Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 53 of 103
Found at i:20087918 original size:25 final size:25
Alignment explanation
Indices: 20087889--20087937 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
20087879 ACTCCTTTTG
*
20087889 ATAACTTTATTGTATAGAGTTATCA
1 ATAACTCTATTGTATAGAGTTATCA
*
20087914 ATAACTCTATTGTATATAGTTATC
1 ATAACTCTATTGTATAGAGTTATC
20087938 TTGCCATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (25 bp):
ATAACTCTATTGTATAGAGTTATCA
Found at i:20093454 original size:68 final size:67
Alignment explanation
Indices: 20093343--20093532 Score: 247
Period size: 68 Copynumber: 2.8 Consensus size: 67
20093333 TAATGTACAT
*
20093343 GAAAGTATGAAGAATGCCATTTTAGATTATATATATGATGTATATTCCAAATACTACATGAGATG
1 GAAAG-ATGAAGAATGCCA--TTAGATTATGTATATGATGTATATTCCAAATACTACATGAGATG
*
20093408 ATTTA
63 ATTGA
* * *
20093413 GAAAGCATGATGAATGCCATTAGATTGTGTATATGATGTATATTCCACATACTACATGAGATGAT
1 GAAAG-ATGAAGAATGCCATTAGATTATGTATATGATGTATATTCCAAATACTACATGAGATGAT
20093478 TGA
65 TGA
* * *
20093481 GAGAA-AGTGAAGAATGCCATGAGATTATGTATATGATGTAAATTCCATATAC
1 GA-AAGA-TGAAGAATGCCATTAGATTATGTATATGATGTATATTCCAAATAC
20093533 CTTAGAAGAT
Statistics
Matches: 107, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
67 1 0.01
68 87 0.81
69 2 0.02
70 17 0.16
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (67 bp):
GAAAGATGAAGAATGCCATTAGATTATGTATATGATGTATATTCCAAATACTACATGAGATGATT
GA
Found at i:20103159 original size:14 final size:14
Alignment explanation
Indices: 20103140--20103170 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
20103130 CTTAATTTCC
*
20103140 ATACATTTACATAT
1 ATACATTTACACAT
20103154 ATACATTTACACAT
1 ATACATTTACACAT
20103168 ATA
1 ATA
20103171 TTATTCTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (14 bp):
ATACATTTACACAT
Found at i:20104145 original size:60 final size:60
Alignment explanation
Indices: 20104051--20104193 Score: 180
Period size: 60 Copynumber: 2.4 Consensus size: 60
20104041 ATAGGAGACC
* * * * **
20104051 AAAACAGAAAGTTTTTCGCTTCAGAGAGATTCAATCTCACTGCAGGGAAATTATAACCCA
1 AAAACAGAAAGTTTCTCGCTGCAGAGAAATTCAATCTCACAGCAACGAAATTATAACCCA
* * *
20104111 GAAACAGAAAGTTTCTCACTGCAGCA-AAATTCAATCTCACAGCAACGAAATTGTAACCCA
1 AAAACAGAAAGTTTCTCGCTGCAG-AGAAATTCAATCTCACAGCAACGAAATTATAACCCA
*
20104171 AAAATAGAAAGTTTCTCGCTGCA
1 AAAACAGAAAGTTTCTCGCTGCA
20104194 ACGAGAAGCT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
60 69 0.99
61 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.23
Consensus pattern (60 bp):
AAAACAGAAAGTTTCTCGCTGCAGAGAAATTCAATCTCACAGCAACGAAATTATAACCCA
Found at i:20104602 original size:43 final size:43
Alignment explanation
Indices: 20104555--20104645 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
20104545 CACATGGTTG
* *
20104555 GGTCATCACT-GGGTTATGCGCACTCCTTACTCGCACATAACCA
1 GGTCAT-ACTCGGCTTATGCGCACTCCCTACTCGCACATAACCA
* *
20104598 GGTCATTCTCGGCTTATGCGCACTCCCTACTCGCACATAGCCA
1 GGTCATACTCGGCTTATGCGCACTCCCTACTCGCACATAACCA
*
20104641 AGTCA
1 GGTCA
20104646 ATGTAATTAC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 2 0.05
43 40 0.95
ACGTcount: A:0.22, C:0.34, G:0.19, T:0.25
Consensus pattern (43 bp):
GGTCATACTCGGCTTATGCGCACTCCCTACTCGCACATAACCA
Found at i:20109677 original size:56 final size:56
Alignment explanation
Indices: 20109603--20109708 Score: 185
Period size: 56 Copynumber: 1.9 Consensus size: 56
20109593 GTGCATGAAC
* *
20109603 TAAGAAGAACAAGAATGCATGTGTTTTGATTGGTTCATGAGGGTGGCCAAATGACA
1 TAAGAAGAACAAGAATGCATGTATTTGGATTGGTTCATGAGGGTGGCCAAATGACA
*
20109659 TAAGAAGAATAAGAATGCATGTATTTGGATTGGTTCATGAGGGTGGCCAA
1 TAAGAAGAACAAGAATGCATGTATTTGGATTGGTTCATGAGGGTGGCCAA
20109709 GTAAATAATT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 47 1.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.27
Consensus pattern (56 bp):
TAAGAAGAACAAGAATGCATGTATTTGGATTGGTTCATGAGGGTGGCCAAATGACA
Found at i:20111260 original size:2 final size:2
Alignment explanation
Indices: 20111253--20111321 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
20111243 ATTGATTTGG
20111253 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
20111295 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 A
20111322 NNNNNNNNNN
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20120270 original size:22 final size:23
Alignment explanation
Indices: 20120245--20120291 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
20120235 ATTTCTATGC
*
20120245 ATTACTACAAGAACTAAG-CCAA
1 ATTACTACAAAAACTAAGCCCAA
* *
20120267 ATTACTATAAAAATTAAGCCCAA
1 ATTACTACAAAAACTAAGCCCAA
20120290 AT
1 AT
20120292 AACTCTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.51, C:0.19, G:0.06, T:0.23
Consensus pattern (23 bp):
ATTACTACAAAAACTAAGCCCAA
Found at i:20125311 original size:39 final size:38
Alignment explanation
Indices: 20125181--20125316 Score: 147
Period size: 36 Copynumber: 3.7 Consensus size: 38
20125171 CTCAACTCAG
* * *
20125181 CTCATGTGCACTCTCACACGGCACATAGCTA-ATA-C-C
1 CTCATGTGCACTCCCACACCGCACATGGC-AGATATCAC
*
20125217 CTCATGTGCACCCCCACACCGCACATGGCAGATATCA-
1 CTCATGTGCACTCCCACACCGCACATGGCAGATATCAC
* *
20125254 -TCATGTGCACTCCCACACCACACATGGCATATATCATC
1 CTCATGTGCACTCCCACACCGCACATGGCAGATATCA-C
* *
20125292 CTCGTGTGCACTCCTACACCGCACA
1 CTCATGTGCACTCCCACACCGCACA
20125317 CCACCATGAC
Statistics
Matches: 84, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
35 1 0.01
36 61 0.73
37 1 0.01
39 21 0.25
ACGTcount: A:0.26, C:0.39, G:0.14, T:0.21
Consensus pattern (38 bp):
CTCATGTGCACTCCCACACCGCACATGGCAGATATCAC
Found at i:20127019 original size:21 final size:21
Alignment explanation
Indices: 20126995--20127035 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
20126985 TAACAGAAGG
*
20126995 TTTCGCGCTGCAGTGAAATTT
1 TTTCGCGCTACAGTGAAATTT
*
20127016 TTTCTCGCTACAGTGAAATT
1 TTTCGCGCTACAGTGAAATT
20127036 CAGCTGATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (21 bp):
TTTCGCGCTACAGTGAAATTT
Found at i:20129657 original size:14 final size:13
Alignment explanation
Indices: 20129632--20129669 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 13
20129622 GGAAATTATT
20129632 TTTATTTTATTTA
1 TTTATTTTATTTA
20129645 TTTATTGTTATTTA
1 TTTATT-TTATTTA
20129659 TTTA-TTTATTT
1 TTTATTTTATTT
20129670 TACTTTCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 6 0.25
13 7 0.29
14 11 0.46
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:20129660 original size:18 final size:19
Alignment explanation
Indices: 20129627--20129668 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
20129617 AATGTGGAAA
*
20129627 TTATTTTTATTTTATTTAT
1 TTATTGTTATTTTATTTAT
20129646 TTATTGTTA-TTTATTTAT
1 TTATTGTTATTTTATTTAT
20129664 TTATT
1 TTATT
20129669 TTACTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (19 bp):
TTATTGTTATTTTATTTAT
Found at i:20132615 original size:18 final size:19
Alignment explanation
Indices: 20132577--20132616 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
20132567 AAAGTGATAT
* *
20132577 TATAACTATTTTAATATAA
1 TATAACTATTTCAATAAAA
20132596 TATAACTA-TTCAATAAAA
1 TATAACTATTTCAATAAAA
20132614 TAT
1 TAT
20132617 TCTATTTTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (19 bp):
TATAACTATTTCAATAAAA
Found at i:20137048 original size:39 final size:38
Alignment explanation
Indices: 20137005--20137078 Score: 103
Period size: 39 Copynumber: 1.9 Consensus size: 38
20136995 TAGGAGACCA
* * *
20137005 AAACAGAAAGTTTTTCGTTGCAGTGAAATTGTAATCCAG
1 AAACAGAAAGTTTCTCGCTGCAGCGAAATT-TAATCCAG
*
20137044 AAACAGAATGTTTCTCGCTGCAGCGAAATTTAATC
1 AAACAGAAAGTTTCTCGCTGCAGCGAAATTTAATC
20137079 TCACTTCAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 5 0.16
39 26 0.84
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (38 bp):
AAACAGAAAGTTTCTCGCTGCAGCGAAATTTAATCCAG
Found at i:20137616 original size:43 final size:43
Alignment explanation
Indices: 20137508--20137616 Score: 105
Period size: 43 Copynumber: 2.5 Consensus size: 43
20137498 ATGGGCACAC
** * * * * *
20137508 CCTACTCGCACATGGCTAGGTCATCACCGGGTTATGCGCACTC
1 CCTACTCGCACAAAGCAAAGTCATCACCGGCTTATGCACACTA
**
20137551 CCTACTCGCACATAA-CCGAGTCATC-CTCGGCTTATGCACACTA
1 CCTACTCGCACA-AAGCAAAGTCATCAC-CGGCTTATGCACACTA
20137594 CCTACTCGCACAAAGCAAAGTCA
1 CCTACTCGCACAAAGCAAAGTCA
20137617 ATATAATTAC
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
42 3 0.06
43 50 0.94
ACGTcount: A:0.26, C:0.36, G:0.17, T:0.21
Consensus pattern (43 bp):
CCTACTCGCACAAAGCAAAGTCATCACCGGCTTATGCACACTA
Found at i:20142979 original size:36 final size:36
Alignment explanation
Indices: 20142849--20143015 Score: 133
Period size: 36 Copynumber: 4.6 Consensus size: 36
20142839 TCAACTCAGT
* * * * *
20142849 TCATGTGCACTCCCACACTGCACATAG-CTAATACCT
1 TCATGTGCACTCCCACACCGCACATGGAAT-ATATCA
* *
20142885 TCATGTGCACCCCCACACCACACATGGCAA-ATATCA
1 TCATGTGCACTCCCACACCGCACATGG-AATATATCA
** *
20142921 TCACATGCACTCCCAGACCGCACATGGAATATATCA
1 TCATGTGCACTCCCACACCGCACATGGAATATATCA
* ** ** *
20142957 TCATGTGCACTCCCACATCGCACA-CCACCATCACCA
1 TCATGTGCACTCCCACACCGCACATGGAATAT-ATCA
*
20142993 TCATGTGCACTCCCACACTGCAC
1 TCATGTGCACTCCCACACCGCAC
20143016 GGGCACGGTT
Statistics
Matches: 104, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
35 5 0.05
36 99 0.95
ACGTcount: A:0.29, C:0.40, G:0.11, T:0.20
Consensus pattern (36 bp):
TCATGTGCACTCCCACACCGCACATGGAATATATCA
Found at i:20144358 original size:13 final size:13
