Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1640
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: 166584
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
File 1 of 2
Found at i:2889 original size:15 final size:15
Alignment explanation
Indices: 2869--2899 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2859 ATTTCTTGTG
*
2869 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2884 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2899 G
1 G
2900 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:4730 original size:21 final size:21
Alignment explanation
Indices: 4701--4745 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4691 AAGTTTTCAT
*
4701 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
4721 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
4743 TTT
1 TTT
4746 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:6976 original size:13 final size:13
Alignment explanation
Indices: 6958--6983 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6948 CAATTTTTTG
6958 TGTATCGATACAT
1 TGTATCGATACAT
6971 TGTATCGATACAT
1 TGTATCGATACAT
6984 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6998 original size:32 final size:33
Alignment explanation
Indices: 6938--7001 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
6928 TACAAGCCAA
** *
6938 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
6971 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
7002 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:11531 original size:20 final size:20
Alignment explanation
Indices: 11496--11547 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
11486 CAATAATTTG
*
11496 TATCGATAAAATAAGTGAATA
1 TATCGAT-ACATAAGTGAATA
*
11517 TATCGATACATAAGTGAATG
1 TATCGATACATAAGTGAATA
11537 TATCGATACAT
1 TATCGATACAT
11548 GTCTGAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 22 0.76
21 7 0.24
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (20 bp):
TATCGATACATAAGTGAATA
Found at i:11554 original size:20 final size:20
Alignment explanation
Indices: 11496--11567 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
11486 CAATAATTTG
* *
11496 TATCGATAAAATAAGTGAATA
1 TATCGAT-ACATAACTGAATA
* *
11517 TATCGATACATAAGTGAATG
1 TATCGATACATAACTGAATA
** *
11537 TATCGATACATGTCTGAAATT
1 TATCGATACATAACTG-AATA
11558 TATCGATACA
1 TATCGATACA
11568 GGGCCATTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
20 24 0.55
21 20 0.45
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (20 bp):
TATCGATACATAACTGAATA
Found at i:12962 original size:18 final size:18
Alignment explanation
Indices: 12939--12974 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
12929 CAAACCTTGA
12939 ATGGCATGATCAAGGGGC
1 ATGGCATGATCAAGGGGC
12957 ATGGCATGATCAAGGGGC
1 ATGGCATGATCAAGGGGC
12975 TATTTCATCA
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:0.17, G:0.39, T:0.17
Consensus pattern (18 bp):
ATGGCATGATCAAGGGGC
Found at i:15380 original size:33 final size:33
Alignment explanation
Indices: 15338--15418 Score: 103
Period size: 33 Copynumber: 2.5 Consensus size: 33
15328 CACACCCATA
* *
15338 TGTATCGATACATTATGC-TT-TATATCGATACAT
1 TGTATCGATACATGAT-CATTGTATATCGACA-AT
*
15371 TGTATCGATACATGATCATTGTATATGGACAAT
1 TGTATCGATACATGATCATTGTATATCGACAAT
15404 TGTATCGATACATGA
1 TGTATCGATACATGA
15419 AACTAGCAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
32 1 0.02
33 34 0.79
34 8 0.19
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATGATCATTGTATATCGACAAT
Found at i:15489 original size:33 final size:33
Alignment explanation
Indices: 15447--15598 Score: 94
Period size: 33 Copynumber: 4.4 Consensus size: 33
15437 TACCATTGTT
15447 TGTATCGATACATGGTACATTATATCGATATAA
1 TGTATCGATACATGGTACATTATATCGATATAA
* * *
15480 TGTATCGATACATGATGA-ATTGTATCGATACATTACT
1 TGTATCGATACATGGT-ACATTATATCGAT--A-TA-A
* * * ** * * *
15517 TCTAACGACTATAAACG-ACTATAATTTC-AAATCAA
1 TGTATCGA-TA-CATGGTAC-ATTATATCGATAT-AA
*
15552 TGTATCGATACATGGTACATTGTATCGATATAA
1 TGTATCGATACATGGTACATTATATCGATATAA
15585 TGTATCGATACATG
1 TGTATCGATACATG
15599 ATGAATTGTA
Statistics
Matches: 84, Mismatches: 23, Indels: 24
0.64 0.18 0.18
Matches are distributed among these distances:
33 48 0.57
34 8 0.10
35 8 0.10
36 4 0.05
37 7 0.08
38 3 0.04
39 6 0.07
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATGGTACATTATATCGATATAA
Found at i:15579 original size:105 final size:105
Alignment explanation
Indices: 15447--15686 Score: 428
Period size: 105 Copynumber: 2.3 Consensus size: 105
15437 TACCATTGTT
*
15447 TGTATCGATACATGGTACATTATATCGATATAATGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCGATACATGGTACATTGTATCGATATAATGTATCGATACATGATGAATTGTATCGATACA
15512 TTACTTCTAACGACTATAAACGACTATAATTTCAAATCAA
66 TTACTTCTAACGACTATAAACGACTATAATTTCAAATCAA
15552 TGTATCGATACATGGTACATTGTATCGATATAATGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCGATACATGGTACATTGTATCGATATAATGTATCGATACATGATGAATTGTATCGATACA
*
15617 TTACTTCTAACGACTATAAACGGCTATAATTTCAAATCAA
66 TTACTTCTAACGACTATAAACGACTATAATTTCAAATCAA
**
15657 TGTATCGATACATTATGA-ATTGTATCGATA
1 TGTATCGATACATGGT-ACATTGTATCGATA
15687 CATAGCTATG
Statistics
Matches: 130, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
105 129 0.99
106 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.35
Consensus pattern (105 bp):
TGTATCGATACATGGTACATTGTATCGATATAATGTATCGATACATGATGAATTGTATCGATACA
TTACTTCTAACGACTATAAACGACTATAATTTCAAATCAA
Found at i:15607 original size:33 final size:33
Alignment explanation
Indices: 15550--15614 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
15540 ATTTCAAATC
*
15550 AATGTATCGATACATGGTACATTGTATCGATAT
1 AATGTATCGATACATGATACATTGTATCGATAT
15583 AATGTATCGATACATGATGA-ATTGTATCGATA
1 AATGTATCGATACATGAT-ACATTGTATCGATA
15615 CATTACTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (33 bp):
AATGTATCGATACATGATACATTGTATCGATAT
Found at i:15667 original size:52 final size:52
Alignment explanation
Indices: 15500--15671 Score: 183
Period size: 52 Copynumber: 3.3 Consensus size: 52
15490 CATGATGAAT
*
15500 TGTATCGATACATTACTTCTAACGACTATAAACGACTATAATTTCAAATCAA
1 TGTATCGATACATTACTTCTAACGACTATAAACGGCTATAATTTCAAATCAA
* * * * * * *
15552 TGTATCGATACATGGTACATTGTATCGA-TAT-AA-TG-TATCGA-TACATGATGAA
1 TGTATCGATACAT--TAC-TTCTAACGACTATAAACGGCTAT-AATTTCA-AATCAA
15604 TTGTATCGATACATTACTTCTAACGACTATAAACGGCTATAATTTCAAATCAA
1 -TGTATCGATACATTACTTCTAACGACTATAAACGGCTATAATTTCAAATCAA
15657 TGTATCGATACATTA
1 TGTATCGATACATTA
15672 TGAATTGTAT
Statistics
Matches: 94, Mismatches: 15, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
50 7 0.07
51 12 0.13
52 35 0.37
53 21 0.22
54 12 0.13
55 7 0.07
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.34
Consensus pattern (52 bp):
TGTATCGATACATTACTTCTAACGACTATAAACGGCTATAATTTCAAATCAA
Found at i:21631 original size:18 final size:20
Alignment explanation
Indices: 21598--21650 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
21588 ATTGGATGAA
*
21598 TTTGATGTTCAATTAT-ATTG
1 TTTGATG-TGAATTATCATTG
21618 TGTT-AT-TGAATTATCATTG
1 T-TTGATGTGAATTATCATTG
21637 TTTGATGTGAATTA
1 TTTGATGTGAATTA
21651 GGGTTTATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
18 9 0.32
19 7 0.25
20 10 0.36
21 2 0.07
ACGTcount: A:0.26, C:0.04, G:0.17, T:0.53
Consensus pattern (20 bp):
TTTGATGTGAATTATCATTG
Found at i:21936 original size:21 final size:22
Alignment explanation
Indices: 21907--21961 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
21897 TTTCATCATT
* *
21907 ATCAACAAAAACGG-ATTTAAA
1 ATCATCAAAAACGGAATTCAAA
*
21928 ATCATC-AAATCGGTAATTCAAA
1 ATCATCAAAAACGG-AATTCAAA
21950 ATCATCAAAAAC
1 ATCATCAAAAAC
21962 CATTTACTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 6 0.22
21 5 0.19
22 12 0.44
23 4 0.15
ACGTcount: A:0.53, C:0.18, G:0.07, T:0.22
Consensus pattern (22 bp):
ATCATCAAAAACGGAATTCAAA
Found at i:24491 original size:71 final size:71
Alignment explanation
Indices: 24374--24551 Score: 338
Period size: 71 Copynumber: 2.5 Consensus size: 71
24364 TATATCATTA
*
24374 CAATGTATCGATACATGATGAATTGTATCGATACATTGCTTCTAACGACTATAAACAGCTATAAT
1 CAATGTATCGA-ACATTATGAATTGTATCGATACATTGCTTCTAACGACTATAAACAGCTATAAT
24439 TTCAAAT
65 TTCAAAT
24446 CAATGTATCGAACATTATGAATTGTATCGATACATTGCTTCTAACGACTATAAACAGCTATAATT
1 CAATGTATCGAACATTATGAATTGTATCGATACATTGCTTCTAACGACTATAAACAGCTATAATT
24511 TCAAAT
66 TCAAAT
24517 CAATGTATCGAACATTATGAATTGTATCGATACAT
1 CAATGTATCGAACATTATGAATTGTATCGATACAT
24552 AGCTACGGGA
Statistics
Matches: 105, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
71 94 0.90
72 11 0.10
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (71 bp):
CAATGTATCGAACATTATGAATTGTATCGATACATTGCTTCTAACGACTATAAACAGCTATAATT
TCAAAT
Found at i:27960 original size:25 final size:25
Alignment explanation
Indices: 27902--27971 Score: 88
