Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004618.1 Hibiscus syriacus cultivar Beakdansim tig00010330_pilon, 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: 66048
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:1687 original size:74 final size:72
Alignment explanation
Indices: 1567--1720 Score: 197
Period size: 74 Copynumber: 2.1 Consensus size: 72
1557 CCATGTCGTT
* **
1567 TTTTTTTCAAATTGTAAAATATCTAAATGTTTTGATATTATTTTTAACTTTGAAA-TTAAAAAAA
1 TTTTTTTCAAATTGTAAAATATCTAAAAGTTTTGATATTATTTTTAACTTCAAAATTTAAAAAAA
*
1631 TATATATTA
66 T-T-TAATA
1640 TTTTTTTCAAATTTGTTAAAA-ATTCTAAAAG-TTTGATATTATTTTTAACTTCAAAATTTTAAA
1 TTTTTTTCAAA-TTG-TAAAATA-TCTAAAAGTTTTGATATTATTTTTAACTTCAAAA-TTTAAA
1703 AAAATTTAATA
62 AAAATTTAATA
1714 TTTTTTT
1 TTTTTTT
1721 ATTTAATAAC
Statistics
Matches: 72, Mismatches: 4, Indels: 9
0.85 0.05 0.11
Matches are distributed among these distances:
73 11 0.15
74 38 0.53
75 13 0.18
76 10 0.14
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (72 bp):
TTTTTTTCAAATTGTAAAATATCTAAAAGTTTTGATATTATTTTTAACTTCAAAATTTAAAAAAA
TTTAATA
Found at i:3144 original size:16 final size:16
Alignment explanation
Indices: 3123--3172 Score: 82
Period size: 16 Copynumber: 3.0 Consensus size: 16
3113 AAAAGATGAA
3123 GAAGTTACGAAAGATT
1 GAAGTTACGAAAGATT
3139 GAAGTTACGAAAGATT
1 GAAGTTACGAAAGATT
3155 GAAAAGTTACGAAAGATT
1 G--AAGTTACGAAAGATT
3173 AAAAAATGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 17 0.53
18 15 0.47
ACGTcount: A:0.46, C:0.06, G:0.24, T:0.24
Consensus pattern (16 bp):
GAAGTTACGAAAGATT
Found at i:3172 original size:18 final size:18
Alignment explanation
Indices: 3114--3176 Score: 89
Period size: 18 Copynumber: 3.7 Consensus size: 18
3104 CTTAAAATCA
3114 AAAGA-TGAAGAAGTTACG
1 AAAGATTGAA-AAGTTACG
3132 AAAGATTG--AAGTTACG
1 AAAGATTGAAAAGTTACG
3148 AAAGATTGAAAAGTTACG
1 AAAGATTGAAAAGTTACG
3166 AAAGATT-AAAA
1 AAAGATTGAAAA
3177 AATGGTTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
16 16 0.38
17 4 0.10
18 20 0.48
19 2 0.05
ACGTcount: A:0.52, C:0.05, G:0.22, T:0.21
Consensus pattern (18 bp):
AAAGATTGAAAAGTTACG
Found at i:8151 original size:31 final size:31
Alignment explanation
Indices: 8113--8299 Score: 279
Period size: 31 Copynumber: 6.0 Consensus size: 31
8103 AGGGTCGAGG
*
8113 GTTTACCTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
8144 GTTTACCTTTGTTCTTCAGGACATATGGA-T
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
8174 CGTTTACCTATGTTCTTCGGGATATATGGACT
1 -GTTTACCTATGTTCTTCGGGACATATGGACT
8206 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
8237 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
8268 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
8299 G
1 G
8300 GTTCTTCGGG
Statistics
Matches: 144, Mismatches: 9, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
30 1 0.01
31 141 0.98
32 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:14484 original size:40 final size:41
Alignment explanation
Indices: 14428--14512 Score: 163
Period size: 40 Copynumber: 2.1 Consensus size: 41
14418 TCCTACATTG
14428 AATGTTGGGGTCCAAAATGCTCCTAAAAGAATATGGGTCAA
1 AATGTTGGGGTCCAAAATGCTCCTAAAAGAATATGGGTCAA
14469 AATGTT-GGGTCCAAAATGCTCCTAAAAGAATATGGGTCAA
1 AATGTTGGGGTCCAAAATGCTCCTAAAAGAATATGGGTCAA
14509 AATG
1 AATG
14513 ATCATTTTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 38 0.86
41 6 0.14
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.25
Consensus pattern (41 bp):
AATGTTGGGGTCCAAAATGCTCCTAAAAGAATATGGGTCAA
Found at i:24516 original size:3 final size:3
Alignment explanation
Indices: 24508--24541 Score: 50
Period size: 3 Copynumber: 10.7 Consensus size: 3
24498 TCCAGAGTCA
