Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 54 of 345
Found at i:15245764 original size:17 final size:17
Alignment explanation
Indices: 15245742--15245779 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
15245732 TTGAGGAAGA
15245742 AAGAATGATGAAAATGT
1 AAGAATGATGAAAATGT
15245759 AAGAATGATGAAAATGT
1 AAGAATGATGAAAATGT
15245776 AAGA
1 AAGA
15245780 TAACTTTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (17 bp):
AAGAATGATGAAAATGT
Found at i:15248955 original size:29 final size:30
Alignment explanation
Indices: 15248898--15248957 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
15248888 TTCCTGAGCC
*
15248898 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * *
15248928 TAGGGGAAAAATTGTAATTTTGC-AAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
15248957 T
1 T
15248958 GAGTTAATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:15251912 original size:2 final size:2
Alignment explanation
Indices: 15251905--15251944 Score: 64
Period size: 2 Copynumber: 20.0 Consensus size: 2
15251895 ACCATTGATG
15251905 TA TA TA TA TA TA TA TA TA TA TA TA GTA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
15251945 CAAAGCCTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 33 0.92
3 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:15255876 original size:54 final size:52
Alignment explanation
Indices: 15255667--15255873 Score: 227
Period size: 53 Copynumber: 3.9 Consensus size: 52
15255657 TATATCATAT
* * * * * *
15255667 CGATGCCATATCCCGGATATGGTCTTACACAGAAGCACTTATCACTTTTCTC
1 CGATGCCATAGCCCAGCTATGGTCTTATACAGAATCACTTATCACTTTTATC
* * * *
15255719 TGATGCCATAGCCCAGCTATGGTCTTATAC-GGATCGCTTGTATCACTTTAATC
1 CGATGCCATAGCCCAGCTATGGTCTTATACAGAATCAC-T-TATCACTTTTATC
* * *
15255772 CGAAGCCATAGCCCAGCTATGGTCTTATACGGGAATCACTTATCACTTGTTTTC
1 CGATGCCATAGCCCAGCTATGGTCTTATAC-AGAATCACTTATCACTT-TTATC
* *
15255826 CGATGCCATAGCCTAGCTATGGTCTTATACAGATATCGCTTATCACTT
1 CGATGCCATAGCCCAGCTATGGTCTTATACAGA-ATCACTTATCACTT
15255874 GTTGCCATGG
Statistics
Matches: 129, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
51 4 0.03
52 26 0.20
53 49 0.38
54 45 0.35
55 5 0.04
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.32
Consensus pattern (52 bp):
CGATGCCATAGCCCAGCTATGGTCTTATACAGAATCACTTATCACTTTTATC
Found at i:15257982 original size:13 final size:13
Alignment explanation
Indices: 15257957--15257989 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
15257947 GTCTACTTGT
15257957 AATTTTTTAAATA
1 AATTTTTTAAATA
15257970 AATTTGTTT-AATA
1 AATTT-TTTAAATA
15257983 AATTTTT
1 AATTTTT
15257990 ACCATATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 14 0.74
14 3 0.16
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (13 bp):
AATTTTTTAAATA
Found at i:15258866 original size:148 final size:145
Alignment explanation
Indices: 15258568--15258847 Score: 341
Period size: 148 Copynumber: 1.9 Consensus size: 145
15258558 CAAATATGTG
* *
15258568 CATTAAAAATTGGGGAGCAAATTAAAAAGTTGTAATATCATCGTTTCGTTACTAATCAACAGTTG
1 CATTAAAAATTAGGGAGCAAATTAAAAAGTTGTAATATCATCATTTCGTTACTAATCAACAGTTG
* * * *
15258633 TGTGACAAAAAAACAATGTCAAAACATTAGTAAGTAAATTGTAATTTCTTATAATTTAATGATTA
66 GGTGACAAAAAAACAATATCAAAACATTAGTAAGTAAATTATAATTTCTTATAACTTAATGATTA
15258698 AGATTAAAATGAAAA
131 AGATTAAAATGAAAA
* ** ** *
15258713 CATTAAAAAGTTAGTGAGCAAATTAAAAAGTTGTCTTTATCATCA-TTCTGTTACTGTTTTAACA
1 CATTAAAAA-TTAGGGAGCAAATTAAAAAGTTGT-AATATCATCATTTC-GTTACT-AATCAACA
* * *
15258777 GTTGGGTGAC-AAAAAACAATATCGAAAATATTAGTGAGTAAATTATAACTTT-TTATAACTTGA
62 GTTGGGTGACAAAAAAACAATATC-AAAACATTAGTAAGTAAATTATAA-TTTCTTATAACTTAA
15258840 TGAATTAA
125 TG-ATTAA
15258848 TATAAAAGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
145 9 0.08
146 25 0.22
147 25 0.22
148 46 0.41
149 8 0.07
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.34
Consensus pattern (145 bp):
CATTAAAAATTAGGGAGCAAATTAAAAAGTTGTAATATCATCATTTCGTTACTAATCAACAGTTG
GGTGACAAAAAAACAATATCAAAACATTAGTAAGTAAATTATAATTTCTTATAACTTAATGATTA
AGATTAAAATGAAAA
Found at i:15264906 original size:22 final size:22
Alignment explanation
Indices: 15264860--15264906 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
15264850 CAGAAACTAT
* * *
15264860 TTTATAATATAATTTTTTAAGA
1 TTTATAATATAACTTTTAAAAA
*
15264882 TTTATAATATTACTTTTAAAAA
1 TTTATAATATAACTTTTAAAAA
15264904 TTT
1 TTT
15264907 TGTAATAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTATAATATAACTTTTAAAAA
Found at i:15265910 original size:40 final size:38
Alignment explanation
Indices: 15265803--15265911 Score: 100
Period size: 39 Copynumber: 2.8 Consensus size: 38
15265793 AGCTTCAATG
*
15265803 GCAT-TAGCGGCGTTTG-TACAAAAACGCCGCTATAGAT
1 GCATATAGCGGCGTTTGTTA-AAAAACGCCGCTAAAGAT
* *
15265840 -CAGTATTAGTGGCGTTT-TTAAAGAAGCGCCGCTAAAGGTAT
1 GCA-TA-TAGCGGCGTTTGTTAAA-AAACGCCGCTAAA-G-AT
*
15265881 GCATATAGCGACGTTTGTTAAAAAACGCCGC
1 GCATATAGCGGCGTTTGTTAAAAAACGCCGC
15265912 AAAATTTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
36 2 0.04
37 1 0.02
38 2 0.04
39 23 0.40
40 18 0.32
41 9 0.16
42 2 0.04
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (38 bp):
GCATATAGCGGCGTTTGTTAAAAAACGCCGCTAAAGAT
Found at i:15266486 original size:45 final size:44
Alignment explanation
Indices: 15266436--15266525 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 44
15266426 ATATGGTTAA
*
15266436 GGGTTTAAAGTTTATGAG-TTATTATTTTAAGGTTTAGGGATTATG
1 GGGTTTAAAGGTTATG-GTTTATTA-TTTAAGGTTTAGGGATTATG
* * *
15266481 GGGTTTAAGGGTTATGGTTTATTATTTAGGGTTTATGGATTATG
1 GGGTTTAAAGGTTATGGTTTATTATTTAAGGTTTAGGGATTATG
15266525 G
1 G
15266526 ATTAAGGATT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
44 20 0.50
45 20 0.50
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (44 bp):
GGGTTTAAAGGTTATGGTTTATTATTTAAGGTTTAGGGATTATG
Found at i:15266501 original size:14 final size:14
Alignment explanation
Indices: 15266466--15266544 Score: 52
Period size: 14 Copynumber: 5.4 Consensus size: 14
15266456 ATTATTTTAA
*
15266466 GGTTTAGGGATTAT
1 GGTTTAAGGATTAT
*
15266480 GGGGTTTAAGGGTTAT
1 --GGTTTAAGGATTAT
** *
15266496 GGTTT-ATTATTTAG
1 GGTTTAAGGA-TTAT
*
15266510 GGTTTATGGATTAT
1 GGTTTAAGGATTAT
*
15266524 GGATTAAGGATTAT
1 GGTTTAAGGATTAT
15266538 GGGTTTA
1 -GGTTTA
15266545 GGGTTAATAA
Statistics
Matches: 47, Mismatches: 13, Indels: 7
0.70 0.19 0.10
Matches are distributed among these distances:
13 1 0.02
14 28 0.60
15 6 0.13
16 12 0.26
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.44
Consensus pattern (14 bp):
GGTTTAAGGATTAT
Found at i:15266825 original size:14 final size:14
Alignment explanation
Indices: 15266790--15266825 Score: 65
Period size: 13 Copynumber: 2.6 Consensus size: 14
15266780 AAAAAAATGG
15266790 AATTATTTAGATTA
1 AATTATTTAGATTA
15266804 AATT-TTTAGATTA
1 AATTATTTAGATTA
15266817 AATTATTTA
1 AATTATTTA
15266826 AGAGATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (14 bp):
AATTATTTAGATTA
Found at i:15269847 original size:19 final size:19
Alignment explanation
Indices: 15269823--15269862 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
15269813 ATTGGATTTG
*
15269823 ACTATAATTTGATATACCA
1 ACTATAATTTAATATACCA
15269842 ACTATAATTTAATATACCA
1 ACTATAATTTAATATACCA
15269861 AC
1 AC
15269863 GAGCTTTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.35
Consensus pattern (19 bp):
ACTATAATTTAATATACCA
Found at i:15270987 original size:15 final size:13
Alignment explanation
Indices: 15270955--15270989 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
15270945 TTACATAATA
15270955 CATAAATATATAT
1 CATAAATATATAT
15270968 CATAAATATATAT
1 CATAAATATATAT
15270981 CATATAATA
1 CATA-AATA
15270990 ACTTACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:15270999 original size:9 final size:9
Alignment explanation
Indices: 15270987--15271153 Score: 80
Period size: 9 Copynumber: 19.0 Consensus size: 9
15270977 ATATCATATA
15270987 ATAACTTAC
1 ATAACTTAC
*
15270996 ATAACTTAT
1 ATAACTTAC
*
15271005 ATACCTTAC
1 ATAACTTAC
*
15271014 A-AA-ATAC
1 ATAACTTAC
* *
15271021 ATAA-ATAT
1 ATAACTTAC
* *
15271029 ATATCATATC
1 ATAACTTA-C
15271039 ATAACTTAC
1 ATAACTTAC
*
15271048 ACAACTTAC
1 ATAACTTAC
15271057 ATAA--TAC
1 ATAACTTAC
* *
15271064 ATAA-ATAT
1 ATAACTTAC
* *
15271072 ATATCATATC
1 ATAACTTA-C
15271082 ATAACTTAC
1 ATAACTTAC
*
15271091 ATACCTTAC
1 ATAACTTAC
* *
15271100 ATAAATGTAT
1 ATAACT-TAC
* *
15271110 ATCA-TAAC
1 ATAACTTAC
15271118 ATAACTTAC
1 ATAACTTAC
15271127 ATAACTTAC
1 ATAACTTAC
15271136 A-AAGCTTAC
1 ATAA-CTTAC
*
15271145 TTAACTTAC
1 ATAACTTAC
15271154 GTAATACATA
Statistics
Matches: 121, Mismatches: 27, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
7 11 0.09
8 20 0.17
9 71 0.59
10 19 0.16
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (9 bp):
ATAACTTAC
Found at i:15271043 original size:52 final size:49
Alignment explanation
Indices: 15270968--15271098 Score: 166
Period size: 43 Copynumber: 2.7 Consensus size: 49
15270958 AAATATATAT
*
15270968 CATAAATATATATCATATAATAACTTACATAACTTATATACCTTACAAAATA
1 CATAAATATATATCATATCATAACTTACATAACTTA-A-A-CTTACAAAATA
*
15271020 CATAAATATATATCATATCATAACTTAC---AC---AACTTACATAATA
1 CATAAATATATATCATATCATAACTTACATAACTTAAACTTACAAAATA
*
15271063 CATAAATATATATCATATCATAACTTACATACCTTA
1 CATAAATATATATCATATCATAACTTACATAACTTA
15271099 CATAAATGTA
Statistics
Matches: 70, Mismatches: 3, Indels: 15
0.80 0.03 0.17
Matches are distributed among these distances:
43 38 0.54
44 1 0.01
45 1 0.01
46 1 0.01
49 2 0.03
52 27 0.39
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (49 bp):
CATAAATATATATCATATCATAACTTACATAACTTAAACTTACAAAATA
Found at i:15271059 original size:36 final size:36
Alignment explanation
Indices: 15271018--15271136 Score: 139
Period size: 36 Copynumber: 3.1 Consensus size: 36
15271008 CCTTACAAAA
*
15271018 TACATAAATATATATCATATCATAACTTACACAACTTACAT
1 TACATAAATATATATCATATCATAACTT--AC-A-TAAC-T
*
15271059 AATACATAAATATATATCATATCATAACTTACATACCT
1 --TACATAAATATATATCATATCATAACTTACATAACT
* *
15271097 TACATAAATGTATATCATAACATAACTTACATAACT
1 TACATAAATATATATCATATCATAACTTACATAACT
15271133 TACA
1 TACA
15271137 AAGCTTACTT
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
36 37 0.52
38 1 0.01
39 2 0.03
40 1 0.01
41 2 0.03
43 28 0.39
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.34
Consensus pattern (36 bp):
TACATAAATATATATCATATCATAACTTACATAACT
Found at i:15271099 original size:43 final size:43
Alignment explanation
Indices: 15270995--15271103 Score: 182
Period size: 43 Copynumber: 2.5 Consensus size: 43
15270985 TAATAACTTA
* *
15270995 CATAACTTATATACCTTACAAAATACATAAATATATATCATAT
1 CATAACTTACATACCTTACATAATACATAAATATATATCATAT
* *
15271038 CATAACTTACACAACTTACATAATACATAAATATATATCATAT
1 CATAACTTACATACCTTACATAATACATAAATATATATCATAT
