Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 94 of 126
Found at i:18343742 original size:20 final size:18
Alignment explanation
Indices: 18343717--18343838 Score: 75
Period size: 19 Copynumber: 6.3 Consensus size: 18
18343707 TTTTTTGCAA
18343717 TTAAAAGTTTTTACAAATTT
1 TTAAAA-TTTTTA-AAATTT
*
18343737 TTAAAATTTTTAATAGTATT
1 TTAAAATTTTTAA-AAT-TT
* *
18343757 TTAGAATTTTT-AATTTT
1 TTAAAATTTTTAAAATTT
* *
18343774 TTAAAAATTGTTTTGAATTTT
1 TT-AAAA-T-TTTTAAAATTT
* *
18343795 TTAAAGGTTTTAAAAATTT
1 TTAAA-ATTTTTAAAATTT
**
18343814 TTAAAAAATTTAGAAATTT
1 TTAAAATTTTTA-AAATTT
18343833 TTAAAA
1 TTAAAA
18343839 AACTTTAATA
Statistics
Matches: 82, Mismatches: 12, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
17 4 0.05
18 9 0.11
19 35 0.43
20 26 0.32
21 8 0.10
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.52
Consensus pattern (18 bp):
TTAAAATTTTTAAAATTT
Found at i:18343880 original size:19 final size:18
Alignment explanation
Indices: 18343734--18343882 Score: 77
Period size: 19 Copynumber: 7.8 Consensus size: 18
18343724 TTTTTACAAA
18343734 TTTTT-AAAATTTTTAAT
1 TTTTTAAAAATTTTTAAT
*
18343751 AGTATTTT-AGAATTTTTAAT
1 --T-TTTTAAAAATTTTTAAT
18343771 TTTTTAAAAATTGTTTTGAAT
1 TTTTTAAAAA-T-TTTT-AAT
** *
18343792 TTTTTAAAGGTTTTAAAAAT
1 TTTTTAAAAATTTT--TAAT
* **
18343812 TTTTAAAAAATTTAGAAAT
1 TTTTTAAAAATTT-TTAAT
* * *
18343831 TTTTAAAAAACTTTAATAT
1 TTTTTAAAAATTTTTA-AT
* *
18343850 TTTTTGAGAATTTTTCAAT
1 TTTTTAAAAATTTTT-AAT
18343869 TTTTTAAAAATTTT
1 TTTTTAAAAATTTT
18343883 ATTGAACTTC
Statistics
Matches: 102, Mismatches: 18, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
17 4 0.04
18 6 0.06
19 47 0.46
20 34 0.33
21 11 0.11
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.54
Consensus pattern (18 bp):
TTTTTAAAAATTTTTAAT
Found at i:18344072 original size:27 final size:28
Alignment explanation
Indices: 18344042--18344095 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
18344032 ATTTTAAAAA
*
18344042 TTTAGATATTA-ATATGACAAAAATTTC
1 TTTAGATACTATATATGACAAAAATTTC
* *
18344069 TTTAGATACTATTTGTGACAAAAATTT
1 TTTAGATACTATATATGACAAAAATTT
18344096 GAAAGTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (28 bp):
TTTAGATACTATATATGACAAAAATTTC
Found at i:18344863 original size:19 final size:20
Alignment explanation
Indices: 18344829--18344867 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
18344819 ATTTTTTCAA
18344829 CTTTATATATACATATAATT
1 CTTTATATATACATATAATT
*
18344849 CTTTAT-TATATATATAATT
1 CTTTATATATACATATAATT
18344868 AAATTTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (20 bp):
CTTTATATATACATATAATT
Found at i:18344939 original size:21 final size:22
Alignment explanation
Indices: 18344899--18344939 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
18344889 GTATACACTT
* *
18344899 ATATTTATTTTACACGTAATTA
1 ATATTTATTTAACACATAATTA
18344921 ATATTT-TTTAACACATAAT
1 ATATTTATTTAACACATAAT
18344940 ATTTAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (22 bp):
ATATTTATTTAACACATAATTA
Found at i:18346778 original size:16 final size:16
Alignment explanation
Indices: 18346721--18346783 Score: 81
Period size: 16 Copynumber: 3.9 Consensus size: 16
18346711 TCTTAATTTA
*
18346721 ATTTAAACTTGAAATG
1 ATTTAAATTTGAAATG
*
18346737 ATTTAAATATGAAATG
1 ATTTAAATTTGAAATG
* *
18346753 ATTTGAATTTTAAATG
1 ATTTAAATTTGAAATG
*
18346769 ATTTAAATTTTAAAT
1 ATTTAAATTTGAAAT
18346784 ATCCGAAACC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (16 bp):
ATTTAAATTTGAAATG
Found at i:18349409 original size:5 final size:5
Alignment explanation
Indices: 18349399--18349423 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18349389 ATATATTTAA
18349399 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
18349424 CTTTCTCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:18349576 original size:21 final size:21
Alignment explanation
Indices: 18349552--18349591 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18349542 AATAAAAGAT
* *
18349552 TAAAAATTTGATTAATTATAA
1 TAAAAATTTAAATAATTATAA
*
18349573 TAAAATTTTAAATAATTAT
1 TAAAAATTTAAATAATTAT
18349592 TAAATTATAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (21 bp):
TAAAAATTTAAATAATTATAA
Found at i:18349583 original size:29 final size:29
Alignment explanation
Indices: 18349542--18349602 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
18349532 ATTAAATCGA
18349542 AATAAAAGATTAAA-AATTTGATT-AATTAT
1 AATAAAAGATTAAATAA-TT-ATTAAATTAT
**
18349571 AATAAAATTTTAAATAATTATTAAATTAT
1 AATAAAAGATTAAATAATTATTAAATTAT
18349600 AAT
1 AAT
18349603 TTTAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 3 0.11
29 23 0.82
30 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (29 bp):
AATAAAAGATTAAATAATTATTAAATTAT
Found at i:18350426 original size:19 final size:19
Alignment explanation
Indices: 18350402--18350440 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
18350392 TATAAAAGTT
* *
18350402 TATTTTTTTTTATATAAAA
1 TATTTTTTTTAAGATAAAA
18350421 TATTTTTTTTAAGATAAAA
1 TATTTTTTTTAAGATAAAA
18350440 T
1 T
18350441 CGTGAGGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
TATTTTTTTTAAGATAAAA
Found at i:18351888 original size:13 final size:13
Alignment explanation
Indices: 18351870--18351901 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
18351860 TACAAGTATT
18351870 ATATTAATAAATA
1 ATATTAATAAATA
18351883 ATATTAATAAATA
1 ATATTAATAAATA
*
18351896 TTATTA
1 ATATTA
18351902 TATTATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATTAATAAATA
Found at i:18358478 original size:40 final size:39
Alignment explanation
Indices: 18358434--18358523 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 39
18358424 CAAAGGTTTA
* * *
18358434 AACAAAAGAT-AAATGATATAAAAAATTATATTAAGGCTTG
1 AACAAAAGATCAAA-AATAT-AAAAATCATATTAAGCCTTG
* * *
18358474 AACAAAGGATCAAAAATATCAAGATCATATTAAGCCTTG
1 AACAAAAGATCAAAAATATAAAAATCATATTAAGCCTTG
18358513 AACAAAAGATC
1 AACAAAAGATC
18358524 TATAGTACAA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
39 26 0.62
40 13 0.31
41 3 0.07
ACGTcount: A:0.53, C:0.11, G:0.12, T:0.23
Consensus pattern (39 bp):
AACAAAAGATCAAAAATATAAAAATCATATTAAGCCTTG
Found at i:18359820 original size:4 final size:4
Alignment explanation
Indices: 18359803--18359850 Score: 51
Period size: 4 Copynumber: 11.2 Consensus size: 4
18359793 AATGGAAAAC
* *
18359803 AAAT AAAC AAAT AAAT AAAT AACT AAACAT AAAT AAAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT -AA-AT AAAT -AAAT AAAT AAAT A
18359851 GGATAATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
4 28 0.76
5 8 0.22
6 1 0.03
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:18361038 original size:44 final size:44
Alignment explanation
Indices: 18360857--18361039 Score: 180
Period size: 42 Copynumber: 4.2 Consensus size: 44
18360847 CAAAACTTTG
* * * * *
18360857 AAAATATAAAAAGGCTCTTCTAAACCGATGTTCAATAACTTTTAA
1 AAAATATAAAAA-GCTCATCTAAACAGAAGCTCAACAACTTTTAA
* * *
18360902 AAAATATAAAAAG-T-TTTTCAACAGAAGCTCAACAACTTTTAA
1 AAAATATAAAAAGCTCATCTAAACAGAAGCTCAACAACTTTTAA
* * * *
18360944 AAAATATAAAAGGTCCCA-CTAAACAGAGGCTCAAC-AC-TTT-G
1 AAAATATAAAAAG-CTCATCTAAACAGAAGCTCAACAACTTTTAA
* *
18360985 AAAATATAAAAAGCTCATCTAAACAGAAGCTCAACAACATTAAA
1 AAAATATAAAAAGCTCATCTAAACAGAAGCTCAACAACTTTTAA
18361029 AAAATATAAAA
1 AAAATATAAAA
18361040 GGTTCCTCAT
Statistics
Matches: 113, Mismatches: 18, Indels: 15
0.77 0.12 0.10
Matches are distributed among these distances:
40 3 0.03
41 28 0.25
42 39 0.35
43 5 0.04
44 26 0.23
45 12 0.11
ACGTcount: A:0.51, C:0.16, G:0.09, T:0.24
Consensus pattern (44 bp):
AAAATATAAAAAGCTCATCTAAACAGAAGCTCAACAACTTTTAA
Found at i:18361128 original size:43 final size:43
Alignment explanation
Indices: 18361070--18361203 Score: 144
Period size: 43 Copynumber: 3.1 Consensus size: 43
18361060 GCACAACTTT
*
18361070 AAAAAT-AAGAGCTCTTCATAACAAAGGCACACAACTTCTAAAA
1 AAAAATAAAGA-CTCTTCATAACAGAGGCACACAACTTCTAAAA
* * * * *
18361113 AAAAATAACGCCTCTTCCTTACAGAGGCACACAACTTTTAAAAA
1 AAAAATAAAGACTCTTCATAACAGAGGCACACAACTTCT-AAAA
* * * * *
18361157 AAAAATAAAGATTCCTCATAATAGAGGCACAGAACCTCTAAAA
1 AAAAATAAAGACTCTTCATAACAGAGGCACACAACTTCTAAAA
18361200 AAAA
1 AAAA
18361204 TACCTGAAAG
Statistics
Matches: 73, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
43 38 0.52
44 35 0.48
ACGTcount: A:0.50, C:0.21, G:0.10, T:0.19
Consensus pattern (43 bp):
AAAAATAAAGACTCTTCATAACAGAGGCACACAACTTCTAAAA
Found at i:18361183 original size:44 final size:44
Alignment explanation
Indices: 18361070--18361203 Score: 137
Period size: 44 Copynumber: 3.1 Consensus size: 44
18361060 GCACAACTTT
* *
18361070 AAAAAT-AAGAGCTCTTCATAACAAAGGCACACAACTTCT-AAAA
1 AAAAATAAAGA-CTCCTCATAACAGAGGCACACAACTTCTAAAAA
* * * * * *
18361113 AAAAATAACGCCTCTTCCTTACAGAGGCACACAACTTTTAAAAA
1 AAAAATAAAGACTCCTCATAACAGAGGCACACAACTTCTAAAAA
* * * *
18361157 AAAAATAAAGATTCCTCATAATAGAGGCACAGAACCTCTAAAAA
1 AAAAATAAAGACTCCTCATAACAGAGGCACACAACTTCTAAAAA
18361201 AAA
1 AAA
18361204 TACCTGAAAG
Statistics
Matches: 73, Mismatches: 16, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
43 30 0.41
44 43 0.59
ACGTcount: A:0.50, C:0.21, G:0.10, T:0.19
Consensus pattern (44 bp):
AAAAATAAAGACTCCTCATAACAGAGGCACACAACTTCTAAAAA
Found at i:18369360 original size:15 final size:15
Alignment explanation
Indices: 18369338--18369376 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
18369328 TTTAATATTT
18369338 ACAAATAAATGA-ATA
1 ACAAATAAAT-ACATA
*
18369353 ATAAATAAATACATA
1 ACAAATAAATACATA
18369368 ACAAATAAA
1 ACAAATAAA
18369377 AATATATAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 1 0.05
15 20 0.95
ACGTcount: A:0.69, C:0.08, G:0.03, T:0.21
Consensus pattern (15 bp):
ACAAATAAATACATA
Found at i:18382645 original size:16 final size:17
Alignment explanation
Indices: 18382624--18382658 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
18382614 AGAATAAGTG
18382624 AAACACAATAA-TACAC
1 AAACACAATAATTACAC
*
18382640 AAACACGATAATTACAC
1 AAACACAATAATTACAC
18382657 AA
1 AA
18382659 TACATAAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.60, C:0.23, G:0.03, T:0.14
Consensus pattern (17 bp):
AAACACAATAATTACAC
Found at i:18386556 original size:50 final size:51
Alignment explanation
Indices: 18386479--18386607 Score: 163
Period size: 50 Copynumber: 2.5 Consensus size: 51
18386469 AACCAAATTT
* * * *
18386479 TTTTTCCAAAATAAGATTTTTAGAGTTCCTTAGCCTATTTTTATAGAAATCA
1 TTTTT-CAAAATGAGATTTTTAAAGTTCCTTAACCTATTTTTATAGAAACCA
* *
18386531 TTTTTC-AAATGAGATTTTTAAAGTTCTTTAACCTATTTTTATAGAAACCC
1 TTTTTCAAAATGAGATTTTTAAAGTTCCTTAACCTATTTTTATAGAAACCA
* *
18386581 TTTTTCAAAATGTGA-TTTTAAAATTCC
1 TTTTTCAAAATGAGATTTTTAAAGTTCC
18386608 CTAAGAGCCT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
50 54 0.81
51 8 0.12
52 5 0.07
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.46
Consensus pattern (51 bp):
TTTTTCAAAATGAGATTTTTAAAGTTCCTTAACCTATTTTTATAGAAACCA
Found at i:18386729 original size:15 final size:16
Alignment explanation
Indices: 18386700--18386734 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
18386690 TTCTAGCCTA
*
18386700 TTTTCATAAGAGTGAT
1 TTTTCAAAAGAGTGAT
18386716 TTTTCAAAAG-GTGAT
1 TTTTCAAAAGAGTGAT
18386731 TTTT
1 TTTT
18386735 AAAGTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.29, C:0.06, G:0.17, T:0.49
Consensus pattern (16 bp):
TTTTCAAAAGAGTGAT
Found at i:18386730 original size:134 final size:135
Alignment explanation
Indices: 18386487--18386733 Score: 304
Period size: 134 Copynumber: 1.8 Consensus size: 135
18386477 TTTTTTTCCA
* * * * * *
18386487 AAATAAGATTTTTAGAGTTCCTTAGCCTATTTTTATAGAAATCATTTTTCAAATGAGATTTTTAA
1 AAATAAGATTTTTAAAGTTCCTTACCCTATTTTTATAGAAAGCACTTTCCAAATAAGATTTTTAA
* * * *
18386552 AGTTCTTTAACCTATTTTTATAGAAACCCTTTTTCAAAATGTGATTTTAAAATTCCCTAAGAGCC
66 AATTCTTTAACCTATTTTCATAGAAACCATTTTTCAAAAGGTGATTTTAAAATTCCCTAAGAGCC
18386617 TTTTC
131 TTTTC
*
18386622 AAATAAGATTTTTAAAGTTCTTTACCCTACTTTTTATAG-AAGC-CTTTCCAAATAAGATTTTTA