Alignment explanation
Indices: 20144326--20144358 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
20144316 AAAAATCTGC
20144326 AATGGAGAGAAAA
1 AATGGAGAGAAAA
*
20144339 AAT-GAGAGAAAG
1 AATGGAGAGAAAA
20144351 AATGGAGA
1 AATGGAGA
20144359 AGGTGCTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.33, T:0.09
Consensus pattern (13 bp):
AATGGAGAGAAAA
Found at i:20144605 original size:15 final size:15
Alignment explanation
Indices: 20144585--20144638 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
20144575 CTAATATGGA
20144585 ATTTATTTTTATTTT
1 ATTTATTTTTATTTT
20144600 ATTTA-TTTTATTGTT
1 ATTTATTTTTATT-TT
*
20144615 ATATATTATTT-TTTT
1 ATTTATT-TTTATTTT
20144630 ATTTATTTT
1 ATTTATTTT
20144639 ACTTACTTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 9 0.26
15 19 0.56
16 3 0.09
17 3 0.09
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (15 bp):
ATTTATTTTTATTTT
Found at i:20147416 original size:54 final size:54
Alignment explanation
Indices: 20147350--20147509 Score: 268
Period size: 54 Copynumber: 3.0 Consensus size: 54
20147340 ATGGTGATAC
*
20147350 TGTCCGGCTATGTGCACTATGTGGTGGGATGCATATGAGCTAGGTGAGATGGGA
1 TGTCCGGCTATGTGCACTATGTGGTGGGATGCACATGAGCTAGGTGAGATGGGA
* * *
20147404 TGTCCGGCTATGTGCACGATGTGGTGGGATGCACATGAGTTGGGTGAGATGGGA
1 TGTCCGGCTATGTGCACTATGTGGTGGGATGCACATGAGCTAGGTGAGATGGGA
20147458 TGTCCGGCTATGTGCA-TGATGTGGTGGGATGCACATGAGCTAGGTGAGATGG
1 TGTCCGGCTATGTGCACT-ATGTGGTGGGATGCACATGAGCTAGGTGAGATGG
20147510 AATGATTGCT
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
54 98 1.00
ACGTcount: A:0.19, C:0.13, G:0.41, T:0.27
Consensus pattern (54 bp):
TGTCCGGCTATGTGCACTATGTGGTGGGATGCACATGAGCTAGGTGAGATGGGA
Found at i:20147432 original size:29 final size:29
Alignment explanation
Indices: 20147350--20147434 Score: 72
Period size: 29 Copynumber: 3.1 Consensus size: 29
20147340 ATGGTGATAC
*
20147350 TGTCCGGCTATGTGCACTATGTGGTGGGA
1 TGTCCGGCTATGTGCACGATGTGGTGGGA
* * * * *
20147379 TG--C--ATATGAGCTA-GGTGAGATGGGA
1 TGTCCGGCTATGTGC-ACGATGTGGTGGGA
20147404 TGTCCGGCTATGTGCACGATGTGGTGGGA
1 TGTCCGGCTATGTGCACGATGTGGTGGGA
20147433 TG
1 TG
20147435 CACATGAGTT
Statistics
Matches: 39, Mismatches: 11, Indels: 12
0.63 0.18 0.19
Matches are distributed among these distances:
25 16 0.41
26 1 0.03
27 2 0.05
28 1 0.03
29 19 0.49
ACGTcount: A:0.18, C:0.14, G:0.40, T:0.28
Consensus pattern (29 bp):
TGTCCGGCTATGTGCACGATGTGGTGGGA
Found at i:20169046 original size:35 final size:36
Alignment explanation
Indices: 20169007--20169102 Score: 113
Period size: 35 Copynumber: 2.7 Consensus size: 36
20168997 CTTAGTTAGC
*
20169007 TCATGTGCACTCCCTACACACACAAGGCAATA-TCA
1 TCATGTGCACTCCCTACACGCACAAGGCAATACTCA
* * * ***
20169042 TCATGTGCACTCCTTACATGCATATTTCAATATCTCA
1 TCATGTGCACTCCCTACACGCACAAGGCAATA-CTCA
20169079 TCATGTGCACTCCCTACACGCACA
1 TCATGTGCACTCCCTACACGCACA
20169103 TTTCAATATA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
35 25 0.51
37 24 0.49
ACGTcount: A:0.29, C:0.33, G:0.10, T:0.27
Consensus pattern (36 bp):
TCATGTGCACTCCCTACACGCACAAGGCAATACTCA
Found at i:20169089 original size:37 final size:37
Alignment explanation
Indices: 20169007--20169119 Score: 140
Period size: 37 Copynumber: 3.1 Consensus size: 37
20168997 CTTAGTTAGC
* ***
20169007 TCATGTGCACTCCCTACACACACAAGGC-A-ATATCA
1 TCATGTGCACTCCCTACACGCACATTTCAATATATCA
* * * *
20169042 TCATGTGCACTCCTTACATGCATATTTCAATATCTCA
1 TCATGTGCACTCCCTACACGCACATTTCAATATATCA
20169079 TCATGTGCACTCCCTACACGCACATTTCAATATATCA
1 TCATGTGCACTCCCTACACGCACATTTCAATATATCA
20169116 TCAT
1 TCAT
20169120 ACGCATTCCT
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
35 21 0.33
36 1 0.02
37 42 0.66
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.30
Consensus pattern (37 bp):
TCATGTGCACTCCCTACACGCACATTTCAATATATCA
Found at i:20170299 original size:20 final size:21
Alignment explanation
Indices: 20170253--20170307 Score: 85
Period size: 20 Copynumber: 2.6 Consensus size: 21
20170243 AACCAAGCTT
*
20170253 TTTCTTCCTTTCTTTCTTTTTC
1 TTTC-TCCTTTCTTTCTTTTCC
20170275 TTTCTCCTTTCTTTC-TTTCC
1 TTTCTCCTTTCTTTCTTTTCC
20170295 TTTCTCCTTTCTT
1 TTTCTCCTTTCTT
20170308 CCAATTGATC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 17 0.53
21 11 0.34
22 4 0.12
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTCTCCTTTCTTTCTTTTCC
Found at i:20172023 original size:35 final size:35
Alignment explanation
Indices: 20171953--20172199 Score: 266
Period size: 35 Copynumber: 7.1 Consensus size: 35
20171943 CACTTGATTA
* *
20171953 AAATTGTTTAATTAAG---TTGTGCCTAATTAACT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
*
20171985 AAATTGTTTAATTAAATCATTGGGCCTAATTAATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
*
20172020 AAATTATTTAATTAAGTCATTGGGCCTAATTAATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
**** * * * *
20172055 AAATTAAGCAAATAAGTTATTGGGCTTAATTGATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
* * *
20172090 AAATTTGTTTAATTAAGCCATTGGGCCTAGTTGATTT
1 AAA-TTGTTTAATTAAGTCATTGGGCCTAATT-AATT
* ** *
20172127 AAATTGTTTAATTAAATTGTTGGGCTTAATTAATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
* *
20172162 AAATTGTTTAATTAAGTTATTGGGCCTAATTGATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
20172197 AAA
1 AAA
20172200 CTAAACAATT
Statistics
Matches: 176, Mismatches: 34, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
32 15 0.09
35 115 0.65
36 41 0.23
37 5 0.03
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (35 bp):
AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
Found at i:20172157 original size:107 final size:105
Alignment explanation
Indices: 20171973--20172199 Score: 283
Period size: 107 Copynumber: 2.1 Consensus size: 105
20171963 ATTAAGTTGT
* * * *
20171973 GCCTAATTAACTAAATTGTTTAATTAAATCATTGGGCCTAATTAATTAAATTATTTAATTAAGTC
1 GCCTAATTGATTAAATTGTTTAATTAAACCATTGGGCCTAATTAATTAAATTATTTAATTAAATC
20172038 ATTGGGCCTAATTAATTAAATTAAGCAAATAAGTTATTGG
66 ATTGGGCCTAATTAATTAAATTAAGCAAATAAGTTATTGG
* * * * *
20172078 GCTTAATTGATTAAATTTGTTTAATTAAGCCATTGGGCCTAGTTGATTTAAATTGTTTAATTAAA
1 GCCTAATTGATTAAA-TTGTTTAATTAAACCATTGGGCCTAATT-AATTAAATTATTTAATTAAA
** * **** *
20172143 TTGTTGGGCTTAATTAATTAAATTGTTTAATTAAGTTATTGG
64 TCATTGGGCCTAATTAATTAAATTAAGCAAATAAGTTATTGG
20172185 GCCTAATTGATTAAA
1 GCCTAATTGATTAAA
20172200 CTAAACAATT
Statistics
Matches: 102, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
105 12 0.12
106 25 0.25
107 65 0.64
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (105 bp):
GCCTAATTGATTAAATTGTTTAATTAAACCATTGGGCCTAATTAATTAAATTATTTAATTAAATC
ATTGGGCCTAATTAATTAAATTAAGCAAATAAGTTATTGG
Found at i:20172172 original size:142 final size:139
Alignment explanation
Indices: 20171946--20172224 Score: 389
Period size: 142 Copynumber: 2.0 Consensus size: 139
20171936 TCTCGAGCAC
*
20171946 TTGATTAAAATTGTTTAATTAAGTTGTGCCTAATTAACTAAATTGTTTAATTAAATCATTGGGCC
1 TTGATTAAAATTGTTTAATTAAGTTGGGCCTAATTAACTAAATTGTTTAATTAAATCATTGGGCC
* *
20172011 TAATTAATTAAATTATTTAATTAAGTCATTGGGCCTAATTAATTAAATTAAGCAAATAAGTT-AT
66 TAATTAATTAAATTATTTAATTAAGTCATTGGGCCTAATTAATTAAACTAAACAAATAAGTTAAT
20172075 TGGGCTTAA
131 TGGGCTTAA
* * ** **
20172084 TTGATTAAATTTGTTTAATTAAGCCATTGGGCCTAGTTGATTTAAATTGTTTAATTAAATTGTTG
1 TTGATTAAAATTGTTTAATTAAG---TTGGGCCTAATT-AACTAAATTGTTTAATTAAATCATTG
* * * * *
20172149 GGCTTAATTAATTAAATTGTTTAATTAAGTTATTGGGCCTAATTGATTAAACTAAACAATTAAGT
62 GGCCTAATTAATTAAATTATTTAATTAAGTCATTGGGCCTAATTAATTAAACTAAACAAATAAGT
20172214 TAATTGGGCTT
127 TAATTGGGCTT
20172225 CTAAGGAACT
Statistics
Matches: 122, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
138 22 0.18
141 10 0.08
142 81 0.66
143 9 0.07
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.43
Consensus pattern (139 bp):
TTGATTAAAATTGTTTAATTAAGTTGGGCCTAATTAACTAAATTGTTTAATTAAATCATTGGGCC
TAATTAATTAAATTATTTAATTAAGTCATTGGGCCTAATTAATTAAACTAAACAAATAAGTTAAT
TGGGCTTAA
Found at i:20172220 original size:107 final size:106
Alignment explanation
Indices: 20172003--20172222 Score: 235
Period size: 107 Copynumber: 2.1 Consensus size: 106
20171993 TAATTAAATC
*
20172003 ATTGGGCCTAATTAATTAAATTATTTAATTAAGTCATTGGGCCTAATTAATTAAATTAAGCAAAT
1 ATTGGGCCTAATTAATTAAATTATTTAATTAAATCATTGGGCCTAATTAATTAAATTAAGCAAAT
* * **** *
20172068 AAGTTATTGGGCTTAATTGATTAAATTTGTTTAATTAAGCC
66 AAGTTATTGGGCCTAATTGATTAAATCTAAACAATTAAGCA
* * * ** * **** *
20172109 ATTGGGCCTAGTTGATTTAAATTGTTTAATTAAATTGTTGGGCTTAATTAATTAAATTGTTTAAT
1 ATTGGGCCTAATT-AATTAAATTATTTAATTAAATCATTGGGCCTAATTAATTAAATTAAGCAAA
*
20172174 TAAGTTATTGGGCCTAATTGATTAAA-CTAAACAATTAAGTTA
65 TAAGTTATTGGGCCTAATTGATTAAATCTAAACAATTAAG-CA
20172216 ATTGGGC
1 ATTGGGC
20172223 TTCTAAGGAA
Statistics
Matches: 92, Mismatches: 20, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
106 20 0.22
107 72 0.78
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (106 bp):
ATTGGGCCTAATTAATTAAATTATTTAATTAAATCATTGGGCCTAATTAATTAAATTAAGCAAAT
AAGTTATTGGGCCTAATTGATTAAATCTAAACAATTAAGCA
Found at i:20179910 original size:14 final size:14
Alignment explanation
Indices: 20179891--20179948 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
20179881 TTAACTTGAG
20179891 AAGAAAGAAAAAGA
1 AAGAAAGAAAAAGA
* *
20179905 AAGAAACAAAGAGA
1 AAGAAAGAAAAAGA
20179919 AAG-AAGAAGAAAAGA
1 AAGAAAG-A-AAAAGA
20179934 AA-AAAGAAAATAGA
1 AAGAAAGAAAA-AGA
20179948 A
1 A
20179949 TGGTGAAGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 5 0.14
