Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 63 of 240
Found at i:20545605 original size:4 final size:4
Alignment explanation
Indices: 20545591--20545622 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
20545581 CTGATTTTTC
20545591 TAAT T-AT TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT T
20545623 GAAGTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (4 bp):
TAAT
Found at i:20547883 original size:12 final size:13
Alignment explanation
Indices: 20547866--20547905 Score: 64
Period size: 12 Copynumber: 3.1 Consensus size: 13
20547856 AAAAAAAAAA
20547866 AGAAATGAAAATG
1 AGAAATGAAAATG
20547879 A-AAATGAAAATG
1 AGAAATGAAAATG
20547891 AGAAATGAGAAATG
1 AGAAATGA-AAATG
20547905 A
1 A
20547906 TCCATTTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.48
13 7 0.28
14 6 0.24
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (13 bp):
AGAAATGAAAATG
Found at i:20547898 original size:7 final size:6
Alignment explanation
Indices: 20547868--20547905 Score: 58
Period size: 6 Copynumber: 6.0 Consensus size: 6
20547858 AAAAAAAAAG
20547868 AAATGA AAATGA AAATGA AAATGA GAAATGA GAAATGA
1 AAATGA AAATGA AAATGA AAATGA -AAATGA -AAATGA
20547906 TCCATTTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 18 0.58
7 13 0.42
ACGTcount: A:0.63, C:0.00, G:0.21, T:0.16
Consensus pattern (6 bp):
AAATGA
Found at i:20563993 original size:24 final size:25
Alignment explanation
Indices: 20563952--20564012 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 25
20563942 ACAAAGAGCC
* * * *
20563952 TATAACAGGTAGCTCCGAAGAGCAA
1 TATAACGGGAAGCACCGAAGAACAA
* *
20563977 T-TAACGGGAAGCACCGAATAATAA
1 TATAACGGGAAGCACCGAAGAACAA
20564001 TATAACGGGAAG
1 TATAACGGGAAG
20564013 TTCAAGCGAG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
24 18 0.62
25 11 0.38
ACGTcount: A:0.43, C:0.16, G:0.25, T:0.16
Consensus pattern (25 bp):
TATAACGGGAAGCACCGAAGAACAA
Found at i:20564084 original size:26 final size:25
Alignment explanation
Indices: 20564026--20564085 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 25
20564016 AAGCGAGCAC
*
20564026 TAACGAGAAGCTCACAAAGAGCCTT
1 TAACGAGAAGCTCACAAAGAGCCTA
* *
20564051 TAATCGAGAAGCTCACGAAGATCCATA
1 TAA-CGAGAAGCTCACAAAGAGCC-TA
20564078 TAACGAGA
1 TAACGAGA
20564086 CGCTTATAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 3 0.10
26 23 0.77
27 4 0.13
ACGTcount: A:0.42, C:0.22, G:0.20, T:0.17
Consensus pattern (25 bp):
TAACGAGAAGCTCACAAAGAGCCTA
Found at i:20564555 original size:11 final size:11
Alignment explanation
Indices: 20564539--20564604 Score: 61
Period size: 11 Copynumber: 6.4 Consensus size: 11
20564529 TATACGAGTA
20564539 AATTTAACATC
1 AATTTAACATC
*
20564550 AATTTAATA-C
1 AATTTAACATC
20564560 AATTT-ACAT-
1 AATTTAACATC
*
20564569 AATTTAACATA
1 AATTTAACATC
*
20564580 AATTTAATA-C
1 AATTTAACATC
20564590 AATTT-ACATTC
1 AATTTAACA-TC
20564601 AATT
1 AATT
20564605 CAATCCAAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
9 9 0.20
10 15 0.33
11 21 0.47
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (11 bp):
AATTTAACATC
Found at i:20564575 original size:30 final size:30
Alignment explanation
Indices: 20564539--20564598 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
20564529 TATACGAGTA
*
20564539 AATTTAACATCAATTTAATACAATTTACAT
1 AATTTAACATAAATTTAATACAATTTACAT
20564569 AATTTAACATAAATTTAATACAATTTACAT
1 AATTTAACATAAATTTAATACAATTTACAT
20564599 TCAATTCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (30 bp):
AATTTAACATAAATTTAATACAATTTACAT
Found at i:20568862 original size:63 final size:63
Alignment explanation
Indices: 20568760--20568882 Score: 169
Period size: 63 Copynumber: 2.0 Consensus size: 63
20568750 ACACTCCATG
*
20568760 TTGTGGCCAAGCCACTGCATATTGCAATCAAGCTACACGTTATGGTCAAACCACTAAATAACA
1 TTGTGGCCAAGCCACTGCATATTACAATCAAGCTACACGTTATGGTCAAACCACTAAATAACA
* * * *
20568823 TTGTGGCCAAGCCACT-CAATATTACAGA-CAAGCTGCACGTTCTGGTCAAGCCACTCAATA
1 TTGTGGCCAAGCCACTGC-ATATTACA-ATCAAGCTACACGTTATGGTCAAACCACTAAATA
20568883 TTGTAGTAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
62 1 0.02
63 51 0.96
64 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.24
Consensus pattern (63 bp):
TTGTGGCCAAGCCACTGCATATTACAATCAAGCTACACGTTATGGTCAAACCACTAAATAACA
Found at i:20569067 original size:40 final size:41
Alignment explanation
Indices: 20568973--20569073 Score: 125
Period size: 40 Copynumber: 2.5 Consensus size: 41
20568963 TTCAGTGGGC
* * *
20568973 ATGCTTAACATACGAATCAGATTTATAGTCAATACATTCAAT
1 ATGCTTAACATGCGAATCAGATTTATA-TCAATACAATAAAT
*
20569015 ATGCTTAACATGCGAATCAGATTTGAT-T-AGTACAATAAAT
1 ATGCTTAACATGCGAATCAGATTT-ATATCAATACAATAAAT
*
20569055 ATGCTTAACATGCAAATCA
1 ATGCTTAACATGCGAATCA
20569074 TATATCAATT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
40 27 0.51
41 1 0.02
42 23 0.43
43 2 0.04
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.32
Consensus pattern (41 bp):
ATGCTTAACATGCGAATCAGATTTATATCAATACAATAAAT
Found at i:20574410 original size:27 final size:27
Alignment explanation
Indices: 20574380--20574431 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
20574370 TGTGAATAGG
* *
20574380 CCCATTTTCATAGCTTGTATGAGCAGA
1 CCCATTTTCACAGCTCGTATGAGCAGA
*
20574407 CCCATTTTCACAGCTCGTGTGAGCA
1 CCCATTTTCACAGCTCGTATGAGCA
20574432 TTTTGATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (27 bp):
CCCATTTTCACAGCTCGTATGAGCAGA
Found at i:20574448 original size:25 final size:25
Alignment explanation
Indices: 20574416--20574480 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
20574406 ACCCATTTTC
*
20574416 ACAGCTCGTGTGAGCATTTTGATTA
1 ACAGCTCGTGTGAGCATTCTGATTA
*
20574441 ACAGCTCGTGTGAGCATTCTGATTT
1 ACAGCTCGTGTGAGCATTCTGATTA
20574466 ACAGCTCGTGTGAGC
1 ACAGCTCGTGTGAGC
20574481 GTGCATGCAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (25 bp):
ACAGCTCGTGTGAGCATTCTGATTA
Found at i:20577838 original size:43 final size:42
Alignment explanation
Indices: 20577756--20577948 Score: 253
Period size: 43 Copynumber: 4.5 Consensus size: 42
20577746 ACTTCCGAGG
*
20577756 TGAGATTTCATGTAAGACCATAGCTGGCTATTGGCATCGATT
1 TGAGATTTCGTGTAAGACCATAGCTGGCTATTGGCATCGATT
**
20577798 TG-GTATTTTTTGTAAGACCATAGCTAGGCTATTGGCATCGATT
1 TGAG-ATTTCGTGTAAGACCATAGCT-GGCTATTGGCATCGATT
20577841 TGAGATTTCGTGTAAGACCATAGCTGAGCTATTGGCATCGATT
1 TGAGATTTCGTGTAAGACCATAGCTG-GCTATTGGCATCGATT
* * * *
20577884 TGAGATTTCGTGTAAGACAATAGTTGGGCTATTGGAATCGATA
1 TGAGATTTCGTGTAAGACCATAGCT-GGCTATTGGCATCGATT
* *
20577927 CGAGATTTCCTTGTAAGACCAT
1 TGAGATTT-CGTGTAAGACCAT
20577949 GTCTAAGACA
Statistics
Matches: 134, Mismatches: 11, Indels: 10
0.86 0.07 0.06
Matches are distributed among these distances:
41 1 0.01
42 22 0.16
43 98 0.73
44 13 0.10
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.34
Consensus pattern (42 bp):
TGAGATTTCGTGTAAGACCATAGCTGGCTATTGGCATCGATT
Found at i:20582861 original size:25 final size:25
Alignment explanation
Indices: 20582833--20582897 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
20582823 CCATTTTCAT
* *
20582833 AGCTTGTGTAAGCATTTTGATTTAA
1 AGCTCGTGTAAGCATTCTGATTTAA
* *
20582858 AGCTCGTGCAAGCATTCTGATTTAC
1 AGCTCGTGTAAGCATTCTGATTTAA
*
20582883 AGCTCGTGTGAGCAT
1 AGCTCGTGTAAGCAT
20582898 ACATGCACAG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (25 bp):
AGCTCGTGTAAGCATTCTGATTTAA
Found at i:20586342 original size:23 final size:23
Alignment explanation
Indices: 20586266--20586342 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
20586256 GAAGATCATA
*
20586266 AGAGCCATATTC-AGGAAGCTTCGG
1 AGAGCCATA-TCGA-GAAGCTCCGG
* **
20586290 ATAGCCATATATCGAGAAGCTCAAG
1 AGAGCC--ATATCGAGAAGCTCCGG
*
20586315 CGAGCCATATCGAGAAGCTCCGG
1 AGAGCCATATCGAGAAGCTCCGG
20586338 AGAGC
1 AGAGC
20586343 TATTAATCAG
Statistics
Matches: 41, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
23 19 0.46
24 5 0.12
25 13 0.32
26 4 0.10
ACGTcount: A:0.32, C:0.23, G:0.27, T:0.17
Consensus pattern (23 bp):
AGAGCCATATCGAGAAGCTCCGG
Found at i:20588844 original size:18 final size:22
Alignment explanation
Indices: 20588821--20588865 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 22
20588811 AAAATAATAA
20588821 AAATAAA-A-AATTTTA-AT-T
1 AAATAAATATAATTTTATATAT
20588839 AAATAAATATAATTTTATATAT
1 AAATAAATATAATTTTATATAT
20588861 AAATA
1 AAATA
20588866 TGATTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 7 0.30
19 1 0.04
20 7 0.30
21 2 0.09
22 6 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATAAATATAATTTTATATAT
Found at i:20589843 original size:28 final size:28
Alignment explanation
Indices: 20589790--20589845 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
20589780 AAAATATTAT
* *
20589790 TAATTAATAAAATTATAAATCTATAAAA
1 TAATTAATAAAATTAAAAATCAATAAAA
*
20589818 TAATTGAATAAATTTAAAAAT-AATAAAA
1 TAATT-AATAAAATTAAAAATCAATAAAA
20589846 ATCCAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (28 bp):
TAATTAATAAAATTAAAAATCAATAAAA
Found at i:20596330 original size:9 final size:9
Alignment explanation
Indices: 20596316--20596356 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
20596306 TTTGGTTAAA
*
20596316 AATTACCTG
1 AATTACCCG
20596325 AATTACCCG
1 AATTACCCG
20596334 AATTACCCG
1 AATTACCCG
*
20596343 AATTAACCG
1 AATTACCCG
20596352 AATTA
1 AATTA
20596357 TTGAAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (9 bp):
AATTACCCG
Found at i:20596540 original size:13 final size:13
Alignment explanation
Indices: 20596522--20596551 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
20596512 TTTTAGTTTT
20596522 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
20596535 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
20596548 ATTG
1 ATTG
20596552 AGTTTGGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:20598909 original size:30 final size:30
Alignment explanation
Indices: 20598875--20598935 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
