 Copynumber: 2.6 Consensus size: 33
13384511 TCAGCAAATG
* * *
13384521 AAAAAATAAAAATAAAAAAGATATACAAAAAAA
1 AAAAAAAAAAAATAAAAAAAATAAACAAAAAAA
*
13384554 AGAAAAAAAGTAAAATAAAAAAATAAAAAGCAAAAAAA
1 A-AAAAAAA--AAAATAAAAAAA-ATAAA-CAAAAAAA
13384592 AAAAAAAAAAAATAAAAAAAA
1 AAAAAAAAAAAATAAAAAAAA
13384613 AGAGAAAAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
33 1 0.02
34 7 0.14
35 12 0.24
36 11 0.22
37 10 0.20
38 9 0.18
ACGTcount: A:0.85, C:0.02, G:0.04, T:0.09
Consensus pattern (33 bp):
AAAAAAAAAAAATAAAAAAAATAAACAAAAAAA
Found at i:13384648 original size:10 final size:10
Alignment explanation
Indices: 13384550--13384648 Score: 52
Period size: 10 Copynumber: 10.1 Consensus size: 10
13384540 GATATACAAA
13384550 AAAAAG-AA-
1 AAAAAGAAAG
13384558 AAAAAGTAAA-
1 AAAAAG-AAAG
*
13384568 ATAAAA-AAAT
1 A-AAAAGAAAG
13384578 AAAAAGCAAA-
1 AAAAAG-AAAG
13384588 AAAAA-AAA-
1 AAAAAGAAAG
*
13384596 AAAAA-AAAT
1 AAAAAGAAAG
*
13384605 AAAAAAAAAG
1 AAAAAGAAAG
13384615 AGAAAAGAAAG
1 A-AAAAGAAAG
13384626 AGAGAAAGAAAG
1 A-A-AAAGAAAG
*
13384638 AAAAAGGAAG
1 AAAAAGAAAG
13384648 A
1 A
13384649 CTTAAACTGA
Statistics
Matches: 78, Mismatches: 3, Indels: 18
0.79 0.03 0.18
Matches are distributed among these distances:
8 17 0.22
9 12 0.15
10 21 0.27
11 19 0.24
12 9 0.12
ACGTcount: A:0.81, C:0.01, G:0.14, T:0.04
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:13385598 original size:137 final size:133
Alignment explanation
Indices: 13385432--13385675 Score: 362
Period size: 137 Copynumber: 1.8 Consensus size: 133
13385422 CATTTTTTTG
*
13385432 ACCTTTGCAAAACTTGAAACCTTACGAATCTTGCATCTTTACGAATCTAGAACCTTTGCGAAACT
1 ACCTTTGCAAAACTTGAAACCTTACGAATCTTGCATCTTTACGAATCTAGAACCTTTGCAAAACT
13385497 TAGAGTCTTACGAATTTTTCTTTCTCACAAACCTGAAAATCCTTGCGAATCTTACATCTTTGCGA
66 TAGAGTCTTACG-A--TTT-TTTCTCACAAACCTGAAAATCCTTGCGAATCTTACATCTTTGCGA
13385562 ATTTAGA
127 ATTTAGA
** * * *
13385569 ACCTTTGCAAAACTTGAAACCTTGTGAATCTTGCCTCTTTGCGAATCTAGAACCTTTGCAAAATT
1 ACCTTTGCAAAACTTGAAACCTTACGAATCTTGCATCTTTACGAATCTAGAACCTTTGCAAAACT
* * **
13385634 TGGAGTCTTGCGATTTTTTCTTGCAAACCTGAAAATCCTTGC
66 TAGAGTCTTACGATTTTTTCTCACAAACCTGAAAATCCTTGC
13385676 AAAATTTGCA
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
133 24 0.25
134 3 0.03
136 1 0.01
137 69 0.71
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (133 bp):
ACCTTTGCAAAACTTGAAACCTTACGAATCTTGCATCTTTACGAATCTAGAACCTTTGCAAAACT
TAGAGTCTTACGATTTTTTCTCACAAACCTGAAAATCCTTGCGAATCTTACATCTTTGCGAATTT
AGA
Found at i:13385625 original size:17 final size:17
Alignment explanation
Indices: 13385554--13385627 Score: 53
Period size: 17 Copynumber: 4.4 Consensus size: 17
13385544 AATCTTACAT
*
13385554 CTTTGCGAATTTAGAAC
1 CTTTGCGAATCTAGAAC
* * *
13385571 CTTTGCAAAACTTGAAAC
1 CTTTGCGAATCTAG-AAC
* * *
13385589 C-TTGTGAATCTTG-CC
1 CTTTGCGAATCTAGAAC
13385604 TCTTTGCGAATCTAGAAC
1 -CTTTGCGAATCTAGAAC
13385622 CTTTGC
1 CTTTGC
13385628 AAAATTTGGA
Statistics
Matches: 42, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
15 1 0.02
16 1 0.02
17 35 0.83
18 5 0.12
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (17 bp):
CTTTGCGAATCTAGAAC
Found at i:13386035 original size:120 final size:120
Alignment explanation
Indices: 13385818--13386089 Score: 339
