Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 145 of 770
Found at i:42624159 original size:37 final size:37
Alignment explanation
Indices: 42624095--42624203 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
42624085 AGCTCAGATG
* * *
42624095 AAATCTCCACACGAAGTTATCGAGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
42624132 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
42624169 TAATCTCCACACGTAGTCATCGGGTCTTAACCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
42624204 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:42624405 original size:48 final size:48
Alignment explanation
Indices: 42624350--42625140 Score: 1107
Period size: 48 Copynumber: 16.0 Consensus size: 48
42624340 ACACATCGCC
*
42624350 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
42624398 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT-C-T-CA
* *
42624449 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
42624497 TACAGATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* * *
42624549 TATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* *
42624601 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
42624649 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
42624697 TACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
**
42624745 TACATATTTCACATTAGCCATTTAGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
42624795 TATATATTTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATA
1 TACATA-TTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
42624846 TATATATTTCGCATTAGCCATTCGGCTTTGCCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
42624894 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
42624942 TACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
42624990 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC------A
* * *
42625044 TATATATATTCACATTAACCATTCAGCTTTACCACATATACATATCTCATA
1 TACATAT-TTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
42625095 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
42625141 TATGCATCAA
Statistics
Matches: 685, Mismatches: 39, Indels: 36
0.90 0.05 0.05
Matches are distributed among these distances:
48 364 0.53
49 3 0.00
50 82 0.12
51 98 0.14
52 93 0.14
54 7 0.01
55 38 0.06
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:42624940 original size:245 final size:246
Alignment explanation
Indices: 42624353--42625140 Score: 1400
Period size: 245 Copynumber: 3.2 Consensus size: 246
42624343 CATCGCCTAC
* * *
42624353 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* *
42624418 TTCGGCTTTACCACATATACATATCCATATATATATATTTCACATT-GACCATTCGGCTTTACCA
66 TTCGGCTTTACCACATATACATAT-C-T-CATACATATTTCACATTAG-CCATTCGGCTTTACCA
*
42624482 CATATGCATATCTCATACAGATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
127 CATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
42624547 TATATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATATAT
192 TATATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTC--ATATAT
42624604 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
42624669 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
66 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
**
42624734 TGCATATCTCATACATATTTCACATTAGCCATTTAGCTTTACCACATATACATATCTCATATATA
131 TGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATA
42624799 TAT-TTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATAT
196 TATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATAT
*
42624849 ATATTTCGCATTAGCCATTCGGCTTTGCCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
42624914 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
66 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
42624979 TGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATA
131 TGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATATA
42625044 TATATATATTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATAT
194 TATATAT-TTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATAT
42625098 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCT
1 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCT
42625141 TATGCATCAA
Statistics
Matches: 520, Mismatches: 12, Indels: 12
0.96 0.02 0.02
Matches are distributed among these distances:
245 191 0.37
247 51 0.10
248 101 0.19
249 90 0.17
250 1 0.00
251 86 0.17
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (246 bp):
ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
TGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATA
TATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATAT
Found at i:42625211 original size:153 final size:150
Alignment explanation
Indices: 42624350--42625163 Score: 824
Period size: 152 Copynumber: 5.4 Consensus size: 150
42624340 ACACATCGCC
* *
42624350 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAATAG
** * * * * *
42624415 CCATTCGGCTTTACCACATATACATATC-CATATATAT--A-TATTTCACATTGACCATTCGGCT
66 CCATTAAGC-TAACCACATATACATATCTCATATATATAAACAAATTCACATTAACCATTCAGCT
*
42624476 TTACCACATATGCATATCTCA
130 TTACCACATATACATATCTCA
* *
42624497 TACAGATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACA
* * * * * * * *
42624562 TTAACCATTCAGCTTTACCACATATACATATCTCATATATAT--A-TATTTCGCATTAGCCATTC
62 ATAGCCATTAAGC-TAACCACATATACATATCTCATATATATAAACAAATTCACATTAACCATTC
*
42624624 GGCTTTACCACATATACATATCTCA
126 AGCTTTACCACATATACATATCTCA
*
42624649 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAATAG
** * * * * *
42624714 CCATTCGGCTTTACCACATATGCATATCTCATACATAT-------TTCACATTAGCCATTTAGCT
66 CCATTAAGC-TAACCACATATACATATCTCATATATATAAACAAATTCACATTAACCATTCAGCT
42624772 TTACCACATATACATATCTCATA
130 TTACCACATATACATATCTC--A
* * * * * *
42624795 TATATATTTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATATATATTTCGCAT
1 TACATA-TTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACAA
** ** * * *
42624860 TAGCCATTCGGCTTTGCCACATATACATATCTCATACATAT-------TTCACATTAGCCATTCG
63 TAGCCATTAAGC-TAACCACATATACATATCTCATATATATAAACAAATTCACATTAACCATTCA
42624918 GCTTTACCACATATACATATCTCA
127 GCTTTACCACATATACATATCTCA
* *
42624942 TACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAATAG
** * * * *
42625007 CCATTCGGCTTTACCACATATACATATCTCATATATATATATATATTCACATTAACCATTCAGCT
66 CCATTAAGC-TAACCACATATACATATCTCATATATATAAACAAATTCACATTAACCATTCAGCT
42625072 TTACCACATATACATATCTCATA
130 TTACCACATATACATATCTC--A
* * * *
42625095 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTTATGCATCAATTTCAGCAA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAT--ATTTCA-CAA
42625160 TAGC
63 TAGC
42625164 TTATAAGCAA
Statistics
Matches: 601, Mismatches: 44, Indels: 35
0.88 0.06 0.05
Matches are distributed among these distances:
144 89 0.15
146 44 0.07
147 90 0.15
148 51 0.08
149 90 0.15
151 80 0.13
152 96 0.16
153 49 0.08
155 6 0.01
156 6 0.01
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.36
Consensus pattern (150 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAATAG
CCATTAAGCTAACCACATATACATATCTCATATATATAAACAAATTCACATTAACCATTCAGCTT
TACCACATATACATATCTCA
Found at i:42628654 original size:40 final size:40
Alignment explanation
Indices: 42628598--42628876 Score: 369
Period size: 40 Copynumber: 7.0 Consensus size: 40
42628588 GAATACACAT
* * * * *
42628598 CACCAGCATGATTGCTCTTCTGGACCTAGCCCAGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
42628638 CACCAGTACGAATGCTCTTCGGGACTTAACCCTGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * * *
42628678 CTCTAGCACAAATGCTCTTTGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
42628718 CACCAGCACAAATGCTCTTCGGGACTTAGCCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
42628758 CACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
42628798 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
42628838 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
42628877 TATAACTCTC
Statistics
Matches: 207, Mismatches: 32, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 207 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:42628716 original size:80 final size:80
Alignment explanation
Indices: 42628594--42628876 Score: 413
Period size: 80 Copynumber: 3.5 Consensus size: 80
42628584 GCCTGAATAC
* * * * * * *
42628594 ACATCACCAGCATGATTGCTCTTCTGGACCTAGCCCAGATATAACACCAGTACGAATGCTCTTCG
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCG
* *
42628659 GGACTTAACCCTGAT
66 GGACTTAGCCCGGAT
* * * * * * *
42628674 ATAACTCTAGCACAAATGCTCTTTGAGACTTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCG
42628739 GGACTTAGCCCGGAT
66 GGACTTAGCCCGGAT
*
42628754 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCG
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCG
42628819 GGACTTAGCCCGGAT
66 GGACTTAGCCCGGAT
42628834 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
42628877 TATAACTCTC
Statistics
Matches: 178, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
80 178 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (80 bp):
ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCG
GGACTTAGCCCGGAT
Found at i:42629414 original size:7 final size:7
Alignment explanation
Indices: 42629398--42629428 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
42629388 AACAGTAAAA
42629398 TTTT-TT
1 TTTTATT
42629404 TTTTATT
1 TTTTATT
42629411 TTTTATT
1 TTTTATT
42629418 TTTTATT
1 TTTTATT
42629425 TTTT
1 TTTT
42629429 GAACACTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (7 bp):
TTTTATT
Found at i:42630200 original size:37 final size:37
Alignment explanation
Indices: 42630136--42630244 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
42630126 AGCTCAGATG
* * *
42630136 AAATCTCCACACGAAGTTATCGAGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
42630173 AAATCTCCACATGTAGTCATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
42630210 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
42630245 ATATATTTCC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:42630446 original size:48 final size:48
Alignment explanation
Indices: 42630391--42631228 Score: 1219
Period size: 48 Copynumber: 17.0 Consensus size: 48
42630381 ACACACCGCC
*
42630391 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
42630439 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
42630487 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
42630537 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
42630585 TACATATTTCACATTAGCCATTCGGTTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* * * *
42630637 TATATATTTCACATTAACCATTCAGCTTTACCACTTATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* *
42630689 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
