Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014820.1 Kokia drynarioides strain JFW-HI SEQ_129862, whole genome shotgun sequence
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: 421648
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 294 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:7 original size:2 final size:2
Alignment explanation
Indices: 1--37 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
38 ATTAATTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4885 original size:36 final size:36
Alignment explanation
Indices: 4845--4917 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 36
4835 TGTGAAGTGT
* *
4845 CCCTTGACATT-AGTGATGGCCATAGATGA-AGAGAAG
1 CCCTTGAC-TTCAGTAAAGGCCATAGAT-ATAGAGAAG
4881 CCCTTGACTTCAGTAAAGGCCATAGATATAGAGAAG
1 CCCTTGACTTCAGTAAAGGCCATAGATATAGAGAAG
4917 C
1 C
4918 TAAGTCACTC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 3 0.09
36 30 0.91
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (36 bp):
CCCTTGACTTCAGTAAAGGCCATAGATATAGAGAAG
Found at i:12224 original size:19 final size:18
Alignment explanation
Indices: 12200--12243 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
12190 ATTTATATTT
**
12200 TAAAAAATATTAATTACTA
1 TAAAAAATATT-AGCACTA
*
12219 TAAAAATTATTAGCACTA
1 TAAAAAATATTAGCACTA
12237 TAAAAAA
1 TAAAAAA
12244 GTTTCTAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (18 bp):
TAAAAAATATTAGCACTA
Found at i:13503 original size:13 final size:13
Alignment explanation
Indices: 13485--13509 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13475 AATTTATATC
13485 TTTTTTATTTTTA
1 TTTTTTATTTTTA
13498 TTTTTTATTTTT
1 TTTTTTATTTTT
13510 GGTTAAAACA
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:16065 original size:23 final size:23
Alignment explanation
Indices: 16010--16077 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
16000 TATAGATTAT
*
16010 ATATTTAAATTAA-ATTTTATAA
1 ATATTTATATTAATATTTTATAA
*
16032 ATAATTAATATTAATTATTTTA-AA
1 AT-ATTTATATTAA-TATTTTATAA
*
16056 ATATTTATATTTATATTTTATA
1 ATATTTATATTAATATTTTATA
16078 TATTAAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
22 9 0.24
23 19 0.50
24 4 0.11
25 6 0.16
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
ATATTTATATTAATATTTTATAA
Found at i:16140 original size:22 final size:22
Alignment explanation
Indices: 16073--16142 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
16063 TATTTATATT
16073 TTATATATTAAAATATTAATAATA
1 TTAT-TATTAAAATATT-ATAATA
* * * *
16097 -AATTATTAAATTATTTTTATA
1 TTATTATTAAAATATTATAATA
*
16118 TTTTTATTAAAATATTATAATA
1 TTATTATTAAAATATTATAATA
16140 TTA
1 TTA
16143 ATGGATTTGA
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
21 4 0.11
22 29 0.83
23 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTATTATTAAAATATTATAATA
Found at i:20761 original size:14 final size:15
Alignment explanation
Indices: 20736--20767 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
20726 TTAGGATTTT
20736 TATAATTTTTTAAAA
1 TATAATTTTTTAAAA
20751 TATAA-TTTTTAAAA
1 TATAATTTTTTAAAA
20765 TAT
1 TAT
20768 TTTGAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATAATTTTTTAAAA
Found at i:20777 original size:18 final size:19
Alignment explanation
Indices: 20754--20795 Score: 68
Period size: 18 Copynumber: 2.2 Consensus size: 19
20744 TTTAAAATAT
20754 AATTTTTAAAA-TATTTTG
1 AATTTTTAAAATTATTTTG
20772 AATTTTTAAAATTTATTTTG
1 AATTTTTAAAA-TTATTTTG
20792 AATT
1 AATT
20796 ATTTTGTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 11 0.50
20 11 0.50
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
AATTTTTAAAATTATTTTG
Found at i:20783 original size:32 final size:31
Alignment explanation
Indices: 20733--20809 Score: 84
Period size: 30 Copynumber: 2.4 Consensus size: 31
20723 TTTTTAGGAT
*
20733 TTTTATAATTTTTTAAAATATAATTTTTAAAATA
1 TTTTGTAA-TTTTTAAAAT-TAA-TTTTAAAATA
* * *
20767 TTTTG-AATTTTTAAAATTTATTTTGAATTA
1 TTTTGTAATTTTTAAAATTAATTTTAAAATA
20797 TTTTGTAATTTTT
1 TTTTGTAATTTTT
20810 GTTGAGAGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
30 13 0.34
31 9 0.24
32 10 0.26
33 2 0.05
34 4 0.11
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (31 bp):
TTTTGTAATTTTTAAAATTAATTTTAAAATA
Found at i:20807 original size:31 final size:33
Alignment explanation
Indices: 20706--20809 Score: 90
Period size: 34 Copynumber: 3.2 Consensus size: 33
20696 TATTTTAGAA
* * ** *
20706 AATTTTTAAATTTTAATTTTTTAGGAT-TTTTAT
1 AATTTTTAAAATATAA-TTTTTAAAATATTTTGT
20739 AATTTTTTAAAATATAATTTTTAAAATATTTTG-
1 AA-TTTTTAAAATATAATTTTTAAAATATTTTGT
* * *
20772 AATTTTTAAAAT-TTA-TTTTGAATTATTTTGT
1 AATTTTTAAAATATAATTTTTAAAATATTTTGT
20803 AATTTTT
1 AATTTTT
20810 GTTGAGAGGG
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
30 13 0.22
31 9 0.15
32 10 0.17
33 12 0.20
34 16 0.27
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.61
Consensus pattern (33 bp):
AATTTTTAAAATATAATTTTTAAAATATTTTGT
Found at i:22913 original size:26 final size:26
Alignment explanation
Indices: 22884--22964 Score: 83
Period size: 26 Copynumber: 3.0 Consensus size: 26
22874 GAAGTTCAGT
22884 GTATTGAATAAAGATGCAAATAGTCG
1 GTATTGAATAAAGATGCAAATAGTCG
* * **
22910 GTATTGAATAAATTG-TGGAAATGATTTTT
1 GTATTGAATAAA--GATGCAAAT-A-GTCG
22939 GTATTGAATAAAGATGCAAATAGTCG
1 GTATTGAATAAAGATGCAAATAGTCG
22965 AATATTCGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
26 13 0.31
27 8 0.19
28 8 0.19
29 13 0.31
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.33
Consensus pattern (26 bp):
GTATTGAATAAAGATGCAAATAGTCG
Found at i:34020 original size:29 final size:30
Alignment explanation
Indices: 33987--34051 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 30
33977 TTAATGATGG
* *
33987 TAAAAGTGTATTTTAAT-TTTT-AAAATAA
1 TAAAAATGTAATTTAATCTTTTAAAAATAA
* *
34015 TAAAAATTTAATTTAATCTTTTAAAAATTA
1 TAAAAATGTAATTTAATCTTTTAAAAATAA
34045 TAAAAAT
1 TAAAAAT
34052 ATAAACTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 14 0.45
29 4 0.13
30 13 0.42
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.45
Consensus pattern (30 bp):
TAAAAATGTAATTTAATCTTTTAAAAATAA
Found at i:34670 original size:11 final size:11
Alignment explanation
Indices: 34654--34699 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
34644 TATTATGTTG
*
34654 TTTTGTTTTTA
1 TTTTGTTATTA
34665 TTTTGTTATTA
1 TTTTGTTATTA
* *
34676 TATTGCTATTA
1 TTTTGTTATTA
*
34687 TTTTGTTGTTA
1 TTTTGTTATTA
34698 TT
1 TT
34700 ATTTGGATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.15, C:0.02, G:0.11, T:0.72
Consensus pattern (11 bp):
TTTTGTTATTA
Found at i:41600 original size:29 final size:28
Alignment explanation
Indices: 41514--41602 Score: 76
Period size: 29 Copynumber: 3.0 Consensus size: 28
41504 ATTTAAAACT
41514 TTTTTTTGTACAAATAAATAAT-AAAAA
1 TTTTTTTGTACAAATAAATAATAAAAAA
41541 TTTTAATTT-TA-AAATTAAAATATATTTTAAAATAA
1 TTTT--TTTGTACAAA-T-AAATA-A---TAAAA-AA
41576 TTTTTTTGTACAAATAAATAATAAAAA
1 TTTTTTTGTACAAATAAATAATAAAAA
41603 TTAATTCTAA
Statistics
Matches: 50, Mismatches: 0, Indels: 23
0.68 0.00 0.32
Matches are distributed among these distances:
27 7 0.14
28 4 0.08
29 13 0.26
30 1 0.02
32 1 0.02
33 9 0.18
34 6 0.12
35 9 0.18
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (28 bp):
TTTTTTTGTACAAATAAATAATAAAAAA
Found at i:48166 original size:23 final size:24
Alignment explanation
Indices: 48135--48179 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
48125 ACGTGAATTA
48135 GTTTCGCTG-AAGAAA-ATTGTTGG
1 GTTTCGCTGTAA-AAACATTGTTGG
*
48158 GTTTGGCTGTAAAAACATTGTT
1 GTTTCGCTGTAAAAACATTGTT
48180 TTCAACAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.27, C:0.09, G:0.27, T:0.38
Consensus pattern (24 bp):
GTTTCGCTGTAAAAACATTGTTGG
Found at i:50026 original size:12 final size:12
Alignment explanation
Indices: 50009--50072 Score: 92
Period size: 12 Copynumber: 5.3 Consensus size: 12
49999 TTGCGATGAC
50009 GACGGTGGTGAT
1 GACGGTGGTGAT
50021 GACGGTGGTGAT
1 GACGGTGGTGAT
*
50033 GACGGTGGTGAC
1 GACGGTGGTGAT
*
50045 AACGGTGGTGAT
1 GACGGTGGTGAT
**
50057 GACAATGGTGAT
1 GACGGTGGTGAT
50069 GACG
1 GACG
50073 ACGACGACGA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 45 1.00
ACGTcount: A:0.22, C:0.11, G:0.45, T:0.22
Consensus pattern (12 bp):
GACGGTGGTGAT
Found at i:50138 original size:69 final size:68
Alignment explanation
Indices: 50065--50545 Score: 310
Period size: 69 Copynumber: 7.1 Consensus size: 68
50055 ATGACAATGG
* * * *
50065 TGATGACGACGACGACGATGATCCAACGTTTGGAGGTGGAGTCATTTGTAACCTAGAAGGAACTT
1 TGATGACGACGACGACGATGATCCGACATTTGGAGGTGGAGGCATTTG-AACCAAGAAGGAACTT
50130 GAGA
65 GAGA
* * *
50134 TGATGATGA--TC--C---GAT--G-C--TTGGAGGTGGAGGCATTTGTAACGAAGAAGGAACTT
1 TGATGACGACGACGACGATGATCCGACATTTGGAGGTGGAGGCATTTG-AACCAAGAAGGAACTT
50187 GAGA
65 GAGA
* * * * * * * * *
