Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 190 of 279
Found at i:62270149 original size:45 final size:44
Alignment explanation
Indices: 62270098--62270192 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
62270088 GGATTAGAGG
* *
62270098 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
62270143 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
62270187 TGTAAT
1 TGTAAT
62270193 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:62270375 original size:18 final size:17
Alignment explanation
Indices: 62270354--62270388 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62270344 TTATTATTTA
*
62270354 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
62270372 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
62270389 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:62270382 original size:28 final size:27
Alignment explanation
Indices: 62270312--62270384 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
62270302 TTTATTATCA
*
62270312 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
62270340 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
62270367 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
62270385 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:62270522 original size:18 final size:17
Alignment explanation
Indices: 62270501--62270535 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62270491 TTATTATTAA
*
62270501 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
62270519 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
62270536 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:62270547 original size:147 final size:149
Alignment explanation
Indices: 62270273--62270547 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
62270263 ATGATTATTG
* *
62270273 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATATAATATCAAAAATAAATAATTTAATCATATTTAA
*
62270338 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
62270403 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
*
62270422 TTATT-TTATTTAAATTTTAATAAGATTA-ATAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATATAATATCAAAAATAAATAATTTAATCATATTTAA
62270485 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
62270548 ATATTCTTAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 94 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:62270579 original size:54 final size:54
Alignment explanation
Indices: 62270521--62270699 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
62270511 ATTAAAATAT
*
62270521 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
62270575 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
62270638 TAT
53 -AC
*
62270641 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
62270695 ATAAT
1 ATAAT
62270700 ATATGATACT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:62270642 original size:18 final size:17
Alignment explanation
Indices: 62270621--62270655 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62270611 TTATTATTAA
62270621 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
62270639 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
62270656 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:62270770 original size:18 final size:17
Alignment explanation
Indices: 62270731--62270762 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
62270721 TTTTAAATAA
62270731 TTAATATTAAATATATT
1 TTAATATTAAATATATT
62270748 TTAAT-TTAAATATAT
1 TTAATATTAAATATAT
62270763 GATTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATTAAATATATT
Found at i:62270787 original size:120 final size:120
Alignment explanation
Indices: 62270484--62270776 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
62270474 ATCATATTTA
62270484 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
62270549 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
* *
62270604 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
62270669 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATA-AAATTTT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAA--AT
* * *
62270725 AA-ATAATTAATATTAAATATATTTTAATTTAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
62270777 TAAAATAATT
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 3 0.02
120 155 0.96
121 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
Found at i:62274458 original size:16 final size:16
Alignment explanation
Indices: 62274437--62274504 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
62274427 TTTGGTTCGC
62274437 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
62274453 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
62274469 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
62274485 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
62274501 TGTA
1 TGTA
62274505 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:62274761 original size:18 final size:17
Alignment explanation
Indices: 62274740--62274774 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62274730 TTATTATTAA
*
62274740 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
62274758 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
62274775 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:62274881 original size:18 final size:17
Alignment explanation
Indices: 62274860--62274894 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62274850 TTATTATTAA
*
62274860 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
62274878 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
62274895 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:62274936 original size:120 final size:120
Alignment explanation
Indices: 62274723--62275105 Score: 757
Period size: 120 Copynumber: 3.2 Consensus size: 120
62274713 ATCATATTTA
62274723 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
62274788 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
62274843 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
62274908 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
62274963 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
62275028 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
62275083 AACATAATAATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
62275106 AACTTGAAAA
Statistics
Matches: 262, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 262 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:62275001 original size:18 final size:17
Alignment explanation
Indices: 62274980--62275014 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62274970 TTATTATTAA
*
62274980 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
62274998 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
62275015 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:62298092 original size:26 final size:25
Alignment explanation
Indices: 62298059--62298107 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
62298049 TCAAGCGAGC
62298059 TATATCGGGAAGCTCATGAAGAGCCA
1 TATATCGGGAAGCTCAT-AAGAGCCA
*
62298085 TATATCGGGACGCTCATAAGAGC
1 TATATCGGGAAGCTCATAAGAGC
62298108 TGTGGTATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (25 bp):
TATATCGGGAAGCTCATAAGAGCCA
Found at i:62299796 original size:11 final size:11
Alignment explanation
Indices: 62299743--62299800 Score: 62
Period size: 11 Copynumber: 5.1 Consensus size: 11
62299733 TTATATACTA
*
62299743 AATAAAATAAC
1 AATAAAATAAT
62299754 AATAAAATAAT
1 AATAAAATAAT
*
62299765 AATAAAATATCT
1 AATAAAATA-AT
* *
62299777 CATTAAAATATT
1 -AATAAAATAAT
62299789 AATAAAATAAT
1 AATAAAATAAT
62299800 A
1 A
62299801 TTTATCTAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
11 29 0.74
12 2 0.05
13 8 0.21
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:62307226 original size:15 final size:17
Alignment explanation
Indices: 62307208--62307244 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
62307198 AGAAATTATA
62307208 TAAATAA-TATATAA-G
1 TAAATAATTATATAAGG
*
62307223 TAAATAATTATTTAAGG
1 TAAATAATTATATAAGG
62307240 TAAAT
1 TAAAT
62307245 TAAGAGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 7 0.37
16 6 0.32
17 6 0.32
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (17 bp):
TAAATAATTATATAAGG
Found at i:62307765 original size:17 final size:17
Alignment explanation
Indices: 62307743--62307786 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
62307733 CACGTGTTTT
* *
62307743 ATAAAATTATTATTTAA
1 ATAAAATTATTAGTAAA
*
62307760 ATAAAAATA-TAGTAAA
1 ATAAAATTATTAGTAAA
62307776 ATAAAATTATT
1 ATAAAATTATT
62307787 GATAAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
ATAAAATTATTAGTAAA