42630737 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
42630785 TACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
42630833 TACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
42630883 TATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* *
42630935 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
42630983 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
42631031 TACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
42631079 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* * *
42631131 TATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* *
42631183 TATATATTTCACATTACCCATTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
42631229 TATGCATCAA
Statistics
Matches: 740, Mismatches: 34, Indels: 28
0.92 0.04 0.03
Matches are distributed among these distances:
48 419 0.57
49 2 0.00
50 87 0.12
52 232 0.31
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:42630930 original size:298 final size:295
Alignment explanation
Indices: 42630391--42631228 Score: 1369
Period size: 298 Copynumber: 2.8 Consensus size: 295
42630381 ACACACCGCC
* *
42630391 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
*
42630456 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
66 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
42630521 ATATACATATCTCATATATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTC-
131 ATATACATATCTCA-ATATATATTTCACATTAG-CCATTCGGCTTTACCACATATGCATATCTCA
* * *
42630584 -ATACATATTTCACATTAGCCATTCGGTTTTACCACATATACATATCTCATATATATATATTTCA
194 TATATATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCA
*
42630648 CATTAACCATTCAGCTTTACCACTTATACATATCTCATATA
259 CATTAACCATTCAGCTTTACCACATATACATATCTC----A
* *
42630689 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
42630754 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
66 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
42630819 ATATGCATATCTC-ATACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCATA
131 ATATACATATCTCAATATATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCATA
* *
42630883 TATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATATATATATTTCGCA
196 TATATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
* *
42630948 TTAGCCATTCGGCTTTACCACATATACATATCTCA
261 TTAACCATTCAGCTTTACCACATATACATATCTCA
42630983 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
*
42631048 CCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
66 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* * *
42631113 ATATACATATCTCATATATATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTC
131 ATATACATATCTC--A-ATATATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTC
*
42631178 ATATATATATATTTCACATTACCCATTCGGCTTTACCACATATACATATCT
193 --ATATATATATTTCACATTAACCATTCGGCTTTACCACATATACATATCT
42631229 TATGCATCAA
Statistics
Matches: 506, Mismatches: 25, Indels: 16
0.93 0.05 0.03
Matches are distributed among these distances:
294 140 0.28
296 45 0.09
297 1 0.00
298 273 0.54
300 47 0.09
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.37
Consensus pattern (295 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
ATATACATATCTCAATATATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCATA
TATATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
TTAACCATTCAGCTTTACCACATATACATATCTCA
Found at i:42630988 original size:246 final size:247
Alignment explanation
Indices: 42630394--42631228 Score: 1466
Period size: 246 Copynumber: 3.4 Consensus size: 247
42630384 CACCGCCTAC
* * * * *
42630394 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACACTA
1 ATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATATATATATTTCACATTA
*
42630455 GCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCA
66 GCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
*
42630520 CATATACATATCTCATATATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTC
131 CATATACATATCTC--ATACATATTTCACATTAG-CCATTCGGCTTTACCACATATGCATATCTC
*
42630584 ATACATATTTCACATTAGCCATTCGGTTTTACCACATATACATATCTCATATATAT
193 ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA-ATATAT
* *
42630640 ATATTTCACATTAACCATTCAGCTTTACCACTTATACATATCTCATATATATATATTTCGCATTA
1 ATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATATATATATTTCACATTA
42630705 GCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
66 GCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
42630770 CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCATA
131 CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCATA
*
42630835 CATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTC-ATATAT
196 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAATATAT
*
42630886 ATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATATATATATTTCGCATTA
1 ATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATATATATATTTCACATTA
42630951 GCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
66 GCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
42631016 CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCATA
131 CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCATA
42631081 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
196 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA-ATATAT
42631134 ATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATATATATATTTCACATTA
1 ATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATATATATATTTCACATTA
*
42631199 CCCATTCGGCTTTACCACATATACATATCT
66 GCCATTCGGCTTTACCACATATACATATCT
42631229 TATGCATCAA
Statistics
Matches: 567, Mismatches: 15, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
246 284 0.50
248 190 0.34
249 1 0.00
250 92 0.16
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.37
Consensus pattern (247 bp):
ATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATATATATATTTCACATTA
GCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCATA
CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAATATAT
Found at i:42635965 original size:42 final size:42
Alignment explanation
Indices: 42635855--42636019 Score: 190
Period size: 42 Copynumber: 3.9 Consensus size: 42
42635845 TACCATACCA
* * * *
42635855 ATGCCATATCCCAGATATGGTCTTATATGTAA-TTTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATCG
* * *
42635897 ATGCAAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATCG
1 ATGC-CATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* * *
42635940 ATGCCATATCCCAGATATGGTCTTACGCGTAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
*
42635982 ATGCCATATCCTAGATATGGTCTTACAC-ATAGTCTCAT
1 ATGCCATATCCCAGATATGGTCTTACACGA-AGTCTCAT
42636020 TAACCCTAAT
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
42 72 0.69
43 32 0.31
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:42635985 original size:85 final size:84
Alignment explanation
Indices: 42635855--42636019 Score: 206
Period size: 85 Copynumber: 2.0 Consensus size: 84
42635845 TACCATACCA
* * * * *
42635855 ATGCCATATCCCAGATATGGTCTTATATGTAATTTCGTATCGATGCAAATAGCCCAGCTATGGTC
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCGATGC-AATAGCCCAGATATGGTC
42635920 TTACACGA-AGTCTCATATCG
65 TTACAC-ATAGTCTCATATCG
* * * * * *
42635940 ATGCCATATCCCAGATATGGTCTTACGCGTAGTCTCATATTGATGCCATATCCTAGATATGGTCT
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCGATGCAATAGCCCAGATATGGTCT
42636005 TACACATAGTCTCAT
66 TACACATAGTCTCAT
42636020 TAACCCTAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
83 1 0.01
84 28 0.41
85 39 0.57
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (84 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCGATGCAATAGCCCAGATATGGTCT
TACACATAGTCTCATATCG
Found at i:42638087 original size:24 final size:24
Alignment explanation
Indices: 42638042--42638087 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
42638032 TCAGCTTCAC
* * *
42638042 ACCCAAAGCTTCTTGTAGCTTCGT
1 ACCCAAAGCTTCTCGCAACTTCGT
42638066 ACCCAAAGCTTCTCGCAACTTC
1 ACCCAAAGCTTCTCGCAACTTC
42638088 TTCCAAAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.24, C:0.35, G:0.13, T:0.28
Consensus pattern (24 bp):
ACCCAAAGCTTCTCGCAACTTCGT
Found at i:42648789 original size:42 final size:42
Alignment explanation
Indices: 42648678--42648799 Score: 165
Period size: 43 Copynumber: 2.9 Consensus size: 42
42648668 TACTATACCA
*
42648678 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGGAATCTCATATCG
* *
42648720 ATGCCAATAGCCCAGCTATGGTCTTACAT-GAATCCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGGAAT-CTCATATCG
* * *
42648763 ATGCCATATCCCAGAGATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATGGAATCTCA
42648800 AATAACCCTA
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 31 0.45
43 38 0.55
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGGAATCTCATATCG
Found at i:42651364 original size:13 final size:14
Alignment explanation
Indices: 42651346--42651391 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 14
42651336 GTGTATTGGA
*
42651346 ATTTTTACTT-TTT
1 ATTTTTACTTAGTT
42651359 ATTTTT-CTTAGTT
1 ATTTTTACTTAGTT
*
42651372 A-ATTTACTTAGTT
1 ATTTTTACTTAGTT
42651385 ATTTTTA
1 ATTTTTA
42651392 GTTTTTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
12 6 0.22
13 17 0.63
14 4 0.15
ACGTcount: A:0.22, C:0.07, G:0.04, T:0.67
Consensus pattern (14 bp):
ATTTTTACTTAGTT
Found at i:42655045 original size:23 final size:23
Alignment explanation
Indices: 42655019--42655072 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
42655009 GTATATATAC
42655019 TAGCAGCTTT-TCTGCGTTACAAT
1 TAGCAGCTTTGT-TGCGTTACAAT
*
42655042 TAGCAGCTTTGTTGCGTTACTAT
1 TAGCAGCTTTGTTGCGTTACAAT
*
42655065 TAGTAGCT
1 TAGCAGCT
42655073 ACACTGCGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 27 0.96
24 1 0.04
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (23 bp):
TAGCAGCTTTGTTGCGTTACAAT
Found at i:42660303 original size:36 final size:36
Alignment explanation
Indices: 42660250--42660322 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
42660240 GAAAGCGTTC
**
42660250 AGTCTATTCTTGTTATCATGATAATAATTGAGAATA
1 AGTCTATTCTTACTATCATGATAATAATTGAGAATA
42660286 AGTCTATTCTTACTATCATGATAATAATTGAGAATA
1 AGTCTATTCTTACTATCATGATAATAATTGAGAATA
42660322 A
1 A
42660323 TTCGAACAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (36 bp):
AGTCTATTCTTACTATCATGATAATAATTGAGAATA
Found at i:42662144 original size:15 final size:15
Alignment explanation
Indices: 42662110--42662145 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
42662100 TTACTTTTTG
42662110 TTTTT-CTTAGTTAA
1 TTTTTACTTAGTTAA
42662124 --TTTACTTAGTTAA
1 TTTTTACTTAGTTAA
42662137 TTTTTACTT