50191 TGACAACGTTGATGATGACGATGACGATCCGACATTTGGAGGTGGCGGCATTAGATTCGATGAAG
1 TG---A---TGACGACGACGACGATGATCCGACATTTGGAGGTGGAGGCATTTGA-ACCAAGAAG
50256 GAACTTGAGA
59 GAACTTGAGA
* * * * * * *
50266 TGACGACGGCGACGACGATGATCCGACATTTGGAGGTGGCGGTATTAGATCCGATGAAGGAACTT
1 TGATGACGACGACGACGATGATCCGACATTTGGAGGTGGAGGCATTTGAACC-AAGAAGGAACTT
50331 GAGA
65 GAGA
* * * * * * * *
50335 TGATGACGACGACGACGATGATCCAACATTTGGAAGTGGCGGCAATTGATTCGAAGAAAGAATTT
1 TGATGACGACGACGACGATGATCCGACATTTGGAGGTGGAGGCATTTGA-ACCAAGAAGGAACTT
50400 GAGA
65 GAGA
* * * *
50404 TGACGACGACCATGATGATGATGATCCGACATTTGGAGGGGGAGGCATTTGTAACCAAGAAGGAA
1 TGATGACGA-C--GACGACGATGATCCGACATTTGGAGGTGGAGGCATTTG-AACCAAGAAGGAA
50469 CTTGAGA
62 CTTGAGA
* * * ** * * *
50476 TGATGATGATGA--A-GATGATGCGATGTTTCGG-GGTGGCGACATTCGAAACCAAGAAGGAACT
1 TGATGACGACGACGACGATGATCCGACATTT-GGAGGTGGAGGCATTTG-AACCAAGAAGGAACT
50537 TGAGA
64 TGAGA
50542 TGAT
1 TGAT
50546 AGTGATGATG
Statistics
Matches: 332, Mismatches: 54, Indels: 55
0.75 0.12 0.12
Matches are distributed among these distances:
57 39 0.12
59 1 0.00
60 1 0.00
62 3 0.01
63 6 0.02
65 2 0.01
66 46 0.14
67 4 0.01
68 2 0.01
69 128 0.39
70 6 0.02
72 55 0.17
73 2 0.01
74 1 0.00
75 36 0.11
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.23
Consensus pattern (68 bp):
TGATGACGACGACGACGATGATCCGACATTTGGAGGTGGAGGCATTTGAACCAAGAAGGAACTTG
AGA
Found at i:50386 original size:138 final size:140
Alignment explanation
Indices: 50151--50481 Score: 364
Period size: 138 Copynumber: 2.3 Consensus size: 140
50141 GATCCGATGC
* * * * * *
50151 TTGGAGGTGGAGGCATTTGTAACGAAGAAGGAACTTGAGATGACAACGTTGATGATGACGATGAC
1 TTGGAGGGGGAGGCATTAGTAACCAAGAAGGAACTTGAGATG---A---TGACGACGACGACGAC
* * * * *
50216 GATCCGACATTTGGAGGTGGCGGCATTAGATTCGATGAAGGAACTTGAGATGACGACG-GC-GAC
60 GATCCAACATTTGGAAGTGGCGGCATTAGATTCGAAGAAAGAACTTGAGATGACGACGACCAGAC
50279 GACGATGATCCGACAT
125 GACGATGATCCGACAT
* * * * * *
50295 TTGGAGGTGGCGGTATTAG-ATCCGATGAAGGAACTTGAGATGATGACGACGACGACGATGATCC
1 TTGGAGGGGGAGGCATTAGTAACC-AAGAAGGAACTTGAGATGATGACGACGACGACGACGATCC
* * *
50359 AACATTTGGAAGTGGCGGCAATT-GATTCGAAGAAAGAATTTGAGATGACGACGACCATGATGAT
65 AACATTTGGAAGTGGCGGC-ATTAGATTCGAAGAAAGAACTTGAGATGACGACGACCA-GACGAC
50423 GATGATCCGACAT
128 GATGATCCGACAT
*
50436 TTGGAGGGGGAGGCATTTGTAACCAAGAAGGAACTTGAGATGATGA
1 TTGGAGGGGGAGGCATTAGTAACCAAGAAGGAACTTGAGATGATGA
50482 TGATGAAGAT
Statistics
Matches: 157, Mismatches: 24, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
138 61 0.39
139 4 0.03
141 54 0.34
142 3 0.02
143 2 0.01
144 33 0.21
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.22
Consensus pattern (140 bp):
TTGGAGGGGGAGGCATTAGTAACCAAGAAGGAACTTGAGATGATGACGACGACGACGACGATCCA
ACATTTGGAAGTGGCGGCATTAGATTCGAAGAAAGAACTTGAGATGACGACGACCAGACGACGAT
GATCCGACAT
Found at i:50485 original size:66 final size:66
Alignment explanation
Indices: 50415--50618 Score: 218
Period size: 66 Copynumber: 3.1 Consensus size: 66
50405 GACGACGACC
* * *
50415 ATGATGATGATGATCCGACATTTGGAGGGGGAGGCATTTGTAACCAAGAAGGAACTTGAGATGAT
1 ATGATGATGATGATCCGACGTTTGGAGGGGGAGGCATTCGAAACCAAGAAGGAACTTGAGATGAT
50480 G
66 G
* * * * * *
50481 ATGATGAAGATGATGCGATGTTTCGG-GGTGGCGACATTCGAAACCAAGAAGGAACTTGAGATGA
1 ATGATGATGATGATCCGACGTTT-GGAGGGGGAGGCATTCGAAACCAAGAAGGAACTTGAGATGA
50545 T-
65 TG
* * * * *
50546 AGTGATGATGATGATCTGACGTTTCGAGGCGGCA-GCATTCGGAACCAAGGAGGAACTTGAGGA-
1 A-TGATGATGATGATCCGACGTTTGGAGG-GGGAGGCATTCGAAACCAAGAAGGAACTTGA-GAT
50609 GATG
63 GATG
50613 ATGATG
1 ATGATG
50619 GTGTTGGTGA
Statistics
Matches: 112, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
65 2 0.02
66 104 0.93
67 6 0.05
ACGTcount: A:0.31, C:0.12, G:0.34, T:0.23
Consensus pattern (66 bp):
ATGATGATGATGATCCGACGTTTGGAGGGGGAGGCATTCGAAACCAAGAAGGAACTTGAGATGAT
G
Found at i:50756 original size:69 final size:69
Alignment explanation
Indices: 50636--50902 Score: 428
Period size: 69 Copynumber: 3.9 Consensus size: 69
50626 TGAACCATAA
* *
50636 CTAATGACGTTCGGAGGTGGCGGCATTGGATTCGAAGAAGGAACTTGAGAAGATGACGATGATCC
1 CTAACGACATTCGGAGGTGGCGGCATTGGATTCGAAGAAGGAACTTGAGAAGATGACGATGATCC
50701 ATCT
66 ATCT
**
50705 CTAACGACATTCGGAGGTAACGGC-TGTGGATTCGAAGAAGGAACTTGAGAAGATGACGATGATC
1 CTAACGACATTCGGAGGTGGCGGCAT-TGGATTCGAAGAAGGAACTTGAGAAGATGACGATGATC
*
50769 CGTCT
65 CATCT
* * *
50774 GTAACAACATTCGGAGGTGGCTGCATTGGATTCGAAGAAGGAACTTGAGAAGATGACGATGATCC
1 CTAACGACATTCGGAGGTGGCGGCATTGGATTCGAAGAAGGAACTTGAGAAGATGACGATGATCC
50839 ATCT
66 ATCT
* *
50843 CTAACGACATTTGGAGGTGGCGGCATTGGATTTGAAGAAGGAACTTGAGAAGATGACGAT
1 CTAACGACATTCGGAGGTGGCGGCATTGGATTCGAAGAAGGAACTTGAGAAGATGACGAT
50903 CCACTATCAT
Statistics
Matches: 180, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
68 1 0.01
69 178 0.99
70 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (69 bp):
CTAACGACATTCGGAGGTGGCGGCATTGGATTCGAAGAAGGAACTTGAGAAGATGACGATGATCC
ATCT
Found at i:55345 original size:42 final size:45
Alignment explanation
Indices: 55282--55367 Score: 133
Period size: 42 Copynumber: 2.0 Consensus size: 45
55272 AATATTTTTT
*
55282 AATAATAAAAATTATTG-AAAAAATTAAATTA-ATTAAT-TTATC
1 AATAATAAAAATTATTGAAAAAAATTAAAATACATTAATATTATC
*
55324 AATAATAAAAATTATTTAAAAAAATTAAAATACATTAATATTAT
1 AATAATAAAAATTATTGAAAAAAATTAAAATACATTAATATTAT
55368 TTTTATTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
42 16 0.41
43 13 0.33
44 6 0.15
45 4 0.10
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.37
Consensus pattern (45 bp):
AATAATAAAAATTATTGAAAAAAATTAAAATACATTAATATTATC
Found at i:57288 original size:24 final size:24
Alignment explanation
Indices: 57261--57306 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
57251 CCGGTTCCGC
*
57261 CTCTAACTCTGGCTCCGATTCTTG
1 CTCTAACTCTGCCTCCGATTCTTG
** *
57285 CTCTGGCTCTGCCTCCGGTTCT
1 CTCTAACTCTGCCTCCGATTCT
57307 GGATCCATCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.07, C:0.37, G:0.20, T:0.37
Consensus pattern (24 bp):
CTCTAACTCTGCCTCCGATTCTTG
Found at i:57509 original size:54 final size:54
Alignment explanation
Indices: 57394--57502 Score: 157
Period size: 54 Copynumber: 2.0 Consensus size: 54
57384 CGGCTCCGAC
* * * * *
57394 TCCGGTTTTGCCTCTAACTCTTGCTTCAATTCTTGCTCTGGCTTTGCCTCCGGT
1 TCCGGTTCTGCCTCTAACTCTGGCTCCAATTCTTGCTCTGCCTCTGCCTCCGGT
57448 TCCGGTTCTGCCTCTAACTCTGGCTCCGAA-TCTTGCTCTGCCTCTGCCTCCGGT
1 TCCGGTTCTGCCTCTAACTCTGGCTCC-AATTCTTGCTCTGCCTCTGCCTCCGGT
57502 T
1 T
57503 TTGGTTCCGG
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
54 47 0.96
55 2 0.04
ACGTcount: A:0.07, C:0.35, G:0.19, T:0.39
Consensus pattern (54 bp):
TCCGGTTCTGCCTCTAACTCTGGCTCCAATTCTTGCTCTGCCTCTGCCTCCGGT
Found at i:57517 original size:66 final size:66
Alignment explanation
Indices: 57250--57517 Score: 181
Period size: 66 Copynumber: 4.1 Consensus size: 66
57240 TGGATTCGAA
*
57250 TCCGGTTCCGCCTCTAACTCTGGCTCCGATTCTTGC-TCTGGCTCTGCCTCCGGTTCTGGATCC-
1 TCCGGTTCCGCCTCTAACTCTGGCTCCGAATCTTGCTTCT-GCTCTGCCTCCGGTTCTGGATCCG
*
57313 AT
65 GT
* ** * ** * *
57315 CTTCGGTTTTGCCTCTAACTTTGGCTCCGGTTCTTGCTTTTGCTCTGCCTCCTGTTCTGGATCCG
1 -TCCGGTTCCGCCTCTAACTCTGGCTCCGAATCTTGCTTCTGCTCTGCCTCCGGTTCTGGATCCG
*
57380 GC
65 GT
* * **** * * * * * **
57382 TCCGGCTCCGACTCCGGTTTTGCCT-CTAACTCTTGCTTCAATTCT-TG-CTCTGGCTT-TGCCT
1 TCCGGTTCCGCCTCTAACTCTGGCTCCGAA-TCTTGCTTC--TGCTCTGCCTCCGG-TTCTGGAT
57443 CCGGT
62 CCGGT
* * *
57448 TCCGGTTCTGCCTCTAACTCTGGCTCCGAATCTTGC-TCTGCCTCTGCCTCCGGTTTTGGTTCCG
1 TCCGGTTCCGCCTCTAACTCTGGCTCCGAATCTTGCTTCTG-CTCTGCCTCCGGTTCTGGATCCG
57512 GT
65 GT
57514 TCCG
1 TCCG
57518 ACTCTGGCTG
Statistics
Matches: 148, Mismatches: 43, Indels: 22
0.69 0.20 0.10
Matches are distributed among these distances:
63 1 0.01
64 2 0.01
65 7 0.05
66 126 0.85
67 9 0.06
68 3 0.02
ACGTcount: A:0.06, C:0.35, G:0.22, T:0.37
Consensus pattern (66 bp):
TCCGGTTCCGCCTCTAACTCTGGCTCCGAATCTTGCTTCTGCTCTGCCTCCGGTTCTGGATCCGG
T
Found at i:59800 original size:16 final size:16
Alignment explanation
Indices: 59781--59814 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
59771 TCGTGTTTAA
59781 ATCAATTTAAATTCGG
1 ATCAATTTAAATTCGG
* *
59797 ATCAGTTTAAATTTGG
1 ATCAATTTAAATTCGG
59813 AT
1 AT
59815 TGGACTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (16 bp):
ATCAATTTAAATTCGG
Found at i:60802 original size:19 final size:20
Alignment explanation
Indices: 60766--60808 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
60756 ATAAATTTTG
60766 AAAGTTAACAATCAAACA-A
1 AAAGTTAACAATCAAACATA
*
60785 AAAGTT-ACAATTACAACATA
1 AAAGTTAACAATCA-AACATA
60805 AAAG
1 AAAG
60809 AAGTCTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 10 0.48
20 5 0.24
ACGTcount: A:0.60, C:0.14, G:0.07, T:0.19
Consensus pattern (20 bp):
AAAGTTAACAATCAAACATA
Found at i:65655 original size:97 final size:98
Alignment explanation
Indices: 65478--65681 Score: 302