Found at i:62307829 original size:20 final size:20
Alignment explanation
Indices: 62307792--62307828 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
62307782 TTATTGATAA
62307792 AACAATATTTAAAATATATG
1 AACAATATTTAAAATATATG
62307812 AACAAT-TTTAAAA-ATAT
1 AACAATATTTAAAATATAT
62307829 ACTTAAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (20 bp):
AACAATATTTAAAATATATG
Found at i:62308036 original size:21 final size:21
Alignment explanation
Indices: 62307994--62308036 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
62307984 ATATATAATT
**
62307994 AATACTTTTTTTAATTTTAGA
1 AATACTTTTTTTAATTCCAGA
62308015 AATACATTTTTTTAA-TCCAGA
1 AATAC-TTTTTTTAATTCCAGA
62308036 A
1 A
62308037 GTAAAGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (21 bp):
AATACTTTTTTTAATTCCAGA
Found at i:62308731 original size:27 final size:28
Alignment explanation
Indices: 62308701--62308767 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 28
62308691 TATGAGATTT
* * *
62308701 ATAACTTTAAGTT-AAATATTGAAATTA
1 ATAAATTTAAATTCAAATATTAAAATTA
*
62308728 ATAAATTTAAATTCAAATTTTAAAATTA
1 ATAAATTTAAATTCAAATATTAAAATTA
*
62308756 A-AAATTAAAATT
1 ATAAATTTAAATT
62308768 GTGTTATGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 21 0.62
28 13 0.38
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (28 bp):
ATAAATTTAAATTCAAATATTAAAATTA
Found at i:62316663 original size:17 final size:16
Alignment explanation
Indices: 62316608--62316679 Score: 50
Period size: 17 Copynumber: 4.7 Consensus size: 16
62316598 ATACTTTTTT
*
62316608 TAAAAA-ATAATTAT-
1 TAAAAATATAACTATA
62316622 TAAAAATATAACTATA
1 TAAAAATATAACTATA
62316638 TAATCAAAT-TAACTAAATA
1 TAA--AAATATAACT--ATA
62316657 TAAAAATA-AA--A-A
1 TAAAAATATAACTATA
62316669 TAAAAATATAA
1 TAAAAATATAA
62316680 TTTAAACTTT
Statistics
Matches: 49, Mismatches: 1, Indels: 17
0.73 0.01 0.25
Matches are distributed among these distances:
12 9 0.18
13 3 0.06
14 6 0.12
15 7 0.14
16 3 0.06
17 11 0.22
18 4 0.08
19 6 0.12
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (16 bp):
TAAAAATATAACTATA
Found at i:62327590 original size:13 final size:14
Alignment explanation
Indices: 62327566--62327594 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
62327556 GTAATGTGAT
62327566 TTTTGTTTTATTTA
1 TTTTGTTTTATTTA
62327580 TTTTG-TTTATTTA
1 TTTTGTTTTATTTA
62327593 TT
1 TT
62327595 ATTAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (14 bp):
TTTTGTTTTATTTA
Found at i:62332788 original size:28 final size:28
Alignment explanation
Indices: 62332739--62332929 Score: 111
Period size: 28 Copynumber: 6.8 Consensus size: 28
62332729 ATTACTGTAA
* * *
62332739 ATGTGGAAGTTCGTTAGGACTATCTTAT
1 ATGTGGAAATTCGTCAAGACTATCTTAT
* * *
62332767 ATGTTGAAATTTGTCAAGACTATTTTAT
1 ATGTGGAAATTCGTCAAGACTATCTTAT
* * *
62332795 ATGTGGAAGTTCGTTAAGACTATCTTAA
1 ATGTGGAAATTCGTCAAGACTATCTTAT
* * *
62332823 ATG-CGAAAGTTCGT-TAGAACTATATTAT
1 ATGTGGAAA-TTCGTCAAG-ACTATCTTAT
* * * *
62332851 AAGTGGAAATCCATCAGGACTATCTTAT
1 ATGTGGAAATTCGTCAAGACTATCTTAT
* * * *
62332879 ATATAG-AAGTCTGTC-AGAACTATATTAT
1 ATGTGGAAATTC-GTCAAG-ACTATCTTAT
* * *
62332907 AAGTGGAAATCCGTCAAGGCTAT
1 ATGTGGAAATTCGTCAAGACTAT
62332930 TTTACAAATA
Statistics
Matches: 117, Mismatches: 38, Indels: 16
0.68 0.22 0.09
Matches are distributed among these distances:
27 9 0.08
28 98 0.84
29 10 0.09
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (28 bp):
ATGTGGAAATTCGTCAAGACTATCTTAT
Found at i:62332845 original size:56 final size:56
Alignment explanation
Indices: 62332739--62332858 Score: 145
Period size: 56 Copynumber: 2.1 Consensus size: 56
62332729 ATTACTGTAA
* * * * *
62332739 ATGTGGAAGTTCGTTAGGACTATCTTATATGTTGAAATTTGTCAAGACTATTTTAT
1 ATGTGGAAGTTCGTTAAGACTATCTTAAATGTCGAAATTCGTCAAGACTATATTAT
*
62332795 ATGTGGAAGTTCGTTAAGACTATCTTAAATG-CGAAAGTTCGT-TAGAACTATATTAT
1 ATGTGGAAGTTCGTTAAGACTATCTTAAATGTCGAAA-TTCGTCAAG-ACTATATTAT
*
62332851 AAGTGGAA
1 ATGTGGAA
62332859 ATCCATCAGG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
55 6 0.11
56 49 0.89
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.38
Consensus pattern (56 bp):
ATGTGGAAGTTCGTTAAGACTATCTTAAATGTCGAAATTCGTCAAGACTATATTAT
Found at i:62334327 original size:33 final size:34
Alignment explanation
Indices: 62334285--62334417 Score: 117
Period size: 33 Copynumber: 3.7 Consensus size: 34
62334275 TCCCCCAAGG
62334285 GGTTGCTAAGTGCTGATTCC-CCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCACCGACTCATTGGT
* * * *
62334318 GGTTGCTAAGTGCTGATCCCACCATATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACC-GA-C-T-CAT-TG---GT
* *
62334360 GGTTGCTAAGTGCTGATTCC-CCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCACCGACTCATTGGT
*
62334393 GGTTGCTAAGTGCTGAATCCACCGA
1 GGTTGCTAAGTGCTGATTCCACCGA
62334418 TAACGGACAA
Statistics
Matches: 79, Mismatches: 11, Indels: 19
0.72 0.10 0.17
Matches are distributed among these distances:
33 39 0.49
34 6 0.08
35 1 0.01
36 3 0.04
37 2 0.03
38 3 0.04
39 2 0.03
40 1 0.01
41 2 0.03
42 20 0.25
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (34 bp):
GGTTGCTAAGTGCTGATTCCACCGACTCATTGGT
Found at i:62334362 original size:102 final size:102
Alignment explanation
Indices: 62334182--62334381 Score: 319
Period size: 102 Copynumber: 2.0 Consensus size: 102
62334172 AATATAAAAA
* * * * *
62334182 GGGTTTCTAAGTGCTGATTCCTCGAATCATTGGTGGTTACTAAGTGCTGATTCCACCGTATTTTA
1 GGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTACTAAGTGCTGATCCCACCATATCTTA
* *
62334247 AATGTGAAGGGGGTTGCTAAGTGTTGATTCCCCCAAG
66 AATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCCAAG
* *
62334284 GGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATCCCACCATATCTTA
1 GGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTACTAAGTGCTGATCCCACCATATCTTA
62334349 AATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
66 AATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
62334382 GAATCACTGG
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 89 1.00
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.33
Consensus pattern (102 bp):
GGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTACTAAGTGCTGATCCCACCATATCTTA
AATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCCAAG
Found at i:62337634 original size:102 final size:102
Alignment explanation
Indices: 62337454--62337653 Score: 328
Period size: 102 Copynumber: 2.0 Consensus size: 102
62337444 AATATAAAAA
* * * * *
62337454 GGGTTTCTAAGTGCTGATTCCTCGAATCATTGGTGGTTACTAAGTGCTGATTCCACCGTATTTTA
1 GGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTACTAAGTGCTGATCCCACCATATCTTA
*
62337519 AATGTGAAGGGGGTTGCTAAGTGTTGATTCCCCCAAG
66 AATGTGAAAGGGGTTGCTAAGTGTTGATTCCCCCAAG
* *
62337556 GGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATCCCACCATATCTTA
1 GGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTACTAAGTGCTGATCCCACCATATCTTA
62337621 AATGTGAAAGGGGTTGCTAAGTGTTGATTCCCC
66 AATGTGAAAGGGGTTGCTAAGTGTTGATTCCCC
62337654 GAATCACTGG
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
102 90 1.00
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.33
Consensus pattern (102 bp):
GGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTACTAAGTGCTGATCCCACCATATCTTA
AATGTGAAAGGGGTTGCTAAGTGTTGATTCCCCCAAG
Found at i:62343857 original size:40 final size:40
Alignment explanation
Indices: 62343793--62343901 Score: 139
Period size: 40 Copynumber: 2.8 Consensus size: 40
62343783 TTGGATAAAT
* *
62343793 AACGTCGCTAAAAATCAAGCATTAGCGGCGCTTTTTGAAA
1 AACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTATGAAA
* * * *
62343833 AACGCCGCTAAAGATCGAGTATTAGTGGCGCTTTATGAAA
1 AACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTATGAAA
* *
62343873 AACGCAGCTAAAAA-CAAGCATTAGTGGCG
1 AACGCCGCTAAAAATCAAGCATTAGCGGCG
62343902 TTTCCCAGAA
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
39 13 0.22
40 46 0.78
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (40 bp):
AACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTATGAAA
Found at i:62343960 original size:41 final size:41
Alignment explanation
Indices: 62343913--62344212 Score: 325
Period size: 41 Copynumber: 7.3 Consensus size: 41
62343903 TTCCCAGAAA
* * *
62343913 GCTCAGGGCTTTAGCGGCATTTTTGGAAAAGTGCCGCTAAT
1 GCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAT
* * **
62343954 GGTCAGGGCTTTAGCTGTTTTTTTGGGAAAGCGCCGCTAAT
1 GCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAT
*
62343995 GCTCAGGGCTTTAGCGGCGTTTTTGGGGAAGCGCCGCTAAT
1 GCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAT
*
62344036 GCTCAGGGCTTTAGCAGCGTTTTTGGGAAAGCGCCGCTAAT
