Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 64 of 316
Found at i:18835680 original size:14 final size:14
Alignment explanation
Indices: 18835661--18835692 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
18835651 AAGCGAATTA
18835661 CACCATTGATTACT
1 CACCATTGATTACT
18835675 CACCATTGATTACT
1 CACCATTGATTACT
18835689 CACC
1 CACC
18835693 GGAATGTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.28, C:0.34, G:0.06, T:0.31
Consensus pattern (14 bp):
CACCATTGATTACT
Found at i:18861413 original size:27 final size:27
Alignment explanation
Indices: 18861371--18861422 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
18861361 GAAATGTGAA
*
18861371 AGGGGTTGCTATGTGCTGATTCCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCCG
18861398 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
18861423 GATTCATTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.25, G:0.33, T:0.29
Consensus pattern (27 bp):
AGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:18861516 original size:27 final size:26
Alignment explanation
Indices: 18861475--18861527 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
18861465 AAATGAAAAG
*
18861475 GGGGTTGCTATGTGCTGATTCCTCCGA
1 GGGGTTGCTAAGTGCTGATTCC-CCGA
18861502 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
18861528 TCCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.13, C:0.23, G:0.34, T:0.30
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:18861631 original size:104 final size:103
Alignment explanation
Indices: 18861295--18861663 Score: 598
Period size: 103 Copynumber: 3.6 Consensus size: 103
18861285 TGTATATAAA
** *
18861295 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
*
18861359 TTGAAATGTGAAA-GGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
18861398 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
*
18861463 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCTCCG
66 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* * *
18861501 AGGGGTTGCTAAGTGCTGATTCCCCGATCCATTGGTGATGCTAAGTGCGATATCCACCGTATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
18861566 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* * *
18861605 AGGGGTTGCTAAGTGATGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
18861664 ATAACGGTTA
Statistics
Matches: 248, Mismatches: 15, Indels: 5
0.93 0.06 0.02
Matches are distributed among these distances:
102 3 0.01
103 161 0.65
104 84 0.34
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:18868531 original size:30 final size:29
Alignment explanation
Indices: 18868490--18868553 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 29
18868480 ATTTCCGAGC
*
18868490 TTGGGGACAAAAGTGTAATTATGCAAAAGT
1 TTGGGGACAAAAGTGTAATT-TGCAAAAAT
* * *
18868520 TTGGGGGCAAAATTGTAATTTTCAAAAAT
1 TTGGGGACAAAAGTGTAATTTGCAAAAAT
18868549 TTGGG
1 TTGGG
18868554 TGGTGGATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 12 0.40
30 18 0.60
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (29 bp):
TTGGGGACAAAAGTGTAATTTGCAAAAAT
Found at i:18869073 original size:104 final size:104
Alignment explanation
Indices: 18868882--18869252 Score: 611
Period size: 104 Copynumber: 3.6 Consensus size: 104
18868872 TGTATATAAA
** *
18868882 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
**
18868946 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
18868986 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
18869051 TTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* * *
18869090 AGGGGTTGCTAAGTGCTGATTCCCCGATCCATTGGTGATGCTAAGTGCGATATCCACCGTATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
18869155 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* * *
18869194 AGGGGTTGCTAAGTGATGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
18869253 ATAACGGTTA
Statistics
Matches: 251, Mismatches: 13, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
103 42 0.17
104 166 0.66
105 42 0.17
106 1 0.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:18872180 original size:25 final size:25
Alignment explanation
Indices: 18872152--18872199 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18872142 AAGCTTTTTC
18872152 GAGCCATATAACAGGAAGCTCATGT
1 GAGCCATATAACAGGAAGCTCATGT
* **
18872177 GAGCCATGTAATGGGAAGCTCAT
1 GAGCCATATAACAGGAAGCTCAT
18872200 AAGAGCCGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATGT
Found at i:18872205 original size:25 final size:23
Alignment explanation
Indices: 18872165--18872247 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 23
18872155 CCATATAACA
**
18872165 GGAAGCTCATGTGAGCCATGTAATG
1 GGAAGCTCATAAGAGCC--GTAATG
18872190 GGAAGCTCATAAGAGCCGTAATTG
1 GGAAGCTCATAAGAGCCGTAA-TG
* * *
18872214 GGAGGCTAATAAAAGCCGTAATCG
1 GGAAGCTCATAAGAGCCGTAAT-G
*
18872238 GAAAGCTCAT
1 GGAAGCTCAT
18872248 GCGAGCTAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
23 5 0.10
24 28 0.58
25 15 0.31
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (23 bp):
GGAAGCTCATAAGAGCCGTAATG
Found at i:18872276 original size:25 final size:25
Alignment explanation
Indices: 18872240--18872304 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 25
18872230 CGTAATCGGA
* *
18872240 AAGC-TCATGCGAGCTAGTATCGAG
1 AAGCTTCAAGCGAGCCAGTATCGAG
* * *
18872264 AAGGTTCAAGCGAGCCATTATCGAT
1 AAGCTTCAAGCGAGCCAGTATCGAG
*
18872289 AAGCTTC-AGAGAGCCA
1 AAGCTTCAAGCGAGCCA
18872305 TTAACTGGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
24 11 0.33
25 22 0.67
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.20
Consensus pattern (25 bp):
AAGCTTCAAGCGAGCCAGTATCGAG
Found at i:18872307 original size:24 final size:25
Alignment explanation
Indices: 18872257--18872307 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
18872247 TGCGAGCTAG
* *
18872257 TATCGAGAAGGTTCAAGCGAGCCAT
1 TATCGAGAAGCTTCAAGAGAGCCAT
*
18872282 TATCGATAAGCTTC-AGAGAGCCAT
1 TATCGAGAAGCTTCAAGAGAGCCAT
18872306 TA
1 TA
18872308 ACTGGAAGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (25 bp):
TATCGAGAAGCTTCAAGAGAGCCAT
Found at i:18872481 original size:25 final size:24
Alignment explanation
Indices: 18872441--18872499 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
18872431 GAGTTATTCG
*
18872441 CGGGAAGCTCGCAAGAACCATATAA
1 CGGGAAGCTCACAAGAACCA-ATAA
* * *
18872466 CGGGAAGCTCATAAGAGCTAATAA
1 CGGGAAGCTCACAAGAACCAATAA
*
18872490 CGGGATGCTC
1 CGGGAAGCTC
18872500 TTTCGAGCTG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 13 0.45
25 16 0.55
ACGTcount: A:0.36, C:0.22, G:0.27, T:0.15
Consensus pattern (24 bp):
CGGGAAGCTCACAAGAACCAATAA
Found at i:18872804 original size:21 final size:21
Alignment explanation
Indices: 18872776--18872830 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
18872766 GATCTATACG
*
18872776 AATA-AATTTAACA-TCAATTT
1 AATACAATTT-ACATTCAATTC
18872796 AATACAATTTACATTCAATTC
1 AATACAATTTACATTCAATTC
* *
18872817 AATCCAATTCACAT
1 AATACAATTTACAT
18872831 CTTAGGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (21 bp):
AATACAATTTACATTCAATTC
Found at i:18873014 original size:11 final size:12
Alignment explanation
Indices: 18872984--18873014 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
18872974 ACAAAAATTA
18872984 GAATTTTTCCAT
1 GAATTTTTCCAT
18872996 GAATTTTTCCAT
1 GAATTTTTCCAT
18873008 GAATTTT
1 GAATTTT
18873015 ACATCTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.52
Consensus pattern (12 bp):
GAATTTTTCCAT
Found at i:18879688 original size:9 final size:9
Alignment explanation
Indices: 18879676--18879701 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
18879666 AATAAAAATA
18879676 TTTTTTAAT
1 TTTTTTAAT
18879685 TTTTTTAAT
1 TTTTTTAAT
18879694 TTTTTTAA
1 TTTTTTAA
18879702 AAATTAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:18884033 original size:33 final size:32
Alignment explanation
Indices: 18883956--18884033 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 32
18883946 CAGTGTTTAT
* * *
18883956 ATGTAAGACCATAGCTGGGTTATGGCATTCTG
1 ATGTAAGACCATAACTGGGTTATGGCACTATG
18883988 ATGATAAGACCATAACTGGGTTATGTG-ACTATGG
1 ATG-TAAGACCATAACTGGGTTATG-GCACTAT-G
*
18884022 ATGTAATACCAT
1 ATGTAAGACCAT
18884034 GGTTGGACCA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
32 3 0.08
33 31 0.79
34 5 0.13
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (32 bp):
ATGTAAGACCATAACTGGGTTATGGCACTATG
Found at i:18884110 original size:102 final size:101
Alignment explanation
Indices: 18883923--18884137 Score: 315
Period size: 102 Copynumber: 2.1 Consensus size: 101
18883913 TTATTCAAAC
* *
18883923 GTAAGACCATGGTTGAACCATGACAGTGTTTATATGTAAGACCATAGCTGGGTTATGGCATTCTG
1 GTAAGACCATGGTTGAACCATGACAGTGTTCATATGTAAGACCATAGCTGGGTTATGGAATTCTG
* *
18883988 ATGATAAGACCATAACTGGGTTATGTG-ACTATGGAT
66 ATAATAAGACCATAACTGGGTTATG-GCACTATGAAT
* * * * * *
18884024 GTAATACCATGGTTGGACCATGATAGTGTTCATATGTAATATCATAGGTTGGGTTATGGAATTCT
1 GTAAGACCATGGTTGAACCATGACAGTGTTCATATGTAAGACCATA-GCTGGGTTATGGAATTCT
18884089 GATAATAAGACCATAACTGGGTTATGGCACTATGAAT
65 GATAATAAGACCATAACTGGGTTATGGCACTATGAAT
18884126 GTAAGACCATGG
1 GTAAGACCATGG
18884138 CAGGGCCATG
Statistics
