Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 12 of 204
Found at i:3738220 original size:117 final size:118
Alignment explanation
Indices: 3738029--3738254 Score: 305
Period size: 117 Copynumber: 1.9 Consensus size: 118
3738019 ACTTAATTTG
* * * **
3738029 AAAAACAGATTTTGAAAATACCTCGACATGTGAACCCAAGGCTCAACTCACATCTCGTGATATGA
1 AAAAACAGAATTTGAAAAGACCTCGACATGTGAACCCAAGACTCAACTCACATCTCGCAATATGA
* * *
3738094 GTTGA-TTTTTGAAAAATATAAATTGGAAAAACAGAAATTGAAAAGCAGAAATT
66 GTTGATTTTTTGAAAAACAGAAATT-GAAAAACAGAAATGGAAAAGCAGAAATT
* * * *
3738147 AAAAACAGAATTTGAAAAGACCTC-AGCGTGTG-GCCCGAGACTCAACTCACCTCTCGCAATATG
1 AAAAACAGAATTTGAAAAGACCTCGA-CATGTGAACCCAAGACTCAACTCACATCTCGCAATATG
3738210 AGTTGATTTTTTGAAAAACAGAAATTGAAAAACAGAAATGGAAAA
65 AGTTGATTTTTTGAAAAACAGAAATTGAAAAACAGAAATGGAAAA
3738255 CACCTCAGCG
Statistics
Matches: 94, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
117 50 0.53
118 44 0.47
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.23
Consensus pattern (118 bp):
AAAAACAGAATTTGAAAAGACCTCGACATGTGAACCCAAGACTCAACTCACATCTCGCAATATGA
GTTGATTTTTTGAAAAACAGAAATTGAAAAACAGAAATGGAAAAGCAGAAATT
Found at i:3738256 original size:13 final size:14
Alignment explanation
Indices: 3738220--3738254 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
3738210 AGTTGATTTT
3738220 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
3738234 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
3738248 TGGAAAA
1 TTGAAAA
3738255 CACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.63, C:0.06, G:0.17, T:0.14
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:3738435 original size:14 final size:14
Alignment explanation
Indices: 3738416--3738478 Score: 65
Period size: 14 Copynumber: 4.5 Consensus size: 14
3738406 GAGTTGATTT
*
3738416 TTGAAAAATATAAA
1 TTGAAAAATAGAAA
3738430 TTGAAAAAATAGAAA
1 TTG-AAAAATAGAAA
**
3738445 TTGAAAAGCAGAAA
1 TTGAAAAATAGAAA
* *
3738459 TT-AAAAACAGAAT
1 TTGAAAAATAGAAA
3738472 TTGAAAA
1 TTGAAAA
3738479 GACCTCAGTG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
13 11 0.26
14 18 0.43
15 13 0.31
ACGTcount: A:0.62, C:0.03, G:0.13, T:0.22
Consensus pattern (14 bp):
TTGAAAAATAGAAA
Found at i:3738439 original size:15 final size:15
Alignment explanation
Indices: 3738419--3738451 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
3738409 TTGATTTTTG
*
3738419 AAAAATATAAATTGA
1 AAAAATAGAAATTGA
3738434 AAAAATAGAAATTGA
1 AAAAATAGAAATTGA
3738449 AAA
1 AAA
3738452 GCAGAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (15 bp):
AAAAATAGAAATTGA
Found at i:3738451 original size:13 final size:13
Alignment explanation
Indices: 3738435--3738478 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
3738425 ATAAATTGAA
*
3738435 AAAATAGAAATTG
1 AAAACAGAAATTG
*
3738448 AAAAGCAGAAATTA
1 AAAA-CAGAAATTG
*
3738462 AAAACAGAATTTG
1 AAAACAGAAATTG
3738475 AAAA
1 AAAA
3738479 GACCTCAGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.64, C:0.05, G:0.14, T:0.18
Consensus pattern (13 bp):
AAAACAGAAATTG
Found at i:3738629 original size:77 final size:73
Alignment explanation
Indices: 3738462--3739963 Score: 922
Period size: 73 Copynumber: 20.0 Consensus size: 73
3738452 GCAGAAATTA
* * * * * * *
3738462 AAAACAGAATTTGAAAAGACCTCAGTGTGTGGCCCGAGACTCAACTCACCTCTCACAATATAAGT
1 AAAACAGAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGT
3738527 TGA-TTTTTG
64 TGATTTTTTG
* **
3738536 AAAAGCAGAAATTGAAAATGCCTCAGCGTGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAA-CAGAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAG
3738601 TTGATTCTTTTG
63 TTGATT-TTTTG
** * * *
3738613 AAAAGCAGAAATTGAAAACGCCTCAACGTGTGACCCGAGGCTCAACTCACCTCTTGCAATATGAG
1 AAAA-CAGAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAG
3738678 TTGATTCTTTTG
63 TTGATT-TTTTG
* * **** **** * * *
3738690 AAAAGTAGAAATTGAAAAGAAGAAATTGAAAATACCTCAGTGTGTCCCGAGGCTCAACTCACCTC
1 AAAA-CAGAAATTGAAAATACCTCA--GCGTGT-CCT--GAG-G-CTC-A---AC---TCACCTC
*
3738755 TCGCAATGTGAGTTGATTTTTTTG
51 TCGCAATATGAGTTGA-TTTTTTG
* * *
3738779 ATAAAAATAGAATTTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 ---AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
3738844 TTGATGTTTTTG
63 TTGAT-TTTTTG
* * ** * * *
3738856 AAAAACAGAAATTGAAGAACAAAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTC
1 -AAAACAGAAATT---G----AAAAT----ACCTCAGC-GTGTCCTGAGGCTCAACTCACCTCTC
*
3738921 GCAATATGAGCTGATTTTTTTG
53 GCAATATGAGTTGA-TTTTTTG
** * * *
3738943 AAAGACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTTATCTCTCGCAATATGAGTT
1 AAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
3739008 GA-TTTTTG
65 GATTTTTTG
* * * *
3739016 ACAAACA-AAATTGAAAATTACCTCAGC--GTCTTGAGGTTCAACTCACCTCTTGCAA-ATGAGC
1 A-AAACAGAAATTGAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
3739077 TGATTTTTTTTA
64 TGA--TTTTTTG
*
3739089 AAAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
3739154 GAATTTTTTTG
65 G-A-TTTTTTG
* * * * ** *** *** * * * *
3739165 AAAAATATAAATT-TAAA-AGCAGAAATTGAAATTA-CCTCAACGT-GCCT-TGAGGCTCAACTT
1 -AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAAC-TCACCTCT----CGCAA--T
** * ***
3739225 ACCTCTCGTAGTATGAATTG
58 A--T-GAGTTG-ATTTTTTG
***** ** * *** * * * *
3739245 ATTTTTTGAAA--GACAAA-AATTGAAAAT-ACCTCAGCATGTCTTGAGGCTCAACTCATTTCTC
1 A-AAACAGAAATTGA-AAATACCTCAGCGTGTCCT--G-A-GGC-TCA-ACTC-AC-C---TCTC
*
3739306 GCAATATTAGTTGATTTTTTTG
53 GCAATATGAGTTGA-TTTTTTG
*
3739328 ACAACAGAAATTG-AAATGACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAACAGAAATTGAAAAT-ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
3739392 GAATTTTTTG
65 G-ATTTTTTG
* * * * *
3739402 AAAAATATAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTT
1 -AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
3739465 GA-ATTTTG
65 GATTTTTTG
* **
3739473 AAAACAGAAATTGAAATTACCTCAGCGTGTCC-GAGGCTCAA-TCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
3739536 ATTTTTTTG
66 A-TTTTTTG
*
3739545 AAAACAGAAATTGAAATTACCTCAGCGTGTCC-GAGGCTCAACTCA--TCTCGCAATAT--GTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
3739605 ATTTTTTT
66 ATTTTTTG
* *
3739613 TAAACAGAAATTGAAATTACCT-AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
3739677 ATTTTTTG
66 ATTTTTTG
* * * **
3739685 AAAGACA-AAATTGAAAATACCTCATCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
3739749 GATTTTTTG
65 GATTTTTTG
* *
3739758 ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA-C-CTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
3739821 AATTTTTG
66 ATTTTTTG
* * *
3739829 ACAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
3739894 A---ATT-
66 ATTTTTTG
* *
3739898 AAAACACAAAATTGAAAATACCTCAGC--GTCCTGAGG-TC--CTCACCTCTAGCAATATGAGTT
1 AAAACA-GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
3739958 GATTTT
65 GATTTT
3739964 GAAAAAAAAA
Statistics
Matches: 1145, Mismatches: 182, Indels: 208
0.75 0.12 0.14
Matches are distributed among these distances:
65 23 0.02
67 11 0.01
68 49 0.04
69 12 0.01
70 78 0.07
71 123 0.11
72 91 0.08
73 166 0.14
74 72 0.06
75 143 0.12
76 30 0.03
77 129 0.11
78 8 0.01
79 7 0.01
80 28 0.02
81 7 0.01
82 17 0.01
83 12 0.01
84 10 0.01
85 7 0.01
86 13 0.01
87 51 0.04
88 8 0.01
89 28 0.02
90 2 0.00
91 15 0.01
92 5 0.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (73 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTG
Found at i:3738706 original size:14 final size:14
Alignment explanation
Indices: 3738687--3738721 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
3738677 GTTGATTCTT
*
3738687 TTGAAAAGTAGAAA
1 TTGAAAAGAAGAAA
3738701 TTGAAAAGAAGAAA
1 TTGAAAAGAAGAAA
3738715 TTGAAAA
1 TTGAAAA
3738722 TACCTCAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (14 bp):
TTGAAAAGAAGAAA
Found at i:3738767 original size:89 final size:92
Alignment explanation
Indices: 3738610--3738798 Score: 267
Period size: 89 Copynumber: 2.1 Consensus size: 92
3738600 GTTGATTCTT
* * *
3738610 TTGAAAAGCAGAAATTGAAAACGCCTCAACGTGTGACCCGAGGCTCAACTCACCTCTTGCAATAT
1 TTGAAAAGAAGAAATTGAAAACACCTCAACGTGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
*
3738675 GAGTTGATTCTTTTG-AAAAGTAGAAA
66 GAGTTGATTCTTTTGAAAAAATAGAAA
* * *
3738701 TTGAAAAGAAGAAATTGAAAATACCTC-A-GTGTGTCCCGAGGCTCAACTCACCTCTCGCAATGT
1 TTGAAAAGAAGAAATTGAAAACACCTCAACGTGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
* *
3738764 GAGTTGATTTTTTTGATAAAAATAGAAT
66 GAGTTGATTCTTTTGA-AAAAATAGAAA
3738792 TTGAAAA
1 TTGAAAA
3738799 TACCTCAGCG
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
89 46 0.53
90 1 0.01
91 40 0.46
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (92 bp):
TTGAAAAGAAGAAATTGAAAACACCTCAACGTGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTCTTTTGAAAAAATAGAAA
Found at i:3739015 original size:73 final size:73
Alignment explanation
Indices: 3738867--3739168 Score: 330
Period size: 75 Copynumber: 4.1 Consensus size: 73
3738857 AAAACAGAAA
* * * *
3738867 TTGAAGAACAAAAATGGAAAACACCTCAGC--GTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAA-AACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
3738930 GCTGATTTTT
65 GTTGA-TTTT
** * *
3738940 TTGAAAGACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTTATCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
3739005 GTTGA-TTT
65 GTTGATTTT
* *
3739013 TTGACAAACA-AAATTGAAAATTACCTCAGC--GTCTTGAGGTTCAACTCACCTCTTGCAA-ATG
1 TTGA-AAACAGAAATTGAAAA-TACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
*
3739074 AGCTGATTTTTT
64 AGTTGA--TTTT
* * *
3739086 TTAAAAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
3739151 GTTGAATTTTT
65 GTTG-A-TTTT
3739162 TTGAAAA
1 TTGAAAA
3739169 ATATAAATTT
Statistics
Matches: 192, Mismatches: 23, Indels: 26
0.80 0.10 0.11
Matches are distributed among these distances:
70 8 0.04
71 24 0.12
72 13 0.07
73 58 0.30
74 11 0.06
75 60 0.31
76 17 0.09
77 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31
Consensus pattern (73 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTT
Found at i:3739085 original size:146 final size:146
Alignment explanation
Indices: 3738889--3739963 Score: 1184
Period size: 146 Copynumber: 7.3 Consensus size: 146
3738879 AATGGAAAAC
* * *
3738889 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAA
1 ACCTCAGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAA
** *
3738954 TTGAAAATACCTCAATGTGTCTTGAGGCTCAACTTATCTCTCGCAATATGAGTTGATTTTTGACA
66 TTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGACA
3739019 AACA-AAATTGAAAATT
131 AACAGAAATTG-AAATT
* * * * *
3739035 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTTGCAA-ATGAGCTGATTTTTTTTAAAAGACAGAA
1 ACCTCAGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAGACAGAA
* * *
3739099 ATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTT
65 ATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTG-A--TTTTT
*
3739164 GAAAAATATAAATTTAAAAGCAGAAATTGAAATT
127 G----------A---CAAA-CAGAAATTGAAATT
* * * * * *
3739198 ACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCGTAGTATGAATTGA-TTTTTTGAAAGACAAA
1 ACCTCAGCGT-CC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGA
* * *
3739262 AATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATTAGTTGATTTTTTT
64 AATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTTTT
*
3739327 GAC-AACAGAAATTGAAATG
127 GACAAACAGAAATTGAAATT
* * * *
3739346 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAAATATA
