Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 256 of 320
Found at i:83486884 original size:26 final size:26
Alignment explanation
Indices: 83486848--83486899 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
83486838 GGGTTCAGGT
83486848 ATGTCTTCTTTGCATTCCTCTATCTC
1 ATGTCTTCTTTGCATTCCTCTATCTC
83486874 ATGTCTTCTTTGCATTCCTCTATCTC
1 ATGTCTTCTTTGCATTCCTCTATCTC
83486900 TTTTATTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.12, C:0.31, G:0.08, T:0.50
Consensus pattern (26 bp):
ATGTCTTCTTTGCATTCCTCTATCTC
Found at i:83488045 original size:21 final size:21
Alignment explanation
Indices: 83488013--83488062 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
83488003 TCAAATATAT
*
83488013 TTAAAA-ATATAAAAAAAATA
1 TTAAAACAAATAAAAAAAATA
**
83488033 TTAAAACAAATAAAAATGATA
1 TTAAAACAAATAAAAAAAATA
*
83488054 CTAAAACAA
1 TTAAAACAA
83488063 TTATTAAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.22
Consensus pattern (21 bp):
TTAAAACAAATAAAAAAAATA
Found at i:83493861 original size:24 final size:25
Alignment explanation
Indices: 83493782--83493875 Score: 82
Period size: 26 Copynumber: 3.6 Consensus size: 25
83493772 AATAATAAGG
* * *
83493782 ATAATATAAAAAAATACATACATGAA
1 ATAATAT-AAAATATATATATATGAA
*
83493808 ATAGTATAAAATATATATATAT-AA
1 ATAATATAAAATATATATATATGAA
* *
83493832 CTAATAATATACATATATATATATGAA
1 ATAAT-ATA-AAATATATATATATGAA
*
83493859 ATAACAATAAAATATAT
1 ATAA-TATAAAATATAT
83493876 GAATAGTATG
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
24 5 0.09
25 15 0.28
26 26 0.48
27 8 0.15
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (25 bp):
ATAATATAAAATATATATATATGAA
Found at i:83493983 original size:37 final size:35
Alignment explanation
Indices: 83493921--83494014 Score: 91
Period size: 37 Copynumber: 2.6 Consensus size: 35
83493911 AATTATTTAA
* *
83493921 AAAATATATATAATACAATAAAATATACGAATAATAT
1 AAAATATATA-AA-AAAATAAAATATACGAAAAATAT
*
83493958 AAAATATATAAAAAAATACATAATATATGAAAAATAT
1 AAAATATATAAAAAAATA-A-AATATACGAAAAATAT
* *
83493995 AATAT-TTTAAAAAAACTAAA
1 AAAATATATAAAAAAA-TAAA
83494015 TAAGAATATT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
35 6 0.12
36 13 0.27
37 30 0.61
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (35 bp):
AAAATATATAAAAAAATAAAATATACGAAAAATAT
Found at i:83494259 original size:3 final size:3
Alignment explanation
Indices: 83494251--83494279 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
83494241 ATATCTAAAT
83494251 ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
83494280 TTATTAGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:83494532 original size:16 final size:16
Alignment explanation
Indices: 83494503--83494558 Score: 80
Period size: 16 Copynumber: 3.6 Consensus size: 16
83494493 AATATTATAT
83494503 ATAATAAT-ACTAGAA
1 ATAATAATAACTAGAA
83494518 ATAATAATAACTAGAA
1 ATAATAATAACTAGAA
*
83494534 ATAATAATACATTA-AA
1 ATAATAATA-ACTAGAA
83494550 ATAATAATA
1 ATAATAATA
83494559 TTTAATAACC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
15 8 0.21
16 27 0.71
17 3 0.08
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (16 bp):
ATAATAATAACTAGAA
Found at i:83495305 original size:23 final size:22
Alignment explanation
Indices: 83495268--83495310 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
83495258 TATATGTGGA
* *
83495268 AAAATGAAACCAAAACAGAATTT
1 AAAATGAAA-AAAAAAAGAATTT
83495291 AAAATGAAAAAAAAAAGAAT
1 AAAATGAAAAAAAAAAGAAT
83495311 AATCACCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.70, C:0.07, G:0.09, T:0.14
Consensus pattern (22 bp):
AAAATGAAAAAAAAAAGAATTT
Found at i:83495895 original size:25 final size:25
Alignment explanation
Indices: 83495857--83495904 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
83495847 TCTTTACTCA
*
83495857 TTGTCGTATAACGATAACAGAGTTG
1 TTGTCGTATAACGAGAACAGAGTTG
* * *
83495882 TTGTCGTGTGACGAGAATAGAGT
1 TTGTCGTATAACGAGAACAGAGT
83495905 AAAGACTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.31
Consensus pattern (25 bp):
TTGTCGTATAACGAGAACAGAGTTG
Found at i:83496256 original size:21 final size:21
Alignment explanation
Indices: 83496223--83496267 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
83496213 TCTGATATCC
*
83496223 TCGATCAGTTCCACTGTAACT
1 TCGATCAGCTCCACTGTAACT
*
83496244 TCGATTAGCTCCACTGTAACT
1 TCGATCAGCTCCACTGTAACT
83496265 TCG
1 TCG
83496268 GGGCTCTGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (21 bp):
TCGATCAGCTCCACTGTAACT
Found at i:83496567 original size:88 final size:85
Alignment explanation
Indices: 83496461--83497121 Score: 326
Period size: 89 Copynumber: 7.6 Consensus size: 85
83496451 ACGTGAGCCA
** * * **
83496461 AGGCTCAACTCATTTCTCGCAATATGAGTTGGTTTTTTG-AAACTTAATTTGAAAAGA-AGATTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTT-GATTTTTGAAAACTTAAATTGAAAA-ACAGAAAT
83496524 TGAAAATACCTCGATATGTGACCCG
64 TGAAAATACCTC-A-ATGT-ACCCG
* *
83496549 AGGCTCAACTCACCTCTCGCAATAGGAGTTGATTTTTGAAAAATATAAATTGAAAAAACAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACT-TAAATTG-AAAAACAGAAAT
**
83496614 TGAAAATACCTCAGCGTACCCTG
64 TGAAAATACCTCAATGTACCC-G
* * * *
83496637 AGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAGCATAACTTGAAAAACGGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-CTTAAATTGAAAAACAGAAATT
*
83496702 GAAAATACCTCAGCATGT-CCTG
65 GAAAATACCTCA--ATGTACCCG
* * * ** *
83496724 AGACTCAACTCATCTCTTGCAATATGAGTTGATTTTTTTGAAAAGCAGAATTTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAA-CTTAAATTGAAAA-A---CA
* *** *
83496789 G-CA-TG-CCCTGAGGCTC-A---ACCC-
59 GAAATTGAAAAT-A-CCTCAATGTACCCG
* * * * * * ** * * *
83496810 A-CCTC-TCGCA-ATAT-G-AGT-TGA--T--TTTTGAAAAGCATAAATTGAAAAACGGAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACTTAAATTGAAAAACAGAAATTG
* **
83496865 AAAATACCTCAGCGTGT-CTTG
66 AAAATACCTCA--ATGTACCCG
** * * *
83496886 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAATTTGAAAAGCAGAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAA-CTTAAATTGAAAAACAGAAA
* *
83496951 TTGAAAATACCTCAGCGTGT-CCTG
63 TTGAAAATACCTCA--ATGTACCCG
* ** * *
83496975 AGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAATTTGAAAAGCAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAA-CTTAAATTGAAAAACAGAAA
* *
83497040 TTGAAAATACCTCAGCGTGT-CCTG
63 TTGAAAATACCTCA--ATGTACCCG
* **
83497064 AGGCTCAACTCACCCCTCGCAATATGAGTTGATTTATTTGAAAAACAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT-TTTG-AAAACTTAAATTGAAAA
83497122 TACCTCAGCG
Statistics
Matches: 461, Mismatches: 70, Indels: 83
0.75 0.11 0.14
Matches are distributed among these distances:
69 2 0.00
70 4 0.01
71 3 0.01
72 2 0.00
73 11 0.02
74 7 0.02
75 1 0.00
76 1 0.00
77 3 0.01
78 4 0.01
79 2 0.00
80 4 0.01
81 4 0.01
82 4 0.01
83 2 0.00
84 4 0.01
85 3 0.01
86 1 0.00
87 66 0.14
88 92 0.20
89 206 0.45
90 26 0.06
91 3 0.01
92 4 0.01
93 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (85 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACTTAAATTGAAAAACAGAAATTG
AAAATACCTCAATGTACCCG
Found at i:83496748 original size:87 final size:87
Alignment explanation
Indices: 83496544--83496781 Score: 298
Period size: 87 Copynumber: 2.7 Consensus size: 87
83496534 TCGATATGTG
* * * **
83496544 ACCC-GAGGCTCAACTCACCTCTCGCAATAGGAGTTGATTTTTGAAAAATATAAATTGAAAAAAC
1 ACCCTGAGACTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAGCATAAATTG-AAAAAC
*
83496608 AGAAATTGAAAATACCTCAGCGT
65 AGAAATTGAAAATACCTCAGCAT
* * *
83496631 ACCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAGCATAACTTGAAAAACG
1 ACCCTGAGACTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAGCATAAATTGAAAAACA
83496696 GAAATTGAAAATACCTCAGCAT
66 GAAATTGAAAATACCTCAGCAT
** * * * * *
83496718 GTCCTGAGACTCAACTCATCTCTTGCAATATGAGTTGATTTTTTTGAAAAGCAGAATTTGAAAA
1 ACCCTGAGACTCAACTCACCTCTCGCAATATGAGTT-A-ATTTTTGAAAAGCATAAATTGAAAA
83496782 TACCTCAGCA
Statistics
Matches: 133, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
87 62 0.47
88 49 0.37
89 22 0.17
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
Consensus pattern (87 bp):
ACCCTGAGACTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAGCATAAATTGAAAAACA
GAAATTGAAAATACCTCAGCAT
Found at i:83496800 original size:162 final size:163
Alignment explanation
Indices: 83496602--83497181 Score: 797
Period size: 162 Copynumber: 3.5 Consensus size: 163
83496592 TATAAATTGA
*
83496602 AAAAACAGAAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
83496667 -AATTTTTGAAAAGCATAACTTGAAAAACGGAAATTGAAAATACCTCAGCATGTCCTGAGACTCA
66 GAATTTTTGAAAAGCATAAATTGAAAAACGGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCA
* *
83496731 ACTCATCTCTTGCAATATGAGTTGATTTTTTTG
131 ACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * * *
83496764 AAAAGCAGAATTTGAAAATACCTCAGCATGCCCTGAGGCTCAACCCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
83496829 G-ATTTTTGAAAAGCATAAATTGAAAAACGGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCA
66 GAATTTTTGAAAAGCATAAATTGAAAAACGGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCA
83496893 ACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAG
131 ACTCACCTCTCGCAATATGAGTTGATTTTTTT--------G
* * *
83496934 AATTTGAAAAGCAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCCCTCGCAATA
1 -A----AAAA-CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
* * * * *