1 TTTTTACTT
42662146 TTTATAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
12 3 0.16
13 9 0.47
15 7 0.37
ACGTcount: A:0.22, C:0.08, G:0.06, T:0.64
Consensus pattern (15 bp):
TTTTTACTTAGTTAA
Found at i:42664378 original size:26 final size:26
Alignment explanation
Indices: 42664325--42664378 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
42664315 GACATCTGGT
* * *
42664325 TGGCATGTTTCGACACGACTCTAGAA
1 TGGCATGTTTCGAAACGACTCCAAAA
42664351 TGGCATGTTTCGAAACGACTCCAAAA
1 TGGCATGTTTCGAAACGACTCCAAAA
42664377 TG
1 TG
42664379 TCACGACAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (26 bp):
TGGCATGTTTCGAAACGACTCCAAAA
Found at i:42676998 original size:25 final size:25
Alignment explanation
Indices: 42676970--42677039 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
42676960 CTCTTTTAAT
*
42676970 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
42676995 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
42677020 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
42677040 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:42677913 original size:27 final size:27
Alignment explanation
Indices: 42677848--42677913 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
42677838 GGGCATATTC
* *
42677848 GTCATTTTATCATACAGGGGTATTACG
1 GTCATTTTACCTTACAGGGGTATTACG
*
42677875 GTCACTTTACCTTACAGGGGCT-TTACG
1 GTCATTTTACCTTACAGGGG-TATTACG
42677902 GTCATTTTACCT
1 GTCATTTTACCT
42677914 ATTAGGGGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCTTACAGGGGTATTACG
Found at i:42677996 original size:27 final size:27
Alignment explanation
Indices: 42677966--42678063 Score: 110
Period size: 27 Copynumber: 3.6 Consensus size: 27
42677956 GTAAATCTAC
42677966 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
42677993 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
*
42678019 AGAAAGTCAAGGGTATTTCTATAATTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
* *
42678049 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
42678064 TGGTAATTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
26 1 0.02
27 33 0.53
28 7 0.11
29 20 0.32
30 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:42678070 original size:27 final size:27
Alignment explanation
Indices: 42678054--42678184 Score: 140
Period size: 27 Copynumber: 4.9 Consensus size: 27
42678044 TTTGTAAATC
*
42678054 AGGGGTATTTTGGTAATTTTACAAA-T
1 AGGGGTATTTCGGTAATTTTACAAACT
* * *
42678080 TGAGGTATTTCGGTAATTTCACAAACT
1 AGGGGTATTTCGGTAATTTTACAAACT
*
42678107 AGTGGTATTTCGGTAATTTTACAAACT
1 AGGGGTATTTCGGTAATTTTACAAACT
* * **
42678134 AGGGGTATTTTGGTAATTCTATCCTAC-
1 AGGGGTATTTCGGTAATTTTA-CAAACT
* *
42678161 AGGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTCGGTAATTTTACAA
42678185 TCGAGGGTAA
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
26 22 0.26
27 60 0.71
28 3 0.04
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGGTATTTCGGTAATTTTACAAACT
Found at i:42678213 original size:80 final size:81
Alignment explanation
Indices: 42678040--42678218 Score: 186
Period size: 80 Copynumber: 2.2 Consensus size: 81
42678030 GGTATTTCTA
* ** *
42678040 TAATTTTGTAAA-TCAGGGGTATTTTGGTAATTTTACAAATTGAGGTATTTCGGTAATTTCACAA
1 TAATTTTGTAAACTCAGGGGTATTTTGGTAATTCTACAAACAGAGGTATTTCAGTAATTTCACAA
* **
42678104 ACTAGTGGTATTTCGG
66 ACGAGTGGTAAATCGG
** ** *
42678120 TAATTTTACAAACT-AGGGGTATTTTGGTAATTCTATCCTACAGGGGTATTTCAGTAATTTCACA
1 TAATTTTGTAAACTCAGGGGTATTTTGGTAATTCTA-CAAACAGAGGTATTTCAGTAATTTCACA
*
42678184 ATCGAG-GGTAAAAT-GG
65 AACGAGTGGT-AAATCGG
*
42678200 TAATTTTGTAAACTGAGGG
1 TAATTTTGTAAACTCAGGG
42678219 TAAAATGGTA
Statistics
Matches: 80, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
80 47 0.59
81 33 0.41
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (81 bp):
TAATTTTGTAAACTCAGGGGTATTTTGGTAATTCTACAAACAGAGGTATTTCAGTAATTTCACAA
ACGAGTGGTAAATCGG
Found at i:42678217 original size:27 final size:27
Alignment explanation
Indices: 42678183--42678355 Score: 222
Period size: 27 Copynumber: 6.4 Consensus size: 27
42678173 GTAATTTCAC
42678183 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
42678210 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTTTGTA
* * *
42678237 AATCGATGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * *
42678264 AATTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
42678291 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * * * **
42678318 AATCGATGGTGAAACGATAATTCAGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
42678345 AATCGAGGGTA
1 AATCGAGGGTA
42678356 CTTTGGTAAT
Statistics
Matches: 126, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 124 0.98
28 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTGTA
Found at i:42678366 original size:81 final size:81
Alignment explanation
Indices: 42678183--42678355 Score: 276
Period size: 81 Copynumber: 2.1 Consensus size: 81
42678173 GTAATTTCAC
* *
42678183 AATCGAGGGTAAAATGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTAAATCGATGGTA
1 AATCGAGGGTAAAATGGTAATTCTATAAACTGAGGGTAAAATGGTAATTTTGTAAATCGATGGTA
* *
42678248 AAACGGTAATTCTGTA
66 AAACGATAATTCAGTA
*
42678264 AATTGAGGGTAAAATGGTAATTCTATAAA-TCGAGGGTAAAATGGTAATTTTGTAAATCGATGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAACT-GAGGGTAAAATGGTAATTTTGTAAATCGATGGT
*
42678328 GAAACGATAATTCAGTA
65 AAAACGATAATTCAGTA
42678345 AATCGAGGGTA
1 AATCGAGGGTA
42678356 CTTTGGTAAT
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 1 0.01
81 83 0.99
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAACTGAGGGTAAAATGGTAATTTTGTAAATCGATGGTA
AAACGATAATTCAGTA
Found at i:42678392 original size:81 final size:81
Alignment explanation
Indices: 42678183--42678401 Score: 215
Period size: 81 Copynumber: 2.7 Consensus size: 81
42678173 GTAATTTCAC
* ** ** *
42678183 AATCGAGGGTAAAATGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGATGGT
1 AATCGAGGGTAAAATGGTAATTCTACAAATC-GAGGACAAAATAGTAATTTTGTAAATCGATGGT
* *
42678247 AAAACGGTAATTCTGTA
65 AAAACGATAATTCAGTA
* * ** * *
42678264 AATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGATGGTG
1 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGACAAAATAGTAATTTTGTAAATCGATGGTA
42678329 AAACGATAATTCAGTA
66 AAACGATAATTCAGTA
*** * * *** *
42678345 AATCGAGGGTACTTTGGTAATTTTACAAATTGAGGACATTTTAGTAATTTGGTAAAT
1 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGACAAAATAGTAATTTTGTAAAT
42678402 TAAAGTATTC
Statistics
Matches: 117, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
81 116 0.99
82 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.33
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGACAAAATAGTAATTTTGTAAATCGATGGTA
AAACGATAATTCAGTA
Found at i:42682213 original size:40 final size:39
Alignment explanation
Indices: 42682107--42682235 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 39
42682097 TGCTGGAAAT
* * * *
42682107 TATATCCGGGTTAAGACCCGAAGGCAAATGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
42682147 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
42682187 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
42682227 TATATCCGG
1 TATATCCGG
42682236 TTATATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
39 3 0.04
40 72 0.94
41 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:42693259 original size:40 final size:40
Alignment explanation
Indices: 42693214--42693381 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
42693204 CGGAATACAA
42693214 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
42693254 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
42693294 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
42693334 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
42693374 CCGGATAT
1 CCGGATAT
42693382 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:42693354 original size:80 final size:80
Alignment explanation
Indices: 42693214--42693381 Score: 241
Period size: 80 Copynumber: 2.1 Consensus size: 80
42693204 CGGAATACAA
* *
42693214 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
42693279 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
42693294 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAA
*
42693357 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
42693374 CCGGATAT
1 CCGGATAT
42693382 CATTCAATTG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 76 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:42698038 original size:56 final size:56
Alignment explanation
Indices: 42697967--42698100 Score: 196
Period size: 56 Copynumber: 2.4 Consensus size: 56
42697957 CATGGCATCA
* * * *
42697967 ATATATGTGTGCGAGTAAGATCACATTTTATACGTTGGCATCGATATGTGACTCTG
1 ATATATGTATACGAGTAAGACCACATTTTATACGTTGGCATCGATATGTGACTCCG
*
42698023 ATATATGTATACGAGTAAGACCACATTTTATACGTTGGCATCTATATGTGACTCCG
1 ATATATGTATACGAGTAAGACCACATTTTATACGTTGGCATCGATATGTGACTCCG
* **
42698079 ATATATGTGTGTGAGTAAGACC
1 ATATATGTATACGAGTAAGACC
42698101 CTGTCTGGGA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 70 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (56 bp):
ATATATGTATACGAGTAAGACCACATTTTATACGTTGGCATCGATATGTGACTCCG
Found at i:42701258 original size:40 final size:39
Alignment explanation
Indices: 42701178--42701324 Score: 177
Period size: 39 Copynumber: 3.7 Consensus size: 39
42701168 GCTACTCGTT
* * *** * *
42701178 CAAATGCCTTCGGGACATAGCCCGGTTATGGTAGCCCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCA
*
42701218 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCA
* *
42701258 CAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCACA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCACAACTCGCA
*
42701297 CAATTGCCTTCGGGCTTAGCCCGGATAT
1 CAAATGCCTTCGGGCTTAGCCCGGATAT
42701325 TACCCGAACA
Statistics
Matches: 96, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 51 0.53
40 45 0.47
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.22
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATCACAACTCGCA
Found at i:42701292 original size:39 final size:39
Alignment explanation
Indices: 42701214--42701324 Score: 186
Period size: 39 Copynumber: 2.8 Consensus size: 39
42701204 TATGGTAGCC
* *
42701214 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
42701254 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
42701293 CACACAATTGCCTTCGGGCTTAGCCCGGATAT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT
42701325 TACCCGAACA
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
39 51 0.75
40 17 0.25
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:42706623 original size:15 final size:16
Alignment explanation