24508 TCT TCT TCTT TCT TCT TCT TCTT TCT TCT TCT TC
1 TCT TCT TC-T TCT TCT TCT TC-T TCT TCT TCT TC
24542 ATACGTGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 23 0.79
4 6 0.21
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:24524 original size:13 final size:13
Alignment explanation
Indices: 24508--24541 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
24498 TCCAGAGTCA
24508 TCTTCTTCTTTCT
1 TCTTCTTCTTTCT
24521 TCTTCTTCTTTCT
1 TCTTCTTCTTTCT
24534 TCTTCTTC
1 TCTTCTTC
24542 ATACGTGAGA
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (13 bp):
TCTTCTTCTTTCT
Found at i:25060 original size:21 final size:21
Alignment explanation
Indices: 24997--25050 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
24987 TTTCTGGGCT
24997 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCATTCA
25018 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCATTCA
25039 AGGGGAATCGAT
1 AGGGGAATCGAT
25051 GCCCCCTCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCATTCA
Found at i:25795 original size:103 final size:103
Alignment explanation
Indices: 25611--25824 Score: 374
Period size: 103 Copynumber: 2.1 Consensus size: 103
25601 GTAGAGGGTC
* * *
25611 TATGTGGTTCTTCGGGACATATATGTATTATTTGGAACATGTGTGAGGTCTGGTGAGACACCTAC
1 TATGTGGTCCTTCGAGACATATATGTATTATTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
*
25676 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
25714 TATGTGGTCCTTCGAGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGAGACATATATGTATTATTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
*
25779 TTGATCCTTGGCATATGTATATGATTTTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
25817 TATGTGGT
1 TATGTGGT
25825 TCTTATGGAC
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGAGACATATATGTATTATTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:25881 original size:23 final size:23
Alignment explanation
Indices: 25855--25907 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
25845 GGCACTACGT
25855 TGCAATTCTACGCGGCACTCT-GG
1 TGCAATTCTACGCGGCACT-TAGG
*
25878 TGCAATTCTACGTGGCACTTAGG
1 TGCAATTCTACGCGGCACTTAGG
25901 TGCAATT
1 TGCAATT
25908 ATATGAGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 1 0.04
23 27 0.96
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.30
Consensus pattern (23 bp):
TGCAATTCTACGCGGCACTTAGG
Found at i:31984 original size:21 final size:21
Alignment explanation
Indices: 31942--31984 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
31932 TTTCTGGGCT
*
31942 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
31963 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
31984 A
1 A
31985 ACGATTATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:32718 original size:103 final size:103
Alignment explanation
Indices: 32534--32751 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
32524 GTAGAGGGTC
* * * * *
32534 TATGTGATTCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACCTAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
32599 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
32637 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
32702 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
32740 TATGTGGTCCTT
1 TATGTGGTCCTT
32752 ATGGACATTA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:32801 original size:23 final size:23
Alignment explanation
Indices: 32768--32830 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
32758 ATTATTATAT
*
32768 GGCACTACGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
* *
32791 GGCACTTCGGTGTAATTCTACGT
1 GGCACTTCGGTGCAATTCTACGC
*
32814 GGCACTTAGGTGCAATT
1 GGCACTTCGGTGCAATT
32831 ATATGAGTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.29
