Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 25 of 292
Found at i:6443997 original size:10 final size:10
Alignment explanation
Indices: 6443970--6444009 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
6443960 TTAAATTTTA
6443970 AAAGATAAAT
1 AAAGATAAAT
6443980 ACAA-ATAAAT
1 A-AAGATAAAT
*
6443990 AAAGATAATT
1 AAAGATAAAT
6444000 AAAGATAAAT
1 AAAGATAAAT
6444010 GAGGATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 2 0.08
10 22 0.85
11 2 0.08
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:6445697 original size:53 final size:53
Alignment explanation
Indices: 6445639--6445753 Score: 135
Period size: 53 Copynumber: 2.2 Consensus size: 53
6445629 AAATGTCTCT
* * *
6445639 TTTCATATGTCCATATCCATATAAAT-ATTTCATATAGA-CACTTCATATAATCA
1 TTTCATATATCCATATCCACAT-AATCAATTCATATA-ACCACTTCATATAATCA
* * * *
6445692 TTTCATATATCTATTTCCACATAATCAATTCATATAACCATTTCATGTAATCA
1 TTTCATATATCCATATCCACATAATCAATTCATATAACCACTTCATATAATCA
6445745 TTTCATATA
1 TTTCATATA
6445754 ATCATTCTGT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
52 4 0.08
53 49 0.92
ACGTcount: A:0.37, C:0.19, G:0.03, T:0.42
Consensus pattern (53 bp):
TTTCATATATCCATATCCACATAATCAATTCATATAACCACTTCATATAATCA
Found at i:6445748 original size:40 final size:39
Alignment explanation
Indices: 6445680--6445757 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
6445670 ATATAGACAC
*
6445680 TTCATATAATCATTTCATATATCTATTTCCACATAATCAA
1 TTCATATAACCATTTCATATATCTATTT-CACATAATCAA
* *
6445720 TTCATATAACCATTTCATGTAATC-ATTTCATATAATCA
1 TTCATATAACCATTTCATAT-ATCTATTTCACATAATCA
6445758 TTCTGTATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 9 0.26
40 22 0.65
41 3 0.09
ACGTcount: A:0.37, C:0.19, G:0.01, T:0.42
Consensus pattern (39 bp):
TTCATATAACCATTTCATATATCTATTTCACATAATCAA
Found at i:6445803 original size:65 final size:65
Alignment explanation
Indices: 6445680--6445867 Score: 254
Period size: 65 Copynumber: 2.9 Consensus size: 65
6445670 ATATAGACAC
* * * * *
6445680 TTCATATAATCATT-TCATATATCTATTTCCA-CATAATCAATTCATATAACCATTTCATGTAAT
1 TTCATATAATCATTCT-GTATAACTA-TTCCATC-TAAACATTTCATATTACCATTTCATGTAAT
6445743 CAT
63 CAT
6445746 TTCATATAATCATTCTGTATAACTATTCCATCTAAACATTTCATATTACCATTTCATGTAATCAT
1 TTCATATAATCATTCTGTATAACTATTCCATCTAAACATTTCATATTACCATTTCATGTAATCAT
* * * *
6445811 TTCATATAATCCTTCTGTATAACCATTCCATCTAAAAATTTCATTTTACCATTTCAT
1 TTCATATAATCATTCTGTATAACTATTCCATCTAAACATTTCATATTACCATTTCAT
6445868 TTACACATTT
Statistics
Matches: 111, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
65 88 0.79
66 22 0.20
67 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.02, T:0.43
Consensus pattern (65 bp):
TTCATATAATCATTCTGTATAACTATTCCATCTAAACATTTCATATTACCATTTCATGTAATCAT
Found at i:6445820 original size:13 final size:13
Alignment explanation
Indices: 6445656--6445821 Score: 135
Period size: 13 Copynumber: 12.7 Consensus size: 13
6445646 TGTCCATATC
6445656 CATATAAAT-ATTT
1 CATAT-AATCATTT
*
6445669 CATATAGA-CACTT
1 CATATA-ATCATTT
6445682 CATATAATCATTT
1 CATATAATCATTT
6445695 CATAT-ATCTATTT
1 CATATAATC-ATTT
* *
6445708 CCACATAATCAATT
1 -CATATAATCATTT
*
6445722 CATATAACCATTT
1 CATATAATCATTT
*
6445735 CATGTAATCATTT
1 CATATAATCATTT
6445748 CATATAATCA-TT
1 CATATAATCATTT
* *
6445760 CTGTATAA-CTATTC
1 C-ATATAATC-ATTT
* *
6445774 CATCTAAACATTT
1 CATATAATCATTT
* *
6445787 CATATTACCATTT
1 CATATAATCATTT
*
6445800 CATGTAATCATTT
1 CATATAATCATTT
6445813 CATATAATC
1 CATATAATC
6445822 CTTCTGTATA
Statistics
Matches: 121, Mismatches: 22, Indels: 20
0.74 0.13 0.12
Matches are distributed among these distances:
12 9 0.07
13 99 0.82
14 10 0.08
15 3 0.02
ACGTcount: A:0.37, C:0.19, G:0.02, T:0.42
Consensus pattern (13 bp):
CATATAATCATTT
Found at i:6446450 original size:7 final size:7
Alignment explanation
Indices: 6446417--6446460 Score: 52
Period size: 7 Copynumber: 5.9 Consensus size: 7
6446407 AACTACTATA
6446417 TATCAAT
1 TATCAAT
6446424 TAATCCAAT
1 T-AT-CAAT
*
6446433 TCATCACT
1 T-ATCAAT
6446441 TATCAAT
1 TATCAAT
6446448 TATCAAT
1 TATCAAT
6446455 TATCAA
1 TATCAA
6446461 ACAAATGAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
7 19 0.59
8 6 0.19
9 7 0.22
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (7 bp):
TATCAAT
Found at i:6449658 original size:27 final size:27
Alignment explanation
Indices: 6449620--6449671 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
6449610 TTTTGAGATA
6449620 TTTTCCCCCATTGTTATGAACTAAATG
1 TTTTCCCCCATTGTTATGAACTAAATG
6449647 TTTTCCCCCATTGTTATGAACTAAA
1 TTTTCCCCCATTGTTATGAACTAAA
6449672 ATCCCTACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
TTTTCCCCCATTGTTATGAACTAAATG
Found at i:6454055 original size:32 final size:32
Alignment explanation
Indices: 6454019--6454083 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
6454009 TGTATGCATT
*
6454019 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAACGGATGATGGGCA
6454051 TTAGCATTTTAATAGTTAACGGATGATGGGCA
1 TTAGCATTTTAATAGTTAACGGATGATGGGCA
6454083 T
1 T
6454084 GGTAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.37
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAACGGATGATGGGCA
Found at i:6455595 original size:26 final size:26
Alignment explanation
Indices: 6455566--6455618 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
6455556 TTTACAATTT
6455566 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
6455592 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
6455618 T
1 T
6455619 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:6461984 original size:32 final size:32
Alignment explanation
Indices: 6461948--6462012 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
6461938 TGTATGCATT
6461948 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
6461980 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
6462012 T
1 T
6462013 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:6463508 original size:26 final size:26
Alignment explanation
Indices: 6463479--6463531 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
6463469 TTTACAGTTT
6463479 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
6463505 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
6463531 T
1 T
6463532 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:6469010 original size:40 final size:40
Alignment explanation
Indices: 6468925--6469075 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
6468915 AATTGAATGA
* * *
6468925 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
6468965 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
6469006 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
6469045 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
6469076 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:6469089 original size:40 final size:40
Alignment explanation
Indices: 6468962--6469091 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
6468952 ATGCTGGAAA
* * * *
6468962 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
6469002 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
6469042 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
6469082 TTATATCCGG
1 TTATATCCGG
6469092 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:6477003 original size:40 final size:40
Alignment explanation
Indices: 6476944--6477085 Score: 117
Period size: 40 Copynumber: 3.5 Consensus size: 40
6476934 AAATTGAATG
* *
6476944 ATATCCGGGCTAA-ATCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGA-CCCGAAGACAATTATGCTAGAAACT
* * * ***
6476984 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
6477024 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
6477064 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
6477086 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.03
40 82 0.95
41 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:6477109 original size:40 final size:40
Alignment explanation
Indices: 6476982--6477111 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
6476972 ATGCTGGAAA
* * *
6476982 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
6477022 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
6477062 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
6477102 TTATATCCGG
1 TTATATCCGG
6477112 TTATATTCCG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:6483104 original size:23 final size:26
Alignment explanation
Indices: 6483078--6483126 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
6483068 ATTTGTTTTA
6483078 ATATTTG-TTT-TTAT-GTTTTAAAT
1 ATATTTGATTTATTATAGTTTTAAAT
*
6483101 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTGATTTATTATAGTTTTAAAT
6483127 TTTTTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 7 0.32
24 3 0.14
25 4 0.18
26 8 0.36
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (26 bp):
ATATTTGATTTATTATAGTTTTAAAT
Found at i:6483298 original size:5 final size:5
Alignment explanation
Indices: 6483288--6483312 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6483278 ATTTTGTCTT
6483288 GGCCC GGCCC GGCCC GGCCC GGCCC
1 GGCCC GGCCC GGCCC GGCCC GGCCC
6483313 ATGATCACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.60, G:0.40, T:0.00
Consensus pattern (5 bp):
GGCCC
Found at i:6484042 original size:2 final size:2
Alignment explanation
Indices: 6484031--6484065 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
6484021 GGGGTGCTAC
6484031 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6484066 GTTTTCTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:6498793 original size:2 final size:2
Alignment explanation
Indices: 6498786--6498820 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6498776 GACTGTCATG
6498786 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6498821 TCTTAATCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6505512 original size:24 final size:24
Alignment explanation
Indices: 6505485--6505544 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
6505475 ATTGTCACTA
6505485 TGAAATATCAAGTTCTTAGCTATT
1 TGAAATATCAAGTTCTTAGCTATT
6505509 TGAAATATCAAGTTCTTAGCTATT
1 TGAAATATCAAGTTCTTAGCTATT
*
6505533 TGAAGTAT-AAGT
1 TGAAATATCAAGT
6505545 GATGTATTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
23 4 0.11
24 31 0.89
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (24 bp):
TGAAATATCAAGTTCTTAGCTATT
Found at i:6506524 original size:7 final size:7
Alignment explanation
Indices: 6506512--6506536 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6506502 TTACCATCTC
6506512 TTTTCTT
1 TTTTCTT
6506519 TTTTCTT
1 TTTTCTT
6506526 TTTTCTT
1 TTTTCTT
6506533 TTTT
1 TTTT