Period size: 26 Copynumber: 2.8 Consensus size: 25
27892 AAAGAAACAG
* *
27902 ATAAAATAAT-ATATAAAAATATAAA
1 ATAAAATAATAAT-TAATAATAAAAA
*
27927 ATATTAATAATAATTAATAATAAAAA
1 ATA-AAATAATAATTAATAATAAAAA
27953 ATAAAATAATAATTAATAA
1 ATAAAATAATAATTAATAA
27972 AATATTGATT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 18 0.46
26 19 0.49
27 2 0.05
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (25 bp):
ATAAAATAATAATTAATAATAAAAA
Found at i:27969 original size:7 final size:6
Alignment explanation
Indices: 27902--27975 Score: 54
Period size: 5 Copynumber: 13.0 Consensus size: 6
27892 AAAGAAACAG
* *
27902 ATAA-A ATAATA TATAAAA AT-ATA A-AATA TTAATA ATAATTA ATAATA
1 ATAATA ATAATA -ATAATA ATAATA ATAATA ATAATA ATAA-TA ATAATA
27949 A-AA-A ATAA-A ATAATA ATTAATA A-AATA
1 ATAATA ATAATA ATAATA A-TAATA ATAATA
27976 TTGATTAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
4 2 0.04
5 23 0.40
6 15 0.26
7 17 0.30
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
ATAATA
Found at i:31737 original size:13 final size:13
Alignment explanation
Indices: 31719--31744 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31709 CAATTTTTTG
31719 TGTATCGATACAT
1 TGTATCGATACAT
31732 TGTATCGATACAT
1 TGTATCGATACAT
31745 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:34286 original size:13 final size:13
Alignment explanation
Indices: 34268--34306 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
34258 ATAATCACCC
*
34268 TGTATCGATACAG
1 TGTATCGATACAA
34281 TGTATCGATACAA
1 TGTATCGATACAA
34294 TGTATCGATACAA
1 TGTATCGATACAA
34307 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:34317 original size:20 final size:20
Alignment explanation
Indices: 34292--34370 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
34282 GTATCGATAC
34292 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
34312 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
34337 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
34357 CATGTATCGATACA
1 AATGTATCGATACA
34371 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:36407 original size:15 final size:15
Alignment explanation
Indices: 36387--36417 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
36377 ATTTCGTTTG
*
36387 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
36402 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
36417 G
1 G
36418 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:38244 original size:21 final size:21
Alignment explanation
Indices: 38215--38259 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
38205 CAGTTTTCAT
*
38215 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
38235 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
38257 TTT
1 TTT
38260 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:40494 original size:13 final size:13
Alignment explanation
Indices: 40476--40501 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
40466 CAATTTTTTG
40476 TGTATCGATACAT
1 TGTATCGATACAT
40489 TGTATCGATACAT
1 TGTATCGATACAT
40502 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:41989 original size:83 final size:83
Alignment explanation
Indices: 41885--42044 Score: 234
Period size: 83 Copynumber: 1.9 Consensus size: 83
41875 AGAAATAGGT
* * *
41885 TTTTTATCTTAGCCTATTTAAATA-ATAAGGATTGTAAAGCTTATACCTTGTATTTGAAAA-GTA
1 TTTTTATCTTAGCCTACTTAAA-AGATAAGGATTGTAAAGATTATACCTTGTACTT-AAAATGTA
*
41948 ATAATTCAAGTTAAAAAAGG
64 ACAATTCAAGTTAAAAAAGG
* *
41968 TTTTTATCTTAGCCTACTTAAAAGATAAGGATTGTAAATATTATAGCTTGTACTTAAAATGTAAC
1 TTTTTATCTTAGCCTACTTAAAAGATAAGGATTGTAAAGATTATACCTTGTACTTAAAATGTAAC
42033 AATTCAAGTTAA
66 AATTCAAGTTAA
42045 TGGATTATAA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
82 5 0.07
83 64 0.93
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (83 bp):
TTTTTATCTTAGCCTACTTAAAAGATAAGGATTGTAAAGATTATACCTTGTACTTAAAATGTAAC
AATTCAAGTTAAAAAAGG
Found at i:45095 original size:20 final size:20
Alignment explanation
Indices: 45072--45136 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
45062 ATATCCAGAT
45072 GTATCGATACATCATGCTTC
1 GTATCGATACATCATGCTTC
45092 GTATCGAT--A-CA---TT-
1 GTATCGATACATCATGCTTC
45105 GTATCGATACATCATGCTTC
1 GTATCGATACATCATGCTTC
45125 GTATCGATACAT
1 GTATCGATACAT
45137 TGTATCGATA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 8 0.21
14 2 0.05
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 2 0.05
20 20 0.53
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (20 bp):
GTATCGATACATCATGCTTC
Found at i:45110 original size:13 final size:13
Alignment explanation
Indices: 45092--45116 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45082 ATCATGCTTC
45092 GTATCGATACATT
1 GTATCGATACATT
45105 GTATCGATACAT
1 GTATCGATACAT
45117 CATGCTTCGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:45113 original size:33 final size:33
Alignment explanation
Indices: 45071--45147 Score: 154
Period size: 33 Copynumber: 2.3 Consensus size: 33
45061 CATATCCAGA
45071 TGTATCGATACATCATGCTTCGTATCGATACAT
1 TGTATCGATACATCATGCTTCGTATCGATACAT
45104 TGTATCGATACATCATGCTTCGTATCGATACAT
1 TGTATCGATACATCATGCTTCGTATCGATACAT
45137 TGTATCGATAC
1 TGTATCGATAC
45148 TTGTTCATTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATCATGCTTCGTATCGATACAT
Found at i:51624 original size:21 final size:21
Alignment explanation
Indices: 51598--51639 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
51588 GCACGGCGAC
51598 GTGATGATGTTGCTCAACAAG
1 GTGATGATGTTGCTCAACAAG
51619 GTGATGATGTTGCTCAACAAG
1 GTGATGATGTTGCTCAACAAG
51640 ACGATGAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (21 bp):
GTGATGATGTTGCTCAACAAG
Found at i:51645 original size:21 final size:21
Alignment explanation
Indices: 51600--51646 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
51590 ACGGCGACGT
**
51600 GATGATGTTGCTCAACAAGGT
1 GATGATGTTGCTCAACAAGAC
51621 GATGATGTTGCTCAACAAGAC
1 GATGATGTTGCTCAACAAGAC
51642 GATGA
1 GATGA
51647 GCATGAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.26
Consensus pattern (21 bp):
GATGATGTTGCTCAACAAGAC
Found at i:53596 original size:19 final size:20
Alignment explanation
Indices: 53553--53604 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
53543 TACAGGCCAA
*
53553 TGTATCGATACAATTTTTGG
1 TGTATCGATACAATCTTTGG
53573 TGTATCGATAC-ATACTTT-G
1 TGTATCGATACAAT-CTTTGG
53592 TGTATCGATACAA
1 TGTATCGATACAA
53605 GTTTGGCTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATCTTTGG
Found at i:61779 original size:13 final size:13
Alignment explanation
Indices: 61761--61786 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61751 CAATTTTTTG
61761 TGTATCGATACAT
1 TGTATCGATACAT
61774 TGTATCGATACAT
1 TGTATCGATACAT
61787 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:61798 original size:32 final size:33
Alignment explanation
Indices: 61741--61804 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
61731 TACAGGCCAA
**
61741 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
61774 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
61805 AGTTTGACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:63955 original size:24 final size:25
Alignment explanation
Indices: 63895--63955 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
63885 CCTAAAAAAG
** *
63895 AGGCTTTTAAAATGTCCTCGAGAGA
1 AGGCTTTTAAAATAACATCGAGAGA
**
63920 A-GCTTTCCAAATAACATCGAGA-A
1 AGGCTTTTAAAATAACATCGAGAGA
63943 AGGCTTTTAAAAT
1 AGGCTTTTAAAAT
63956 GTCTTCAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
23 2 0.07
24 25 0.89
25 1 0.04
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (25 bp):
AGGCTTTTAAAATAACATCGAGAGA
Found at i:67066 original size:69 final size:69
Alignment explanation
Indices: 66955--67093 Score: 233
Period size: 69 Copynumber: 2.0 Consensus size: 69
66945 ATCCAAATGC
*
66955 AAATGGAGGCATTGCATAGAGAAATTCAAAAGATCAACCAAAACAAAATGAATAATCCTAGGAAG
1 AAATGGAGGCATTACATAGAGAAATTCAAAAGATCAACCAAAACAAAATGAATAATCCTAGGAAG
67020 ACAT
66 ACAT
* * * *
67024 AAATGGAGGCATTACATAGAGAAATTCGAAAGATTAACCAAAACAGAATGAATAATCCTAGGTAG
1 AAATGGAGGCATTACATAGAGAAATTCAAAAGATCAACCAAAACAAAATGAATAATCCTAGGAAG
67089 ACAT
66 ACAT
67093 A
1 A
67094 TGAGGTAAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.19
Consensus pattern (69 bp):
AAATGGAGGCATTACATAGAGAAATTCAAAAGATCAACCAAAACAAAATGAATAATCCTAGGAAG
ACAT
Found at i:71934 original size:19 final size:18
Alignment explanation
Indices: 71910--71974 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 18
71900 TTTAAGCGAT
71910 TTGTATCGATACATAAGTG
1 TTGTATCGATACA-AAGTG
71929 TTGTATCGATAC-AA---
1 TTGTATCGATACAAAGTG
71943 -TGTATCGATACACAAGTG
1 TTGTATCGATACA-AAGTG
*
71961 ATGTATCGATACAA
1 TTGTATCGATACAA
71975 TGTATCGCTA
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (18 bp):
TTGTATCGATACAAAGTG