1 AAATAAGATTTTTAAAGTTCCTTACCCTA-TTTTTATAGAAAGCACTTTCCAAATAAGATTTTTA
* ***
18386685 AAATT-TTCTAGCCTATTTTCATA-AGAGTGATTTTTCAAAAGGTGATTTT
65 AAATTCTT-TAACCTATTTTCATAGA-AACCATTTTTCAAAAGGTGATTTT
18386734 TAAAGTTTTT
Statistics
Matches: 94, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
133 3 0.03
134 53 0.56
135 29 0.31
136 9 0.10
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (135 bp):
AAATAAGATTTTTAAAGTTCCTTACCCTATTTTTATAGAAAGCACTTTCCAAATAAGATTTTTAA
AATTCTTTAACCTATTTTCATAGAAACCATTTTTCAAAAGGTGATTTTAAAATTCCCTAAGAGCC
TTTTC
Found at i:18386753 original size:51 final size:50
Alignment explanation
Indices: 18386677--18386815 Score: 152
Period size: 52 Copynumber: 2.7 Consensus size: 50
18386667 TTCCAAATAA
* * *
18386677 GATTTTTAAAATTTTCTAGCCTATTTTCATAAGAGTGATTTTTCAAAAGGT
1 GATTTTTAAAGTTTTCTAACCTATTTT-ATAAGAGTGATTTTTCAAAAGAT
* ** * *
18386728 GATTTTTAAAGTTTTTTAACCTATTTGTATAAGAGCTTTTTTTTCATAATAT
1 GATTTTTAAAGTTTTCTAACCTATTT-TATAAGAG-TGATTTTTCAAAAGAT
* *
18386780 GATTTCTAAAGTTTCCTAACCTATCTTTATAAGAGT
1 GATTTTTAAAGTTTTCTAACCTAT-TTTATAAGAGT
18386816 TTTTCAAAGT
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
51 31 0.42
52 41 0.55
53 2 0.03
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (50 bp):
GATTTTTAAAGTTTTCTAACCTATTTTATAAGAGTGATTTTTCAAAAGAT
Found at i:18387083 original size:14 final size:14
Alignment explanation
Indices: 18387064--18387102 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
18387054 GTTATTAATA
18387064 ATATAATAATATTC
1 ATATAATAATATTC
*
18387078 ATATAATAATATTT
1 ATATAATAATATTC
18387092 AT-TAAT-ATATT
1 ATATAATAATATT
18387103 ATTTATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 5 0.21
13 4 0.17
14 15 0.62
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATAATAATATTC
Found at i:18387132 original size:15 final size:15
Alignment explanation
Indices: 18387083--18387319 Score: 73
Period size: 15 Copynumber: 16.1 Consensus size: 15
18387073 TATTCATATA
18387083 ATAATATTTATTAAT
1 ATAATATTTATTAAT
*
18387098 ATATTATTTATT-A-
1 ATAATATTTATTAAT
18387111 AT-ATA-TTA-TAAT
1 ATAATATTTATTAAT
18387123 AT--TATTTATTAAT
1 ATAATATTTATTAAT
*
18387136 AAATAATATTATAATAAT
1 --ATAATATT-TATTAAT
*
18387154 AAATAAAATATTA-TAAT
1 --ATAATAT-TTATTAAT
* *
18387171 TTAATATTT-TATATT
1 ATAATATTTAT-TAAT
* *
18387186 AT-TTATTAATGTAAT
1 ATAATATTTAT-TAAT
18387201 A-AATTATTTA-TACAT
1 ATAA-TATTTATTA-AT
18387216 ATAATATATTATTAAT
1 ATAATAT-TTATTAAT
* *
18387232 AAAAATATATTA-TATT
1 -ATAATAT-TTATTAAT
*
18387248 AAGAATATATTATTAAT
1 -ATAATAT-TTATTAAT
* **
18387265 ATAATA-ATATTTTT
1 ATAATATTTATTAAT
18387279 ATAATA---A--AA-
1 ATAATATTTATTAAT
18387288 ATAATATTTATTAAT
1 ATAATATTTATTAAT
18387303 ATAATATTTATATAAT
1 ATAATATTTAT-TAAT
18387319 A
1 A
18387320 AAAATATTAT
Statistics
Matches: 170, Mismatches: 24, Indels: 55
0.68 0.10 0.22
Matches are distributed among these distances:
9 6 0.04
10 1 0.01
11 6 0.04
12 9 0.05
13 6 0.04
14 22 0.13
15 44 0.26
16 36 0.21
17 23 0.14
18 16 0.09
19 1 0.01
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (15 bp):
ATAATATTTATTAAT
Found at i:18387225 original size:60 final size:62
Alignment explanation
Indices: 18387094--18387305 Score: 152
Period size: 60 Copynumber: 3.4 Consensus size: 62
18387084 TAATATTTAT
*
18387094 TAATATATTATTTATTAATATATTATAATATTATTTATTAATAAATAATATTATAATAATAAA
1 TAATATATTATATATTAATATATTATAATATTATTTATTAATAAATAATATTATAATAAT-AA
* * *
18387157 TAAAATATTATA-ATTTAATAT-TT-T-ATATTATTTATTAATGTAATAA-ATTATTTATACAT-
1 TAATATATTATATA-TTAATATATTATAATATTATTTATTAAT-AAATAATATTA-TAATA-ATA
18387216 A
62 A
** * * * *
18387217 TAATATATTATTAATAAAAATATATTATATTAAGAATATATTATTAATATAATAATATTTTTATA
1 TAATATATTA-T-ATATTAATATA-T-TA-TAATATTAT-TTATTAATA-AATAATATTATAATA
18387282 ATAA
59 ATAA
* *
18387286 -AA-ATAATATTTATTAATATA
1 TAATATATTATATATTAATATA
18387306 ATATTTATAT
Statistics
Matches: 117, Mismatches: 15, Indels: 32
0.71 0.09 0.20
Matches are distributed among these distances:
60 29 0.25
61 11 0.09
62 11 0.09
63 18 0.15
64 1 0.01
65 9 0.08
66 1 0.01
67 6 0.05
68 9 0.08
69 19 0.16
70 3 0.03
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (62 bp):
TAATATATTATATATTAATATATTATAATATTATTTATTAATAAATAATATTATAATAATAA
Found at i:18387242 original size:14 final size:16
Alignment explanation
Indices: 18387218--18387350 Score: 74
Period size: 17 Copynumber: 7.7 Consensus size: 16
18387208 TTATACATAT
*
18387218 AATATATTATTAATAAA
1 AATATATTA-TATTAAA
*
18387235 AATATATTATATTAAG
1 AATATATTATATTAAA
*
18387251 AATATATTATTAATATAAT
1 AATATATTA-T-AT-TAAA
* *
18387270 AATATTTTTATAATAAA
1 AATA-TATTATATTAAA
18387287 AATAATATT-TATTAATA
1 AAT-ATATTATATTAA-A
18387304 TAATAT-TTATATAATAAA
1 -AATATATTATAT--TAAA
*
18387322 AATATTATTTTATTAATA
1 AATA-TATTATATTAA-A
18387340 TAATA-ATTATA
1 -AATATATTATA
18387351 ATGTCACTAT
Statistics
Matches: 92, Mismatches: 10, Indels: 28
0.71 0.08 0.22
Matches are distributed among these distances:
16 21 0.23
17 37 0.40
18 10 0.11
19 20 0.22
20 4 0.04
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.47
Consensus pattern (16 bp):
AATATATTATATTAAA
Found at i:18387245 original size:33 final size:35
Alignment explanation
Indices: 18387188--18387346 Score: 132
Period size: 36 Copynumber: 4.5 Consensus size: 35
18387178 TTTATATTAT
* *
18387188 TTATTAATGTAATAA-ATTATTTATACAT-ATAATATA
1 TTATTAATATAATAATA-TA-TTATA-ATAAGAATATA
*
18387224 TTATTAATA-AA-AATATATTATATTAAGAATATA
1 TTATTAATATAATAATATATTATAATAAGAATATA
* *
18387257 TTATTAATATAATAATATTTTTATAATAAAAATAATA
1 TTATTAATATAATAATA-TATTATAATAAGAAT-ATA
* *
18387294 TTTATTAATATAAT-ATTTA-TATAATAAAAATATTA
1 -TTATTAATATAATAATATATTATAATAAGAATA-TA
18387329 TTTTATTAATATAATAAT
1 --TTATTAATATAATAAT
18387347 TATAATGTCA
Statistics
Matches: 105, Mismatches: 8, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
32 1 0.01
33 21 0.20
34 7 0.07
35 21 0.20
36 35 0.33
37 7 0.07
38 13 0.12
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (35 bp):
TTATTAATATAATAATATATTATAATAAGAATATA
Found at i:18387247 original size:19 final size:18
Alignment explanation
Indices: 18387218--18387339 Score: 98
Period size: 16 Copynumber: 6.9 Consensus size: 18
18387208 TTATACATAT
18387218 AATATA-TTATTAATAAA
1 AATATATTTATTAATAAA
* *
18387235 AATATA-TTA-TATTAAG
1 AATATATTTATTAATAAA
18387251 AATATA-TTATTAATATAA
1 AATATATTTATTAATA-AA
*
18387269 TAATATTTTTA-TAATAAA
1 -AATATATTTATTAATAAA
18387287 AATAATATTTATTAAT--A
1 AAT-ATATTTATTAATAAA
*
18387304 TA-ATATTTATATAATAAA
1 AATATATTTAT-TAATAAA
18387322 AATATTATTTTATTAATA
1 AATA-TA-TTTATTAATA
18387340 TAATAATTAT
Statistics
Matches: 85, Mismatches: 8, Indels: 21
0.75 0.07 0.18
Matches are distributed among these distances:
15 8 0.09
16 18 0.21
17 18 0.21
18 11 0.13
19 15 0.18
20 10 0.12
21 5 0.06
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (18 bp):
AATATATTTATTAATAAA
Found at i:18387280 original size:20 final size:20
Alignment explanation
Indices: 18387094--18387346 Score: 92
Period size: 20 Copynumber: 13.3 Consensus size: 20
18387084 TAATATTTAT
18387094 TAAT-ATATTATTTATTAATA
1 TAATAATATT-TTTATTAATA
18387114 TATTATAATATTATTTATTAATA
1 TA--ATAATATT-TTTATTAATA
* *
18387137 -AATAATA-TTATAATAATA
1 TAATAATATTTTTATTAATA
* *
18387155 -AATAAAATATTATAATTTAATA
1 TAAT--AATATTTTTA-TTAATA
* * *
18387177 T-TTTATATTATTTATTAATG
1 TAATAATATT-TTTATTAATA
18387197 TAATAA-ATTATTTA-TACATA
1 TAATAATATT-TTTATTA-ATA
18387217 TAAT-ATA---TTATTAATA
1 TAATAATATTTTTATTAATA
*
18387233 -AA-AATA-TATTA-T-AT-
1 TAATAATATTTTTATTAATA
* *
18387247 TAAGAATA-TATTATTAATA
1 TAATAATATTTTTATTAATA
18387266 TAATAATATTTTTA-TAATA
1 TAATAATATTTTTATTAATA
*
18387285 -AA-AATAATATTTATT-A-A
1 TAATAAT-ATTTTTATTAATA
*
18387302 T-ATAATATTTATA-TAATA
1 TAATAATATTTTTATTAATA
18387320 -AA-AATATTATTTTATTAATA
1 TAATAATA-T-TTTTATTAATA
18387340 TAATAAT
1 TAATAAT
18387347 TATAATGTCA
Statistics
Matches: 179, Mismatches: 20, Indels: 66
0.68 0.08 0.25
Matches are distributed among these distances:
15 9 0.05
16 17 0.09
17 21 0.12
18 28 0.16
19 21 0.12
20 47 0.26
21 8 0.04
22 12 0.07
23 16 0.09
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (20 bp):
TAATAATATTTTTATTAATA
Found at i:18387310 original size:52 final size:51
Alignment explanation
Indices: 18387073--18387339 Score: 148
Period size: 52 Copynumber: 4.8 Consensus size: 51
18387063 AATATAATAA
* * * *
18387073 TATTCATATAATAATATTTATTAAT-ATATTATTTATTAATATATTATAATATTATT
1 TATTAATATAATATTATTAATAAATAATATTA-TTATTAATA-A--A-AATA-TATT
* ***
18387129 TATTAATAAATAATATTATAATAATAAATAAAATATTATAATTTAATATTTTATATTATT
1 TATTAAT--ATAATATTAT--TAATAAAT--AATATTATTA-TTAATA-AAAATA-TATT
* *
18387189 TATTAATGTAATAAATTATTTATACATATAATA-TATTATTAATAAAAATATATT
1 TATTAATATAAT--ATTATTAATA-A-ATAATATTATTATTAATAAAAATATATT
* *
18387243 ATATTAAGA-ATATATTATTAATATAATAATATTTTTA-TAATAAAAATAATATT
1 -TATTAATATA-ATATTATTAATA-AATAATATTATTATTAATAAAAAT-ATATT
18387296 TATTAATATAATATTTATATAATAAA-AATATTATTTTATTAATA
1 TATTAATATAATA-TTAT-TAATAAATAATATTA--TTATTAATA
18387340 TAATAATTAT
Statistics
Matches: 168, Mismatches: 21, Indels: 45
0.72 0.09 0.19
Matches are distributed among these distances:
52 32 0.19
53 26 0.15
54 13 0.08
55 16 0.10
56 12 0.07
57 4 0.02
58 21 0.12
59 1 0.01
60 28 0.17
62 2 0.01
63 13 0.08
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (51 bp):
TATTAATATAATATTATTAATAAATAATATTATTATTAATAAAAATATATT
Found at i:18387348 original size:20 final size:20
Alignment explanation
Indices: 18387073--18387349 Score: 92
Period size: 19 Copynumber: 14.9 Consensus size: 20
18387063 AATATAATAA
*
18387073 TATTCATATAATAA-TA-TT
1 TATTAATATAATAATTATTT
* *
18387091 TATTAATATATTATTTA-TT
1 TATTAATATAATAATTATTT
* *
18387110 AATATATTATAAT-ATTA-TT
1 TAT-TAATATAATAATTATTT
*
18387129 TATTAATA-AATAA-TATTA
1 TATTAATATAATAATTATTT
* *
18387147 TAATAATA-AATAAAATATTAT
1 TATTAATATAAT-AATTATT-T
* **
18387168 AATTTAATATTTTATATTA-TT
1 TA-TTAATATAATA-ATTATTT
*
18387189 TATTAATGTAATAAATTA-TT
1 TATTAATATAAT-AATTATTT
18387209 TA-TACATATAAT-A-TA--T
1 TATTA-ATATAATAATTATTT
*
18387225 TATTAATA-AA-AA-TATAT
1 TATTAATATAATAATTATTT
* *
18387242 TA-T-AT-TAAGAA-TATAT
1 TATTAATATAATAATTATTT
18387258 TATTAATATAATAA-TATTT
1 TATTAATATAATAATTATTT
*
18387277 T-TATAATA-AA-AATAATATT
1 TAT-TAATATAATAATTAT-TT
* *
18387296 TATTAATATAATATTTA-TA
1 TATTAATATAATAATTATTT
*
18387315 TAATAA-A-AAT-ATTATTT
1 TATTAATATAATAATTATTT
18387332 TATTAATATAATAATTAT
1 TATTAATATAATAATTAT
18387350 AATGTCACTA
Statistics
Matches: 196, Mismatches: 32, Indels: 60
0.68 0.11 0.21
Matches are distributed among these distances:
15 9 0.05
16 19 0.10
17 24 0.12
18 37 0.19
19 49 0.25
20 40 0.20
21 7 0.04
22 7 0.04
23 4 0.02
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (20 bp):
TATTAATATAATAATTATTT
Found at i:18387571 original size:20 final size:20
Alignment explanation
Indices: 18387546--18387590 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
18387536 TCAATTTTCA
*
18387546 AAAAAACTA-AAAATAAAAAT
1 AAAAAA-TACAAAACAAAAAT
*
18387566 AAAAAATACAAAACGAAAAT
1 AAAAAATACAAAACAAAAAT
18387586 AAAAA
1 AAAAA
18387591 TTAATGACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.80, C:0.07, G:0.02, T:0.11
Consensus pattern (20 bp):
AAAAAATACAAAACAAAAAT
Found at i:18387694 original size:11 final size:11
Alignment explanation
Indices: 18387678--18387726 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
18387668 CTAATGGCCT
18387678 AAAAAAATAAA
1 AAAAAAATAAA
18387689 AAAAAAA-ACAA
1 AAAAAAATA-AA
18387700 AAACAAAATAAA
1 AAA-AAAATAAA
* *
18387712 AACAAAACAAA
1 AAAAAAATAAA
18387723 AAAA
1 AAAA
18387727 CACTTAACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
10 1 0.03
11 22 0.69
12 8 0.25
13 1 0.03
ACGTcount: A:0.88, C:0.08, G:0.00, T:0.04
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:18388414 original size:143 final size:142
Alignment explanation
Indices: 18388263--18388607 Score: 313
Period size: 143 Copynumber: 2.4 Consensus size: 142
18388253 TAATATTTTT
*