20598865 ATACACCTTG
20598875 GCATGATAAATTAATTTACCAGTTTAACTA
1 GCATGATAAATTAATTTACCAGTTTAACTA
* *
20598905 GCATGATAAATTGATTTGCCAGTTTAACTA
1 GCATGATAAATTAATTTACCAGTTTAACTA
20598935 G
1 G
20598936 AGTACAAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (30 bp):
GCATGATAAATTAATTTACCAGTTTAACTA
Found at i:20599972 original size:5 final size:5
Alignment explanation
Indices: 20599962--20599996 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
20599952 ATATAATGTG
20599962 ATTAA ATTAA ATTAA ATTAA ATT-A ATTAA ATTAA A
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA A
20599997 ATGTTATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATTAA
Found at i:20599990 original size:9 final size:9
Alignment explanation
Indices: 20599966--20599995 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
20599956 AATGTGATTA
20599966 AATTAAATT
1 AATTAAATT
20599975 AAATTAAATT
1 -AATTAAATT
20599985 AATTAAATT
1 AATTAAATT
20599994 AA
1 AA
20599996 AATGTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AATTAAATT
Found at i:20600762 original size:3 final size:3
Alignment explanation
Indices: 20600754--20600848 Score: 169
Period size: 3 Copynumber: 32.7 Consensus size: 3
20600744 AATACCCTTA
20600754 AAG AAG AAG AAG AAG AAG AAG AAG AAG -AG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
20600801 AAG AAG AAG AA- AAG AAG AAG AAG AAG AA- AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
20600847 AA
1 AA
20600849 AGGGGGTAAT
Statistics
Matches: 89, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
2 6 0.07
3 83 0.93
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:20600787 original size:23 final size:23
Alignment explanation
Indices: 20600758--20600848 Score: 157
Period size: 23 Copynumber: 4.0 Consensus size: 23
20600748 CCCTTAAAGA
20600758 AGAAGAAGAAGAAGAAGAAGAAG
1 AGAAGAAGAAGAAGAAGAAGAAG
20600781 AGAAGAAGAAGAAGAAGAAGAAG
1 AGAAGAAGAAGAAGAAGAAGAAG
20600804 AAGAAGAA-AAGAAGAAGAAGAAG
1 -AGAAGAAGAAGAAGAAGAAGAAG
*
20600827 AAAAGAAGAAGAAGAAGAAGAA
1 AGAAGAAGAAGAAGAAGAAGAA
20600849 AGGGGGTAAT
Statistics
Matches: 65, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
22 6 0.09
23 52 0.80
24 7 0.11
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (23 bp):
AGAAGAAGAAGAAGAAGAAGAAG
Found at i:20600788 original size:26 final size:25
Alignment explanation
Indices: 20600753--20600848 Score: 160
Period size: 26 Copynumber: 3.8 Consensus size: 25
20600743 TAATACCCTT
20600753 AAAGAAGAAGAAGAAGAAGAAGAAG
1 AAAGAAGAAGAAGAAGAAGAAGAAG
20600778 AAGAGAAGAAGAAGAAGAAGAAGAAG
1 AA-AGAAGAAGAAGAAGAAGAAGAAG
20600804 -AAGAAGAA-AAGAAGAAGAAGAAG
1 AAAGAAGAAGAAGAAGAAGAAGAAG
20600827 AAAAGAAGAAGAAGAAGAAGAA
1 -AAAGAAGAAGAAGAAGAAGAA
20600849 AGGGGGTAAT
Statistics
Matches: 67, Mismatches: 0, Indels: 7
0.91 0.00 0.09
Matches are distributed among these distances:
23 15 0.22
24 7 0.10
25 11 0.16
26 34 0.51
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (25 bp):
AAAGAAGAAGAAGAAGAAGAAGAAG
Found at i:20604749 original size:29 final size:31
Alignment explanation
Indices: 20604695--20604773 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
20604685 ATCTTAAAAT
* *
20604695 TATACATGAATTTTGATTTAATGTGCAATTA
1 TATACATGAACTTTAATTTAATGTGCAATTA
20604726 TATACATGAACTTTAATTT-A-GTGCAATTA
1 TATACATGAACTTTAATTTAATGTGCAATTA
*
20604755 TACACATGAAACTTTAATT
1 TATACATG-AACTTTAATT
20604774 GTGGTCCAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 16 0.36
30 11 0.25
31 17 0.39
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (31 bp):
TATACATGAACTTTAATTTAATGTGCAATTA
Found at i:20604770 original size:30 final size:29
Alignment explanation
Indices: 20604698--20604773 Score: 98
Period size: 29 Copynumber: 2.5 Consensus size: 29
20604688 TTAAAATTAT
* * *
20604698 ACATGAATTTTGATTTAATGTGCAATTATAT
1 ACATGAACTTTAATTT-A-GTGCAATTATAC
20604729 ACATGAACTTTAATTTAGTGCAATTATAC
1 ACATGAACTTTAATTTAGTGCAATTATAC
20604758 ACATGAAACTTTAATT
1 ACATG-AACTTTAATT
20604774 GTGGTCCAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
29 16 0.39
30 11 0.27
31 14 0.34
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (29 bp):
ACATGAACTTTAATTTAGTGCAATTATAC
Found at i:20610577 original size:28 final size:28
Alignment explanation
Indices: 20610526--20610593 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
20610516 AAGATAAAAT
* *
20610526 ATGCCTTGAAGGTTAAATAAAACAAAGC
1 ATGCCTTGAAGGCTAAACAAAACAAAGC
* *
20610554 ATGCCTTGAAGGCTATACACAACAAAGC
1 ATGCCTTGAAGGCTAAACAAAACAAAGC
*
20610582 GTGCCTTGAAGG
1 ATGCCTTGAAGG
20610594 ACAAACTTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (28 bp):
ATGCCTTGAAGGCTAAACAAAACAAAGC
Found at i:20613769 original size:13 final size:13
Alignment explanation
Indices: 20613751--20613814 Score: 101
Period size: 13 Copynumber: 4.9 Consensus size: 13
20613741 AGTTCTTTAT
*
20613751 TGCTTTTGCGAAG
1 TGCTTTTGAGAAG
20613764 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
20613777 TGCTTTTGAAAAG
1 TGCTTTTGAGAAG
*
20613790 TGCTTTTCAGAAG
1 TGCTTTTGAGAAG
20613803 TGCTTTTGAGAA
1 TGCTTTTGAGAA
20613815 ATTTGAGTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 46 1.00
ACGTcount: A:0.23, C:0.11, G:0.27, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:20614407 original size:22 final size:21
Alignment explanation
Indices: 20614379--20614420 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
20614369 ATTAAACTAG
*
20614379 ATGATTTGGTTATATTCAATAA
1 ATGATTTGGTTA-ATACAATAA
20614401 ATGATTTGGTTAATACAATA
1 ATGATTTGGTTAATACAATA
20614421 CTTATATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (21 bp):
ATGATTTGGTTAATACAATAA
Found at i:20617500 original size:46 final size:46
Alignment explanation
Indices: 20617447--20617538 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
20617437 TTTCACATAC
20617447 CATGTAACACCCCATACCCGACCTAATCGTCAGACCCGAGTAATAA
1 CATGTAACACCCCATACCCGACCTAATCGTCAGACCCGAGTAATAA
20617493 CATGTAACACCCCATACCCGACCTAATCGTCAGACCCGAGTAATAA
1 CATGTAACACCCCATACCCGACCTAATCGTCAGACCCGAGTAATAA
20617539 GATGCTATGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.35, C:0.35, G:0.13, T:0.17
Consensus pattern (46 bp):
CATGTAACACCCCATACCCGACCTAATCGTCAGACCCGAGTAATAA
Found at i:20627814 original size:28 final size:28
Alignment explanation
Indices: 20627778--20627876 Score: 146
Period size: 28 Copynumber: 3.5 Consensus size: 28
20627768 AAAAATAAAA
*
20627778 ATTTATCAAAATATTACAACTTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTT
*
20627806 ATTTATCAAAATATTACAACTTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTT
*
20627834 ATTTACCAAAATATATA-AATTTTTTTATT
1 ATTTACCAAAATAT-TACAACTTTTTT-TT
20627863 ATTTACCAAAATAT
1 ATTTACCAAAATAT
20627877 ATAAAAAAAC
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
28 49 0.73
29 18 0.27
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (28 bp):
ATTTACCAAAATATTACAACTTTTTTTT
Found at i:20627984 original size:27 final size:27
Alignment explanation
Indices: 20627954--20628074 Score: 188
Period size: 27 Copynumber: 4.5 Consensus size: 27
20627944 CGCCAATAGT
20627954 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
20627981 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
* *
20628008 ATTGGCGGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
* * **
20628035 ATTGGTGGCACCAATGGTGCCAATGCC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
20628062 ATTGGCGGCACCA
1 ATTGGCGGCACCA
20628075 CTCGTATTAT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.28, C:0.29, G:0.27, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAACC
Found at i:20628325 original size:3 final size:3
Alignment explanation
Indices: 20628319--20628362 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
20628309 ATTATTATTA
*
20628319 TTG TTG TTG TTG TTG TTG CTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
20628363 AGTATGAAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.02, G:0.32, T:0.66
Consensus pattern (3 bp):
TTG
Found at i:20628566 original size:26 final size:26
Alignment explanation
Indices: 20628537--20628600 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
20628527 TTTTAGTGTG
*
20628537 TATTATTT-TGAGTATAAAATTATTAA
1 TATTATTTGT-AGTATAAAATTAATAA
*
20628563 TATTATTCGTAGTATAAAATTAATAA
1 TATTATTTGTAGTATAAAATTAATAA
*
20628589 TTTTAGTTTGTA
1 TATTA-TTTGTA
20628601 TTATTTTGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 26 0.81
27 6 0.19
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.50
Consensus pattern (26 bp):
TATTATTTGTAGTATAAAATTAATAA
Found at i:20629223 original size:18 final size:18
Alignment explanation
Indices: 20629189--20629223 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20629179 GTTGGTGGTG
* *
20629189 AAGAAGAATGTGTTGGCA
1 AAGAAGAAGGTGGTGGCA
20629207 AAGAAGAAGGTGGTGGC
1 AAGAAGAAGGTGGTGGC
20629224 GATCATTGGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.06, G:0.40, T:0.17
Consensus pattern (18 bp):
AAGAAGAAGGTGGTGGCA
Found at i:20634914 original size:10 final size:10
Alignment explanation
Indices: 20634899--20634923 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
20634889 AATAAAATTA
20634899 CCTTTTTTTC
1 CCTTTTTTTC
20634909 CCTTTTTTTC
1 CCTTTTTTTC
20634919 CCTTT
1 CCTTT
20634924 CTTCCCTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (10 bp):
CCTTTTTTTC
Found at i:20634950 original size:32 final size:31
Alignment explanation
Indices: 20634911--20635004 Score: 97
Period size: 32 Copynumber: 3.0 Consensus size: 31
20634901 TTTTTTTCCC
*
20634911 TTTTTTTCCCTTTCTTCCCTCTTCTTCTTCTT
1 TTTTTTTCTCTTTCTTCCCT-TTCTTCTTCTT
20634943 TTTTTTTCTCTTCTCCTTTCCCTTTC-T-TTCTT
1 TTTTTTTCTCTT-T-C-TTCCCTTTCTTCTTCTT
* *
20634975 TTTTCTTCTC-TTC-TCCTTTTCTTCTTCTT
1 TTTTTTTCTCTTTCTTCCCTTTCTTCTTCTT
20635004 T
1 T
20635005 CTTTCCTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
27 7 0.13
28 1 0.02