83496999 TGAGTTGATTTTTTTGAAAAGCAGAATTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTG
60 TGAGTTGA-ATTTTTGAAAAGCATAAATTGAAAAACGGAAATTGAAAATACCTCAGCGTGTCCTG
* *
83497064 AGGCTCAACTCACCCCTCGCAATATGAGTTGATTTATTTG
124 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
83497104 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCC-GAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAGAAATTGAAAATACCTCAGCGTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
83497168 TGATTTTTTGAAAA
65 TGAATTTTTGAAAA
83497182 ATAGAAATAA
Statistics
Matches: 373, Mismatches: 27, Indels: 35
0.86 0.06 0.08
Matches are distributed among these distances:
162 149 0.40
163 11 0.03
164 56 0.15
165 6 0.02
169 1 0.00
170 2 0.01
171 1 0.00
175 3 0.01
176 57 0.15
178 87 0.23
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (163 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GAATTTTTGAAAAGCATAAATTGAAAAACGGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCA
ACTCACCTCTCGCAATATGAGTTGATTTTTTTG
Found at i:83496821 original size:75 final size:73
Alignment explanation
Indices: 83496686--83496854 Score: 239
Period size: 75 Copynumber: 2.3 Consensus size: 73
83496676 AAAGCATAAC
* * * * * *
83496686 TTGAAAAACGGAAATTGAAAATACCTCAGCATGTCCTGAGACTCAACTCATCTCTTGCAATATGA
1 TTGAAAAGCAGAAATTGAAAATACCTCAGCATGCCCTGAGACTCAACCCACCTCTCGCAATATGA
83496751 GTTGATTTTT
66 GTTGA--TTT
* *
83496761 TTGAAAAGCAGAATTTGAAAATACCTCAGCATGCCCTGAGGCTCAACCCACCTCTCGCAATATGA
1 TTGAAAAGCAGAAATTGAAAATACCTCAGCATGCCCTGAGACTCAACCCACCTCTCGCAATATGA
83496826 GTTGATTT
66 GTTGATTT
*
83496834 TTGAAAAGCATAAATTGAAAA
1 TTGAAAAGCAGAAATTGAAAA
83496855 ACGGAAATTG
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
73 22 0.26
75 62 0.74
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (73 bp):
TTGAAAAGCAGAAATTGAAAATACCTCAGCATGCCCTGAGACTCAACCCACCTCTCGCAATATGA
GTTGATTT
Found at i:83496941 original size:14 final size:14
Alignment explanation
Indices: 83496922--83496957 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
83496912 AGTTGATTTT
83496922 TTTGAAAAGCAGAA
1 TTTGAAAAGCAGAA
83496936 TTTGAAAAGCAGAA
1 TTTGAAAAGCAGAA
83496950 TTTGAAAA
1 TTTGAAAA
83496958 TACCTCAGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (14 bp):
TTTGAAAAGCAGAA
Found at i:83496968 original size:89 final size:89
Alignment explanation
Indices: 83496760--83497121 Score: 575
Period size: 89 Copynumber: 4.1 Consensus size: 89
83496750 AGTTGATTTT
* * * * *
83496760 TTTGAAAAGCAGAATTTGAAAATACCTCAGCATGCCCTGAGGCTCAACCCACCTCTCGCAATATG
1 TTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCCCTCGCAATATG
*
83496825 AGTTGA--TTTTTGAAAAGCATAA
66 AGTTGATTTTTTTGAAAAGCAGAA
* * * * *
83496847 ATTGAAAAACGGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCCCTCGCAATATG
83496912 AGTTGATTTTTTTGAAAAGCAGAA
66 AGTTGATTTTTTTGAAAAGCAGAA
*
83496936 TTTGAAAAGCAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCCCTCGCAATATG
1 TTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCCCTCGCAATATG
83497001 AGTTGATTTTTTTGAAAAGCAGAA
66 AGTTGATTTTTTTGAAAAGCAGAA
83497025 TTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCCCTCGCAATATG
1 TTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCCCTCGCAATATG
* *
83497090 AGTTGATTTATTTGAAAAACAGAA
66 AGTTGATTTTTTTGAAAAGCAGAA
*
83497114 ATTGAAAA
1 TTTGAAAA
83497122 TACCTCAGCG
Statistics
Matches: 254, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
87 63 0.25
89 191 0.75
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (89 bp):
TTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCCCTCGCAATATG
AGTTGATTTTTTTGAAAAGCAGAA
Found at i:83497030 original size:14 final size:14
Alignment explanation
Indices: 83497011--83497046 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
83497001 AGTTGATTTT
83497011 TTTGAAAAGCAGAA
1 TTTGAAAAGCAGAA
83497025 TTTGAAAAGCAGAA
1 TTTGAAAAGCAGAA
*
83497039 ATTGAAAA
1 TTTGAAAA
83497047 TACCTCAGCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.53, C:0.06, G:0.19, T:0.22
Consensus pattern (14 bp):
TTTGAAAAGCAGAA
Found at i:83497103 original size:75 final size:75
Alignment explanation
Indices: 83497024--83497189 Score: 289
Period size: 75 Copynumber: 2.2 Consensus size: 75
83497014 GAAAAGCAGA
* *
83497024 ATTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCCCTCGCAATAT
1 ATTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCCCTCGCAATAT
83497089 GAGTTGATTT
66 GAGTTGATTT
*
83497099 ATTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
1 ATTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCCCTCGCAATAT
83497164 GAGTTGATTT
66 GAGTTGATTT
*
83497174 -TTTGAAAAATAGAAAT
1 ATTTGAAAAACAGAAAT
83497190 AAAAACATTA
Statistics
Matches: 87, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
74 15 0.17
75 72 0.83
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (75 bp):
ATTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCCCTCGCAATAT
GAGTTGATTT
Found at i:83509254 original size:27 final size:29
Alignment explanation
Indices: 83509224--83509291 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 29
83509214 TAATGTTACC
*
83509224 TATATACATACGTAT-ATA-TATTATAAA-
1 TATATACATA-GTATAATAGTATTACAAAG
*
83509251 TATAAACAT-G-ATAATAGTATTACAAAG
1 TATATACATAGTATAATAGTATTACAAAG
83509278 TATATACATAGTAT
1 TATATACATAGTAT
83509292 GATGTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
24 2 0.06
25 4 0.12
26 8 0.24
27 16 0.48
28 1 0.03
29 2 0.06
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (29 bp):
TATATACATAGTATAATAGTATTACAAAG
Found at i:83509773 original size:16 final size:16
Alignment explanation
Indices: 83509694--83509797 Score: 84
Period size: 16 Copynumber: 6.3 Consensus size: 16
83509684 GATACTTACA
* *
83509694 AATATATACATAATAT
1 AATATATAAAAAATAT
*
83509710 AATTATTTAAAAAATAT
1 AA-TATATAAAAAATAT
* *
83509727 -ATATATAATACAATAA
1 AATATATAA-AAAATAT
** *
83509743 AATATACGAATAATAT
1 AATATATAAAAAATAT
83509759 AATATATAAAAAATACAT
1 AATATATAAAAAAT--AT
*
83509777 AATATATGAAAAATAT
1 AATATATAAAAAATAT
83509793 AATAT
1 AATAT
83509798 TTTTTAAAAA
Statistics
Matches: 69, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
15 6 0.09
16 31 0.45
17 17 0.25
18 15 0.22
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.34
Consensus pattern (16 bp):
AATATATAAAAAATAT
Found at i:83509778 original size:18 final size:18
Alignment explanation
Indices: 83509757--83509791 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
83509747 TACGAATAAT
83509757 ATAATATATAAAAAATAC
1 ATAATATATAAAAAATAC
*
83509775 ATAATATATGAAAAATA
1 ATAATATATAAAAAATA
83509792 TAATATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
ATAATATATAAAAAATAC
Found at i:83509782 original size:23 final size:23
Alignment explanation
Indices: 83509699--83509782 Score: 89
Period size: 23 Copynumber: 3.5 Consensus size: 23
83509689 TTACAAATAT
*
83509699 ATACATAATATAATTATTTAAAAA
1 ATACATAATATAA-TATATAAAAA
* * *
83509723 ATATAT-ATATAATACAATAAAAT
1 ATACATAATATAATA-TATAAAAA
83509746 ATACGAATAATATAATATATAAAAA
1 ATAC--ATAATATAATATATAAAAA
83509771 ATACATAATATA
1 ATACATAATATA
83509783 TGAAAAATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
22 2 0.04
23 22 0.45
24 5 0.10
25 12 0.24
26 8 0.16
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.33
Consensus pattern (23 bp):
ATACATAATATAATATATAAAAA
Found at i:83509841 original size:13 final size:13
Alignment explanation
Indices: 83509825--83509851 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
83509815 TAAGAATATT
83509825 AAAATAAAAAATA
1 AAAATAAAAAATA
83509838 AAAATAAAAAATA
1 AAAATAAAAAATA
83509851 A
1 A
83509852 TGAAGAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAATAAAAAATA
Found at i:83509983 original size:12 final size:12
Alignment explanation
Indices: 83509966--83509993 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
83509956 GAAAGTAAAT
83509966 AATATAATAATA
1 AATATAATAATA
83509978 AATATAATAATA
1 AATATAATAATA
83509990 AATA
1 AATA
83509994 CATATGTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATATAATAATA
Found at i:83510333 original size:16 final size:16
Alignment explanation
Indices: 83510304--83510359 Score: 80
Period size: 16 Copynumber: 3.6 Consensus size: 16
83510294 AATATTATAT
83510304 ATAATAAT-ACTAGAA
1 ATAATAATAACTAGAA
83510319 ATAATAATAACTAGAA
1 ATAATAATAACTAGAA
*
83510335 ATAATAATACATTA-AA
1 ATAATAATA-ACTAGAA
83510351 ATAATAATA
1 ATAATAATA
83510360 TTTAATAACC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
15 8 0.21
16 27 0.71
17 3 0.08
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (16 bp):
ATAATAATAACTAGAA
Found at i:83510405 original size:15 final size:15
Alignment explanation
Indices: 83510304--83510408 Score: 70
Period size: 15 Copynumber: 6.4 Consensus size: 15
83510294 AATATTATAT
*
83510304 ATAATAATACTAGAA
1 ATAATAATAATAGAA
83510319 ATAATAATAACTAGAA
1 ATAATAATAA-TAGAA
83510335 ATAATAATACATTA-AA
1 ATAATAATA-A-TAGAA
*
83510351 ATAATAATATTTAATAACCAGA
1 ATAAT-A-A--TAAT-A-GA-A
*
83510373 ATATTAATAATA-ACA
1 ATAATAATAATAGA-A
83510388 ATAATAATAATAGAA
1 ATAATAATAATAGAA
83510403 ATAATA
1 ATAATA
83510409 GTATTAATAA
Statistics
Matches: 74, Mismatches: 5, Indels: 22
0.73 0.05 0.22
Matches are distributed among these distances:
15 29 0.39
16 22 0.30
17 5 0.07
18 6 0.08
19 2 0.03
20 3 0.04
21 2 0.03