6506537 TTTCAACACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTCTT
Found at i:6511496 original size:16 final size:16
Alignment explanation
Indices: 6511463--6511492 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6511453 TATATATCCT
6511463 TTTTTTTAAATATTTA
1 TTTTTTTAAATATTTA
6511479 TTTTTTT-AATATTT
1 TTTTTTTAAATATTT
6511493 TATTATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTTTAAATATTTA
Found at i:6514582 original size:18 final size:19
Alignment explanation
Indices: 6514537--6514581 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
6514527 TTTACGAAAT
*
6514537 AATTCAAAATAATTTTTAA
1 AATTCAAAATAATTTATAA
6514556 AATTCAAAAT-ATTTATAA
1 AATTCAAAATAATTTATAA
6514574 AATT-AAAA
1 AATTCAAAA
6514582 AAAATCTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 4 0.16
18 11 0.44
19 10 0.40
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTCAAAATAATTTATAA
Found at i:6517510 original size:95 final size:95
Alignment explanation
Indices: 6517341--6517512 Score: 219
Period size: 95 Copynumber: 1.8 Consensus size: 95
6517331 ATAATTATTA
* * **
6517341 ATTTATTTATATAAATAAAAGAGTTATTAATTTTAAATATTTTAAAATAATTATTTATATAATAT
1 ATTTATTTATATAAATAAAAGAGTTATTAATTTAAAATATTTAAAAATAAAAATTTATATAATAT
*
6517406 ATATTTTTATTATATAACTACATATTTAAT
66 ATATATTTATTATATAACTACATATTTAAT
6517436 ATTTGATTT-TATAAATAAAAGAGTTATTAA-TTAAAATATGAATTAAAAATTAAAAATTTA-A-
1 ATTT-ATTTATATAAATAAAAGAGTTATTAATTTAAAATAT---TTAAAAA-TAAAAATTTATAT
6517497 AATA-ATATATTTATTA
61 AATATATATATTTATTA
6517513 ATTAAAAACA
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
94 8 0.12
95 36 0.54
96 8 0.12
97 7 0.10
98 8 0.12
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (95 bp):
ATTTATTTATATAAATAAAAGAGTTATTAATTTAAAATATTTAAAAATAAAAATTTATATAATAT
ATATATTTATTATATAACTACATATTTAAT
Found at i:6517527 original size:13 final size:13
Alignment explanation
Indices: 6517509--6517533 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6517499 TAATATATTT
6517509 ATTAATTAAAAAC
1 ATTAATTAAAAAC
6517522 ATTAATTAAAAA
1 ATTAATTAAAAA
6517534 AAAAACTTGA
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:6518279 original size:19 final size:19
Alignment explanation
Indices: 6518252--6518289 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6518242 GCATAATTTA
*
6518252 TATTTTAAAAAATATTAAT
1 TATTATAAAAAATATTAAT
*
6518271 TATTATAAAAATTATTAAT
1 TATTATAAAAAATATTAAT
6518290 ATGATAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATTATAAAAAATATTAAT
Found at i:6518296 original size:18 final size:19
Alignment explanation
Indices: 6518257--6518297 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
6518247 ATTTATATTT
*
6518257 TAAAAAATATTAATTATTA
1 TAAAAAATATTAATTATGA
*
6518276 TAAAAATTATTAA-TATGA
1 TAAAAAATATTAATTATGA
6518294 TAAA
1 TAAA
6518298 CATAATTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
TAAAAAATATTAATTATGA
Found at i:6519015 original size:108 final size:110
Alignment explanation
Indices: 6518816--6519033 Score: 269
Period size: 108 Copynumber: 2.0 Consensus size: 110
6518806 ATAAGGTCTT
* * *
6518816 TCGGGGCGACACCTCAAAGAGGTTTAAAGTGTAAGACCATAGCTTGACTATGACAACCAATAGAG
1 TCGGGGCGACACCTCAAAGAGGTTTAAAGTGTAAGAACATAGCTCGACTATGACAACCAACAGAG
* *
6518881 TCCACCAGGACATTGAACATGAGGTTATATTATGTAAGACCATAG
66 TCCACCAAGACATTAAACATGAGGTTATATTATGTAAGACCATAG
* * * *
6518926 TCGGGG-GACACCTCAATGAGGTTTAAGGTGTAA-AACATAGCTCGACTATGGCAACCAACAGTG
1 TCGGGGCGACACCTCAAAGAGGTTTAAAGTGTAAGAACATAGCTCGACTATGACAACCAACAGAG
** * * * * * *
6518989 TCTGCCAAGACCTTAAATATGGGGTTATATTGTTTAAGATCATAG
66 TCCACCAAGACATTAAACATGAGGTTATATTATGTAAGACCATAG
6519034 CTCAACTATG
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
108 60 0.66
109 25 0.27
110 6 0.07
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.25
Consensus pattern (110 bp):
TCGGGGCGACACCTCAAAGAGGTTTAAAGTGTAAGAACATAGCTCGACTATGACAACCAACAGAG
TCCACCAAGACATTAAACATGAGGTTATATTATGTAAGACCATAG
Found at i:6520817 original size:15 final size:15
Alignment explanation
Indices: 6520792--6520848 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
6520782 GTGTTACAAG
6520792 GAAAGAGAAAAAAGAA
1 GAAA-AGAAAAAAGAA
*
6520808 GAAAAGAAAAAGGAA
1 GAAAAGAAAAAAGAA
6520823 GAAGAA-AAAAAAGGAA
1 GAA-AAGAAAAAA-GAA
*
6520839 -AAATGAAAAA
1 GAAAAGAAAAA
6520849 GAAAATAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
14 1 0.03
15 25 0.71
16 9 0.26
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (15 bp):
GAAAAGAAAAAAGAA
Found at i:6520826 original size:18 final size:18
Alignment explanation
Indices: 6520803--6520853 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 18
6520793 AAAGAGAAAA
6520803 AAGAAGAAAAGAAAAAGG
1 AAGAAGAAAAGAAAAAGG
6520821 AAGAAG-AAA-AAAAAGG
1 AAGAAGAAAAGAAAAAGG
*
6520837 AAAAATGAAAAAGAAAA
1 AAGAA-G-AAAAGAAAA
6520854 TAAAAAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 11 0.39
17 4 0.14
18 6 0.21
19 3 0.11
20 4 0.14
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (18 bp):
AAGAAGAAAAGAAAAAGG
Found at i:6520829 original size:28 final size:30
Alignment explanation
Indices: 6520789--6520849 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 30
6520779 AGGGTGTTAC
6520789 AAGGAAAGAGAAAAAAGAA-G-AAAA-GAAA
1 AAGGAAAGAGAAAAAA-AAGGAAAAATGAAA
6520817 AAGG-AAGAAGAAAAAAAAGGAAAAATGAAA
1 AAGGAAAG-AGAAAAAAAAGGAAAAATGAAA
6520847 AAG
1 AAG
6520850 AAAATAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
27 5 0.17
28 13 0.45
29 4 0.14
30 7 0.24
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.02
Consensus pattern (30 bp):
AAGGAAAGAGAAAAAAAAGGAAAAATGAAA
Found at i:6520839 original size:23 final size:23
Alignment explanation
Indices: 6520809--6520866 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
6520799 AAAAAAGAAG
*
6520809 AAAAGAAAAAGGAAGAAGAAAA-
1 AAAAGAAAAAGGAAAAAGAAAAT
*
6520831 AAAAGGAAAAATGAAAAAGAAAAT
1 AAAA-GAAAAAGGAAAAAGAAAAT
6520855 AAAAAGAAAAAG
1 -AAAAGAAAAAG
6520867 CTGCAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 4 0.13
23 16 0.53
24 6 0.20
25 4 0.13
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (23 bp):
AAAAGAAAAAGGAAAAAGAAAAT
Found at i:6520846 original size:7 final size:6
Alignment explanation
Indices: 6520809--6520866 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
6520799 AAAAAAGAAG
* * *
6520809 AAAAGA AAAAGGA AGAAG- AAAA-A AAAGGA AAAATGA AAAAG- AAAATA
1 AAAAGA AAAA-GA AAAAGA AAAAGA AAAAGA AAAA-GA AAAAGA AAAAGA
6520856 AAAAGA AAAAG
1 AAAAGA AAAAG
6520867 CTGCAAATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
5 10 0.24
6 20 0.49
7 11 0.27
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:6523573 original size:17 final size:18
Alignment explanation
Indices: 6523531--6523580 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
6523521 TAAATAGTTC
6523531 TTTAGATTTTATATAAATT
1 TTTAGATTTTAT-TAAATT
*
6523550 TTT--ATTTT-TTAATTT
1 TTTAGATTTTATTAAATT
6523565 TTTAGATTTTATTAAA
1 TTTAGATTTTATTAAA
6523581 AAAATATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
15 8 0.31
16 1 0.04
17 10 0.38
18 4 0.15
19 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (18 bp):
TTTAGATTTTATTAAATT
Found at i:6525038 original size:4 final size:4
Alignment explanation
Indices: 6525029--6525056 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
6525019 TTTTTAAATT
6525029 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
6525057 ACAAATATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:6538932 original size:21 final size:22
Alignment explanation
Indices: 6538892--6538933 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
6538882 TTTTAATCCG
6538892 TTAATTATAAAAGATTTTCAAT
1 TTAATTATAAAAGATTTTCAAT
*
6538914 TTAATTATTAAAG-TTTTCAA
1 TTAATTATAAAAGATTTTCAA
6538934 AATATTAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (22 bp):
TTAATTATAAAAGATTTTCAAT
Found at i:6543807 original size:7 final size:7
Alignment explanation
Indices: 6543797--6543865 Score: 138
Period size: 7 Copynumber: 9.9 Consensus size: 7
6543787 TCAATTCTAA
6543797 ATTCTCG
1 ATTCTCG
6543804 ATTCTCG
1 ATTCTCG
6543811 ATTCTCG
1 ATTCTCG
6543818 ATTCTCG
1 ATTCTCG
6543825 ATTCTCG
1 ATTCTCG
6543832 ATTCTCG
1 ATTCTCG
6543839 ATTCTCG
1 ATTCTCG
6543846 ATTCTCG
1 ATTCTCG
6543853 ATTCTCG
1 ATTCTCG
6543860 ATTCTC
1 ATTCTC
6543866 AAATCTCAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 62 1.00
ACGTcount: A:0.14, C:0.29, G:0.13, T:0.43
Consensus pattern (7 bp):
ATTCTCG
Found at i:6545819 original size:39 final size:37
Alignment explanation
Indices: 6545720--6545819 Score: 98
Period size: 39 Copynumber: 2.7 Consensus size: 37
6545710 AATATGGTAT
* *
6545720 TTAAAAAATATAT--AT-ATATGTATATATAATAGTA
1 TTAAAAAATATATACATAATATATATATATAATAGCA
* * * * *
6545754 TTTAAGAATATATACATAAGAAATATATAACTAATTGCA
1 TTAAAAAATATATACATAATATATATAT-A-TAATAGCA
6545793 TTAAAAAATATATACATAATATATATA
1 TTAAAAAATATATACATAATATATATA
6545820 AAATACCTAA
Statistics
Matches: 50, Mismatches: 11, Indels: 5
0.76 0.17 0.08
Matches are distributed among these distances:
34 11 0.22
36 2 0.04
37 7 0.14
38 1 0.02
39 29 0.58
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.37
Consensus pattern (37 bp):
TTAAAAAATATATACATAATATATATATATAATAGCA
Found at i:6547142 original size:87 final size:88
Alignment explanation
Indices: 6546973--6547555 Score: 373
Period size: 87 Copynumber: 6.6 Consensus size: 88
6546963 TCTTTACTCG
* * * ** * *
6546973 GCATGTGATCCTGA-GCTTAACTCATTTCTCGCAATATGAATTGACTCTTTAAAAC-TAGACATT
1 GCATGTGAGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTAAAACATA-A-ATT
*
6547036 -AAAAACAGAAATTGAAAATAGCTCA
63 GAAAAACAGAAATTGAAAATACCTCA
* * *
6547061 GCACGTGAGCC-AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAACA-AAATTTGT
1 GCATGTGAGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAACATAAA-TTGA
**
6547124 AAAACAGATTTTGAAAATACCTC-
65 AAAACAGAAATTGAAAATACCTCA
* * * * *
6547147 GATATGTGACCCGAA-GCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGCAAAGCATAAA--
1 G-CATGTGAGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--AAAACATAAATT
** *
6547209 -AAAAA-ATCAATTGAAAATACCTCG
63 GAAAAACAGAAATTGAAAATACCTCA
* * * *
6547233 GCGTGTGA-CCTGAGACTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTTACAAACATAAAT
1 GCATGTGAGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTT-G--ATTTTTA-AAACATAAAT
*
6547297 TGAAAAAAAAAAAGAAATTGAAAATACCTCA
62 TG----AAAAACAGAAATTGAAAATACCTCA
* * *
6547328 GC--GTG-TCCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGGAAAAACA-AA
1 GCATGTGAGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTT---AAAACATAA
*
6547389 ATTTTGAAAAACAGAATTTGAAAATACCTCA
60 A--TTGAAAAACAGAAATTGAAAATACCTCA
* * * * *
