Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 24 of 320
Found at i:6719757 original size:40 final size:40
Alignment explanation
Indices: 6719702--6719968 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
6719692 AGCATTGGAT
*
6719702 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
6719742 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
6719782 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
6719822 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
** *
6719862 TATATCCGGGCTGTGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
6719902 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
6719942 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
6719969 ATGTGTTTGC
Statistics
Matches: 218, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 218 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:6727757 original size:40 final size:40
Alignment explanation
Indices: 6727702--6727968 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
6727692 AGCATTGGAT
*
6727702 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
6727742 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
6727782 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
6727822 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
** *
6727862 TATATCCGGGCTGTGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
6727902 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
6727942 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
6727969 ATGTGTTTGC
Statistics
Matches: 218, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 218 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:6740070 original size:10 final size:10
Alignment explanation
Indices: 6740055--6740176 Score: 60
Period size: 10 Copynumber: 11.9 Consensus size: 10
6740045 AAAATTATAC
6740055 ATAATAATAA
1 ATAATAATAA
6740065 ATAATAATATA
1 ATAATAATA-A
6740076 AT-ATAATATA
1 ATAATAATA-A
*
6740086 ATATAAAATAA
1 ATA-ATAATAA
6740097 CATAATGAATAA
1 -ATAAT-AATAA
*
6740109 TATATATAGT-A
1 -ATA-ATAATAA
*
6740120 A-AATGATATA
1 ATAATAATA-A
6740130 AT-ATAAT-A
1 ATAATAATAA
6740138 A-AATATATAA
1 ATAATA-ATAA
*
6740148 ATAA-AATAT
1 ATAATAATAA
*
6740157 ATAATGAATTA
1 ATAAT-AATAA
6740168 ATAATAATA
1 ATAATAATA
6740177 TGATAAACAA
Statistics
Matches: 86, Mismatches: 11, Indels: 30
0.68 0.09 0.24
Matches are distributed among these distances:
8 8 0.09
9 10 0.12
10 32 0.37
11 16 0.19
12 18 0.21
13 2 0.02
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (10 bp):
ATAATAATAA
Found at i:6740078 original size:5 final size:5
Alignment explanation
Indices: 6740058--6740157 Score: 80
Period size: 5 Copynumber: 19.6 Consensus size: 5
6740048 ATTATACATA
* *
6740058 ATAAT A-AAT AATAAT ATAAT ATAAT ATAAT ATAAA ATAAC ATAAT GAATAAT
1 ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT --ATAAT
* * * *
6740110 ATATAT AGTAAA ATGAT ATAAT ATAAT AAAAT AT-AT A-AAT AAAAT ATA
1 ATA-AT A-TAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
6740158 TAATGAATTA
Statistics
Matches: 77, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
4 9 0.12
5 53 0.69
6 8 0.10
7 7 0.09
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (5 bp):
ATAAT
Found at i:6740078 original size:15 final size:15
Alignment explanation
Indices: 6740057--6740173 Score: 66
Period size: 15 Copynumber: 7.7 Consensus size: 15
6740047 AATTATACAT
6740057 AATAATAA-ATAATA
1 AATAATAATATAATA
6740071 ATATAATATAATATAATA
1 A-AT-A-ATAATATAATA
* *
6740089 TAA-AATAACATAATG
1 -AATAATAATATAATA
*
6740104 AATAATATATATAGT-
1 AATAATA-ATATAATA
*
6740119 AA-AATGATATAATA
1 AATAATAATATAATA
6740133 TAATAA-AATAT-ATA
1 -AATAATAATATAATA
*
6740147 AATAAAATATATAATGA
1 AATAATA-ATATAAT-A
*
6740164 ATTAATAATA
1 AATAATAATA
6740174 ATATGATAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 26
0.70 0.08 0.23
Matches are distributed among these distances:
13 11 0.14
14 10 0.12
15 27 0.34
16 14 0.17
17 10 0.12
18 7 0.09
19 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.33
Consensus pattern (15 bp):
AATAATAATATAATA
Found at i:6740180 original size:54 final size:53
Alignment explanation
Indices: 6740055--6740181 Score: 141
Period size: 54 Copynumber: 2.3 Consensus size: 53
6740045 AAAATTATAC
* * *
6740055 ATAATAATAAATAATAATATAATATAATATAATATAAAATAACATAATGAATAAT
1 ATAATAAT-AAT-ATGATATAATATAATAAAATATAAAATAAAATAATGAATAAT
* *
6740110 ATATATAGTAAAATGATATAATATAATAAAATATATAAATAAAATATAT-AATGAAT
1 ATA-ATAATAATATGATATAATATAATAAAATATA-AAATAAAATA-ATGAAT-AAT
6740166 -TAATAATAATATGATA
1 ATAATAATAATATGATA
6740182 AACAATGCAT
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
54 33 0.54
55 19 0.31
56 9 0.15
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (53 bp):
ATAATAATAATATGATATAATATAATAAAATATAAAATAAAATAATGAATAAT
Found at i:6742581 original size:3 final size:3
Alignment explanation
Indices: 6742573--6742611 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
6742563 AAAAAGAAAG
6742573 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6742612 AAAACTCAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:6742707 original size:21 final size:21
Alignment explanation
Indices: 6742683--6742741 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
6742673 GAAAGAGAAA
6742683 AGAAAAAATAAAAATAAAAT-T
1 AGAAAAAATAAAAA-AAAATGT
* *
6742704 AGAAATAATAAAAAAATATGT
1 AGAAAAAATAAAAAAAAATGT
*
6742725 ATAAAAAAATAAAAAAA
1 A-GAAAAAATAAAAAAA
6742742 TATAAGTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 4 0.12
21 15 0.47
22 13 0.41
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (21 bp):
AGAAAAAATAAAAAAAAATGT
Found at i:6742740 original size:24 final size:25
Alignment explanation
Indices: 6742706--6742752 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
6742696 ATAAAATTAG
*
6742706 AAATAATAAAAAAATATGTATAAAA
1 AAATAATAAAAAAATAAGTATAAAA
*
6742731 AAATAA-AAAAATATAAGTATAA
1 AAATAATAAAAAAATAAGTATAA
6742753 GAATAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.23
Consensus pattern (25 bp):
AAATAATAAAAAAATAAGTATAAAA
Found at i:6742758 original size:22 final size:21
Alignment explanation
Indices: 6742685--6742744 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
6742675 AAGAGAAAAG
* *
6742685 AAAAAATAAAAATAAAAT-TAG
1 AAAAAATAAAAA-AATATGTAT
*
6742706 AAATAATAAAAAAATATGTAT
1 AAAAAATAAAAAAATATGTAT
6742727 AAAAAAATAAAAAAATAT
1 -AAAAAATAAAAAAATAT
6742745 AAGTATAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 4 0.12
21 13 0.39
22 16 0.48
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (21 bp):
AAAAAATAAAAAAATATGTAT
Found at i:6742765 original size:4 final size:4
Alignment explanation
Indices: 6742756--6742781 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
6742746 AGTATAAGAA
6742756 TAAT TAAT TAAT TAAT TAAT TAAT TA
1 TAAT TAAT TAAT TAAT TAAT TAAT TA
6742782 GTAAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:6742813 original size:22 final size:20
Alignment explanation
Indices: 6742783--6742834 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 20
6742773 AATTAATTAG
*
6742783 TAAAATAAAAATAAATAATA
1 TAAAATAAAAATAAATAAAA
6742803 TAACAATTAAAAATAAATAAAA
1 TAA-AA-TAAAAATAAATAAAA
6742825 TAAAATAAAA
1 TAAAATAAAA
6742835 TTGGGGTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 8 0.28
21 4 0.14
22 17 0.59
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAAATAAAAATAAATAAAA
Found at i:6742918 original size:30 final size:30
Alignment explanation
Indices: 6742884--6743015 Score: 246
Period size: 30 Copynumber: 4.4 Consensus size: 30
6742874 GCTCGTGTGT
6742884 CCAGGCCGTGTGGGTCACAAGGCCATGTCG
1 CCAGGCCGTGTGGGTCACAAGGCCATGTCG
6742914 CCAGGCCGTGTGGGTCACAAGGCCATGTCG
1 CCAGGCCGTGTGGGTCACAAGGCCATGTCG
*
6742944 CCAGGCCGTGTGGGTTACAAGGCCATGTCG
1 CCAGGCCGTGTGGGTCACAAGGCCATGTCG
*
6742974 CCAGGCCGTGTGGGTCACAAGGCAATGTCG
1 CCAGGCCGTGTGGGTCACAAGGCCATGTCG
6743004 CCAGGCCGTGTG
1 CCAGGCCGTGTG
6743016 TGTTTTCCTT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 99 1.00
ACGTcount: A:0.17, C:0.29, G:0.37, T:0.17
Consensus pattern (30 bp):
CCAGGCCGTGTGGGTCACAAGGCCATGTCG
Found at i:6747676 original size:45 final size:45
Alignment explanation
Indices: 6747612--6747833 Score: 213
Period size: 45 Copynumber: 5.0 Consensus size: 45
6747602 AGGACTATGC
6747612 TATGTGTTTTCGTGTAAGACCATGTCTGAGACATTGGCATCGATA
1 TATGTGTTTTCGTGTAAGACCATGTCTGAGACATTGGCATCGATA
* * * * *
6747657 TATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCAATA
1 TATGTGTTTTCGTGTAAGACCATGTCTGAGACATTGGCATCGATA
* ** *
6747702 TATGTGTTTTCGTGTAAGACCACGTCTG-GTATGTTAGCATCGATA
1 TATGTGTTTTCGTGTAAGACCATGTCTGAG-ACATTGGCATCGATA
* * * * *
6747747 TATATGGTTACGAGTAAGACCATGTCT-AGGACATCGGCATCG-TA
1 TATGTGTTTTCGTGTAAGACCATGTCTGA-GACATTGGCATCGATA
* * * * *
6747791 T-T-TG-ATTCGTGTAAGACCCTATCTGGGACAGTGGCATCGATA
1 TATGTGTTTTCGTGTAAGACCATGTCTGAGACATTGGCATCGATA
6747833 T
1 T
6747834 GAGATAGCAT
Statistics
Matches: 146, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
41 26 0.18
42 5 0.03
43 1 0.01
44 4 0.03
45 109 0.75
46 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (45 bp):
TATGTGTTTTCGTGTAAGACCATGTCTGAGACATTGGCATCGATA
Found at i:6759290 original size:26 final size:26
Alignment explanation
Indices: 6759254--6759389 Score: 229
Period size: 26 Copynumber: 5.2 Consensus size: 26
6759244 TGATACAAAT
6759254 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
6759280 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
6759306 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
6759332 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
6759358 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
6759384 TGATAA
1 TGATAA
6759390 GAATTTCATG
Statistics
Matches: 105, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
25 2 0.02
26 100 0.95
27 3 0.03
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:6761052 original size:27 final size:27
Alignment explanation
Indices: 6761009--6761177 Score: 223
Period size: 27 Copynumber: 6.3 Consensus size: 27
6760999 TGGAGGAAGC
*
6761009 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* *