22 5 0.07
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.30
Consensus pattern (15 bp):
ATAATAATAATAGAA
Found at i:83510436 original size:3 final size:3
Alignment explanation
Indices: 83510304--83510420 Score: 62
Period size: 3 Copynumber: 38.0 Consensus size: 3
83510294 AATATTATAT
*
83510304 ATA ATA ATA CTA GA-A ATA ATA ATA ACTA GA-A ATA ATA ATA CATTA
1 ATA ATA ATA ATA -ATA ATA ATA ATA A-TA -ATA ATA ATA ATA -A-TA
* ** * * *
83510349 A-A ATA ATA ATA TTTA ATA ACC AGA ATA TTA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
83510394 ATA ATA GA-A ATA ATA GTA TTA ATA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA
83510421 TTAGGAATGA
Statistics
Matches: 87, Mismatches: 16, Indels: 22
0.70 0.13 0.18
Matches are distributed among these distances:
2 5 0.06
3 72 0.83
4 7 0.08
5 3 0.03
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:83514783 original size:13 final size:13
Alignment explanation
Indices: 83514765--83514789 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83514755 TGTTTCCATT
83514765 TTTAAAATTTTTA
1 TTTAAAATTTTTA
83514778 TTTAAAATTTTT
1 TTTAAAATTTTT
83514790 GGATTTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTAAAATTTTTA
Found at i:83514837 original size:17 final size:17
Alignment explanation
Indices: 83514815--83514848 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
83514805 AAATTCAAAT
83514815 TATTATATATAA-AATAA
1 TATTATAT-TAATAATAA
83514832 TATTATATTAATAATAA
1 TATTATATTAATAATAA
83514849 AAAATTGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TATTATATTAATAATAA
Found at i:83519780 original size:17 final size:17
Alignment explanation
Indices: 83519758--83519793 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
83519748 TTTAATAATA
83519758 ATAAATA-ATAATAAATT
1 ATAAATATAT-ATAAATT
83519775 ATAAATATATATAAATT
1 ATAAATATATATAAATT
83519792 AT
1 AT
83519794 TGGTAGAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
ATAAATATATATAAATT
Found at i:83522952 original size:3 final size:3
Alignment explanation
Indices: 83522944--83522998 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
83522934 CTTCGACTCC
83522944 CAT CAT CAT CAT CAT 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 CAT CAT CAT
83522992 CAT CAT C
1 CAT CAT C
83522999 TATTTTCTCC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:83523774 original size:78 final size:78
Alignment explanation
Indices: 83523688--83523844 Score: 305
Period size: 78 Copynumber: 2.0 Consensus size: 78
83523678 TGCATTTGTC
83523688 TCTATGTCAAAATTTAAATTTAAATTTAATTCTTACTTGAATTTAAATTTAATTATTGGCATATT
1 TCTATGTCAAAATTTAAATTTAAATTTAATTCTTACTTGAATTTAAATTTAATTATTGGCATATT
83523753 TATAACTTTAAAA
66 TATAACTTTAAAA
*
83523766 TCTATGTCAAAATTTAATTTTAAATTTAATTCTTACTTGAATTTAAATTTAATTATTGGCATATT
1 TCTATGTCAAAATTTAAATTTAAATTTAATTCTTACTTGAATTTAAATTTAATTATTGGCATATT
83523831 TATAACTTTAAAA
66 TATAACTTTAAAA
83523844 T
1 T
83523845 AATTCAATGA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (78 bp):
TCTATGTCAAAATTTAAATTTAAATTTAATTCTTACTTGAATTTAAATTTAATTATTGGCATATT
TATAACTTTAAAA
Found at i:83527716 original size:22 final size:22
Alignment explanation
Indices: 83527639--83527726 Score: 97
Period size: 22 Copynumber: 4.0 Consensus size: 22
83527629 CTCACCACAA
83527639 CTCATATGAGCTTACCGTTTTAG
1 CTCATATGAGCTTACCG-TTTAG
* * *
83527662 CTCTTATGAGCTTACTGTTCAG
1 CTCATATGAGCTTACCGTTTAG
* *
83527684 CTCCTAGGAGCTTACCGTTTAG
1 CTCATATGAGCTTACCGTTTAG
*
83527706 CTCA-ATTGAGCTTACTGTTTA
1 CTCATA-TGAGCTTACCGTTTA
83527727 TCAGCTTAGG
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
21 1 0.02
22 38 0.70
23 15 0.28
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (22 bp):
CTCATATGAGCTTACCGTTTAG
Found at i:83527925 original size:16 final size:16
Alignment explanation
Indices: 83527904--83527938 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
83527894 ATAAAATACC
83527904 TTACATGAAATACATG
1 TTACATGAAATACATG
* *
83527920 TTACATGAATTATATG
1 TTACATGAAATACATG
83527936 TTA
1 TTA
83527939 TAAGAGTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (16 bp):
TTACATGAAATACATG
Found at i:83530700 original size:12 final size:12
Alignment explanation
Indices: 83530685--83530715 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
83530675 TTCTCTTTTA
83530685 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
83530697 TTTTTCTTTCTC
1 TTTTTCTTTCCC
83530709 TTTTTCT
1 TTTTTCT
83530716 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:83537476 original size:12 final size:12
Alignment explanation
Indices: 83537461--83537491 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
83537451 TTCTCTTTTA
83537461 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
83537473 TTTTTCTTTCTC
1 TTTTTCTTTCCC
83537485 TTTTTCT
1 TTTTTCT
83537492 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:83541719 original size:40 final size:39
Alignment explanation
Indices: 83541594--83541730 Score: 121
Period size: 35 Copynumber: 3.7 Consensus size: 39
83541584 GGTTTTCCTC
* * * *
83541594 ATTGA-AATACCATACCTACGTTTTACAACTCGGCATGG
1 ATTGATAATACCATACCTACATTTCACAACTCAGTATGG
* * **
83541632 ---GA-AATGCCATACCTACGTTTCTTAACTCAGTATGG
1 ATTGATAATACCATACCTACATTTCACAACTCAGTATGG
*
83541667 ATTTGATAATACCATACCTACATTTCACAACTTAGTATGG
1 A-TTGATAATACCATACCTACATTTCACAACTCAGTATGG
83541707 A-TG---ATACCATACCTACATTTCACA
1 ATTGATAATACCATACCTACATTTCACA
83541731 CTTTTCCATG
Statistics
Matches: 83, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
35 50 0.60
38 2 0.02
39 2 0.02
40 29 0.35
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.31
Consensus pattern (39 bp):
ATTGATAATACCATACCTACATTTCACAACTCAGTATGG
Found at i:83543528 original size:20 final size:21
Alignment explanation
Indices: 83543495--83543533 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
83543485 TACTTTGAAA
* *
83543495 ATGTATATATTAG-AGTTGGC
1 ATGTATAGACTAGAAGTTGGC
83543515 ATGTATAGACTAGAAGTTG
1 ATGTATAGACTAGAAGTTG
83543534 TGGGATTATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (21 bp):
ATGTATAGACTAGAAGTTGGC
Found at i:83545143 original size:27 final size:27
Alignment explanation
Indices: 83545112--83545164 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
83545102 TGTCATGTGT
*
83545112 AATTGAATGGCAAATTATTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
83545139 AATTGAATGTTAAATTACTATTACAT
1 AATTGAATGGCAAATTACTATTACAT
83545165 CGGTTGTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.40
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:83546159 original size:23 final size:22
Alignment explanation
Indices: 83546129--83546172 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
83546119 AAAATAGTGG
83546129 AAATTGAG-TTAGAAGATTAATA
1 AAATTGAGATTA-AAGATTAATA
*
83546151 AAATATGAGATTAAATATTAAT
1 AAAT-TGAGATTAAAGATTAAT
83546173 GAGTCTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 12 0.63
24 3 0.16
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (22 bp):
AAATTGAGATTAAAGATTAATA
Found at i:83552381 original size:256 final size:256
Alignment explanation
Indices: 83551926--83552695 Score: 1335
Period size: 256 Copynumber: 3.0 Consensus size: 256
83551916 TTTGAAAGCA
* *
83551926 AGACTTTTGTTCTTATAGCAGATTATCGAAGCTCAGAAGATTGATAATGAGATTTTAGCTAAAAG
1 AGACTTTTGTTCTTATAACAGATTATCGAAGCTTAGAAGATTGATAATGAGATTTTAGCTAAAAG
83551991 AGCTTAGTGTGATGTAGAGTCTGATTCAGAATTCAGAGTTGATAAAGATGATTGTTTTAGATTCC
66 AGCTTAGTGTGATGTAGAGTCTGATTCAGAATTCAGAGTTGATAAAGATGATTGTTTTAGATTCC
* *
83552056 AAGATCGAATTTGTGTTTCGAGAAATTCAGAGTTAATTTAGATGATTTTGAGTAAAGCTCACAAT
131 GAGATCGAATTTGTGTTTCGAGAAATTCAGAGTTAATTCAGATGATTTTGAGTAAAGCTCACAAT
83552121 AGTCGGTTATCTATGTATCCGGGTAGTATGAAAATGTATAATGATCTGAAACAACATTACT
196 AGTCGGTTATCTATGTATCCGGGTAGTATGAAAATGTATAATGATCTGAAACAACATTACT
*
83552182 AGACTTTTGTTCTTACAACAGATTATCGAAGCTTAGAAGATTGATAATGAGATTTTAGCTAAAAG
1 AGACTTTTGTTCTTATAACAGATTATCGAAGCTTAGAAGATTGATAATGAGATTTTAGCTAAAAG
* * *
83552247 AGCTTTGTGTGATGTATAGTCTGATTCAGAATTCAGAGTTGATAAAGATGATTGTTCTAGATTCC
66 AGCTTAGTGTGATGTAGAGTCTGATTCAGAATTCAGAGTTGATAAAGATGATTGTTTTAGATTCC
83552312 GAGATCGAATTTGTGTTTCGAGAAATTCAGAGTTAATTCAGATGATTTTGAGTAAAGCTCACAAT
131 GAGATCGAATTTGTGTTTCGAGAAATTCAGAGTTAATTCAGATGATTTTGAGTAAAGCTCACAAT
83552377 AGTCGGTTATCTATGTATCCGGGTAGTATGAAAATGTATAATGATCTGAAACAACATTACT
196 AGTCGGTTATCTATGTATCCGGGTAGTATGAAAATGTATAATGATCTGAAACAACATTACT
*
83552438 AGACTTTTGTTCCTATAACAGATTATCGAAG-TTCAGAAGATTGATAATGAGATTTTAGCTAAAA
1 AGACTTTTGTTCTTATAACAGATTATCGAAGCTT-AGAAGATTGATAATGAGATTTTAGCTAAAA
*
83552502 GAGCTTAGTGTGATGTAGAGTCTGATTCAGAATTCAGAGTTGATAAAGATGATTGTTTTAGATTT
65 GAGCTTAGTGTGATGTAGAGTCTGATTCAGAATTCAGAGTTGATAAAGATGATTGTTTTAGATTC
* * *
83552567 TGAGATCGTATTTGTGTTTCGAGAAATTCAGAGTTAATTCAGATGATTTTGAGTAAAGCTTACAA
130 CGAGATCGAATTTGTGTTTCGAGAAATTCAGAGTTAATTCAGATGATTTTGAGTAAAGCTCACAA
* * * * * * * *
83552632 CAGTCGGTTATGTGTGCATCCGGGTAGTACGAAAATTTATAATGATCTGAACCAGCATTACT
195 TAGTCGGTTATCTATGTATCCGGGTAGTATGAAAATGTATAATGATCTGAAACAACATTACT
83552694 AG
1 AG
83552696 TGGTCCGGAA
Statistics
Matches: 488, Mismatches: 25, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
255 2 0.00
256 486 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (256 bp):
AGACTTTTGTTCTTATAACAGATTATCGAAGCTTAGAAGATTGATAATGAGATTTTAGCTAAAAG