1 ACCTCAGC--GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGA
* *
3739411 AATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCAT-TCTCGCAATATGAGTTGAATTTTGA
64 AATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGA
3739474 -AAACAGAAATTGAAATT
129 CAAACAGAAATTGAAATT
**
3739491 ACCTCAGCGTGTCC-GAGGCTCAA-TCATTTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGA
1 ACCTCAGC--GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGA
* * **
3739553 AATTGAAATTACCTCAGCGTGTC-CGAGGCTCAACTCA--TCTCGCAATAT--GTTGATTTTTTT
64 AATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGA
*
3739613 TAAACAGAAATTGAAATT
129 CAAACAGAAATTGAAATT
3739631 ACCT-AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAGACA-A
1 ACCTCAGC--GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGA
* * *
3739693 AATTGAAAATACCTCATCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTG
64 AATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGA-TTTTTG
3739758 AC-AACAGAAATTGAAATT
128 ACAAACAGAAATTGAAATT
* * *
3739776 ACCTCAGCGTGTCCTGAGGCTCAACTCA-C-CTCGCAATATGAGTTGA-ATTTTTGACA-ATAGA
1 ACCTCAGC--GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGA
* * * *
3739837 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATT-A
64 AATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGA
* *
3739899 -AAACACAAAATTGAAAAT
129 CAAACA-GAAATTGAAATT
*
3739917 ACCTCAGCGTCCTGAGG-TC--CTCACCTCTAGCAATATGAGTTGATTTT
1 ACCTCAGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
3739964 GAAAAAAAAA
Statistics
Matches: 810, Mismatches: 75, Indels: 95
0.83 0.08 0.10
Matches are distributed among these distances:
136 4 0.00
137 1 0.00
138 18 0.02
139 29 0.04
140 66 0.08
141 68 0.08
142 21 0.03
143 59 0.07
144 87 0.11
145 70 0.09
146 130 0.16
147 18 0.02
148 81 0.10
149 28 0.03
150 2 0.00
153 1 0.00
159 1 0.00
162 3 0.00
163 25 0.03
164 72 0.09
165 19 0.02
166 7 0.01
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.32
Consensus pattern (146 bp):
ACCTCAGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAA
TTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGACA
AACAGAAATTGAAATT
Found at i:3739251 original size:90 final size:91
Alignment explanation
Indices: 3739085--3739255 Score: 260
Period size: 90 Copynumber: 1.9 Consensus size: 91
3739075 GCTGATTTTT
*
3739085 TTTAAAAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTTAAAAGACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
*
3739150 AGTTGAATTTTTTTGAAAAATATAAA
66 AATTGAATTTTTTTGAAAAATATAAA
* * *
3739176 TTTAAAAG-CAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTTACCTCTCGTAGTAT
1 TTTAAAAGACAGAAATTGAAATTACCTCAACGTGTCC-TGAGGCTCAACTCACCTCTCGCAATAT
3739239 GAATTG-A-TTTTTTGAAA
65 GAATTGAATTTTTTTGAAA
3739256 GACAAAAATT
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
88 10 0.14
89 3 0.04
90 53 0.72
91 8 0.11
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (91 bp):
TTTAAAAGACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
AATTGAATTTTTTTGAAAAATATAAA
Found at i:3739276 original size:74 final size:73
Alignment explanation
Indices: 3739179--3739963 Score: 979
Period size: 74 Copynumber: 11.0 Consensus size: 73
3739169 ATATAAATTT
* * * * *
3739179 AAAAGCAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTTACCTCTCGTAGTATGAAT
1 AAAA-CAGAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGT
3739243 TGATTTTTTG
64 TGATTTTTTG
* * * * ** *
3739253 AAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATTAGTT
1 AAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
3739318 GATTTTTTTG
65 GA-TTTTTTG
* *
3739328 ACAACAGAAATTGAAATGACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
3739393 AATTTTTTG
66 -ATTTTTTG
* * * * *
3739402 AAAAATATAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTT
1 -AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
3739465 GA-ATTTTG
65 GATTTTTTG
**
3739473 AAAACAGAAATTGAAATTACCTCAGCGTGTCC-GAGGCTCAA-TCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
3739536 ATTTTTTTG
66 A-TTTTTTG
3739545 AAAACAGAAATTGAAATTACCTCAGCGTGTCC-GAGGCTCAACTCA--TCTCGCAATAT--GTTG
1 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
3739605 ATTTTTTT
66 ATTTTTTG
*
3739613 TAAACAGAAATTGAAATTACCT-AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
3739677 ATTTTTTG
66 ATTTTTTG
* * * * **
3739685 AAAGACA-AAATTGAAAATACCTCATCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
3739749 GATTTTTTG
65 GATTTTTTG
*
3739758 ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA-C-CTCGCAATATGAGTTG
1 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
3739821 AATTTTTG
66 ATTTTTTG
* *
3739829 ACAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
3739894 A---ATT-
66 ATTTTTTG
* * *
3739898 AAAACACAAAATTGAAAATACCTCAGC--GTCCTGAGG-TC--CTCACCTCTAGCAATATGAGTT
1 AAAACA-GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
3739958 GATTTT
65 GATTTT
3739964 GAAAAAAAAA
Statistics
Matches: 628, Mismatches: 59, Indels: 54
0.85 0.08 0.07
Matches are distributed among these distances:
65 23 0.04
67 11 0.02
68 49 0.08
69 12 0.02
70 73 0.12
71 97 0.15
72 78 0.12
73 122 0.19
74 138 0.22
75 25 0.04
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (73 bp):
AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTG
Found at i:3750026 original size:16 final size:16
Alignment explanation
Indices: 3750007--3750051 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
3749997 ATGGAATAAT
3750007 AAATATATAAAATAT-A
1 AAATAT-TAAAATATCA
3750023 AAATATTAAAATATCA
1 AAATATTAAAATATCA
*
3750039 AAATATTAGAATA
1 AAATATTAAAATA
3750052 ATAATAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 8 0.30
16 19 0.70
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (16 bp):
AAATATTAAAATATCA
Found at i:3750032 original size:8 final size:8
Alignment explanation
Indices: 3750007--3750065 Score: 57
Period size: 8 Copynumber: 7.1 Consensus size: 8
3749997 ATGGAATAAT
3750007 AAATATATA
1 AAATAT-TA
3750016 AAATA-TA
1 AAATATTA
3750023 AAATATTA
1 AAATATTA
*
3750031 AAATATCA
1 AAATATTA
3750039 AAATATTA
1 AAATATTA
* *
3750047 GAATAATA
1 AAATATTA
3750055 ATAATAATTA
1 A-AAT-ATTA
3750065 A
1 A
3750066 TATTGACAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
7 7 0.17
8 22 0.54
9 8 0.20
10 4 0.10
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (8 bp):
AAATATTA
Found at i:3750218 original size:23 final size:22
Alignment explanation
Indices: 3750167--3750220 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
3750157 ATACTACATC
3750167 AATATGTACATAT-ATA--AAA
1 AATATGTACATATAATATTAAA
**
3750186 AATAAATACATGATAATATTAAA
1 AATATGTACAT-ATAATATTAAA
3750209 AATATGTACATA
1 AATATGTACATA
3750221 ATATAGTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 9 0.33
20 2 0.07
21 3 0.11
22 1 0.04
23 12 0.44
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (22 bp):
AATATGTACATATAATATTAAA
Found at i:3750267 original size:22 final size:24
Alignment explanation
Indices: 3750183--3750268 Score: 81
Period size: 25 Copynumber: 3.7 Consensus size: 24
3750173 TACATATATA
* *
3750183 AAAAATAAATACATGATAATA--TT
1 AAAAATATATACATAAT-ATAGGTT
*
3750206 AAAAATATGTACATAATATAGTGTT
1 AAAAATATATACATAATATAG-GTT
*
3750231 AAAAATACATACATAATATA-GTT
1 AAAAATATATACATAATATAGGTT
*
3750254 -AAGATATATACATAA
1 AAAAATATATACATAA
3750269 GATAACATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
22 16 0.30
23 17 0.32
25 20 0.38
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (24 bp):
AAAAATATATACATAATATAGGTT
Found at i:3750329 original size:22 final size:24
Alignment explanation
Indices: 3750289--3750344 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
3750279 AGAAAAAAAA
* * *
3750289 ATATATTAATAATATAATATTAAAG
1 ATATATAAATAAAATAGTA-TAAAG
*
3750314 ATATATAAATAAAATAGTATAAAT
1 ATATATAAATAAAATAGTATAAAG
3750338 ATATATA
1 ATATATA
3750345 TACGTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 11 0.41
25 16 0.59
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
ATATATAAATAAAATAGTATAAAG
Found at i:3750981 original size:30 final size:30
Alignment explanation
Indices: 3750947--3751035 Score: 144
Period size: 30 Copynumber: 3.0 Consensus size: 30
3750937 AATGGAGCAA
3750947 GTGTGGCTAGTGGATTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGATTTGGTGGTGGAAAAG
3750977 GTGTGGCTAGTGG-TGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAT-TTGGTGGTGGAAAAG
* *
3751007 GTGTGGCTAGTGGAGTTGGTGGTAGAAAA
1 GTGTGGCTAGTGGATTTGGTGGTGGAAAA
3751036 AGCTAAGATT
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
29 1 0.02
30 54 0.98
ACGTcount: A:0.20, C:0.03, G:0.47, T:0.29
Consensus pattern (30 bp):
GTGTGGCTAGTGGATTTGGTGGTGGAAAAG
Found at i:3751423 original size:14 final size:14
Alignment explanation
Indices: 3751404--3751477 Score: 94
Period size: 14 Copynumber: 5.1 Consensus size: 14
3751394 TACTGTCATT
*
3751404 TTACTATTGTATTG
1 TTACTATTTTATTG
*
3751418 TTACTATTTTGTTG
1 TTACTATTTTATTG
*
3751432 TTTTACTATTATATTG
1 --TTACTATTTTATTG
3751448 TTACTATTTTATTG
1 TTACTATTTTATTG
*
3751462 TTACTATTTTGTTG
1 TTACTATTTTATTG
3751476 TT
1 TT
3751478 TTACTATTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
14 40 0.77
16 12 0.23
ACGTcount: A:0.19, C:0.07, G:0.11, T:0.64
Consensus pattern (14 bp):
TTACTATTTTATTG
Found at i:3751436 original size:30 final size:30
Alignment explanation
Indices: 3751402--3751463 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
3751392 TTTACTGTCA
* *
3751402 TTTTACTATTGTATTGTTACTATTTTGTTG
1 TTTTACTATTATATTGTTACTATTTTATTG
3751432 TTTTACTATTATATTGTTACTATTTTATTG
1 TTTTACTATTATATTGTTACTATTTTATTG
3751462 TT
1 TT
3751464 ACTATTTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.19, C:0.06, G:0.10, T:0.65
Consensus pattern (30 bp):
TTTTACTATTATATTGTTACTATTTTATTG
Found at i:3751452 original size:44 final size:44
Alignment explanation
Indices: 3751404--3751489 Score: 163
Period size: 44 Copynumber: 2.0 Consensus size: 44
3751394 TACTGTCATT
3751404 TTACTATTGTATTGTTACTATTTTGTTGTTTTACTATTATATTG
1 TTACTATTGTATTGTTACTATTTTGTTGTTTTACTATTATATTG
*
3751448 TTACTATTTTATTGTTACTATTTTGTTGTTTTACTATTATAT
1 TTACTATTGTATTGTTACTATTTTGTTGTTTTACTATTATAT
3751490 AACTATTGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.21, C:0.07, G:0.09, T:0.63
Consensus pattern (44 bp):
TTACTATTGTATTGTTACTATTTTGTTGTTTTACTATTATATTG
Found at i:3751502 original size:44 final size:44
Alignment explanation
Indices: 3751405--3751504 Score: 146
Period size: 44 Copynumber: 2.3 Consensus size: 44
3751395 ACTGTCATTT
* ***
3751405 TACTATTGTATTGTTACTATTTTGTTGTTTTACTATTATATTGT
1 TACTATTTTATTGTTACTATTTTGTTGTTTTACTATTATATAAC
3751449 TACTATTTTATTGTTACTATTTTGTTGTTTTACTATTATATAAC
1 TACTATTTTATTGTTACTATTTTGTTGTTTTACTATTATATAAC
* *
3751493 TATTGTTTTATT
1 TACTATTTTATT
3751505 ATTAACTTTG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.22, C:0.07, G:0.09, T:0.62
Consensus pattern (44 bp):
TACTATTTTATTGTTACTATTTTGTTGTTTTACTATTATATAAC
Found at i:3752467 original size:33 final size:33
Alignment explanation
Indices: 3752444--3752508 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
3752434 AAGTGGTGTG
*
3752444 CCCAAGTTCTTTCGTCTGCCGATAAGTGGCACA
1 CCCAAGTTCTATCGTCTGCCGATAAGTGGCACA
* *
3752477 CCCAAGTTCTATCGTTTGCCCATAAGTGGCAC
1 CCCAAGTTCTATCGTCTGCCGATAAGTGGCAC