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:36085 original size:23 final size:21
Alignment explanation
Indices: 36047--36089 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
36037 ATAATTATTT
36047 AAAAATTTAAATAAAAATATA
1 AAAAATTTAAATAAAAATATA
*
36068 AAAAATATTTAATAAAAA-ATA
1 AAAAAT-TTAAATAAAAATATA
36089 A
1 A
36090 TTTTTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAAATTTAAATAAAAATATA
Found at i:43360 original size:52 final size:52
Alignment explanation
Indices: 43298--43412 Score: 212
Period size: 52 Copynumber: 2.2 Consensus size: 52
43288 GCCATTGTTT
43298 GGCTAGCTGAATTCAGCTTTATTATACATTTATCTTTTAATTACCTTTATTC
1 GGCTAGCTGAATTCAGCTTTATTATACATTTATCTTTTAATTACCTTTATTC
*
43350 GGCTAGCTGAATTCAGCTTTATTATACATTTATCTTTTAATTACCTTTGTTC
1 GGCTAGCTGAATTCAGCTTTATTATACATTTATCTTTTAATTACCTTTATTC
*
43402 GACTAGCTGAA
1 GGCTAGCTGAA
43413 GGATTCATGT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.45
Consensus pattern (52 bp):
GGCTAGCTGAATTCAGCTTTATTATACATTTATCTTTTAATTACCTTTATTC
Found at i:49391 original size:110 final size:109
Alignment explanation
Indices: 49242--49563 Score: 392
Period size: 110 Copynumber: 3.0 Consensus size: 109
49232 CTTGAGATTG
* *
49242 TTTTTCTTAAAATCAATTTCATCTCGCTTGAGACGGTTTTCCCATT-AAACACAAGTTTTGAAAT
1 TTTTTCTTAAAATCAATTTCGTCTCGCTTGAGACAGTTTTCCC-TTGAAACACAAGTTTTGAAAT
* *
49306 TGTTTCACTTGAAACCAAAATTGATCTCACTTGATATTATTTTTT
65 TATTTCACTTGAAACCAAAATTGATCTCACTTGAGATTATTTTTT
* * *
49351 ATTTTTCTTAAAATCAA-TTCTGTCTCGCTTAAGGCAGTTTTCCCTTGAAACACAAATTTTGAAA
1 -TTTTTCTTAAAATCAATTTC-GTCTCGCTTGAGACAGTTTTCCCTTGAAACACAAGTTTTGAAA
* *
49415 TTCTTTCACTCGAAA-CAAAATTGATCTCACTTGAGATTA----TT
64 TTATTTCACTTGAAACCAAAATTGATCTCACTTGAGATTATTTTTT
* * * * *
49456 TTTTTCTTAAAACCAAATTTCGTCTTGCTTGAGAAAGTTTTCCCTTGAAACACAAAGTTTGGAAT
1 TTTTTCTTAAAATC-AATTTCGTCTCGCTTGAGACAGTTTTCCCTTGAAACAC-AAGTTTTGAAA
* *
49521 TTATTTCACCTGAAACC-AAA-TGATCTCACTTGAGATTGTTTTT
64 TTATTTCACTTGAAACCAAAATTGATCTCACTTGAGATTATTTTT
49564 GTAAAAAATA
Statistics
Matches: 182, Mismatches: 20, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
104 13 0.07
105 49 0.27
106 26 0.14
107 1 0.01
109 29 0.16
110 64 0.35
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (109 bp):
TTTTTCTTAAAATCAATTTCGTCTCGCTTGAGACAGTTTTCCCTTGAAACACAAGTTTTGAAATT
ATTTCACTTGAAACCAAAATTGATCTCACTTGAGATTATTTTTT
Found at i:49548 original size:105 final size:105
Alignment explanation
Indices: 49220--49598 Score: 389
Period size: 110 Copynumber: 3.6 Consensus size: 105
49210 GCAAATATAA
* * * *
49220 AAATGGATCTCACTTGAGA-T-TGTTTTTCTTAAAATCAATTTCATCTCGCTTGAGACGGTTTTC
1 AAATTGATCTCACTTGAGATTATTTTTTTCTTAAAATCAATTTCGTCTCGCTTGAGACAGTTTTC
* *
49283 CCATT-AAACAC-AAGTTTTGAAATTGTTTCACTTGAAACC
66 CC-TTGAAACACAAAGTTTTGAAATTATTTCACCTGAAACC
* * *
49322 AAAATTGATCTCACTTGATATTATTTTTTATTTTTCTTAAAATCAA-TTCTGTCTCGCTTAAGGC
1 -AAATTGATCTCACTTGAGATTA----TT-TTTTTCTTAAAATCAATTTC-GTCTCGCTTGAGAC
* *
49386 AGTTTTCCCTTGAAACACAAA-TTTTGAAATTCTTTCA-CTCGAAACA
59 AGTTTTCCCTTGAAACACAAAGTTTTGAAATTATTTCACCT-GAAACC
* * *
49432 AAATTGATCTCACTTGAGATTATTTTTTTCTTAAAACCAAATTTCGTCTTGCTTGAGAAAGTTTT
1 AAATTGATCTCACTTGAGATTATTTTTTTCTTAAAATC-AATTTCGTCTCGCTTGAGACAGTTTT
* *
49497 CCCTTGAAACACAAAGTTTGGAATTTATTTCACCTGAAACC
65 CCCTTGAAACACAAAGTTTTGAAATTATTTCACCTGAAACC
* * ** * * * *
49538 AAA-TGATCTCACTTGAGATTGTTTTTGT-AAAAAATAAATTTCATCTTGCATGAGACAGTTT
1 AAATTGATCTCACTTGAGATTATTTTTTTCTTAAAATCAATTTCGTCTCGCTTGAGACAGTTT
49599 CCTTCTAAAC
Statistics
Matches: 232, Mismatches: 29, Indels: 30
0.80 0.10 0.10
Matches are distributed among these distances:
103 39 0.17
104 18 0.08
105 58 0.25
106 24 0.10
107 2 0.01
109 28 0.12
110 61 0.26