15271081 CATAACTTACATACCTTACATAA
1 CATAACTTACATACCTTACATAA
15271104 ATGTATATCA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (43 bp):
CATAACTTACATACCTTACATAATACATAAATATATATCATAT
Found at i:15271558 original size:13 final size:14
Alignment explanation
Indices: 15271542--15271570 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15271532 TTCTAAATAT
15271542 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
15271555 TTATAATTGTTTAA
1 TTATAATTGTTTAA
15271569 TT
1 TT
15271571 CGATTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:15272011 original size:18 final size:18
Alignment explanation
Indices: 15271988--15272030 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
15271978 TAGAGCGGAG
15271988 GCAGCAGAGAAGGAGGCA
1 GCAGCAGAGAAGGAGGCA
* *
15272006 GCAGCAGCGAGGGAGGCA
1 GCAGCAGAGAAGGAGGCA
*
15272024 GCGGCAG
1 GCAGCAG
15272031 CAGCGAGGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.21, G:0.49, T:0.00
Consensus pattern (18 bp):
GCAGCAGAGAAGGAGGCA
Found at i:15272030 original size:21 final size:21
Alignment explanation
Indices: 15271985--15272075 Score: 118
Period size: 21 Copynumber: 4.5 Consensus size: 21
15271975 ACTTAGAGCG
* *
15271985 GAGGCAGCAGAGAAGGAGGC-
1 GAGGCAGCAGCGAGGGAGGCA
15272005 -A-GCAGCAGCGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
*
15272024 GCGGCAGCAGCGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
15272045 GAGGCA-CGAGCGAGGGAGGCA
1 GAGGCAGC-AGCGAGGGAGGCA
15272066 GAGGCAGCAG
1 GAGGCAGCAG
15272076 TGATGGCAGC
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
18 15 0.24
19 1 0.02
20 1 0.02
21 44 0.71
22 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.51, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:15275028 original size:21 final size:22
Alignment explanation
Indices: 15274979--15275028 Score: 52
Period size: 21 Copynumber: 2.3 Consensus size: 22
15274969 TTGTTTTAAT
15274979 ATTTTTTGTTTCTTTTATCTTC
1 ATTTTTTGTTTCTTTTATCTTC
*
15275001 -TCATTTT-TTTCATTTTAT-TTC
1 AT-TTTTTGTTTC-TTTTATCTTC
15275022 ATTTTTT
1 ATTTTTT
15275029 AGATATCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 7
0.72 0.06 0.22
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (22 bp):
ATTTTTTGTTTCTTTTATCTTC
Found at i:15278941 original size:117 final size:114
Alignment explanation
Indices: 15278732--15278963 Score: 376
Period size: 117 Copynumber: 2.0 Consensus size: 114
15278722 TTCATAATAG
15278732 TTATAATTAATTGCGGTTGGAATTAGTTTATTCTTTAATAAACAGCACCTGAATTGCAAAAGTAA
1 TTATAATTAATTGCGGTTGGAATTAGTTTATTCTTTAATAAACAGCACCTGAATTGCAAAAGTAA
*
15278797 AAGTGCTTTTGTATCATACAGTTTTCTGCATACTCAAAATGAATGATAA
66 AAGTGCTTTTGTATCATACAGCTTTCTGCATACTCAAAATGAATGATAA
* *
15278846 TTATAATTAATTTG-GGTTGGAATTAGTTTATTCTTTAATAAACGGATCACTTGAATTTGCAAAA
1 TTATAATTAA-TTGCGGTTGGAATTAGTTTATTCTTTAATAAAC--AGCACCTGAA-TTGCAAAA
* *
15278910 GTTACAGTGCTTTTGTATCATACAGCTTTCTGCATACTCAAAATGAATGATAA
62 GTAAAAGTGCTTTTGTATCATACAGCTTTCTGCATACTCAAAATGAATGATAA
15278963 T
1 T
15278964 AATTCAGTAA
Statistics
Matches: 109, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
114 39 0.36
115 3 0.03
116 8 0.07
117 59 0.54
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.38
Consensus pattern (114 bp):
TTATAATTAATTGCGGTTGGAATTAGTTTATTCTTTAATAAACAGCACCTGAATTGCAAAAGTAA
AAGTGCTTTTGTATCATACAGCTTTCTGCATACTCAAAATGAATGATAA
Found at i:15279691 original size:109 final size:109
Alignment explanation
Indices: 15279500--15279720 Score: 442
Period size: 109 Copynumber: 2.0 Consensus size: 109
15279490 ATCCGAGTCT
15279500 GAGTAACATAGGATGTATTGCATATTACCAAGTATTGCTTATCATTTTATTTTTTTGCAAAGTCA
1 GAGTAACATAGGATGTATTGCATATTACCAAGTATTGCTTATCATTTTATTTTTTTGCAAAGTCA
15279565 ACCAACTTCAATCCATATAAGTTTTTCCTTGGAAAATTTTCATA
66 ACCAACTTCAATCCATATAAGTTTTTCCTTGGAAAATTTTCATA
15279609 GAGTAACATAGGATGTATTGCATATTACCAAGTATTGCTTATCATTTTATTTTTTTGCAAAGTCA
1 GAGTAACATAGGATGTATTGCATATTACCAAGTATTGCTTATCATTTTATTTTTTTGCAAAGTCA
15279674 ACCAACTTCAATCCATATAAGTTTTTCCTTGGAAAATTTTCATA
66 ACCAACTTCAATCCATATAAGTTTTTCCTTGGAAAATTTTCATA
15279718 GAG
1 GAG
15279721 ATTACCTTCT
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 112 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (109 bp):
GAGTAACATAGGATGTATTGCATATTACCAAGTATTGCTTATCATTTTATTTTTTTGCAAAGTCA
ACCAACTTCAATCCATATAAGTTTTTCCTTGGAAAATTTTCATA
Found at i:15285501 original size:14 final size:14
Alignment explanation
Indices: 15285482--15285555 Score: 51
Period size: 14 Copynumber: 4.9 Consensus size: 14
15285472 GTTTGCCAGT
15285482 AAAATATTTTCTAG
1 AAAATATTTTCTAG
* *
15285496 AAAATAATTTCTGGAA
1 AAAATATTTTCT--AG
15285512 AATAATTTACTTTTCTAG
1 AA-AA--TA-TTTTCTAG
*
15285530 AAAATGATTTACT-G
1 AAAAT-ATTTTCTAG
15285544 AAAATATTTTCT
1 AAAATATTTTCT
15285556 GGTGTTTCGA
Statistics
Matches: 47, Mismatches: 6, Indels: 15
0.69 0.09 0.22
Matches are distributed among these distances:
13 6 0.13
14 17 0.36
15 6 0.13
16 4 0.09
17 4 0.09
18 3 0.06
19 2 0.04
20 5 0.11
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (14 bp):
AAAATATTTTCTAG
Found at i:15285532 original size:20 final size:20
Alignment explanation
Indices: 15285503--15285542 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15285493 TAGAAAATAA
*
15285503 TTTCTGGAAAATAATTTACT
1 TTTCTAGAAAATAATTTACT
*
15285523 TTTCTAGAAAATGATTTACT
1 TTTCTAGAAAATAATTTACT
15285543 GAAAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (20 bp):
TTTCTAGAAAATAATTTACT
Found at i:15285663 original size:20 final size:20
Alignment explanation
Indices: 15285640--15285678 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15285630 ATTTTTACAT
15285640 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
* *
15285660 ATATTAATCAATTTTTATA
1 ATATTAATAAATTTATATA
15285679 TTTTAAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:15287995 original size:93 final size:93
Alignment explanation
Indices: 15287888--15288058 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
15287878 GCCCCTAAGT
* *
15287888 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15287953 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
15287981 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15288046 CGAGTTCGGATGC
66 CGAGTTCGGATGC
15288059 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:15288055 original size:46 final size:46
Alignment explanation
Indices: 15287883--15288055 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
15287873 AACCCGCCCC
* * *
15287883 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
15287929 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
15287977 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
15288022 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
15288056 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:15293553 original size:46 final size:46
Alignment explanation
Indices: 15293390--15293561 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
15293380 AACCCGCCCC
* * *
15293390 TAAGTGAACTCGGACTCAACTCAACGAGCT-GGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
15293435 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
15293483 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
15293528 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
15293562 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 13, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 30 0.29
46 31 0.30
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:15293558 original size:93 final size:92
Alignment explanation
Indices: 15293395--15293564 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 92
15293385 GCCCCTAAGT
* *
15293395 GAACTCGGACTCAACTCAACGAGCTGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
15293460 AAGTTCGGATGCCTAGTTACATTTCAC
66 AAGTTCGGATGCCTAGTTACATTTCAC
*
15293487 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCT-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
15293552 CGAGTTCGGATGC
65 CAAGTTCGGATGC
15293565 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 24 0.33
93 49 0.67
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
AAGTTCGGATGCCTAGTTACATTTCAC
Found at i:15293580 original size:46 final size:46
Alignment explanation
Indices: 15293389--15293573 Score: 141
Period size: 45 Copynumber: 4.0 Consensus size: 46
15293379 TAACCCGCCC
* * * * * *
15293389 CTAAGTGAACTCGGACTCAACTCAACGAGCTGGGCGTTCGCATCCA-
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
*
15293435 -TAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGC-CTAGTTA-CAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCAT
* * * * * *
15293482 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA-
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCAT
15293528 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
15293573 C
1 C
15293574 CTAGTGACAT
Statistics
Matches: 110, Mismatches: 16, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
43 1 0.01
44 11 0.10
45 32 0.29
46 30 0.27
47 29 0.26
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
Found at i:15298094 original size:16 final size:16
Alignment explanation
Indices: 15298053--15298094 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
15298043 GTACTATTAA
15298053 AAAAACAAAAAAAATCT
1 AAAAA-AAAAAAAATCT
15298070 AAAACAAAAAAAAAT-T
1 AAAA-AAAAAAAAATCT
*
15298086 GAAAAAAAA
1 AAAAAAAAA
15298095 TGCTAAAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 5 0.22
16 4 0.17
17 13 0.57
18 1 0.04
ACGTcount: A:0.81, C:0.07, G:0.02, T:0.10
Consensus pattern (16 bp):
AAAAAAAAAAAAATCT
Found at i:15298385 original size:41 final size:38
Alignment explanation
Indices: 15298339--15298416 Score: 111
Period size: 38 Copynumber: 2.0 Consensus size: 38
15298329 CGGCACTGGT
*
15298339 GAGGGAAGAAAAAAGGAAAAGAAAAGAGGAGAAAAAAAAGA
1 GAGGGAAGAAAAAA-G-AAAGAAAA-AGAAGAAAAAAAAGA
*
15298380 GAGGGAAGGAAAAAGAAAGAAAAAGAAGAAAAAAAAG
1 GAGGGAAGAAAAAAGAAAGAAAAAGAAGAAAAAAAAG
15298417 TAATTTTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
38 13 0.37
39 8 0.23
40 1 0.03
41 13 0.37
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (38 bp):
GAGGGAAGAAAAAAGAAAGAAAAAGAAGAAAAAAAAGA
Found at i:15298415 original size:40 final size:41
Alignment explanation
Indices: 15298339--15298415 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 41
15298329 CGGCACTGGT
* *
15298339 GAGGGAAGAAAAAAGGAAAAGAAAAGAGGAGAAAAAAAAGA
1 GAGGGAAGAAAAAAGGAAAAGAAAAGAAGAAAAAAAAAAGA
*
15298380 GAGGGAAGGAAAAA-G-AAAGAAAAAGAAGAAAAAAAA
1 GAGGGAAGAAAAAAGGAAAAG-AAAAGAAGAAAAAAAA
15298416 GTAATTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 4 0.12
40 15 0.47
41 13 0.41
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (41 bp):
GAGGGAAGAAAAAAGGAAAAGAAAAGAAGAAAAAAAAAAGA