Period size: 97 Copynumber: 2.1 Consensus size: 98
65468 AGTGTTACAT
* *
65478 AAAATTTAAAATTTAACAAAAGTAGCCGTTAAATTTAAAAAAAGGGAGAAGAGATTCTCATATAA
1 AAAATTTGAAATTTAACAAAAGTAGCCGTTAAATTTAAAAAAAGGGAGAAGAGATTCCCATATAA
** * *
65543 CGGTTACATTTTGAGGTGTTGTTTTTACATTTC
66 CGACTACATTTTGAGGAGCTGTTTTTACATTTC
* * * *
65576 AAAATTTGAAATTTAACAAAAGTAGTCGTTAAATTT-AGAAAAGGGAGAAGAGATTCCCGTGTAA
1 AAAATTTGAAATTTAACAAAAGTAGCCGTTAAATTTAAAAAAAGGGAGAAGAGATTCCCATATAA
*
65640 CGACTACATTTTGAGGAGCTGTTTTTTCATTTC
66 CGACTACATTTTGAGGAGCTGTTTTTACATTTC
65673 AAAATTTGA
1 AAAATTTGA
65682 CAAATTCGGT
Statistics
Matches: 95, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
97 61 0.64
98 34 0.36
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.34
Consensus pattern (98 bp):
AAAATTTGAAATTTAACAAAAGTAGCCGTTAAATTTAAAAAAAGGGAGAAGAGATTCCCATATAA
CGACTACATTTTGAGGAGCTGTTTTTACATTTC
Found at i:68480 original size:16 final size:16
Alignment explanation
Indices: 68459--68494 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
68449 CTTACCCTCG
*
68459 ATAAAAATTTAAATTT
1 ATAAAAATTTAAATTA
68475 ATAAAAATTTAAATTA
1 ATAAAAATTTAAATTA
68491 ATAA
1 ATAA
68495 TAGTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATAAAAATTTAAATTA
Found at i:81311 original size:24 final size:24
Alignment explanation
Indices: 81264--81312 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
81254 ATAAAGCTTG
* *
81264 AGGACTTAAATGGCAATTATACCA
1 AGGACTAAAATGGCAATTAAACCA
* *
81288 AGGACTAAAATGGTATTTAAACCA
1 AGGACTAAAATGGCAATTAAACCA
81312 A
1 A
81313 TGTTTTCGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.24
Consensus pattern (24 bp):
AGGACTAAAATGGCAATTAAACCA
Found at i:81383 original size:15 final size:17
Alignment explanation
Indices: 81353--81396 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 17
81343 ATGGATTATT
81353 TTAAATTATAAATTAAA
1 TTAAATTATAAATTAAA
*
81370 TTAAATT-T-AATTAAT
1 TTAAATTATAAATTAAA
81385 TTAAACTTATAA
1 TTAAA-TTATAA
81397 TGACCTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 11 0.48
16 3 0.13
17 8 0.35
18 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
TTAAATTATAAATTAAA
Found at i:92913 original size:27 final size:27
Alignment explanation
Indices: 92880--93000 Score: 116
Period size: 27 Copynumber: 4.4 Consensus size: 27
92870 TATTTTATGT
** *
92880 TTAAAAAGTATGGGTTACTTTTTTATAA
1 TTAAAAA-TATGAATTACATTTTTATAA
* *
92908 TTAAAAATTTGAATTGCATTTTTATAA
1 TTAAAAATATGAATTACATTTTTATAA
* *
92935 TTAAAAAACATGTATTACATTTTTATAA
1 TT-AAAAATATGAATTACATTTTTATAA
* * * * *
92963 TTAAAAATGTGCATTGCAATCTTATAA
1 TTAAAAATATGAATTACATTTTTATAA
92990 TTAAAAATATG
1 TTAAAAATATG
93001 TATTTCAAAA
Statistics
Matches: 76, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
27 46 0.61
28 30 0.39
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (27 bp):
TTAAAAATATGAATTACATTTTTATAA
Found at i:92939 original size:55 final size:54
Alignment explanation
Indices: 92880--93000 Score: 152
Period size: 55 Copynumber: 2.2 Consensus size: 54
92870 TATTTTATGT
* * * * *
92880 TTAAAAAGTATGGGTTACTTTTTTATAATTAAAAATTTGAATTGCATTTTTATAA
1 TTAAAAA-TATGGATTACATTTTTATAATTAAAAATGTGAATTGCAATCTTATAA
* * *
92935 TTAAAAAACATGTATTACATTTTTATAATTAAAAATGTGCATTGCAATCTTATAA
1 TT-AAAAATATGGATTACATTTTTATAATTAAAAATGTGAATTGCAATCTTATAA
92990 TTAAAAATATG
1 TTAAAAATATG
93001 TATTTCAAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
54 8 0.14
55 43 0.77
56 5 0.09
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (54 bp):
TTAAAAATATGGATTACATTTTTATAATTAAAAATGTGAATTGCAATCTTATAA
Found at i:93433 original size:6 final size:6
Alignment explanation
Indices: 93422--93452 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
93412 CTCCCTTATC
*
93422 ACTAAT ACTAAT ACTAAT ACTAAT AATAAT A
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT A
93453 TAGTTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (6 bp):
ACTAAT
Found at i:94005 original size:13 final size:13
Alignment explanation
Indices: 93979--94008 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
93969 ACCTAAACTT
93979 AAAAGAAGTAAAA
1 AAAAGAAGTAAAA
93992 AAAAGTAAGTAAAA
1 AAAAG-AAGTAAAA
94006 AAA
1 AAA
94009 TTTAAACCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (13 bp):
AAAAGAAGTAAAA
Found at i:94364 original size:45 final size:44
Alignment explanation
Indices: 94314--94401 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 44
94304 TAGGGTTGTT
* * *
94314 GGGTTTGGGGAATTTGGTTTAGGTTTAAGAAATTTGGGGATTTTG
1 GGGTTTAGAGAATTTGGTTTAAGTTTAA-AAATTTGGGGATTTTG
*
94359 GGGTTTAGAGATTTTGGTTTAAGTTTAAAAATTTGGGGATTTT
1 GGGTTTAGAGAATTTGGTTTAAGTTTAAAAATTTGGGGATTTT
94402 CGGGACTTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 15 0.38
45 24 0.62
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.44
Consensus pattern (44 bp):
GGGTTTAGAGAATTTGGTTTAAGTTTAAAAATTTGGGGATTTTG
Found at i:95011 original size:18 final size:17
Alignment explanation
Indices: 94981--95022 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
94971 AAAAATTATA
*
94981 TTATTTTTTAATTTAAT
1 TTATTTTTAAATTTAAT
94998 TTATATTTTAAATTTAAT
1 TTAT-TTTTAAATTTAAT
95016 TT-TTTTT
1 TTATTTTT
95023 TGCTGATGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 5 0.22
18 14 0.61
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTTTTAAATTTAAT
Found at i:107620 original size:18 final size:18
Alignment explanation
Indices: 107597--107639 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
107587 AAATAGGTTT
107597 TTAATTAAATAAATTTA-A
1 TTAATTAAA-AAATTTATA
*
107615 TTAATTAAAAATTTTATA
1 TTAATTAAAAAATTTATA
107633 TTAATTA
1 TTAATTA
107640 CACATTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAATTAAAAAATTTATA
Found at i:119979 original size:16 final size:16
Alignment explanation
Indices: 119943--119982 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
119933 ATTTAGATAT
119943 AATATTAAACTACTTAA
1 AATATTAAACTAC-TAA
119960 AATATTATAACTAC-AA
1 AATATTA-AACTACTAA
119976 AATATTA
1 AATATTA
119983 CTTTTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.41
17 7 0.32
18 6 0.27
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (16 bp):
AATATTAAACTACTAA
Found at i:131352 original size:2 final size:2
Alignment explanation
Indices: 131345--131369 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
131335 CAATAATTAA
131345 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
131370 GTTCTGTTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:141816 original size:60 final size:58
Alignment explanation
Indices: 141742--141996 Score: 221
Period size: 60 Copynumber: 4.3 Consensus size: 58
141732 TTTGTCAGAT
* * * **
141742 AAAAAATACAATTTTTTTGTGTTGGCCATACAATTGTCGACACCCCTATTTATCTGATAA
1 AAAAAATTCAATTTTTTTGTGTTGGCCATGCAATTGCCGACACCCCT-TTT-TCAAATAA
* *
141802 AAAAAATTGC-ATTTTTTTATATTGGCCATGCAATTGCCGACACCCCTTTTTCAAATAA
1 AAAAAATT-CAATTTTTTTGTGTTGGCCATGCAATTGCCGACACCCCTTTTTCAAATAA
* * * **
141860 AAAAAGTTCAAAATTTTTTGGTGTTGGCCATGCAATGGCCGACACCCCCTGTCATCAAAT-A
1 AAAAAATTC--AATTTTTTTGTGTTGGCCATGCAATTGCCGACA-CCCCT-TTTTCAAATAA
** * * * *
141921 AAAATTTTCAAATTTTTTTTGTGTTGG-CATGCAATAGTCGACACCTCCTTTTTTAGAT-A
1 AAAAAATTC-AA-TTTTTTTGTGTTGGCCATGCAATTGCCGACACC-CCTTTTTCAAATAA
*
141980 AAAAAATTCAAATTTTT
1 AAAAAATTCAATTTTTT
141997 GGCCAACACC
Statistics
Matches: 161, Mismatches: 26, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
57 6 0.04
58 15 0.09
59 18 0.11
60 88 0.55
61 27 0.17
62 7 0.04
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (58 bp):
AAAAAATTCAATTTTTTTGTGTTGGCCATGCAATTGCCGACACCCCTTTTTCAAATAA
Found at i:142188 original size:104 final size:104
Alignment explanation
Indices: 141895--142207 Score: 356
Period size: 105 Copynumber: 3.0 Consensus size: 104
141885 GGCCATGCAA
* * * * *
141895 TGGCCGACACCCCCTG-TCATCAAAT-AAAAATTTTCAAATTTTTTTTGTGTTGGCATGCAAT-A
1 TGGCCAACA-CCCCTGTTC-TCAGATAAAAAAATTTCAAAATTTTTTGGTGTTGGCATGCAATGA
141957 GTCGACACCTCCTTTTTT-AGATAAAAAAA-TTCAAA--TTTT
64 -TCGACACC-CCTTTTTTCAGATAAAAAAATTTCAAATTTTTT
* * *
141996 TGGCCAACACCCCTTTTTTCAGATAAAAAAATTTTAAAATTTTTTGGTGTTGGTCATGCAATGAT
1 TGGCCAACACCCCTGTTCTCAGATAAAAAAATTTCAAAATTTTTTGGTGTTGG-CATGCAATGAT
142061 CGACACCCCCTTTTTTC-GTATAAAAAAATTTCAAATTTTTT
65 CGACA-CCCCTTTTTTCAG-ATAAAAAAATTTCAAATTTTTT
*** * *
142102 TGG-TGTCACCCCTGTTCTCGGATAAAAAAATTTCAAAATTTTTTGGTGTTGGCCATACAATGAT
1 TGGCCAACACCCCTGTTCTCAGATAAAAAAATTTCAAAATTTTTTGGTGTTGG-CATGCAATGAT
* *
142166 CAACACCCCTTTTTTCAGATAAAAAAATTTTAAATTTTTT
65 CGACACCCCTTTTTTCAGATAAAAAAATTTCAAATTTTTT
142206 TG
1 TG
142208 TGTTGACCAT
Statistics
Matches: 182, Mismatches: 19, Indels: 19
0.83 0.09 0.09
Matches are distributed among these distances:
100 10 0.05
101 33 0.18
102 23 0.13
103 12 0.07
104 40 0.22
105 57 0.31
106 7 0.04
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.38