3752509 GTTTTGAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.28
Consensus pattern (33 bp):
CCCAAGTTCTATCGTCTGCCGATAAGTGGCACA
Found at i:3758504 original size:14 final size:15
Alignment explanation
Indices: 3758470--3758504 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
3758460 TAAATCCATT
3758470 TTTATATTTAAGTAC
1 TTTATATTTAAGTAC
3758485 TTTATATTTAAGTA-
1 TTTATATTTAAGTAC
3758499 TTTATA
1 TTTATA
3758505 CAATAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (15 bp):
TTTATATTTAAGTAC
Found at i:3765490 original size:45 final size:45
Alignment explanation
Indices: 3765437--3765577 Score: 119
Period size: 45 Copynumber: 3.2 Consensus size: 45
3765427 AGATACCAGC
3765437 CTTG-CTTCTCTGGGTTGCAGCGGAGCAGGTTAAAAATAACAGAT
1 CTTGCCTTCTCTGGGTTGCAGCGGAGCAGGTTAAAAATAACAGAT
* ** * * * * * * *
3765481 CTTGCCTTCT-TGCGCCGACAGCGAAGCAGATCAAAGACACCAG-C
1 CTTGCCTTCTCTGGGTTG-CAGCGGAGCAGGTTAAAAATAACAGAT
* * *
3765525 CTTGCC-TCCCTAGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTTCTCTGGGTTGCAGCGGAGCAGGTTAAAAATAACAGAT
*
3765569 CTTTCCTTC
1 CTTGCCTTC
3765578 CTACACCGAC
Statistics
Matches: 69, Mismatches: 23, Indels: 9
0.68 0.23 0.09
Matches are distributed among these distances:
43 21 0.30
44 22 0.32
45 26 0.38
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (45 bp):
CTTGCCTTCTCTGGGTTGCAGCGGAGCAGGTTAAAAATAACAGAT
Found at i:3765541 original size:88 final size:88
Alignment explanation
Indices: 3765388--3765919 Score: 494
Period size: 88 Copynumber: 6.1 Consensus size: 88
3765378 GTGAAGATAG
* * * * * * *
3765388 CAGATTTTACCTTCCTGCGCCGATAGCAAAGCAGATCGAAGATACCAGCCTTGCTTCTCTGGGTT
1 CAGATCTTACCTTCCTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
3765453 GCAGCGGAGCAGGTTAAAAATAA
66 GCAGCGGAGCAGGTTAAAAATAA
* * *
3765476 CAGATCTTGCCTTCTTGCGCCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAGGTT
1 CAGATCTTACCTTCCTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
*
3765541 GCAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAA
* * * * * *
3765564 CAGATCTTTCCTTCCTACACCGACAGCGAAGTAGATCGAAGACATCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTACCTTCCTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
*
3765629 GCAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAA
* * * * * * ** *
3765652 TAAATCTTGCCTTCCTGCTCCGACAGCAAAGCAGATCGAAGACTCCAGCCTTATCTCCCT-GAGC
1 CAGATCTTACCTTCCTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAG-GT
* * * * * *
3765716 AGTAGTGGAGTAGGTTGAAAATTA
65 TGCAGCGGAGCAGGTTAAAAATAA
* * ** * * * * * * * *
3765740 CAGATCTTATCTCCCTAAGCAG-TAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTG
1 CAGATCTTACCTTCCTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
* * * *
3765804 GCAGCAGAACAGGTTAAAGATAG
66 GCAGCGGAGCAGGTTAAAAATAA
** * * *
3765827 CAGATCTTACCTTCCTGTACTGACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTCA-GT
1 CAGATCTTACCTTCCTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT-AGGT
* * * * *
3765891 GGAAGTGGAGCAGGTTAAAGATTA
65 TGCAGCGGAGCAGGTTAAAAATAA
3765915 CAGAT
1 CAGAT
3765920 TTTATCTCCC
Statistics
Matches: 355, Mismatches: 85, Indels: 8
0.79 0.19 0.02
Matches are distributed among these distances:
87 60 0.17
88 295 0.83
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (88 bp):
CAGATCTTACCTTCCTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
GCAGCGGAGCAGGTTAAAAATAA
Found at i:3765552 original size:43 final size:43
Alignment explanation
Indices: 3765499--3765640 Score: 104
Period size: 43 Copynumber: 3.3 Consensus size: 43
3765489 CTTGCGCCGA
3765499 CAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAGGTTG
1 CAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAGGTTG
* * * * * * * * * ****
3765542 CAGCGGAGCAGGTTAAAAATAGCAGATCTTTCCTTCCTACACCG
1 CAGCGAAGCAGATCAAAGACACCAG-CCTTGCCTCCCTAGGTTG
* * * *
3765586 ACAGCGAAGTAGATCGAAGACATCAGCCTTGCCTCCCTGGGTTG
1 -CAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAGGTTG
*
3765630 CAGCGGAGCAG
1 CAGCGAAGCAG
3765641 GTTAAAAATA
Statistics
Matches: 66, Mismatches: 31, Indels: 4
0.65 0.31 0.04
Matches are distributed among these distances:
43 28 0.42
44 21 0.32
45 17 0.26
ACGTcount: A:0.27, C:0.29, G:0.25, T:0.18
Consensus pattern (43 bp):
CAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAGGTTG
Found at i:3765678 original size:176 final size:175
Alignment explanation
Indices: 3765384--3765909 Score: 555
Period size: 176 Copynumber: 3.0 Consensus size: 175
3765374 ATCTGTGAAG
* * * * * * *
3765384 ATAGCAGAT-TTTACCTTCCTGCGCCGATAGCAAAGCAGATCGAAGATACCAGCCTTGCTTCTCT
1 ATAGCAGATCTTT-CCTTCCTACACCGATAGCGAAGTAGATCGAAGACA-CAGCCTTGCCTCCCT
* * *
3765448 GGGTTGCAGCGGAGCAGGTTAAAAATAACAGATCTTGCCTTCTTGCGCCGACAGCGAAGCAGATC
64 GGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCTCCGACAGCGAAGCAGATC
* * * *
3765513 AAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTAAAA
129 GAAGACACCAGCCTTGCCTCCCTAGGTAGAAGTGGAGCAGGTTAAAA
*
3765560 ATAGCAGATCTTTCCTTCCTACACCGACAGCGAAGTAGATCGAAGACATCAGCCTTGCCTCCCTG
1 ATAGCAGATCTTTCCTTCCTACACCGATAGCGAAGTAGATCGAAGACA-CAGCCTTGCCTCCCTG
* * *
3765625 GGTTGCAGCGGAGCAGGTTAAAAATAGTAAATCTTGCCTTCCTGCTCCGACAGCAAAGCAGATCG
65 GGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCTCCGACAGCGAAGCAGATCG
* ** * * *
3765690 AAGACTCCAGCCTTATCTCCCT-GAGCAGTAGTGGAGTAGGTTGAAAA
130 AAGACACCAGCCTTGCCTCCCTAG-GTAGAAGTGGAGCAGGTT-AAAA
* * * * *
3765737 TTA-CAGATCTTAT-CTCCCTA-AGC-AGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCC
1 ATAGCAGATCTT-TCCTTCCTACACCGA-TAGCGAAGTAGATCGAAGACAC-AGCCTTGCCTCCC
* * * * * * * *
3765798 TCGGTGGCAGCAGAACAGGTTAAAGATAGCAGATCTTACCTTCCTG-TACTGACAGTGAAGCAGA
63 TGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCT-CCGACAGCGAAGCAGA
* *
3765862 TCGAAGACACTAGCCTTGCCTCCCTCA-GTGGAAGTGGAGCAGGTTAAA
127 TCGAAGACACCAGCCTTGCCTCCCT-AGGTAGAAGTGGAGCAGGTTAAA
3765910 GATTACAGAT
Statistics
Matches: 292, Mismatches: 49, Indels: 20
0.81 0.14 0.06
Matches are distributed among these distances:
174 6 0.02
175 120 0.41
176 156 0.53
177 10 0.03
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (175 bp):
ATAGCAGATCTTTCCTTCCTACACCGATAGCGAAGTAGATCGAAGACACAGCCTTGCCTCCCTGG
GTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCTCCGACAGCGAAGCAGATCGA
AGACACCAGCCTTGCCTCCCTAGGTAGAAGTGGAGCAGGTTAAAA
Found at i:3765842 original size:175 final size:173
Alignment explanation
Indices: 3765420--3765951 Score: 586
Period size: 175 Copynumber: 3.0 Consensus size: 173
3765410 ATAGCAAAGC
* * * * *
3765420 AGATCGAAGATACCAGCCTTGCTTCTCTGGGTTGCAGCGGAGCAGGTTAAAAATAACAGATCTTG
1 AGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTG
* * * * * *
3765485 CCTTCTTGCGCCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCGGAG
66 CCTTCCTGCTCCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTA-GTAGAAGTGGAG
* * * * *
3765550 CAGGTTAAAAATAGCAGATCTT-TCCTTCCTACA-CCGACAGCGAAGT
130 CAGGTTAAAATTA-CAGATCTTAT-CTCCCTA-AGCAG-TAGCGGAGT
* *
3765596 AGATCGAAGACA-TCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGTAAATCTT
1 AGATCGAAGACACT-AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTT
* * ** * *
3765660 GCCTTCCTGCTCCGACAGCAAAGCAGATCGAAGACTCCAGCCTTATCTCCCTGAGCAGTAGTGGA
65 GCCTTCCTGCTCCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT-AGTAGAAGTGGA
*
3765725 GTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGT
129 GCAGGTT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGT
* * * * * * *
3765771 AGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCAGAACAGGTTAAAGATAGCAGATCTTA
1 AGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTG
* * * *
3765836 CCTTCCTG-TACTGACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTCAGTGGAAGTGGA
66 CCTTCCTGCT-CCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT-AGTAGAAGTGGA
* * *
3765900 GCAGGTTAAAGATTACAGATTTTATCTCCCTAAGCAGTAGTGGAGC
129 GCAGGTTAAA-ATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGT
3765946 AGATCG
1 AGATCG
3765952 CATCCAGCCT
Statistics
Matches: 300, Mismatches: 48, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
174 4 0.01
175 157 0.52
176 131 0.44
177 8 0.03
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (173 bp):
AGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTG
CCTTCCTGCTCCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGTAGAAGTGGAGC
AGGTTAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGT
Found at i:3766011 original size:44 final size:44
Alignment explanation
Indices: 3765962--3766059 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
3765952 CATCCAGCCT
* * * *
3765962 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
1 TATCTCCCTGGTCAACAGGGGAATAGGTTAAAGATTGAGAATCC
* * *
3766006 TATCTCCCTGGTCAATAGGGGAATATGTTAAAGATTGAGAATCT
1 TATCTCCCTGGTCAACAGGGGAATAGGTTAAAGATTGAGAATCC
3766050 TATCTCCCTG
1 TATCTCCCTG
3766060 AAGTTGCAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (44 bp):
TATCTCCCTGGTCAACAGGGGAATAGGTTAAAGATTGAGAATCC
Found at i:3766142 original size:44 final size:44
Alignment explanation
Indices: 3766045--3766156 Score: 138
Period size: 44 Copynumber: 2.5 Consensus size: 44
3766035 AAAGATTGAG
* * *
3766045 AATCTTATCTCCCTGAAGTTGCAATGGAGTAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAAT
*
3766089 AAT-TCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACA-
1 AATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCA-AT
* *
3766133 GATCTTATCTCTCTGAAGTTGCAG
1 AATCTTATCTCCCTGAAGTTGCAG
3766157 AGAGCAAATC
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 56 0.95
45 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAAT
Found at i:3767780 original size:14 final size:15
Alignment explanation
Indices: 3767746--3767780 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
3767736 TAAATCCATT
3767746 TTTATATTTAAGTAC
1 TTTATATTTAAGTAC
3767761 TTTATATTTAAGTA-
1 TTTATATTTAAGTAC
3767775 TTTATA
1 TTTATA
3767781 CAATAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (15 bp):
TTTATATTTAAGTAC
Found at i:3769527 original size:28 final size:27
Alignment explanation
Indices: 3769496--3769555 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
3769486 ACCAAAAATT
3769496 TATTTTAAAAATAAAAAAATAAAAAAAA
1 TATTTTAAAAAT-AAAAAATAAAAAAAA
*
3769524 TATTTTAAAAATAAAAAATAAAAAATA
1 TATTTTAAAAATAAAAAATAAAAAAAA
3769551 TATTT
1 TATTT
3769556 ATTATATTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 19 0.61
28 12 0.39
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (27 bp):
TATTTTAAAAATAAAAAATAAAAAAAA
Found at i:3773041 original size:24 final size:25
Alignment explanation
Indices: 3772994--3773054 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 25
3772984 GAAAAAGGAG
*
3772994 GAGAAGATGAAAGGGAAGAAGAAAATA
1 GAGAAGATGAAA--GAAGAAGAAAAAA
3773021 GAGAAGATGAAA-AAGAAGAAAAAA
1 GAGAAGATGAAAGAAGAAGAAAAAA
*
3773045 GAGAGGATGA
1 GAGAAGATGA
3773055 TGGCAAAGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 20 0.62
27 12 0.38
ACGTcount: A:0.61, C:0.00, G:0.33, T:0.07
Consensus pattern (25 bp):
GAGAAGATGAAAGAAGAAGAAAAAA
Found at i:3780923 original size:48 final size:48
Alignment explanation
Indices: 3780851--3780945 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
3780841 GGGAAGGACC
*
3780851 GTGCTAACTTCTTGCTACACAGGGAAAACAGTATCTAAATCTGGGATT
1 GTGCTAACTTCTTGCTACACAGGGAAAACAATATCTAAATCTGGGATT
* * *
3780899 GTGCTAACTTCTTGCTGCATAGGGAAAACAATATCTAAATTTGGGAT