Indices: 42706605--42706634 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42706595 AATTGTTTTA
42706605 TTACA-AATTTCACTC
1 TTACATAATTTCACTC
42706620 TTACATAATTTCACT
1 TTACATAATTTCACT
42706635 TACTCTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (16 bp):
TTACATAATTTCACTC
Found at i:42715157 original size:47 final size:47
Alignment explanation
Indices: 42715098--42715491 Score: 581
Period size: 47 Copynumber: 8.4 Consensus size: 47
42715088 GATGTACAAG
* * *
42715098 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
42715145 GTGTATATATGTGATATGGCCGAATGGCCAATGTGATGAATGTGAAT
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
42715192 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
42715239 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * *
42715286 GCGTATATATGTGATAAGGCCGAGTGGCTAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
42715333 GTGTATATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * *
42715380 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
42715427 GTGTATATATGTGATAAGGTCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
42715474 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
42715492 TCCCGAAGGG
Statistics
Matches: 313, Mismatches: 34, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 313 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:42715191 original size:22 final size:22
Alignment explanation
Indices: 42715166--42715284 Score: 55
Period size: 22 Copynumber: 5.1 Consensus size: 22
42715156 TGATATGGCC
42715166 GAATGGCCAATGTGATGAATGT
1 GAATGGCCAATGTGATGAATGT
** *
42715188 GAATGTGTGTATATGTGAT-AAGGCCT
1 GAATG-G-CCA-ATGTGATGAATG--T
*
42715214 -AATGGCCGATGTGATGAATGT
1 GAATGGCCAATGTGATGAATGT
*** * *
42715235 GAAAGTGTATATATGTGAT-AAGGCC
1 G-AA-TGGCCA-ATGTGATGAATG-T
42715260 GAATGGCCAATGTGATGAATGT
1 GAATGGCCAATGTGATGAATGT
42715282 GAA
1 GAA
42715285 AGCGTATATA
Statistics
Matches: 67, Mismatches: 18, Indels: 24
0.61 0.17 0.22
Matches are distributed among these distances:
21 1 0.01
22 22 0.33
23 12 0.18
24 12 0.18
25 19 0.28
26 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (22 bp):
GAATGGCCAATGTGATGAATGT
Found at i:42720761 original size:101 final size:98
Alignment explanation
Indices: 42720541--42720786 Score: 244
Period size: 101 Copynumber: 2.5 Consensus size: 98
42720531 GTAGCTGGAG
* * * * *
42720541 CTATCTGGTACTCATAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATTTGGTACACGTA
1 CTATCTGGTACACGTAGTAGCCTCCACTTAGTACTACACACGTGACCAACAATTTGGTACACATA
* **
42720606 GTAGCCTATACTTATACTACAAATGTGACAAAA
66 GTAGCCTACACTTATACTACAAATACGACAAAA
* * * *** * *
42720639 CCATCTGATACATGTAGTAGCCTCCACTTAGTACTACACACGTGATTGA-AGTTGTCGGGTACGC
1 CTATCTGGTACACGTAGTAGCCTCCACTTAGTACTACACACGTGACCAACAATT-T--GGTACAC
** **
42720703 ATAGTAGCCTACACTTAGTACTACTCATACGACCTAA
63 ATAGTAGCCTACACTTA-TACTACAAATACGACAAAA
*
42720740 CTATCTGGTACACGTAGTAGCC-CGCACTTAGTACAACACACGTGACC
1 CTATCTGGTACACGTAGTAGCCTC-CACTTAGTACTACACACGTGACC
42720787 TAATCATCTT
Statistics
Matches: 117, Mismatches: 26, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
97 3 0.03
98 40 0.34
100 22 0.19
101 52 0.44
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (98 bp):
CTATCTGGTACACGTAGTAGCCTCCACTTAGTACTACACACGTGACCAACAATTTGGTACACATA
GTAGCCTACACTTATACTACAAATACGACAAAA
Found at i:42724467 original size:29 final size:28
Alignment explanation
Indices: 42724435--42724537 Score: 93
Period size: 29 Copynumber: 3.5 Consensus size: 28
42724425 GTGACGAGAT
*
42724435 TGGCACTGAGTGTGCGAGC-TGGAAATGTA
1 TGGCACT-AGTGTGCGAGCTTGG-AATATA
*
42724464 TGGCACTAAGTGTGCGAGCTTGGACTATA
1 TGGCACT-AGTGTGCGAGCTTGGAATATA
* * *
42724493 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTA-GTGTGCGAGCTTGGAAT-ATA
42724522 TGGCACTAAGTGTGCG
1 TGGCACT-AGTGTGCG
42724538 TGATCGAGTA
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
28 3 0.05
29 56 0.89
30 4 0.06
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.26
Consensus pattern (28 bp):
TGGCACTAGTGTGCGAGCTTGGAATATA
Found at i:42738697 original size:93 final size:93
Alignment explanation
Indices: 42738587--42738757 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
42738577 GCCCCTAAGT
* *** * *
42738587 GAACTCGAACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCAAACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
*
42738652 CGAGTTTGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
42738680 GAACTCGGACTCAACTCAACGAGTTCAAACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCAAACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
42738745 CGAGTTCGGATGC
66 CGAGTTCGGATGC
42738758 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCAAACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:42738747 original size:46 final size:46
Alignment explanation
Indices: 42738582--42738751 Score: 150
Period size: 46 Copynumber: 3.7 Consensus size: 46
42738572 AACCCGCCCC
* * * * *
42738582 TAAGTGAACTCGAACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGAACTCAACTCAACGAGTTCAGACATTCGCATCCA
* * * *
42738628 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGAACTCAACTCAACGAG-TT-CA-GAC-A-TTCGCATCCA
* * * *
42738676 TCA-CGAACTCGGACTCAACTCAACGAGTTCAAACATTCGCATCCA
1 TAAGTGAACTCGAACTCAACTCAACGAGTTCAGACATTCGCATCCA
42738721 TAAGTGAACTCGAACTCAACTCAACGAGTTC
1 TAAGTGAACTCGAACTCAACTCAACGAGTTC
42738752 GGATGCTCAA
Statistics
Matches: 98, Mismatches: 17, Indels: 18
0.74 0.13 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 3 0.03
46 53 0.54
47 24 0.24
48 2 0.02
49 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGAACTCAACTCAACGAGTTCAGACATTCGCATCCA
Found at i:42738882 original size:17 final size:17
Alignment explanation
Indices: 42738860--42738895 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
42738850 ACGGAATATC
42738860 GAAATCGGTACTTCAGT
1 GAAATCGGTACTTCAGT
42738877 GAAATCGGTACTTCAGT
1 GAAATCGGTACTTCAGT
42738894 GA
1 GA
42738896 TAGTTCATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.28
Consensus pattern (17 bp):
GAAATCGGTACTTCAGT
Found at i:42744815 original size:29 final size:29
Alignment explanation
Indices: 42744782--42744884 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
42744772 CCTTCGAGCT
** * *
42744782 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
42744811 TGCACATTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
42744840 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
42744869 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
42744885 ATCTCGTCAC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:42744816 original size:58 final size:58
Alignment explanation
Indices: 42744753--42744884 Score: 156
Period size: 58 Copynumber: 2.3 Consensus size: 58
42744743 AATTTAAGCC
* * * * * *
42744753 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * * **
42744811 TGCACATTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
42744869 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
42744885 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:42749447 original size:93 final size:93
Alignment explanation
Indices: 42749319--42749489 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
42749309 GCCCCTAAGT
* * * * *
42749319 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAACTGAACTCGGACTTAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAACTGAACTCGGACTCAACTCAA
42749384 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
42749412 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGAGTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAACTGAACTCGGACTCAACTCAA
42749477 CGAGTTCGGATGC
66 CGAGTTCGGATGC
42749490 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAACTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:42749472 original size:46 final size:46
Alignment explanation
Indices: 42749314--42749483 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 46
42749304 AACCCGCCCC
* * * * *
42749314 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA
* * * *
42749360 TAACTGAACTCGGACTTAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GAC-A-TTCGCATCCA
* *
42749408 TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA
*
42749453 TAAGTGAACTCGGAGTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
42749484 GGATGCTCAA
Statistics
Matches: 99, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 3 0.03
46 52 0.53
47 25 0.25
48 2 0.02
49 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA
Found at i:42749946 original size:30 final size:30
Alignment explanation
Indices: 42749912--42749971 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
42749902 ATTTAATACG
42749912 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
42749942 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
42749972 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:42757538 original size:101 final size:100
Alignment explanation
Indices: 42757414--42757594 Score: 247
Period size: 101 Copynumber: 1.8 Consensus size: 100
42757404 TCGGTACATG
* ** *
42757414 TAGTAGCTTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAGTAG-CTTGCACT
1 TAGTAGCCTGCACTTAACACTACACACACGACCTAACCATCTGATACACGTAGTAGTC-TGCACT
42757478 TAGTACTACACACGTGATCGAAGTTGTCGGGTACGCA
65 TAGTACTACACA-GTGATCGAAGTTGTCGGGTACGCA
* ** * * *
42757515 TAGTAGCCTGCACTTAACACTACATATGCGACCTAACTATCTGGTACACGTAGTAGTCTGTACTT
1 TAGTAGCCTGCACTTAACACTACACACACGACCTAACCATCTGATACACGTAGTAGTCTGCACTT
42757580 AGTACTACACAGTGA
66 AGTACTACACAGTGA
42757595 CCTAATCATC
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
100 4 0.06
101 64 0.93
102 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (100 bp):
TAGTAGCCTGCACTTAACACTACACACACGACCTAACCATCTGATACACGTAGTAGTCTGCACTT
AGTACTACACAGTGATCGAAGTTGTCGGGTACGCA
Found at i:42757596 original size:150 final size:150
Alignment explanation
Indices: 42757357--42757639 Score: 392
Period size: 150 Copynumber: 1.9 Consensus size: 150
42757347 GAAGCTATTT
* ** *
42757357 GGTACGCATAGTAGTCTGCACTTAGTACTACACATGCGACCAACAATTCGGTACATGTAGTAGCT
1 GGTACGCATAGTAGCCTGCACTTAACACTACACATGCGACCAACAATTCGGTACACGTAGTAGCT
* * * *
42757422 TGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAGTAGCTTGCACTTAGTACTAC
66 TGCACTTAGTACTACACACATGACCTAACCATCTGAAACACATAGTAGCCTGCACATAGTACTAC
42757487 ACACGTGATCGAAGTTGTCG
131 ACACGTGATCGAAGTTGTCG
* *
42757507 GGTACGCATAGTAGCCTGCACTTAACACTACATATGCGACCTAACTA-TCTGGTACACGTAGTAG
1 GGTACGCATAGTAGCCTGCACTTAACACTACACATGCGACC-AACAATTC-GGTACACGTAGTAG
* * * *
42757571 -TCTGTACTTAGTACTACACA-GTGACCTAATCATCTTAAACACATAGTAGCCTGCACATAGTAC
64 CT-TGCACTTAGTACTACACACATGACCTAACCATCTGAAACACATAGTAGCCTGCACATAGTAC
42757634 TACACA
128 TACACA