111 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (105 bp):
AAATTGATCTCACTTGAGATTATTTTTTTCTTAAAATCAATTTCGTCTCGCTTGAGACAGTTTTC
CCTTGAAACACAAAGTTTTGAAATTATTTCACCTGAAACC
Found at i:50785 original size:91 final size:89
Alignment explanation
Indices: 50627--50888 Score: 343
Period size: 91 Copynumber: 3.0 Consensus size: 89
50617 AGGAGGTGGA
* * * * *
50627 TCAACATTTTCAGTGGAGAGTTCATAATAAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGAGAGAATAAGTTCTTA
* * *
50692 ATGAGAAGAGTTTGTTTAACCTTGG
66 ATGAGAAGAGCTTGTTCAACCAT-G
* * *
50717 CTCAACATTTCCAGTGGAGAGTTCATAATGAGAATAAATCATCCAACGAGAAAGAATAAGTTCTT
1 -TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGAGAGAATAAGTTCTT
50782 AATGAGAAGAGCTTGTTCAACCATG
65 AATGAGAAGAGCTTGTTCAACCATG
* * *
50807 T---CATTTCTAATGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGAGAGAATAAGTT-TAT
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGAGAGAATAAGTTCT-T
50868 AATGAGAAGAGCTTGTTCAAC
65 AATGAGAAGAGCTTGTTCAAC
50889 ATTAGCTTGT
Statistics
Matches: 153, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
85 1 0.01
86 73 0.48
89 1 0.01
90 1 0.01
91 77 0.50
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (89 bp):
TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGAGAGAATAAGTTCTTA
ATGAGAAGAGCTTGTTCAACCATG
Found at i:51299 original size:17 final size:18
Alignment explanation
Indices: 51277--51321 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
51267 CCATTTTTTC
*
51277 ATTTTTATTATA-TTATT
1 ATTTTTATTATATTTACT
51294 ATTTTTATT-TATTTACT
1 ATTTTTATTATATTTACT
*
51311 ATTATTATTAT
1 ATTTTTATTAT
51322 TTAAAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 2 0.08
17 21 0.88
18 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTTATTATATTTACT
Found at i:51303 original size:23 final size:23
Alignment explanation
Indices: 51280--51324 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
51270 TTTTTTCATT
51280 TTTA-TTA-TATTATTATTTTTA
1 TTTATTTACTATTATTATTTTTA
51301 TTTATTTACTATTATTATTATTTA
1 TTTATTTACTATTATTATT-TTTA
51325 AAATATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.19
22 3 0.14
23 10 0.48
24 4 0.19
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTATTTACTATTATTATTTTTA
Found at i:51315 original size:20 final size:21
Alignment explanation
Indices: 51280--51338 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
51270 TTTTTTCATT
* *
51280 TTTATTATATTATTATTTTTA
1 TTTATTATACTATTATTATTA
51301 TTTATT-TACTATTATTATTA
1 TTTATTATACTATTATTATTA
** *
51321 TTTAAAATATTATTATTA
1 TTTATTATACTATTATTA
51339 CAAAACTAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTATTATACTATTATTATTA
Found at i:55577 original size:29 final size:28
Alignment explanation
Indices: 55516--55579 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
55506 TATGTTCATA
*
55516 ATAATAAATATTGAAAAATTTTGGACCT
1 ATAATAAATATTGAAAAATATTGGACCT
* *
55544 CTAATAAGAGTATTGAAAAA-ATTGGACTT
1 ATAATAA-A-TATTGAAAAATATTGGACCT
55573 ATAATAA
1 ATAATAA
55580 CAAATAGTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 6 0.20
29 14 0.47
30 10 0.33
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.33
Consensus pattern (28 bp):
ATAATAAATATTGAAAAATATTGGACCT
Found at i:55829 original size:30 final size:32
Alignment explanation
Indices: 55768--55845 Score: 115
Period size: 30 Copynumber: 2.5 Consensus size: 32
55758 GAGTATGCCT
*
55768 ATAATAATAAATATTAGAAGAAAATTGAACTC
1 ATAATAATAAATATTAGAAGAAAATTAAACTC
55800 ATAATAATAAATATT-GAA-AAAATTAAACTC
1 ATAATAATAAATATTAGAAGAAAATTAAACTC
* *
55830 ATAATAACAAGTATTA
1 ATAATAATAAATATTA
55846 AATTAATTGG
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
30 24 0.57
31 3 0.07
32 15 0.36