6761036 GATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* *
6761063 GTTTTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
*
6761090 GTTCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* *
6761117 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* * *
6761144 GTATCTGGTGACTCTGTCAC-ATTATCT
1 GT-TCTGGTGGCTCTGCCACAAATATCT
6761171 GTTCTGG
1 GTTCTGG
6761178 CAGCCATGCT
Statistics
Matches: 130, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
26 5 0.04
27 110 0.85
28 15 0.12
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACAAATATCT
Found at i:6761096 original size:54 final size:54
Alignment explanation
Indices: 6761009--6761177 Score: 252
Period size: 54 Copynumber: 3.1 Consensus size: 54
6760999 TGGAGGAAGC
* * *
6761009 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACATATATCT
*
6761063 GTTTTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACATATATCT
* *
6761117 GTTCTGGTGGCTCTGCCACGAT-TATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTCTGCCAC-ATATATCTGT-TCTGGTGGCTCTGCCACATATATCT
6761171 GTTCTGG
1 GTTCTGG
6761178 CAGCCATGCT
Statistics
Matches: 106, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
54 87 0.82
55 19 0.18
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACATATATCT
Found at i:6761144 original size:81 final size:81
Alignment explanation
Indices: 6761009--6761177 Score: 252
Period size: 81 Copynumber: 2.1 Consensus size: 81
6760999 TGGAGGAAGC
* *
6761009 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGT-TTTGGTGG
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTATCTGGTGA
6761073 CTCTGCCACATATATCT
66 CTCTGCCACAT-TATCT
* * *
6761090 GTTCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGAT-TATCTGTATCTGGTG
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCAC-ATATATCTGTATCTGGTG
*
6761154 ACTCTGTCACATTATCT
65 ACTCTGCCACATTATCT
6761171 GTTCTGG
1 GTTCTGG
6761178 CAGCCATGCT
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
81 62 0.77
82 18 0.22
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (81 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTATCTGGTGA
CTCTGCCACATTATCT
Found at i:6770129 original size:13 final size:13
Alignment explanation
Indices: 6770111--6770135 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6770101 GCTTCTCGCC
6770111 TTGTTCTCTGTTT
1 TTGTTCTCTGTTT
6770124 TTGTTCTCTGTT
1 TTGTTCTCTGTT
6770136 CTTGGCTTAA
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:0.00, C:0.16, G:0.16, T:0.68
Consensus pattern (13 bp):
TTGTTCTCTGTTT
Found at i:6777498 original size:17 final size:17
Alignment explanation
Indices: 6777478--6777511 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6777468 AAATAAATTT
6777478 TTAATTAAAAATTTTAA
1 TTAATTAAAAATTTTAA
*
6777495 TTAATTAAAATTTTTAA
1 TTAATTAAAAATTTTAA
6777512 ACCTAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATTAAAAATTTTAA
Found at i:6779069 original size:120 final size:120
Alignment explanation
Indices: 6778854--6779094 Score: 376
Period size: 120 Copynumber: 2.0 Consensus size: 120
6778844 CACATTAAAA
* * * * *
6778854 ATCATTGTCGGAAGAGATTAAATCAAGATGATGGAGAATTTCAAGTAACACAATGAACATGTAAT
1 ATCATTGTCGGAAGACATTAAATCAAAACGATGAAGAATTTCAAGTAACACAATGAACACGTAAT
* *
6778919 AAGGACATCTTAATAATATAATGAGCCATCTTATTTGAATCATGAAACGACCAAT
66 AAGGACATCTTAATAAGATAATGAGCCATCTTATTTGAATCACGAAACGACCAAT
*
6778974 ATCATTGTTGGAAGACATTAAATCAAAACGATGAAGAATTTCAAGTAACACAAT-AAGCACGTAA
1 ATCATTGTCGGAAGACATTAAATCAAAACGATGAAGAATTTCAAGTAACACAATGAA-CACGTAA
* *
6779038 TAAGGACATCTTAATAAGATAATGAGTCATCTTATTTGAATCACGAAACGATCAAT
65 TAAGGACATCTTAATAAGATAATGAGCCATCTTATTTGAATCACGAAACGACCAAT
6779094 A
1 A
6779095 AAATGATAAG
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
119 2 0.02
120 108 0.98
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.27
Consensus pattern (120 bp):
ATCATTGTCGGAAGACATTAAATCAAAACGATGAAGAATTTCAAGTAACACAATGAACACGTAAT
AAGGACATCTTAATAAGATAATGAGCCATCTTATTTGAATCACGAAACGACCAAT
Found at i:6780939 original size:20 final size:20
Alignment explanation
Indices: 6780914--6780958 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
6780904 CTGACAAAAT
6780914 AGTCATCTGGGTTTCATTTC
1 AGTCATCTGGGTTTCATTTC
6780934 AGTCATCTGGGTTTCATTTC
1 AGTCATCTGGGTTTCATTTC
6780954 AGTCA
1 AGTCA
6780959 CCCAACTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.42
Consensus pattern (20 bp):
AGTCATCTGGGTTTCATTTC
Found at i:6783174 original size:20 final size:20
Alignment explanation
Indices: 6783149--6783192 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
6783139 TCAAAGTTGA
*
6783149 GTGACTGAAATAAAACCCAG
1 GTGACTGAAATAAAACACAG
*
6783169 GTGACTGAAATGAAACACAG
1 GTGACTGAAATAAAACACAG
6783189 GTGA
1 GTGA
6783193 TTGTTTTGTC
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:0.43, C:0.16, G:0.25, T:0.16
Consensus pattern (20 bp):
GTGACTGAAATAAAACACAG
Found at i:6792533 original size:22 final size:22
Alignment explanation
Indices: 6792490--6792533 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
6792480 TCTCAACCAG
*
6792490 TCATACAATTCAAATACAATTC
1 TCATACAATTCAAAAACAATTC
*
6792512 TCATACCAATT-AAAAACCATTC
1 TCATA-CAATTCAAAAACAATTC
6792534 AAATACATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (22 bp):
TCATACAATTCAAAAACAATTC
Found at i:6799521 original size:26 final size:26
Alignment explanation
Indices: 6799485--6799537 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
6799475 CAAGATATGA
*
6799485 TTGTACAAATGTTCATGGTGTAGCCT
1 TTGTACAAATGTTCATAGTGTAGCCT
*
6799511 TTGTACGAATGTTCATAGTGTAGCCT
1 TTGTACAAATGTTCATAGTGTAGCCT
6799537 T
1 T
6799538 CGATAATGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.40
Consensus pattern (26 bp):
TTGTACAAATGTTCATAGTGTAGCCT
Found at i:6801296 original size:24 final size:24
Alignment explanation
Indices: 6801264--6801312 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
6801254 CTCGAAAGAA
6801264 GAAAAAACTATAATCAACAAAAAT
1 GAAAAAACTATAATCAACAAAAAT
*
6801288 GAAAAAACTATCATCAACAAAAAT
1 GAAAAAACTATAATCAACAAAAAT
6801312 G
1 G
6801313 TGGGAAACAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.63, C:0.14, G:0.06, T:0.16
Consensus pattern (24 bp):
GAAAAAACTATAATCAACAAAAAT
Found at i:6802379 original size:23 final size:23
Alignment explanation
Indices: 6802349--6802395 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
6802339 TTGAAGGGGC
6802349 AAAAAAATTATAAAATTTATACT
1 AAAAAAATTATAAAATTTATACT
6802372 AAAAAAATTATAAAATTTATACT
1 AAAAAAATTATAAAATTTATACT
6802395 A
1 A
6802396 TTGTTGGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (23 bp):
AAAAAAATTATAAAATTTATACT
Found at i:6802569 original size:23 final size:23
Alignment explanation
Indices: 6802542--6802592 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
6802532 TTTAAATTTT
*
6802542 GAGTTAA-TCAAATTAAGTTATTC
1 GAGTTAACTCAAA-TAAGTAATTC
*
6802565 GAGTTAACTCAAATAAGTAATTT
1 GAGTTAACTCAAATAAGTAATTC
6802588 GAGTT
1 GAGTT
6802593 CTTTAGTTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (23 bp):
GAGTTAACTCAAATAAGTAATTC
Found at i:6802770 original size:18 final size:19
Alignment explanation
Indices: 6802722--6802774 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
6802712 AAAAATTACA
6802722 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
*
6802741 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
6802760 AAAAATT-AAAA-AATT
1 AAAAATTCAAAATAATT
6802775 ATATCTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 11 0.37
19 19 0.63
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:6808362 original size:15 final size:15
Alignment explanation
Indices: 6808342--6808449 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
6808332 TTTATGGAAA
6808342 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
6808357 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
6808371 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* ***
6808387 ATCAAATAT-TGAAA
1 ATCAAAGATATGGGT
6808401 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
6808417 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
6808431 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
6808447 ATC
1 ATC
6808450 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:6808371 original size:30 final size:30
Alignment explanation
Indices: 6808335--6808449 Score: 178
Period size: 30 Copynumber: 3.8 Consensus size: 30
6808325 ATCCATATTT
6808335 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAATCAAAGATATGGGTATCAAATA
*
6808365 ATGGAAAGTCAAAGATATGGGTATCAAAT-
1 ATGGAAAATCAAAGATATGGGTATCAAATA
*
6808394 ATTGAAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAA-TCAAAGATATGGGTATCAAATA
* *
6808425 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAATCAAAGATATGGGTATC
6808450 GAGATATTGG
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
29 6 0.08
30 66 0.86
31 5 0.06
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAATCAAAGATATGGGTATCAAATA
Found at i:6808436 original size:60 final size:60
Alignment explanation
Indices: 6808338--6808458 Score: 208
Period size: 60 Copynumber: 2.0 Consensus size: 60
6808328 CATATTTATG
6808338 GAAAATCAAAGATATGGGTATCAAATAATGGAAAGTCAAAGATATGGGTATC-AAATATT
1 GAAAATCAAAGATATGGGTATCAAATAATGGAAAGTCAAAGATATGGGTATCGAAATATT
* *
6808397 GAAAAGTCAAAGATATGGGTATCAAATATTGGAAAGTCAAAGATATGGGTATCGAGATATT
1 GAAAA-TCAAAGATATGGGTATCAAATAATGGAAAGTCAAAGATATGGGTATCGAAATATT
6808458 G
1 G
6808459 GCATAATAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
59 5 0.09
60 46 0.79
61 7 0.12
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.26
Consensus pattern (60 bp):
GAAAATCAAAGATATGGGTATCAAATAATGGAAAGTCAAAGATATGGGTATCGAAATATT
Found at i:6813057 original size:15 final size:15
Alignment explanation
Indices: 6813037--6813144 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
6813027 TTTATGGAAA
*
6813037 ATCAAAGATATGGGT
1 ATCAAATATATGGGT
**
6813052 ATCAAATA-ATGGAA
1 ATCAAATATATGGGT
*
6813066 AGTCAAAGATATGGGT
1 A-TCAAATATATGGGT
***
6813082 ATCAAATAT-TGAAA
1 ATCAAATATATGGGT
*
6813096 AGTCAAAGATATGGGT
1 A-TCAAATATATGGGT
**
6813112 ATCAAATAT-TGGAA
1 ATCAAATATATGGGT
