Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold149
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: 2538714
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 122877 characters in sequence are not A, C, G, or T
File 5 of 8
Found at i:1441901 original size:27 final size:27
Alignment explanation
Indices: 1441863--1441938 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
1441853 ACTAGGTGTA
*
1441863 CCGCCAATCAGATAGCCACCACCAGTG
1 CCGCCTATCAGATAGCCACCACCAGTG
* ** *
1441890 CCGCCTGTCAGATAGCCATAACCGGTG
1 CCGCCTATCAGATAGCCACCACCAGTG
*
1441917 CTGCCTATCAGATATG-CACCAC
1 CCGCCTATCAGATA-GCCACCAC
1441939 TACTAAAATA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
27 38 0.97
28 1 0.03
ACGTcount: A:0.26, C:0.37, G:0.20, T:0.17
Consensus pattern (27 bp):
CCGCCTATCAGATAGCCACCACCAGTG
Found at i:1442898 original size:69 final size:69
Alignment explanation
Indices: 1442817--1443039 Score: 249
Period size: 69 Copynumber: 3.3 Consensus size: 69
1442807 ATATTGACTA
* ** * *
1442817 ACTCTCATAGCTCACTGCTTTGCTAATTTCATTAAAAAGTTAATTTTAATCTAACATTGGCTAGA
1 ACTCTCATAGCTCACTACTTAACTATTTTCATTAAAAAGTTAATTTTAATCTCACATTGGCTAGA
1442882 GAAT
66 GAAT
* * * * * *
1442886 ACTCTCGTAGCTCACTTCTAAACTATTTTCCTTAAAAAGTTAATTTTAACCTCACATTGACTAGA
1 ACTCTCATAGCTCACTACTTAACTATTTTCATTAAAAAGTTAATTTTAATCTCACATTGGCTAGA
1442951 GAAT
66 GAAT
* * * * * *
1442955 ACTCTCATAGC-C-C-ACTTCACTATTTTTATTAGAAAGTTAATTTTAATCCCATATTGGTTAGA
1 ACTCTCATAGCTCACTACTTAACTATTTTCATTAAAAAGTTAATTTTAATCTCACATTGGCTAGA
*
1443017 GAAC
66 GAAT
1443021 ACTCTCAT-GCTCAC-ACTTA
1 ACTCTCATAGCTCACTACTTA
1443040 CCTTATAATA
Statistics
Matches: 128, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
65 2 0.02
66 50 0.39
67 6 0.05
68 1 0.01
69 69 0.54
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (69 bp):
ACTCTCATAGCTCACTACTTAACTATTTTCATTAAAAAGTTAATTTTAATCTCACATTGGCTAGA
GAAT
Found at i:1443945 original size:60 final size:61
Alignment explanation
Indices: 1443825--1443950 Score: 141
Period size: 60 Copynumber: 2.1 Consensus size: 61
1443815 AACTTTTAGA
* * * * ** *
1443825 ATTAGAATTAGAATTAAATTAACAAATTTTGTAAATGTTCATGACTAAATTTATTGAATTT
1 ATTAGAAGTAGAACTAAATTAACAAATCTTGAAAACATTCATGACTAAATTTAGTGAATTT
* *
1443886 ATTAGAAGTAGAACTAAA-TAACAAATCTTGAAAACATTGATGATTAAATTT-GTGAAATTT
1 ATTAGAAGTAGAACTAAATTAACAAATCTTGAAAACATTCATGACTAAATTTAGTG-AATTT
1443946 -TTAGA
1 ATTAGA
1443951 TTTAGGATCA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
59 7 0.13
60 32 0.58
61 16 0.29
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (61 bp):
ATTAGAAGTAGAACTAAATTAACAAATCTTGAAAACATTCATGACTAAATTTAGTGAATTT
Found at i:1454750 original size:24 final size:25
Alignment explanation
Indices: 1454687--1454751 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
1454677 AAGGGAATAG
*
1454687 GGGAAGGAA-ATGAGGAAAAATGGAA
1 GGGAATGAAGATGA-GAAAAATGGAA
1454712 GGGAATGAAGA-GAGAAAAATGAGAA
1 GGGAATGAAGATGAGAAAAATG-GAA
*
1454737 GTGAA-G-AGATGAGAA
1 GGGAATGAAGATGAGAA
1454752 GGGTTGAGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
23 3 0.09
24 14 0.40
25 17 0.49
26 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.38, T:0.09
Consensus pattern (25 bp):
GGGAATGAAGATGAGAAAAATGGAA
Found at i:1455937 original size:2 final size:2
Alignment explanation
Indices: 1455926--1455955 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
1455916 GTTGTTATAT
1455926 AC AC ATC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC A-C AC AC AC AC AC AC AC AC AC AC AC A