Matches: 101, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
101 41 0.41
102 60 0.59
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (101 bp):
GTAAGACCATGGTTGAACCATGACAGTGTTCATATGTAAGACCATAGCTGGGTTATGGAATTCTG
ATAATAAGACCATAACTGGGTTATGGCACTATGAAT
Found at i:18884147 original size:102 final size:101
Alignment explanation
Indices: 18883923--18884170 Score: 304
Period size: 102 Copynumber: 2.5 Consensus size: 101
18883913 TTATTCAAAC
** * * *
18883923 GTAAGACCATGGTTGAACCATGACAGTGTTTATATGTAAGACCATAGCTGGGTTATGGCATTCTG
1 GTAAGACCATGGCAGGACCATGACAGTGTTCATATGTAAGACCATAGCTGGGTTATGGAATTCTG
* *
18883988 ATGATAAGACCATAACTGGGTTATGTGACTATGGAT
66 ATAATAAGACCATAACTGGGTTATGTGACTATGAAT
* ** * * * *
18884024 GTAATACCATGGTTGGACCATGATAGTGTTCATATGTAATATCATAGGTTGGGTTATGGAATTCT
1 GTAAGACCATGGCAGGACCATGACAGTGTTCATATGTAAGACCATA-GCTGGGTTATGGAATTCT
18884089 GATAATAAGACCATAACTGGGTTATG-GCACTATGAAT
65 GATAATAAGACCATAACTGGGTTATGTG-ACTATGAAT
* * *
18884126 GTAAGACCATGGCAGGGCCATGGCAATG--CATATGTAAGACCATAG
1 GTAAGACCATGGCAGGACCATGACAGTGTTCATATGTAAGACCATAG
18884171 TTGGACTATT
Statistics
Matches: 126, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
99 1 0.01
100 14 0.11
101 41 0.33
102 70 0.56
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.29
Consensus pattern (101 bp):
GTAAGACCATGGCAGGACCATGACAGTGTTCATATGTAAGACCATAGCTGGGTTATGGAATTCTG
ATAATAAGACCATAACTGGGTTATGTGACTATGAAT
Found at i:18884760 original size:36 final size:36
Alignment explanation
Indices: 18884720--18884793 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
18884710 GAAACAATAA
18884720 GTTCTCAATTGGTAATGTGCTTATGTCCATGAAAAG
1 GTTCTCAATTGGTAATGTGCTTATGTCCATGAAAAG
18884756 GTTCTCAATTGGTAATGTGCTTATGTCCATGAAAAG
1 GTTCTCAATTGGTAATGTGCTTATGTCCATGAAAAG
18884792 GT
1 GT
18884794 CGAATAAATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (36 bp):
GTTCTCAATTGGTAATGTGCTTATGTCCATGAAAAG
Found at i:18891863 original size:74 final size:74
Alignment explanation
Indices: 18891785--18892018 Score: 262
Period size: 74 Copynumber: 3.2 Consensus size: 74
18891775 TTGATAGAGG
* **
18891785 TTGCGCCCAGTGCTAGTTGGATAAACCGACGAATAATTAGTGAGCCCAGCTCTAGTTGGATAAAC
1 TTGCGCCCAGCGCTAGTCAGATAAACCGACGAATAATTAGTGAGCCCAGCTCTAGTTGGATAAAC
18891850 CAACGATAT
66 CAACGATAT
* * * * **
18891859 TTGCGCCCAGCGCTAGTCAGATGAACCTAC--A-AA-T-GTGTGCCCAGCACTAGTCAGATAAAC
1 TTGCGCCCAGCGCTAGTCAGATAAACCGACGAATAATTAGTGAGCCCAGCTCTAGTTGGATAAAC
** * *
18891919 TGACGAAAG
66 CAACGATAT
* * * * *
18891928 TTGTGCCAAGCGCTAGTCAGATAAACCGACGAATAATTAGTGAACCTAGCTTTAGTTGGATAAAC
1 TTGCGCCCAGCGCTAGTCAGATAAACCGACGAATAATTAGTGAGCCCAGCTCTAGTTGGATAAAC
18891993 CAACGATAT
66 CAACGATAT
*
18892002 TTGCACCCAGCGCTAGT
1 TTGCGCCCAGCGCTAGT
18892019 TAAATGAATC
Statistics
Matches: 124, Mismatches: 31, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
69 53 0.43
70 1 0.01
71 3 0.02
72 3 0.02
73 1 0.01
74 63 0.51
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (74 bp):
TTGCGCCCAGCGCTAGTCAGATAAACCGACGAATAATTAGTGAGCCCAGCTCTAGTTGGATAAAC
CAACGATAT
Found at i:18891875 original size:35 final size:35
Alignment explanation
Indices: 18891716--18892020 Score: 141
Period size: 35 Copynumber: 8.6 Consensus size: 35
18891706 CGCAAAAGAG
* *
18891716 TTTGC-CCCAGCGCTAGTTAGATAAACCGA-AAAA
1 TTTGCGCCCAGCGCTAGTTAGATAAACCGACGATA
* ** * * ** * *
18891749 TGTGTTCCCAGCACTAATTAGATAAATTGATAGA-G
1 TTTGCGCCCAGCGCTAGTTAGATAAACCGA-CGATA
* * *
18891784 GTTGCGCCCAGTGCTAGTTGGATAAACCGACGAATAA
1 TTTGCGCCCAGCGCTAGTTAGATAAACCGACG-AT-A
* * * *
18891821 TTAGTGAGCCCAGCTCTAGTTGGATAAACCAACGATA
1 TT--TGCGCCCAGCGCTAGTTAGATAAACCGACGATA
* * * *
18891858 TTTGCGCCCAGCGCTAGTCAGATGAACCTAC-AAA
1 TTTGCGCCCAGCGCTAGTTAGATAAACCGACGATA
* * * * * *
18891892 TGTGTGCCCAGCACTAGTCAGATAAACTGACGAAA
1 TTTGCGCCCAGCGCTAGTTAGATAAACCGACGATA
* * * *
18891927 GTTGTGCCAAGCGCTAGTCAGATAAACCGACGAATAA
1 TTTGCGCCCAGCGCTAGTTAGATAAACCGACG-AT-A
** * ** * *
18891964 TTAGTGAACCTAGCTTTAGTTGGATAAACCAACGATA
1 TT--TGCGCCCAGCGCTAGTTAGATAAACCGACGATA
*
18892001 TTTGCACCCAGCGCTAGTTA
1 TTTGCGCCCAGCGCTAGTTA
18892021 AATGAATCAA
Statistics
Matches: 201, Mismatches: 58, Indels: 24
0.71 0.20 0.08
Matches are distributed among these distances:
33 3 0.01
34 48 0.24
35 87 0.43
36 2 0.01
37 9 0.04
38 4 0.02
39 48 0.24
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (35 bp):
TTTGCGCCCAGCGCTAGTTAGATAAACCGACGATA
Found at i:18892026 original size:143 final size:142
Alignment explanation
Indices: 18891716--18892026 Score: 417
Period size: 143 Copynumber: 2.2 Consensus size: 142
18891706 CGCAAAAGAG
* * * * *
18891716 TTTGCCCCAGCGCTAGTTAGATAAACCGAAAAATGTGTTCCCAGCACTAATTAGATAAATTGATA
1 TTTGCCCCAGCGCTAGTTAGATGAACCGAAAAATGTGTGCCCAGCACTAATCAGATAAACTGAGA
* * * ** *
18891781 GAGGTTGCGCCCAGTGCTAGTTGGATAAACCGACGAATAATTAGTGAGCCCAGCTCTAGTTGGAT
66 GAAGTTGCGCCAAGCGCTAGTCAGATAAACCGACGAATAATTAGTGAACCCAGCTCTAGTTGGAT
18891846 AAACCAACGATA
131 AAACCAACGATA
* * * *
18891858 TTTGCGCCCAGCGCTAGTCAGATGAACCTACAAATGTGTGCCCAGCACTAGTCAGATAAACTGAC
1 TTTGC-CCCAGCGCTAGTTAGATGAACCGAAAAATGTGTGCCCAGCACTAATCAGATAAACTGA-
* * *
18891923 GA-AAGTTGTGCCAAGCGCTAGTCAGATAAACCGACGAATAATTAGTGAACCTAGCTTTAGTTGG
64 GAGAAGTTGCGCCAAGCGCTAGTCAGATAAACCGACGAATAATTAGTGAACCCAGCTCTAGTTGG
18891987 ATAAACCAACGATA
129 ATAAACCAACGATA
*
18892001 TTTGCACCCAGCGCTAGTTAAATGAA
1 TTTGC-CCCAGCGCTAGTTAGATGAA
18892027 TCAACGATGT
Statistics
Matches: 146, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
142 5 0.03
143 140 0.96
144 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (142 bp):
TTTGCCCCAGCGCTAGTTAGATGAACCGAAAAATGTGTGCCCAGCACTAATCAGATAAACTGAGA
GAAGTTGCGCCAAGCGCTAGTCAGATAAACCGACGAATAATTAGTGAACCCAGCTCTAGTTGGAT
AAACCAACGATA
Found at i:18892233 original size:36 final size:36
Alignment explanation
Indices: 18892162--18892234 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
18892152 AATTTCACAT
***
18892162 TCCATAAATCTCCATTCAATTGAATTAATTTTTACA
1 TCCATAAATCTCCATTCAATTGAATTAACAATTACA
*
18892198 TCCATAAA-CTTCCATTCAATTTAATTAACAATTACA
1 TCCATAAATC-TCCATTCAATTGAATTAACAATTACA
18892234 T
1 T
18892235 TAGGGATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 1 0.03
36 31 0.97
ACGTcount: A:0.38, C:0.21, G:0.01, T:0.40
Consensus pattern (36 bp):
TCCATAAATCTCCATTCAATTGAATTAACAATTACA
Found at i:18896278 original size:44 final size:43
Alignment explanation
Indices: 18896196--18896281 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 43
18896186 AACGTTGACA
* *
18896196 TTGATCTAAGATATCGTGTAAGACCGTGGATGGGACATAGGCC
1 TTGATCTAAGATATCGTGTAAGACCATGGATGGAACATAGGCC
* * **
18896239 TTGATTTAAGATTTACGTGTAAGACCATGTCTGGAACATAGGC
1 TTGATCTAAGATAT-CGTGTAAGACCATGGATGGAACATAGGC
18896282 ATCAAATCTG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 12 0.33
44 24 0.67
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (43 bp):
TTGATCTAAGATATCGTGTAAGACCATGGATGGAACATAGGCC
Found at i:18896316 original size:42 final size:43
Alignment explanation
Indices: 18896248--18896354 Score: 146
Period size: 42 Copynumber: 2.5 Consensus size: 43
18896238 CTTGATTTAA
*
18896248 GATTTACGTGTAAGACCATGTCTGGAACATAGGCATCAAATCT
1 GATTTACGTGTAAGACCATGTCTGGAACAAAGGCATCAAATCT
* *
18896291 GATTT-CGTGTAAGACCCTGTTTGGAACAAAGGCATC-AATACT
1 GATTTACGTGTAAGACCATGTCTGGAACAAAGGCATCAAAT-CT
* *
18896333 GAATTACATGTAAGACCATGTC
1 GATTTACGTGTAAGACCATGTC
18896355 CGGGACGTCG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 3 0.05
42 34 0.62
43 18 0.33
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (43 bp):
GATTTACGTGTAAGACCATGTCTGGAACAAAGGCATCAAATCT
Found at i:18897922 original size:50 final size:50
Alignment explanation
Indices: 18897847--18897947 Score: 139
Period size: 50 Copynumber: 2.0 Consensus size: 50
18897837 ATTTATTTCT
*
18897847 CCATAAGTGTAGCATAAAATTAAACACTCTCCAAACACACCCCACATATC
1 CCATAAGTGTAGCATAAAACTAAACACTCTCCAAACACACCCCACATATC
* * ** * *
18897897 CCATAAGTGTAGTATAAAGCTAAACACTCTCCATTCACACCCTATATATC
1 CCATAAGTGTAGCATAAAACTAAACACTCTCCAAACACACCCCACATATC
18897947 C
1 C
18897948 TTAGGGCCTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.39, C:0.31, G:0.07, T:0.24
Consensus pattern (50 bp):
CCATAAGTGTAGCATAAAACTAAACACTCTCCAAACACACCCCACATATC
Found at i:18898083 original size:32 final size:32
Alignment explanation
Indices: 18898042--18898104 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
18898032 GAGATCACAA
18898042 AGTCAAATATAAATGTATAAGCAGTTCATATT
1 AGTCAAATATAAATGTATAAGCAGTTCATATT
18898074 AGTCAAATATAAATGTATAAGCAGTTCATAT
1 AGTCAAATATAAATGTATAAGCAGTTCATAT
18898105 CATACTTACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (32 bp):
AGTCAAATATAAATGTATAAGCAGTTCATATT
Found at i:18900262 original size:143 final size:143
Alignment explanation
Indices: 18900004--18900287 Score: 541
Period size: 143 Copynumber: 2.0 Consensus size: 143
18899994 TTTAATTTTT
18900004 TTCTTCGAATTGATTCGAATAATTTAATTAACTTGATCTATTTAATTCAAAATTTAAAATTTTTA
1 TTCTTCGAATTGATTCGAATAATTTAATTAACTTGATCTATTTAATTCAAAATTTAAAATTTTTA
*
18900069 TCAAAATTTTTGAATTGAATCGAGTTTTGTTCACACTTTTGTATTCCGAATCAATAAAACCTTAT
66 TCAAAATTTTTGAATTGAATCGAGTTTTGTTCACACTTTTATATTCCGAATCAATAAAACCTTAT