1 GCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAT
* * * * *
62344077 GCTCATGGATTTAGCAGCGTTTTCGGGAAAGCGTCGCTAAT
1 GCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAT
* ** * *
62344118 GCTCAGGGCTTTTAGCGACGTTTTTGATAAAGCACCGCGAAT
1 GCTCAGGGC-TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAT
** * *** *
62344160 GCTCTA--TTTTTAGCGGTGTTTTTTAAAAAGCACCGCTAAT
1 GCTC-AGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAT
*
62344200 GCTCAGGGATTTA
1 GCTCAGGGCTTTA
62344213 AAATATTTTA
Statistics
Matches: 219, Mismatches: 36, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.00
40 31 0.14
41 158 0.72
42 28 0.13
43 1 0.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.31
Consensus pattern (41 bp):
GCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAT
Found at i:62344182 original size:40 final size:40
Alignment explanation
Indices: 62344127--62344203 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
62344117 TGCTCAGGGC
*
62344127 TTTTAGCGACGTTTTTGATAAAGCACCGCGAATGCTCTAT
1 TTTTAGCGACGTTTTTGAAAAAGCACCGCGAATGCTCTAT
** * *
62344167 TTTTAGCGGTGTTTTTTAAAAAGCACCGCTAATGCTC
1 TTTTAGCGACGTTTTTGAAAAAGCACCGCGAATGCTC
62344204 AGGGATTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (40 bp):
TTTTAGCGACGTTTTTGAAAAAGCACCGCGAATGCTCTAT
Found at i:62344458 original size:7 final size:7
Alignment explanation
Indices: 62344416--62344483 Score: 64
Period size: 7 Copynumber: 9.6 Consensus size: 7
62344406 GTGTTACCAT
*
62344416 TTTAAGG
1 TTTATGG
*
62344423 TTTGTGG
1 TTTATGG
*
62344430 ATTATGGG
1 TTTAT-GG
*
62344438 TTTAGGG
1 TTTATGG
*
62344445 GTTATGG
1 TTTATGG
62344452 TTTATGG
1 TTTATGG
*
62344459 TTTACGG
1 TTTATGG
*
62344466 TTTACGG
1 TTTATGG
62344473 TTTATGG
1 TTTATGG
62344480 TTTA
1 TTTA
62344484 AAGGCTGGGG
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
7 44 0.90
8 5 0.10
ACGTcount: A:0.16, C:0.03, G:0.32, T:0.49
Consensus pattern (7 bp):
TTTATGG
Found at i:62344462 original size:21 final size:21
Alignment explanation
Indices: 62344431--62344529 Score: 72
Period size: 21 Copynumber: 4.6 Consensus size: 21
62344421 GGTTTGTGGA
62344431 TTATGGGTTTAGGGGTTATGGT
1 TTAT-GGTTTAGGGGTTATGGT
* * *
62344453 TTATGGTTTACGGTTTACGGT
1 TTATGGTTTAGGGGTTATGGT
** * **
62344474 TTATGGTTTAAAGGCTGGGGT
1 TTATGGTTTAGGGGTTATGGT
* *
62344495 TTAAGGTTTAGAGGTTATGTGT
1 TTATGGTTTAGGGGTTATG-GT
* *
62344517 TAAGGGTTTAGGG
1 TTATGGTTTAGGG
62344530 TTTTAGAGTT
Statistics
Matches: 59, Mismatches: 17, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
21 43 0.73
22 16 0.27
ACGTcount: A:0.18, C:0.03, G:0.36, T:0.42
Consensus pattern (21 bp):
TTATGGTTTAGGGGTTATGGT
Found at i:62344524 original size:29 final size:27
Alignment explanation
Indices: 62344494--62344563 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 27
62344484 AAGGCTGGGG
* *
62344494 TTTAAGGTTTAGAGGTTATGTGTTAAGGG
1 TTTAGGGTTTAGAGGTTAAGT-TT-AGGG
* *
62344523 TTTAGGGTTTTAGAGTTTAAGTTTATGG
1 TTTAGGG-TTTAGAGGTTAAGTTTAGGG
62344551 TTTAGGGTTTAGA
1 TTTAGGGTTTAGA
62344564 TTAACTAGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 6 0.17
28 10 0.28
29 8 0.22
30 12 0.33
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (27 bp):
TTTAGGGTTTAGAGGTTAAGTTTAGGG
Found at i:62344546 original size:21 final size:20
Alignment explanation
Indices: 62344522--62344561 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
62344512 TGTGTTAAGG
62344522 GTTTAGGGTTTTAGAGTTTAA
1 GTTTAGGG-TTTAGAGTTTAA
* *
62344543 GTTTATGGTTTAGGGTTTA
1 GTTTAGGGTTTAGAGTTTA
62344562 GATTAACTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (20 bp):
GTTTAGGGTTTAGAGTTTAA
Found at i:62344562 original size:7 final size:7
Alignment explanation
Indices: 62344435--62344562 Score: 64
Period size: 7 Copynumber: 18.1 Consensus size: 7
62344425 TGTGGATTAT
62344435 GGGTTTA
1 GGGTTTA
*
62344442 GGGGTTA
1 GGGTTTA
*
62344449 TGGTTTA
1 GGGTTTA
*
62344456 TGGTTTA
1 GGGTTTA
*
62344463 CGGTTTA
1 GGGTTTA
*
62344470 CGGTTTA
1 GGGTTTA
*
62344477 TGGTTTAA
1 GGGTTT-A
* * *
62344485 AGG-CTG
1 GGGTTTA
62344491 GGGTTTA
1 GGGTTTA
*
62344498 AGGTTTA
1 GGGTTTA
62344505 GAGG-TTA
1 G-GGTTTA
* *
62344512 TGTGTTAA
1 -GGGTTTA
62344520 GGGTTTA
1 GGGTTTA
62344527 GGGTTTTA
1 GGG-TTTA
*
62344535 GAGTTTA
1 GGGTTTA
*
62344542 -AGTTTA
1 GGGTTTA
*
62344548 TGGTTTA
1 GGGTTTA
62344555 GGGTTTA
1 GGGTTTA
62344562 G
1 G
62344563 ATTAACTAGT
Statistics
Matches: 94, Mismatches: 20, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
6 8 0.09
7 72 0.77
8 14 0.15
ACGTcount: A:0.19, C:0.02, G:0.35, T:0.44
Consensus pattern (7 bp):
GGGTTTA
Found at i:62344846 original size:21 final size:21
Alignment explanation
Indices: 62344824--62344864 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
62344814 TATGGATTTG
*
62344824 GGGA-TTATGGTTTAAGGGTT
1 GGGATTTAAGGTTTAAGGGTT
62344844 GGGATTTAAGGTTTAAGGGTT
1 GGGATTTAAGGTTTAAGGGTT
62344865 AAGAGTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (21 bp):
GGGATTTAAGGTTTAAGGGTT
Found at i:62344873 original size:21 final size:21
Alignment explanation
Indices: 62344832--62344874 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
62344822 TGGGGATTAT
** *
62344832 GGTTTAAGGGTTGGGATTTAA
1 GGTTTAAGGGTTAAGAGTTAA
62344853 GGTTTAAGGGTTAAGAGTTAA
1 GGTTTAAGGGTTAAGAGTTAA
62344874 G
1 G
62344875 AGTTAGTGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
GGTTTAAGGGTTAAGAGTTAA
Found at i:62347282 original size:3 final size:3
Alignment explanation
Indices: 62347274--62347301 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
62347264 AATATCGTTC
62347274 TAG TAG TAG TAG TAG TAG TAG TAG TAG T
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG T
62347302 TATTGATGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TAG
Found at i:62348720 original size:43 final size:42
Alignment explanation
Indices: 62348505--62348726 Score: 243
Period size: 43 Copynumber: 5.2 Consensus size: 42
62348495 AGATTATGTT
* ** *
62348505 TTTAGCGGCGTTTTTGCTAGAAGCGCCGCTAAAGGTTTGTTC
1 TTTAGCGGCGTTTGTGGAAGAAGCGCCGCTAAAGGTTTGGTC
*
62348547 TTTAGCGGCGTTTGTGGGAA-AAGCGCCGCTAAAGGTCATGGT-
1 TTTAGCGGCGTTTGT-GGAAGAAGCGCCGCTAAAGGT-TTGGTC
* * * *
62348589 TTATAGCGGCGTTTGT-GATAAAAGCGTCGCGAAAGGTCATGGTC
1 TT-TAGCGGCGTTTGTGGA-AGAAGCGCCGCTAAAGGT-TTGGTC
* * *
62348633 TATAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTTGTC
1 TTTAGCGGCGTTTGTGGAAGAAGCGCCGCTAAAGGT-TTGGTC
*
62348676 TTTAGCGGCGTTTGTGGAAGAAGCGCCGTTAAAGGTTGTGGTC
1 TTTAGCGGCGTTTGTGGAAGAAGCGCCGCTAAAGGTT-TGGTC
62348719 TTTAGCGG
1 TTTAGCGG
62348727 TGCTTTTTCC
Statistics
Matches: 154, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
41 2 0.01
42 34 0.22
43 116 0.75
44 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.30
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGGAAGAAGCGCCGCTAAAGGTTTGGTC
Found at i:62348798 original size:21 final size:22
Alignment explanation
Indices: 62348772--62348812 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
62348762 TTTAGCGGCG
*
62348772 CTAAAAAGTGCCGCT-AAAGGC
1 CTAAAAAGCGCCGCTCAAAGGC
62348793 CTAAAAAGCGCCGCTCAAAG
1 CTAAAAAGCGCCGCTCAAAG
62348813 TCTGTTTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.39, C:0.27, G:0.22, T:0.12
Consensus pattern (22 bp):
CTAAAAAGCGCCGCTCAAAGGC
Found at i:62366511 original size:13 final size:13
Alignment explanation
Indices: 62366493--62366520 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
62366483 ACAAAATTGG
62366493 AAAGATGATAAAT
1 AAAGATGATAAAT
62366506 AAAGATGATAAAT
1 AAAGATGATAAAT
62366519 AA
1 AA
62366521 TAAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.21
Consensus pattern (13 bp):
AAAGATGATAAAT
Found at i:62367267 original size:28 final size:30
Alignment explanation
Indices: 62367208--62367264 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
62367198 AACTAAATTG
* *
62367208 TGTATATTTATATGTTTAAATTTAATGTTA
1 TGTATATGTATATGTATAAATTTAATGTTA
62367238 TGTATATGTAT-TGTAT-AATTTACATGT
1 TGTATATGTATATGTATAAATTTA-ATGT
62367265 ATGAAAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.25
29 8 0.33
30 10 0.42
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (30 bp):
TGTATATGTATATGTATAAATTTAATGTTA
Found at i:62367557 original size:26 final size:26
Alignment explanation
Indices: 62367527--62367682 Score: 96
Period size: 26 Copynumber: 6.2 Consensus size: 26
62367517 ACAACTCTTA
*
62367527 TGAGCGTCCTG-TTATATGGCTCTTCG
1 TGAGCTTCCTGATTA-ATGGCTCTTCG
* * * *
62367553 TGAGCTTCCCGATTAAAGGCTTTTTG
1 TGAGCTTCCTGATTAATGGCTCTTCG
*
62367579 TGAGCTTCCTGATTAATGGCTC-TCC
1 TGAGCTTCCTGATTAATGGCTCTTCG
* * * *
62367604 AGAGCTTCCCGATGT-A--GCT-TGCT