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (32 bp):
ATAATAATAAATATTAGAAGAAAATTAAACTC
Found at i:62460 original size:92 final size:93
Alignment explanation
Indices: 62317--62494 Score: 277
Period size: 92 Copynumber: 1.9 Consensus size: 93
62307 TCATGATCTT
** * * * *
62317 TCTACTGGAAATGTTGGTCCCTCGAGTGAGGCGTTACTGATTTAAAATATCGTGAATCGAGCAAA
1 TCTACTGGAAATGTTAATCCCTCAAGTAAGGCGTCACTGATTCAAAATATCGTGAATCGAGCAAA
62382 GGTTGAACAAGTTCTTCATTATCAATTC
66 GGTTGAACAAGTTCTTCATTATCAATTC
* *
62410 TCTACTGGAAATGTTAAT-CCTCAAGTAAGGTGTCGCTGATTCAAAATATCGTGAATCGAGCAAA
1 TCTACTGGAAATGTTAATCCCTCAAGTAAGGCGTCACTGATTCAAAATATCGTGAATCGAGCAAA
62474 GGTTGAACAAGTTCTTCATTA
66 GGTTGAACAAGTTCTTCATTA
62495 CGAACTTCTT
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 61 0.79
93 16 0.21
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (93 bp):
TCTACTGGAAATGTTAATCCCTCAAGTAAGGCGTCACTGATTCAAAATATCGTGAATCGAGCAAA
GGTTGAACAAGTTCTTCATTATCAATTC
Found at i:63110 original size:172 final size:174
Alignment explanation
Indices: 62733--63170 Score: 636
Period size: 175 Copynumber: 2.5 Consensus size: 174
62723 TGAGATAAAT
** * *
62733 TTGTTTCGAGGGAAAACTGTCTTAAGTGAGACAAAGTTTATTTTAAGAAAAACAATCTCAAGTGA
1 TTGTTTCGAGTAAAAACTGTCTCAAGCGAGACAAAGTTTATTTTAAGAAAAACAATCTCAAGTGA
*
62798 GATGAAATTCTTGTTTCAAGTGAAACAATTTCAAATTTATATTTCATGGGAAACTTCTCAAGCAA
66 GATGAAA-TCTTGTTTCAAGTGAAACAATTTCAAATTTATATTTCAAGGGAAACTTCTCAAGCAA
62863 GATGAAATTTACTTTAAGAAAAAATCTTGAGTGAAATGAAATTTC
130 GATGAAATTTACTTTAAGAAAAAATCTTGAGTGAAATGAAATTTC
*
62908 TTGTTTCGAGTAAAAACTGTCTCAAGCGAGACAAAATTTATTTTAAGAAAAACAATCTCAAGTGA
1 TTGTTTCGAGTAAAAACTGTCTCAAGCGAGACAAAGTTTATTTTAAGAAAAACAATCTCAAGTGA
* * *
62973 GATG-AA-CTTGTTTCAAGTGAAACGATTTCAAATTTTATATTTCAAGGGAAACTTTCTCCAGCG
66 GATGAAATCTTGTTTCAAGTGAAACAATTTCAAA-TTTATATTTCAAGGGAAAC-TTCTCAAGCA
* *
63036 AGATGAAATTT-CTTTTAAGAAAACATCTTGAGTGATATGAAATTTC
129 AGATGAAATTTAC-TTTAAGAAAAAATCTTGAGTGAAATGAAATTTC
* *
63082 TTGTTT-GA-TTAAAACTGTCTCAAGCGAGACAAAGTTTGTTTTAAG-AAAACAATCTCAAGTGA
1 TTGTTTCGAGTAAAAACTGTCTCAAGCGAGACAAAGTTTATTTTAAGAAAAACAATCTCAAGTGA
* * *
63144 GGTAAAATTTCTGTTTCAAGTGGAAAC
66 GATGAAATCT-TGTTTCAAGT-GAAAC
63171 TGTCTCAAGC
Statistics
Matches: 239, Mismatches: 17, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
171 19 0.08
172 61 0.26
173 22 0.09
174 68 0.28
175 69 0.29
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (174 bp):
TTGTTTCGAGTAAAAACTGTCTCAAGCGAGACAAAGTTTATTTTAAGAAAAACAATCTCAAGTGA
GATGAAATCTTGTTTCAAGTGAAACAATTTCAAATTTATATTTCAAGGGAAACTTCTCAAGCAAG
ATGAAATTTACTTTAAGAAAAAATCTTGAGTGAAATGAAATTTC
Found at i:63124 original size:72 final size:73
Alignment explanation
Indices: 63021--63623 Score: 481
Period size: 72 Copynumber: 8.2 Consensus size: 73
63011 ATTTCAAGGG
* * * * ** * *
63021 AAACTTTCTCCAGCGAGATGAAATTTCTTTTAAGAAAAC-ATCTTGAGTGATATGAAATTTCTTG
1 AAACTGTCTCAAGCGAGA-CAAATTTGTTTTAAGAAAACAATCTCAAGTGAGATAAAATTTC-TG
*
63085 TTT-GA-TTA
64 TTTCGAGTGA
*
63093 AAACTGTCTCAAGCGAGACAAAGTTTGTTTTAAGAAAACAATCTCAAGTGAGGTAAAATTTCTGT
1 AAACTGTCTCAAGCGAGACAAA-TTTGTTTTAAGAAAACAATCTCAAGTGAGATAAAATTTCTGT
* *
63158 TTCAAGTGG
65 TTCGAGTGA
*
63167 AAACTGTCTCAAGCGAGA-AAA-TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATATCTGT
1 AAACTGTCTCAAGCGAGACAAATTTGTTTTAAG-AAAACAATCTCAAGTGAGATAAAATTTCTGT
63230 TTCGAGTGA
65 TTCGAGTGA
* * *
63239 AAACTGTCTCAAACGAGACGAAA-TTGTTTTAAGAAAAAAATCTCAAGTGAGATAAAATTTATGT
1 AAACTGTCTCAAGCGAGAC-AAATTTGTTTTAAGAAAACAATCTCAAGTGAGATAAAATTTCTGT
*
63303 TTTGAGTG-
65 TTCGAGTGA
*
63311 -AACTATCTCAAGCGAGACGAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGAT-AAATATTCT
1 AAACTGTCTCAAGCGAGAC-AAATTTGTTTTAAG-AAAACAATCTCAAGTGAGATAAAAT-TTCT
* *
63374 ATTTCAAGTG-