18388263 ATGATTTTTTATGCATTAAAAACTTTGATCACACCTCGAAATGTATGAAATTACCAAAATACCCT
1 ATGATTTTTTGTGCATTAAAAACTTTGATCACACCT-GAAA-GTATGAAATTACCAAAATACCCT
* * *** * *
18388328 T-AGAGATATTTTCA-TAATTTGACTTTT-TCAAGATTGGCTTTTCATGAAATGGTCTAGATCAT
64 TAAGAGATATCTT-AGTAATTTGACTTTTCT-AAGATTGGCTTTTCACGAAACACTCCAAATCAT
18388390 GATTTT-ATATTATGTC
127 G-TTTTCATATTATGTC
** * ** * * *
18388406 ATGATTTTTTGTATATTAAAATC-TTGATTGCACCTTAGAAGGTGTGAAATTATCAAAATACCCT
1 ATGATTTTTTGTGCATTAAAAACTTTGATCACACC-T-GAAAGTATGAAATTACCAAAATACCCT
* * * * * **
18388470 TAAGGGGTATCTTAGTAATTTGGCTTTTCTAAGGTTGGTTTTTTGCGAAACACTCCAAATCATGT
64 TAAGAGATATCTTAGTAATTTGACTTTTCTAAGATTGGCTTTTCACGAAACACTCCAAATCATGT
* *
18388535 TTTCATATTATTTG
129 TTTCATATTATGTC
* * * *
18388549 ATGATTTTTTGTGCATTAAAAACTATAATCAAACCTTGGAAAGTATGAAATTACTAAAA
1 ATGATTTTTTGTGCATTAAAAACTTTGATCACACC-T-GAAAGTATGAAATTACCAAAA
18388608 ACTTTTTAAG
Statistics
Matches: 157, Mismatches: 39, Indels: 11
0.76 0.19 0.05
Matches are distributed among these distances:
142 36 0.23
143 95 0.61
144 26 0.17
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (142 bp):
ATGATTTTTTGTGCATTAAAAACTTTGATCACACCTGAAAGTATGAAATTACCAAAATACCCTTA
AGAGATATCTTAGTAATTTGACTTTTCTAAGATTGGCTTTTCACGAAACACTCCAAATCATGTTT
TCATATTATGTC
Found at i:18389827 original size:29 final size:29
Alignment explanation
Indices: 18389758--18389831 Score: 103
Period size: 29 Copynumber: 2.6 Consensus size: 29
18389748 TGCATGTTAA
* *
18389758 GTTTGTAATATATTTACAAATATGCCTTG
1 GTTTGTAATATGTTTGCAAATATGCCTTG
**
18389787 GTTTGTAATATGTTTGCAAATATGTTTTG
1 GTTTGTAATATGTTTGCAAATATGCCTTG
*
18389816 GTTTGTGATATGTTTG
1 GTTTGTAATATGTTTG
18389832 TTTTCATACA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.24, C:0.05, G:0.20, T:0.50
Consensus pattern (29 bp):
GTTTGTAATATGTTTGCAAATATGCCTTG
Found at i:18390163 original size:18 final size:18
Alignment explanation
Indices: 18390142--18390192 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
18390132 CTTAACCTAG
*
18390142 ACCCTCAACTAACCCCAA
1 ACCCTAAACTAACCCCAA
*
18390160 ACCCTAAACCAACCCCCAA
1 ACCCTAAACTAA-CCCCAA
18390179 ACCCCTAAACTAAC
1 A-CCCTAAACTAAC
18390193 TAGATCTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 10 0.36
19 8 0.29
20 10 0.36
ACGTcount: A:0.41, C:0.49, G:0.00, T:0.10
Consensus pattern (18 bp):
ACCCTAAACTAACCCCAA
Found at i:18390313 original size:21 final size:19
Alignment explanation
Indices: 18390264--18390315 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
18390254 TCATGCATTC
18390264 ATATTTTAT-CATTCATAT
1 ATATTTTATGCATTCATAT
*
18390282 TTAATTGTTATGCATTCATCAT
1 AT-ATT-TTATGCATTCAT-AT
18390304 ATATTATTATGC
1 ATATT-TTATGC
18390316 TCATGCATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 1 0.04
19 3 0.11
20 4 0.15
21 16 0.59
22 3 0.11
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.52
Consensus pattern (19 bp):
ATATTTTATGCATTCATAT
Found at i:18392114 original size:15 final size:15
Alignment explanation
Indices: 18392094--18392161 Score: 54
Period size: 15 Copynumber: 4.5 Consensus size: 15
18392084 TTACTATTAA
18392094 AATATTAAAAATATT
1 AATATTAAAAATATT
*
18392109 AATATTAAAAA-AAT
1 AATATTAAAAATATT
*
18392123 -ATTTTAACAATAATATTT
1 AATATT-A-AA-AATA-TT
18392141 AATATT-AAAATATT
1 AATATTAAAAATATT
18392155 -ATATTAA
1 AATATTAA
18392162 TATAAAAAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 15
0.69 0.07 0.25
Matches are distributed among these distances:
13 9 0.21
14 6 0.14
15 17 0.40
16 4 0.10
17 1 0.02
18 1 0.02
19 4 0.10
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (15 bp):
AATATTAAAAATATT
Found at i:18392148 original size:19 final size:19
Alignment explanation
Indices: 18392104--18392168 Score: 56
Period size: 18 Copynumber: 3.8 Consensus size: 19
18392094 AATATTAAAA
18392104 ATATTAATATTAAAA-AA-
1 ATATTAATATTAAAATAAT
18392121 ATA-T--T-TTAACAATAAT
1 ATATTAATATTAA-AATAAT
*
18392137 AT-TTAATATTAAAATATT
1 ATATTAATATTAAAATAAT
18392155 ATATTAATA-TAAAA
1 ATATTAATATTAAAA
18392169 AACATAAAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 15
0.71 0.02 0.27
Matches are distributed among these distances:
13 4 0.10
14 3 0.08
15 2 0.05
16 4 0.10
17 3 0.08
18 13 0.33
19 10 0.26
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATTAATATTAAAATAAT
Found at i:18392245 original size:54 final size:50
Alignment explanation
Indices: 18392187--18392296 Score: 125
Period size: 51 Copynumber: 2.1 Consensus size: 50
18392177 ACAAAGTATT
* *
18392187 TATTATTTATATTAGTATTTTAA-AATATTTAAAATAGT-ATTACTATTTTTAAAA
1 TATTATTT-TATTAGTA---TAATAATATTAAAAATAGTAATT--TATTATTAAAA
18392241 TATTAATTTTATTAGTATAATAATATTAAAAATAGTAATTTATTATTAAAA
1 TATT-ATTTTATTAGTATAATAATATTAAAAATAGTAATTTATTATTAAAA
18392292 TATTA
1 TATTA
18392297 AAAACATTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
50 1 0.02
51 17 0.33
52 14 0.27
53 3 0.06
54 12 0.24
55 4 0.08
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (50 bp):
TATTATTTTATTAGTATAATAATATTAAAAATAGTAATTTATTATTAAAA
Found at i:18392283 original size:31 final size:29
Alignment explanation
Indices: 18392237--18392300 Score: 85
Period size: 28 Copynumber: 2.1 Consensus size: 29
18392227 TACTATTTTT
*
18392237 AAAATATTAATTTTATTAGTATAATAATATTA
1 AAAATAGTAATTTTATTA-T-TAA-AATATTA
18392269 AAAATAGTAA-TTTATTATTAAAATATTA
1 AAAATAGTAATTTTATTATTAAAATATTA
18392297 AAAA
1 AAAA
18392301 CATTTATACT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 11 0.35
29 3 0.10
30 1 0.03
31 7 0.23
32 9 0.29
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (29 bp):
AAAATAGTAATTTTATTATTAAAATATTA
Found at i:18392556 original size:26 final size:26
Alignment explanation
Indices: 18392526--18392575 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
18392516 AAATATTGTT
* *
18392526 TAATATATTATTATTTATTATTAAAA
1 TAATATAATACTATTTATTATTAAAA
18392552 TAATATAATACTATTTATTATTAA
1 TAATATAATACTATTTATTATTAA
18392576 GATATTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
TAATATAATACTATTTATTATTAAAA
Found at i:18392589 original size:23 final size:26
Alignment explanation
Indices: 18392526--18392592 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
18392516 AAATATTGTT
* *
18392526 TAATATATTATTATTTATTATTAAAA
1 TAATATAATAATATTTATTATTAAAA
* *
18392552 TAATATAATACTATTTATTATTAAGA
1 TAATATAATAATATTTATTATTAAAA
18392578 T-AT-TAA-AATATTTAT
1 TAATATAATAATATTTAT
18392593 GTTTAAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
23 8 0.22
24 3 0.08
25 2 0.05
26 24 0.65
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (26 bp):
TAATATAATAATATTTATTATTAAAA
Found at i:18397269 original size:2 final size:2
Alignment explanation
Indices: 18397262--18397290 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18397252 CCTCAAGTAC
18397262 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 A
18397291 AACCTCTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18404727 original size:27 final size:29
Alignment explanation
Indices: 18404683--18404747 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 29
18404673 TAATTCGATC
*
18404683 AAATATAAAATTAATAAA-ATAT-TTTTT
1 AAATATAAAATTAATAAATATATATTTAT
*
18404710 AAATATAAAA-TATTTAAATATATATTTAT
1 AAATATAAAATTA-ATAAATATATATTTAT
*
18404739 ATATATAAA
1 AAATATAAA
18404748 TAAAAAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 2 0.06
27 14 0.44
28 4 0.12
29 12 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
AAATATAAAATTAATAAATATATATTTAT
Found at i:18404900 original size:17 final size:18
Alignment explanation
Indices: 18404865--18404900 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18404855 GACTTGATCC
* *
18404865 AAATTTTAATTTTTAAAA
1 AAATTTAAATTTATAAAA
18404883 AAATTTAAATTTATAAAA
1 AAATTTAAATTTATAAAA
18404901 TTAAATCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATTTAAATTTATAAAA
Found at i:18405954 original size:16 final size:17
Alignment explanation
Indices: 18405935--18405970 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
18405925 TTTATTAACT
18405935 TATG-TAATTATTTTAA
1 TATGATAATTATTTTAA
18405951 TATGTATAATTATTTTAA
1 TATG-ATAATTATTTTAA
18405969 TA
1 TA
18405971 CTTTCAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
18 14 0.78
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
TATGATAATTATTTTAA
Found at i:18406239 original size:20 final size:20
Alignment explanation
Indices: 18406201--18406239 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
18406191 CATAACATAA
*
18406201 TTTTTTTGTTGAAATAAAAC
1 TTTTTTTGGTGAAATAAAAC
18406221 TTTTTTTAGGTGAAA-AAAA
1 TTTTTTT-GGTGAAATAAAA
18406240 TTGAAGAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.46
Consensus pattern (20 bp):
TTTTTTTGGTGAAATAAAAC
Found at i:18407087 original size:20 final size:21
Alignment explanation
Indices: 18407063--18407109 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
18407053 TATTTTTTAA
*
18407063 AAATTTATATTAT-TTTAATT
1 AAATTTATAATATATTTAATT
* *
18407083 TAATTTTTAATATATTTAATT
1 AAATTTATAATATATTTAATT
18407104 AAATTT
1 AAATTT
18407110 CATTTAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
AAATTTATAATATATTTAATT
Found at i:18408232 original size:68 final size:68
Alignment explanation
Indices: 18408123--18408251 Score: 195
Period size: 68 Copynumber: 1.9 Consensus size: 68
18408113 AGAAGTGCTA
* * * *
18408123 AATTTTTTATAATTGACGTCAAACCCCACATGTTACGTATTGAAGAAAGAAGACTGCAAGCAAGT
1 AATTTTTAATAATAGACGTCAAACCCCACATGTTAAGTATTGAAGAAAGAAGACCGCAAGCAAGT
18408188 ACT
66 ACT
* * *
18408191 AATTTTTAATAATAGAGGTCAAACCCCACATGTTAAGTATTGAAGAAGGGAGACCGCAAGC
1 AATTTTTAATAATAGACGTCAAACCCCACATGTTAAGTATTGAAGAAAGAAGACCGCAAGC
18408252 GTTGAAACTA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 54 1.00
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.26
Consensus pattern (68 bp):
AATTTTTAATAATAGACGTCAAACCCCACATGTTAAGTATTGAAGAAAGAAGACCGCAAGCAAGT
ACT
Found at i:18408330 original size:21 final size:20
Alignment explanation
Indices: 18408304--18408373 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 20
18408294 AAGTTTTAAA
18408304 ATAAAATTAATTTTGATAAT
1 ATAAAATTAATTTTGATAAT
* *
18408324 ATTAAAAATAA---TGATGAT
1 A-TAAAATTAATTTTGATAAT
18408342 GATAAAATTAATTATT-ATAAT
1 -ATAAAATTAATT-TTGATAAT
18408363 AATAAAATTAA
1 -ATAAAATTAA
18408374 AATTAAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
18 14 0.36
19 1 0.03
20 1 0.03
21 22 0.56
22 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (20 bp):
ATAAAATTAATTTTGATAAT
Found at i:18408650 original size:24 final size:25
Alignment explanation
Indices: 18408612--18408659 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
18408602 TAAAAAATTC
**
18408612 TTTAATTATTTAA-TTAATTTATTG
1 TTTAATTATAAAATTTAATTTATTG
*
18408636 TTTAATTATAAAATTTTATTTATT
1 TTTAATTATAAAATTTAATTTATT
18408660 TATATTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTAATTATAAAATTTAATTTATTG
Found at i:18408669 original size:20 final size:20
Alignment explanation
Indices: 18408612--18408670 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
18408602 TAAAAAATTC
* *
18408612 TTTAATTATTTA-ATTAATT
1 TTTATTTATTTATATTAAAT
* *
18408631 TATTGTTTAATTATA--AAAT
1 T-TTATTTATTTATATTAAAT
18408650 TTTATTTATTTATATTAAAT
1 TTTATTTATTTATATTAAAT
18408670 T
1 T
18408671 AATAAATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
18 11 0.37
19 5 0.17
20 13 0.43
21 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTATTTATTTATATTAAAT
Found at i:18411557 original size:16 final size:15
Alignment explanation
Indices: 18411515--18411557 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
18411505 CTATAATCCT
18411515 CATATTAAATT-ACA
1 CATATTAAATTAACA
*
18411529 TATATTAAAATTAACTA
1 CATATT-AAATTAAC-A
18411546 CATATTAAATTA
1 CATATTAAATTA
18411558 CTAAAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 5 0.21
15 5 0.21
16 8 0.33
17 6 0.25
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (15 bp):
CATATTAAATTAACA
Found at i:18411562 original size:25 final size:25
Alignment explanation
Indices: 18411534--18411586 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