18900134 TAAAAGGAGATGA
131 TAAAAGGAGATGA
*
18900147 TTCTTCGAATTGATTCGAATAATTTAATTAACTTGATCTATTTAATTTAAAATTTAAAATTTTTA
1 TTCTTCGAATTGATTCGAATAATTTAATTAACTTGATCTATTTAATTCAAAATTTAAAATTTTTA
*
18900212 TCGAAATTTTTGAATTGAATCGAGTTTTGTTCACACTTTTATATTCCGAATCAATAAAACCTTAT
66 TCAAAATTTTTGAATTGAATCGAGTTTTGTTCACACTTTTATATTCCGAATCAATAAAACCTTAT
18900277 TAAAAGGAGAT
131 TAAAAGGAGAT
18900288 AAAAACTTGT
Statistics
Matches: 138, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
143 138 1.00
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (143 bp):
TTCTTCGAATTGATTCGAATAATTTAATTAACTTGATCTATTTAATTCAAAATTTAAAATTTTTA
TCAAAATTTTTGAATTGAATCGAGTTTTGTTCACACTTTTATATTCCGAATCAATAAAACCTTAT
TAAAAGGAGATGA
Found at i:18902177 original size:21 final size:21
Alignment explanation
Indices: 18902153--18902193 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
18902143 GTTCCACAAG
18902153 TAACCAAACTTGAACCGCAAA
1 TAACCAAACTTGAACCGCAAA
*
18902174 TAACCAAACTTGAACTGCAA
1 TAACCAAACTTGAACCGCAA
18902194 GAATCAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.46, C:0.27, G:0.10, T:0.17
Consensus pattern (21 bp):
TAACCAAACTTGAACCGCAAA
Found at i:18915790 original size:21 final size:21
Alignment explanation
Indices: 18915732--18915790 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
18915722 GGAGACCTAT
* *
18915732 AAGGGTTAAACTGAAGCTCAA
1 AAGGGTTAAACTGAAACCCAA
* * * * *
18915753 AAGAGCTGAATTGAAACCCAG
1 AAGGGTTAAACTGAAACCCAA
18915774 AAGGGTTAAACTGAAAC
1 AAGGGTTAAACTGAAAC
18915791 TCCTATGAGT
Statistics
Matches: 27, Mismatches: 11, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.24, T:0.17
Consensus pattern (21 bp):
AAGGGTTAAACTGAAACCCAA
Found at i:18926962 original size:17 final size:18
Alignment explanation
Indices: 18926940--18926974 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
18926930 AGGCTAGGCC
18926940 GTGTGGG-CCACACGGGT
1 GTGTGGGCCCACACGGGT
18926957 GTGTGGGCCCACACGGGT
1 GTGTGGGCCCACACGGGT
18926975 AGACAACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.11, C:0.26, G:0.46, T:0.17
Consensus pattern (18 bp):
GTGTGGGCCCACACGGGT
Found at i:18933732 original size:27 final size:27
Alignment explanation
Indices: 18933701--18933756 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
18933691 CACAAACCCT
18933701 AATTTGAAATTTTGAGTTATAATTGGC
1 AATTTGAAATTTTGAGTTATAATTGGC
18933728 AATTTGAAATTTTGAGTTATAATTGGC
1 AATTTGAAATTTTGAGTTATAATTGGC
18933755 AA
1 AA
18933757 AATTGAAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.04, G:0.18, T:0.43
Consensus pattern (27 bp):
AATTTGAAATTTTGAGTTATAATTGGC
Found at i:18936381 original size:42 final size:42
Alignment explanation
Indices: 18936322--18936445 Score: 171
Period size: 42 Copynumber: 3.0 Consensus size: 42
18936312 CGTTTTCTCA
** *
18936322 ATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT-G
1 ATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-ATCG
*
18936364 ATGCCATAGCCCAACTATGGTCTTACACATATTCATATATCG
1 ATGCCATAGCCCAACTATGGTCTTACACATATTCACATATCG
* *
18936406 ATGCCATAGCCCAGCTATGGTCTTACACA-AATCACATATC
1 ATGCCATAGCCCAACTATGGTCTTACACATATTCACATATC
18936446 TCACTGATGC
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 11 0.15
42 63 0.85
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATTCACATATCG
Found at i:18936507 original size:47 final size:46
Alignment explanation
Indices: 18936404--18936526 Score: 165
Period size: 47 Copynumber: 2.7 Consensus size: 46
18936394 ATTCATATAT
* * * * *
18936404 CGATGCCATAGCCCAGCTATGGTCTTACACAAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACAAAGCACATATCACAC
* * *
18936450 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATACA-AAGCACATATCACAC
18936497 CGATGCCATATCCCAGATATGGTCTTATAC
1 CGATGCCATATCCCAGATATGGTCTTATAC
18936527 GGAAATCACT
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
46 27 0.40
47 40 0.60
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACAAAGCACATATCACAC
Found at i:18936595 original size:31 final size:30
Alignment explanation
Indices: 18936560--18936669 Score: 157
Period size: 31 Copynumber: 3.6 Consensus size: 30
18936550 TTGTAGCCGA
*
18936560 AGCTACCACTATTCACTGATCAGGTAGTCGG
1 AGCTACCACTTTTCACTGATCAGGTAG-CGG
*
18936591 AGCTACCATTTTTCACTGATCAGGTAGCCGG
1 AGCTACCACTTTTCACTGATCAGGTAG-CGG
* *
18936622 AGCTACCACTTTTCATTGATCAGGTAGCTGA
1 AGCTACCACTTTTCACTGATCAGGTAGC-GG
18936653 AGCTACCACTTTTCACT
1 AGCTACCACTTTTCACT
18936670 TGTCATTTGT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
30 1 0.01
31 70 0.99
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (30 bp):
AGCTACCACTTTTCACTGATCAGGTAGCGG
Found at i:18936657 original size:62 final size:62
Alignment explanation
Indices: 18936552--18936669 Score: 175
Period size: 62 Copynumber: 1.9 Consensus size: 62
18936542 CTTGTCACTT
* *
18936552 GTAGCCGAAGCTACCACTATTCACTGATCAGGTAGTCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTGATCAGGTAGTCGAAGCTACCACTTTTCACTGATCAG
* * *
18936614 GTAGCCGGAGCTACCACTTTTCATTGATCAGGTAG-CTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTATTCACTGATCAGGTAGTC-GAAGCTACCACTTTTCACT
18936670 TGTCATTTGT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
61 1 0.02
62 49 0.98
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (62 bp):
GTAGCCGAAGCTACCACTATTCACTGATCAGGTAGTCGAAGCTACCACTTTTCACTGATCAG
Found at i:18936751 original size:50 final size:50
Alignment explanation
Indices: 18936645--18936821 Score: 266
Period size: 50 Copynumber: 3.5 Consensus size: 50
18936635 CATTGATCAG
* * * * *
18936645 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTATCCTTGATCAGATAAGT
18936696 GTAGCCGAAGCTATCACTTATCACTTTCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCA-TTTATCCTTGATCAGATAAGT
*
18936746 GTAGCCGAAGCTATTACTTATCACTTTCATTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTATCCTTGATCAGATAAGT
*
18936796 GTAGCCAAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
18936822 GTTGCCATGG
Statistics
Matches: 117, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
49 3 0.03
50 88 0.75
51 26 0.22
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTATCCTTGATCAGATAAGT
Found at i:18940149 original size:18 final size:17
Alignment explanation
Indices: 18940113--18940168 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
18940103 TCTAAAAAGT
18940113 ATAAAAAAAAGTAATAA
1 ATAAAAAAAAGTAATAA
18940130 ATAAATAAATAAGT-ATAA
1 ATAAA-AAA-AAGTAATAA
***
18940148 ATTTTAAAAAGTAATTAA
1 ATAAAAAAAAGTAA-TAA
18940166 ATA
1 ATA
18940169 TTTTTAGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
16 4 0.13
17 9 0.29
18 14 0.45
19 4 0.13
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (17 bp):
ATAAAAAAAAGTAATAA
Found at i:18940224 original size:27 final size:28
Alignment explanation
Indices: 18940154--18940226 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 28
18940144 ATAAATTTTA
* * * *
18940154 AAAAGTAATTAAATATTTTTAGAAAAAT
1 AAAAGAAATTTAATATTATTATAAAAAT
18940182 AAAAGAAA--T-ATA-TATTATAAAAAT
1 AAAAGAAATTTAATATTATTATAAAAAT
18940206 AAAA-AAATTTAATATTATTAT
1 AAAAGAAATTTAATATTATTAT
18940227 GAATATCTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
23 3 0.08
24 14 0.38
25 4 0.11
26 3 0.08
27 6 0.16
28 7 0.19
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (28 bp):
AAAAGAAATTTAATATTATTATAAAAAT
Found at i:18944840 original size:6 final size:6
Alignment explanation
Indices: 18944829--18944859 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
18944819 ATTTTTTGAA
18944829 TATTTT TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT TATTTT T
18944860 CTAAAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:18945050 original size:21 final size:21
Alignment explanation
Indices: 18945026--18945074 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
18945016 TTTGTCTACG
18945026 TGTCACCTTCATGTTGGGCCA
1 TGTCACCTTCATGTTGGGCCA
18945047 TGTCACCTTCATGTTGGGCCA
1 TGTCACCTTCATGTTGGGCCA
18945068 TGTCACC
1 TGTCACC
18945075 CAATTGTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.14, C:0.31, G:0.22, T:0.33
Consensus pattern (21 bp):
TGTCACCTTCATGTTGGGCCA
Found at i:18945438 original size:95 final size:95
Alignment explanation
Indices: 18945330--18945516 Score: 320
Period size: 95 Copynumber: 2.0 Consensus size: 95
18945320 GTTGATATTA
* *
18945330 ATCCTAAGTTCATGAAAATTTAAAGAATAAAGAGTACTACGAGAATTTAACCCAAGTGAAGTGAG
1 ATCCTAAGTTCATGAAAATTTAAAGAATAAAAAGTACTACGAGAATTTAACCAAAGTGAAGTGAG
*
18945395 AAAAGATTTGTTAAAATCTTTCTATGAAAT
66 AAAAGATTCGTTAAAATCTTTCTATGAAAT
* * *
18945425 ATCCTGAGTTCATGAAAATTTAAAGAATAAAAAGTATTACGTGAATTTAACCAAAGTGAAGTGAG
1 ATCCTAAGTTCATGAAAATTTAAAGAATAAAAAGTACTACGAGAATTTAACCAAAGTGAAGTGAG
18945490 AAAAGATTCGTTAAAATCTTTCTATGA
66 AAAAGATTCGTTAAAATCTTTCTATGA
18945517 CATGAACTAA
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 86 1.00
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (95 bp):
ATCCTAAGTTCATGAAAATTTAAAGAATAAAAAGTACTACGAGAATTTAACCAAAGTGAAGTGAG
AAAAGATTCGTTAAAATCTTTCTATGAAAT
Found at i:18956511 original size:16 final size:16
Alignment explanation