1455956 ATGAACTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:1458197 original size:16 final size:16
Alignment explanation
Indices: 1458166--1458218 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
1458156 GTTTTATCAA
*
1458166 TTTAGTCATTTGTTTAT
1 TTTA-TCATTTATTTAT
* *
1458183 TTTATCGTTTCTTTAT
1 TTTATCATTTATTTAT
1458199 TTTATCATTTATTTAT
1 TTTATCATTTATTTAT
1458215 TTTA
1 TTTA
1458219 ATTATTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 28 0.88
17 4 0.12
ACGTcount: A:0.19, C:0.08, G:0.06, T:0.68
Consensus pattern (16 bp):
TTTATCATTTATTTAT
Found at i:1464773 original size:27 final size:26
Alignment explanation
Indices: 1464734--1464787 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
1464724 TGTTGTAGGT
*
1464734 TAAATGTATAAATATG-ATTTTTGTGA
1 TAAATGTATAAAT-TGAATTATTGTGA
*
1464760 TAAATTGTTTAAATTGAATTATTGTGA
1 TAAA-TGTATAAATTGAATTATTGTGA
1464787 T
1 T
1464788 TTTGAGCTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (26 bp):
TAAATGTATAAATTGAATTATTGTGA
Found at i:1465230 original size:35 final size:36
Alignment explanation
Indices: 1465103--1465232 Score: 106
Period size: 35 Copynumber: 3.7 Consensus size: 36
1465093 TCATTGTAGA
* *
1465103 TTTATCCGACTAGTGC-AGCGCACACCTATCGCCAG
1 TTTATCCGACTAGTGCTAGGGCACACCTATCGTCAG
** ** * * * * *
1465138 TTTATCTTACTAGCACTGGGCGCAAAAC-ATTGTCGG
1 TTTATCCGACTAGTGCTAGG-GCACACCTATCGTCAG
* *
1465174 TTTATTCAACTAGTG-TAGGGCACACCTATCGTCAG
1 TTTATCCGACTAGTGCTAGGGCACACCTATCGTCAG
1465209 TTTATCCGACTAGTGCT-GGGCACA
1 TTTATCCGACTAGTGCTAGGGCACA
1465233 AAACATTGTA
Statistics
Matches: 68, Mismatches: 23, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
34 5 0.07
35 41 0.60
36 17 0.25
37 5 0.07
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (36 bp):
TTTATCCGACTAGTGCTAGGGCACACCTATCGTCAG
Found at i:1465260 original size:71 final size:71
Alignment explanation
Indices: 1465066--1465261 Score: 248
Period size: 71 Copynumber: 2.8 Consensus size: 71
1465056 GTATTTGTTG
* * *
1465066 GTTTGTCCAACTAGCGCTGGGCGCAAATCATTGTAGATTTATCCGACTAGTGCAGCGCACACCTA
1 GTTTATCCAACTAGCGCTGGGCGCAAAACATTGTAGATTTATCCGACTAGTGTAGCGCACACCTA
1465131 TCGCCA
66 TCGCCA
** * * * * * *
1465137 GTTTATCTTACTAGCACTGGGCGCAAAACATTGTCGGTTTATTCAACTAGTGTAGGGCACACCTA
1 GTTTATCCAACTAGCGCTGGGCGCAAAACATTGTAGATTTATCCGACTAGTGTAGCGCACACCTA
*
1465202 TCGTCA
66 TCGCCA
* * * *
1465208 GTTTATCCGACTAGTGCTGGGCACAAAACATTGTAAATTTATCCGACTAGTGTA
1 GTTTATCCAACTAGCGCTGGGCGCAAAACATTGTAGATTTATCCGACTAGTGTA
1465262 ACCCATCGTC
Statistics
Matches: 103, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
71 103 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (71 bp):
GTTTATCCAACTAGCGCTGGGCGCAAAACATTGTAGATTTATCCGACTAGTGTAGCGCACACCTA
TCGCCA
Found at i:1470461 original size:13 final size:13
Alignment explanation
Indices: 1470443--1470467 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1470433 CTTATTTAAA
1470443 TAAAATAAAATAG
1 TAAAATAAAATAG
1470456 TAAAATAAAATA
1 TAAAATAAAATA
1470468 AAAGTAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (13 bp):
TAAAATAAAATAG
Found at i:1478837 original size:48 final size:48
Alignment explanation
Indices: 1478780--1478874 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
1478770 CAGTCACTCC
* * *
1478780 TTCAGTGCCTGCAACACCAACTCAACATTGGGCTCCAACTCCTGCACT
1 TTCAATGCCTACAACACCAACTCAACATTGGACTCCAACTCCTGCACT
* *
1478828 TTCAATGCCTACAACACCAACTCAACCTTGGACTCCAGCTCCTGCAC
1 TTCAATGCCTACAACACCAACTCAACATTGGACTCCAACTCCTGCAC