AGCTTAGTGTGATGTAGAGTCTGATTCAGAATTCAGAGTTGATAAAGATGATTGTTTTAGATTCC
GAGATCGAATTTGTGTTTCGAGAAATTCAGAGTTAATTCAGATGATTTTGAGTAAAGCTCACAAT
AGTCGGTTATCTATGTATCCGGGTAGTATGAAAATGTATAATGATCTGAAACAACATTACT
Found at i:83554358 original size:20 final size:20
Alignment explanation
Indices: 83554333--83554372 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
83554323 ATTTGAAAAG
83554333 AAGAAAGCCAAAGGCTAGGT
1 AAGAAAGCCAAAGGCTAGGT
*
83554353 AAGAAAGCTAAAGGCTAGGT
1 AAGAAAGCCAAAGGCTAGGT
83554373 TTTCATTCGG
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:0.45, C:0.12, G:0.30, T:0.12
Consensus pattern (20 bp):
AAGAAAGCCAAAGGCTAGGT
Found at i:83562804 original size:23 final size:23
Alignment explanation
Indices: 83562769--83562832 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
83562759 CAGCTCGTAT
*
83562769 GAGCTTA-CTGTTTCAGTCTTTA-G
1 GAGCTTATC-GTTTCAG-CTCTACG
*
83562792 GGGCTTATCGTTTCAGCTCTACG
1 GAGCTTATCGTTTCAGCTCTACG
83562815 GAGCTTATCG-TTCAGCTC
1 GAGCTTATCGTTTCAGCTC
83562833 AATTGAGCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 12 0.33
23 23 0.64
24 1 0.03
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (23 bp):
GAGCTTATCGTTTCAGCTCTACG
Found at i:83562840 original size:22 final size:22
Alignment explanation
Indices: 83562794--83562848 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
83562784 GTCTTTAGGG
*
83562794 GCTTATCGTTTCAGCTCTACGGA
1 GCTTATCG-TTCAGCTCAACGGA
**
83562817 GCTTATCGTTCAGCTCAATTGA
1 GCTTATCGTTCAGCTCAACGGA
*
83562839 GCTTACCGTT
1 GCTTATCGTT
83562849 TATCGGCTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (22 bp):
GCTTATCGTTCAGCTCAACGGA
Found at i:83567642 original size:4 final size:4
Alignment explanation
Indices: 83567633--83567668 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
83567623 TTCATGAAAT
* *
83567633 TTTA TTTA TTTA TTTA TATA TTTA TTTA TTTC TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
83567669 CTCTTTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:83574436 original size:176 final size:176
Alignment explanation
Indices: 83574030--83574812 Score: 1156
Period size: 176 Copynumber: 4.4 Consensus size: 176
83574020 AATAACTTAG
* * * * * * * * *
83574030 ATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCGTCTTCAACCTGGTCCATAGCCAATAC
1 ATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCATAACCGATAC
* * * *
83574095 ATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGTATCT
66 ATGGAGATAAGACCTGTAACTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGACCTGTATCT
* * * *
83574160 TCAACTTGCTCCACTGC-AACTTCAGAGAGATAAGGCTGGTGGCTAAA
131 TCAACCTGCT-CTCTGCAAAC-TCAGAGAGATAAGGTTAGTGGCTAAA
* * * *
83574207 ATCTACTCCATAGTCGATACGTGGAGATAAGACTTGCCATCTTCGATCTGCTCCATAATCGATAC
1 ATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCATAACCGATAC
*
83574272 ATGGAGATAAGACCTGTAACTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGACTTGTATCT
66 ATGGAGATAAGACCTGTAACTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGACCTGTATCT
83574337 TCAACCTGCTCTCTGCAAACTCAGAGAGATAAGGTTAGTGGCTAAA
131 TCAACCTGCTCTCTGCAAACTCAGAGAGATAAGGTTAGTGGCTAAA
* * *
83574383 ATCTGCTCCATAGTTGATACATGGAGATAAGACTCGGCATCTTCAATCTGCTCCATAACCGATAC
1 ATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCATAACCGATAC
* * * *
83574448 ATGGAGATAAGACCTTTAACTTTCATTCTACTTCCTGCAACTTCAGGAAGATAAGACCTGTATCT
66 ATGGAGATAAGACCTGTAACTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGACCTGTATCT
*
83574513 TCAACCTGCTCTCTACAAACTCAGAGAGATAAGGTTAGTGGCTAAA
131 TCAACCTGCTCTCTGCAAACTCAGAGAGATAAGGTTAGTGGCTAAA
* * * *
83574559 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCACCATTTTCGATCTACTCCATAACCGATAC
1 ATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCATAACCGATAC
83574624 ATGGAGATAAGACCTGTAACTTTCAGTCTGCTTCCTGCAACTTC-AGAAAGATAAGACCTGTATC
66 ATGGAGATAAGACCTGTAACTTTCAGTCTGCTTCCTGCAACTTCAAG-AAGATAAGACCTGTATC
*
83574688 TTCAACCTGCTCTCTGCAAACTCAGAGAGATAAGGTTAATGGCTAAA
130 TTCAACCTGCTCTCTGCAAACTCAGAGAGATAAGGTTAGTGGCTAAA
* * * * **
83574735 ATCTACTCCATAGTCGATACATGAAGATAAGACTCGCCATTTTCGATTTGCTCCATAGTCGATAC
1 ATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCATAACCGATAC
83574800 ATGGAGATAAGAC
66 ATGGAGATAAGAC
83574813 TCAATTTTCA
Statistics
Matches: 550, Mismatches: 54, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
175 1 0.00
176 423 0.77
177 126 0.23
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (176 bp):
ATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCATAACCGATAC
ATGGAGATAAGACCTGTAACTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGACCTGTATCT
TCAACCTGCTCTCTGCAAACTCAGAGAGATAAGGTTAGTGGCTAAA
Found at i:83574713 original size:43 final size:44
Alignment explanation
Indices: 83574628--83574721 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 44
83574618 CGATACATGG
**
83574628 AGATAAGACCTGTAACTTTCAGTCTGCTTCCTGCAACTTCAGAA
1 AGATAAGACCTGTAACTTTCAACCTGCTTCCTGCAACTTCAGAA
* *
83574672 AGATAAGACCTGTATC-TTCAACCTGC-TCTCTGCAAAC-TCAGAG
1 AGATAAGACCTGTAACTTTCAACCTGCTTC-CTGC-AACTTCAGAA
83574715 AGATAAG
1 AGATAAG
83574722 GTTAATGGCT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
42 2 0.05
43 24 0.55
44 18 0.41
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (44 bp):
AGATAAGACCTGTAACTTTCAACCTGCTTCCTGCAACTTCAGAA
Found at i:83585981 original size:21 final size:20
Alignment explanation
Indices: 83585931--83585981 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 20
83585921 CGGATCACCT
**
83585931 TAAAAATTTGATCATTTTAA
1 TAAAAATTTGATCATTAAAA
*
83585951 TAAAACATTTGATTTATTAAAA
1 TAAAA-ATTTGA-TCATTAAAA
83585973 TAAAAATTT
1 TAAAAATTT
83585982 TAGGTCTACG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 10 0.38
22 11 0.42
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (20 bp):
TAAAAATTTGATCATTAAAA
Found at i:83588356 original size:6 final size:6
Alignment explanation
Indices: 83588345--83588400 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
83588335 CAAAATAGAC
* * * *
83588345 ATAAAA ATAAAA ATAAAA AT-ATA A-GAAA ATAAAA ATAAAC ATAAAC
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
83588391 ATAAAA ATAA
1 ATAAAA ATAA
83588401 TCGGACTCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
5 6 0.14
6 37 0.86
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:83589683 original size:33 final size:33
Alignment explanation
Indices: 83589646--83589709 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
83589636 AAGCAAGCAA
83589646 ATATTAAAATAGACAAACCAATAAAATAGATTC
1 ATATTAAAATAGACAAACCAATAAAATAGATTC
* *
83589679 ATATTAAAATAGCCAAACCAGTAAAATAGAT
1 ATATTAAAATAGACAAACCAATAAAATAGAT
83589710 GCATTCTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.56, C:0.12, G:0.08, T:0.23
Consensus pattern (33 bp):
ATATTAAAATAGACAAACCAATAAAATAGATTC
Found at i:83595982 original size:20 final size:20
Alignment explanation
Indices: 83595957--83596001 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
83595947 GCCTGACGGA
*
83595957 GGGATATATGTCATAACTAT
1 GGGATATATGTCAGAACTAT
*
83595977 GGGATATATGTTAGAACTAT
1 GGGATATATGTCAGAACTAT
83595997 GGGAT
1 GGGAT
83596002 TTCACTCGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (20 bp):
GGGATATATGTCAGAACTAT
Found at i:83613167 original size:46 final size:46
Alignment explanation
Indices: 83613023--83613192 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
83613013 TGTGTGCTAA
* *
83613023 TGTAAGACATGTCTGGGACATGCATCGACTAC-ATTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGACTTCGA-GATGAGAGCCAG
* * *
83613069 TGTAAGACCATGTTTGGGACATGGCATCGACATT-GAGACGAGAGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGAC-TTCGAGATGAGAGCCAG
* **
83613117 TGTAAGACATGTCTGGGACATGCATCGGCTTCGAGATGTCAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGACTTCGAGATGAGAGCCAG
* *
83613163 TGTAAAATATGT-TAGGGACATGCATCGACT
1 TGTAAGACATGTCT-GGGACATGCATCGACT
83613193 ACAAGATGTG
Statistics
Matches: 104, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
45 3 0.03
46 49 0.47
47 26 0.25
48 24 0.23
49 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGACTTCGAGATGAGAGCCAG
Found at i:83614583 original size:44 final size:44
Alignment explanation
Indices: 83614520--83614617 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
83614510 GTTATTGTAG
** * * * *
83614520 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGGAGCTA
1 CAAATCTTATCTAACTGAAGTTGCAGTAGAGCAAACTGAAGCAA
* *
83614564 CAAATCTTATCTAATTGAAGTTGCAGTAGAGCAGACTGAAGCAA
1 CAAATCTTATCTAACTGAAGTTGCAGTAGAGCAAACTGAAGCAA
83614608 CAAATCTTAT
1 CAAATCTTAT
83614618 ACCTCCAAAG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (44 bp):
CAAATCTTATCTAACTGAAGTTGCAGTAGAGCAAACTGAAGCAA
Found at i:83616315 original size:4 final size:4
Alignment explanation
Indices: 83616306--83616340 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
83616296 TCATGAAATT
* *
83616306 TTTA TTTA TTTA TTTA TATA TTTA TTTA TATA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
83616341 GCTCTTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:83616327 original size:12 final size:12
Alignment explanation
Indices: 83616306--83616340 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
83616296 TCATGAAATT
*
83616306 TTTATTTATTTA
1 TTTATATATTTA
83616318 TTTATATATTTA
1 TTTATATATTTA
83616330 TTTATATATTT
1 TTTATATATTT
