Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 47 of 284
Found at i:16774634 original size:33 final size:33
Alignment explanation
Indices: 16774589--16774765 Score: 139
Period size: 33 Copynumber: 5.4 Consensus size: 33
16774579 CAGTGTTTAT
*
16774589 ATGTAAGACCATAGTTGGGCTATGACACT-CTG
1 ATGTAAGACCATAGCTGGGCTATGACACTACTG
* * * *
16774621 ATGATAAGACCATAACTGGGTTATAACATTAC-G
1 ATG-TAAGACCATAGCTGGGCTATGACACTACTG
* * * *
16774654 AATGTAAGACCATGGCTGAGCTATGACAATGCATG
1 -ATGTAAGACCATAGCTGGGCTATGACACTAC-TG
* *
16774689 -TGTAAGACCATAGTTGGGCTATGGCACT-CTG
1 ATGTAAGACCATAGCTGGGCTATGACACTACTG
* * * *
16774720 ATGATAAGACCATAACTGGGTTATAACATTAC-G
1 ATG-TAAGACCATAGCTGGGCTATGACACTACTG
16774753 AATGTAAGACCAT
1 -ATGTAAGACCAT
16774766 GACTATGGCA
Statistics
Matches: 113, Mismatches: 23, Indels: 17
0.74 0.15 0.11
Matches are distributed among these distances:
31 2 0.02
32 6 0.05
33 96 0.85
34 8 0.07
35 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.27
Consensus pattern (33 bp):
ATGTAAGACCATAGCTGGGCTATGACACTACTG
Found at i:16776487 original size:12 final size:12
Alignment explanation
Indices: 16776470--16776507 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
16776460 GATTACTATT
16776470 ACGTCCTCGACC
1 ACGTCCTCGACC
*
16776482 ACGTCCTCCACC
1 ACGTCCTCGACC
*
16776494 ACGTCCACGACC
1 ACGTCCTCGACC
16776506 AC
1 AC
16776508 AGCCGTGACG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.53, G:0.13, T:0.13
Consensus pattern (12 bp):
ACGTCCTCGACC
Found at i:16776857 original size:26 final size:26
Alignment explanation
Indices: 16776806--16776855 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
16776796 TACTTTAATT
16776806 TTATTATTAATTGATATTTAATTTTG
1 TTATTATTAATTGATATTTAATTTTG
*
16776832 TTATTAATT-ATT-ATATTTATTTTT
1 TTATT-ATTAATTGATATTTAATTTT
16776856 TGAAAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 11 0.50
26 8 0.36
27 3 0.14
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (26 bp):
TTATTATTAATTGATATTTAATTTTG
Found at i:16780821 original size:14 final size:14
Alignment explanation
Indices: 16780780--16780825 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
16780770 TATTTATTAT
16780780 TAAAATATTAAT-A
1 TAAAATATTAATAA
* * *
16780793 GAAATTATTATTAA
1 TAAAATATTAATAA
16780807 TAAAATATTAATAA
1 TAAAATATTAATAA
16780821 TAAAA
1 TAAAA
16780826 AGTATAATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 9 0.35
14 17 0.65
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
TAAAATATTAATAA
Found at i:16780872 original size:19 final size:20
Alignment explanation
Indices: 16780810--16780885 Score: 70
Period size: 19 Copynumber: 3.9 Consensus size: 20
16780800 TTATTAATAA
*
16780810 AATATTAATAATAAAA-AGT
1 AATATTAATAATAAAATTGT
*
16780829 -ATAATTAATATTAAAATT-T
1 AAT-ATTAATAATAAAATTGT
*
16780848 ATTATTAA-AATAAAATTGT
1 AATATTAATAATAAAATTGT
*
16780867 AATATTAAGTAATTAAATT
1 AATATTAA-TAATAAAATT
16780886 ATAGTAATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
18 10 0.22
19 26 0.58
20 1 0.02
21 8 0.18
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (20 bp):
AATATTAATAATAAAATTGT
Found at i:16784975 original size:18 final size:18
Alignment explanation
Indices: 16784935--16784977 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
16784925 ATGCAGAAAA
*
16784935 TACTT-AGACATATTAAT
1 TACTTAAGACACATTAAT
16784952 TAACTTAAGACACATTAAT
1 T-ACTTAAGACACATTAAT
16784971 TACTTAA
1 TACTTAA
16784978 ACTAAATAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 10 0.43
19 12 0.52
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (18 bp):
TACTTAAGACACATTAAT
Found at i:16784991 original size:14 final size:15
Alignment explanation
Indices: 16784968--16785003 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
16784958 AAGACACATT
16784968 AATT-ACTTAAACTA
1 AATTAACTTAAACTA
16784982 AA-TAACTTAAACTA
1 AATTAACTTAAACTA
16784996 AATTAACT
1 AATTAACT
16785004 AATATTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.05
14 14 0.70
15 5 0.25
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (15 bp):
AATTAACTTAAACTA
Found at i:16785748 original size:24 final size:24
Alignment explanation
Indices: 16785716--16785766 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
16785706 TGGAATAATA
16785716 TTCACCGGGATCAAAAACAAGGTT
1 TTCACCGGGATCAAAAACAAGGTT
16785740 TTCACCGGGATCAAAAACAAGGTT
1 TTCACCGGGATCAAAAACAAGGTT
16785764 TTC
1 TTC
16785767 TCTTACCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (24 bp):
TTCACCGGGATCAAAAACAAGGTT
Found at i:16786971 original size:19 final size:17
Alignment explanation
Indices: 16786925--16786976 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 17
16786915 TTCTTGCTTG
16786925 CACTCTTTTTCTTTTTC
1 CACTCTTTTTCTTTTTC
* *
16786942 AATCTCGTTTTGCTTTTTC
1 CA-CTC-TTTTTCTTTTTC
16786961 TCACTCTTTTT-TTTTT
1 -CACTCTTTTTCTTTTT
16786977 ATTTTTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
17 6 0.21
18 7 0.25
19 14 0.50
20 1 0.04
ACGTcount: A:0.08, C:0.23, G:0.04, T:0.65
Consensus pattern (17 bp):
CACTCTTTTTCTTTTTC
Found at i:16788685 original size:13 final size:13
Alignment explanation
Indices: 16788667--16788692 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16788657 TTCTCAATAG
16788667 TGTCCCTTATATA
1 TGTCCCTTATATA
16788680 TGTCCCTTATATA
1 TGTCCCTTATATA
16788693 GGTCATCAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (13 bp):
TGTCCCTTATATA
Found at i:16789127 original size:16 final size:17
Alignment explanation
Indices: 16789106--16789139 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
16789096 TCTGCCCTTG
16789106 TGGG-AAAAAAATGCCA
1 TGGGAAAAAAAATGCCA
16789122 TGGGAAAAAAAATGCCA
1 TGGGAAAAAAAATGCCA
16789139 T
1 T
16789140 TTATAAGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.50, C:0.12, G:0.24, T:0.15
Consensus pattern (17 bp):
TGGGAAAAAAAATGCCA
Found at i:16789303 original size:10 final size:10
Alignment explanation
Indices: 16789288--16789330 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
16789278 CAATTCACCA
16789288 ACCAAATCAT
1 ACCAAATCAT
*
16789298 ACCAAATCGAA
1 ACCAAATC-AT
16789309 ACCAAAATCAT
1 ACC-AAATCAT
*
16789320 ACCAAAGCAT
1 ACCAAATCAT
16789330 A
1 A
16789331 TGTTTCAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 15 0.54
11 8 0.29
12 5 0.18
ACGTcount: A:0.53, C:0.28, G:0.05, T:0.14
Consensus pattern (10 bp):
ACCAAATCAT
Found at i:16796230 original size:44 final size:42
Alignment explanation
Indices: 16796084--16796238 Score: 174
Period size: 43 Copynumber: 3.6 Consensus size: 42
16796074 CTCGTACAAT
* *
16796084 GCCAACGTCCCGGACGTGGTCTTACATGT-AATCAAATATCGAC
1 GCCAACGTCCCAGACGTGGTCTTACACGTAAATC-AA-ATCGAC
*
16796127 GCC-ACTGTCCCAGACAG-GGTCTTACACG-AAATCAAATACGAT
1 GCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAATCAAAT-CGAC
*
16796169 GCCAACGTCTCAGACGTGGTCTTACACGTAAATCATAAGTCGAC
1 GCCAACGTCCCAGACGTGGTCTTACACGTAAATCA-AA-TCGAC
*
16796213 GCCAACGTCCCAAACGTGGTCTTACA
1 GCCAACGTCCCAGACGTGGTCTTACA
16796239 TGATAAAAGA
Statistics
Matches: 96, Mismatches: 7, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
41 3 0.03
42 29 0.30
43 33 0.34
44 30 0.31
45 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (42 bp):
GCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATCGAC
Found at i:16796971 original size:17 final size:18
Alignment explanation
Indices: 16796946--16796979 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16796936 AGGATACTGT
*
16796946 GTAACAATTA-CAAAAAC
1 GTAAAAATTATCAAAAAC
16796963 GTAAAAATTATCAAAAA
1 GTAAAAATTATCAAAAA
16796980 TTGAACAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.21
Consensus pattern (18 bp):
GTAAAAATTATCAAAAAC
Found at i:16799626 original size:79 final size:82
Alignment explanation
Indices: 16799515--16799699 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
16799505 GCTACTCGTT
* *
16799515 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
16799578 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
16799595 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
16799658 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
16799675 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16799700 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:16799699 original size:40 final size:40
Alignment explanation
Indices: 16799496--16799699 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
16799486 CGGAATTTAA
** *
16799496 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
16799536 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
16799576 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
16799615 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
16799655 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
16799695 CCGGA
1 CCGGA
16799700 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:16801766 original size:18 final size:18
Alignment explanation
Indices: 16801726--16801768 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
16801716 ATGCCGAAAA
*
16801726 TACTT-AGACATATTAAT
1 TACTTAAGACACATTAAT
16801743 TAACTTAAGACACATTAAT
1 T-ACTTAAGACACATTAAT
16801762 TACTTAA
1 TACTTAA
16801769 ACTAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 10 0.43
19 12 0.52
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (18 bp):
TACTTAAGACACATTAAT
Found at i:16801777 original size:18 final size:19
Alignment explanation