42757640 TGTGTTCTCA
Statistics
Matches: 116, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
150 82 0.71
151 34 0.29
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (150 bp):
GGTACGCATAGTAGCCTGCACTTAACACTACACATGCGACCAACAATTCGGTACACGTAGTAGCT
TGCACTTAGTACTACACACATGACCTAACCATCTGAAACACATAGTAGCCTGCACATAGTACTAC
ACACGTGATCGAAGTTGTCG
Found at i:42760352 original size:3 final size:3
Alignment explanation
Indices: 42760344--42760423 Score: 160
Period size: 3 Copynumber: 26.7 Consensus size: 3
42760334 AGATATTTAT
42760344 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
42760392 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
42760424 TATCAATTAA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:42762124 original size:30 final size:29
Alignment explanation
Indices: 42762088--42762145 Score: 98
Period size: 30 Copynumber: 2.0 Consensus size: 29
42762078 AATTGGAAGT
*
42762088 TTTGGCATTAAGTGTGCGATTTAAACTAGA
1 TTTGGCACTAAGTGTGCGATTT-AACTAGA
42762118 TTTGGCACTAAGTGTGCGATTTAACTAG
1 TTTGGCACTAAGTGTGCGATTTAACTAG
42762146 TTCAGCTACT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCGATTTAACTAGA
Found at i:42772277 original size:180 final size:181
Alignment explanation
Indices: 42771974--42772344 Score: 708
Period size: 180 Copynumber: 2.1 Consensus size: 181
42771964 TGTGGCATGT
42771974 ATTAGGTTTTGTTTTAGTCACTTAAATATATTTTATGTTTTGGGTGTAAAGTGAACTTGTAACTT
1 ATTAGGTTTTGTTTTAGTCACTTAAATATATTTTATGTTTTGGGTGTAAAGTGAACTTGTAACTT
42772039 TTAAGAAGTATTTCAAATGAATAAATGAATGCTATTTGATCAAGATTTATAAGTCAATGTTTTGG
66 TTAAGAAGTATTTCAAATGAATAAATGAATGCTATTTGATCAAGATTTATAAGTCAATGTTTTGG
*
42772104 GCATGAACTAGGTGTGTTTGATATGTGAAAATAGCTTAAAAATTATGAAAA
131 GCATGAACTAGGTGTGTTTGATATGTGAAAATAGCTTAAAAATGATGAAAA
42772155 ATTAGGTTTTGTTTTAGTCACTTAAATATA-TTTATGTTTTGGGTGTAAAGTGAACTTGTAACTT
1 ATTAGGTTTTGTTTTAGTCACTTAAATATATTTTATGTTTTGGGTGTAAAGTGAACTTGTAACTT
*
42772219 TTAAGAAGTATTTCAAATGAATAAATGAATGCTATTTGATTAAGATTTATAAGTCAATGTTTTGG
66 TTAAGAAGTATTTCAAATGAATAAATGAATGCTATTTGATCAAGATTTATAAGTCAATGTTTTGG
*
42772284 GCATGAACTAGGTGTGTTTGATATGTGAAAATAGCTTTAAAATGATGAAAA
131 GCATGAACTAGGTGTGTTTGATATGTGAAAATAGCTTAAAAATGATGAAAA
42772335 ATTAGGTTTT
1 ATTAGGTTTT
42772345 CACACGGCCA
Statistics
Matches: 187, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
180 157 0.84
181 30 0.16
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (181 bp):
ATTAGGTTTTGTTTTAGTCACTTAAATATATTTTATGTTTTGGGTGTAAAGTGAACTTGTAACTT
TTAAGAAGTATTTCAAATGAATAAATGAATGCTATTTGATCAAGATTTATAAGTCAATGTTTTGG
GCATGAACTAGGTGTGTTTGATATGTGAAAATAGCTTAAAAATGATGAAAA
Found at i:42775315 original size:32 final size:31
Alignment explanation
Indices: 42775272--42775333 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
42775262 ATGAAGTCAC
* *
42775272 CAGATACATATATTATGGCTAGGCCACCAGAA
1 CAGATACATATA-TATGGCGAAGCCACCAGAA
* *
42775304 CAGATATATATATGTGGCGAAGCCACCAGA
1 CAGATACATATATATGGCGAAGCCACCAGA
42775334 TTGCAGCGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (31 bp):
CAGATACATATATATGGCGAAGCCACCAGAA
Found at i:42793564 original size:29 final size:28
Alignment explanation
Indices: 42793526--42793626 Score: 130
Period size: 29 Copynumber: 3.5 Consensus size: 28
42793516 ATCGATTTCA
*
42793526 CACACTTAGTGCCATGTGATTTAAGCTCG
1 CACACTTAGTGCCATAT-ATTTAAGCTCG
* *
42793555 CACACATAGTGCCATATAATTTAAGTTCG
1 CACACTTAGTGCCATAT-ATTTAAGCTCG
* *
42793584 TACACTTAGTGCCATATATTTCAAGCTTG
1 CACACTTAGTGCCATATATTT-AAGCTCG
42793613 CACACTTAGTGCCA
1 CACACTTAGTGCCA
42793627 ATCTTGTCAC
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 4 0.06
29 58 0.94
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (28 bp):
CACACTTAGTGCCATATATTTAAGCTCG
Found at i:42803114 original size:41 final size:41
Alignment explanation
Indices: 42803069--42803186 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
42803059 TGAAAGATAA
42803069 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
42803110 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
42803140 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
42803181 ATGTAG
1 ATGTAG
42803187 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:42803118 original size:71 final size:71
Alignment explanation
Indices: 42803037--42803200 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
42803027 CGAGATGTAT
42803037 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
42803102 AGGACA
66 AGGACA
42803108 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
42803173 AGGACA
66 AGGACA
42803179 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
42803201 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:42810221 original size:41 final size:41
Alignment explanation
Indices: 42810176--42810293 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
42810166 TGAAAGATAA
42810176 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
42810217 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
42810247 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
42810288 ATGTAG
1 ATGTAG
42810294 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:42810232 original size:71 final size:71
Alignment explanation
Indices: 42810144--42810307 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
42810134 GAGATGTATC
42810144 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
42810209 AGGACA
66 AGGACA
42810215 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
42810280 AGGACA
66 AGGACA
42810286 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
42810308 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:42811894 original size:10 final size:10
Alignment explanation
Indices: 42811876--42811913 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
42811866 AAAAACTCAC
42811876 AAGA-AAAAA
1 AAGAGAAAAA
42811885 GAAGAGAAAAA
1 -AAGAGAAAAA
42811896 AAGAGAAAAA
1 AAGAGAAAAA
42811906 AAGAGAAA
1 AAGAGAAA
42811914 GAGACAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 22 0.81
11 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AAGAGAAAAA
Found at i:42814167 original size:29 final size:29
Alignment explanation
Indices: 42814106--42814204 Score: 159
Period size: 28 Copynumber: 3.5 Consensus size: 29
42814096 AATGAGATTG
42814106 GCACTAAGTGTGCGAGTTT-AATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
*
42814134 GCACTAAATGTGCGAGTTTGAATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
42814163 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
1 GCACTAAGTGTGCGAGTTTGAAT-TGTATA
42814191 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
42814205 GACTTACTGT
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
28 33 0.49
29 33 0.49
30 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.32
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTGAATTGTATA
Found at i:42820602 original size:18 final size:19
Alignment explanation
Indices: 42820579--42820615 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
42820569 TTTCTTAAGT
*
42820579 AATAAAAATAATA-ATTAA
1 AATAAAAAGAATATATTAA
42820597 AATAAAAAGAATATATTAA
1 AATAAAAAGAATATATTAA
42820616 GTAAAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (19 bp):
AATAAAAAGAATATATTAA
Found at i:42822998 original size:21 final size:20
Alignment explanation
Indices: 42822966--42823007 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
42822956 CTAAACCGAT
*
42822966 AACTTATGAAATCTTTAGAAA
1 AACTTATGAAAT-TTTACAAA
42822987 AACTTA-GAAAATTTTACAAA
1 AACTTATG-AAATTTTACAAA
42823007 A
1 A
42823008 TACAGGGGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.31
Consensus pattern (20 bp):
AACTTATGAAATTTTACAAA
Found at i:42823566 original size:22 final size:23
Alignment explanation
Indices: 42823541--42823583 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
42823531 ACAAAATAGA
42823541 ACATTC-CATTT-ATACCAAATTC
1 ACATTCACATTTCA-ACCAAATTC
42823563 ACATTCACATTTCAACCAAAT
1 ACATTCACATTTCAACCAAAT
42823584 GGACACTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 12 0.63
24 1 0.05
ACGTcount: A:0.40, C:0.28, G:0.00, T:0.33
Consensus pattern (23 bp):
ACATTCACATTTCAACCAAATTC
Found at i:42825415 original size:13 final size:13
Alignment explanation
Indices: 42825397--42825423 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
42825387 CTAACATACT
42825397 AATGGTCTGATTA
1 AATGGTCTGATTA
42825410 AATGGTCTGATTA
1 AATGGTCTGATTA
42825423 A
1 A
42825424 CACATAAGGA
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:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (13 bp):
AATGGTCTGATTA
Found at i:42829143 original size:43 final size:42
Alignment explanation
Indices: 42829022--42829179 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 42
42829012 ATGTGTTTTT
*
42829022 GTGTAAGACCATGTCTGGGAC-GTTGCCATCA-ATTTATGATTTAC
1 GTGTAAGACCATGTCTGGGACAG-TGGCATCATA-TT-TGATTT-C
* *
42829066 TTGTAAGACCATGTCTGGGACA-TCGACATCATATTTGATTTC
1 GTGTAAGACCATGTCTGGGACAGT-GGCATCATATTTGATTTC
* * *
42829108 GTGTAAGACCCTGTCTGGGATAGTGGCATCGATATTTGATTAC
1 GTGTAAGACCATGTCTGGGACAGTGGCATC-ATATTTGATTTC
* * *
42829151 ATGTAAGACCACGTCTGGGACATTGGCAT
1 GTGTAAGACCATGTCTGGGACAGTGGCAT
42829180 TGTACGAGCT
Statistics
Matches: 97, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
42 25 0.26
43 43 0.44
44 28 0.29
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACAGTGGCATCATATTTGATTTC
Found at i:42831752 original size:40 final size:40
Alignment explanation
Indices: 42831692--42831796 Score: 104
Period size: 40 Copynumber: 2.6 Consensus size: 40
42831682 CGACAAATCA
* * * *
42831692 GCTATATGTGGCAGTTAGTGTGTGATTC-GAGATAGCTTTG
1 GCTAAATGTGACACTTAGTGTGCGATTCAGA-ATAGCTTTG
*
42831732 GCTAAATGTGACACTTAGTGTGCGATTCAGAATAGCTTCG
1 GCTAAATGTGACACTTAGTGTGCGATTCAGAATAGCTTTG
* * * * *
42831772 ACTATATATGGCACTTTGTGTGCGA
1 GCTAAATGTGACACTTAGTGTGCGA
42831797 GACCGAGATA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 52 0.96
41 2 0.04
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (40 bp):
GCTAAATGTGACACTTAGTGTGCGATTCAGAATAGCTTTG
Found at i:42831817 original size:41 final size:41
Alignment explanation
Indices: 42831719--42831834 Score: 117
Period size: 40 Copynumber: 2.8 Consensus size: 41
42831709 GTGTGTGATT
* * * **
42831719 CGAGATAGCTTTGGCTAAATGTGACACTTAGTGTGCGATTC
1 CGAGATAGCTTTGACTATATATGACACTTAGTGTGCGAGAC
* * * *
42831760 AGA-ATAGCTTCGACTATATATGGCACTTTGTGTGCGAGAC
1 CGAGATAGCTTTGACTATATATGACACTTAGTGTGCGAGAC
* *
42831800 CGAGATAGCTTTGACTATGTATTAGCACTTAGTGT
1 CGAGATAGCTTTGACTATATATGA-CACTTAGTGT
42831835 TCTAGATATC
Statistics
Matches: 58, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
40 31 0.53
41 18 0.31
42 9 0.16