6813126 AGTCAAATATATGGGT
1 A-TCAAATATATGGGT
6813142 ATC
1 ATC
6813145 GAGATATTGG
Statistics
Matches: 68, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
14 12 0.18
15 44 0.65
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.27
Consensus pattern (15 bp):
ATCAAATATATGGGT
Found at i:6813066 original size:30 final size:30
Alignment explanation
Indices: 6813030--6813144 Score: 169
Period size: 30 Copynumber: 3.8 Consensus size: 30
6813020 ATCCATATTT
6813030 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAATCAAAGATATGGGTATCAAATA
*
6813060 ATGGAAAGTCAAAGATATGGGTATCAAAT-
1 ATGGAAAATCAAAGATATGGGTATCAAATA
*
6813089 ATTGAAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAA-TCAAAGATATGGGTATCAAATA
* * *
6813120 TTGGAAAGTCAAATATATGGGTATC
1 ATGGAAAATCAAAGATATGGGTATC
6813145 GAGATATTGG
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
29 6 0.08
30 65 0.86
31 5 0.07
ACGTcount: A:0.45, C:0.07, G:0.22, T:0.26
Consensus pattern (30 bp):
ATGGAAAATCAAAGATATGGGTATCAAATA
Found at i:6813104 original size:60 final size:60
Alignment explanation
Indices: 6813033--6813153 Score: 199
Period size: 60 Copynumber: 2.0 Consensus size: 60
6813023 CATATTTATG
6813033 GAAAATCAAAGATATGGGTATCAAATAATGGAAAGTCAAAGATATGGGTATC-AAATATT
1 GAAAATCAAAGATATGGGTATCAAATAATGGAAAGTCAAAGATATGGGTATCGAAATATT
* * *
6813092 GAAAAGTCAAAGATATGGGTATCAAATATTGGAAAGTCAAATATATGGGTATCGAGATATT
1 GAAAA-TCAAAGATATGGGTATCAAATAATGGAAAGTCAAAGATATGGGTATCGAAATATT
6813153 G
1 G
6813154 GCATAATAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 5 0.09
60 45 0.79
61 7 0.12
ACGTcount: A:0.45, C:0.07, G:0.22, T:0.26
Consensus pattern (60 bp):
GAAAATCAAAGATATGGGTATCAAATAATGGAAAGTCAAAGATATGGGTATCGAAATATT
Found at i:6819166 original size:24 final size:23
Alignment explanation
Indices: 6819139--6819189 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
6819129 GTATTAGAAA
6819139 GCTCAAGAGAGCTTATATCGGGAT
1 GCTCAAGAGAGC-TATATCGGGAT
* *
6819163 GCTC-AGCGATCTATATCGGGAT
1 GCTCAAGAGAGCTATATCGGGAT
6819185 GCTCA
1 GCTCA
6819190 TACGAGCTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 15 0.62
23 5 0.21
24 4 0.17
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (23 bp):
GCTCAAGAGAGCTATATCGGGAT
Found at i:6820088 original size:20 final size:21
Alignment explanation
Indices: 6820049--6820088 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6820039 GATGATATTT
*
6820049 TCTTTATTTTATTATTTTTCA
1 TCTTTATTTTATTATCTTTCA
6820070 TCTTTATTTT-TTATCTTTC
1 TCTTTATTTTATTATCTTTC
6820089 CAATTTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.72
Consensus pattern (21 bp):
TCTTTATTTTATTATCTTTCA
Found at i:6821447 original size:53 final size:53
Alignment explanation
Indices: 6821342--6821451 Score: 125
Period size: 53 Copynumber: 2.1 Consensus size: 53
6821332 TTTTTAAAAA
* * **
6821342 AAAGAGAAAGTTTAGATTTTAAAAATTAAAAATTTGTTTTTTTTTAGTTATTTT
1 AAAGAGAAAGTTTAAATTTTAAAAA-TAAAAATTTGTTTTTTTTCAACTATTTT
**
6821396 AAAG-GAAAGTTTAAATTTTTAAAAA-AAAGTTTTGATTTTTTTTCAACTATTTT
1 AAAGAGAAAGTTTAAA-TTTTAAAAATAAAAATTTG-TTTTTTTTCAACTATTTT
6821449 AAA
1 AAA
6821452 ATAAAAGCTT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
52 7 0.15
53 28 0.58
54 13 0.27
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.47
Consensus pattern (53 bp):
AAAGAGAAAGTTTAAATTTTAAAAATAAAAATTTGTTTTTTTTCAACTATTTT
Found at i:6821632 original size:149 final size:148
Alignment explanation
Indices: 6821341--6821772 Score: 542
Period size: 149 Copynumber: 2.9 Consensus size: 148
6821331 TTTTTTAAAA
* * *
6821341 AAAAGAGAAAGTTTAGATTTTAAAAATTAAAAATTTGTTTTTTTTTAGTTATTTTAAAGGAAAGT
1 AAAAGAGAAAGTTTAGATTTTAAAAAATAAAAATTT-TGTTTTTTTAGTCATTTTAAAGGAAAGT
* *
6821406 TTAAATTTTTAAAAAAAAGTTTTGATTTTTTTTCAACTATTTTAAAATAAAAGCTTTGATCTTTA
65 TTAAATTTTTAAAAAAAAGTTAT-ATTTTTTTTCAACTATTTCAAAATAAAAGCTTTGATCTTTA
6821471 AGAAAAATAGTGTTTTTTTTT
129 AGAAAAATAGTG-TTTTTTTT
* *
6821492 AAATGAGAAAGTTTAGATTTTAAAAAATAAAATATGTTTGTTTTTTTAGTCATTTTTAAGGAAAG
1 AAAAGAGAAAGTTTAGATTTTAAAAAATAAAA-AT-TTTGTTTTTTTAGTCATTTTAAAGGAAAG
*
6821557 TTTAAA-TTTTAAAAAAAA-TTA-ATTTTTTTTTCAACTATTTCAAAATAAAAGTTTTGATCTTT
64 TTTAAATTTTTAAAAAAAAGTTATA-TTTTTTTTCAACTATTTCAAAATAAAAGCTTTGATCTTT
6821619 AAGAAAAATAGTGTTTTTTTT
128 AAGAAAAATAGTGTTTTTTTT
* *
6821640 AAAAGAGAAAGTTTAGATTTT-TAAAATAAAAA-TTTG-TTTTTTAGTCATTTTAAAGGAAAATT
1 AAAAGAGAAAGTTTAGATTTTAAAAAATAAAAATTTTGTTTTTTTAGTCATTTTAAAGG-AAAGT
* * * * * * *
6821702 TTGAATTTTTTTTAAAACAAATTTTTGA-TCTTTTTCAACTATTTCTAAATAAAA--TTTGATTT
65 TT-AA--ATTTTTAAAAAAAAGTTAT-ATTTTTTTTCAACTATTTCAAAATAAAAGCTTTGATCT
6821764 TTAA-AAAAA
126 TTAAGAAAAA
6821773 GGTAATAATT
Statistics
Matches: 252, Mismatches: 18, Indels: 27
0.85 0.06 0.09
Matches are distributed among these distances:
143 19 0.08
144 10 0.04
145 2 0.01
146 6 0.02
147 20 0.08
148 40 0.16
149 76 0.30
150 2 0.01
151 43 0.17
152 32 0.13
153 2 0.01
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (148 bp):
AAAAGAGAAAGTTTAGATTTTAAAAAATAAAAATTTTGTTTTTTTAGTCATTTTAAAGGAAAGTT
TAAATTTTTAAAAAAAAGTTATATTTTTTTTCAACTATTTCAAAATAAAAGCTTTGATCTTTAAG
AAAAATAGTGTTTTTTTT
Found at i:6821819 original size:148 final size:143
Alignment explanation
Indices: 6821342--6821820 Score: 499
Period size: 149 Copynumber: 3.2 Consensus size: 143
6821332 TTTTTAAAAA
** *
6821342 AAAGAGAAAGTTTAGATTTTAAAAATTAAAAATTTGTTTTTTTTTAGTTATTTTAAAGGAAAGTT
1 AAAGAGAAAGTTTAGATTTTAAAAAAAAAAAATTTG--TTTTTTTAGTCATTTTAAAGGAAAGTT
*
6821407 TAAATTTTTAAAAAAAAGTTTTGATTTTTTTTCAACTATTT-TAAAATAAAAGCTTTGATCTTTA
64 T-AATTTTTAAAAAAAATTTTTGA--TTTTTTCAACTATTTCT-AAATAAAAG-TTTGATCTTTA
*
6821471 AGAAAAATAGTGTTTTTTTTT
124 AGAAAAATAGT-ATTTTTTTT
* *
6821492 AAATGAGAAAGTTTAGATTTTAAAAAATAAAATATGTTTGTTTTTTTAGTCATTTTTAAGGAAAG
1 AAA-GAGAAAGTTTAGATTTTAAAAAA-AAAA-A-ATTTGTTTTTTTAGTCATTTTAAAGGAAAG
* *
6821557 TTTAAATTTTAAAAAAAATTAATTT--TTTTTTCAACTATTTCAAAATAAAAGTTTTGATCTTTA
62 TTTAATTTTTAAAAAAAATT--TTTGATTTTTTCAACTATTTCTAAATAAAAG-TTTGATCTTTA
*
6821620 AGAAAAATAGTGTTTTTTTT
124 AGAAAAATAGTATTTTTTTT
* * *
6821640 AAAAGAGAAAGTTTAGATTTT-TAAAATAAAAATTTG-TTTTTTAGTCATTTTAAAGGAAAATTT
1 -AAAGAGAAAGTTTAGATTTTAAAAAAAAAAAATTTGTTTTTTTAGTCATTTTAAAGG-AAAGTT
* *
6821703 TGAATTTTTTTTAAAACAAATTTTTGATCTTTTTCAACTATTTCTAAATAAAA-TTTGATTTTTA
64 T-AA---TTTTTAAAAAAAATTTTTGAT-TTTTTCAACTATTTCTAAATAAAAGTTTGATCTTTA
* *
6821767 A-AAAAAGGTAATAATTTTTTT
124 AGAAAAA--TAGTATTTTTTTT
*
6821788 AAAGA-AAAATTT-GATTTTGCAAAAAAAAAAAAT
1 AAAGAGAAAGTTTAGATTTT--AAAAAAAAAAAAT
6821821 CCAACCATCA
Statistics
Matches: 283, Mismatches: 25, Indels: 44
0.80 0.07 0.12
Matches are distributed among these distances:
143 19 0.07
144 10 0.04
145 9 0.03
146 17 0.06
147 20 0.07
148 59 0.21
149 72 0.25
150 3 0.01
151 37 0.13
152 29 0.10
153 4 0.01
154 4 0.01
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (143 bp):
AAAGAGAAAGTTTAGATTTTAAAAAAAAAAAATTTGTTTTTTTAGTCATTTTAAAGGAAAGTTTA
ATTTTTAAAAAAAATTTTTGATTTTTTCAACTATTTCTAAATAAAAGTTTGATCTTTAAGAAAAA
TAGTATTTTTTTT
Found at i:6822357 original size:10 final size:11
Alignment explanation
Indices: 6822341--6822371 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
6822331 TTGTATAATT
6822341 TTTATTTATTC
1 TTTATTTATTC
6822352 -TTATTTATTC
1 TTTATTTATTC
6822362 TTTATTTATT
1 TTTATTTATT
6822372 TTCATGTCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTTATTC
Found at i:6823792 original size:11 final size:11
Alignment explanation
Indices: 6823772--6823811 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
6823762 AAAAATTTAG
*
6823772 AAATATTATAA
1 AAATAATATAA
6823783 AAATAATAT--
1 AAATAATATAA
6823792 AAAT-ATATAA
1 AAATAATATAA
6823802 AAATAATATA
1 AAATAATATA
6823812 TATTATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
8 4 0.16
9 4 0.16
10 4 0.16
11 13 0.52
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATATAA
Found at i:6823823 original size:17 final size:18
Alignment explanation
Indices: 6823774--6823821 Score: 78
Period size: 19 Copynumber: 2.6 Consensus size: 18
6823764 AAATTTAGAA
6823774 ATATTATAAAAATAATAT
1 ATATTATAAAAATAATAT
*
6823792 AAATATATAAAAATAATAT
1 ATAT-TATAAAAATAATAT
6823811 ATATTATAAAA
1 ATATTATAAAA
6823822 TATTATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 10 0.37
19 17 0.63
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
ATATTATAAAAATAATAT
Found at i:6823824 original size:10 final size:10
Alignment explanation
Indices: 6823740--6823827 Score: 55
Period size: 10 Copynumber: 9.1 Consensus size: 10
6823730 TATTTAATTC
6823740 TAAAA-ATTA
1 TAAAATATTA
6823749 TTAAAAT-TGTA
1 -TAAAATAT-TA
*
6823760 TAAAAAATT-
1 TAAAATATTA
6823769 TAGAAATATTA
1 TA-AAATATTA
*
6823780 TAAAA-ATAA
1 TAAAATATTA
6823789 TATAAATA-TA
1 TA-AAATATTA
*
6823799 TAAAA-ATAA
1 TAAAATATTA
*
6823808 T-ATATATTA
1 TAAAATATTA
6823817 TAAAATATTA
1 TAAAATATTA
6823827 T
1 T
6823828 TAATTTATTA
Statistics
Matches: 60, Mismatches: 8, Indels: 20
0.68 0.09 0.23
Matches are distributed among these distances:
8 3 0.05
9 16 0.27
10 35 0.58
11 6 0.10
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (10 bp):
TAAAATATTA
Found at i:6825029 original size:38 final size:38
Alignment explanation
Indices: 6824973--6825049 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
6824963 GGAATCTTAG
*
6824973 AGCTTCTGAAGTATCATGCCCGTGTATTATATATTGAT
1 AGCTTCTGAAGTACCATGCCCGTGTATTATATATTGAT
*
6825011 AGCTTCTGAAGTACCATGCCCGTGTATTATGTATTGAT
1 AGCTTCTGAAGTACCATGCCCGTGTATTATATATTGAT
6825049 A
1 A
6825050 TAGATGTACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (38 bp):
AGCTTCTGAAGTACCATGCCCGTGTATTATATATTGAT
Found at i:6825072 original size:36 final size:38
Alignment explanation
Indices: 6824985--6825074 Score: 107
Period size: 38 Copynumber: 2.4 Consensus size: 38
6824975 CTTCTGAAGT
*
6824985 ATCATGCCCGTGTATTATATATTGATAGCTTCTGAAGTAC
1 ATCATGCCCGTGTATTATATATTGATA-C-TCAGAAGTAC
* *
6825025 --CATGCCCGTGTATTATGTATTGATA-T-AGATGTAC
1 ATCATGCCCGTGTATTATATATTGATACTCAGAAGTAC
6825059 ATCATGCCCGTGTATT
1 ATCATGCCCGTGTATT
6825075 CTAGTTATAG
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
34 6 0.13
35 1 0.02
36 14 0.31
38 24 0.53
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.38