Indices: 16801727--16801778 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
16801717 TGCCGAAAAT
*
16801727 ACTT-AGACATATTAATTA
1 ACTTAAGACAAATTAATTA
*
16801745 ACTTAAGACACATTAATT-
1 ACTTAAGACAAATTAATTA
16801763 ACTTAA-ACTAAATTAA
1 ACTTAAGAC-AAATTAA
16801779 CTAATATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 2 0.07
18 16 0.53
19 12 0.40
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (19 bp):
ACTTAAGACAAATTAATTA
Found at i:16812945 original size:14 final size:14
Alignment explanation
Indices: 16812926--16812981 Score: 85
Period size: 14 Copynumber: 4.0 Consensus size: 14
16812916 GACCAATTCA
**
16812926 TTCATACCCCTTCG
1 TTCATACCATTTCG
*
16812940 TTCATACCATTTCA
1 TTCATACCATTTCG
16812954 TTCATACCATTTCG
1 TTCATACCATTTCG
16812968 TTCATACCATTTCG
1 TTCATACCATTTCG
16812982 ACCATTCCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.21, C:0.32, G:0.05, T:0.41
Consensus pattern (14 bp):
TTCATACCATTTCG
Found at i:16812957 original size:28 final size:28
Alignment explanation
Indices: 16812917--16812980 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
16812907 ACCTAAACCG
* *
16812917 ACCAATTCATTCATACCCCTTCGTTCAT
1 ACCATTTCATTCATACCACTTCGTTCAT
*
16812945 ACCATTTCATTCATACCATTTCGTTCAT
1 ACCATTTCATTCATACCACTTCGTTCAT
16812973 ACCATTTC
1 ACCATTTC
16812981 GACCATTCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.25, C:0.33, G:0.03, T:0.39
Consensus pattern (28 bp):
ACCATTTCATTCATACCACTTCGTTCAT
Found at i:16816075 original size:100 final size:100
Alignment explanation
Indices: 16815902--16816103 Score: 395
Period size: 100 Copynumber: 2.0 Consensus size: 100
16815892 CCAAATACAC
16815902 AAGATTCATTATATCTTCATATGTGGCCGAATATATGAGTTAAATAAAACATCACATATAACCTA
1 AAGATTCATTATATCTTCATATGTGGCCGAATATATGAGTTAAATAAAACATCACATATAACCTA
*
16815967 TAGTTCAAATTCAATATAACATCACTTATGGCCGA
66 TAGTTCAAATTCAATATAAAATCACTTATGGCCGA
16816002 AAGATTCATTATATCTTCATATGTGGCCGAATATATGAGTTAAATAAAACATCACATATAACCTA
1 AAGATTCATTATATCTTCATATGTGGCCGAATATATGAGTTAAATAAAACATCACATATAACCTA
16816067 TAGTTCAAATTCAATATAAAATCACTTATGGCCGA
66 TAGTTCAAATTCAATATAAAATCACTTATGGCCGA
16816102 AA
1 AA
16816104 ATGCACATAT
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 101 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (100 bp):
AAGATTCATTATATCTTCATATGTGGCCGAATATATGAGTTAAATAAAACATCACATATAACCTA
TAGTTCAAATTCAATATAAAATCACTTATGGCCGA
Found at i:16816384 original size:42 final size:41
Alignment explanation
Indices: 16816269--16816384 Score: 105
Period size: 42 Copynumber: 2.9 Consensus size: 41
16816259 TGAAAACAAA
* *
16816269 TCACCGGTA-TAAACCTGCTAGGCA-AAAGCCTGA-ATCAC
1 TCACCGGCACTAAGCCTGCTAGGCACAAAGCCTGATATCAC
* * * * * * *
16816307 ACACCGGCAC-AAGGCCTGCTAGACTCGAAGTCTGATATTTAT
1 TCACCGGCACTAA-GCCTGCTAGGCACAAAGCCTGATA-TCAC
16816349 TCACCGGCACTAAGCCTGCTAGGCACAAAGCCTGAT
1 TCACCGGCACTAAGCCTGCTAGGCACAAAGCCTGAT
16816385 GAAAGTCACC
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
38 9 0.16
39 9 0.16
40 7 0.12
41 1 0.02
42 30 0.52
43 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (41 bp):
TCACCGGCACTAAGCCTGCTAGGCACAAAGCCTGATATCAC
Found at i:16820096 original size:14 final size:13
Alignment explanation
Indices: 16820076--16820107 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
16820066 AATATTTAAC
16820076 TTGTTCTTAATTA
1 TTGTTCTTAATTA
16820089 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
16820103 TTGTT
1 TTGTT
16820108 TTGATACCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:16821457 original size:71 final size:71
Alignment explanation
Indices: 16821304--16821488 Score: 212
Period size: 71 Copynumber: 2.6 Consensus size: 71
16821294 ACCTGCATTT
* * * *
16821304 GAGCTACTCACGGGTCTGTACACAAAGTTAGCACCCGGACCCCAAAGCATTATCATGTAATGCCC
1 GAGCTACTCAC-GGTTTATACACAAAGTCAGCACCCGGACCCCAAAGCATTAACATGTAATGCCC
**
16821369 GCTCATT
65 GCTCAGC
* * *
16821376 GAGCTACTCACAGGTTTATACACAAAGTCAG-ACCCAGACCCCAAAGTATTAACATG-ATATGCT
1 GAGCTACTCAC-GGTTTATACACAAAGTCAGCACCCGGACCCCAAAGCATTAACATGTA-ATGCC
16821439 CGCTCAGC
64 CGCTCAGC
* * *
16821447 GAGTTACTCACGAGTTTATACAAAAAGTCAGTACCCGGACCC
1 GAGCTACTCACG-GTTTATACACAAAGTCAGCACCCGGACCC
16821489 ACATTACATA
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
70 2 0.02
71 59 0.61
72 36 0.37
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (71 bp):
GAGCTACTCACGGTTTATACACAAAGTCAGCACCCGGACCCCAAAGCATTAACATGTAATGCCCG
CTCAGC
Found at i:16827803 original size:28 final size:28
Alignment explanation
Indices: 16827763--16827828 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
16827753 GCTCAATAAG
16827763 AGTTAATTTCTATTTTATTCAGCCTCAA
1 AGTTAATTTCTATTTTATTCAGCCTCAA
16827791 AGTTAATTTCTATTTTATTCAGCCTCAA
1 AGTTAATTTCTATTTTATTCAGCCTCAA
16827819 A-TTCAATTTC
1 AGTT-AATTTC
16827829 CACAATTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 2 0.05
28 35 0.95
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (28 bp):
AGTTAATTTCTATTTTATTCAGCCTCAA
Found at i:16835699 original size:30 final size:30
Alignment explanation
Indices: 16835635--16835707 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
16835625 CATGGCCATG
* * *
16835635 TGGCCATCCCGTGGGGATCCCATTGCTGTG
1 TGGCCAGCCCGTGGGGATCCCATGGCTGTA
*
16835665 TGGCCAGCTCGTGGGGATCCCATGG-TCGTA
1 TGGCCAGCCCGTGGGGATCCCATGGCT-GTA
16835695 TGGCCAGCCCGTG
1 TGGCCAGCCCGTG
16835708 TAGAATTCTG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 1 0.03
30 36 0.97
ACGTcount: A:0.11, C:0.30, G:0.36, T:0.23
Consensus pattern (30 bp):
TGGCCAGCCCGTGGGGATCCCATGGCTGTA
Found at i:16836042 original size:33 final size:33
Alignment explanation
Indices: 16835993--16836108 Score: 144
Period size: 33 Copynumber: 3.5 Consensus size: 33
16835983 ATGGACTTTT
* * * *
16835993 CCTTTTCTAGTTGTACATTCGAGGTGCACATTC
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
* *
16836026 CCTTTTCAAGTGGTACACACGAAGTGCACATAC
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
* * *
16836059 CCTTTTCAATTTGTACACTCAAAGTGCACATAA
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
16836092 CCTTTTCAAG-TGTACAC
1 CCTTTTCAAGTTGTACAC
16836109 ATATAGTGTA
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
32 7 0.10
33 64 0.90
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (33 bp):
CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
Found at i:16836128 original size:32 final size:31
Alignment explanation
Indices: 16836016--16836135 Score: 107
Period size: 33 Copynumber: 3.7 Consensus size: 31
16836006 TACATTCGAG
* *
16836016 GTGCACATTCCCTTTTCAAGTGGTACACACGAA
1 GTGCACATACCCTTTTCAAGT-GTACACA-TAA
*
16836049 GTGCACATACCCTTTTCAATTTGTACAC-TCAAA
1 GTGCACATACCCTTTTCAA-GTGTACACAT--AA
*
16836082 GTGCACATAACCTTTTCAAGTGTACACATATA
1 GTGCACATACCCTTTTCAAGTGTACACATA-A
* ** *
16836114 GTGTACATTTCCTTTACAAGTG
1 GTGCACATACCCTTTTCAAGTG
16836136 GTATACACGT
Statistics
Matches: 73, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
31 1 0.01
32 26 0.36
33 45 0.62
34 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (31 bp):
GTGCACATACCCTTTTCAAGTGTACACATAA
Found at i:16836148 original size:23 final size:23
Alignment explanation
Indices: 16836122--16836166 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
16836112 TAGTGTACAT
16836122 TTCCTTTACA-AGTGGTATACACG
1 TTCCTTTACATA-TGGTATACACG
*
16836145 TTCCTTTTCATATGGTATACAC
1 TTCCTTTACATATGGTATACAC
16836167 AAAGTATACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.40
Consensus pattern (23 bp):
TTCCTTTACATATGGTATACACG
Found at i:16843725 original size:33 final size:33
Alignment explanation
Indices: 16843683--16843807 Score: 101
Period size: 33 Copynumber: 3.8 Consensus size: 33
16843673 CTCAATGCGC
*
16843683 ACATTCCCTTTTCAAGTGGTACACACGAAGTGT
1 ACATACCCTTTTCAAGTGGTACACACGAAGTGT
* * * * * *
16843716 ACATACCCTTTTCCATTTGTACACTCAAAGTGC
1 ACATACCCTTTTCAAGTGGTACACACGAAGTGT
* * *
16843749 ATATAACCTTTTCAAGT-GTACACA-TATAGTGT
1 ACATACCCTTTTCAAGTGGTACACACGA-AGTGT
* ** *
16843781 ACCTTTCCTTTTCAAGTGGTATACACG
1 ACATACCCTTTTCAAGTGGTACACACG
16843808 TTCCTTTTCA
Statistics
Matches: 69, Mismatches: 20, Indels: 5
0.73 0.21 0.05
Matches are distributed among these distances:
31 1 0.01
32 23 0.33
33 45 0.65
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (33 bp):
ACATACCCTTTTCAAGTGGTACACACGAAGTGT
Found at i:16843811 original size:23 final size:23
Alignment explanation
Indices: 16843785--16843829 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
16843775 TAGTGTACCT
16843785 TTCCTTTTCA-AGTGGTATACACG
1 TTCCTTTTCATA-TGGTATACACG
16843808 TTCCTTTTCATATGGTATACAC
1 TTCCTTTTCATATGGTATACAC
16843830 AAAGTATACC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.42
Consensus pattern (23 bp):
TTCCTTTTCATATGGTATACACG
Found at i:16843846 original size:33 final size:33
Alignment explanation
Indices: 16843799--16843871 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 33
16843789 TTTTCAAGTG
*
16843799 GTATACACGTTCCTTTTCATA-TGGTATACACAAA
1 GTATACACGTTCCTTTTCA-AGT-GTACACACAAA
*
16843833 GTATAC-CTTTCCTTTTCAAGTGTACACACAAA
1 GTATACACGTTCCTTTTCAAGTGTACACACAAA
*
16843865 GTGTACA
1 GTATACA
16843872 TAAACTTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 16 0.47
33 12 0.35
34 6 0.18
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (33 bp):
GTATACACGTTCCTTTTCAAGTGTACACACAAA
Found at i:16847376 original size:33 final size:33