Found at i:15299836 original size:13 final size:14
Alignment explanation
Indices: 15299818--15299846 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
15299808 AGTATATTTT
15299818 AAAAAATA-AAATA
1 AAAAAATACAAATA
15299831 AAAAAATACAAATA
1 AAAAAATACAAATA
15299845 AA
1 AA
15299847 GGGCCAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (14 bp):
AAAAAATACAAATA
Found at i:15300079 original size:147 final size:148
Alignment explanation
Indices: 15299774--15300454 Score: 990
Period size: 147 Copynumber: 4.6 Consensus size: 148
15299764 GGCGGGTTTT
*
15299774 TACTAAAATAATATAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAAT-----A-AA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAGAATAA
* *
15299833 AAAATACAAATAAAGGGCCAAAATCAGTGTTTTTTACTAAATTAATATAAAAAAACACTAAAATA
66 AAAATACAAACAAAGGGCCAAAATCAGGGTTTTTTACTAAATTAATAT-AAAAAACACTAAAATA
*
15299898 ATACACTTGAAACATTATG
130 ATACATTTGAAACATTATG
15299917 TACTAAAATAATAT-AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAGAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCC-AGAATA
* * *
15299981 AAAAATATAAACAAATGGCCAAAATCAGGGTTTTTTACTAAATTAATAT-AAAAATACTAAAATA
65 AAAAATACAAACAAAGGGCCAAAATCAGGGTTTTTTACTAAATTAATATAAAAAACACTAAAATA
15300045 ATACATTTGAAACATTATG
130 ATACATTTGAAACATTATG
*
15300064 TACTAAAATAGTATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAGAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCC-AGAATA
* *
15300129 AAAAATACAAACAAAGGGCCAAAATTCAAGGTTTTTTACTAAATTAATATAAAAAATACTAAAAT
65 AAAAATACAAACAAAGGGCCAAAA-TCAGGGTTTTTTACTAAATTAATATAAAAAACACTAAAAT
*
15300194 AATGCATTTGAAACATTATG
129 AATACATTTGAAACATTATG
* *
15300214 TACTAAAAATAATATAAAAATATAAAATACGAAAATAGTATATTTTAGAAAATAAAATCC--TA-
1 TACT-AAAATAATATAAAAA-ATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAGAAT
* ** *
15300276 AAAAAATACAAACAAATGGTTAAAATCAGGATTTTTTACTAAATTAATATAAAAAACACTAAAAT
64 AAAAAATACAAACAAAGGGCCAAAATCAGGGTTTTTTACTAAATTAATATAAAAAACACTAAAAT
* *
15300341 AATACATTTGAAATATTATA
129 AATACATTTGAAACATTATG
* *
15300361 TACTAAAATAATAT-AAAAATAAAATATGAAAATGGTATATTTTAAAAAATAAAATCCGAGAATT
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCC-AGAA-T
*
15300425 AAGAAAAATACAAGCAAAGGGCCAAAATCA
64 -A-AAAAATACAAACAAAGGGCCAAAATCA
15300455 CCGAAAAAAA
Statistics
Matches: 487, Mismatches: 32, Indels: 30
0.89 0.06 0.05
Matches are distributed among these distances:
142 40 0.08
143 14 0.03
144 36 0.07
145 4 0.01
146 10 0.02
147 104 0.21
148 95 0.20
149 71 0.15
150 38 0.08
151 37 0.08
152 38 0.08
ACGTcount: A:0.57, C:0.08, G:0.07, T:0.28
Consensus pattern (148 bp):
TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAGAATAA
AAAATACAAACAAAGGGCCAAAATCAGGGTTTTTTACTAAATTAATATAAAAAACACTAAAATAA
TACATTTGAAACATTATG
Found at i:15300339 original size:297 final size:295
Alignment explanation
Indices: 15299774--15300452 Score: 1013
Period size: 297 Copynumber: 2.3 Consensus size: 295
15299764 GGCGGGTTTT
15299774 TACTAAAATAATATAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAAT-----A-AA
1 TACTAAAATAATATAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCAGAATAA
*
15299833 AAAATACAAATAAAGGGCCAAAA-TCAGTGTTTTTTACTAAATTAATATAAAAAAACACTAAAAT
66 AAAATACAAACAAAGGGCCAAAATTCAGTGTTTTTTACTAAATTAATATAAAAAAACACTAAAAT
15299897 AATACACTTGAAACATTATGTACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAA
131 AATACACTTGAAACATTATGTACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAA
* *
15299962 AAAATAAAATCCAAGAATAAAAAATATAAACAAATGGCCAAAATCAGGGTTTTTTACTAAATTAA
196 AAAATAAAATCC-A-AATAAAAAATACAAACAAATGGCCAAAATCAGGATTTTTTACTAAATTAA
* *
15300027 TATAAAAATACTAAAATAATACATTTGAAACATTATG
259 TATAAAAACACTAAAATAATACATTTGAAACATTATA
* *
15300064 TACTAAAATAGTATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAGAATA
1 TACTAAAATAATATAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCC-AGAATA
*
15300129 AAAAATACAAACAAAGGGCCAAAATTCAAG-GTTTTTTACTAAATTAATAT-AAAAAATACTAAA
65 AAAAATACAAACAAAGGGCCAAAATTC-AGTGTTTTTTACTAAATTAATATAAAAAAACACTAAA
* *
15300192 ATAATGCATTTGAAACATTATGTACTAAAAATAATATAAAAATATAAAATACGAAAATAGTATAT
129 ATAATACACTTGAAACATTATGTACT-AAAATAATAT-AAAA-ATAAAATACGAAAATAGTATAT
* * **
15300257 TTTAGAAAATAAAATCC-TA-AAAAAATACAAACAAATGGTTAAAATCAGGATTTTTTACTAAAT
191 TTTAAAAAATAAAATCCAAATAAAAAATACAAACAAATGGCCAAAATCAGGATTTTTTACTAAAT
*
15300320 TAATATAAAAAACACTAAAATAATACATTTGAAATATTATA
256 TAATAT-AAAAACACTAAAATAATACATTTGAAACATTATA
*
15300361 TACTAAAATAATAT-AAAAATAAAATATGAAAATGGTATATTTTAAAAAATAAAATCCGAGAATT
1 TACTAAAATAATATAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCC-AGAA-T
*
15300425 AAGAAAAATACAAGCAAAGGGCCAAAAT
64 -A-AAAAATACAAACAAAGGGCCAAAAT
15300453 CACCGAAAAA
Statistics
Matches: 353, Mismatches: 20, Indels: 23
0.89 0.05 0.06
Matches are distributed among these distances:
290 54 0.15
296 92 0.26
297 106 0.30
298 33 0.09
299 30 0.08
300 38 0.11
ACGTcount: A:0.57, C:0.08, G:0.07, T:0.28
Consensus pattern (295 bp):
TACTAAAATAATATAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCAGAATAA
AAAATACAAACAAAGGGCCAAAATTCAGTGTTTTTTACTAAATTAATATAAAAAAACACTAAAAT
AATACACTTGAAACATTATGTACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAA
AAAATAAAATCCAAATAAAAAATACAAACAAATGGCCAAAATCAGGATTTTTTACTAAATTAATA
TAAAAACACTAAAATAATACATTTGAAACATTATA
Found at i:15302756 original size:32 final size:34
Alignment explanation
Indices: 15302686--15302757 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 34
15302676 ATTGGGGTTA
*
15302686 TATCCA-TCGCAGCACAACACTTCTCCCGACCCG
1 TATCCACTCGCAGCACAACACTACTCCCGACCCG
* *
15302719 TATCCACT-GCAGTACAACACTACT-CCGGCCCG
1 TATCCACTCGCAGCACAACACTACTCCCGACCCG
15302751 TATCCAC
1 TATCCAC
15302758 CACAATACTC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
32 14 0.40
33 20 0.57
34 1 0.03
ACGTcount: A:0.25, C:0.43, G:0.12, T:0.19
Consensus pattern (34 bp):
TATCCACTCGCAGCACAACACTACTCCCGACCCG
Found at i:15303187 original size:17 final size:17
Alignment explanation
Indices: 15303117--15303192 Score: 71
Period size: 18 Copynumber: 4.2 Consensus size: 17
15303107 ACATTAAAAC
*
15303117 ACATTAATCTAATTAAA
1 ACATTAATCTAATTAGA
*
15303134 TACATTAATCTAATTGGA
1 -ACATTAATCTAATTAGA
* *
15303152 ACATTAATTAAATACATTACA
1 ACATTAA-T--CTA-ATTAGA
15303173 ACATTAATCTAATTAGA
1 ACATTAATCTAATTAGA
15303190 ACA
1 ACA
15303193 AACTTTGCAA
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
17 15 0.32
18 18 0.38
20 3 0.06
21 11 0.23
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.34
Consensus pattern (17 bp):
ACATTAATCTAATTAGA
Found at i:15305836 original size:520 final size:520
Alignment explanation
Indices: 15304842--15305877 Score: 1662
Period size: 520 Copynumber: 2.0 Consensus size: 520
15304832 TAATGGTCTA
*
15304842 CATGTCCTTCACCATTGGCATGATACACGTACAGATATTTTTAGAATCAAGTTTTCGATGATCTT
1 CATGTCCTTCACCATTGGCATGATACACGTACAGATAGTTTTAGAATCAAGTTTTCGATGATCTT
* * * * *
15304907 CTATCATACATGTTGATGTGCACGTGTGAGGCCTAACAAATTTGTGTATCTCCCACATCTACAAA
66 CGATCATACATGTTGATGTACACATGTGAGGCCCAACAAATTTGCGTATCTCCCACATCTACAAA
*
15304972 ATTTGAATAAATACAGCTCGTACCCGCCAATTGCAGCCTTCCGTTGACTTTCAACACTCCCTAAT
131 ATTTGAATAAATACAGCTCGTACCCGCCAATTGCAGCCTTCCGTTGACTTCCAACACTCCCTAAT
*
15305037 ATATAATGTCGATTTAGACACTGCAACTTTGTAATCCATTGATTTATTTATGCTATACCGCTTAA
196 ATATAATGTCGATTTAGACACTGCAACTTTGTAATCCATTGATTTATTCATGCTATACCGCTTAA
* * * *
15305102 TAGTAAATACACGCTCTTATTTACTTTTGAATTTTGGCCTACGAACAACTCCTCAGGATCGAAAT
261 TAGCAAATACACGCTCTTATTTACTTTTGAATTCTGGCCTACGAAAAACTCCTCAGGATCAAAAT
* * ** *
15305167 TTATGACCAGCCGGTGAGCAGGAAGTATTTCAAGGTACTTTGGGAACTCAGTTACATGCGCCGCG
326 TTAAGACCAGCCGGTGAGCAGGAAGTATTTCAAGGTACTCTGAAAACTCAGCTACATGCGCCGCG
* *
15305232 TCAGGGTCTATTAGCAACGTGTGTGGCCCAGGATTATTGTGTATCACAATACGTCACATATGATT
391 TCAGGGTCTATAAGCAACGTGTGTGGCCCAGGATTATTATGTATCACAATACGTCACATATGATT
* * * * * *
15305297 CCCGATCGAAGATGCGTTAATGTTTCCATCGACATTCACATCTTCTTCGTTAATATCATCGTCGG
456 CCCGACCAAAAACGCGTTAATGTTTCCATCGACATTCACATCTTCATCATTAATATCATCGTCGG
* *
15305362 CATGTCCTTCACCATTGGCATGATACATGTACAGATAGTTTTAGAATCAAGTTTTCGGTGATCTT
1 CATGTCCTTCACCATTGGCATGATACACGTACAGATAGTTTTAGAATCAAGTTTTCGATGATCTT
* * *
15305427 CGATCATACATGTTGATGTACATATGTGAGGCCCAACACATTTGCGTATCTCCCACATCTACGAA
66 CGATCATACATGTTGATGTACACATGTGAGGCCCAACAAATTTGCGTATCTCCCACATCTACAAA
*
15305492 ATTTGAATAAATACAGCTCGTACCCGCCAATTGCAGCCTTTC-TTGACTTCCAACACTCCCTAAT
131 ATTTGAATAAATACAGCTCGTACCCGCCAATTGCAGCCTTCCGTTGACTTCCAACACTCCCTAAT
*
15305556 ATATAATGTTGATTTAGACACTGCAACTTTGTAATCCATTGATTTATTCATGCTATACCGCTTAA
196 ATATAATGTCGATTTAGACACTGCAACTTTGTAATCCATTGATTTATTCATGCTATACCGCTTAA
* * *
15305621 TAGCAAATACTCGCTCTTCTTTACTTTTGAATCTCTGGCCTACGAAAAACTCCTTAGGATCAAAA
261 TAGCAAATACACGCTCTTATTTACTTTTGAAT-TCTGGCCTACGAAAAACTCCTCAGGATCAAAA
* *
15305686 TTTAAGGCCAGCCGGTGAGC-GGAAAGTATTTCAGGGTACTCTGAAAACTCAGCTACATGCGCCG
325 TTTAAGACCAGCCGGTGAGCAGG-AAGTATTTCAAGGTACTCTGAAAACTCAGCTACATGCGCCG
* * * *
15305750 CGTCAGGGTCTATAAGCGACGTTTGTGGCCCAGGATTATTATGTATCACAATATGTCGCATATGA
389 CGTCAGGGTCTATAAGCAACGTGTGTGGCCCAGGATTATTATGTATCACAATACGTCACATATGA
*
15305815 TTCCCGACCAAAAACGCGTTAATGTTTCCATCGACATTCACGTCTTCATCATTAATATCATCG
454 TTCCCGACCAAAAACGCGTTAATGTTTCCATCGACATTCACATCTTCATCATTAATATCATCG
15305878 GGGACATCGT
Statistics
Matches: 472, Mismatches: 42, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
519 115 0.24
520 357 0.76
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (520 bp):
CATGTCCTTCACCATTGGCATGATACACGTACAGATAGTTTTAGAATCAAGTTTTCGATGATCTT
CGATCATACATGTTGATGTACACATGTGAGGCCCAACAAATTTGCGTATCTCCCACATCTACAAA
ATTTGAATAAATACAGCTCGTACCCGCCAATTGCAGCCTTCCGTTGACTTCCAACACTCCCTAAT
ATATAATGTCGATTTAGACACTGCAACTTTGTAATCCATTGATTTATTCATGCTATACCGCTTAA
TAGCAAATACACGCTCTTATTTACTTTTGAATTCTGGCCTACGAAAAACTCCTCAGGATCAAAAT
TTAAGACCAGCCGGTGAGCAGGAAGTATTTCAAGGTACTCTGAAAACTCAGCTACATGCGCCGCG
TCAGGGTCTATAAGCAACGTGTGTGGCCCAGGATTATTATGTATCACAATACGTCACATATGATT
CCCGACCAAAAACGCGTTAATGTTTCCATCGACATTCACATCTTCATCATTAATATCATCGTCGG
Found at i:15307334 original size:16 final size:16
Alignment explanation
Indices: 15307315--15307345 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15307305 CTTCTTCACT
15307315 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
15307331 TACTTACTTACTTAA
1 TACTCACTTACTTAA
15307346 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:15307351 original size:20 final size:20
Alignment explanation
Indices: 15307312--15307351 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
15307302 AAACTTCTTC
* *
15307312 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
15307332 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
15307352 TTATTAATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:15310352 original size:39 final size:38
Alignment explanation