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (41 bp):
CGAGATAGCTTTGACTATATATGACACTTAGTGTGCGAGAC
Found at i:42834695 original size:42 final size:42
Alignment explanation
Indices: 42834636--42834716 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
42834626 GGGACACAGA
42834636 CCGACCATATGTCTCACATGGCCAAAGACACGCCCGTGTGGC
1 CCGACCATATGTCTCACATGGCCAAAGACACGCCCGTGTGGC
*
42834678 CCGACCATGTGTCTCACATGGCCAAAGACACGCCCGTGT
1 CCGACCATATGTCTCACATGGCCAAAGACACGCCCGTGT
42834717 CACAGGCCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.23, C:0.36, G:0.23, T:0.17
Consensus pattern (42 bp):
CCGACCATATGTCTCACATGGCCAAAGACACGCCCGTGTGGC
Found at i:42836666 original size:21 final size:20
Alignment explanation
Indices: 42836634--42836672 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
42836624 TTTTTCATTT
42836634 ATTTCACAATTTAACAATGA
1 ATTTCACAATTTAACAATGA
* *
42836654 ATTTTACACATTTCACAAT
1 ATTTCACA-ATTTAACAAT
42836673 TTAATCCCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (20 bp):
ATTTCACAATTTAACAATGA
Found at i:42839422 original size:25 final size:25
Alignment explanation
Indices: 42839394--42839445 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
42839384 CTTGCTCTTG
42839394 TCCATAACCACAGTCCCTCTAGCTA
1 TCCATAACCACAGTCCCTCTAGCTA
42839419 TCCATAACCACAGTCCCTCTAGCTA
1 TCCATAACCACAGTCCCTCTAGCTA
42839444 TC
1 TC
42839446 ACATGTCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.27, C:0.40, G:0.08, T:0.25
Consensus pattern (25 bp):
TCCATAACCACAGTCCCTCTAGCTA
Found at i:42844720 original size:30 final size:30
Alignment explanation
Indices: 42844686--42844746 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
42844676 TCCTTAACTC
42844686 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
42844716 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
42844746 A
1 A
42844747 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:42850718 original size:27 final size:27
Alignment explanation
Indices: 42850380--42850720 Score: 398
Period size: 27 Copynumber: 12.6 Consensus size: 27
42850370 GATCTCATAT
* * *
42850380 CTGTAGGCTAGCATTGCCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
*
42850407 CTGTAAGGTAGAATTACCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* * *
42850434 CTATAAGGTAGAATTA-CTAAAGTACCC
1 CTGTAGGGTAGAATTACCGAAA-TACCC
* * *
42850461 CTATAAGGTAGAATTACCAAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* * *
42850488 CTATAAGGTAGAATTA-CTAAAGTACCC
1 CTGTAGGGTAGAATTACCGAAA-TACCC
* *
42850515 CTGTAAGGTAAAATTACCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
*
42850542 CTGTAGGGTAGAATTACTGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* *
42850569 CTGTAAGGTAGAATTATCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* *
42850596 CTGTAGGGTAGAATTACTGAAATACCA
1 CTGTAGGGTAGAATTACCGAAATACCC
* * *
42850623 TTGTAGGGTAGAAATACCAAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
42850650 CTGTAGGGTAGAATTACCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* *
42850677 CTGTAGAGTAGAATTACCGAGATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* * *
42850704 TTGTGGGGTAAAATTAC
1 CTGTAGGGTAGAATTAC
42850721 AATTTTGCCC
Statistics
Matches: 275, Mismatches: 35, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
26 8 0.03
27 259 0.94
28 8 0.03
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACCGAAATACCC
Found at i:42851000 original size:24 final size:25
Alignment explanation
Indices: 42850924--42850993 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
42850914 AGGAAGTGCT
* * * *
42850924 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
42850949 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
42850974 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
42850994 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:42851006 original size:24 final size:24
Alignment explanation
Indices: 42850949--42851020 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
42850939 TAGTTTACCG
42850949 AAAAG-GGCTTTGCCCCAGTTTATC
1 AAAAGAGGCTTTGCCCCAG-TTATC
*
42850973 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATC
**
42850997 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
42851021 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 19 0.46
25 22 0.54
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:42852096 original size:29 final size:29
Alignment explanation
Indices: 42852064--42852144 Score: 99
Period size: 29 Copynumber: 2.8 Consensus size: 29
42852054 CTTCACCAAT
42852064 ACATAGTACCTGATAAATATAACACCGAC
1 ACATAGTACCTGATAAATATAACACCGAC
*** * **
42852093 ACATAGTTTTTGATAAATATAACATCGGT
1 ACATAGTACCTGATAAATATAACACCGAC
*
42852122 ACAAAGTACCTGATAAATATAAC
1 ACATAGTACCTGATAAATATAAC
42852145 CATCAACACA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.27
Consensus pattern (29 bp):
ACATAGTACCTGATAAATATAACACCGAC
Found at i:42852157 original size:29 final size:28
Alignment explanation
Indices: 42852068--42852167 Score: 85
Period size: 29 Copynumber: 3.5 Consensus size: 28
42852058 ACCAATACAT
* *
42852068 AGTACCTGATAAATATAACACCGACACA
1 AGTACCTGATAAATATAACATCAACACA
*** *
42852096 TAGTTTTTGATAAATATAACATCGGTACA-A
1 -AGTACCTGATAAATATAACATC--AACACA
42852126 AGTACCTGATAAATATAACCATCAACACA
1 AGTACCTGATAAATATAA-CATCAACACA
**
42852155 AGTGTCTGATAAA
1 AGTACCTGATAAA
42852168 CTCTAATGGC
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
28 3 0.05
29 45 0.80
30 5 0.09
31 3 0.05
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (28 bp):
AGTACCTGATAAATATAACATCAACACA
Found at i:42852783 original size:26 final size:26
Alignment explanation
Indices: 42852754--42852805 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
42852744 AATTTTTACA
42852754 AGAATTTCATGATAAATTCAATATTT
1 AGAATTTCATGATAAATTCAATATTT
*
42852780 AGAATTTCATGCTAAATTCAATATTT
1 AGAATTTCATGATAAATTCAATATTT
42852806 TATCATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (26 bp):
AGAATTTCATGATAAATTCAATATTT
Found at i:42854124 original size:23 final size:23
Alignment explanation
Indices: 42854094--42854145 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
42854084 GGAACGAAAC
42854094 AGAACATC-CCTAAAGCAAATAAT
1 AGAACATCGCC-AAAGCAAATAAT
**
42854117 AGAACATCGCCAAAGTGAATAAT
1 AGAACATCGCCAAAGCAAATAAT
42854140 AGAACA
1 AGAACA
42854146 CCGTCGAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 24 0.92
24 2 0.08
ACGTcount: A:0.52, C:0.19, G:0.13, T:0.15
Consensus pattern (23 bp):
AGAACATCGCCAAAGCAAATAAT
Found at i:42860699 original size:17 final size:17
Alignment explanation
Indices: 42860677--42860711 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
42860667 GCAAATTTTT
42860677 AAAGTTGTAGGGGTCAC
1 AAAGTTGTAGGGGTCAC
42860694 AAAGTTGTAGGGGTCAC
1 AAAGTTGTAGGGGTCAC
42860711 A
1 A
42860712 TAGCTGTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.11, G:0.34, T:0.23
Consensus pattern (17 bp):
AAAGTTGTAGGGGTCAC
Found at i:42860719 original size:17 final size:17
Alignment explanation
Indices: 42860677--42860719 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
42860667 GCAAATTTTT
*
42860677 AAAGTTGTAGGGGTCAC
1 AAAGCTGTAGGGGTCAC
*
42860694 AAAGTTGTAGGGGTCAC
1 AAAGCTGTAGGGGTCAC
*
42860711 ATAGCTGTA
1 AAAGCTGTA
42860720 TGACTCACCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.26
Consensus pattern (17 bp):
AAAGCTGTAGGGGTCAC
Found at i:42864295 original size:40 final size:40
Alignment explanation
Indices: 42864094--42864287 Score: 300
Period size: 40 Copynumber: 4.9 Consensus size: 40
42864084 ATTCGGATTG
* *
42864094 ATAATCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
42864133 ATATCCGGGCTAAGTCCCGAAGCCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
42864173 ATAACCGGGCCAAGTCCTGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
42864213 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
42864253 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
42864288 AAGCTATATC
Statistics
Matches: 141, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 12 0.09
40 129 0.91
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:42864295 original size:80 final size:80
Alignment explanation
Indices: 42864094--42864313 Score: 304
Period size: 80 Copynumber: 2.8 Consensus size: 80
42864084 ATTCGGATTG
* * *
42864094 ATAATCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGCCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
42864158 TTTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* * * *
42864173 ATAACCGGGCCAAGTCCTGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
42864238 ATTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* * *
42864253 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-AAGCTATATCC-GGCTAA-ACCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
42864314 TACTTGGTTT
Statistics
Matches: 124, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
78 8 0.06
79 19 0.15
80 97 0.78
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGTTACT
Found at i:42870564 original size:25 final size:27
Alignment explanation
Indices: 42870511--42870564 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
42870501 ATTCAACACC
* *
42870511 TAGGGGTATTTTGGTCATTTTTTCCCT
1 TAGGGGCATTTTGGTCATATTTTCCCT
42870538 TAGGGGCATTTTGGT-A-ATTTTCCCT
1 TAGGGGCATTTTGGTCATATTTTCCCT
42870563 TA
1 TA
42870565 ATTACAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 10 0.40
26 1 0.04
27 14 0.56
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.48
Consensus pattern (27 bp):
TAGGGGCATTTTGGTCATATTTTCCCT
Found at i:42870879 original size:28 final size:28
Alignment explanation
Indices: 42870847--42870961 Score: 124
Period size: 29 Copynumber: 4.0 Consensus size: 28
42870837 TACCTGTATC
*
42870847 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAAGCCCAATCACATTCATA
* *
42870875 TGGCCCATTAAGCCCAAATAAC-TTGTATA
1 TGGCCCATTAAGCCC-AATCACATT-CATA
* *
42870904 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAAGCCC-AATCACATTCATA
* * *
42870933 TGGCCCGTTAGGCCCATTCACATTCATA
1 TGGCCCATTAAGCCCAATCACATTCATA
42870961 T
1 T
42870962 TCATGCTCAC
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
28 29 0.38
29 45 0.59
30 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (28 bp):
TGGCCCATTAAGCCCAATCACATTCATA
Found at i:42871042 original size:17 final size:18
Alignment explanation
Indices: 42871020--42871053 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
42871010 TGCCTATTAT
42871020 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
42871037 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