1478875 CTTGGGCACC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.26, C:0.39, G:0.13, T:0.22
Consensus pattern (48 bp):
TTCAATGCCTACAACACCAACTCAACATTGGACTCCAACTCCTGCACT
Found at i:1479020 original size:66 final size:66
Alignment explanation
Indices: 1478914--1479227 Score: 425
Period size: 66 Copynumber: 4.8 Consensus size: 66
1478904 GTAGCACCAA
* *
1478914 CACCGGCTACACCTTCTGTGCCAGCAACACCATATGAACCTTGGGCTCCAGCCCCTGCACCCTGG
1 CACCGACTACACCTTCTGTGCCAGCAACACCATCTGAACCTTGGGCTCCAGCCCCTGCACCCTGG
1478979 G
66 G
* * *
1478980 CACCGACTACACCTTCTGTGCTAGCAACACCATCTGAACCTTGGGCTCCAGGCCCTGCACCTTGG
1 CACCGACTACACCTTCTGTGCCAGCAACACCATCTGAACCTTGGGCTCCAGCCCCTGCACCCTGG
1479045 G
66 G
* * *
1479046 CACCAACTACACCTACTGTGCCAGCAACACCATCT-AACCCTTGTGCTCCAGCCCCTGCACCCTG
1 CACCGACTACACCTTCTGTGCCAGCAACACCATCTGAA-CCTTGGGCTCCAGCCCCTGCACCCTG
1479110 GG
65 GG
* * * * * *
1479112 CACCGGCTGCACCTTCTGTGCCAGCAACACGATCTCAACCTTGGGCTCCAGGCCCTGCACCATGG
1 CACCGACTACACCTTCTGTGCCAGCAACACCATCTGAACCTTGGGCTCCAGCCCCTGCACCCTGG
*
1479177 A
66 G
* * * *
1479178 CAGC-AGCTACACCTTCTGTGACAACAACACCATCTGACCCTTGGGCTCCA
1 CACCGA-CTACACCTTCTGTGCCAGCAACACCATCTGAACCTTGGGCTCCA
1479228 ACTCCATCTC
Statistics
Matches: 217, Mismatches: 28, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
65 2 0.01
66 213 0.98
67 2 0.01
ACGTcount: A:0.21, C:0.40, G:0.19, T:0.19
Consensus pattern (66 bp):
CACCGACTACACCTTCTGTGCCAGCAACACCATCTGAACCTTGGGCTCCAGCCCCTGCACCCTGG
G
Found at i:1482277 original size:18 final size:18
Alignment explanation
Indices: 1482249--1482295 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
1482239 CACACAAGAT
*
1482249 AACAATTCACACGA-ATTA
1 AACAGTTCACA-GAGATTA
* *
1482267 AACGGTTCACATAGATTA
1 AACAGTTCACAGAGATTA
1482285 AACAGTTCACA
1 AACAGTTCACA
1482296 TAAAATAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 1 0.04
18 23 0.96
ACGTcount: A:0.45, C:0.21, G:0.11, T:0.23
Consensus pattern (18 bp):
AACAGTTCACAGAGATTA
Found at i:1482296 original size:18 final size:18
Alignment explanation
Indices: 1482263--1482297 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1482253 ATTCACACGA
*
1482263 ATTAAACGGTTCACATAG
1 ATTAAACAGTTCACATAG
1482281 ATTAAACAGTTCACATA
1 ATTAAACAGTTCACATA
1482298 AAATAATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (18 bp):
ATTAAACAGTTCACATAG
Found at i:1482310 original size:17 final size:17
Alignment explanation
Indices: 1482271--1482327 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
1482261 GAATTAAACG
* *
1482271 GTTCACATAGATTAAACA
1 GTTCACATAAAAT-AACA
*
1482289 GTTCACATAAAATAATA
1 GTTCACATAAAATAACA
* *
1482306 GTTCATATGAAATAACA
1 GTTCACATAAAATAACA
1482323 GTTCA
1 GTTCA
1482328 TTCAATATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 22 0.67
18 11 0.33
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (17 bp):
GTTCACATAAAATAACA
Found at i:1482328 original size:17 final size:17
Alignment explanation
Indices: 1482285--1482328 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
1482275 ACATAGATTA
*
1482285 AACAGTTCACATAAAAT
1 AACAGTTCATATAAAAT
* *
1482302 AATAGTTCATATGAAAT
1 AACAGTTCATATAAAAT
1482319 AACAGTTCAT
1 AACAGTTCAT
1482329 TCAATATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.30
Consensus pattern (17 bp):
AACAGTTCATATAAAAT
Found at i:1484366 original size:40 final size:39
Alignment explanation
Indices: 1484321--1484396 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 39
1484311 GTTTGGAACA
*