1 TGAGCTTCCTGAT-TAATGGCTCTTCG
* * * *
62367627 TGAACTTCCTGA-TATATGGTTATCCG
1 TGAGCTTCCTGATTA-ATGGCTCTTCG
62367653 -GAGCTTCCTGATTAATGGCTCTTCG
1 TGAGCTTCCTGATTAATGGCTCTTCG
62367678 -GAGCT
1 TGAGCT
62367683 ACTCGTTATT
Statistics
Matches: 97, Mismatches: 24, Indels: 19
0.69 0.17 0.14
Matches are distributed among these distances:
21 1 0.01
23 14 0.14
25 38 0.39
26 41 0.42
27 3 0.03
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (26 bp):
TGAGCTTCCTGATTAATGGCTCTTCG
Found at i:62367717 original size:73 final size:73
Alignment explanation
Indices: 62367580--62367718 Score: 165
Period size: 73 Copynumber: 1.9 Consensus size: 73
62367570 GGCTTTTTGT
* * *
62367580 GAGCTTCCTGATTAATGGCTCTCCAGAGCTTCCCGATGTAGCTTGCTTGAACTTCCTGATATATG
1 GAGCTTCCTGATTAATGGCTCTCCAGAGCTACCCGATGTAGCTCGCATGAACTTCCTGATATATG
62367645 GTTATCCG
66 GTTATCCG
* * * * * *
62367653 GAGCTTCCTGATTAATGGCTCTTCGGAGCTACTCGTTAT-TGGCTCGCATGAGCTTCTTGA-ATA
1 GAGCTTCCTGATTAATGGCTCTCCAGAGCTACCCG--ATGTAGCTCGCATGAACTTCCTGATATA
62367716 TGG
64 TGG
62367719 CTCTTATAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
73 37 0.67
74 16 0.29
75 2 0.04
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.35
Consensus pattern (73 bp):
GAGCTTCCTGATTAATGGCTCTCCAGAGCTACCCGATGTAGCTCGCATGAACTTCCTGATATATG
GTTATCCG
Found at i:62369528 original size:15 final size:14
Alignment explanation
Indices: 62369507--62369542 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
62369497 ATAATCCTTA
*
62369507 ATAATTATCTTAAT
1 ATAATTATCCTAAT
62369521 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
62369536 ATAATTA
1 ATAATTA
62369543 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:62371162 original size:71 final size:69
Alignment explanation
Indices: 62371046--62371188 Score: 259
Period size: 71 Copynumber: 2.0 Consensus size: 69
62371036 CTTAAATCAT
*
62371046 TAAGGTATATAATGTTCACATGTATATAAAATGATAAGTTTTAATGCATTATAGCATATAGGTAA
1 TAAGGTATATAATGCTCACATGTATATAAAATGATAAGTTTTAATGCATTATAGC--ATAGGTAA
62371111 GATTGG
64 GATTGG
62371117 TAAGGTATATAATGCTCACATGTATATAAAATGATAAGTTTTAATGCATTATAGCATAGGTAAGA
1 TAAGGTATATAATGCTCACATGTATATAAAATGATAAGTTTTAATGCATTATAGCATAGGTAAGA
62371182 TTGG
66 TTGG
62371186 TAA
1 TAA
62371189 TTTTGAAGAG
Statistics
Matches: 71, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
69 17 0.24
71 54 0.76
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.36
Consensus pattern (69 bp):
TAAGGTATATAATGCTCACATGTATATAAAATGATAAGTTTTAATGCATTATAGCATAGGTAAGA
TTGG
Found at i:62377551 original size:20 final size:20
Alignment explanation
Indices: 62377526--62377564 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
62377516 GTTTTTACAT
62377526 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
62377546 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
62377565 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:62377624 original size:15 final size:15
Alignment explanation
Indices: 62377595--62377647 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 15
62377585 TATTGCAATG
*
62377595 ATTTATTTATAAATAA
1 ATTT-TTTATTAATAA
62377611 ATTTTTTATTAATAAA
1 ATTTTTTATTAAT-AA
62377627 AGTTTTTTATCTAATTAA
1 A-TTTTTTAT-TAA-TAA
62377645 ATT
1 ATT
62377648 CCAAATGTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 8 0.25
16 7 0.22
17 10 0.31
18 6 0.19
19 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (15 bp):
ATTTTTTATTAATAA
Found at i:62381005 original size:25 final size:25
Alignment explanation
Indices: 62380977--62381026 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
62380967 AGAAGAGAAG
*
62380977 ATGAAGAACAAAAGAAGAAAAAGGA
1 ATGAAAAACAAAAGAAGAAAAAGGA
** *
62381002 ATGAAAAACGGAAGAAGAAGAAGGA
1 ATGAAAAACAAAAGAAGAAAAAGGA
62381027 GCCTTACCTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.64, C:0.04, G:0.28, T:0.04
Consensus pattern (25 bp):
ATGAAAAACAAAAGAAGAAAAAGGA
Found at i:62381109 original size:18 final size:18
Alignment explanation
Indices: 62381086--62381123 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
62381076 TTTGCAATCC
62381086 AAGGGGAAGGGAAAAGGG
1 AAGGGGAAGGGAAAAGGG
*
62381104 AAGGGGAAGGGAAAGGGG
1 AAGGGGAAGGGAAAAGGG
62381122 AA
1 AA
62381124 AGGGTAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (18 bp):
AAGGGGAAGGGAAAAGGG
Found at i:62381136 original size:24 final size:24
Alignment explanation
Indices: 62381086--62381137 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
62381076 TTTGCAATCC
* **
62381086 AAGGGGAAGGGAAAAGGGAAGGGG
1 AAGGGAAAGGGAAAAGGGAAGAAG
* *
62381110 AAGGGAAAGGGGAAAGGGTAGAAG
1 AAGGGAAAGGGAAAAGGGAAGAAG
62381134 AAGG
1 AAGG
62381138 CATCATTTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.54, T:0.02
Consensus pattern (24 bp):
AAGGGAAAGGGAAAAGGGAAGAAG
Found at i:62393944 original size:23 final size:23
Alignment explanation
Indices: 62393911--62393961 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
62393901 AATCAATAAT
*
62393911 TTGCACCAAAGTGCCACTATCAC
1 TTGCACCAAAGTGCCACAATCAC
* *
62393934 TTGCACTAAAGTGTCACAATCAC
1 TTGCACCAAAGTGCCACAATCAC
62393957 TTGCA
1 TTGCA
62393962 TGGATGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.25
Consensus pattern (23 bp):
TTGCACCAAAGTGCCACAATCAC
Found at i:62394090 original size:2 final size:2
Alignment explanation
Indices: 62394083--62394114 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
62394073 TCAAACTTTA
62394083 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
62394115 AACTATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:62403231 original size:20 final size:20
Alignment explanation
Indices: 62403190--62403228 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
62403180 TTTATTAAAA
*
62403190 GTATATTTTTTTGCAAGTTG
1 GTATATTTTTTTACAAGTTG
*
62403210 GTATTTTTTTTTCACAAGT
1 GTATATTTTTTT-ACAAGT
62403229 GGTCCTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.21, C:0.08, G:0.15, T:0.56
Consensus pattern (20 bp):
GTATATTTTTTTACAAGTTG
Found at i:62407654 original size:28 final size:27
Alignment explanation
Indices: 62407591--62407664 Score: 71
Period size: 28 Copynumber: 2.7 Consensus size: 27
62407581 TATAGTTTAT
**
62407591 ATATTATAAATTTTATATATTTTTCAAA
1 ATATTATATTTTTTATATATTTTT-AAA
*
62407619 ATATTATAGGTTTTTTATATATTTTT-TA
1 ATATTATA--TTTTTTATATATTTTTAAA
62407647 AT-TGTATATTTTTTATAT
1 ATAT-TATATTTTTTATAT
62407665 TTTCAAAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
26 10 0.25
27 1 0.03
28 15 0.38
30 14 0.35
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (27 bp):
ATATTATATTTTTTATATATTTTTAAA
Found at i:62409340 original size:179 final size:180
Alignment explanation
Indices: 62408998--62409355 Score: 619
Period size: 179 Copynumber: 2.0 Consensus size: 180
62408988 CTTTTCGTTA
* *
62408998 TAACGAGAGTGTGATCAATTGATAATGTTATTAATTTTATAATATTTTTTTAAGTTAAGTGAACA
1 TAACGAGAGTGTGATCAATTGATAATATTAATAATTTTATAATATTTTTTTAAGTTAAGTGAACA
62409063 AAACATAAATTTACTCAAACATGAATATCTAATTTTGTAATTTACCCATAACTTCATATCCAATT
66 AAACATAAATTTACT---ACATGAATATCTAATTTTGTAATTTACCCATAACTTCATATCCAATT
* *
62409128 CATGTGTATTTTTAAAGAAACAATAATAAATAGGGTTGAAACTCAAATACCCT
128 CATGTGCATTTTTAAAGAAACAAGAATAAATAGGGTTGAAACTCAAATACCCT
*
62409181 TAACGAGAGTGTGATCAATTGATAATATTAATAATTTTATAATATTTTTTTAAGTTAAGTGACCA
1 TAACGAGAGTGTGATCAATTGATAATATTAATAATTTTATAATATTTTTTTAAGTTAAGTGAACA
*
62409246 AAACATAAATTTACT-CATGAATATTTAATTTTGTAATTTACCCATAACTTCATATCCAATTCAT
66 AAACATAAATTTACTACATGAATATCTAATTTTGTAATTTACCCATAACTTCATATCCAATTCAT
*
62409310 GTGCATTTTTAAAGAAACAAGCATAAATAGGGTTGAAACTCAAATA
131 GTGCATTTTTAAAGAAACAAGAATAAATAGGGTTGAAACTCAAATA
62409356 TAATAATGGG
Statistics
Matches: 168, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
179 91 0.54
183 77 0.46
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.37
Consensus pattern (180 bp):
TAACGAGAGTGTGATCAATTGATAATATTAATAATTTTATAATATTTTTTTAAGTTAAGTGAACA
AAACATAAATTTACTACATGAATATCTAATTTTGTAATTTACCCATAACTTCATATCCAATTCAT
GTGCATTTTTAAAGAAACAAGAATAAATAGGGTTGAAACTCAAATACCCT
Found at i:62409737 original size:14 final size:16
Alignment explanation
Indices: 62409708--62409739 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
62409698 TTTTTTTAAA
62409708 AAAAAATATAATATTT
1 AAAAAATATAATATTT
62409724 AAAAAAT-TAA-ATTT
1 AAAAAATATAATATTT
62409738 AA
1 AA
62409740 TAATAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 3 0.19
16 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAAAATATAATATTT
Found at i:62410481 original size:15 final size:14
Alignment explanation
Indices: 62410461--62410492 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
62410451 CACATCCTGA
62410461 AAATTGGGTTAGAAG