18411524 TTACATATAT
18411534 TAAAATTAACTACATATTAAATTAC
1 TAAAATTAACTACATATTAAATTAC
*
18411559 TAAAATTAATTACATATTAAATTAC
1 TAAAATTAACTACATATTAAATTAC
18411584 TAA
1 TAA
18411587 TCTTATTGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (25 bp):
TAAAATTAACTACATATTAAATTAC
Found at i:18412606 original size:30 final size:31
Alignment explanation
Indices: 18412537--18412612 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
18412527 TAATACTTTC
**
18412537 AAATTCTAATAAGATAAAAAGTAATATTTTGA
1 AAATT-TAATAAGATAAAAAGTAATATTTAAA
18412569 AAA-TTAATGAA-ATAAAAA-TAATATTTAAA
1 AAATTTAAT-AAGATAAAAAGTAATATTTAAA
*
18412598 AAATTTAATTAGATA
1 AAATTTAATAAGATA
18412613 TAACAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
29 13 0.34
30 19 0.50
31 3 0.08
32 3 0.08
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.34
Consensus pattern (31 bp):
AAATTTAATAAGATAAAAAGTAATATTTAAA
Found at i:18412877 original size:3 final size:3
Alignment explanation
Indices: 18412869--18412902 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
18412859 ACACTTATCC
18412869 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
18412903 ATGTCATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:18415987 original size:2 final size:2
Alignment explanation
Indices: 18415980--18416007 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18415970 GTTATGCAAA
18415980 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
18416008 TTATTGACGA
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:18417064 original size:37 final size:34
Alignment explanation
Indices: 18416997--18417061 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
18416987 TGAATTTAAT
* *
18416997 TGTCATATCTATCAATCAACAACAATAATAAAAG
1 TGTCACATCTATCAACCAACAACAATAATAAAAG
18417031 TGTCACATCTATCAACCAACAACAATAATAA
1 TGTCACATCTATCAACCAACAACAATAATAA
18417062 TAACCAAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.49, C:0.22, G:0.05, T:0.25
Consensus pattern (34 bp):
TGTCACATCTATCAACCAACAACAATAATAAAAG
Found at i:18420711 original size:96 final size:96
Alignment explanation
Indices: 18420547--18420738 Score: 384
Period size: 96 Copynumber: 2.0 Consensus size: 96
18420537 ATTGAAAATG
18420547 GTTATGGAAAGCATTGCTCCCGCCAGAATAACGTAGCATTGTAAGGAACATTGATCCTGACAATA
1 GTTATGGAAAGCATTGCTCCCGCCAGAATAACGTAGCATTGTAAGGAACATTGATCCTGACAATA
18420612 TCATTAGCAGATTGGTAAATCCGATAGTAGA
66 TCATTAGCAGATTGGTAAATCCGATAGTAGA
18420643 GTTATGGAAAGCATTGCTCCCGCCAGAATAACGTAGCATTGTAAGGAACATTGATCCTGACAATA
1 GTTATGGAAAGCATTGCTCCCGCCAGAATAACGTAGCATTGTAAGGAACATTGATCCTGACAATA
18420708 TCATTAGCAGATTGGTAAATCCGATAGTAGA
66 TCATTAGCAGATTGGTAAATCCGATAGTAGA
18420739 AACCTTTAAT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (96 bp):
GTTATGGAAAGCATTGCTCCCGCCAGAATAACGTAGCATTGTAAGGAACATTGATCCTGACAATA
TCATTAGCAGATTGGTAAATCCGATAGTAGA
Found at i:18421330 original size:34 final size:34
Alignment explanation
Indices: 18421287--18421364 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 34
18421277 TTGGAAATAG
* *
18421287 ATTTCTGATACATTGAAGAAA-TT-TCTAAAAATGA
1 ATTTTTGATACATT-AAAAAAGTTGT-TAAAAATGA
*
18421321 ATTTTTGATACATTAAAAAAGTTGTTGAAAATGA
1 ATTTTTGATACATTAAAAAAGTTGTTAAAAATGA
18421355 ATTTTTGATA
1 ATTTTTGATA
18421365 ACTTTTATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
33 5 0.13
34 33 0.85
35 1 0.03
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.40
Consensus pattern (34 bp):
ATTTTTGATACATTAAAAAAGTTGTTAAAAATGA
Found at i:18421804 original size:22 final size:21
Alignment explanation
Indices: 18421778--18421853 Score: 86
Period size: 22 Copynumber: 3.6 Consensus size: 21
18421768 AATTTTACTT
18421778 ATAAATAATATTATATAAATAA
1 ATAAATAATATTATAT-AATAA
* *
18421800 ATAAATTATAATATATTAATAA
1 ATAAATAATATTATA-TAATAA
18421822 AT-AAT-ATATTAT-TAATAA
1 ATAAATAATATTATATAATAA
18421840 ATAATATAATATTA
1 ATAA-ATAATATTA
18421854 ACATATTATA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
18 8 0.17
19 1 0.02
20 8 0.17
21 9 0.19
22 20 0.43
23 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAAATAATATTATATAATAA
Found at i:18421864 original size:13 final size:13
Alignment explanation
Indices: 18421843--18421929 Score: 50
Period size: 13 Copynumber: 6.6 Consensus size: 13
18421833 TTAATAAATA
18421843 ATATAATATTAAC
1 ATATAATATTAAC
* *
18421856 ATATTATATTAAT
1 ATATAATATTAAC
* * *
18421869 AAATAATATGAAG
1 ATATAATATTAAC
*
18421882 AAATAATATTATA-
1 ATATAATATTA-AC
* * *
18421895 ATATATTACTAAAG
1 ATATAATA-TTAAC
*
18421909 ATATTATATTAAC
1 ATATAATATTAAC
*
18421922 AAATAATA
1 ATATAATA
18421930 ATGTAATATT
Statistics
Matches: 55, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
13 46 0.84
14 9 0.16
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (13 bp):
ATATAATATTAAC
Found at i:18421939 original size:87 final size:83
Alignment explanation
Indices: 18421798--18421959 Score: 202
Period size: 84 Copynumber: 1.9 Consensus size: 83
18421788 TTATATAAAT
* * * *
18421798 AAATAAATTATAATATATTAATAAATAATATATTATTAATAAATAATATAATATTAACATATTAT
1 AAATAAATTATAATATATTAATAAAGAATATATTATTAACAAATAATATAATATTAACAAATAAT
18421863 ATTAATAAATAATATGAAG
66 A-TAATAAATAATATGAAG
* *
18421882 AAATAATATTATAATATATTACTAAAG-ATAT-TATATTAACAAATAATAATGTAATATTAATAA
1 AAATAA-ATTATAATATATTAATAAAGAATATAT-TATTAACAAATAAT-A--TAATATTAACAA
18421945 ATAATATAATAAATA
61 ATAATATAATAAATA
18421960 TTATTAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
83 1 0.01
84 23 0.34
85 19 0.28
86 9 0.13
87 15 0.22
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (83 bp):
AAATAAATTATAATATATTAATAAAGAATATATTATTAACAAATAATATAATATTAACAAATAAT
ATAATAAATAATATGAAG
Found at i:18421954 original size:18 final size:18
Alignment explanation
Indices: 18421778--18422026 Score: 117
Period size: 18 Copynumber: 14.4 Consensus size: 18
18421768 AATTTTACTT
* *
18421778 ATAAATAATATTATATAA
1 ATAAATAATATAATATTA
18421796 ATAAATAAATTATAATATATTA
1 ATAAAT-AA-TAT-A-ATATTA
*
18421818 ATAAATAATATATTATTA
1 ATAAATAATATAATATTA
18421836 ATAAATAATATAATATT-
1 ATAAATAATATAATATTA
*
18421853 A-ACAT-AT-T-ATATTA
1 ATAAATAATATAATATTA
*
18421867 ATAAATAATATGAAGA--A
1 ATAAATAATAT-AATATTA
*
18421884 AT-AATATTATAATATATTA
1 ATAAATAATAT-A-ATATTA
* * *
18421903 CTAAA-GATATTATATTA
1 ATAAATAATATAATATTA
*
18421920 ACAAATAATAATGTAATATTA
1 ATAAATAAT-A--TAATATTA
18421941 ATAAATAATATAATA--A
1 ATAAATAATATAATATTA
*
18421957 AT--ATTAT-TAAT-TTA
1 ATAAATAATATAATATTA
18421971 AT---TAATA-AATATT-
1 ATAAATAATATAATATTA
** *
18421984 AT-AATAATATGTTAATA
1 ATAAATAATATAATATTA
*
18422001 ATAAATAATATACTATTA
1 ATAAATAATATAATATTA
18422019 ATATAATA
1 ATA-AATA
18422027 TATTAACAAA
Statistics
Matches: 176, Mismatches: 27, Indels: 55
0.68 0.10 0.21
Matches are distributed among these distances:
13 17 0.10
14 11 0.06
15 10 0.06
16 19 0.11
17 18 0.10
18 49 0.28
19 15 0.09
20 9 0.05
21 17 0.10
22 11 0.06
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (18 bp):
ATAAATAATATAATATTA
Found at i:18422116 original size:19 final size:18
Alignment explanation
Indices: 18422065--18422116 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
18422055 ATAATTTATT
18422065 TTAAGTATT-TTTT-ATA
1 TTAAGTATTATTTTAATA
* *
18422081 TTAACATAATATTTTAATA
1 TTAA-GTATTATTTTAATA
18422100 TTAAGTATTATTATTAA
1 TTAAGTATTATT-TTAA
18422117 AATATTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 4 0.14
17 3 0.11
18 10 0.36
19 11 0.39
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (18 bp):
TTAAGTATTATTTTAATA
Found at i:18422143 original size:165 final size:163
Alignment explanation
Indices: 18421803--18422103 Score: 369
Period size: 165 Copynumber: 1.8 Consensus size: 163
18421793 TAAATAAATA
* *
18421803 AATT-ATAATATATTAATAAATAATATATTATTAATAAATAATATAATATTAACATATTATATTA
1 AATTAATAA-ATATT-AT-AATAATATATTAATAATAAATAATATAATATTAACATAATATATTA
* *
18421867 ATAAATAATATGAAGAAATAATATTATAATATATTACTAAAGATATTATATTAACAAATAATAAT
63 ACAAATAATATGAAGAAATAATATAATAATATATTA-TAAAGATATTATATTAAC-AATAATAAT
18421932 GTAATATTAATAAATAATATAATAAATATTATTAATTT
126 GTAATATTAATAAATAATATAATAAATATTATTAATTT
* * *
18421970 AATTAATAAATATTATAATAATATGTTAATAATAAATAATATACTATTAATATAATATATTAACA
1 AATTAATAAATATTATAATAATATATTAATAATAAATAATATAATATTAACATAATATATTAACA
* * * * * * *
18422035 AATAAT-TTAAGGAATAATA-AATAATTTATT-TTAAGTATTTTTTATATTAAC-ATAATATTTT
66 AATAATATGAAGAAATAATATAATAATATATTATAAAG-A--TATTATATTAACAATAATAATGT
18422096 AATATTAA
128 AATATTAA
18422104 GTATTATTAT
Statistics
Matches: 116, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
161 4 0.03
162 17 0.15
163 9 0.08
164 22 0.19
165 49 0.42
166 2 0.02
167 9 0.08
168 4 0.03
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (163 bp):
AATTAATAAATATTATAATAATATATTAATAATAAATAATATAATATTAACATAATATATTAACA
AATAATATGAAGAAATAATATAATAATATATTATAAAGATATTATATTAACAATAATAATGTAAT
ATTAATAAATAATATAATAAATATTATTAATTT
Found at i:18422174 original size:26 final size:25
Alignment explanation
Indices: 18422139--18422188 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
18422129 TTTGAATATT
18422139 AATAATTTTAATAATAAATAATTTC
1 AATAATTTTAATAATAAATAATTTC
*
18422164 AATATATTTTAATAATAAATCATTT
1 AATA-ATTTTAATAATAAATAATTT
18422189 TTAATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (25 bp):
AATAATTTTAATAATAAATAATTTC
Found at i:18424202 original size:4 final size:4
Alignment explanation
Indices: 18424195--18424225 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
18424185 CTTTTTATTT
18424195 ATTA ATTA A-TA ATTA ATTA ATTA ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA
18424226 TTACTAGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:18427457 original size:74 final size:72
Alignment explanation
Indices: 18427279--18427457 Score: 173
Period size: 73 Copynumber: 2.5 Consensus size: 72
18427269 TTTTTACGCC
* * *
18427279 TTTT-ATCTTAAAAACATAATTTTTGTTAAATTTGAGAATTTTAAAAATACAATTGCAACATTCA
1 TTTTAATCTTAAAAACATAATTCTTGTTAAATTTGAAAATTTTAAAAATACAATTGCAACAATCA
* *
18427343 TTTCGTT
66 CTACGTT
** * * * * ** *
18427350 TTTTAATCTTGCAAATATAA-TCTTTGTTAAAATTTTAAAATTTTGAAAATATAATTTTAATAAT
1 TTTTAATCTTAAAAACATAATTC-TTGTT-AAATTTGAAAATTTTAAAAATACAATTGCAACAAT
18427414 CACTACGTTT
64 CACTACG-TT
*
18427424 TTTTAATTTTAAAAACATAATTCTTGTTGAAATT
1 TTTTAATCTTAAAAACATAATTCTTGTT-AAATT
18427458 ATATAAAAAA
Statistics
Matches: 84, Mismatches: 19, Indels: 7
0.76 0.17 0.06
Matches are distributed among these distances:
71 5 0.06
72 17 0.20
73 32 0.38
74 28 0.33
75 2 0.02
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (72 bp):
TTTTAATCTTAAAAACATAATTCTTGTTAAATTTGAAAATTTTAAAAATACAATTGCAACAATCA
CTACGTT
Found at i:18428061 original size:22 final size:21
Alignment explanation
Indices: 18428036--18428092 Score: 51
Period size: 22 Copynumber: 2.6 Consensus size: 21
18428026 TTAAGAATAG
18428036 CTTAATAAAAAATAAATGATAA
1 CTTAATAAAAAATAAATGAT-A
* ** * *
18428058 CTTATTAATTAATCATTGATA
1 CTTAATAAAAAATAAATGATA
18428079 CTTTAATAAAAAAT
1 C-TTAATAAAAAAT
18428093 TAATAAAAAA
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
21 2 0.08
22 24 0.92
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.37
Consensus pattern (21 bp):
CTTAATAAAAAATAAATGATA
Found at i:18428097 original size:11 final size:11
Alignment explanation
Indices: 18428081--18428105 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18428071 CATTGATACT
18428081 TTAATAAAAAA
1 TTAATAAAAAA
18428092 TTAATAAAAAA
1 TTAATAAAAAA
18428103 TTA
1 TTA
18428106 GCCATAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TTAATAAAAAA
Found at i:18428187 original size:22 final size:22
Alignment explanation
Indices: 18428159--18428317 Score: 103
Period size: 22 Copynumber: 7.3 Consensus size: 22
18428149 ATTGATAAAA
*
18428159 TTAATAGTAAATCATAAATAAT
1 TTAATAGTAAATCATAAATAAC
18428181 TTAATAGTAAAT--TAATGATAAC
1 TTAATAGTAAATCATAA--ATAAC
* * * *
18428203 TTAATACTTAATCATTGAA-AAT
1 TTAATAGTAAATCA-TAAATAAC
* * * *
18428225 TTAAAAATAAATCA-ATATAAA
1 TTAATAGTAAATCATAAATAAC
* *