83616341 GCTCTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTATATATTTA
Found at i:83618623 original size:27 final size:27
Alignment explanation
Indices: 83618581--83618633 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
83618571 TACAAAGTAG
*
83618581 GAATGTTTCATTAGGTGCCTAAGAAGA
1 GAATGTTTCATCAGGTGCCTAAGAAGA
83618608 GAATGTTTCATCAGGTGCCTAAGAAG
1 GAATGTTTCATCAGGTGCCTAAGAAG
83618634 GTGAACCATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (27 bp):
GAATGTTTCATCAGGTGCCTAAGAAGA
Found at i:83620507 original size:42 final size:42
Alignment explanation
Indices: 83620460--83620550 Score: 164
Period size: 42 Copynumber: 2.2 Consensus size: 42
83620450 TGCTTCCACA
83620460 TTGCTTCCTTTTTTGTCTCAACCTGGATGTTGTTTTCCCAAG
1 TTGCTTCCTTTTTTGTCTCAACCTGGATGTTGTTTTCCCAAG
* *
83620502 TTGCTTCCTTTTTTGTCTGAACCTGGATGTTGTTTTCCCATG
1 TTGCTTCCTTTTTTGTCTCAACCTGGATGTTGTTTTCCCAAG
83620544 TTGCTTC
1 TTGCTTC
83620551 ATTGGTTTCT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.10, C:0.23, G:0.18, T:0.49
Consensus pattern (42 bp):
TTGCTTCCTTTTTTGTCTCAACCTGGATGTTGTTTTCCCAAG
Found at i:83630863 original size:67 final size:67
Alignment explanation
Indices: 83630779--83630905 Score: 209
Period size: 67 Copynumber: 1.9 Consensus size: 67
83630769 AGACCTTTCC
* ** *
83630779 AGAGAGCATACTCCCGCGAACCTCATTTCTTACAGTAGGATTATCAGTCCAGGCTAAATCCCCTA
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAACAGGATTACCAGTCCAGGCTAAATCCCCTA
83630844 TA
66 TA
*
83630846 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAACGGGATTACCAGTCCAGGCTAAATC
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAACAGGATTACCAGTCCAGGCTAAATC
83630906 TCCTGTAACA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 55 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCGAACCTCATTTCTTACAACAGGATTACCAGTCCAGGCTAAATCCCCTA
TA
Found at i:83635518 original size:41 final size:39
Alignment explanation
Indices: 83635473--83635608 Score: 100
Period size: 40 Copynumber: 3.5 Consensus size: 39
83635463 CGAGTTTGAG
83635473 TCGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAAT
1 TCGATGAGACACTGGGTGTCAA-TTA-TACTTCGGATTAAT
* * *
83635514 TCGATG-GTGCACTGGGTGCCAATT-TACTTCGGTTTAA-
1 TCGATGAG-ACACTGGGTGTCAATTATACTTCGGATTAAT
* * * ** * *
83635551 CCAATAAGACACTATGTGTAAAATTATTACTTCGAATT-AT
1 TCGATGAGACACTGGGTGT-CAATTA-TACTTCGGATTAAT
*
83635591 TCGATGAGGCACTGGGTG
1 TCGATGAGACACTGGGTG
83635609 CCAAACTGGT
Statistics
Matches: 70, Mismatches: 19, Indels: 13
0.69 0.19 0.13
Matches are distributed among these distances:
37 10 0.14
38 17 0.24
39 1 0.01
40 24 0.34
41 18 0.26
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (39 bp):
TCGATGAGACACTGGGTGTCAATTATACTTCGGATTAAT
Found at i:83635758 original size:53 final size:53
Alignment explanation
Indices: 83635700--83635807 Score: 182
Period size: 53 Copynumber: 2.0 Consensus size: 53
83635690 AAAGTTCTAT
*
83635700 AATTGATATTGAAATGGCATGTTATGAGAAAT-GAAAGTGAAATAGTGAATTGA
1 AATTGATATTGAAATGGCATGGTATGAGAAATAG-AAGTGAAATAGTGAATTGA
*
83635753 AATTGATATTGAAATGGCATGGTATGAGAAATAGAAGTGATATAGTGAATTGA
1 AATTGATATTGAAATGGCATGGTATGAGAAATAGAAGTGAAATAGTGAATTGA
83635806 AA
1 AA
83635808 ATAGAATGTA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
53 51 0.98
54 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.25, T:0.30
Consensus pattern (53 bp):
AATTGATATTGAAATGGCATGGTATGAGAAATAGAAGTGAAATAGTGAATTGA
Found at i:83635910 original size:16 final size:16
Alignment explanation
Indices: 83635859--83635914 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
83635849 TTATATACTC
*
83635859 ATGAATTGAGTATGGT
1 ATGAATTGAGTATTGT
* *
83635875 ATGAAATGATGTATT-C
1 ATGAATTGA-GTATTGT
83635891 ATGAATTGAGTATTGT
1 ATGAATTGAGTATTGT
83635907 ATG-ATTGA
1 ATGAATTGA
83635915 TGCCATTGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
15 10 0.30
16 19 0.58
17 4 0.12
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.39
Consensus pattern (16 bp):
ATGAATTGAGTATTGT
Found at i:83636261 original size:31 final size:31
Alignment explanation
Indices: 83636223--83636287 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
83636213 TGCCAAAAGA
83636223 GTATGTTTCAAAATTTTGAATAAAATGGCAT
1 GTATGTTTCAAAATTTTGAATAAAATGGCAT
**
83636254 GTATGTTTCAAAATTTTGAATAGGATGGCAT
1 GTATGTTTCAAAATTTTGAATAAAATGGCAT
83636285 GTA
1 GTA
83636288 CTTAAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.38
Consensus pattern (31 bp):
GTATGTTTCAAAATTTTGAATAAAATGGCAT
Found at i:83636690 original size:22 final size:22
Alignment explanation
Indices: 83636662--83636709 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
83636652 AATAACATAG
*
83636662 TTTTAATAAATGCAAAAA-AATC
1 TTTTAATAAATG-AAAAACAATA
83636684 TTTTAATAAATGAAAAACAATA
1 TTTTAATAAATGAAAAACAATA
83636706 TTTT
1 TTTT
83636710 GAACTTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (22 bp):
TTTTAATAAATGAAAAACAATA
Found at i:83647345 original size:16 final size:16
Alignment explanation
Indices: 83647321--83647351 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
83647311 AATATAAGCC
*
83647321 ATCTTATCACATAATA
1 ATCTAATCACATAATA
83647337 ATCTAATCACATAAT
1 ATCTAATCACATAAT
83647352 GCAACTTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.35
Consensus pattern (16 bp):
ATCTAATCACATAATA
Found at i:83649925 original size:24 final size:24
Alignment explanation
Indices: 83649897--83649945 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
83649887 ACTTTAACTA
** *
83649897 TTCTATATGCTATTCATTTTAAAT
1 TTCTATATAATATTCATATTAAAT
83649921 TTCTATATAATATTCATATTAAAT
1 TTCTATATAATATTCATATTAAAT
83649945 T
1 T
83649946 GTTTTAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.10, G:0.02, T:0.53
Consensus pattern (24 bp):
TTCTATATAATATTCATATTAAAT
Found at i:83650239 original size:24 final size:24
Alignment explanation
Indices: 83650207--83650258 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
83650197 TATTTTAGAC
* * *
83650207 TTTTTTATTAATGATTTTAAATTG
1 TTTTATATTAATCACTTTAAATTG
*
83650231 TTTTATATTATTCACTTTAAATTG
1 TTTTATATTAATCACTTTAAATTG
83650255 TTTT
1 TTTT
83650259 CTATAATATC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.63
Consensus pattern (24 bp):
TTTTATATTAATCACTTTAAATTG
Found at i:83650275 original size:26 final size:24
Alignment explanation
Indices: 83650220--83650277 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
83650210 TTTATTAATG
*
83650220 ATTTTAAATTGTTTTATATTATTC
1 ATTTTAAATTGTTTTATATAATTC
* *
83650244 ACTTTAAATTGTTTTCTATAATATC
1 ATTTTAAATTGTTTTATATAAT-TC
83650269 TATTTTAAA
1 -ATTTTAAA
83650278 CCTATTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 19 0.68
25 2 0.07
26 7 0.25
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (24 bp):
ATTTTAAATTGTTTTATATAATTC
Found at i:83658111 original size:10 final size:10
Alignment explanation
Indices: 83658096--83658152 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
83658086 GTCCTCCTAT
83658096 TCAAATTCTC
1 TCAAATTCTC
83658106 TCAAATTCT-
1 TCAAATTCTC
83658115 TCCAAAAATTCTC
1 T-C--AAATTCTC
*
83658128 TCATATTCTC
1 TCAAATTCTC
* *
83658138 GCAAATTTTC
1 TCAAATTCTC
83658148 TCAAA
1 TCAAA
83658153 GCTCTCTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
9 1 0.03
10 28 0.74
12 8 0.21
13 1 0.03
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.39
Consensus pattern (10 bp):
TCAAATTCTC
Found at i:83658143 original size:20 final size:20
Alignment explanation
Indices: 83658097--83658152 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 20
83658087 TCCTCCTATT
83658097 CAAATTCTCTCAAATTCTTC
1 CAAATTCTCTCAAATTCTTC
*
83658117 CAAAAATTCTCTCATATTC-TC
1 C--AAATTCTCTCAAATTCTTC
*
83658138 GCAAATTTTCTCAAA
1 -CAAATTCTCTCAAA
83658153 GCTCTCTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 12 0.40
21 2 0.07
22 16 0.53
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.38
Consensus pattern (20 bp):
CAAATTCTCTCAAATTCTTC
Found at i:83658350 original size:27 final size:26
Alignment explanation
Indices: 83658320--83658404 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 26
83658310 TTCAATAGTA
83658320 TTTAATATTTTTTTTAATTTATGCAAT
1 TTTAAT-TTTTTTTTAATTTATGCAAT
* *
83658347 TTTAATTAATTTTTCAA--TA--CAA-
1 TTTAATT-TTTTTTTAATTTATGCAAT
*
83658369 TTTAATTTTTTTTTTCATTTATGCAAT
1 TTTAA-TTTTTTTTTAATTTATGCAAT
83658396 TTTAATTTT
1 TTTAATTTT
83658405 AATTTTATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 15
0.70 0.08 0.23
Matches are distributed among these distances:
22 11 0.24
23 5 0.11
24 2 0.04
25 2 0.04
26 8 0.17
27 18 0.39
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTAATTTTTTTTTAATTTATGCAAT
Found at i:83658372 original size:49 final size:49
Alignment explanation
Indices: 83658303--83658402 Score: 155
Period size: 49 Copynumber: 2.0 Consensus size: 49
83658293 AGTGATAATT
**
83658303 TTAATATTTCAATAGTATTTAATATTTTTTTTAATTTATGCAATTTTAA
1 TTAATATTTCAATACAATTTAATATTTTTTTTAATTTATGCAATTTTAA
* * *
83658352 TTAATTTTTCAATACAATTTAATTTTTTTTTTCATTTATGCAATTTTAA
1 TTAATATTTCAATACAATTTAATATTTTTTTTAATTTATGCAATTTTAA
83658401 TT
1 TT
83658403 TTAATTTTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (49 bp):
TTAATATTTCAATACAATTTAATATTTTTTTTAATTTATGCAATTTTAA
Found at i:83659357 original size:7 final size:7
Alignment explanation
Indices: 83659345--83659392 Score: 78
Period size: 7 Copynumber: 6.7 Consensus size: 7