Consensus pattern (104 bp):
TGGCCAACACCCCTGTTCTCAGATAAAAAAATTTCAAAATTTTTTGGTGTTGGCATGCAATGATC
GACACCCCTTTTTTCAGATAAAAAAATTTCAAATTTTTT
Found at i:143281 original size:30 final size:30
Alignment explanation
Indices: 143179--143400 Score: 178
Period size: 29 Copynumber: 7.5 Consensus size: 30
143169 TCGGGGTAAG
* *
143179 ATGGTAATTTTGGGAAAG-TTCGAGGTTAAAA
1 ATGG-AATTTTTGG-AAGTTTCGAGGTCAAAA
* * *
143210 GATGAAATTTTTAGACA--TTCGGGGT-AAAA
1 -ATGGAATTTTTGGA-AGTTTCGAGGTCAAAA
*
143239 ATGGAA-TTTTGGAAGTTTCGAGGTCGAAA
1 ATGGAATTTTTGGAAGTTTCGAGGTCAAAA
*
143268 ATGGAATTTTTGGAAG-ATCGAGAGT-AAAA
1 ATGGAATTTTTGGAAGTTTCGAG-GTCAAAA
* * *
143297 ATGGAATTTTCGAAAGTTTCGGGTGTCAAAA
1 ATGGAATTTTTGGAAGTTTCGAG-GTCAAAA
*
143328 AT-GAGATTTTTGGAAG-TTCGGGGGT-AAAA
1 ATGGA-ATTTTTGGAAGTTTC-GAGGTCAAAA
*
143357 ATGGAATTTTTGGAAGTTT-TAGGGTCAAAA
1 ATGGAATTTTTGGAAGTTTCGA-GGTCAAAA
143387 ATGGAATTTTTGGA
1 ATGGAATTTTTGGA
143401 CAATTTAAGG
Statistics
Matches: 157, Mismatches: 19, Indels: 30
0.76 0.09 0.15
Matches are distributed among these distances:
26 1 0.01
27 6 0.04
28 12 0.08
29 55 0.35
30 54 0.34
31 26 0.17
32 3 0.02
ACGTcount: A:0.34, C:0.05, G:0.28, T:0.32
Consensus pattern (30 bp):
ATGGAATTTTTGGAAGTTTCGAGGTCAAAA
Found at i:143337 original size:31 final size:30
Alignment explanation
Indices: 143227--143400 Score: 191
Period size: 29 Copynumber: 5.9 Consensus size: 30
143217 TTTTTAGACA
143227 TTCGGGGT-AAAAATGGAA-TTTTGGAAGT
1 TTCGGGGTCAAAAATGGAATTTTTGGAAGT
* *
143255 TTCGAGGTCGAAAATGGAATTTTTGGAAG-
1 TTCGGGGTCAAAAATGGAATTTTTGGAAGT
* * * *
143284 ATCGAGAGT-AAAAATGGAATTTTCGAAAGT
1 TTCG-GGGTCAAAAATGGAATTTTTGGAAGT
143314 TTCGGGTGTCAAAAAT-GAGATTTTTGGAAG-
1 TTCGGG-GTCAAAAATGGA-ATTTTTGGAAGT
143344 TTCGGGGGT-AAAAATGGAATTTTTGGAAGT
1 TTC-GGGGTCAAAAATGGAATTTTTGGAAGT
**
143374 TTTAGGGTCAAAAATGGAATTTTTGGA
1 TTCGGGGTCAAAAATGGAATTTTTGGA
143401 CAATTTAAGG
Statistics
Matches: 121, Mismatches: 14, Indels: 20
0.78 0.09 0.13
Matches are distributed among these distances:
28 7 0.06
29 51 0.42
30 45 0.37
31 18 0.15
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.32
Consensus pattern (30 bp):
TTCGGGGTCAAAAATGGAATTTTTGGAAGT
Found at i:143342 original size:60 final size:58
Alignment explanation
Indices: 143233--143400 Score: 221
Period size: 60 Copynumber: 2.8 Consensus size: 58
143223 GACATTCGGG
* *
143233 GTAAAAATGGAATTTTGGAAGTTTCGAGGTCGAAAATGGAATTTTTGGAAGATCGAGA
1 GTAAAAATGGAATTTTGGAAGTTTCGGGGTCAAAAATGGAATTTTTGGAAGATCGAGA
* * * *
143291 GTAAAAATGGAATTTTCGAAAGTTTCGGGTGTCAAAAAT-GAGATTTTTGGAAGTTCGGGG
1 GTAAAAATGGAATTTT-GGAAGTTTCGGG-GTCAAAAATGGA-ATTTTTGGAAGATCGAGA
**
143351 GTAAAAATGGAATTTTTGGAAGTTTTAGGGTCAAAAATGGAATTTTTGGA
1 GTAAAAATGGAA-TTTTGGAAGTTTCGGGGTCAAAAATGGAATTTTTGGA
143401 CAATTTAAGG
Statistics
Matches: 96, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
58 16 0.17
59 30 0.31
60 46 0.48
61 4 0.04
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.32
Consensus pattern (58 bp):
GTAAAAATGGAATTTTGGAAGTTTCGGGGTCAAAAATGGAATTTTTGGAAGATCGAGA
Found at i:144565 original size:13 final size:13
Alignment explanation
Indices: 144547--144571 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
144537 TGATATTGAA
144547 AATAAATGGAAAT
1 AATAAATGGAAAT
144560 AATAAATGGAAA
1 AATAAATGGAAA
144572 CAGATGGAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (13 bp):
AATAAATGGAAAT
Found at i:145215 original size:17 final size:16
Alignment explanation
Indices: 145193--145280 Score: 95
Period size: 17 Copynumber: 5.2 Consensus size: 16
145183 CTTGGACATT
145193 ATTTAAATAAATTTTAA
1 ATTTAAATAAA-TTTAA
** *
145210 ATTTAAATTTATAATAA
1 ATTTAAATAAAT-TTAA
145227 ATTTAAATAAATTTAA
1 ATTTAAATAAATTTAA
*
145243 ATTTAAAATAAACTTAA
1 ATTT-AAATAAATTTAA
*
145260 CTTTAAAATAAATTTAA
1 ATTT-AAATAAATTTAA
145277 ATTT
1 ATTT
145281 GTTAAGCCCA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
16 8 0.14
17 51 0.86
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTTAAATAAATTTAA
Found at i:145216 original size:6 final size:6
Alignment explanation
Indices: 145200--145280 Score: 66
Period size: 6 Copynumber: 14.2 Consensus size: 6
145190 ATTATTTAAA
145200 TAAATTT TAAATT TAAATT TATAA-- TAAATT TAAA-- TAAATT TAAATT
1 TAAA-TT TAAATT TAAATT TA-AATT TAAATT TAAATT TAAATT TAAATT
* * * *
145246 TAAA-A TAAACT TAACTT TAAA-A TAAATT TAAATT T
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT T
145281 GTTAAGCCCA
Statistics
Matches: 60, Mismatches: 7, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
4 6 0.10
5 10 0.17
6 38 0.63
7 6 0.10
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (6 bp):
TAAATT
Found at i:145237 original size:10 final size:10
Alignment explanation
Indices: 145193--145244 Score: 68
Period size: 10 Copynumber: 4.8 Consensus size: 10
145183 CTTGGACATT
145193 ATTTAAATAA
1 ATTTAAATAA
145203 ATTTTAAATTTAA
1 A-TTTAAA--TAA
145216 ATTTATAATAA
1 ATTTA-AATAA
145227 ATTTAAATAA
1 ATTTAAATAA
145237 ATTTAAAT
1 ATTTAAAT
145245 TTAAAATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
10 14 0.37
11 14 0.37
12 4 0.11
13 6 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
ATTTAAATAA
Found at i:145269 original size:34 final size:33
Alignment explanation
Indices: 145193--145280 Score: 108
Period size: 34 Copynumber: 2.6 Consensus size: 33
145183 CTTGGACATT
*
145193 ATTTAAATAAATTTTAAATTTAAATTTATAATAA
1 ATTTAAATAAA-TTTAAATTTAAATATATAATAA
145227 ATTTAAATAAATTTAAATTTAAA-ATA-AACTTAA
1 ATTTAAATAAATTTAAATTTAAATATATAA--TAA
*
145260 CTTTAAAATAAATTTAAATTT
1 ATTT-AAATAAATTTAAATTT
145281 GTTAAGCCCA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
31 2 0.04
32 2 0.04
33 18 0.37
34 27 0.55
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (33 bp):
ATTTAAATAAATTTAAATTTAAATATATAATAA
Found at i:146100 original size:27 final size:26
Alignment explanation
Indices: 146064--146118 Score: 92
Period size: 27 Copynumber: 2.1 Consensus size: 26
146054 TTTTTCATAA
*
146064 AATTTGAAATTTAATTTTTATACTTTT
1 AATTTAAAATTTAATTTTTATA-TTTT
146091 AATTTAAAATTTAATTTTTATATTTT
1 AATTTAAAATTTAATTTTTATATTTT
146117 AA
1 AA
146119 AATTTCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (26 bp):
AATTTAAAATTTAATTTTTATATTTT
Found at i:146103 original size:20 final size:21
Alignment explanation
Indices: 146080--146123 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
146070 AAATTTAATT
146080 TTTATACTTTTA-A-TTTAAAA
1 TTTA-ACTTTTATATTTTAAAA
*
146100 TTTAATTTTTATATTTTAAAA
1 TTTAACTTTTATATTTTAAAA
146121 TTT
1 TTT
146124 CAAAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 5 0.24
21 10 0.48
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTAACTTTTATATTTTAAAA
Found at i:161139 original size:22 final size:22
Alignment explanation
Indices: 161073--161140 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 22
161063 GTTGAATCAG
161073 CCAAATTGCTGCCCACGTGTAA
1 CCAAATTGCTGCCCACGTGTAA
*
161095 -TAAACTTGCATGCGGGCCACGTGTAA
1 CCAAA-TTGC-TGC---CCACGTGTAA
161121 CCAAATTGCTGCCCACGTGT
1 CCAAATTGCTGCCCACGTGT
161141 GGAAACCTCG
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
21 3 0.08
22 12 0.32
23 3 0.08
25 3 0.08
26 14 0.37
27 3 0.08
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (22 bp):
CCAAATTGCTGCCCACGTGTAA
Found at i:167396 original size:37 final size:37
Alignment explanation
Indices: 167355--167463 Score: 130
Period size: 37 Copynumber: 2.9 Consensus size: 37
167345 CTTTGTGCCA
*
167355 GTGTATTTGGGCTTTGTGCCTAGTAGGCTTCGTG-TCG
1 GTGTATTCGGGCTTTGTGCCTAGTAGGCTTCGTGCT-G
* *
167392 GTGTATTCGGACTTTGTGCCTAGTAAGCTTCGTGCTG
1 GTGTATTCGGGCTTTGTGCCTAGTAGGCTTCGTGCTG
* * * * *
167429 GCGTATTCGAGATTTGTACCTAGTAGGCTTTGTGC
1 GTGTATTCGGGCTTTGTGCCTAGTAGGCTTCGTGC
167464 CAGTGAATCA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
37 60 0.98
38 1 0.02
ACGTcount: A:0.13, C:0.17, G:0.31, T:0.39
Consensus pattern (37 bp):
GTGTATTCGGGCTTTGTGCCTAGTAGGCTTCGTGCTG
Found at i:172911 original size:39 final size:41
Alignment explanation
Indices: 172844--172921 Score: 115
Period size: 39 Copynumber: 2.0 Consensus size: 41
172834 TTTTTAAATT
*
172844 CAAAAAATAGAAAAATTAAATTCCTTAAAATAAAAATAATC
1 CAAAAAATAGAAAAATTAAATTACTTAAAATAAAAATAATC
* *
172885 CAAACAATA-AAAAA-TAAATTATTTAAAATAAAAATAA
1 CAAAAAATAGAAAAATTAAATTACTTAAAATAAAAATAA
172922 AAAACCAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 21 0.62
40 5 0.15
41 8 0.24
ACGTcount: A:0.67, C:0.08, G:0.01, T:0.24
Consensus pattern (41 bp):
CAAAAAATAGAAAAATTAAATTACTTAAAATAAAAATAATC
Found at i:173768 original size:15 final size:16
Alignment explanation
Indices: 173737--173772 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
173727 TTGGTACATG
173737 TTTATTTTTTAATATA
1 TTTATTTTTTAATATA
173753 TTTATTTTTTTAATAT-
1 TTTA-TTTTTTAATATA
173769 TTTA
1 TTTA