29 7 0.13
30 1 0.02
31 1 0.02
32 25 0.46
33 2 0.04
34 4 0.07
35 6 0.11
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (31 bp):
TTTTTTTCTCTTTCTTCCCTTTCTTCTTCTT
Found at i:20634978 original size:33 final size:32
Alignment explanation
Indices: 20634941--20635041 Score: 114
Period size: 33 Copynumber: 3.1 Consensus size: 32
20634931 CTTCTTCTTC
20634941 TTTTTTTTTCTCTTCTCCTTTCCCTTTCTTTC-
1 TTTTTTTTTCTCTTCTCCTTT-CCTTTCTTTCT
* *
20634973 TTTTTTCTTCTCTTCTCCTTTTCTTCTTCTTTCT
1 TTTTTTTTTCTCTTCTCC-TTTCCT-TTCTTTCT
* * *
20635007 TTCCTTTTTTCTTTTCTCCTCTCCTTTCTTTCT
1 TT-TTTTTTTCTCTTCTCCTTTCCTTTCTTTCT
20635040 TT
1 TT
20635042 CCTCTCCTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
32 19 0.33
33 20 0.34
34 6 0.10
35 13 0.22
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (32 bp):
TTTTTTTTTCTCTTCTCCTTTCCTTTCTTTCT
Found at i:20634993 original size:22 final size:21
Alignment explanation
Indices: 20634968--20635082 Score: 100
Period size: 22 Copynumber: 5.6 Consensus size: 21
20634958 CTTTCCCTTT
*
20634968 CTTTCTTTTTTCTTCTCTTCTC
1 CTTTCTTTTTTCTT-TCCTCTC
* *
20634990 CTTT-TCTTCTTCTTT-CTTTC
1 CTTTCT-TTTTTCTTTCCTCTC
*
20635010 CTTT-TTTCTTT-TCTCCTCTC
1 CTTTCTTT-TTTCTTTCCTCTC
20635030 CTTTC---TTTCTTTCCTCTC
1 CTTTCTTTTTTCTTTCCTCTC
20635048 CTTTCTTTCTTTCTTTCCTCTC
1 CTTTCTTT-TTTCTTTCCTCTC
20635070 CTTTCTTTCTTTC
1 CTTTCTTT-TTTC
20635083 CTTTTTTCTC
Statistics
Matches: 77, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
17 3 0.04
18 13 0.17
19 4 0.05
20 18 0.23
21 2 0.03
22 37 0.48
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (21 bp):
CTTTCTTTTTTCTTTCCTCTC
Found at i:20634999 original size:26 final size:27
Alignment explanation
Indices: 20634938--20635013 Score: 86
Period size: 26 Copynumber: 2.9 Consensus size: 27
20634928 CCTCTTCTTC
*
20634938 TTCTTTTTTTTTCTCTTCTCCTTTCCCT
1 TTCTTTCTTTTT-TCTTCTCCTTTCCCT
*
20634966 TTCTTTCTTTTTTCTTCT-CTTCTCCTT
1 TTCTTTCTTTTTTCTTCTCCTT-TCCCT
*
20634993 TTC-TTCTTCTTTCTT-TCCTTT
1 TTCTTTCTTTTTTCTTCTCCTTT
20635014 TTTCTTTTCT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
25 2 0.05
26 17 0.40
27 13 0.30
28 11 0.26
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (27 bp):
TTCTTTCTTTTTTCTTCTCCTTTCCCT
Found at i:20635046 original size:18 final size:18
Alignment explanation
Indices: 20634999--20635084 Score: 97
Period size: 18 Copynumber: 4.7 Consensus size: 18
20634989 CCTTTTCTTC
*
20634999 TTCTTTCTTTCCT-T-TT
1 TTCTTTCTTTCCTCTCCT
*
20635015 TTCTTT-TCTCCTCTCCT
1 TTCTTTCTTTCCTCTCCT
20635032 TTCTTTCTTTCCTCTCCTTTCT
1 TTCTTTCTTTCCTCT-C---CT
20635054 TTCTTTCTTTCCTCTCCT
1 TTCTTTCTTTCCTCTCCT
20635072 TTCTTTCTTTCCT
1 TTCTTTCTTTCCT
20635085 TTTTTCTCTT
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
15 5 0.08
16 7 0.12
17 7 0.12
18 22 0.37
19 1 0.02
21 1 0.02
22 17 0.28
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (18 bp):
TTCTTTCTTTCCTCTCCT
Found at i:20635081 original size:40 final size:40
Alignment explanation
Indices: 20634968--20635084 Score: 143
Period size: 40 Copynumber: 2.9 Consensus size: 40
20634958 CTTTCCCTTT
* *
20634968 CTTTCTTT-TTTCTTCTCTTCTCCTTTTCTTCTTCTTT-CTTTC
1 CTTTCTTTCTTTCTT-TCCTCTCC-TTTC-T-TTCTTTCCTCTC
*
20635010 CTTT-TTTCTTT-TCTCCTCTCCTTTCTTTCTTTCCTCTC
1 CTTTCTTTCTTTCTTTCCTCTCCTTTCTTTCTTTCCTCTC
20635048 CTTTCTTTCTTTCTTTCCTCTCCTTTCTTTCTTTCCT
1 CTTTCTTTCTTTCTTTCCTCTCCTTTCTTTCTTTCCT
20635085 TTTTTCTCTT
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
37 6 0.09
38 9 0.13
39 11 0.16
40 30 0.45
41 4 0.06
42 7 0.10
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (40 bp):
CTTTCTTTCTTTCTTTCCTCTCCTTTCTTTCTTTCCTCTC
Found at i:20635094 original size:18 final size:18
Alignment explanation
Indices: 20634959--20635094 Score: 95
Period size: 18 Copynumber: 7.4 Consensus size: 18
20634949 TCTCTTCTCC
*
20634959 TTTCCCTTTCTTT-CTTT
1 TTTCTCTTTCTTTCCTTT
*
20634976 TTTCT-TCTCTTCTCCTTT
1 TTTCTCTTTCTT-TCCTTT
20634994 TCTTCTTCTTTCTTTCCTTT
1 T-TTC-TCTTTCTTTCCTTT
20635014 TTTCT-TTTCTCCTCTCCTTT
1 TTTCTCTTTCT--T-TCCTTT
* *
20635034 CTTTCT-TTCCTCTCCTTT
1 -TTTCTCTTTCTTTCCTTT
* *
20635052 CTT-TCTTTCTTTCCTCTC
1 TTTCTCTTTCTTTCCT-TT
*
20635070 CTT-TCTTTCTTTCCTTT
1 TTTCTCTTTCTTTCCTTT
20635087 TTTCTCTT
1 TTTCTCTT
20635095 CTGCCCCCAC
Statistics
Matches: 96, Mismatches: 11, Indels: 23
0.74 0.08 0.18
Matches are distributed among these distances:
16 6 0.06
17 23 0.24
18 32 0.33
19 7 0.07
20 14 0.15
21 14 0.15
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTCTCTTTCTTTCCTTT
Found at i:20635313 original size:28 final size:28
Alignment explanation
Indices: 20635249--20635351 Score: 147
Period size: 28 Copynumber: 3.7 Consensus size: 28
20635239 TGTGTTTTTT
*
20635249 TTAT-ATATGTTGGTAAATAATAAAAAA-
1 TTATAATATTTTGGTAAATAA-AAAAAAG
*
20635276 TTTTATATATTTTGGTAAATAAAAAAAAG
1 TTATA-ATATTTTGGTAAATAAAAAAAAG
*
20635305 TTGTAATATTTTGGTAAATAAAAAAAAG
1 TTATAATATTTTGGTAAATAAAAAAAAG
20635333 TTATAATATTTTGGTAAAT
1 TTATAATATTTTGGTAAAT
20635352 TTTTATTTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
27 3 0.04
28 47 0.68
29 19 0.28
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.41
Consensus pattern (28 bp):
TTATAATATTTTGGTAAATAAAAAAAAG
Found at i:20636817 original size:22 final size:20
Alignment explanation
Indices: 20636789--20636839 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
20636779 TATTTTTAAC
20636789 AATAAAAATATCAA-AATAAATA
1 AATAAAAAT-T-AACAATAAA-A
20636811 AAT-AAAATTAACAATAAAA
1 AATAAAAATTAACAATAAAA
20636830 AATAAAAATT
1 AATAAAAATT
20636840 TTATATTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 6 0.22
20 13 0.48
21 5 0.19
22 3 0.11
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.24
Consensus pattern (20 bp):
AATAAAAATTAACAATAAAA
Found at i:20642394 original size:43 final size:44
Alignment explanation
Indices: 20642328--20642462 Score: 134
Period size: 43 Copynumber: 3.1 Consensus size: 44
20642318 ACCTTTAGTG
* *
20642328 GCGTTTGTGGTCGAAGCGTCGCTATAGATCAGGGTCTTTTA-CA
1 GCGTTTGTGGTCGAAACGCCGCTATAGATCAGGGTCTTTTAGCA
* * * * **
20642371 GCGTTTGTGG-GGAAAACGCCGCTAAAGATTAGGTTC-TTTAGTG
1 GCGTTTGTGGTCG-AAACGCCGCTATAGATCAGGGTCTTTTAGCA
* * *
20642414 GTGTTTGTGGTCGAAGCGCCGCTATAGATCAGGGTC-TTTAGCG
1 GCGTTTGTGGTCGAAACGCCGCTATAGATCAGGGTCTTTTAGCA
20642457 GCGTTT
1 GCGTTT
20642463 TTACGGAAAG
Statistics
Matches: 73, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
42 5 0.07
43 67 0.92
44 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.32
Consensus pattern (44 bp):
GCGTTTGTGGTCGAAACGCCGCTATAGATCAGGGTCTTTTAGCA
Found at i:20642461 original size:86 final size:86
Alignment explanation
Indices: 20642320--20642496 Score: 257
Period size: 86 Copynumber: 2.1 Consensus size: 86
20642310 AGACTAAGAC
* **
20642320 CTTTAGTGGCGTTTGTGGTCGAAGCGTCGCTATAGATCAGGGTCTTTTACAGCGTTTGTGGGGAA
1 CTTTAGTGGCGTTTGTGGTCGAAGCGCCGCTATAGATCAGGGTCTTTTACAGCGTTTGTACGGAA
*
20642385 AACGCCGCTAAAGATTAGGTT
66 AACGCCGCTAAAGATTAGGGT
* * *
20642406 CTTTAGTGGTGTTTGTGGTCGAAGCGCCGCTATAGATCAGGGTC-TTTAGCGGCGTTTTTACGGA
1 CTTTAGTGGCGTTTGTGGTCGAAGCGCCGCTATAGATCAGGGTCTTTTA-CAGCGTTTGTACGGA
* *
20642470 AAGCGCTGCTAAAGATTAGGGT
65 AAACGCCGCTAAAGATTAGGGT
20642492 CTTTA
1 CTTTA
20642497 ACGGCGCTTC
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
85 4 0.05
86 77 0.95
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.32
Consensus pattern (86 bp):
CTTTAGTGGCGTTTGTGGTCGAAGCGCCGCTATAGATCAGGGTCTTTTACAGCGTTTGTACGGAA
AACGCCGCTAAAGATTAGGGT
Found at i:20642474 original size:43 final size:42
Alignment explanation
Indices: 20642341--20642502 Score: 123
Period size: 43 Copynumber: 3.8 Consensus size: 42
20642331 TTTGTGGTCG
* * * **
20642341 AAGCGTCGCTATAGATCAGGGTCTTTTA-CAGCGTTTGTGGGGA
1 AAGCGCCGCTAAAGATCAGGGTC-TTTAGCGGCGTTT-TTCGGA
* * * * *
20642384 AAACGCCGCTAAAGATTAGGTTCTTTAGTGGTGTTTGTGGTC-G-
1 AAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTT-T--TCGGA
*
20642427 AAGCGCCGCTATAGATCAGGGTCTTTAGCGGCGTTTTTACGGA
1 AAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTTT-CGGA
* * *
20642470 AAGCGCTGCTAAAGATTAGGGTCTTTAACGGCG
1 AAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCG
20642503 CTTCTCCCAC
Statistics
Matches: 93, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 6 0.06
43 84 0.90
44 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (42 bp):
AAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTTTCGGA
Found at i:20642546 original size:43 final size:43
Alignment explanation
Indices: 20642499--20642648 Score: 176
Period size: 43 Copynumber: 3.5 Consensus size: 43
20642489 GGTCTTTAAC
* * *
20642499 GGCGCTTCTCCCACAAACGCCGCAAAAGATCTTGATCTATAGG
1 GGCGCTTTTCCCACAAACGCCGCAAAAGACCTTGATCTTTAGG
* * *
20642542 GGCGCTTTCCCCACAAACGCCGCGAAAGACCATGATCTTTAGG
1 GGCGCTTTTCCCACAAACGCCGCAAAAGACCTTGATCTTTAGG
* * * *
20642585 GGCGTTTTTTCCACAAACGCCGCTAAAGAACCTT-ATCTTTAGC
1 GGCGCTTTTCCCACAAACGCCGCAAAAG-ACCTTGATCTTTAGG
* *
20642628 GGCGCTTTTACCATAAACGCC
1 GGCGCTTTTCCCACAAACGCC
20642649 ACTAAAGGCC
Statistics
Matches: 91, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 87 0.96
44 4 0.04
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (43 bp):
GGCGCTTTTCCCACAAACGCCGCAAAAGACCTTGATCTTTAGG
Found at i:20642668 original size:86 final size:86
Alignment explanation
Indices: 20642509--20642680 Score: 193
Period size: 86 Copynumber: 2.0 Consensus size: 86
20642499 GGCGCTTCTC
* * * *
20642509 CCACAAACGCCGCAAAAGATCTTGATCTATAGGGGCGCTTTCCCCACAAACGCCGCGAAAGACCA
1 CCACAAACGCCGCAAAAGACCTTGATCTATAGCGGCGCTTTCACCACAAACGCCACGAAAGACCA
** *
20642574 TGATCTTTAGGGGCGTTTTTT
66 ACACCTTTAGGGGCGTTTTTT
* * * * * *
20642595 CCACAAACGCCGCTAAAGAACCTT-ATCTTTAGCGGCGCTTTTACCATAAACGCCACTAAAGGCC
1 CCACAAACGCCGCAAAAG-ACCTTGATCTATAGCGGCGCTTTCACCACAAACGCCACGAAAGACC
* *
20642659 AACACCTTTAGTGGTGTTTTTT
65 AACACCTTTAGGGGCGTTTTTT
20642681 TTTAAAAAAC