14 21 0.58
15 10 0.28
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.02
Consensus pattern (14 bp):
AAGAAAGAAAAAGA
Found at i:20179915 original size:18 final size:18
Alignment explanation
Indices: 20179889--20179942 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
20179879 GCTTAACTTG
20179889 AGAAG-AAAGAAAAAGAA
1 AGAAGAAAAGAAAAAGAA
*
20179906 AGAA-ACAAAGAGAAAG-A
1 AGAAGA-AAAGAAAAAGAA
20179923 AGAAGAAAAGAAAAAAGAA
1 AGAAGAAAAG-AAAAAGAA
20179942 A
1 A
20179943 ATAGAATGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
17 13 0.43
18 15 0.50
19 2 0.07
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (18 bp):
AGAAGAAAAGAAAAAGAA
Found at i:20179919 original size:24 final size:24
Alignment explanation
Indices: 20179892--20179940 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
20179882 TAACTTGAGA
20179892 AGAAAGAAAAAG-AAAGAAACAAAG
1 AGAAAGAAAAAGAAAAGAAA-AAAG
*
20179916 AGAAAGAAGAAGAAAAGAAAAAAG
1 AGAAAGAAAAAGAAAAGAAAAAAG
20179940 A
1 A
20179941 AAATAGAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (24 bp):
AGAAAGAAAAAGAAAAGAAAAAAG
Found at i:20181479 original size:43 final size:43
Alignment explanation
Indices: 20181429--20181540 Score: 161
Period size: 43 Copynumber: 2.6 Consensus size: 43
20181419 TATTGACTCG
*
20181429 GCTATGTGCGAGTAGGGAGTGCGCATAAGTCGATGATGACCCA
1 GCTATGTGCGAGTAGGGAGTGCGCATAACTCGATGATGACCCA
* * * *
20181472 GTTATGTGCGAGCAGGGAGTGCGCATAACTCGGTGATGACCTA
1 GCTATGTGCGAGTAGGGAGTGCGCATAACTCGATGATGACCCA
* *
20181515 GCCATGTGCGAGTAGGGAGTGTGCAT
1 GCTATGTGCGAGTAGGGAGTGCGCAT
20181541 GAGCTGGGAA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.22
Consensus pattern (43 bp):
GCTATGTGCGAGTAGGGAGTGCGCATAACTCGATGATGACCCA
Found at i:20201420 original size:43 final size:43
Alignment explanation
Indices: 20201338--20201420 Score: 98
Period size: 43 Copynumber: 1.9 Consensus size: 43
20201328 TTGTGTGATA
* *
20201338 ATGATGACCCAACTATGTGCGATGTGGGAGAGCACATGAGCTG
1 ATGATGACCCAACTATGTGCGATGTGGGAGACCAAATGAGCTG
* *
20201381 ATGATGACCTAGCTATGTGCGA-GTAGGGATG-CCAAATGAG
1 ATGATGACCCAACTATGTGCGATGT-GGGA-GACCAAATGAG
20201421 GTTAATTATC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
42 2 0.06
43 31 0.91
44 1 0.03
ACGTcount: A:0.29, C:0.17, G:0.33, T:0.22
Consensus pattern (43 bp):
ATGATGACCCAACTATGTGCGATGTGGGAGACCAAATGAGCTG
Found at i:20203272 original size:19 final size:21
Alignment explanation
Indices: 20203245--20203286 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 21
20203235 CTGTAGATAT
20203245 AAATATCTAAC-GC-TCCAGC
1 AAATATCTAACAGCTTCCAGC
* *
20203264 AAATTTCTAGCAGCTTCCAGC
1 AAATATCTAACAGCTTCCAGC
20203285 AA
1 AA
20203287 CTCTTCTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 9 0.47
20 2 0.11
21 8 0.42
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.24
Consensus pattern (21 bp):
AAATATCTAACAGCTTCCAGC
Found at i:20209755 original size:43 final size:43
Alignment explanation
Indices: 20209707--20209803 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 43
20209697 TGTTGTGTGA
* *
20209707 TAATGATGACCCAGCTATGTGCGATGTA-AGAGTGCACATGAGC
1 TAATGATGACCCAGCTATGTGC-AAGTAGAGAGTGCACATAAGC
* * *
20209750 TAATGATGACCCAGCTATTTGCAAGTAGGGAGTGCGCATAAGC
1 TAATGATGACCCAGCTATGTGCAAGTAGAGAGTGCACATAAGC
*
20209793 CAATGATGACC
1 TAATGATGACC
20209804 TGACTATGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 4 0.09
43 43 0.91
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.23
Consensus pattern (43 bp):
TAATGATGACCCAGCTATGTGCAAGTAGAGAGTGCACATAAGC
Found at i:20213798 original size:37 final size:37
Alignment explanation
Indices: 20213748--20213866 Score: 166
Period size: 37 Copynumber: 3.2 Consensus size: 37
20213738 TGTTGGGTGG
* * *
20213748 TGATGTTGAAGTGTGCGAGTTGGGAGTGCACACATGA
1 TGATGATGGAGTGTGCGAGTAGGGAGTGCACACATGA
*
20213785 TGATGATGGAGTGTGCGAGTAGAGAGTGCACACATGA
1 TGATGATGGAGTGTGCGAGTAGGGAGTGCACACATGA
** *
20213822 TGATGACAGAGTGTGTGAGTAGGGAGTGCACACATGA
1 TGATGATGGAGTGTGCGAGTAGGGAGTGCACACATGA
*
20213859 TGACGATG
1 TGATGATG
20213867 TATGTGTATG
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.28, C:0.11, G:0.38, T:0.24
Consensus pattern (37 bp):
TGATGATGGAGTGTGCGAGTAGGGAGTGCACACATGA
Found at i:20214351 original size:19 final size:19
Alignment explanation
Indices: 20214327--20214398 Score: 99
Period size: 19 Copynumber: 3.8 Consensus size: 19
20214317 GAGGAGGTTT
* * *
20214327 GTTGAGAAACTCTCAGATG
1 GTTGAGAAACCCTCGGATA
20214346 GTTGAGAAACCCTCGGATA
1 GTTGAGAAACCCTCGGATA
20214365 GTTGAGAAACCCTCGGATA
1 GTTGAGAAACCCTCGGATA
* *
20214384 GTTTAGAAACTCTCG
1 GTTGAGAAACCCTCG
20214399 TTCCTTGATA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (19 bp):
GTTGAGAAACCCTCGGATA
Found at i:20227112 original size:56 final size:56
Alignment explanation
Indices: 20227045--20227164 Score: 170
Period size: 56 Copynumber: 2.1 Consensus size: 56
20227035 GGATGGCAAA
* * * *
20227045 GTGGCCAAATGAAATAAAAAGAATAAGAATGCATGTGTTTTGATTGGTTCATGA-G
1 GTGGCCAAATGAAATAAAAAGAATAACAATGCATGTGTCTTGATTAGCTCATGATG
* *
20227100 GTTGGCCAAATGAAATTAGAAGAATAACAATGCATGTGTCTTGATTAGCTCATGATG
1 G-TGGCCAAATGAAATAAAAAGAATAACAATGCATGTGTCTTGATTAGCTCATGATG
20227157 GTGGCCAA
1 GTGGCCAA
20227165 GTAAAAAATT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
55 1 0.02
56 54 0.95
57 2 0.04
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (56 bp):
GTGGCCAAATGAAATAAAAAGAATAACAATGCATGTGTCTTGATTAGCTCATGATG
Found at i:20231446 original size:2 final size:2
Alignment explanation
Indices: 20231441--20231471 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
20231431 TCTATGTATG
20231441 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20231472 CAATCATCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20231582 original size:42 final size:42
Alignment explanation
Indices: 20231495--20231618 Score: 133
Period size: 42 Copynumber: 2.9 Consensus size: 42
20231485 CACCCTCCCA
* * * * * **
20231495 TCATCATCAGCTCATATGCACTCCCCACTAGCACATGGCTGGG
1 TCATCATCAGGTTATGTGCACT-CCCACTCGCACATAGCCAGG
*
20231538 TCATCATCAGGTTATGTGCGCTCCCACTCGCACATAGCCAGG
1 TCATCATCAGGTTATGTGCACTCCCACTCGCACATAGCCAGG
* *
20231580 TCAGCATC-GGCTTATGCGCACTCCCACTCGCACATAGCC
1 TCATCATCAGG-TTATGTGCACTCCCACTCGCACATAGCC
20231619 GGGGCAATAT
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
41 2 0.03
42 49 0.71
43 18 0.26
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.23
Consensus pattern (42 bp):
TCATCATCAGGTTATGTGCACTCCCACTCGCACATAGCCAGG
Found at i:20231679 original size:2 final size:2
Alignment explanation
Indices: 20231668--20231702 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
20231658 ACATATATTC
*
20231668 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20231703 CAACATGATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:20234567 original size:26 final size:26
Alignment explanation
Indices: 20234507--20234568 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
20234497 ACCATATACC
*
20234507 CATCATCAACATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
*
20234533 CATCATCATCATGCACATCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
20234559 CATCATCATC
1 CATCATCATC
20234569 TCATATGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.32, C:0.40, G:0.03, T:0.24
Consensus pattern (26 bp):
CATCATCATCATGCACACCATCCCAT
Found at i:20234861 original size:42 final size:42
Alignment explanation
Indices: 20234803--20234925 Score: 210
Period size: 42 Copynumber: 2.9 Consensus size: 42
20234793 ATGGGGGCAA
* *
20234803 CAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGTCAG
1 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCAG
* *
20234845 CAACGGCTTATATGCACTCCTACTCGCACATAGTCGGGTCAG
1 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCAG
20234887 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGT
1 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGT
20234926 TCAAATCAAC
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.22
Consensus pattern (42 bp):
CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCAG
Found at i:20239058 original size:11 final size:11
Alignment explanation
Indices: 20239042--20239077 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
20239032 TTCACCCGAG
*
20239042 AAGAAAGAATA
1 AAGAAAGAAAA
20239053 AAGAAAGAAAA
1 AAGAAAGAAAA
*
20239064 AAGAAAGAAGA
1 AAGAAAGAAAA
20239075 AAG
1 AAG
20239078 TATGAAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (11 bp):
AAGAAAGAAAA
Found at i:20240613 original size:25 final size:25
Alignment explanation
Indices: 20240585--20240637 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
20240575 CTGTTAGACG
**
20240585 TGGCAAGGCCACGGGTTGATATACA
1 TGGCAAGGCCACAAGTTGATATACA
*
20240610 TGGCTAGGCCACAAGTTGATATACA
1 TGGCAAGGCCACAAGTTGATATACA
20240635 TGG
1 TGG
20240638 TTGCAACCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (25 bp):
TGGCAAGGCCACAAGTTGATATACA
Found at i:20256752 original size:21 final size:21
Alignment explanation
Indices: 20256727--20256771 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
20256717 TTAATAGGCC
20256727 AAGTTATGAATTAACAAATGT
1 AAGTTATGAATTAACAAATGT
20256748 AAGTTATGAATTAACAAATGT
1 AAGTTATGAATTAACAAATGT
20256769 AAG
1 AAG
20256772 GAAGCTTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.49, C:0.04, G:0.16, T:0.31
Consensus pattern (21 bp):
AAGTTATGAATTAACAAATGT