Indices: 15310249--15310378 Score: 140
Period size: 39 Copynumber: 3.4 Consensus size: 38
15310239 AATATAAATC
* **
15310249 AACAACAATAATAACTAACAATAATTGGGGTTTTTTACT
1 AACAATAATAATAACTAACAATAA-TAAGGTTTTTTACT
*
15310288 AACAATAATAAGCAAC-AATCCTAATAAT-A-GTTTTTTACT
1 AACAATAATAA-TAACTAA--C-AATAATAAGGTTTTTTACT
*
15310327 AACAATAATAATAACTAACAATAATAAGGCTTTTTACT
1 AACAATAATAATAACTAACAATAATAAGGTTTTTTACT
*
15310365 AGCAATAATAATAA
1 AACAATAATAATAA
15310379 GGTTTTTTTT
Statistics
Matches: 78, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
36 6 0.08
37 2 0.03
38 25 0.32
39 35 0.45
40 3 0.04
41 2 0.03
42 5 0.06
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.32
Consensus pattern (38 bp):
AACAATAATAATAACTAACAATAATAAGGTTTTTTACT
Found at i:15310395 original size:24 final size:25
Alignment explanation
Indices: 15310340--15310402 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 25
15310330 AATAATAATA
*
15310340 ACTAACAATAATAAGGCTTTTTACT
1 ACTAATAATAATAAGGCTTTTTACT
**
15310365 AGC-AATAATAATAAGG-TTTTTTTT
1 A-CTAATAATAATAAGGCTTTTTACT
15310389 ACTAATAATAATAA
1 ACTAATAATAATAA
15310403 CTAACAACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 1 0.03
24 18 0.55
25 13 0.39
26 1 0.03
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (25 bp):
ACTAATAATAATAAGGCTTTTTACT
Found at i:15310463 original size:23 final size:25
Alignment explanation
Indices: 15310415--15310463 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
15310405 AACAACAAAA
*
15310415 AACAATAAAAATCAACAATAATAAT
1 AACAATAAAAATCAACAATAACAAT
*
15310440 AACAGTAAAAA-C-ACAATAACAAT
1 AACAATAAAAATCAACAATAACAAT
15310463 A
1 A
15310464 TAAAAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 11 0.50
24 1 0.05
25 10 0.45
ACGTcount: A:0.67, C:0.14, G:0.02, T:0.16
Consensus pattern (25 bp):
AACAATAAAAATCAACAATAACAAT
Found at i:15310537 original size:23 final size:26
Alignment explanation
Indices: 15310496--15310552 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 26
15310486 AAATTATACA
*
15310496 TTCT-CTTTTCTATT-TTTTTTTC-C
1 TTCTCCTTTTCTATTATTTTTCTCTC
15310519 TTCTCCTTTTCT-TTATTTTTCTCTTC
1 TTCTCCTTTTCTATTATTTTTCTC-TC
15310545 TTCTCCTT
1 TTCTCCTT
15310553 GCTGTTGCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 6 0.21
24 14 0.48
26 9 0.31
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.70
Consensus pattern (26 bp):
TTCTCCTTTTCTATTATTTTTCTCTC
Found at i:15310685 original size:13 final size:13
Alignment explanation
Indices: 15310669--15310693 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15310659 TTTTTTCAAA
15310669 TTTTTATTTTTAT
1 TTTTTATTTTTAT
15310682 TTTTTATTTTTA
1 TTTTTATTTTTA
15310694 ACTATTTTTT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:15317653 original size:52 final size:52
Alignment explanation
Indices: 15317569--15317669 Score: 157
Period size: 52 Copynumber: 1.9 Consensus size: 52
15317559 TTACCCTAAT
15317569 CTTTTTTCTATAAGACCAGAACAAATAGTATCACAAAGACACACTTGGCCTC
1 CTTTTTTCTATAAGACCAGAACAAATAGTATCACAAAGACACACTTGGCCTC
*** * *
15317621 CTTTTTTCTATAAGACCAGAACTTGTATTATCACAAAGACACATTTGGC
1 CTTTTTTCTATAAGACCAGAACAAATAGTATCACAAAGACACACTTGGC
15317670 TTTATTGGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.31
Consensus pattern (52 bp):
CTTTTTTCTATAAGACCAGAACAAATAGTATCACAAAGACACACTTGGCCTC
Found at i:15321287 original size:2 final size:2
Alignment explanation
Indices: 15321282--15321347 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
15321272 TTAGAAAAAA
15321282 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
15321324 AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG
15321348 TGAGTGAGTG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15321599 original size:18 final size:18
Alignment explanation
Indices: 15321568--15321603 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15321558 TGCGCTATTA
15321568 TTATTAATAAAAGAAAAT
1 TTATTAATAAAAGAAAAT
* *
15321586 TTATTGATAGAAGAAAAT
1 TTATTAATAAAAGAAAAT
15321604 AAAATATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (18 bp):
TTATTAATAAAAGAAAAT
Found at i:15324021 original size:23 final size:23
Alignment explanation
Indices: 15323994--15324040 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
15323984 CAAATATCAC
15323994 AGCTTGAGTAAGCAAATTGAATT
1 AGCTTGAGTAAGCAAATTGAATT
15324017 AGCTTGAGTAAGCAAATTGAATT
1 AGCTTGAGTAAGCAAATTGAATT
15324040 A
1 A
15324041 TTCTTTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (23 bp):
AGCTTGAGTAAGCAAATTGAATT
Found at i:15328668 original size:29 final size:29
Alignment explanation
Indices: 15328635--15328691 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
15328625 TAATATTAAG
*
15328635 AGTTGACATTGAATTTTGAAATATAAAAA
1 AGTTGACATTAAATTTTGAAATATAAAAA
**
15328664 AGTTGAGTTTAAATTTTGAAATATAAAA
1 AGTTGACATTAAATTTTGAAATATAAAA
15328692 TATAAAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.47, C:0.02, G:0.14, T:0.37
Consensus pattern (29 bp):
AGTTGACATTAAATTTTGAAATATAAAAA
Found at i:15328683 original size:36 final size:36
Alignment explanation
Indices: 15328653--15328727 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
15328643 TTGAATTTTG
15328653 AAATATAAAAAAGTTGAGTTTAAATTTTGAAATATA
1 AAATATAAAAAAGTTGAGTTTAAATTTTGAAATATA
*
15328689 AAATATAAAAAAGTTGAGTTTGAATTTTGAAATATA
1 AAATATAAAAAAGTTGAGTTTAAATTTTGAAATATA
15328725 AAA
1 AAA
15328728 GGTAAAAGAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (36 bp):
AAATATAAAAAAGTTGAGTTTAAATTTTGAAATATA
Found at i:15328749 original size:36 final size:35
Alignment explanation
Indices: 15328657--15328749 Score: 80
Period size: 36 Copynumber: 2.6 Consensus size: 35
15328647 ATTTTGAAAT
** * *
15328657 ATAAAAAAGTTGAGTTTAAATTTTGAAATATAAAAT
1 ATAAAAAAGTAAAG-TTGAATTTTGAAATATAAAAG
**
15328693 ATAAAAAAGTTGAGTTTGAATTTTGAAATATAAAAG
1 ATAAAAAAGTAAAG-TTGAATTTTGAAATATAAAAG
*
15328729 GTAAAAGAGAGTAAAG-TGAAT
1 ATAAAA-A-AGTAAAGTTGAAT
15328750 GAAATAAAAG
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
36 44 0.88
37 1 0.02
38 5 0.10
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.31
Consensus pattern (35 bp):
ATAAAAAAGTAAAGTTGAATTTTGAAATATAAAAG
Found at i:15332590 original size:48 final size:48
Alignment explanation
Indices: 15332535--15332630 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
15332525 AAGATGAAAG
* * *
15332535 TAATGTTTCAGAGGAAGAAAAAGTGCAGCAGAAACTACAAGAAAAGCC
1 TAATGTTTCAAAGAAAGAAAAAGTGCAGCAGAAACAACAAGAAAAGCC
15332583 TAATGTTTCAAAGAAAGAAAAAGTGCAGCAGAAACAACAAGAAAAGCC
1 TAATGTTTCAAAGAAAGAAAAAGTGCAGCAGAAACAACAAGAAAAGCC
15332631 CTTGGCCTCT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.14
Consensus pattern (48 bp):
TAATGTTTCAAAGAAAGAAAAAGTGCAGCAGAAACAACAAGAAAAGCC
Found at i:15333500 original size:793 final size:796
Alignment explanation
Indices: 15331868--15334174 Score: 4043
Period size: 793 Copynumber: 2.9 Consensus size: 796
15331858 GCGTTGTGCT
15331868 ACTGTTGGAACTGCAGCTTGAAAAGATTCTGCTGTTGTTGTTCAGAGTATGTTTCTCTTCTTCTC
1 ACTGTTGGAACTGCAGCTTGAAAAGATTCTGCTGTTGTTGTTCAGAGTATGTTTCTCTT-TTCTC
15331933 CCTACATCTATGCTACTGTATCAAAAATTAGATATAAGTAGATCTTTGGGCAAGAAAGACTTTCT
65 CCTACATCTATGCTACTGTATCAAAAATTAGATATAAGTAGATCTTTGGGCAAGAAAGACTTTCT
*
15331998 TTTAAAAGATTGATGTCAATATTTGTGTCTGATCACATATTTGGAAATGAGTATAGAGAGGATAG
130 TTTAAAAGATTGATGTCAATATTTGTGTCTGATCACATATTTGGAAATGAGTATAGAGAGTATAG
15332063 AGGTATGAATATGATGCTCCAAGTAAATGAAAAAACTAAGAAGAATCGAGCATACTCAATCGCAT
195 AGGTATGAATATGATGCTCCAAGTAAATGAAAAAACTAAGAAGAATCGAGCATACTCAATCGCAT
*
15332128 CTCCATATCTGACACTCACTCATGTCCAATTAACATAGGCTGCACTTATGATGCATATATTTGGG
260 CTCCATATCTGACACTCACTCATGTCCAATTAACATAGGCTGCACTTATGATGCATATATTTGAG
* *
15332193 TTGTTGTATGCAGTTTTCTTCAGTGTAGACTTCTCTTTTCCCCCACCTTTATCAAATATTAGATA
325 TTGTTTTATGCAGTTTTCTTCAGTGTAGACTTCTCTTTTCCCCCACCTCTATCAAATATTA-ATA
15332258 TAGCATATCTTTGGGAAAGAAAAACTTTCTTTTAAAAGTTTGATATCCGGTATTTGTTTCCAATA
389 TAG-ATATCTTTGGGAAAGAAAAACTTTCTTTTAAAAGTTTGATATCCGGTATTTGTTTCCAATA
* * *
15332323 ATGCTCTAAATATATGAGAAAACTGACAAGAAATCAAGCATACTCAATCACATGTCCGTATCCAA
453 ATGCTCTAAATATATGATAAAACTGAGAAGAAATCAAGCATACTCGATCACATGTCCGTATCCAA
*
15332388 TACTCATATCCAAGTAACATGGGTTGCATATTATGCTTACGATGCTTATATTTGGGGTTTCATAT
518 TACTCATATCCAAGTAACATGGGCTGCATATTATGCTTACGATGCTTATATTTGGGGTTTCATAT
*
15332453 ACAATCTACAAGAAATTCTAGATCTTGTGGGAACTTTTCAGCTGAAGTTATATTGGTATCATTGC
583 ACAATCTACAAGAAATTCTAGATCTTGTGGGAACTTTTCAGCTTAAGTTATATTGGTATCATTGC
*
15332518 AGTTCAGAAGATGAAAGTAATGTTTCAGAGGAAGAAAAAGTGCAGCAGAAACTACAAGAAAAGCC
648 AGTTCGGAAGATGAAAGTAATGTTTCAGAGGAAGAAAAAGTGCAGCAGAAACTACAAGAAAAGCC
*
15332583 TAATGTTTCAAAGAAAGAAAAAGTGCAGCAGAAACAACAAGAAAAGCCCTTGGCCTCTGCATTGA
713 TAATGTTTCAAAGAAAG--AAAGTGAAGCAGAAACAACAAGAAAAGCCCTTGGCCTCTGCATTGA
15332648 AATCGAAATCAGCTTGCAGCA
776 AATCGAAATCAGCTTGCAGCA
15332669 ACTGTTGGAACTGCAGCTTGAAAAGATTCTGCTGTTGTTGTTCAGAGTATGTTTCTCTTTTCTCC
1 ACTGTTGGAACTGCAGCTTGAAAAGATTCTGCTGTTGTTGTTCAGAGTATGTTTCTCTTTTCTCC
* *
15332734 CTACATATATGCTACTGTATCAAAAATTAGATATAAGTAGATCTTTGGGCAAGAAAGACCTTCTT
66 CTACATCTATGCTACTGTATCAAAAATTAGATATAAGTAGATCTTTGGGCAAGAAAGACTTTCTT
* *
15332799 TTAAAAGGTTGATGTCAATATTTGTGTCTGATCACATATTTGGAAATGAGTATAGTGAGTATAGA
131 TTAAAAGATTGATGTCAATATTTGTGTCTGATCACATATTTGGAAATGAGTATAGAGAGTATAGA
* * * *
15332864 GGTATGAATATGATGCTCCAAGTAAATGAAAGAACTAAGAAGAATCGAGCATGCTCAATCGAATT
196 GGTATGAATATGATGCTCCAAGTAAATGAAAAAACTAAGAAGAATCGAGCATACTCAATCGCATC
* *
15332929 TCCATATTTGACACCCACTCATGTCCAATTAACATAGGCTGCACTTATGATGCATATATTTGAGT
261 TCCATATCTGACACTCACTCATGTCCAATTAACATAGGCTGCACTTATGATGCATATATTTGAGT
15332994 TGTTTTATGCAGTTTTCTTCAGTGTAGACTTCTCTTTTCCCCCACCTCTATC-AA-A-T-AT-TA
326 TGTTTTATGCAGTTTTCTTCAGTGTAGACTTCTCTTTTCCCCCACCTCTATCAAATATTAATATA
15333054 GATATCTTTGGGAAAGAAAAACTTTCTTTTAAAAGTTTGATATCCGGTATTTGTTTCCAATAATG
391 GATATCTTTGGGAAAGAAAAACTTTCTTTTAAAAGTTTGATATCCGGTATTTGTTTCCAATAATG
*
15333119 CTCTAAATATATGATAAAACTGAGAAGAAATCAAGCATACTCGATCACATGTCCGTATCCAATGC
456 CTCTAAATATATGATAAAACTGAGAAGAAATCAAGCATACTCGATCACATGTCCGTATCCAATAC
*
15333184 TCATATCCAAGTAACATGGGCTGCATATTATGCTTACGATGCTTATAGTTGGGGTTTCATATACA
521 TCATATCCAAGTAACATGGGCTGCATATTATGCTTACGATGCTTATATTTGGGGTTTCATATACA
* *
15333249 ATCTACAAGAAATTCTAGAACTTGTGGGAACTTTTCAGCTTAAGTTATATCGGTATCATTGCAGT
586 ATCTACAAGAAATTCTAGATCTTGTGGGAACTTTTCAGCTTAAGTTATATTGGTATCATTGCAGT
* *
15333314 TCGGAAGATGAAAGTAACGTTTCAGAGGAAGAAAAAGTGCAGGAGAAACTACAAGAAAAGCCTAA
651 TCGGAAGATGAAAGTAATGTTTCAGAGGAAGAAAAAGTGCAGCAGAAACTACAAGAAAAGCCTAA
*
15333379 TGTTTCAAAGAAAG-AAGTGAAGCAGAAACAAGAAGAAAAGCCCTTGGCCTCTGCATTGAAATCG
716 TGTTTCAAAGAAAGAAAGTGAAGCAGAAACAACAAGAAAAGCCCTTGGCCTCTGCATTGAAATCG
15333443 AAATCAGCTTGCAGCA
781 AAATCAGCTTGCAGCA
*
15333459 ACTGTTGCAACTGCAGCTTGAAAAGATTCTGCTGTTGTTGTTCAGAGTATGTTTCTCTTTTTCTC