42871054 TCCGGGCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:42871197 original size:16 final size:16
Alignment explanation
Indices: 42871172--42871214 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
42871162 GTAGCCAAAC
* *
42871172 TTTTGACTTTTCGGTA
1 TTTTGGCTTTTCGGCA
42871188 TTTTGGCTTTTCGGCA
1 TTTTGGCTTTTCGGCA
*
42871204 TTTCGGCTTTT
1 TTTTGGCTTTT
42871215 GCCGATACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.07, C:0.16, G:0.21, T:0.56
Consensus pattern (16 bp):
TTTTGGCTTTTCGGCA
Found at i:42872503 original size:16 final size:17
Alignment explanation
Indices: 42872475--42872510 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
42872465 ACAAAGAAAG
42872475 TTTAGGATTTCGGGATT
1 TTTAGGATTTCGGGATT
42872492 TTTAGG-TTTCGGGATT
1 TTTAGGATTTCGGGATT
42872508 TTT
1 TTT
42872511 GGGGTGTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.14, C:0.06, G:0.28, T:0.53
Consensus pattern (17 bp):
TTTAGGATTTCGGGATT
Found at i:42882171 original size:39 final size:39
Alignment explanation
Indices: 42882124--42882293 Score: 207
Period size: 39 Copynumber: 4.4 Consensus size: 39
42882114 AATGTTCGAG
*
42882124 TGATATCCGGACTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
42882163 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
42882202 TGATATCCGGGCTAAGCCCGAAGG-AATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * ** *
42882240 TGATATCCAGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** *
42882280 CCATAACCGGGCTA
1 TGATATCCGGGCTA
42882294 TGTCCCGTAG
Statistics
Matches: 110, Mismatches: 19, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
38 24 0.22
39 69 0.63
40 17 0.15
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:42888633 original size:29 final size:29
Alignment explanation
Indices: 42888601--42888735 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
42888591 ATACCCTCCG
** * *
42888601 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
42888630 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
42888659 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
42888688 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
42888717 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
42888736 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:42888668 original size:58 final size:58
Alignment explanation
Indices: 42888547--42888736 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
42888537 TACTCGATTT
* * * *** *
42888547 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
42888605 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
42888663 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
42888721 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
42888737 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:42894934 original size:43 final size:42
Alignment explanation
Indices: 42894861--42895017 Score: 165
Period size: 43 Copynumber: 3.7 Consensus size: 42
42894851 TATGTGTTCT
* *
42894861 CGTGTAAGACCACGTCTGGGACGTTAGCATCGATATGTGATCA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGAT-A
* * * *
42894904 CGTGTAAGACCATGTCTGGGACATCGGCATCG-TATTTGATT
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATA
* * * *
42894945 CGGGTAAGACC-CTGTCTGGGACAGTGGCATTGATATGAGATA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATGTGATA
* *
42894987 GCATGTAAGACCACGTCTAGGACATTGGCAT
1 -CGTGTAAGACCACGTCTGGGACATTGGCAT
42895018 TGTATGATAT
Statistics
Matches: 92, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
41 26 0.28
42 13 0.14
43 52 0.57
44 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATA
Found at i:42895010 original size:84 final size:84
Alignment explanation
Indices: 42894864--42895022 Score: 198
Period size: 84 Copynumber: 1.9 Consensus size: 84
42894854 GTGTTCTCGT
* * * *
42894864 GTAAGACCACGTCTGGGACGTTAGCATCGATATGTGATCACGTGTAAGACCATGTCTGGGACATC
1 GTAAGACCACGTCTGGGACGTTAGCATCGATATGAGATCACATGTAAGACCACGTCTAGGACATC
42894929 GGCATCGTATTTGATTCGG
66 GGCATCGTATTTGATTCGG
* *
42894948 GTAAGACC-CTGTCTGGGACAG-TGGCATTGATATGAGAT-AGCATGTAAGACCACGTCTAGGAC
1 GTAAGACCAC-GTCTGGGAC-GTTAGCATCGATATGAGATCA-CATGTAAGACCACGTCTAGGAC
* *
42895010 ATTGGCATTGTAT
63 ATCGGCATCGTAT
42895023 GATATATGTG
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
83 2 0.03
84 61 0.95
85 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (84 bp):
GTAAGACCACGTCTGGGACGTTAGCATCGATATGAGATCACATGTAAGACCACGTCTAGGACATC
GGCATCGTATTTGATTCGG
Found at i:42902925 original size:43 final size:42
Alignment explanation
Indices: 42902871--42903012 Score: 119
Period size: 43 Copynumber: 3.4 Consensus size: 42
42902861 ATAGGTGTTA
* *
42902871 TCGTGCAAGACCACGTCTGGGACATTGGCATCGATATGTGA-
1 TCGTGTAAGACCACGTCTGGAACATTGGCATCGATATGTGAT
* * * *
42902912 TCATGTGTAAGACCATGTCTAGAACATTAGCATCG-TATTTGAT
1 TC--GTGTAAGACCACGTCTGGAACATTGGCATCGATATGTGAT
* * * *
42902955 TCGTGTAAGACC-CTGTTTGGCACAATGGCATCGATATGAGAT
1 TCGTGTAAGACCAC-GTCTGGAACATTGGCATCGATATGTGAT
* *
42902997 AGCATGTAAGACCACG
1 -TCGTGTAAGACCACG
42903013 CCTAGGATGT
Statistics
Matches: 78, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
41 26 0.33
42 12 0.15
43 39 0.50
44 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGGAACATTGGCATCGATATGTGAT
Found at i:42907902 original size:26 final size:26
Alignment explanation
Indices: 42907872--42907979 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
42907862 TGAAATTCCC
* * *
42907872 ATCATCGAACATGTACCTAACCCATA
1 ATCATGGAACATTTACCTAACCCATT
42907898 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
42907924 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
42907950 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
42907976 ATCA
1 ATCA
42907980 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.37, C:0.28, G:0.06, T:0.29
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:42908661 original size:27 final size:25
Alignment explanation
Indices: 42908624--42908674 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
42908614 AATGATATGT
42908624 TTAAAGCATATATGAGAGTCAATCC
1 TTAAAGCATATATGAGAGTCAATCC
42908649 TTAAAGCATATATGAGAGTCAATCC
1 TTAAAGCATATATGAGAGTCAATCC
42908674 T
1 T
42908675 GTGGCTCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (25 bp):
TTAAAGCATATATGAGAGTCAATCC
Found at i:42912189 original size:42 final size:43
Alignment explanation
Indices: 42912067--42912239 Score: 179
Period size: 43 Copynumber: 4.0 Consensus size: 43
42912057 ACATAGGATT
* * * *
42912067 TCGATATGTGATTTTGTGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATTTGATTTCGTGTAAGACCATGTCTGGGACATTGGCA
* * *
42912110 TCGAT-TTGAGATTTACGTGTAAGACCATGTTTAGGACATTGGCA
1 TCGATATT-TGATTT-CGTGTAAGACCATGTCTGGGACATTGGCA
* *
42912154 TC-ATATTTGATTTCGTGTAAGACCTTGTCTGGGACAATGGCA
1 TCGATATTTGATTTCGTGTAAGACCATGTCTGGGACATTGGCA
* * * * * *
42912196 TCGATATTTGATTACATATAAGACCACGTCTAGGACGTTGGCA
1 TCGATATTTGATTTCGTGTAAGACCATGTCTGGGACATTGGCA
42912239 T
1 T
42912240 TGTATGAGCT
Statistics
Matches: 106, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
42 28 0.26
43 50 0.47
44 28 0.26
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (43 bp):
TCGATATTTGATTTCGTGTAAGACCATGTCTGGGACATTGGCA
Found at i:42912323 original size:20 final size:20
Alignment explanation
Indices: 42912298--42912339 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
42912288 TTCAACGGGC
42912298 ATTTCAGGAAACAAATAACT
1 ATTTCAGGAAACAAATAACT
42912318 ATTTCAGGAAACAAATAACT
1 ATTTCAGGAAACAAATAACT
42912338 AT
1 AT
42912340 GCGAATGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.10, T:0.26
Consensus pattern (20 bp):
ATTTCAGGAAACAAATAACT
Found at i:42912458 original size:48 final size:48
Alignment explanation
Indices: 42912403--42912499 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
42912393 GGAAGGTGAG
42912403 TATGAATATGATCTTTTGACATGTGAGCTACATGGAAATATGATGTAC
1 TATGAATATGATCTTTTGACATGTGAGCTACATGGAAATATGATGTAC
42912451 TATGAATATGATCTTTTGACATGTGAGCTACATGGAAATATGATGTAC
1 TATGAATATGATCTTTTGACATGTGAGCTACATGGAAATATGATGTAC
42912499 T
1 T
42912500 TATAAGTAAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (48 bp):
TATGAATATGATCTTTTGACATGTGAGCTACATGGAAATATGATGTAC
Found at i:42914760 original size:2 final size:2
Alignment explanation
Indices: 42914753--42914787 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
42914743 TTTACTGAGT
42914753 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
42914788 TCGGTCATGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:42914977 original size:25 final size:25
Alignment explanation
Indices: 42914949--42914998 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
42914939 ATAGAATATT
42914949 GAAGTAAGTTGGTTTGTGTCATTGC
1 GAAGTAAGTTGGTTTGTGTCATTGC
42914974 GAAGTAAGTTGGTTTGTGTCATTGC
1 GAAGTAAGTTGGTTTGTGTCATTGC
42914999 CAAATGCACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.08, G:0.32, T:0.40
Consensus pattern (25 bp):
GAAGTAAGTTGGTTTGTGTCATTGC
Found at i:42921669 original size:25 final size:25
Alignment explanation
Indices: 42921641--42921688 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
42921631 ATTCAAGATA
*
42921641 ATTACTTTTTGACTG-ATTTGATACT
1 ATTACCTTTTGAC-GAATTTGATACT
42921666 ATTACCTTTTGACGAATTTGATA
1 ATTACCTTTTGACGAATTTGATA
42921689 TAATTCTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.48
Consensus pattern (25 bp):
ATTACCTTTTGACGAATTTGATACT
Found at i:42923868 original size:33 final size:34
Alignment explanation
Indices: 42923831--42923919 Score: 87
Period size: 33 Copynumber: 2.7 Consensus size: 34
42923821 ACTGGACCTA
**
42923831 AGCCCATATCAGT-TGCAATATTTGTGT-GGCCTT
1 AGCCCATATCAGTAT-CAATATCAGTGTGGGCCTT
*
42923864 AGCCCA-ATACAGTATCAGTATCAGTGTGGGCCTT
1 AGCCCATAT-CAGTATCAATATCAGTGTGGGCCTT
* *
42923898 AGCCCATCTCAGTA-CAGTATCA
1 AGCCCATATCAGTATCAATATCA
42923920 TACATGCATA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
32 2 0.04
33 27 0.56
34 18 0.38
35 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (34 bp):
AGCCCATATCAGTATCAATATCAGTGTGGGCCTT
Found at i:42923901 original size:34 final size:34
Alignment explanation
Indices: 42923853--42923919 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
42923843 TTGCAATATT
42923853 TGTGTGGCCTTAGCCCAAT-ACAGTATCAGTATCAG
1 TGTGTGGCCTTAGCCC-ATCACAGTA-CAGTATCAG
*
42923888 TGTG-GGCCTTAGCCCATCTCAGTACAGTATCA
1 TGTGTGGCCTTAGCCCATCACAGTACAGTATCA
42923920 TACATGCATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 10 0.33
34 16 0.53
35 4 0.13
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.28
Consensus pattern (34 bp):
TGTGTGGCCTTAGCCCATCACAGTACAGTATCAG
Found at i:42927577 original size:40 final size:40
Alignment explanation