1484321 AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTAGCC
1 AAAGCGCCACAAAAAATAGAGCATCAGCGGCG-TTTAGCC
* * **
1484361 AAAGCGCCGCTAAAGGTAGAGCATCAGCGGCGTTTA
1 AAAGCGCCACAAAAAATAGAGCATCAGCGGCGTTTA
1484397 TACGGAAGCG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
39 4 0.13
40 27 0.87
ACGTcount: A:0.36, C:0.22, G:0.26, T:0.16
Consensus pattern (39 bp):
AAAGCGCCACAAAAAATAGAGCATCAGCGGCGTTTAGCC
Found at i:1484601 original size:42 final size:42
Alignment explanation
Indices: 1484496--1484817 Score: 364
Period size: 41 Copynumber: 7.8 Consensus size: 42
1484486 TTTTTAAACA
*
1484496 TTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCT-CGGGTC
1 TTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCCGAGTC
* *
1484537 TATAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTCCGAGTC
1 TTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCCGAGTC
* *
1484579 TTTAGCGGCGTTTTCGTCTAAGCGCCGATAATGCTCCGAGTC
1 TTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCCGAGTC
* * *
1484621 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCTGGGTC
1 TTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCCGAGTC
* * * *
1484663 TATAGCGGCGTTTTTGCCTATGCGCCGCTAATGCT-CGGGTC
1 TTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCCGAGTC
* * * * * *
1484704 TTTAGCGGCGTTTTTATATATGCGCCGCTAATTCTCC-TGTA
1 TTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCCGAGTC
* * * * *** *
1484745 TTCAGCGGCGTTTGTATCTAAGCGCCGCGAATG-TATTAATC
1 TTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCCGAGTC
* *
1484786 TTTAGCGGCGTTTTTGCCGAAGCGCCGCTAAT
1 TTTAGCGGCGTTTTTGTCTAAGCGCCGCTAAT
1484818 AGTAACAAAA
Statistics
Matches: 239, Mismatches: 39, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
40 1 0.00
41 124 0.52
42 114 0.48
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.33
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCCGAGTC
Found at i:1484669 original size:84 final size:83
Alignment explanation
Indices: 1484498--1484817 Score: 349
Period size: 84 Copynumber: 3.9 Consensus size: 83
1484488 TTTAAACATT
* *
1484498 TAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGGTCTATAGCGGCGTTTTTGTGTAAGCGCC
1 TAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTTGTATAAGCGCC
*
1484563 GCTAATGCTCCGAGTCTT
66 GCTAATGCTCCGAGTCTA
* * * * *
1484581 TAGCGGCGTTTTCGTCTAAGCGCCGATAATGCTCCGAGTCTTTAGCGGCGTTTTCGTCTAAGCGC
1 TAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCT-CGGGTCTTTAGCGGCGTTTTTGTATAAGCGC
* *
1484646 CGCTAATGCTCTGGGTCTA
65 CGCTAATGCTCCGAGTCTA
* * * *
1484665 TAGCGGCGTTTTTGCCTATGCGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTTATATATGCGCC
1 TAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTTGTATAAGCGCC
* * *
1484730 GCTAATTCTCC-TGTAT-
66 GCTAATGCTCCGAGTCTA
* * * **** ***
1484746 TCAGCGGCGTTTGTATCTAAGCGCCGCGAATG-TATTAATCTTTAGCGGCGTTTTTGCCGAAGCG
1 T-AGCGGCGTTTTTGTCTAAGCGCCGCTAATGCT-CGGGTCTTTAGCGGCGTTTTTGTATAAGCG
1484810 CCGCTAAT
64 CCGCTAAT
1484818 AGTAACAAAA
Statistics
Matches: 198, Mismatches: 36, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
81 2 0.01
82 57 0.29
83 67 0.34
84 72 0.36
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.33
Consensus pattern (83 bp):
TAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTTGTATAAGCGCC
GCTAATGCTCCGAGTCTA
Found at i:1498031 original size:21 final size:21
Alignment explanation
Indices: 1498005--1498069 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
1497995 NNNNNNAGAT
*
1498005 GCGGCAGCAAGAGAAGTAGAG