1 ACTGTTGGAACTGCAGCTTGAAAAGATTCTGCTGTTGTTGTTCAGAGTATGTTTCTC-TTTTCTC
*
15333524 CCTACATCTATGTTACTGTATCAAAAATTAGATATAAGTAGATCTTTGGGCAAGAAAGACTTTCT
65 CCTACATCTATGCTACTGTATCAAAAATTAGATATAAGTAGATCTTTGGGCAAGAAAGACTTTCT
* *
15333589 TCTAAAATATTGATGTCAATATTTGTGTCTGATCACATATTTGGAAATGAGTATAGAGAGTATAG
130 TTTAAAAGATTGATGTCAATATTTGTGTCTGATCACATATTTGGAAATGAGTATAGAGAGTATAG
* * *
15333654 AGGTATGAATATGATGCTCCAAGTAAATGAAAAAACTAAGAAGATTTGAGCATACTCAATTGCAT
195 AGGTATGAATATGATGCTCCAAGTAAATGAAAAAACTAAGAAGAATCGAGCATACTCAATCGCAT
15333719 CTCCATATCTGACACTCACTCATGTCCAATTAACATAGGCTGCACTTATGATGCATATATTTGAG
260 CTCCATATCTGACACTCACTCATGTCCAATTAACATAGGCTGCACTTATGATGCATATATTTGAG
* **
15333784 TTGTTTTATGCAGTGTTCTTCAGTGTAGACTAATCTTTTCCCCCACCTCTATCAAATATTAGATA
325 TTGTTTTATGCAGTTTTCTTCAGTGTAGACTTCTCTTTTCCCCCACCTCTATCAAATATTA-ATA
*
15333849 TAGGATATCTTTGGGAAAGAAAAACTTTCTTTTAAGAGTTTGATATCCGGTATTTGTTTCCAATA
389 TA-GATATCTTTGGGAAAGAAAAACTTTCTTTTAAAAGTTTGATATCCGGTATTTGTTTCCAATA
* *
15333914 ATGCTCTAAATATATGATAAAGCTGAGAAGAAATCAAGCATACT-GAATAACATGTCCGTATCCA
453 ATGCTCTAAATATATGATAAAACTGAGAAGAAATCAAGCATACTCG-ATCACATGTCCGTATCCA
* * *
15333978 ATACTCACATCCAAGTAACATGGGCTCCATATTACGCTTACGATGCTTATATTTGGGGTTTCATA
517 ATACTCATATCCAAGTAACATGGGCTGCATATTATGCTTACGATGCTTATATTTGGGGTTTCATA
* * *
15334043 AACAATCTACAAGAAATTCGAGATCTTGTGGTAACTTTTCAGCTTTAAGTTATATTGGTATCATT
582 TACAATCTACAAGAAATTCTAGATCTTGTGGGAACTTTTCAGC-TTAAGTTATATTGGTATCATT
*
15334108 GCAGTTCGGAAGATGAAAGTAATGTTTCAGAGGAAGAAAAAGTGCAGCAGAAACAACAAGAAAAG
646 GCAGTTCGGAAGATGAAAGTAATGTTTCAGAGGAAGAAAAAGTGCAGCAGAAACTACAAGAAAAG
15334173 CC
711 CC
15334175 CCTGGCCTCT
Statistics
Matches: 1432, Mismatches: 64, Indels: 22
0.94 0.04 0.01
Matches are distributed among these distances:
790 120 0.08
791 301 0.21
792 2 0.00
793 327 0.23
794 4 0.00
795 2 0.00
796 2 0.00
797 4 0.00
798 221 0.15
799 86 0.06
800 304 0.21
801 59 0.04
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (796 bp):
ACTGTTGGAACTGCAGCTTGAAAAGATTCTGCTGTTGTTGTTCAGAGTATGTTTCTCTTTTCTCC
CTACATCTATGCTACTGTATCAAAAATTAGATATAAGTAGATCTTTGGGCAAGAAAGACTTTCTT
TTAAAAGATTGATGTCAATATTTGTGTCTGATCACATATTTGGAAATGAGTATAGAGAGTATAGA
GGTATGAATATGATGCTCCAAGTAAATGAAAAAACTAAGAAGAATCGAGCATACTCAATCGCATC
TCCATATCTGACACTCACTCATGTCCAATTAACATAGGCTGCACTTATGATGCATATATTTGAGT
TGTTTTATGCAGTTTTCTTCAGTGTAGACTTCTCTTTTCCCCCACCTCTATCAAATATTAATATA
GATATCTTTGGGAAAGAAAAACTTTCTTTTAAAAGTTTGATATCCGGTATTTGTTTCCAATAATG
CTCTAAATATATGATAAAACTGAGAAGAAATCAAGCATACTCGATCACATGTCCGTATCCAATAC
TCATATCCAAGTAACATGGGCTGCATATTATGCTTACGATGCTTATATTTGGGGTTTCATATACA
ATCTACAAGAAATTCTAGATCTTGTGGGAACTTTTCAGCTTAAGTTATATTGGTATCATTGCAGT
TCGGAAGATGAAAGTAATGTTTCAGAGGAAGAAAAAGTGCAGCAGAAACTACAAGAAAAGCCTAA
TGTTTCAAAGAAAGAAAGTGAAGCAGAAACAACAAGAAAAGCCCTTGGCCTCTGCATTGAAATCG
AAATCAGCTTGCAGCA
Found at i:15336060 original size:22 final size:22
Alignment explanation
Indices: 15336035--15336093 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
15336025 AGGTTAAAAT
* *
15336035 TAAATTATAATTTTTATAATAG
1 TAAATTATAATTTTTAAAAGAG
* *
15336057 TAAAAATATAATTTTTAAAAGAT
1 T-AAATTATAATTTTTAAAAGAG
15336080 TAAATTATAATTTT
1 TAAATTATAATTTT
15336094 AATATTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 13 0.42
23 18 0.58
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (22 bp):
TAAATTATAATTTTTAAAAGAG
Found at i:15336101 original size:30 final size:30
Alignment explanation
Indices: 15336067--15336124 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
15336057 TAAAAATATA
*
15336067 ATTTTT-AAAAGATTAAATTATAATTTTAAT
1 ATTTTTAAAAAG-TTAAAGTATAATTTTAAT
15336097 ATTTTTAAAAAGTTAAAGTATAATTTTA
1 ATTTTTAAAAAGTTAAAGTATAATTTTA
15336125 TTTTTACTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (30 bp):
ATTTTTAAAAAGTTAAAGTATAATTTTAAT
Found at i:15337451 original size:27 final size:27
Alignment explanation
Indices: 15337413--15337465 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
15337403 TTGACGTGGC
* *
15337413 AGTCGCGCCTACTTGTCAGGCGCGACT
1 AGTCGCGCCTACCTGACAGGCGCGACT
* *
15337440 AGTCGTGCCTACCTGACAGGCTCGAC
1 AGTCGCGCCTACCTGACAGGCGCGAC
15337466 CCGTTCGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.17, C:0.34, G:0.28, T:0.21
Consensus pattern (27 bp):
AGTCGCGCCTACCTGACAGGCGCGACT
Found at i:15338573 original size:15 final size:15
Alignment explanation
Indices: 15338553--15338583 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15338543 ATATTTTAAT
15338553 TATTTTTTATAAAAA
1 TATTTTTTATAAAAA
*
15338568 TATTTTTTTTAAAAA
1 TATTTTTTATAAAAA
15338583 T
1 T
15338584 TTCATTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTTTTTATAAAAA
Found at i:15339039 original size:29 final size:29
Alignment explanation
Indices: 15338995--15339064 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
15338985 AAGATATGAC
*
15338995 TTAAATAATCAATTTTGAATAATTAAGTGA
1 TTAAATTAT-AATTTTGAATAATTAAGTGA
** **
15339025 TTAAATTATAATTTTTTATAATTTTGTGA
1 TTAAATTATAATTTTGAATAATTAAGTGA
*
15339054 TTAAAATATAA
1 TTAAATTATAA
15339065 ATTTATTGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 26 0.76
30 8 0.24
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.47
Consensus pattern (29 bp):
TTAAATTATAATTTTGAATAATTAAGTGA
Found at i:15345172 original size:21 final size:21
Alignment explanation
Indices: 15345148--15345191 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
15345138 CTCTCTCGAA
15345148 CTCCT-TT-GCTTCTCACTTCTT
1 CTCCTCTTGGCTTC-CA-TTCTT
15345169 CTCCTCTTGGCTTCCATTCTT
1 CTCCTCTTGGCTTCCATTCTT
15345190 CT
1 CT
15345192 TAGACTTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 12 0.57
22 4 0.19
23 5 0.24
ACGTcount: A:0.05, C:0.39, G:0.07, T:0.50
Consensus pattern (21 bp):
CTCCTCTTGGCTTCCATTCTT
Found at i:15346696 original size:16 final size:15
Alignment explanation
Indices: 15346661--15346704 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
15346651 TAATTGAATT
*
15346661 ATTTTAAATTTTATAC
1 ATTTTAAATTTTA-AA
*
15346677 TTTTTAAATTTTAAA
1 ATTTTAAATTTTAAA
15346692 ATTTT-AATTTTAA
1 ATTTTAAATTTTAA
15346705 TGTAAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 8 0.32
15 5 0.20
16 12 0.48
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTTAAATTTTAAA
Found at i:15347667 original size:19 final size:19
Alignment explanation
Indices: 15347618--15347682 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 19
15347608 CATGTCAACA
*
15347618 TTTAATTATTTTTAAAATT
1 TTTAAATATTTTTAAAATT
**
15347637 TAAAAATAATTTTTAAAATT
1 TTTAAAT-ATTTTTAAAATT
*
15347657 TTTAAATA-TTTTAATGATT
1 TTTAAATATTTTTAA-AATT
15347676 TTTAAAT
1 TTTAAAT
15347683 TTTAAAATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
18 6 0.16
19 15 0.39
20 17 0.45
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTAAATATTTTTAAAATT
Found at i:15350179 original size:11 final size:11
Alignment explanation
Indices: 15350163--15350228 Score: 69
Period size: 11 Copynumber: 5.7 Consensus size: 11
15350153 AGTGTGTTAT
15350163 AATTTAATATA
1 AATTTAATATA
15350174 AATTTAATATA
1 AATTTAATATA
*
15350185 AATTTAATGTA
1 AATTTAATATA
**
15350196 AATTCTCGTATTA
1 AATT-TAATA-TA
15350209 TAATTTAATATA
1 -AATTTAATATA
*
15350221 AATCTAAT
1 AATTTAAT
15350229 GCAAATTTTC
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
11 32 0.71
12 4 0.09
13 5 0.11
14 4 0.09
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (11 bp):
AATTTAATATA
Found at i:15356343 original size:15 final size:15
Alignment explanation
Indices: 15356322--15356374 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 15
15356312 ACAAACATGT
15356322 TAAAATTTATATAATA
1 TAAAA-TTATATAATA
15356338 -AAAATTAT-TAATA
1 TAAAATTATATAATA
15356351 TAACAAGTTATATAAATA
1 TAA-AA-TTATAT-AATA
15356369 TAAAAT
1 TAAAAT
15356375 GTTTTAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
13 5 0.16
14 6 0.19
15 6 0.19
16 5 0.16
17 3 0.09
18 7 0.22
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
TAAAATTATATAATA
Found at i:15356841 original size:18 final size:18
Alignment explanation
Indices: 15356818--15356853 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
15356808 TCCTCCACAC
15356818 ATTTAATCGTTACATTAG
1 ATTTAATCGTTACATTAG
*
15356836 ATTTAATTGTTACATTAG
1 ATTTAATCGTTACATTAG
15356854 CTTGTTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.47
Consensus pattern (18 bp):
ATTTAATCGTTACATTAG
Found at i:15359797 original size:22 final size:22
Alignment explanation
Indices: 15359765--15359833 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
15359755 TATGCACTAT
*
15359765 TAAACAAAGAGCACTAAAGTGC
1 TAAACAGAGAGCACTAAAGTGC
* **
15359787 TATACAGAGAGCAC-AAATGTAA
1 TAAACAGAGAGCACTAAA-GTGC
* *
15359809 TAAACGGAGAGCACTAATGTGC
1 TAAACAGAGAGCACTAAAGTGC
15359831 TAA
1 TAA
15359834 TAATCGGAGA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
21 3 0.08
22 31 0.86
23 2 0.06
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.17
Consensus pattern (22 bp):
TAAACAGAGAGCACTAAAGTGC
Found at i:15367868 original size:19 final size:19
Alignment explanation
Indices: 15367841--15367877 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15367831 TCCCTAATTC
*
15367841 GGAAGTCAACCAACCACTT
1 GGAAATCAACCAACCACTT
*
15367860 GGAAATCAACCAATCACT
1 GGAAATCAACCAACCACT
15367878 CTTTGTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.30, G:0.14, T:0.16
Consensus pattern (19 bp):
GGAAATCAACCAACCACTT
Found at i:15370119 original size:14 final size:14
Alignment explanation
Indices: 15370097--15370130 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
15370087 TATGTTTAAA
15370097 TTTAAATTTTAATC
1 TTTAAATTTTAATC
* *
15370111 TTTATATTTTAATT
1 TTTAAATTTTAATC
15370125 TTTAAA
1 TTTAAA
15370131 ATGTAATTAA
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:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTAAATTTTAATC
Found at i:15380251 original size:40 final size:40
Alignment explanation
Indices: 15380205--15380321 Score: 114
Period size: 40 Copynumber: 2.9 Consensus size: 40
15380195 AAAAAGCGCC
15380205 GCTATAGATCGAGAGTTAGAGGCGCTTTTTGAAAAACA-CA
1 GCTATAGATCGAGA-TTAGAGGCGCTTTTTGAAAAACAGCA
* * * *
15380245 GTTATAGATCAAGAATTA-ATGGCGCTTTTT-AAAAAAAGCC
1 GCTATAGATCGAG-ATTAGA-GGCGCTTTTTGAAAAACAGCA
* * *
15380285 GCTATAGGTCGATCATTAGCGGCGCTTTTTGAAAAAC
1 GCTATAGATCGA-GATTAGAGGCGCTTTTTGAAAAAC
15380322 GCCGTAAAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
39 7 0.11
40 48 0.79
41 6 0.10
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.28
Consensus pattern (40 bp):
GCTATAGATCGAGATTAGAGGCGCTTTTTGAAAAACAGCA
Found at i:15380482 original size:112 final size:114
Alignment explanation
Indices: 15380298--15380560 Score: 325
Period size: 112 Copynumber: 2.3 Consensus size: 114
15380288 ATAGGTCGAT
*
15380298 CATTAGCGGCGCTTTTTGAAAAACGCCGTAAAAAAATTAAGCACAACGCCGTCGTTTTATGTTGA