1 GTGCTAACTTCTTGCTACACAGGGAAAACAATATCTAAATCTGGGAT
3780946 AGCACCTTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (48 bp):
GTGCTAACTTCTTGCTACACAGGGAAAACAATATCTAAATCTGGGATT
Found at i:3782843 original size:30 final size:31
Alignment explanation
Indices: 3782804--3782863 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
3782794 GGAGGTGGGA
*
3782804 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
3782835 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
3782864 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:3787011 original size:172 final size:172
Alignment explanation
Indices: 3786684--3787170 Score: 545
Period size: 172 Copynumber: 2.8 Consensus size: 172
3786674 AAAGCTAAGC
* * * *
3786684 ACAAAGCTTTACCTGCACATAATTTCGAGAACAA-TCTGAATCAATTACATCATCTGCTTCACAA
1 ACAAAGCTTTACCTGCACATAA-TTC-ACAACAATTC-AAATCAATTACATTATCTGTTTCACAA
* * * * *
3786748 TCTT-AAGTTCAAGAGATTCATAACAAAACCAAAGCAACCGGTTTATGAATTCTCTGAAGTTTAT
63 TCTTAAAGTTCAAGCGATTCATAA-TAAACCAAAGCAATCGGTTTATGAATTCTCAGAAGTTCAT
* * * * * *
3786812 TTCCAGTAG-AGATGCGATAATTAAAACTCCTGATAAATTGAAATAA
127 TT-CAATTGTAGATACGATAAATAAAACTCCGGACAAATTGAAATAA
* * *
3786858 ACAAAGCTTTACCTGCACATAATTCATTAACAATTCAAAGCAATTACATTATCTGTTTAACAATC
1 ACAAAGCTTTACCTGCACATAATTCA-CAACAATTCAAATCAATTACATTATCTGTTTCACAATC
*
3786923 TTAAAGTTCAA-CGATTCATAATAAACCAAAGGAATCGGTTTATGAATTCTCAGAAGTTCATTTC
65 TTAAAGTTCAAGCGATTCATAATAAACCAAAGCAATCGGTTTATGAATTCTCAGAAGTTCATTTC
* *
3786987 AATTGTAGATACGTTAAATAAAACTCCGGACAAATTGAAATGA
130 AATTGTAGATACGATAAATAAAACTCCGGACAAATTGAAATAA
* * * * **
3787030 ACAAAGCTTCACCAGCACATAATTCAACAGA-AATTCAAATAAATTACAGTATCCATTTCACAAT
1 ACAAAGCTTTACCTGCACATAATTC-ACA-ACAATTCAAATCAATTACATTATCTGTTTCACAAT
* * * * * *
3787094 CTTAAAGATCAAGCTG-TTCATAATAAATCAAAAGCAATCGGTTCATGATTTCTCGGAATTTCAT
64 CTTAAAGTTCAAGC-GATTCATAATAAA-CCAAAGCAATCGGTTTATGAATTCTCAGAAGTTCAT
3787158 TTCAATTGTAGAT
127 TTCAATTGTAGAT
3787171 TCCAAATTAA
Statistics
Matches: 268, Mismatches: 36, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
171 4 0.01
172 131 0.49
173 57 0.21
174 76 0.28
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (172 bp):
ACAAAGCTTTACCTGCACATAATTCACAACAATTCAAATCAATTACATTATCTGTTTCACAATCT
TAAAGTTCAAGCGATTCATAATAAACCAAAGCAATCGGTTTATGAATTCTCAGAAGTTCATTTCA
ATTGTAGATACGATAAATAAAACTCCGGACAAATTGAAATAA
Found at i:3799614 original size:31 final size:30
Alignment explanation
Indices: 3799573--3799741 Score: 98
Period size: 31 Copynumber: 5.5 Consensus size: 30
3799563 CCAAAGATAA
*
3799573 TATTATTTTAATAGTTATCTAAATAGTATTT
1 TATTAATTTAATA-TTATCTAAATAGTATTT
* *
3799604 TATTAATTTAATATTA---ATATGAGATATTA
1 TATTAATTTAATATTATCTAAAT-AG-TATTT
* * *
3799633 AATTTAATTTAATATTTATCTAGATAATATTT
1 TA-TTAATTTAATA-TTATCTAAATAGTATTT
* * **
3799665 TATTAATTTAATATTA-ATATGATA-TATCA
1 TATTAATTTAATATTATCTA-AATAGTATTT
* * *
3799694 AATTTAACTTAATATTTATCTAGATTA-TATTT
1 TA-TTAATTTAATA-TTATCTA-AATAGTATTT
3799726 TATTAATTTAATATTA
1 TATTAATTTAATATTA
3799742 ATGTGATTAA
Statistics
Matches: 106, Mismatches: 21, Indels: 23
0.71 0.14 0.15
Matches are distributed among these distances:
27 3 0.03
28 2 0.02
29 11 0.10
30 34 0.32
31 39 0.37
32 13 0.12
33 1 0.01
34 3 0.03
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (30 bp):
TATTAATTTAATATTATCTAAATAGTATTT
Found at i:3799645 original size:61 final size:60
Alignment explanation
Indices: 3799579--3799743 Score: 249
Period size: 61 Copynumber: 2.7 Consensus size: 60
3799569 ATAATATTAT
* *
3799579 TTTAATAGTTATCTAAATAGTATTTTATTAATTTAATATTAATATGAGATATTAAATTTAA
1 TTTAATATTTATCTAAATA-TATTTTATTAATTTAATATTAATATGAGATATCAAATTTAA
* *
3799640 TTTAATATTTATCTAGATAATATTTTATTAATTTAATATTAATATGATATATCAAATTTAA
1 TTTAATATTTATCTAAAT-ATATTTTATTAATTTAATATTAATATGAGATATCAAATTTAA
* *
3799701 CTTAATATTTATCTAGATTATATTTTATTAATTTAATATTAAT
1 TTTAATATTTATCTA-AATATATTTTATTAATTTAATATTAAT
3799744 GTGATTAATT
Statistics
Matches: 95, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
61 93 0.98
62 2 0.02
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (60 bp):
TTTAATATTTATCTAAATATATTTTATTAATTTAATATTAATATGAGATATCAAATTTAA
Found at i:3799750 original size:30 final size:30
Alignment explanation
Indices: 3799599--3799750 Score: 137
Period size: 30 Copynumber: 5.0 Consensus size: 30
3799589 ATCTAAATAG
*
3799599 TATTTTATTAATTTAATATTAATATGA-GA
1 TATTTTATTAATTTAATATTAATATGATTA
** * * *
3799628 TATTAAATTTAATTTAATATTTATCTAGATAA
1 TATTTTA-TTAATTTAATATTAATAT-GATTA
3799660 TATTTTATTAATTTAATATTAATATGA-TA
1 TATTTTATTAATTTAATATTAATATGATTA
*** * * *
3799689 TATCAAATTTAACTTAATATTTATCTAGATTA
1 TATTTTA-TTAATTTAATATTAATAT-GATTA
*
3799721 TATTTTATTAATTTAATATTAATGTGATTA
1 TATTTTATTAATTTAATATTAATATGATTA
3799751 ATTCTAATCC
Statistics
Matches: 95, Mismatches: 22, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
29 10 0.11
30 38 0.40
31 35 0.37
32 12 0.13
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.52
Consensus pattern (30 bp):
TATTTTATTAATTTAATATTAATATGATTA
Found at i:3800902 original size:9 final size:9
Alignment explanation
Indices: 3800890--3800966 Score: 109
Period size: 9 Copynumber: 8.6 Consensus size: 9
3800880 TCAATTCAGT
3800890 TAATTCGGG
1 TAATTCGGG
*
3800899 TAATTCGGT
1 TAATTCGGG
3800908 TAATTCGGG
1 TAATTCGGG
* *
3800917 TAATCCGGT
1 TAATTCGGG
*
3800926 TAATTCGGT
1 TAATTCGGG
3800935 TAATTCGGG
1 TAATTCGGG
*
3800944 TAATTCGGT
1 TAATTCGGG
3800953 TAATTCGGG
1 TAATTCGGG
3800962 TAATT
1 TAATT
3800967 TTTAACCAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 60 1.00
ACGTcount: A:0.23, C:0.12, G:0.26, T:0.39
Consensus pattern (9 bp):
TAATTCGGG
Found at i:3800920 original size:27 final size:27
Alignment explanation
Indices: 3800890--3800966 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
3800880 TCAATTCAGT
*
3800890 TAATTCGGGTAATTCGGTTAATTCGGG
1 TAATTCGGTTAATTCGGTTAATTCGGG
*
3800917 TAATCCGGTTAATTCGGTTAATTCGGG
1 TAATTCGGTTAATTCGGTTAATTCGGG
*
3800944 TAATTCGGTTAATTCGGGTAATT
1 TAATTCGGTTAATTCGGTTAATT
3800967 TTTAACCAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.23, C:0.12, G:0.26, T:0.39
Consensus pattern (27 bp):
TAATTCGGTTAATTCGGTTAATTCGGG
Found at i:3801361 original size:26 final size:25
Alignment explanation
Indices: 3801309--3801364 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
3801299 CACTTTTAAA
*
3801309 TAAACAGTTAATAGAATCATTTAGT
1 TAAACAGTTAATAGAATCAGTTAGT
*
3801334 TAAATCAGTTAATAGAA-CTAGTTGGT
1 TAAA-CAGTTAATAGAATC-AGTTAGT
3801360 TAAAC
1 TAAAC
3801365 CAGCCACTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (25 bp):
TAAACAGTTAATAGAATCAGTTAGT
Found at i:3808254 original size:24 final size:26
Alignment explanation
Indices: 3808227--3808276 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
3808217 ATTGAACCTG
3808227 TTTTTTTACTTTTAA-AATTT-TTTA
1 TTTTTTTACTTTTAATAATTTATTTA
*
3808251 TTTTTTTATTTTTAATAATTTATTTA
1 TTTTTTTACTTTTAATAATTTATTTA
3808277 ATTAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 14 0.61
25 5 0.22
26 4 0.17
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (26 bp):
TTTTTTTACTTTTAATAATTTATTTA
Found at i:3808874 original size:25 final size:24
Alignment explanation
Indices: 3808824--3808876 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
3808814 TTTTGATAAT
*
3808824 AATAAAAATTTTAAATTTAATATTA
1 AATAAAAA-TTTAAATTAAATATTA
*
3808849 AATAAAAA-TTAAATTAAATTATTT
1 AATAAAAATTTAAATTAAA-TATTA
3808873 AATA
1 AATA
3808877 TTATTTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 9 0.36
24 8 0.32
25 8 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
AATAAAAATTTAAATTAAATATTA
Found at i:3809388 original size:33 final size:33
Alignment explanation
Indices: 3809346--3809414 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
3809336 TATAAGTACG
3809346 TTTGCAAATATGGTTGGTAAGATGTATATATGT
1 TTTGCAAATATGGTTGGTAAGATGTATATATGT
3809379 TTTGCAAATATGGTTGGTAAGATGTATATATGT
1 TTTGCAAATATGGTTGGTAAGATGTATATATGT
3809412 TTT
1 TTT
3809415 AATTAAACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.45
Consensus pattern (33 bp):
TTTGCAAATATGGTTGGTAAGATGTATATATGT
Found at i:3810705 original size:16 final size:17
Alignment explanation
Indices: 3810674--3810707 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
3810664 AAAGTTTTTG
3810674 AAAATTTTAATTAAATTT
1 AAAATTTT-ATTAAATTT
3810692 AAAATTTT-TTAAATTT
1 AAAATTTTATTAAATTT
3810708 CTCATTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAAATTTTATTAAATTT
Found at i:3811670 original size:54 final size:52
Alignment explanation
Indices: 3811612--3811783 Score: 181
Period size: 54 Copynumber: 3.2 Consensus size: 52
3811602 AATTCTAAAA
3811612 AAATTTAAAGAAATATATAAAAATACATAAATATTTTTCAAAAAATATAATAAT
1 AAATTTAAA-AAATATATAAAAATA-ATAAATATTTTTCAAAAAATATAATAAT
* * *
3811666 AAATTTAAAATATATATGAATAAA-AAT-AATATTGTTGACAAAAAACATTAATATAT
1 AAATTTAAAAAATATAT-AA-AAATAATAAATATT-TT-TCAAAAAATA-TAATA-AT
*
3811722 AAAAATTTTAAAAATATATAAAAATAAATAAATA-TTTTC-AAAAATATAATAAT
1 --AAATTTAAAAAATATATAAAAAT-AATAAATATTTTTCAAAAAATATAATAAT
3811775 AAATTTAAA
1 AAATTTAAA
3811784 TTTTTATATT
Statistics
Matches: 99, Mismatches: 8, Indels: 25
0.75 0.06 0.19
Matches are distributed among these distances:
51 8 0.08
52 6 0.06
53 13 0.13
54 25 0.25
55 14 0.14
56 6 0.06
57 4 0.04
58 19 0.19
59 4 0.04
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (52 bp):
AAATTTAAAAAATATATAAAAATAATAAATATTTTTCAAAAAATATAATAAT
Found at i:3811743 original size:10 final size:10
Alignment explanation
Indices: 3811715--3811753 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
3811705 AAAAAACATT
3811715 AATATATAAA
1 AATATATAAA
*
3811725 AAT-TTTAAA
1 AATATATAAA
3811734 AATATATAAA
1 AATATATAAA
*
3811744 AATAAATAAA
1 AATATATAAA
3811754 TATTTTCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
AATATATAAA
Found at i:3811747 original size:29 final size:32
Alignment explanation
Indices: 3811715--3811778 Score: 89
Period size: 29 Copynumber: 2.1 Consensus size: 32
3811705 AAAAAACATT
*
3811715 AATATATAAAAATTTT-AAAAATAT-ATAA-A
1 AATAAATAAAAATTTTCAAAAATATAATAATA
*
3811744 AATAAATAAATATTTTCAAAAATATAATAATA
1 AATAAATAAAAATTTTCAAAAATATAATAATA
3811776 AAT
1 AAT
3811779 TTAAATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 14 0.47
30 8 0.27
31 4 0.13
32 4 0.13
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (32 bp):
AATAAATAAAAATTTTCAAAAATATAATAATA
Found at i:3811777 original size:28 final size:29
Alignment explanation
Indices: 3811714--3811787 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 29
3811704 CAAAAAACAT
*
3811714 TAATATATAAAAATTTTAAAAATATATAA
1 TAATAAATAAAAATTTTAAAAATATATAA
* * *
3811743 AAATAAATAAATATTTTCAAAA-ATATAA
1 TAATAAATAAAAATTTTAAAAATATATAA
**
3811771 TAATAAATTTAAATTTT
1 TAATAAATAAAAATTTT
3811788 TATATTAATA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (29 bp):
TAATAAATAAAAATTTTAAAAATATATAA
Found at i:3811798 original size:6 final size:6
Alignment explanation
Indices: 3811789--3811813 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3811779 TTAAATTTTT
3811789 ATATTA ATATTA ATATTA ATATTA A
1 ATATTA ATATTA ATATTA ATATTA A
3811814 ATAAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATATTA
Found at i:3813486 original size:21 final size:21
Alignment explanation
Indices: 3813456--3813495 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3813446 GAGCTTGCCT