63 GTTTCGAGTGA
* * * * * * *
63384 AAACTATATCAAGCAAGATAAAATTT-TTGCTTCAAGTGAAACAATCTCAAGCT-AGAT-GAATC
1 AAACTGTCTCAAGCGAGA-CAAATTTGTT--TT-AAG-AAAACAATCTCAAG-TGAGATAAAATT
** *
63446 T-TGTTTTAAG-AA
60 TCTGTTTCGAGTGA
** * * * * * *
63458 AAACAATCTCAAGTGAGATAAATCTTTTGTTTATAGTGAAACTATCTCAAGCGAGATAAAAGTTT
1 AAACTGTCTCAAGCGAGACAAAT-TTGT-TTTA-AG-AAAACAATCTCAAGTGAGATAAAA-TTT
*
63523 -TG-CTCGAGTG-
61 CTGTTTCGAGTGA
* ** *
63533 AAACTATCTCAAGCGAGATGAATCTTGTTTTAAGAAAACAATCTCAAGTGAGAT-AAATCTTTTG
1 AAACTGTCTCAAGCGAGACAAAT-TTGTTTTAAGAAAACAATCTCAAGTGAGATAAAAT-TTCTG
63597 TTTCGAGT-A
64 TTTCGAGTGA
*
63606 AAACTATCTCAAGCGAGA
1 AAACTGTCTCAAGCGAGA
63624 TAAAATTTTG
Statistics
Matches: 443, Mismatches: 59, Indels: 57
0.79 0.11 0.10
Matches are distributed among these distances:
70 1 0.00
71 38 0.09
72 122 0.28
73 118 0.27
74 102 0.23
75 33 0.07
76 28 0.06
77 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (73 bp):
AAACTGTCTCAAGCGAGACAAATTTGTTTTAAGAAAACAATCTCAAGTGAGATAAAATTTCTGTT
TCGAGTGA
Found at i:63161 original size:174 final size:173
Alignment explanation
Indices: 62733--63170 Score: 625
Period size: 174 Copynumber: 2.5 Consensus size: 173
62723 TGAGATAAAT
** * *
62733 TTGTTTCGAGGGAAAACTGTCTTAAGTGAGACAAAGTTTATTTTAAGAAAAACAATCTCAAGTGA
1 TTGTTTCGAGTAAAAACTGTCTCAAGCGAGACAAAGTTTATTTTAAGAAAAACAATCTCAAGTGA
*
62798 GATGAAATTCTTGTTTCAAGTGAAACAATTTCAAATTTATATTTCATGGGAAACTTCTCAAGCAA
66 GAT-AAATTC-TGTTTCAAGTGAAACAATTTCAAATTTATATTTCAAGGGAAACTTCTCAAGCAA
62863 GATGAAATTTACTTTAAGAAAAAATCTTGAGTGAAATGAAATTTC
129 GATGAAATTTACTTTAAGAAAAAATCTTGAGTGAAATGAAATTTC
*
62908 TTGTTTCGAGTAAAAACTGTCTCAAGCGAGACAAAATTTATTTTAAGAAAAACAATCTCAAGTGA
1 TTGTTTCGAGTAAAAACTGTCTCAAGCGAGACAAAGTTTATTTTAAGAAAAACAATCTCAAGTGA
* * * * *
62973 GATGAACT-TGTTTCAAGTGAAACGATTTCAAATTTTATATTTCAAGGGAAACTTTCTCCAGCGA
66 GATAAATTCTGTTTCAAGTGAAACAATTTCAAA-TTTATATTTCAAGGGAAAC-TTCTCAAGCAA
* *
63037 GATGAAATTT-CTTTTAAGAAAACATCTTGAGTGATATGAAATTTC
129 GATGAAATTTAC-TTTAAGAAAAAATCTTGAGTGAAATGAAATTTC
* *
63082 TTGTTT-GA-TTAAAACTGTCTCAAGCGAGACAAAGTTTGTTTTAAG-AAAACAATCTCAAGTGA
1 TTGTTTCGAGTAAAAACTGTCTCAAGCGAGACAAAGTTTATTTTAAGAAAAACAATCTCAAGTGA
*
63144 GGTAAAATTTCTGTTTCAAGTGGAAAC
66 GAT-AAA-TTCTGTTTCAAGT-GAAAC
63171 TGTCTCAAGC
Statistics
Matches: 237, Mismatches: 19, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
171 19 0.08
172 59 0.25
173 22 0.09
174 69 0.29
175 68 0.29
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (173 bp):
TTGTTTCGAGTAAAAACTGTCTCAAGCGAGACAAAGTTTATTTTAAGAAAAACAATCTCAAGTGA
GATAAATTCTGTTTCAAGTGAAACAATTTCAAATTTATATTTCAAGGGAAACTTCTCAAGCAAGA
TGAAATTTACTTTAAGAAAAAATCTTGAGTGAAATGAAATTTC
Found at i:63177 original size:39 final size:38
Alignment explanation
Indices: 63092--63250 Score: 109
Period size: 39 Copynumber: 4.3 Consensus size: 38
63082 TTGTTTGATT
* ** * *
63092 AAAACTGTCTCAAGCGAGACAAAGTT-TGTTTTAA--G
1 AAAACTGTCTCAAGTGAGGTAAAATTCTGTTTCAAGTG
**
63127 AAAACAATCTCAAGTGAGGTAAAATTTCTGTTTCAAGTG
1 AAAACTGTCTCAAGTGAGGTAAAA-TTCTGTTTCAAGTG
* * * *
63166 GAAACTGTCTCAAGCGA-G-AAAA-T-TGTTTTAAG-A
1 AAAACTGTCTCAAGTGAGGTAAAATTCTGTTTCAAGTG
** * *
63199 AAAACAATCTCAAGTGAGATAAAATATCTGTTTCGAGTG
1 AAAACTGTCTCAAGTGAGGTAAAAT-TCTGTTTCAAGTG
63238 AAAACTGTCTCAA
1 AAAACTGTCTCAA
63251 ACGAGACGAA
Statistics
Matches: 91, Mismatches: 23, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
33 13 0.14
34 8 0.09
35 23 0.25
36 2 0.02
37 12 0.13
38 8 0.09
39 25 0.27
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (38 bp):
AAAACTGTCTCAAGTGAGGTAAAATTCTGTTTCAAGTG
Found at i:63275 original size:34 final size:35
Alignment explanation
Indices: 63021--63680 Score: 178
Period size: 37 Copynumber: 18.1 Consensus size: 35