6547420 GCGTGTGAGTC-AAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGAAACACAGAAAT
1 GCATGTGAGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT-AAA-ACATAAAT
* * **
6547484 TGAAGAACAGAAATGGAAAGCACCTCA
62 TGAAAAACAGAAATTGAAAATACCTCA
* * * **
6547511 GC--GT---CTTGAGGTTCAACTCACCTCTCGCAATATGACCTGATTTTT
1 GCATGTGAGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
6547556 TTGAAAGACA
Statistics
Matches: 401, Mismatches: 56, Indels: 79
0.75 0.10 0.15
Matches are distributed among these distances:
84 3 0.01
85 51 0.13
86 11 0.03
87 108 0.27
88 43 0.11
89 7 0.02
90 3 0.01
91 28 0.07
92 29 0.07
93 50 0.12
94 40 0.10
95 24 0.06
96 4 0.01
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (88 bp):
GCATGTGAGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAACATAAATTGAA
AAACAGAAATTGAAAATACCTCA
Found at i:6547408 original size:14 final size:15
Alignment explanation
Indices: 6547374--6547412 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
6547364 AGTTGATTTT
6547374 TTTTGGAAAAACAAAA
1 TTTT-GAAAAACAAAA
*
6547390 TTTTGAAAAACAGAA
1 TTTTGAAAAACAAAA
6547405 -TTTGAAAA
1 TTTTGAAAA
6547413 TACCTCAGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.36
15 10 0.45
16 4 0.18
ACGTcount: A:0.54, C:0.05, G:0.13, T:0.28
Consensus pattern (15 bp):
TTTTGAAAAACAAAA
Found at i:6547443 original size:187 final size:181
Alignment explanation
Indices: 6547219--6547557 Score: 421
Period size: 187 Copynumber: 1.8 Consensus size: 181
6547209 AAAAAATCAA
* * * * *
6547219 TTGAAAATACCTCGGCGTGTGACCTGAGACTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTT
1 TTGAAAATACCTCAGCGTGTGACCTAAGACTCAACTCACCACTCGCAATATGAGCTGATTTTTTT
* * * * *
6547284 TACAA-ACATAAATTGAAAAAAAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTGAACT
66 GA-AACACAGAAATTG----AAAAAAAGAAATGGAAAACACCTCAGC--GTCCTGAGGCTCAACT
**
6547348 CACCTCTCGCAATATGAGTTGATTTTTTTTGGAAAAACAAAATTTTGAAAAACAGAAT
124 CACCTCTCGCAATATGACCTGATTTTTTTTGGAAAAACAAAATTTTGAAAAACAGAAT
* *
6547406 TTGAAAATACCTCAGCGTGTGA-GTCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTT
1 TTGAAAATACCTCAGCGTGTGACCT-AAGACTCAACTCACCACTCGCAATATGAGCTGATTTTTT
* * * * *
6547470 TGAAACACAGAAATTGAAGAACAGAAATGGAAAGCACCTCAGCGTCTTGAGGTTCAACTCACCTC
65 TGAAACACAGAAATTGAAAAAAAGAAATGGAAAACACCTCAGCGTCCTGAGGCTCAACTCACCTC
6547535 TCGCAATATGACCTGATTTTTTT
130 TCGCAATATGACCTGATTTTTTT
6547558 GAAAGACAGA
Statistics
Matches: 131, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
181 40 0.31
183 22 0.17
186 3 0.02
187 66 0.50
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (181 bp):
TTGAAAATACCTCAGCGTGTGACCTAAGACTCAACTCACCACTCGCAATATGAGCTGATTTTTTT
GAAACACAGAAATTGAAAAAAAGAAATGGAAAACACCTCAGCGTCCTGAGGCTCAACTCACCTCT
CGCAATATGACCTGATTTTTTTTGGAAAAACAAAATTTTGAAAAACAGAAT
Found at i:6547556 original size:87 final size:86
Alignment explanation
Indices: 6547073--6547823 Score: 371
Period size: 87 Copynumber: 8.7 Consensus size: 86
6547063 ACGTGAGCCA
* * * **
6547073 AGGCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTT-AAAACA-AAATTTGTAAAACAGATT
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAACAGAAA-TTGAAAAACAGAAA
* * **
6547134 TTGAAAATACCTCGATATGTGACCCG
65 TTGAAAATACCTC---A-GCGTCTTG
* * * * * **
6547160 AAGCTCAACTCACCTCTCGTAATATGAGTTGA--TTTTTGCAAAGCATAAA---AAAAA-ATCAA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTG-AAAACAGAAATTGAAAAACAGAAA
* *
6547219 TTGAAAATACCTCGGCGTGTGACCTG
65 TTGAAAATACCTCAGC--GT--CTTG
* * * * * *
6547245 AGACTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTTACAAACATAAATTGAAAAAAAAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGA-AAACAGAAATTG----AAAAACA
*
6547310 GAAATTGAAAATACCTCAGCGTGTCCTG
61 GAAATTGAAAATACCTCAGC--GTCTTG
* *
6547338 AGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGGAAAAACA-AAATTTTGAAAAACA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTTT-G-AAAACAGAAA--TTGAAAAACA
* * *
6547402 GAATTTGAAAATACCTCAGCGTGTGAGTCA
61 GAAATTGAAAATACCTCAGCGTCT---T-G
* *
6547432 AGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTGAAGAACAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAA-ACAGAAATTGAAAAACAGAAA
* **
6547497 TGGAAAGCACCTCAGCGTCTTG
65 TTGAAAATACCTCAGCGTCTTG
* *
6547519 AGGTTCAACTCACCTCTCGCAATATGACCTGATTTTTTTGAAAGACAGAAATTGAAAATAC----
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAA-ACAGAAATTGAAAA-ACAGAA
* * *
6547580 -CT---CA-A--T--GTGTCTTG
64 ATTGAAAATACCTCAGCGTCTTG
* ** * * **
6547594 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG-AAACTTAACTTGAAAAGCAGATTT
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAACAGAAATTGAAAAACAGAAAT
* * **
6547656 TGAAAATACCTCGATATGTGACTCA
66 TGAAAATACCTC---A-GCGTCTTG
* * * **
6547681 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAATATAAATTGAAGTA-A-AAA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTG-AAAACAGAAATTGAAAAACAGAAA
* * *
6547742 --CAAAATACCTCAGTGTGTGATCTG
65 TTGAAAATACCTCA--GCGT-CT-TG
* *
6547766 AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAA-ACAGAAATTGAAAA
6547824 TACCTCAGCA
Statistics
Matches: 528, Mismatches: 81, Indels: 110
0.73 0.11 0.15
Matches are distributed among these distances:
70 1 0.00
71 11 0.02
72 2 0.00
73 6 0.01
75 37 0.07
77 1 0.00
78 1 0.00
79 2 0.00
81 2 0.00
82 1 0.00
83 5 0.01
84 1 0.00
85 86 0.16
86 8 0.02
87 160 0.30
88 4 0.01
89 16 0.03
90 5 0.01
91 31 0.06
92 29 0.05
93 44 0.08
94 44 0.08
95 27 0.05
96 4 0.01
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (86 bp):
AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAACAGAAATTGAAAAACAGAAAT
TGAAAATACCTCAGCGTCTTG
Found at i:6547607 original size:75 final size:73
Alignment explanation
Indices: 6547483--6548189 Score: 495
Period size: 72 Copynumber: 9.3 Consensus size: 73
6547473 AACACAGAAA
* ** * *
6547483 TTGAAGAACAGAAATGGAAAGCACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAA-AACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
**
6547546 CCTGATTTTT
65 GTTGA-TTTT
6547556 TTGAAAGACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
6547621 GTTGA-TTT
65 GTTGATTTT
** * * ** * * * ** *
6547629 TTG-AAACTTAACTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGACTCAAGGCTCAACTCA
1 TTGAAAACAGAAATTG-AAA--ATA-CCT--CAAT--GT-G-TCT-TGAGGC-T----CAACTCA
6547693 CCTCTCGCAATATGAGTTGA-TTT
50 CCTCTCGCAATATGAGTTGATTTT
* * * * *
6547716 TTGAAAAATATAAATTGAAGTAAAAACAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCT
1 TTG-AAAACAGAAATT---G-------AAAATACCTCAATGTGT-CT-TGAGGCTCAACTCACCT
6547781 CTCGCAATATGAGTTGATTTTT
53 CTCGCAATATGAGTTGA-TTTT
* *
6547803 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCA--ATGTG-TCTTGAGGCTCAACTCACCTCTCGCAATA
*
6547867 TAAGTTGATTTT
62 TGAGTTGATTTT
* **
6547879 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
*
6547944 TTGA-ATT
66 TTGATTTT
* * * **
6547951 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGTTCAACTCATTTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
*
6548016 TTGA-ATT
66 TTGATTTT
* * **
6548023 TTGAAAACAG--ATTGAAATTACCTCAGTGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
6548086 TTGA-TTT
66 TTGATTTT
* ** * **
6548093 TTGAAAACAGAAATT-AAAATTAGCTCAGCGCGTGAGC-CAAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAACAGAAATTGAAAA-TACCTCA--ATGTG-TCTTGAGGCTCAACTCACCTCTCGCAATA
*
6548156 TGAGTCGATTTTT
62 TGAGTTGA-TTTT
*
6548169 TTGAAAGGCAGAAATTGAAAA
1 TTGAAA-ACAGAAATTGAAAA
6548190 ACGGAAATTG
Statistics
Matches: 521, Mismatches: 65, Indels: 91
0.77 0.10 0.13
Matches are distributed among these distances:
70 62 0.12
71 10 0.02
72 98 0.19
73 62 0.12
74 39 0.07
75 59 0.11
76 19 0.04
77 53 0.10
78 4 0.01
79 5 0.01
80 1 0.00
81 2 0.00
82 4 0.01
84 1 0.00
85 27 0.05
86 3 0.01
87 46 0.09
89 9 0.02
90 7 0.01
91 1 0.00
92 1 0.00
93 2 0.00
95 1 0.00
96 2 0.00
98 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (73 bp):
TTGAAAACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTT
Found at i:6547616 original size:162 final size:155
Alignment explanation
Indices: 6547390--6548886 Score: 632
Period size: 162 Copynumber: 9.5 Consensus size: 155
6547380 AAAAACAAAA
* * * ** ** *
6547390 TTTTGAAAAACAGAATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAAT
1 TTTTGAAAGACAGAAATTGAAAATACCTCA--ATGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
*
6547455 ATGAGCTGATTTTTTTGAAACACAGAAATTGAAGAACAGAAATGGAAAGCACCTCAGCGTCTTGA
64 ATGAGTTGA--TTTTTGAAA-ACAGAAATTGAA-AACAGAAAT-GAAAGCACCTCAGCG-C-TGA
* **
6547520 GGTTCAACTCACCTCTCGCAATATGACCTGATTT
122 GGCTCAACTCACCTCTCGCAATATGAGTTGATTT
6547554 TTTTGAAAGACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
1 TTTTGAAAGACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
** * ** ** * *
6547619 GAGTTGATTTTTG-AAACTTAACTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGACTCAAG
66 GAGTTGATTTTTGAAAACAGAAATTGAAAA-CAGA-AATGAAAGCACCTC---A-GCG-CT-GAG
6547683 GCTCAACTCACCTCTCGCAATATGAGTTGATTT
123 GCTCAACTCACCTCTCGCAATATGAGTTGATTT
*** * * *
6547716 TTGAAAAATAT-AAATTGA-AGTAAAAACAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCAC
1 TT------T-TGAAA--GACAG-AAATTGAAAATACCTCAATGTGT-CT-TGAGGCTCAACTCAC
* ** * ** * *
6547779 CTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTG-AAA-ATACCT--CAGCATGTGAA
54 CTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATTGAAAACAGAAATGAAAGCACCTCAG
*
6547840 C-C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TT
116 CGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* **
6547877 TTTTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
1 TTTTGAAAGACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
* ** ** * * * *
6547941 GAGTTGAATTTTGAAAACAGAAATTG-AAA-TTACCT--CA--ACGT--GTC-TTGAGGTTCAAC
66 GAGTTGATTTTTGAAAACAGAAATTGAAAACAGAAATGAAAGCACCTCAG-CGCTGAGGCTCAAC
** *
6547997 TCATTTCTCGCAATATGAGTTGA--A
130 TCACCTCTCGCAATATGAGTTGATTT
* * **
6548021 TTTTGAAA-ACAG--ATTGAAATTACCTCAGTGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTTTGAAAGACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
* * * * * * *
6548083 GAGTTGATTTTTGAAAACAGAAATT-AAAATTAG--CT--CAGCGCGTGAGC-C-AAGGCTCAAC
66 GAGTTGATTTTTGAAAACAGAAATTGAAAA-CAGAAATGAAAGCACCTCAGCGCTGAGGCTCAAC
*
6548141 TCACCTCTCGCAATATGAGTCGATTT
130 TCACCTCTCGCAATATGAGTTGATTT
* ** * *
6548167 TTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAAC
1 TTTT--------GAAA--G----ACAGAAATTGAAAATACCTC--AATGTGTCTTGAGGCTCAAC
* * * * * ** * * * *
6548232 TCGCCTCTCACAATACGAGTTGGTTTTTTTGACAACAGAAATTGAAATTAG--CT--CAGCGCGT
50 TCACCTCTCGCAATATGAGTT-G-ATTTTTGAAAACAGAAATTGAAAACAGAAATGAAAGCACCT
* *
6548293 GAGC-C-AAGGCTCAACTCACCTCTCGCAATATGAGTTGA--T