Found at i:71947 original size:32 final size:32
Alignment explanation
Indices: 71911--71986 Score: 125
Period size: 32 Copynumber: 2.4 Consensus size: 32
71901 TTAAGCGATT
* *
71911 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACACAAGTGATGTATCGATACAA
71943 TGTATCGATACACAAGTGATGTATCGATACAA
1 TGTATCGATACACAAGTGATGTATCGATACAA
*
71975 TGTATCGCTACA
1 TGTATCGATACA
71987 AAGCTACTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (32 bp):
TGTATCGATACACAAGTGATGTATCGATACAA
Found at i:71948 original size:13 final size:13
Alignment explanation
Indices: 71930--71987 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
71920 ACATAAGTGT
71930 TGTATCGATACAA
1 TGTATCGATACAA
71943 TGTATCGATACACAAGTGA
1 TGTATCGAT--AC-A---A
71962 TGTATCGATACAA
1 TGTATCGATACAA
*
71975 TGTATCGCTACAA
1 TGTATCGATACAA
71988 AGCTACTGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 22 0.58
15 2 0.05
16 2 0.05
17 2 0.05
19 10 0.26
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:72043 original size:13 final size:13
Alignment explanation
Indices: 72025--72050 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
72015 CATTATTCCA
72025 TGTATCGATACAT
1 TGTATCGATACAT
72038 TGTATCGATACAT
1 TGTATCGATACAT
72051 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:74526 original size:53 final size:51
Alignment explanation
Indices: 74413--74535 Score: 151
Period size: 53 Copynumber: 2.4 Consensus size: 51
74403 CAATTCTCCG
* * *
74413 CAATCGGGGGTA-TCCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTA
1 CAATCGGGGATACT-CCAACTCCGATTTTATTTCCAAAACACCAATTTTCTA
* *
74464 TAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAAACACCAATTTT-TCA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTCC--AAAACACCAATTTTCT-A
74517 CAATCGGGGATACTCCAAC
1 CAATCGGGGATACTCCAAC
74536 CCCGTTAATC
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
51 28 0.45
52 2 0.03
53 32 0.52
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (51 bp):
CAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCTA
Found at i:74621 original size:52 final size:54
Alignment explanation
Indices: 74546--74646 Score: 152
Period size: 52 Copynumber: 1.9 Consensus size: 54
74536 CCCGTTAATC
*
74546 ATCGAGGATACTCCAACCCTGATTTTATTTTC-AAAACACC-AATTTTCCTTTA
1 ATCGAGGATACTCCAACCCTGATTTTATTTCCAAAAACACCAAATTTTCCTTTA
* * *
74598 ATCGGGGATACTCCGACTCTGATTTTATTTCCAAAAACACCAAATTTTC
1 ATCGAGGATACTCCAACCCTGATTTTATTTCCAAAAACACCAAATTTTC
74647 ACCATCGAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 28 0.65
53 8 0.19
54 7 0.16
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.35
Consensus pattern (54 bp):
ATCGAGGATACTCCAACCCTGATTTTATTTCCAAAAACACCAAATTTTCCTTTA
Found at i:74659 original size:52 final size:50
Alignment explanation
Indices: 74544--74667 Score: 142
Period size: 52 Copynumber: 2.4 Consensus size: 50
74534 ACCCCGTTAA
*
74544 TCATCGAGGATACTCCAACCCTGATTTTATTTTCAAAACACCAATTTTCC
1 TCATCGAGGATACTCCAACCCTGATTTTATTTCCAAAACACCAATTTTCC
* * * *
74594 TTTAATCGGGGATACTCCGACTCTGATTTTATTTCCAAAAACACCAAATTTTCAC
1 --TCATCGAGGATACTCCAACCCTGATTTTATTTCC-AAAACACC-AATTTTC-C
*
74649 -CATCGAGGATATTCCAACC
1 TCATCGAGGATACTCCAACC
74668 TCGTTATTTC
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
52 43 0.73
53 8 0.14
54 7 0.12
55 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.32
Consensus pattern (50 bp):
TCATCGAGGATACTCCAACCCTGATTTTATTTCCAAAACACCAATTTTCC
Found at i:74665 original size:131 final size:131
Alignment explanation
Indices: 74427--74696 Score: 402
Period size: 131 Copynumber: 2.1 Consensus size: 131
74417 CGGGGGTATC
*
74427 CCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACTCCAACTCTGATTTT
1 CCAAC-CCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACTCCAACTCTGATTTT
* *
74492 ATTTCCAAAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTA-ATCATCGAG-GAT
65 ATTTCCAAAAAACACCAAATTTTCACAATCGAGGATACTCCAACCCCGTTATATCATCG-GCGAT
74555 ACT
129 ACT
* *
74558 CCAACCCTGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCGACTCTGATTT
1 CCAACCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGATACTCCAACTCTGATTT
* * * *
74623 TATTTCC-AAAAACACCAAATTTTCACCATCGAGGATATTCCAACCTCGTTATTTCATCGGCGAT
64 TATTTCCAAAAAACACCAAATTTTCACAATCGAGGATACTCCAACCCCGTTATATCATCGGCGAT
74687 ACT
129 ACT
74690 CCAACCC
1 CCAACCC
74697 CATTACCTCC
Statistics
Matches: 126, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
130 2 0.02
131 70 0.56
132 54 0.43
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.32
Consensus pattern (131 bp):
CCAACCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACTCCAACTCTGATTTTA
TTTCCAAAAAACACCAAATTTTCACAATCGAGGATACTCCAACCCCGTTATATCATCGGCGATAC
T
Found at i:76957 original size:4 final size:4
Alignment explanation
Indices: 76948--76982 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
76938 TTTTGAGGTG
* *
76948 TTTA TTTA TTTA TTTA TTTA TTTA TATA TCTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
76983 GTTTTGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:87003 original size:13 final size:13
Alignment explanation
Indices: 86985--87018 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
86975 ATGAAAGGCG
86985 CATGATAATGGCC
1 CATGATAATGGCC
86998 CATGATAATGGCC
1 CATGATAATGGCC
87011 CATGATAA
1 CATGATAA
87019 AAAAGTCCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (13 bp):
CATGATAATGGCC
Found at i:87299 original size:6 final size:6
Alignment explanation
Indices: 87285--87326 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
87275 TTCTCTTAAA
*
87285 AAAAAC AAAAGC AAAAA- AAAAAC AAAAA- AAAAAC -AAAAC AAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAA
87327 GAAAAAGAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
5 15 0.48
6 16 0.52
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:87311 original size:10 final size:11
Alignment explanation
Indices: 87284--87322 Score: 60
Period size: 11 Copynumber: 3.4 Consensus size: 11
87274 CTTCTCTTAA
87284 AAAAAACAAAAGC
1 AAAAAA-AAAA-C
87297 AAAAAAAAAAC
1 AAAAAAAAAAC
87308 AAAAAAAAAAC
1 AAAAAAAAAAC
87319 AAAA
1 AAAA
87323 CAAAGAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 16 0.62
12 4 0.15
13 6 0.23
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:87331 original size:17 final size:16
Alignment explanation
Indices: 87282--87332 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 16
87272 ACCTTCTCTT
*
87282 AAAAAAAACAAAAGCAA
1 AAAAAAAAC-AAAGAAA
87299 AAAAAAAACAAA-AAA
1 AAAAAAAACAAAGAAA
87314 AAAACAAAACAAAGAAA
1 AAAA-AAAACAAAGAAA
87331 AA
1 AA
87333 GAGAGAAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 6 0.19
16 11 0.35
17 14 0.45
ACGTcount: A:0.86, C:0.10, G:0.04, T:0.00
Consensus pattern (16 bp):
AAAAAAAACAAAGAAA
Found at i:88536 original size:55 final size:54
Alignment explanation
Indices: 88279--88854 Score: 580
Period size: 55 Copynumber: 10.0 Consensus size: 54
88269 GATGCTTGTT
* *
88279 CCTTTTAAAGCCCACACAAGTTGGTGGC-TCCTTCAGTCCTCAAAGAGCAGGATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCAT-TTTCAGTCCTCAAAGAGCAGGATG
* *
88333 CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCCCAAAGAGCAGGACG
1 C-----C-TTTCAAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGATG
* ** *
88394 CCCTTTCTTTTAAAGCCCACACAAGTTAGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCT
1 -CCTTTC----AAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGA-----T-G
88459 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGATG
* * *
88514 CCTTTCGAAGCCCACACAAGTTGGTGTCATTTTCTAGTCCTCAAAGAGCAGAATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC-AGTCCTCAAAGAGCAGGATG
* * **
88569 CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAGGAGCAGGACA
1 C-----C-TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGATG
**
88630 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGATG
*
88685 CCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATG
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGATG
* *
88740 CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG
1 C-----C-TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGATG
* * *
88801 CCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGTAGGAT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGAT
88855 ACACTTTATT
Statistics
Matches: 449, Mismatches: 35, Indels: 75
0.80 0.06 0.13
Matches are distributed among these distances:
54 5 0.01
55 191 0.43
56 12 0.03
57 1 0.00
59 19 0.04
60 79 0.18
61 131 0.29
62 5 0.01
64 6 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (54 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGATG
Found at i:88615 original size:116 final size:114
Alignment explanation
Indices: 88279--88854 Score: 656
Period size: 116 Copynumber: 5.0 Consensus size: 114
88269 GATGCTTGTT
* * *