Found at i:20276061 original size:21 final size:22
Alignment explanation
Indices: 20276028--20276068 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
20276018 ACATTTTTTT
*
20276028 CACTTGTTTCCTTAAATTTTAA
1 CACTTGTTCCCTTAAATTTTAA
*
20276050 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTAAATTTT
20276069 TTCACCTAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.22, C:0.22, G:0.05, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTAAATTTTAA
Found at i:20286496 original size:38 final size:40
Alignment explanation
Indices: 20286453--20286558 Score: 144
Period size: 38 Copynumber: 2.7 Consensus size: 40
20286443 ATAGTGCCTG
**
20286453 TGTGCACGATGTGGGGGGATGTACATGATGGCATTGA-T-
1 TGTGCACGATGTGGGGGGATGTACATGATGGCACCGACTA
* * *
20286491 TGTGCACGATGTGGGGGGATGCACAAGATGGCGCCGACTA
1 TGTGCACGATGTGGGGGGATGTACATGATGGCACCGACTA
*
20286531 TGTGCATGATGTGGGGGGATGTACATGA
1 TGTGCACGATGTGGGGGGATGTACATGA
20286559 GCCGAGTGTT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 32 0.55
39 1 0.02
40 25 0.43
ACGTcount: A:0.22, C:0.13, G:0.41, T:0.25
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACATGATGGCACCGACTA
Found at i:20291260 original size:2 final size:2
Alignment explanation
Indices: 20291250--20291291 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
20291240 TATAACACAC
* *
20291250 AT AT CT AT AT AT GT 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 AT AT AT AT AT AT AT
20291292 CCATCACCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20291391 original size:42 final size:42
Alignment explanation
Indices: 20291332--20291485 Score: 166
Period size: 42 Copynumber: 3.7 Consensus size: 42
20291322 CAGCTCATAT
* * *
20291332 GCACTCCCACTAGCACATGGCTGGGTCAGCATCGGCTTACGC
1 GCACTCCCACTTGCACATAGCTGGGTCAGCATCGGCTTATGC
* ** * *
20291374 GCACTCCTACTTGCACATAG-TCGGGAAAGCATTGGCTTATAC
1 GCACTCCCACTTGCACATAGCT-GGGTCAGCATCGGCTTATGC
* * *
20291416 GCACTCCCCCTCGCACATAGCTGGGTCAACATCGGCTTATGC
1 GCACTCCCACTTGCACATAGCTGGGTCAGCATCGGCTTATGC
* * *
20291458 ACACTCCTACTTGCACATAGCCGGGTCA
1 GCACTCCCACTTGCACATAGCTGGGTCA
20291486 ATATCATTAC
Statistics
Matches: 89, Mismatches: 21, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
41 1 0.01
42 87 0.98
43 1 0.01
ACGTcount: A:0.22, C:0.34, G:0.22, T:0.22
Consensus pattern (42 bp):
GCACTCCCACTTGCACATAGCTGGGTCAGCATCGGCTTATGC
Found at i:20291523 original size:2 final size:2
Alignment explanation
Indices: 20291516--20291541 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20291506 TCGTATACAC
20291516 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
20291542 TCAACACAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20291621 original size:2 final size:2
Alignment explanation
Indices: 20291616--20291645 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
20291606 NTATACACAC
20291616 AT 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 AT
20291646 CAACACCGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20291678 original size:104 final size:101
Alignment explanation
Indices: 20291516--20291709 Score: 327
Period size: 104 Copynumber: 1.9 Consensus size: 101
20291506 TCGTATACAC
20291516 ATATATATATATATATATATATATATTCAACACAGTATAGGAGCACATAAGTCTGTCCTATTACA
1 ATATATATATATATATATATATATATTCAACACAGTATAGGAGCACATAAGTCTGTCCTATTACA
20291581 CATTTCACATTTTCACAACATCAAANTATACACACAT
66 CATTTCACATTTTCACAACATCAAA-TATACACACAT
*
20291618 ATATATATATATATATATATATATATATCAACACCGTATAGGAGCACATTAAGT-TCGTCCTATT
1 ATATATATATATATATATATATATAT-TCAACACAGTATAGGAGCACA-TAAGTCT-GTCCTATT
*
20291682 ACACATTTCATATTTTCACAACATCAAA
63 ACACATTTCACATTTTCACAACATCAAA
20291710 ATATTTTATC
Statistics
Matches: 87, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
102 26 0.30
103 21 0.24
104 40 0.46
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (101 bp):
ATATATATATATATATATATATATATTCAACACAGTATAGGAGCACATAAGTCTGTCCTATTACA
CATTTCACATTTTCACAACATCAAATATACACACAT
Found at i:20292222 original size:23 final size:23
Alignment explanation
Indices: 20292196--20292243 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
20292186 TTTCGAAATA
* *
20292196 ATTTCCACTCA-AATCCATCTTAT
1 ATTTCCACACATAATCC-TCATAT
20292219 ATTTCCACACATAATCCTCATAT
1 ATTTCCACACATAATCCTCATAT
20292242 AT
1 AT
20292244 GGTAGCAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.33, C:0.29, G:0.00, T:0.38
Consensus pattern (23 bp):
ATTTCCACACATAATCCTCATAT
Found at i:20295740 original size:13 final size:13
Alignment explanation
Indices: 20295722--20295746 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20295712 TTTTAGAAAA
20295722 TTTATAAAATCAT
1 TTTATAAAATCAT
20295735 TTTATAAAATCA
1 TTTATAAAATCA
20295747 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:20296909 original size:28 final size:27
Alignment explanation
Indices: 20296870--20296922 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
20296860 ATGTCCTGGT
*
20296870 GGTGGAAAATTACAATTTTGCCCTTAG
1 GGTGGAAAATTACAATTTTACCCTTAG
*
20296897 GGTGGCAAAATTACTATTTTACCCTT
1 GGTGG-AAAATTACAATTTTACCCTT
20296923 TTACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCTTAG
Found at i:20300760 original size:2 final size:2
Alignment explanation
Indices: 20300753--20300778 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20300743 TACCTTTAAC
20300753 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
20300779 CCTTGTTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20304593 original size:2 final size:2
Alignment explanation
Indices: 20304575--20304612 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
20304565 TATAACAAAC
* *
20304575 AT AT GT AT AT AT GT 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 AT AT AT AT AT
20304613 CCATCACCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20304712 original size:42 final size:42
Alignment explanation
Indices: 20304653--20304806 Score: 166
Period size: 42 Copynumber: 3.7 Consensus size: 42
20304643 CAGCTCATAT
* * *
20304653 GCACTCCCACTAGCACATGGCTGGGTCAGCATCGGCTTACGC
1 GCACTCCCACTTGCACATAGCTGGGTCAGCATCGGCTTATGC
* ** * *
20304695 GCACTCCTACTTGCACATAG-TCGGGAAAGCATTGGCTTATAC
1 GCACTCCCACTTGCACATAGCT-GGGTCAGCATCGGCTTATGC
* * *
20304737 GCACTCCCCCTCGCACATAGCTGGGTCAACATCGGCTTATGC
1 GCACTCCCACTTGCACATAGCTGGGTCAGCATCGGCTTATGC
* * *
20304779 ACACTCCTACTTGCACATAGCCGGGTCA
1 GCACTCCCACTTGCACATAGCTGGGTCA
20304807 ATATCATTAC
Statistics
Matches: 89, Mismatches: 21, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
41 1 0.01
42 87 0.98
43 1 0.01
ACGTcount: A:0.22, C:0.34, G:0.22, T:0.22
Consensus pattern (42 bp):
GCACTCCCACTTGCACATAGCTGGGTCAGCATCGGCTTATGC
Found at i:20304844 original size:2 final size:2
Alignment explanation
Indices: 20304837--20304862 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20304827 TCGTATACAC
20304837 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
20304863 TCAACACAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20307996 original size:2 final size:2
Alignment explanation
Indices: 20307991--20308031 Score: 52
Period size: 2 Copynumber: 21.5 Consensus size: 2
20307981 CACTGTGTGG
20307991 AT AT AT AT AT AT AT AT AT AT AT AT GA- AT AT AT -T AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
20308031 A
1 A
20308032 ATGACATTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
1 3 0.09
2 31 0.89
3 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20308109 original size:43 final size:43
Alignment explanation
Indices: 20308047--20308157 Score: 143
Period size: 43 Copynumber: 2.6 Consensus size: 43
20308037 ATTGACTCGG
* * *
20308047 CTATGTGCGAGTAAGGAGTGCGCATAAGCCGAG-GATGACCTAA
1 CTATGTGCGAGTAGGGAGTGCGCATAA-CCCAGTGATGACCCAA
* *
20308090 TTATGTGCGAGTAGGGAGTGCGCATAACCCAGTGATGACCCAG
1 CTATGTGCGAGTAGGGAGTGCGCATAACCCAGTGATGACCCAA
* *
20308133 CCATGTTCGAGTAGGGAGTGCGCAT
1 CTATGTGCGAGTAGGGAGTGCGCAT
20308158 GAGCTGGTGA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
42 4 0.07
43 55 0.93
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.21
Consensus pattern (43 bp):
CTATGTGCGAGTAGGGAGTGCGCATAACCCAGTGATGACCCAA
Found at i:20317269 original size:2 final size:2
Alignment explanation
Indices: 20317262--20317299 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
20317252 TACATGTTTG
20317262 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20317300 TAATATGTNN
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20317344 original size:2 final size:2
Alignment explanation
Indices: 20317337--20317376 Score: 62
Period size: 2 Copynumber: 19.5 Consensus size: 2
20317327 NNNNNNTTTG
*
20317337 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CTA TA AA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA T
20317377 GTTTTTATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:20323978 original size:36 final size:38
Alignment explanation
Indices: 20323938--20324117 Score: 188
Period size: 39 Copynumber: 4.6 Consensus size: 38
20323928 TTAACTTAGC
*
20323938 TCATGTGCACTCCCACACCGCACATAGCTA-AT-ATCA
1 TCATGTGCACTCCCACACCGCACATGGCTATATCATCA
*
20323974 TCATGTGCACTCCCACACAGCACATGGCATATATCATCATCA
1 TCATGTGCACTCCCACACCGCACATGGC---TAT-ATCATCA
*
20324016 TCATGTGCTA-TCCCACACCGCACATGGAATATATCATCA
1 TCATGTGC-ACTCCCACACCGCACATGG-CTATATCATCA
* * *
20324055 TCATATGCTCTCCCACACCACACATGGCATATATCATCGA
1 TCATGTGCACTCCCACACCGCACATGGC-TATATCATC-A
* *
20324095 -CGTGTGCCCTCCCACACCGCACA
1 TCATGTGCACTCCCACACCGCACA