Period size: 120 Copynumber: 2.3 Consensus size: 120
13385808 ACTTCATTTT
* * *
13385818 TGACTCGTGGTTTCATCTCGATCATTTATTTTTGACATCGACTCGGTTCTAGTCACCACATTCTT
1 TGACTCGTGGTTTCGTCTCGGTCATTTATTTTTGACATCGACTCGATTCTAGTCACCACATTCTT
* * * *
13385883 GACTCGTGGTTTCATCTTGATCACTTAATCTTGGCTCAGTGCAGATCATTCCTTA
66 GACTCGTAGTTTCATCTCGATCACTTAATCTTGACTCAGTCCAGATCATTCCTTA
* * * * * *
13385938 TGATTCGTGGTTTCGTCTCGGTCATTTATTTTTGACTTTGACTCGATTCT-GCTCGCCTCATTTT
1 TGACTCGTGGTTTCGTCTCGGTCATTTATTTTTGACATCGACTCGATTCTAG-TCACCACATTCT
* * * *
13386002 TTACTTGTAGTTTCATCTCGGTCACTTGATCTTGACTCAGTCCAGATCATTCCTTA
65 TGACTCGTAGTTTCATCTCGATCACTTAATCTTGACTCAGTCCAGATCATTCCTTA
* * * *
13386058 TGACTCGTAGTTTCGTCCCAGTTATTTATTTT
1 TGACTCGTGGTTTCGTCTCGGTCATTTATTTT
13386090 CAACCTCAAC
Statistics
Matches: 129, Mismatches: 22, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
119 1 0.01
120 128 0.99
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (120 bp):
TGACTCGTGGTTTCGTCTCGGTCATTTATTTTTGACATCGACTCGATTCTAGTCACCACATTCTT
GACTCGTAGTTTCATCTCGATCACTTAATCTTGACTCAGTCCAGATCATTCCTTA
Found at i:13386451 original size:301 final size:301
Alignment explanation
Indices: 13385903--13386465 Score: 661
Period size: 301 Copynumber: 1.9 Consensus size: 301
13385893 TTCATCTTGA
* * * * * *
13385903 TCACTTAATCTTGGCTCAGTGCAGATCATTCCTTATGATTCGTGGTTTCGTCTCGGTCATTTATT
1 TCACTTAATCTTGGCTCAGTCCAGATCATTCCTTATGACTCATGGTTCCATCTCGATCATTTATT
* * * * * ** *
13385968 TTTGACTTTGACTCGATTCTGCTCGCCTCATTTTTTACTTGTAGTTTCATCTCGGTCACTTGATC
66 TTTGACCTCGACTCGATTCTGCTCACATCATTTTTGACTCATAGTTTCATCTCGGTCACTTAATC
* * * *
13386033 TTGACTCAGTCCAGATCATTCCTTATGACTCGTAGTTTCGTCCCAGTTATTTATTTTCAACCTCA
131 CTGACTCAGTCCAGATCATTCCTTATGACTCGTAGTTTCATCCCAGTCATTTATTTTCAACATCA
* * * *
13386098 ACTCAGTCCTAGTCGTCTCATTTTAACTCGTGATTCTATCTCGGTAATTTATTTTCAACCTCAAC
196 ACTCAGTCCTAATCCTCTCATTTTAACTCGTGATTCTATCTCGATAATTTATTCTCAACCTCAAC
13386163 TTAATCCTGGTTGCCTTATTTTACTCGTGATTTTGTCCTGG
261 TTAATCCTGGTTGCCTTATTTTACTCGTGATTTTGTCCTGG
* *
13386204 TCACTTGATCTTGGCTCAGTCCAGATCATTCCTTATGACTCATGGTTCCATCTCGATCCTTTATT
1 TCACTTAATCTTGGCTCAGTCCAGATCATTCCTTATGACTCATGGTTCCATCTCGATCATTTATT
* * * * *
13386269 TTTGACCTCGACTTGGTAT-TGGTCATATCATTTTTGACTCATAGTTTCATCTCGGTTACTTAAT
66 TTTGACCTCGACTCGAT-TCTGCTCACATCATTTTTGACTCATAGTTTCATCTCGGTCACTTAAT
* * * * * * *
13386333 CCTGACTTAGTCCAGATCATTCCTTATGACTTGTGGTTTCATCTCGGTCATTTATTTTCGACATT
130 CCTGACTCAGTCCAGATCATTCCTTATGACTCGTAGTTTCATCCCAGTCATTTATTTTCAACATC
* * * *
13386398 GACTC-GATCTTAATCACT-TC-TTTCTAACTCGTGATTTCGT-TCT-GATCATTTATTCTCGAC
195 AACTCAG-TCCTAATC-CTCTCATTT-TAACTCGTGA-TTC-TATCTCGATAATTTATTCTCAAC
*
13386458 CTCGACTT
255 CTCAACTT
13386466 GGTATTGGTT
Statistics
Matches: 215, Mismatches: 41, Indels: 12
0.80 0.15 0.04
Matches are distributed among these distances:
300 4 0.02
301 202 0.94
302 8 0.04
303 1 0.00
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.43
Consensus pattern (301 bp):
TCACTTAATCTTGGCTCAGTCCAGATCATTCCTTATGACTCATGGTTCCATCTCGATCATTTATT
TTTGACCTCGACTCGATTCTGCTCACATCATTTTTGACTCATAGTTTCATCTCGGTCACTTAATC
CTGACTCAGTCCAGATCATTCCTTATGACTCGTAGTTTCATCCCAGTCATTTATTTTCAACATCA
ACTCAGTCCTAATCCTCTCATTTTAACTCGTGATTCTATCTCGATAATTTATTCTCAACCTCAAC
TTAATCCTGGTTGCCTTATTTTACTCGTGATTTTGTCCTGG
Done.