1 GCGGCAGCAAGAGAAGAAGAG
* *
1498026 GCGGCAGCGAGAGAAGAACAG
1 GCGGCAGCAAGAGAAGAAGAG
** * *
1498047 GCTACAGCAAGGGAAGCAGAG
1 GCGGCAGCAAGAGAAGAAGAG
1498068 GC
1 GC
1498070 TAAAGCGAGG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.18, G:0.42, T:0.03
Consensus pattern (21 bp):
GCGGCAGCAAGAGAAGAAGAG
Found at i:1498068 original size:42 final size:42
Alignment explanation
Indices: 1498009--1498109 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
1497999 NNAGATGCGG
* * ** *
1498009 CAGCAAGAGAAGTAGAGGCGGCAGCGAGAGAAGAACAGGCTA
1 CAGCAAGGGAAGCAGAGGCGAAAGCGAGAGAAAAACAGGCTA
* * * *
1498051 CAGCAAGGGAAGCAGAGGCTAAAGCGAGGGAAAAAGAGGCTG
1 CAGCAAGGGAAGCAGAGGCGAAAGCGAGAGAAAAACAGGCTA
*
1498093 CAGCGAGGGAAGCAGAG
1 CAGCAAGGGAAGCAGAG
1498110 CAGCGTCAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.40, C:0.16, G:0.41, T:0.04
Consensus pattern (42 bp):
CAGCAAGGGAAGCAGAGGCGAAAGCGAGAGAAAAACAGGCTA
Found at i:1498070 original size:21 final size:21
Alignment explanation
Indices: 1498030--1498109 Score: 88
Period size: 21 Copynumber: 3.8 Consensus size: 21
1498020 GTAGAGGCGG
* *
1498030 CAGCGAGAGAAGAACAGGCTA
1 CAGCGAGGGAAGAAGAGGCTA
* *
1498051 CAGCAAGGGAAGCAGAGGCTA
1 CAGCGAGGGAAGAAGAGGCTA
* * *
1498072 AAGCGAGGGAAAAAGAGGCTG
1 CAGCGAGGGAAGAAGAGGCTA
*
1498093 CAGCGAGGGAAGCAGAG
1 CAGCGAGGGAAGAAGAG
1498110 CAGCGTCAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.40, C:0.16, G:0.40, T:0.04
Consensus pattern (21 bp):
CAGCGAGGGAAGAAGAGGCTA
Found at i:1498348 original size:43 final size:43
Alignment explanation
Indices: 1498282--1498377 Score: 174
Period size: 43 Copynumber: 2.2 Consensus size: 43
1498272 GCTTTTGCCA
1498282 AAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTATCCAG
1 AAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTATCCAG
* *
1498325 AAAACGCCGCAATCGACCTTGATCTATAGCGGCGCTTATCCAG
1 AAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTATCCAG
1498368 AAAACGCCGC
1 AAAACGCCGC
1498378 TAAAGACACC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.18
Consensus pattern (43 bp):
AAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTATCCAG
Found at i:1498393 original size:43 final size:42
Alignment explanation
Indices: 1498282--1498406 Score: 162
Period size: 43 Copynumber: 2.9 Consensus size: 42
1498272 GCTTTTGCCA
1498282 AAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTATCCAG
1 AAAACGCCGCAATAGACCC-GATCTATAGCGGCGCTTATCCAG
* *
1498325 AAAACGCCGCAATCGACCTTGATCTATAGCGGCGCTTATCCAG
1 AAAACGCCGCAATAGACC-CGATCTATAGCGGCGCTTATCCAG
* * *
1498368 AAAACGCCGCTAA-AGACACCAATCTACAGCGGCGGTTAT
1 AAAACGCCGC-AATAGAC-CCGATCTATAGCGGCGCTTAT
1498407 ATTAAAAACG
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
43 69 0.96
44 3 0.04
ACGTcount: A:0.31, C:0.30, G:0.21, T:0.18
Consensus pattern (42 bp):
AAAACGCCGCAATAGACCCGATCTATAGCGGCGCTTATCCAG
Found at i:1499477 original size:32 final size:31
Alignment explanation
Indices: 1499412--1499478 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
1499402 ACCTAAAATT
* * *
1499412 ATTAATTCTAATTATTTTAATATTTTATTTA
1 ATTAATTCTAATTATTTTAATATCTAATCTA
1499443 ATTAATTCCTAATTA-TTTAATTATCTAATCTA
1 ATTAATT-CTAATTATTTTAA-TATCTAATCTA
1499475 ATTA
1 ATTA
1499479 CAGTTTCCGG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 12 0.39
32 19 0.61
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.55
Consensus pattern (31 bp):
ATTAATTCTAATTATTTTAATATCTAATCTA
Found at i:1501175 original size:16 final size:16