18428246 TTAGTAGTAAATCATCAATAAC
1 TTAATAGTAAATCATAAATAAC
* * *
18428268 TTAATAATTAATCAGT-GATAAC
1 TTAATAGTAAATCA-TAAATAAC
* *
18428290 TTAATAGTAAATCATTAATAAT
1 TTAATAGTAAATCATAAATAAC
18428312 TTAATA
1 TTAATA
18428318 TAATTAAGTG
Statistics
Matches: 103, Mismatches: 25, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
20 4 0.04
21 14 0.14
22 81 0.79
23 2 0.02
25 2 0.02
ACGTcount: A:0.51, C:0.07, G:0.06, T:0.36
Consensus pattern (22 bp):
TTAATAGTAAATCATAAATAAC
Found at i:18428272 original size:87 final size:87
Alignment explanation
Indices: 18428156--18428315 Score: 223
Period size: 87 Copynumber: 1.8 Consensus size: 87
18428146 TTAATTGATA
* * * *
18428156 AAATTAATAGTAAATCATAAATAATTTAATAGTAAATTAATGATAACTTAATACTTAATCATTGA
1 AAATTAATAGTAAATCATAAATAACTTAATAATAAATCAATGATAACTTAATACTAAATCATT-A
18428221 A-AATTTAAAAATAAATCAATAT
65 ATAATTTAAAAATAAATCAATAT
* * * * *
18428243 AAATTAGTAGTAAATCATCAATAACTTAATAATTAATCAGTGATAACTTAATAGTAAATCATTAA
1 AAATTAATAGTAAATCATAAATAACTTAATAATAAATCAATGATAACTTAATACTAAATCATTAA
18428308 TAATTTAA
66 TAATTTAA
18428316 TATAATTAAG
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
86 2 0.03
87 61 0.97
ACGTcount: A:0.52, C:0.07, G:0.06, T:0.36
Consensus pattern (87 bp):
AAATTAATAGTAAATCATAAATAACTTAATAATAAATCAATGATAACTTAATACTAAATCATTAA
TAATTTAAAAATAAATCAATAT
Found at i:18428301 original size:65 final size:66
Alignment explanation
Indices: 18428155--18428324 Score: 179
Period size: 65 Copynumber: 2.6 Consensus size: 66
18428145 ATTAATTGAT
* * * *
18428155 AAAA-TTAATAGTAAATCATAAATAATTTAATAGTAAATTAATGATAACTTAATACTTAATCATT
1 AAAACTTAATAGTAAATCATAAATAAATTAATAGTAAATTAATAATAACTTAATAATTAATCAGT
18428219 G
66 G
* * * * * *
18428220 AAAATTTAAAAATAAATCA-ATATAAATTAGTAGTAAA-TCATCAATAACTTAATAATTAATCAG
1 AAAACTTAATAGTAAATCATAAATAAATTAATAGTAAATTAAT-AATAACTTAATAATTAATCAG
18428283 TG
65 TG
* * *
18428285 ATAACTTAATAGTAAATCATTAATAATTTAATA-T-AATTAA
1 AAAACTTAATAGTAAATCATAAATAAATTAATAGTAAATTAA
18428325 GTGATAATTT
Statistics
Matches: 83, Mismatches: 18, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
64 5 0.06
65 57 0.69
66 21 0.25
ACGTcount: A:0.52, C:0.06, G:0.05, T:0.36
Consensus pattern (66 bp):
AAAACTTAATAGTAAATCATAAATAAATTAATAGTAAATTAATAATAACTTAATAATTAATCAGT
G
Found at i:18428346 original size:43 final size:44
Alignment explanation
Indices: 18428159--18428362 Score: 143
Period size: 43 Copynumber: 4.7 Consensus size: 44
18428149 ATTGATAAAA
* * * *
18428159 TTAATAGTAAATCATAAATAATTTAATAGTAAATTAA-TGATAAC
1 TTAATAATAAATCATTAATAATTTAATAATTAA-TAAGTGATAAC
* * * * *
18428203 TTAATACTTAATCATTGAA-AATTTAAAAATAAATCAA-T-ATAAA
1 TTAATAATAAATCATT-AATAATTTAATAATTAAT-AAGTGATAAC
* * * * *
18428246 TTAGTAGTAAATCATCAATAACTTAATAATTAATCAGTGATAAC
1 TTAATAATAAATCATTAATAATTTAATAATTAATAAGTGATAAC
* *
18428290 TTAATAGTAAATCATTAATAATTTAAT-A-TAATTAAGTGATAAT
1 TTAATAATAAATCATTAATAATTTAATAATTAA-TAAGTGATAAC
* * *
18428333 TTGATAATGAATCATGT-ATAATTTAGTAAT
1 TTAATAATAAATCAT-TAATAATTTAATAAT
18428363 AAATCTACGA
Statistics
Matches: 127, Mismatches: 24, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
42 6 0.05
43 61 0.48
44 58 0.46
45 2 0.02
ACGTcount: A:0.49, C:0.06, G:0.07, T:0.38
Consensus pattern (44 bp):
TTAATAATAAATCATTAATAATTTAATAATTAATAAGTGATAAC
Found at i:18429685 original size:44 final size:44
Alignment explanation
Indices: 18429557--18429865 Score: 150
Period size: 44 Copynumber: 7.0 Consensus size: 44
18429547 CTAATTAATA
* * * *
18429557 ATTAA-AAATTAAAAGTATATCAAT-ATAACTTAATAGT-AATC
1 ATTAATAACTTAATAGTATATCAATAATAATTTAATAGTAAATT
* * * *
18429598 ATTGATAAATTAATAGT-TAATCAGTGATAATTTAGTATAGTAAATT
1 ATTAATAACTTAATAGTAT-ATCAATAATAATTTA--ATAGTAAATT
* * * *
18429644 AGTAATAATTTAATAGTATATCAATAATACTTTAATAGTAAATA
1 ATTAATAACTTAATAGTATATCAATAATAATTTAATAGTAAATT
* * * * *
18429688 ATTAAAAACTTAGTAGTAAATCAACAATAATATAATAGTAAA-T
1 ATTAATAACTTAATAGTATATCAATAATAATTTAATAGTAAATT
* * * * **
18429731 ACATAATAACTTAATAATAAATCAATTATAACATAATTA-TAAATT
1 A-TTAATAACTTAATAGTATATCAATAATAATTTAA-TAGTAAATT
* * * * * * ** *
18429776 CA-TAATAGCATAGTAGTAAATCAATGATAAATTAATAAAAAAAT
1 -ATTAATAACTTAATAGTATATCAATAATAATTTAATAGTAAATT
* * * *
18429820 A-AACGAAAACTTAATAGT-TAATGATTAATAATTTAATAGTAAATT
1 ATTA--ATAACTTAATAGTAT-ATCAATAATAATTTAATAGTAAATT
18429865 A
1 A
18429866 ATAAAAATTT
Statistics
Matches: 203, Mismatches: 50, Indels: 26
0.73 0.18 0.09
Matches are distributed among these distances:
41 5 0.02
42 15 0.07
43 12 0.06
44 104 0.51
45 36 0.18
46 30 0.15
47 1 0.00
ACGTcount: A:0.52, C:0.06, G:0.07, T:0.35
Consensus pattern (44 bp):
ATTAATAACTTAATAGTATATCAATAATAATTTAATAGTAAATT
Found at i:18429726 original size:22 final size:21
Alignment explanation
Indices: 18429563--18429874 Score: 118
Period size: 22 Copynumber: 14.2 Consensus size: 21
18429553 AATAATTAAA
* *
18429563 AATTAAAAGTATATCAAT-AT
1 AATTAATAGTAAATCAATAAT
* *
18429583 AACTTAATAGT-AATCATTGAT
1 AA-TTAATAGTAAATCAATAAT
* * *
18429604 AAATTAATAGTTAATCAGTGAT
1 -AATTAATAGTAAATCAATAAT
* *
18429626 AATTTAGTATAGTAAATTAGTAAT
1 AA-TTA--ATAGTAAATCAATAAT
*
18429650 AATTTAATAGTATATCAATAAT
1 AA-TTAATAGTAAATCAATAAT
* *
18429672 ACTTTAATAGTAAAT-AATTAAA
1 A-ATTAATAGTAAATCAA-TAAT
* *
18429694 AACTTAGTAGTAAATCAACAAT
1 AA-TTAATAGTAAATCAATAAT
18429716 AATATAATAGTAAAT-ACATAAT
1 AAT-TAATAGTAAATCA-ATAAT
* *
18429738 AACTTAATAATAAATCAATTAT
1 AA-TTAATAGTAAATCAATAAT
*
18429760 AACATAATTA-TAAATTC-ATAAT
1 AA-TTAA-TAGTAAA-TCAATAAT
* *
18429782 AGCA-TAGTAGTAAATCAATGAT
1 A--ATTAATAGTAAATCAATAAT
** * *
18429804 AAATTAATAAAAAAATAAACGAA-
1 -AATTAAT-AGTAAATCAA-TAAT
* * *
18429827 AACTTAATAGTTAATGATTAAT
1 AA-TTAATAGTAAATCAATAAT
* *
18429849 AATTTAATAGTAAATTAATAAA
1 AA-TTAATAGTAAATCAATAAT
18429871 AATT
1 AATT
18429875 TAGTAGTGGA
Statistics
Matches: 223, Mismatches: 42, Indels: 53
0.70 0.13 0.17
Matches are distributed among these distances:
20 7 0.03
21 32 0.14
22 142 0.64
23 21 0.09
24 21 0.09
ACGTcount: A:0.53, C:0.06, G:0.07, T:0.35
Consensus pattern (21 bp):
AATTAATAGTAAATCAATAAT
Found at i:18429749 original size:11 final size:11
Alignment explanation
Indices: 18429638--18429874 Score: 51
Period size: 11 Copynumber: 21.5 Consensus size: 11
18429628 TTTAGTATAG
*
18429638 TAAATTAGTAA
1 TAAATTAATAA
* *
18429649 TAATTTAATAG
1 TAAATTAATAA
* *
18429660 TATATCAATAA
1 TAAATTAATAA
** *
18429671 TACTTTAATAG
1 TAAATTAATAA
18429682 TAAA-TAATTAA
1 TAAATTAA-TAA
* *
18429693 -AAACTTAGTAG
1 TAAA-TTAATAA
* *
18429704 TAAATCAACAA
1 TAAATTAATAA
*
18429715 T-AATATAATAG
1 TAAAT-TAATAA
18429726 TAAA-TACATAA
1 TAAATTA-ATAA
*
18429737 TAACTTAATAA
1 TAAATTAATAA
* *
18429748 TAAATCAATTA
1 TAAATTAATAA
*
18429759 TAACA-TAATTA
1 TAA-ATTAATAA
*
18429770 TAAATTCATAA
1 TAAATTAATAA
* * *
18429781 TAGCA-TAGTAG
1 TA-AATTAATAA
* *
18429792 TAAATCAATGA
1 TAAATTAATAA
18429803 TAAATTAATAA
1 TAAATTAATAA
* *
18429814 AAAAATAA-ACGA
1 TAAATTAATA--A
*
18429826 -AAACTTAATAG
1 TAAA-TTAATAA
* * *
18429837 TTAATGATTAA
1 TAAATTAATAA
* *
18429848 TAATTTAATAG
1 TAAATTAATAA
18429859 TAAATTAATAA
1 TAAATTAATAA
18429870 -AAATT
1 TAAATT
18429875 TAGTAGTGGA
Statistics
Matches: 152, Mismatches: 57, Indels: 35
0.62 0.23 0.14
Matches are distributed among these distances:
10 19 0.12
11 115 0.76
12 17 0.11
13 1 0.01
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (11 bp):
TAAATTAATAA
Found at i:18429875 original size:22 final size:22
Alignment explanation
Indices: 18429825--18429881 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
18429815 AAAATAAACG
* * *
18429825 AAAACTTAATAGTTAATGATTA
1 AAAATTTAATAGTAAATGAATA
* *
18429847 ATAATTTAATAGTAAATTAATA
1 AAAATTTAATAGTAAATGAATA
*
18429869 AAAATTTAGTAGT
1 AAAATTTAATAGT
18429882 GGATTACAGA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.39
Consensus pattern (22 bp):
AAAATTTAATAGTAAATGAATA
Found at i:18429966 original size:22 final size:22
Alignment explanation
Indices: 18429938--18430003 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
18429928 TTAAATTATA
*
18429938 AACTTAGCAATAAATCATAAAT
1 AACTTAGAAATAAATCATAAAT
18429960 AACTTAGAAATAAATCA-ATAAT
1 AACTTAGAAATAAATCATA-AAT
* * *
18429982 AATTTAGTAATTAATCACTAAA
1 AACTTAGAAATAAATCA-TAAA
18430004 ACTCAATAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 1 0.03
22 33 0.89
23 2 0.05
24 1 0.03
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.30
Consensus pattern (22 bp):
AACTTAGAAATAAATCATAAAT
Found at i:18430077 original size:22 final size:22
Alignment explanation
Indices: 18430052--18430106 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
18430042 ATAACAGTAT
18430052 ATAGTAAATCATTGATAATTTA
1 ATAGTAAATCATTGATAATTTA
*
18430074 ATAGTAAATTATTGATAATTTA
1 ATAGTAAATCATTGATAATTTA
*
18430096 GTAGTAAATCA
1 ATAGTAAATCA
18430107 CTAATAACGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (22 bp):
ATAGTAAATCATTGATAATTTA
Found at i:18430146 original size:22 final size:23
Alignment explanation
Indices: 18430053--18430150 Score: 71
Period size: 22 Copynumber: 4.4 Consensus size: 23
18430043 TAACAGTATA
* *
18430053 TAGTAAATCATTGATAATTTA-A
1 TAGTAAATCATTGATAACTTAGC
* *
18430075 TAGTAAATTATTGATAATTTAG-
1 TAGTAAATCATTGATAACTTAGC
* * * *
18430097 TAGTAAATCACTAATAACGTCATC
1 TAGTAAATCATTGATAAC-TTAGC
*
18430121 -A-TAAATTATTGATAACTTAGC
1 TAGTAAATCATTGATAACTTAGC
18430142 TA-TAAATCA
1 TAGTAAATCA
18430151 GTAATAATTT
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
21 3 0.05
22 53 0.90
23 3 0.05
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (23 bp):
TAGTAAATCATTGATAACTTAGC
Found at i:18430170 original size:44 final size:43
Alignment explanation
Indices: 18430053--18430172 Score: 118
Period size: 44 Copynumber: 2.7 Consensus size: 43
18430043 TAACAGTATA
* * *
18430053 TAGTAAATCATTGATAATTTAATAGTAAATTATTGATAATTTAG
1 TAGTAAATCACTAATAATTT-ATAGTAAATTATTGATAACTTAG
* *
18430097 TAGTAAATCACTAATAACGTCATCA-TAAATTATTGATAACTTAG
1 TAGTAAATCACTAATAA-TTTAT-AGTAAATTATTGATAACTTAG
* *
18430141 CTA-TAAATCAGTAATAATTTAGTTGTAAATTA
1 -TAGTAAATCACTAATAATTTA-TAGTAAATTA
18430173 GTTAATTATT
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
43 2 0.03
44 56 0.90
45 4 0.06
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.39
Consensus pattern (43 bp):
TAGTAAATCACTAATAATTTATAGTAAATTATTGATAACTTAG
Found at i:18430196 original size:11 final size:10
Alignment explanation
Indices: 18430182--18430257 Score: 53
Period size: 11 Copynumber: 7.0 Consensus size: 10
18430172 AGTTAATTAT
18430182 TAATAACTTCA
1 TAATAACTT-A
*
18430193 TAATAAATTA
1 TAATAACTTA
18430203 TCAATAACTTTA
1 T-AATAAC-TTA
* *
18430215 TAGTAAATTA
1 TAATAACTTA
*
18430225 GTAACAACTTTA
1 -TAATAAC-TTA
*
18430237 TAATAAATTA
1 TAATAACTTA
18430247 TCAATAACTTA
1 T-AATAACTTA
18430258 ATAGTAAATT
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
10 9 0.18
11 34 0.68
12 7 0.14
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.38
Consensus pattern (10 bp):
TAATAACTTA
Found at i:18430208 original size:22 final size:22
Alignment explanation
Indices: 18430176--18430275 Score: 130
Period size: 22 Copynumber: 4.5 Consensus size: 22
18430166 TAAATTAGTT
* *
18430176 AATTATTAATAACTTCATAATA
1 AATTATCAATAACTTTATAATA
*
18430198 AATTATCAATAACTTTATAGTA
1 AATTATCAATAACTTTATAATA
*
18430220 AATTAGT-AACAACTTTATAATA
1 AATTA-TCAATAACTTTATAATA
* *
18430242 AATTATCAATAACTTAATAGTA
1 AATTATCAATAACTTTATAATA
18430264 AATTATCAATAA
1 AATTATCAATAA
18430276 TTTCGTAGTA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
21 1 0.01
22 66 0.97
23 1 0.01
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (22 bp):
AATTATCAATAACTTTATAATA
Found at i:18430234 original size:44 final size:44
Alignment explanation
Indices: 18430171--18430268 Score: 151
Period size: 44 Copynumber: 2.2 Consensus size: 44
18430161 AGTTGTAAAT
* * * *
18430171 TAGTTAATTATTAATAACTTCATAATAAATTATCAATAACTTTA
1 TAGTAAATTAGTAACAACTTCATAATAAATTATCAATAACTTAA
*
18430215 TAGTAAATTAGTAACAACTTTATAATAAATTATCAATAACTTAA
1 TAGTAAATTAGTAACAACTTCATAATAAATTATCAATAACTTAA