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
86 66 0.94
87 4 0.06
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (86 bp):
CCACAAACGCCGCAAAAGACCTTGATCTATAGCGGCGCTTTCACCACAAACGCCACGAAAGACCA
ACACCTTTAGGGGCGTTTTTT
Found at i:20643031 original size:21 final size:21
Alignment explanation
Indices: 20643005--20643063 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
20642995 TTTGATGCTG
20643005 CTCTGCTTCCTTCGCTGTAGC
1 CTCTGCTTCCTTCGCTGTAGC
* *
20643026 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCTTCGCTGTAGC
20643047 CTCTGCTT-CTCTCGCTG
1 CTCTGCTTCCT-TCGCTG
20643064 CAACCTGTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 1 0.03
21 32 0.97
ACGTcount: A:0.03, C:0.41, G:0.17, T:0.39
Consensus pattern (21 bp):
CTCTGCTTCCTTCGCTGTAGC
Found at i:20643172 original size:66 final size:66
Alignment explanation
Indices: 20643093--20643234 Score: 198
Period size: 66 Copynumber: 2.2 Consensus size: 66
20643083 TGTCGCCTTT
* *
20643093 GCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCTA-CTGGAGTTCTTCATA-CTTTCGTTGAACC
1 GCTTCTCTCGCTGCCGAATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTTGAACC
20643156 TCA
64 TCA
* * * *
20643159 GCTTCTCTCGCTGCTGAATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTC
1 GCTTCTCTCGCTGCCGAATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTC
20643224 A
66 A
20643225 GCTTCTCTCG
1 GCTTCTCTCG
20643235 ATGTTGCCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
65 2 0.03
66 62 0.91
67 4 0.06
ACGTcount: A:0.14, C:0.27, G:0.18, T:0.40
Consensus pattern (66 bp):
GCTTCTCTCGCTGCCGAATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTC
A
Found at i:20643250 original size:66 final size:66
Alignment explanation
Indices: 20643114--20643257 Score: 184
Period size: 66 Copynumber: 2.2 Consensus size: 66
20643104 TGCCGCATCT
* *
20643114 GCTTTAAGCTGCTA-CTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCTGAAT
1 GCTTTAAGTTG-TAGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCTGAAT
*
20643178 CT
65 CC
* * * **
20643180 GCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATGTTGCCT
1 GCTTTAAGTTGTAGCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGATGCTGAAT
20643244 CC
65 CC
20643246 GCTTTAAGTTGT
1 GCTTTAAGTTGT
20643258 GTAATTTGCT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
65 2 0.03
66 61 0.91
67 4 0.06
ACGTcount: A:0.15, C:0.25, G:0.19, T:0.41
Consensus pattern (66 bp):
GCTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCTGAATC
C
Found at i:20648143 original size:9 final size:9
Alignment explanation
Indices: 20648129--20648389 Score: 55
Period size: 9 Copynumber: 28.3 Consensus size: 9
20648119 TCTCATTAAG
20648129 TTATGTAAT
1 TTATGTAAT
20648138 TTATGTATAAT
1 TTATG--TAAT
*
20648149 ATTAATGTAAG
1 -TT-ATGTAAT
20648160 TTATGTAA-
1 TTATGTAAT
* *
20648168 GT-TGTAAG
1 TTATGTAAT
*
20648176 TTATGTAAG
1 TTATGTAAT
20648185 TTATGT-AT
1 TTATGTAAT
*
20648193 AATAT-TAA-
1 -TTATGTAAT
** *
20648201 TTAACTAAG
1 TTATGTAAT
20648210 TTATGTAAT
1 TTATGTAAT
20648219 TTATGTATAAT
1 TTATG--TAAT
*
20648230 ATTAATGTAAG
1 -TT-ATGTAAT
20648241 TTATGT-AT
1 TTATGTAAT
*
20648249 AATAT-TAAT
1 -TTATGTAAT
* *
20648258 TCAT-TAAG
1 TTATGTAAT
*
20648266 CTATGTAAT
1 TTATGTAAT
20648275 TTATGTATAAT
1 TTATG--TAAT
*
20648286 ATTAATGTAAG
1 -TT-ATGTAAT
20648297 TTATGT-AT
1 TTATGTAAT
*
20648305 AATAT-TAAT
1 -TTATGTAAT
* *
20648314 TAAT-TAAC
1 TTATGTAAT
20648322 TTATGTAAT
1 TTATGTAAT
20648331 TTATGTATAAT
1 TTATG--TAAT
*
20648342 ATTAATGTAAG
1 -TT-ATGTAAT
20648353 TTATGT-AT
1 TTATGTAAT
*
20648361 AATAT-TAA-
1 -TTATGTAAT
* *
20648369 TTATTTAAG
1 TTATGTAAT
20648378 TTATGTAAT
1 TTATGTAAT
20648387 TTA
1 TTA
20648390 CGTATAATAC
Statistics
Matches: 186, Mismatches: 34, Indels: 64
0.65 0.12 0.23
Matches are distributed among these distances:
7 10 0.05
8 31 0.17
9 89 0.48
10 8 0.04
11 28 0.15
12 8 0.04
13 12 0.06
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (9 bp):
TTATGTAAT
Found at i:20648175 original size:16 final size:16
Alignment explanation
Indices: 20648154--20648186 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
20648144 ATAATATTAA
20648154 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
20648170 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
20648186 T
1 T
20648187 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:20648238 original size:56 final size:56
Alignment explanation
Indices: 20648178--20648403 Score: 389
Period size: 56 Copynumber: 4.0 Consensus size: 56
20648168 GTTGTAAGTT
*
20648178 ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
* *
20648234 ATGTAAGTTATGTATAATATTAATTCATTAAGCTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
*
20648290 ATGTAAGTTATGTATAATATTAATTAATTAACTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
* * *
20648346 ATGTAAGTTATGTATAATATTAATTATTTAAGTTATGTAATTTACGTATAATACTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
20648402 AT
1 AT
20648404 TTATGTATAA
Statistics
Matches: 160, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 160 1.00
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (56 bp):
ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
Found at i:20648244 original size:22 final size:22
Alignment explanation
Indices: 20648212--20648257 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
20648202 TAACTAAGTT
*
20648212 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
20648234 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
20648256 AT
1 AT
20648258 TCATTAAGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:20648293 original size:22 final size:22
Alignment explanation
Indices: 20648268--20648318 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
20648258 TCATTAAGCT
20648268 ATGTAATTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
*
20648290 ATGTAAGTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
20648312 AT-TAATT
1 ATGTAATT
20648319 AACTTATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (22 bp):
ATGTAATTTATGTATAATATTA
Found at i:20648349 original size:22 final size:22
Alignment explanation
Indices: 20648324--20648369 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
20648314 TAATTAACTT
*
20648324 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
20648346 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
20648368 AT
1 AT
20648370 TATTTAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:20649206 original size:24 final size:26
Alignment explanation
Indices: 20649152--20649207 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 26
20649142 AATCCTGGAA
20649152 AAAAAAGACAGAAATACATTAATACC
1 AAAAAAGACAGAAATACATTAATACC
* *
20649178 GAAAAA-ACAGAAGTA-ATTAA-AGCC
1 AAAAAAGACAGAAATACATTAATA-CC
20649202 AAAAAA
1 AAAAAA
20649208 CTAAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 1 0.04
24 12 0.46
25 8 0.31
26 5 0.19
ACGTcount: A:0.64, C:0.12, G:0.11, T:0.12
Consensus pattern (26 bp):
AAAAAAGACAGAAATACATTAATACC
Found at i:20649296 original size:14 final size:12
Alignment explanation
Indices: 20649264--20649293 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
20649254 AAACTAAAAT
*
20649264 TGAACATATATA
1 TGAAAATATATA
20649276 TGAAAATATATA
1 TGAAAATATATA
20649288 TGAAAA
1 TGAAAA
20649294 AATGTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (12 bp):
TGAAAATATATA
Found at i:20649729 original size:15 final size:15
Alignment explanation
Indices: 20649700--20649732 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
20649690 CATCAATTGC
20649700 AAGACAGCTAGAAAA
1 AAGACAGCTAGAAAA
20649715 AAGAC-GCTAGAAAA
1 AAGACAGCTAGAAAA
20649729 AAGA
1 AAGA
20649733 GGTATATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.61, C:0.12, G:0.21, T:0.06
Consensus pattern (15 bp):
AAGACAGCTAGAAAA
Found at i:20649969 original size:11 final size:11
Alignment explanation
Indices: 20649955--20649991 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
20649945 TTGATACTAC
*
20649955 ATTATAATGAA
1 ATTATAATAAA
*
20649966 ATTATAATCAA
1 ATTATAATAAA
20649977 ATTATAATAAA
1 ATTATAATAAA
20649988 ATTA
1 ATTA
20649992 GAAAAGTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (11 bp):
ATTATAATAAA
Found at i:20651308 original size:10 final size:10
Alignment explanation
Indices: 20651293--20651331 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
20651283 ATTAATAACT
20651293 ATATATATCC
1 ATATATATCC
*
20651303 ATATATATTCAT
1 ATATATA-TC-C
20651315 ATATATATCC
1 ATATATATCC
20651325 ATATATA
1 ATATATA
20651332 AGTAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 14 0.56
11 4 0.16
12 7 0.28
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.44
Consensus pattern (10 bp):
ATATATATCC
Found at i:20651309 original size:12 final size:12
Alignment explanation
Indices: 20651292--20651331 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
20651282 AATTAATAAC
20651292 TATATATATCCA
1 TATATATATCCA
20651304 TATATAT-T-CA
1 TATATATATCCA
20651314 TATATATATCCA
1 TATATATATCCA
20651326 TATATA
1 TATATA
20651332 AGTAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.35
11 2 0.08
12 15 0.58
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (12 bp):
TATATATATCCA
Found at i:20651342 original size:22 final size:22
Alignment explanation
Indices: 20651295--20651345 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
20651285 TAATAACTAT
* * *
20651295 ATATATCCATATATATTCATAT
1 ATATATCCATATATAGTCAAAA
20651317 ATATATCCATATATAAGT-AAAA
1 ATATATCCATATAT-AGTCAAAA
20651339 ATATATC
1 ATATATC
20651346 AAATGGCCGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 23 0.92
23 2 0.08
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (22 bp):
ATATATCCATATATAGTCAAAA
Found at i:20652013 original size:8 final size:10
Alignment explanation
Indices: 20651990--20652026 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
20651980 TAATAACTAT