* *
3813456 TTATTTTTTTATTTTTAAATC
1 TTATTATTTTAATTTTAAATC
3813477 TTATTATTTTAATTTTAAA
1 TTATTATTTTAATTTTAAA
3813496 AAGATATTTG
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:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATTATTTTAATTTTAAATC
Found at i:3818837 original size:16 final size:15
Alignment explanation
Indices: 3818813--3818846 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
3818803 AGATTAATTT
3818813 TATTTAAAATTAAAA
1 TATTTAAAATTAAAA
*
3818828 TATTTGAAAATTATAA
1 TATTT-AAAATTAAAA
3818844 TAT
1 TAT
3818847 ACCAAATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
TATTTAAAATTAAAA
Found at i:3819074 original size:24 final size:27
Alignment explanation
Indices: 3819043--3819101 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
3819033 TATCGGATTA
3819043 ATTATTTA-ATATA-AA-T-ATATAATT
1 ATTATTTACATATATAATTAATATAA-T
3819067 ATTATTTATCATATATAATTAATATAAT
1 ATTATTTA-CATATATAATTAATATAAT
3819095 ATTATTT
1 ATTATTT
3819102 TATAACATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
24 8 0.27
26 5 0.17
27 2 0.07
28 9 0.30
29 6 0.20
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (27 bp):
ATTATTTACATATATAATTAATATAAT
Found at i:3825693 original size:14 final size:14
Alignment explanation
Indices: 3825676--3825712 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
3825666 ATATACAAAA
3825676 ACATATAAATACAT
1 ACATATAAATACAT
*
3825690 ACATATAAATATAT
1 ACATATAAATACAT
*
3825704 ACTTATAAA
1 ACATATAAA
3825713 AATAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (14 bp):
ACATATAAATACAT
Found at i:3825915 original size:3 final size:3
Alignment explanation
Indices: 3825904--3825956 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
3825894 CAATAATACC
* * *
3825904 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
3825949 AAT AAT AA
1 AAT AAT AA
3825957 AGTTAACAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 1 0.02
3 41 0.98
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:3827705 original size:87 final size:84
Alignment explanation
Indices: 3827614--3827874 Score: 219
Period size: 87 Copynumber: 3.0 Consensus size: 84
3827604 ATCTACTCTA
3827614 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA-CTTCAGGGAGATAG
1 CTGTAACTTCAGAGAGATAAGATCC-TT-TTTTAATCCGCTCCACTGTAATC-TCAGGGAGATAG
3827678 GATTATATCTTCGATCTGCTCCG
63 GATTATATCTT-GATCTGCTCCG
* * * *** * *
3827701 CTGTAACCTCAGGGAGACAAGATCTGCATTTCTTCGGTCTGTTCCACTGTAATCTCAGGGAGATA
1 CTGTAACTTCAGAGAGATAAGATC--C-TTT-TTTAATCCGCTCCACTGTAATCTCAGGGAGATA
* * * * * **
3827766 AGACCT-GAT-GTGATCTTCTCTA
62 GGA-TTATATCTTGATCTGCTCCG
* *
3827788 CTGTAACTTCAGAGAGATAAGATCC---TTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGAT
1 CTGTAACTTCAGAGAGATAAGATCCTTTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGAT
*
3827850 TACTATCTTTGATCTGCTTCG
66 TA-TATC-TTGATCTGCTCCG
3827871 CTGT
1 CTGT
3827875 TAATGCAGGA
Statistics
Matches: 131, Mismatches: 34, Indels: 22
0.70 0.18 0.12
Matches are distributed among these distances:
79 1 0.01
80 28 0.21
81 2 0.02
83 12 0.09
85 1 0.01
87 50 0.38
88 2 0.02
89 33 0.25
90 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (84 bp):
CTGTAACTTCAGAGAGATAAGATCCTTTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGAT
TATATCTTGATCTGCTCCG
Found at i:3827740 original size:174 final size:169
Alignment explanation
Indices: 3827478--3827874 Score: 512
Period size: 174 Copynumber: 2.3 Consensus size: 169
3827468 TCTTCGATCT
* ** * ** * * *
3827478 GCTCCGCTGTAATCTCGGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCACTGTAACTTCAGGG
1 GCTCCACTGTAATCTCAAGGAGATAGGAT-TACTATCTTCGATCTGCTCCGCTGTAACCTCAGGG
*
3827542 GATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATC
65 GACAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATC
3827607 TACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
130 TACTCTACTGTAACTTCAGAGAGATAAGATCC-----TTTAATCC
*
3827652 GCTCCACTGTAA-CTTCAGGGAGATAGGATTA-TATCTTCGATCTGCTCCGCTGTAACCTCAGGG
1 GCTCCACTGTAATC-TCAAGGAGATAGGATTACTATCTTCGATCTGCTCCGCTGTAACCTCAGGG
* ** * * *
3827715 AGACAAGATCTGCATTTCTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGAT
65 -GACAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGAT
*
3827780 CTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCC
129 CTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCC
* * *
3827821 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTTCGCTGT
1 GCTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTCGATCTGCTCCGCTGT
3827875 TAATGCAGGA
Statistics
Matches: 198, Mismatches: 20, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
169 35 0.18
170 21 0.11
173 29 0.15
174 113 0.57
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (169 bp):
GCTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTCGATCTGCTCCGCTGTAACCTCAGGGG
ACAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCT
ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCC
Found at i:3827751 original size:46 final size:43
Alignment explanation
Indices: 3827436--3827768 Score: 212
Period size: 43 Copynumber: 7.6 Consensus size: 43
3827426 TTTTAACCCA
* * *
3827436 CTCCACTGTAACTTCAGGGAGATAGGA-TAGTGTCTTCGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATTA-TATCTTCGATCTG
* * * * ** *
3827479 CTCCGCTGTAATCTCGGGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGAT-TATATCTTCGATCTG
* * *
3827523 CTCCACTGTAACTTCAGGG-GATAAGATCTGCA-ATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGAT-T--ATA-TCTTCGATCTG
* * * * *
3827568 CTCCACTGTAACCTCAGAGAGATAAGACCT-GA--TGCGATCTA
1 CTCCACTGTAACCTCAGGGAGATAAGA-TTATATCTTCGATCTG
* * * * ** *
3827609 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTAT-TTTAATCCG
1 CTCCACTGTAACCTCAGGGAGATAAGAT--TATATCTTCGATCTG
* *
3827653 CTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATTATATCTTCGATCTG
* * * *
3827696 CTCCGCTGTAACCTCAGGGAGACAAGATCTGCATTTCTTCGGTCTG
1 CTCCACTGTAACCTCAGGGAGATAAGAT-T--ATATCTTCGATCTG
* *
3827742 TTCCACTGTAATCTCAGGGAGATAAGA
1 CTCCACTGTAACCTCAGGGAGATAAGA
3827769 CCTGATGTGA
Statistics
Matches: 225, Mismatches: 49, Indels: 29
0.74 0.16 0.10
Matches are distributed among these distances:
41 32 0.14
42 5 0.02
43 63 0.28
44 57 0.25
45 25 0.11
46 43 0.19
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (43 bp):
CTCCACTGTAACCTCAGGGAGATAAGATTATATCTTCGATCTG
Found at i:3827805 original size:41 final size:41
Alignment explanation
Indices: 3827518--3827809 Score: 167
Period size: 41 Copynumber: 6.8 Consensus size: 41
3827508 TCTGGCTTCA
* *
3827518 ATCTGCTCCACTGTAACTTCAG-GGGATAAGATCTGCAATTCTTCG
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGACCTG--A-T-TT-G
* * * **
3827563 GTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCG
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGACCTGATTTG
* * * *
3827604 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGA-CC-TGA-TTTG
* * * * *
3827648 ATCCGCTCCACTGTAACTTCAGGGAGATAGGA-TTATATCTTCG
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGACCT-GAT-TT-G
* * * * *
3827691 ATCTGCTCCGCTGTAACCTCAGGGAGACAAGATCTGCATTTCTTCG
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGACCTG-A--T-TT-G
* * * *
3827737 GTCTGTTCCACTGTAA-TCTCAGGGAGATAAGACCTGATGTG
1 ATCTGCTCCACTGTAACT-TCAGAGAGATAAGACCTGATTTG
* *
3827778 ATCTTCTCTACTGTAACTTCAGAGAGATAAGA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGA
3827810 TCCTTTAATC
Statistics
Matches: 194, Mismatches: 40, Indels: 30
0.73 0.15 0.11
Matches are distributed among these distances:
41 58 0.30
42 8 0.04
43 31 0.16
44 31 0.16
45 20 0.10
46 46 0.24
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (41 bp):
ATCTGCTCCACTGTAACTTCAGAGAGATAAGACCTGATTTG
Found at i:3829150 original size:1 final size:1
Alignment explanation
Indices: 3829144--3829170 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
3829134 CTCTCCAAAG
3829144 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
3829171 AGGAAGCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:3840687 original size:3 final size:3
Alignment explanation
Indices: 3840676--3840728 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
3840666 CAATAATACC
* * *
3840676 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
3840721 AAT AAT AA
1 AAT AAT AA
3840729 AGTTAACAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 1 0.02
3 41 0.98
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:3842479 original size:10 final size:11
Alignment explanation
Indices: 3842451--3842478 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
3842441 TTCTTTTAAC
3842451 TTTTTTTCTTT
1 TTTTTTTCTTT
3842462 TTTTTTTCTTT
1 TTTTTTTCTTT
3842473 TTTTTT
1 TTTTTT
3842479 CCATTCTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:3842603 original size:15 final size:15
Alignment explanation
Indices: 3842577--3842613 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
3842567 CATGGTATGA
3842577 GTTTAT-GGGTTTTG
1 GTTTATAGGGTTTTG
3842591 GTTTATAGGGTTTTG
1 GTTTATAGGGTTTTG
3842606 G-TTATAGG
1 GTTTATAGG
3842614 CAAATGATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.14, C:0.00, G:0.35, T:0.51
Consensus pattern (15 bp):
GTTTATAGGGTTTTG
Found at i:3858933 original size:30 final size:30
Alignment explanation
Indices: 3858892--3859033 Score: 266
Period size: 30 Copynumber: 4.7 Consensus size: 30
3858882 CATATTTATG
* *
3858892 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATATTA
3858922 GAAAGTCAAAGATATGGGTATCAAATATTA
1 GAAAGTCAAAGATATGGGTATCAAATATTA
3858952 GAAAGTCAAAGATATGGGTATCAAATATTA
1 GAAAGTCAAAGATATGGGTATCAAATATTA
3858982 GAAAGTCAAAGATATGGGTATCAAATATTA
1 GAAAGTCAAAGATATGGGTATCAAATATTA
3859012 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
3859034 GAGATATTGG
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 110 1.00
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.25
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATATTA
Found at i:3863659 original size:30 final size:30
Alignment explanation
Indices: 3863614--3863695 Score: 119
Period size: 30 Copynumber: 2.7 Consensus size: 30
3863604 CATATTTATG
* * *
3863614 GAAAATCAAATATATGAGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
3863644 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
3863674 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
3863696 GAGATATTGG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.48, C:0.07, G:0.20, T:0.26
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:3878605 original size:21 final size:21
Alignment explanation
Indices: 3878579--3878633 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
3878569 AATAGCGGTG
*
3878579 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
3878600 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
3878621 GCAGTGAGATTAG
1 GCGGTGAGATTAG
3878634 AAACAGCGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:3882825 original size:25 final size:25
Alignment explanation
Indices: 3882777--3882826 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
3882767 AGAAGAGAAC
3882777 ATGAAGAACGAAAGAAGAAAAAGGA
1 ATGAAGAACGAAAGAAGAAAAAGGA
*
3882802 ATGAAGAACGAAAGAAGGAAAAGGA
1 ATGAAGAACGAAAGAAGAAAAAGGA
3882827 GCCTTACCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.62, C:0.04, G:0.30, T:0.04
Consensus pattern (25 bp):
ATGAAGAACGAAAGAAGAAAAAGGA