88279 CCTTTTAAAGCCCACACAAGTTGGTGGC-TCCTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCAT-TTTCAGTCCTCAAAGAGCAGGACGC-TTTTCTTT
* *
88343 TCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCCCAAAGAGCAGGACG
64 TCAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGATG
* ** *
88394 CCCTTTCTTTTAAAGCCCACACAAGTTAGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCT
1 -CCTTTC----AAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGACG-CTTTT
*
88459 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATG
60 CTTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGATG
* * * *
88514 CCTTTCGAAGCCCACACAAGTTGGTGTCATTTTCTAGTCCTCAAAGAGCAGAATGCTTTTTCTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC-AGTCCTCAAAGAGCAGGACGC-TTTTCTTT
* * **
88579 TCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAGGAGCAGGACA
64 TCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATG
* *
88630 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC----CTCTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGACGCTTTTCTTTT
*
88691 -AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATG
65 CAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATG
*
88740 CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC---
1 C-----C-TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACGCTTT
* * *
88802 -C-TTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGTAGGAT
59 TCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGAT
88855 ACACTTTATT
Statistics
Matches: 405, Mismatches: 37, Indels: 36
0.85 0.08 0.08
Matches are distributed among these distances:
110 47 0.12
111 4 0.01
115 27 0.07
116 214 0.53
117 7 0.02
119 6 0.01
120 99 0.24
121 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (114 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGACGCTTTTCTTTTC
AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATG
Found at i:88673 original size:171 final size:169
Alignment explanation
Indices: 88279--88854 Score: 773
Period size: 171 Copynumber: 3.3 Consensus size: 169
88269 GATGCTTGTT
* *
88279 CCTTTTAAAGCCCACACAAGTTGGTGGC-TCCTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCAT-TTTCAGTCCTCAAAGAGCAGGATGC-----C-TT
* * **
88343 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCCCAAAGAGCAGGACGCCCTTTCTTTT-AA
59 TCAAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAA
* *
88407 AGCCCACACAAGTTAGTGGCACC-TTCAGTCCTCAAAGAGCAGGACGCCTTCT
123 AGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA------CA
*
88459 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCTTTCGAAG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGATGCCTTTCAAAG
* *
88524 CCCACACAAGTTGGTGTCATTTTCTAGTCCTCAAAGAGCAGAATGCTTTTTCTTTTCAAAGCCCA
65 CCCACACAAGTTGGTGGCATTTTC-AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCA
*
88589 CACAAGTTGGTGGCACCTTTCAGTCCTCAAGGAGCAGGACA
129 CACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
**
88630 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGATGCCT-TTCAAA
*
88694 GCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCC
64 GCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCC
*
88759 ACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG
128 ACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
* * *
88801 CCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGTAGGAT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGAT
88855 ACACTTTATT
Statistics
Matches: 364, Mismatches: 24, Indels: 25
0.88 0.06 0.06
Matches are distributed among these distances:
171 201 0.55
172 10 0.03
174 1 0.00
175 55 0.15
176 25 0.07
177 20 0.05
180 29 0.08
181 23 0.06
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (169 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGC
CCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACA
CAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
Found at i:89639 original size:42 final size:42
Alignment explanation
Indices: 89549--89648 Score: 157
Period size: 42 Copynumber: 2.4 Consensus size: 42
89539 CACTTTTATC
*
89549 CAAATGTATCGATACATTTGTGGAATGTATCGATACATTTGT
1 CAAATGTATCGATACATTTGTGGAATGTATCGATACATTTGA
**
89591 GGAATGTATCGATACATTTGTGGAATGTATCGATACATTCT-A
1 CAAATGTATCGATACATTTGTGGAATGTATCGATACATT-TGA
89633 CAAATGTATCGATACA
1 CAAATGTATCGATACA
89649 AGGTCCCAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
42 51 0.98
43 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (42 bp):
CAAATGTATCGATACATTTGTGGAATGTATCGATACATTTGA
Found at i:89648 original size:21 final size:21
Alignment explanation
Indices: 89551--89629 Score: 158
Period size: 21 Copynumber: 3.8 Consensus size: 21
89541 CTTTTATCCA
89551 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
89572 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
89593 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
89614 AATGTATCGATACATT
1 AATGTATCGATACATT
89630 CTACAAATGT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (21 bp):
AATGTATCGATACATTTGTGG
Found at i:89709 original size:19 final size:18
Alignment explanation
Indices: 89685--89749 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 18
89675 TTTAAGCGAT
89685 TTGTATCGATACATAAGTG
1 TTGTATCGATACA-AAGTG
89704 TTGTATCGATAC-AA---
1 TTGTATCGATACAAAGTG
89718 TT-TATCGATACACAAGTG
1 TTGTATCGATACA-AAGTG
*
89736 ATGTATCGATACAA
1 TTGTATCGATACAA
89750 TGTATCGCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
13 9 0.23
14 2 0.05
15 2 0.05
17 2 0.05
18 2 0.05
19 22 0.56
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (18 bp):
TTGTATCGATACAAAGTG
Found at i:89724 original size:32 final size:32
Alignment explanation
Indices: 89686--89761 Score: 116
Period size: 32 Copynumber: 2.4 Consensus size: 32
89676 TTAAGCGATT
* *
89686 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACACAAGTGATGTATCGATACAA
*
89718 TTTATCGATACACAAGTGATGTATCGATACAA
1 TGTATCGATACACAAGTGATGTATCGATACAA
*
89750 TGTATCGCTACA
1 TGTATCGATACA
89762 AAGCTACTAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (32 bp):
TGTATCGATACACAAGTGATGTATCGATACAA
Found at i:89818 original size:13 final size:13
Alignment explanation
Indices: 89800--89825 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89790 CATTATTCCA
89800 TGTATCGATACAT
1 TGTATCGATACAT
89813 TGTATCGATACAT
1 TGTATCGATACAT
89826 GGATCTTTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:92243 original size:51 final size:53
Alignment explanation
Indices: 92187--92309 Score: 171
Period size: 51 Copynumber: 2.4 Consensus size: 53
92177 TAATTCTCTG
* * * *
92187 CAATCGGGGGTA-TCCCAACTCCGATTTTATTTTCAAAACAC-T-AATTTTTTA
1 CAATCGGGGATACT-CCAACTCCGATTTTATTTCCAAAAAACATCAATTTTTCA
*
92238 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACATCAATTTTTCA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACATCAATTTTTCA
92291 CAATCGGGGATACTCCAAC
1 CAATCGGGGATACTCCAAC
92310 CCCGTTAATC
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
51 35 0.56
52 2 0.03
53 26 0.41
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.33
Consensus pattern (53 bp):
CAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACATCAATTTTTCA
Found at i:92433 original size:52 final size:52
Alignment explanation
Indices: 92319--92441 Score: 140
Period size: 52 Copynumber: 2.4 Consensus size: 52
92309 CCCCGTTAAT
* * * **
92319 CATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCCTTT
1 CATCGGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCCTAC
* * * *
92371 AATCGGGGATACTCCGACTCCAATTTTATTTCCAAAAACACCAATTTTTC-AC
1 CATCGGGGATACTCCAACCCCAATTTTATTTCC-AAAACACCAATTTTCCTAC
*
92423 CATCGAGGATACTCCAACC
1 CATCGGGGATACTCCAACC
92442 TCGTTATTTC
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
52 43 0.75
53 14 0.25
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.31
Consensus pattern (52 bp):
CATCGGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCCTAC
Found at i:92433 original size:131 final size:132
Alignment explanation
Indices: 92201--92472 Score: 415
Period size: 131 Copynumber: 2.1 Consensus size: 132
92191 CGGGGGTATC
* *
92201 CCAACTCCGATTTTATTTTCAAAACACTAATTTTTTATAATCGGGGATACTCCAACTCCGATTTT
1 CCAACCCCGATTTTATTTTCAAAACACTAATTTTTTATAATCGGGGATACTCCAACTCCAATTTT
* * **
92266 ATTTCCAAAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTA-ATCATCGGGGATA
66 ATTTCCAAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTATATCATCGGCAATA
92330 CT
131 CT
*
92332 CCAACCCCGATTTTATTTTCAAAACACTAATTTTCCTT-TAATCGGGGATACTCCGACTCCAATT
1 CCAACCCCGATTTTATTTTCAAAACACTAATTTT--TTATAATCGGGGATACTCCAACTCCAATT
* * *
92396 TTATTTCC-AAAAACACCAATTTTTCACCATCGAGGATACTCCAACCTCGTTATTTCATCGGCAA
64 TTATTTCCAAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTATATCATCGGCAA
92460 TACT
129 TACT
92464 CCAACCCCG
1 CCAACCCCG
92473 TTACCTCCGA
Statistics
Matches: 128, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