20651990 ATATATATCC
1 ATATATATCC
*
20652000 ATATATATTC
1 ATATATATCC
20652010 ATATATATCC
1 ATATATATCC
20652020 ATATATA
1 ATATATA
20652027 AGTAAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATCC
Found at i:20652895 original size:40 final size:40
Alignment explanation
Indices: 20652838--20652917 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
20652828 ATGACCTTTA
*
20652838 AAGAAATGGCGCTGTTTAAATTAATTTTAAGTCACATTTG
1 AAGAAATGGCGCCGTTTAAATTAATTTTAAGTCACATTTG
20652878 AAGAAATGGCGCCGTTTAAATTAATTTTAAGTCACATTTG
1 AAGAAATGGCGCCGTTTAAATTAATTTTAAGTCACATTTG
20652918 CGGCGTTTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.36
Consensus pattern (40 bp):
AAGAAATGGCGCCGTTTAAATTAATTTTAAGTCACATTTG
Found at i:20654571 original size:41 final size:43
Alignment explanation
Indices: 20654504--20654764 Score: 258
Period size: 41 Copynumber: 6.3 Consensus size: 43
20654494 GCTTACCTAT
*
20654504 AAAACGCCGCTAAA-A-GCCAGAGCATTAGTGGCGCTCAGATA
1 AAAACGCCGCTAAAGATACCAGAGCATTAGTGGCGCTCAGATA
* * * * *
20654545 AAAACGCCACTAAAGATACTA-A-CATTAGCGGCGCTTAGAAA
1 AAAACGCCGCTAAAGATACCAGAGCATTAGTGGCGCTCAGATA
* *
20654586 AAAACGCCGCTAAAG--GCCAGAGAATTAGTGGCGCTCAGATA
1 AAAACGCCGCTAAAGATACCAGAGCATTAGTGGCGCTCAGATA
* * *
20654627 AAAACGCCACTAAAGATA-C-GAGCATTAGTGGCGCTTAGAGA
1 AAAACGCCGCTAAAGATACCAGAGCATTAGTGGCGCTCAGATA
* * *
20654668 AAAACGCTGCTAAAG--GCCAGAGCATTAGTGGCGCTCAAATA
1 AAAACGCCGCTAAAGATACCAGAGCATTAGTGGCGCTCAGATA
* * ** * *
20654709 AAAACGCCGCTAAAGAT--CGGACCATTAGCAGCGCTAAAATA
1 AAAACGCCGCTAAAGATACCAGAGCATTAGTGGCGCTCAGATA
20654750 AAAACGCCGCTAAAG
1 AAAACGCCGCTAAAG
20654765 GTTTAAAAAT
Statistics
Matches: 180, Mismatches: 30, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 171 0.95
42 3 0.02
43 2 0.01
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.15
Consensus pattern (43 bp):
AAAACGCCGCTAAAGATACCAGAGCATTAGTGGCGCTCAGATA
Found at i:20654618 original size:82 final size:82
Alignment explanation
Indices: 20654504--20654765 Score: 384
Period size: 82 Copynumber: 3.2 Consensus size: 82
20654494 GCTTACCTAT
* *
20654504 AAAACGCCGCTAAAAGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACTAACA
1 AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
20654569 TTAGCGGCGCTTAGAAA
66 TTAGCGGCGCTTAGAAA
* *
20654586 AAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAGCA
1 AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
* *
20654651 TTAGTGGCGCTTAGAGA
66 TTAGCGGCGCTTAGAAA
* * * *
20654668 AAAACGCTGCTAAAGGCCAGAGCATTAGTGGCGCTCAAATAAAAACGCCGCTAAAGAT-CGGACC
1 AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATAC-GAAC
* *
20654732 ATTAGCAGCGC-TAAAATA
65 ATTAGCGGCGCTTAGAA-A
20654750 AAAACGCCGCTAAAGG
1 AAAACGCCGCTAAAGG
20654766 TTTAAAAATC
Statistics
Matches: 162, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
81 4 0.02
82 158 0.98
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.15
Consensus pattern (82 bp):
AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
TTAGCGGCGCTTAGAAA
Found at i:20666438 original size:4 final size:4
Alignment explanation
Indices: 20666422--20666453 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
20666412 ATCAGATCAA
*
20666422 AAAT AAAT GAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
20666454 CGAAGAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:20676394 original size:44 final size:44
Alignment explanation
Indices: 20676321--20676430 Score: 105
Period size: 44 Copynumber: 2.5 Consensus size: 44
20676311 GCTTATCGTC
* * * * * *
20676321 TTGCGCTTTAGTGCTCACTGTTTCACACTTTGGTGCTTA-TCGTT
1 TTGCACTTTGGTGCTTACTGTTTCACACTTCGATGCTTAGT-GAT
* * **
20676365 TTGTAGTTTGGTGCTTACTGTTTTGCACTTCGATGCTTAGTGAT
1 TTGCACTTTGGTGCTTACTGTTTCACACTTCGATGCTTAGTGAT
*
20676409 TTGCACTTTGGTGCCTACTGTT
1 TTGCACTTTGGTGCTTACTGTT
20676431 CTTTTAGTGC
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
44 51 0.98
45 1 0.02
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.46
Consensus pattern (44 bp):
TTGCACTTTGGTGCTTACTGTTTCACACTTCGATGCTTAGTGAT
Found at i:20676401 original size:22 final size:22
Alignment explanation
Indices: 20676376--20676430 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
20676366 TGTAGTTTGG
20676376 TGCTTACTGTTTTGCACTTCGA
1 TGCTTACTGTTTTGCACTTCGA
* * * *
20676398 TGCTTAGTGATTTGCACTTTGG
1 TGCTTACTGTTTTGCACTTCGA
*
20676420 TGCCTACTGTT
1 TGCTTACTGTT
20676431 CTTTTAGTGC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.45
Consensus pattern (22 bp):
TGCTTACTGTTTTGCACTTCGA
Found at i:20682197 original size:72 final size:74
Alignment explanation
Indices: 20682108--20682285 Score: 175
Period size: 72 Copynumber: 2.4 Consensus size: 74
20682098 CTGTATAACG
* * ** *
20682108 GGAAGCTCA-TAAGAGCCAT-AATCGGGAAGCTCATGTGAGTCAATAACAGGTAGCTCTGAAGAG
1 GGAAGCTCACAAAGAGCCATAAATCGGGAAGCTCAAGCAAG-CAATAACAGGAAGCTCTGAAGAG
20682171 CCATTA-ACA
65 CCATTACACA
* * * * * * * *
20682180 GGAAGCTC-CAGATAGCCATAAATCGGAAAGTTCAAGCAAGCCATATCAGGAAGCTTTGGAGAGC
1 GGAAGCTCACAAAGAGCCATAAATCGGGAAGCTCAAGCAAGCAATAACAGGAAGCTCTGAAGAGC
*
20682244 CATTACTCA
66 CATTACACA
* *
20682253 GGAAGCTCACAAAGAGCCTTCAATCGGGAAGCT
1 GGAAGCTCACAAAGAGCCATAAATCGGGAAGCT
20682286 AACGAAGAGC
Statistics
Matches: 82, Mismatches: 20, Indels: 6
0.76 0.19 0.06
Matches are distributed among these distances:
72 39 0.48
73 25 0.30
74 18 0.22
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (74 bp):
GGAAGCTCACAAAGAGCCATAAATCGGGAAGCTCAAGCAAGCAATAACAGGAAGCTCTGAAGAGC
CATTACACA
Found at i:20683331 original size:5 final size:5
Alignment explanation
Indices: 20683323--20683374 Score: 104
Period size: 5 Copynumber: 10.4 Consensus size: 5
20683313 TATTATACAT
20683323 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
20683373 TA
1 TA
20683375 CTTAACAATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:20684326 original size:45 final size:45
Alignment explanation
Indices: 20684262--20684415 Score: 254
Period size: 45 Copynumber: 3.4 Consensus size: 45
20684252 ATAAACCCTC
20684262 GATTTGGATCCTCATTCATAGACCCTCGAAATCGCTTAAGGTGTT
1 GATTTGGATCCTCATTCATAGACCCTCGAAATCGCTTAAGGTGTT
*
20684307 GATTTGGATCCTTATTCATAGACCCTCGAAATCGCTTAAGGTGTT
1 GATTTGGATCCTCATTCATAGACCCTCGAAATCGCTTAAGGTGTT
* * *
20684352 GATTTGAATCCTTATTCATAGACCCTCGAAATTGCTTAAGGTGTT
1 GATTTGGATCCTCATTCATAGACCCTCGAAATCGCTTAAGGTGTT
* *
20684397 TATTAGGATCCTCATTCAT
1 GATTTGGATCCTCATTCAT
20684416 TTAGATCATT
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 102 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (45 bp):
GATTTGGATCCTCATTCATAGACCCTCGAAATCGCTTAAGGTGTT
Found at i:20686154 original size:20 final size:21
Alignment explanation
Indices: 20686124--20686163 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
20686114 TCTTCCTTAG
20686124 AAGGTGGATATCGCGATACCC
1 AAGGTGGATATCGCGATACCC
*
20686145 AAGG-GGATATCGTGATACC
1 AAGGTGGATATCGCGATACC
20686164 AGTGAAGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (21 bp):
AAGGTGGATATCGCGATACCC
Found at i:20692929 original size:23 final size:24
Alignment explanation
Indices: 20692903--20692949 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
20692893 TTTCCTACAC
*
20692903 AAAAATAATT-AT-TTCAATCTTTT
1 AAAAAAAATTAATATTCAA-CTTTT
20692926 AAAAAAAATTAATATTCAACTTTT
1 AAAAAAAATTAATATTCAACTTTT
20692950 TAATGTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 7 0.33
25 5 0.24
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (24 bp):
AAAAAAAATTAATATTCAACTTTT
Found at i:20693879 original size:11 final size:10
Alignment explanation
Indices: 20693853--20693895 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
20693843 ATGATTTAAC
20693853 TTTTTTAAAA
1 TTTTTTAAAA
*
20693863 TTTTTTAGAAT
1 TTTTTTA-AAA
20693874 TATTTTTAATAA
1 T-TTTTTAA-AA
20693886 TTTTTTAAAA
1 TTTTTTAAAA
20693896 AAATCAGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
10 9 0.32
11 11 0.39
12 8 0.29
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:20694459 original size:17 final size:16
Alignment explanation
Indices: 20694416--20694459 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
20694406 GACTCTATTA
20694416 AATAAATAATAAAAAAT
1 AATAAA-AATAAAAAAT
*
20694433 AATAAGAATACAAAAAT
1 AATAAAAATA-AAAAAT
*
20694450 ATTAAAAATA
1 AATAAAAATA
20694460 TGGTTCAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (16 bp):
AATAAAAATAAAAAAT
Found at i:20702521 original size:20 final size:19
Alignment explanation
Indices: 20702474--20702525 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
20702464 TTAAAGGGGT
** *
20702474 AATTAAATCAATTTGATTA
1 AATTAAATCAAAATGAATA
20702493 AATTCAAATCAAAATGAATA
1 AATT-AAATCAAAATGAATA
20702513 GAATTAAATCAAA
1 -AATTAAATCAAA
20702526 TCAATATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 4 0.14
20 20 0.71
21 4 0.14
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.31
Consensus pattern (19 bp):
AATTAAATCAAAATGAATA
Found at i:20704153 original size:21 final size:21
Alignment explanation
Indices: 20704120--20704159 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
20704110 GGGGAAAAGT
*
20704120 GGAAAGAGTAAAAGTTTTGAA
1 GGAAAGAGTAAAAGGTTTGAA
20704141 GGAAA-AGTAAAAAGGTTTG
1 GGAAAGAGT-AAAAGGTTTG
20704160 GGAGTTTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.47, C:0.00, G:0.30, T:0.23
Consensus pattern (21 bp):
GGAAAGAGTAAAAGGTTTGAA
Found at i:20704154 original size:29 final size:29
Alignment explanation
Indices: 20704099--20704154 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
20704089 GGGAGGGGAT
** **
20704099 TAAAAGTTTTGGGGGAAAAGTGGAAAGAG
1 TAAAAGTTTTGAAGGAAAAGTAAAAAGAG
20704128 TAAAAGTTTTGAAGGAAAAGTAAAAAG
1 TAAAAGTTTTGAAGGAAAAGTAAAAAG
20704155 GTTTGGGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.21
Consensus pattern (29 bp):
TAAAAGTTTTGAAGGAAAAGTAAAAAGAG
Found at i:20704211 original size:9 final size:9
Alignment explanation