113 CAGCGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* * * **
6548332 TTTTGAAACTTAACTTGAAAAGTTGATTTTGAAAATACCTCGATATGTGACTCAAGGCTCAACTC
1 TTTTGAAA---GAC---AGAA----A--TTGAAAATACCTC-A-ATGTGTCTTGAGGCTCAACTC
*** * *
6548397 ACCTCTCGCAATATGAGTTGATTTTT-AAAACA-AAATTG-AAA-A-AAAT-ACTTCA-GTGTAT
52 ACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAACAGAAATGAAAGCACCT-CA-
** *
6548455 GATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTT
115 GCGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* ** * **
6548496 TTTTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGC-CAAGGCTCAACTCACCTCTCGCAA
1 TTTTGAAAGACAGAAATTGAAAATACCTCA--ATGTG-TCTTGAGGCTCAACTCACCTCTCGCAA
* * ** *
6548560 TATGAGTTGATTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGT
63 TATGAGTTGA----TTTTTGAAA-ACAGAAATTG-AAAACAGAAA-TGAAAGCACCTCAGC----
* * *
6548625 GACCTGAGGCTCAACTCGCCTCTCACAATACGAGTTGATTT
117 G--CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* * ** * *
6548666 TTTTGACA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAGTAT
1 TTTTGAAAGACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
* * ** * * *
6548730 GAGTTGATTTTTTTGAAAGACAAAAATTG-AAA-ATACCT--CA--ACGT--GTC-TTGAGGCTC
66 GAGTTGA--TTTTTGAAA-ACAGAAATTGAAAACAGAAATGAAAGCACCTCAG-CGCTGAGGCTC
** *
6548786 AACTCATTTCTCGCAATATGAGTTGA--A
127 AACTCACCTCTCGCAATATGAGTTGATTT
* * *
6548813 TTTTGAAA-ACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATAT
1 TTTTGAAAGACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
6548877 GAGTTGATTT
66 GAGTTGATTT
6548887 CCCTTGAAAA
Statistics
Matches: 1067, Mismatches: 164, Indels: 223
0.73 0.11 0.15
Matches are distributed among these distances:
142 74 0.07
144 44 0.04
145 36 0.03
146 5 0.00
147 86 0.08
148 8 0.01
149 29 0.03
150 31 0.03
151 2 0.00
152 68 0.06
153 3 0.00
154 8 0.01
155 5 0.00
156 6 0.01
157 15 0.01
158 34 0.03
159 19 0.02
160 12 0.01
161 22 0.02
162 137 0.13
163 65 0.06
164 40 0.04
165 62 0.06
166 3 0.00
167 104 0.10
168 7 0.01
169 22 0.02
170 65 0.06
171 1 0.00
172 34 0.03
173 2 0.00
174 6 0.01
175 5 0.00
176 7 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (155 bp):
TTTTGAAAGACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTGAAAACAGAAATTGAAAACAGAAATGAAAGCACCTCAGCGCTGAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTT
Found at i:6547801 original size:85 final size:86
Alignment explanation
Indices: 6547573--6547802 Score: 258
Period size: 85 Copynumber: 2.7 Consensus size: 86
6547563 ACAGAAATTG
* * * *
6547573 AAAATACCTCAATGTGT-CT-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAC
1 AAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
* ****
6547636 TTAACTTGAAAAGCAGATTTTG
66 TTAAATTG-AAAGCAGATAAAC
* *
6547658 AAAATACCTC-GATATGTGA-CTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
1 AAAATACCTCAG-TGTGTGATCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-A
*
6547721 AAATATAAATTG-AAGTA-A-AAAC
63 AAAT-TAAATTGAAAGCAGATAAAC
6547743 AAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
6547803 TTGAAAGACA
Statistics
Matches: 123, Mismatches: 14, Indels: 16
0.80 0.09 0.10
Matches are distributed among these distances:
85 65 0.53
86 8 0.07
87 40 0.33
88 4 0.03
89 6 0.05
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (86 bp):
AAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
TTAAATTGAAAGCAGATAAAC
Found at i:6548065 original size:142 final size:145
Alignment explanation
Indices: 6547768--6548886 Score: 549
Period size: 167 Copynumber: 7.2 Consensus size: 145
6547758 GTGATCTGAA
*
6547768 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATTGAAATTACCTCA-C
* *
6547833 ATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAA
62 ACGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTGAAAACAG-AATTGAAA
**
6547898 ATACCTCAACGTGTCTTGAG
126 ATACCTCAACGTGTCCCGAG
** *
6547918 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA-ACGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCACACGT
* * * ** * *
6547982 G-TCTTGAGGTTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAG-ATTGAAATTAC
66 GAAC-CGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTGAAAACAGAATTGAAAATAC
**
6548044 CTCAGTGTGTCCCGAG
130 CTCAACGTGTCCCGAG
* * *
6548060 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTAAAATTAGCTCAGCGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCA-CACG
* * * * *
6548125 TGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTGAAAGGCAGAAATTGAAAA
65 TGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGA---TATT------------TTG-AAA
* ** *
6548190 ACGGAAATTGAAAATACCTCGGCGTGTGACCTGAG
114 ACAG-AATTGAAAATACCTCAACGTGT--CCCGAG
* * * * * * *
6548225 GCTCAACTCGCCTCTCACAATACGAGTTGGTTTTTTTGACAACAGAAATTGAAATTAGCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTT-G-ATTTTTGAAAACAGAAATTGAAATTACCTCA-CA
* * *
6548290 CGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TTTTGAAACTTAACTTGAAAAG
63 CGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTG-AA---AAC------A-
* * * * *
6548354 TTGATTTTGAAAATACCTCGATATGTGACTCAAG
117 --GA-ATTGAAAATACCTC-A-ACGTGTCCCGAG
* * *
6548388 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-AAAACA-AAATTGAAAAAAATACTTCA-G
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTG---AAATTACCTCACA
* * * * * *
6548450 TGTATGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTG
63 CG--TGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TATTTTGAAA-ACAG-AATTG
* * ** *
6548515 AAAATAGCTCAGCGCGTGAGCCAAG
123 AAAATACCTCA--ACGTGTCCCGAG
* * **
6548540 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGGCAGAAATTGAAA--AACGGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAAA-ACAGAAATTGAAATTACCTCA
** * * * * * ** * * *
6548603 -AATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATACG-AGTTGATTT
61 CACGTG---A-A---C--CGAG-G--CTCA-ACTC-AC-C-TCTCGCAATATAAGTTGAT-ATTT
* * * *
6548666 TTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAG
109 ---TGAAAACAG-AATTGAAAATACCTCAACGTGTCCCGAG
* * *
6548707 GCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCA-A
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATTGAAATTACCTCACA
* * ** *
6548771 CGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAA
63 CGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTGAAAACAG-AATTGAAA
* **
6548834 TTACCTCAACGTGTCTTGAG
126 ATACCTCAACGTGTCCCGAG
*
6548854 GCTCAACTCATCTCTCGCAATATGAGTTGATTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTT
6548887 CCCTTGAAAA
Statistics
Matches: 756, Mismatches: 131, Indels: 169
0.72 0.12 0.16
Matches are distributed among these distances:
142 77 0.10
144 45 0.06
145 37 0.05
147 83 0.11
148 10 0.01
150 32 0.04
151 15 0.02
152 54 0.07
153 2 0.00
154 8 0.01
155 5 0.01
156 8 0.01
157 4 0.01
158 4 0.01
159 14 0.02
160 11 0.01
161 14 0.02
162 46 0.06
163 65 0.09
164 9 0.01
165 59 0.08
166 4 0.01
167 119 0.16
168 8 0.01
169 19 0.03
170 4 0.01
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (145 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCACACGT
GAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTGAAAACAGAATTGAAAATACC
TCAACGTGTCCCGAG
Found at i:6548555 original size:77 final size:78
Alignment explanation
Indices: 6548382--6548597 Score: 268
Period size: 77 Copynumber: 2.8 Consensus size: 78
6548372 CGATATGTGA
6548382 CTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT-AAA-ACA-AAATTGAAAAAAA
1 CTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTG---AAAA
* * *
6548442 TACTTCAGTGTATGAT
63 TACTTCAGCGCATGAG
*
6548458 CTGAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAG
1 CTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATA-
*
6548522 C-TCAGCGCGTGAG
65 CTTCAGCGCATGAG
*
6548535 C-CAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGGCAGAAATTGAAAA
1 CTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAAGACAGAAATTGAAAA
6548598 ACGGAAATTG
Statistics
Matches: 124, Mismatches: 7, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
75 30 0.24
76 6 0.05
77 50 0.40
78 4 0.03
79 28 0.23
80 6 0.05
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (78 bp):
CTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAC
TTCAGCGCATGAG
Found at i:6548660 original size:93 final size:93
Alignment explanation
Indices: 6548498--6548669 Score: 247
Period size: 93 Copynumber: 1.8 Consensus size: 93
6548488 GTTGATTTTT
* * * *
6548498 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCACAATAC
6548563 GAGTTGATTTTTTTTTGAAAGGCAGAAA
66 GAGTTGATTTTTTTTTGAAAGGCAGAAA
* * * * *
6548591 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAACTCGCCTCTCACAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCACAATA
6548655 CGAGTTGATTTTTTT
65 CGAGTTGATTTTTTT
6548670 GACAACAGAA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (93 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCACAATAC
GAGTTGATTTTTTTTTGAAAGGCAGAAA
Found at i:6548767 original size:75 final size:74
Alignment explanation
Indices: 6548595--6548886 Score: 381
Period size: 72 Copynumber: 3.9 Consensus size: 74
6548585 CAGAAATTGA
* ** * * *
6548595 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATACGAGT
1 AAAACAGAAATTGAAAATACCTCAACGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGT
6548660 TGATTTTTTTG
64 TGATTTTTTTG
* * * *
6548671 ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
6548736 ATTTTTTTG
66 ATTTTTTTG
* * **
6548745 AAAGACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAA-ACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
6548810 GA--ATTTTG
65 GATTTTTTTG
* * *
6548818 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
6548883 ATTT
66 ATTT
6548887 CCCTTGAAAA
Statistics
Matches: 192, Mismatches: 21, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
72 60 0.31
73 8 0.04
74 42 0.22
75 56 0.29
76 26 0.14
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (74 bp):
AAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTG
Found at i:6548862 original size:147 final size:149
Alignment explanation
Indices: 6548602--6548886 Score: 412
Period size: 147 Copynumber: 1.9 Consensus size: 149
6548592 TGAAAAACGG
** * *
6548602 AAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATACGAGTTGATTTT
1 AAATTGAAAATACCTCAACGTGT-ACCTGAGGCTCAACTCACCTCTCACAATACGAGTTGA-TAT
* * *
6548667 TTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAGTATGA
64 TTTGAAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
6548732 GTTGATTTTTTTGAAAGACAA
129 GTTGATTTTTTTGAAAGACAA
* ** * *
6548753 AAATTGAAAATACCTCAACGTGT-CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTT
1 AAATTGAAAATACCTCAACGTGTACCTGAGGCTCAACTCACCTCTCACAATACGAGTTGATATTT
* *
6548816 TGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGT
66 TGAAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
6548881 TGATTT
131 TGATTT
6548887 CCCTTGAAAA
Statistics
Matches: 120, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
147 69 0.57
149 30 0.25
151 21 0.17
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (149 bp):
AAATTGAAAATACCTCAACGTGTACCTGAGGCTCAACTCACCTCTCACAATACGAGTTGATATTT
TGAAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTGAAAGACAA
Found at i:6557755 original size:12 final size:12
Alignment explanation
Indices: 6557733--6557768 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
6557723 TGGGATATGC
*
6557733 AATGAATGAATG
1 AATGCATGAATG
*
6557745 GATGCATGAATG
1 AATGCATGAATG
6557757 AATGCATGAATG
1 AATGCATGAATG
6557769 TCAGTCATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:6557755 original size:16 final size:17
Alignment explanation
Indices: 6557729--6557760 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6557719 AGTATGGGAT
6557729 ATGCAATGAATGAATGG
1 ATGCAATGAATGAATGG
6557746 ATGC-ATGAATGAATG
1 ATGCAATGAATGAATG
6557761 CATGAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (17 bp):
ATGCAATGAATGAATGG
Found at i:6559809 original size:38 final size:35
Alignment explanation
Indices: 6559714--6559814 Score: 96
Period size: 38 Copynumber: 2.8 Consensus size: 35
6559704 TATGGTATTT
* * * *
6559714 AAAAATATATATAT-ATGTATATATAATAGTATTT
1 AAAAATATATACATAATATATATATAATAGCATTA
* * *
6559748 AAGAATATATACATAAGAAATATATAACTAATGCATTA
1 AAAAATATATACATAATATATATATAA-T-A-GCATTA
*
6559786 AAAAATATATACATAATATATATAAAATA
1 AAAAATATATACATAATATATATATAATA
6559815 CCTAAAAAAA
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
34 12 0.23
35 9 0.17
36 2 0.04
37 2 0.04
38 27 0.52
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (35 bp):
AAAAATATATACATAATATATATATAATAGCATTA
Found at i:6561045 original size:26 final size:28
Alignment explanation
Indices: 6561007--6561059 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 28
6560997 ATGATGCACA
*
6561007 AAAAAATTAAAAA-A-ATGATATATATG
1 AAAAAATTAAAAATAGATAATATATATG
* *
6561033 AAAAATTTTAAAATAGATAATATATAT
1 AAAAAATTAAAAATAGATAATATATAT
6561060 ATATATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 11 0.50
27 1 0.05
28 10 0.45
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (28 bp):
AAAAAATTAAAAATAGATAATATATATG
Found at i:6561411 original size:26 final size:26
Alignment explanation
Indices: 6561353--6561464 Score: 82
Period size: 26 Copynumber: 4.1 Consensus size: 26
6561343 GTATAAAAGC
* *
6561353 TTAAAATAAATAATATGTGGAAAAAGAACT
1 TTAAAATAAATAATATAT--AAAAAG--TT
6561383 TTAAAATAAATAATATATAAAAAGTT
1 TTAAAATAAATAATATATAAAAAGTT
** * **
6561409 TTAATGTGAATAATATATAAAAA-AC
1 TTAAAATAAATAATATATAAAAAGTT
*
6561434 TTAAAATGAATAATAATAATAAAATAGTT
1 TTAAAATAAATAAT-AT-ATAAAA-AGTT
6561463 TT
1 TT
6561465 TTTAAAAAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
25 12 0.18
26 23 0.34
27 6 0.09
28 7 0.10
29 2 0.03
30 17 0.25
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.33
Consensus pattern (26 bp):
TTAAAATAAATAATATATAAAAAGTT
Found at i:6565903 original size:20 final size:20
Alignment explanation
Indices: 6565866--6565903 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6565856 TGATGGGGAG
*
6565866 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
6565886 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
6565904 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:6567851 original size:46 final size:46
Alignment explanation
Indices: 6567799--6567980 Score: 233
Period size: 46 Copynumber: 4.0 Consensus size: 46
6567789 AGTGTGCTCT
* *
6567799 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
6567845 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
** *
6567891 GC-GATATGAAATGAACAAGACCATGGTTGAAAGATGCCATGGCAAC
1 -CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
6567937 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
6567981 TCATGTCAAA
Statistics
Matches: 120, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
45 1 0.01
46 118 0.98
47 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:6569978 original size:46 final size:46
Alignment explanation
Indices: 6569925--6570100 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
6569915 TATTTGGGCA
6569925 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
6569971 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
6570018 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
6570064 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
6570101 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:6570080 original size:93 final size:93
Alignment explanation
Indices: 6569921--6570092 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
6569911 GGGATATTTG
* *
6569921 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
6569986 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
6570014 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
6570079 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
6570093 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:6573065 original size:15 final size:15
Alignment explanation
Indices: 6573045--6573113 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
6573035 GTATCTTGGG
6573045 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
6573060 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
6573075 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
6573090 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
6573105 TTTCTTTAT
1 TTTCTTTAT
6573114 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:6573114 original size:30 final size:30
Alignment explanation
Indices: 6573036--6573123 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
6573026 CATAGTATCG
* * * *
6573036 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
6573066 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
6573096 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
6573124 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:6575563 original size:46 final size:46
Alignment explanation
Indices: 6575510--6575685 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
6575500 TATTTGGGCA
6575510 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
6575556 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
6575603 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
6575649 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
6575686 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:6575665 original size:93 final size:93
Alignment explanation
Indices: 6575506--6575677 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
6575496 GGGATATTTG
* *
6575506 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
6575571 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
6575599 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
6575664 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
6575678 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:6577133 original size:20 final size:20
Alignment explanation
Indices: 6577108--6577151 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
6577098 TGGGTAGGGG
*
6577108 ACACGGGCGTATCCCGAAGC
1 ACACGGGCGTATCCCCAAGC
*
6577128 ACACGGGCGTGTCCCCAAGC
1 ACACGGGCGTATCCCCAAGC
6577148 ACAC
1 ACAC
6577152 AAGCGTGTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.25, C:0.39, G:0.27, T:0.09
Consensus pattern (20 bp):
ACACGGGCGTATCCCCAAGC
Found at i:6577157 original size:20 final size:20
Alignment explanation
Indices: 6577114--6577159 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
6577104 GGGGACACGG
* * **
6577114 GCGTATCCCGAAGCACACGG
1 GCGTGTCCCCAAGCACACAA
6577134 GCGTGTCCCCAAGCACACAA
1 GCGTGTCCCCAAGCACACAA
6577154 GCGTGT
1 GCGTGT
6577160 GCTATGTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.35, G:0.28, T:0.13
Consensus pattern (20 bp):
GCGTGTCCCCAAGCACACAA
Found at i:6581609 original size:10 final size:10
Alignment explanation
Indices: 6581591--6581624 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
6581581 AATTTGTAAT
*
6581591 TTTTTTATAA
1 TTTTATATAA
6581601 TTTTATATAA
1 TTTTATATAA
6581611 TTTTATA-AA
1 TTTTATATAA
6581620 TTTTA
1 TTTTA
6581625 AATTGTTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 7 0.30
10 16 0.70
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTATATAA
Found at i:6591410 original size:26 final size:26
Alignment explanation
Indices: 6591374--6591425 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
6591364 GTGATGTAGG
6591374 AGTTTGATTGCATTTTACCTTCTCTA
1 AGTTTGATTGCATTTTACCTTCTCTA
6591400 AGTTTGATTGCATTTTACCTTCTCTA
1 AGTTTGATTGCATTTTACCTTCTCTA
6591426 CTTAGATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.50
Consensus pattern (26 bp):
AGTTTGATTGCATTTTACCTTCTCTA
Found at i:6591504 original size:22 final size:22
Alignment explanation
Indices: 6591474--6591523 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
6591464 AAATTGATCA
*
6591474 TTTTATTAAAAATTTCATCCAT
1 TTTTGTTAAAAATTTCATCCAT
6591496 TTTTGTTAAAAATTTCATCCAT
1 TTTTGTTAAAAATTTCATCCAT
6591518 TTTTGT
1 TTTTGT
6591524 AGGTAAGTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.30, C:0.12, G:0.04, T:0.54
Consensus pattern (22 bp):
TTTTGTTAAAAATTTCATCCAT
Found at i:6591733 original size:10 final size:11
Alignment explanation
Indices: 6591718--6591762 Score: 53
Period size: 10 Copynumber: 4.5 Consensus size: 11
6591708 TATATATTTG
6591718 AATTA-TAAGA
1 AATTATTAAGA
6591728 AATTATTAA-A
1 AATTATTAAGA
*
6591738 AAATATTAAG-
1 AATTATTAAGA
6591748 AATTA-TAAGA
1 AATTATTAAGA
6591758 AATTA
1 AATTA
6591763 ATAAAATAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
9 4 0.13
10 23 0.77
11 3 0.10
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (11 bp):
AATTATTAAGA
Found at i:6592892 original size:34 final size:34
Alignment explanation
Indices: 6592845--6592925 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
6592835 GCATCAAACA
* *
6592845 TATATTTATATTTATACAATATTC-ATAATTGTAAT
1 TATA-TTATATTTATA-AATATACGATAATTATAAT
* * *
6592880 TATATTGTATTTATAACTATACGATACTTATAAT
1 TATATTATATTTATAAATATACGATAATTATAAT
6592914 TATATTATATTT
1 TATATTATATTT
6592926 GTAATTGCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
33 5 0.13
34 30 0.77
35 4 0.10
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (34 bp):
TATATTATATTTATAAATATACGATAATTATAAT
Found at i:6592928 original size:40 final size:40
Alignment explanation
Indices: 6592847--6592924 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