173773 CTATCTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTATTTTTTAATATA
Found at i:179749 original size:27 final size:26
Alignment explanation
Indices: 179719--179770 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
179709 TTCTTTCTTT
179719 TTCATCCACTACCACTTATTCCTCATC
1 TTCATCCACTACCACTT-TTCCTCATC
*
179746 TTCATCCACTACCACTTTTTCTCAT
1 TTCATCCACTACCACTTTTCCTCAT
179771 GTTTTTTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.21, C:0.38, G:0.00, T:0.40
Consensus pattern (26 bp):
TTCATCCACTACCACTTTTCCTCATC
Found at i:193573 original size:23 final size:23
Alignment explanation
Indices: 193547--193665 Score: 127
Period size: 23 Copynumber: 5.2 Consensus size: 23
193537 ACACTACCGC
193547 GCTCTCTGATTAGCATTGTGTGT
1 GCTCTCTGATTAGCATTGTGTGT
*
193570 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCATTGTGTGT
* * *
193593 GCTCTCTGTTTAGCA-CGTCTCGT
1 GCTCTCTGATTAGCATTGTGT-GT
* *
193616 GCGCTCTGATTAGCACTT-CGTGT
1 GCTCTCTGATTAGCA-TTGTGTGT
*
193639 GCTCTCTGATTAACACTT-TGTGT
1 GCTCTCTGATTAGCA-TTGTGTGT
193662 GCTC
1 GCTC
193666 AGTACTTTGT
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
22 3 0.04
23 77 0.95
24 1 0.01
ACGTcount: A:0.13, C:0.24, G:0.24, T:0.39
Consensus pattern (23 bp):
GCTCTCTGATTAGCATTGTGTGT
Found at i:193695 original size:39 final size:39
Alignment explanation
Indices: 193630--193704 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
193620 TCTGATTAGC
*
193630 ACTTCGTGTGCTCTCTGATTAACACTTTGTGTGCTCAGT
1 ACTTCGTGTACTCTCTGATTAACACTTTGTGTGCTCAGT
* * *
193669 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTC
1 ACTTCGTGTACTCTCTGATTAACACTTTGTGTGCTC
193705 TCTGTTGCCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.44
Consensus pattern (39 bp):
ACTTCGTGTACTCTCTGATTAACACTTTGTGTGCTCAGT
Found at i:193699 original size:23 final size:23
Alignment explanation
Indices: 193669--193759 Score: 98
Period size: 23 Copynumber: 3.9 Consensus size: 23
193659 TGTGCTCAGT
193669 ACTTTGTGTACTCTCTGTTTAGC
1 ACTTTGTGTACTCTCTGTTTAGC
* *
193692 ACTTTGTGTGCTCTCTGTTGCCCAGC
1 ACTTTGTGTACTCTCTGTT---TAGC
*
193718 ACTTATGTG--CTCTCTGTTTAGT
1 ACTT-TGTGTACTCTCTGTTTAGC
193740 ACTTTG-GTACTCTCTGTTTA
1 ACTTTGTGTACTCTCTGTTTA
193760 TTCCGTTTAT
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
20 1 0.02
21 2 0.03
22 17 0.29
23 18 0.31
25 9 0.16
26 7 0.12
27 4 0.07
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.46
Consensus pattern (23 bp):
ACTTTGTGTACTCTCTGTTTAGC
Found at i:199291 original size:42 final size:41
Alignment explanation
Indices: 199232--199314 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 41
199222 AAAGCAAAAC
*
199232 AAAGCCAGAAAAAAAAAAAGAAAAAGAAAAGTTTAAGAGAT
1 AAAGCCAGAAAAAAAAAAAAAAAAAGAAAAGTTTAAGAGAT
199273 NAAAGCCAGAAAAAAAAAAAAAAAAAGAAAAGTTTAAGAGAT
1 -AAAGCCAGAAAAAAAAAAAAAAAAAGAAAAGTTTAAGAGAT
199315 TGAATAATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.69, C:0.05, G:0.16, T:0.10
Consensus pattern (41 bp):
AAAGCCAGAAAAAAAAAAAAAAAAAGAAAAGTTTAAGAGAT
Found at i:205797 original size:12 final size:12
Alignment explanation
Indices: 205782--205806 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
205772 GACTATCTAT
205782 TCAACTATTTGC
1 TCAACTATTTGC
205794 TCAACTATTTGC
1 TCAACTATTTGC
205806 T
1 T
205807 ATCCATTCCT
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:0.24, C:0.24, G:0.08, T:0.44
Consensus pattern (12 bp):
TCAACTATTTGC
Found at i:211651 original size:26 final size:26
Alignment explanation
Indices: 211600--211652 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
211590 TTTGATTTAA
* *
211600 TTTTTATAAATTATTAACATATTTAT
1 TTTTTATAAAATATTAACATAATTAT
*
211626 TTTTTATAAAATATTAATATAATTAT
1 TTTTTATAAAATATTAACATAATTAT
211652 T
1 T
211653 GACATATAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (26 bp):
TTTTTATAAAATATTAACATAATTAT
Found at i:213030 original size:90 final size:89
Alignment explanation
Indices: 212927--213093 Score: 214
Period size: 90 Copynumber: 1.9 Consensus size: 89
212917 GGTATTTAAA
* * *
212927 TTTTTTCAGAAAAAACAATTAAGCTTCTG-TTTTTATTTCACACTAAATTGGGTACTTAAACTT-
1 TTTTTTCAAAAAAAACAATTAAGCTCCCGATTTTT-TTT-ACACTAAATTGGGTACTTAAA-TTG
212990 TCAAAATACATCAAAATGACATTCAAAC
63 TC-AAATACATCAAAATGACATTCAAAC
* * * *
213018 TTTTTT-AAAAAAATCAATTAAGCTCCCGATTTTTTTTTCACTCAATTGGGTACTTGAATTGTCA
1 TTTTTTCAAAAAAAACAATTAAGCTCCCGATTTTTTTTACACTAAATTGGGTACTTAAATTGTCA
213082 AATACATCAAAA
66 AATACATCAAAA
213094 AAGTCATTTG
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
88 15 0.22
89 20 0.30
90 21 0.31
91 11 0.16
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (89 bp):
TTTTTTCAAAAAAAACAATTAAGCTCCCGATTTTTTTTACACTAAATTGGGTACTTAAATTGTCA
AATACATCAAAATGACATTCAAAC
Found at i:215275 original size:17 final size:18
Alignment explanation
Indices: 215253--215286 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
215243 TATTTAGTAA
*
215253 TGTTTTT-ATCTCAAAAG
1 TGTTTTTGATATCAAAAG
215270 TGTTTTTGATATCAAAA
1 TGTTTTTGATATCAAAA
215287 ATACTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (18 bp):
TGTTTTTGATATCAAAAG
Found at i:215536 original size:24 final size:24
Alignment explanation
Indices: 215509--215576 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
215499 ATCTTTCAGT
*
215509 TAAACTTTGTTTAATTGTTTCAAA
1 TAAACTTTGTTTATTTGTTTCAAA
* *
215533 TAAA-TTCTATTTATTTGTTTCAAT
1 TAAACTT-TGTTTATTTGTTTCAAA
*
215557 TAAACTCTGTTTATTTGTTT
1 TAAACTTTGTTTATTTGTTT
215577 GAGTCAAACT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 2 0.05
24 34 0.92
25 1 0.03
ACGTcount: A:0.28, C:0.09, G:0.07, T:0.56
Consensus pattern (24 bp):
TAAACTTTGTTTATTTGTTTCAAA
Found at i:224175 original size:27 final size:27
Alignment explanation
Indices: 224145--224199 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
224135 GATGACAGTA
224145 TCTCTGAGGTAAAATATCAAATATGCC
1 TCTCTGAGGTAAAATATCAAATATGCC
224172 TCTCTGAGGTAAAATATCAAATATGCC
1 TCTCTGAGGTAAAATATCAAATATGCC
224199 T
1 T
224200 TATTTGAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (27 bp):
TCTCTGAGGTAAAATATCAAATATGCC
Found at i:237066 original size:25 final size:25
Alignment explanation
Indices: 237034--237092 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
237024 TTTTGGCATA
237034 TTTC-CTATGTCTTCTGTCTGTGGT
1 TTTCTCTATGTCTTCTGTCTGTGGT
237058 TTTCTCTATGTCTTCTGTCTGTGGT
1 TTTCTCTATGTCTTCTGTCTGTGGT
237083 TTTCTCTATG
1 TTTCTCTATG
237093 ACTTATACAC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 4 0.12
25 30 0.88
ACGTcount: A:0.05, C:0.20, G:0.19, T:0.56
Consensus pattern (25 bp):
TTTCTCTATGTCTTCTGTCTGTGGT
Found at i:239430 original size:27 final size:27
Alignment explanation
Indices: 239367--239434 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
239357 GTTAGTGTTA
*
239367 TCAAGAGGACCCGACATGAACCCTCTC
1 TCAATAGGACCCGACATGAACCCTCTC
* *
239394 TCAATCGGACCCGACATGAACCCTCTT
1 TCAATAGGACCCGACATGAACCCTCTC
239421 TCTAA-AGGACCCGA
1 TC-AATAGGACCCGA
239435 ACCCGGAACG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
27 34 0.94
28 2 0.06
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.18
Consensus pattern (27 bp):
TCAATAGGACCCGACATGAACCCTCTC
Found at i:240552 original size:18 final size:19
Alignment explanation
Indices: 240520--240558 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
240510 TCTACTTAAC
240520 TTTTTAGATTATTA-TGAA
1 TTTTTAGATTATTATTGAA
240538 TTTTTA-ATTATTTATTGAA
1 TTTTTAGATTA-TTATTGAA
240557 TT
1 TT
240559 ATTGTTGGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 9 0.47
19 6 0.32
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (19 bp):
TTTTTAGATTATTATTGAA
Found at i:253929 original size:18 final size:19
Alignment explanation
Indices: 253901--253948 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
253891 TTTAAAAAGT
253901 AAAATATATAAAAAGCA-GA
1 AAAATA-ATAAAAAGCATGA
* *
253920 AAATTAATAAAAAGGATGA
1 AAAATAATAAAAAGCATGA
253939 AAAATAATAA
1 AAAATAATAA
253949 TATTAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.69, C:0.02, G:0.10, T:0.19
Consensus pattern (19 bp):
AAAATAATAAAAAGCATGA
Found at i:254590 original size:22 final size:20
Alignment explanation
Indices: 254544--254607 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
254534 GTCCAAATGA
*
254544 TTTTTTATAATTTTT-ATAA
1 TTTTTTATAATTTTTAATAT
* * *
254563 GTTTATA-AATATTTTAATTT
1 TTTTTTATAAT-TTTTAATAT
254583 TTTTTTATAATTTTTAATAT
1 TTTTTTATAATTTTTAATAT
254603 TTTTT
1 TTTTT
254608 GTGATTTTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
18 3 0.09
19 9 0.26
20 20 0.57
21 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTTTATAATTTTTAATAT
Found at i:254599 original size:20 final size:23
Alignment explanation
Indices: 254564--254607 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
254554 TTTTTATAAG