Found at i:3883173 original size:49 final size:48
Alignment explanation
Indices: 3883081--3883177 Score: 140
Period size: 49 Copynumber: 2.0 Consensus size: 48
3883071 TTTCTTTGCT
* **
3883081 TAAAAACGCCTAAGTCAGCCTAACTTGCAGTGATAAAGGATTCAACAG
1 TAAAAACGCCTAAGTCAGCCTAACTCGCAACGATAAAGGATTCAACAG
* *
3883129 TAAAAATGCCTAAGTCAGCTTTAACTCGCAACGATAAAGGATTCAACAG
1 TAAAAACGCCTAAGTCAGC-CTAACTCGCAACGATAAAGGATTCAACAG
3883178 AATTCCCTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
48 18 0.42
49 25 0.58
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.22
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTCGCAACGATAAAGGATTCAACAG
Found at i:3883448 original size:36 final size:36
Alignment explanation
Indices: 3883403--3883475 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
3883393 TACAATTAAA
* *
3883403 AGCTGTATACAATTAGAACTCTAAGCTTACATAATT
1 AGCTATATACAATTAGAACTCTAAGATTACATAATT
*
3883439 AGCTATATACAATTAGAACTCTAAGATTCCATAATT
1 AGCTATATACAATTAGAACTCTAAGATTACATAATT
3883475 A
1 A
3883476 TATCTTCTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (36 bp):
AGCTATATACAATTAGAACTCTAAGATTACATAATT
Found at i:3890512 original size:12 final size:11
Alignment explanation
Indices: 3890486--3890530 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
3890476 TTTATTTTTA
3890486 TTTTAAAATAT
1 TTTTAAAATAT
3890497 TTTTAAAATGATT
1 TTTTAAAAT-A-T
* *
3890510 TTTTTATATAT
1 TTTTAAAATAT
3890521 TTTTAAAATA
1 TTTTAAAATA
3890531 AATTTTTGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 18 0.64
12 2 0.07
13 8 0.29
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:3891688 original size:24 final size:24
Alignment explanation
Indices: 3891642--3891689 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
3891632 TGTTTACCTT
* *
3891642 CGGTGAGGTTAAAAACAGCGGTGG
1 CGGTGAGATTAAAAACAACGGTGG
* *
3891666 CGGTGAGATTAGAAACAATGGTGG
1 CGGTGAGATTAAAAACAACGGTGG
3891690 AGTGTGTGTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.40, T:0.19
Consensus pattern (24 bp):
CGGTGAGATTAAAAACAACGGTGG
Found at i:3892270 original size:19 final size:18
Alignment explanation
Indices: 3892248--3892286 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
3892238 TGTGTTCTCT
*
3892248 TTTAATTGTGGGGCTATCA
1 TTTAA-TGTAGGGCTATCA
*
3892267 TTTAATGTAGGTCTATCA
1 TTTAATGTAGGGCTATCA
3892285 TT
1 TT
3892287 AGTTTAACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.23, C:0.10, G:0.21, T:0.46
Consensus pattern (18 bp):
TTTAATGTAGGGCTATCA
Found at i:3892898 original size:10 final size:11
Alignment explanation
Indices: 3892880--3892909 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
3892870 TTTCTTAATG
3892880 TATTTTTTTGC
1 TATTTTTTTGC
*
3892891 TATTTTTTTGT
1 TATTTTTTTGC
3892902 TATTTTTT
1 TATTTTTT
3892910 CACCATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.10, C:0.03, G:0.07, T:0.80
Consensus pattern (11 bp):
TATTTTTTTGC
Found at i:3894196 original size:3 final size:3
Alignment explanation
Indices: 3894188--3894216 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3894178 CGAGAAATAT
3894188 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
3894217 GTCCCAGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:3897165 original size:8 final size:7
Alignment explanation
Indices: 3897155--3897179 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3897145 TAGTAAAATA
3897155 AAAAAAG
1 AAAAAAG
3897162 AAAAAAG
1 AAAAAAG
3897169 AAAAAAG
1 AAAAAAG
3897176 AAAA
1 AAAA
3897180 GGGTTCCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:3904008 original size:3 final size:3
Alignment explanation
Indices: 3904002--3904036 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
3903992 AAAGTAAGAA
3904002 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
3904037 AAAAGAGTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:3908316 original size:19 final size:19
Alignment explanation
Indices: 3908288--3908334 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
3908278 AAATATTAAT
*
3908288 TTTTTAAATAATTTTTAT-A
1 TTTTT-AATAATTTTAATGA
*
3908307 CTTTTTAATAGTTTTAATGA
1 -TTTTTAATAATTTTAATGA
3908327 TTTTTAAT
1 TTTTTAAT
3908335 TTTAAGAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (19 bp):
TTTTTAATAATTTTAATGA
Found at i:3908902 original size:56 final size:56
Alignment explanation
Indices: 3908794--3908915 Score: 140
Period size: 56 Copynumber: 2.2 Consensus size: 56
3908784 TTATTAATAT
* *
3908794 AAATAATAAATAATTTAATCATATTTTAACATAATTATTATTAAATATAATTTAATA
1 AAATAATAAATAATTTAATAAAATTTTAACATAATTATTATT-AATATAATTTAATA
* * * *
3908851 AAA-AATATATAATTTAATAAAATTCTTAATATAATTATTCTT-ATATGAATTTACTA
1 AAATAATAAATAATTTAATAAAATT-TTAACATAATTATTATTAATAT-AATTTAATA
*
3908907 AAATCATAA
1 AAATAATAA
3908916 TATATAACGC
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
55 4 0.07
56 29 0.54
57 21 0.39
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.43
Consensus pattern (56 bp):
AAATAATAAATAATTTAATAAAATTTTAACATAATTATTATTAATATAATTTAATA
Found at i:3912124 original size:44 final size:43
Alignment explanation
Indices: 3912012--3912175 Score: 184
Period size: 43 Copynumber: 3.8 Consensus size: 43
3912002 AAGGTCAGGG
* * *
3912012 TCTTTAGCGGCGCTTATTCCTCAAACGCCACTAAAAATCATGT
1 TCTTTAGCGGCGCTTTTTCCACAAACGCCACTAAAGATCATGT
* * *
3912055 TCTTTGGCGGCGCTTTCTCCACAAACGCCACTAAAGGTCATGT
1 TCTTTAGCGGCGCTTTTTCCACAAACGCCACTAAAGATCATGT
** * * *
3912098 TCTTTTAGCGGCGCTTTTTTGACAAACGCCGCTAAAGACCATGA
1 TC-TTTAGCGGCGCTTTTTCCACAAACGCCACTAAAGATCATGT
* ** *
3912142 CCTTTAGCGGCGCTTTTTTTAAAAACGCCACTAA
1 TCTTTAGCGGCGCTTTTTCCACAAACGCCACTAA
3912176 TTTTGATAGA
Statistics
Matches: 102, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
43 68 0.67
44 34 0.33
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (43 bp):
TCTTTAGCGGCGCTTTTTCCACAAACGCCACTAAAGATCATGT
Found at i:3912133 original size:87 final size:86
Alignment explanation
Indices: 3911999--3912175 Score: 201
Period size: 87 Copynumber: 2.0 Consensus size: 86
3911989 AAAAATTCCG
* * ** *
3911999 CTAAAGGTCAGGGTCTTTAGCGGCGCTTATTCCTCAAACGCCACTAAAAATCATGTTCTTTGGCG
1 CTAAAGGTCAGGGTCTTTAGCGGCGCTTATTCCACAAACGCCACTAAAAACCATGACCTTTAGCG
*
3912064 GCGCTTTCTCCACAAACGCCA
66 GCGCTTTCTCCAAAAACGCCA
* * * ** * *
3912085 CTAAAGGTCATGTTCTTTTAGCGGCGCTTTTTTGACAAACGCCGCTAAAGACCATGACCTTTAGC
1 CTAAAGGTCAGGGTC-TTTAGCGGCGCTTATTCCACAAACGCCACTAAAAACCATGACCTTTAGC
* **
3912150 GGCGCTTTTTTTAAAAACGCCA
65 GGCGCTTTCTCCAAAAACGCCA
3912172 CTAA
1 CTAA
3912176 TTTTGATAGA
Statistics
Matches: 74, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
86 13 0.18
87 61 0.82
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (86 bp):
CTAAAGGTCAGGGTCTTTAGCGGCGCTTATTCCACAAACGCCACTAAAAACCATGACCTTTAGCG
GCGCTTTCTCCAAAAACGCCA
Found at i:3914295 original size:9 final size:9
Alignment explanation
Indices: 3914281--3914375 Score: 69
Period size: 9 Copynumber: 11.2 Consensus size: 9
3914271 ATAATGTAAT
3914281 TAAGTTATG
1 TAAGTTATG
*
3914290 TAAGTTGTG
1 TAAGTTATG
3914299 T-A-TTAT-
1 TAAGTTATG
*
3914305 TAAAGTTAAG
1 T-AAGTTATG
3914315 T-A-TTATG
1 TAAGTTATG
* *
3914322 TCAGTTATT
1 TAAGTTATG
3914331 TAAGTTATG
1 TAAGTTATG
**
3914340 TAAGTGGTG
1 TAAGTTATG
3914349 T-A-TTATG
1 TAAGTTATG
*
3914356 TAAGTTAAG
1 TAAGTTATG
3914365 TAAGTTATG
1 TAAGTTATG
3914374 TA
1 TA
3914376 GGCTATGTAT
Statistics
Matches: 65, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
6 1 0.02
7 12 0.18
8 6 0.09
9 45 0.69
10 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:3914310 original size:25 final size:24
Alignment explanation
Indices: 3914279--3914375 Score: 90
Period size: 25 Copynumber: 3.9 Consensus size: 24
3914269 GTATAATGTA
* *
3914279 ATTAAGTTATGTAAGTTGTGTATT
1 ATTAAGTTAAGTAAGTTATGTATT
3914303 ATTAAAGTTAAGT-A-TTATGTCAGTT
1 ATT-AAGTTAAGTAAGTTATGT-A-TT
* **
3914328 ATTTAAGTTATGTAAGTGGTGTATT
1 A-TTAAGTTAAGTAAGTTATGTATT
3914353 ATGTAAGTTAAGTAAGTTATGTA
1 AT-TAAGTTAAGTAAGTTATGTA
3914376 GGCTATGTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
23 5 0.09
24 6 0.10
25 39 0.67
26 4 0.07
27 4 0.07
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.45
Consensus pattern (24 bp):
ATTAAGTTAAGTAAGTTATGTATT
Found at i:3914385 original size:34 final size:34
Alignment explanation
Indices: 3914314--3914420 Score: 91
Period size: 34 Copynumber: 3.3 Consensus size: 34
3914304 TTAAAGTTAA
* ** *
3914314 GTATTATGTCAGTTATTTAAGTTATGTAAGTGGT
1 GTATTATGTAAGTTAAGTAAGTTATGTAAGTGAT
*
3914348 GTATTATGTAAGTTAAGTAAGTTATGTAGGCT-AT
1 GTATTATGTAAGTTAAGTAAGTTATGTAAG-TGAT
* * *
3914382 GTATTACGCAAGTT-A-T---TTATGTAAGTGGT
1 GTATTATGTAAGTTAAGTAAGTTATGTAAGTGAT
3914411 GTATTATGTA
1 GTATTATGTA
3914421 TTATCTAAGT
Statistics
Matches: 60, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
28 1 0.02
29 17 0.28
32 1 0.02
33 1 0.02
34 39 0.65
35 1 0.02
ACGTcount: A:0.29, C:0.04, G:0.23, T:0.44
Consensus pattern (34 bp):
GTATTATGTAAGTTAAGTAAGTTATGTAAGTGAT
Found at i:3914598 original size:9 final size:9
Alignment explanation
Indices: 3914586--3914971 Score: 126
Period size: 9 Copynumber: 44.7 Consensus size: 9
3914576 GATAAATTTG
3914586 AGTTATGTA
1 AGTTATGTA
3914595 AGTTATGATA
1 AGTTATG-TA
* *
3914605 TGATT-TATA
1 AG-TTATGTA
3914614 AGTTATGT-
1 AGTTATGTA
* **
3914622 A-TAATACA
1 AGTTATGTA
*
3914630 AGTTATGAA
1 AGTTATGTA
3914639 AGTTATGT-
1 AGTTATGTA
*
3914647 A-TCATGTA
1 AGTTATGTA
*
3914655 ATTTATGTA
1 AGTTATGTA
*
3914664 AGTTGTGT-
1 AGTTATGTA
*
3914672 A-TTATGCA
1 AGTTATGTA
*
3914680 AGTCATGTA
1 AGTTATGTA
* *
3914689 GGCTATGT-
1 AGTTATGTA
3914697 A-TTATGTA
1 AGTTATGTA
3914705 AGTTAT-TA
1 AGTTATGTA
*
3914713 TGTTATTATGTA
1 AG---TTATGTA
*
3914725 AGTTATGAA
1 AGTTATGTA
*
3914734 AGTTATATATA
1 AG-T-TATGTA
3914745 AGTTAT-TA
1 AGTTATGTA
**
3914753 A-AAATGT-
1 AGTTATGTA
3914760 A-TTATGTA
1 AGTTATGTA
*
3914768 ATTTATGTA
1 AGTTATGTA
*
3914777 AGTTGTGT-
1 AGTTATGTA
3914785 A-TTATGTA
1 AGTTATGTA
*
3914793 AGTCATGTA
1 AGTTATGTA
* *
3914802 GGCTATGT-
1 AGTTATGTA
3914810 A-TTATGTA
1 AGTTATGTA
*
3914818 AGTTATGAA
1 AGTTATGTA
*
3914827 AGTTTTATATA
1 AG--TTATGTA
*
3914838 AGTGAT-TA
1 AGTTATGTA
**
3914846 A-AAATGT-
1 AGTTATGTA
3914853 A-TTATGTA
1 AGTTATGTA
* *
3914861 ATTTATTTA
1 AGTTATGTA
3914870 AGTTATTATGTA
1 AG---TTATGTA
*
3914882 AGTTATGAA
1 AGTTATGTA
3914891 AGTTATGT-
1 AGTTATGTA
3914899 A-TTATGTA
1 AGTTATGTA
* *
3914907 ATTTATTTA
1 AGTTATGTA
3914916 AGTTATGTA
1 AGTTATGTA
*
3914925 AGTTGTGT-
1 AGTTATGTA
*
3914933 A-TTATGCA
1 AGTTATGTA
*
3914941 AGTCATGTA
1 AGTTATGTA
* *
3914950 GGCTATGT-
1 AGTTATGTA
3914958 A-TTATGTA
1 AGTTATGTA
3914966 AGTTAT
1 AGTTAT
3914972 TATGTTATTA
Statistics
Matches: 271, Mismatches: 68, Indels: 76
0.65 0.16 0.18
Matches are distributed among these distances:
7 56 0.21
8 30 0.11
9 149 0.55
10 6 0.02
11 19 0.07
12 11 0.04
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (9 bp):
AGTTATGTA
Found at i:3914660 original size:25 final size:25
Alignment explanation
Indices: 3914612--3914924 Score: 204
Period size: 25 Copynumber: 13.4 Consensus size: 25
3914602 ATATGATTTA
* **
3914612 TAAGTTATGTATAATACAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* * *
3914637 AAAGTTATGTATCATGTAATTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* * *
3914662 TAAGTTGTGTATTATGCAAGTCATG
1 TAAGTTATGTATTATGTAAGTTATG
* *
3914687 TAGGCTATGTATTATGTAAGTTAT-
1 TAAGTTATGTATTATGTAAGTTATG
*