1 AAATTGGGTTAG-AG
62410476 AAATTGGGTTAGAG
1 AAATTGGGTTAGAG
62410490 AAA
1 AAA
62410493 CCAAGAGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (14 bp):
AAATTGGGTTAGAG
Found at i:62414184 original size:21 final size:21
Alignment explanation
Indices: 62414158--62414199 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
62414148 TGCATATTCC
* *
62414158 AATAACATTCAGTGATCAATA
1 AATAACATTCAATGAACAATA
*
62414179 AATAACGTTCAATGAACAATA
1 AATAACATTCAATGAACAATA
62414200 TAGGAATAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.14, G:0.10, T:0.26
Consensus pattern (21 bp):
AATAACATTCAATGAACAATA
Found at i:62430816 original size:28 final size:27
Alignment explanation
Indices: 62430785--62430865 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 27
62430775 GTGGGAAGTT
*
62430785 CATCAGGACTATCTAAATGTGCGAAGCC
1 CATCAAGACTATCTAAATGTG-GAAGCC
* * *
62430813 CATCAAAACTGTCTAAATGTAGGAAGTC
1 CATCAAGACTATCTAAATGT-GGAAGCC
*
62430841 C-TCAAGACGATCTTAAATGTGGAAG
1 CATCAAGACTATC-TAAATGTGGAAG
62430866 TCGTCCAAGA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
27 13 0.30
28 30 0.68
29 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (27 bp):
CATCAAGACTATCTAAATGTGGAAGCC
Found at i:62430864 original size:27 final size:28
Alignment explanation
Indices: 62430826--62430896 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
62430816 CAAAACTGTC
*
62430826 TAAATGTAGGAAGTCCT-CAAGACGATCT
1 TAAATGT-GGAAGTCCTCCAAGACAATCT
*
62430854 TAAATGTGGAAGTCGTCCAAGACAATCT
1 TAAATGTGGAAGTCCTCCAAGACAATCT
*
62430882 TAAATGAGGAAGTCC
1 TAAATGTGGAAGTCC
62430897 GTCTGAACGA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 8 0.21
28 30 0.79
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.24
Consensus pattern (28 bp):
TAAATGTGGAAGTCCTCCAAGACAATCT
Found at i:62430909 original size:28 final size:28
Alignment explanation
Indices: 62430826--62430916 Score: 98
Period size: 28 Copynumber: 3.2 Consensus size: 28
62430816 CAAAACTGTC
62430826 TAAATGTAGGAAGTCC-TCAAGACGATCT
1 TAAATG-AGGAAGTCCGTCAAGACGATCT
* *
62430854 TAAATGTGGAAGT-CGTCCAAGACAATCT
1 TAAATGAGGAAGTCCGT-CAAGACGATCT
*
62430882 TAAATGAGGAAGTCCGTC-TGAACGATCT
1 TAAATGAGGAAGTCCGTCAAG-ACGATCT
62430910 TACAATG
1 TA-AATG
62430917 GAAATTCGTC
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
26 1 0.02
27 8 0.15
28 37 0.70
29 7 0.13
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (28 bp):
TAAATGAGGAAGTCCGTCAAGACGATCT
Found at i:62432644 original size:97 final size:97
Alignment explanation
Indices: 62432508--62432702 Score: 363
Period size: 97 Copynumber: 2.0 Consensus size: 97
62432498 TATCTGAGTG
*
62432508 AAGGTTTATTTGTGATTGAGACCATGTTTCATGATAATAATAAAGCCACCACTTCTACTTATATT
1 AAGGTTTATTTGTGATTGAGACCATGTTTAATGATAATAATAAAGCCACCACTTCTACTTATATT
62432573 GCTGAATCCATTGACATGTGGCATGCTAGATT
66 GCTGAATCCATTGACATGTGGCATGCTAGATT
* *
62432605 AAGGTTTATTTGTGATTGAGACCATGTTTAATGATAATAATACAGCCATCACTTCTACTTATATT
1 AAGGTTTATTTGTGATTGAGACCATGTTTAATGATAATAATAAAGCCACCACTTCTACTTATATT
62432670 GCTGAATCCATTGACATGTGGCATGCTAGATT
66 GCTGAATCCATTGACATGTGGCATGCTAGATT
62432702 A
1 A
62432703 GGTCATGTGA
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 95 1.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.36
Consensus pattern (97 bp):
AAGGTTTATTTGTGATTGAGACCATGTTTAATGATAATAATAAAGCCACCACTTCTACTTATATT
GCTGAATCCATTGACATGTGGCATGCTAGATT
Found at i:62470675 original size:60 final size:59
Alignment explanation
Indices: 62470534--62470678 Score: 200
Period size: 60 Copynumber: 2.4 Consensus size: 59
62470524 TTCATCTTCA
* * * *
62470534 GATGAAGTGTTTTCTTCATCAAAATTATAACTAGTGACTTTTATGTCTTCATCCTGATCT
1 GATGAAGTTTTTTCTTCATC-AGATTATAACTAGTAACATTTATGTCTTCATCCTGATCT
* * * *
62470594 GTTGAAGTTTTTTCTTCATCAGATTGATTACTAGTAACATTTATGTCTTCTTTCTGATCT
1 GATGAAGTTTTTTCTTCATCAGATT-ATAACTAGTAACATTTATGTCTTCATCCTGATCT
62470654 GATGAAGTTTTTTCTTCATCAGATT
1 GATGAAGTTTTTTCTTCATCAGATT
62470679 TAAAACTACT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
59 4 0.05
60 71 0.95
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.47
Consensus pattern (59 bp):
GATGAAGTTTTTTCTTCATCAGATTATAACTAGTAACATTTATGTCTTCATCCTGATCT
Found at i:62498626 original size:3 final size:3
Alignment explanation
Indices: 62498618--62498681 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
62498608 CAACCAATAA
62498618 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
62498666 CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT C
62498682 ACTAAACAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:62499564 original size:27 final size:27
Alignment explanation
Indices: 62499532--62499604 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
62499522 AAAAAACGAG
*
62499532 TCGAGCCTGTCAAATAGGCACGACTAA
1 TCGAGCCTGACAAATAGGCACGACTAA
* * * * *
62499559 TTGAGCCTGCCAGATAGGCGCTACTAA
1 TCGAGCCTGACAAATAGGCACGACTAA
* *
62499586 TCGCGCCTGACAAGTAGGC
1 TCGAGCCTGACAAATAGGC
62499605 GTGAATGGTG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.27, C:0.27, G:0.26, T:0.19
Consensus pattern (27 bp):
TCGAGCCTGACAAATAGGCACGACTAA
Found at i:62499909 original size:60 final size:60
Alignment explanation
Indices: 62499840--62499958 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
62499830 TTGCTTTTTA
* * * * *
62499840 TAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGTTTG
1 TAATCATTTTAAAATTAATTTATTAGTAATTTAGGATAAAGTTATAAATTATTGTGTTTG
62499900 TAATCATTTTAAAATTAATTTATTAGTAATTTAGGATAAAGTTATAAATTATTGTGTTT
1 TAATCATTTTAAAATTAATTTATTAGTAATTTAGGATAAAGTTATAAATTATTGTGTTT
62499959 AGTTTAGTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.35, C:0.01, G:0.12, T:0.52
Consensus pattern (60 bp):
TAATCATTTTAAAATTAATTTATTAGTAATTTAGGATAAAGTTATAAATTATTGTGTTTG
Found at i:62504953 original size:20 final size:20
Alignment explanation
Indices: 62504928--62504965 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
62504918 ACTAGATCTG
*
62504928 TTAAAAAATTTTCGAAATTC
1 TTAAAAAAGTTTCGAAATTC
*
62504948 TTAAAACAGTTTCGAAAT
1 TTAAAAAAGTTTCGAAAT
62504966 GCAAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.37
Consensus pattern (20 bp):
TTAAAAAAGTTTCGAAATTC
Found at i:62505303 original size:27 final size:27
Alignment explanation
Indices: 62505264--62505354 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
62505254 AGTGGGCCCC
* * *
62505264 ACTATTCGTGCCTTTGAGTTAGGCTCA
1 ACTAGTCGCGCCTTTGAGATAGGCTCA
62505291 ACTAGTCGCGCCTGTT-AGATAGGCTCA
1 ACTAGTCGCGCCT-TTGAGATAGGCTCA
* *
62505318 ACTAGTCACGCCTCTGAGATAGGCTCA
1 ACTAGTCGCGCCTTTGAGATAGGCTCA
*
62505345 ACTAATCGCG
1 ACTAGTCGCG
62505355 TCTATCAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.02
27 52 0.95
28 2 0.04
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (27 bp):
ACTAGTCGCGCCTTTGAGATAGGCTCA
Found at i:62505366 original size:27 final size:27
Alignment explanation
Indices: 62505283--62505366 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 27
62505273 GCCTTTGAGT
* *
62505283 TAGGCTCAACTAGTCGCGCCTGTTAGA
1 TAGGCTCAACTAGTCGCGCCTATCAGA
* * *
62505310 TAGGCTCAACTAGTCACGCCTCTGAGA
1 TAGGCTCAACTAGTCGCGCCTATCAGA
* * *
62505337 TAGGCTCAACTAATCGCGTCTATCAAA
1 TAGGCTCAACTAGTCGCGCCTATCAGA
62505364 TAG
1 TAG
62505367 CCGCAACCTG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (27 bp):
TAGGCTCAACTAGTCGCGCCTATCAGA
Found at i:62506904 original size:20 final size:20
Alignment explanation
Indices: 62506879--62506922 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
62506869 TTCACCGCCA
*
62506879 ATACCAGAT-AAAATTTATCG
1 ATACCAGATGAAAA-GTATCG
*
62506899 ATACCATATGAAAAGTATCG
1 ATACCAGATGAAAAGTATCG
62506919 ATAC
1 ATAC
62506923 AGTATTGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.27
Consensus pattern (20 bp):
ATACCAGATGAAAAGTATCG
Found at i:62507176 original size:97 final size:97
Alignment explanation
Indices: 62507010--62507201 Score: 348
Period size: 97 Copynumber: 2.0 Consensus size: 97
62507000 AAAACTATCG
*
62507010 ATACTTTTTGGCTTGGAGCTATACTGACTTGTTTTAAAAACAGTTTGACTAGTTGAAAGAATTAT
1 ATACTTTTTGGCCTGGAGCTATACTGACTTGTTTTAAAAACAGTTTGACTAGTTGAAAGAATTAT
*
62507075 TACTTGATTAAACTCATTTTAACTTGATTTCA
66 TACTTGATTAAAATCATTTTAACTTGATTTCA
*
62507107 ATACTTTTTGGCCTGGAGCTATACTGACTTGTTTTAAAAACAGTTTGACTAGTTGAAATAATTAT
1 ATACTTTTTGGCCTGGAGCTATACTGACTTGTTTTAAAAACAGTTTGACTAGTTGAAAGAATTAT
*
62507172 TACTTGATTAAAATCATTTTAACTTTATTT
66 TACTTGATTAAAATCATTTTAACTTGATTT
62507202 TAAAGTTGAT
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
97 91 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (97 bp):
ATACTTTTTGGCCTGGAGCTATACTGACTTGTTTTAAAAACAGTTTGACTAGTTGAAAGAATTAT