Consensus pattern (38 bp):
ATCATGCCCGTGTATTATATATTGATACTCAGAAGTAC
Found at i:6828434 original size:20 final size:20
Alignment explanation
Indices: 6828386--6828434 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
6828376 TAATTTTTAA
*
6828386 AAAAAATTAAAATTTATTAT
1 AAAAAATTAAAATTTAGTAT
**
6828406 AAATTATTAAAATGTT-GTAT
1 AAAAAATTAAAAT-TTAGTAT
6828426 AAAAAATTA
1 AAAAAATTA
6828435 GACAAAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (20 bp):
AAAAAATTAAAATTTAGTAT
Found at i:6828501 original size:36 final size:37
Alignment explanation
Indices: 6828461--6828530 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 37
6828451 ATTATATAAA
*
6828461 TTTAATAAATTCTATAT-CTTTTATTATTTTTATCAC
1 TTTAATAAATTCTATATAATTTTATTATTTTTATCAC
* * * *
6828497 TTTAATCATTTTTATATAATTTTTTTATTTTTAT
1 TTTAATAAATTCTATATAATTTTATTATTTTTAT
6828531 AATTTTTTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
36 14 0.50
37 14 0.50
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (37 bp):
TTTAATAAATTCTATATAATTTTATTATTTTTATCAC
Found at i:6828545 original size:19 final size:18
Alignment explanation
Indices: 6828506--6828539 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6828496 CTTTAATCAT
*
6828506 TTTTATATAATTTTTTTA
1 TTTTATATAATTTTTTAA
6828524 TTTT-TATAATTTTTTA
1 TTTTATATAATTTTTTA
6828540 CAATTTCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTATATAATTTTTTAA
Found at i:6833790 original size:24 final size:24
Alignment explanation
Indices: 6833740--6833793 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
6833730 ATCTTCATGT
* *
6833740 TCATCATCTTCATCATCAGAAATA
1 TCATCATCTTCATCACCAGAAACA
*
6833764 TCATCATCTTCAATCACCA-AAGCA
1 TCATCATCTTC-ATCACCAGAAACA
6833788 TCATCA
1 TCATCA
6833794 ATCTCCACAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.37, C:0.30, G:0.04, T:0.30
Consensus pattern (24 bp):
TCATCATCTTCATCACCAGAAACA
Found at i:6839439 original size:29 final size:29
Alignment explanation
Indices: 6839406--6839465 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
6839396 AGGAGAAAGA
6839406 GTACACAATCTCCTATTACAAGTTGCCTC
1 GTACACAATCTCCTATTACAAGTTGCCTC
6839435 GTACACAATCTCCTATTACAAGTTGCCTC
1 GTACACAATCTCCTATTACAAGTTGCCTC
6839464 GT
1 GT
6839466 TAAAAACTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.32
Consensus pattern (29 bp):
GTACACAATCTCCTATTACAAGTTGCCTC
Found at i:6846545 original size:20 final size:20
Alignment explanation
Indices: 6846522--6846562 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
6846512 TTTTCAGAAT
6846522 TTAACCAAATATTTCAAAAC
1 TTAACCAAATATTTCAAAAC
6846542 TTAACCAAATATTTCAAAAC
1 TTAACCAAATATTTCAAAAC
6846562 T
1 T
6846563 GTCAAATCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.32
Consensus pattern (20 bp):
TTAACCAAATATTTCAAAAC
Found at i:6847593 original size:43 final size:42
Alignment explanation
Indices: 6847545--6847698 Score: 123
Period size: 42 Copynumber: 3.6 Consensus size: 42
6847535 CCCTAGACGT
* * *
6847545 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACACGTAATTCAA-ATCGATGCCTATGTCCCAGACAC
* * * *
6847588 GGTCTTACACG-AAATCAAATACAATG-CTGATGTCCTAGACAT
1 GGTCTTACACGTAATTCAAAT-CGATGCCT-ATGTCCCAGACAC
* ** *
6847630 GGTTTTACACGTAAATCTCAAATCGAAACCTGTGTCCCAGACAC
1 GGTCTTACACGT-AAT-TCAAATCGATGCCTATGTCCCAGACAC
* *
6847674 GGTCTTACACGATATTTCAGATCGA
1 GGTCTTACACG-TAATTCAAATCGA
6847699 AGTCAACGTT
Statistics
Matches: 87, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
41 4 0.05
42 30 0.34
43 18 0.21
44 26 0.30
45 9 0.10
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (42 bp):
GGTCTTACACGTAATTCAAATCGATGCCTATGTCCCAGACAC
Found at i:6847672 original size:44 final size:42
Alignment explanation
Indices: 6847576--6847685 Score: 116
Period size: 44 Copynumber: 2.6 Consensus size: 42
6847566 TCGATGCCTC
* **
6847576 TGTCCCAGACAGGGTCTTACACGAAATCAAATACAATGCTGA
1 TGTCCCAGACACGGTCTTACACGAAATCAAATACAAACCTGA
* * *
6847618 TGTCCTAGACATGGTTTTACACGTAAATCTCAAAT-CGAAACCTG-
1 TGTCCCAGACACGGTCTTACACG-AAA--TCAAATAC-AAACCTGA
6847662 TGTCCCAGACACGGTCTTACACGA
1 TGTCCCAGACACGGTCTTACACGA
6847686 TATTTCAGAT
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
42 20 0.36
43 4 0.07
44 21 0.38
45 11 0.20
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
TGTCCCAGACACGGTCTTACACGAAATCAAATACAAACCTGA
Found at i:6847678 original size:86 final size:85
Alignment explanation
Indices: 6847522--6847685 Score: 213
Period size: 86 Copynumber: 1.9 Consensus size: 85
6847512 CATAAACAAG
* * **
6847522 TACAATGCCGACGCCCTAGACGTGGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACA
1 TACAATGCCGACGCCCTAGACATGGTCTTACACGTAATTCAATATCGAAACCTCTGTCCCAGACA
*
6847587 GGGTCTTACACGAAATCAAA
66 CGGTCTTACACGAAATCAAA
* * * * *
6847607 TACAATGCTGATGTCCTAGACATGGTTTTACACGTAAATCTCAA-ATCGAAACCTGTGTCCCAGA
1 TACAATGCCGACGCCCTAGACATGGTCTTACACGT-AAT-TCAATATCGAAACCTCTGTCCCAGA
6847671 CACGGTCTTACACGA
64 CACGGTCTTACACGA
6847686 TATTTCAGAT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
85 29 0.43
86 34 0.51
87 4 0.06
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (85 bp):
TACAATGCCGACGCCCTAGACATGGTCTTACACGTAATTCAATATCGAAACCTCTGTCCCAGACA
CGGTCTTACACGAAATCAAA
Found at i:6852095 original size:29 final size:29
Alignment explanation
Indices: 6852034--6852095 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
6852024 CTAGCCCATG
*
6852034 TGCCCTAAAAATGGCCACACAAGCCCGTG
1 TGCCCTAAAAATGGCCACACAAGCCCGTA
* * * *
6852063 TGCCTTAAAAATGGCCATACACGCCTGTA
1 TGCCCTAAAAATGGCCACACAAGCCCGTA
6852092 TGCC
1 TGCC
6852096 AGGCCGTGTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.19
Consensus pattern (29 bp):
TGCCCTAAAAATGGCCACACAAGCCCGTA
Found at i:6853201 original size:40 final size:40
Alignment explanation
Indices: 6853107--6853207 Score: 123
Period size: 41 Copynumber: 2.5 Consensus size: 40
6853097 TATAATTTCG
* * * *
6853107 CACACTAAGTGCCTTACATAGCCGAAGCTATCTCGGTCTCA
1 CACACTAAGTGCCATATATAACCGAAGCTATCTCGATCT-A
*
6853148 CACACTAAGTGCCATATATAACCGAAGCTATCTTGAATCT-
1 CACACTAAGTGCCATATATAACCGAAGCTATCTCG-ATCTA
*
6853188 CACACTAAATGCCATATATA
1 CACACTAAGTGCCATATATA
6853208 TATAAATATC
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
40 19 0.36
41 31 0.58
42 3 0.06
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.26
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAACCGAAGCTATCTCGATCTA
Found at i:6861819 original size:21 final size:21
Alignment explanation
Indices: 6861793--6861835 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
6861783 TTCAAGGTGG
*
6861793 AGATTATTGGCAATTATCCAT
1 AGATTATTGGCAATCATCCAT
6861814 AGATTATTGGCAATCATCCAT
1 AGATTATTGGCAATCATCCAT
6861835 A
1 A
6861836 CTTTGGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (21 bp):
AGATTATTGGCAATCATCCAT
Found at i:6870032 original size:78 final size:77
Alignment explanation
Indices: 6869898--6870270 Score: 489
Period size: 78 Copynumber: 4.8 Consensus size: 77
6869888 TGAAGAAACA
** * * * * *
6869898 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATAACAGATCTGACCTTCAGTAAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGACCTTCATTGAA
*
6869963 GTAGATCCAAGAT
65 GCAGATCCAAGAT
6869976 GATTTGGCATCTCTGTATTAGACGGGGAGCTA-ATCGAAGACATAACATG-TTGGACCTTCATTG
1 GATTTGGCATCTCTGTATTAGACGGGGAGC-AGATCGAAGACATAACA-GATT-GACCTTCATTG
*
6870039 AAGCAGATCTAAGAT
63 AAGCAGATCCAAGAT
* *** *
6870054 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACGTGGTAGATCTGACCTTTATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGACCTTCATTGAA
6870119 GCAGATCCAAGAT
65 GCAGATCCAAGAT
* * *
6870132 GATTTGGCATCTCTGTATTAGACGGGGAACAGATCGAAGACACAACAGATCTGACCTTTATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGACCTTCATTGAA
*
6870197 GTAGATCCAAGAT
65 GCAGATCCAAGAT
* *
6870210 GATTTGACATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGATTGGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATT-GACCTTCAT
6870271 GTGTTTACAT
Statistics
Matches: 261, Mismatches: 27, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
77 4 0.02
78 254 0.97
79 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (77 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATTGACCTTCATTGAAG
CAGATCCAAGAT
Found at i:6870376 original size:45 final size:45
Alignment explanation
Indices: 6870284--6870433 Score: 192
Period size: 45 Copynumber: 3.3 Consensus size: 45
6870274 TTTACATCGA
* * * **
6870284 AGCAGATCCAAGATGACATATTTGGCATCTCTGTATTAGACAAGG
1 AGCAAATCGAAGATAACATATTTGGCATCTCTGTATTAGACGGGG
* * *
6870329 AGCAAATCGGAGATAACAGATTTGGCATCTCTGTATTACACGGGG
1 AGCAAATCGAAGATAACATATTTGGCATCTCTGTATTAGACGGGG
* *
6870374 AGCAGATCGAAGATAACATATTTGGCGTCTCTGTATTAGACGGGG
1 AGCAAATCGAAGATAACATATTTGGCATCTCTGTATTAGACGGGG
* *
6870419 AGCAGATCAAAGATA
1 AGCAAATCGAAGATA
6870434 GTAGATATCG
Statistics
Matches: 91, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 91 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (45 bp):
AGCAAATCGAAGATAACATATTTGGCATCTCTGTATTAGACGGGG
Found at i:6870433 original size:90 final size:90
Alignment explanation
Indices: 6870211--6870433 Score: 238
Period size: 90 Copynumber: 2.5 Consensus size: 90
6870201 ATCCAAGATG
* * * *
6870211 ATTTGACATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGATTGGACCTTCATGTGTT
1 ATTTGGCATCTCTGTATTAGACAGGGAGCAGATC-AA-AGATAACAGATTGGACCTTCATGTGAT
*
6870276 TACATCGAAGCAGATCCAAGATGACAT
64 TACATCGAAGCAGATCCAAGATAACAT
* * ** *
6870303 ATTTGGCATCTCTGTATTAGACAAGGAGCAAATCGGAGATAACAGATTTGG-CATCTC-TGT-AT
1 ATTTGGCATCTCTGTATTAGACAGGGAGCAGATCAAAGATAACAGA-TTGGACCT-TCATGTGAT
* *
6870365 TACA-CGGGGAGCAGATCGAAGATAACAT
64 TACATC--GAAGCAGATCCAAGATAACAT
* *
6870393 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATA
1 ATTTGGCATCTCTGTATTAGACAGGGAGCAGATCAAAGATA
6870434 GTAGATATCG
Statistics
Matches: 109, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
88 1 0.01
89 5 0.05
90 67 0.61
91 6 0.06
92 30 0.28
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (90 bp):
ATTTGGCATCTCTGTATTAGACAGGGAGCAGATCAAAGATAACAGATTGGACCTTCATGTGATTA
CATCGAAGCAGATCCAAGATAACAT
Found at i:6870860 original size:35 final size:37