3914711 T-A--TGT-TATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
*
3914732 AAAGTTA--TA-TA--TAAGTTAT-
1 TAAGTTATGTATTATGTAAGTTATG
** *
3914751 TAA-AAATGTATTATGTAATTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* *
3914775 TAAGTTGTGTATTATGTAAGTCATG
1 TAAGTTATGTATTATGTAAGTTATG
* *
3914800 TAGGCTATGTATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* *
3914825 AAAGTT-T-TA-TA--TAAGTGAT-
1 TAAGTTATGTATTATGTAAGTTATG
** * *
3914844 TAA-AAATGTATTATGTAATTTATT
1 TAAGTTATGTATTATGTAAGTTATG
3914868 TAAG---T-TATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* * *
3914889 AAAGTTATGTATTATGTAATTTATT
1 TAAGTTATGTATTATGTAAGTTATG
3914914 TAAGTTATGTA
1 TAAGTTATGTA
3914925 AGTTGTGTAT
Statistics
Matches: 218, Mismatches: 48, Indels: 44
0.70 0.15 0.14
Matches are distributed among these distances:
18 1 0.00
19 5 0.02
20 34 0.16
21 23 0.11
22 6 0.03
23 17 0.08
24 10 0.05
25 122 0.56
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.45
Consensus pattern (25 bp):
TAAGTTATGTATTATGTAAGTTATG
Found at i:3914721 original size:20 final size:20
Alignment explanation
Indices: 3914692--3914752 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
3914682 TCATGTAGGC
3914692 TATG-TATTATGTAAGTTAT
1 TATGTTATTATGTAAGTTAT
3914711 TATGTTATTATGTAAGTTAT
1 TATGTTATTATGTAAGTTAT
* * *
3914731 GAAAGTTA-TATATAAGTTAT
1 -TATGTTATTATGTAAGTTAT
3914751 TA
1 TA
3914753 AAAATGTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
TATGTTATTATGTAAGTTAT
Found at i:3914837 original size:93 final size:89
Alignment explanation
Indices: 3914711--3914921 Score: 287
Period size: 93 Copynumber: 2.3 Consensus size: 89
3914701 TGTAAGTTAT
*
3914711 TATGTTATTATGTAAGTTATGAAAGTTATATATAAGTTATTAAAAATGTATTATGTAATTTATGT
1 TATG-TATTATGTAAGTTATGAAAGTTATATATAAGTGATTAAAAATGTATTATGTAATTTATGT
* *
3914776 AAGTTGTGTATTATGTAAGTCATGTAGGC
65 AA---GT-TATTATGTAAGTCATGAAAGC
* *
3914805 TATGTATTATGTAAGTTATGAAAGTTTTATATAAGTGATTAAAAATGTATTATGTAATTTATTTA
1 TATGTATTATGTAAGTTATGAAAGTTATATATAAGTGATTAAAAATGTATTATGTAATTTATGTA
* *
3914870 AGTTATTATGTAAGTTATGAAAGT
66 AGTTATTATGTAAGTCATGAAAGC
* **
3914894 TATGTATTATGTAATTTATTTAAGTTAT
1 TATGTATTATGTAAGTTATGAAAGTTAT
3914922 GTAAGTTGTG
Statistics
Matches: 106, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
89 41 0.39
90 2 0.02
93 59 0.56
94 4 0.04
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (89 bp):
TATGTATTATGTAAGTTATGAAAGTTATATATAAGTGATTAAAAATGTATTATGTAATTTATGTA
AGTTATTATGTAAGTCATGAAAGC
Found at i:3914840 original size:113 final size:115
Alignment explanation
Indices: 3914643--3914907 Score: 342
Period size: 113 Copynumber: 2.3 Consensus size: 115
3914633 TATGAAAGTT
* *
3914643 ATGTATCATGTAATTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCTATGTATTATGTAAGT
1 ATGTATTATGTAATTTATGTAAGTTGTGTATTATGTAAGTCATGTAGGCTATGTATTATGTAAGT
* * * * * *
3914708 TATTATGTTATTATGTAAGTTA-TGAAAGT-TA-TATATAAGTTATTAAAA
66 TATAAAGTTATTATATAAGTGATTAAAAATGTATTATATAAGTTATT-AAA
3914756 ATGTATTATGTAATTTATGTAAGTTGTGTATTATGTAAGTCATGTAGGCTATGTATTATGTAAGT
1 ATGTATTATGTAATTTATGTAAGTTGTGTATTATGTAAGTCATGTAGGCTATGTATTATGTAAGT
* * *
3914821 TATGAAAGTT-TTATATAAGTGATTAAAAATGTATTATGTAATTTATTTAA
66 TAT-AAAGTTATTATATAAGTGATTAAAAATGTATTATATAAGTTATTAAA
* * * *
3914871 GT-TATTATGTAAGTTATGAAAGTTATGTATTATGTAA
1 ATGTATTATGTAATTTATGTAAGTTGTGTATTATGTAA
3914908 TTTATTTAAG
Statistics
Matches: 133, Mismatches: 15, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
113 76 0.57
114 41 0.31
115 5 0.04
116 11 0.08
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.45
Consensus pattern (115 bp):
ATGTATTATGTAATTTATGTAAGTTGTGTATTATGTAAGTCATGTAGGCTATGTATTATGTAAGT
TATAAAGTTATTATATAAGTGATTAAAAATGTATTATATAAGTTATTAAA
Found at i:3914876 original size:21 final size:21
Alignment explanation
Indices: 3914852--3914921 Score: 77
Period size: 21 Copynumber: 3.1 Consensus size: 21
3914842 ATTAAAAATG
3914852 TATTATGTAATTTATTTAAGT
1 TATTATGTAATTTATTTAAGT
* **
3914873 TATTATGTAAGTTATGAAAGTTAT
1 TATTATGTAATTTATTTAAG---T
3914897 GTATTATGTAATTTATTTAAGT
1 -TATTATGTAATTTATTTAAGT
3914919 TAT
1 TAT
3914922 GTAAGTTGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
21 20 0.51
22 1 0.03
24 1 0.03
25 17 0.44
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (21 bp):
TATTATGTAATTTATTTAAGT
Found at i:3914937 original size:25 final size:25
Alignment explanation
Indices: 3914884--3914971 Score: 72
Period size: 25 Copynumber: 3.5 Consensus size: 25
3914874 ATTATGTAAG
* *
3914884 TTATGAAAGTTATGT-A-TTATGTAA
1 TTATGTAAGTTATGTAAGCTATGT-A
* * *
3914908 TTTATTTAAGTTATGTAAGTTGTGTA
1 -TTATGTAAGTTATGTAAGCTATGTA
* * *
3914934 TTATGCAAGTCATGTAGGCTATGTA
1 TTATGTAAGTTATGTAAGCTATGTA
3914959 TTATGTAAGTTAT
1 TTATGTAAGTTAT
3914972 TATGTTATTA
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
25 43 0.86
26 2 0.04
27 5 0.10
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (25 bp):
TTATGTAAGTTATGTAAGCTATGTA
Found at i:3915073 original size:30 final size:31
Alignment explanation
Indices: 3915003--3915074 Score: 96
Period size: 30 Copynumber: 2.4 Consensus size: 31
3914993 AAAGTTATAT
*
3915003 ATAAGTTATTAAAAATATATATAAATTTTTA
1 ATAAGTTATTAAAAATATATATAAATTATTA
*
3915034 AT-A-TATATTAAAAATGTATATAAA-TATTA
1 ATAAGT-TATTAAAAATATATATAAATTATTA
3915063 ATAAGTTATTAA
1 ATAAGTTATTAA
3915075 GTTATATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
29 7 0.19
30 26 0.72
31 3 0.08
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (31 bp):
ATAAGTTATTAAAAATATATATAAATTATTA
Found at i:3915084 original size:23 final size:22
Alignment explanation
Indices: 3915057--3915101 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
3915047 ATGTATATAA
*
3915057 ATATTAATAAGTTATTAAGTTAT
1 ATATTAAAAAGTTA-TAAGTTAT
*
3915080 ATATTAAAAATTTATAAGTTAT
1 ATATTAAAAAGTTATAAGTTAT
3915102 GTAAATTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (22 bp):
ATATTAAAAAGTTATAAGTTAT
Found at i:3915097 original size:30 final size:30
Alignment explanation
Indices: 3915050--3915110 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
3915040 ATTAAAAATG
* *
3915050 TATATAAATATTAATAAGTTAT-TAAGTTA
1 TATATAAAAATTAATAAGTTATGTAAATTA
*
3915079 TATATTAAAAATTTATAAGTTATGTAAATTA
1 TATA-TAAAAATTAATAAGTTATGTAAATTA
3915110 T
1 T
3915111 GCAAGTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 4 0.15
30 16 0.59
31 7 0.26
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.46
Consensus pattern (30 bp):
TATATAAAAATTAATAAGTTATGTAAATTA
Found at i:3917655 original size:65 final size:65
Alignment explanation
Indices: 3917544--3917675 Score: 219
Period size: 65 Copynumber: 2.0 Consensus size: 65
3917534 AAAATATTAT
* * *
3917544 TTCATTTTGAACAAAATGACGCCGTTTTGCTATGCACAAAAATTTTTATTTTGTTTTTTTATAAA
1 TTCAATTTGAACAAAATGACGCAGTTTTACTATGCACAAAAATTTTTATTTTGTTTTTTTATAAA
* *
3917609 TTCAATTTGAACAAAATGATGCAGTTTTACTATGCACAAAATTTTTTATTTTGTTTTTTTATAAA
1 TTCAATTTGAACAAAATGACGCAGTTTTACTATGCACAAAAATTTTTATTTTGTTTTTTTATAAA
3917674 TT
1 TT
3917676 GATTTACTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.32, C:0.11, G:0.10, T:0.48
Consensus pattern (65 bp):
TTCAATTTGAACAAAATGACGCAGTTTTACTATGCACAAAAATTTTTATTTTGTTTTTTTATAAA
Found at i:3918437 original size:15 final size:15
Alignment explanation
Indices: 3918374--3918439 Score: 50
Period size: 14 Copynumber: 4.6 Consensus size: 15
3918364 AACCCCTAAA
3918374 CCTTAAATCCCA-AC-
1 CCTTAAA-CCCATACT
*
3918388 CCTTAAA-CCATAGT
1 CCTTAAACCCATACT
* * *
3918402 CCCT-AATCCATAAT
1 CCTTAAACCCATACT
*
3918416 CCCTAAACCCATACT
1 CCTTAAACCCATACT
3918431 CCTTAAACC
1 CCTTAAACC
3918440 TTAAAATATG
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.07
13 3 0.07
14 20 0.48
15 16 0.38
ACGTcount: A:0.35, C:0.39, G:0.02, T:0.24
Consensus pattern (15 bp):
CCTTAAACCCATACT
Found at i:3918747 original size:22 final size:21
Alignment explanation
Indices: 3918698--3918747 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
3918688 AAATATCAAC
3918698 CCTTAAACCATAATCCATAAT
1 CCTTAAACCATAATCCATAAT
* *
3918719 CCATAAACCCATACTCCAT-AT
1 CCTTAAA-CCATAATCCATAAT
3918740 ACCTTAAA
1 -CCTTAAA
3918748 AACCTAACTC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (21 bp):
CCTTAAACCATAATCCATAAT
Found at i:3919029 original size:115 final size:114
Alignment explanation
Indices: 3918822--3919380 Score: 646
Period size: 115 Copynumber: 4.9 Consensus size: 114
3918812 GTTTTTTTTT
* ** * * *
3918822 GCGGCGCTTTCTTAAAAAACGCCGCTAAATCCCCCAAAAGTTCAGAAAACGGCGTCGTTGGGTTT
1 GCGGCGCTTTCTTAAAAAACGCCACTAAAT-CTGCGAAAGCTCAGAAAACGGCGTCGTTGGGCTT
* * * * *
3918887 ATGTCTTTTTGCGGCGCTTCCTAAAAAACGCTGCTAAAGCCCTCAGCATTA
65 A-GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* *
3918938 GCGGCGCTTTATTAAGAAACGCCACTAAATCTGCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
1 GCGGCGCTTTCTTAAAAAACGCCACTAAATCTGCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
*
3919003 GTTTATTTTGCGGCGCTTTATCAAAAACGCCG-TAAAAGCCCTGAGCATTA
66 GTTT-TTTTGCGGCGCTTTCTCAAAAACGCCGCT-AAAGCCCTGAGCATTA
* ** *
3919053 GCGGCGC-TTCCT-AAAAACGCCACTAAATCCACGAATGCTCAGAAAACGGCGTCGTTGGGCTTA
1 GCGGCGCTTTCTTAAAAAACGCCACTAAATCTGCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
* * *
3919116 GTTTATTTTACGGCGC-TTCATCAAAAACGCCGCTAAAGCCCTTAGTATTA
66 GTTT-TTTTGCGGCGCTTTC-TCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * * **
3919166 GCGGCGCTTTCTTAAGAAACGCCGCTAAGTCCT-CAAAAGCTCAGAAAACGGCACCGTTGGGCTT
1 GCGGCGCTTTCTTAAAAAACGCCACTAAAT-CTGCGAAAGCTCAGAAAACGGCGTCGTTGGGCTT
* * * *
3919230 ATGTCTTTTTGCGGCGCTTTCTCAACAATGCCGCTAAAAGCCTTGAGCATTA
65 A-GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCT-AAAGCCCTGAGCATTA
* * * *
3919282 GCAGCGCTTAC-TAAAAAACGCCACTAAATCTGTGAAAGCTCAGAATACGGCGTCGTTGGGCTTA
1 GCGGCGCTTTCTTAAAAAACGCCACTAAATCTGCGAAAGCTCAGAAAACGGCGTCGTTGGGCTT-
* *
3919346 AG-TTTTTTGCGGCGCTTTCTGAAAAACGCTGCTAA
65 AGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAA
3919381 TGCTTTTTTT
Statistics
Matches: 376, Mismatches: 55, Indels: 27
0.82 0.12 0.06
Matches are distributed among these distances:
112 2 0.01
113 97 0.26
114 40 0.11
115 180 0.48
116 57 0.15
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (114 bp):
GCGGCGCTTTCTTAAAAAACGCCACTAAATCTGCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:3920107 original size:20 final size:20
Alignment explanation
Indices: 3920082--3920121 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
3920072 TCTTTGATAC
3920082 TTCAAAAAAAAATTTAAAGT
1 TTCAAAAAAAAATTTAAAGT
*
3920102 TTCAAAAAAAATTTTAAAGT
1 TTCAAAAAAAAATTTAAAGT
3920122 CAGTAGTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
TTCAAAAAAAAATTTAAAGT
Found at i:3920954 original size:16 final size:17
Alignment explanation
Indices: 3920933--3920970 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
3920923 AATATAAATT
*
3920933 AATATAATTATTATT-A
1 AATATAATTATAATTAA
3920949 AATAT-ATTATAATTAA
1 AATATAATTATAATTAA
3920965 AATATA
1 AATATA
3920971 TAATTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATAATTATAATTAA
Found at i:3920978 original size:14 final size:15
Alignment explanation
Indices: 3920929--3920980 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
3920919 GTAAAATATA
3920929 AATT-AATATAATTAT
1 AATTAAATAT-ATTAT
*
3920944 TATTAAATATATTAT
1 AATTAAATATATTAT
3920959 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
3920972 AATTTAATA
1 AATTAAATA