TACTTGATTAAAATCATTTTAACTTGATTTCA
Found at i:62507315 original size:22 final size:24
Alignment explanation
Indices: 62507290--62507333 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
62507280 ATTTTGTTTA
62507290 ACTTTAACTT-TTAT-TCAAAAAC
1 ACTTTAACTTGTTATATCAAAAAC
*
62507312 ACTTTAATTTGTTATATCAAAA
1 ACTTTAACTTGTTATATCAAAA
62507334 TATATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (24 bp):
ACTTTAACTTGTTATATCAAAAAC
Found at i:62513020 original size:96 final size:96
Alignment explanation
Indices: 62512856--62513051 Score: 383
Period size: 96 Copynumber: 2.0 Consensus size: 96
62512846 CAATTAATTG
62512856 GTTGCCTACTACTTAGGCCACTTTTGGAGTAGTGGGCATAGTTTCTAATTGTTAAAACAATAGAA
1 GTTGCCTACTACTTAGGCCACTTTTGGAGTAGTGGGCATAGTTTCTAATTGTTAAAACAATAGAA
62512921 ACTGTGCAGGCATCGTTAGAAAATTCTGCAT
66 ACTGTGCAGGCATCGTTAGAAAATTCTGCAT
*
62512952 GTTGCCTATTACTTAGGCCACTTTTGGAGTAGTGGGCATAGTTTCTAATTGTTAAAACAATAGAA
1 GTTGCCTACTACTTAGGCCACTTTTGGAGTAGTGGGCATAGTTTCTAATTGTTAAAACAATAGAA
62513017 ACTGTGCAGGCATCGTTAGAAAATTCTGCAT
66 ACTGTGCAGGCATCGTTAGAAAATTCTGCAT
62513048 GTTG
1 GTTG
62513052 AAATAGGAAT
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 99 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (96 bp):
GTTGCCTACTACTTAGGCCACTTTTGGAGTAGTGGGCATAGTTTCTAATTGTTAAAACAATAGAA
ACTGTGCAGGCATCGTTAGAAAATTCTGCAT
Found at i:62518811 original size:13 final size:13
Alignment explanation
Indices: 62518793--62518829 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
62518783 TTCACAATGC
62518793 TTTTGAAAAGTAT
1 TTTTGAAAAGTAT
* *
62518806 TTTTGAGAAGTGT
1 TTTTGAAAAGTAT
62518819 TTTTGAAAAGT
1 TTTTGAAAAGT
62518830 TTGATTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (13 bp):
TTTTGAAAAGTAT
Found at i:62536518 original size:16 final size:18
Alignment explanation
Indices: 62536493--62536526 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
62536483 TTTTTTTATA
62536493 AAAAATTAATT-ACCACT
1 AAAAATTAATTAACCACT
62536510 AAAAA-TAATTAACCACT
1 AAAAATTAATTAACCACT
62536527 TTTAACTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.56, C:0.18, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAATTAATTAACCACT
Found at i:62537038 original size:24 final size:24
Alignment explanation
Indices: 62537002--62537049 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
62536992 CCGTCATTTT
*
62537002 ACTTGGTGAATTTATTTGGTACCA
1 ACTTAGTGAATTTATTTGGTACCA
*
62537026 ACTTAGTGGATTTATTTGGTACCA
1 ACTTAGTGAATTTATTTGGTACCA
62537050 TTTGAATCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.42
Consensus pattern (24 bp):
ACTTAGTGAATTTATTTGGTACCA
Found at i:62550179 original size:28 final size:29
Alignment explanation
Indices: 62550123--62550180 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
62550113 CAAATATCAT
* **
62550123 TATTATTTTTATATGTAAAATATTTTAAA
1 TATTATTTTTATATCTAAAATATGGTAAA
*
62550152 TATTATTTTT-TATCTAGAATATGGTAAA
1 TATTATTTTTATATCTAAAATATGGTAAA
62550180 T
1 T
62550181 TTTAATATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (29 bp):
TATTATTTTTATATCTAAAATATGGTAAA
Found at i:62550356 original size:13 final size:13
Alignment explanation
Indices: 62550338--62550362 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62550328 AAAAATATTT
62550338 ATTAATTAAAAAC
1 ATTAATTAAAAAC
62550351 ATTAATTAAAAA
1 ATTAATTAAAAA
62550363 TTAAAAAAAT
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:62559178 original size:7 final size:7
Alignment explanation
Indices: 62559163--62559192 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
62559153 GAAAATGAAA
*
62559163 TGTGAAT
1 TGTGGAT
62559170 TGTGGAT
1 TGTGGAT
62559177 TGTGGAT
1 TGTGGAT
62559184 TGTGGAT
1 TGTGGAT
62559191 TG
1 TG
62559193 AATTGGGATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.43
Consensus pattern (7 bp):
TGTGGAT
Found at i:62560041 original size:30 final size:30
Alignment explanation
Indices: 62560005--62560076 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
62559995 TAACAGTAGA
*
62560005 GTGACTAAATTGGACAACTTATCTAACGA-G
1 GTGACTAAATT-GACAACTTATCTAACAAGG
*
62560035 GTGACTAAAATTGACAACTTATCTAATAAGG
1 GTGACT-AAATTGACAACTTATCTAACAAGG
62560066 GTGACTAAATT
1 GTGACTAAATT
62560077 ATATTCTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 26 0.68
31 12 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (30 bp):
GTGACTAAATTGACAACTTATCTAACAAGG
Found at i:62561354 original size:44 final size:44
Alignment explanation
Indices: 62561291--62561390 Score: 155
Period size: 44 Copynumber: 2.3 Consensus size: 44
62561281 TTATCACTTG
* *
62561291 TCACTTGTCCCAGATCAGATAAGTGTAGCTAAAGCTACCACTCA
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTCA
* * *
62561335 TCACTTGTCACTGATCAGATAAGTGTAGTTAAAGTTACCACTTA
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTCA
62561379 TCACTTGTCACT
1 TCACTTGTCACT
62561391 TGTCACTTGT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (44 bp):
TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTCA
Found at i:62561389 original size:7 final size:7
Alignment explanation
Indices: 62561373--62561404 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
62561363 TTAAAGTTAC
*
62561373 CACTTAT
1 CACTTGT
62561380 CACTTGT
1 CACTTGT
62561387 CACTTGT
1 CACTTGT
62561394 CACTTGT
1 CACTTGT
62561401 CACT
1 CACT
62561405 GATTAGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.19, C:0.31, G:0.09, T:0.41
Consensus pattern (7 bp):
CACTTGT
Found at i:62561413 original size:102 final size:102
Alignment explanation
Indices: 62561284--62561492 Score: 355
Period size: 102 Copynumber: 2.0 Consensus size: 102
62561274 ATCACATTTA
*
62561284 TCACTTGTCACTTGTCCCAGATCAGATAAGTGTAGCTAAAGCTACCACTCATCACTTGTCACTGA
1 TCACTTGTCACTTGTCACAGATCAGATAAGTGTAGCTAAAGCTACCACTCATCACTTGTCACTGA
* *
62561349 TCAGATAAGTGTAGTTAAAGTTACCACTTATCACTTG
66 TCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* * * *
62561386 TCACTTGTCACTTGTCACTGATTAGATAAGTGTAGCTAAAGCTATCACTTATCACTTGTCACTGA
1 TCACTTGTCACTTGTCACAGATCAGATAAGTGTAGCTAAAGCTACCACTCATCACTTGTCACTGA
62561451 TCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
66 TCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
62561488 TCACT
1 TCACT
62561493 GATTAGAAGT
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 100 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (102 bp):
TCACTTGTCACTTGTCACAGATCAGATAAGTGTAGCTAAAGCTACCACTCATCACTTGTCACTGA
TCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
Found at i:62561426 original size:58 final size:58
Alignment explanation
Indices: 62561335--62561448 Score: 192
Period size: 58 Copynumber: 2.0 Consensus size: 58
62561325 CTACCACTCA
* *
62561335 TCACTTGTCACTGATCAGATAAGTGTAGTTAAAGTTACCACTTATCACTTGTCACTTG
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTG
* *
62561393 TCACTTGTCACTGATTAGATAAGTGTAGCTAAAGCTATCACTTATCACTTGTCACT
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACT
62561449 GATCAGATAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (58 bp):
TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTG
Found at i:62561449 original size:44 final size:44
Alignment explanation
Indices: 62561386--62561499 Score: 201
Period size: 44 Copynumber: 2.6 Consensus size: 44
62561376 TTATCACTTG
*
62561386 TCACTTGTCACTTGTCACTGATTAGATAAGTGTAGCTAAAGCTA
1 TCACTTATCACTTGTCACTGATTAGATAAGTGTAGCTAAAGCTA
*
62561430 TCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTA
1 TCACTTATCACTTGTCACTGATTAGATAAGTGTAGCTAAAGCTA
*
62561474 CCACTTATCACTTGTCACTGATTAGA
1 TCACTTATCACTTGTCACTGATTAGA
62561500 AGTACTCAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 66 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (44 bp):
TCACTTATCACTTGTCACTGATTAGATAAGTGTAGCTAAAGCTA
Found at i:62573774 original size:72 final size:72
Alignment explanation
Indices: 62573652--62573795 Score: 270
Period size: 72 Copynumber: 2.0 Consensus size: 72
62573642 GAGTAGTAGG
62573652 ACCAATTGCCCCTGCTAAAATCCTGGAAACTTCTTGGGTTTATCTATAAAATGCTTACTGTTTCC
1 ACCAATTGCCCCTGCTAAAATCCTGGAAACTTCTTGGGTTTATCTATAAAATGCTTACTGTTTCC
62573717 ACAAAAA
66 ACAAAAA
* *
62573724 ACCAATTGCCCCTGCTAAAATCTTGGAAACTTCTTGGGTTTATCTGTAAAATGCTTACTGTTTCC
1 ACCAATTGCCCCTGCTAAAATCCTGGAAACTTCTTGGGTTTATCTATAAAATGCTTACTGTTTCC
62573789 ACAAAAA
66 ACAAAAA
62573796 TCTGACTTCT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (72 bp):
ACCAATTGCCCCTGCTAAAATCCTGGAAACTTCTTGGGTTTATCTATAAAATGCTTACTGTTTCC
ACAAAAA
Found at i:62578056 original size:15 final size:15
Alignment explanation
Indices: 62578038--62578101 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
62578028 TGAAGATGAA
*