254564 TTTATAAATATTTTAAT-TTTTT
1 TTTATAAATATTTTAATATTTTT
254586 TTTAT-AAT-TTTTAATATTTTT
1 TTTATAAATATTTTAATATTTTT
254607 T
1 T
254608 GTGATTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTATAAATATTTTAATATTTTT
Found at i:284091 original size:12 final size:12
Alignment explanation
Indices: 284074--284109 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
284064 CTCTAATCTG
284074 AAGAAGGAAAAA
1 AAGAAGGAAAAA
284086 AAGAAGGAAAAA
1 AAGAAGGAAAAA
*
284098 AAGAAAGAAAAA
1 AAGAAGGAAAAA
284110 GCATATTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAGAAGGAAAAA
Found at i:286469 original size:9 final size:9
Alignment explanation
Indices: 286455--286488 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
286445 GAACATTCAT
286455 TTAATAATA
1 TTAATAATA
286464 TTAATAATA
1 TTAATAATA
286473 TTAATAATA
1 TTAATAATA
286482 TTAATAA
1 TTAATAA
286489 ATTTATTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TTAATAATA
Found at i:287847 original size:32 final size:32
Alignment explanation
Indices: 287808--287869 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
287798 TGAGGCTTAG
*
287808 TTGGATGGAGTCTAAGGCAAATTGGCCCAAAT
1 TTGGATGGAGTCTAAAGCAAATTGGCCCAAAT
287840 TTGGATGGAGTCTAAAGCAAATTGGCCCAA
1 TTGGATGGAGTCTAAAGCAAATTGGCCCAA
287870 TCAAATCCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.24
Consensus pattern (32 bp):
TTGGATGGAGTCTAAAGCAAATTGGCCCAAAT
Found at i:288963 original size:66 final size:66
Alignment explanation
Indices: 288909--289255 Score: 577
Period size: 66 Copynumber: 5.3 Consensus size: 66
288899 CGGCAAATCT
**
288909 TTTGGAACGACAAAGGGGAGAGAATGTTGAAGATCAAACGGCGAAAATACAAGGGAATGATGATG
1 TTTGGAACGACAAAGGGGAGAGAATGTTGAAGATCAAACGGCGAAACGACAAGGGAATGATGATG
288974 G
66 G
* * *
288975 TTTGGAAGGACAAAGGGAAGAGAATGTTGAAGATCAAAAGGCGAAACGACAAGGGAATGATGATG
1 TTTGGAACGACAAAGGGGAGAGAATGTTGAAGATCAAACGGCGAAACGACAAGGGAATGATGATG
289040 G
66 G
*
289041 TTTGGAACGACAAAGGGGAGAGAATGTTGAAGATCAAACGGCGAAACGACAAGGGAATGCTGATG
1 TTTGGAACGACAAAGGGGAGAGAATGTTGAAGATCAAACGGCGAAACGACAAGGGAATGATGATG
289106 G
66 G
* *
289107 TTTGGAACGACAAAGGGTAGAAAATGTTGAAGATCAAACGGCGAAACGACAAGGGAATGATGATG
1 TTTGGAACGACAAAGGGGAGAGAATGTTGAAGATCAAACGGCGAAACGACAAGGGAATGATGATG
289172 G
66 G
* * * * *
289173 TTTGGAACGACAAACGGGTGAGAATGTTGAAGATCAAATGGTGAAACGACAAGGGAATGTTGATG
1 TTTGGAACGACAAAGGGGAGAGAATGTTGAAGATCAAACGGCGAAACGACAAGGGAATGATGATG
289238 G
66 G
289239 TTTGGAACGACAAAGGG
1 TTTGGAACGACAAAGGG
289256 AAGACAATCC
Statistics
Matches: 261, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 261 1.00
ACGTcount: A:0.39, C:0.10, G:0.34, T:0.17
Consensus pattern (66 bp):
TTTGGAACGACAAAGGGGAGAGAATGTTGAAGATCAAACGGCGAAACGACAAGGGAATGATGATG
G
Found at i:289143 original size:198 final size:198
Alignment explanation
Indices: 288847--289255 Score: 597
Period size: 198 Copynumber: 2.1 Consensus size: 198
288837 AAATGTTTTA
* ** * ** *
288847 GAACGACAAAGGGGGGAGAACGTTGAAGATCAAGTGGCTAAACGGAAAGGGGCGGCAAATCTTTT
1 GAACGACAAAGGGGAGAGAACGTTGAAGATCAAACGGCGAAACGGAAAGGGAAGGCAAATCGTTT
* *
288912 GGAACGACAAAGGGGAGAGAATGTTGAAGATCAAACGGCGAAAATACAAGGGAATGATGATGGTT
66 GGAACGACAAAGGGGAGAAAATGTTGAAGATCAAACGGCGAAAAGACAAGGGAATGATGATGGTT
*
288977 TGGAAGGACAAA-GGGAAGAGAATGTTGAAGATCAAAAGGCGAAACGACAAGGGAATGATGATGG
131 TGGAACGACAAACGGG-AGAGAATGTTGAAGATCAAAAGGCGAAACGACAAGGGAATGATGATGG
289041 TTTG
195 TTTG
* * ** *
289045 GAACGACAAAGGGGAGAGAATGTTGAAGATCAAACGGCGAAAC-GACAAGGGAATGCTGATGGTT
1 GAACGACAAAGGGGAGAGAACGTTGAAGATCAAACGGCGAAACGGA-AAGGGAAGGCAAATCGTT
* *
289109 TGGAACGACAAAGGGTAGAAAATGTTGAAGATCAAACGGCGAAACGACAAGGGAATGATGATGGT
65 TGGAACGACAAAGGGGAGAAAATGTTGAAGATCAAACGGCGAAAAGACAAGGGAATGATGATGGT
* * * *
289174 TTGGAACGACAAACGGGTGAGAATGTTGAAGATCAAATGGTGAAACGACAAGGGAATGTTGATGG
130 TTGGAACGACAAACGGGAGAGAATGTTGAAGATCAAAAGGCGAAACGACAAGGGAATGATGATGG
289239 TTTG
195 TTTG
289243 GAACGACAAAGGG
1 GAACGACAAAGGG
289256 AAGACAATCC
Statistics
Matches: 188, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
197 2 0.01
198 183 0.97
199 3 0.02
ACGTcount: A:0.39, C:0.11, G:0.34, T:0.16
Consensus pattern (198 bp):
GAACGACAAAGGGGAGAGAACGTTGAAGATCAAACGGCGAAACGGAAAGGGAAGGCAAATCGTTT
GGAACGACAAAGGGGAGAAAATGTTGAAGATCAAACGGCGAAAAGACAAGGGAATGATGATGGTT
TGGAACGACAAACGGGAGAGAATGTTGAAGATCAAAAGGCGAAACGACAAGGGAATGATGATGGT
TTG
Found at i:294194 original size:24 final size:23
Alignment explanation
Indices: 294132--294201 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
294122 TTTATTTAAT
*
294132 TTAATCGAACATGTTCACGAACA
1 TTAATCGAACATGTTCACAAACA
* * *
294155 TTAAACGATCATGTTCATAAACA
1 TTAATCGAACATGTTCACAAACA
*
294178 TATAATTGAACATGTTCACAAACA
1 T-TAATCGAACATGTTCACAAACA
294202 ATGTTAATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 20 0.53
24 18 0.47
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.29
Consensus pattern (23 bp):
TTAATCGAACATGTTCACAAACA
Found at i:295526 original size:19 final size:19
Alignment explanation
Indices: 295484--295526 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
295474 GTTTAAATTG
* * *
295484 TAATTATTTTTATTTAAAA
1 TAATAATTTTTAATAAAAA
295503 T-ATAATTTTTAATAAAAA
1 TAATAATTTTTAATAAAAA
295521 TAATAA
1 TAATAA
295527 ATAACTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAATTTTTAATAAAAA
Found at i:298247 original size:3 final size:3
Alignment explanation
Indices: 298239--298268 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
298229 GCTCTTTTCT
298239 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
298269 GGAGAGAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:303207 original size:30 final size:30
Alignment explanation
Indices: 303171--303240 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
303161 TCTCTCTATT
303171 CCATTCAGCAGCTTTTCGTCCAACATGCTG
1 CCATTCAGCAGCTTTTCGTCCAACATGCTG
303201 CCATTCAGCAGCTTTTCGTCCAACATGCTG
1 CCATTCAGCAGCTTTTCGTCCAACATGCTG
303231 CCATTCAGCA
1 CCATTCAGCA
303241 TACTCCTCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.21, C:0.34, G:0.16, T:0.29
Consensus pattern (30 bp):
CCATTCAGCAGCTTTTCGTCCAACATGCTG
Found at i:306402 original size:23 final size:24
Alignment explanation
Indices: 306376--306442 Score: 64
Period size: 28 Copynumber: 2.7 Consensus size: 24
306366 TTTTAAGAAG
306376 TTAGATAACTTTTTTTGAAATAAT
1 TTAGATAACTTTTTTTGAAATAAT
*
306400 TAGGTAAGATAACTTTTTTTGAAAT-AG
1 T---T-AGATAACTTTTTTTGAAATAAT
* *
306427 TTAGGTAACATTTTTT
1 TTAGATAACTTTTTTT
306443 CATGTTAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
23 12 0.33
24 2 0.06
27 3 0.08
28 19 0.53
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.48
Consensus pattern (24 bp):
TTAGATAACTTTTTTTGAAATAAT
Found at i:306411 original size:28 final size:28
Alignment explanation
Indices: 306378--306434 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
306368 TTAAGAAGTT
306378 AGATAACTTTTTTTGAAATAATTAGGTA
1 AGATAACTTTTTTTGAAATAATTAGGTA
*
306406 AGATAACTTTTTTTGAAATAGTTAGGTA
1 AGATAACTTTTTTTGAAATAATTAGGTA
306434 A
1 A
306435 CATTTTTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.04, G:0.16, T:0.42
Consensus pattern (28 bp):
AGATAACTTTTTTTGAAATAATTAGGTA
Found at i:335416 original size:2 final size:2
Alignment explanation
Indices: 335409--335442 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
335399 AAGACAATAC
335409 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GAT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT G-T GT G
335443 AGTCTTGTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.03, C:0.00, G:0.50, T:0.47
Consensus pattern (2 bp):
GT
Found at i:337589 original size:8 final size:8
Alignment explanation
Indices: 337578--337619 Score: 66
Period size: 8 Copynumber: 5.0 Consensus size: 8
337568 TAAAAATTAG
337578 AAAAAATAA
1 AAAAAAT-A
337587 AAAAAATAA
1 AAAAAAT-A
337596 AAAAAATA
1 AAAAAATA
337604 AAAAAATA
1 AAAAAATA
337612 AAAAAATA
1 AAAAAATA
337620 TTACATATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 17 0.52
9 16 0.48
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAATA
Found at i:337590 original size:9 final size:9
Alignment explanation
Indices: 337578--337617 Score: 73
Period size: 9 Copynumber: 4.6 Consensus size: 9
337568 TAAAAATTAG
337578 AAAAAATAA
1 AAAAAATAA
337587 AAAAAATAA
1 AAAAAATAA
337596 AAAAAAT-A
1 AAAAAATAA
337604 AAAAAATAA
1 AAAAAATAA
337613 AAAAA
1 AAAAA
337618 TATTACATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 8 0.27
9 22 0.73
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAATAA
Found at i:337598 original size:17 final size:18
Alignment explanation
Indices: 337578--337617 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
337568 TAAAAATTAG
337578 AAAAAATAAAAAAAATAA
1 AAAAAATAAAAAAAATAA
337596 AAAAAAT-AAAAAAATAA
1 AAAAAATAAAAAAAATAA
337613 AAAAA
1 AAAAA