Alignment explanation
Indices: 6870789--6870886 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
6870779 ATAATCTTCA
6870789 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
6870827 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
6870862 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
6870887 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:6870886 original size:17 final size:19
Alignment explanation
Indices: 6870789--6870879 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
6870779 ATAATCTTCA
6870789 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
6870808 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
6870827 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
6870844 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
6870862 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
6870880 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:6870905 original size:22 final size:22
Alignment explanation
Indices: 6870789--6870902 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
6870779 ATAATCTTCA
6870789 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
6870808 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
6870827 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
6870844 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
6870862 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
6870884 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
6870903 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:6871190 original size:18 final size:19
Alignment explanation
Indices: 6871167--6871203 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
6871157 TGTTTCCCTG
*
6871167 ATTTTTTTATAT-ATTTTA
1 ATTTTTTTAAATAATTTTA
6871185 ATTTTTTTAAATAATTTTA
1 ATTTTTTTAAATAATTTTA
6871204 GTATCATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTTTTTAAATAATTTTA
Found at i:6875345 original size:29 final size:29
Alignment explanation
Indices: 6875303--6875359 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
6875293 CCATTTAACT
*
6875303 CTTTTTTCTTTTTGGTTACATGAACCAAA
1 CTTTTTTCCTTTTGGTTACATGAACCAAA
6875332 CTTTTTTCCTTTTGGTTACATGAACCAA
1 CTTTTTTCCTTTTGGTTACATGAACCAA
6875360 TTAATTAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.23, C:0.19, G:0.11, T:0.47
Consensus pattern (29 bp):
CTTTTTTCCTTTTGGTTACATGAACCAAA
Found at i:6876653 original size:42 final size:42
Alignment explanation
Indices: 6876590--6876675 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 42
6876580 GTGTCCTCAC
* * * * *
6876590 CCGTGTAACTCTCTGAGTTGCC-CTACACGCCCGTATGGCAGG
1 CCGTGCAACTCTCTCAATTGCCAC-ACACGCACGTATGCCAGG
*
6876632 CCGTGCAACTCTCTCAATTGCCACACACGCACGTGTGCCAGG
1 CCGTGCAACTCTCTCAATTGCCACACACGCACGTATGCCAGG
6876674 CC
1 CC
6876676 ATGTGATAGG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
42 36 0.97
43 1 0.03
ACGTcount: A:0.19, C:0.37, G:0.23, T:0.21
Consensus pattern (42 bp):
CCGTGCAACTCTCTCAATTGCCACACACGCACGTATGCCAGG
Found at i:6883388 original size:21 final size:21
Alignment explanation
Indices: 6883363--6883414 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
6883353 CTCTCTTAAC
6883363 AAAAATTAAAAAATAATTTTA
1 AAAAATTAAAAAATAATTTTA
* *
6883384 AAAAATT-CAAAATAATTTTT
1 AAAAATTAAAAAATAATTTTA
*
6883404 AAAATTTAAAA
1 AAAAATTAAAA
6883415 TATTTATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAATTAAAAAATAATTTTA
Found at i:6883395 original size:20 final size:20
Alignment explanation
Indices: 6883372--6883426 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
6883362 CAAAAATTAA
6883372 AAAATAATTTTAAAAAATTC
1 AAAATAATTTTAAAAAATTC
* *
6883392 AAAATAATTTT-TAAAATTT
1 AAAATAATTTTAAAAAATTC
6883411 AAAAT-ATTTATAAAAA
1 AAAATAATTT-TAAAAA
6883427 TCCCAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 4 0.13
19 12 0.40
20 14 0.47
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAATAATTTTAAAAAATTC
Found at i:6883424 original size:18 final size:19
Alignment explanation
Indices: 6883372--6883425 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
6883362 CAAAAATTAA
*
6883372 AAAATAATTTTAAAAAATTC
1 AAAATAA-TTTATAAAATTC
* *
6883392 AAAATAATTTTTAAAATTT
1 AAAATAATTTATAAAATTC
6883411 AAAAT-ATTTATAAAA
1 AAAATAATTTATAAAA
6883426 ATCCCAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 9 0.30
19 14 0.47
20 7 0.23
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATAATTTATAAAATTC
Found at i:6883481 original size:10 final size:9
Alignment explanation
Indices: 6883444--6883521 Score: 66
Period size: 9 Copynumber: 8.0 Consensus size: 9
6883434 ATTTATATTT
6883444 TTTAAAAAA
1 TTTAAAAAA
*
6883453 ATTATAAAAA
1 TTTA-AAAAA
6883463 TTTCAAAAAAA
1 TTT--AAAAAA
6883474 TTCTAAAAAA
1 TT-TAAAAAA
6883484 TATATAAAAAA
1 T-T-TAAAAAA
*
6883495 GTTAAAAAA
1 TTTAAAAAA
*
6883504 GTTAAAAAA
1 TTTAAAAAA
*
6883513 GTTAAAAAA
1 TTTAAAAAA
6883522 GTTCTAGAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
9 28 0.47
10 15 0.25
11 15 0.25
12 2 0.03
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.27
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:6883500 original size:20 final size:20
Alignment explanation
Indices: 6883446--6883521 Score: 68
Period size: 21 Copynumber: 3.8 Consensus size: 20
6883436 TTATATTTTT
* *
6883446 TAAAAAAATTATAAAAATTTCA
1 TAAAAAAGTTA-AAAAATAT-A
*
6883468 -AAAAAATTCTAAAAAATATA
1 TAAAAAAGT-TAAAAAATATA
*
6883488 TAAAAAAGTTAAAAAA-GT-
1 TAAAAAAGTTAAAAAATATA
6883506 TAAAAAAGTTAAAAAA
1 TAAAAAAGTTAAAAAA
6883522 GTTCTAGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
18 16 0.33
19 1 0.02
20 8 0.17
21 21 0.44
22 2 0.04
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.25
Consensus pattern (20 bp):
TAAAAAAGTTAAAAAATATA
Found at i:6883510 original size:8 final size:9
Alignment explanation
Indices: 6883488--6883524 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
6883478 AAAAAATATA
6883488 TAAAAAAGT
1 TAAAAAAGT
6883497 TAAAAAAGT
1 TAAAAAAGT
6883506 TAAAAAAGT
1 TAAAAAAGT
6883515 TAAAAAAGT
1 TAAAAAAGT
6883524 T
1 T
6883525 CTAGAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.24
Consensus pattern (9 bp):
TAAAAAAGT
Found at i:6884283 original size:26 final size:26
Alignment explanation
Indices: 6884247--6884356 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
6884237 TGATACAAAT
6884247 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
6884273 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
6884299 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
6884325 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
6884351 TGATAA
1 TGATAA
6884357 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:6891585 original size:5 final size:5
Alignment explanation
Indices: 6891577--6891601 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6891567 AATACAGTGG
6891577 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
6891602 ATCCATATAG
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:6900199 original size:6 final size:6
Alignment explanation
Indices: 6900191--6900234 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
6900181 TTTAATTTTT
* * * *
6900191 TTAGGT TTAGGC TTAGGG TTAGGG TTAGAG TTAGGA TTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TT
6900235 TTATTAGTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.20, C:0.02, G:0.39, T:0.39
Consensus pattern (6 bp):
TTAGGG
Found at i:6907427 original size:6 final size:6
Alignment explanation
Indices: 6907416--6907440 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6907406 TACAAATAGA
6907416 TCATTT TCATTT TCATTT TCATTT T
1 TCATTT TCATTT TCATTT TCATTT T
6907441 TGGAAACCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TCATTT
Found at i:6912570 original size:10 final size:10
Alignment explanation
Indices: 6912555--6912579 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6912545 ATCGGCAAAA
6912555 TAAAATATTT
1 TAAAATATTT
6912565 TAAAATATTT
1 TAAAATATTT
6912575 TAAAA
1 TAAAA
6912580 ATTAAAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TAAAATATTT
Found at i:6918489 original size:56 final size:54
Alignment explanation
Indices: 6918415--6918519 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
6918405 TTTTTGAGAT
** * * *
6918415 TAATGAGGCTTTTTAAAAATGTTAAGAGTGTTTAATTAATTTTTTTTTAAAAGGTA
1 TAATGAGAATTTTCAAAAAT-TTAAG-GGGTTTAATTAAATTTTTTTTAAAAGGTA
*
6918471 TAATGAGAATTTTCAAAAATTTGAGGGGTTTAATTAAATTTTTTTTAAA
1 TAATGAGAATTTTCAAAAATTTAAGGGGTTTAATTAAATTTTTTTTAAA
6918520 GCTTCAAGGG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 22 0.51
55 4 0.09
56 17 0.40
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (54 bp):
TAATGAGAATTTTCAAAAATTTAAGGGGTTTAATTAAATTTTTTTTAAAAGGTA
Found at i:6918560 original size:10 final size:11
Alignment explanation
Indices: 6918537--6918565 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
6918527 GGGAGAAATG
6918537 AAATTTTTCAA
1 AAATTTTTCAA
6918548 AAATTTTTCAA
1 AAATTTTTCAA
6918559 AAATTTT
1 AAATTTT
6918566 GGGTACCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (11 bp):
AAATTTTTCAA
Found at i:6918909 original size:15 final size:15
Alignment explanation
Indices: 6918889--6918922 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6918879 CTATTGTTCA
*
6918889 AGAATAGCTATGTCC
1 AGAATAACTATGTCC
*
6918904 AGAATAACTATGTTC
1 AGAATAACTATGTCC
6918919 AGAA
1 AGAA
6918923 CAAGACTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (15 bp):
AGAATAACTATGTCC
Found at i:6919168 original size:16 final size:18
Alignment explanation
Indices: 6919147--6919180 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
6919137 AGTATCATCA
6919147 CGGAACAA-CTCT-TATT
1 CGGAACAATCTCTGTATT
6919163 CGGAACAATCTCTGTATT
1 CGGAACAATCTCTGTATT
6919181 GAAAATAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 4 0.25
18 4 0.25
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (18 bp):
CGGAACAATCTCTGTATT
Found at i:6929096 original size:46 final size:45
Alignment explanation
Indices: 6929026--6929270 Score: 256
Period size: 46 Copynumber: 5.4 Consensus size: 45
6929016 TTCTGAAATG
* *
6929026 AAATGTGTAAAACCATGGTTGAAAGACACCATGGCAACATGATAT