131 73 0.57
132 53 0.41
133 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.32
Consensus pattern (132 bp):
CCAACCCCGATTTTATTTTCAAAACACTAATTTTTTATAATCGGGGATACTCCAACTCCAATTTT
ATTTCCAAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTATATCATCGGCAATA
CT
Found at i:94256 original size:78 final size:78
Alignment explanation
Indices: 94117--94264 Score: 179
Period size: 78 Copynumber: 1.9 Consensus size: 78
94107 TTGCTACTCT
* * *
94117 TTCCCAAAGGCTTTAACCTTCCCAAAGGTTCATATAAATTATCTCGCCTTCTCAAATGCTTGAGA
1 TTCCCAAAGACTTTAACCTTCCCAAAGGTTCATATAAATTATCTCACCTTCTCAAAGGCTTGAGA
94182 CTATTACTGTGCA
66 CTATTACTGTGCA
* ** ** * * * *
94195 TTCCCAAAGACTTTTACCTTTTCAAAGGTTCATATTGATTATTTCATCTTTTTAAAGGCTTGAGA
1 TTCCCAAAGACTTTAACCTTCCCAAAGGTTCATATAAATTATCTCACCTTCTCAAAGGCTTGAGA
*
94260 TTATT
66 CTATT
94265 GCTACACCTT
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
78 57 1.00
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (78 bp):
TTCCCAAAGACTTTAACCTTCCCAAAGGTTCATATAAATTATCTCACCTTCTCAAAGGCTTGAGA
CTATTACTGTGCA
Found at i:101624 original size:25 final size:25
Alignment explanation
Indices: 101596--101681 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 25
101586 CAAAGATTAC
101596 TTAAAAACTAATGATAACAAATTTA
1 TTAAAAACTAATGATAACAAATTTA
* *
101621 TT-AAATCTAATAAGAAAATGTCAAGGA-TTA
1 TTAAAAACTAAT--GATAA---CAA--ATTTA
101651 CTTAAAAACTAATGATAACAAATTTA
1 -TTAAAAACTAATGATAACAAATTTA
101677 TTAAA
1 TTAAA
101682 TCTAATAAGG
Statistics
Matches: 47, Mismatches: 4, Indels: 20
0.66 0.06 0.28
Matches are distributed among these distances:
24 8 0.17
25 8 0.17
26 7 0.15
27 3 0.06
29 3 0.06
30 7 0.15
31 3 0.06
32 8 0.17
ACGTcount: A:0.53, C:0.08, G:0.07, T:0.31
Consensus pattern (25 bp):
TTAAAAACTAATGATAACAAATTTA
Found at i:101664 original size:56 final size:56
Alignment explanation
Indices: 101578--101690 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
101568 TTCACCCTAT
101578 GAAAATATCAAAGATTACTTAAAAACTAATGATAACAAATTTATTAAATCTAATAA
1 GAAAATATCAAAGATTACTTAAAAACTAATGATAACAAATTTATTAAATCTAATAA
* *
101634 GAAAATGTCAAGGATTACTTAAAAACTAATGATAACAAATTTATTAAATCTAATAA
1 GAAAATATCAAAGATTACTTAAAAACTAATGATAACAAATTTATTAAATCTAATAA
101690 G
1 G
101691 GCTCTGGCTA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.53, C:0.09, G:0.08, T:0.30
Consensus pattern (56 bp):
GAAAATATCAAAGATTACTTAAAAACTAATGATAACAAATTTATTAAATCTAATAA
Found at i:103437 original size:13 final size:13
Alignment explanation
Indices: 103419--103448 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
103409 ATAATTCTTC
103419 ATGTATCGATACA
1 ATGTATCGATACA
103432 ATGTATCGATACA
1 ATGTATCGATACA
103445 ATGT
1 ATGT
103449 GCCATGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:103455 original size:33 final size:32
Alignment explanation
Indices: 103396--103465 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 32
103386 GCCATTTTGG
*
103396 ACAATGTATCGATATAATTCTTCATGTATCGAT
1 ACAATGTATCGATACAATTC-TCATGTATCGAT
*
103429 ACAATGTATCGATACAATGTGC-CATGTATTGAT
1 ACAATGTATCGATACAAT-T-CTCATGTATCGAT
103462 ACAA
1 ACAA
103466 ACTGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 31 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (32 bp):
ACAATGTATCGATACAATTCTCATGTATCGAT
Found at i:103537 original size:19 final size:20
Alignment explanation
Indices: 103494--103548 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
103484 TTGCCAGTTT
* *
103494 CATGTATCGATACAATTGTA
1 CATGTATCGATACAATCGAA
103514 CATGTATCGATACAA-CGAA
1 CATGTATCGATACAATCGAA
103533 CATGTATCGATACAAT
1 CATGTATCGATACAAT
103549 GTATCGATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (20 bp):
CATGTATCGATACAATCGAA
Found at i:103552 original size:13 final size:13
Alignment explanation
Indices: 103534--103560 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
103524 TACAACGAAC
103534 ATGTATCGATACA
1 ATGTATCGATACA
103547 ATGTATCGATACA
1 ATGTATCGATACA
103560 A
1 A
103561 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:107515 original size:17 final size:16
Alignment explanation
Indices: 107493--107531 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
107483 GAGTTTTATC
107493 AACATTTCCTCTATTAA
1 AACATTT-CTCTATTAA
*
107510 AACATTTTTCTATTAA
1 AACATTTCTCTATTAA
107526 AA-ATTT
1 AACATTT
107532 TGAAAGCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.19
16 10 0.48
17 7 0.33
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (16 bp):
AACATTTCTCTATTAA
Found at i:112618 original size:52 final size:52
Alignment explanation
Indices: 112548--112668 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
112538 GAAAATTTAT
*
112548 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
112600 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
112652 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
112669 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:112681 original size:52 final size:51
Alignment explanation
Indices: 112548--112688 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
112538 GAAAATTTAT
112548 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
112600 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
112652 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
112689 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:112695 original size:13 final size:13
Alignment explanation
Indices: 112677--112701 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
112667 CAAAGATCAG
112677 TGTATCGATACAA
1 TGTATCGATACAA
112690 TGTATCGATACA
1 TGTATCGATACA
112702 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:112784 original size:13 final size:13
Alignment explanation
Indices: 112766--112790 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
112756 CAAAAAAATA
112766 TGTATCGATACAT
1 TGTATCGATACAT
112779 TGTATCGATACA
1 TGTATCGATACA
112791 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:112786 original size:33 final size:33
Alignment explanation
Indices: 112744--112810 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
112734 AGTAGCTTAA
112744 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
112777 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
112810 A
1 A
112811 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:114278 original size:15 final size:15
Alignment explanation
Indices: 114260--114294 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
114250 TGAGTCAACT
114260 TCATCATTATCATCA
1 TCATCATTATCATCA
*
114275 TCATCATTATCTTCA
1 TCATCATTATCATCA
114290 TCATC
1 TCATC
114295 TTTGATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:116020 original size:19 final size:20
Alignment explanation
Indices: 115977--116031 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
115967 TTGTCTGTTT
* *
115977 CATGTATCGGTACAATTATA
1 CATGTATCGATACAATGATA
115997 CATGTATCGATACAATGA-A
1 CATGTATCGATACAATGATA
116016 CATGTATCGATACAAT
1 CATGTATCGATACAAT
116032 ATATCAATAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATGATA
Found at i:120164 original size:25 final size:25
Alignment explanation
Indices: 120133--120189 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
120123 GTTGACACTT
120133 TGAACCAACTAGCCGATATTTTCAC
1 TGAACCAACTAGCCGATATTTTCAC
120158 TGAACCAACTAGCCGATATTTTCAC
1 TGAACCAACTAGCCGATATTTTCAC
*
120183 TAAACCA
1 TGAACCA
120190 CTTGACAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.35, C:0.28, G:0.11, T:0.26
Consensus pattern (25 bp):
TGAACCAACTAGCCGATATTTTCAC
Found at i:120665 original size:13 final size:13
Alignment explanation
Indices: 120647--120673 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
120637 ACAATTTTCT
120647 TTGTATCGATACA
1 TTGTATCGATACA
120660 TTGTATCGATACA
1 TTGTATCGATACA
120673 T
1 T
120674 GGGTTATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:123126 original size:19 final size:19
Alignment explanation
Indices: 123102--123170 Score: 138
Period size: 19 Copynumber: 3.6 Consensus size: 19
123092 CGATACATTC
123102 TATCGATACATGTTTATTG
1 TATCGATACATGTTTATTG
123121 TATCGATACATGTTTATTG
1 TATCGATACATGTTTATTG
123140 TATCGATACATGTTTATTG
1 TATCGATACATGTTTATTG
123159 TATCGATACATG
1 TATCGATACATG
123171 AAACTGGCAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.45
Consensus pattern (19 bp):
TATCGATACATGTTTATTG
Found at i:123127 original size:32 final size:32
Alignment explanation
Indices: 123086--123169 Score: 105
Period size: 38 Copynumber: 2.4 Consensus size: 32
123076 ACATTATGCT
123086 TTGTATCGATACATTCTATCGATACATGTTTA
1 TTGTATCGATACATTCTATCGATACATGTTTA
*
123118 TTGTATCGATACATGTTTATTGTATCGATACATGTTTA
1 TTGTATCGATAC------ATTCTATCGATACATGTTTA
123156 TTGTATCGATACAT
1 TTGTATCGATACAT
123170 GAAACTGGCA
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
32 14 0.31
38 31 0.69