337618 TATTACATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (18 bp):
AAAAAATAAAAAAAATAA
Found at i:337798 original size:20 final size:18
Alignment explanation
Indices: 337728--337816 Score: 67
Period size: 20 Copynumber: 4.8 Consensus size: 18
337718 ATAAAATTAA
337728 TAAAAGTTATT-AAAATAT
1 TAAAA-TTATTAAAAATAT
*
337746 TTAAATT-TTAAAAAGCATAT
1 TAAAATTATT-AAAA--ATAT
*
337766 TAGAATTATTAAAAATAT
1 TAAAATTATTAAAAATAT
**
337784 TAAAATTGATATAAATTTAT
1 TAAAATT-AT-TAAAAATAT
337804 TAAAATTA-TAAAA
1 TAAAATTATTAAAA
337817 TCTTGAATTT
Statistics
Matches: 57, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
16 2 0.04
17 6 0.11
18 17 0.30
19 3 0.05
20 27 0.47
21 2 0.04
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.39
Consensus pattern (18 bp):
TAAAATTATTAAAAATAT
Found at i:337817 original size:18 final size:18
Alignment explanation
Indices: 337716--337817 Score: 68
Period size: 18 Copynumber: 5.5 Consensus size: 18
337706 ATAAACAAAT
*
337716 TTATAAAAT-TAATAAAA
1 TTATAAAATATATTAAAA
337733 GTTATTAAAATAT-TT-AAA
1 -TTA-TAAAATATATTAAAA
* * *
337751 TTTTAAAAAGCATATTAGAA
1 TTAT-AAAA-TATATTAAAA
337771 TTATTAAAA-ATATTAAAA
1 TTA-TAAAATATATTAAAA
*
337789 TTGATATAAATTTATTAAAA
1 TT-ATA-AAATATATTAAAA
337809 TTATAAAAT
1 TTATAAAAT
337818 CTTGAATTTG
Statistics
Matches: 67, Mismatches: 7, Indels: 20
0.71 0.07 0.21
Matches are distributed among these distances:
16 1 0.01
17 6 0.09
18 24 0.36
19 16 0.24
20 19 0.28
21 1 0.01
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (18 bp):
TTATAAAATATATTAAAA
Found at i:338207 original size:20 final size:21
Alignment explanation
Indices: 338182--338237 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 21
338172 GGTTCAATTC
338182 AAGTTTTTATGATTTTTTA-T
1 AAGTTTTTATGATTTTTTAGT
* *
338202 AAGTTTATATTATTTTTTAGT
1 AAGTTTTTATGATTTTTTAGT
338223 -AG-TTTTATGATTTTT
1 AAGTTTTTATGATTTTT
338238 AAAGAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 11 0.35
20 19 0.61
21 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.11, T:0.64
Consensus pattern (21 bp):
AAGTTTTTATGATTTTTTAGT
Found at i:340802 original size:18 final size:17
Alignment explanation
Indices: 340771--340817 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 17
340761 AACACGTCAC
340771 AAAGACAAATAAAA-ACTA
1 AAAGA-AAATAAAATA-TA
340789 AAAGAAAATCAAAATATA
1 AAAGAAAAT-AAAATATA
340807 AAAGAAAATAA
1 AAAGAAAATAA
340818 GAATTGAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.22
18 20 0.74
19 1 0.04
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.13
Consensus pattern (17 bp):
AAAGAAAATAAAATATA
Found at i:340841 original size:23 final size:23
Alignment explanation
Indices: 340800--340867 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 23
340790 AAGAAAATCA
340800 AAATATAAAAGAAAA-TAAGAATT
1 AAATATAAAA-AAAATTAAGAATT
* *
340823 GAATATAAAAAAAATTAAGGAGGTT
1 AAATATAAAAAAAATTAA-GA-ATT
340848 AAATAT-AAAAAAATTAAGAA
1 AAATATAAAAAAAATTAAGAA
340868 GAAAGAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
22 4 0.11
23 14 0.37
24 13 0.34
25 7 0.18
ACGTcount: A:0.66, C:0.00, G:0.12, T:0.22
Consensus pattern (23 bp):
AAATATAAAAAAAATTAAGAATT
Found at i:340852 original size:25 final size:24
Alignment explanation
Indices: 340800--340865 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
340790 AAGAAAATCA
340800 AAATATAAAAGAAAA-TAA-GAATT
1 AAATATAAAA-AAAATTAAGGAATT
* *
340823 GAATATAAAAAAAATTAAGGAGGTT
1 AAATATAAAAAAAATTAAGGA-ATT
340848 AAATAT-AAAAAAATTAAG
1 AAATATAAAAAAAATTAAG
340866 AAGAAAGAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 14 0.38
25 7 0.19
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.23
Consensus pattern (24 bp):
AAATATAAAAAAAATTAAGGAATT
Found at i:340876 original size:24 final size:26
Alignment explanation
Indices: 340823--340877 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
340813 AATAAGAATT
* **
340823 GAATATAAAAAAAATTAAGGAGGTTA
1 GAATATAAAAAAAATTAAGGAAGAAA
340849 -AATAT-AAAAAAATTAA-GAAGAAA
1 GAATATAAAAAAAATTAAGGAAGAAA
340872 GAATAT
1 GAATAT
340878 CGTCAGTCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 4 0.16
24 16 0.64
25 5 0.20
ACGTcount: A:0.64, C:0.00, G:0.15, T:0.22
Consensus pattern (26 bp):
GAATATAAAAAAAATTAAGGAAGAAA
Found at i:342248 original size:22 final size:22
Alignment explanation
Indices: 342209--342323 Score: 92
Period size: 23 Copynumber: 5.0 Consensus size: 22
342199 AAACGGAACA
* *
342209 AACAGAGAGTAC-CGAAGTACTG
1 AACAGAGAGCACAC-AAGTGCTG
*
342231 AACAGAGAGCACATAAGTGCTGGG
1 AACAGAGAGCACACAAGTGCT--G
342255 CAACAGAGAGCACACAGAGTGCT-
1 -AACAGAGAGCACACA-AGTGCTG
342278 AACCAGAGAGCACACAAAGTGCT-
1 AA-CAGAGAGCACAC-AAGTGCTG
*
342301 AATCAAAGAGCACACAAAGTGCT
1 AA-CAGAGAGCACAC-AAGTGCT
342324 AATAATAGAG
Statistics
Matches: 80, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
22 19 0.24
23 39 0.49
24 2 0.03
25 14 0.17
26 6 0.08
ACGTcount: A:0.42, C:0.22, G:0.25, T:0.11
Consensus pattern (22 bp):
AACAGAGAGCACACAAGTGCTG
Found at i:342326 original size:23 final size:23
Alignment explanation
Indices: 342261--342359 Score: 112
Period size: 23 Copynumber: 4.2 Consensus size: 23
342251 TGGGCAACAG
* * *
342261 AGAGCACACAGAGTGCTAACCAG
1 AGAGCACACAAAGTGCTAATCAA
342284 AGAGCACACAAAGTGCTAATCAA
1 AGAGCACACAAAGTGCTAATCAA
342307 AGAGCACACAAAGTGCTAAT-AA
1 AGAGCACACAAAGTGCTAATCAA
*
342329 TAGAG-AGCACAAGACGTGCTAAACAA
1 -AGAGCA-CACAA-A-GTGCTAATCAA
342355 AGAGC
1 AGAGC
342360 GCGCTAGTGT
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
22 3 0.05
23 49 0.74
24 1 0.02
25 11 0.17
26 2 0.03
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.11
Consensus pattern (23 bp):
AGAGCACACAAAGTGCTAATCAA
Found at i:342334 original size:48 final size:46
Alignment explanation
Indices: 342256--342359 Score: 120
Period size: 48 Copynumber: 2.2 Consensus size: 46
342246 AGTGCTGGGC
* * *
342256 AACAGAGAGCACACAGAGTGCTAACCAGAGAGCACACA-AAGTGCTA
1 AACAAAGAGCACACAAAGTGCTAAACAGAGAGCACA-AGAAGTGCTA
* * *
342302 ATCAAAGAGCACACAAAGTGCTAATAATAGAGAGCACAAGACGTGCTA
1 AACAAAGAGCACACAAAGTGCT-A-AACAGAGAGCACAAGAAGTGCTA
342350 AACAAAGAGC
1 AACAAAGAGC
342360 GCGCTAGTGT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
46 19 0.40
47 2 0.04
48 27 0.56
ACGTcount: A:0.46, C:0.21, G:0.22, T:0.11
Consensus pattern (46 bp):
AACAAAGAGCACACAAAGTGCTAAACAGAGAGCACAAGAAGTGCTA
Found at i:342347 original size:25 final size:23
Alignment explanation
Indices: 342234--342358 Score: 94
Period size: 23 Copynumber: 5.2 Consensus size: 23
342224 AGTACTGAAC
***
342234 AGAGAGCACATAAGTGCTGGGCAA
1 AGAGAGCACA-AAGTGCTAATCAA
* *
342258 CAGAGAGCACACAGAGTGCTAACCAG
1 -AGAGAGCACA-A-AGTGCTAATCAA
342284 AGAGCA-CACAAAGTGCTAATCAA
1 AGAG-AGCACAAAGTGCTAATCAA
342307 AGAGCA-CACAAAGTGCTAAT-AA
1 AGAG-AGCACAAAGTGCTAATCAA
*
342329 TAGAGAGCACAAGACGTGCTAAACAA
1 -AGAGAGCACAA-A-GTGCTAATCAA
342355 AGAG
1 AGAG
342359 CGCGCTAGTG
Statistics
Matches: 85, Mismatches: 8, Indels: 14
0.79 0.07 0.13
Matches are distributed among these distances:
22 3 0.04
23 39 0.46
24 2 0.02
25 30 0.35
26 11 0.13
ACGTcount: A:0.44, C:0.20, G:0.25, T:0.11
Consensus pattern (23 bp):
AGAGAGCACAAAGTGCTAATCAA
Found at i:344303 original size:11 final size:12
Alignment explanation
Indices: 344279--344308 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
344269 CAATCTAAAT
344279 TTTATTATTTTA
1 TTTATTATTTTA
344291 TTTATTA-TTTA
1 TTTATTATTTTA
344302 TTTATTA
1 TTTATTA
344309 AATAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTATTATTTTA
Found at i:345714 original size:13 final size:13
Alignment explanation
Indices: 345698--345722 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
345688 TTTGATAAAT
345698 TACTAAATATAAG
1 TACTAAATATAAG
345711 TACTAAATATAA
1 TACTAAATATAA
345723 TTATGTTATT
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:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (13 bp):
TACTAAATATAAG
Found at i:345744 original size:22 final size:21
Alignment explanation
Indices: 345714--345754 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
345704 ATATAAGTAC
*
345714 TAAATATAATTATGTTATTTGA
1 TAAAAATAATTAT-TTATTTGA
345736 TAAAAATAATTATTTATTT
1 TAAAAATAATTATTTATTT
345755 TTAAAAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (21 bp):
TAAAAATAATTATTTATTTGA
Found at i:346320 original size:2 final size:2
Alignment explanation
Indices: 346315--346339 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
346305 AAAAAACCAA
346315 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
346340 ATGTCAAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:348778 original size:22 final size:22
Alignment explanation
Indices: 348733--348778 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
348723 TCCATTTCTG
*
348733 TTTTCATCTCAAATATATATAT