1 CATTAGCAGCGCTTTTTGAAAAACGCCG-AAAAAAATTAAGCACAACGCCGTCGTTTTATGTTGA
* * *** * *
15380363 GCTTTAGTGGCATTAGTGGCGATTTTTGAAAATTGCCGTTATAGATCTAG
65 GCTTTAGTGGCATTAGCGACGATTTTTGAAAAACACCATTATAGATCAAG
* * * *
15380413 CATTAGC-GCGCTTTTTGAAAAACGCCGGAAAAAATTTAGTA-AGACG-CGTCGTTTTATGTTGG
1 CATTAGCAGCGCTTTTTGAAAAACGCCGAAAAAAATTAAGCACA-ACGCCGTCGTTTTATGTTGA
*
15380475 GCTTTAGTGGCATTAGCGACGCTTTTTGAAAAACACCATTATAGATCAAG
65 GCTTTAGTGGCATTAGCGACGATTTTTGAAAAACACCATTATAGATCAAG
* * * * *
15380525 CTTTAGCAGCACTTTGTCAAAAACGCCGCAAAAAAT
1 CATTAGCAGCGCTTTTTGAAAAACGCCGAAAAAAAT
15380561 ATTTTATCTG
Statistics
Matches: 129, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
112 64 0.50
113 38 0.29
114 20 0.16
115 7 0.05
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (114 bp):
CATTAGCAGCGCTTTTTGAAAAACGCCGAAAAAAATTAAGCACAACGCCGTCGTTTTATGTTGAG
CTTTAGTGGCATTAGCGACGATTTTTGAAAAACACCATTATAGATCAAG
Found at i:15380914 original size:21 final size:21
Alignment explanation
Indices: 15380885--15380933 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
15380875 GAGTTACTAT
*
15380885 TTTAAGGTTTATGGATTGTGG
1 TTTAAGGTTTATGGATTATGG
* *
15380906 TTTATGGTTTATGGTTTATGG
1 TTTAAGGTTTATGGATTATGG
15380927 TTTAAGG
1 TTTAAGG
15380934 GTTGGGGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (21 bp):
TTTAAGGTTTATGGATTATGG
Found at i:15380942 original size:21 final size:21
Alignment explanation
Indices: 15380918--15380968 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
15380908 TATGGTTTAT
*
15380918 GGTTTATGGTTTAAGGGTTGG
1 GGTTTAAGGTTTAAGGGTTGG
*
15380939 GGTTTAAGGTTTAAGGGTTAG
1 GGTTTAAGGTTTAAGGGTTGG
*
15380960 GGCTTAAGG
1 GGTTTAAGG
15380969 GTTAGGTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.20, C:0.02, G:0.41, T:0.37
Consensus pattern (21 bp):
GGTTTAAGGTTTAAGGGTTGG
Found at i:15382095 original size:115 final size:113
Alignment explanation
Indices: 15381902--15382219 Score: 377
Period size: 115 Copynumber: 2.8 Consensus size: 113
15381892 TAAAAACGGC
* * * * ** * *
15381902 GCCGTTCTATTGGATTTCTTAGTGGCGCTTTTGGCGAAACGCCGCAATATGTCAGGCTTTCGCGG
1 GCCGTTTTATTAGATTTTTTAGTGGCG-TTTTTGTTAAACGCCGCAATATGTCGGGCTTTAGCGG
*
15381967 CGCTAGTGAAAAAACACCGCAAAAAGTTATTCTGCTTTAATCAAAACAAT
65 CGCTAGTG-AAAAACGCCGCAAAAAGTTATTCTGCTTTAATCAAAACAAT
* *
15382017 GCCGTTTTATTTGATTTTTTAGTGGCGTTTTTGTTAAAACGCCGCAATAGGTCGGGCTTTAGCGG
1 GCCGTTTTATTAGATTTTTTAGTGGCGTTTTTGTT-AAACGCCGCAATATGTCGGGCTTTAGCGG
* * * * *
15382082 CGCTAGGTGAAAAATGCCGCAAAATGTTATTTTGTTTTAATCAAAACAGT
65 CGCTA-GTGAAAAACGCCGCAAAAAGTTATTCTGCTTTAATCAAAACAAT
* * * *
15382132 GCCTTTTTA-TAGGTTTTTTAGTGGCGTTTTTTGGTTAAACGCCGCAATATGTAGGGATTTAGCG
1 GCCGTTTTATTAGATTTTTTAGTGGCG-TTTTT-GTTAAACGCCGCAATATGTCGGGCTTTAGCG
*
15382196 GCGCTAGTGGATAAACGCCGCAAA
64 GCGCTAGT-GAAAAACGCCGCAAA
15382220 GGTTGATTTC
Statistics
Matches: 175, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
114 22 0.13
115 147 0.84
116 6 0.03
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (113 bp):
GCCGTTTTATTAGATTTTTTAGTGGCGTTTTTGTTAAACGCCGCAATATGTCGGGCTTTAGCGGC
GCTAGTGAAAAACGCCGCAAAAAGTTATTCTGCTTTAATCAAAACAAT
Found at i:15383023 original size:12 final size:12
Alignment explanation
Indices: 15383006--15383030 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15382996 TGGGTTTATT
15383006 ATATAAAAATTA
1 ATATAAAAATTA
15383018 ATATAAAAATTA
1 ATATAAAAATTA
15383030 A
1 A
15383031 GCCTTATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATATAAAAATTA
Found at i:15385691 original size:43 final size:43
Alignment explanation
Indices: 15385537--15385812 Score: 321
Period size: 42 Copynumber: 6.5 Consensus size: 43
15385527 AAAATATTTT
* *
15385537 TTAAAGGTCATGTTCTTTAGTGGCGTTTGTGAGAAAAGCGCCG
1 TTAAAGGTCATGTTCTATAGCGGCGTTTGTGAGAAAAGCGCCG
* * * *
15385580 TTAAAGGTC-TATTCTATAGTGCCGTTTGT-AGCAAAAGCGCCA
1 TTAAAGGTCATGTTCTATAGCGGCGTTTGTGAG-AAAAGCGCCG
* *
15385622 CTAAAGGT-ATGTTCTATAGCGGCGTTTGTGAGAAAAGCGCTG
1 TTAAAGGTCATGTTCTATAGCGGCGTTTGTGAGAAAAGCGCCG
* *
15385664 TTAAAGGTCATGTTCTTTAGCGGCGTTTGT-AGGAAAAGCGCCA
1 TTAAAGGTCATGTTCTATAGCGGCGTTTGTGA-GAAAAGCGCCG
* * * *
15385707 TTAAAAGTCATGTTCTTTAGCGGCATTTGTG-GTAAAGCGCCG
1 TTAAAGGTCATGTTCTATAGCGGCGTTTGTGAGAAAAGCGCCG
* * *
15385749 CTAAAGGTCATGTTCTATAGTGGCGTTTGTG-GAAAAAGTGCCG
1 TTAAAGGTCATGTTCTATAGCGGCGTTTGTGAG-AAAAGCGCCG
*
15385792 CTAAAGGTCATGTTCTATAGC
1 TTAAAGGTCATGTTCTATAGC
15385813 TGTATTTTCT
Statistics
Matches: 200, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
41 2 0.01
42 102 0.51
43 96 0.48
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (43 bp):
TTAAAGGTCATGTTCTATAGCGGCGTTTGTGAGAAAAGCGCCG
Found at i:15385745 original size:85 final size:86
Alignment explanation
Indices: 15385538--15385812 Score: 369
Period size: 85 Copynumber: 3.2 Consensus size: 86
15385528 AAATATTTTT
* * * *
15385538 TAAAGGTCATGTTCTTTAGTGGCGTTTGTGAGAAAAGCGCCGTTAAAGGTC-TATTCTATAGTGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGAGAAAAGCGCCGTTAAAGGTCATGTTCTATAGTGG
*
15385602 CGTTTGTAGCAAAAGCGCCAC
66 CGTTTGTAGGAAAAGCGCCAC
* * *
15385623 TAAAGGT-ATGTTCTATAGCGGCGTTTGTGAGAAAAGCGCTGTTAAAGGTCATGTTCTTTAGCGG
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGAGAAAAGCGCCGTTAAAGGTCATGTTCTATAGTGG
*
15385687 CGTTTGTAGGAAAAGCGCCAT
66 CGTTTGTAGGAAAAGCGCCAC
* * * * *
15385708 TAAAAGTCATGTTCTTTAGCGGCATTTGTG-GTAAAGCGCCGCTAAAGGTCATGTTCTATAGTGG
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGAGAAAAGCGCCGTTAAAGGTCATGTTCTATAGTGG
* *
15385772 CGTTTGT-GGAAAAAGTGCCGC
66 CGTTTGTAGG-AAAAGCGCCAC
15385793 TAAAGGTCATGTTCTATAGC
1 TAAAGGTCATGTTCTATAGC
15385813 TGTATTTTCT
Statistics
Matches: 165, Mismatches: 22, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
84 42 0.25
85 103 0.62
86 20 0.12
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (86 bp):
TAAAGGTCATGTTCTATAGCGGCGTTTGTGAGAAAAGCGCCGTTAAAGGTCATGTTCTATAGTGG
CGTTTGTAGGAAAAGCGCCAC
Found at i:15387322 original size:18 final size:18
Alignment explanation
Indices: 15387299--15387335 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
15387289 AAAGTGGAAT
*
15387299 AGCCAAGGAATTATTCTA
1 AGCCAAGGAATTATGCTA
15387317 AGCCAAGGAATTATGCTA
1 AGCCAAGGAATTATGCTA
15387335 A
1 A
15387336 CCTTCCAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (18 bp):
AGCCAAGGAATTATGCTA
Found at i:15391161 original size:19 final size:19
Alignment explanation
Indices: 15391137--15391173 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
15391127 ACACAATTTA
15391137 TTCATTTTGGTAATTTTCG
1 TTCATTTTGGTAATTTTCG
*
15391156 TTCATTTTGGTCATTTTC
1 TTCATTTTGGTAATTTTC
15391174 ATTAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.59
Consensus pattern (19 bp):
TTCATTTTGGTAATTTTCG
Found at i:15393695 original size:40 final size:41
Alignment explanation
Indices: 15393651--15393737 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
15393641 TACATTATCA
* *
15393651 GCGTTTGC-GATAAAATGCCTCAAAAAACTGAGCAATAGCG
1 GCGTTTGCGGATAAAACGCCGCAAAAAACTGAGCAATAGCG
* * * *
15393691 GCGTTTTCGGTTCAAACGCCGCTAAAAACTGAGCAATAGCG
1 GCGTTTGCGGATAAAACGCCGCAAAAAACTGAGCAATAGCG
15393732 GCGTTT
1 GCGTTT
15393738 TTTGTCCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 7 0.17
41 33 0.82
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (41 bp):
GCGTTTGCGGATAAAACGCCGCAAAAAACTGAGCAATAGCG
Found at i:15393719 original size:41 final size:41
Alignment explanation
Indices: 15393673--15393780 Score: 153
Period size: 41 Copynumber: 2.6 Consensus size: 41
15393663 AAATGCCTCA
*
15393673 AAAAACTGAGCAATAGCGGCGTTTTCGGTTCAAACGCCGCT
1 AAAAACTGAGCAATAGCGGCGTTTTCGGTCCAAACGCCGCT
** *
15393714 AAAAACTGAGCAATAGCGGCGTTTTTTGTCCAAACGCCGTT
1 AAAAACTGAGCAATAGCGGCGTTTTCGGTCCAAACGCCGCT
* *
15393755 AACAACTGAACAATAGCGGCGCTTTT
1 AAAAACTGAGCAATAGCGGCG-TTTT
15393781 GGAAAAACGC
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 56 0.93
42 4 0.07
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (41 bp):
AAAAACTGAGCAATAGCGGCGTTTTCGGTCCAAACGCCGCT
Found at i:15393792 original size:40 final size:39
Alignment explanation
Indices: 15393673--15393795 Score: 138
Period size: 41 Copynumber: 3.0 Consensus size: 39
15393663 AAATGCCTCA
*
15393673 AAAAACTGAGCAATAGCGGCGTTTTCGGTTCAAACGCCGCT
1 AAAAACTGAGCAATAGCGGCGTTTT-GG-ACAAACGCCGCT
** *
15393714 AAAAACTGAGCAATAGCGGCGTTTTTTGTCCAAACGCCGTT
1 AAAAACTGAGCAATAGCGGCG--TTTTGGACAAACGCCGCT
* * *
15393755 AACAACTGAACAATAGCGGCGCTTTTGGAAAAACGCCGCT
1 AAAAACTGAGCAATAGCGGCG-TTTTGGACAAACGCCGCT
15393795 A
1 A
15393796 TAGATCGAGG
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
40 15 0.21
41 50 0.71
42 1 0.01
43 4 0.06
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.22
Consensus pattern (39 bp):
AAAAACTGAGCAATAGCGGCGTTTTGGACAAACGCCGCT
Found at i:15393842 original size:42 final size:41
Alignment explanation
Indices: 15393768--15393909 Score: 206
Period size: 42 Copynumber: 3.6 Consensus size: 41
15393758 AACTGAACAA
*
15393768 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCACTATAGATCGAGGTTT
*
15393809 TAGCGGCGCTTTTGAAAAAAACGCCACTATAGATCGAGGTTT
1 TAGCGGCGCTTTTG-GAAAAACGCCACTATAGATCGAGGTTT
*
15393851 TAGCGGCACTTTT-G-----CGCCACTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCACTATAGATCGAGGTTT
15393886 TAGCGGCGCTTTTGGAAAAACGCC
1 TAGCGGCGCTTTTGGAAAAACGCC
15393910 GCAAAAAACA
Statistics
Matches: 89, Mismatches: 5, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
35 33 0.37
36 1 0.01
41 18 0.20
42 37 0.42
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGAAAAACGCCACTATAGATCGAGGTTT
Found at i:15393876 original size:35 final size:35
Alignment explanation
Indices: 15393830--15393899 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
15393820 TTGAAAAAAA
15393830 CGCCACTATAGATCGAGGTTTTAGCGGCACTTTTG
1 CGCCACTATAGATCGAGGTTTTAGCGGCACTTTTG
*
15393865 CGCCACTATAGATCGAGGTTTTAGCGGCGCTTTTG
1 CGCCACTATAGATCGAGGTTTTAGCGGCACTTTTG
15393900 GAAAAACGCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.31
Consensus pattern (35 bp):
CGCCACTATAGATCGAGGTTTTAGCGGCACTTTTG
Found at i:15393944 original size:20 final size:20
Alignment explanation
Indices: 15393919--15393958 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
15393909 CGCAAAAAAC
15393919 ATTTAATCT-GTCTATTTATA
1 ATTTAA-CTGGTCTATTTATA
*
15393939 ATTTAACTGGTTTATTTATA
1 ATTTAACTGGTCTATTTATA
15393959 TTAAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (20 bp):
ATTTAACTGGTCTATTTATA
Found at i:15394208 original size:7 final size:7
Alignment explanation
Indices: 15394103--15394210 Score: 65
Period size: 7 Copynumber: 15.1 Consensus size: 7
15394093 TATGTATTAT
15394103 GGGTTTA
1 GGGTTTA
*
15394110 GGGGTTA
1 GGGTTTA
*
15394117 TGGTTTAA
1 GGGTTT-A
*
15394125 GGG-TTG
1 GGGTTTA