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.45
Consensus pattern (32 bp):
TTGTATCGATACATTCTATCGATACATGTTTA
Found at i:125202 original size:115 final size:115
Alignment explanation
Indices: 125063--125294 Score: 439
Period size: 115 Copynumber: 2.0 Consensus size: 115
125053 AAAACGTAGC
*
125063 ATAATTTTAGAAAAAAAAAAGTGGTTATGAGATTATCCTAGTATTACCAAAATTTGGCACAGTAG
1 ATAATTTTAGAAAAAAAAAAGTGGTTATGAGATTATCCTAGTATTACCAAAATTTGGCACAGTAA
125128 GTAGTATAATATTACTAACATTAAGGCATATTTTTTAAACAAAAAAAGGTA
66 GTAGTATAATATTACTAACATTAAGGCATATTTTTTAAACAAAAAAA-GTA
125179 ATAATTTTAG-AAAAAAAAAGTGGTTATGAGATTATCCTAGTATTACCAAAATTTGGCACAGTAA
1 ATAATTTTAGAAAAAAAAAAGTGGTTATGAGATTATCCTAGTATTACCAAAATTTGGCACAGTAA
125243 GTAGTATAATATTACTAACATTAAGGCATATTTTTTAAACAAAAAAAGTA
66 GTAGTATAATATTACTAACATTAAGGCATATTTTTTAAACAAAAAAAGTA
125293 AT
1 AT
125295 CTTATGAAAG
Statistics
Matches: 115, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
114 5 0.04
115 100 0.87
116 10 0.09
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (115 bp):
ATAATTTTAGAAAAAAAAAAGTGGTTATGAGATTATCCTAGTATTACCAAAATTTGGCACAGTAA
GTAGTATAATATTACTAACATTAAGGCATATTTTTTAAACAAAAAAAGTA
Found at i:126817 original size:19 final size:18
Alignment explanation
Indices: 126793--126828 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
126783 TAAAGGCATT
126793 AAATATGATATTATATTAA
1 AAATATGATATT-TATTAA
*
126812 AAATATTATATTTATTA
1 AAATATGATATTTATTA
126829 TTTTTAAACG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
AAATATGATATTTATTAA
Found at i:131729 original size:10 final size:10
Alignment explanation
Indices: 131714--131757 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
131704 AGTATGTATC
131714 ATATTATATT
1 ATATTATATT
131724 ATATTATATT
1 ATATTATATT
131734 A-ATTATA-T
1 ATATTATATT
131742 ATATATATATAT
1 ATAT-TATAT-T
131754 ATAT
1 ATAT
131758 AAAAGATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 2 0.07
9 8 0.27
10 15 0.50
12 5 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
ATATTATATT
Found at i:137758 original size:13 final size:13
Alignment explanation
Indices: 137740--137764 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
137730 CATTTTATGG
137740 TGTATCGATACAA
1 TGTATCGATACAA
137753 TGTATCGATACA
1 TGTATCGATACA
137765 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:137763 original size:33 final size:32
Alignment explanation
Indices: 137717--137784 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 32
137707 CGTTACAAGC
* **
137717 CAATATATTGATACATTTTATGGTGTATCGATA
1 CAATATATCGATACATACTAT-GTGTATCGATA
* *
137750 CAATGTATCGATACATACTGTGTGTATCGATA
1 CAATATATCGATACATACTATGTGTATCGATA
137782 CAA
1 CAA
137785 GTTTAGCTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 14 0.47
33 16 0.53
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
CAATATATCGATACATACTATGTGTATCGATA
Found at i:137842 original size:20 final size:20
Alignment explanation
Indices: 137817--137869 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
137807 CCAATGACTT
**
137817 GTATCGATACATTTTTTCAC
1 GTATCGATACATTTAGTCAC
*
137837 GTATCGATACATTTAGTCAT
1 GTATCGATACATTTAGTCAC
137857 GTATCGATACATT
1 GTATCGATACATT
137870 GTATCGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (20 bp):
GTATCGATACATTTAGTCAC
Found at i:141578 original size:6 final size:6
Alignment explanation
Indices: 141550--141600 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
141540 AAAAAATAAA
* *
141550 TAAAA- TAAAAT AAAAAAT CTAAAAT TAAAA- GAAAAT TAAAAT TAAAAT
1 TAAAAT TAAAAT -TAAAAT -TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
141598 TAA
1 TAA
141601 TAATCATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
5 9 0.24
6 19 0.50
7 10 0.26
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (6 bp):
TAAAAT
Found at i:141591 original size:17 final size:16
Alignment explanation
Indices: 141536--141596 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 16
141526 TCATGAAACT
*
141536 AATTAAAAAATAAATAA
1 AATTAAAAAA-AATTAA
*
141553 AATAAAATAAAAAATCTAA
1 AAT-TAA-AAAAAAT-TAA
141572 AATTAAAAGAAAATTAA
1 AATTAAAA-AAAATTAA
141589 AATTAAAA
1 AATTAAAA
141597 TTAATAATCA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
17 16 0.43
18 11 0.30
19 10 0.27
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (16 bp):
AATTAAAAAAAATTAA
Found at i:141598 original size:12 final size:11
Alignment explanation
Indices: 141547--141600 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
141537 ATTAAAAAAT
141547 AAATAAAA-TA
1 AAATAAAATTA
141557 AAATAAAA--A
1 AAATAAAATTA
**
141566 ATCTAAAATTA
1 AAATAAAATTA
*
141577 AAAGAAAATTA
1 AAATAAAATTA
141588 AAATTAAAATTA
1 AAA-TAAAATTA
141600 A
1 A
141601 TAATCATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
9 7 0.20
10 8 0.23
11 12 0.34
12 8 0.23
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (11 bp):
AAATAAAATTA
Found at i:141616 original size:31 final size:32
Alignment explanation
Indices: 141545--141617 Score: 82
Period size: 30 Copynumber: 2.4 Consensus size: 32
141535 TAATTAAAAA
*
141545 ATAAATAAAA-TAAAATAAAAAATCTAAAATT
1 ATAAATAAAATTAAAATAAAAAATCTAAAATC
* *
141576 A-AAAGAAAATTAAAAT-TAAAAT-TAATAATC
1 ATAAATAAAATTAAAATAAAAAATCTAA-AATC
141606 ATAAATAAAATT
1 ATAAATAAAATT
141618 TTTTAAATGA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 3 0.09
30 16 0.46
31 16 0.46
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.27
Consensus pattern (32 bp):
ATAAATAAAATTAAAATAAAAAATCTAAAATC
Found at i:141723 original size:13 final size:13
Alignment explanation
Indices: 141705--141729 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
141695 GGAAAACTGA
141705 TATATATATATAT
1 TATATATATATAT
141718 TATATATATATA
1 TATATATATATA
141730 CACATATACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATATATATATAT
Found at i:142658 original size:13 final size:13
Alignment explanation
Indices: 142640--142664 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
142630 TAGCCAAACT
142640 TGTATCGATACAA
1 TGTATCGATACAA
142653 TGTATCGATACA
1 TGTATCGATACA
142665 CCAAAAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:142749 original size:20 final size:22
Alignment explanation
Indices: 142718--142761 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
142708 GCTACATTTT
142718 CAAATATGTATCGATACA-TCA
1 CAAATATGTATCGATACATTCA
142739 CAAAT-TGTATCGATACATTCA
1 CAAATATGTATCGATACATTCA
142760 CA
1 CA
142762 CGAGAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (22 bp):
CAAATATGTATCGATACATTCA
Found at i:144918 original size:22 final size:21
Alignment explanation
Indices: 144891--144942 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
144881 TTGCAAGTTG
144891 AAATAAAAAATTTAGCTAATG-A
1 AAATAAAAAA-TTAGCTAA-GAA
**
144913 AAATAATGAATTAGCTAAGAA
1 AAATAAAAAATTAGCTAAGAA
144934 AAATAAAAA
1 AAATAAAAA
144943 CTTGCATGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 16 0.64
22 8 0.32
ACGTcount: A:0.63, C:0.04, G:0.10, T:0.23
Consensus pattern (21 bp):
AAATAAAAAATTAGCTAAGAA
Found at i:149341 original size:28 final size:28
Alignment explanation
Indices: 149301--149372 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
149291 TGGGATAAGC
**
149301 CGGGGTTGGAGTATCCCCTCGGA-AGTAA
1 CGGGGTTGGAGTATCCCCGAGGAGA-TAA
*
149329 CGGGGTTGGAGTATCCCCGATGAGATAA
1 CGGGGTTGGAGTATCCCCGAGGAGATAA
*
149357 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
149373 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.36, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAGATAA
Found at i:149424 original size:54 final size:50
Alignment explanation
Indices: 149363--149483 Score: 143
Period size: 50 Copynumber: 2.3 Consensus size: 50
149353 ATAACGAGGT
* * *
149363 TGGAGTATCCTCGATTGTGAAAAAAATTGGTGTTTTTAGAAATAAAATCGGAGC
1 TGGAGTATCCTCGATTGT--AAAAAA-TAGTGTTTTGA-AAATAAAATCGGAGA
* *
149417 TGGAGTATCCTCGATTATAGAAAATAGTGTTTTGAAAATAAAATCGGAGA
1 TGGAGTATCCTCGATTGTAAAAAATAGTGTTTTGAAAATAAAATCGGAGA
* *
149467 TGGAATATCCCCGATTG
1 TGGAGTATCCTCGATTG
149484 CGGAGAATTG
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
50 28 0.47
51 9 0.15
52 5 0.08
54 17 0.29
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.31
Consensus pattern (50 bp):
TGGAGTATCCTCGATTGTAAAAAATAGTGTTTTGAAAATAAAATCGGAGA
Found at i:151859 original size:13 final size:13
Alignment explanation
Indices: 151841--151866 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
151831 ACAAAGATCC
151841 ATGTATCGATACA
1 ATGTATCGATACA
151854 ATGTATCGATACA
1 ATGTATCGATACA
151867 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:151862 original size:33 final size:33
Alignment explanation
Indices: 151820--151886 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
151810 AAAATTTCAA
***
151820 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