62578038 GATGATGATGGGGCT
1 GATGATGATGGGGAT
* *
62578053 GATGGTGATGGTGAT
1 GATGATGATGGGGAT
62578068 GATGATGATGGAAGTGAT
1 GATGATGATGG--G-GAT
* *
62578086 GATGGTGATGGTGAT
1 GATGATGATGGGGAT
62578101 G
1 G
62578102 CATGCAACAC
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
15 26 0.67
18 13 0.33
ACGTcount: A:0.23, C:0.02, G:0.45, T:0.30
Consensus pattern (15 bp):
GATGATGATGGGGAT
Found at i:62579495 original size:15 final size:15
Alignment explanation
Indices: 62579477--62579540 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
62579467 TGAAGATGAA
*
62579477 GATGATGATGGGGCT
1 GATGATGATGGGGAT
* *
62579492 GATGGTGATGGTGAT
1 GATGATGATGGGGAT
62579507 GATGATGATGGAAGTGAT
1 GATGATGATGG--G-GAT
* *
62579525 GATGGTGATGGTGAT
1 GATGATGATGGGGAT
62579540 G
1 G
62579541 CATGCAACAC
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
15 26 0.67
18 13 0.33
ACGTcount: A:0.23, C:0.02, G:0.45, T:0.30
Consensus pattern (15 bp):
GATGATGATGGGGAT
Found at i:62582211 original size:95 final size:94
Alignment explanation
Indices: 62582065--62582242 Score: 225
Period size: 95 Copynumber: 1.9 Consensus size: 94
62582055 TAACTAATTG
** * * * *
62582065 TATTATAAAAGTAGATACAAAATTATTTCATATTAAATTGTAATGACTAAATCTCAAAT-TCGAG
1 TATTATAAAAGTAGATACAAAATTACGTCAAATTAAATTATAATGACTAAATCTCAAATCT-AAA
62582129 TATAATAAAAGGACCAAAATCACAATTTGA
65 TATAATAAAAGGACCAAAATCACAATTTGA
* * *
62582159 TATTATAAAAGTAGATGAGAAGATTACGTCAAATTAAATTATAGA-GACTAAATCTCATATCTAA
1 TATTATAAAAGTAGAT-ACAAAATTACGTCAAATTAAATTATA-ATGACTAAATCTCAAATCTAA
*
62582223 ATATAGTAAAAGGACCAAAA
64 ATATAATAAAAGGACCAAAA
62582243 CCAATCCCTT
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
94 16 0.23
95 53 0.75
96 2 0.03
ACGTcount: A:0.49, C:0.10, G:0.11, T:0.30
Consensus pattern (94 bp):
TATTATAAAAGTAGATACAAAATTACGTCAAATTAAATTATAATGACTAAATCTCAAATCTAAAT
ATAATAAAAGGACCAAAATCACAATTTGA
Found at i:62596903 original size:21 final size:21
Alignment explanation
Indices: 62596878--62596921 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
62596868 ATTGGGCTGT
* *
62596878 TACACTCCACCTGTTTTGGAG
1 TACACTCCACCTGCTGTGGAG
62596899 TACACTCCACCTGCTGTGGAG
1 TACACTCCACCTGCTGTGGAG
62596920 TA
1 TA
62596922 TTGCTCGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (21 bp):
TACACTCCACCTGCTGTGGAG
Found at i:62602364 original size:25 final size:23
Alignment explanation
Indices: 62602336--62602400 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
62602326 TGAAACTAGA
*
62602336 ACAAAGAGAAAAGGAAAAATGTGCT
1 ACAAAGAGAAAA--AAAAACGTGCT
* *
62602361 ACAAAACAGAAAAAAAACCGTGCT
1 AC-AAAGAGAAAAAAAAACGTGCT
62602385 ACAAAGCAGAAAAAAA
1 ACAAAG-AGAAAAAAA
62602401 TACTGTTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
23 3 0.09
24 20 0.59
25 2 0.06
26 9 0.26
ACGTcount: A:0.62, C:0.14, G:0.17, T:0.08
Consensus pattern (23 bp):
ACAAAGAGAAAAAAAAACGTGCT
Found at i:62611818 original size:6 final size:6
Alignment explanation
Indices: 62611809--62611840 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
62611799 ACTAGAATCT
62611809 AAATAA AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AA
62611841 TATTAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:62613651 original size:20 final size:20
Alignment explanation
Indices: 62613628--62613668 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
62613618 AAATAATTTG
62613628 TTAAA-AAAATAAATCTTAAT
1 TTAAAGAAAATAAAT-TTAAT
62613648 TTAAAGAAAATAAATTTAAT
1 TTAAAGAAAATAAATTTAAT
62613668 T
1 T
62613669 ATTGTTGACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
TTAAAGAAAATAAATTTAAT
Found at i:62616132 original size:20 final size:20
Alignment explanation
Indices: 62616096--62616135 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
62616086 TCCTATTGTT
62616096 GTTTTGTTACTGTTTGCTGC
1 GTTTTGTTACTGTTTGCTGC
*
62616116 GTTTCTGTTTCTG-TTGCTGC
1 GTTT-TGTTACTGTTTGCTGC
62616136 TTCCGTCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.03, C:0.17, G:0.25, T:0.55
Consensus pattern (20 bp):
GTTTTGTTACTGTTTGCTGC
Found at i:62618217 original size:17 final size:16
Alignment explanation
Indices: 62618181--62618218 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
62618171 AGCCTTAGTA
**
62618181 ATATATTACTTTTATT
1 ATATATTAAATTTATT
62618197 ATATATTAAATTTATT
1 ATATATTAAATTTATT
62618213 -TATATT
1 ATATATT
62618219 TTTTTAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
ATATATTAAATTTATT
Found at i:62626781 original size:14 final size:14
Alignment explanation
Indices: 62626739--62626782 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
62626729 AATCAAACAC
* *
62626739 CAGAAAATATTTTC
1 CAGAAAACATTTTA
*
62626753 CAGTAAATCATTTTA
1 CAG-AAAACATTTTA
62626768 CAGAAAACATTTTA
1 CAGAAAACATTTTA
62626782 C
1 C
62626783 TGGCAATCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (14 bp):
CAGAAAACATTTTA
Found at i:62629612 original size:20 final size:20
Alignment explanation
Indices: 62629589--62629636 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
62629579 ATTTCTTTAG
62629589 TTATTTATTATT-TTAAATAT
1 TTATTTATTATTCTTAAAT-T
62629609 TTATTCT-TTATTCTTAAATT
1 TTATT-TATTATTCTTAAATT
62629629 TT-TTTATT
1 TTATTTATT
62629637 TTTGTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
18 1 0.04
19 4 0.16
20 13 0.52
21 7 0.28
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (20 bp):
TTATTTATTATTCTTAAATT
Found at i:62637761 original size:12 final size:12
Alignment explanation
Indices: 62637744--62637769 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
62637734 ATTCTAGCCG
62637744 AATTTATTCACA
1 AATTTATTCACA
62637756 AATTTATTCACA
1 AATTTATTCACA
62637768 AA
1 AA
62637770 CTAGGACAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (12 bp):
AATTTATTCACA
Found at i:62638162 original size:5 final size:5
Alignment explanation
Indices: 62638147--62638195 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
62638137 AAGATGATAG
* * *
62638147 TATTT TGTTT TATTT TATTT TATTT TACTT AAGTTT TATTT TACTTT TA
1 TATTT TATTT TATTT TATTT TATTT TATTT TA-TTT TATTT TA-TTT TA
62638196 ACATATATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
5 28 0.78
6 8 0.22
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.71
Consensus pattern (5 bp):
TATTT
Found at i:62642280 original size:26 final size:26
Alignment explanation
Indices: 62642217--62642291 Score: 69
Period size: 27 Copynumber: 2.8 Consensus size: 26
62642207 CCTAATATAT
* * *
62642217 AATAAATATATATTTTTTAAATTTTAA
1 AATAAATTTTTATTTTTT-ATTTTTAA
**
62642244 AATACTTTTTTTATTTTTTATTTTTAA
1 AATA-AATTTTTATTTTTTATTTTTAA
* *
62642271 AATAAATTTTTAGTGTTTATT
1 AATAAATTTTTATTTTTTATT
62642292 AAAAAAAGGG
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
26 13 0.34
27 15 0.39
28 10 0.26
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (26 bp):
AATAAATTTTTATTTTTTATTTTTAA
Found at i:62642280 original size:28 final size:28
Alignment explanation
Indices: 62642227--62642281 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
62642217 AATAAATATA
*
62642227 TATTTTTTAAATTTTAAAATACTTTTTT
1 TATTTTTTAAATTTTAAAATAATTTTTT
* *
62642255 TATTTTTT-ATTTTTAAAATAAATTTTT
1 TATTTTTTAAATTTTAAAATAATTTTTT
62642282 AGTGTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (28 bp):
TATTTTTTAAATTTTAAAATAATTTTTT
Found at i:62644746 original size:99 final size:99
Alignment explanation
Indices: 62644575--62644772 Score: 378
Period size: 99 Copynumber: 2.0 Consensus size: 99
62644565 AACAAAAAAA
62644575 AACCTAGCCGCTCTCCCTAGCCTAGCGCCGCAACCACCCTTGGTCTTCTGCTCACCTGCTCTGCC
1 AACCTAGCCGCTCTCCCTAGCCTAGCGCCGCAACCACCCTTGGTCTTCTGCTCACCTGCTCTGCC
62644640 AGCAACCACCGCCAACTGCCACTGTCATCTCCAC
66 AGCAACCACCGCCAACTGCCACTGTCATCTCCAC
62644674 AACCTAGCCGCTCTCCCTAGCCTAGCGCCGCAACCACCCTTGGTCTTCTGCTCACCTGCTCTGCC
1 AACCTAGCCGCTCTCCCTAGCCTAGCGCCGCAACCACCCTTGGTCTTCTGCTCACCTGCTCTGCC
* *
62644739 ATCAACCACCGCCAACTGCCCCTGTCATCTCCAC
66 AGCAACCACCGCCAACTGCCACTGTCATCTCCAC
62644773 CCACGTGCGC
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 97 1.00
ACGTcount: A:0.18, C:0.47, G:0.15, T:0.21
Consensus pattern (99 bp):
AACCTAGCCGCTCTCCCTAGCCTAGCGCCGCAACCACCCTTGGTCTTCTGCTCACCTGCTCTGCC
AGCAACCACCGCCAACTGCCACTGTCATCTCCAC
Found at i:62646124 original size:8 final size:8
Alignment explanation
Indices: 62646113--62646182 Score: 54
Period size: 8 Copynumber: 9.0 Consensus size: 8
62646103 ATTTTATAAG
62646113 TATATA-T
1 TATATATT
*
62646120 T-TATATG
1 TATATATT
* *
62646127 TACATACT
1 TATATATT
62646135 TATATATT
1 TATATATT
*
62646143 TATATTTT
1 TATATATT
*
62646151 TACATATT
1 TATATATT
* *
62646159 AATATATG
1 TATATATT
*
62646167 TATATTTT
1 TATATATT