3920981 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 4 0.12
15 14 0.44
16 5 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:3920983 original size:59 final size:59
Alignment explanation
Indices: 3920920--3921119 Score: 160
Period size: 59 Copynumber: 3.3 Consensus size: 59
3920910 TATGATACTG
*
3920920 TAAAATATAAATTAATATAATTATTATTAAATATATTATAATTAAAATATATAATTTAA
1 TAAAATATAAATTAATATAATTATTATTAAATATATTATAATTAAAATATATGATTTAA
* * * * * *
3920979 TAAAATTCTTAA-TAAT-TAA-TATTCTTATATGA-ATTTACTCAAATCATAATATATGATATT-
1 TAAAA-TATAAATTAATATAATTATTATTAAAT-ATA-TTA-T--AATTAAAATATATGAT-TTA
3921039 A
59 A
* * * *
3921040 TAAAAGATAATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAA
1 TAAAATATAAATT-AATATAATTATTATTAAATATATTATAATTAAAATATATGATTTAA
* *
3921099 TAAAATTTAAAATAATTATAA
1 TAAAATATAAATTAA-TATAA
3921120 CTAATAAATT
Statistics
Matches: 105, Mismatches: 21, Indels: 29
0.68 0.14 0.19
Matches are distributed among these distances:
57 10 0.10
58 11 0.10
59 34 0.32
60 10 0.10
61 21 0.20
62 10 0.10
63 9 0.09
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.43
Consensus pattern (59 bp):
TAAAATATAAATTAATATAATTATTATTAAATATATTATAATTAAAATATATGATTTAA
Found at i:3921153 original size:47 final size:46
Alignment explanation
Indices: 3921087--3921253 Score: 146
Period size: 47 Copynumber: 3.6 Consensus size: 46
3921077 TTAATTAAAA
*
3921087 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTATCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTATCT
* * * * * *
3921134 TATATGAATTTGTATAATTTAAAATAATTATTATTACATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTATCT
* * * *
3921179 TA-AT-AATAATATATAATTTCATAA-AATTCTTAATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTATCT
*
3921225 TATATGAATTTATACAATTTAAAATAATT
1 TATATGAATTTATATAATTTAAAATAATT
3921254 CGGATCAATC
Statistics
Matches: 92, Mismatches: 20, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
43 3 0.03
44 15 0.16
45 14 0.15
46 13 0.14
47 40 0.43
48 7 0.08
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTATCT
Found at i:3921175 original size:26 final size:28
Alignment explanation
Indices: 3921146--3921217 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
3921136 TATGAATTTG
*
3921146 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
3921172 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
3921200 TAAAATTCTTAATAATAA
1 TATAA-T-TTAATAATAA
3921218 ATTTTCTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 10 0.26
27 6 0.15
28 12 0.31
29 1 0.03
30 10 0.26
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:3931287 original size:4 final size:4
Alignment explanation
Indices: 3931278--3931329 Score: 95
Period size: 4 Copynumber: 13.0 Consensus size: 4
3931268 CTTTTTCAGA
*
3931278 TATG TATG TATG TATG TATG TATG TATG TATG TATG AATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
3931326 TATG
1 TATG
3931330 ATCTTTTACT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (4 bp):
TATG
Found at i:3937075 original size:16 final size:16
Alignment explanation
Indices: 3937054--3937085 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
3937044 TTTGATTCAC
3937054 AGAGAATGGAATTTAT
1 AGAGAATGGAATTTAT
3937070 AGAGAATGGAATTTAT
1 AGAGAATGGAATTTAT
3937086 CTTTTTGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (16 bp):
AGAGAATGGAATTTAT
Found at i:3943056 original size:14 final size:15
Alignment explanation
Indices: 3943026--3943058 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3943016 TTTACACTGA
3943026 TTTTTTTAATTTAAT
1 TTTTTTTAATTTAAT
*
3943041 TTTTTTTCATTT-AT
1 TTTTTTTAATTTAAT
3943055 TTTT
1 TTTT
3943059 CTAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTTTAATTTAAT
Found at i:3953949 original size:46 final size:44
Alignment explanation
Indices: 3953573--3953952 Score: 182
Period size: 44 Copynumber: 8.8 Consensus size: 44
3953563 GACTTGATGC
* * * * * *
3953573 GATCTACTCTGCTGTAACCTCAGAGAGATAAGATCCTTTAT-TTT
1 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTATGTCTTT
* * * * * *
3953617 AATCCGCTCCACTGTAA-CTTCAGGGAGGTAGGA--TAGTGTCTTC
1 GATCTGCTCCGCTGTAATC-TCAGGGAGATAAGATCTA-TGTCTTT
**
3953660 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT-TCTCC
1 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT---ATGTCTTT
* * * * * *
3953706 GGTCTACTCCACTGTAACCTCAGGGAAATAAGACCTGATG----T
1 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT-ATGTCTTT
* ** *
3953747 GATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATC----T-TTT
1 GATCTGCTCCGCTGTAATC-TCAGGGAGATAAGATCTATGTCTTT
* * ** * * *
3953786 AATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-TACTATCTTT
1 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTA-TGTCTTT
* * *
3953830 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTC
1 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTATGTCTTT
* *
3953874 AATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTT
1 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT---ATGTCTTT
* * *
3953920 GGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
3953953 CCTGTATAAT
Statistics
Matches: 252, Mismatches: 59, Indels: 48
0.70 0.16 0.13
Matches are distributed among these distances:
39 25 0.10
40 2 0.01
41 28 0.11
42 2 0.01
43 30 0.12
44 95 0.38
45 2 0.01
46 65 0.26
47 2 0.01
48 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTATGTCTTT
Found at i:3970679 original size:24 final size:24
Alignment explanation
Indices: 3970643--3970698 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
3970633 GTAGGATATG
*
3970643 ATTCTGTATTTGATTATGCATCTA
1 ATTCTGTATTTGATCATGCATCTA
* *
3970667 ATTTTGTATTTGATCATGCATCTG
1 ATTCTGTATTTGATCATGCATCTA
3970691 ATTCTGTA
1 ATTCTGTA
3970699 CCTGAACTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.23, C:0.12, G:0.14, T:0.50
Consensus pattern (24 bp):
ATTCTGTATTTGATCATGCATCTA
Found at i:3980406 original size:43 final size:43
Alignment explanation
Indices: 3980313--3980424 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 43
3980303 AAAACTTATT
**
3980313 TTCAAGATCAAGTCTCTG-TGACCCTTGAAGCAAACATTATTGA
1 TTCAAGATCAAGTCTC-GATGACCCTTGAAGCAAACAGCATTGA
* * *
3980356 TTTAAGATCAAGTCTCGATGACCCTTGAAGCAAACCGCATT-C
1 TTCAAGATCAAGTCTCGATGACCCTTGAAGCAAACAGCATTGA
* * *
3980398 TTCCAAGATGAAGTTTAGATGACCCTT
1 TT-CAAGATCAAGTCTCGATGACCCTT
3980425 AGATCGAGAC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
42 3 0.05
43 55 0.95
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29
Consensus pattern (43 bp):
TTCAAGATCAAGTCTCGATGACCCTTGAAGCAAACAGCATTGA
Found at i:3986092 original size:178 final size:178
Alignment explanation
Indices: 3985793--3986123 Score: 484
Period size: 178 Copynumber: 1.9 Consensus size: 178
3985783 CAATTGCACT
* * * * * *
3985793 CTAATTACAGTGGTTATATAAACGTGCCACAAATGTGTAACTACAAGTAAATGCACTTAAATCCA
1 CTAATTACAATGGCTATACAAACATGCCACAAATGTGTAACTACAAGTAAATACACCTAAATCCA
** * * *
3985858 ATTATTAACTGGTTTTCCAAACACACCTTAAAAGTATTCAATTGTCATTTATCACTAATACAATT
66 ATTATTAACTGACTTTCCAAACACACCCTAAAAGTATTCAATTGACATATATCACTAATACAATT
3985923 AGTAATTAGATTTGGATACTCCACTTACATTCCATTCAGTGGAACAAG
131 AGTAATTAGATTTGGATACTCCACTTACATTCCATTCAGTGGAACAAG
* * * *
3985971 CTAATTACAATGGCTATCCAAACATGTCACAAATGTGTAATTACAAGTAAATACACCTAGATCCA
1 CTAATTACAATGGCTATACAAACATGCCACAAATGTGTAACTACAAGTAAATACACCTAAATCCA
* *
3986036 ATTATTACCTGACTTTCCAAACACGCCCTAAAAGTGATTCAATT-ACATATATCACTAATACAAT
66 ATTATTAACTGACTTTCCAAACACACCCTAAAAGT-ATTCAATTGACATATATCACTAATACAAT
*
3986100 TAGTAATTGGATTTGGATACTCCA
130 TAGTAATTAGATTTGGATACTCCA
3986124 ATGACACTCA
Statistics
Matches: 134, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
178 126 0.94
179 8 0.06
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (178 bp):
CTAATTACAATGGCTATACAAACATGCCACAAATGTGTAACTACAAGTAAATACACCTAAATCCA
ATTATTAACTGACTTTCCAAACACACCCTAAAAGTATTCAATTGACATATATCACTAATACAATT
AGTAATTAGATTTGGATACTCCACTTACATTCCATTCAGTGGAACAAG
Found at i:3994314 original size:10 final size:9
Alignment explanation
Indices: 3994295--3994319 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
3994285 AATTTATTTT
3994295 AAAAATAAA
1 AAAAATAAA
3994304 AAAAATAAA
1 AAAAATAAA
3994313 AAAAATA
1 AAAAATA
3994320 TTTTAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAATAAA
Found at i:3994321 original size:29 final size:30
Alignment explanation
Indices: 3994282--3994354 Score: 96
Period size: 28 Copynumber: 2.5 Consensus size: 30
3994272 AATAAACACC
*
3994282 AAAAATTTATTTTAAAAATAAAAAAAATAA
1 AAAAATATATTTTAAAAATAAAAAAAATAA
* *
3994312 AAAAA-ATATTTT-AAAATTAAAAAATTAA
1 AAAAATATATTTTAAAAATAAAAAAAATAA
3994340 AAAAATATATATTTA
1 AAAAATATAT-TTTA
3994355 TTATATTCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 19 0.51
29 10 0.27
30 8 0.22
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (30 bp):
AAAAATATATTTTAAAAATAAAAAAAATAA
Found at i:3996571 original size:17 final size:18
Alignment explanation
Indices: 3996548--3996601 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
3996538 TTTTTTTAGA
*
3996548 ATTTAAAAATT-CAAATT
1 ATTTAAAAATTAAAAATT
* *
3996565 TTTTAAAATTTAAAAATT
1 ATTTAAAAATTAAAAATT
3996583 ATTTAAAAAGTATAAAAAT
1 ATTTAAAAA-T-TAAAAAT
3996602 ATAAAACTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 9 0.31
18 12 0.41
19 1 0.03
20 7 0.24
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (18 bp):
ATTTAAAAATTAAAAATT
Found at i:4008717 original size:8 final size:8
Alignment explanation
Indices: 4008704--4008732 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
4008694 CCCACTCTCC
4008704 TCCTTCAT
1 TCCTTCAT
4008712 TCCTTCAT
1 TCCTTCAT
4008720 TCCTTCAT
1 TCCTTCAT
4008728 TCCTT
1 TCCTT
4008733 TCTGTCGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.10, C:0.38, G:0.00, T:0.52
Consensus pattern (8 bp):
TCCTTCAT
Found at i:4020303 original size:23 final size:24
Alignment explanation
Indices: 4020271--4020316 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
4020261 CATAGTAAGA
*
4020271 TTAGAACC-TTGACATGTTTCATT
1 TTAGAACCTTTAACATGTTTCATT
*
4020294 TTAGACCCTTTAACATGTTTCAT
1 TTAGAACCTTTAACATGTTTCAT
4020317 CTTCTTGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (24 bp):
TTAGAACCTTTAACATGTTTCATT
Found at i:4023983 original size:16 final size:16
Alignment explanation
Indices: 4023959--4023995 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
4023949 TCAACGCACT
*
4023959 CAATCATATAATACAA
1 CAATGATATAATACAA
4023975 CAATGATATAATACAA
1 CAATGATATAATACAA
4023991 CAATG
1 CAATG
4023996 GATGGAGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.54, C:0.16, G:0.05, T:0.24
Consensus pattern (16 bp):
CAATGATATAATACAA
Found at i:4033038 original size:18 final size:18
Alignment explanation
Indices: 4033015--4033057 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4033005 GAATAGGGTT
4033015 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
4033033 TTAATTGAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
4033051 TTAATTA
1 TTAATTA
4033058 CACCTTGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:4036163 original size:3 final size:3
Alignment explanation
Indices: 4036149--4036187 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
4036139 TATACATATA
*
4036149 CAT CAA CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
4036188 TCACAAGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Done.