151853 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
151886 A
1 A
151887 TTCCTGGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:151943 original size:32 final size:32
Alignment explanation
Indices: 151907--151969 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
151897 TAGCTAATTA
* *
151907 TGTATCGATACAATACTTATTTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
151939 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
151970 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:151963 original size:19 final size:19
Alignment explanation
Indices: 151904--151971 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
151894 CAGTAGCTAA
*
151904 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
*
151923 TTATTTATCGATAC---A-
1 TTATGTATCGATACAAAAC
151938 -T-TGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
151955 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
151972 TTGTTGAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 10 0.24
14 1 0.02
16 2 0.05
18 1 0.02
19 27 0.66
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:152886 original size:12 final size:14
Alignment explanation
Indices: 152853--152892 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
152843 ATACATTTTT
152853 CTTGTATCGATACA
1 CTTGTATCGATACA
152867 CTTGTATCGATA-A
1 CTTGTATCGATACA
152880 C-TGTATCGATACA
1 CTTGTATCGATACA
152893 GGGGGAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 12 0.48
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (14 bp):
CTTGTATCGATACA
Found at i:155573 original size:20 final size:22
Alignment explanation
Indices: 155542--155585 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
155532 GCTACATTTT
155542 CAAATATGTATCGATACA-TCA
1 CAAATATGTATCGATACATTCA
155563 CAAAT-TGTATCGATACATTCA
1 CAAATATGTATCGATACATTCA
155584 CA
1 CA
155586 CGGGAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (22 bp):
CAAATATGTATCGATACATTCA
Found at i:157765 original size:13 final size:12
Alignment explanation
Indices: 157733--157792 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
157723 GTTCTTTTCC
* *
157733 AAAAAATAAACA
1 AAAAAAAAAAGA
*
157745 AAACAAAAAAGGA
1 AAA-AAAAAAAGA
*
157758 AAAAAAAAAACA
1 AAAAAAAAAAGA
157770 AAAAAAAACAA-A
1 AAAAAAAA-AAGA
*
157782 CAAAAAAAAAG
1 AAAAAAAAAAG
157793 GGAAAAACCC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
11 2 0.05
12 26 0.67
13 11 0.28
ACGTcount: A:0.85, C:0.08, G:0.05, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:157774 original size:14 final size:14
Alignment explanation
Indices: 157757--157791 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
157747 ACAAAAAAGG
157757 AAAAAAAAAAACAA
1 AAAAAAAAAAACAA
*
157771 AAAAAAACAAACAA
1 AAAAAAAAAAACAA
157785 AAAAAAA
1 AAAAAAA
157792 GGGAAAAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAACAA
Found at i:157786 original size:25 final size:26
Alignment explanation
Indices: 157732--157791 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
157722 TGTTCTTTTC
* *
157732 CAAAAAATAAACAAAACAAAAAAGGA
1 CAAAAAAAAAACAAAACAAAAAAGAA
157758 -AAAAAAAAAACAAAA-AAAAACA-AA
1 CAAAAAAAAAACAAAACAAAAA-AGAA
157782 CAAAAAAAAA
1 CAAAAAAAAA
157792 GGGAAAAACC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 6 0.20
25 24 0.80
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.02
Consensus pattern (26 bp):
CAAAAAAAAAACAAAACAAAAAAGAA
Found at i:158846 original size:30 final size:31
Alignment explanation
Indices: 158739--158961 Score: 173
Period size: 31 Copynumber: 7.1 Consensus size: 31
158729 TCAAATACCT
* * *
158739 TCTT-AAAGTCCACGACTCCGTGGCACCTTC
1 TCTTCAAAGTCCACGACTCAGTGGCATCTTG
* * * * *
158769 TTTTCAAAGCCCACAACTCTGTGGCACTCTTTAT
1 TCTTCAAAGTCCACGACTCAGTGGCA-TC-TT-G
** *
158803 TCCTTTTAAGTCCACGACTTAGTGGCATCTTG
1 T-CTTCAAAGTCCACGACTCAGTGGCATCTTG
*
158835 TC-TCAAAGTCCACGACTCAGTGGCATCCTTT
1 TCTTCAAAGTCCACGACTCAGTGGCAT-CTTG
*
158866 TCTTCAAAGTCCACGACTCAGTGGCATTTTG
1 TCTTCAAAGTCCACGACTCAGTGGCATCTTG
* * * * *
158897 TCTT-AATGTCCACGATTTAGTGGCATTTTT
1 TCTTCAAAGTCCACGACTCAGTGGCATCTTG
* * * * *
158927 TCTTCAAAGCCCACAACTCCGTGGCACCTTT
1 TCTTCAAAGTCCACGACTCAGTGGCATCTTG
158958 TCTT
1 TCTT
158962 TTTAAAGCCC
Statistics
Matches: 153, Mismatches: 32, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
30 50 0.33
31 52 0.34
32 26 0.17
33 4 0.03
34 3 0.02
35 18 0.12
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (31 bp):
TCTTCAAAGTCCACGACTCAGTGGCATCTTG
Found at i:158889 original size:62 final size:62
Alignment explanation
Indices: 158738--158952 Score: 209
Period size: 62 Copynumber: 3.4 Consensus size: 62
158728 TTCAAATACC
* * * * * * *
158738 TTCTT-AAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTT-GTCTCAAAGTCCACGACTCAGTGGCA-TCTTT
** * *
158801 ATTCCTTTTAAGTCCACGACTTAGTGGCATCTTGTCTCAAAGTCCACGACTCAGTGGCATCCTT
1 -TT-CTTCAAAGTCCACGACTCAGTGGCATCTTGTCTCAAAGTCCACGACTCAGTGGCATCTTT
* * * * *
158865 TTCTTCAAAGTCCACGACTCAGTGGCATTTTGTCTTAATGTCCACGATTTAGTGGCAT-TTT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTTGTCTCAAAGTCCACGACTCAGTGGCATCTTT
* * *
158926 TTCTTCAAAGCCCACAACTCCGTGGCA
1 TTCTTCAAAGTCCACGACTCAGTGGCA
158953 CCTTTTCTTT
Statistics
Matches: 127, Mismatches: 22, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
61 26 0.20
62 48 0.38
63 2 0.02
64 6 0.05
65 24 0.19
66 21 0.17
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (62 bp):
TTCTTCAAAGTCCACGACTCAGTGGCATCTTGTCTCAAAGTCCACGACTCAGTGGCATCTTT
Found at i:158974 original size:33 final size:33
Alignment explanation
Indices: 158932--159070 Score: 112
Period size: 33 Copynumber: 4.3 Consensus size: 33
158922 TTTTTTCTTC
158932 AAAGCCCACAACTCCGTGGCACCTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTCTTTTT
* * *
158965 AAAGCCCACAACTCCGTGGCACTTTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTCTTTTT
* * *
158999 -AAGTCCACAATTTCGTGGCACC----C-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTCTTTTT
* **
159026 -AAGTCCACAACTCCGTGGCATATTTCTCCTTTTCT
1 AAAGCCCACAACTCCGTGGCACCTTT-T-CTTTT-T
159061 AAAGCCCACA
1 AAAGCCCACA
159071 CAAGTCAGTG
Statistics
Matches: 83, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
27 21 0.25
28 1 0.01
33 41 0.49
34 11 0.13
35 1 0.01
36 8 0.10
ACGTcount: A:0.23, C:0.33, G:0.12, T:0.32
Consensus pattern (33 bp):
AAAGCCCACAACTCCGTGGCACCTTTTCTTTTT
Found at i:159031 original size:27 final size:27
Alignment explanation
Indices: 158993--159045 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
158983 GCACTTTTTT
* *
158993 CCTTCTAAGTCCACAATTTCGTGGCAC
1 CCTTCTAAGTCCACAACTCCGTGGCAC
*
159020 CCTTTTAAGTCCACAACTCCGTGGCA
1 CCTTCTAAGTCCACAACTCCGTGGCA
159046 TATTTCTCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.34, G:0.15, T:0.28
Consensus pattern (27 bp):
CCTTCTAAGTCCACAACTCCGTGGCAC
Found at i:159094 original size:33 final size:33
Alignment explanation
Indices: 159053--159287 Score: 329
Period size: 33 Copynumber: 7.2 Consensus size: 33
159043 GCATATTTCT
*
159053 CCTT-TTCTAAAGCCCACACAAGTCAGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
*
159085 CCTTCTTCTAAAGCCCACATAAGTCGGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
159118 CC--CTTCTCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCTTCT-AAAGCCCACACAAGTCGGTGGCAA
159150 CCCTTC-TCTAAAGCCCACACAAGTCGGTGGCAA
1 -CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
*
159183 CCTTCTTCTAAAGCCCACACAAGTCAGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
* *
159216 CCCTC-TCTAAAGCCCACACAAGTTGGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
* *
159248 CCATTC-TCTAAAGCCCACATAAGTCGGTGGAAA
1 CC-TTCTTCTAAAGCCCACACAAGTCGGTGGCAA
159281 CCCTTCT
1 -CCTTCT
159288 AAGTCCAATA
Statistics
Matches: 183, Mismatches: 11, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
31 5 0.03
32 59 0.32
33 113 0.62
34 5 0.03
35 1 0.01
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.21
Consensus pattern (33 bp):
CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
Found at i:159115 original size:98 final size:98
Alignment explanation
Indices: 159053--159287 Score: 328
Period size: 98 Copynumber: 2.4 Consensus size: 98
159043 GCATATTTCT
* * *
159053 CCTTTTCTAAAGCCCACACAAGTCAGTGGCAACCTTCTTCTAAAGCCCACATAAGTCGGTGGCAA
1 CCTTCTCTAAAGCCCACACAAGTCAGTGGCAACCTTCTTCTAAAGCCCACACAAGTCAGTGGCAA
* *
159118 CCCTTCTCAAAGCCCACACAAGTCGGTGGCAAC
66 CCCTTCTCAAAGCCCACACAACTCCGTGGCAAC
*
159151 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCAGTGGCAA
1 CCTTCTCTAAAGCCCACACAAGTCAGTGGCAACCTTCTTCTAAAGCCCACACAAGTCAGTGGCAA
* **
159216 CCC-TCTCTAAAGCCCACACAAGTTGGTGGCAAC
66 CCCTTCTC-AAAGCCCACACAACTCCGTGGCAAC
* * * *
159249 CATTCTCTAAAGCCCACATAAGTCGGTGGAAACCCTTCT
1 CCTTCTCTAAAGCCCACACAAGTCAGTGGCAA-CCTTCT
159288 AAGTCCAATA
Statistics
Matches: 127, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