Indices: 18956490--18956521 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
18956480 GGTCCATGTT
18956490 ACAAAGGCATAGGTTG
1 ACAAAGGCATAGGTTG
18956506 ACAAAGGCATAGGTTG
1 ACAAAGGCATAGGTTG
18956522 TCTAGCCTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.31, T:0.19
Consensus pattern (16 bp):
ACAAAGGCATAGGTTG
Found at i:18958996 original size:31 final size:30
Alignment explanation
Indices: 18958936--18959014 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 30
18958926 AAAAGCTTAG
* *
18958936 GTACCAAATTAGGAAATAGCATAAGTTCAA
1 GTACCAAATTAGGAAAAAGCACAAGTTCAA
18958966 GTACCAAATTAGGAAAAAGTGC-CAAGTTCAA
1 GTACCAAATTAGGAAAAA--GCACAAGTTCAA
*
18958997 GTATCAAATT-GGACAAAA
1 GTACCAAATTAGGA-AAAA
18959015 AAAAAACCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
30 20 0.47
31 21 0.49
32 2 0.05
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.22
Consensus pattern (30 bp):
GTACCAAATTAGGAAAAAGCACAAGTTCAA
Found at i:18962426 original size:156 final size:156
Alignment explanation
Indices: 18962235--18962547 Score: 493
Period size: 156 Copynumber: 2.0 Consensus size: 156
18962225 CCTAATTGTA
* *
18962235 TGTATTGTGAAAAAAGTGGCCACATACGTGATACATATTGAGCTCTACATAGCCGACCTTCTCAT
1 TGTATTGTGAAAAAAGTGGCCACATACATGATACATATTGAGCTCTACATAGCCAACCTTCTCAT
*** *
18962300 AATATTCAGCCCATTGTTCATTTAGCCTACGTTCAACGAGATGGACTTCTTTTGCTTAGAATTGC
66 AATATTCAGCCCATTGTTCATTTAGCCTACGTTCAACGAGATGGACTTCTTCCACTTACAATTGC
*
18962365 TCAAGGGGCCAAATTATGATGAATAT
131 TCAAGAGGCCAAATTATGATGAATAT
* * *
18962391 TGTATTGT-AAAAAATGTGGCCACATACATGATACATGTTGGGCTCTACATGGCCAACCTTCTCA
1 TGTATTGTGAAAAAA-GTGGCCACATACATGATACATATTGAGCTCTACATAGCCAACCTTCTCA
* * *
18962455 TAATATTCAGCCCATTGTTCATTTAGCCTAGGTTTAAGGAGATGGACTTCTTCCACTTACAATTG
65 TAATATTCAGCCCATTGTTCATTTAGCCTACGTTCAACGAGATGGACTTCTTCCACTTACAATTG
18962520 CTCAAGAGGCCAAATTATGATGAATAT
130 CTCAAGAGGCCAAATTATGATGAATAT
18962547 T
1 T
18962548 TACAATATCA
Statistics
Matches: 143, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
155 6 0.04
156 137 0.96
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (156 bp):
TGTATTGTGAAAAAAGTGGCCACATACATGATACATATTGAGCTCTACATAGCCAACCTTCTCAT
AATATTCAGCCCATTGTTCATTTAGCCTACGTTCAACGAGATGGACTTCTTCCACTTACAATTGC
TCAAGAGGCCAAATTATGATGAATAT
Found at i:18965677 original size:48 final size:48
Alignment explanation
Indices: 18965606--18965702 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
18965596 TACCATAAAG
18965606 AATGCCATTAATGAACAAATTAATCAACTCATACATCATCTAGCACCT
1 AATGCCATTAATGAACAAATTAATCAACTCATACATCATCTAGCACCT
*
18965654 AATGCCCTTAATGAACAAATTAATCAACTCATACATCATCTAGCACCT
1 AATGCCATTAATGAACAAATTAATCAACTCATACATCATCTAGCACCT
18965702 A
1 A
18965703 CCCAGTACCC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.41, C:0.26, G:0.06, T:0.27
Consensus pattern (48 bp):
AATGCCATTAATGAACAAATTAATCAACTCATACATCATCTAGCACCT
Found at i:18966279 original size:15 final size:15
Alignment explanation
Indices: 18966255--18966291 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
18966245 AAAAGAAAAG
18966255 AAAA-ATCCAAAGCT
1 AAAAGATCCAAAGCT
18966269 AAAAGATCCAAAGCT
1 AAAAGATCCAAAGCT
18966284 AAAAGATC
1 AAAAGATC
18966292 ATAAGAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.57, C:0.19, G:0.11, T:0.14
Consensus pattern (15 bp):
AAAAGATCCAAAGCT
Found at i:18971437 original size:15 final size:15
Alignment explanation
Indices: 18971417--18971445 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18971407 ACACATACTT
18971417 CAAATTCTAAGTGCA
1 CAAATTCTAAGTGCA
18971432 CAAATTCTAAGTGC
1 CAAATTCTAAGTGC
18971446 CCTCACCTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.28
Consensus pattern (15 bp):
CAAATTCTAAGTGCA
Found at i:18972228 original size:3 final size:3
Alignment explanation
Indices: 18972220--18972245 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18972210 ATCAAACAAT
18972220 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
18972246 GGATATGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:18974094 original size:20 final size:20
Alignment explanation
Indices: 18974052--18974094 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
18974042 TAAGACATGG
*
18974052 AATTAATTAGAAATTAAATC
1 AATTAATTAGAAAATAAATC
*
18974072 AATTAGATTATAAAATAAA-C
1 AATTA-ATTAGAAAATAAATC
18974092 AAT
1 AAT
18974095 ACAGGGGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
AATTAATTAGAAAATAAATC
Found at i:18974909 original size:18 final size:18
Alignment explanation
Indices: 18974886--18974924 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
18974876 GTGGTCAAAT
*
18974886 ATGGTTAAGTGTAAATGC
1 ATGGTTAAATGTAAATGC
18974904 ATGGTTAAATGTAAATGC
1 ATGGTTAAATGTAAATGC
18974922 ATG
1 ATG
18974925 TATATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (18 bp):
ATGGTTAAATGTAAATGC
Found at i:18975804 original size:16 final size:18
Alignment explanation
Indices: 18975782--18975827 Score: 62
Period size: 16 Copynumber: 2.7 Consensus size: 18
18975772 TGATTTTGTA
18975782 TATTATGAAATATAT-TG
1 TATTATGAAATATATATG
18975799 -ATTATG-AATATATATG
1 TATTATGAAATATATATG
*
18975815 TATTAAGAAATAT
1 TATTATGAAATAT
18975828 GTGATTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 7 0.28
16 8 0.32
17 5 0.20
18 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (18 bp):
TATTATGAAATATATATG
Found at i:18975809 original size:25 final size:26
Alignment explanation
Indices: 18975761--18975814 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
18975751 CATAATTGAA
* * *
18975761 ATGAAATGGATTGATTTTGTATAT-T
1 ATGAAATAGATTGATTATGAATATAT
*
18975786 ATGAAATATATTGATTATGAATATAT
1 ATGAAATAGATTGATTATGAATATAT
18975812 ATG
1 ATG
18975815 TATTAAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (26 bp):
ATGAAATAGATTGATTATGAATATAT
Found at i:18975819 original size:17 final size:15
Alignment explanation
Indices: 18975782--18975827 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 15
18975772 TGATTTTGTA
18975782 TATTATGAAATATAT
1 TATTATGAAATATAT
18975797 TGATTATGAATATATAT
1 T-ATTATGAA-ATATAT
*
18975814 GTATTAAGAAATAT
1 -TATTATGAAATAT
18975828 GTGATTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 1 0.04
16 12 0.44
17 13 0.48
18 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (15 bp):
TATTATGAAATATAT
Found at i:18976271 original size:7 final size:7
Alignment explanation
Indices: 18976261--18976285 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18976251 TTGAAATGAC
18976261 AAATATG
1 AAATATG
18976268 AAATATG
1 AAATATG
18976275 AAATATG
1 AAATATG
18976282 AAAT
1 AAAT
18976286 GATAAATTGA
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:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (7 bp):
AAATATG
Found at i:18976292 original size:14 final size:14
Alignment explanation
Indices: 18976232--18976292 Score: 61
Period size: 14 Copynumber: 4.2 Consensus size: 14
18976222 ATGAGAAATG
* *
18976232 AATATGAGATGAGAA
1 AATATGAAATGA-TA
*
18976247 AATATTGAAATGACA
1 AATA-TGAAATGATA
18976262 AATATGAAAT-ATGA
1 AATATGAAATGAT-A
18976276 AATATGAAATGATA
1 AATATGAAATGATA
18976290 AAT
1 AAT
18976293 TGATATGTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
13 1 0.03
14 21 0.52
15 11 0.28
16 7 0.17
ACGTcount: A:0.56, C:0.02, G:0.16, T:0.26
Consensus pattern (14 bp):
AATATGAAATGATA
Found at i:18978158 original size:22 final size:24
Alignment explanation
Indices: 18978121--18978169 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
18978111 AGGCTATGTT
* *
18978121 GTATGTTGACTAGTTTATATTTTG
1 GTATGTTGACTAGTTTAAAGTTTG
18978145 GTATG-TGA-TAGTTTAAAGTTTG
1 GTATGTTGACTAGTTTAAAGTTTG
18978167 GTA
1 GTA
18978170 GCTTAGCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 15 0.65
23 3 0.13
24 5 0.22
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.49
Consensus pattern (24 bp):
GTATGTTGACTAGTTTAAAGTTTG
Found at i:18978531 original size:13 final size:13
Alignment explanation
Indices: 18978513--18978546 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18978503 GCATGTGTCG
*
18978513 CACATGGGGAACA
1 CACATGGGCAACA
18978526 CACATGGGCAACA
1 CACATGGGCAACA
*
18978539 CATATGGG
1 CACATGGG
18978547 TGTGTGACCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.35, C:0.24, G:0.29, T:0.12
Consensus pattern (13 bp):
CACATGGGCAACA
Found at i:18978987 original size:49 final size:49
Alignment explanation
Indices: 18978897--18978990 Score: 134
Period size: 49 Copynumber: 1.9 Consensus size: 49
18978887 TCAAGAAGGG
* *
18978897 ATAAAAAGTGATAAGAGTGTAGACAGTGGAAAACTAAGTTTAGCAATGT
1 ATAAAAAGTGATAAGAGTGTAGACAATGGAAAACCAAGTTTAGCAATGT
* ** *
18978946 ATAAATAGTGATAAGAGTGTAGACAATGGAAGTCCAGGTTTAGCA
1 ATAAAAAGTGATAAGAGTGTAGACAATGGAAAACCAAGTTTAGCA
18978991 TAGCATAGCA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.43, C:0.07, G:0.26, T:0.24
Consensus pattern (49 bp):
ATAAAAAGTGATAAGAGTGTAGACAATGGAAAACCAAGTTTAGCAATGT
Found at i:18980625 original size:40 final size:40
Alignment explanation
Indices: 18980527--18980782 Score: 320
Period size: 40 Copynumber: 6.4 Consensus size: 40
18980517 TCCTCGTTCA
* * * * *
18980527 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