20324118 CGCATGGTTA
Statistics
Matches: 121, Mismatches: 12, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
36 26 0.21
39 60 0.50
40 4 0.03
41 2 0.02
42 28 0.23
43 1 0.01
ACGTcount: A:0.29, C:0.36, G:0.12, T:0.23
Consensus pattern (38 bp):
TCATGTGCACTCCCACACCGCACATGGCTATATCATCA
Found at i:20324030 original size:42 final size:42
Alignment explanation
Indices: 20323970--20324092 Score: 166
Period size: 42 Copynumber: 3.0 Consensus size: 42
20323960 CATAGCTAAT
20323970 ATCATCATGTGC-ACTCCCACACAGCACATGGCATATATCATC
1 ATCATCATGTGCTA-TCCCACACAGCACATGGCATATATCATC
*
20324012 ATCATCATGTGCTATCCCACACCGCACATGG-A-ATAT-ATC
1 ATCATCATGTGCTATCCCACACAGCACATGGCATATATCATC
* *
20324051 ATCATCATATGCTCTCCCACACCA-CACATGGCATATATCATC
1 ATCATCATGTGCTATCCCACA-CAGCACATGGCATATATCATC
20324093 GACGTGTGCC
Statistics
Matches: 72, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
39 29 0.40
40 6 0.08
41 5 0.07
42 31 0.43
43 1 0.01
ACGTcount: A:0.31, C:0.33, G:0.11, T:0.25
Consensus pattern (42 bp):
ATCATCATGTGCTATCCCACACAGCACATGGCATATATCATC
Found at i:20324130 original size:81 final size:80
Alignment explanation
Indices: 20323938--20324117 Score: 212
Period size: 78 Copynumber: 2.3 Consensus size: 80
20323928 TTAACTTAGC
* * *
20323938 TCATGTG-CACTCCCACACCGCACATAG-CTA-AT-ATCATCATGTGCACTCCCACACAGCACAT
1 TCATGTGCCA-TCCCACACCGCACATGGAATATATCATCATCATATGCACTCCCACACAGCACAT
20323999 GGCATATATCATCATCA
65 GGCATATATCATCA-CA
* *
20324016 TCATGTGCTATCCCACACCGCACATGGAATATATCATCATCATATGCTCTCCCACACCA-CACAT
1 TCATGTGCCATCCCACACCGCACATGGAATATATCATCATCATATGCACTCCCACA-CAGCACAT
*
20324080 GGCATATATCATC-GA
65 GGCATATATCATCACA
* *
20324095 -CGTGTGCCCTCCCACACCGCACA
1 TCATGTGCCATCCCACACCGCACA
20324118 CGCATGGTTA
Statistics
Matches: 88, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
78 43 0.49
79 4 0.05
80 2 0.02
81 37 0.42
82 2 0.02
ACGTcount: A:0.29, C:0.36, G:0.12, T:0.23
Consensus pattern (80 bp):
TCATGTGCCATCCCACACCGCACATGGAATATATCATCATCATATGCACTCCCACACAGCACATG
GCATATATCATCACA
Found at i:20327019 original size:21 final size:21
Alignment explanation
Indices: 20326974--20327020 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
20326964 CCAAGATTCA
20326974 ATATAATAATTCTCATAGTTC
1 ATATAATAATTCTCATAGTTC
* *
20326995 ATATCAAT-ATTCTCATATTTT
1 ATAT-AATAATTCTCATAGTTC
20327016 ATATA
1 ATATA
20327021 CAAACATTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.04
21 19 0.83
22 3 0.13
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.47
Consensus pattern (21 bp):
ATATAATAATTCTCATAGTTC
Found at i:20338032 original size:43 final size:43
Alignment explanation
Indices: 20337956--20338123 Score: 194
Period size: 43 Copynumber: 3.9 Consensus size: 43
20337946 TCCTCCTCAA
* * **
20337956 CTCATGTGCACTCCCACACCGCACACAATTGGGTCATCATCAG
1 CTCATGTGCACTCCTACACCGCACATAGCTGGGTCATCATCAG
* * * *
20337999 CTCAAGTGCACTCTTACACCACACATGGCTGGGTCATCATCAG
1 CTCATGTGCACTCCTACACCGCACATAGCTGGGTCATCATCAG
* * * * *
20338042 CTCATGTGCACTCCCACACCGTACAAAGTTGGGTCATCATCGG
1 CTCATGTGCACTCCTACACCGCACATAGCTGGGTCATCATCAG
* *
20338085 C-CATGTGCACTCCTACACTGCACATAGCTAGGTCATCAT
1 CTCATGTGCACTCCTACACCGCACATAGCTGGGTCATCAT
20338124 TATCACACCA
Statistics
Matches: 102, Mismatches: 23, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 32 0.31
43 70 0.69
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.23
Consensus pattern (43 bp):
CTCATGTGCACTCCTACACCGCACATAGCTGGGTCATCATCAG
Found at i:20351964 original size:25 final size:25
Alignment explanation
Indices: 20351929--20351985 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
20351919 CGGTCTGTGA
* *
20351929 TTATACATGGCAAGGCCACAGGTTG
1 TTATACGTGGCAAGGCCACAAGTTG
*
20351954 TTATACGTGGCAAGGCCATAAGTTG
1 TTATACGTGGCAAGGCCACAAGTTG
*
20351979 ATATACG
1 TTATACG
20351986 CGGTTGCAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (25 bp):
TTATACGTGGCAAGGCCACAAGTTG
Found at i:20357375 original size:19 final size:20
Alignment explanation
Indices: 20357353--20357390 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
20357343 TATTATTTTC
20357353 ATATTATTATATTC-AAAAA
1 ATATTATTATATTCTAAAAA
*
20357372 ATATTATTTTATTCTAAAA
1 ATATTATTATATTCTAAAA
20357391 TTTTCCTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATTATTATATTCTAAAAA
Found at i:20360274 original size:16 final size:16
Alignment explanation
Indices: 20360240--20360282 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
20360230 ACATAAAATT
*
20360240 AAAATAACTCACTAAA
1 AAAATAACTAACTAAA
* *
20360256 AAAATAACTAATTATA
1 AAAATAACTAACTAAA
*
20360272 AAAACAACTAA
1 AAAATAACTAA
20360283 AAATAATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.65, C:0.14, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAATAACTAACTAAA
Found at i:20361878 original size:19 final size:19
Alignment explanation
Indices: 20361854--20361891 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
20361844 TTTCTCTTAG
20361854 ATTTTTGGTACCTCTACCC
1 ATTTTTGGTACCTCTACCC
20361873 ATTTTTGGTACCTCTACCC
1 ATTTTTGGTACCTCTACCC
20361892 TAACATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.42
Consensus pattern (19 bp):
ATTTTTGGTACCTCTACCC
Found at i:20367598 original size:40 final size:39
Alignment explanation
Indices: 20367533--20367637 Score: 131
Period size: 38 Copynumber: 2.7 Consensus size: 39
20367523 TCACCCAGCC
* *
20367533 CATGTACATCCCCCCACATCGTGCACATAGCCAGAGTCAT
1 CATGTACATCCCCCCACATCATGCACA-AGCCAGAGCCAT
** * * *
20367573 TGTGTGCATCCCCCCACATCATGCAC-AGTCAGTGCCAT
1 CATGTACATCCCCCCACATCATGCACAAGCCAGAGCCAT
20367611 CATGTACATCCCCCCACATCATGCACA
1 CATGTACATCCCCCCACATCATGCACA
20367638 CGAGCACTAT
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
38 32 0.59
40 22 0.41
ACGTcount: A:0.26, C:0.39, G:0.14, T:0.21
Consensus pattern (39 bp):
CATGTACATCCCCCCACATCATGCACAAGCCAGAGCCAT
Found at i:20383002 original size:5 final size:5
Alignment explanation
Indices: 20382992--20383027 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
20382982 CTATTCCCTC
*
20382992 TAACT TGACT TAACT TAACT TAACT TAACT TAACT T
1 TAACT TAACT TAACT TAACT TAACT TAACT TAACT T
20383028 GGGGCCACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.42
Consensus pattern (5 bp):
TAACT
Found at i:20398656 original size:20 final size:20
Alignment explanation
Indices: 20398615--20398688 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 20
20398605 TATTAGTTTA
* *
20398615 GTTTAATTTATGTTTA-AAT
1 GTTTATTTTATGTTAATAAT
20398634 GTTTATTTTATGTTAATAAT
1 GTTTATTTTATGTTAATAAT
* *
20398654 G-TTAGTTTTATGTTATTTAT
1 GTTTA-TTTTATGTTAATAAT
*
20398674 ATTTATTTTGATGTT
1 GTTTATTTT-ATGTT
20398689 TTTGTAGGAG
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
19 17 0.37
20 21 0.46
21 8 0.17
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.62
Consensus pattern (20 bp):
GTTTATTTTATGTTAATAAT
Found at i:20404904 original size:35 final size:35
Alignment explanation
Indices: 20404855--20404934 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
20404845 ACCTTTGTTG
* * ** **
20404855 AAGGGTTTTACTTAATCTTATGAAAATCCTATTGT
1 AAGGGTTTCACTTAAGCCCATGAAAAAACTATTGT
*
20404890 AAGGGTTTCGCTTAAGCCCATGAAAAAACTATTGT
1 AAGGGTTTCACTTAAGCCCATGAAAAAACTATTGT
*
20404925 GAGGGTTTCA
1 AAGGGTTTCA
20404935 TTTGATCTCG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (35 bp):
AAGGGTTTCACTTAAGCCCATGAAAAAACTATTGT
Found at i:20405200 original size:49 final size:52
Alignment explanation
Indices: 20405089--20405207 Score: 138
Period size: 49 Copynumber: 2.3 Consensus size: 52
20405079 TTGTTTTTGC
** * * * *
20405089 CTTAGGAAAATATTTTACCTTGATTTTTTGCTTTTGCTTTGCTTGCATTTGGA
1 CTTAGGAAAATATTTTACCTTGATTTCAT-CTTATACGTTGCTTGCACTTGGA
*
20405142 -TTAGAAAAATATTTTACCTTGA-TTCAT-TTATACGTTGCTTGCACTT-GA
1 CTTAGGAAAATATTTTACCTTGATTTCATCTTATACGTTGCTTGCACTTGGA
20405190 CTTAGGAAAATATTTTAC
1 CTTAGGAAAATATTTTAC
20405208 TTTTGTTTAT
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
48 2 0.04
49 31 0.54
51 3 0.05
52 21 0.37
ACGTcount: A:0.26, C:0.13, G:0.14, T:0.46
Consensus pattern (52 bp):
CTTAGGAAAATATTTTACCTTGATTTCATCTTATACGTTGCTTGCACTTGGA
Found at i:20410484 original size:19 final size:20
Alignment explanation
Indices: 20410447--20410484 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20410437 TCTTCTCTTC
*
20410447 CATGCTCCCAACGCCATTTT
1 CATGCTCCCAACACCATTTT
20410467 CATGCTCCC-ACACCATTT
1 CATGCTCCCAACACCATTT
20410485 CACCTTGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.21, C:0.42, G:0.08, T:0.29
Consensus pattern (20 bp):
CATGCTCCCAACACCATTTT
Found at i:20410600 original size:20 final size:21
Alignment explanation
Indices: 20410575--20410629 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
20410565 AATCAGTTGG
*
20410575 AAGAAAGGAGAAAG-GAAAGA
1 AAGAAAGGAGAAAGAAAAAGA
20410595 AAGAAAGGAGAAAGAAAAAGA
1 AAGAAAGGAGAAAGAAAAAGA
*
20410616 GAGAAAGGAAGAAA
1 AAGAAAGG-AGAAA
20410630 AAGCTTGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 14 0.45
21 12 0.39
22 5 0.16
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (21 bp):
AAGAAAGGAGAAAGAAAAAGA
Found at i:20415644 original size:29 final size:28
Alignment explanation
Indices: 20415566--20415711 Score: 172
Period size: 29 Copynumber: 5.1 Consensus size: 28
20415556 TTAAGACAAA
*
20415566 AAAATATTTTATCTTGTCTAAATTGAGAC
1 AAAATATTTT-TCTTGTCTAAATTAAGAC
*
20415595 -AAATATGTTTTCTTGACTAAATTAAGAC
1 AAAATAT-TTTTCTTGTCTAAATTAAGAC