97 4 0.03
98 117 0.92
99 6 0.05
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.21
Consensus pattern (98 bp):
CCTTCTCTAAAGCCCACACAAGTCAGTGGCAACCTTCTTCTAAAGCCCACACAAGTCAGTGGCAA
CCCTTCTCAAAGCCCACACAACTCCGTGGCAAC
Found at i:159131 original size:65 final size:66
Alignment explanation
Indices: 159053--159287 Score: 352
Period size: 65 Copynumber: 3.6 Consensus size: 66
159043 GCATATTTCT
* *
159053 CCTTTTCTAAAGCCCACACAAGTCAGTGGCAA-CCTTCTTCTAAAGCCCACATAAGTCGGTGGCA
1 CCTTCTCTAAAGCCCACACAAGTCAGTGGCAACCCTTC-TCTAAAGCCCACACAAGTCGGTGGCA
159117 AC
65 AC
*
159119 CCTTCTC-AAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCTCTAAAGCCCACACAAGTCAGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
159183 -
66 C
*
159183 CCTTCTTCTAAAGCCCACACAAGTCAGTGGCAACCC-TCTCTAAAGCCCACACAAGTTGGTGGCA
1 CCTTC-TCTAAAGCCCACACAAGTCAGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
159247 AC
65 AC
* * * *
159249 CATTCTCTAAAGCCCACATAAGTCGGTGGAAACCCTTCT
1 CCTTCTCTAAAGCCCACACAAGTCAGTGGCAACCCTTCT
159288 AAGTCCAATA
Statistics
Matches: 155, Mismatches: 9, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
64 5 0.03
65 106 0.68
66 44 0.28
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.21
Consensus pattern (66 bp):
CCTTCTCTAAAGCCCACACAAGTCAGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
C
Found at i:159357 original size:49 final size:49
Alignment explanation
Indices: 159287--159626 Score: 382
Period size: 49 Copynumber: 7.1 Consensus size: 49
159277 GAAACCCTTC
* *
159287 TAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
159336 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT-GCA----C--CTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
159378 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
159427 TAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCA----C--CTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
159470 TAAGTCCAATATCGCTGGCCTTGAAATCAGCATATTGGCGCCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTG-AATCAGCATATTGGCACC--T-TCATCTT
* *
159523 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-AC-CT-TCATCTT
* *
159575 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
159624 TAA
1 TAA
159627 CATTCCTAAG
Statistics
Matches: 252, Mismatches: 20, Indels: 38
0.81 0.06 0.12
Matches are distributed among these distances:
42 36 0.14
43 27 0.11
44 14 0.06
45 1 0.00
47 1 0.00
48 3 0.01
49 80 0.32
50 1 0.00
51 2 0.01
52 60 0.24
53 27 0.11
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:159442 original size:91 final size:91
Alignment explanation
Indices: 159282--159626 Score: 438
Period size: 91 Copynumber: 3.6 Consensus size: 91
159272 CGGTGGAAAC
* *
159282 CCTTCTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
159347 TAGCTGGCCTTGAATCAGCACATTGCA
65 TAGCTGGCCTTGAATCAGCACATTGCA
* *
159374 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
159439 AGCTGGCCTTGAATTAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATT-GCA
*
159466 CCTTTAAGTCCAATATCGCTGGCCTTGAAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCA
1 CCTTTAAGTCCAATATCGCTGGCCTTG-AATCAGCATATTGGCACC--T-TCATCTTTAAGTCCA
* * *
159531 ATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCA
62 ATGTAGCTGGCCTTGAATCAGC--A-------CATTG-CA
* * *
159571 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAA
159627 CATTCCTAAG
Statistics
Matches: 224, Mismatches: 14, Indels: 21
0.86 0.05 0.08
Matches are distributed among these distances:
91 81 0.36
92 33 0.15
93 17 0.08
95 1 0.00
96 33 0.15
98 1 0.00
101 10 0.04
102 1 0.00
104 17 0.08
105 30 0.13
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.33
Consensus pattern (91 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGCA
Found at i:159487 original size:43 final size:44
Alignment explanation
Indices: 159424--159514 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 44
159414 GCACCTTCTT
* *
159424 CTTTAAGTCCAATGTAGCTGGCCTTG-AATTAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAAATCAGCACATTGGCAC
* * *
159467 CTTTAAGTCCAATATCGCTGGCCTTGAAATCAGCATATTGGCGC
1 CTTTAAGTCCAATATAGCTGGCCTTGAAATCAGCACATTGGCAC
159511 CTTT
1 CTTT
159515 GTCATCTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 24 0.57
44 18 0.43
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (44 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAAATCAGCACATTGGCAC
Found at i:159572 original size:52 final size:52
Alignment explanation
Indices: 159467--159617 Score: 257
Period size: 52 Copynumber: 2.9 Consensus size: 52
159457 ACATTGGCAC
159467 CTTTAAGTCCAATATCGCTGGCCTTGAAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTG-AATCAGCATATTGGCGCCTTTGTCAT
*
159520 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
* * *
159572 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTT
159618 CATCTTTAAC
Statistics
Matches: 93, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
52 67 0.72
53 26 0.28
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
Found at i:160495 original size:20 final size:19
Alignment explanation
Indices: 160470--160567 Score: 94
Period size: 20 Copynumber: 5.7 Consensus size: 19
160460 CATCAACGAT
160470 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
160490 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
160504 -TGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
160523 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
160537 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
160555 TTGTATCGATACA
1 TTGTATCGATACA
160568 ATTTAAGCTA
Statistics
Matches: 65, Mismatches: 0, Indels: 27
0.71 0.00 0.29
Matches are distributed among these distances:
13 22 0.34
15 2 0.03
16 2 0.03
17 4 0.06
19 12 0.18
20 23 0.35
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:160509 original size:13 final size:13
Alignment explanation
Indices: 160491--160548 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
160481 CATAAAGTGT
160491 TGTATCGATACAA
1 TGTATCGATACAA
160504 TGTATCGATACATAAA
1 TGTATCGATAC---AA
160520 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
160537 TGTATCGATACA
1 TGTATCGATACA
160549 TAAGTGTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 23 0.61
16 2 0.05
17 2 0.05
20 11 0.29
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:160513 original size:33 final size:33
Alignment explanation
Indices: 160471--160569 Score: 191
Period size: 33 Copynumber: 3.0 Consensus size: 33
160461 ATCAACGATT
160471 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
160504 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
160537 TGTATCGATACAT-AAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
160569 T
1 T
160570 TTAAGCTACT
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
32 20 0.30
33 46 0.70
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:160626 original size:13 final size:13
Alignment explanation
Indices: 160608--160634 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
160598 ACATTACTCA
160608 AATGTATCGATAC
1 AATGTATCGATAC
160621 AATGTATCGATAC
1 AATGTATCGATAC
160634 A
1 A
160635 CTGATCTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:160681 original size:52 final size:50
Alignment explanation
Indices: 160622--160771 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 50
160612 TATCGATACA
* *
160622 ATGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCTAG
1 ATGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAG
*
160674 ATGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACACTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAG
160726 ATGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAATTT
1 ATGTATCGATACACTATT--ATGTATCGATACATGCAGGCAAATTT
160772 TCATATTTCG
Statistics
Matches: 90, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
51 2 0.02
52 88 0.98
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (50 bp):
ATGTATCGATACACTATTATGTATCGATACATGCAGGCAAATTTGCCCAG
Found at i:163887 original size:19 final size:18
Alignment explanation
Indices: 163863--163925 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
163853 AAACAGTAAA
163863 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
163882 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
163895 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
*
163914 TGTATCAATACA
1 TGTATCGATACA
163926 ATGTATCACT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
15 2 0.05
17 2 0.05
19 22 0.59
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:163900 original size:13 final size:13
Alignment explanation
Indices: 163882--163906 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
163872 ACATAAGTTT
163882 TGTATCGATACAA
1 TGTATCGATACAA
163895 TGTATCGATACA
1 TGTATCGATACA
163907 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Done.