Indices: 20704197--20704224 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
20704187 TATAGTTTGA
20704197 TATTCGAAT
1 TATTCGAAT
20704206 TATTCGAAT
1 TATTCGAAT
20704215 TATTCGAAT
1 TATTCGAAT
20704224 T
1 T
20704225 CGAAAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:20718203 original size:85 final size:85
Alignment explanation
Indices: 20718058--20718214 Score: 190
Period size: 85 Copynumber: 1.8 Consensus size: 85
20718048 CATGGCAGAT
* * *
20718058 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCACAAATATTAGCTCTCTAAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCACAAATACTAGCTCCCTAAAGTTACAG
20718123 TAGAGCAGATCACATCAAAC
66 TAGAGCAGATCACATCAAAC
* * * ** * * *
20718143 CTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAG-CTATTAATCCTATCTCCCTGAAGTTACA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTC-ACAAATACTAGCTCCCTAAAGTTACA
*
20718207 GTGGAGCA
65 GTAGAGCA
20718215 AATTAAAACG
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
84 1 0.02
85 58 0.98
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (85 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCACAAATACTAGCTCCCTAAAGTTACAG
TAGAGCAGATCACATCAAAC
Found at i:20718232 original size:44 final size:44
Alignment explanation
Indices: 20718145--20718235 Score: 110
Period size: 44 Copynumber: 2.1 Consensus size: 44
20718135 CATCAAACCT
** * * * * * *
20718145 TATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCTATTAATCC
1 TATCTCCCTGAAGTTACAGTGGAGCAAATTAAAACGATGAATCC
20718189 TATCTCCCTGAAGTTACAGTGGAGCAAATTAAAACGATGAATCC
1 TATCTCCCTGAAGTTACAGTGGAGCAAATTAAAACGATGAATCC
20718233 TAT
1 TAT
20718236 ACCTCTGAAG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.31
Consensus pattern (44 bp):
TATCTCCCTGAAGTTACAGTGGAGCAAATTAAAACGATGAATCC
Found at i:20718578 original size:42 final size:42
Alignment explanation
Indices: 20718516--20718595 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
20718506 GTGAGATCGG
*
20718516 GTGAGGGTCTTCTTCATTCAGCCTTTGGGCCCAGAAGGAGGC
1 GTGAGGGTCTTATTCATTCAGCCTTTGGGCCCAGAAGGAGGC
*
20718558 GTGAGGGTCTTATTCTTTCAGCCTTTGGGCCCAGAAGG
1 GTGAGGGTCTTATTCATTCAGCCTTTGGGCCCAGAAGG
20718596 CTCGACCTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.16, C:0.23, G:0.33, T:0.29
Consensus pattern (42 bp):
GTGAGGGTCTTATTCATTCAGCCTTTGGGCCCAGAAGGAGGC
Found at i:20725434 original size:27 final size:27
Alignment explanation
Indices: 20725403--20725465 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
20725393 AAAGAATGAT
*
20725403 AATTATCTTTTATTGAAAGCTTGGAGG
1 AATTATCTTTTATTCAAAGCTTGGAGG
*
20725430 AATTATCATTTATTCAAAGCTTGGAGG
1 AATTATCTTTTATTCAAAGCTTGGAGG
*
20725457 AATTTTCTT
1 AATTATCTT
20725466 GCACACCAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (27 bp):
AATTATCTTTTATTCAAAGCTTGGAGG
Found at i:20734357 original size:17 final size:17
Alignment explanation
Indices: 20734320--20734367 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
20734310 GAATTTAGAA
*
20734320 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAGT
*
20734336 GAATTTTGTGATTTATT
1 GAATTTTGTGATTTAGT
20734353 GAATTTTGTGATTTA
1 GAATTTTGTGATTTA
20734368 AAAAGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (17 bp):
GAATTTTGTGATTTAGT
Found at i:20735644 original size:46 final size:46
Alignment explanation
Indices: 20735568--20735752 Score: 291
Period size: 46 Copynumber: 4.0 Consensus size: 46
20735558 CATGGAAAAG
20735568 TGTGAAACA-TAGGTATGGTATTTCAATGAAGAAAACCATACTGAGT
1 TGTGAAA-AGTAGGTATGGTATTTCAATGAAGAAAACCATACTGAGT
* ** *
20735614 TGTGAAAAGTAGGTATGGTGTTTCTGTGAAGAAAACCATACTAAGT
1 TGTGAAAAGTAGGTATGGTATTTCAATGAAGAAAACCATACTGAGT
*
20735660 TGTGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAATGAAGAAAACCATACTGAGT
* *
20735706 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGGAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAATGAAGAAAACCATACTGAGT
20735752 T
1 T
20735753 ATAGCATTGT
Statistics
Matches: 128, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 127 0.99
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAATGAAGAAAACCATACTGAGT
Found at i:20743650 original size:42 final size:42
Alignment explanation
Indices: 20743579--20743691 Score: 127
Period size: 42 Copynumber: 2.7 Consensus size: 42
20743569 TTTAACTCTC
* * *
20743579 ACGAGCTTCTGTTTAACTCATATGAGTTTCCATTCAACTATT
1 ACGAGCTTCTGTTTAACCCTTATGGGTTTCCATTCAACTATT
** ** * *
20743621 TTGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTT
1 ACGAGCTTCTGTTTAACCCTTATGGGTTTCCATTCAACTATT
**
20743663 ACGAGCTTCCATTTAACCCTTATGGGTTT
1 ACGAGCTTCTGTTTAACCCTTATGGGTTT
20743692 TTGTTTATCT
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.42
Consensus pattern (42 bp):
ACGAGCTTCTGTTTAACCCTTATGGGTTTCCATTCAACTATT
Found at i:20743653 original size:21 final size:21
Alignment explanation
Indices: 20743627--20743698 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
20743617 TATTTTGAGC
20743627 TTCTGTTTAACCCTTATGGGT
1 TTCTGTTTAACCCTTATGGGT
* * * * * *
20743648 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTTAACCCTTATGGGT
**
20743669 TTCCATTTAACCCTTATGGGT
1 TTCTGTTTAACCCTTATGGGT
*
20743690 TTTTGTTTA
1 TTCTGTTTA
20743699 TCTCTCATGA
Statistics
Matches: 34, Mismatches: 17, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (21 bp):
TTCTGTTTAACCCTTATGGGT
Found at i:20743711 original size:42 final size:42
Alignment explanation
Indices: 20743622--20743734 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 42
20743612 TCAACTATTT
* * *
20743622 TGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTA
1 TGAGCTTCTATTTAACCCTTATGGGTTTTTGTTCAGCTCTCA
* * * *
20743664 CGAGCTTCCATTTAACCCTTATGGGTTTTTGTTTATCTCTCA
1 TGAGCTTCTATTTAACCCTTATGGGTTTTTGTTCAGCTCTCA
* *
20743706 TGAGCTTCTA-TTAAGCCTT-TGGGCTTTTG
1 TGAGCTTCTATTTAACCCTTATGGGTTTTTG
20743735 AAAACGATGT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 9 0.15
41 8 0.13
42 43 0.72
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.45
Consensus pattern (42 bp):
TGAGCTTCTATTTAACCCTTATGGGTTTTTGTTCAGCTCTCA
Found at i:20751436 original size:66 final size:66
Alignment explanation
Indices: 20751330--20751472 Score: 268
Period size: 66 Copynumber: 2.2 Consensus size: 66
20751320 CACGGATCTC
*
20751330 CAACACACCAATTGACTCATAGAGTCAAACATATCTCAAAAAGTTAAGCATAAAGCTAACACTCT
1 CAACACACCAATTGACTCATAGAGTCAAACATATCTCAAAAAGTTAAACATAAAGCTAACACTCT
20751395 T
66 T
*
20751396 CAACACACCAATTGACTCATAGAGTCGAACATATCTCAAAAAGTTAAACATAAAGCTAACACTCT
1 CAACACACCAATTGACTCATAGAGTCAAACATATCTCAAAAAGTTAAACATAAAGCTAACACTCT
20751461 T
66 T
20751462 CAACACACCAA
1 CAACACACCAA
20751473 ACATGTCCCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 75 1.00
ACGTcount: A:0.45, C:0.26, G:0.08, T:0.21
Consensus pattern (66 bp):
CAACACACCAATTGACTCATAGAGTCAAACATATCTCAAAAAGTTAAACATAAAGCTAACACTCT
T
Found at i:20755930 original size:51 final size:50
Alignment explanation
Indices: 20755863--20756095 Score: 263
Period size: 51 Copynumber: 4.6 Consensus size: 50
20755853 TGATAGGTCG
*
20755863 CATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGCTTCGATCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TTCGATCA
* * * * * * * *
20755914 CGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGGAT-GATAGGTCG
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACC-GGATAGTTCGATCA
*
20755964 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCAATCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TTCGATCA
* * * * *
20756015 CGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGAT-GGTCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT--TCGATCA
*
20756066 CATGTGTAGTACTATGTGCATGCTACTATG
1 CATGTGTAGTACTATGTGCAGGCTACTATG
20756096 TGAATCCGCA
Statistics
Matches: 150, Mismatches: 27, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
49 4 0.03
50 38 0.25
51 103 0.69
52 5 0.03
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.31
Consensus pattern (50 bp):
CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTTCGATCA
Found at i:20755930 original size:101 final size:101
Alignment explanation
Indices: 20755810--20756095 Score: 457
Period size: 101 Copynumber: 2.8 Consensus size: 101
20755800 AAAGTGATGG
* *
20755810 TCACGTTTGTAGTATTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
* *
20755875 TATGTGCAGGCTACTATGCGTATCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCAA
*
20755911 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGGATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
20755976 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCAA
66 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCAA
* * * *
20756012 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGAT-GGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
*
20756076 ACTATGTGCATGCTACTATG
64 ACTATGTGCAGGCTACTATG
20756096 TGAATCCGCA
Statistics
Matches: 172, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
101 134 0.78
102 34 0.20
103 4 0.02
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.32
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCGGATAGCTTCAA
Found at i:20756097 original size:26 final size:26
Alignment explanation
Indices: 20756017--20756097 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
20756007 TTCAATCACG
*
20756017 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCATGCTACTA
* * *
20756043 CGTGTA-T-CGGATAGTG-ATGGTCAC-A
1 TGTGTAGTAC-TAT-GTGCATGCT-ACTA
20756068 TGTGTAGTACTATGTGCATGCTACTA
1 TGTGTAGTACTATGTGCATGCTACTA
20756094 TGTG
1 TGTG
20756098 AATCCGCATC
Statistics
Matches: 41, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
24 1 0.02
25 17 0.41
26 22 0.54
27 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCATGCTACTA
Found at i:20756222 original size:41 final size:42
Alignment explanation
Indices: 20756105--20756231 Score: 134
Period size: 43 Copynumber: 3.0 Consensus size: 42