15394131 GGGTTTAA
1 GGGTTT-A
*
15394139 GGGTTAA
1 GGGTTTA
15394146 GGGTTTA
1 GGGTTTA
* *
15394153 TGTTTTA
1 GGGTTTA
*
15394160 GGATTTA
1 GGGTTTA
*
15394167 AGGTTTA
1 GGGTTTA
**
15394174 TAGTTTA
1 GGGTTTA
* *
15394181 GGGATCA
1 GGGTTTA
*
15394188 GGGATTA
1 GGGTTTA
15394195 GGAGTTTA
1 GG-GTTTA
15394203 GGGTTTA
1 GGGTTTA
15394210 G
1 G
15394211 ATTAATTAAT
Statistics
Matches: 75, Mismatches: 22, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
6 3 0.04
7 58 0.77
8 14 0.19
ACGTcount: A:0.21, C:0.01, G:0.38, T:0.40
Consensus pattern (7 bp):
GGGTTTA
Found at i:15394415 original size:14 final size:15
Alignment explanation
Indices: 15394390--15394427 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
15394380 TTTATGATGA
15394390 ATTATGGGTTTAGGG
1 ATTATGGGTTTAGGG
15394405 ATTAT-GGTTTAGGG
1 ATTATGGGTTTAGGG
*
15394419 TTTA-GGGTT
1 ATTATGGGTT
15394428 GGAATTTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.18, C:0.00, G:0.37, T:0.45
Consensus pattern (15 bp):
ATTATGGGTTTAGGG
Found at i:15394422 original size:7 final size:7
Alignment explanation
Indices: 15394395--15394508 Score: 61
Period size: 7 Copynumber: 16.1 Consensus size: 7
15394385 GATGAATTAT
15394395 GGGTTTA
1 GGGTTTA
*
15394402 GGGATTA
1 GGGTTTA
*
15394409 TGGTTTA
1 GGGTTTA
15394416 GGGTTTA
1 GGGTTTA
15394423 GGG-TT-
1 GGGTTTA
*
15394428 GGAATTTA
1 GG-GTTTA
* *
15394436 AGGTGTA
1 GGGTTTA
*
15394443 GGGGTTA
1 GGGTTTA
*
15394450 GGGGTTAA
1 -GGGTTTA
15394458 GGGTTTA
1 GGGTTTA
*
15394465 GAGTTTA
1 GGGTTTA
*
15394472 GTGTTTA
1 GGGTTTA
* * *
15394479 TAGGATAA
1 -GGGTTTA
*
15394487 GGGTTAA
1 GGGTTTA
*
15394494 AGGTTTA
1 GGGTTTA
15394501 GGGTTTA
1 GGGTTTA
15394508 G
1 G
15394509 ATTAATTAGT
Statistics
Matches: 77, Mismatches: 25, Indels: 10
0.69 0.22 0.09
Matches are distributed among these distances:
5 2 0.03
6 2 0.03
7 64 0.83
8 9 0.12
ACGTcount: A:0.23, C:0.00, G:0.39, T:0.38
Consensus pattern (7 bp):
GGGTTTA
Found at i:15395356 original size:17 final size:16
Alignment explanation
Indices: 15395316--15395356 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
15395306 TTATATATTA
15395316 AATAATTTCAAATTTT
1 AATAATTTCAAATTTT
15395332 AA-AGATTTCAAATTTTT
1 AATA-ATTTCAAA-TTTT
15395349 AATAATTT
1 AATAATTT
15395357 TCAAGATTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.05
16 10 0.45
17 10 0.45
18 1 0.05
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (16 bp):
AATAATTTCAAATTTT
Found at i:15397699 original size:93 final size:93
Alignment explanation
Indices: 15397514--15397685 Score: 222
Period size: 93 Copynumber: 1.8 Consensus size: 93
15397504 TCATATGTAA
* *
15397514 CAATGGTGCCTGATAAGCAGAAGAAGGCTCAAAACTAGCATTAGGCCTAGAACCAACATTCTCAC
1 CAATGGTGCCTGATAAGCAGAAGAAGGCTCAAAACTAGCATTAAGCCTAGAACCAACAGTCTCAC
15397579 CAAACATAGGAGAGCTACGTGACACATG
66 CAAACATAGGAGAGCTACGTGACACATG
* * * ** * *
15397607 CAATGGTGCTTGAGT-ATCAGAAGAGGGCTCAACGCTAGCATTAAGCCTGGAACCAATAGTCTCA
1 CAATGGTGCCTGA-TAAGCAGAAGAAGGCTCAAAACTAGCATTAAGCCTAGAACCAACAGTCTCA
*
15397671 CTAGAA-ATAGGAGAG
65 CCA-AACATAGGAGAG
15397686 TAATGTGGTA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
93 64 0.96
94 3 0.04
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (93 bp):
CAATGGTGCCTGATAAGCAGAAGAAGGCTCAAAACTAGCATTAAGCCTAGAACCAACAGTCTCAC
CAAACATAGGAGAGCTACGTGACACATG
Found at i:15403207 original size:60 final size:60
Alignment explanation
Indices: 15403102--15403214 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 60
15403092 CAACAACTTA
* *
15403102 AGTACTGCCAGGAGCTGAATAGGAATCTGAACATGCAGTAGCTGGAGAAGAATCAATCTG
1 AGTACTGCCAGGAGCTGAATAGGAATCTGAACAAGCAGTAACTGGAGAAGAATCAATCTG
* *
15403162 AGTATTGCCAGGAGCTGAATGGGAAT-TAGAACAAGCA-TCAACTGGAGAAGAAT
1 AGTACTGCCAGGAGCTGAATAGGAATCT-GAACAAGCAGT-AACTGGAGAAGAAT
15403215 GTGGTGTAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
59 2 0.04
60 45 0.96
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.19
Consensus pattern (60 bp):
AGTACTGCCAGGAGCTGAATAGGAATCTGAACAAGCAGTAACTGGAGAAGAATCAATCTG
Found at i:15407340 original size:37 final size:37
Alignment explanation
Indices: 15407270--15407340 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
15407260 GAACAAACCT
*
15407270 TAAAAGTTACAAAAAAAATACAAAAATAGAAAAAATG
1 TAAAAGTTACAAAAAAAATACAAAAATACAAAAAATG
*
15407307 TAAAA-TTACAAAAAAAAATTA-AAAATTACAAAAA
1 TAAAAGTTAC-AAAAAAAA-TACAAAAATACAAAAA
15407341 GTATTAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 4 0.13
37 24 0.80
38 2 0.07
ACGTcount: A:0.72, C:0.06, G:0.04, T:0.18
Consensus pattern (37 bp):
TAAAAGTTACAAAAAAAATACAAAAATACAAAAAATG
Found at i:15407349 original size:19 final size:20
Alignment explanation
Indices: 15407299--15407340 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
15407289 ACAAAAATAG
15407299 AAAAAATGT-AAAATTACAAA
1 AAAAAAT-TAAAAATTACAAA
15407319 AAAAAATTAAAAATTACAAA
1 AAAAAATTAAAAATTACAAA
15407339 AA
1 AA
15407341 GTATTAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (20 bp):
AAAAAATTAAAAATTACAAA
Found at i:15407425 original size:21 final size:20
Alignment explanation
Indices: 15407385--15407426 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
15407375 AATTTTTTTT
*
15407385 TAAAAAAGTCACAAAGATTA
1 TAAAAAAGTCACAAAAATTA
*
15407405 TAAAAAAGTTACAAAAAATTA
1 TAAAAAAGTCAC-AAAAATTA
15407426 T
1 T
15407427 TTTAAAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (20 bp):
TAAAAAAGTCACAAAAATTA
Found at i:15410164 original size:27 final size:27
Alignment explanation
Indices: 15410125--15410177 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
15410115 TTTAGTAATA
* *
15410125 GAGGATGTCAGATAGGCGGCACCAGTG
1 GAGGATGTCAGATAAGCAGCACCAGTG
* *
15410152 GAGGGTGTTAGATAAGCAGCACCAGT
1 GAGGATGTCAGATAAGCAGCACCAGT
15410178 TGTGCCTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.28, C:0.17, G:0.38, T:0.17
Consensus pattern (27 bp):
GAGGATGTCAGATAAGCAGCACCAGTG
Found at i:15412958 original size:2 final size:2
Alignment explanation
Indices: 15412953--15412977 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15412943 AAAAAAAAAA
15412953 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
15412978 GAAATAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15414791 original size:15 final size:15
Alignment explanation
Indices: 15414771--15414806 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
15414761 CGTTGATGAT
15414771 GATGAGGAGGAGGAG
1 GATGAGGAGGAGGAG
15414786 GATGAGGAGGAGGAG
1 GATGAGGAGGAGGAG
15414801 GATGAG
1 GATGAG
15414807 AATGGAGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.58, T:0.08
Consensus pattern (15 bp):
GATGAGGAGGAGGAG
Found at i:15422776 original size:16 final size:18
Alignment explanation
Indices: 15422755--15422794 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
15422745 TATTTTTCTG
15422755 TTTTTATTT-AT-TTATT
1 TTTTTATTTCATATTATT
*
15422771 TTTTTATTTCTTATTATT
1 TTTTTATTTCATATTATT
15422789 TTTTTA
1 TTTTTA
15422795 CTGCATTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.43
17 1 0.05
18 11 0.52
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTATTTCATATTATT
Found at i:15422787 original size:22 final size:22
Alignment explanation
Indices: 15422743--15422793 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
15422733 CAGCTACCAT
*
15422743 TTTATTTTTCTGTTTTTATTTA
1 TTTATTTTTCTATTTTTATTTA
*
15422765 TTTATTTTTTTATTTCTTA-TTA
1 TTTATTTTTCTATTT-TTATTTA
15422787 TTT-TTTT
1 TTTATTTT
15422794 ACTGCATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 4 0.15
22 19 0.73
23 3 0.12
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (22 bp):
TTTATTTTTCTATTTTTATTTA
Found at i:15435111 original size:44 final size:42
Alignment explanation
Indices: 15435048--15435135 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 42
15435038 TAATTATAAT
* *
15435048 TTAAATTCTAAATATTTTTAACTGTGTAATTATCACAA-TTTCTA
1 TTAAATTATAAATATTTTTAA--ATGTAATTATCACAACTTT-TA
*
15435092 TTAAATTATAATTATTTTTAAATGTAATTATCACAACTTTTA
1 TTAAATTATAAATATTTTTAAATGTAATTATCACAACTTTTA
15435134 TT
1 TT
15435136 TTATTTTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
42 18 0.45
43 3 0.08
44 19 0.47
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (42 bp):
TTAAATTATAAATATTTTTAAATGTAATTATCACAACTTTTA
Found at i:15435283 original size:4 final size:4
Alignment explanation
Indices: 15435274--15435299 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
15435264 TATATAGATT
15435274 ATAG ATAG ATAG ATAG ATAG ATAG AT
1 ATAG ATAG ATAG ATAG ATAG ATAG AT
15435300 TATAGATTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (4 bp):
ATAG
Found at i:15436147 original size:3 final size:3
Alignment explanation
Indices: 15436139--15436196 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
15436129 TATACATGTT
15436139 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15436187 ATA ATA ATA A
1 ATA ATA ATA A
15436197 CAAAAGGAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15438946 original size:11 final size:11
Alignment explanation
Indices: 15438926--15438954 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
15438916 CTGTGTGTTC
15438926 TTTA-TTTTAT
1 TTTATTTTTAT
15438936 TTTATTTTTAT
1 TTTATTTTTAT
15438947 TTTATTTT
1 TTTATTTT
15438955 CTTAAATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:15440778 original size:35 final size:35
Alignment explanation
Indices: 15440734--15440900 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
15440724 TCCTCATTGA
** *
15440734 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
15440769 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
15440809 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
15440844 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
15440879 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
15440901 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:15440817 original size:75 final size:73
Alignment explanation
Indices: 15440729--15440900 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
15440719 GGTTTTCCTC
** * * **
15440729 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
15440793 TCAGTATGG
65 TCAGTATGG
*
15440802 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
15440867 CTCAGTATGG
64 CTCAGTATGG
15440877 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
15440901 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:15448272 original size:35 final size:35
Alignment explanation
Indices: 15448228--15448394 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
15448218 TCCTCATTGA
** *
15448228 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
15448263 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
15448303 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