Alignment explanation
Indices: 16847334--16847458 Score: 83
Period size: 33 Copynumber: 3.8 Consensus size: 33
16847324 CTCAATGCGC
*
16847334 ACATTCCCTTTTCAAGTGGTACACACGAAGTGT
1 ACATACCCTTTTCAAGTGGTACACACGAAGTGT
* * ** * * *
16847367 ACATACCCTTTTCCATTTTTACACTCAAAGTGC
1 ACATACCCTTTTCAAGTGGTACACACGAAGTGT
* * * *
16847400 ATATAACTTTTTCAAGT-GTACACA-TATAGTGT
1 ACATACCCTTTTCAAGTGGTACACACGA-AGTGT
* ** *
16847432 ACCTTTCCTTTTCAAGTGGTATACACG
1 ACATACCCTTTTCAAGTGGTACACACG
16847459 TTCCTTTTCA
Statistics
Matches: 65, Mismatches: 24, Indels: 5
0.69 0.26 0.05
Matches are distributed among these distances:
31 1 0.02
32 21 0.32
33 43 0.66
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (33 bp):
ACATACCCTTTTCAAGTGGTACACACGAAGTGT
Found at i:16847462 original size:23 final size:23
Alignment explanation
Indices: 16847436--16847480 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
16847426 TAGTGTACCT
16847436 TTCCTTTTCA-AGTGGTATACACG
1 TTCCTTTTCATA-TGGTATACACG
16847459 TTCCTTTTCATATGGTATACAC
1 TTCCTTTTCATATGGTATACAC
16847481 AAAGTATACC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.42
Consensus pattern (23 bp):
TTCCTTTTCATATGGTATACACG
Found at i:16847497 original size:33 final size:33
Alignment explanation
Indices: 16847450--16847517 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
16847440 TTTTCAAGTG
*
16847450 GTATACACGTTCCTTTTCATA-TGGTATACACAAA
1 GTATACACGTTCCTTTTCA-AGT-GTACACACAAA
*
16847484 GTATAC-CTTTCCTTTTCAAGTGTACACACAAA
1 GTATACACGTTCCTTTTCAAGTGTACACACAAA
16847516 GT
1 GT
16847518 GCACATAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 13 0.42
33 12 0.39
34 6 0.19
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (33 bp):
GTATACACGTTCCTTTTCAAGTGTACACACAAA
Found at i:16851134 original size:33 final size:33
Alignment explanation
Indices: 16851085--16851200 Score: 119
Period size: 33 Copynumber: 3.5 Consensus size: 33
16851075 ATGGACTTTT
* * *
16851085 CCTTTTCTAGTTGTACACTCAATGTGCACATTC
1 CCTTTTCAAGTGGTACACTCAATGTGCACATAC
* *
16851118 CCTTTTCAAGTGGTACACACGAA-GTGTACATAC
1 CCTTTTCAAGTGGTACACTC-AATGTGCACATAC
* * * * *
16851151 CCTTTTCAATTTGTACACTCAAAGTGCATATAA
1 CCTTTTCAAGTGGTACACTCAATGTGCACATAC
16851184 CCTTTTCAAGT-GTACAC
1 CCTTTTCAAGTGGTACAC
16851201 ATATAGTGTA
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
32 8 0.12
33 59 0.86
34 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (33 bp):
CCTTTTCAAGTGGTACACTCAATGTGCACATAC
Found at i:16851240 original size:23 final size:23
Alignment explanation
Indices: 16851214--16851258 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
16851204 TAGTGTACCT
16851214 TTCCTTTTCA-AGTGGTATACACG
1 TTCCTTTTCATA-TGGTATACACG
16851237 TTCCTTTTCATATGGTATACAC
1 TTCCTTTTCATATGGTATACAC
16851259 AAAGTATACC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.42
Consensus pattern (23 bp):
TTCCTTTTCATATGGTATACACG
Found at i:16851275 original size:33 final size:33
Alignment explanation
Indices: 16851228--16851300 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 33
16851218 TTTTCAAGTG
*
16851228 GTATACACGTTCCTTTTCATA-TGGTATACACAAA
1 GTATACACGTTCCTTTTCA-AGT-GTACACACAAA
*
16851262 GTATAC-CTTTCCTTTTCAAGTGTACACACAAA
1 GTATACACGTTCCTTTTCAAGTGTACACACAAA
*
16851294 GTGTACA
1 GTATACA
16851301 TAAACTTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 16 0.47
33 12 0.35
34 6 0.18
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (33 bp):
GTATACACGTTCCTTTTCAAGTGTACACACAAA
Found at i:16859521 original size:29 final size:29
Alignment explanation
Indices: 16859486--16859543 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
16859476 TTAGTCATGT
16859486 AAATTCATATATGAATTAATAATCATGGA
1 AAATTCATATATGAATTAATAATCATGGA
16859515 AAATTCATATATGAATTAATAATCATGGA
1 AAATTCATATATGAATTAATAATCATGGA
16859544 TGAACTCAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.34
Consensus pattern (29 bp):
AAATTCATATATGAATTAATAATCATGGA
Found at i:16859803 original size:25 final size:25
Alignment explanation
Indices: 16859775--16859835 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 25
16859765 TCTTATACAT
16859775 GTATGCTCATACAAGCTATGAATCG
1 GTATGCTCATACAAGCTATGAATCG
*
16859800 GTATGCTC-TCACAAGCTGTGAATCG
1 GTATGCTCAT-ACAAGCTATGAATCG
*
16859825 GTAAGCTCATA
1 GTATGCTCATA
16859836 AGAGCTGTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 1 0.03
25 30 0.94
26 1 0.03
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (25 bp):
GTATGCTCATACAAGCTATGAATCG
Found at i:16859841 original size:25 final size:25
Alignment explanation
Indices: 16859779--16859844 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 25
16859769 ATACATGTAT
* *
16859779 GCTCATACAAGCTATGAATCGGTAT
1 GCTCATACAAGCTGTGAATCGGTAA
16859804 GCTC-TCACAAGCTGTGAATCGGTAA
1 GCTCAT-ACAAGCTGTGAATCGGTAA
16859829 GCTCATA-AGAGCTGTG
1 GCTCATACA-AGCTGTG
16859845 GTGTGTCCAC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
24 2 0.06
25 33 0.92
26 1 0.03
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (25 bp):
GCTCATACAAGCTGTGAATCGGTAA
Found at i:16862883 original size:26 final size:27
Alignment explanation
Indices: 16862853--16862963 Score: 145
Period size: 27 Copynumber: 4.1 Consensus size: 27
16862843 AAAATTAATA
*
16862853 TTTTTCCCTTATGAGGTAAAATGACTG
1 TTTTGCCCTTATGAGGTAAAATGACTG
*
16862880 TTTTGCCCTTATAAGGTAAAATGACTG
1 TTTTGCCCTTATGAGGTAAAATGACTG
* *
16862907 TTTTGCCCTTATGTGGTAAAATGACTA
1 TTTTGCCCTTATGAGGTAAAATGACTG
* *
16862934 TTTTG-CCTT-TTATGGTAAAATGATTG
1 TTTTGCCCTTATGA-GGTAAAATGACTG
16862960 TTTT
1 TTTT
16862964 ACCCCTACGT
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
25 1 0.01
26 19 0.26
27 54 0.73
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (27 bp):
TTTTGCCCTTATGAGGTAAAATGACTG
Found at i:16865023 original size:21 final size:21
Alignment explanation
Indices: 16864981--16865024 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
16864971 TTGCTTGTCC
*
16864981 TTAGGTACATTTAGTAGCATT
1 TTAGGTACATTTACTAGCATT
*
16865002 TTAGG-ACATTTCACTAGTATT
1 TTAGGTACATTT-ACTAGCATT
16865023 TT
1 TT
16865025 TATCATTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.45
Consensus pattern (21 bp):
TTAGGTACATTTACTAGCATT
Found at i:16867381 original size:6 final size:6
Alignment explanation
Indices: 16867370--16867396 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
16867360 ATTATTAATT
16867370 TTTTTA TTTTTA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTT
16867397 GCTTTTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:16874051 original size:50 final size:50
Alignment explanation
Indices: 16873976--16874076 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
16873966 CGTTTGTCTT
16873976 AACAGTGTGAGTCACACGGCCGTGTGACCTCTGCAGTTGAAATTTTTCTA
1 AACAGTGTGAGTCACACGGCCGTGTGACCTCTGCAGTTGAAATTTTTCTA
16874026 AACAGTGTGAGTCACACGGCCGTGTGACCTCTGCAGTTGAAATTTTTCTA
1 AACAGTGTGAGTCACACGGCCGTGTGACCTCTGCAGTTGAAATTTTTCTA
16874076 A
1 A
16874077 CTTTTTCCTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.30
Consensus pattern (50 bp):
AACAGTGTGAGTCACACGGCCGTGTGACCTCTGCAGTTGAAATTTTTCTA
Found at i:16878982 original size:71 final size:71
Alignment explanation
Indices: 16878854--16878994 Score: 228
Period size: 71 Copynumber: 2.0 Consensus size: 71
16878844 TATACAACTT
* *
16878854 TCATTACTCCATATGAAAACACCCTAAATAGGGATGAAACCATAAAAATTTTCTATGGTGCTAAG
1 TCATTACTCCATATGAAAACACCCTAAATAGGGATGAAACCACAAAAATTTTCTATGGTGCCAAG
16878919 AGAGCA
66 AGAGCA
* * * *
16878925 TCATTACTCCATATGAAAACACCCTAAATAGGGATGAAACCACGAAATTTTTTTATGGTGCCGAG
1 TCATTACTCCATATGAAAACACCCTAAATAGGGATGAAACCACAAAAATTTTCTATGGTGCCAAG
16878990 AGAGC
66 AGAGC
16878995 TCGTCACAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 64 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (71 bp):
TCATTACTCCATATGAAAACACCCTAAATAGGGATGAAACCACAAAAATTTTCTATGGTGCCAAG
AGAGCA
Found at i:16886127 original size:15 final size:14
Alignment explanation
Indices: 16886107--16886145 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
16886097 AACATTTTAA
*
16886107 AAATTATAAAGATAT
1 AAATTATAAAAAT-T
16886122 AAATTATAAAAATT
1 AAATTATAAAAATT
16886136 ATAATTATAA
1 A-AATTATAA
16886146 TTTTACTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 2 0.09
15 20 0.91
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (14 bp):
AAATTATAAAAATT
Found at i:16893502 original size:38 final size:39
Alignment explanation
Indices: 16893420--16893529 Score: 150
Period size: 38 Copynumber: 2.8 Consensus size: 39
16893410 AATGCTGTCC
* *
16893420 CATGCATGCTTTTTTTAATACCCGCACATTAAATTCGGT
1 CATGCATGCTTTCTTTAATACCCGCACATTAAATTCGAT
**
16893459 CATGCATGCTTTCTTTAATACTTGCACATT-AATTCGAT
1 CATGCATGCTTTCTTTAATACCCGCACATTAAATTCGAT
* * *
16893497 CATGCATGCTTGCTTTAATGCCCACACATTAAA
1 CATGCATGCTTTCTTTAATACCCGCACATTAAA
16893530 AATCAACAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 32 0.52
39 29 0.48
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (39 bp):
CATGCATGCTTTCTTTAATACCCGCACATTAAATTCGAT
Found at i:16895324 original size:17 final size:17
Alignment explanation
Indices: 16895297--16895329 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
16895287 CATTTGTTTA
16895297 TTTTCTTATTT-TTTTG
1 TTTTCTTATTTATTTTG
16895313 TTTTCGTTATTTATTTT
1 TTTTC-TTATTTATTTT
16895330 TATCCCAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.79