83659335 TAATCGTTTT
83659345 GTATTTA
1 GTATTTA
83659352 GTATTTTA
1 GTA-TTTA
*
83659360 ATATTTA
1 GTATTTA
83659367 GTATTTA
1 GTATTTA
83659374 GTATTTA
1 GTATTTA
83659381 GTATTTA
1 GTATTTA
83659388 GTATT
1 GTATT
83659393 ATGTATACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
7 32 0.84
8 6 0.16
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:83659955 original size:30 final size:31
Alignment explanation
Indices: 83659890--83659956 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
83659880 ATAACGACCC
*
83659890 GGGCCCATCAACAATGCCCATACAATCAGCT
1 GGGCCCATCAACAATGCCCACACAATCAGCT
* * * *
83659921 -GGCCCATCAATAGTGCCCACATAGTCA-CT
1 GGGCCCATCAACAATGCCCACACAATCAGCT
83659950 GGGCCCA
1 GGGCCCA
83659957 ACACTTCAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 2 0.07
30 28 0.93
ACGTcount: A:0.28, C:0.36, G:0.19, T:0.16
Consensus pattern (31 bp):
GGGCCCATCAACAATGCCCACACAATCAGCT
Found at i:83660528 original size:54 final size:55
Alignment explanation
Indices: 83660465--83660594 Score: 208
Period size: 54 Copynumber: 2.3 Consensus size: 55
83660455 TTCTTTGATT
*
83660465 TAATAAAATAAAAGTTGTTTTTAATATTTTAATTATAATTTACTC-TTATATTTG
1 TAATAAAATAAAAGTTGTTTTTAATATTTGAATTATAATTTACTCTTTATATTTG
*
83660519 TAATAAAATAAAAGTTGTTTTTAGTATTTGAATTATAATTTACTCTTTTTATATTTG
1 TAATAAAATAAAAGTTGTTTTTAATATTTGAATTATAATTTACTC--TTTATATTTG
*
83660576 TAATAGAATAAAAGTTGTT
1 TAATAAAATAAAAGTTGTT
83660595 ATGAATAAGG
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
54 43 0.61
57 27 0.39
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.50
Consensus pattern (55 bp):
TAATAAAATAAAAGTTGTTTTTAATATTTGAATTATAATTTACTCTTTATATTTG
Found at i:83664032 original size:123 final size:122
Alignment explanation
Indices: 83663681--83664068 Score: 381
Period size: 126 Copynumber: 3.1 Consensus size: 122
83663671 AATAGAAAGT
* *
83663681 ACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGAAAGTGCATACTGCA
1 ACTGTAGAAAAA-AGCGTCCACGTGAGA-C-TTTTTCAGTAATTTTGCTGAAAGTGCATCCTGCT
* * * *
83663746 TGAAGCGTTTTTGACACTATTTGTTCAGAAAGGTCATCTTACAATTATTTTTTCAGATACC
63 TGAAGCGTTTTTGACACTATTT-TTTAGAAACGTCTTCTTAAAATTATTTTTTCAGATACC
* * * * *
83663807 ACTGTATCAAAAGATCGTCCACGT-AGGACCTTTTTTTAGTACTTTTGCTGATAA-TGCATCCTG
1 ACTGTA-GAAAAAAGCGTCCACGTGA-GA-C-TTTTTCAGTAATTTTGCTGA-AAGTGCATCCTG
* * * * *
83663870 CTTAAAGTGTTTTTTACACTATTTTTTCAAAAACGTCTTCTCAAAATTATTTTCTT-AGATACC
61 CTTGAAGCGTTTTTGACACTATTTTTT-AGAAACGTCTTCTTAAAATTATTTT-TTCAGATACC
* * * *
83663933 ACTGTAGAAAAAAGCATCCACGTGAGTA-TTTTTCAGTAATTTTACTGACAGTTCATCCTGCTTG
1 ACTGTAGAAAAAAGCGTCCACGTGAG-ACTTTTTCAGTAATTTTGCTGAAAGTGCATCCTGCTTG
* * * * *
83663997 AAGCGTTTTGGATACTATTTCTTTAGAAACTTCTTCTTAAAATT-TTTTTTCCAAATACT
65 AAGCGTTTTTGACACTATTT-TTTAGAAACGTCTTCTTAAAATTATTTTTT-CAGATACC
*
83664056 ACTGAAGAAAAAA
1 ACTGTAGAAAAAA
83664069 AACCAAAAAT
Statistics
Matches: 214, Mismatches: 37, Indels: 25
0.78 0.13 0.09
Matches are distributed among these distances:
121 2 0.01
122 5 0.02
123 78 0.36
124 3 0.01
125 17 0.08
126 101 0.47
127 8 0.04
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (122 bp):
ACTGTAGAAAAAAGCGTCCACGTGAGACTTTTTCAGTAATTTTGCTGAAAGTGCATCCTGCTTGA
AGCGTTTTTGACACTATTTTTTAGAAACGTCTTCTTAAAATTATTTTTTCAGATACC
Found at i:83664185 original size:12 final size:12
Alignment explanation
Indices: 83664167--83664208 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
83664157 CTAAACATGA
83664167 ATTTAATTAATT
1 ATTTAATTAATT
*
83664179 TTTTAATTAA-T
1 ATTTAATTAATT
83664190 ATTTAATTAATT
1 ATTTAATTAATT
*
83664202 AATTAAT
1 ATTTAAT
83664209 CTTACACCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
ATTTAATTAATT
Found at i:83664271 original size:16 final size:17
Alignment explanation
Indices: 83664231--83664276 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 17
83664221 TTTATTTAAT
83664231 TAAACCCTTACAAAAACCA
1 TAAACCC-TA-AAAAACCA
*
83664250 TAAACCCTAAAAAACCC
1 TAAACCCTAAAAAACCA
83664267 T-AACCCTAAA
1 TAAACCCTAAA
83664277 CCATAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 9 0.35
17 8 0.31
18 2 0.08
19 7 0.27
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (17 bp):
TAAACCCTAAAAAACCA
Found at i:83669505 original size:13 final size:13
Alignment explanation
Indices: 83669487--83669514 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
83669477 ATAGAGTTAG
83669487 AAAGATGATAAAT
1 AAAGATGATAAAT
83669500 AAAGATGATAAAT
1 AAAGATGATAAAT
83669513 AA
1 AA
83669515 TAAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.21
Consensus pattern (13 bp):
AAAGATGATAAAT
Found at i:83670443 original size:25 final size:25
Alignment explanation
Indices: 83670380--83670444 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
83670370 CAACTTGAAA
*
83670380 GAGCATCCCGTTAT-TAGCTCTCAT
1 GAGCATCCCGTTATATAGCTCTCTT
* *
83670404 GAGCATCCTGATATATAGCTCTCTT
1 GAGCATCCCGTTATATAGCTCTCTT
*
83670429 GAGCTTCCCGTTATAT
1 GAGCATCCCGTTATAT
83670445 GGTTCCTACG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 12 0.35
25 22 0.65
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (25 bp):
GAGCATCCCGTTATATAGCTCTCTT
Found at i:83671285 original size:50 final size:50
Alignment explanation
Indices: 83671231--83671331 Score: 159
Period size: 50 Copynumber: 2.0 Consensus size: 50
83671221 TATTAAATGC
*
83671231 TTACTCTATTTTA-TTTCTTCTATTTTATAGTACTTTGGAAACTCGTTAGG
1 TTACTCTATTTTATTTTC-TCGATTTTATAGTACTTTGGAAACTCGTTAGG
* *
83671281 TTACTCTGTTTTATTTTCTCGATTTTGTAGTACTTTGGAAACTCGTTAGG
1 TTACTCTATTTTATTTTCTCGATTTTATAGTACTTTGGAAACTCGTTAGG
83671331 T
1 T
83671332 CGGAAGCTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 43 0.91
51 4 0.09
ACGTcount: A:0.20, C:0.14, G:0.15, T:0.51
Consensus pattern (50 bp):
TTACTCTATTTTATTTTCTCGATTTTATAGTACTTTGGAAACTCGTTAGG
Found at i:83679935 original size:18 final size:18
Alignment explanation
Indices: 83679912--83680004 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
83679902 CCCAACTACT
*
83679912 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
83679930 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
* *
83679948 GTATACATGAATAGTACT
1 GTATACGTGAATAGTACC
* *
83679966 GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
83679984 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
83680002 GTA
1 GTA
83680005 AACGGTCGTA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:83679964 original size:36 final size:36
Alignment explanation
Indices: 83679912--83680004 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
83679902 CCCAACTACT
* *
83679912 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
* *
83679948 GTATACATGAATAGTACTGTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
83679984 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
83680005 AACGGTCGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
Found at i:83686822 original size:27 final size:27
Alignment explanation
Indices: 83686765--83686825 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
83686755 AAATTAAAAG
* * * *
83686765 AAAATATATAAAAATTATATAATTTTT
1 AAAATATAAAAAAATTATATAAGTATA
83686792 AAAATATAAAAGAAATTATA-AAGTATA
1 AAAATATAAAA-AAATTATATAAGTATA
83686819 AAAATAT
1 AAAATAT
83686826 GTGTCTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 21 0.72
28 8 0.28
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (27 bp):
AAAATATAAAAAAATTATATAAGTATA
Found at i:83690246 original size:16 final size:16
Alignment explanation
Indices: 83690221--83690254 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
83690211 ATGAATATAT
* *
83690221 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
83690237 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
83690253 AT
1 AT
83690255 TGGATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:83694348 original size:164 final size:163
Alignment explanation
Indices: 83694074--83694402 Score: 550
Period size: 164 Copynumber: 2.0 Consensus size: 163
83694064 AAAGAAGTGA
* *
83694074 TTTCCATGGATGCAAAGCTGATGTTTCTTTAGATGAGATGGATCTTTCAACTACACAACTACAAC
1 TTTCCATGGATGCAAAGCTGATGTTTCTTTAGATGAGATGGATCTCTCAACTACACAACCACAAC
*
83694139 CATCTAGAAACCAAGATGATTCCACATTTTCAAAGAAGAAAAAAAAAGATTTCTGATGCAAGTGA
66 CATCTAGAAACCAAGATGATTCCACATTTTCAAAGAAG-AAAAAAAAGATTTCTGATGAAAGTGA
* * *
83694204 ACAAATTTCTACTTTATTTATTGGTGCAGCCACG
130 ACAAATTTCTACTTCATCTATTGATGCAGCCACG
* * *
83694238 TTTCCATGGATGCGAAGCTGATGTTTCTTTGGATGAGATGGATCTCTCAACTACACAACCGCAAC
1 TTTCCATGGATGCAAAGCTGATGTTTCTTTAGATGAGATGGATCTCTCAACTACACAACCACAAC
*
83694303 CATCTAGAAACCAAGATGATTCCACATTTTCAAAGAAGGAAAAAAAGATTTCTGATGAAAGTGAA
66 CATCTAGAAACCAAGATGATTCCACATTTTCAAAGAAGAAAAAAAAGATTTCTGATGAAAGTGAA
*
83694368 CAAATTTCTACTTCATCTATTGATGTAGCCACG
131 CAAATTTCTACTTCATCTATTGATGCAGCCACG
83694401 TT
1 TT
83694403 ATTGGCAGAA
Statistics
Matches: 154, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
163 56 0.36
164 98 0.64
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (163 bp):
TTTCCATGGATGCAAAGCTGATGTTTCTTTAGATGAGATGGATCTCTCAACTACACAACCACAAC
CATCTAGAAACCAAGATGATTCCACATTTTCAAAGAAGAAAAAAAAGATTTCTGATGAAAGTGAA
CAAATTTCTACTTCATCTATTGATGCAGCCACG
Found at i:83700083 original size:18 final size:18
Alignment explanation
Indices: 83700060--83700099 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
83700050 TATAATATTA
*