18980566 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
18980606 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
18980646 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
18980686 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
18980726 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
*
18980766 AAAGCCTTCGGGACTTA
1 AATGCCTTCGGGACTTA
18980783 GCCCAGACAG
Statistics
Matches: 195, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 37 0.19
40 150 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:18988454 original size:40 final size:40
Alignment explanation
Indices: 18988356--18988618 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
18988346 TCCTCGTTCA
* * * * *
18988356 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
18988395 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
18988435 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
18988475 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
18988515 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * * *
18988555 AAGGCCTTC-GAATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
18988595 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
18988619 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 36 0.18
40 155 0.78
41 7 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:18990915 original size:23 final size:23
Alignment explanation
Indices: 18990864--18990938 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 23
18990854 TTGGTGGGTG
* *
18990864 CATTCTAGCACTAAGGGGCAACT
1 CATTCTAGCACTAAGGTGCAATT
* * *
18990887 CGTTCTAGCTCTATGGTGCAATT
1 CATTCTAGCACTAAGGTGCAATT
* * *
18990910 CATTCTGGCGCTACA-ATGCAATT
1 CATTCTAGCACTA-AGGTGCAATT
18990933 CATTCT
1 CATTCT
18990939 GGTGCTACAG
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (23 bp):
CATTCTAGCACTAAGGTGCAATT
Found at i:18990939 original size:23 final size:23
Alignment explanation
Indices: 18990903--18990964 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
18990893 AGCTCTATGG
18990903 TGCAATTCATTCTGGCGCTACAA
1 TGCAATTCATTCTGGCGCTACAA
* *
18990926 TGCAATTCATTCTGGTGCTACAG
1 TGCAATTCATTCTGGCGCTACAA
*
18990949 TGCAATTCAATCTGGC
1 TGCAATTCATTCTGGC
18990965 ACTTTGATGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.32
Consensus pattern (23 bp):
TGCAATTCATTCTGGCGCTACAA
Found at i:18994270 original size:37 final size:37
Alignment explanation
Indices: 18994229--18994414 Score: 309
Period size: 37 Copynumber: 5.0 Consensus size: 37
18994219 GCTAAAGCTA
* *
18994229 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
18994266 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
* *
18994303 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
18994340 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
18994377 CCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
18994414 C
1 C
18994415 TAAAACTACC
Statistics
Matches: 142, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 142 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.38
Consensus pattern (37 bp):
CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
Found at i:18998863 original size:22 final size:22
Alignment explanation
Indices: 18998835--18998881 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
18998825 GTATATATAT
18998835 AAAAAAAAGGAATA-AAAGAAAG
1 AAAAAAAA-GAATAGAAAGAAAG
*
18998857 AAAAAAAAGAATAGAAAGGAAG
1 AAAAAAAAGAATAGAAAGAAAG
18998879 AAA
1 AAA
18998882 CAAAGCAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (22 bp):
AAAAAAAAGAATAGAAAGAAAG
Found at i:19000158 original size:3 final size:3
Alignment explanation
Indices: 19000150--19000184 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
19000140 GTGGAATGGA
*
19000150 GAG GAG GAG GAA GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
19000185 ATATATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:19000965 original size:46 final size:46
Alignment explanation
Indices: 19000890--19001090 Score: 348
Period size: 46 Copynumber: 4.4 Consensus size: 46
19000880 AGTGTGCTCT
* * *
19000890 CTGAAATGAAATGTATAAGACCATAGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
19000936 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
19000982 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
19001028 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
19001074 ATGATATAAAATGTGTA
1 CTGATATGAAATGTGTA
19001091 CCACGGCAAC
Statistics
Matches: 148, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 148 1.00
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.25
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:19001112 original size:27 final size:27
Alignment explanation
Indices: 19001062--19001113 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
19001052 GGTTGAAAGA
* *
19001062 TACCATGGCAACATGATATAAAATGTG
1 TACCACGGCAACATGACATAAAATGTG
* *
19001089 TACCACGGCAACGTGACATGAAATG
1 TACCACGGCAACATGACATAAAATG
19001114 AATAAGACCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.21
Consensus pattern (27 bp):
TACCACGGCAACATGACATAAAATGTG
Found at i:19001124 original size:119 final size:120
Alignment explanation
Indices: 19000970--19001197 Score: 341
Period size: 119 Copynumber: 1.9 Consensus size: 120
19000960 GGTTGAAAGA
* * ** * * * *
19000970 TACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACCTGATAT
1 TACCACGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
**
19001035 G-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATAAAATGTG
66 GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATATAAAATGTG
* *
19001089 TACCACGGCAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGG
1 TACCACGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
19001154 GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGA
66 GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGA
19001198 CAAAAACGGG
Statistics
Matches: 96, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
119 56 0.58
120 40 0.42
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.21
Consensus pattern (120 bp):
TACCACGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATATAAAATGTG
Found at i:19001166 original size:47 final size:45
Alignment explanation
Indices: 19001089--19001241 Score: 180
Period size: 47 Copynumber: 3.3 Consensus size: 45
19001079 ATAAAATGTG
* * *
19001089 TACCACGGCAACGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TACCATGGCAACATGACA-AAAATGAATAAGACCATGGTTGAAAGA
*
19001135 TACCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGA
1 TACCATGGCAACATGAC--AAAAATGAATAAGACCATGGTTGAAAGA
* ** * *
19001182 TACCATGGCAACATGACAAAAACGGGTAAAACCATAGTTGAAAGA
1 TACCATGGCAACATGACAAAAATGAATAAGACCATGGTTGAAAGA
* *
19001227 TACTATGGCATCATG
1 TACCATGGCAACATG
19001242 TCGAAGATAA
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
45 35 0.38
46 15 0.16
47 43 0.46
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.18
Consensus pattern (45 bp):
TACCATGGCAACATGACAAAAATGAATAAGACCATGGTTGAAAGA
Found at i:19001224 original size:165 final size:165
Alignment explanation
Indices: 19000924--19001241 Score: 431
Period size: 165 Copynumber: 1.9 Consensus size: 165
19000914 AGTTGAAAGA
* * ** * * *
19000924 TACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT
1 TACCACGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
** * * * * * * * *
19000989 GAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACCTGATATGAAATGTGTAAGACCATGG
66 GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATAAAACGGGTAAAACCATAG
19001054 TTGAAAGATACCATGGCAACATGATATAAAATGTG
131 TTGAAAGATACCATGGCAACATGATATAAAATGTG
* *
19001089 TACCACGGCAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGG
1 TACCACGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
19001154 GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-AAAACGGGTAAAACCATA
66 G-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATAAAACGGGTAAAACCATA
* *
19001218 GTTGAAAGATACTATGGCATCATG
130 GTTGAAAGATACCATGGCAACATG
19001242 TCGAAGATAA
Statistics
Matches: 131, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
165 92 0.70
166 39 0.30
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.22
Consensus pattern (165 bp):
TACCACGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATAAAACGGGTAAAACCATAG
TTGAAAGATACCATGGCAACATGATATAAAATGTG
Found at i:19002915 original size:8 final size:8
Alignment explanation
Indices: 19002902--19002930 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
19002892 TTATGTTTAA
19002902 TATATTAT
1 TATATTAT
19002910 TATATTAT
1 TATATTAT
19002918 TATATTAT
1 TATATTAT
19002926 TATAT
1 TATAT
19002931 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:19002963 original size:5 final size:5
Alignment explanation
Indices: 19002953--19002984 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
19002943 TTATGTTTTA
19002953 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
19002985 AAACTAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:19003028 original size:21 final size:21
Alignment explanation
Indices: 19002992--19003052 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