*
20415623 AAAATATTTTTCTTGTCTTAAATTAAGGC
1 AAAATATTTTTCTTGTC-TAAATTAAGAC
*
20415652 AAACATA-TTTTCTTATCTAAATTAAGACCC
1 AAA-ATATTTTTCTTGTCTAAATTAAGA--C
*
20415682 AACATA-TTTTCTTGTCTAAATTAAGAC
1 AAAATATTTTTCTTGTCTAAATTAAGAC
20415709 AAA
1 AAA
20415712 CATGTCAAAT
Statistics
Matches: 102, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
27 3 0.03
28 40 0.39
29 53 0.52
30 6 0.06
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (28 bp):
AAAATATTTTTCTTGTCTAAATTAAGAC
Found at i:20415645 original size:57 final size:57
Alignment explanation
Indices: 20415566--20415716 Score: 200
Period size: 57 Copynumber: 2.6 Consensus size: 57
20415556 TTAAGACAAA
* *
20415566 AAAATATTTTATCTTGTCTAAATTGAGACAAATATGTTTTCTTGA-CTAAATTAAGA-C
1 AAAATATTTT-TCTTGTCTAAATTAAGACAAACATGTTTTCTT-ATCTAAATTAAGACC
* *
20415623 AAAATATTTTTCTTGTCTTAAATTAAGGCAAACATATTTTCTTATCTAAATTAAGACCC
1 AAAATATTTTTCTTGTC-TAAATTAAGACAAACATGTTTTCTTATCTAAATTAAGA-CC
*
20415682 AACATA-TTTTCTTGTCTAAATTAAGACAAACATGT
1 AAAATATTTTTCTTGTCTAAATTAAGACAAACATGT
20415717 CAAATCTGCC
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
56 8 0.10
57 59 0.71
58 10 0.12
59 6 0.07
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (57 bp):
AAAATATTTTTCTTGTCTAAATTAAGACAAACATGTTTTCTTATCTAAATTAAGACC
Found at i:20419277 original size:21 final size:20
Alignment explanation
Indices: 20419232--20419286 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
20419222 GATCAGTTGG
* *
20419232 AAGAAACGAGAAAGGAAAGA
1 AAGAAAGGAGAAAGAAAAGA
20419252 AAGAAAGGAGAAAGAAAAAGA
1 AAGAAAGGAGAAAG-AAAAGA
*
20419273 GAGAAAGGAAGAAA
1 AAGAAAGG-AGAAA
20419287 AAGCTTGGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 13 0.43
21 12 0.40
22 5 0.17
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (20 bp):
AAGAAAGGAGAAAGAAAAGA
Found at i:20423634 original size:23 final size:23
Alignment explanation
Indices: 20423598--20423655 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
20423588 TACATATACC
20423598 CATCACCATCATGCACACAATCA
1 CATCACCATCATGCACACAATCA
* * * *
20423621 CATCATCATTATGCACACCATCC
1 CATCACCATCATGCACACAATCA
*
20423644 CATCAACATCAT
1 CATCACCATCAT
20423656 CACCAGCTCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.36, C:0.38, G:0.03, T:0.22
Consensus pattern (23 bp):
CATCACCATCATGCACACAATCA
Found at i:20423700 original size:43 final size:43
Alignment explanation
Indices: 20423652--20423783 Score: 140
Period size: 43 Copynumber: 3.1 Consensus size: 43
20423642 CCCATCAACA
* * ** *
20423652 TCATCACCAGCTCATGCGCACTCCCTACTCGCACATGGCTGGG
1 TCATCACCGGCTTATGCGCACTCCCTACTCGCACATAACCGGG
* * *
20423695 TCATCACCGGGTTATGCGCACTCCCTACCCGCATATAACCGGG
1 TCATCACCGGCTTATGCGCACTCCCTACTCGCACATAACCGGG
* * * *
20423738 TCATC-CTTGGCTTATGAGCACTCCCTACTCGCACATAGCCGAG
1 TCATCAC-CGGCTTATGCGCACTCCCTACTCGCACATAACCGGG
20423781 TCA
1 TCA
20423784 ATATAATTAC
Statistics
Matches: 73, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 1 0.01
43 72 0.99
ACGTcount: A:0.20, C:0.37, G:0.20, T:0.23
Consensus pattern (43 bp):
TCATCACCGGCTTATGCGCACTCCCTACTCGCACATAACCGGG
Found at i:20431277 original size:43 final size:43
Alignment explanation
Indices: 20431229--20431347 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 43
20431219 TCACCAGCTC
* **** **
20431229 ATGCGCACTCCCTACTCGCACATGGTTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCTTACTCGCACATAACCGGGTCATC-CTCGACTT
20431272 ATGCGCACTCCTTACTCGCACATAACCGGGTCATCCTCGACTT
1 ATGCGCACTCCTTACTCGCACATAACCGGGTCATCCTCGACTT
* *
20431315 ATGCGCACTCCTTACTCGCACATAGCCGAGTCA
1 ATGCGCACTCCTTACTCGCACATAACCGGGTCA
20431348 ATATAATTAC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 65 0.98
ACGTcount: A:0.20, C:0.35, G:0.20, T:0.24
Consensus pattern (43 bp):
ATGCGCACTCCTTACTCGCACATAACCGGGTCATCCTCGACTT
Found at i:20435405 original size:43 final size:42
Alignment explanation
Indices: 20435344--20435452 Score: 148
Period size: 43 Copynumber: 2.5 Consensus size: 42
20435334 TGACTCGGCT
* *
20435344 ATGTGCGAGTAGGGAGTGCGCATAAGCC-GTGGATGACCCGGTC
1 ATGTGCGAGTAGGGAGTGCGCATAA-CCAGT-GATGACCCAGCC
20435387 ATGTGCGAGTAGGGAGTGCGCATAACCAAGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAACC-AGTGATGACCCAGCC
* *
20435430 ATGTGCGACTAGGGAGGGCGCAT
1 ATGTGCGAGTAGGGAGTGCGCAT
20435453 GAGCTGGTGA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
42 2 0.03
43 56 0.93
44 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.38, T:0.17
Consensus pattern (42 bp):
ATGTGCGAGTAGGGAGTGCGCATAACCAGTGATGACCCAGCC
Found at i:20435877 original size:39 final size:39
Alignment explanation
Indices: 20435818--20435921 Score: 127
Period size: 39 Copynumber: 2.7 Consensus size: 39
20435808 AAATTCATTC
*
20435818 TCGCTGCAGTGAGAATCTTTCTGTTTCTCAGTTAAAATT
1 TCGCTGCAGTGAGAAACTTTCTGTTTCTCAGTTAAAATT
* * * ** *
20435857 TCGCTGCAGCGAGAAACTTTCTATTTTTGGGTTACAATT
1 TCGCTGCAGTGAGAAACTTTCTGTTTCTCAGTTAAAATT
* *
20435896 TCGCTGTAGTGAAAAACTTTCTGTTT
1 TCGCTGCAGTGAGAAACTTTCTGTTT
20435922 TGTCTCCTAT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.40
Consensus pattern (39 bp):
TCGCTGCAGTGAGAAACTTTCTGTTTCTCAGTTAAAATT
Found at i:20439217 original size:42 final size:42
Alignment explanation
Indices: 20439156--20439249 Score: 136
Period size: 42 Copynumber: 2.2 Consensus size: 42
20439146 CTTTCAACAT
* * * *
20439156 ATCAAATATTCGAAGAGTTTGGGAA-TCCAATTCTCGAGCAAG
1 ATCAAATATCCAAAAAGTTTGGGAACT-CAATTCGCGAGCAAG
20439198 ATCAAATATCCAAAAAGTTTGGGAACTCAATTCGCGAGCAAG
1 ATCAAATATCCAAAAAGTTTGGGAACTCAATTCGCGAGCAAG
20439240 ATCAAATATC
1 ATCAAATATC
20439250 TAAAGGTGCA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
42 46 0.98
43 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (42 bp):
ATCAAATATCCAAAAAGTTTGGGAACTCAATTCGCGAGCAAG
Found at i:20439557 original size:18 final size:18
Alignment explanation
Indices: 20439534--20439575 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
20439524 CAAAGACATC
* * *
20439534 AACAAAATTAACGATCGA
1 AACAAAATCAAAGAACGA
20439552 AACAAAATCAAAGAACGA
1 AACAAAATCAAAGAACGA
20439570 AACAAA
1 AACAAA
20439576 GAGTAAATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.64, C:0.17, G:0.10, T:0.10
Consensus pattern (18 bp):
AACAAAATCAAAGAACGA
Found at i:20453085 original size:38 final size:39
Alignment explanation
Indices: 20453043--20453143 Score: 132
Period size: 38 Copynumber: 2.6 Consensus size: 39
20453033 ATAGTGCCTG
* *
20453043 TGTGCACGATGTGGGGGGATGTACACGATGGCACCAAC-
1 TGTGCACGATGTGGGGGGATGCACACGATGACACCAACA
* * **
20453081 TGTGCATGATGTGGGGGGATGCACACGATGACTCCGGCTA
1 TGTGCACGATGTGGGGGGATGCACACGATGACACCAAC-A
20453121 TGTGCACGATGTGGGGGGATGCA
1 TGTGCACGATGTGGGGGGATGCA
20453144 TATGAGCTAG
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 32 0.59
40 22 0.41
ACGTcount: A:0.21, C:0.19, G:0.40, T:0.21
Consensus pattern (39 bp):
TGTGCACGATGTGGGGGGATGCACACGATGACACCAACA
Found at i:20455677 original size:42 final size:42
Alignment explanation
Indices: 20455603--20455716 Score: 120
Period size: 42 Copynumber: 2.7 Consensus size: 42
20455593 TTTACCATCG
* * * * ** *
20455603 TCATCAACTCATGTGCATTCCCCACTAGCACATGGCTGGGTCA
1 TCATCAGCTTATGTGCACT-CCCACTCGCACATAACCGGGTCA
*
20455646 TCATTAGCTTATGTGCACTCCCACTCGCACATAACCGGGTCA
1 TCATCAGCTTATGTGCACTCCCACTCGCACATAACCGGGTCA
* * *
20455688 TCATCGGCTTATGTACACTCCTACTCGCA
1 TCATCAGCTTATGTGCACTCCCACTCGCA
20455717 AATAGCCAGG
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 44 0.75
43 15 0.25
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.27
Consensus pattern (42 bp):
TCATCAGCTTATGTGCACTCCCACTCGCACATAACCGGGTCA
Found at i:20461380 original size:14 final size:14
Alignment explanation
Indices: 20461361--20461394 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
20461351 TATAGAAAAT
* *
20461361 GTGTTTAATGATAG
1 GTGTTTAATAACAG
20461375 GTGTTTAATAACAG
1 GTGTTTAATAACAG
20461389 GTGTTT
1 GTGTTT
20461395 CCTCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.44
Consensus pattern (14 bp):
GTGTTTAATAACAG
Found at i:20467900 original size:37 final size:37
Alignment explanation
Indices: 20467858--20468013 Score: 251
Period size: 37 Copynumber: 4.2 Consensus size: 37
20467848 TAATGTTGTG
* * *
20467858 TGATGATGTTGAAGTTTGCGAGTAGAGAGTGTACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
20467895 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
20467932 TGATGATGTT-AGAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTTGA-AGTGTGCGAGTAGGGAGTGCACACA
*
20467969 TGATGATGTTGAAGTGTGCGAGTAGGGATTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
*
20468006 CGATGATG
1 TGATGATG
20468014 ATATTGCATT
Statistics
Matches: 112, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
36 1 0.01
37 110 0.98
38 1 0.01
ACGTcount: A:0.28, C:0.10, G:0.36, T:0.26
Consensus pattern (37 bp):
TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
Found at i:20470905 original size:74 final size:74
Alignment explanation
Indices: 20470819--20470956 Score: 231
Period size: 74 Copynumber: 1.9 Consensus size: 74
20470809 CACATCCTAT
* *
20470819 ATAATCCCAATAGGGAACTAGATTGTTCTGTCTGTTAATTGTAAAGAAACTGTAATAGCTTGTAA
1 ATAATCCCAATAGAGAACTAGATTGTTCTGTCTGCTAATTGTAAAGAAACTGTAATAGCTTGTAA
20470884 ACATCTTCC
66 ACATCTTCC
* * *
20470893 ATAATCCCAATAGAGAACTTGATTGTTTTGTCTGCTAATTGTAAAGAAACTGTAGTAGCTTGTA
1 ATAATCCCAATAGAGAACTAGATTGTTCTGTCTGCTAATTGTAAAGAAACTGTAATAGCTTGTA