Consensus pattern (17 bp):
TTTTCTTATTTATTTTG
Found at i:16901082 original size:50 final size:50
Alignment explanation
Indices: 16901001--16901119 Score: 132
Period size: 50 Copynumber: 2.4 Consensus size: 50
16900991 TAGGGTTACT
* ** *
16901001 GATTCTCAGCTCGTATGAGCTTATCAATTTACAACTCTTGAAAGCTTATC
1 GATTCTTAGCTCGTATGAGCTTATCAATTTACAACTAATGAAAGCATATC
* ** * *
16901051 GATTCTTAGCTCATATGAGCTTA-CTGGTTTACAGCTAATGAGAGCATATC
1 GATTCTTAGCTCGTATGAGCTTATC-AATTTACAACTAATGAAAGCATATC
*
16901101 GATTCATAGCTCGTATGAG
1 GATTCTTAGCTCGTATGAG
16901120 TATACATGTA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
49 1 0.02
50 56 0.98
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (50 bp):
GATTCTTAGCTCGTATGAGCTTATCAATTTACAACTAATGAAAGCATATC
Found at i:16907416 original size:12 final size:12
Alignment explanation
Indices: 16907399--16907423 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16907389 ATATATGTGA
16907399 TCTTGATGATTT
1 TCTTGATGATTT
16907411 TCTTGATGATTT
1 TCTTGATGATTT
16907423 T
1 T
16907424 TACATTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:16908278 original size:48 final size:46
Alignment explanation
Indices: 16908187--16908455 Score: 240
Period size: 47 Copynumber: 5.7 Consensus size: 46
16908177 GATTTGTACT
* * *
16908187 AGTGTAAGACATGTCTGGGACATGCATCAGCATGCATAAATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCA--CAGAGATGAGAGCC
*
16908235 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACAGAGATGAGAGCC
* * * * * *
16908283 AGAGTAAGACATGTTTGGGACATGCATCGACCTCAACAGA-GATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCG-GCAC-AGAGATGAGAGCC
* * ** * * *
16908330 AGTGTATGACCTGTCTGGGACACACATCGGCTA-AGAG-T-TGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-ACAGAGATGAGAGCC
* *
16908374 AGTGTAAGACATGTCTGGGACATGCATCGGCACGCATATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCA--CAGAGATGAGAGCC
16908422 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
16908456 ATATTTCCCA
Statistics
Matches: 175, Mismatches: 33, Indels: 24
0.75 0.14 0.10
Matches are distributed among these distances:
43 1 0.01
44 29 0.17
45 3 0.02
46 9 0.05
47 44 0.25
48 44 0.25
49 28 0.16
50 17 0.10
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.21
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGATGAGAGCC
Found at i:16908390 original size:44 final size:44
Alignment explanation
Indices: 16908137--16908404 Score: 175
Period size: 44 Copynumber: 5.8 Consensus size: 44
16908127 GGGTGATTTG
* * * *
16908137 TGTGCCAGTGTAAGACTTGTCTGGGACACGGATCAGCTAAGATT
1 TGTGCCAGTGTAAGACATGTCTGGGACACGCATCGGCTAAGAGT
* * *
16908181 TGTACTAGTGTAAGACATGTCTGGGACATGCATCAGCATGCATAA-A-T
1 TGTGCCAGTGTAAGACATGTCTGGGACACGCATC-G---GC-TAAGAGT
* * *
16908228 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACAGAGAT
1 -TGTGCCAGTGTAAGA-CATGTCTGGGACA-CGCATCGGCTA-AGAG-T
* * * * * *
16908276 GAGTGCCAGAGTAAGACATGTTTGGGACATGCATCGACCTCAACAGAGA
1 -TGTGCCAGTGTAAGACATGTCTGGGACACGCATCG-GCT--A-AGAGT
* * * *
16908325 T-AGCCAGTGTATGACCTGTCTGGGACACACATCGGCTAAGAGT
1 TGTGCCAGTGTAAGACATGTCTGGGACACGCATCGGCTAAGAGT
* *
16908368 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 TGTGCCAGTGTAAGACATGTCTGGGACACGCATCGGC
16908405 ACGCATATAT
Statistics
Matches: 174, Mismatches: 33, Indels: 34
0.72 0.14 0.14
Matches are distributed among these distances:
43 5 0.03
44 60 0.34
45 1 0.01
46 11 0.06
47 40 0.23
48 29 0.17
49 17 0.10
50 11 0.06
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (44 bp):
TGTGCCAGTGTAAGACATGTCTGGGACACGCATCGGCTAAGAGT
Found at i:16908393 original size:91 final size:93
Alignment explanation
Indices: 16908140--16908454 Score: 347
Period size: 93 Copynumber: 3.4 Consensus size: 93
16908130 TGATTTGTGT
* * * * *
16908140 GCCAGTGTAAGACTTGTCTGGGACACGGATCAGCTAAGATTTGTACTAGTGTAAGACATGTCTGG
1 GCCAGTGTAAGACCTGTCTGGGACACGCATCGGCTAAGAGTTGTGCTAGTGTAAGACATGTCTGG
16908205 GACATGCATC-AGCATGCATAAATGAGA
66 GACATGCATCGAGCATGCATAAATGAGA
* * * *
16908232 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACAGAGATGAGTGCCAGAGTAAGACATG
1 GCCAGTGTAAGACC-TGTCTGGGACA-CGCATCGGCTA-AGAG-T-TGTGCTAGTGTAAGACATG
* * *
16908296 TTTGGGACATGCATCGA-CCT-CA-ACAGA-GATA
61 TCTGGGACATGCATCGAGCATGCATA-A-ATGAGA
* *
16908327 GCCAGTGTATGACCTGTCTGGGACACACATCGGCTAAGAGTTGTGCTAGTGTAAGACATGTCTGG
1 GCCAGTGTAAGACCTGTCTGGGACACGCATCGGCTAAGAGTTGTGCTAGTGTAAGACATGTCTGG
* *
16908392 GACATGCATCG-GCACGCATATATGAGA
66 GACATGCATCGAGCATGCATAAATGAGA
*
16908419 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCCAGTGTAAGACC-TGTCTGGGACA-CGCATCGGC
16908455 AATATTTCCC
Statistics
Matches: 182, Mismatches: 26, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
91 33 0.18
92 32 0.18
93 35 0.19
94 29 0.16
95 20 0.11
96 32 0.18
97 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (93 bp):
GCCAGTGTAAGACCTGTCTGGGACACGCATCGGCTAAGAGTTGTGCTAGTGTAAGACATGTCTGG
GACATGCATCGAGCATGCATAAATGAGA
Found at i:16910298 original size:44 final size:44
Alignment explanation
Indices: 16910235--16910323 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
16910225 TTTTTTCACA
16910235 TGTCTATGTTACGACGGTATCGATTTGATCCTTAACATATTATT
1 TGTCTATGTTACGACGGTATCGATTTGATCCTTAACATATTATT
* *
16910279 TGTCTATGTTATGACGGTATCGATTTGATCCTTCACATATTATT
1 TGTCTATGTTACGACGGTATCGATTTGATCCTTAACATATTATT
16910323 T
1 T
16910324 CCTCGACGGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.45
Consensus pattern (44 bp):
TGTCTATGTTACGACGGTATCGATTTGATCCTTAACATATTATT
Found at i:16911814 original size:49 final size:50
Alignment explanation
Indices: 16911732--16911855 Score: 173
Period size: 49 Copynumber: 2.5 Consensus size: 50
16911722 GTCATTAAGG
* * *
16911732 TTACCGATTCTCAACTCGTATGAGCTTATCAATTTGTAGCTAT-TGAGAGC
1 TTACCGATTCTCAGCTCGTATGAGCTTACCAATTTATAGCT-TGTGAGAGC
16911782 TTACCGATTCTCAGCTC-TATGAGCTTACCAATTTATAGCTTGTGAGAGC
1 TTACCGATTCTCAGCTCGTATGAGCTTACCAATTTATAGCTTGTGAGAGC
*
16911831 ATACCGATTCAT-AGCTCGTATGAGC
1 TTACCGATTC-TCAGCTCGTATGAGC
16911856 ATACATGTAC
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
48 1 0.01
49 42 0.63
50 24 0.36
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.34
Consensus pattern (50 bp):
TTACCGATTCTCAGCTCGTATGAGCTTACCAATTTATAGCTTGTGAGAGC
Found at i:16911821 original size:24 final size:23
Alignment explanation
Indices: 16911750--16911821 Score: 56
Period size: 24 Copynumber: 3.0 Consensus size: 23
16911740 TCTCAACTCG
*
16911750 TATGAGCTTATCAATTTGTAGCTA
1 TATGAGCTTACCAATTT-TAGCTA
* * *
16911774 T-TGAGAGCTTACCGATTCTCAGCTC
1 TAT--GAGCTTACCAATT-TTAGCTA
16911799 TATGAGCTTACCAATTTATAGCT
1 TATGAGCTTACCAATTT-TAGCT
16911822 TGTGAGAGCA
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
23 2 0.05
24 17 0.46
25 16 0.43
26 2 0.05
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (23 bp):
TATGAGCTTACCAATTTTAGCTA
Found at i:16911835 original size:25 final size:25
Alignment explanation
Indices: 16911794--16911859 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
16911784 ACCGATTCTC
* *
16911794 AGCTC-TATGAGCTTACCAATTTAT
1 AGCTCGTATGAGCATACCAATTCAT
* *
16911818 AGCTTGTGA-GAGCATACCGATTCAT
1 AGCTCGT-ATGAGCATACCAATTCAT
16911843 AGCTCGTATGAGCATAC
1 AGCTCGTATGAGCATAC
16911860 ATGTACAGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
24 5 0.15
25 28 0.82
26 1 0.03
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (25 bp):
AGCTCGTATGAGCATACCAATTCAT
Found at i:16916942 original size:13 final size:13
Alignment explanation
Indices: 16916920--16916952 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
16916910 AAGGGTTTGT
16916920 TTAT-TAAACTAA
1 TTATCTAAACTAA
16916932 TTATCTAAACTAA
1 TTATCTAAACTAA
*
16916945 TTAACTAA
1 TTATCTAA
16916953 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:16919884 original size:5 final size:5
Alignment explanation
Indices: 16919861--16919937 Score: 59
Period size: 5 Copynumber: 14.4 Consensus size: 5
16919851 AAATTAAAAT
* *
16919861 AATAA AATTGA AATGAA AATAAA AATAA AA-AA GAAGAAA AATAA AA-ATA
1 AATAA AA-TAA AAT-AA AAT-AA AATAA AATAA -AA-TAA AATAA AATA-A
16919910 AATAA AATAA AATAA AATAA GAATAA AA
1 AATAA AATAA AATAA AATAA -AATAA AA
16919938 AGATAGGAGG
Statistics
Matches: 60, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
4 3 0.05
5 34 0.57
6 21 0.35
7 2 0.03
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (5 bp):
AATAA
Found at i:16919891 original size:6 final size:6
Alignment explanation
Indices: 16919871--16919938 Score: 52
Period size: 6 Copynumber: 11.5 Consensus size: 6
16919861 AATAAAATTG
* * * *
16919871 AAATGA AAATAA AAAT-A AAA-AA GAAGAA AAATAA AAATAA ATAAAATA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA A-AATA-A
*
16919919 AAAT-A AAATAA GAATAA AAA
1 AAATAA AAATAA AAATAA AAA
16919939 GATAGGAGGA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
5 12 0.24
6 30 0.61
7 5 0.10
8 2 0.04
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:16919927 original size:10 final size:10
Alignment explanation
Indices: 16919861--16919937 Score: 59
Period size: 11 Copynumber: 7.2 Consensus size: 10
16919851 AAATTAAAAT
*
16919861 AATAAAATTGA
1 AATAAAA-TAA
16919872 AATGAAAATAAA
1 AAT-AAAAT-AA
16919884 AATAAAA-AA
1 AATAAAATAA
*
16919893 GAAGAAAAATAA
1 -AA-TAAAATAA
16919905 AA-ATAAATAA
1 AATA-AAATAA
16919915 AATAAAATAA
1 AATAAAATAA
16919925 AATAAGAATAA
1 AATAA-AATAA
16919936 AA
1 AA
16919938 AGATAGGAGG