19002982 TATAAACTAA
*
19002992 AGAAACA-AAAGAAAGGAAAT
1 AGAAACAGAATGAAAGGAAAT
19003012 AGAAACAGAATGAAAGGAAAT
1 AGAAACAGAATGAAAGGAAAT
*
19003033 AGAAACAGAATGAAACGAAA
1 AGAAACAGAATGAAAGGAAA
19003053 CAGAGAGCAG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 7 0.18
21 31 0.82
ACGTcount: A:0.66, C:0.07, G:0.21, T:0.07
Consensus pattern (21 bp):
AGAAACAGAATGAAAGGAAAT
Found at i:19004722 original size:21 final size:21
Alignment explanation
Indices: 19004687--19004782 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
19004677 AGGCACTTTA
19004687 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
19004710 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
19004731 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
19004752 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
19004773 TGTGTCGTAT
1 TGTGTCGTAT
19004783 ACTGATCAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 58 0.87
23 9 0.13
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:19004757 original size:42 final size:42
Alignment explanation
Indices: 19004674--19004782 Score: 137
Period size: 42 Copynumber: 2.5 Consensus size: 42
19004664 GGCTTTATCG
* *
19004674 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTA--TCAGGCACCTCGTGTGTCGT
*
19004718 ATCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCGT
* * * *
19004760 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGTAT
19004783 ACTGATCAGG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 38 0.67
44 19 0.33
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.36
Consensus pattern (42 bp):
ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCGT
Found at i:19007229 original size:26 final size:26
Alignment explanation
Indices: 19007199--19007264 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
19007189 AGTTTACTTA
19007199 GCGAACTAGGGTTCACAAGATAAGTT
1 GCGAACTAGGGTTCACAAGATAAGTT
* *
19007225 GCGAA-TAAGGGTTCACCAGGTAAGTT
1 GCGAACT-AGGGTTCACAAGATAAGTT
**
19007251 ATGAACTAGGGTTC
1 GCGAACTAGGGTTC
19007265 GCCAGTCTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
25 1 0.03
26 32 0.94
27 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (26 bp):
GCGAACTAGGGTTCACAAGATAAGTT
Found at i:19009001 original size:12 final size:12
Alignment explanation
Indices: 19008984--19009010 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
19008974 TGGTTTCAGT
19008984 GTATGACTTGTA
1 GTATGACTTGTA
19008996 GTATGACTTGTA
1 GTATGACTTGTA
19009008 GTA
1 GTA
19009011 GGAGAATACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (12 bp):
GTATGACTTGTA
Found at i:19014674 original size:38 final size:38
Alignment explanation
Indices: 19014623--19014699 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
19014613 CGTCTGGCCA
*
19014623 TATGTATTGAGGGATAGGTAGATAGATCATGGTGATTT
1 TATGTATTGAGGGATAGGTAGATACATCATGGTGATTT
19014661 TATGTATTGAGGGATAGGTAGATACATCATGGTGATTT
1 TATGTATTGAGGGATAGGTAGATACATCATGGTGATTT
19014699 T
1 T
19014700 GTAAAAATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.04, G:0.30, T:0.38
Consensus pattern (38 bp):
TATGTATTGAGGGATAGGTAGATACATCATGGTGATTT
Found at i:19016435 original size:32 final size:32
Alignment explanation
Indices: 19016399--19016462 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
19016389 TGCCGAGAGA
19016399 AAGAGTAACGTTAGAATTCTTTCAAACCGAGT
1 AAGAGTAACGTTAGAATTCTTTCAAACCGAGT
* *
19016431 AAGAGTAACGTTGGAATTCTTTCAAACTGAGT
1 AAGAGTAACGTTAGAATTCTTTCAAACCGAGT
19016463 TTAGAAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (32 bp):
AAGAGTAACGTTAGAATTCTTTCAAACCGAGT
Found at i:19023703 original size:30 final size:30
Alignment explanation
Indices: 19023669--19023728 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
19023659 TGAGCAGGAT
* * *
19023669 AACCAAAAGAGCAAGACTGCCTTTGGTGTC
1 AACCAAAAAAGCAAGACTACCTTCGGTGTC
19023699 AACCAAAAAAGCAAGACTACCTTCGGTGTC
1 AACCAAAAAAGCAAGACTACCTTCGGTGTC
19023729 GTGACATAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.18
Consensus pattern (30 bp):
AACCAAAAAAGCAAGACTACCTTCGGTGTC
Found at i:19025497 original size:20 final size:20
Alignment explanation
Indices: 19025459--19025522 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
19025449 ATGATAGCAC
* * *
19025459 AACAGCACAGAACAAAACAA
1 AACAGAACAGAGCAGAACAA
*
19025479 AATAGAACAGAGCAGAACAA
1 AACAGAACAGAGCAGAACAA
* *
19025499 AACAGAACAGAGTAGAACAG
1 AACAGAACAGAGCAGAACAA
19025519 AACA
1 AACA
19025523 AGAAATGTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.61, C:0.19, G:0.17, T:0.03
Consensus pattern (20 bp):
AACAGAACAGAGCAGAACAA
Found at i:19025508 original size:5 final size:5
Alignment explanation
Indices: 19025459--19025522 Score: 56
Period size: 5 Copynumber: 12.8 Consensus size: 5
19025449 ATGATAGCAC
* * * * * *
19025459 AACAG CACAG AACAA AACAA AATAG AACAG AGCAG AACAA AACAG AACAG
1 AACAG AACAG AACAG AACAG AACAG AACAG AACAG AACAG AACAG AACAG
**
19025509 AGTAG AACAG AACA
1 AACAG AACAG AACA
19025523 AGAAATGTAT
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
5 45 1.00
ACGTcount: A:0.61, C:0.19, G:0.17, T:0.03
Consensus pattern (5 bp):
AACAG
Found at i:19025519 original size:25 final size:25
Alignment explanation
Indices: 19025459--19025523 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
19025449 ATGATAGCAC
* *
19025459 AACAGCACAGAACAAAACAAAATAG
1 AACAGAACAGAACAAAACAAAACAG
* *
19025484 AACAGAGCAGAACAAAACAGAACAG
1 AACAGAACAGAACAAAACAAAACAG
**
19025509 AGTAGAACAGAACAA
1 AACAGAACAGAACAA
19025524 GAAATGTATG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.62, C:0.18, G:0.17, T:0.03
Consensus pattern (25 bp):
AACAGAACAGAACAAAACAAAACAG
Found at i:19027457 original size:31 final size:31
Alignment explanation
Indices: 19027416--19027474 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
19027406 ATTTCACATA
* *
19027416 CCCGTGTGGACTACCTATGTGGGCCCACACG
1 CCCGTATGGACTACCCATGTGGGCCCACACG
*
19027447 CCCGTATGGACTACCCGTGTGGGCCCAC
1 CCCGTATGGACTACCCATGTGGGCCCAC
19027475 GTTCTCGTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.15, C:0.37, G:0.29, T:0.19
Consensus pattern (31 bp):
CCCGTATGGACTACCCATGTGGGCCCACACG
Found at i:19034526 original size:22 final size:22
Alignment explanation
Indices: 19034498--19034548 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
19034488 GCGACAACAA
19034498 GGGTGTGTTTCAAAGCACACGG
1 GGGTGTGTTTCAAAGCACACGG
*
19034520 GGGTGTGTTTCAAAGTACACGG
1 GGGTGTGTTTCAAAGCACACGG
*
19034542 GCGTGTG
1 GGGTGTG
19034549 CATTGCCTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.39, T:0.25
Consensus pattern (22 bp):
GGGTGTGTTTCAAAGCACACGG
Found at i:19045601 original size:23 final size:23
Alignment explanation
Indices: 19045575--19045618 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
19045565 AAGTTTAAAG
* *
19045575 TTTAATTTTGGTTAATAAAATTT
1 TTTAATGTTGGTTAAGAAAATTT
19045598 TTTAATGTTGGTTAAGAAAAT
1 TTTAATGTTGGTTAAGAAAAT
19045619 GATAATTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (23 bp):
TTTAATGTTGGTTAAGAAAATTT
Found at i:19046323 original size:43 final size:43
Alignment explanation
Indices: 19046262--19046350 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
19046252 ACGTATATAC
19046262 GTGTGATAGAATTTCTAGTGTTGTATATAAAGATTTTAACTAA
1 GTGTGATAGAATTTCTAGTGTTGTATATAAAGATTTTAACTAA
19046305 GTGTGATAGAATTTCTAGTGTTGTATATAAAGATTTTAACTAA
1 GTGTGATAGAATTTCTAGTGTTGTATATAAAGATTTTAACTAA
19046348 GTG
1 GTG
19046351 GGGTGTCACT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.34, C:0.04, G:0.20, T:0.42
Consensus pattern (43 bp):
GTGTGATAGAATTTCTAGTGTTGTATATAAAGATTTTAACTAA
Found at i:19047382 original size:7 final size:7
Alignment explanation
Indices: 19047370--19047414 Score: 90
Period size: 7 Copynumber: 6.4 Consensus size: 7
19047360 TATTAAAAAA
19047370 GCAAGTT
1 GCAAGTT
19047377 GCAAGTT
1 GCAAGTT
19047384 GCAAGTT
1 GCAAGTT
19047391 GCAAGTT
1 GCAAGTT
19047398 GCAAGTT
1 GCAAGTT
19047405 GCAAGTT
1 GCAAGTT
19047412 GCA
1 GCA
19047415 TTAGTCATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (7 bp):
GCAAGTT
Found at i:19057474 original size:25 final size:25
Alignment explanation
Indices: 19057440--19057517 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 25
19057430 ATGTTCAAGC
* *
19057440 GAGCC-ATATCAGGAAGCTCACAAA
1 GAGCCTATATCAGGATGCTCATAAA
19057464 GAGCCTATATCAGGATGCTCATAAA
1 GAGCCTATATCAGGATGCTCATAAA
* ** *
19057489 AATTCTATATCAAGATGCTCATAAA
1 GAGCCTATATCAGGATGCTCATAAA
19057514 GAGC
1 GAGC
19057518 TGCGTTTGTG
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 5 0.11
25 39 0.89
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.22
Consensus pattern (25 bp):
GAGCCTATATCAGGATGCTCATAAA
Found at i:19058755 original size:18 final size:18
Alignment explanation
Indices: 19058732--19058766 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
19058722 GCAATAATTT
19058732 TAAAATAAATTTTCTTTA
1 TAAAATAAATTTTCTTTA
19058750 TAAAATAAATTTTCTTT
1 TAAAATAAATTTTCTTT
19058767 CTAACTCAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (18 bp):
TAAAATAAATTTTCTTTA
Found at i:19059325 original size:16 final size:16