83700060 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
83700078 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
83700096 AAAA
1 AAAA
83700100 TAATTATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:83700217 original size:30 final size:29
Alignment explanation
Indices: 83700183--83700245 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 29
83700173 CTTAACAAAT
83700183 AAATGTCTCTAAAATAATAACAAAATTAA
1 AAATGTCTCTAAAATAATAACAAAATTAA
*
83700212 CAAATGTCTTTAAAATAATAACAAAATTAA
1 -AAATGTCTCTAAAATAATAACAAAATTAA
83700242 AAAT
1 AAAT
83700246 AAAATAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 4 0.12
30 28 0.88
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.29
Consensus pattern (29 bp):
AAATGTCTCTAAAATAATAACAAAATTAA
Found at i:83701291 original size:22 final size:22
Alignment explanation
Indices: 83701261--83701307 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
83701251 TTTGGTATTT
83701261 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
83701283 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
83701305 GGG
1 GGG
83701308 TTCAAAAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.32, C:0.04, G:0.40, T:0.23
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:83705602 original size:19 final size:19
Alignment explanation
Indices: 83705578--83705622 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
83705568 CTTTTCATTC
*
83705578 TCTTTTTTGAATTTTCTTT
1 TCTTTTTTCAATTTTCTTT
*
83705597 TCTTTTTTCATTTTTCTTT
1 TCTTTTTTCAATTTTCTTT
83705616 TCTTTTT
1 TCTTTTT
83705623 CTCTCATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.07, C:0.13, G:0.02, T:0.78
Consensus pattern (19 bp):
TCTTTTTTCAATTTTCTTT
Found at i:83707832 original size:13 final size:13
Alignment explanation
Indices: 83707814--83707838 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83707804 AAACCGTATG
83707814 CAATTTTTTTTTT
1 CAATTTTTTTTTT
83707827 CAATTTTTTTTT
1 CAATTTTTTTTT
83707839 CGAACTCTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (13 bp):
CAATTTTTTTTTT
Found at i:83708183 original size:22 final size:22
Alignment explanation
Indices: 83708153--83708199 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
83708143 TTTGGTATTT
83708153 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
83708175 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
83708197 GGG
1 GGG
83708200 TTCAAAAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.32, C:0.04, G:0.40, T:0.23
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:83712381 original size:2 final size:2
Alignment explanation
Indices: 83712368--83712423 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
83712358 TTAGAACAAA
*
83712368 AG AG AG AC AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
83712410 AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG
83712424 TAGTGTATCC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.02, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:83714744 original size:3 final size:3
Alignment explanation
Indices: 83714736--83714761 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
83714726 AAGGTATCAA
83714736 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
83714762 GAGGTGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:83735587 original size:75 final size:77
Alignment explanation
Indices: 83735472--83735626 Score: 260
Period size: 75 Copynumber: 2.0 Consensus size: 77
83735462 AATATGGAAT
*
83735472 TAATAATGTAATGCAAGCAGCAGAAGAAGAAAGCTATCACTACAATGACCATTTTATCATATTAT
1 TAATAATGTAATGCAA-CAGCAGAAGAAGAAAGCTATCACTACAATGACCATTTTATCATATTAA
83735537 TGAAATAAAACTA
65 TGAAATAAAACTA
* *
83735550 TAATAATGTAATGC-A-AGCAGAAGACGAAAGCTATCACTACAATGACCTTTTTATCATATTAAT
1 TAATAATGTAATGCAACAGCAGAAGAAGAAAGCTATCACTACAATGACCATTTTATCATATTAAT
83735613 GAAATAAAACTA
66 GAAATAAAACTA
83735625 TA
1 TA
83735627 TTTGATCACA
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
75 59 0.80
77 1 0.01
78 14 0.19
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (77 bp):
TAATAATGTAATGCAACAGCAGAAGAAGAAAGCTATCACTACAATGACCATTTTATCATATTAAT
GAAATAAAACTA
Found at i:83736466 original size:3 final size:3
Alignment explanation
Indices: 83736458--83736485 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
83736448 GATTCAGTGC
83736458 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
83736486 TTGTAATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:83736836 original size:15 final size:15
Alignment explanation
Indices: 83736816--83736846 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
83736806 CATCTATTAA
83736816 TAAAATTATATGATT
1 TAAAATTATATGATT
83736831 TAAAATTATATGATT
1 TAAAATTATATGATT
83736846 T
1 T
83736847 GAGGAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
TAAAATTATATGATT
Found at i:83744307 original size:40 final size:40
Alignment explanation
Indices: 83744251--83744470 Score: 246
Period size: 40 Copynumber: 5.5 Consensus size: 40
83744241 CATTTGAATG
*
83744251 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGTT
* * *
83744291 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGTT
* * * * *
83744331 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGTT
* * *
83744371 ATATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGTT
* * * * * *
83744410 ATACCCGGGTTAAGACCCGAAGGAAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGTT
* *
83744450 ATATCC-GGCTAAATTCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
83744471 AAACTTGGGT
Statistics
Matches: 156, Mismatches: 23, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
39 47 0.30
40 109 0.70
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGTT
Found at i:83744427 original size:79 final size:80
Alignment explanation
Indices: 83744255--83744470 Score: 231
Period size: 79 Copynumber: 2.7 Consensus size: 80
83744245 TGAATGATAT
* * * * *
83744255 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGGTTTTATCCGGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGATATATCCGGGCTAAGTCCCGAAGGCATTTA
* * * *
83744320 TGCTAGTGATTTTAT
66 TGCGAGTGACTATAC
* *
83744335 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAG-CCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGATATATCCGGGCTAAGTCCCGAAGGCATTTA
83744399 TGCGAGTTG-CTATAC
66 TGCGAG-TGACTATAC
* * * ** * * *
83744414 CCGGGTTAAGACCCGAAGGAAATTGTGCTTGTGGTTATATCC-GGCTAAATTCCGAAG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGATATATCCGGGCTAAGTCCCGAAG
83744471 AAACTTGGGT
Statistics
Matches: 114, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
78 6 0.05
79 62 0.54
80 46 0.40
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGATATATCCGGGCTAAGTCCCGAAGGCATTTA
TGCGAGTGACTATAC
Found at i:83752437 original size:40 final size:40
Alignment explanation
Indices: 83752375--83752585 Score: 212
Period size: 40 Copynumber: 5.3 Consensus size: 40
83752365 ATTTGAATGA
* *
83752375 TATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* *
83752415 TATCTGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * * *
83752455 TATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * *
83752495 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * * * *
83752535 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
83752575 TATCC-GGCTAA
1 TATCCGGGCTAA
83752586 ATTCCGAAGA
Statistics
Matches: 153, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 7 0.05
40 143 0.93
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:83767590 original size:28 final size:28
Alignment explanation
Indices: 83767550--83767608 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
83767540 AACGGATTCA
83767550 CTATGACCAATTAATTTAATTTCATTTT
1 CTATGACCAATTAATTTAATTTCATTTT
83767578 CTATGACCAATTAATTTAATTTCATTTT
1 CTATGACCAATTAATTTAATTTCATTTT
83767606 CTA
1 CTA
83767609 ACTTCAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.15, G:0.03, T:0.49
Consensus pattern (28 bp):
CTATGACCAATTAATTTAATTTCATTTT
Found at i:83767616 original size:28 final size:27
Alignment explanation
Indices: 83767554--83767625 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 27
83767544 GATTCACTAT
83767554 GACCAATTAATTTAATTTCATTTTCTA
1 GACCAATTAATTTAATTTCATTTTCTA
83767581 TGACCAATTAATTTAATTTCATTTTCTA
1 -GACCAATTAATTTAATTTCATTTTCTA
83767609 -ACTTCAATTAA-TTAATT
1 GAC--CAATTAATTTAATT
83767626 AATTAATTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
26 2 0.05
27 6 0.14
28 34 0.81
ACGTcount: A:0.35, C:0.14, G:0.03, T:0.49
Consensus pattern (27 bp):
GACCAATTAATTTAATTTCATTTTCTA
Found at i:83767623 original size:4 final size:4
Alignment explanation
Indices: 83767614--83767644 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
83767604 TTCTAACTTC
83767614 AATT AATT AATT AATT AATT AATT AA-T AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT
83767645 TGAAAAACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:83772126 original size:15 final size:15
Alignment explanation
Indices: 83772106--83772136 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
83772096 GGTAGAAATA
83772106 TATTTGAGTCTAGTT
1 TATTTGAGTCTAGTT
83772121 TATTTGAGTCTAGTT
1 TATTTGAGTCTAGTT
83772136 T
1 T
83772137 CTAAAACATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.19, T:0.55
Consensus pattern (15 bp):
TATTTGAGTCTAGTT
Found at i:83775778 original size:15 final size:15