18430259 TAGTAAATTA
1 TAGTAAATTA
18430269 TCAATAATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (44 bp):
TAGTAAATTAGTAACAACTTCATAATAAATTATCAATAACTTAA
Found at i:18430284 original size:22 final size:22
Alignment explanation
Indices: 18430171--18430356 Score: 110
Period size: 22 Copynumber: 8.5 Consensus size: 22
18430161 AGTTGTAAAT
* * * *
18430171 TAGTTAATTATTAATAACTTCA
1 TAGTAAATTATCAATAATTTAA
*
18430193 TAATAAATTATCAATAACTTT-A
1 TAGTAAATTATCAATAA-TTTAA
*
18430215 TAGTAAATTAGT-AACAACTTT-A
1 TAGTAAATTA-TCAATAA-TTTAA
* *
18430237 TAATAAATTATCAATAACTTAA
1 TAGTAAATTATCAATAATTTAA
**
18430259 TAGTAAATTATCAATAATTTCG
1 TAGTAAATTATCAATAATTTAA
* ** *
18430281 TAGTAAATCATTTATAATTTAG
1 TAGTAAATTATCAATAATTTAA
* * * *
18430303 TAGTAAATCATCTATAACTTAG
1 TAGTAAATTATCAATAATTTAA
* * * *
18430325 CAATAAATTGAT-GATAATTTAG
1 TAGTAAATT-ATCAATAATTTAA
18430347 TAGTAAATTA
1 TAGTAAATTA
18430357 ACTTAATAAT
Statistics
Matches: 133, Mismatches: 26, Indels: 11
0.78 0.15 0.06
Matches are distributed among these distances:
21 4 0.03
22 124 0.93
23 5 0.04
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (22 bp):
TAGTAAATTATCAATAATTTAA
Found at i:18430288 original size:44 final size:43
Alignment explanation
Indices: 18430171--18430288 Score: 139
Period size: 44 Copynumber: 2.7 Consensus size: 43
18430161 AGTTGTAAAT
* * *
18430171 TAGTTAATTATTAATAACTTCATAATAAATTATCAATAACTTTA
1 TAGTAAATTA-TAATAATTTCATAATAAATTATCAATAACTTAA
*
18430215 TAGTAAATTAGTAACAACTTT-ATAATAAATTATCAATAACTTAA
1 TAGTAAATTA-TAATAA-TTTCATAATAAATTATCAATAACTTAA
* *
18430259 TAGTAAATTATCAATAATTTCGTAGTAAAT
1 TAGTAAATTAT-AATAATTTCATAATAAAT
18430289 CATTTATAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
43 4 0.06
44 57 0.90
45 2 0.03
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (43 bp):
TAGTAAATTATAATAATTTCATAATAAATTATCAATAACTTAA
Found at i:18430310 original size:66 final size:65
Alignment explanation
Indices: 18430171--18430354 Score: 174
Period size: 66 Copynumber: 2.8 Consensus size: 65
18430161 AGTTGTAAAT
* * * * *
18430171 TAGTTAATTATTAATAACTTCATAATAAATTATCAATAACTTTATAGTAAATTAGTAACAACTTT
1 TAGTAAATTATCAATAACTTAATAATAAATTATCAATAA-TTTGTAGTAAATCAGTAACAACTTT
18430236 A
65 A
* * * * *
18430237 TAATAAATTATCAATAACTTAATAGTAAATTATCAATAATTTCGTAGTAAATCATTTATAA-TTT
1 TAGTAAATTATCAATAACTTAATAATAAATTATCAATAATTT-GTAGTAAATCAGTAACAACTTT
18430301 A
65 A
* * ** *
18430302 GTAGTAAATCATCTATAACTTAGCAATAAATTGAT-GATAATTTAGTAGTAAAT
1 -TAGTAAATTATCAATAACTTAATAATAAATT-ATCAATAATTT-GTAGTAAAT
18430355 TAACTTAATA
Statistics
Matches: 97, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
65 7 0.07
66 88 0.91
67 2 0.02
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (65 bp):
TAGTAAATTATCAATAACTTAATAATAAATTATCAATAATTTGTAGTAAATCAGTAACAACTTTA
Found at i:18430491 original size:22 final size:22
Alignment explanation
Indices: 18430406--18430499 Score: 64
Period size: 22 Copynumber: 4.2 Consensus size: 22
18430396 TAAAACATAG
*
18430406 TAGTAAATCAATGATAAA-TTAA
1 TAGTAAATCAAT-AAAAATTTAA
** * * *
18430428 TAAAAAAATAAATGAAAACTTAA
1 T-AGTAAATCAATAAAAATTTAA
* * * *
18430451 TAGTTAATGATTAATAATTTAA
1 TAGTAAATCAATAAAAATTTAA
*
18430473 TAGTAAATCAATAAAAATTTAG
1 TAGTAAATCAATAAAAATTTAA
18430495 TAGTA
1 TAGTA
18430500 GATTACAAAT
Statistics
Matches: 52, Mismatches: 18, Indels: 4
0.70 0.24 0.05
Matches are distributed among these distances:
22 39 0.75
23 13 0.25
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (22 bp):
TAGTAAATCAATAAAAATTTAA
Found at i:18430755 original size:66 final size:66
Alignment explanation
Indices: 18430669--18430973 Score: 208
Period size: 66 Copynumber: 4.5 Consensus size: 66
18430659 ATAACAGTAT
* * *
18430669 ATAGTAAATCATTGATAATTTAATAGTAAATTATTGATAATTTAGTAATAAATCATTAATAACAT
1 ATAGTAAATTATTGATAATTTAATAGTAAATTAGTAATAATTTAGTAATAAATCATTAATAAC-T
18430734 T-
65 TA
* * *
18430735 ATCGTAAATTATTGATAATTTAGCT-GTAAATTAGTAATAATTTAGTTGTAAATTAGTTAATTAT
1 ATAGTAAATTATTGATAATTTA-ATAGTAAATTAGTAATAATTTA---GT-AA-TA---AATCAT
* *
18430799 TAACAACTTC
57 TAATAACTTA
* ** * * *
18430809 ATAATAAATTATCAATAACTTT-ATAGTAAATTAGTAACAACTTTA-TAATAAATTATCAATAAC
1 ATAGTAAATTATTGATAA-TTTAATAGTAAATTAGTAATAA-TTTAGTAATAAATCATTAATAAC
18430872 TTA
64 TTA
** * * * * * * *
18430875 ATAGTAAATTATCAATAATTTAGTAGTAAATCATTTATAATTTATTAGTAAATCATTTATAACTT
1 ATAGTAAATTATTGATAATTTAATAGTAAATTAGTAATAATTTAGTAATAAATCATTAATAACTT
18430940 -
66 A
** *
18430940 AGCGATAAATTGA-TGATAATTTAGTAGTAAATTA
1 ATAG-TAAATT-ATTGATAATTTAATAGTAAATTA
18430974 ACTTAATAAT
Statistics
Matches: 191, Mismatches: 31, Indels: 34
0.75 0.12 0.13
Matches are distributed among these distances:
65 9 0.05
66 120 0.63
67 2 0.01
69 4 0.02
70 4 0.02
71 3 0.02
73 3 0.02
74 39 0.20
75 7 0.04
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (66 bp):
ATAGTAAATTATTGATAATTTAATAGTAAATTAGTAATAATTTAGTAATAAATCATTAATAACTT
A
Found at i:18430765 original size:44 final size:44
Alignment explanation
Indices: 18430670--18430941 Score: 138
Period size: 44 Copynumber: 6.0 Consensus size: 44
18430660 TAACAGTATA
* *
18430670 TAGTAAATCATTGATAATTTAATAGTAAATTATTGATAATTTAG
1 TAGTAAATCATTAATAAATTAATAGTAAATTATTGATAATTTAG
* *
18430714 TAATAAATCATTAATAACATT-ATCGTAAATTATTGATAATTTAG
1 TAGTAAATCATTAATAA-ATTAATAGTAAATTATTGATAATTTAG
* * * * * *
18430758 CT-GTAAATTAGTAATAATTTAGTTGTAAATTAGTTAATTATTAACAACTTCA-
1 -TAGTAAATCATTAATAA---A--T-T-AA-TAGTAAATTATTGATAA-TTTAG
* * * * * * * *
18430810 TAATAAATTATCAATAACTTTATAGTAAATTAGTAACAACTTTA-
1 TAGTAAATCATTAATAAATTAATAGTAAATTATTGATAA-TTTAG
* * * * **
18430854 TAATAAATTATCAATAACTTAATAGTAAATTATCAATAATTTAG
1 TAGTAAATCATTAATAAATTAATAGTAAATTATTGATAATTTAG
* * * * * *
18430898 TAGTAAATCATTTATAATTTATTAGTAAATCATTTATAACTTAG
1 TAGTAAATCATTAATAAATTAATAGTAAATTATTGATAATTTAG
18430942 CGATAAATTG
Statistics
Matches: 180, Mismatches: 35, Indels: 26
0.75 0.15 0.11
Matches are distributed among these distances:
43 4 0.02
44 137 0.76
45 4 0.02
46 2 0.01
47 1 0.01
48 1 0.01
49 1 0.01
51 2 0.01
52 25 0.14
53 3 0.02
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (44 bp):
TAGTAAATCATTAATAAATTAATAGTAAATTATTGATAATTTAG
Found at i:18430790 original size:22 final size:22
Alignment explanation
Indices: 18430670--18430795 Score: 112
Period size: 22 Copynumber: 5.7 Consensus size: 22
18430660 TAACAGTATA
* * *
18430670 TAGTAAATCATTGATAATTTAA
1 TAGTAAATTATTAATAATTTAG
*
18430692 TAGTAAATTATTGATAATTTAG
1 TAGTAAATTATTAATAATTTAG
* * *
18430714 TAATAAATCATTAATAACATTA-
1 TAGTAAATTATTAATAA-TTTAG
* *
18430736 TCGTAAATTATTGATAATTTAG
1 TAGTAAATTATTAATAATTTAG
*
18430758 CT-GTAAATTAGTAATAATTTAG
1 -TAGTAAATTATTAATAATTTAG
*
18430780 TTGTAAATTAGTTAAT
1 TAGTAAATTA-TTAAT
18430796 TATTAACAAC
Statistics
Matches: 85, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
21 4 0.05
22 73 0.86
23 8 0.09
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (22 bp):
TAGTAAATTATTAATAATTTAG
Found at i:18430828 original size:22 final size:22
Alignment explanation
Indices: 18430793--18430905 Score: 122
Period size: 22 Copynumber: 5.1 Consensus size: 22
18430783 TAAATTAGTT
* * *
18430793 AATTATTAACAACTTCATAATA
1 AATTATCAATAACTTTATAATA
*
18430815 AATTATCAATAACTTTATAGTA
1 AATTATCAATAACTTTATAATA
*
18430837 AATTAGT-AACAACTTTATAATA
1 AATTA-TCAATAACTTTATAATA
* *
18430859 AATTATCAATAACTTAATAGTA
1 AATTATCAATAACTTTATAATA
*
18430881 AATTATCAATAA-TTTAGTAGTA
1 AATTATCAATAACTTTA-TAATA
18430903 AAT
1 AAT
18430906 CATTTATAAT
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
21 4 0.05
22 73 0.94
23 1 0.01
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (22 bp):
AATTATCAATAACTTTATAATA
Found at i:18430914 original size:22 final size:22
Alignment explanation
Indices: 18430889--18430971 Score: 89
Period size: 22 Copynumber: 3.8 Consensus size: 22
18430879 TAAATTATCA
18430889 ATAATTTAGTAGTAAATCATTT
1 ATAATTTAGTAGTAAATCATTT
*
18430911 ATAATTTATTAGTAAATCATTT
1 ATAATTTAGTAGTAAATCATTT
* * * *
18430933 ATAACTTAG-CGATAAATTGA-TG
1 ATAATTTAGTAG-TAAA-TCATTT
18430955 ATAATTTAGTAGTAAAT
1 ATAATTTAGTAGTAAAT
18430972 TAACTTAATA
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
21 2 0.04
22 45 0.90
23 3 0.06
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (22 bp):
ATAATTTAGTAGTAAATCATTT
Found at i:18430957 original size:617 final size:617
Alignment explanation
Indices: 18429737--18431576 Score: 3208
Period size: 617 Copynumber: 3.0 Consensus size: 617
18429727 AAATACATAA
*
18429737 TAACTTAATAATAAATCAATTATAACATAATTATAAATTCATAATAGCATAGTAGTAAATCAATG
1 TAACTTAATAATAAATCAATTATAACATAATTGTAAATTCATAATAGCATAGTAGTAAATCAATG
* *
18429802 ATAAATTAATAAAAAAATAAACGAAAACTTAATAGTTAATGATTAATAATTTAATAGTAAATTAA
66 ATAAATTAATAAAAAAATAAATGAAAACTTAATAGTTAATGATTAATAATTTAATAGTAAATCAA
*
18429867 TAAAAATTTAGTAGTGGATTACAGATAACTTAATAGTAAATTTGTTTTAGTTTAATAGTAATTAA
131 TAAAAATTTAGTAGTAGATTACAGATAACTTAATAGTAAATTTGTTTTAGTTTAATAGTAATTAA
*
18429932 ATTATAAACTTAGCAATAAATCATAAATAACTTAGAAATAAATCAATAATAATTTAGTAATTAAT
196 ATTATAAACTTAGCAATAAATCATAAATAACTTAGAAATAAATCAATGATAATTTAGTAATTAAT
*
18429997 CACTAAAACTCAATAGTAAATCAATGATAACATAATAGCAAATGCATAACAGTATATAGTAAATC
261 CACTAAAACTCAATAGTAAATAAATGATAACATAATAGCAAATGCATAACAGTATATAGTAAATC
* * *
18430062 ATTGATAATTTAATAGTAAATTATTGATAATTTAGTAGTAAATCACTAATAACGTCATCATAAAT
326 ATTGATAATTTAATAGTAAATTATTGATAATTTAGTAATAAATCACTAATAACATCATCGTAAAT
* * *
18430127 TATTGATAACTTAGCTATAAATCAGTAATAATTTAGTTGTAAATTAGTTAATTATTAATAACTTC
391 TATTGATAATTTAGCTGTAAATCAGTAATAATTTAGTTGTAAATTAGTTAATTATTAACAACTTC
18430192 ATAATAAATTATCAATAACTTTATAGTAAATTAGTAACAACTTTATAATAAATTATCAATAACTT
456 ATAATAAATTATCAATAACTTTATAGTAAATTAGTAACAACTTTATAATAAATTATCAATAACTT
*
18430257 AATAGTAAATTATCAATAATTTCGTAGTAAATCATTTATAATTTAGTAGTAAATCATCTATAACT
521 AATAGTAAATTATCAATAATTT-GTAGTAAATCATTTATAATTTAGTAGTAAATCATTTATAACT
*
18430322 TAGCAATAAATTGATGATAATTTAGTAGTAAAT
585 TAGCGATAAATTGATGATAATTTAGTAGTAAAT
* *
18430355 TAACTTAATAATAAATCACTTATAACATAATTGTAAATTCATAA-AACATAGTAGTAAATCAATG
1 TAACTTAATAATAAATCAATTATAACATAATTGTAAATTCATAATAGCATAGTAGTAAATCAATG
18430419 ATAAATTAATAAAAAAATAAATGAAAACTTAATAGTTAATGATTAATAATTTAATAGTAAATCAA
66 ATAAATTAATAAAAAAATAAATGAAAACTTAATAGTTAATGATTAATAATTTAATAGTAAATCAA
*
18430484 TAAAAATTTAGTAGTAGATTACAAATAACTTAATAGTAAATTTGTTTTAGTTTAATAGTAATTAA
131 TAAAAATTTAGTAGTAGATTACAGATAACTTAATAGTAAATTTGTTTTAGTTTAATAGTAATTAA
*
18430549 ATTATAAACTTAGCAATAAATCATAAATAACTTAAAAATAAATCAATGATAATTTAGTAATTAAT
196 ATTATAAACTTAGCAATAAATCATAAATAACTTAGAAATAAATCAATGATAATTTAGTAATTAAT
*
18430614 CACTAAAACTCAATAGTAAATAAATGATAATATAATAGCAAATGCATAACAGTATATAGTAAATC
261 CACTAAAACTCAATAGTAAATAAATGATAACATAATAGCAAATGCATAACAGTATATAGTAAATC
* *
18430679 ATTGATAATTTAATAGTAAATTATTGATAATTTAGTAATAAATCATTAATAACATTATCGTAAAT
326 ATTGATAATTTAATAGTAAATTATTGATAATTTAGTAATAAATCACTAATAACATCATCGTAAAT
*
18430744 TATTGATAATTTAGCTGTAAATTAGTAATAATTTAGTTGTAAATTAGTTAATTATTAACAACTTC
391 TATTGATAATTTAGCTGTAAATCAGTAATAATTTAGTTGTAAATTAGTTAATTATTAACAACTTC
18430809 ATAATAAATTATCAATAACTTTATAGTAAATTAGTAACAACTTTATAATAAATTATCAATAACTT
456 ATAATAAATTATCAATAACTTTATAGTAAATTAGTAACAACTTTATAATAAATTATCAATAACTT
*
18430874 AATAGTAAATTATCAATAATTTAGTAGTAAATCATTTATAATTTATTAGTAAATCATTTATAACT
521 AATAGTAAATTATCAATAATTT-GTAGTAAATCATTTATAATTTAGTAGTAAATCATTTATAACT
18430939 TAGCGATAAATTGATGATAATTTAGTAGTAAAT
585 TAGCGATAAATTGATGATAATTTAGTAGTAAAT
*
18430972 TAACTTAATAATAAATCAATTATAACATAATTGTAAATTCATAATAGCATAATAGTAAATCAATG
1 TAACTTAATAATAAATCAATTATAACATAATTGTAAATTCATAATAGCATAGTAGTAAATCAATG
18431037 ATAAATTAAT-AAAAAA-AAATGAAAACTTAATAGTTAATG-------A-TTAATA--AAATCAA
66 ATAAATTAATAAAAAAATAAATGAAAACTTAATAGTTAATGATTAATAATTTAATAGTAAATCAA
*
18431090 TAAAAATTTAGTAGTAGATTATAGATAACTTAATAGTAAATTTGTTTTAGTTTAATAGTAATTAA
131 TAAAAATTTAGTAGTAGATTACAGATAACTTAATAGTAAATTTGTTTTAGTTTAATAGTAATTAA
* *
18431155 ATTATAAACTTAGCAATAAATCATAAATAACTTAGAAATAAATAAATGATAATTTAATAATTAAT
196 ATTATAAACTTAGCAATAAATCATAAATAACTTAGAAATAAATCAATGATAATTTAGTAATTAAT
* * * *