62646175 TATATATT
1 TATATATT
62646183 ATTTTATTAT
Statistics
Matches: 45, Mismatches: 16, Indels: 3
0.70 0.25 0.05
Matches are distributed among these distances:
6 4 0.09
7 2 0.04
8 39 0.87
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (8 bp):
TATATATT
Found at i:62646154 original size:24 final size:23
Alignment explanation
Indices: 62646113--62646184 Score: 85
Period size: 24 Copynumber: 3.1 Consensus size: 23
62646103 ATTTTATAAG
*
62646113 TATATATTTATA--TGTACATACT
1 TATATATTTATATTTTTACATA-T
62646135 TATATATTTATATTTTTACATAT
1 TATATATTTATATTTTTACATAT
* *
62646158 TAATATATGTATATTTTTATATAT
1 T-ATATATTTATATTTTTACATAT
62646182 TAT
1 TAT
62646185 TTTATTATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
22 12 0.27
23 4 0.09
24 28 0.64
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (23 bp):
TATATATTTATATTTTTACATAT
Found at i:62647366 original size:23 final size:23
Alignment explanation
Indices: 62647333--62647385 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
62647323 GGACTCACCA
*
62647333 CAGCTCGTATGAGCTTACCGTTT
1 CAGCTCTTATGAGCTTACCGTTT
62647356 CAGCTCTTATGAGCTTACCGTTT
1 CAGCTCTTATGAGCTTACCGTTT
62647379 CAGCTCT
1 CAGCTCT
62647386 ACGGAGCTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.36
Consensus pattern (23 bp):
CAGCTCTTATGAGCTTACCGTTT
Found at i:62647392 original size:23 final size:23
Alignment explanation
Indices: 62647333--62647397 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 23
62647323 GGACTCACCA
* *
62647333 CAGCTCGTATGAGCTTACCGTTT
1 CAGCTCTTAGGAGCTTACCGTTT
*
62647356 CAGCTCTTATGAGCTTACCGTTT
1 CAGCTCTTAGGAGCTTACCGTTT
62647379 CAGCTC-TACGGAGCTTACC
1 CAGCTCTTA-GGAGCTTACC
62647398 ATTTTCCAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
22 2 0.05
23 37 0.95
ACGTcount: A:0.18, C:0.29, G:0.20, T:0.32
Consensus pattern (23 bp):
CAGCTCTTAGGAGCTTACCGTTT
Found at i:62647607 original size:25 final size:25
Alignment explanation
Indices: 62647578--62647630 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
62647568 TAAGAGCTAT
*
62647578 ATGATTTACAAGGATTATAAATTAC
1 ATGATTTACAAGGATTATAAACTAC
* *
62647603 ATGATTTACATGGTTTATAAACTAC
1 ATGATTTACAAGGATTATAAACTAC
62647628 ATG
1 ATG
62647631 GAATACATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (25 bp):
ATGATTTACAAGGATTATAAACTAC
Found at i:62647637 original size:25 final size:25
Alignment explanation
Indices: 62647578--62647639 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
62647568 TAAGAGCTAT
* * * *
62647578 ATGATTTACAAGGATTATAAATTAC
1 ATGATATACATGGTTTATAAACTAC
*
62647603 ATGATTTACATGGTTTATAAACTAC
1 ATGATATACATGGTTTATAAACTAC
62647628 ATGGA-ATACATG
1 AT-GATATACATG
62647640 ATTTTCATAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 30 0.94
26 2 0.06
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (25 bp):
ATGATATACATGGTTTATAAACTAC
Found at i:62647837 original size:18 final size:18
Alignment explanation
Indices: 62647814--62647849 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
62647804 TGGATGAATA
62647814 TATAGATGTGAAATGACT
1 TATAGATGTGAAATGACT
62647832 TATAGATGTGAAATGACT
1 TATAGATGTGAAATGACT
62647850 AATTTTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (18 bp):
TATAGATGTGAAATGACT
Found at i:62650984 original size:6 final size:6
Alignment explanation
Indices: 62650975--62651000 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
62650965 AAATTTAAAT
62650975 TTGATA TTGATA TTGATA TTGATA TT
1 TTGATA TTGATA TTGATA TTGATA TT
62651001 AAATAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (6 bp):
TTGATA
Found at i:62654083 original size:5 final size:5
Alignment explanation
Indices: 62654073--62654107 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
62654063 TTTATTTTTA
62654073 AATTT AATTT AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT AATTT AATTT
62654108 TTGTTTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:62679304 original size:48 final size:48
Alignment explanation
Indices: 62679248--62679341 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
62679238 AGGGAATTCT
* * *
62679248 GTTGAATCCTTTATTGTTGCG-AATT-GAGCTAACTTAGGCGTTTTTACG
1 GTTGAATCCATTATTGGTG-GAAATTAG-GCTAACTTAGGCATTTTTACG
*
62679296 GTTGAATCCATTATTGGTGGAAATTAGGCTGACTTAGGCATTTTTA
1 GTTGAATCCATTATTGGTGGAAATTAGGCTAACTTAGGCATTTTTA
62679342 AGCCAAGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
47 1 0.03
48 38 0.95
49 1 0.03
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.40
Consensus pattern (48 bp):
GTTGAATCCATTATTGGTGGAAATTAGGCTAACTTAGGCATTTTTACG
Found at i:62681846 original size:48 final size:48
Alignment explanation
Indices: 62681763--62681856 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
62681753 AGGGAATTCT
* * *
62681763 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
1 GTTGAATCCATTATTGGTGCGAGTTGAGCTAACTTAGGCGTTTTTACG
62681811 GTTGAATCCATTATTGGTG-GAAGTT-AGGCTAACTTAGGCGTTTTTA
1 GTTGAATCCATTATTGGTGCG-AGTTGA-GCTAACTTAGGCGTTTTTA
62681857 AGCCAAGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 2 0.05
48 39 0.95
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.40
Consensus pattern (48 bp):
GTTGAATCCATTATTGGTGCGAGTTGAGCTAACTTAGGCGTTTTTACG
Found at i:62694376 original size:41 final size:38
Alignment explanation
Indices: 62694325--62694516 Score: 115
Period size: 41 Copynumber: 4.7 Consensus size: 38
62694315 TATAGTTTAG
* * *
62694325 ATTAGAATTTTGTATGAATATTTTAAATTTTTTGTATGAAT
1 ATTATAATTTTGTATGAATATTGT-AA--TGTTGTATGAAT
*
62694366 ATTATAATTTTTTATGAATATTGTAATGTTGTATGAAT
1 ATTATAATTTTGTATGAATATTGTAATGTTGTATGAAT
* * *
62694404 ATTGTAATTATTTTAT-AATTAAATTTGTATTTATAGTT-T-TG--G
1 ATTATAATT-TTGTATGAA-T--A-TTGTA---AT-GTTGTATGAAT
*
62694446 ATTAGTAATTTTTTGTATGAATATTGTAATTTTGTATGAAT
1 ATTA-TAA--TTTTGTATGAATATTGTAATGTTGTATGAAT
62694487 ATTATAAATTTTTTGTATGAATATTGTAAT
1 ATTAT-AA--TTTTGTATGAATATTGTAAT
62694517 AATATTATAG
Statistics
Matches: 123, Mismatches: 10, Indels: 36
0.73 0.06 0.21
Matches are distributed among these distances:
37 2 0.02
38 24 0.20
39 9 0.07
40 3 0.02
41 55 0.45
42 9 0.07
43 3 0.02
44 8 0.07
45 7 0.06
46 3 0.02
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.54
Consensus pattern (38 bp):
ATTATAATTTTGTATGAATATTGTAATGTTGTATGAAT
Found at i:62694381 original size:19 final size:19
Alignment explanation
Indices: 62694325--62694516 Score: 95
Period size: 19 Copynumber: 9.4 Consensus size: 19
62694315 TATAGTTTAG
* *
62694325 ATTAGAATTTTGTATGAAT
1 ATTATAATTTTTTATGAAT
*
62694344 ATTTTAAATTTTTTGTATGAAT
1 ATTAT-AA-TTTTT-TATGAAT
62694366 ATTATAATTTTTTATGAAT
1 ATTATAATTTTTTATGAAT
* * *
62694385 ATTGTAATGTTGTATGAAT
1 ATTATAATTTTTTATGAAT
*
62694404 ATTGTAATTATTTTAT--A-
1 ATTATAATT-TTTTATGAAT
**
62694421 ATTA-AATTTGTATTTATAGTTTT
1 ATTATAA-TT-T-TTTAT-G-AAT
62694444 GGATTAGTAATTTTTTGTATGAAT
1 --ATTA-TAA-TTTTT-TATGAAT
* *
62694468 ATTGTAATTTTGTATGAAT
1 ATTATAATTTTTTATGAAT
62694487 ATTATAAATTTTTTGTATGAAT
1 ATTAT-AA-TTTTT-TATGAAT
*
62694509 ATTGTAAT
1 ATTATAAT
62694517 AATATTATAG
Statistics
Matches: 135, Mismatches: 19, Indels: 37
0.71 0.10 0.19
Matches are distributed among these distances:
16 2 0.01
17 6 0.04
18 6 0.04
19 45 0.33
20 19 0.14
21 15 0.11
22 25 0.19
24 1 0.01
25 7 0.05
26 4 0.03
27 5 0.04
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.54
Consensus pattern (19 bp):
ATTATAATTTTTTATGAAT
Found at i:62697048 original size:6 final size:6
Alignment explanation
Indices: 62697029--62697081 Score: 70
Period size: 6 Copynumber: 8.8 Consensus size: 6
62697019 AGAATGTAGT
* * * *
62697029 TCTGCC TCTCGC TCTGGC TCTGGC TCTGGC TCTAGC CCTGGC TCTGGC
1 TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC
62697077 TCTGG
1 TCTGG
62697082 TGCATGATGC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.02, C:0.38, G:0.28, T:0.32
Consensus pattern (6 bp):
TCTGGC
Found at i:62698734 original size:16 final size:15
Alignment explanation
Indices: 62698703--62698744 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
62698693 ACAAAATCAA
*
62698703 ATAAAATTTAATTAT
1 ATAAAAGTTAATTAT
62698718 ATAAAAGTTACATTAT
1 ATAAAAGTTA-ATTAT
*
62698734 ATAAAAATTAA
1 ATAAAAGTTAA
62698745 ATGAGTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
ATAAAAGTTAATTAT
Found at i:62698945 original size:3 final size:3
Alignment explanation
Indices: 62698937--62698981 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
62698927 TTTATAAACT
*
62698937 TTC TTC TTC TTC TTC TTC TTC TTC -TC TTC TTC TTC TTC TCC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
62698982 CCTCTTCTCC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Done.