6592837 ATCAAACATA
** *
6592847 TATTTATATTTATACAATATTCATAATTGTAATTATATTG
1 TATTTATAACTATACAATATTCATAATTATAATTATATTG
*
6592887 TATTTATAACTATACGATACTT-ATAATTAT-ATTATATT
1 TATTTATAACTATACAATA-TTCATAATTATAATTATATT
6592925 TGTAATTGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 8 0.24
40 23 0.70
41 2 0.06
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.51
Consensus pattern (40 bp):
TATTTATAACTATACAATATTCATAATTATAATTATATTG
Found at i:6592930 original size:17 final size:17
Alignment explanation
Indices: 6592845--6592931 Score: 61
Period size: 17 Copynumber: 5.1 Consensus size: 17
6592835 GCATCAAACA
6592845 TATATTTATATTTATACA-
1 TATA-TTATATTTATA-AT
* *
6592863 -ATATTCATAATTGTAAT
1 TATATT-ATATTTATAAT
* *
6592880 TATATTGTATTTATAAC
1 TATATTATATTTATAAT
** *
6592897 TATACGATACTTATAAT
1 TATATTATATTTATAAT
*
6592914 TATATTATATTTGTAAT
1 TATATTATATTTATAAT
6592931 T
1 T
6592932 GCAAATCTTT
Statistics
Matches: 51, Mismatches: 15, Indels: 7
0.70 0.21 0.10
Matches are distributed among these distances:
16 3 0.06
17 43 0.84
18 5 0.10
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.52
Consensus pattern (17 bp):
TATATTATATTTATAAT
Found at i:6594133 original size:25 final size:24
Alignment explanation
Indices: 6594069--6594130 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 24
6594059 ATTGAAATAG
*
6594069 TTTAATTT-ATTTACATTTTATTTT
1 TTTAATTTAATTTA-ATTTTATTCT
*
6594093 TTATAATTCAATTTAATTTTATTCT
1 TT-TAATTTAATTTAATTTTATTCT
6594118 TTTAATTTAATTT
1 TTTAATTTAATTT
6594131 TAACTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 12 0.36
25 16 0.48
26 5 0.15
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTAATTTAATTTAATTTTATTCT
Found at i:6597978 original size:2 final size:2
Alignment explanation
Indices: 6597971--6598008 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6597961 CATATTTAAC
6597971 TA TA TA TA TA TA 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 TA TA TA TA TA TA
6598009 CATGCCACTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6598305 original size:40 final size:40
Alignment explanation
Indices: 6598261--6598448 Score: 171
Period size: 40 Copynumber: 4.7 Consensus size: 40
6598251 CATACCGAAT
**
6598261 TACAAACATCGGCACATATGTGCAATCAGGGGTACTGAAG
1 TACAAACAGGGGCACATATGTGCAATCAGGGGTACTGAAG
* * ** *
6598301 TACAAATAGGGGCACATATGTGCAATTAGGACTAGC-AAAG
1 TACAAACAGGGGCACATATGTGCAATCAGGGGTA-CTGAAG
* * ** *
6598341 TAAAAATAGGGGCATGTATGTGTAATCAGGGGTACTGAAG
1 TACAAACAGGGGCACATATGTGCAATCAGGGGTACTGAAG
* * * * *
6598381 TATAAACAGGGGCACGTATGTGCAATTAAGGGTACCGAAG
1 TACAAACAGGGGCACATATGTGCAATCAGGGGTACTGAAG
* * * *
6598421 TACGAATAGGGACACGTATGTGCAATCA
1 TACAAACAGGGGCACATATGTGCAATCA
6598449 TACAATAATT
Statistics
Matches: 119, Mismatches: 27, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 117 0.98
41 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (40 bp):
TACAAACAGGGGCACATATGTGCAATCAGGGGTACTGAAG
Found at i:6598330 original size:20 final size:20
Alignment explanation
Indices: 6598271--6598330 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
6598261 TACAAACATC
*
6598271 GGCACATATGTGCAATCAGG
1 GGCACATATGTGCAATTAGG
* * * *
6598291 GGTAC-TGAAGTACAAATAGG
1 GGCACAT-ATGTGCAATTAGG
6598311 GGCACATATGTGCAATTAGG
1 GGCACATATGTGCAATTAGG
6598331 ACTAGCAAAG
Statistics
Matches: 29, Mismatches: 9, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
19 1 0.03
20 27 0.93
21 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (20 bp):
GGCACATATGTGCAATTAGG
Found at i:6598422 original size:80 final size:80
Alignment explanation
Indices: 6598277--6598448 Score: 229
Period size: 80 Copynumber: 2.1 Consensus size: 80
6598267 CATCGGCACA
* *
6598277 TATGTGCAATCAGGGGTACTGAAGTACAAATAGGGGCACATATGTGCAATTAGGACTAGCAAAGT
1 TATGTGCAATCAGGGGTACTGAAGTACAAACAGGGGCACATATGTGCAATTAGGACTACCAAAGT
* *
6598342 AAAAATAGGGGCATG
66 AAAAATAGGGACACG
* * * * *
6598357 TATGTGTAATCAGGGGTACTGAAGTATAAACAGGGGCACGTATGTGCAATTAAGG-GTACCGAAG
1 TATGTGCAATCAGGGGTACTGAAGTACAAACAGGGGCACATATGTGCAATT-AGGACTACCAAAG
**
6598421 TACGAATAGGGACACG
65 TAAAAATAGGGACACG
6598437 TATGTGCAATCA
1 TATGTGCAATCA
6598449 TACAATAATT
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 76 0.96
81 3 0.04
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.22
Consensus pattern (80 bp):
TATGTGCAATCAGGGGTACTGAAGTACAAACAGGGGCACATATGTGCAATTAGGACTACCAAAGT
AAAAATAGGGACACG
Found at i:6605438 original size:40 final size:39
Alignment explanation
Indices: 6605394--6605598 Score: 146
Period size: 40 Copynumber: 5.1 Consensus size: 39
6605384 ATATTTGTAT
* *
6605394 AATCAAGAGTACCGAAGTACAAACATGGGAACATAGGTGC
1 AATCAAGGGTACCGAAGTACAAACA-GGGAACGTAGGTGC
* * * * *
6605434 AATC-AGTGGTACTGAAGTATAAACAGGGGCACGCATGTGC
1 AATCAAG-GGTACCGAAGTACAAACA-GGGAACGTAGGTGC
* * * *
6605474 AATCAGGGGCACCGAAGTAGAAACAGGAGCACGT-GTGTGC
1 AATCAAGGGTACCGAAGTACAAACAGG-GAACGTAG-GTGC
* * *
6605514 AATCAAGGGAACTGAAGTACAAACAGGGACACGTATGTGC
1 AATCAAGGGTACCGAAGTACAAACAGGGA-ACGTAGGTGC
* * * * *
6605554 AACCAGGGGTATCGAAGTATAAATAGGGACACGT-GTGTGC
1 AATCAAGGGTACCGAAGTACAAACAGGGA-ACGTAG-GTGC
6605594 AATCA
1 AATCA
6605599 TACAATAATT
Statistics
Matches: 129, Mismatches: 29, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
39 5 0.04
40 123 0.95
41 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.29, T:0.17
Consensus pattern (39 bp):
AATCAAGGGTACCGAAGTACAAACAGGGAACGTAGGTGC
Found at i:6605500 original size:20 final size:20
Alignment explanation
Indices: 6605447--6605505 Score: 50
Period size: 20 Copynumber: 3.0 Consensus size: 20
6605437 CAGTGGTACT
*
6605447 GAAGTATAAACAGGGGCA-C
1 GAAGTAGAAACAGGGGCACC
* *
6605466 GCATGT-GCAATCAGGGGCACC
1 G-AAGTAG-AAACAGGGGCACC
*
6605487 GAAGTAGAAACAGGAGCAC
1 GAAGTAGAAACAGGGGCAC
6605506 GTGTGTGCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 1 0.03
20 26 0.87
21 3 0.10
ACGTcount: A:0.37, C:0.20, G:0.32, T:0.10
Consensus pattern (20 bp):
GAAGTAGAAACAGGGGCACC
Found at i:6605561 original size:80 final size:81
Alignment explanation
Indices: 6605404--6605598 Score: 229
Period size: 80 Copynumber: 2.4 Consensus size: 81
6605394 AATCAAGAGT
* * * * *
6605404 ACCGAAGTACAAACATGGGA-ACATAG-GTGCAATC-AGTGGTACTGAAGTATAAACAGGGGCAC
1 ACCGAAGTAGAAACA-GGGACACGT-GTGTGCAATCAAGTGGAACTGAAGTACAAACAGGGACAC
*
6605466 GCATGTGCAATCAGGGGC
64 GCATGTGCAACCAGGGGC
6605484 ACCGAAGTAGAAACA-GGAGCACGTGTGTGCAATCAAG-GGAACTGAAGTACAAACAGGGACACG
1 ACCGAAGTAGAAACAGGGA-CACGTGTGTGCAATCAAGTGGAACTGAAGTACAAACAGGGACACG
* *
6605547 TATGTGCAACCAGGGGT
65 CATGTGCAACCAGGGGC
* * *
6605564 ATCGAAGTATAAATAGGGACACGTGTGTGCAATCA
1 ACCGAAGTAGAAACAGGGACACGTGTGTGCAATCA
6605599 TACAATAATT
Statistics
Matches: 99, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
78 3 0.03
79 1 0.01
80 90 0.91
81 5 0.05
ACGTcount: A:0.36, C:0.18, G:0.30, T:0.16
Consensus pattern (81 bp):
ACCGAAGTAGAAACAGGGACACGTGTGTGCAATCAAGTGGAACTGAAGTACAAACAGGGACACGC
ATGTGCAACCAGGGGC
Found at i:6605956 original size:2 final size:2
Alignment explanation
Indices: 6605949--6605978 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6605939 TGTTAACCAA
6605949 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6605979 CCTTATTCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6607664 original size:18 final size:18
Alignment explanation
Indices: 6607626--6607669 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
6607616 TTTTTATTTT
6607626 TTAAATATTAATATAATTA
1 TTAAAT-TTAATATAATTA
*
6607645 TTTAATTTAATATTAA-TA
1 TTAAATTTAATA-TAATTA
6607663 TTAAATT
1 TTAAATT
6607670 ATTTTAATGG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTAAATTTAATATAATTA
Found at i:6611751 original size:33 final size:35
Alignment explanation
Indices: 6611714--6611784 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 35
6611704 ACTACTTTTT
* *
6611714 TGTCACTG-TACTGAGATGGGATAAGGCCCAA-AC
1 TGTCACTGATACTGAAAAGGGATAAGGCCCAAGAC
* *
6611747 TGTCACTGATACTGAAAAGGGCTTAGGCCCAAGAC
1 TGTCACTGATACTGAAAAGGGATAAGGCCCAAGAC
6611782 TGT
1 TGT
6611785 TCAACTGTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 8 0.25
34 19 0.59
35 5 0.16
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.23
Consensus pattern (35 bp):
TGTCACTGATACTGAAAAGGGATAAGGCCCAAGAC
Found at i:6622207 original size:16 final size:16
Alignment explanation
Indices: 6622186--6622218 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6622176 TGAAAAAGTC
6622186 CTTTTACGGTTTGTAA
1 CTTTTACGGTTTGTAA
6622202 CTTTTACGGTTTGTAA
1 CTTTTACGGTTTGTAA
6622218 C
1 C
6622219 AGTCACCAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.18, T:0.48
Consensus pattern (16 bp):
CTTTTACGGTTTGTAA
Found at i:6628178 original size:37 final size:37
Alignment explanation
Indices: 6628110--6628202 Score: 100
Period size: 37 Copynumber: 2.4 Consensus size: 37
6628100 ATTCTAAAAA
*
6628110 TAATATTATTTTAATAGTTTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTTTAATATTAAATTTAATAT
**
6628146 TAATACTTATCTTAATAGTTTTTTTATT-AATTTAATAT
1 TAATA-TTATCTTAATAG-TTTAATATTAAATTTAATAT
6628184 TAAAGTGATTATCTTAATA
1 T-AA-T-ATTATCTTAATA
6628203 TTAAATTTAG
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
36 5 0.10
37 19 0.40
38 9 0.19
39 2 0.04
40 12 0.25
41 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (37 bp):
TAATATTATCTTAATAGTTTAATATTAAATTTAATAT
Found at i:6633491 original size:14 final size:13
Alignment explanation
Indices: 6633471--6633512 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
6633461 TTTGGATTTT
6633471 CTGTTTTTGCCAA
1 CTGTTTTTGCCAA
6633484 CTGTTTTTGCCAA
1 CTGTTTTTGCCAA
*
6633497 CTGGATTTTGCCAA
1 CT-GTTTTTGCCAA
6633511 CT
1 CT
6633513 TTCAGCTCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.43
Consensus pattern (13 bp):
CTGTTTTTGCCAA
Found at i:6636407 original size:20 final size:20
Alignment explanation
Indices: 6636382--6636426 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
6636372 AAAGGGTCGC
*
6636382 TGGGCCTAGTACTGGTGCTA
1 TGGGCCTAGTACTGGTACTA
6636402 TGGGCCTAGTACTGGTACTA
1 TGGGCCTAGTACTGGTACTA
6636422 TGGGC
1 TGGGC
6636427 TGTGGATCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.16, C:0.20, G:0.36, T:0.29
Consensus pattern (20 bp):
TGGGCCTAGTACTGGTACTA
Found at i:6640976 original size:17 final size:17
Alignment explanation
Indices: 6640934--6640980 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
6640924 TATCATTTAC
6640934 CATTTATCGGGCATTAT
1 CATTTATCGGGCATTAT
* *
6640951 TATTGATCGGGCACTT-T
1 CATTTATCGGGCA-TTAT
6640968 CATTTATCGGGCA
1 CATTTATCGGGCA
6640981 ATAACGAGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 23 0.92