63011 ATTTCAAGGG
* * * *
63021 AAACTTTCTCCAGCGAGATGAAATTTCTTTTAAGA
1 AAACTATCTCAAGCGAGACGAAATTTGTTTTAAGA
** * * * * **
63056 AAAC-ATCTTGAGTGATATGAAATTTCTTGTTTGATTA
1 AAACTATCTCAAGCGAGACGAAA--T-TTGTTTTAAGA
*
63093 AAACTGTCTCAAGCGAGAC-AAAGTTTGTTTTAAGA
1 AAACTATCTCAAGCGAGACGAAA-TTTGTTTTAAGA
* * *** * *
63128 AAACAATCTCAAGTGAGGTAAAATTTCTGTTTCAAGTGG
1 AAACTATCTCAAGCGAGACGAAA-TT-TGTTTTAA--GA
*
63167 AAACTGTCTCAAGCGAGA--AAA-TTGTTTTAAGAA
1 AAACTATCTCAAGCGAGACGAAATTTGTTTTAAG-A
* * ** * *
63200 AAACAATCTCAAGTGAGATAAAATATCTGTTTCGAGTGA
1 AAACTATCTCAAGCGAGACGAAAT-T-TGTTT-TA-AGA
* *
63239 AAACTGTCTCAAACGAGACGAAA-TTGTTTTAAGA
1 AAACTATCTCAAGCGAGACGAAATTTGTTTTAAGA
** * ** * *
63273 AAAAAATCTCAAGTGAGATAAAATTTATGTTTTGAGT
1 AAACTATCTCAAGCGAGACGAAA-TT-TGTTTTAAGA
*
63310 GAACTATCTCAAGCGAGACGAAATTTGTTTTAAGAA
1 AAACTATCTCAAGCGAGACGAAATTTGTTTTAAG-A
* * * * *
63346 AAACAATCTCAAGTGAGA-TAAATATTCTATTTCAAGTG
1 AAACTATCTCAAGCGAGACGAAAT-TTGT-TTT-AAG-A
* * ** *
63384 AAACTATATCAAGCAAGATAAAATTT-TTGCTTCAAGTG
1 AAACTATCTCAAGCGAGACGAAATTTGTT--TT-AAG-A
* * *
63422 AAACAATCTCAAGCTAGATG-AATCTTGTTTTAAGAA
1 AAACTATCTCAAGCGAGACGAAAT-TTGTTTTAAG-A
* * * * *
63458 AAACAATCTCAAGTGAGA-TAAATCTTTTGTTTATAGTG
1 AAACTATCTCAAGCGAGACGAAAT-TTGT-TTTA-AG-A
** * ** *
63496 AAACTATCTCAAGCGAGATAAAAGTTT-TGCTCGAGTG
1 AAACTATCTCAAGCGAGACGAAA-TTTGT-TTTAAG-A
*
63533 AAACTATCTCAAGCGAGATG-AATCTTGTTTTAAGA
1 AAACTATCTCAAGCGAGACGAAAT-TTGTTTTAAGA
* * * **
63568 AAACAATCTCAAGTGAGA-TAAATCTTTTGTTTCGAGTA
1 AAACTATCTCAAGCGAGACGAAA---TTTGTTTTAAG-A
** * ** *
63606 AAACTATCTCAAGCGAGATAAAATTTTGCTTCGAGTG
1 AAACTATCTCAAGCGAGACGAAA-TTTGTTTTAAG-A
* *
63643 AAACTATCTCAGGCGAGATG-AATCTTGTTTTAAGA
1 AAACTATCTCAAGCGAGACGAAAT-TTGTTTTAAGA
63678 AAA
1 AAA
63681 ACAATCTTGT
Statistics
Matches: 469, Mismatches: 114, Indels: 84
0.70 0.17 0.13
Matches are distributed among these distances:
32 1 0.00
33 15 0.03
34 38 0.08
35 66 0.14
36 76 0.16
37 126 0.27
38 97 0.21
39 48 0.10
40 2 0.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (35 bp):
AAACTATCTCAAGCGAGACGAAATTTGTTTTAAGA
Found at i:63360 original size:146 final size:143
Alignment explanation
Indices: 63012--63623 Score: 508
Period size: 145 Copynumber: 4.2 Consensus size: 143
63002 AAATTTTATA
** * * * ** * *
63012 TTTCAAGGGAAACTTTCTCCAGCGAGATGAAATTTCTTTTAAG-AAAAC-ATCTTGAGTGATATG
1 TTTCAAGTAAAACTATCTCAAGCGAGA-GAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATA
* * * *
63075 AAATTTCTTGTTT-GATTAAAACTGTCTCAAGCGAGAC-AAAGTTTGTTTTAAGAAAACAATCTC
65 AAATATC-TGTTTCGAGTGAAACTATCTCAAGCGAGACGAAA--TTGTTTTAAGAAAACAATCTC
*
63138 AAGTGAGGTAAAATTTCTG
127 AAGTGAGAT-AAATTT-TG
* *
63157 TTTCAAGTGGAAACTGTCTCAAGCGAGA-AAA-TTGTTTTAAGAAAAACAATCTCAAGTGAGATA
1 TTTCAAGT-AAAACTATCTCAAGCGAGAGAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATA
* * *
63220 AAATATCTGTTTCGAGTGAAAACTGTCTCAAACGAGACGAAATTGTTTTAAGAAAAAAATCTCAA
65 AAATATCTGTTTCGAGTG-AAACTATCTCAAGCGAGACGAAATTGTTTTAAGAAAACAATCTCAA
63285 GTGAGATAAAATTTATG
129 GTGAGAT-AAATTT-TG
** *
63302 TTTTGAGT-GAACTATCTCAAGCGAGACGAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGAT-
1 TTTCAAGTAAAACTATCTCAAGCGAGA-GAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATA
* * * * ** * *
63365 AAATATTCTATTTCAAGTGAAACTATATCAAGCAAGATAAAATTTTTGCTTCAAGTGAAACAATC
65 AAATA-TCTGTTTCGAGTGAAACTATCTCAAGCGAGACGAAATTGTT--TT-AAG-AAAACAATC
* *
63430 TCAAGCT-AGATGAATCTTG
125 TCAAG-TGAGATAAATTTTG
* * * * * * ** * *
63449 TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTTTGTTTATAGTGAAACTATCTCAAGCGAGA
1 TTTCAAGTAAAACTATCTCAAGCGAGAGAAAT-TTGT-TTTA-AGAAAAACAATCTCAAGTGAGA
* * * *
63514 TAAAAGT-TTTG-CTCGAGTGAAACTATCTCAAGCGAGATGAATCTTGTTTTAAGAAAACAATCT