Alignment explanation
Indices: 83775758--83775788 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
83775748 TAAGTTAGTG
83775758 AATTGAAACGTATGA
1 AATTGAAACGTATGA
83775773 AATTGAAACGTATGA
1 AATTGAAACGTATGA
83775788 A
1 A
83775789 CATACTAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.26
Consensus pattern (15 bp):
AATTGAAACGTATGA
Found at i:83779663 original size:44 final size:44
Alignment explanation
Indices: 83779611--83779701 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
83779601 TATTTTTGAG
* *
83779611 TAGAATAATAATATGTCAAAGTTGTGTAAAACTTATTTTCTTTT
1 TAGAATAATAATATCTCAAAGTTGTGTAAAACTTATTGTCTTTT
83779655 TAGAATAATAATATCTCAAAGTTGTGTAAAACTTATTGTCTTTT
1 TAGAATAATAATATCTCAAAGTTGTGTAAAACTTATTGTCTTTT
83779699 TAG
1 TAG
83779702 CCCTACCGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (44 bp):
TAGAATAATAATATCTCAAAGTTGTGTAAAACTTATTGTCTTTT
Found at i:83781233 original size:20 final size:20
Alignment explanation
Indices: 83781194--83781233 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
83781184 TAAACATTAA
*
83781194 ACAACTAGTGAGCTACTATT
1 ACAACTAGTGAGCTAATATT
* *
83781214 ACAACTATTGAGTTAATATT
1 ACAACTAGTGAGCTAATATT
83781234 CGCTTTCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (20 bp):
ACAACTAGTGAGCTAATATT
Found at i:83787222 original size:24 final size:24
Alignment explanation
Indices: 83787190--83787250 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
83787180 AAAATCCAAT
* * *
83787190 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAAT-TA
83787214 GCACTATGTGTGCGAGTGTAATTA
1 GCACTATGTGTGCGAGTGTAATTA
83787238 GCACTATGTGTGC
1 GCACTATGTGTGC
83787251 AAGTACGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATTA
Found at i:83790579 original size:16 final size:17
Alignment explanation
Indices: 83790560--83790592 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
83790550 AATTGTATTG
83790560 TATAAA-AAAATTTAAA
1 TATAAATAAAATTTAAA
*
83790576 TATAAATATAATTTAAA
1 TATAAATAAAATTTAAA
83790593 AAATAACATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TATAAATAAAATTTAAA
Found at i:83793741 original size:25 final size:25
Alignment explanation
Indices: 83793691--83793741 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
83793681 TTCCTTATAA
**
83793691 ACTTTAAATTAGGAATTCTATCAGG
1 ACTTTAAATTAGGAATTAGATCAGG
*
83793716 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATCAGG
83793741 A
1 A
83793742 TTTTCCTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATCAGG
Found at i:83798411 original size:25 final size:25
Alignment explanation
Indices: 83798364--83798411 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
83798354 TTCCTTATAA
**
83798364 ACTTTAAAATAGGAATTTTATTAGG
1 ACTTTAAAATAGGAATTAGATTAGG
*
83798389 ACTTTAAATTAGGAATTAGATTA
1 ACTTTAAAATAGGAATTAGATTA
83798412 AGATTTTCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.40
Consensus pattern (25 bp):
ACTTTAAAATAGGAATTAGATTAGG
Found at i:83800992 original size:7 final size:7
Alignment explanation
Indices: 83800970--83801028 Score: 52
Period size: 7 Copynumber: 8.4 Consensus size: 7
83800960 AAGATGGCAC
83800970 CATTAATG
1 CATTAA-G
83800978 CA-TAAG
1 CATTAAG
83800984 CATTAAG
1 CATTAAG
*
83800991 CATAAAAG
1 CAT-TAAG
83800999 CA-TAAG
1 CATTAAG
83801005 CATTAAG
1 CATTAAG
*
83801012 CATAAAAG
1 CAT-TAAG
83801020 CA-TAAG
1 CATTAAG
83801026 CAT
1 CAT
83801029 CCCTAATTCC
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
6 13 0.31
7 17 0.40
8 12 0.29
ACGTcount: A:0.49, C:0.15, G:0.14, T:0.22
Consensus pattern (7 bp):
CATTAAG
Found at i:83801003 original size:21 final size:21
Alignment explanation
Indices: 83800977--83801028 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
83800967 CACCATTAAT
83800977 GCATAAGCATTAAGCATAAAA
1 GCATAAGCATTAAGCATAAAA
83800998 GCATAAGCATTAAGCATAAAA
1 GCATAAGCATTAAGCATAAAA
83801019 GCATAAGCAT
1 GCATAAGCAT
83801029 CCCTAATTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.19
Consensus pattern (21 bp):
GCATAAGCATTAAGCATAAAA
Found at i:83801005 original size:6 final size:6
Alignment explanation
Indices: 83800977--83801028 Score: 50
Period size: 6 Copynumber: 7.7 Consensus size: 6
83800967 CACCATTAAT
83800977 GCATAA GCATTAA GCATAAAA GCATAA GCATTAA GCATAAAA GCATAA
1 GCATAA GCA-TAA GCAT--AA GCATAA GCA-TAA GCAT--AA GCATAA
83801025 GCAT
1 GCAT
83801029 CCCTAATTCC
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
6 16 0.40
7 12 0.30
8 12 0.30
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.19
Consensus pattern (6 bp):
GCATAA
Found at i:83803900 original size:178 final size:178
Alignment explanation
Indices: 83803601--83803957 Score: 660
Period size: 178 Copynumber: 2.0 Consensus size: 178
83803591 ACGATCTGAC
* *
83803601 ATCAGCAGGCATAACTAAACATCTTGATTAATAGCAAAGAAATTGTTGTGAAATGGAAGAAGGGA
1 ATCAGCAGGCATAAATAAACATCTTGATTAATAGCAAAGAAATTGTTCTGAAATGGAAGAAGGGA
83803666 GAAAAAACATCTTTCGGACCGCAACATTCTTTTTGGGACCCAAAAAGAAGAAGCCTTTTTCATTC
66 GAAAAAACATCTTTCGGACCGCAACATTCTTTTTGGGACCCAAAAAGAAGAAGCCTTTTTCATTC
*
83803731 TTTTACTCCACTGAAAAACATAGCTTCCCAATATTTTGCAAACTCAAA
131 TTCTACTCCACTGAAAAACATAGCTTCCCAATATTTTGCAAACTCAAA
83803779 ATCAGCAGGCATAAATAAACATCTTGATTAATAGCAAAGAAATTGTTCTGAAATGGAAGAAGGGA
1 ATCAGCAGGCATAAATAAACATCTTGATTAATAGCAAAGAAATTGTTCTGAAATGGAAGAAGGGA
*
83803844 GAAAAAGCATCTTTCGGACCGCAACATTCTTTTTGGGACCCAAAAAGAAGAAGCCTTTTTCATTC
66 GAAAAAACATCTTTCGGACCGCAACATTCTTTTTGGGACCCAAAAAGAAGAAGCCTTTTTCATTC
* *
83803909 TTCTATTCGACTGAAAAACATAGCTTCCCAATATTTTGCAAACTCAAA
131 TTCTACTCCACTGAAAAACATAGCTTCCCAATATTTTGCAAACTCAAA
83803957 A
1 A
83803958 CAACCAGGAA
Statistics
Matches: 173, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
178 173 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (178 bp):
ATCAGCAGGCATAAATAAACATCTTGATTAATAGCAAAGAAATTGTTCTGAAATGGAAGAAGGGA
GAAAAAACATCTTTCGGACCGCAACATTCTTTTTGGGACCCAAAAAGAAGAAGCCTTTTTCATTC
TTCTACTCCACTGAAAAACATAGCTTCCCAATATTTTGCAAACTCAAA
Found at i:83806751 original size:17 final size:18
Alignment explanation
Indices: 83806722--83806767 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
83806712 TTAGTTAATA
83806722 TAAA-ATAATAATATAA-G
1 TAAATATAATAATA-AAGG
83806739 TAAATATAA-AATAAAGG
1 TAAATATAATAATAAAGG
*
83806756 AAAATATAATAA
1 TAAATATAATAA
83806768 CAATAATAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 2 0.08
17 17 0.68
18 6 0.24
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (18 bp):
TAAATATAATAATAAAGG
Found at i:83806781 original size:22 final size:22
Alignment explanation
Indices: 83806744--83806820 Score: 79
Period size: 22 Copynumber: 3.5 Consensus size: 22
83806734 ATAAGTAAAT
*
83806744 ATAA-AATAA-AGGAAAATATA
1 ATAACAATAATAGAAAAATATA
*
83806764 ATAACAATAATAGAAAAATACA
1 ATAACAATAATAGAAAAATATA
* *
83806786 ACAATAATAATAGTAAAAGATATA
1 ATAACAATAATAG-AAAA-ATATA
83806810 ATAAC-ATAATA
1 ATAACAATAATA
83806821 ATATAATAGT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
20 4 0.09
21 5 0.11
22 20 0.43
23 10 0.22
24 7 0.15
ACGTcount: A:0.66, C:0.05, G:0.06, T:0.22
Consensus pattern (22 bp):
ATAACAATAATAGAAAAATATA
Found at i:83806794 original size:3 final size:3
Alignment explanation
Indices: 83806788--83806907 Score: 61
Period size: 3 Copynumber: 41.0 Consensus size: 3
83806778 AAAATACAAC
* * * *
83806788 AAT AAT AAT AGT AA- AAG ATAT AAT AA- CAT AAT AAT -AT AAT AGT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * * *
83806831 AAT AGT AAC AAT -AT GAC GAT AAT AGT AAA AAT AGT -AT ATT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
*
83806875 AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
83806908 CTATTAAGTT
Statistics
Matches: 86, Mismatches: 24, Indels: 14
0.69 0.19 0.11
Matches are distributed among these distances:
2 8 0.09
3 73 0.85
4 5 0.06
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:83807016 original size:16 final size:16
Alignment explanation
Indices: 83806989--83807026 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
83806979 AATAAATTAT
83806989 AATAAC-AGTGATGAG
1 AATAACAAGTGATGAG
*
83807004 AATAACAAGTGATGAT
1 AATAACAAGTGATGAG
83807020 AATAACA
1 AATAACA
83807027 GTAACAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.53, C:0.08, G:0.18, T:0.21
Consensus pattern (16 bp):
AATAACAAGTGATGAG
Found at i:83807159 original size:16 final size:15
Alignment explanation
Indices: 83807130--83807172 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
83807120 TATACGTATG
*
83807130 AAAAATAATGATAGT
1 AAAAATAATAATAGT
83807145 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
83807161 AATAATAATAAT
1 AAAAATAATAAT
83807173 GGAATGACGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:83807274 original size:3 final size:3
Alignment explanation
Indices: 83807266--83807292 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
83807256 ACACTACCAT
83807266 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
83807293 TAGAAATACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:83807401 original size:3 final size:3
Alignment explanation
Indices: 83807387--83807416 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
83807377 AAATATACAC
83807387 TAA TATA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA
83807417 TTAAAATGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Done.