Alignment explanation
Indices: 1501127--1501167 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
1501117 TTCGCTGTAT
1501127 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
1501143 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
1501159 TGGAATAGA
1 TGGAATAGA
1501168 TGTGTAATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.39, C:0.05, G:0.37, T:0.20
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:1504888 original size:9 final size:9
Alignment explanation
Indices: 1504874--1504904 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
1504864 GTTAAACGAA
1504874 TCGAGTTAT
1 TCGAGTTAT
*
1504883 TCGAGTTAA
1 TCGAGTTAT
1504892 TCGAGTTAT
1 TCGAGTTAT
1504901 TCGA
1 TCGA
1504905 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:1504975 original size:9 final size:9
Alignment explanation
Indices: 1504958--1504994 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
1504948 TGAGTTTTCG
1504958 AATTCGAAT
1 AATTCGAAT
*
1504967 AACTCGAAT
1 AATTCGAAT
1504976 AATTCGAAT
1 AATTCGAAT
1504985 AATTCGAAT
1 AATTCGAAT
1504994 A
1 A
1504995 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:1505947 original size:5 final size:5
Alignment explanation
Indices: 1505937--1505967 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
1505927 CTCGAAAATT
1505937 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
1505968 CGAATGCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:1506255 original size:21 final size:21
Alignment explanation
Indices: 1506231--1506270 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1506221 GACTGCTGAC
*
1506231 GTGGCTAGTTAACTAGCTAAT
1 GTGGCCAGTTAACTAGCTAAT
*
1506252 GTGGCCAGTTAACTTGCTA
1 GTGGCCAGTTAACTAGCTA
1506271 TGTTGGACGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (21 bp):
GTGGCCAGTTAACTAGCTAAT
Found at i:1513151 original size:28 final size:28
Alignment explanation
Indices: 1513119--1513200 Score: 73
Period size: 28 Copynumber: 2.9 Consensus size: 28
1513109 ATTTTATCCC
1513119 TTTCAAATATTTTCACATTTTTAATTTA
1 TTTCAAATATTTTCACATTTTTAATTTA
* *
1513147 TTTCAACT-TATTTCA-ATATTGTTACTTTA
1 TTTCAAATAT-TTTCACAT-TT-TTAATTTA
*
1513176 TTT-AAATTATTTTAACA-TTTTAATT
1 TTTCAAA-TATTTTCACATTTTTAATT
1513201 CATATATTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 13
0.70 0.08 0.21
Matches are distributed among these distances:
27 8 0.19
28 18 0.42
29 15 0.35
30 2 0.05
ACGTcount: A:0.32, C:0.10, G:0.01, T:0.57
Consensus pattern (28 bp):
TTTCAAATATTTTCACATTTTTAATTTA
Found at i:1515109 original size:17 final size:17
Alignment explanation
Indices: 1515083--1515120 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
1515073 ATCATTGTAA
*
1515083 ATATTTTATTATTTTAC
1 ATATTCTATTATTTTAC
*
1515100 ATATTCTATTATTTTAT
1 ATATTCTATTATTTTAC
1515117 ATAT
1 ATAT
1515121 ATTGCACCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (17 bp):
ATATTCTATTATTTTAC
Found at i:1519115 original size:13 final size:14
Alignment explanation
Indices: 1519092--1519121 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1519082 GTTTGAGTCC
1519092 GAAAAAGAGAAAAA
1 GAAAAAGAGAAAAA
1519106 GAAAAA-AGAAAAA
1 GAAAAAGAGAAAAA
1519119 GAA
1 GAA
1519122 GTGATGTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
GAAAAAGAGAAAAA
Found at i:1519155 original size:7 final size:7
Alignment explanation
Indices: 1519131--1519172 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
1519121 AGTGATGTGA
1519131 AAAAATG
1 AAAAATG
1519138 AAAAGAT-
1 AAAA-ATG
1519145 AAAAATG