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
* *
6929071 AAATTGTGTAAGACTATGGTTGAAAGATACCATGGCAACAGGATAT
1 AAA-TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
**
6929117 AAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATGG
1 -AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
* ** ** ** * *
6929163 GAATGAATAAGACCATGGTTGAAAGATACCATGTTAATGTAACAT
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
*** * * *
6929208 GAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGACAGA
1 -AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA-T
*
6929255 AAATGAGTAAGACCAT
1 AAATGTGTAAGACCAT
6929271 AGTCGGAAGA
Statistics
Matches: 167, Mismatches: 29, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
45 37 0.22
46 127 0.76
47 3 0.02
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (45 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
Found at i:6929221 original size:91 final size:92
Alignment explanation
Indices: 6929037--6929270 Score: 265
Period size: 91 Copynumber: 2.6 Consensus size: 92
6929027 AATGTGTAAA
* * ** *
6929037 ACCATGGTTGAAAGACACCATGGCAACATGATATAAATTGTGTAAGACTATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACATGATAGAAATTGAATAAGACCATGGTTGAAAGATACC
* * ***
6929102 ATGGCAACAGGATATAAAATGTGTAAG
66 ATGGCAACAGAACATAAAATGAACAAG
* *
6929129 ACCATGGTTGAAAGATACCATGGCAACATGATGGGAA-TGAATAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACATGATAGAAATTGAATAAGACCATGGTTGAAAGATACC
** * *
6929193 ATGTTAA-TGTAACATGAAATGAACAAG
66 ATGGCAACAG-AACATAAAATGAACAAG
* * * *
6929220 ACCATGGTTGAAAGATACCATGGCAACCTGACAGAAAATGAGTAAGACCAT
1 ACCATGGTTGAAAGATACCATGGCAACATGATAGAAATTGAATAAGACCAT
6929271 AGTCGGAAGA
Statistics
Matches: 119, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
90 1 0.01
91 73 0.61
92 45 0.38
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.22
Consensus pattern (92 bp):
ACCATGGTTGAAAGATACCATGGCAACATGATAGAAATTGAATAAGACCATGGTTGAAAGATACC
ATGGCAACAGAACATAAAATGAACAAG
Found at i:6931784 original size:21 final size:21
Alignment explanation
Indices: 6931758--6931810 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
6931748 CGCTGTTTCT
* *
6931758 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACA
*
6931779 AATCTCACTGCTACAGTAACA
1 AATCTCACCGCTACAGTAACA
6931800 AATCTCACCGC
1 AATCTCACCGC
6931811 CACCGCTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.36, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACA
Found at i:6932319 original size:2 final size:2
Alignment explanation
Indices: 6932312--6932339 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6932302 TAGGGTCACA
6932312 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
6932340 CTGTTGTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:6936745 original size:15 final size:17
Alignment explanation
Indices: 6936720--6936754 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
6936710 ACTTGAAAGG
6936720 GAAATATAATAG-TGAA
1 GAAATATAATAGATGAA
6936736 GAAA-ATAATAGATGAA
1 GAAATATAATAGATGAA
6936752 GAA
1 GAA
6936755 CAAGTGGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (17 bp):
GAAATATAATAGATGAA
Found at i:6939349 original size:24 final size:24
Alignment explanation
Indices: 6939317--6939364 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
6939307 ATGTGGCAAA
6939317 AACGCTCCCCTAGGGGCGCATTTT
1 AACGCTCCCCTAGGGGCGCATTTT
6939341 AACGCTCCCCTAGGGGCGCATTTT
1 AACGCTCCCCTAGGGGCGCATTTT
6939365 GCTCCGTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.33, G:0.25, T:0.25
Consensus pattern (24 bp):
AACGCTCCCCTAGGGGCGCATTTT
Found at i:6939609 original size:33 final size:35
Alignment explanation
Indices: 6939554--6939643 Score: 89
Period size: 33 Copynumber: 2.7 Consensus size: 35
6939544 TTTAGTGTTC
* * *
6939554 TTTTTTAA-AAATTAATTAAATTAAAGTTT-ATGG
1 TTTTTAAATAAATTAAGTAAATTAAAGTTTAAAGG
**
6939587 TTTTTAAATAAATTAAGT-AATTAGGGTTTAAAGG
1 TTTTTAAATAAATTAAGTAAATTAAAGTTTAAAGG
* *
6939621 -TTTTAAATAAATAAATTAAATTA
1 TTTTTAAATAAATTAAGTAAATTA
6939644 GGGATTAGGG
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
33 31 0.66
34 16 0.34
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (35 bp):
TTTTTAAATAAATTAAGTAAATTAAAGTTTAAAGG
Found at i:6939880 original size:127 final size:127
Alignment explanation
Indices: 6939749--6939997 Score: 383
Period size: 127 Copynumber: 2.0 Consensus size: 127
6939739 TTTTACCCTG
* * * * *
6939749 AAAAAATAATTTTGAGAAGACGTTTTTGAACAAATAGTGTCAAAAATGCTTTAAGCAGGATGCAC
1 AAAAAATAATTTTGAGAAGACGTTTATGAACAAATAATGTAAAAAATGCTTCAAGCAAGATGCAC
*
6939814 TGTAAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTTTTTTT-TGACAGTAGTTTTAAA
66 TGTAAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTTTTTTTCT-ACAGTAGTTTTAAA
* *
6939876 AAAAAATATTTTTGAGAAGACGTTTATGAATAAATAATGTAAAAAATGCTTCAAGCAAGATGCAC
1 AAAAAATAATTTTGAGAAGACGTTTATGAACAAATAATGTAAAAAATGCTTCAAGCAAGATGCAC
* * *
6939941 TGTCAGCAAAATTATTGAAAAAGGCTCCCACGTGGACGCTTTTTTTCTACAGTAGTT
66 TGTAAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTTTTTTTCTACAGTAGTT
6939998 CATGTTTGGC
Statistics
Matches: 110, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
127 109 0.99
128 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.31
Consensus pattern (127 bp):
AAAAAATAATTTTGAGAAGACGTTTATGAACAAATAATGTAAAAAATGCTTCAAGCAAGATGCAC
TGTAAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTTTTTTTCTACAGTAGTTTTAAA
Found at i:6943045 original size:24 final size:23
Alignment explanation
Indices: 6942989--6943045 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
6942979 AAGAACTTCT
*
6942989 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAACA
6943012 ATTTAGTATT-AAAATATTAAAAACA
1 ATTT--TATTAAAAATA-TAAAAACA
6943037 ACTTTTATT
1 A-TTTTATT
6943046 TTATTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 10 0.34
25 12 0.41
26 3 0.10
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAACA
Found at i:6943483 original size:18 final size:18
Alignment explanation
Indices: 6943442--6943484 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
6943432 GATTGGGAAA
* * *
6943442 AGGAAACATCTAAGGGTT
1 AGGATACATATAAGGGCT
*
6943460 ATGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
6943478 AGGATAC
1 AGGATAC
6943485 GTACCTGGCA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:6950654 original size:13 final size:14
Alignment explanation
Indices: 6950636--6950668 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
6950626 GTTCCAATGC
6950636 ATGATTTTAA-AAG
1 ATGATTTTAACAAG
6950649 ATGATTTTAATCAAG
1 ATGATTTTAA-CAAG
6950664 ATGAT
1 ATGAT
6950669 ATAATTGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
15 8 0.44
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.39
Consensus pattern (14 bp):
ATGATTTTAACAAG
Found at i:6957145 original size:6 final size:6
Alignment explanation
Indices: 6957122--6957299 Score: 141
Period size: 6 Copynumber: 28.8 Consensus size: 6
6957112 TATCAAAACT
* * * * * *
6957122 AGAATC AAAATG AGAATC AGAATC AGAATC AG-GTGAC AAAATC AAAATT
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
*
6957171 AGAATC AGAATC AGAATC AGGTAA-C AGAATC AGAATC AGTATC AGGTAA-C
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC A-G-AATC
* *
6957221 AGAATC AGAATC AGAACC AGAATC AGAATT AGGTAA-C AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
*
6957270 AGTATC AGGTAA-C AGAATC AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
6957300 GTCAATGCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 30
0.74 0.10 0.16
Matches are distributed among these distances:
5 9 0.06
6 110 0.79
7 13 0.09
8 7 0.05
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:6957165 original size:37 final size:37
Alignment explanation
Indices: 6957124--6957228 Score: 131
Period size: 37 Copynumber: 2.8 Consensus size: 37
6957114 TCAAAACTAG
* *
6957124 AATCAAAATGAGAATCAGAATCAGAATCAGGTGACAA
1 AATCAAAATCAGAATCAGAATCAGAATCAGGTAACAA
* *
6957161 AATCAAAATTAGAATCAGAATCAGAATCAGGTAACAG
1 AATCAAAATCAGAATCAGAATCAGAATCAGGTAACAA
* *
6957198 AATCAGAATCAGTATCAGGTAA-CAGAATCAG
1 AATCAAAATCAGAATCA-G-AATCAGAATCAG
6957229 AATCAGAACC
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
37 48 0.80
38 10 0.17
39 2 0.03
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.18
Consensus pattern (37 bp):
AATCAAAATCAGAATCAGAATCAGAATCAGGTAACAA
Found at i:6957227 original size:62 final size:62
Alignment explanation
Indices: 6957134--6957299 Score: 269
Period size: 62 Copynumber: 2.7 Consensus size: 62
6957124 AATCAAAATG
* * * * *
6957134 AGAATCAGAATCAGAATCAGGTGACAAAATCAAAATTAGAATCAGAATCAGAATCAGGTAAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
6957196 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
6957258 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
6957300 GTCAATGCAA
Statistics
Matches: 96, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 96 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (62 bp):
AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:6957236 original size:37 final size:37
Alignment explanation
Indices: 6957162--6957299 Score: 101
Period size: 37 Copynumber: 3.7 Consensus size: 37
6957152 AGGTGACAAA
* *
6957162 ATCAAAATTAGAATCAGAATCAGAATCAGGTAACAGA
1 ATCAGAATCAGAATCAGAATCAGAATCAGGTAACAGA
*
6957199 ATCAGAATCAGTATCAGGTAA-CAGAATCA-G-AATCAGA
1 ATCAGAATCAGAATCA-G-AATCAGAATCAGGTAA-CAGA
* * *
6957236 ACCAGAATCAGAATTAGGTAA-CAGAATCA-G-AATCAGT
1 ATCAGAATCAGAATCA-G-AATCAGAATCAGGTAA-CAGA
6957273 ATCAGGTAA-CAGAATCAGAATCAGAAT
1 ATCA-G-AATCAGAATCAGAATCAGAAT
6957300 GTCAATGCAA
Statistics
Matches: 86, Mismatches: 9, Indels: 12
0.80 0.08 0.11
Matches are distributed among these distances:
36 4 0.05
37 61 0.71
38 17 0.20
39 4 0.05
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (37 bp):
ATCAGAATCAGAATCAGAATCAGAATCAGGTAACAGA
Found at i:6957266 original size:25 final size:25
Alignment explanation
Indices: 6957134--6957299 Score: 141
Period size: 25 Copynumber: 6.7 Consensus size: 25
6957124 AATCAAAATG
*
6957134 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
* * *