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
9 3 0.05
10 21 0.38
11 22 0.39
12 10 0.18
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (10 bp):
AATAAAATAA
Found at i:16922994 original size:31 final size:31
Alignment explanation
Indices: 16922959--16923018 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
16922949 TTTTAACGAG
16922959 AACATCTTTAATAATACCTTTAGGAAATCTA
1 AACATCTTTAATAATACCTTTAGGAAATCTA
16922990 AACATCTTTAATAATACCTTTAGGAAATC
1 AACATCTTTAATAATACCTTTAGGAAATC
16923019 GAACTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
AACATCTTTAATAATACCTTTAGGAAATCTA
Found at i:16925355 original size:13 final size:13
Alignment explanation
Indices: 16925333--16925365 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
16925323 AAGGGTTTGT
16925333 TTAT-TAAACTAA
1 TTATCTAAACTAA
16925345 TTATCTAAACTAA
1 TTATCTAAACTAA
*
16925358 TTAACTAA
1 TTATCTAA
16925366 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:16929687 original size:27 final size:27
Alignment explanation
Indices: 16929657--16929834 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
16929647 ATATTGAGTC
* * * *
16929657 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
16929684 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16929711 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
16929739 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
16929766 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
16929793 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16929820 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16929835 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:16929796 original size:82 final size:81
Alignment explanation
Indices: 16929678--16929833 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
16929668 TGCTATATAA
* *
16929678 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
16929743 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
16929760 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
16929824 CACTTAGTGC
65 CACTTAGTGC
16929834 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:16943342 original size:10 final size:11
Alignment explanation
Indices: 16943297--16943351 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
16943287 AAATATTATC
16943297 TTATTAATATT
1 TTATTAATATT
*
16943308 TTGACTTGATA-T
1 TT-A-TTAATATT
*
16943320 TTATTTATATT
1 TTATTAATATT
16943331 TTATTAAT-TT
1 TTATTAATATT
16943341 TTAGTTAATAT
1 TTA-TTAATAT
16943352 ATAAGGAAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
10 10 0.28
11 16 0.44
12 5 0.14
13 5 0.14
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (11 bp):
TTATTAATATT
Found at i:16943875 original size:37 final size:37
Alignment explanation
Indices: 16943825--16943897 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
16943815 TCGTAAAAGA
16943825 TGTAAAATTTGATCACTATTTGATTTGAGTGATTAAT
1 TGTAAAATTTGATCACTATTTGATTTGAGTGATTAAT
16943862 TGTAAAATTTGATCACTATTTGATTTGAGTGATTAA
1 TGTAAAATTTGATCACTATTTGATTTGAGTGATTAA
16943898 ATGATTAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.45
Consensus pattern (37 bp):
TGTAAAATTTGATCACTATTTGATTTGAGTGATTAAT
Found at i:16945081 original size:26 final size:26
Alignment explanation
Indices: 16945018--16945087 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
16945008 ATTCCGACCT
*
16945018 ACAGCTTGTGTGAGCAGACCCATTTC
1 ACAGCTTGTGTGAGCATACCCATTTC
* * *
16945044 ACAACTTTTGTGAGCATACTCATTTC
1 ACAGCTTGTGTGAGCATACCCATTTC
* *
16945070 ATAGCTCGTGTGAGCATA
1 ACAGCTTGTGTGAGCATA
16945088 TATGTACAGG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (26 bp):
ACAGCTTGTGTGAGCATACCCATTTC
Found at i:16948673 original size:22 final size:21
Alignment explanation
Indices: 16948648--16948709 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 21
16948638 TTTAGCATCC
16948648 TTACCATGTTGCACTT-TTGCAT
1 TTACCAT-TTGCACTTCTTGC-T
* *
16948670 TTACTATTTTGTACTTCGTTGCT
1 TTACCA-TTTGCACTTC-TTGCT
16948693 TTACCATTCTGCACTTC
1 TTACCATT-TGCACTTC
16948710 GGTACCTACT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
22 14 0.44
23 14 0.44
24 4 0.12
ACGTcount: A:0.16, C:0.24, G:0.11, T:0.48
Consensus pattern (21 bp):
TTACCATTTGCACTTCTTGCT
Found at i:16948695 original size:23 final size:24
Alignment explanation
Indices: 16948648--16948710 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 24
16948638 TTTAGCATCC
16948648 TTACCATGT-TGCACTT--TTGCAT
1 TTACCAT-TCTGCACTTCGTTGCAT
* * *
16948670 TTACTATTTTGTACTTCGTTGC-T
1 TTACCATTCTGCACTTCGTTGCAT
16948693 TTACCATTCTGCACTTCG
1 TTACCATTCTGCACTTCG
16948711 GTACCTACTG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
21 1 0.03
22 12 0.36
23 16 0.48
24 4 0.12
ACGTcount: A:0.16, C:0.24, G:0.13, T:0.48
Consensus pattern (24 bp):
TTACCATTCTGCACTTCGTTGCAT
Found at i:16948761 original size:22 final size:22
Alignment explanation
Indices: 16948702--16948763 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
16948692 TTTACCATTC
* *
16948702 TGCACTTCGGTACCTACTGTTT
1 TGCACTTCGGTACTTACTGATT
* *
16948724 TGCACTTTGGTACTTAGTGATT
1 TGCACTTCGGTACTTACTGATT
*
16948746 TGCACTTCGGTGCTTACT
1 TGCACTTCGGTACTTACT
16948764 ATTCTATTAG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.42
Consensus pattern (22 bp):
TGCACTTCGGTACTTACTGATT
Found at i:16951882 original size:25 final size:24
Alignment explanation
Indices: 16951854--16951910 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 24
16951844 TATACTTCCG
*
16951854 TCTTGCGAACCCAGCTCGCATCTTT
1 TCTTGCGAACCCAGCTCGCATC-TA
*
16951879 TCTTGCGAACCCAGTTCGCATCTA
1 TCTTGCGAACCCAGCTCGCATCTA
16951903 TCTTGCGA
1 TCTTGCGA
16951911 CCCCTACTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 9 0.30
25 21 0.70
ACGTcount: A:0.18, C:0.33, G:0.18, T:0.32
Consensus pattern (24 bp):
TCTTGCGAACCCAGCTCGCATCTA
Found at i:16954499 original size:47 final size:47
Alignment explanation
Indices: 16954366--16954536 Score: 175
Period size: 47 Copynumber: 3.6 Consensus size: 47
16954356 ATAGTAAAAC
* * *
16954366 TATGGTCTTGCACA-TAGTCACATATCACATACCGAGGCCATAACCCAGC
1 TATGGTCTTACACAGTAG-CACATATCAC--ACCGAGGCCATATCCCAGA
* * * * *
16954415 CATGGTCTTACAC-GGATCACATATCACACTGATGCCATATCCCAGA
1 TATGGTCTTACACAGTAGCACATATCACACCGAGGCCATATCCCAGA
* *
16954461 TATGGTCTTATACAGTAGCACATATCACACCGAGGCCATATCCCGGA
1 TATGGTCTTACACAGTAGCACATATCACACCGAGGCCATATCCCAGA
* * * *
16954508 TATGGTATTATACGGAAGCACATATCACA
1 TATGGTCTTACACAGTAGCACATATCACA
16954537 TTTCTCCGAA
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 26 0.25
47 54 0.53
48 10 0.10
49 12 0.12
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (47 bp):
TATGGTCTTACACAGTAGCACATATCACACCGAGGCCATATCCCAGA
Found at i:16961169 original size:12 final size:12
Alignment explanation
Indices: 16961148--16961176 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
16961138 TACTGTTGGG
16961148 ATTT-TGAAACA
1 ATTTATGAAACA
16961159 ATTTATGAAACA
1 ATTTATGAAACA
16961171 ATTTAT
1 ATTTAT
16961177 CCGAATGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (12 bp):
ATTTATGAAACA
Found at i:16966638 original size:26 final size:26
Alignment explanation
Indices: 16966609--16966700 Score: 85
Period size: 26 Copynumber: 3.2 Consensus size: 26
16966599 GAAAAAATAA
16966609 TTTAAAGTTTATATAAAAATTATTTT
1 TTTAAAGTTTATATAAAAATTATTTT
** *
16966635 TTTAAAAAATTATGTAAGAGTTATTAATTATTTT
1 TTT-AAAGTTTATAT-A-A---A--AATTATTTT
16966669 TTTAAAGTTTATATAAAAATTATTTT
1 TTTAAAGTTTATATAAAAATTATTTT
16966695 TTTAAA
1 TTTAAA
16966701 AATTATGTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
26 18 0.35
27 8 0.15
28 2 0.04
29 1 0.02
31 1 0.02
32 2 0.04
33 8 0.15
34 12 0.23
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.52
Consensus pattern (26 bp):
TTTAAAGTTTATATAAAAATTATTTT
Found at i:16966692 original size:33 final size:34
Alignment explanation
Indices: 16966626--16966692 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 34
16966616 TTTATATAAA
* * *
16966626 AATTATTTTTTTAAAAAATTATGTAAGAGTTATT
1 AATTATTTTTTTAAAAAATTATATAAAAATTATT
**
16966660 AATTATTTTTTT-AAAGTTTATATAAAAATTATT
1 AATTATTTTTTTAAAAAATTATATAAAAATTATT
16966693 TTTTTAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 16 0.57
34 12 0.43
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (34 bp):
AATTATTTTTTTAAAAAATTATATAAAAATTATT
Found at i:16966724 original size:59 final size:60
Alignment explanation
Indices: 16966609--16966729 Score: 235
Period size: 59 Copynumber: 2.0 Consensus size: 60
16966599 GAAAAAATAA
16966609 TTTAAAGTTTATATAAAAATTATTTTTTTAAAAAATTATGTAAGAGTTATTAATTATTTT
1 TTTAAAGTTTATATAAAAATTATTTTTTTAAAAAATTATGTAAGAGTTATTAATTATTTT
16966669 TTTAAAGTTTATATAAAAATTATTTTTTT-AAAAATTATGTAAGAGTTATTAATTATTTT
1 TTTAAAGTTTATATAAAAATTATTTTTTTAAAAAATTATGTAAGAGTTATTAATTATTTT
16966728 TT
1 TT
16966730 ATTTACTTGA
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
59 32 0.52
60 29 0.48
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (60 bp):
TTTAAAGTTTATATAAAAATTATTTTTTTAAAAAATTATGTAAGAGTTATTAATTATTTT
Found at i:16970538 original size:42 final size:42
Alignment explanation
Indices: 16970486--16970610 Score: 115
Period size: 47 Copynumber: 2.9 Consensus size: 42
16970476 ATATGCGTAA
* *
16970486 CCGTGTAAGACCATATGTGGGATATGGCATCGGCATGTGATC
1 CCGTATAAGACCATATGTGGGACATGGCATCGGCATGTGATC
* * * *
16970528 CCGTATAAGACCATGTTTGGGACATGGCATCGGTATGTTATGTGAGC