18431220 CACTAAAACTCAATAGTAAATTAATGATAACATAGTAGTAAATGCATAATAGTATATAGTAAATC
261 CACTAAAACTCAATAGTAAATAAATGATAACATAATAGCAAATGCATAACAGTATATAGTAAATC
18431285 ATTGATAATTTAGA-AGTAAATTATTGATAATTTAG-AAGTAAATCACTAATAACATCATCGTAA
326 ATTGATAATTTA-ATAGTAAATTATTGATAATTTAGTAA-TAAATCACTAATAACATCATCGTAA
*
18431348 ATTATTGATAATTTAGCTGTAAATCAGTAATAATTTAGTTGTAAATTAGTTAATTATTAACAAAT
389 ATTATTGATAATTTAGCTGTAAATCAGTAATAATTTAGTTGTAAATTAGTTAATTATTAACAACT
18431413 TCATAATAAATTATCAATAA-TTTCATAGTAAATTAGTAACAACTTTATAATAAATTATCAATAA
454 TCATAATAAATTATCAATAACTTT-ATAGTAAATTAGTAACAACTTTATAATAAATTATCAATAA
** *
18431477 CTTAATAGTAAATTATCAATAATTTGTAGTAAATTGTTTATAACTTAGTAGTAAATCATTTATAA
518 CTTAATAGTAAATTATCAATAATTTGTAGTAAATCATTTATAATTTAGTAGTAAATCATTTATAA
18431542 CTTAGCGATAAATTGATGATAATTTAGTAGTAAAT
583 CTTAGCGATAAATTGATGATAATTTAGTAGTAAAT
18431577 CATTGATAAG
Statistics
Matches: 1173, Mismatches: 45, Indels: 21
0.95 0.04 0.02
Matches are distributed among these distances:
605 76 0.06
606 396 0.34
607 1 0.00
608 6 0.01
609 1 0.00
616 23 0.02
617 600 0.51
618 70 0.06
ACGTcount: A:0.48, C:0.07, G:0.08, T:0.37
Consensus pattern (617 bp):
TAACTTAATAATAAATCAATTATAACATAATTGTAAATTCATAATAGCATAGTAGTAAATCAATG
ATAAATTAATAAAAAAATAAATGAAAACTTAATAGTTAATGATTAATAATTTAATAGTAAATCAA
TAAAAATTTAGTAGTAGATTACAGATAACTTAATAGTAAATTTGTTTTAGTTTAATAGTAATTAA
ATTATAAACTTAGCAATAAATCATAAATAACTTAGAAATAAATCAATGATAATTTAGTAATTAAT
CACTAAAACTCAATAGTAAATAAATGATAACATAATAGCAAATGCATAACAGTATATAGTAAATC
ATTGATAATTTAATAGTAAATTATTGATAATTTAGTAATAAATCACTAATAACATCATCGTAAAT
TATTGATAATTTAGCTGTAAATCAGTAATAATTTAGTTGTAAATTAGTTAATTATTAACAACTTC
ATAATAAATTATCAATAACTTTATAGTAAATTAGTAACAACTTTATAATAAATTATCAATAACTT
AATAGTAAATTATCAATAATTTGTAGTAAATCATTTATAATTTAGTAGTAAATCATTTATAACTT
AGCGATAAATTGATGATAATTTAGTAGTAAAT
Found at i:18430972 original size:22 final size:23
Alignment explanation
Indices: 18430867--18430972 Score: 87
Period size: 22 Copynumber: 4.8 Consensus size: 23
18430857 TAAATTATCA
* * **
18430867 ATAACTTAATAGTAAATT-ATCA
1 ATAATTTAGTAGTAAATTCATTT
18430889 ATAATTTAGTAGTAAA-TCATTT
1 ATAATTTAGTAGTAAATTCATTT
*
18430911 ATAATTTATTAGTAAA-TCATTT
1 ATAATTTAGTAGTAAATTCATTT
* * * *
18430933 ATAACTTAG-CGATAAATTGA-TG
1 ATAATTTAGTAG-TAAATTCATTT
18430955 ATAATTTAGTAGTAAATT
1 ATAATTTAGTAGTAAATT
18430973 AACTTAATAA
Statistics
Matches: 68, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
21 2 0.03
22 63 0.93
23 3 0.04
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (23 bp):
ATAATTTAGTAGTAAATTCATTT
Found at i:18431002 original size:22 final size:22
Alignment explanation
Indices: 18430972--18431048 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 22
18430962 AGTAGTAAAT
* *
18430972 TAACTTAATAATAAATCAATTA
1 TAACATAATAATAAATCAATAA
**
18430994 TAACATAATTGTAAATTC-ATAA
1 TAACATAATAATAAA-TCAATAA
* * *
18431016 TAGCATAATAGTAAATCAATGA
1 TAACATAATAATAAATCAATAA
18431038 TAA-ATTAATAA
1 TAACA-TAATAA
18431049 AAAAAAATGA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
21 3 0.07
22 38 0.88
23 2 0.05
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (22 bp):
TAACATAATAATAAATCAATAA
Found at i:18431303 original size:65 final size:66
Alignment explanation
Indices: 18431234--18431363 Score: 165
Period size: 65 Copynumber: 2.0 Consensus size: 66
18431224 AAAACTCAAT
* **
18431234 AGTAAATTAATGATAACATAGTAGTAAATGCA-TAATAGTAT-ATAGTAAATCATTGATAATTTA
1 AGTAAATTAATGATAACATAGAAGTAAAT-CACTAATAACATCATAGTAAATCATTGATAATTTA
18431297 GA
65 GA
* ** * *
18431299 AGTAAATTATTGATAATTTAGAAGTAAATCACTAATAACATCATCGTAAATTATTGATAATTTAG
1 AGTAAATTAATGATAACATAGAAGTAAATCACTAATAACATCATAGTAAATCATTGATAATTTAG
18431364 CTGTAAATCA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
64 2 0.04
65 32 0.58
66 21 0.38
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.35
Consensus pattern (66 bp):
AGTAAATTAATGATAACATAGAAGTAAATCACTAATAACATCATAGTAAATCATTGATAATTTAG
A
Found at i:18431336 original size:22 final size:22
Alignment explanation
Indices: 18431277--18431329 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
18431267 AATAGTATAT
18431277 AGTAAATCATTGATAATTTAGA
1 AGTAAATCATTGATAATTTAGA
*
18431299 AGTAAATTATTGATAATTTAGA
1 AGTAAATCATTGATAATTTAGA
18431321 AGTAAATCA
1 AGTAAATCA
18431330 CTAATAACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.47, C:0.04, G:0.13, T:0.36
Consensus pattern (22 bp):
AGTAAATCATTGATAATTTAGA
Found at i:18431392 original size:44 final size:44
Alignment explanation
Indices: 18431277--18431395 Score: 132
Period size: 44 Copynumber: 2.7 Consensus size: 44
18431267 AATAGTATAT
* * *
18431277 AGTAAATCATTGATAATTTAGAAGTAAATTATTGATAATTTAGA
1 AGTAAATCACTAATAATTTAGTAGTAAATTATTGATAATTTAGA
* * * *
18431321 AGTAAATCACTAATAACATCA-TCGTAAATTATTGATAATTTAGC
1 AGTAAATCACTAATAA-TTTAGTAGTAAATTATTGATAATTTAGA
* * *
18431365 TGTAAATCAGTAATAATTTAGTTGTAAATTA
1 AGTAAATCACTAATAATTTAGTAGTAAATTA
18431396 GTTAATTATT
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
43 2 0.03
44 57 0.93
45 2 0.03
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.38
Consensus pattern (44 bp):
AGTAAATCACTAATAATTTAGTAGTAAATTATTGATAATTTAGA
Found at i:18431431 original size:11 final size:10
Alignment explanation
Indices: 18431399--18431498 Score: 56
Period size: 11 Copynumber: 9.1 Consensus size: 10
18431389 TAAATTAGTT
*
18431399 AATTATTAACA
1 AATTA-TAATA
18431410 AATTCATAATA
1 AATT-ATAATA
18431421 AATTATCAATA
1 AATTAT-AATA
* *
18431432 ATTTCATAGTA
1 AATT-ATAATA
*
18431443 AATTAGTAACA
1 AATTA-TAATA
*
18431454 ACTTTATAATA
1 A-ATTATAATA
18431465 AATTATCAATA
1 AATTAT-AATA
* *
18431476 ACTTAATAGTA
1 AATT-ATAATA
18431487 AATTATCAATA
1 AATTAT-AATA
18431498 A
1 A
18431499 TTTGTAGTAA
Statistics
Matches: 68, Mismatches: 13, Indels: 16
0.70 0.13 0.16
Matches are distributed among these distances:
10 9 0.13
11 51 0.75
12 8 0.12
ACGTcount: A:0.51, C:0.09, G:0.03, T:0.37
Consensus pattern (10 bp):
AATTATAATA
Found at i:18431437 original size:22 final size:22
Alignment explanation
Indices: 18431412--18431501 Score: 103
Period size: 22 Copynumber: 4.1 Consensus size: 22
18431402 TATTAACAAA
18431412 TTCATAATAAATTATCAATAAT
1 TTCATAATAAATTATCAATAAT
* *
18431434 TTCATAGTAAATTAGT-AACAACT
1 TTCATAATAAATTA-TCAATAA-T
*
18431457 TT-ATAATAAATTATCAATAAC
1 TTCATAATAAATTATCAATAAT
* *
18431478 TTAATAGTAAATTATCAATAAT
1 TTCATAATAAATTATCAATAAT
18431500 TT
1 TT
18431502 GTAGTAAATT
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
21 3 0.05
22 50 0.88
23 4 0.07
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (22 bp):
TTCATAATAAATTATCAATAAT
Found at i:18431453 original size:44 final size:44
Alignment explanation
Indices: 18431394--18431491 Score: 142
Period size: 44 Copynumber: 2.2 Consensus size: 44
18431384 AGTTGTAAAT
* * * *
18431394 TAGTTAATTATTAACAAATTCATAATAAATTATCAATAATTTCA
1 TAGTAAATTAGTAACAAATTCATAATAAATTATCAATAACTTAA
* *
18431438 TAGTAAATTAGTAACAACTTTATAATAAATTATCAATAACTTAA
1 TAGTAAATTAGTAACAAATTCATAATAAATTATCAATAACTTAA
18431482 TAGTAAATTA
1 TAGTAAATTA
18431492 TCAATAATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (44 bp):
TAGTAAATTAGTAACAAATTCATAATAAATTATCAATAACTTAA
Found at i:18431530 original size:22 final size:22
Alignment explanation
Indices: 18431463--18431585 Score: 90
Period size: 22 Copynumber: 5.6 Consensus size: 22
18431453 AACTTTATAA
** *
18431463 TAAATTATCAATAACTTAATAG
1 TAAATTATTTATAACTTAGTAG
** *
18431485 TAAATTATCAATAA-TTTGTAG
1 TAAATTATTTATAACTTAGTAG
*
18431506 TAAATTGTTTATAACTTAGTAG
1 TAAATTATTTATAACTTAGTAG
* *
18431528 TAAATCATTTATAACTTAG-CG
1 TAAATTATTTATAACTTAGTAG
* *
18431549 ATAAATTGA-TGATAATTTAGTAG
1 -TAAATT-ATTTATAACTTAGTAG
* *
18431572 TAAATCATTGATAA
1 TAAATTATTTATAA
18431586 GATAATAATA
Statistics
Matches: 82, Mismatches: 14, Indels: 10
0.77 0.13 0.09
Matches are distributed among these distances:
21 18 0.22
22 62 0.76
23 2 0.02
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.40
Consensus pattern (22 bp):
TAAATTATTTATAACTTAGTAG
Found at i:18434171 original size:18 final size:18
Alignment explanation
Indices: 18434148--18434183 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
18434138 AAGCACAAAC
18434148 GGCATGCAGTTATGGCTT
1 GGCATGCAGTTATGGCTT
18434166 GGCATGCAGTTATGGCTT
1 GGCATGCAGTTATGGCTT
18434184 CATGAGTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (18 bp):
GGCATGCAGTTATGGCTT
Found at i:18436242 original size:6 final size:6
Alignment explanation
Indices: 18436231--18436277 Score: 85
Period size: 6 Copynumber: 7.8 Consensus size: 6
18436221 ATTTCTACTT
*
18436231 CATGAC CATGAC CATGAC CATGAC CATGAC CATGAC CATAAC CATGA
1 CATGAC CATGAC CATGAC CATGAC CATGAC CATGAC CATGAC CATGA
18436278 ATATAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.36, C:0.32, G:0.15, T:0.17
Consensus pattern (6 bp):
CATGAC
Found at i:18444685 original size:5 final size:5
Alignment explanation
Indices: 18444677--18444702 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
18444667 CCCAAACAAG
18444677 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
18444703 AACCTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:18451000 original size:7 final size:7
Alignment explanation
Indices: 18450988--18451012 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18450978 TGTACTAAAC
18450988 AAAAAAT
1 AAAAAAT
18450995 AAAAAAT
1 AAAAAAT
18451002 AAAAAAT
1 AAAAAAT
18451009 AAAA
1 AAAA
18451013 CAGAAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:18454316 original size:23 final size:23
Alignment explanation
Indices: 18454286--18454354 Score: 138
Period size: 23 Copynumber: 3.0 Consensus size: 23
18454276 TATAGTGACC
18454286 AACTTTAATTGGCTTTACTACAG
1 AACTTTAATTGGCTTTACTACAG
18454309 AACTTTAATTGGCTTTACTACAG
1 AACTTTAATTGGCTTTACTACAG
18454332 AACTTTAATTGGCTTTACTACAG
1 AACTTTAATTGGCTTTACTACAG
18454355 GTTTCAAAGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.39
Consensus pattern (23 bp):
AACTTTAATTGGCTTTACTACAG
Found at i:18463745 original size:31 final size:30
Alignment explanation
Indices: 18463701--18463780 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
18463691 AATTTTATGA
* *
18463701 ATAATCTTTAAATTATAATAAAATATTTAAT
1 ATAATATTTAAATTATAA-AAAATATCTAAT
* * *
18463732 GTAATATTTAAATTTTAAAAAATCTCTAAT
1 ATAATATTTAAATTATAAAAAATATCTAAT
* *
18463762 ATGATACTTAAATTATAAA
1 ATAATATTTAAATTATAAA
18463781 TCTATTTATT
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
30 25 0.62
31 15 0.38
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (30 bp):
ATAATATTTAAATTATAAAAAATATCTAAT
Found at i:18472296 original size:12 final size:12
Alignment explanation
Indices: 18472275--18472308 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
18472265 ATATAGAAAG
18472275 AATATATTATTT
1 AATATATTATTT
*
18472287 AATATTTTATTT
1 AATATATTATTT
18472299 AATTATATTA
1 AA-TATATTA
18472309 CTAATTCGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
AATATATTATTT
Found at i:18472803 original size:244 final size:243
Alignment explanation
Indices: 18472489--18473258 Score: 630
Period size: 244 Copynumber: 3.1 Consensus size: 243
18472479 AAAAAAGAGT
* * * * * * *
18472489 CTAATATTGGATAAGCACAGCGTTTTAGTTATTATAAA-AGTAATGTTTGAGTAATCTTAAAATT
1 CTAATATTGGATAAGCACAACATTTTA-TCATTATAAACA-CAATATTTGAATAATCATAAAATT
* *
18472553 AATTAATTAAATAAAAAGTAATATTT-A-ATTAACAAGTATAATATTTTTTTTTATAAATGCCCT
64 AATTAATTAAATAAAAAGTAATATTTGACA-T-ACAAG-A-AAT-TTTTTTTTTACAAACGCCCT
*** ** * * *
18472616 AATATTAGATTGGCA-AGTGTTTCAG-TCATTATAAATGCAATATTTGAATAATAT-TAAAATTC
124 AATATTAGACAAGCACAAAGTTT-AGCTCATTATAAACG-AATATTTAAATAAT-TCTAAAA-CC
* *
18472678 AATTAATTAAATAAAACATGATATTTAACAA-G-C-ATGATTTT-TTTTTATAAAC-TC
185 AATTAATTAAATAAAACATAATATTTAACAAGGACAAAGATTTTCTTTTTATAAACATC
* * *
18472732 CTTAATATTGGATAAGCACAACTTTTTGATCATTATAAACACAATATTTGAATAATCCTAAAATC
1 C-TAATATTGGATAAGCACAACATTTT-ATCATTATAAACACAATATTTGAATAATCATAAAATT
* * ** *
18472797 AATTAATTAAATAAAAAGTAATATTTGACATGCACGACCTTTTTTTTTTACAAACGCCTTAATAT
64 AATTAATTAAATAAAAAGTAATATTTGACATACAAGAAATTTTTTTTTTACAAACGCCCTAATAT