1 TTTTCATCTCAAATATATAAAT
*
348755 TTTTCATCTCAGATATGA-AAAT
1 TTTTCATCTCAAATAT-ATAAAT
348777 TT
1 TT
348779 AACCCAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.35, C:0.13, G:0.04, T:0.48
Consensus pattern (22 bp):
TTTTCATCTCAAATATATAAAT
Found at i:352789 original size:2 final size:2
Alignment explanation
Indices: 352782--352809 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
352772 TCTGGTGATC
352782 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
352810 GCATTGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:354271 original size:11 final size:11
Alignment explanation
Indices: 354255--354292 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
354245 GTATCATTTG
354255 ATTTTTTATAT
1 ATTTTTTATAT
354266 A-TTTTT-TA-
1 ATTTTTTATAT
354274 ATTTTTTATAT
1 ATTTTTTATAT
354285 ATTTTTTA
1 ATTTTTTA
354293 ATAACTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
8 1 0.04
9 7 0.29
10 7 0.29
11 9 0.38
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
ATTTTTTATAT
Found at i:354279 original size:19 final size:19
Alignment explanation
Indices: 354255--354294 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
354245 GTATCATTTG
354255 ATTTTTTATATATTTTTTA
1 ATTTTTTATATATTTTTTA
354274 ATTTTTTATATATTTTTTA
1 ATTTTTTATATATTTTTTA
354293 AT
1 AT
354295 AACTTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
ATTTTTTATATATTTTTTA
Found at i:394400 original size:17 final size:17
Alignment explanation
Indices: 394378--394411 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
394368 CAAATATCTA
394378 TTTAGATATAAA-TCAAC
1 TTTAGAT-TAAATTCAAC
394395 TTTAGATTAAATTCAAC
1 TTTAGATTAAATTCAAC
394412 CTTAAAGCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (17 bp):
TTTAGATTAAATTCAAC
Found at i:400053 original size:24 final size:24
Alignment explanation
Indices: 400021--400071 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
400011 GTTGTTTTAT
** *
400021 TTTTATAATTTTAATTTTTTAATA
1 TTTTATAATTACAATTTTTAAATA
400045 TTTTATAATTACAATTTTTAAATA
1 TTTTATAATTACAATTTTTAAATA
400069 TTT
1 TTT
400072 AAAATAATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
TTTTATAATTACAATTTTTAAATA
Found at i:400454 original size:16 final size:17
Alignment explanation
Indices: 400435--400466 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
400425 TATAATTATA
400435 AAATAT-TAAAAATAAT
1 AAATATATAAAAATAAT
400451 AAATATATAAAAATAA
1 AAATATATAAAAATAA
400467 AACAACTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAATATATAAAAATAAT
Found at i:400459 original size:25 final size:25
Alignment explanation
Indices: 400410--400462 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
400400 TCATTACTTT
**
400410 AAATATTAAAAATTTTATAATTATA
1 AAATATTAAAAATAATATAATTATA
400435 AAATATTAAAAATAATA-AATATATA
1 AAATATTAAAAATAATATAAT-TATA
400460 AAA
1 AAA
400463 ATAAAACAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 3 0.12
25 22 0.88
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
AAATATTAAAAATAATATAATTATA
Found at i:400965 original size:161 final size:158
Alignment explanation
Indices: 400700--401011 Score: 432
Period size: 161 Copynumber: 2.0 Consensus size: 158
400690 TCCATCAAAT
* ** *
400700 AAAATTTGAGTTTTTGTAATCATAAAATTTTTAAAAATTAAACTTAAAAATTTGGATGTTACAAA
1 AAAATTTGAGTTTTTGAAATCATAAAATTTTTAAAAATTAAACTTAAAAACCTGGATATTACAAA
* * *
400765 TCTTCTTCTTATTTATTGTTCCATACTTTTGTTCATCTGTAAGCCTTTAGAAACACTCAAAAATT
66 TCTTCTTCTTACTCATTGTTCCATACTTTTGTTCATCTGTAAACCTTTAGAAACACT---AAATT
*
400830 TCAGATTTCAAAAATCC-AAATTTTATTTCTA
128 TCAAATTTCAAAAA-CCAAAATTTTATTTCTA
* * *
400861 AAAATTTGGGTTTTTGAAATC-TGAAAATTTTT-AAAATTCAAACTTTAAAACCTGGGTATTACA
1 AAAATTTGAGTTTTTGAAATCAT-AAAATTTTTAAAAATT-AAACTTAAAAACCTGGATATTACA
* *
400924 AATCTTCTTCTTCCTCATTGTTCCATACTTTTGTTCATCTGTAAACCTTTAGAAACACTAATTTT
64 AATCTTCTTCTTACTCATTGTTCCATACTTTTGTTCATCTGTAAACCTTTAGAAACACTAAATTT
400989 CAAATTTCAAAAACCAAAATTTT
129 CAAATTTCAAAAACCAAAATTTT
401012 TAGTGAATTA
Statistics
Matches: 135, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
157 2 0.01
158 24 0.18
160 7 0.05
161 102 0.76
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.42
Consensus pattern (158 bp):
AAAATTTGAGTTTTTGAAATCATAAAATTTTTAAAAATTAAACTTAAAAACCTGGATATTACAAA
TCTTCTTCTTACTCATTGTTCCATACTTTTGTTCATCTGTAAACCTTTAGAAACACTAAATTTCA
AATTTCAAAAACCAAAATTTTATTTCTA
Found at i:401134 original size:29 final size:29
Alignment explanation
Indices: 401093--401167 Score: 109
Period size: 29 Copynumber: 2.6 Consensus size: 29
401083 AAATAATATC
401093 ATAA-TTTAATAATTATTAT-TTCAAAAAA
1 ATAATTTTAATAATT-TTATATTCAAAAAA
**
401121 ATAATTTTAATAATTTTATATTTTAAAAA
1 ATAATTTTAATAATTTTATATTCAAAAAA
401150 ATAATTTTAATAATTTTA
1 ATAATTTTAATAATTTTA
401168 AAATCATTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
28 8 0.19
29 35 0.81
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (29 bp):
ATAATTTTAATAATTTTATATTCAAAAAA
Found at i:401154 original size:20 final size:22
Alignment explanation
Indices: 401129--401170 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
401119 AAATAATTTT
401129 AATAATTTT-AT-ATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
401149 AATAATTTTAATAATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
401171 TCATTTGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 2 0.10
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATAATTTTAATAATTTTAAAA
Found at i:401171 original size:20 final size:20
Alignment explanation
Indices: 401120--401176 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
401110 ATTTCAAAAA
401120 AATAATTTT--AATAATTTT
1 AATAATTTTAAAATAATTTT
401138 -AT-ATTTTAAAAAATAATTTT
1 AATAATTTT--AAAATAATTTT
*
401158 AATAATTTTAAAATCATTT
1 AATAATTTTAAAATAATTT
401177 GCTGACGAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
16 5 0.16
17 2 0.06
20 18 0.56
21 2 0.06
22 5 0.16
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
AATAATTTTAAAATAATTTT
Found at i:405840 original size:2 final size:2
Alignment explanation
Indices: 405833--405858 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
405823 TGAAATCGTG
405833 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
405859 TAGTTGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:407509 original size:55 final size:55
Alignment explanation
Indices: 407440--407559 Score: 159
Period size: 55 Copynumber: 2.2 Consensus size: 55
407430 TAGACGTGCT
* *
407440 ACATAACAATTGATTTAAACATATAAACAATTGATTCAAAATAAACAGTATGCCA
1 ACATAACAATTGATTTAAACATATAAACAATCGATTCAAAAGAAACAGTATGCCA
* * * * * *
407495 ACGTAACAATTGATTTAAATATATAAACAGTCGATTCGAAAGAAGCAGTATTCCA
1 ACATAACAATTGATTTAAACATATAAACAATCGATTCAAAAGAAACAGTATGCCA
*
407550 CCATAACAAT
1 ACATAACAAT
407560 CAATTTTGAG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.47, C:0.16, G:0.10, T:0.27
Consensus pattern (55 bp):
ACATAACAATTGATTTAAACATATAAACAATCGATTCAAAAGAAACAGTATGCCA
Found at i:407587 original size:2 final size:2
Alignment explanation
Indices: 407576--407604 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
407566 TGAGGAGGGC
407576 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
407605 CAAAAGAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:408913 original size:26 final size:22
Alignment explanation
Indices: 408884--408939 Score: 58
Period size: 26 Copynumber: 2.3 Consensus size: 22
408874 TTATAATTGG
408884 TAATAATGATAAATAATATATTTTGT
1 TAATAAT-ATAAAT-ATA-ATTTT-T
*
408910 TAATCAATATAAATGTAATTTTT
1 TAAT-AATATAAATATAATTTTT
408933 TAATAAT
1 TAATAAT
408940 TTGATTTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 3 0.11
23 5 0.18
24 5 0.18
25 2 0.07
26 10 0.36
27 3 0.11
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (22 bp):
TAATAATATAAATATAATTTTT
Found at i:409940 original size:18 final size:18
Alignment explanation
Indices: 409917--409954 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
409907 TAATATAGTT
*
409917 TTATTC-AGTTTATTCGAA
1 TTATTCGAG-TTATTCAAA
409935 TTATTCGAGTTATTCAAA
1 TTATTCGAGTTATTCAAA
409953 TT
1 TT
409955 CGAAAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.50
Consensus pattern (18 bp):
TTATTCGAGTTATTCAAA
Found at i:421206 original size:39 final size:39
Alignment explanation
Indices: 421163--421262 Score: 130
Period size: 39 Copynumber: 2.6 Consensus size: 39
421153 AGGAGGCGGC
* *
421163 GGATGAATTTGACTAGGTGGTGAGTATTG-CGTTGGTGGT
1 GGATGAATTTGAGTAGGTGGCGAGTATTGAC-TTGGTGGT
* * *
421202 GGATGACTTTGAGTGGGCGGCGAGTATTGACTTGGTGGT
1 GGATGAATTTGAGTAGGTGGCGAGTATTGACTTGGTGGT
*
421241 GGATGAACTTGAGTAGGTGGCG
1 GGATGAATTTGAGTAGGTGGCG
421263 TGTGACCTCG
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 50 0.98
40 1 0.02
ACGTcount: A:0.18, C:0.08, G:0.43, T:0.31
Consensus pattern (39 bp):
GGATGAATTTGAGTAGGTGGCGAGTATTGACTTGGTGGT
Done.