Indices: 42927528--42927616 Score: 99
Period size: 39 Copynumber: 2.2 Consensus size: 40
42927518 TGATGTGTAT
* *
42927528 CCGGGCTTAAAGACCCGCAGGCAATATGATGGAATTATAC
1 CCGGACTTAAAGACCCGCAGGCAATATGATGGAATTATAA
** * * * *
42927568 CCGGACTT-AAGGTCCGTAGGCTATGTGCTGGAATTATAA
1 CCGGACTTAAAGACCCGCAGGCAATATGATGGAATTATAA
42927607 CCGGACTTAA
1 CCGGACTTAA
42927617 GGTCCGCAGG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
39 32 0.80
40 8 0.20
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGACTTAAAGACCCGCAGGCAATATGATGGAATTATAA
Found at i:42927600 original size:39 final size:39
Alignment explanation
Indices: 42927557--42927683 Score: 139
Period size: 39 Copynumber: 3.3 Consensus size: 39
42927547 GGCAATATGA
* * *
42927557 TGGAATTATACCCGGACTTAAGGTCCGTAGGCTATGTGC
1 TGGAATTATAACCGGACTTAAGGTCCGCAGGCTACGTGC
42927596 TGGAATTATAACCGGACTTAAGGTCCGCAGGCTACGTGC
1 TGGAATTATAACCGGACTTAAGGTCCGCAGGCTACGTGC
* ** * * * *
42927635 TGGAAATATGTCCGGAC-AAAAGTCCCGCAGGCTTCGAGC
1 TGGAATTATAACCGGACTTAAGGT-CCGCAGGCTACGTGC
*
42927674 TGGTATTATA
1 TGGAATTATA
42927684 CTGGGTTTAA
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
38 4 0.05
39 70 0.95
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TGGAATTATAACCGGACTTAAGGTCCGCAGGCTACGTGC
Found at i:42929382 original size:54 final size:54
Alignment explanation
Indices: 42929286--42929458 Score: 231
Period size: 54 Copynumber: 3.2 Consensus size: 54
42929276 TGGATAAGTT
* * * *
42929286 GTAGAATTACCGAAATACCCTTGTAAGGTAGACTTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCTTGTAGG
* *
42929340 GTAGAATTACCGAAATACCCCTGT-AGGATAGAATTACCGAAATACCCTTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAGG-TAGAATTATCGAAATACCCTTGTAGG
** * *
42929394 GTAGAATTATTGAAATACCCCTGTAAGGTAGAATTATCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCTTGTAGG
*
42929448 GTAAAATTACC
1 GTAGAATTACC
42929459 ATTTTGCCCC
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
53 3 0.03
54 96 0.94
55 3 0.03
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (54 bp):
GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCTTGTAGG
Found at i:42929424 original size:81 final size:81
Alignment explanation
Indices: 42929287--42929458 Score: 272
Period size: 81 Copynumber: 2.1 Consensus size: 81
42929277 GGATAAGTTG
* *
42929287 TAGAATTACCGAAATACCCTTGTAAGGTAGACTTATTGAAATACCCCTGTAGGGTAGAATTACCG
1 TAGAATTACCGAAATACCCTTGTAAGGTAGAATTATTGAAATACCCCTGTAAGGTAGAATTACCG
42929352 AAATACCCCTGTAGGA
66 AAATACCCCTGTAGGA
*
42929368 TAGAATTACCGAAATACCCTTGTAAGGTAGAATTATTGAAATACCCCTGTAAGGTAGAATTATCG
1 TAGAATTACCGAAATACCCTTGTAAGGTAGAATTATTGAAATACCCCTGTAAGGTAGAATTACCG
* * * *
42929433 AGATACCCTTGTGGGG
66 AAATACCCCTGTAGGA
*
42929449 TAAAATTACC
1 TAGAATTACC
42929459 ATTTTGCCCC
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (81 bp):
TAGAATTACCGAAATACCCTTGTAAGGTAGAATTATTGAAATACCCCTGTAAGGTAGAATTACCG
AAATACCCCTGTAGGA
Found at i:42929450 original size:27 final size:27
Alignment explanation
Indices: 42929286--42929458 Score: 204
Period size: 27 Copynumber: 6.4 Consensus size: 27
42929276 TGGATAAGTT
*
42929286 GTAGAATTACCGAAATACCCTTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
* ** *
42929313 GTAGACTTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAG
42929340 GTAGAATTACCGAAATACCCCTGT-AG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
42929366 GATAGAATTACCGAAATACCCTTGTAAG
1 G-TAGAATTACCGAAATACCCCTGTAAG
**
42929394 GTAGAATTATTGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
* * * **
42929421 GTAGAATTATCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
42929448 GTAAAATTACC
1 GTAGAATTACC
42929459 ATTTTGCCCC
Statistics
Matches: 124, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
26 2 0.02
27 119 0.96
28 3 0.02
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAAG
Found at i:42930152 original size:27 final size:26
Alignment explanation
Indices: 42930108--42930158 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
42930098 CTCGCTGCAA
*
42930108 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
42930135 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
42930159 GGTAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:42936923 original size:33 final size:34
Alignment explanation
Indices: 42936853--42936924 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
42936843 TTTGCATTTA
* *
42936853 TGATACTGTTACTGTAATGGGCTCAGGCCCATAC
1 TGATAATGTTACTGTAATGGGCTAAGGCCCATAC
42936887 TGATAATGTTACTGTAATGGGCTAAGG-CCATAC
1 TGATAATGTTACTGTAATGGGCTAAGGCCCATAC
42936920 TGATA
1 TGATA
42936925 CTGGGCTGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 11 0.31
34 25 0.69
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (34 bp):
TGATAATGTTACTGTAATGGGCTAAGGCCCATAC
Found at i:42938596 original size:21 final size:22
Alignment explanation
Indices: 42938561--42938601 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
42938551 AGCCGAACCA
42938561 CTTTTGTTCTCTTCTCTGTTTAT
1 CTTTTGTTCTCTTCT-TGTTTAT
42938584 CTTTT-TT-TCTTCTTGTTT
1 CTTTTGTTCTCTTCTTGTTT
42938602 GCCCTCCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 6 0.33
22 2 0.11
23 5 0.28
ACGTcount: A:0.02, C:0.20, G:0.07, T:0.71
Consensus pattern (22 bp):
CTTTTGTTCTCTTCTTGTTTAT
Found at i:42944531 original size:39 final size:39
Alignment explanation
Indices: 42944450--42944612 Score: 272
Period size: 39 Copynumber: 4.2 Consensus size: 39
42944440 TATGGTAACC
* *
42944450 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
42944490 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
42944529 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
42944568 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
42944607 CGCACA
1 CGCACA
42944613 TTCATACACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:42954923 original size:40 final size:39
Alignment explanation
Indices: 42954755--42954925 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
42954745 AGAAATTGAA
* *
42954755 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
42954795 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
42954835 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
42954875 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
42954915 TGATATCCGGG
1 TGATATCCGGG
42954926 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:42963026 original size:40 final size:39
Alignment explanation
Indices: 42962858--42963028 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
42962848 AGAAATTGAA
* *
42962858 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
42962898 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
42962938 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
42962978 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
42963018 TGATATCCGGG
1 TGATATCCGGG
42963029 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:42966174 original size:40 final size:39
Alignment explanation
Indices: 42966130--42966314 Score: 237
Period size: 40 Copynumber: 4.7 Consensus size: 39
42966120 GCCACTAGCT
*
42966130 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
42966170 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
42966209 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * ** * *
42966249 CGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
42966289 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
42966315 TATCATCCGA
Statistics
Matches: 127, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 40 0.31
40 87 0.69
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:42966228 original size:79 final size:80
Alignment explanation
Indices: 42966123--42966317 Score: 259
Period size: 79 Copynumber: 2.5 Consensus size: 80
42966113 GGATATAGCC
* **
42966123 ACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTT
* *
42966188 AGCCCGGTA-TAATA
66 AGCCCGGAATTAACA
* * * *
42966202 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCACACGAATGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTT
* *
42966267 AGCCCGGAATTAGCC
66 AGCCCGGAATTAACA
*
42966282 ACTAGCTCAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 ACTAGCACAAATGCCT-TCGGGACTTAGCCCGGTTAT
42966318 CATCCGAACA
Statistics
Matches: 100, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 68 0.68
80 32 0.32
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTT
AGCCCGGAATTAACA
Found at i:42970040 original size:16 final size:16
Alignment explanation
Indices: 42970019--42970061 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
42970009 GTAGATCGAC
*
42970019 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCA
42970035 AAAAGCCGAAATGCCA
1 AAAAGCCGAAATGCCA
*
42970051 AAAAGCTGAAA
1 AAAAGCCGAAA
42970062 GTGTTGCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.51, C:0.21, G:0.21, T:0.07
Consensus pattern (16 bp):
AAAAGCCGAAATGCCA
Found at i:42970191 original size:9 final size:9
Alignment explanation
Indices: 42970165--42970203 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
42970155 TTTTGAATAA
42970165 GCCAAATGG
1 GCCAAATGG
42970174 GCCAGAATGG
1 GCCA-AATGG
*
42970184 GCTAAATGG
1 GCCAAATGG
*
42970193 GCCCAATGG
1 GCCAAATGG
42970202 GC
1 GC
42970204 TGTTGGGCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.28, C:0.23, G:0.36, T:0.13
Consensus pattern (9 bp):
GCCAAATGG
Found at i:42970202 original size:18 final size:19
Alignment explanation
Indices: 42970168--42970204 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
42970158 TGAATAAGCC
*
42970168 AAATGGGCCAGAATGGGCT
1 AAATGGGCCACAATGGGCT
42970187 AAATGGGCC-CAATGGGCT
1 AAATGGGCCACAATGGGCT
42970205 GTTGGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.30, C:0.19, G:0.35, T:0.16
Consensus pattern (19 bp):
AAATGGGCCACAATGGGCT
Found at i:42970348 original size:29 final size:29
Alignment explanation
Indices: 42970273--42970423 Score: 127
Period size: 29 Copynumber: 5.3 Consensus size: 29
42970263 GTGAGCATCA
* *
42970273 ATAT-AATGTGATTTGGGCC-AGATGGGCT
1 ATATGAATGTGAATTGGGCCTAG-TGGGCC
* *
42970301 ATGTGAATGAG-A-TGGGCCTAGTGGGCC
1 ATATGAATGTGAATTGGGCCTAGTGGGCC
* * *
42970328 ATATGAATGTGAATTTGGCCTAATGGGTC
1 ATATGAATGTGAATTGGGCCTAGTGGGCC
* *
42970357 ATATGAACGTAAATTGGGCC-AGATGGGCC
1 ATATGAATGTGAATTGGGCCTAG-TGGGCC
*
42970386 ATAT-AA-ATGATATTGGGCCTAGTGGGCC
1 ATATGAATGTGA-ATTGGGCCTAGTGGGCC
*
42970414 ATATGCATGT
1 ATATGAATGT
42970424 ATGTAGGGGT
Statistics
Matches: 96, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
27 22 0.23
28 27 0.28
29 46 0.48
30 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.31, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCTAGTGGGCC
Done.