1 CCGTATAAGACCATATGTGGGACATGGCATC-G---G-CATGTGATC
* * * *
16970575 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 CCGTATAAGACCATATGTGGGACATGGCATCGGCAT
16970611 CGTTATGTGA
Statistics
Matches: 68, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
42 29 0.43
43 2 0.03
46 2 0.03
47 35 0.51
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.26
Consensus pattern (42 bp):
CCGTATAAGACCATATGTGGGACATGGCATCGGCATGTGATC
Found at i:16970635 original size:48 final size:48
Alignment explanation
Indices: 16970533--16970844 Score: 500
Period size: 48 Copynumber: 6.5 Consensus size: 48
16970523 TGATCCCGTA
* *
16970533 TAAGACCATGTTTGGGACATGGCATCGGTA-TGTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAGTG
*
16970580 TAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAGTG
* * *
16970628 TAAGACCATGTTTGGGACATGGAATCGGCATCGTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAGTG
* *
16970676 TAAGACCATGTCTGGGACTTGGCATCGACATTGTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAGTG
* *
16970724 TAAGACCATGTCTGGGACTTGGCATCGACATTGTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAGTG
* *
16970772 TAAGACCATGTCTGGGACATGGCATCGGCATTGTTATATGACCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAGTG
*
16970820 TAAGACCATGTTTGGGACATGGCAT
1 TAAGACCATGTCTGGGACATGGCAT
16970845 TAGCGTGAGG
Statistics
Matches: 249, Mismatches: 15, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
47 28 0.11
48 221 0.89
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAGTG
Found at i:16976444 original size:3 final size:3
Alignment explanation
Indices: 16976436--16976556 Score: 81
Period size: 3 Copynumber: 40.7 Consensus size: 3
16976426 AAGCATAAAC
* * * *
16976436 AAT AAT AAT AAT GAT GCA- AAT GAT AAT -AT AAGT AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
* *
16976481 CAA- AAT AAT AAT -AT AAAT AAT AAT ATT AAT ATT AAT AAT AAT AAT
1 -AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
16976526 GAT GAT GAT ATT AAT AAT AAT AAT -AT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
16976557 ATAAAAAACT
Statistics
Matches: 94, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
2 9 0.10
3 77 0.82
4 8 0.09
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:16983241 original size:21 final size:20
Alignment explanation
Indices: 16983195--16983243 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
16983185 GTTTATGCAT
*
16983195 GTTTGAATGGTGTTTGAATC
1 GTTTGAATGGTGTTTAAATC
** *
16983215 CCTTGAATGTGTGTTTAAATG
1 GTTTGAATG-GTGTTTAAATC
16983236 GTTTGAAT
1 GTTTGAAT
16983244 AGTTATGCAT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.22, C:0.06, G:0.27, T:0.45
Consensus pattern (20 bp):
GTTTGAATGGTGTTTAAATC
Found at i:16984508 original size:29 final size:29
Alignment explanation
Indices: 16984458--16984513 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
16984448 ATATTATATC
*
16984458 AAATCTAAAATATATGATAATTTATAAATA
1 AAATCTAAAATATATGA-AAATTATAAATA
*
16984488 AAATTTAAAA-ATATGAAAATTATAAA
1 AAATCTAAAATATATGAAAATTATAAA
16984514 GGGACGACCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.38
29 6 0.25
30 9 0.38
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (29 bp):
AAATCTAAAATATATGAAAATTATAAATA
Found at i:16988419 original size:35 final size:35
Alignment explanation
Indices: 16988373--16988447 Score: 141
Period size: 35 Copynumber: 2.1 Consensus size: 35
16988363 TCATTCACAT
16988373 ACATTTATGCAATTATCATCTTAAACTATTCTCAA
1 ACATTTATGCAATTATCATCTTAAACTATTCTCAA
*
16988408 ACATTTATGCAATTATTATCTTAAACTATTCTCAA
1 ACATTTATGCAATTATCATCTTAAACTATTCTCAA
16988443 ACATT
1 ACATT
16988448 CACATTGTCC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.37, C:0.19, G:0.03, T:0.41
Consensus pattern (35 bp):
ACATTTATGCAATTATCATCTTAAACTATTCTCAA
Found at i:16994870 original size:46 final size:46
Alignment explanation
Indices: 16994820--16994992 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
16994810 TGGTTGAGCA
*
16994820 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAAG
* * *
16994866 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AAG
* * * *
16994911 CATCCGAACTCTTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAAG
* * * *
16994959 CCCGAGCTCATTGTGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
16994993 GGGGCTGGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 58 0.55
47 28 0.27
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAAG
Found at i:16994977 original size:93 final size:93
Alignment explanation
Indices: 16994816--16994987 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
16994806 AGGATGGTTG
* * *
16994816 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
16994881 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * * *
16994909 AGCATCCGAACTCTTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCATTGTG
1 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
16994974 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
16994988 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (93 bp):
AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:16995254 original size:19 final size:20
Alignment explanation
Indices: 16995217--16995254 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
16995207 ATAAGGTGGT
16995217 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
16995237 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
16995255 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:17002441 original size:46 final size:46
Alignment explanation
Indices: 17002391--17002563 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
17002381 TGGTTGAGCA
17002391 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17002437 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
17002482 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
17002530 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
17002564 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:17002547 original size:93 final size:93
Alignment explanation
Indices: 17002388--17002558 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
17002378 GGATGGTTGA
* *
17002388 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
17002453 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
17002481 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
17002546 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
17002559 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:17006380 original size:27 final size:27
Alignment explanation
Indices: 17006336--17006459 Score: 101
Period size: 27 Copynumber: 4.6 Consensus size: 27
17006326 TTAGTTTACC
*
17006336 AAATTACTGAAATACCCCCAG-TTGTA
1 AAATTACTGAAATACCCCCAGTTTATA
17006362 AAATTACT-AAAGTACCCCCAGTTTATA
1 AAATTACTGAAA-TACCCCCAGTTTATA
** * * *
17006389 AAATTACCCAAATATCCTC-GATTTGTA
1 AAATTACTGAAATACCCCCAG-TTTATA
** ** *
17006416 AAATTACCAAAATACCCTTAGTTTACA
1 AAATTACTGAAATACCCCCAGTTTATA
*
17006443 AAATTACCGAAATACCC
1 AAATTACTGAAATACCC
17006460 TTGTAGGGTA
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
25 3 0.04
26 18 0.22
27 57 0.70
28 4 0.05
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.28
Consensus pattern (27 bp):
AAATTACTGAAATACCCCCAGTTTATA
Found at i:17006474 original size:27 final size:27
Alignment explanation
Indices: 17006444--17007052 Score: 776
Period size: 27 Copynumber: 22.6 Consensus size: 27
17006434 TAGTTTACAA
*
17006444 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
17006471 AATTATC-AGAATACCCCTGTAAGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
*
17006498 AATTA-CTAGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
*
17006525 AATTACCGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
17006552 AATTATCGAAATACCCCTGTAAGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
17006579 AATTATCGTAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
17006606 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
17006633 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
17006660 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
17006687 AATTACCGAAATTCCCTTGTTGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
17006714 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
17006741 AATTATCGCAATACACCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
17006768 AATTACTGCAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
17006795 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*** *
17006822 AATTATTAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
17006849 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
17006876 AATTATAGCAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
17006903 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
17006930 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
17006957 AATTATC-ACAATACCCCTGTAAGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
*
17006984 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
17007011 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
17007038 AATTACC-AAGATACC
1 AATTACCGAA-ATACC
17007053 TTGTGGGATA
Statistics
Matches: 509, Mismatches: 67, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
26 5 0.01
27 501 0.98
28 3 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:17007549 original size:22 final size:22
Alignment explanation