18 2 0.08
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (17 bp):
CATTTATCGGGCATTAT
Found at i:6651978 original size:13 final size:13
Alignment explanation
Indices: 6651960--6651984 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6651950 AGAAATCGAA
6651960 GGAGAAGAAAAAC
1 GGAGAAGAAAAAC
6651973 GGAGAAGAAAAA
1 GGAGAAGAAAAA
6651985 AAAAGAAAGA
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:0.32, T:0.00
Consensus pattern (13 bp):
GGAGAAGAAAAAC
Found at i:6656738 original size:16 final size:16
Alignment explanation
Indices: 6656717--6656749 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6656707 TCCAGTGATT
*
6656717 CCCTTAAATATCTCAG
1 CCCTTAAACATCTCAG
6656733 CCCTTAAACATCTCAG
1 CCCTTAAACATCTCAG
6656749 C
1 C
6656750 TCTATTCGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.06, T:0.27
Consensus pattern (16 bp):
CCCTTAAACATCTCAG
Found at i:6666348 original size:2 final size:2
Alignment explanation
Indices: 6666341--6666376 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6666331 ATGTAAAATA
6666341 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6666377 TGGAATAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6671225 original size:5 final size:5
Alignment explanation
Indices: 6671215--6671239 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6671205 TTCTGGGATT
6671215 TTTTG TTTTG TTTTG TTTTG TTTTG
1 TTTTG TTTTG TTTTG TTTTG TTTTG
6671240 ATATTTGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (5 bp):
TTTTG
Found at i:6676225 original size:19 final size:19
Alignment explanation
Indices: 6676201--6676240 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
6676191 TTTACTCACA
6676201 AACTATTCAAATTCAACTC
1 AACTATTCAAATTCAACTC
*
6676220 AACTATTCGAATTCAACTC
1 AACTATTCAAATTCAACTC
6676239 AA
1 AA
6676241 ATCATTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.25, G:0.03, T:0.30
Consensus pattern (19 bp):
AACTATTCAAATTCAACTC
Found at i:6676561 original size:22 final size:24
Alignment explanation
Indices: 6676534--6676577 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
6676524 AAACTGATCC
6676534 TTTTATT-ATAAAAATT-ATCTAT
1 TTTTATTGATAAAAATTGATCTAT
*
6676556 TTTTATTGTTAAAAATTGATCT
1 TTTTATTGATAAAAATTGATCT
6676578 CGTACGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 8 0.42
24 4 0.21
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (24 bp):
TTTTATTGATAAAAATTGATCTAT
Found at i:6677506 original size:3 final size:3
Alignment explanation
Indices: 6677500--6677528 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6677490 ATTATTAAAA
6677500 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
6677529 AATTGAGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6678367 original size:27 final size:30
Alignment explanation
Indices: 6678337--6678393 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 30
6678327 AATTAAAATA
*
6678337 ATTAAATTAAGA-AAA-A-ATTTTAGAGTC
1 ATTAAAATAAGACAAACATATTTTAGAGTC
6678364 ATTAAAATAAGACAAATCATATTTTAGAGT
1 ATTAAAATAAGACAAA-CATATTTTAGAGT
6678394 AACTATGGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 11 0.44
28 3 0.12
30 1 0.04
31 10 0.40
ACGTcount: A:0.51, C:0.05, G:0.11, T:0.33
Consensus pattern (30 bp):
ATTAAAATAAGACAAACATATTTTAGAGTC
Found at i:6678917 original size:41 final size:43
Alignment explanation
Indices: 6678854--6678939 Score: 158
Period size: 41 Copynumber: 2.0 Consensus size: 43
6678844 TATTTATCAC
6678854 TAGTTATTATTATTTTTTAATTCATTAATAAATTACCTAATTT
1 TAGTTATTATTATTTTTTAATTCATTAATAAATTACCTAATTT
6678897 TAGTTATT-TT-TTTTTTAATTCATTAATAAATTACCTAATTT
1 TAGTTATTATTATTTTTTAATTCATTAATAAATTACCTAATTT
6678938 TA
1 TA
6678940 ATTTTAATTG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
41 33 0.77
42 2 0.05
43 8 0.19
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (43 bp):
TAGTTATTATTATTTTTTAATTCATTAATAAATTACCTAATTT
Found at i:6683936 original size:24 final size:26
Alignment explanation
Indices: 6683884--6683935 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 26
6683874 ATATAATTAG
6683884 AATATATATATTTAATAAATTATAAA
1 AATATATATATTTAATAAATTATAAA
*
6683910 AATATAT-TATTTAATAAATTTTAAA
1 AATATATATATTTAATAAATTATAAA
6683935 A
1 A
6683936 TTAAACATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
AATATATATATTTAATAAATTATAAA
Found at i:6685424 original size:104 final size:104
Alignment explanation
Indices: 6685284--6685708 Score: 586
Period size: 104 Copynumber: 4.1 Consensus size: 104
6685274 GAATCTTAGT
* * * * *
6685284 AAAATCAACTATGAACGTAGGTTAGCGAGTTGTTAGGAGTTGCGATATTAAATTAACGAACTCAA
1 AAAATCAACTATGAACGTAGGTCAGCGAGCTATTAGGAGTTGCGATATTAAATCAACTAACTCAA
* * *
6685349 ATAATCGGAGGCTACAATCTTAAATTAGCTAGCCTTAAG
66 ATAATCGGAGGCTGCGATCTTAAATCAGCTAGCCTTAAG
* * * *
6685388 AAAATCAGCTATGAACGTAGGTCAGTGAGCTATTAGGAGTTGCGATATTAAATTAGCTAACTCAA
1 AAAATCAACTATGAACGTAGGTCAGCGAGCTATTAGGAGTTGCGATATTAAATCAACTAACTCAA
*
6685453 ATAATCGGAGGCTGCGATCTTAAATCAGCTAGCCTT-TG
66 ATAATCGGAGGCTGCGATCTTAAATCAGCTAGCCTTAAG
* * *
6685491 TAACATCAACTGTGAACGTAGGTCAGCGAGCTATTAGGAGTTGCGATATTAAATCAACTAAATCA
1 -AAAATCAACTATGAACGTAGGTCAGCGAGCTATTAGGAGTTGCGATATTAAATCAACTAACTCA
*
6685556 AATAATCGGAGGCTGCGATCTTAAATCACCTAG-CTTAA-
65 AATAATCGGAGGCTGCGATCTTAAATCAGCTAGCCTTAAG
* * * * *
6685594 AACATTAACTATGAACGTAGGTCAGCGAGCTATTAAGAGTTGCGATCTTAAATCAACCAACTCAA
1 AAAATCAACTATGAACGTAGGTCAGCGAGCTATTAGGAGTTGCGATATTAAATCAACTAACTCAA
* * *
6685659 ATAATCGAAGGCTGCGATCTTAAATTAGCTAGCCTTAAT
66 ATAATCGGAGGCTGCGATCTTAAATCAGCTAGCCTTAAG
*
6685698 AACATCAACTA
1 AAAATCAACTA
6685709 CAAGTTCAAA
Statistics
Matches: 287, Mismatches: 30, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
102 88 0.31
103 9 0.03
104 190 0.66
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.27
Consensus pattern (104 bp):
AAAATCAACTATGAACGTAGGTCAGCGAGCTATTAGGAGTTGCGATATTAAATCAACTAACTCAA
ATAATCGGAGGCTGCGATCTTAAATCAGCTAGCCTTAAG
Found at i:6685691 original size:206 final size:208
Alignment explanation
Indices: 6685278--6685708 Score: 623
Period size: 206 Copynumber: 2.1 Consensus size: 208
6685268 ATCAGTGAAT
* * * * *
6685278 CTTAGTAAAATCAACTATGAACGTAGGTTAGCGAGTTGTTAGGAGTTGCGATATTAAATTAACGA
1 CTTAGTAACATCAACTATGAACGTAGGTCAGCGAGCTATTAGGAGTTGCGATATTAAATCAACGA
* * * *
6685343 ACTCAAATAATCGGAGGCTACAATCTTAAATTAGCTAGCCTTAAGAAAATCAGCTATGAACGTAG
66 AATCAAATAATCGGAGGCTACAATCTTAAATCACCTAGCCTTAAGAAAATCAACTATGAACGTAG
* * * * * *
6685408 GTCAGTGAGCTATTAGGAGTTGCGATATTAAATTAGCTAACTCAAATAATCGGAGGCTGCGATCT
131 GTCAGCGAGCTATTAAGAGTTGCGATATTAAATCAACCAACTCAAATAATCGAAGGCTGCGATCT
6685473 TAAATCAGCTAGC
196 TAAATCAGCTAGC
* * *
6685486 CTTTGTAACATCAACTGTGAACGTAGGTCAGCGAGCTATTAGGAGTTGCGATATTAAATCAACTA
1 CTTAGTAACATCAACTATGAACGTAGGTCAGCGAGCTATTAGGAGTTGCGATATTAAATCAACGA
* * * *
6685551 AATCAAATAATCGGAGGCTGCGATCTTAAATCACCTAG-CTTAA-AACATTAACTATGAACGTAG
66 AATCAAATAATCGGAGGCTACAATCTTAAATCACCTAGCCTTAAGAAAATCAACTATGAACGTAG
*
6685614 GTCAGCGAGCTATTAAGAGTTGCGATCTTAAATCAACCAACTCAAATAATCGAAGGCTGCGATCT
131 GTCAGCGAGCTATTAAGAGTTGCGATATTAAATCAACCAACTCAAATAATCGAAGGCTGCGATCT
*
6685679 TAAATTAGCTAGC
196 TAAATCAGCTAGC
*
6685692 CTTAATAACATCAACTA
1 CTTAGTAACATCAACTA
6685709 CAAGTTCAAA
Statistics
Matches: 196, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
206 101 0.52
207 5 0.03
208 90 0.46
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.27
Consensus pattern (208 bp):
CTTAGTAACATCAACTATGAACGTAGGTCAGCGAGCTATTAGGAGTTGCGATATTAAATCAACGA
AATCAAATAATCGGAGGCTACAATCTTAAATCACCTAGCCTTAAGAAAATCAACTATGAACGTAG
GTCAGCGAGCTATTAAGAGTTGCGATATTAAATCAACCAACTCAAATAATCGAAGGCTGCGATCT
TAAATCAGCTAGC
Found at i:6687567 original size:31 final size:30
Alignment explanation
Indices: 6687532--6687604 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 30
6687522 ATAAAAGTGA
*
6687532 TATTTGAATTTCTCTATTTTTTTTAGATTGG
1 TATTTGAATTTCTCT-TTTGTTTTAGATTGG
*
6687563 TATTT-AAGGTTTTTCTTTTGTTTTAGATTGG
1 TATTTGAA--TTTCTCTTTTGTTTTAGATTGG
*
6687594 TACTTGAATTT
1 TATTTGAATTT
6687605 TTATTCGTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
30 5 0.14
31 23 0.64
32 8 0.22
ACGTcount: A:0.19, C:0.05, G:0.15, T:0.60
Consensus pattern (30 bp):
TATTTGAATTTCTCTTTTGTTTTAGATTGG
Found at i:6694526 original size:7 final size:7
Alignment explanation
Indices: 6694510--6694566 Score: 57
Period size: 7 Copynumber: 8.4 Consensus size: 7
6694500 CCAATCTTTC
6694510 TTTTTA-
1 TTTTTAT
6694516 TTTTTA-
1 TTTTTAT
6694522 TTTTTAT
1 TTTTTAT
*
6694529 TTATTAT
1 TTTTTAT
*
6694536 TTTCCT-T
1 TTT-TTAT
6694543 TTTTTAT
1 TTTTTAT
*
6694550 TTATTAT
1 TTTTTAT
6694557 TTTTTAT
1 TTTTTAT
6694564 TTT
1 TTT
6694567 ATTTTATTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
6 13 0.31
7 28 0.67
8 1 0.02
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTAT
Found at i:6694571 original size:24 final size:23
Alignment explanation
Indices: 6694510--6694575 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 23
6694500 CCAATCTTTC
6694510 TTTTTATTTTTATTTTTATTTATTA
1 TTTTTA-TTTTA-TTTTATTTATTA
**
6694535 -TTTTCCTTT-TTTTATTTATTA
1 TTTTTATTTTATTTTATTTATTA
6694556 TTTTTTATTTTATTTTATTT
1 -TTTTTATTTTATTTTATTT
6694576 TAGTTAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
21 12 0.35
23 10 0.29
24 12 0.35
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTATTTTATTTTATTTATTA
Found at i:6695744 original size:118 final size:118
Alignment explanation
Indices: 6695534--6695763 Score: 361
Period size: 118 Copynumber: 1.9 Consensus size: 118
6695524 GTTTTCCATT
* * * *
6695534 GTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAAGGTGCTTGGGTTGTCATTC
1 GTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAAGGCGCTTGGATTGTCATTC
*
6695599 TACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGAG
66 TACTTCGCGTCAAAAGGTTGTGGGACGTGACAAGTAAAACTCCGCTAGCCGAG
* *
6695652 GTTATGAGTATAGCTCAAATCGTGACTGACTGAGTAACTGGGGTAAGGCGCTTGGATTGTCATTC
1 GTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAAGGCGCTTGGATTGTCATTC
****
6695717 TACTTCGCGTCAAAAGGTTGTGGGACGTGTTGGGTAAAACTCCGCTA
66 TACTTCGCGTCAAAAGGTTGTGGGACGTGACAAGTAAAACTCCGCTA
6695764 ACCGGAAATA
Statistics
Matches: 101, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
118 101 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (118 bp):
GTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAAGGCGCTTGGATTGTCATTC
TACTTCGCGTCAAAAGGTTGTGGGACGTGACAAGTAAAACTCCGCTAGCCGAG
Found at i:6699219 original size:45 final size:44
Alignment explanation
Indices: 6699168--6699375 Score: 166
Period size: 45 Copynumber: 4.6 Consensus size: 44
6699158 ACTAGGAGTG
* * *
6699168 AGTAAGACCATAGCTGAAAGATACTATGTCATAATGATGATAATA