6957159 AAAATCAAAATTAGAATCA-G-AATC
1 AGAATCAGAATCAGAATCAGGTAA-C
6957183 AGAATCAGGTAA-CAGAATCA-G-AATC
1 AGAATCA-G-AATCAGAATCAGGTAA-C
*
6957208 AGTATCAGGTAA-CAGAATCA-G-AATC
1 AGAATCA-G-AATCAGAATCAGGTAA-C
* *
6957233 AGAACCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
6957258 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
6957283 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
6957300 GTCAATGCAA
Statistics
Matches: 120, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
23 3 0.03
24 16 0.13
25 97 0.81
26 4 0.03
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:6957290 original size:19 final size:19
Alignment explanation
Indices: 6957139--6957271 Score: 121
Period size: 19 Copynumber: 6.8 Consensus size: 19
6957129 AAATGAGAAT
*
6957139 CAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGGTAA
* * *
6957158 CAAAATCAAAATTA-G-AA
1 CAGAATCAGAATCAGGTAA
6957175 TCAGAATCAGAATCAGGTAA
1 -CAGAATCAGAATCAGGTAA
6957195 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAG----A--ATCAGGTAA
6957220 CAGAATCAGAATCA-G-AA
1 CAGAATCAGAATCAGGTAA
*
6957237 CCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGGTAA
6957257 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
6957272 TATCAGGTAA
Statistics
Matches: 93, Mismatches: 9, Indels: 24
0.74 0.07 0.19
Matches are distributed among these distances:
17 3 0.03
18 26 0.28
19 40 0.43
20 4 0.04
21 1 0.01
23 1 0.01
25 18 0.19
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.17
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTAA
Found at i:6957566 original size:27 final size:26
Alignment explanation
Indices: 6957518--6957569 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
6957508 GCGAGGCTGC
*
6957518 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
6957544 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
6957570 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:6957871 original size:27 final size:27
Alignment explanation
Indices: 6957814--6958062 Score: 320
Period size: 27 Copynumber: 9.3 Consensus size: 27
6957804 GGGGTAAAAT
* * * *
6957814 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
6957840 CGTAATTCTACCTTACAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
6957867 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
6957894 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
6957921 GGTAATTATACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
6957948 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
6957975 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
6958002 GGTATTTTTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
6958029 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
6958056 GGTAATT
1 GGTAATT
6958063 TTGTAAATCA
Statistics
Matches: 193, Mismatches: 29, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
26 13 0.07
27 180 0.93
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:6958077 original size:27 final size:27
Alignment explanation
Indices: 6958047--6958547 Score: 482
Period size: 27 Copynumber: 18.6 Consensus size: 27
6958037 TACCCTACAG
* * *
6958047 GGGTATTTCGGTAATTTTGTAAATCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
*** * * * *
6958074 GGGTAAAATAGTAATTCTGTAAATCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* ** *
6958101 GGGTACTTTGGTAATTTTATAAGTCGA
1 GGGTATTTTGGTAATTTTATAAACCAA
*** * *****
6958128 GGGTATTTCAATAATTTTACAGGTTGA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * * * *
6958155 GGGTATTTTAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
** * *
6958182 GGGTATTTTGGTAATTTTCGAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
6958209 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
6958236 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAA
6958263 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
6958290 TGGTATTTTAGTAA-TTTACAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
**
6958316 GGGTATTTTGGTAATTTGGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
*
6958343 GGGTATTTTGGTAATTTTATAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
6958370 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
6958397 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
6958424 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * * *
6958451 TGGTATTTTGGTAATTGTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
6958478 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
6958505 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
6958532 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
6958548 CGGTAAACTA
Statistics
Matches: 393, Mismatches: 80, Indels: 2
0.83 0.17 0.00
Matches are distributed among these distances:
26 23 0.06
27 370 0.94
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:6958078 original size:81 final size:81
Alignment explanation
Indices: 6957818--6958059 Score: 353
Period size: 81 Copynumber: 3.0 Consensus size: 81
6957808 TAAAATGGTA
* * * * * * *
6957818 ATTT-TACCCCACAA-GGTATCTCCGTAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTATACCCTATAGGGGTATTTCAGTAATTCTACCCT
6957881 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
*
6957897 ATTTCTACCCTACAAGGGTATTTCGGTAATTATACCCTATAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTATACCCTATAGGGGTATTTCAGTAATTCTACCCT
6957962 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
* * * * *
6957978 ATTTCTACCCTACAGGGGTATTTCGGTATTTTTACCCTATAGGGGTATTTCGGTATTTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTATACCCTATAGGGGTATTTCAGTAATTCTACCCT
6958043 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
6958059 A
1 A
6958060 ATTTTGTAAA
Statistics
Matches: 147, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
79 4 0.03
80 9 0.06
81 134 0.91
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTATACCCTATAGGGGTATTTCAGTAATTCTACCCT
ACAGGGGTATTTCGGT
Found at i:6958555 original size:27 final size:27
Alignment explanation
Indices: 6958155--6958547 Score: 491
Period size: 27 Copynumber: 14.6 Consensus size: 27
6958145 TACAGGTTGA
* * * *
6958155 GGGTATTTTAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTATAAACCAG
** *
6958182 GGGTATTTTGGTAATTTTCGAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAG
* *
6958209 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAG
* *
6958236 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAG
*
6958263 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAG
* * * *
6958290 TGGTATTTTAGTAA-TTTACAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAG
** *
6958316 GGGTATTTTGGTAATTTGGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAG
6958343 GGGTATTTTGGTAATTTTATAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAG
* *
6958370 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAG
* *
6958397 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAG
* *
6958424 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAG
* * *
6958451 TGGTATTTTGGTAATTGTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAG
* *
6958478 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAG
* *
6958505 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAG
6958532 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
6958548 CGGTAAACTA
Statistics
Matches: 314, Mismatches: 51, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
26 23 0.07
27 291 0.93
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAG
Found at i:6958555 original size:54 final size:54
Alignment explanation
Indices: 6958155--6958547 Score: 556
Period size: 54 Copynumber: 7.3 Consensus size: 54
6958145 TACAGGTTGA
* * * * * *
6958155 GGGTATTTTAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTT-CGAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTAC-AAACCAG
* * * *
6958209 GGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * *
6958263 GGGTATTTTGGTAATTTTATAAACCAATGGTATTTTAGTAA-TTTACAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
** *
6958316 GGGTATTTTGGTAATTTGGTAAACCAAGGGTATTTTGGTAATTTTATAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* *
6958370 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * *
6958424 GGGTATTTTGGTAATTTTGTAAACCAATGGTATTTTGGTAATTGTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* *
6958478 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
6958532 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
6958548 CGGTAAACTA
Statistics
Matches: 304, Mismatches: 33, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
53 47 0.15
54 256 0.84
55 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
Found at i:6964173 original size:34 final size:34
Alignment explanation
Indices: 6964134--6964202 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
6964124 GTTGATGTTG
*
6964134 TTACTAATAAATTCATGGCAACTCAGTAATTTGC
1 TTACTAATAAATTCAAGGCAACTCAGTAATTTGC
*
6964168 TTACTAATAAATTCAAGGCAACTGAGTAATTTGC
1 TTACTAATAAATTCAAGGCAACTCAGTAATTTGC
6964202 T
1 T
6964203 AACTTATGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (34 bp):
TTACTAATAAATTCAAGGCAACTCAGTAATTTGC
Found at i:6970594 original size:46 final size:47
Alignment explanation
Indices: 6970507--6970598 Score: 134
Period size: 46 Copynumber: 2.0 Consensus size: 47
6970497 CATACTGAAA
* * *
6970507 TCTTCGATCTGTTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATG
1 TCTTCGATCTGTTTCGCTGTAAACACAGGAATGCCAAATCTGCTATG
6970554 TCTTCGATCTGTTTC-CTGTAAACACAGCG-ATGCCAAATCTGCTAT
1 TCTTCGATCTGTTTCGCTGTAAACACAG-GAATGCCAAATCTGCTAT
6970599 CTTCAACTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
46 25 0.61
47 16 0.39
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.34
Consensus pattern (47 bp):
TCTTCGATCTGTTTCGCTGTAAACACAGGAATGCCAAATCTGCTATG
Found at i:6970619 original size:134 final size:134
Alignment explanation
Indices: 6970455--6970700 Score: 402
Period size: 134 Copynumber: 1.8 Consensus size: 134
6970445 GGAGATGTCG
* *
6970455 AATCTACTATCTTCAACCTGTTCCCTATAAACATACGGATGCCATACTGAAATCTTCGATCTGTT
1 AATCTACTATCTTCAACCTGTTCCCTATAAACATACGGATGCCATACTAAAATCTTCGATCTGCT
6970520 TCGCTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTTTCCTGTAAACACAGCGAT
66 TCGCTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTTTCCTGTAAACACAGCGAT
6970585 GCCA
131 GCCA
* * * * ** *
6970589 AATCTGCTATCTTCAACTTGTTCCCTATAAACATAGGGATGTCATGTTAAAATCTTTGATCTGCT
1 AATCTACTATCTTCAACCTGTTCCCTATAAACATACGGATGCCATACTAAAATCTTCGATCTGCT
*
6970654 TCGCTGTAAGTACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTT
66 TCGCTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTT
6970701 CTCCGTCGAA
Statistics
Matches: 102, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
134 102 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (134 bp):
AATCTACTATCTTCAACCTGTTCCCTATAAACATACGGATGCCATACTAAAATCTTCGATCTGCT
TCGCTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTTTCCTGTAAACACAGCGAT
GCCA
Found at i:6970907 original size:87 final size:87
Alignment explanation
Indices: 6970720--6970907 Score: 242
Period size: 87 Copynumber: 2.2 Consensus size: 87
6970710 ATATGGAGAT
*
6970720 GTCAAATCTGTTA--TCTTCGATTTGTCCTCTAACAATACAGAGATGCCAAATCATCTTGGATCT
1 GTCAGATCTGTTATGTCTTCGATTTGTCCTCTAACAATACAGAGATGCCAAATCATCTTGGATCT
*
6970783 GCTTCAGCGTAAACATCTGAAG
66 GCTTCAGCATAAACATCTGAAG
** *
6970805 GTCAGATCTACTATGTCTTCGATTTGCTCCT-TGTA-AATAC-GAGGATGCCAAATCATCTTGGA
1 GTCAGATCTGTTATGTCTTCGATTTG-TCCTCT-AACAATACAGA-GATGCCAAATCATCTTGGA
* *
6970867 TCTGTTTCAGTATAAACATCTGAAG
63 TCTGCTTCAGCATAAACATCTGAAG
*
6970892 GTTAGATCTGTTATGT
1 GTCAGATCTGTTATGT
6970908 GTCTGCTCTC
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
85 10 0.11
86 2 0.02
87 71 0.81
88 5 0.06
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (87 bp):
GTCAGATCTGTTATGTCTTCGATTTGTCCTCTAACAATACAGAGATGCCAAATCATCTTGGATCT
GCTTCAGCATAAACATCTGAAG
Found at i:6971212 original size:87 final size:86
Alignment explanation
Indices: 6970859--6971258 Score: 303
Period size: 87 Copynumber: 4.6 Consensus size: 86
6970849 ATGCCAAATC
* *
6970859 ATCTTGGATCTG-TTTCAGTATAAACATCTGAAGGTTAGATCTGTTATGTGTCTGCTCTCCGTCG
1 ATCTTGGATCTGCTTT-AGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCG
*
6970923 AATATGGAGACGTCAAATCTGTT
65 AA-ATGGAGACGCCAAATCTGTT
* * * * * *
6970946 ATCTTGGATCTACTTTAGTA-AAATCATATGAAGGTTAGATTTGTTATGTATCTGCCCTTCGTCG
1 ATCTTGGATCTGCTTTAGTATAAA-CATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCG
* *
6971010 AAATGGAGATGCCAGATCTGTT
65 AAATGGAGACGCCAAATCTGTT
* * * * * * * ***
6971032 ATCTTGGATCTGCTTTGGTGTGAGAACATCTGAAAGTCAAATCTGCTATGTCTTTGATTTGTTCC
1 ATCTTGGATCTGCTTTAGTAT-A-AACATCTGAAGGTTAGATCTGCTATGTGTCTG---CCCTCC
* *** * *
6971097 -TTGTAAACACAAGAATGCCAAAAC----
61 GTCG-AAA-TGGAG-ACGCCAAATCTGTT
* *
6971121 ATCTTGGATCTGCTTTAGTATAAACATTTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCATCGA
1 ATCTTGGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGA
*
6971186 ATATGGAGACGCCAGATCTGTT
66 A-ATGGAGACGCCAAATCTGTT
* * * *
6971208 ATCTTGGA-CTGCTTTGATGTGAAAAACATCTGAAAGTCAAATCTGCTATGT
1 ATCTTGGATCTGCTTT-A-GT-ATAAACATCTGAAGGTTAGATCTGCTATGT
6971259 CTTCGATTTG
Statistics
Matches: 240, Mismatches: 53, Indels: 38
0.73 0.16 0.11
Matches are distributed among these distances:
83 7 0.03
84 7 0.03
85 3 0.01
86 44 0.18
87 87 0.36
88 29 0.12
89 46 0.19
90 2 0.01
91 5 0.02
92 2 0.01
93 8 0.03
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (86 bp):
ATCTTGGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGA
AATGGAGACGCCAAATCTGTT
Found at i:6971251 original size:176 final size:176
Alignment explanation
Indices: 6970945--6971349 Score: 546
Period size: 176 Copynumber: 2.3 Consensus size: 176
6970935 TCAAATCTGT
* * * * *
6970945 TATCTTGGATCTACTTTAGTA-AAATCATATGAAGGTTAGATTTGTTATGTATCTGCCCTTCGTC
1 TATCTTGGATCTGCTTTAGTATAAA-CATATGAAGGTTAGATCTGCTATGTATCTGCCCTCCATC
* * *
6971009 GAAATGGAGATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCTGAAAGTCAAAT
65 GAAATGGAGACGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATCTGAAAGTCAAAT
*
6971074 CTGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGAATGCCAAAAC
130 CTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAAAC
* *
6971121 -ATCTTGGATCTGCTTTAGTATAAACATTTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCATCG
1 TATCTTGGATCTGCTTTAGTATAAACATATGAAGGTTAGATCTGCTATGTATCTGCCCTCCATCG
6971185 AATATGGAGACGCCAGATCTGTTATCTTGGA-CTGCTTTGATGTGAAAAACATCTGAAAGTCAAA
66 AA-ATGGAGACGCCAGATCTGTTATCTTGGATCTGCTTTGATGTG-AAAACATCTGAAAGTCAAA
* * *
6971249 TCTGCTATGTCTTCGATTTGTTCCTTGTAAAGACAAGAATGTCAAATC
129 TCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAAAC
* * ** **
6971297 TTGTTATCTTGGATCTGCTTCAGTGTAAACACGTGAAGGCCAGATCTGCTATG
1 ----TATCTTGGATCTGCTTTAGTATAAACATATGAAGGTTAGATCTGCTATG
6971350 CTTTGAATTG
Statistics
Matches: 201, Mismatches: 20, Indels: 11
0.87 0.09 0.05
Matches are distributed among these distances:
175 67 0.33
176 92 0.46
181 42 0.21
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (176 bp):
TATCTTGGATCTGCTTTAGTATAAACATATGAAGGTTAGATCTGCTATGTATCTGCCCTCCATCG
AAATGGAGACGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATCTGAAAGTCAAATC
TGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAAAC
Found at i:6977310 original size:43 final size:42
Alignment explanation
Indices: 6977241--6977343 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 42
6977231 TGAAAAGGGG
* * * * *
6977241 TGTTTGGCTGCAGGTTTTGGGGATTTTAAGGCTGGAATAGGAC
1 TGTTTGGCTGCAGGATATGGGCATTTT-AGGCTGCAATAGAAC
*
6977284 TGTTTGGCTGCAGAGATAT-GGCATTTTGGGCTGCAATAGAAC
1 TGTTTGGCTGCAG-GATATGGGCATTTTAGGCTGCAATAGAAC
*
6977326 TGTTTGGCAGCATGGATA
1 TGTTTGGCTGCA-GGATA
6977344 GGGTGGTTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
42 27 0.53
43 21 0.41
44 3 0.06
ACGTcount: A:0.21, C:0.12, G:0.34, T:0.33
Consensus pattern (42 bp):
TGTTTGGCTGCAGGATATGGGCATTTTAGGCTGCAATAGAAC
Found at i:6977466 original size:17 final size:17
Alignment explanation
Indices: 6977444--6977480 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
6977434 TAAATAAAAT
6977444 AAAATAAATAAAAATAA
1 AAAATAAATAAAAATAA
6977461 AAAATAAATAAAAATAA
1 AAAATAAATAAAAATAA
6977478 AAA
1 AAA
6977481 GAAAGATTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAATAAATAAAAATAA
Found at i:6990544 original size:45 final size:43
Alignment explanation
Indices: 6990471--6990555 Score: 100
Period size: 43 Copynumber: 1.9 Consensus size: 43
6990461 ATGAAATATG
* * * *
6990471 TATAATAATAATAATAATGTAACAAATATTTTACATATAAAAA
1 TATAATAATAATAATAATATAAAAAATATATAACATATAAAAA
6990514 TATAATAA-AATAAGTAATATAATAAGAATATATAACATATAA
1 TATAATAATAATAA-TAATATAA-AA-AATATATAACATATAA
6990556 TAAAATTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
42 5 0.14
43 15 0.43
44 1 0.03
45 14 0.40
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (43 bp):
TATAATAATAATAATAATATAAAAAATATATAACATATAAAAA
Found at i:6992095 original size:4 final size:4
Alignment explanation
Indices: 6992088--6992112 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
6992078 GTTTAATAAA
6992088 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
6992113 TCTTTTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:6992493 original size:43 final size:43
Alignment explanation
Indices: 6992445--6992553 Score: 111
Period size: 43 Copynumber: 2.6 Consensus size: 43
6992435 TATGTGATTC
* * *
6992445 CGATATATGTGTACGTGTAAGACCATGT-TTGAGACGTTGGCAT
1 CGATATATGTGTACATGTAAGACCATGTCTCG-GACATTGGCAT
*
6992488 CGATATGTGAT-TACATGTAAGACCATGTCTCGGACATTGGCAT
1 CGATATATG-TGTACATGTAAGACCATGTCTCGGACATTGGCAT
6992531 C-A-ATATGTGATTACA-GTAAGACC
1 CGATATATGTG--TACATGTAAGACC
6992554 TCGTCTGGGA
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
40 1 0.02
41 4 0.07
42 9 0.16
43 39 0.70
44 3 0.05
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (43 bp):
CGATATATGTGTACATGTAAGACCATGTCTCGGACATTGGCAT
Found at i:6992570 original size:42 final size:43
Alignment explanation
Indices: 6992460--6992572 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 43
6992450 TATGTGTACG
* *
6992460 TGTAAGACCATGT-TTGAGACGTTGGCATCGATATGTGATTACA
1 TGTAAGACCATGTCTCG-GACGTTGGCATCAATATGTGATTACA
*
6992503 TGTAAGACCATGTCTCGGACATTGGCATCAATATGTGATTACA
1 TGTAAGACCATGTCTCGGACGTTGGCATCAATATGTGATTACA
* *
6992546 -GTAAGACC-TCGTCTGGGATGTTGGCAT
1 TGTAAGACCAT-GTCTCGGACGTTGGCAT
6992573 TGTACGATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
41 1 0.02
42 22 0.35
43 37 0.60
44 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTCGGACGTTGGCATCAATATGTGATTACA
Found at i:6993001 original size:19 final size:19
Alignment explanation
Indices: 6992977--6993074 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
6992967 AATCTTTAAG
*
6992977 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
6992996 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
6993015 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
6993032 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
6993051 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
6993072 GAT
1 GAT
6993075 CTTGTAATCT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
21 9 0.12
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:6993007 original size:36 final size:35
Alignment explanation
Indices: 6992967--6993052 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 35
6992957 ATGGAAATAT
6992967 AATCTTTAAGGATATG-CAATATTAGATATGATATGC
1 AATCTTT-A-GATATGACAATATTAGATATGATATGC
*
6993003 AATC-TTAGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAGATATG--ACAATATTAGATATGATATGC
6993039 AATC-TTAGATATGA
1 AATCTTTAGATATGA
6993053 TATGCAATCT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
33 6 0.13
34 2 0.04
35 2 0.04
36 36 0.78
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (35 bp):
AATCTTTAGATATGACAATATTAGATATGATATGC
Found at i:6993013 original size:14 final size:15
Alignment explanation
Indices: 6992996--6993052 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
6992986 TATTAGATAT
6992996 GATATG-CAATCTTA
1 GATATGACAATCTTA
6993010 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
6993027 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
6993046 GATATGA
1 GATATGA
6993053 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Done.