* * * * * *
18472862 TGGACAAGCACAAAGTTTTGCTTATTATAAACGAGTGTTTAAATAATTCTAAAACCAATTATTTA
129 TAGACAAGCACAAAGTTTAGCTCATTATAAACGAATATTTAAATAATTCTAAAACCAATTAATTA
*
18472927 AATAAAACATAATATTTAACAAGGACAAAGTTTTTCTTTTTATAAACATC
194 AATAAAACATAATATTTAACAAGGACAAAGATTTTCTTTTTATAAACATC
* * *
18472977 CTAATATTGGATAAGCATAACATTTCAATCATTATAAACACAGTATTTGAATAATCATAAAATTA
1 CTAATATTGGATAAGCACAACATTT-TATCATTATAAACACAATATTTGAATAATCATAAAATTA
* ** * * * * *
18473042 ATTAATTAAACAAAACTTAATATTTGATA-ATCACA-AAGTTTTTCTTTTTATAAACGTCTTAAT
65 ATTAATTAAATAAAAAGTAATATTTGACATA-CA-AGAAATTTTT-TTTTTACAAACGCCCTAAT
* * ** ** * * ** * * * * *
18473105 ATTGGATAAGCATGACTTTTTGCTTACAATAAATGAGTGTTTAAATTATTCTAAAACCAATTATT
127 ATTAGACAAGCACAAAGTTTAGCTCATTATAAACGAATATTTAAATAATTCTAAAACCAATTAAT
* ** * * * *
18473170 TAAATAAAATATAATATTTAACAAGGATGATGTTTTTCTTTTTACAAAACGTC
192 TAAATAAAACATAATATTTAACAAGGACAAAGATTTTCTTTTTA-TAAACATC
* ** * *
18473223 CTAATAATCAATAAGCACAACGTTTTAGCCATTATA
1 CTAATATTGGATAAGCACAACATTTTA-TCATTATA
18473259 TTTGATAAGC
Statistics
Matches: 438, Mismatches: 70, Indels: 35
0.81 0.13 0.06
Matches are distributed among these distances:
240 31 0.07
241 46 0.11
242 17 0.04
243 8 0.02
244 181 0.41
245 121 0.28
246 34 0.08
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (243 bp):
CTAATATTGGATAAGCACAACATTTTATCATTATAAACACAATATTTGAATAATCATAAAATTAA
TTAATTAAATAAAAAGTAATATTTGACATACAAGAAATTTTTTTTTTACAAACGCCCTAATATTA
GACAAGCACAAAGTTTAGCTCATTATAAACGAATATTTAAATAATTCTAAAACCAATTAATTAAA
TAAAACATAATATTTAACAAGGACAAAGATTTTCTTTTTATAAACATC
Found at i:18472889 original size:122 final size:122
Alignment explanation
Indices: 18472641--18473116 Score: 491
Period size: 122 Copynumber: 3.9 Consensus size: 122
18472631 AGTGTTTCAG
** ** *
18472641 TCATTATAAATGCAATATTTGAATAATATTAAAATTCAATTAATTAAATAAAACATGATATTTAA
1 TCATTATAAACACAATATTTGAATAATCCTAAAA-TCAATTAATTAAATAAAACATAATATTTAA
* * * *
18472706 CAAG--C-ATGATTTT-TTTTTATAAACTCCTTAATATTGGATAAGCACAACTTTTTGA
65 CAAGCACAAAGTTTTTCTTTTTATAAACGCCTTAATATTGGATAAGCACAA-ATTTTGA
*
18472761 TCATTATAAACACAATATTTGAATAATCCTAAAATCAATTAATTAAATAAAA-AGTAATATTTGA
1 TCATTATAAACACAATATTTGAATAATCCTAAAATCAATTAATTAAATAAAACA-TAATATTTAA
* * ** * * *
18472825 CATGCACGACCTTTTT-TTTTTACAAACGCCTTAATATTGGACAAGCACAAAGTTTTGC
65 CAAGCACAAAGTTTTTCTTTTTATAAACGCCTTAATATTGGATAAGCACAAA-TTTTGA
* * * * * * * *
18472883 TTATTATAAAC-GAGTGTTTAAATAATTCTAAAACCAATTATTTAAATAAAACATAATATTTAAC
1 TCATTATAAACACAATATTTGAATAATCCTAAAATCAATTAATTAAATAAAACATAATATTTAAC
* * * **
18472947 AAGGACAAAGTTTTTCTTTTTATAAACATCC-TAATATTGGATAAGCATAACATTTCAA
66 AAGCACAAAGTTTTTCTTTTTATAAAC-GCCTTAATATTGGATAAGCACAA-ATTTTGA
* * * * * * *
18473005 TCATTATAAACACAGTATTTGAATAATCATAAAATTAATTAATTAAACAAAACTTAATATTTGAT
1 TCATTATAAACACAATATTTGAATAATCCTAAAATCAATTAATTAAATAAAACATAATATTTAAC
* *
18473070 AATCACAAAGTTTTTCTTTTTATAAACGTCTTAATATTGGATAAGCA
66 AAGCACAAAGTTTTTCTTTTTATAAACGCCTTAATATTGGATAAGCA
18473117 TGACTTTTTG
Statistics
Matches: 292, Mismatches: 53, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
118 1 0.00
119 29 0.10
120 30 0.10
121 54 0.18
122 93 0.32
123 85 0.29
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (122 bp):
TCATTATAAACACAATATTTGAATAATCCTAAAATCAATTAATTAAATAAAACATAATATTTAAC
AAGCACAAAGTTTTTCTTTTTATAAACGCCTTAATATTGGATAAGCACAAATTTTGA
Found at i:18473057 original size:123 final size:122
Alignment explanation
Indices: 18472490--18473116 Score: 485
Period size: 122 Copynumber: 5.1 Consensus size: 122
18472480 AAAAAGAGTC
* * * * * * * * * *
18472490 TAATATTGGATAAGCACAGCGTTTTAGTTATTATAAA-AGTAATGTTTGAGTAATCTTAAAATTA
1 TAATATTGGATAAGCACAACATTTCAATCATTATAAACA-CAATATTTGAATAATCATAAAATCA
* * *
18472554 ATTAATTAAATAAAA-AGTAATATTTAATTAA-CA-AGTATAATATTTTTTTTTATAAA-TGCCC
65 ATTAATTAAATAAAACA-TAATATTTAA-CAAGCACA--A-AGT-TTTTTTTTTATAAACT-CCT
* ** *** * **
18472615 TAATATTAGATTGGCA-AGTGTTTCAGTCATTATAAATGCAATATTTGAATAAT-ATTAAAATTC
1 TAATATTGGATAAGCACAACATTTCAATCATTATAAACACAATATTTGAATAATCA-TAAAA-TC
* * *
18472678 AATTAATTAAATAAAACATGATATTTAACAAG--C-ATGATTTTTTTTTATAAACTCCT
64 AATTAATTAAATAAAACATAATATTTAACAAGCACAAAGTTTTTTTTTTATAAACTCCT
* ** *
18472734 TAATATTGGATAAGCACAACTTTTTGATCATTATAAACACAATATTTGAATAATCCTAAAATCAA
1 TAATATTGGATAAGCACAACATTTCAATCATTATAAACACAATATTTGAATAATCATAAAATCAA
* * * ** * *
18472799 TTAATTAAATAAAA-AGTAATATTTGACATGCACGACCTTTTTTTTTTACAAACGCCT
66 TTAATTAAATAAAACA-TAATATTTAACAAGCACAAAGTTTTTTTTTTATAAACTCCT
* *** * * * * * *
18472856 TAATATTGGACAAGCACAA-AGTTTTGCTTATTATAAAC-GAGTGTTTAAATAATTC-TAAAACC
1 TAATATTGGATAAGCACAACA-TTTCAATCATTATAAACACAATATTTGAATAA-TCATAAAATC
* *
18472918 AATTATTTAAATAAAACATAATATTTAACAAGGACAAAGTTTTTCTTTTTATAAACATCC-
64 AATTAATTAAATAAAACATAATATTTAACAAGCACAAAGTTTTT-TTTTTATAAAC-TCCT
* * *
18472978 TAATATTGGATAAGCATAACATTTCAATCATTATAAACACAGTATTTGAATAATCATAAAATTAA
1 TAATATTGGATAAGCACAACATTTCAATCATTATAAACACAATATTTGAATAATCATAAAATCAA
* * * * *
18473043 TTAATTAAACAAAACTTAATATTTGATAATCACAAAGTTTTTCTTTTTATAAACGT-CT
66 TTAATTAAATAAAACATAATATTTAACAAGCACAAAGTTTTT-TTTTTATAAAC-TCCT
18473101 TAATATTGGATAAGCA
1 TAATATTGGATAAGCA
18473117 TGACTTTTTG
Statistics
Matches: 405, Mismatches: 75, Indels: 46
0.77 0.14 0.09
Matches are distributed among these distances:
118 1 0.00
119 58 0.14
120 35 0.09
121 53 0.13
122 97 0.24
123 85 0.21
124 36 0.09
125 39 0.10
126 1 0.00
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (122 bp):
TAATATTGGATAAGCACAACATTTCAATCATTATAAACACAATATTTGAATAATCATAAAATCAA
TTAATTAAATAAAACATAATATTTAACAAGCACAAAGTTTTTTTTTTATAAACTCCT
Found at i:18473137 original size:123 final size:122
Alignment explanation
Indices: 18472641--18473193 Score: 480
Period size: 122 Copynumber: 4.5 Consensus size: 122
18472631 AGTGTTTCAG
** * *
18472641 TCATTATAAATGCAATATTTGAATAAT-ATTAAAATTCAATTAATTAAATAAAACATGATATTTA
1 TCATTATAAACACAGTATTTGAATAATCA-TAAAA-TCAATTAATTAAATAAAACATAATATTTA
* * *
18472705 ACAA--GC-ATGATTTTTTTTTATAAAC-TCCTTAATATTGGATAAGCACAACTTTTTGA
64 ACAATCACAAAGTTTTTTTTTTATAAACGT-CTTAATATTGGATAAGCACAACTTTTTGA
* * *
18472761 TCATTATAAACACAATATTTGAATAATCCTAAAATCAATTAATTAAATAAAA-AGTAATATTTGA
1 TCATTATAAACACAGTATTTGAATAATCATAAAATCAATTAATTAAATAAAACA-TAATATTTAA
* ** * * * ** *
18472825 C-ATGCACGACCTTTTTTTTTTACAAACGCCTTAATATTGGACAAGCACAAAGTTTTGC
65 CAAT-CACAAAGTTTTTTTTTTATAAACGTCTTAATATTGGATAAGCACAACTTTTTGA
* * * * * *
18472883 TTATTATAAAC-GAGTGTTTAAATAATTC-TAAAACCAATTATTTAAATAAAACATAATATTTAA
1 TCATTATAAACACAGTATTTGAATAA-TCATAAAATCAATTAATTAAATAAAACATAATATTTAA
** * * * * **
18472946 CAAGGACAAAGTTTTTCTTTTTATAAACATCCTAATATTGGATAAGCATAACATTTCAA
65 CAATCACAAAGTTTTT-TTTTTATAAACGTCTTAATATTGGATAAGCACAACTTTTTGA
* * * * *
18473005 TCATTATAAACACAGTATTTGAATAATCATAAAATTAATTAATTAAACAAAACTTAATATTTGAT
1 TCATTATAAACACAGTATTTGAATAATCATAAAATCAATTAATTAAATAAAACATAATATTTAAC
** *
18473070 AATCACAAAGTTTTTCTTTTTATAAACGTCTTAATATTGGATAAGCATGACTTTTTGC
66 AATCACAAAGTTTTT-TTTTTATAAACGTCTTAATATTGGATAAGCACAACTTTTTGA
* ** ** * * * * * *
18473128 TTACAATAAA-TGAGTGTTTAAATTATTC-TAAAACCAATTATTTAAATAAAATATAATATTTAA
1 TCATTATAAACACAGTATTTGAA-TAATCATAAAATCAATTAATTAAATAAAACATAATATTTAA
18473191 CAA
65 CAA
18473194 GGATGATGTT
Statistics
Matches: 344, Mismatches: 75, Indels: 26
0.77 0.17 0.06
Matches are distributed among these distances:
118 2 0.01
119 27 0.08
120 30 0.09
121 50 0.15
122 135 0.39
123 100 0.29
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.38
Consensus pattern (122 bp):
TCATTATAAACACAGTATTTGAATAATCATAAAATCAATTAATTAAATAAAACATAATATTTAAC
AATCACAAAGTTTTTTTTTTATAAACGTCTTAATATTGGATAAGCACAACTTTTTGA
Found at i:18473195 original size:245 final size:242
Alignment explanation
Indices: 18472677--18473243 Score: 719
Period size: 245 Copynumber: 2.3 Consensus size: 242
18472667 TATTAAAATT
* * *
18472677 CAATTAATTAAATAAAACATGATATTTAACAA-G-CATGATTTT-TTTTTATAAACTCCTTAATA
1 CAATTATTTAAATAAAACATAATATTTAACAAGGACATGTTTTTCTTTTTATAAACTCC-TAATA
* ** *
18472739 TTGGATAAGCACAACTTTTTGATCATTATAAACACAATATTTGAATAATCCTAAAATCAATTAAT
65 TTGGATAAGCACAACATTTCAATCATTATAAACACAATATTTGAATAATCATAAAATCAATTAAT
* * * *
18472804 TAAATAAAAAGTAATATTTGACATGCACGACCTTTTTTTTTTACAAACGCCTTAATATTGGACAA
130 TAAACAAAAAGTAATATTTGAAATGCACAAACTTTTTTTTTTACAAACGCCTTAATATTGGACAA
**
18472869 GCACAAAGTTTTGCTTATTATAAACGAGTGTTTAAATAATTCTAAAAC
195 GCACAAAGTTTTGCTTACAATAAACGAGTGTTTAAATAATTCTAAAAC
*
18472917 CAATTATTTAAATAAAACATAATATTTAACAAGGACAAAGTTTTTCTTTTTATAAACATCCTAAT
1 CAATTATTTAAATAAAACATAATATTTAACAAGGAC-ATGTTTTTCTTTTTATAAAC-TCCTAAT
* * *
18472982 ATTGGATAAGCATAACATTTCAATCATTATAAACACAGTATTTGAATAATCATAAAATTAATTAA
64 ATTGGATAAGCACAACATTTCAATCATTATAAACACAATATTTGAATAATCATAAAATCAATTAA
** * * *
18473047 TTAAACAAAACTTAATATTTGATAAT-CACAAAGTTTTTCTTTTTATAAACGTCTTAATATTGGA
129 TTAAACAAAAAGTAATATTTGA-AATGCACAAACTTTTT-TTTTTACAAACGCCTTAATATTGGA
* ** ** * *
18473111 TAAGCATGACTTTTTGCTTACAATAAATGAGTGTTTAAATTATTCTAAAAC
192 CAAGCACAAAGTTTTGCTTACAATAAACGAGTGTTTAAATAATTCTAAAAC
* * *
18473162 CAATTATTTAAATAAAATATAATATTTAACAAGGATGATGTTTTTCTTTTTACAAAACGTCCTAA
1 CAATTATTTAAATAAAACATAATATTTAACAAGGA-CATGTTTTTCTTTTTA-TAAAC-TCCTAA
* **
18473227 TAATCAATAAGCACAAC
63 TATTGGATAAGCACAAC
18473244 GTTTTAGCCA
Statistics
Matches: 280, Mismatches: 38, Indels: 12
0.85 0.12 0.04
Matches are distributed among these distances:
240 30 0.11
241 1 0.00
242 1 0.00
243 6 0.02
244 101 0.36
245 118 0.42
246 23 0.08
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (242 bp):
CAATTATTTAAATAAAACATAATATTTAACAAGGACATGTTTTTCTTTTTATAAACTCCTAATAT
TGGATAAGCACAACATTTCAATCATTATAAACACAATATTTGAATAATCATAAAATCAATTAATT
AAACAAAAAGTAATATTTGAAATGCACAAACTTTTTTTTTTACAAACGCCTTAATATTGGACAAG
CACAAAGTTTTGCTTACAATAAACGAGTGTTTAAATAATTCTAAAAC
Found at i:18477112 original size:195 final size:191
Alignment explanation
Indices: 18476718--18477216 Score: 495
Period size: 194 Copynumber: 2.6 Consensus size: 191
18476708 AAATTAAACT
* * * *
18476718 TAACAAAGAAGGC-TTTTTTATAAGCTAAACATAGTATTATAATCAAATATTTTATTAATT-GAA
1 TAACAAATAAGACGTTTTTTATAAGCT-AACATAGTATTATAATAAAATATCTTATT-ATTCGAA
* * * *
18476781 ATTTAACTTGACAAAAATTATGTTTTCATATTAAAAAACATAGTATTTGTATAATTTATCAAATT
64 ATTTAACTTGACAAAAATGACGTTTTCATATTAAAAAACATAATATTTGTATAATCTATCAAATT
* ** * * *
18476846 TAAAATTTTAATTAGTTAACTGCGATGTTTTTATCTTTATAAACATAATAATTATCATTAACT
129 TAAAATTTTAATTAATTAACCACGATATTTTTATCTTTATAAACACAATAATTATCATTAACG
* * *
18476909 TGACAAATAAGACGTTTTTTTATAAGTTAAGCATAGTATTATAATAAAATATCTTATTATTCAAA
1 TAACAAATAAGACG-TTTTTTATAAGCTAA-CATAGTATTATAATAAAATATCTTATTATTCGAA
* * ** * *
18476974 ATTTAACTT-ACTAAAAGATGACGTTTTCATCTTTAAAAAGGTAATATTTGTCTAATCTATCATA
64 ATTTAACTTGAC-AAAA-ATGACGTTTTCATATTAAAAAACATAATATTTGTATAATCTATCAAA
* * ** *
18477038 TTTAAAATTTTAATTATATTAACCACGGTATTTTTTTCTTTATAAATGCAATTATTATCATTAAC
127 TTTAAAATTTTAATTA-ATTAACCACGATATTTTTATCTTTATAAACACAATAATTATCATTAAC
18477103 G
191 G
* * * * * *
18477104 TAACAAATAGGATGGTTTCTATAAGCTAA-ATGCAGTATTGTAATAAAATACCTTATTATTCGAA
1 TAACAAATAAGACGTTTTTTATAAGCTAACAT--AGTATTATAATAAAATATCTTATTATTCGAA
* * * * ** * * *
18477168 ATTTGATTTAACAAATATGAC-TTTTTTTCTTCAAAAACATAATACTTGT
64 ATTTAACTTGACAAAAATGACGTTTTCATATTAAAAAACATAATATTTGT
18477217 CTTGTTTTAT
Statistics
Matches: 252, Mismatches: 46, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
191 10 0.04
192 31 0.12
193 57 0.23
194 103 0.41
195 51 0.20
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (191 bp):
TAACAAATAAGACGTTTTTTATAAGCTAACATAGTATTATAATAAAATATCTTATTATTCGAAAT
TTAACTTGACAAAAATGACGTTTTCATATTAAAAAACATAATATTTGTATAATCTATCAAATTTA
AAATTTTAATTAATTAACCACGATATTTTTATCTTTATAAACACAATAATTATCATTAACG
Found at i:18483470 original size:22 final size:22
Alignment explanation
Indices: 18483465--18483508 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
18483455 AGTAATATAT
*
18483465 ATATATATATATCTTATAAGTA
1 ATATATATATATCCTATAAGTA
*
18483487 ATATGTATATATCCTATAAGTA
1 ATATATATATATCCTATAAGTA
18483509 CTTATATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (22 bp):
ATATATATATATCCTATAAGTA
Done.