15448338 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
15448373 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
15448395 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:15448311 original size:75 final size:73
Alignment explanation
Indices: 15448223--15448394 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
15448213 GGTTTTCCTC
** * * **
15448223 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
15448287 TCAGTATGG
65 TCAGTATGG
*
15448296 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
15448361 CTCAGTATGG
64 CTCAGTATGG
15448371 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
15448395 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:15450360 original size:45 final size:45
Alignment explanation
Indices: 15450309--15450399 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
15450299 TTTAAAAGGG
15450309 TACAAATATACAACTGAAAGTGGAGTTTTAAAGATTTCCAAATGT
1 TACAAATATACAACTGAAAGTGGAGTTTTAAAGATTTCCAAATGT
15450354 TACAAATATACAACTGAAAGTGGAGTTTTAAAGATTTCCAAATGT
1 TACAAATATACAACTGAAAGTGGAGTTTTAAAGATTTCCAAATGT
15450399 T
1 T
15450400 CCCTTGTTAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (45 bp):
TACAAATATACAACTGAAAGTGGAGTTTTAAAGATTTCCAAATGT
Found at i:15451520 original size:20 final size:19
Alignment explanation
Indices: 15451469--15451522 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
15451459 AATTAGATAA
15451469 TTATTATTTATTTAATATT
1 TTATTATTTATTTAATATT
* ** *
15451488 TTAATAAGATATTTATTATT
1 TT-ATTATTTATTTAATATT
15451508 TTATTATTTTATTTA
1 TTATTA-TTTATTTA
15451523 GTATATATAT
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TTATTATTTATTTAATATT
Found at i:15456150 original size:5 final size:5
Alignment explanation
Indices: 15456140--15456173 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
15456130 CTGTGTGTTC
15456140 TTTAT TTTATT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTA-T TTTAT TTTAT TTTAT TTTAT TTT
15456174 CTTAAAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:15460169 original size:30 final size:30
Alignment explanation
Indices: 15460133--15460193 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
15460123 AAATAATAAG
15460133 TAAAGACTTTTCAGGTTGACTCCACATGCT
1 TAAAGACTTTTCAGGTTGACTCCACATGCT
15460163 TAAAGACTTTTCAGGTTGACTCCACATGCT
1 TAAAGACTTTTCAGGTTGACTCCACATGCT
15460193 T
1 T
15460194 TTTTATCCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.34
Consensus pattern (30 bp):
TAAAGACTTTTCAGGTTGACTCCACATGCT
Found at i:15465527 original size:100 final size:100
Alignment explanation
Indices: 15465354--15465556 Score: 352
Period size: 100 Copynumber: 2.0 Consensus size: 100
15465344 CGATCAAAAA
15465354 CAGTTAAAAGTTTAAACAAGAGAGAATCATGGAAGAGTAGCTAACTTAATTGCTACTTTTCTTAC
1 CAGTTAAAAGTTTAAACAAGAGAGAATCATGGAAGAGTAGCTAACTTAATTGCTACTTTTCTTAC
15465419 ATCTTTACTAAGTTTCCTTGGTTGTGTAGATAGAG
66 ATCTTTACTAAGTTTCCTTGGTTGTGTAGATAGAG
* * * *
15465454 CAGTTACACGTTTAAACAAGAGAGAATCATGGAAGAGTAGCTACCTTATTTGCTACTTTTCTTAC
1 CAGTTAAAAGTTTAAACAAGAGAGAATCATGGAAGAGTAGCTAACTTAATTGCTACTTTTCTTAC
* *
15465519 TTCTTTACTAAGTTTTCTTGGTTGTGTAGATAGAG
66 ATCTTTACTAAGTTTCCTTGGTTGTGTAGATAGAG
15465554 CAG
1 CAG
15465557 CAACTGTCCG
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 97 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (100 bp):
CAGTTAAAAGTTTAAACAAGAGAGAATCATGGAAGAGTAGCTAACTTAATTGCTACTTTTCTTAC
ATCTTTACTAAGTTTCCTTGGTTGTGTAGATAGAG
Found at i:15473423 original size:172 final size:172
Alignment explanation
Indices: 15473124--15473703 Score: 522
Period size: 172 Copynumber: 3.4 Consensus size: 172
15473114 AAAAATCTAA
* * *
15473124 ACGCCGTTGCCTGGGATCGAACCCGGGTCACCCTCGTGACAGGCGGGAATACTCGCCACTATACT
1 ACGCCGTAGCCGGGGATCGAACCCGGGTCACCCTCGTGACAGGCGGGAATACTCACCACTATACT
** * *
15473189 ACAACGACCTATTGAATTTCAATTAGTTCTTTAATATTTCTCTCATGTAAAATCTCGAGTTTGTC
66 ACAACGACCTACAGAATTTCAAGTAGTTCTTTAATATTTCTCTCATGTAAAATCTAGAGTTTGTC
* * * *
15473254 -CACTCCGAAGACTTTACTTGAAATATTTTAGGAAAATAACAC
131 AAACTCCAAAAACTTTACTTGAAA-ATTTTAAGAAAATAACAC
* * * *
15473296 TA-GCCGTTG-CGGAGGATCGAATCCGGGTCACCCGCGTGACAGGCGGGAATACTCACCACTATT
1 -ACGCCGTAGCCGG-GGATCGAACCCGGGTCACCCTCGTGACAGGCGGGAATACTCACCACTATA
* * * *
15473359 CTACAACGA-CTAACAGATTTTCGGCAGT-GTT-TTTTATATTTCTCTCATGTAATATCTAGAGT
64 CTACAACGACCT-ACAGAATTTC--AAGTAGTTCTTTAATATTTCTCTCATGTAAAATCTAGAGT
* *
15473421 TTGTCAAGAACTCCAAAAACTTTATTTGAAAATTTTAAGAAAATAGCAC
126 TTGTC-A-AACTCCAAAAACTTTACTTGAAAATTTTAAGAAAATAACAC
* * *
15473470 ACGCTGTAGCCGGGGATCGAACCCCGGTCACCCTCGTGACAGGCGGGAAAACTCACCACTATACT
1 ACGCCGTAGCCGGGGATCGAACCCGGGTCACCCTCGTGACAGGCGGGAATACTCACCACTATACT
* *** ** * ** *
15473535 ---ACGACTTGTTG-ATTTTTAGTAGTTC--TAATATTTCTCCCATGCGATATCT-GTAGTTTGT
66 ACAACGACCTACAGAATTTCAAGTAGTTCTTTAATATTTCTCTCATGTAAAATCTAG-AGTTTGT
* * * * * *
15473593 CTAGAACTCCAAAAATTTTATTTGAAAATATTAGGAAATATAATAT
130 C-A-AACTCCAAAAACTTTACTTGAAAATTTTAAGAAA-ATAACAC
* * * ** * * *
15473639 TCACCGTTGCCGTTGATCAAACCCGGGTCACCCGC-TGACAGGCGGGAATACTCACCATTATACT
1 ACGCCGTAGCCGGGGATCGAACCCGGGTCACCCTCGTGACAGGCGGGAATACTCACCACTATACT
15473703 A
66 A
15473704 TGACTTAAGG
Statistics
Matches: 337, Mismatches: 55, Indels: 34
0.79 0.13 0.08
Matches are distributed among these distances:
167 1 0.00
168 91 0.27
169 33 0.10
170 3 0.01
171 9 0.03
172 103 0.31
173 5 0.01
174 70 0.21
175 22 0.07
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (172 bp):
ACGCCGTAGCCGGGGATCGAACCCGGGTCACCCTCGTGACAGGCGGGAATACTCACCACTATACT
ACAACGACCTACAGAATTTCAAGTAGTTCTTTAATATTTCTCTCATGTAAAATCTAGAGTTTGTC
AAACTCCAAAAACTTTACTTGAAAATTTTAAGAAAATAACAC
Found at i:15473680 original size:168 final size:168
Alignment explanation
Indices: 15473136--15473709 Score: 430
Period size: 168 Copynumber: 3.4 Consensus size: 168
15473126 GCCGTTGCCT
* * * * * * *
15473136 GGGATCGAACCCGGGTCACCCTCGTGACAGGCGGGAATACTCGCCACTATACTACAACGACCTAT
1 GGGATCAAACCCCGGTCACCCGCGTGACAGGCGGGAAAACTCACCACTATACT---ACGACTTGT
** * * * * * * *
15473201 TGAATTTCAATTAGTTCTTTAATATTTCTCTCATGTAAAATCTCGAGTTTGTC---CACTCCGAA
63 TG-ATTTTTAGTAGTTC--TAATATTTCTCCCATGCAATATCTAGAGTTTGTCAAGAACTCCAAA
* * * * * *
15473263 GACTTTACTTGAAATATTTTAGGAAAATAACACTA-GCCGTTG-CG
125 AACTTTATTTGAAA-ATATTAAGAAAATAACAC-ACGCTGTAGCCG
* * * * * **
15473307 GAGGATCGAATCCGGGTCACCCGCGTGACAGGCGGGAATACTCACCACTATTCTACAACGACTAA
1 G-GGATCAAACCCCGGTCACCCGCGTGACAGGCGGGAAAACTCACCACTA---TACTACGACTTG
** * * * * *
15473372 CAGATTTTCGGCAGT-GTTTTTTATATTTCTCTCATGTAATATCTAGAGTTTGTCAAGAACTCCA
62 TTGATTTT---TAGTAG-TTCTAATATTTCTCCCATGCAATATCTAGAGTTTGTCAAGAACTCCA
* *
15473436 AAAACTTTATTTGAAAATTTTAAGAAAATAGCACACGCTGTAGCCG
123 AAAACTTTATTTGAAAATATTAAGAAAATAACACACGCTGTAGCCG
* *
15473482 GGGATCGAACCCCGGTCACCCTCGTGACAGGCGGGAAAACTCACCACTATACTACGACTTGTTGA
1 GGGATCAAACCCCGGTCACCCGCGTGACAGGCGGGAAAACTCACCACTATACTACGACTTGTTGA
* * *
15473547 TTTTTAGTAGTTCTAATATTTCTCCCATGCGATATCT-GTAGTTTGTCTAGAACTCCAAAAATTT
66 TTTTTAGTAGTTCTAATATTTCTCCCATGCAATATCTAG-AGTTTGTCAAGAACTCCAAAAACTT
* * *
15473611 TATTTGAAAATATTAGGAAATATAATATTCAC-C-GTTGCCG
130 TATTTGAAAATATTAAGAAA-ATAACA--CACGCTGTAGCCG
** * * * *
15473651 TTGATCAAACCCGGGTCACCCGC-TGACAGGCGGGAATACTCACCATTATACTATGACTT
1 GGGATCAAACCCCGGTCACCCGCGTGACAGGCGGGAAAACTCACCACTATACTACGACTT
15473710 AAGGATTTTC
Statistics
Matches: 332, Mismatches: 53, Indels: 39
0.78 0.12 0.09
Matches are distributed among these distances:
167 1 0.00
168 99 0.30
169 29 0.09
170 1 0.00
171 23 0.07
172 83 0.25
173 2 0.01
174 69 0.21
175 25 0.08
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (168 bp):
GGGATCAAACCCCGGTCACCCGCGTGACAGGCGGGAAAACTCACCACTATACTACGACTTGTTGA
TTTTTAGTAGTTCTAATATTTCTCCCATGCAATATCTAGAGTTTGTCAAGAACTCCAAAAACTTT
ATTTGAAAATATTAAGAAAATAACACACGCTGTAGCCG
Found at i:15482779 original size:17 final size:17
Alignment explanation
Indices: 15482742--15482800 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 17
15482732 CAGAAGTCTT
*
15482742 AAAAATAAATAAAAGACA
1 AAAAATAAATAAAA-ATA
*
15482760 ATAAAATTTAAATAATAATA
1 A-AAAA--TAAATAAAAATA
15482780 AAAAATAAATAAAAATA
1 AAAAATAAATAAAAATA
15482797 AAAA
1 AAAA
15482801 TAATAGTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
17 15 0.43
18 1 0.03
19 8 0.23
20 3 0.09
21 8 0.23
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (17 bp):
AAAAATAAATAAAAATA
Found at i:15497001 original size:2 final size:2
Alignment explanation
Indices: 15496996--15497034 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
15496986 AATCAATTTC
15496996 TA TA TA TA 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 TA TA TA TA T
15497035 TTTAAATGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15502684 original size:96 final size:95
Alignment explanation
Indices: 15502512--15502699 Score: 288
Period size: 96 Copynumber: 2.0 Consensus size: 95
15502502 AAGCGATAAT
* * * *
15502512 CGAAAGTAAGGCGATATCCCCATTTTGTTCTAATAATCTGGATAATATATTGAATATTATAAGAG
1 CGAAAGTAAGGCGATACCCCCATTTTGTTCTAACAATCTGGATAACATATTGAATACTATAAGAG
*
15502577 TAAAGCTTAGTTACTCATTATATATATGAC
66 TAAAGCTTAGTTACTCATTACATATATGAC
* *
15502607 CGAAATGTTAGGCGATGCCCCCATTTTGTTGC-AACAATCTGGATAACATATTGAATACTATAAG
1 CGAAA-GTAAGGCGATACCCCCATTTTGTT-CTAACAATCTGGATAACATATTGAATACTATAAG
15502671 AGTAAAGCTTAGTTACTCATTACATATAT
64 AGTAAAGCTTAGTTACTCATTACATATAT
15502700 ATAGATATAG
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
95 5 0.06
96 78 0.93
97 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (95 bp):
CGAAAGTAAGGCGATACCCCCATTTTGTTCTAACAATCTGGATAACATATTGAATACTATAAGAG
TAAAGCTTAGTTACTCATTACATATATGAC
Found at i:15509264 original size:21 final size:21
Alignment explanation
Indices: 15509238--15509277 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15509228 ACGAAATAGG
*
15509238 TGATGTGACCAATTAACTTGT
1 TGATGTAACCAATTAACTTGT
*
15509259 TGATGTAATCAATTAACTT
1 TGATGTAACCAATTAACTT
15509278 ACCACGTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (21 bp):
TGATGTAACCAATTAACTTGT
Found at i:15511450 original size:43 final size:41
Alignment explanation
Indices: 15511356--15511504 Score: 185
Period size: 43 Copynumber: 3.6 Consensus size: 41
15511346 AGCAAACGCT
*
15511356 ACTAAAGACCATGACTTTTAGCGGCGCTTT-TCA-AAAAGCC
1 ACTAAAGACCATGACCTTTAGCGGCGCTTTCTCACAAAA-CC
*
15511396 ACTAAAGACCATGACCTTTAGCGGCGCTGTTCCCACAAATACC
1 ACTAAAGACCATGACCTTTAGCGGCGCT-TTCTCACAAA-ACC
* * *
15511439 ACTAAAGACCATGACCTTTAGCAGCGCTTTTCTCGCAAAGGCC
1 ACTAAAGACCATGACCTTTAGCGGCGC-TTTCTCACAAA-ACC
*
15511482 GCTAAAGACCATGACCTTTAGCG
1 ACTAAAGACCATGACCTTTAGCG
15511505 ACACTTTTGT
Statistics
Matches: 95, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
40 27 0.28
41 2 0.02
42 2 0.02
43 62 0.65
44 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (41 bp):
ACTAAAGACCATGACCTTTAGCGGCGCTTTCTCACAAAACC
Done.