Alignment explanation
Indices: 19059304--19059334 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19059294 CGTGTTATAG
19059304 CATATAAATTTGAAAT
1 CATATAAATTTGAAAT
*
19059320 CATATATATTTGAAA
1 CATATAAATTTGAAA
19059335 ATTTTTTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (16 bp):
CATATAAATTTGAAAT
Found at i:19063951 original size:25 final size:24
Alignment explanation
Indices: 19063912--19063964 Score: 88
Period size: 25 Copynumber: 2.2 Consensus size: 24
19063902 TTAGTTTTAC
19063912 TTTTTTTTATATATTATATTAGGT
1 TTTTTTTTATATATTATATTAGGT
*
19063936 TTTTATTTTATCTATTATATTAGGT
1 TTTT-TTTTATATATTATATTAGGT
19063961 TTTT
1 TTTT
19063965 GTTTCCTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 4 0.15
25 23 0.85
ACGTcount: A:0.23, C:0.02, G:0.08, T:0.68
Consensus pattern (24 bp):
TTTTTTTTATATATTATATTAGGT
Found at i:19071501 original size:17 final size:18
Alignment explanation
Indices: 19071448--19071519 Score: 103
Period size: 19 Copynumber: 3.9 Consensus size: 18
19071438 AATCATATCT
19071448 TCTAAGATTGTATATCATA
1 TCTAAGATTG-ATATCATA
19071467 TCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATA
19071485 TCTAAGATTG-TATCATA
1 TCTAAGATTGATATCATA
19071502 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
19071520 TGAAGATTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
17 16 0.33
18 16 0.33
19 17 0.35
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGATATCATA
Found at i:19071506 original size:35 final size:37
Alignment explanation
Indices: 19071441--19071519 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
19071431 ATTACAAAAT
19071441 CATATC-T-TCTAAGATTGTATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
19071477 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
19071512 CATATCAT
1 CATATCAT
19071520 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:19071517 original size:14 final size:15
Alignment explanation
Indices: 19071462--19071517 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
19071452 AGATTGTATA
19071462 TCATATCTAAGATTG
1 TCATATCTAAGATTG
19071477 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
19071495 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
19071512 -CATATC
1 TCATATC
19071518 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:19072267 original size:16 final size:16
Alignment explanation
Indices: 19072246--19072313 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
19072236 TTTGGTTCGC
19072246 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
19072262 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
19072278 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
*
19072294 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
19072310 TGTA
1 TGTA
19072314 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:19072353 original size:45 final size:41
Alignment explanation
Indices: 19072294--19072403 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 41
19072284 GGATTAGAGG
*
19072294 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * ***
19072336 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
19072379 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
19072404 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:19072566 original size:16 final size:16
Alignment explanation
Indices: 19072529--19072570 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
19072519 TTAATCATAT
*
19072529 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
19072545 TT-AAATATATTATAA
1 TTAAAATATATTATAA
19072560 TTAAAATATAT
1 TTAAAATATAT
19072571 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:19072577 original size:14 final size:15
Alignment explanation
Indices: 19072538--19072579 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
19072528 TTTAAACATA
*
19072538 ATTATTATTAAATAT
1 ATTATAATTAAATAT
19072553 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
19072567 A-TATAATTTAATA
1 ATTATAATTAAATA
19072580 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:19085195 original size:25 final size:25
Alignment explanation
Indices: 19085161--19085210 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
19085151 GTTTGTCGTG
19085161 GTCTTTATTGATGATATTCTGGTTT
1 GTCTTTATTGATGATATTCTGGTTT
19085186 GTCTTTATTGATGATATTCTGGTTT
1 GTCTTTATTGATGATATTCTGGTTT
19085211 ACTCTAAGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.08, G:0.20, T:0.56
Consensus pattern (25 bp):
GTCTTTATTGATGATATTCTGGTTT
Found at i:19087160 original size:14 final size:15
Alignment explanation
Indices: 19087141--19087203 Score: 76
Period size: 15 Copynumber: 4.3 Consensus size: 15
19087131 CGTGGTTCGC
19087141 TGTATTGGATTAGA-
1 TGTATTGGATTAGAG
19087155 TGTATTGGATTAGAG
1 TGTATTGGATTAGAG
* *
19087170 TGTAATGGAATAGAGG
1 TGTATTGGATTAGA-G
*
19087186 TGTA-TGGAATAGAG
1 TGTATTGGATTAGAG
19087200 TGTA
1 TGTA
19087204 ATAGCAAATC
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
14 19 0.42
15 21 0.47
16 5 0.11
ACGTcount: A:0.32, C:0.00, G:0.33, T:0.35
Consensus pattern (15 bp):
TGTATTGGATTAGAG
Found at i:19087456 original size:16 final size:16
Alignment explanation
Indices: 19087419--19087460 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
19087409 TTAATCATAT
*
19087419 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
19087435 TT-AAATATATTATAA
1 TTAAAATATATTATAA
19087450 TTAAAATATAT
1 TTAAAATATAT
19087461 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:19087467 original size:14 final size:15
Alignment explanation
Indices: 19087428--19087469 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
19087418 TTTAAACATA
*
19087428 ATTATTATTAAATAT
1 ATTATAATTAAATAT
19087443 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
19087457 A-TATAATTTAATA
1 ATTATAATTAAATA
19087470 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:19091341 original size:34 final size:34
Alignment explanation
Indices: 19091293--19091362 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 34
19091283 GGCCGAAGCA
* * *
19091293 ATTTCTTCATATGATTTTATTTTTATTTTTATTTT
1 ATTTCTTCATATGATTATA-TTTTAATTCTATTTT
*
19091328 ATTTC-TCGTATGATTATATTTTAATTCTATTTT
1 ATTTCTTCATATGATTATATTTTAATTCTATTTT
19091361 AT
1 AT
19091363 GCCATTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 15 0.48
34 11 0.35
35 5 0.16
ACGTcount: A:0.23, C:0.07, G:0.04, T:0.66
Consensus pattern (34 bp):
ATTTCTTCATATGATTATATTTTAATTCTATTTT
Found at i:19096930 original size:48 final size:44
Alignment explanation
Indices: 19096856--19096953 Score: 117
Period size: 48 Copynumber: 2.1 Consensus size: 44
19096846 CCTTATTTAA
19096856 TTATTTCTTTATTCTTTATTCCTTATT-TATCATTATTAGTATATTATG
1 TTATTTCTTTATTCTTTATTCCTTATTAT-TC-TTATTA-T-TATTA-G
* **
19096904 TTATTTCTTTATTGTTTATTGTTTATTATTCTTATTATTATTAG
1 TTATTTCTTTATTCTTTATTCCTTATTATTCTTATTATTATTAG
19096948 TTATTT
1 TTATTT
19096954 GAATTATCTC
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
44 7 0.15
45 5 0.11
46 1 0.02
47 6 0.13
48 26 0.57
49 1 0.02
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.66
Consensus pattern (44 bp):
TTATTTCTTTATTCTTTATTCCTTATTATTCTTATTATTATTAG
Found at i:19098639 original size:6 final size:6
Alignment explanation
Indices: 19098628--19098666 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
19098618 TTTTATTCTA
* *
19098628 TTTTAT TTTTAT TTTTAT TTTTAT GTTTAT TGTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
19098667 CTTAGACTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:19105978 original size:15 final size:16
Alignment explanation
Indices: 19105951--19105980 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19105941 AAAAAAAATC
19105951 AAAAAATATAAATTTT
1 AAAAAATATAAATTTT
19105967 AAAAAATA-AAATTT
1 AAAAAATATAAATTT
19105981 AATAAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAAAATATAAATTTT
Found at i:19111864 original size:30 final size:30
Alignment explanation
Indices: 19111818--19111941 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
19111808 TTTTATTATG
*
19111818 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
19111849 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
19111879 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
19111909 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
19111939 CCA
1 CCA
19111942 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:19111873 original size:15 final size:15
Alignment explanation
Indices: 19111828--19111935 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
19111818 CCAATATCTC
19111828 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
19111843 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
19111858 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
19111873 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
19111888 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
19111903 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
19111918 GATACCCATATCTTT
1 GATACCCATATCTTT
19111933 GAT
1 GAT
19111936 TTTCCATAAA
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:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:19112453 original size:16 final size:16