20470957 TCTGATTAAG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 59 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (74 bp):
ATAATCCCAATAGAGAACTAGATTGTTCTGTCTGCTAATTGTAAAGAAACTGTAATAGCTTGTAA
ACATCTTCC
Found at i:20481247 original size:38 final size:39
Alignment explanation
Indices: 20481149--20481254 Score: 135
Period size: 38 Copynumber: 2.7 Consensus size: 39
20481139 CACTCCCGGC
*
20481149 TCATGTACATCCCCCCACATCGTGCACATAGCCGGCACCA
1 TCATGTACATCCCCCCACATCGTGCACATAGCAGG-ACCA
* * *
20481189 TCATGTGCATCCCCCCACATCGTGCACA-ATCAGTG-CTA
1 TCATGTACATCCCCCCACATCGTGCACATAGCAG-GACCA
*
20481227 TCGTGTACATCCCCCCACATCGTGCACA
1 TCATGTACATCCCCCCACATCGTGCACA
20481255 CGGGCACTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
38 28 0.47
39 3 0.05
40 28 0.47
ACGTcount: A:0.24, C:0.41, G:0.15, T:0.21
Consensus pattern (39 bp):
TCATGTACATCCCCCCACATCGTGCACATAGCAGGACCA
Found at i:20484849 original size:30 final size:30
Alignment explanation
Indices: 20484815--20484902 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 30
20484805 ATGTTACATT
*
20484815 TAAAGACCAAAGTCTAAACAAATATCAA-TC
1 TAAAGTCCAAAGTC-AAACAAATATCAATTC
* * *
20484845 TAAAGTCCAAAGTCGAAA-TAGTATTAATTC
1 TAAAGTCCAAAGTC-AAACAAATATCAATTC
*
20484875 TAAAGTCCAAAATCAATACAAATATCAA
1 TAAAGTCCAAAGTCAA-ACAAATATCAA
20484903 ATCCAAAATC
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 8 0.17
30 32 0.70
31 6 0.13
ACGTcount: A:0.51, C:0.17, G:0.08, T:0.24
Consensus pattern (30 bp):
TAAAGTCCAAAGTCAAACAAATATCAATTC
Found at i:20486573 original size:72 final size:74
Alignment explanation
Indices: 20486475--20486671 Score: 249
Period size: 72 Copynumber: 2.7 Consensus size: 74
20486465 CAAAATGCTT
* * *
20486475 TTAGTCGACTAACTATGCTTCTTAGTCGATTAAGCTGTCTCTATCTCTGAACCCAA-TTTCTAGT
1 TTAGTCGACTAACAATACTTCTTAGTCGATTAAGCTGTCTCTATCTCTGAACCCAAGTTTCTAGC
* *
20486539 AGTGAGCTC
66 AGTAAACTC
* * * * *
20486548 TTAGTCGAC-AACAATACTTCTTAGTCGATTAAG-TCATCTTTGTCT-TTAAACCAAGTTTCTAG
1 TTAGTCGACTAACAATACTTCTTAGTCGATTAAGCT-GTCTCTATCTCTGAACCCAAGTTTCTAG
20486610 CAGTAAACTC
65 CAGTAAACTC
* *
20486620 TTAGTCGACTAACAATACTTCTTAGTCGATTAAGCCGTCTCTATTTCTGAAC
1 TTAGTCGACTAACAATACTTCTTAGTCGATTAAGCTGTCTCTATCTCTGAAC
20486672 TGGCCATCTT
Statistics
Matches: 102, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
71 8 0.08
72 52 0.51
73 39 0.38
74 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (74 bp):
TTAGTCGACTAACAATACTTCTTAGTCGATTAAGCTGTCTCTATCTCTGAACCCAAGTTTCTAGC
AGTAAACTC
Found at i:20496472 original size:43 final size:43
Alignment explanation
Indices: 20496443--20496543 Score: 139
Period size: 43 Copynumber: 2.3 Consensus size: 43
20496433 TACTCGCACT
*
20496443 TAGCCGGGTCATCATCAGCTCATGTGCACTCCCACACTACATA
1 TAGCCGGGTCATCATCAGCTCATGTGCACTCCCACACCACATA
* * * *
20496486 TAGCTGGGTCATCATCAGCTCATGTGCACTTCCACACCGCACA
1 TAGCCGGGTCATCATCAGCTCATGTGCACTCCCACACCACATA
**
20496529 TAGCTAGGTCATCAT
1 TAGCCGGGTCATCAT
20496544 TATCACACAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.25
Consensus pattern (43 bp):
TAGCCGGGTCATCATCAGCTCATGTGCACTCCCACACCACATA
Found at i:20497345 original size:20 final size:20
Alignment explanation
Indices: 20497320--20497361 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
20497310 ATGAGAAGAA
*
20497320 GAAGAAGCTGCT-GAAGAAAT
1 GAAGAAGCTACTAGAA-AAAT
20497340 GAAGAAGCTACTAGAAAAAT
1 GAAGAAGCTACTAGAAAAAT
20497360 GA
1 GA
20497362 TATTTATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.50, C:0.10, G:0.26, T:0.14
Consensus pattern (20 bp):
GAAGAAGCTACTAGAAAAAT
Found at i:20500813 original size:29 final size:29
Alignment explanation
Indices: 20500764--20501050 Score: 341
Period size: 29 Copynumber: 9.9 Consensus size: 29
20500754 TCAAGACAAC
* *
20500764 TCTTGTCTTTAATTAAGACAAAACATGTTA
1 TCTTGTC-TAAATTAAGACAAAACATGTTT
*
20500794 TCTTGTCTAAAATAAGAC-AAACATGTTTT
1 TCTTGTCTAAATTAAGACAAAACATG-TTT
* *
20500823 TCTTGTCTAGATTAAGACAAAACATATTTT
1 TCTTGTCTAAATTAAGACAAAACAT-GTTT
*
20500853 TCTTATCTTAAATTAAGAC-AAACATGTTT
1 TCTTGTC-TAAATTAAGACAAAACATGTTT
* *
20500882 TCTTATCTAAATTAAGAC-AAATATGTTT
1 TCTTGTCTAAATTAAGACAAAACATGTTT
*
20500910 TCTTGTCTAAATTAAGAGAAAACATGTTT
1 TCTTGTCTAAATTAAGACAAAACATGTTT
* *
20500939 TCTTGTCTAAGTTAAGACATAACATGTTT
1 TCTTGTCTAAATTAAGACAAAACATGTTT
* * *
20500968 TCCTGTCAAAATGAAGACAAAACATGTTT
1 TCTTGTCTAAATTAAGACAAAACATGTTT
* *
20500997 TCTTGTCTAAATTATGAC-AAGCATGTTT
1 TCTTGTCTAAATTAAGACAAAACATGTTT
* *
20501025 TGTTGTCTAAATTAAGA-TAAACATGT
1 TCTTGTCTAAATTAAGACAAAACATGT
20501051 AAAAGTTGCC
Statistics
Matches: 222, Mismatches: 29, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
28 74 0.33
29 110 0.50
30 28 0.13
31 10 0.05
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (29 bp):
TCTTGTCTAAATTAAGACAAAACATGTTT
Found at i:20506933 original size:12 final size:11
Alignment explanation
Indices: 20506926--20506962 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
20506916 TTTTTCTCTT
20506926 TTTCTTTCTCC
1 TTTCTTTCTCC
20506937 TTTCTTTCT--
1 TTTCTTTCTCC
*
20506946 TTCCTTTCTCC
1 TTTCTTTCTCC
20506957 TTTCTT
1 TTTCTT
20506963 CCAACTGATC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTCTTTCTCC
Found at i:20512831 original size:20 final size:20
Alignment explanation
Indices: 20512803--20512858 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
20512793 GAGATCAGTT
20512803 GAAAGAAAGGAGAAAGGAAA
1 GAAAGAAAGGAGAAAGGAAA
*
20512823 GAAATAAAGGAGAAAGGAAA
1 GAAAGAAAGGAGAAAGGAAA
*
20512843 GAAAGAGAGGAGAAAG
1 GAAAGAAAGGAGAAAG
20512859 AAAAAAGCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (20 bp):
GAAAGAAAGGAGAAAGGAAA
Found at i:20516794 original size:43 final size:43
Alignment explanation
Indices: 20516747--20516841 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
20516737 ACTCCCTAGT
20516747 CACACATAGCCGAGTCATCATCAACTCATGTGCACTCCCACAC
1 CACACATAGCCGAGTCATCATCAACTCATGTGCACTCCCACAC
* * * *
20516790 CACACATAGCTGGGTCATCATCAGCTCATGTGCTCTCCCACAC
1 CACACATAGCCGAGTCATCATCAACTCATGTGCACTCCCACAC
*
20516833 CGCACATAG
1 CACACATAG
20516842 TTAGGTCATC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.27, C:0.38, G:0.15, T:0.20
Consensus pattern (43 bp):
CACACATAGCCGAGTCATCATCAACTCATGTGCACTCCCACAC
Found at i:20516849 original size:43 final size:43
Alignment explanation
Indices: 20516747--20516853 Score: 144
Period size: 43 Copynumber: 2.5 Consensus size: 43
20516737 ACTCCCTAGT
*
20516747 CACACATAGC-CGAGTCATCATCAACTCATGTGCACTCCCACAC
1 CACACATAGCTAG-GTCATCATCAACTCATGTGCACTCCCACAC
* * *
20516790 CACACATAGCTGGGTCATCATCAGCTCATGTGCTCTCCCACAC
1 CACACATAGCTAGGTCATCATCAACTCATGTGCACTCCCACAC
* *
20516833 CGCACATAGTTAGGTCATCAT
1 CACACATAGCTAGGTCATCAT
20516854 TATCACATGA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 56 0.98
44 1 0.02
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.22
Consensus pattern (43 bp):
CACACATAGCTAGGTCATCATCAACTCATGTGCACTCCCACAC
Found at i:20520368 original size:42 final size:43
Alignment explanation
Indices: 20520321--20520415 Score: 138
Period size: 43 Copynumber: 2.2 Consensus size: 43
20520311 TTGTGTGATA
* * *
20520321 ATGATGACCTAATTATGTAC-GTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAACTATGTACGGTGTAGGAGTGCACATGAGCTG
* *
20520363 ATGATGACCCAGCTATGTGCGGTGTAGGAGTGCACATGAGCTG
1 ATGATGACCCAACTATGTACGGTGTAGGAGTGCACATGAGCTG
20520406 ATGATGACCC
1 ATGATGACCC
20520416 GGCCATGTGC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 16 0.34
43 31 0.66
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (43 bp):
ATGATGACCCAACTATGTACGGTGTAGGAGTGCACATGAGCTG
Found at i:20520402 original size:43 final size:42
Alignment explanation
Indices: 20520335--20520449 Score: 158
Period size: 43 Copynumber: 2.7 Consensus size: 42
20520325 TGACCTAATT
* * *
20520335 ATGTACGTGTGGGAGTGCACATGAGCTGATGATGACCCAGCT
1 ATGTGCGTGTAGGAGTGCACATGAGCTGATGATGACCCAGCC
*
20520377 ATGTGCGGTGTAGGAGTGCACATGAGCTGATGATGACCCGGCC
1 ATGTGC-GTGTAGGAGTGCACATGAGCTGATGATGACCCAGCC
* *
20520420 ATGTGCGAGTAGGGAATGCACATGAGCTGA
1 ATGTGCGTGTA-GGAGTGCACATGAGCTGA
20520450 GTATGGAGGG
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
42 9 0.14
43 56 0.86
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.22
Consensus pattern (42 bp):
ATGTGCGTGTAGGAGTGCACATGAGCTGATGATGACCCAGCC
Found at i:20522788 original size:2 final size:2
Alignment explanation
Indices: 20522781--20522810 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
20522771 TATGATGTGG
20522781 AT 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 AT
20522811 GTTGTATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20525582 original size:12 final size:12
Alignment explanation
Indices: 20525565--20525590 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20525555 TGGTTTCCCT
20525565 TTTCAACCATTA
1 TTTCAACCATTA
20525577 TTTCAACCATTA
1 TTTCAACCATTA
20525589 TT
1 TT
20525591 CCTCCATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (12 bp):
TTTCAACCATTA
Found at i:20526566 original size:23 final size:23
Alignment explanation
Indices: 20526416--20526829 Score: 209
Period size: 23 Copynumber: 17.9 Consensus size: 23
20526406 TATAAAACAA
* * * *
20526416 CATGGTGGGAATGTGTAACACGA
1 CATGGTGAGAATATGTGACACGG
* * *
20526439 CATGGTGGGAATGTGTGACACAG
1 CATGGTGAGAATATGTGACACGG
* * *
20526462 CATGGTGAAAATGTGTGACACGT
1 CATGGTGAGAATATGTGACACGG
* * *
20526485 TATGGTGAGAATATGTGGCACAG