1 AGTAAGACCATAGCTGAAAGACACTATGGCATAATGAT-AAAATA
** * ** * *
6699213 AGTAAGACCATAGCTGAAAGATGCTACGATATCATGATAAAAATG
1 AGTAAGACCATAGCTGAAAGACACTATGGCATAATGAT-AAAATA
* * * ** *
6699258 AGTAAAACAATAGTTGAAAGACACTATGGCATAATGATAAGGGTG
1 AGTAAGACCATAGCTGAAAGACACTATGGCATAATGATAA-AATA
** * * * *
6699303 AGTAAGACTGTGGCTAAAAGACACTATGGCATCATGGT-AAATA
1 AGTAAGACCATAGCTGAAAGACACTATGGCATAATGATAAAATA
6699346 AGACTAAGACCATAGCTGAAAGACACTATG
1 AG--TAAGACCATAGCTGAAAGACACTATG
6699376 ACATCCTTTG
Statistics
Matches: 126, Mismatches: 34, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
43 3 0.02
44 3 0.02
45 120 0.95
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (44 bp):
AGTAAGACCATAGCTGAAAGACACTATGGCATAATGATAAAATA
Found at i:6700344 original size:17 final size:17
Alignment explanation
Indices: 6700322--6700365 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
6700312 TCTGATACCA
*
6700322 ATGGCGGATACCTATCC
1 ATGGCGAATACCTATCC
6700339 ATGGCGAATACCTATCC
1 ATGGCGAATACCTATCC
6700356 ATGGCGAATA
1 ATGGCGAATA
6700366 GTTTTTCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (17 bp):
ATGGCGAATACCTATCC
Found at i:6708305 original size:125 final size:129
Alignment explanation
Indices: 6708137--6708461 Score: 351
Period size: 130 Copynumber: 2.6 Consensus size: 129
6708127 AAATTTTTTA
* * ** * * * * * *
6708137 AAAGG-ATATTCGGTTGTTTGGTCAAACGGTAAATCGAAACCCAGTACG-TAGGGCATG-TTTTC
1 AAAGGAATATTCGATTATTTGAACAAACGGGAAATTGCAACCCAGCACGATAGGGCACGATTTCC
* *
6708199 TCGGATTCCCAAACGTT-GAACATTGCCGT-GTTTT-A-GAATTTAGAAAACATGAGTGAAATTC
66 T-GAATTCCCAAAC-TTCGAACATTACCGTCGTTTTAATGAATTTAGAAAACATGAGTGAAATTC
*
6708260 T
129 C
6708261 AAAGGAATATTCGATTATTTGAACAAACGGGAAATTGCAACCCAGCACGATAGGGCACGATTTCC
1 AAAGGAATATTCGATTATTTGAACAAACGGGAAATTGCAACCCAGCACGATAGGGCACGATTTCC
* * * * ** * *
6708326 TGAATTTCTAAACTTCGAACGTTACCTTCGTTTTAATGAATTTTTAAAACCTGTGTGAAATTCC
66 TGAATTCCCAAACTTCGAACATTACCGTCGTTTTAATGAATTTAGAAAACATGAGTGAAATTCC
* *
6708390 AAAGGAATATTCGATCATTTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGCACGA-TTC
1 AAAGGAATATTCGATTA-TTTGAACAAACGGGAAATTGCAACCCAGCACGATAGGGCACGATTTC
6708454 CTCGAATT
65 CT-GAATT
6708462 TCTAAACATC
Statistics
Matches: 169, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
124 5 0.03
125 37 0.22
126 26 0.15
127 10 0.06
128 1 0.01
129 43 0.25
130 47 0.28
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (129 bp):
AAAGGAATATTCGATTATTTGAACAAACGGGAAATTGCAACCCAGCACGATAGGGCACGATTTCC
TGAATTCCCAAACTTCGAACATTACCGTCGTTTTAATGAATTTAGAAAACATGAGTGAAATTCC
Found at i:6708489 original size:130 final size:129
Alignment explanation
Indices: 6708242--6708490 Score: 374
Period size: 130 Copynumber: 1.9 Consensus size: 129
6708232 TAGAATTTAG
* * *
6708242 AAAACATGAGTGAAATTCTAAAGGAATATTCGATTATTTGAACAAACGGGAAATTGCAACCCAGC
1 AAAACATGAGTGAAATTCCAAAGGAATATTCGATCATTTGAACAAACGAGAAATTGCAACCCAGC
* * * *
6708307 ACGATAGGGCACGATTTCCTGAATTTCTAAACTTCGAACGTTACCTTCGTTTTAATGAATTTTT
66 ACGATAGGGCACGATTTCCTGAATTTCTAAACATCAAACATCACCTTCGTTTTAATGAATTTTT
* *
6708371 AAAACCTGTGTGAAATTCCAAAGGAATATTCGATCATTTTGAACAAACGAGAAATTGCAACCCAG
1 AAAACATGAGTGAAATTCCAAAGGAATATTCGATCA-TTTGAACAAACGAGAAATTGCAACCCAG
* *
6708436 CACGATAGGGCACGA-TTCCTCGAATTTCTAAACATCAAACATCACTTTTGTTTTA
65 CACGATAGGGCACGATTTCCT-GAATTTCTAAACATCAAACATCACCTTCGTTTTA
6708491 TAAAGTCAAC
Statistics
Matches: 107, Mismatches: 11, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
129 37 0.35
130 70 0.65
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (129 bp):
AAAACATGAGTGAAATTCCAAAGGAATATTCGATCATTTGAACAAACGAGAAATTGCAACCCAGC
ACGATAGGGCACGATTTCCTGAATTTCTAAACATCAAACATCACCTTCGTTTTAATGAATTTTT
Found at i:6710990 original size:35 final size:34
Alignment explanation
Indices: 6710951--6711025 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 34
6710941 TTCCTTTTAT
*
6710951 TTTAACCTTAAAAAAAA-TTTTAGAACACCCAAAAA
1 TTTAACC--AAAAAAAACTTTTAAAACACCCAAAAA
* *
6710986 TTTAAAGCAAAAAAAACTTTTAAAACACTCAAAAA
1 TTT-AACCAAAAAAAACTTTTAAAACACCCAAAAA
6711021 TTTAA
1 TTTAA
6711026 AGCATCACCC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 10 0.29
35 22 0.63
36 3 0.09
ACGTcount: A:0.56, C:0.15, G:0.03, T:0.27
Consensus pattern (34 bp):
TTTAACCAAAAAAAACTTTTAAAACACCCAAAAA
Found at i:6711026 original size:35 final size:34
Alignment explanation
Indices: 6710960--6711029 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 34
6710950 TTTTAACCTT
*
6710960 AAAAAAAATTTTAGAACACCCAAAAATTTAAAGC
1 AAAAAAAATTTTAAAACACCCAAAAATTTAAAGC
*
6710994 AAAAAAAACTTTTAAAACACTCAAAAATTTAAAGC
1 AAAAAAAA-TTTTAAAACACCCAAAAATTTAAAGC
6711029 A
1 A
6711030 TCACCCTCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
34 8 0.24
35 25 0.76
ACGTcount: A:0.60, C:0.14, G:0.04, T:0.21
Consensus pattern (34 bp):
AAAAAAAATTTTAAAACACCCAAAAATTTAAAGC
Found at i:6714178 original size:23 final size:23
Alignment explanation
Indices: 6714152--6714198 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
6714142 CATAAAACCC
6714152 AATAAA-TAAATAAGAAAGAAAAA
1 AATAAAGTAAAT-AGAAAGAAAAA
*
6714175 AATAAATGTAAATATAAAGAAAAA
1 AATAAA-GTAAATAGAAAGAAAAA
6714199 CAAAAGACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 6 0.29
24 10 0.48
25 5 0.24
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (23 bp):
AATAAAGTAAATAGAAAGAAAAA
Found at i:6714978 original size:85 final size:84
Alignment explanation
Indices: 6714866--6715020 Score: 292
Period size: 85 Copynumber: 1.8 Consensus size: 84
6714856 AAGCTAAGAC
6714866 CTGTAATTTTAGCCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGACCTGCTCCACCA
1 CTGTAATTTTAGCCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGACCTGCTCCACCA
6714931 CTGCTCGGAGAGCCAGGAT
66 CTGCTCGGAGAGCCAGGAT
*
6714950 CTGTAAATTTTAGCTTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGACCTGCTCCACC
1 CTGT-AATTTTAGCCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGACCTGCTCCACC
6715015 ACTGCT
65 ACTGCT
6715021 TGAAATAGAC
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
84 4 0.06
85 65 0.94
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (84 bp):
CTGTAATTTTAGCCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGACCTGCTCCACCA
CTGCTCGGAGAGCCAGGAT
Found at i:6717103 original size:21 final size:21
Alignment explanation
Indices: 6717077--6717121 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
6717067 GCTGGCTCAT
*
6717077 CATGTTGTTCTGTGACTCCAG
1 CATGTTGTTCTGGGACTCCAG
*
6717098 CATGTTTTTCTGGGACTCCAG
1 CATGTTGTTCTGGGACTCCAG
6717119 CAT
1 CAT
6717122 TTGATCCCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (21 bp):
CATGTTGTTCTGGGACTCCAG
Found at i:6721989 original size:35 final size:35
Alignment explanation
Indices: 6721943--6722012 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
6721933 ATTTTAACCT
6721943 TAAAAAAAACTTTTAGA-ACACCCAAAAATTTAAAG
1 TAAAAAAAACTTTTA-ATACACCCAAAAATTTAAAG
*
6721978 TAAAAAAAACTTTTAATACACTCAAAAATTTAAAG
1 TAAAAAAAACTTTTAATACACCCAAAAATTTAAAG
6722013 CATCACCCTC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
34 1 0.03
35 32 0.97
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.26
Consensus pattern (35 bp):
TAAAAAAAACTTTTAATACACCCAAAAATTTAAAG
Found at i:6722838 original size:27 final size:26
Alignment explanation
Indices: 6722794--6722852 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
6722784 TATTACGTAT
*
6722794 AATAGTTTAAAAGAAATAACATATGTAA
1 AATA-TTTAAAAGAAATAACA-ATATAA
** *
6722822 AATATTTAAAATTAATAATAATATAA
1 AATATTTAAAAGAAATAACAATATAA
6722848 AATAT
1 AATAT
6722853 ATGTTGCTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 10 0.37
27 13 0.48
28 4 0.15
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (26 bp):
AATATTTAAAAGAAATAACAATATAA
Found at i:6722990 original size:3 final size:3
Alignment explanation
Indices: 6722979--6723124 Score: 106
Period size: 3 Copynumber: 48.7 Consensus size: 3
6722969 TGATGATAGC
* * * *
6722979 AAT AGT AAT AAT -AT AAT AAT AA- AGT AGAA AAT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* * * * *
6723023 AAT AAT AAT ACGTT AAT AAG AAT AAT AAT AGT -AT ATT AAT AAT AAC
1 AAT AAT AAT A--AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
6723069 AAT AAT AGA- AAGT AAT GAT AA- AAT AAT AAAT AAT AAT AAT AAT AAT
1 AAT AAT A-AT AA-T AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
6723115 AAT AA- AAT AA
1 AAT AAT AAT AA
6723125 AGAATAGTGC
Statistics
Matches: 111, Mismatches: 20, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
2 9 0.08
3 93 0.84
4 7 0.06
5 2 0.02
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:6723046 original size:23 final size:23
Alignment explanation
Indices: 6723020--6723118 Score: 68
Period size: 23 Copynumber: 4.6 Consensus size: 23
6723010 TAATAATAGT
*
6723020 AATAATAATAATACGTTAATAAG
1 AATAATAATAATACATTAATAAG
* * *
6723043 AATAATAATAGTATATTAATAAT
1 AATAATAATAATACATTAATAAG
* *
6723066 AACAATAATAGA-A-AGTAAT--G
1 AATAATAATA-ATACATTAATAAG
* *
6723086 -ATAA-AATAATA-AATAATAAT
1 AATAATAATAATACATTAATAAG
6723106 AATAATAATAATA
1 AATAATAATAATA
6723119 AAATAAAGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
17 1 0.02
18 10 0.17
19 3 0.05
21 4 0.07
22 12 0.20
23 29 0.49
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (23 bp):
AATAATAATAATACATTAATAAG
Found at i:6723066 original size:20 final size:20
Alignment explanation
Indices: 6723019--6723072 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
6723009 ATAATAATAG
6723019 TAATAATAATAATACGTTAA
1 TAATAATAATAATACGTTAA
* *
6723039 TAAGAATAATAATA-GTATAT
1 TAATAATAATAATACGT-TAA
*
6723059 TAATAATAACAATA
1 TAATAATAATAATA
6723073 ATAGAAAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (20 bp):
TAATAATAATAATACGTTAA
Found at i:6725736 original size:3 final size:3
Alignment explanation
Indices: 6725728--6725782 Score: 101
Period size: 3 Copynumber: 18.0 Consensus size: 3
6725718 GAAAAGAAAG
6725728 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
6725776 GAGA GAA
1 GA-A GAA
6725783 TCGAGAGGAA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:6728649 original size:26 final size:27
Alignment explanation
Indices: 6728620--6728689 Score: 88
Period size: 29 Copynumber: 2.6 Consensus size: 27
6728610 GAATTTGGCT
**
6728620 TTCAATAATACATCTTT-AATTTTGTA
1 TTCAATAATACATCTTTCAATAATGTA
*
6728646 TTCAATAATACATGGCTTTCGATAATGTA
1 TTCAATAATACAT--CTTTCAATAATGTA
6728675 TTCAATAATACATCT
1 TTCAATAATACATCT
6728690 AACCATGACA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
26 13 0.34
27 2 0.05
28 4 0.11
29 19 0.50
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (27 bp):
TTCAATAATACATCTTTCAATAATGTA
Done.