Alignment explanation
Indices: 19112411--19112461 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
19112401 TATTGGTTAA
19112411 AATA-ATTTATTATTTT
1 AATATATTT-TTATTTT
*
19112427 ACTAT-TATTTTATTTT
1 AATATAT-TTTTATTTT
*
19112443 AATATATTTTTATATT
1 AATATATTTTTATTTT
19112459 AAT
1 AAT
19112462 TAATGATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 26 0.90
17 3 0.10
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
AATATATTTTTATTTT
Found at i:19116988 original size:16 final size:16
Alignment explanation
Indices: 19116967--19116999 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
19116957 AAAGTGAAAC
19116967 TATAAAACCACTCAAG
1 TATAAAACCACTCAAG
19116983 TATAAAACCACTCAAG
1 TATAAAACCACTCAAG
19116999 T
1 T
19117000 CGAGAAAACA
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:0.48, C:0.24, G:0.06, T:0.21
Consensus pattern (16 bp):
TATAAAACCACTCAAG
Found at i:19119858 original size:17 final size:17
Alignment explanation
Indices: 19119836--19119874 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
19119826 GGAGAAAACC
19119836 AATTTTGACAAACGGAT
1 AATTTTGACAAACGGAT
19119853 AATTTTGACAAACGGAT
1 AATTTTGACAAACGGAT
19119870 AATTT
1 AATTT
19119875 AATTGAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.33
Consensus pattern (17 bp):
AATTTTGACAAACGGAT
Found at i:19122227 original size:43 final size:43
Alignment explanation
Indices: 19122171--19122283 Score: 140
Period size: 43 Copynumber: 2.6 Consensus size: 43
19122161 CATATATCGT
* * * *
19122171 TGCCACTGCCCCAGACAGGGTCTTACACGAAATCGATT-A-ACGA
1 TGCCAATGTCCCAGACATGGTCTTACACGAAATC--TTAATACAA
*
19122214 TGCCAATGTCCCAGACATGGTCTTACACGTAATCTTAATACAA
1 TGCCAATGTCCCAGACATGGTCTTACACGAAATCTTAATACAA
*
19122257 TGTCAATGTCCCAGACATGGTCTTACA
1 TGCCAATGTCCCAGACATGGTCTTACA
19122284 TGTAATCATA
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
41 2 0.03
42 1 0.02
43 59 0.95
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
TGCCAATGTCCCAGACATGGTCTTACACGAAATCTTAATACAA
Found at i:19124474 original size:38 final size:38
Alignment explanation
Indices: 19124432--19124725 Score: 210
Period size: 38 Copynumber: 7.0 Consensus size: 38
19124422 TTTCAAAGTA
* * *
19124432 ACATGTATAACCATGGCATATTCACTTAGCACCATGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
19124470 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGCTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
*
19124511 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* * *
19124555 ACATGTTTAACCGTGGTATATCCACTGAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
*
19124596 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* *
19124640 ACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGTT
1 ACATG------TA----TAACCGTGGCATATCCACTTAGCACCACGTT
* *
19124688 ACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
19124726 TTTTCATTCC
Statistics
Matches: 209, Mismatches: 21, Indels: 52
0.74 0.07 0.18
Matches are distributed among these distances:
38 88 0.42
39 2 0.01
40 5 0.02
41 4 0.02
42 4 0.02
43 2 0.01
44 4 0.02
45 6 0.03
46 4 0.02
47 55 0.26
48 35 0.17
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:19124531 original size:47 final size:47
Alignment explanation
Indices: 19124477--19124688 Score: 280
Period size: 47 Copynumber: 4.7 Consensus size: 47
19124467 GTTACATGTT
*
19124477 TAACCGTGGTATATCCACTTAGCACCACGCTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
19124524 TAACCGTGGCATATCCACTTAGCACCACG-T--T--A-C-ATGT-T-
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
*
19124562 TAACCGTGGTATATCCACTGAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * *
19124609 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
*
19124657 TAATCGTGGTATATCCACTTAGCACCACGTTA
1 TAACCGTGGTATATCCACTTAGCACCACGTTA
19124689 CACGTATAAC
Statistics
Matches: 144, Mismatches: 11, Indels: 19
0.83 0.06 0.11
Matches are distributed among these distances:
38 27 0.19
39 2 0.01
40 3 0.02
41 2 0.01
42 1 0.01
43 1 0.01
44 2 0.01
45 3 0.02
46 2 0.01
47 58 0.40
48 43 0.30
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.29
Consensus pattern (47 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:19124537 original size:85 final size:85
Alignment explanation
Indices: 19124439--19124645 Score: 369
Period size: 85 Copynumber: 2.4 Consensus size: 85
19124429 GTAACATGTA
* * * *
19124439 TAACCATGGCATATTCACTTAGCACCATGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTGAGCACCA
19124504 CGCTAATGAATCAATATATG
66 CGCTAATGAATCAATATATG
19124524 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTGAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTGAGCACCA
*
19124589 CGTTAATGAATCAATATATG
66 CGCTAATGAATCAATATATG
19124609 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
19124646 ATCAATATGT
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 117 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTGAGCACCA
CGCTAATGAATCAATATATG
Found at i:19124671 original size:48 final size:48
Alignment explanation
Indices: 19124557--19124695 Score: 208
Period size: 48 Copynumber: 2.9 Consensus size: 48
19124547 ACCACGTTAC
* * *
19124557 ATGTTTAACCGTGGTATATCCACTGAGCACCACGTTA-ATGAATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
19124604 ATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
19124652 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACACGTAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
19124696 AACCGTGGTA
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
47 33 0.40
48 49 0.60
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:19124719 original size:133 final size:132
Alignment explanation
Indices: 19124477--19124725 Score: 408
Period size: 133 Copynumber: 1.9 Consensus size: 132
19124467 GTTACATGTT
*
19124477 TAACCGTGGTATATCCACTTAGCACCACGCTAATGAATCAATATATGTAACCGTGGCATATCCAC
1 TAACCGTGGCATATCCACTTAGCACCACGCTAATGAATCAATATATGTAACCGTGGCATATCCAC
* *
19124542 TTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTGAGCACCACGTTAATGAATCAATATA
66 TTAGCACCACGTTACACGTATAACCGTGGTATATCCACTGAGCACCACGTTAATGAATCAATATA
19124607 TG
131 TG
* * * * *
19124609 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGTATATCCA
1 TAACCGTGGCATATCCACTTAGCACCACGCTA-ATGAATCAATATATGTAACCGTGGCATATCCA
*
19124674 CTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
65 CTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTGAGCACCACGTT
19124726 TTTTCATTCC
Statistics
Matches: 107, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
132 30 0.28
133 77 0.72
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (132 bp):
TAACCGTGGCATATCCACTTAGCACCACGCTAATGAATCAATATATGTAACCGTGGCATATCCAC
TTAGCACCACGTTACACGTATAACCGTGGTATATCCACTGAGCACCACGTTAATGAATCAATATA
TG
Found at i:19130255 original size:38 final size:38
Alignment explanation
Indices: 19130213--19130506 Score: 147
Period size: 38 Copynumber: 7.0 Consensus size: 38
19130203 TTTCAAAGTA
*
19130213 ACATGTATAACCATGGCATATTCACTTAGCACCACGTT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
* * *
19130251 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGCTAAT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACG-T--T
* * * *
19130292 GAATCAATATATGTAACCGTGGCATATCCACTCAGCCCCACGTT
1 --A-C-ATGTA--TAACCATGGCATATCCACTTAGCACCACGTT
* * * * *
19130336 ACATGTTTAACCGTGGTATATCCACTGAACACCACGTTAAT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACG-T--T
* *
19130377 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCATGGCATATCCACTTAGCACCACGTT
* * *
19130421 ACATGTATCAATTTGTGTAATCGTGGTATATCCACTTAGCACCACGTT
1 ACATG--T--A------TAACCATGGCATATCCACTTAGCACCACGTT
* * *
19130469 ACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
19130507 TTCATTCTGA
Statistics
Matches: 205, Mismatches: 25, Indels: 52
0.73 0.09 0.18
Matches are distributed among these distances:
38 87 0.42
39 2 0.01
40 5 0.02
41 4 0.02
42 3 0.01
43 2 0.01
44 6 0.03
45 6 0.03
46 3 0.01
47 52 0.25
48 35 0.17
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
Found at i:19130312 original size:47 final size:47
Alignment explanation
Indices: 19130258--19130469 Score: 244
Period size: 47 Copynumber: 4.7 Consensus size: 47
19130248 GTTACATGTT
*
19130258 TAACCGTGGTATATCCACTTAGCACCACGCTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * * *
19130305 TAACCGTGGCATATCCACTCAGCCCCACG-T--T--A-C-ATGT-T-
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
19130343 TAACCGTGGTATATCCACTGAACACCACGTTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * * *
19130390 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATTTGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
*
19130438 TAATCGTGGTATATCCACTTAGCACCACGTTA
1 TAACCGTGGTATATCCACTTAGCACCACGTTA
19130470 CACGTATAAC
Statistics
Matches: 138, Mismatches: 17, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
38 25 0.18
39 2 0.01
40 3 0.02
41 2 0.01
42 1 0.01
43 1 0.01
44 2 0.01
45 3 0.02
46 2 0.01
47 55 0.40
48 42 0.30
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (47 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
Done.