Indices: 17007497--17007552 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
17007487 TTAAAGCCTT
* *
17007497 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
17007519 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
17007541 CTGATTATGGCT
1 CTGATTATGGCT
17007553 GGGTGGCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 1 0.04
22 26 0.93
23 1 0.04
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:17007750 original size:27 final size:26
Alignment explanation
Indices: 17007720--17007820 Score: 94
Period size: 27 Copynumber: 3.8 Consensus size: 26
17007710 ATTCTGTTAA
*
17007720 GTGGCTTTGCCACATTATCTATTTCTG
1 GTGGCTTTGCCACAATATCT-TTTCTG
* *
17007747 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTTTGCCAC-AATATCTTTTCTG
* * * *
17007774 TTGGCTCTACCACAATATCTGTATCTG
1 GTGGCTTTGCCACAATATCT-TTTCTG
* *
17007801 GTGACTTTGTCACAATATCT
1 GTGGCTTTGCCACAATATCT
17007821 GATAACTGAG
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
26 7 0.12
27 46 0.78
28 6 0.10
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.39
Consensus pattern (26 bp):
GTGGCTTTGCCACAATATCTTTTCTG
Found at i:17007996 original size:6 final size:6
Alignment explanation
Indices: 17007958--17008046 Score: 58
Period size: 6 Copynumber: 14.3 Consensus size: 6
17007948 TTGCATTCAC
* *
17007958 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
17008008 -TCACCTG ATTCTG ATTTTG ATTATG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
17008047 AATGTTTCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 18
0.71 0.10 0.20
Matches are distributed among these distances:
5 4 0.06
6 47 0.72
7 12 0.18
8 2 0.03
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:17008007 original size:31 final size:31
Alignment explanation
Indices: 17007958--17008037 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
17007948 TTGCATTCAC
* *
17007958 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTATGATTCTGTCACCTGATACTG
* *
17007990 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTATGATTCTGTCACCTGATACTG
*
17008021 ATTTTGATTATGATTCT
1 ATTCTGATTATGATTCT
17008038 AGTTCTGATA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 36 0.84
32 7 0.16
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (31 bp):
ATTCTGATTATGATTCTGTCACCTGATACTG
Found at i:17015385 original size:47 final size:47
Alignment explanation
Indices: 17015316--17015407 Score: 157
Period size: 47 Copynumber: 2.0 Consensus size: 47
17015306 AGAAGAATAA
*
17015316 CATGCACTGATTAAGTATTGTGTCCATTAATTACAATTTCAATCCGT
1 CATGCACTGATTAAGTATTGTGTCAATTAATTACAATTTCAATCCGT
* *
17015363 CATGCACTGATTAAGTATTGTGTTAATTAATTATAATTTCAATCC
1 CATGCACTGATTAAGTATTGTGTCAATTAATTACAATTTCAATCC
17015408 ATTTAAATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (47 bp):
CATGCACTGATTAAGTATTGTGTCAATTAATTACAATTTCAATCCGT
Found at i:17028507 original size:23 final size:23
Alignment explanation
Indices: 17028476--17028524 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
17028466 TGCCGAGAGA
* *
17028476 AAGAGTTACTTGGGATTTCTTTC
1 AAGAGTTACCTAGGATTTCTTTC
*
17028499 AAGATTTACCTAGGATTTCTTTC
1 AAGAGTTACCTAGGATTTCTTTC
17028522 AAG
1 AAG
17028525 CTGAGTTCAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (23 bp):
AAGAGTTACCTAGGATTTCTTTC
Found at i:17032609 original size:50 final size:50
Alignment explanation
Indices: 17032521--17032910 Score: 347
Period size: 50 Copynumber: 7.7 Consensus size: 50
17032511 ACCGAAGCTC
* *
17032521 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * * * *
17032571 T-TCGATATACGTAGTAGCCTGTACTTAGTACTAAACATGTGACTTATCCA
1 TCT-GATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * * * ** *
17032621 TCTGATACATGTAGTAGCCTGCACATAATACTACACACGTGATCGAAGTTAA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAA
* * * * * *
17032673 -CGGGTACGCATAGTAGCCTGTACTTAGTACTACATATGCGACCTATCAA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * ** *
17032722 TCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTAACCTAAGC-A
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCT-ATCAA
* *
17032772 TCTGATACACTTAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * * *
17032822 TCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTA-AAA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * *
17032871 CTGTCTTAAACACATAGTAGCCTGCACATAGTACTACACA
1 ---TCTGATACACGTAGTAGCCTGCACTTAGTACTACACA
17032911 GGTGTTCTCA
Statistics
Matches: 271, Mismatches: 59, Indels: 18
0.78 0.17 0.05
Matches are distributed among these distances:
49 8 0.03
50 195 0.72
51 35 0.13
52 33 0.12
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (50 bp):
TCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
Found at i:17032787 original size:151 final size:151
Alignment explanation
Indices: 17032524--17032867 Score: 433
Period size: 151 Copynumber: 2.3 Consensus size: 151
17032514 GAAGCTCTCT
* *
17032524 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATTCGATATACGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCCGATACACGTAGTAGC
* * * *
17032589 CTGTACTTAGTACTAAACATGTGACTTATCCATCTGATACATGTAGTAGCCTGCACATAATACTA
66 CTGCACTTAGTACTAAACATGTAACCTAACCATCTGATACATGTAGTAGCCTGCACATAATACTA
17032654 CACACGTGATCGAAGTTAACG
131 CACACGTGATCGAAGTTAACG
* * * *
17032675 GGTACGCATAGTAGCCTGTACTTAGTACTACATATGCGACCTATCAATCCGGTACACGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCCGATACACGTAGTAGC
* * * *
17032740 CTGCACTTAGTACTACACATGTAACCTAAGCATCTGATACACT-TAGTAGCCTGCACTTAGTACT
66 CTGCACTTAGTACTAAACATGTAACCTAACCATCTGATACA-TGTAGTAGCCTGCACATAATACT
* * * * * *
17032804 ACACATGCGACCTAA--CAATCT
130 ACACACGTGATCGAAGTTAA-CG
* * * *
17032825 GGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTA
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTA
17032868 AAACTGTCTT
Statistics
Matches: 164, Mismatches: 27, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
149 2 0.01
150 37 0.23
151 124 0.76
152 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (151 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCCGATACACGTAGTAGC
CTGCACTTAGTACTAAACATGTAACCTAACCATCTGATACATGTAGTAGCCTGCACATAATACTA
CACACGTGATCGAAGTTAACG
Found at i:17039787 original size:180 final size:179
Alignment explanation
Indices: 17039523--17039858 Score: 478
Period size: 180 Copynumber: 1.9 Consensus size: 179
17039513 TAAGATTCGT
* * *
17039523 TAATTTTCCCAGAAACTAGACTCACATATATACTTACCATAAAATTTTTAGAATTTTTGGTTTAT
1 TAATTTTACCAGAAACTAAACTCACATATATACTTACCATAAAATTTTAAGAATTTTTGGTTTAT
* * * * ** *
17039588 CCAATTAGTACATTTTATTCATTAAATTTACCCCTATTTCACTATCC-ATTAGTTCCGACCTCTC
66 CCAATTAATACAGTTTATTCATTAAATATA-CCCTATTTCACTATCCGA-CAACTCCAACCTCTC
17039652 ATCACTAAAAATTATTTATCTCATGGTACGAGACTCCAAATTAAGAACTAC
129 ATCACTAAAAATTATTTATCTCATGGTACGAGACTCCAAATTAAGAACTAC
* *
17039703 TAATTTTACCAGAAACTAAACTCACATATATTCTTACCATAAAATTTTAAGAATTTTTTGTTTAG
1 TAATTTTACCAGAAACTAAACTCACATATATACTTACCATAAAATTTTAAGAATTTTTGGTTTA-
* * * *
17039768 T-CAATTAATACAGTTTATTCATTAAATATACCCTATTTCACTGTCCGACAACTCCAATCTTTCT
65 TCCAATTAATACAGTTTATTCATTAAATATACCCTATTTCACTATCCGACAACTCCAACCTCTCA
*
17039832 TCAGTAAAAATTATTTATCTCATGGTA
130 TCACTAAAAATTATTTATCTCATGGTA
17039859 AATATCTCGG
Statistics
Matches: 137, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
179 50 0.36
180 86 0.63
181 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.39
Consensus pattern (179 bp):
TAATTTTACCAGAAACTAAACTCACATATATACTTACCATAAAATTTTAAGAATTTTTGGTTTAT
CCAATTAATACAGTTTATTCATTAAATATACCCTATTTCACTATCCGACAACTCCAACCTCTCAT
CACTAAAAATTATTTATCTCATGGTACGAGACTCCAAATTAAGAACTAC
Found at i:17040202 original size:16 final size:16
Alignment explanation
Indices: 17040183--17040214 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17040173 CAAAACTGTT
17040183 TTTTTACAAAATTTCA
1 TTTTTACAAAATTTCA
*
17040199 TTTTTACATAATTTCA
1 TTTTTACAAAATTTCA
17040215 CTTACTCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTTACAAAATTTCA
Found at i:17040503 original size:50 final size:50
Alignment explanation
Indices: 17040428--17040706 Score: 326
Period size: 50 Copynumber: 5.5 Consensus size: 50
17040418 CTGGTACGCA
* * *
17040428 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGATACACG
*
17040478 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGATACACG
* * * * * *
17040528 TAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAACTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACAATCTGATACACG
* * * *
17040579 TAGTAGTCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGATACACG
** * * *
17040629 TAGTAGCCTGCACTTAGTACTACACACGTGACCTGAAACTGTCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACAATCTGATACACG
* *
17040681 TAGTAGCTTGCACATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
17040707 GGTGTTTTCA
Statistics
Matches: 196, Mismatches: 28, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
49 1 0.01
50 122 0.62
51 38 0.19
52 35 0.18
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGATACACG
Found at i:17040612 original size:101 final size:102
Alignment explanation
Indices: 17040428--17040706 Score: 339
Period size: 101 Copynumber: 2.8 Consensus size: 102
17040418 CTGGTACGCA
* * * * * ***
17040428 TAGTAGCCTGCACTTAGTACTACACATGTGACCT--ATCAATCTGATACATGTAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTGAAACTATCGGGTACGCATAGTAGCCTGCAC
* *
17040491 TTAGTACTACACACGTGACCTAACAATCTGATACATG