1 CATGGTGAGAATATGTGACACGG
* * * * **
20526508 CAGGGTTTAGAGTTTGTGACACAC
1 CATGG-TGAGAATATGTGACACGG
* * *
20526532 CATGGAGGGAATATGTAACACGG
1 CATGGTGAGAATATGTGACACGG
* * *
20526555 CAAGGTGAGAATATGTGACATGA
1 CATGGTGAGAATATGTGACACGG
* * * * * *
20526578 CTTAGAGGGAATATGTGAGATGG
1 CATGGTGAGAATATGTGACACGG
* * *
20526601 CATGCTGAGAATATATGACACGC
1 CATGGTGAGAATATGTGACACGG
*
20526624 CATGGTGAGAATATGTGAGACGG
1 CATGGTGAGAATATGTGACACGG
* **
20526647 CATGGTGAGCATATGTGACACAT
1 CATGGTGAGAATATGTGACACGG
* * * * * *
20526670 CAAGGTTCAGAGTTTATGACACGC
1 CATGG-TGAGAATATGTGACACGG
* *
20526694 CATGGTGAGAATATGTGAGATGG
1 CATGGTGAGAATATGTGACACGG
*
20526717 CATGGTGAGCATATGTGACACGG
1 CATGGTGAGAATATGTGACACGG
* * * * *
20526740 CGA-GGTTCAGAGTTTGTAACACGC
1 C-ATGG-TGAGAATATGTGACACGG
* * *
20526764 CATGGAGGGAATCTGTGACACGG
1 CATGGTGAGAATATGTGACACGG
* * * * * *
20526787 TAGGGTGATAATGTGTGAGACAG
1 CATGGTGAGAATATGTGACACGG
* * *
20526810 CATAGTGAAAATAAGTGACA
1 CATGGTGAGAATATGTGACA
20526830 TGATTGTGAC
Statistics
Matches: 280, Mismatches: 106, Indels: 10
0.71 0.27 0.03
Matches are distributed among these distances:
23 232 0.83
24 48 0.17
ACGTcount: A:0.31, C:0.13, G:0.33, T:0.23
Consensus pattern (23 bp):
CATGGTGAGAATATGTGACACGG
Found at i:20526706 original size:70 final size:70
Alignment explanation
Indices: 20526614--20526786 Score: 256
Period size: 70 Copynumber: 2.5 Consensus size: 70
20526604 GCTGAGAATA
*
20526614 TATGACACGCCATGGTGAGAATATGTGAGACGGCATGGTGAGCATATGTGACACATCAAGGTTCA
1 TATGACACGCCATGGTGAGAATATGTGAGACGGCATGGTGAGCATATGTGACACAGCAAGGTTCA
20526679 GAGTT
66 GAGTT
* * *
20526684 TATGACACGCCATGGTGAGAATATGTGAGATGGCATGGTGAGCATATGTGACACGGCGAGGTTCA
1 TATGACACGCCATGGTGAGAATATGTGAGACGGCATGGTGAGCATATGTGACACAGCAAGGTTCA
20526749 GAGTT
66 GAGTT
* * * * * *
20526754 TGTAACACGCCATGGAGGGAATCTGTGACACGG
1 TATGACACGCCATGGTGAGAATATGTGAGACGG
20526787 TAGGGTGATA
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
70 92 1.00
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.23
Consensus pattern (70 bp):
TATGACACGCCATGGTGAGAATATGTGAGACGGCATGGTGAGCATATGTGACACAGCAAGGTTCA
GAGTT
Found at i:20526921 original size:23 final size:23
Alignment explanation
Indices: 20526858--20526924 Score: 91
Period size: 23 Copynumber: 2.9 Consensus size: 23
20526848 GTTTAAAGTT
* * *
20526858 TGTGACACGCCATGG-TGGGAATG
1 TGTGACATGCCATGGCT-TGAATA
20526881 TGTGACATGCCATGGCTTGAATA
1 TGTGACATGCCATGGCTTGAATA
20526904 TGTGACATGCCATGGCTTGAA
1 TGTGACATGCCATGGCTTGAA
20526925 ATAGAAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
23 39 0.98
24 1 0.03
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (23 bp):
TGTGACATGCCATGGCTTGAATA
Found at i:20527580 original size:87 final size:87
Alignment explanation
Indices: 20527434--20527619 Score: 282
Period size: 87 Copynumber: 2.1 Consensus size: 87
20527424 AGGGTTCTTA
* *
20527434 GCATGTCACCACATTGCATATTTTAGGGTAGTTCGTGTAACAAGTTAGTAATTACAGTGATTGGT
1 GCATGTCACCACATTGCATATTTTAGGGTAGTTCGTGTAACAAGATAGTAATTACAGTGATTGGC
* *
20527499 GTGTCACGACATGCCATGGTTG
66 ATGTCACGACACGCCATGGTTG
** * *
20527521 GCATGTCACCACATTGGGTATTTTAGGGTAGTTTGTGTAACAAGATAGTAATTATAGTGATTGGC
1 GCATGTCACCACATTGCATATTTTAGGGTAGTTCGTGTAACAAGATAGTAATTACAGTGATTGGC
*
20527586 ATGTCACGACACGCCATTGTTG
66 ATGTCACGACACGCCATGGTTG
*
20527608 GCGTGTCACCAC
1 GCATGTCACCAC
20527620 CCTGCTCAGC
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 89 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (87 bp):
GCATGTCACCACATTGCATATTTTAGGGTAGTTCGTGTAACAAGATAGTAATTACAGTGATTGGC
ATGTCACGACACGCCATGGTTG
Found at i:20527675 original size:31 final size:31
Alignment explanation
Indices: 20527637--20527773 Score: 193
Period size: 31 Copynumber: 4.4 Consensus size: 31
20527627 AGCATTGGCA
* *
20527637 TGTAACAACATTTGACTTGATATGCTTAGCG
1 TGTAACAACATTTTACTTGATATGCATAGCG
* * *
20527668 TGTAACAACATTTTACTTGGTATGCATGGTG
1 TGTAACAACATTTTACTTGATATGCATAGCG
* *
20527699 TGTAATAACATTTTACTTGATATGCATGGCG
1 TGTAACAACATTTTACTTGATATGCATAGCG
* *
20527730 GGTAACAACATTTTACTTGGTATGCATAGCG
1 TGTAACAACATTTTACTTGATATGCATAGCG
20527761 TGTAACAACATTT
1 TGTAACAACATTT
20527774 ATTTCCTTAT
Statistics
Matches: 93, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 93 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (31 bp):
TGTAACAACATTTTACTTGATATGCATAGCG
Found at i:20531921 original size:31 final size:31
Alignment explanation
Indices: 20531832--20531931 Score: 121
Period size: 31 Copynumber: 3.2 Consensus size: 31
20531822 GTGCATGGCA
* * *
20531832 TGTCACCCTATAATTCTGCAACCACGT-GGCA
1 TGTCACCCCATAATTCTGCAACCAC-TCAGCG
* * *
20531863 TGTTACCCCATAATACTGCAACAACTCAGCG
1 TGTCACCCCATAATTCTGCAACCACTCAGCG
*
20531894 TGTCACCCCATAATTCTGCTACCACTCAGCG
1 TGTCACCCCATAATTCTGCAACCACTCAGCG
20531925 TGTCACC
1 TGTCACC
20531932 ACAAGATGTC
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
30 1 0.02
31 57 0.98
ACGTcount: A:0.26, C:0.35, G:0.14, T:0.25
Consensus pattern (31 bp):
TGTCACCCCATAATTCTGCAACCACTCAGCG
Found at i:20532043 original size:107 final size:106
Alignment explanation
Indices: 20531869--20532185 Score: 456
Period size: 107 Copynumber: 3.0 Consensus size: 106
20531859 GGCATGTTAC
*
20531869 CCCATAATACTGCAACAACTCAG-CGTGTCACCCCATAATTCTGCTACCACTCAGCGTGTCACCA
1 CCCATAATACTGTAACAACTCAGTC-TGTCACCCCATAATTCTGCTACCACTCAGCGTGTCACCA
* *
20531933 CAAGATGTCATCGACATCTAACAATTGTGGTGTGGCGTATCAA
65 CAAGATGTCATCAACATCTAACAATTG-GGAGTGGCGTATCAA
*
20531976 CCCATAATACTGTAACAACTCAGTCTGTCACTCCATAATTCTGCTACCACTCAGCGTGTCACCAC
1 CCCATAATACTGTAACAACTCAGTCTGTCACCCCATAATTCTGCTACCACTCAGCGTGTCACCAC
* * *
20532041 AAGATGTCATCAACATCTAACAATTAGGGAGTGGCATTTCAG
66 AAGATGTCATCAACATCTAACAATT-GGGAGTGGCGTATCAA
* * * * *
20532083 CCCATAATATTGTAACAACTCAGTGTGTCACCCCATAATTCTACTACCACCCAGCATGTCACCAC
1 CCCATAATACTGTAACAACTCAGTCTGTCACCCCATAATTCTGCTACCACTCAGCGTGTCACCAC
* * *
20532148 AAGATGTCATCAATATCTAACAACTGAGGCGTGGCGTA
66 AAGATGTCATCAACATCTAACAATTG-GGAGTGGCGTA
20532186 CTGTAATAAC
Statistics
Matches: 189, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
106 1 0.01
107 186 0.98
108 2 0.01
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (106 bp):
CCCATAATACTGTAACAACTCAGTCTGTCACCCCATAATTCTGCTACCACTCAGCGTGTCACCAC
AAGATGTCATCAACATCTAACAATTGGGAGTGGCGTATCAA
Found at i:20532215 original size:94 final size:94
Alignment explanation
Indices: 20532093--20532264 Score: 245
Period size: 94 Copynumber: 1.8 Consensus size: 94
20532083 CCCATAATAT
* *
20532093 TGTAACAACTCAGTGTGTCACCCCATAATTCTACTACCACCCAGCATGTCACCACAAGATGTCAT
1 TGTAACAACTCAGTGTATCACCCCATAATTCTACTACCACCCAACATGTCACCACAAGATGTCAT
*
20532158 CAATATCTAACAACTGAGGCGTGGCGTAC
66 CAACATCTAACAACTGAGGCGTGGCGTAC
* * * * * * *
20532187 TGTAATAACTCAGTGTATCACCCTATAATTCTACTGCCACTCAACGTGTGACCACAATATGTCAT
1 TGTAACAACTCAGTGTATCACCCCATAATTCTACTACCACCCAACATGTCACCACAAGATGTCAT
*
20532252 CGACATCTAACAA
66 CAACATCTAACAA
20532265 TTGAAGCATG
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
94 67 1.00
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (94 bp):
TGTAACAACTCAGTGTATCACCCCATAATTCTACTACCACCCAACATGTCACCACAAGATGTCAT
CAACATCTAACAACTGAGGCGTGGCGTAC
Found at i:20548568 original size:43 final size:43
Alignment explanation
Indices: 20548520--20548668 Score: 219
Period size: 43 Copynumber: 3.5 Consensus size: 43
20548510 TCACCAGCTC
**
20548520 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCACCGGGTT
1 ATGCGCACTCCCTACTCGCACATAACTGGGTCATCACCGGGTT
**
20548563 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCACCGGGTT
1 ATGCGCACTCCCTACTCGCACATAACTGGGTCATCACCGGGTT
* *
20548606 ATGCGCACTCCCTACTCGCACATAACTGGGTCATC-CTCAGCTT
1 ATGCGCACTCCCTACTCGCACATAACTGGGTCATCAC-CGGGTT
*
20548649 ATGCTCACTCCCTACTCGCA
1 ATGCGCACTCCCTACTCGCA
20548669 GATAGCCGAG
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 1 0.01
43 95 0.99
ACGTcount: A:0.20, C:0.38, G:0.19, T:0.23
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACTGGGTCATCACCGGGTT
Found at i:20552319 original size:22 final size:22
Alignment explanation
Indices: 20552272--20552375 Score: 84
Period size: 22 Copynumber: 4.6 Consensus size: 22
20552262 AGTCATCTTA
* * **
20552272 TTACACGCCAAGTTCATAAACA
1 TTACACGCCATGTTCAAAAATG
20552294 TTACACGCCATGTTCAAAAATG
1 TTACACGCCATGTTCAAAAATG
* * *
20552316 TTACATG-TAAGTTCAAAAATCG
1 TTACACGCCATGTTCAAAAAT-G
*
20552338 TTACACACCATGTTCAATAAAAATG
1 TTACACGCCATGTTC---AAAAATG
*
20552363 TTACACTCCATGT
1 TTACACGCCATGT
20552376 GCTAACACAT
Statistics
Matches: 65, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
21 11 0.17
22 30 0.46
23 5 0.08
25 13 0.20
26 6 0.09
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (22 bp):
TTACACGCCATGTTCAAAAATG
Found at i:20554458 original size:22 final size:22
Alignment explanation
Indices: 20554427--20554470 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
20554417 AATATCCTTG
* *
20554427 ATAAAAAAAAATCAAATTTTTA
1 ATAAAAAAAAATAAAATATTTA
*
20554449 ATAAATAAAAATAAAATATTTA
1 ATAAAAAAAAATAAAATATTTA
20554471 TGAAAAGTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
ATAAAAAAAAATAAAATATTTA
Found at i:20557292 original size:4 final size:4
Alignment explanation
Indices: 20557283--20557314 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
20557273 ATTTATTATT
20557283 CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA
20557315 TATATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Done.