20756095 GTGAATCCGC
* *
20756105 ATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
1 ATCATTGATTAT-AAGGTGGTTGCTAAGTGTTGATTCCACCGT
* * * * *
20756148 ATCCTTAACTGTGA-AAAG-GGTTTCTATGTGTTGATTCC-CCGT
1 ATCATTGA-T-T-ATAAGGTGGTTGCTAAGTGTTGATTCCACCGT
20756190 ATCATTGATTATAAGGTGGTTGCTAAGTGTTGATTCCACCGT
1 ATCATTGATTATAAGGTGGTTGCTAAGTGTTGATTCCACCGT
20756232 GTAACGGTTA
Statistics
Matches: 66, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
39 1 0.02
40 4 0.06
41 19 0.29
42 14 0.21
43 23 0.35
44 3 0.05
45 1 0.02
46 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (42 bp):
ATCATTGATTATAAGGTGGTTGCTAAGTGTTGATTCCACCGT
Found at i:20757744 original size:25 final size:25
Alignment explanation
Indices: 20757694--20757783 Score: 74
Period size: 25 Copynumber: 3.6 Consensus size: 25
20757684 ACACACCACA
* ** *
20757694 GCTCTCTTGAGCTTCCTGATACTTG
1 GCTCTCATGAGCTTCCCAATATTTG
*
20757719 GCTCTCATGAGCTTCCCCATATTTG
1 GCTCTCATGAGCTTCCCAATATTTG
* * * *
20757744 GCTC-CTAAGAGCTTCTCAATATATA
1 GCTCTC-ATGAGCTTCCCAATATTTG
*
20757769 GCTCACATGAGCTTC
1 GCTCTCATGAGCTTC
20757784 TTGTTATATG
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
24 1 0.02
25 51 0.96
26 1 0.02
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCAATATTTG
Found at i:20763467 original size:335 final size:334
Alignment explanation
Indices: 20762858--20763511 Score: 1130
Period size: 335 Copynumber: 2.0 Consensus size: 334
20762848 CCATAACCGT
20762858 CCACTAGCATCAGACTTTTACTAACACACAAACACTTACACGGCATCAAGCAAAAATATATCCCC
1 CCACTAGCATCAGACTTTTACTAACACACAAACACTTACACGGCATCAAGCAAAAATATATCCCC
*
20762923 CTTGCTAACGCAAGGACTTGAACTCCAGTCCTCCTACATGCCAACTCATGCTTTAGCCACCAGAC
66 CTTGCTAACGCAAGGACTTGAACTCCAGTCCTCCCACATGCCAACTCATGCTTTAGCCACCAGAC
* *
20762988 CAGCAGTCCCATTCTGACATATTTTATCAACATTTATTTATAAGCCTACTGATTATAGATAAGGG
131 CAGCAGACCCATTCTGACATATTTTATCAACATTTATTTATAAGCCTACTGATTAGAGATAAGGG
* ** *
20763053 TTTATTCATTTAAAAGCAAAAAATTTTTCCCAAGCTAAGGTTTAAACTCAAGACTTCTCAAACAC
196 TTTATTCATTTAAAAACAAAAAAAATTTCCCAAGCTAAGGTTTAAACTCAAGACCTCTCAAACAC
20763118 TCCCAAAACACTTAACCACTGAAACAGATACACAATTATGTCATAAATACACAGAAACAGATAAA
261 TCCCAAAACACTTAACCACTGAAACAGATACACAATTATGTCATAAATACACAGAAACAGATAAA
20763183 CACACTTAA
326 CACACTTAA
*
20763192 CCACTAGCATCAGACTTTTACTAACACACAAACACTTGCACGGCATCAAG-ATAAAATATATCCC
1 CCACTAGCATCAGACTTTTACTAACACACAAACACTTACACGGCATCAAGCA-AAAATATATCCC
* *
20763256 CCATTGCTAACGCAGGGACTTGAACTCCAGTCCTCCCACATGCCAACTCATGCTTTAGCTACCAG
65 CC-TTGCTAACGCAAGGACTTGAACTCCAGTCCTCCCACATGCCAACTCATGCTTTAGCCACCAG
20763321 ACCAGCAGACCCATTCTGACATATTTTATCAACATTTATTTATAAGCCTACTGATTAGAGATAAG
129 ACCAGCAGACCCATTCTGACATATTTTATCAACATTTATTTATAAGCCTACTGATTAGAGATAAG
* * *
20763386 GGTTTATTCATTTAAAAACAAAAAAAATTTCCCAAGCTAAGGTTTGAACTCAGGACCTCTCAGAC
194 GGTTTATTCATTTAAAAACAAAAAAAATTTCCCAAGCTAAGGTTTAAACTCAAGACCTCTCAAAC
* * * *
20763451 ACTCCCAGAACACTTAACCACTGAAGCAGATACATAATTATGTCATAAATACATAGAAACA
259 ACTCCCAAAACACTTAACCACTGAAACAGATACACAATTATGTCATAAATACACAGAAACA
20763512 AATATACAAA
Statistics
Matches: 301, Mismatches: 17, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
333 1 0.00
334 63 0.21
335 237 0.79
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.26
Consensus pattern (334 bp):
CCACTAGCATCAGACTTTTACTAACACACAAACACTTACACGGCATCAAGCAAAAATATATCCCC
CTTGCTAACGCAAGGACTTGAACTCCAGTCCTCCCACATGCCAACTCATGCTTTAGCCACCAGAC
CAGCAGACCCATTCTGACATATTTTATCAACATTTATTTATAAGCCTACTGATTAGAGATAAGGG
TTTATTCATTTAAAAACAAAAAAAATTTCCCAAGCTAAGGTTTAAACTCAAGACCTCTCAAACAC
TCCCAAAACACTTAACCACTGAAACAGATACACAATTATGTCATAAATACACAGAAACAGATAAA
CACACTTAA
Found at i:20768948 original size:41 final size:41
Alignment explanation
Indices: 20768903--20769014 Score: 161
Period size: 41 Copynumber: 2.7 Consensus size: 41
20768893 ACTTTATATT
* **
20768903 AATGTATCAGGCTTTATGCCTAGCAGGCTTTATGTCGGTGA
1 AATGTATCAGGCTTTATGCCTAGCAGGCTTCATACCGGTGA
*
20768944 AATGTATCAGGCTTTATGCCTAGCAGGCTTCATACCGGTGT
1 AATGTATCAGGCTTTATGCCTAGCAGGCTTCATACCGGTGA
***
20768985 ACCCTATCAGGCTTTATGCCTAGCAGGCTT
1 AATGTATCAGGCTTTATGCCTAGCAGGCTT
20769015 GGTGCCATTG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.32
Consensus pattern (41 bp):
AATGTATCAGGCTTTATGCCTAGCAGGCTTCATACCGGTGA
Found at i:20772001 original size:16 final size:16
Alignment explanation
Indices: 20771980--20772010 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20771970 CTATGTATGC
*
20771980 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
20771996 AAAATACAAAAGACA
1 AAAATACAAAAGACA
20772011 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:20777573 original size:32 final size:32
Alignment explanation
Indices: 20777531--20777592 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
20777521 TTTAGAATTT
* * *
20777531 AGTTCATTTTGAGTTTAAATCACTTCGAGTTCA
1 AGTTCATTTTGAATTCAAATCA-TCCGAGTTCA
20777564 AGTT-ATTTTGAATTCAAATCATCCGAGTT
1 AGTTCATTTTGAATTCAAATCATCCGAGTT
20777593 TAAGGATTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 7 0.27
32 15 0.58
33 4 0.15
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (32 bp):
AGTTCATTTTGAATTCAAATCATCCGAGTTCA
Found at i:20782684 original size:14 final size:14
Alignment explanation
Indices: 20782667--20782700 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
20782657 GTTGCAGTTA
20782667 AAAAGTTGTTTTAG
1 AAAAGTTGTTTTAG
* *
20782681 AAAAATTGTTTTTG
1 AAAAGTTGTTTTAG
20782695 AAAAGT
1 AAAAGT
20782701 ATGGTAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (14 bp):
AAAAGTTGTTTTAG
Found at i:20783301 original size:119 final size:119
Alignment explanation
Indices: 20783162--20783409 Score: 469
Period size: 119 Copynumber: 2.1 Consensus size: 119
20783152 GTCAAAGTCT
*
20783162 TTTTTAACTTCTTTTTATATATTTAAAAAATTAGTTTGAAATATTAAAATATATTAAATTACTTT
1 TTTTTAA-TTCTTTTTATATATTTAAAAAATCAGTTTGAAATATTAAAATATATTAAATTACTTT
20783227 AGATTAATTTTTGAAAATAGTTAAAGGAATTAAAAATAATATAAATAAATTATTA
65 AGATTAATTTTTGAAAATAGTTAAAGGAATTAAAAATAATATAAATAAATTATTA
*
20783282 TTTTTAATTTTTTTTATATATTTAAAAAATCAGTTTGAAATATTAAAATATATTAAATTACTTTA
1 TTTTTAATTCTTTTTATATATTTAAAAAATCAGTTTGAAATATTAAAATATATTAAATTACTTTA
20783347 GATTAATTTTTGAAAATAGTTAAAGGAATTAAAAATAATATAAATAAATTATTA
66 GATTAATTTTTGAAAATAGTTAAAGGAATTAAAAATAATATAAATAAATTATTA
20783401 TTTTTAATT
1 TTTTTAATT
20783410 AATAATTGTA
Statistics
Matches: 126, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
119 119 0.94
120 7 0.06
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (119 bp):
TTTTTAATTCTTTTTATATATTTAAAAAATCAGTTTGAAATATTAAAATATATTAAATTACTTTA
GATTAATTTTTGAAAATAGTTAAAGGAATTAAAAATAATATAAATAAATTATTA
Found at i:20783408 original size:23 final size:23
Alignment explanation
Indices: 20783389--20783430 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
20783379 AAATAATATA
20783389 AATAAAT-T-ATTATTTTTAATT
1 AATAAATGTAATTATTTTTAATT
*
20783410 AATAATTGTAATTATTTTTAA
1 AATAAATGTAATTATTTTTAA
20783431 ATACGTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 1 0.06
23 11 0.61
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
AATAAATGTAATTATTTTTAATT
Found at i:20795683 original size:20 final size:20
Alignment explanation
Indices: 20795648--20795685 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20795638 AACGTCTTTT
20795648 GTAACAAAATGATAACATAA
1 GTAACAAAATGATAACATAA
20795668 GTAACTAAAATG-TAACAT
1 GTAAC-AAAATGATAACAT
20795686 TTCAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.24
Consensus pattern (20 bp):
GTAACAAAATGATAACATAA
Found at i:20808207 original size:14 final size:13
Alignment explanation
Indices: 20808188--20808221 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
20808178 TTTTTTTAAA
*
20808188 TTATATTATTAAT
1 TTATATTAATAAT
20808201 TTAATATTAATAAT
1 TT-ATATTAATAAT
20808215 TTATATT
1 TTATATT
20808222 TTTTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TTATATTAATAAT
Found at i:20812228 original size:22 final size:22
Alignment explanation
Indices: 20812195--20812250 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
20812185 ATTTCCTCTC
20812195 AATTCCTCTCAATTTCCTTCCAA
1 AATT-CTCTCAATTTCCTTCCAA
20812218 AATTCTCTCAATTTCCTTCCAA
1 AATTCTCTCAATTTCCTTCCAA
20812240 AATTCTCTCAA
1 AATTCTCTCAA
20812251 ATCCATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTCTCTCAATTTCCTTCCAA
Found at i:20814126 original size:18 final size:18
Alignment explanation
Indices: 20814100--20814134 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
20814090 AGGTGAGTTT
*
20814100 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
20814118 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
20814135 TCATTTTCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:20814610 original size:43 final size:45
Alignment explanation
Indices: 20814557--20814692 Score: 152
Period size: 50 Copynumber: 3.0 Consensus size: 45
20814547 ATATTTTGAA
* *
20814557 TATTTTGATATTATTTTATGTAA-AAGATAGAAATTT-TTTGAGT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGAGT
*
20814600 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGATT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGAGT
* *
20814645 TAATAAAATTGA-AGTTTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 T-AT---TTTGATA--TTATTTGATGTAATAAAATAGAAATTTATTTGA
20814693 TGTAATAAAA
Statistics
Matches: 80, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
43 22 0.28
44 12 0.15
45 7 0.09
46 2 0.03
48 1 0.01
49 4 0.05
50 32 0.40
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGAGT
Found at i:20814648 original size:25 final size:25
Alignment explanation
Indices: 20814610--20814772 Score: 185
Period size: 25 Copynumber: 6.7 Consensus size: 25
20814600 TATTTTGATA
20814610 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAAT
* * *
20814635 TTATTTGATTTAATAAAATTGAAGT
1 TTATTTGATGTAATAAAATAGAAAT
*
20814660 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAAT
20814685 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAAT
** * *
20814710 TT-TTTCGA-GT--T-ATTTTGATA-
1 TTATTT-GATGTAATAAAATAGAAAT
*
20814730 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAAT
*
20814755 TTATTTGATATAATAAAA
1 TTATTTGATGTAATAAAA
20814773 ACCCTAACCT
Statistics
Matches: 115, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
20 4 0.03
21 10 0.09
22 1 0.01
23 1 0.01
24 9 0.08
25 90 0.78
ACGTcount: A:0.42, C:0.01, G:0.13, T:0.44
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAAT
Found at i:20814756 original size:70 final size:72
Alignment explanation
Indices: 20814610--20814772 Score: 226
Period size: 70 Copynumber: 2.2 Consensus size: 72
20814600 TATTTTGATA
*
20814610 TTATTTGATGTAATAAAATAGAAATTTATTTGATTTAATAAAATTGAAGTTTATTTGATGTAATA
1 TTATTTGATGTAATAAAATAGAAATTTATTTGAGTTAAT--AATTGAAG-TTATTTGATGTAATA
20814675 AAATAGAAGT
63 AAATAGAAGT
*
20814685 TTATTTGATGTAATAAAATAGAAATTT-TTTCGAGTT-AT-TTTGATA-TTATTTGATGTAATAA
1 TTATTTGATGTAATAAAATAGAAATTTATTT-GAGTTAATAATTGA-AGTTATTTGATGTAATAA
20814746 AATAGAAGT
64 AATAGAAGT
*
20814755 TTATTTGATATAATAAAA
1 TTATTTGATGTAATAAAA
20814773 ACCCTAACCT
Statistics
Matches: 83, Mismatches: 3, Indels: 9
0.87 0.03 0.09
Matches are distributed among these distances:
70 42 0.51
71 4 0.05
72 1 0.01
74 5 0.06
75 31 0.37
ACGTcount: A:0.42, C:0.01, G:0.13, T:0.44
Consensus pattern (72 bp):
TTATTTGATGTAATAAAATAGAAATTTATTTGAGTTAATAATTGAAGTTATTTGATGTAATAAAA
TAGAAGT
Found at i:20814820 original size:23 final size:23
Alignment explanation
Indices: 20814768--20815053 Score: 110
Period size: 23 Copynumber: 11.7 Consensus size: 23
20814758 TTTGATATAA
*
20814768 TAAAAACCCTAACCTAATTTAACCT
1 TAAAAACCCTAACCTAAATTAA--T
20814793 T--AAACCCTAACCTAAATTAAT
1 TAAAAACCCTAACCTAAATTAAT
20814814 TAAAAACCCTAACCCTAACCTAATTTAAT
1 TAAAAACCCTAA-CCT-A---AA-TTAAT
20814843 TAAAAACCCTAACCCTAACCTAATTTAAT
1 TAAAAACCCTAA-CCT-A---AA-TTAAT
* *
20814872 TAAAAACCCTAAACCTTAACT--T
1 TAAAAACCCT-AACCTAAATTAAT
20814894 TAAAAACCCTAACCTAACCTAATTTAA-
1 TAAAAACCCTAACCT-A---AA-TTAAT
* *
20814921 TACAAAACCTTAACCTAATTTAAT
1 TA-AAAACCCTAACCTAAATTAAT
*
20814945 TAAAAACTCTAAACC----TTAACT
1 TAAAAACCCT-AACCTAAATTAA-T
* * * *
20814966 TAGAAACCTTAAACCTTAACT--T
1 TAAAAACCCT-AACCTAAATTAAT
* *
20814988 TAAAAACCCTAACCTAATTTGA-
1 TAAAAACCCTAACCTAAATTAAT
*
20815010 TACAAAACCCTAACCTAAACCCTAAT
1 TA-AAAACCCTAACCTAAA--TTAAT
*
20815036 TAAAAACCTTAACTCTAA
1 TAAAAACCCTAAC-CTAA
20815054 CCTAATTTAA
Statistics
Matches: 208, Mismatches: 22, Indels: 61
0.71 0.08 0.21
Matches are distributed among these distances:
20 4 0.02
21 27 0.13
22 22 0.11
23 52 0.25
24 11 0.05
25 19 0.09
26 7 0.03
27 3 0.01
28 14 0.07
29 47 0.23
30 2 0.01
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.28
Consensus pattern (23 bp):
TAAAAACCCTAACCTAAATTAAT
Found at i:20814828 original size:29 final size:29
Alignment explanation
Indices: 20814795--20815105 Score: 202
Period size: 29 Copynumber: 11.1 Consensus size: 29
20814785 TTTAACCTTA
*
20814795 AACCCTAACCTAAATTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
20814824 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
20814853 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
* *
20814882 AAACCT----TAA-CT--TTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
20814904 AA-CCTAACCTAATTTAA-TACAAAA-CCT
1 AACCCTAACCTAATTTAATTA-AAAACCCT
*
20814931 -----TAACCTAATTTAATTAAAAACTCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
* * **
20814955 AAACCTTAACTTAGA---AACCTTAAACCTTAACTTT
1 -AACCCTAACCTA-ATTTAA--TTAAA----AACCCT
*
20814989 AAAAACCCTAACCTAATTTGA-TACAAAACCCT
1 ---AACCCTAACCTAATTTAATTA-AAAACCCT
* *
20815021 AA-CCTAAACC----CTAATTAAAAACCTT
1 AACCCT-AACCTAATTTAATTAAAAACCCT
* *
20815046 AACTCTAACCTAATTTAATTAAAGACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
20815075 AATCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
20815104 AA
1 AA
20815106 ACTAAGTTAA
Statistics
Matches: 224, Mismatches: 22, Indels: 72
0.70 0.07 0.23
Matches are distributed among these distances:
21 3 0.01
22 13 0.06
23 17 0.08
24 5 0.02
25 21 0.09
26 5 0.02
27 5 0.02
28 9 0.04
29 108 0.48
30 11 0.05
31 1 0.00
32 4 0.02
34 5 0.02
35 3 0.01
36 13 0.06
38 1 0.00
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (29 bp):
AACCCTAACCTAATTTAATTAAAAACCCT
Found at i:20814958 original size:73 final size:76
Alignment explanation
Indices: 20814768--20815107 Score: 263
Period size: 73 Copynumber: 4.5 Consensus size: 76
20814758 TTTGATATAA
* *
20814768 TAAAAA-CC-CTAACCTAATTTAACCTT--AAACCCT-AACCTAAATTAATTAAAAACCCTAACC
1 TAAAAACCCTCTAACCTAATTTAA--TTAAAAACCCTAAACCTTAACT--TTAAAAACCCTAACC
20814828 CTAACCTAATTTAAT
62 CTAACCTAATTTAAT
20814843 TAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACTTTAAAAACCCTAA-C
1 TAAAAACCCT----CTAACCTAATTTAATTAAAAACCCTAAACCTTAACTTTAAAAACCCTAACC
20814907 CTAACCTAATTTAA-
62 CTAACCTAATTTAAT
* * * *
20814921 TACAAAA-CCT-TAACCTAATTTAATTAAAAACTCTAAACCTTAAC-TTAGAAACCTTAAACCT-
1 TA-AAAACCCTCTAACCTAATTTAATTAAAAACCCTAAACCTTAACTTTAAAAACCCTAACCCTA
*
20814982 ---TAA-CT--T
65 ACCTAATTTAAT
* * *
20814988 TAAAAA-CC-CTAACCTAATTTGA-TACAAAACCCT-AACCTAAACCCTAATTAAAAACCTTAAC
1 TAAAAACCCTCTAACCTAATTTAATTA-AAAACCCTAAACCTTAA--CT--TTAAAAACCCTAAC
*
20815049 TCTAACCTAATTTAAT
61 CCTAACCTAATTTAAT
*
20815065 TAAAGACCCTAATCCTAACCTAATTTAATTAAAAACCCTAAAC
1 TAAAAACCC---T-CTAACCTAATTTAATTAAAAACCCTAAAC
20815108 TAAGTTAACA
Statistics
Matches: 216, Mismatches: 15, Indels: 59
0.74 0.05 0.20
Matches are distributed among these distances:
65 9 0.04
66 25 0.12
67 3 0.01
68 1 0.00
69 3 0.01
70 14 0.06
72 11 0.05
73 36 0.17
74 3 0.01
75 7 0.03
76 2 0.01
77 6 0.03
78 7 0.03
79 21 0.10
80 13 0.06
81 21 0.10
82 8 0.04
83 21 0.10
84 5 0.02
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.28
Consensus pattern (76 bp):
TAAAAACCCTCTAACCTAATTTAATTAAAAACCCTAAACCTTAACTTTAAAAACCCTAACCCTAA
CCTAATTTAAT
Found at i:20815048 original size:25 final size:24
Alignment explanation
Indices: 20814987--20815060 Score: 64
Period size: 25 Copynumber: 3.1 Consensus size: 24
20814977 AACCTTAACT
** *
20814987 TTAAAAACCCTAAC-CTAATTTGA
1 TTAAAAACCCTAACTCTAACCTAA
20815010 -TACAAAACCCTAAC-CTAAACCCTAA
1 TTA-AAAACCCTAACTCT-AA-CCTAA
*
20815035 TTAAAAACCTTAACTCTAACCTAA
1 TTAAAAACCCTAACTCTAACCTAA
20815059 TT
1 TT
20815061 TAATTAAAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
22 2 0.05
23 13 0.31
24 9 0.21
25 14 0.33
26 4 0.10
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (24 bp):
TTAAAAACCCTAACTCTAACCTAA
Found at i:20815252 original size:116 final size:116
Alignment explanation
Indices: 20815112--20815465 Score: 618
Period size: 116 Copynumber: 3.1 Consensus size: 116
20815102 CTAAACTAAG
* * *
20815112 TTAACAATGTTACATTCACGTAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAA
1 TTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAA
*
20815177 TAATTTTACATAATTTGATAATTTTGCTAACCATTAATACAATTTTTTGAC
66 TAATTTTACATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC
*
20815228 TTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGATTGGTACTAACAATTAA
1 TTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAA
*
20815293 TAATTTTACATAATTTGATAATTTTACTAATCATTAATACAATTTTTTGAC
66 TAATTTTACATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC
* **
20815344 TTAATAATTTTACATTCACATAATGCTAGATTTGGAAAAATGTTTCAACTGGTACTAACAATTAA
1 TTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAA
*
20815409 TAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC
66 TAATTTTACATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC
20815460 TTAATA
1 TTAATA
20815466 CAACTTATCA
Statistics
Matches: 226, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 226 1.00
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (116 bp):
TTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAA
TAATTTTACATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC
Found at i:20818658 original size:124 final size:125
Alignment explanation
Indices: 20818498--20818871 Score: 606
Period size: 126 Copynumber: 3.0 Consensus size: 125
20818488 AACATGCTAC
20818498 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGA
* *
20818563 AGCAATTTTATACTATTTGCTCAGAAACGT-AAAAAAAAATTATTTCTTACATGACCTAT
66 AGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGACCTAT
* *
20818622 TGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTTTTCTCAAATAGCATCCTGCTAGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGA
* * *
20818687 AGCGATTTTATACTATTTGCTCAGAAACGTCGAAAAAATAATTATTTCTTCCGTGATCTAT
66 AGCGATTTTATACTATTTGCTCAGAAACGTC-AAAAAAAAATTATTTCTTCCATGACCTAT
20818748 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGA
* ** *** *
20818813 AGCGATTTTATATTATTTTATCAGAAACGTCAACTCAAAATTATTTCTTCCAGGACCTA
66 AGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGACCTA
20818872 AAAACCCTAA
Statistics
Matches: 229, Mismatches: 19, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
124 92 0.40
125 21 0.09
126 116 0.51
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (125 bp):
TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGA
AGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGACCTAT
Found at i:20827308 original size:24 final size:24
Alignment explanation
Indices: 20827233--20827317 Score: 66
Period size: 25 Copynumber: 3.5 Consensus size: 24
20827223 AATGTCATGA
*
20827233 TCATTTCTTTTAATTTGATTTGTA
1 TCATTTCTTTTAATTTGATTTGTG
* * **
20827257 CCAATTTTTTTTTGTTT-ATTAT-TGG
1 TC-ATTTCTTTTAATTTGATT-TGT-G
20827282 TCATTTCTTTTAATTTGATTTGTG
1 TCATTTCTTTTAATTTGATTTGTG
*
20827306 TCACTTTTTTTT
1 TCA-TTTCTTTT
20827318 CTTATTTGTT
Statistics
Matches: 45, Mismatches: 10, Indels: 11
0.68 0.15 0.17
Matches are distributed among these distances:
24 21 0.47
25 24 0.53
ACGTcount: A:0.16, C:0.09, G:0.09, T:0.65
Consensus pattern (24 bp):
TCATTTCTTTTAATTTGATTTGTG
Done.