66 TTAGTACTACACACGCGACCTAACAATCTGATACACG
* *
17040528 TAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAACTATCGGGTACGCATAGTAGTCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTGAAACTATCGGGTACGCATAGTAGCCTGCAC
* *
17040592 TTAGTACTACACATGCGACCTAACAATCTGGTACACG
66 TTAGTACTACACACGCGACCTAACAATCTGATACACG
* **** * *
17040629 TAGTAGCCTGCACTTAGTACTACACACGTGACCTGAAACTGTCTTAAACACATAGTAGCTTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTGAAACTATCGGGTACGCATAGTAGCCTGCAC
*
17040694 ATAGTACTACACA
66 TTAGTACTACACA
17040707 GGTGTTTTCA
Statistics
Matches: 152, Mismatches: 24, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
99 1 0.01
100 30 0.20
101 85 0.56
102 36 0.24
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (102 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTGAAACTATCGGGTACGCATAGTAGCCTGCAC
TTAGTACTACACACGCGACCTAACAATCTGATACACG
Found at i:17047533 original size:40 final size:39
Alignment explanation
Indices: 17047435--17047697 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
17047425 TCCTCGTTCA
* * * *
17047435 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
17047474 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
17047513 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
17047553 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
17047593 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
17047633 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
17047674 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
17047698 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:17047657 original size:120 final size:119
Alignment explanation
Indices: 17047435--17047697 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
17047425 TCCTCGTTCA
* * *
17047435 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
17047500 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
17047553 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
17047618 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
17047674 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
17047698 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:17047706 original size:41 final size:41
Alignment explanation
Indices: 17047629--17047706 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
17047619 TTTGTATCTC
* * *
17047629 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
17047670 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
17047707 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:17055428 original size:39 final size:40
Alignment explanation
Indices: 17055383--17055607 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
17055373 GCTCCTCGTT
* * * *
17055383 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
17055423 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
17055462 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
17055502 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
17055542 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
17055583 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
17055608 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
39 39 0.25
40 105 0.66
41 15 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:17055616 original size:41 final size:41
Alignment explanation
Indices: 17055539--17055616 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
17055529 TTTGTATCTC
* * *
17055539 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
17055580 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
17055617 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:17062813 original size:34 final size:34
Alignment explanation
Indices: 17062770--17062834 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
17062760 GAGACTTCGT
*
17062770 CACACTATCCTACTATCACTTTTGTACTTTTTAG
1 CACACTATCCTACTATCACTTTGGTACTTTTTAG
17062804 CACACTATCCTACTATCACTTTGGTACTTTT
1 CACACTATCCTACTATCACTTTGGTACTTTT
17062835 GAGATTATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.23, C:0.28, G:0.06, T:0.43
Consensus pattern (34 bp):
CACACTATCCTACTATCACTTTGGTACTTTTTAG
Found at i:17065207 original size:17 final size:17
Alignment explanation
Indices: 17065169--17065219 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
17065159 GTATAATGAG
17065169 AAAAGAAAAAGAAGAGAAAT
1 AAAAG-AAAAGAA-A-AAAT
17065189 AAAAGAAAAGAAAAAAT
1 AAAAGAAAAGAAAAAAT
* *
17065206 AAAATAAAATAAAA
1 AAAAGAAAAGAAAA
17065220 TAAATGATGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 16 0.55
18 1 0.03
19 7 0.24
20 5 0.17
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (17 bp):
AAAAGAAAAGAAAAAAT
Found at i:17077761 original size:11 final size:11
Alignment explanation
Indices: 17077740--17077769 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
17077730 CGAGCATATT
17077740 ATACAATTAAAC
1 ATAC-ATTAAAC
17077752 ATACATTAAAC
1 ATACATTAAAC
17077763 ATACATT
1 ATACATT
17077770 TTCAAATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (11 bp):
ATACATTAAAC
Found at i:17079149 original size:24 final size:24
Alignment explanation
Indices: 17079121--17079166 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
17079111 ATTCATGCCA
*
17079121 CAAAATATACCAATTCTTCATCAT
1 CAAAATATACCAATTCATCATCAT
*
17079145 CAAAATGTACCAATTCATCATC
1 CAAAATATACCAATTCATCATC
17079167 CCTATACCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.41, C:0.26, G:0.02, T:0.30
Consensus pattern (24 bp):
CAAAATATACCAATTCATCATCAT
Found at i:17088438 original size:12 final size:12
Alignment explanation
Indices: 17088421--17088456 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
17088411 TCAGTTGAGG
17088421 GATTTGAGGAGA
1 GATTTGAGGAGA
*
17088433 GATTTGAGGAGG
1 GATTTGAGGAGA
*
17088445 GATTTTAGGAGA
1 GATTTGAGGAGA
17088457 AATTAGGGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.42, T:0.28
Consensus pattern (12 bp):
GATTTGAGGAGA
Found at i:17088467 original size:24 final size:24
Alignment explanation
Indices: 17088417--17088468 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
17088407 GTGATCAGTT
* *
17088417 GAGGGATTTGAGGAGAGATTTGAG
1 GAGGGATTTGAGGAGAAATTAGAG
* *
17088441 GAGGGATTTTAGGAGAAATTAGGG
1 GAGGGATTTGAGGAGAAATTAGAG
17088465 GAGG
1 GAGG
17088469 AAAAAGTGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.00, G:0.46, T:0.23
Consensus pattern (24 bp):
GAGGGATTTGAGGAGAAATTAGAG
Found at i:17089897 original size:27 final size:27
Alignment explanation
Indices: 17089867--17089998 Score: 156
Period size: 27 Copynumber: 4.9 Consensus size: 27
17089857 TAATTTGATG
* * *
17089867 AAATGACTATTTTACCCTTATGTGGTA
1 AAATGACTGTTTTGCCCTTATATGGTA
* * *
17089894 AAATGATTGTTTTGCCCGTATGTGGTA
1 AAATGACTGTTTTGCCCTTATATGGTA
*
17089921 GAATGACTGTTTTGCCCTTATATGGTA
1 AAATGACTGTTTTGCCCTTATATGGTA
* * * *
17089948 AAATGACTATATTGCCCTTATATGCTC
1 AAATGACTGTTTTGCCCTTATATGGTA
*
17089975 AAATGACTGTTTTGCCCCTATATG
1 AAATGACTGTTTTGCCCTTATATG
17089999 ATGTATGTTT
Statistics
Matches: 89, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (27 bp):
AAATGACTGTTTTGCCCTTATATGGTA
Found at i:17090296 original size:23 final size:24
Alignment explanation
Indices: 17090265--17090310 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
17090255 ATATCCCCAC
*
17090265 ATGGAGTGTAG-GGTTGGATGGGG
1 ATGGAGTGTAGAGGCTGGATGGGG
*
17090288 ATGGTGTGTAGAGGCTGGATGGG
1 ATGGAGTGTAGAGGCTGGATGGG
17090311 TAGGACTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.17, C:0.02, G:0.54, T:0.26
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGGG
Found at i:17091101 original size:18 final size:18
Alignment explanation
Indices: 17091078--17091113 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
17091068 TATCAAGCAT
17091078 TTCCTCAACCATTCCACA
1 TTCCTCAACCATTCCACA
17091096 TTCCTCAACCATTCCACA
1 TTCCTCAACCATTCCACA
17091114 ACCATACCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.44, G:0.00, T:0.28
Consensus pattern (18 bp):
TTCCTCAACCATTCCACA
Found at i:17098696 original size:93 final size:93
Alignment explanation
Indices: 17098589--17098759 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
17098579 GCCCCTAAGT
* *
17098589 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17098654 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
17098682 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17098747 CGAGTTCGGATGC
66 CGAGTTCGGATGC
17098760 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17098756 original size:46 final size:46
Alignment explanation
Indices: 17098584--17098756 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
17098574 AACCCGCCCC
* * *
17098584 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
17098630 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
17098678 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
17098723 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
17098757 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:17099213 original size:30 final size:30
Alignment explanation
Indices: 17099179--17099238 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
17099169 ATTTAATACG
17099179 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
17099209 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
17099239 GGCTCGGGAA
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:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Done.