63 TAAAA-TATCTGTTTCGAGTGAAACTATCTCAAGCGAGACGAA-ATTGTTTTAAGAAAACAATCT
63577 CAAGTGAGATAAATCTTTTG
126 CAAGTGAGATAAA--TTTTG
*
63597 TTTCGAGTAAAACTATCTCAAGCGAGA
1 TTTCAAGTAAAACTATCTCAAGCGAGA
63624 TAAAATTTTG
Statistics
Matches: 382, Mismatches: 60, Indels: 47
0.78 0.12 0.10
Matches are distributed among these distances:
143 25 0.07
144 13 0.03
145 100 0.26
146 96 0.25
147 20 0.05
148 53 0.14
149 45 0.12
150 26 0.07
151 3 0.01
152 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (143 bp):
TTTCAAGTAAAACTATCTCAAGCGAGAGAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAA
AATATCTGTTTCGAGTGAAACTATCTCAAGCGAGACGAAATTGTTTTAAGAAAACAATCTCAAGT
GAGATAAATTTTG
Found at i:63477 original size:112 final size:112
Alignment explanation
Indices: 63278--63687 Score: 607
Period size: 110 Copynumber: 3.7 Consensus size: 112
63268 TAAGAAAAAA
* * * * *
63278 ATCTCAAGTGAGATAAAATTTATGTTTTGAGTG-AACTATCTCAAGCGAGACGAAAT-TTGTTTT
1 ATCTCAAGCGAGATAAAATTTTTGCTTCGAGTGAAACTATCTCAAGCGAGATG-AATCTTGTTTT
* * *
63341 AAGAAAAACAATCTCAAGTGAGATAAATATTCTATTTCAAGTGAAACT
65 AAGAAAAACAATCTCAAGTGAGATAAATCTTTTGTTTCAAGTGAAACT
* * * * *
63389 ATATCAAGCAAGATAAAATTTTTGCTTCAAGTGAAACAATCTCAAGCTAGATGAATCTTGTTTTA
1 ATCTCAAGCGAGATAAAATTTTTGCTTCGAGTGAAACTATCTCAAGCGAGATGAATCTTGTTTTA
63454 AGAAAAACAATCTCAAGTGAGATAAATCTTTTGTTT-ATAGTGAAACT
66 AGAAAAACAATCTCAAGTGAGATAAATCTTTTGTTTCA-AGTGAAACT
*
63501 ATCTCAAGCGAGATAAAAGTTTTGC-TCGAGTGAAACTATCTCAAGCGAGATGAATCTTGTTTTA
1 ATCTCAAGCGAGATAAAATTTTTGCTTCGAGTGAAACTATCTCAAGCGAGATGAATCTTGTTTTA
* *
63565 AG-AAAACAATCTCAAGTGAGATAAATCTTTTGTTTCGAGTAAAACT
66 AGAAAAACAATCTCAAGTGAGATAAATCTTTTGTTTCAAGTGAAACT
*
63611 ATCTCAAGCGAGATAAAA-TTTTGCTTCGAGTGAAACTATCTCAGGCGAGATGAATCTTGTTTTA
1 ATCTCAAGCGAGATAAAATTTTTGCTTCGAGTGAAACTATCTCAAGCGAGATGAATCTTGTTTTA
63675 AGAAAAACAATCT
66 AGAAAAACAATCT
63688 TGTTTGAAAA
Statistics
Matches: 271, Mismatches: 22, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
109 6 0.02
110 99 0.37
111 78 0.29
112 88 0.32
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (112 bp):
ATCTCAAGCGAGATAAAATTTTTGCTTCGAGTGAAACTATCTCAAGCGAGATGAATCTTGTTTTA
AGAAAAACAATCTCAAGTGAGATAAATCTTTTGTTTCAAGTGAAACT
Found at i:63505 original size:38 final size:37
Alignment explanation
Indices: 63278--63676 Score: 278
Period size: 38 Copynumber: 10.8 Consensus size: 37
63268 TAAGAAAAAA
* * *
63278 ATCTCAAGTGAGATAAAAT-TTATGTTTTGAGTG-AACT
1 ATCTCAAGCGAGAT-AAATCTTTTG-TTTAAGTGAAACT
* * ** *
63315 ATCTCAAGCGAGACGAAAT-TTGT-TTTAAGAAAAACA
1 ATCTCAAGCGAGA-TAAATCTTTTGTTTAAGTGAAACT
* * * *
63351 ATCTCAAGTGAGATAAATATTCTATTTCAAGTGAAACT
1 ATCTCAAGCGAGATAAATCTTTTGTTT-AAGTGAAACT
* * * *
63389 ATATCAAGCAAGATAAAAT-TTTTGCTTCAAGTGAAACA
1 ATCTCAAGCGAGAT-AAATCTTTTG-TTTAAGTGAAACT
* * * ** *
63427 ATCTCAAGCTAGATGAATCTTGT-TTTAAGAAAAACA
1 ATCTCAAGCGAGATAAATCTTTTGTTTAAGTGAAACT
*
63463 ATCTCAAGTGAGATAAATCTTTTGTTTATAGTGAAACT
1 ATCTCAAGCGAGATAAATCTTTTGTTTA-AGTGAAACT
** * **
63501 ATCTCAAGCGAGATAAAAGTTTTGCTCGAGTGAAACT
1 ATCTCAAGCGAGATAAATCTTTTGTTTAAGTGAAACT
* * * *
63538 ATCTCAAGCGAGATGAATCTTGT-TTTAAG-AAAACA
1 ATCTCAAGCGAGATAAATCTTTTGTTTAAGTGAAACT
* * *
63573 ATCTCAAGTGAGATAAATCTTTTGTTTCGAGTAAAACT
1 ATCTCAAGCGAGATAAATCTTTTGTTT-AAGTGAAACT
* **
63611 ATCTCAAGCGAGATAAA-ATTTTGCTTCGAGTGAAACT
1 ATCTCAAGCGAGATAAATCTTTTG-TTTAAGTGAAACT
* * *
63648 ATCTCAGGCGAGATGAATCTTGT-TTTAAG
1 ATCTCAAGCGAGATAAATCTTTTGTTTAAG
63677 AAAAACAATC
Statistics
Matches: 283, Mismatches: 64, Indels: 31
0.75 0.17 0.08
Matches are distributed among these distances:
35 33 0.12
36 57 0.20
37 88 0.31
38 99 0.35
39 6 0.02
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (37 bp):
ATCTCAAGCGAGATAAATCTTTTGTTTAAGTGAAACT
Done.