1 AAAAATG
1519152 AAAAATG
1 AAAAATG
1519159 AAAAA-G
1 AAAAATG
1519165 TAAAAATG
1 -AAAAATG
1519173 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
6 3 0.10
7 25 0.81
8 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:1519157 original size:21 final size:21
Alignment explanation
Indices: 1519131--1519172 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1519121 AGTGATGTGA
1519131 AAAAATG-AAAAGATAAAAATG
1 AAAAATGAAAAAG-TAAAAATG
1519152 AAAAATGAAAAAGTAAAAATG
1 AAAAATGAAAAAGTAAAAATG
1519173 GAGAGGCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (21 bp):
AAAAATGAAAAAGTAAAAATG
Found at i:1523287 original size:131 final size:131
Alignment explanation
Indices: 1521908--1523222 Score: 2519
Period size: 131 Copynumber: 10.0 Consensus size: 131
1521898 NNNNNNNNNN
* * *
1521908 AGATCAAAGATGGTGGATTTTACCTCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAGA-AAT-T
1 AGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA-ATAATCC
1521971 TTACTTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAATAGAG
65 TT--TTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAATAGAG
1522036 GAGC
128 GAGC
1522040 AGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATCCT
1 AGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATCCT
1522105 TTTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAATAGAGGAG
66 TTTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAATAGAGGAG
1522170 C
131 C
1522171 AGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATCCT
1 AGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATCCT
1522236 TTTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAATAGAGGAG
66 TTTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAATAGAGGAG
1522301 C
131 C
1522302 AGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATCCT
1 AGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATCCT
1522367 TTTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAATAGAGGAG
66 TTTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAATAGAGGAG
1522432 C
131 C
1522433 AGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATCCT
1 AGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATCCT
1522498 TTTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAATAGAGGAG
66 TTTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAATAGAGGAG
1522563 C
131 C
1522564 AGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATCCT
1 AGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATCCT
1522629 TTTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAATAGAGGAG
66 TTTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAATAGAGGAG
1522694 C
131 C
1522695 AGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATCCT
1 AGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATCCT
1522760 TTTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAATAGAGGAG
66 TTTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAATAGAGGAG
1522825 C
131 C
1522826 AGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATCCT
1 AGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATCCT
1522891 TTTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAATAGAGGAG
66 TTTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAATAGAGGAG
1522956 C
131 C
1522957 AGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATCCT
1 AGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATCCT
1523022 TTTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAATAGAGGAG
66 TTTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAATAGAGGAG
1523087 C
131 C
1523088 AGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAAT-CT
1 AGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATCCT
* * *
1523152 ATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGA
66 -TTTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAATAGAGGA
1523217 GC
130 GC
1523219 AGAT
1 AGAT
1523223 AGAAGTAACC
Statistics
Matches: 1174, Mismatches: 6, Indels: 7
0.99 0.01 0.01
Matches are distributed among these distances:
130 2 0.00
131 1112 0.95
132 58 0.05
133 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (131 bp):
AGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATCCT
TTTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAATAGAGGAG
C
Found at i:1529354 original size:14 final size:15
Alignment explanation
Indices: 1529335--1529364 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1529325 ATCAAAAATG
1529335 AAAAG-AAAAGAAAA
1 AAAAGAAAAAGAAAA
1529349 AAAAGAAAAAGAAAA
1 AAAAGAAAAAGAAAA
1529364 A
1 A
1529365 GAAAAAGGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAGAAAA
Found at i:1530229 original size:15 final size:15
Alignment explanation
Indices: 1530209--1530237 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1530199 CTTTAAGTCA
1530209 AAAAAAATGAAAAAT
1 AAAAAAATGAAAAAT
1530224 AAAAAAATGAAAAA
1 AAAAAAATGAAAAA
1530238 GGAAATGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAAAAATGAAAAAT
Found at i:1531335 original size:4 final size:4
Alignment explanation
Indices: 1531326--1531356 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
1531316 CATTCTCAAA
1531326 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1531357 ATTCTGCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:1531739 original size:44 final size:44
Alignment explanation
Indices: 1531672--1532312 Score: 331
Period size: 44 Copynumber: 14.7 Consensus size: 44
1531662 AAAGAATTTC
* * *
1531672 AGATCTTATCTCCTTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAG
1531716 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACA-
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAG
** * * * * * *
1531759 CTACCCTATCTCCCTGAAGA-TACAGTGGAGCGGATT-AAAATAA
1 AGATCTTATCTCCCTG-AGATTACAGTGGAGCAGATTGAAGACAG
* * * * * *
1531802 AGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCA-TCAG
1 A-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGACAG
* * **
1531846 -G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-A---CAG
* * * * *** *
1531892 -G-TCTTATCCCCCTGAGGTTAAAGTGGAGTAGGCCGAAGA-ATTTC
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACA---G
* *
1531936 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAG
**
1531980 AGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGACA-
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAG
** * * * * *
1532023 CTATCCTATCTCCCTGA-AGTTACAGTGGAGTAGATT-AAAATAA
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGACAG
* * * * * *
1532066 AGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCA-TCAG
1 A-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGACAG
* * * ** *
1532110 -G-TCATATCTCCCTGAGGTTACAGTGGAGTAGA-CCAATGA-ATTTC
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-GACA---G
* *
1532154 AGATCTTATCTCCCTGAGATTACAGTGGAGCAAATTGAAGCCAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAG
* * * * * *
1532198 AGATCTTATCTCCTTGAGATTACAGCGGAGCAAATT-AAAATAA
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAG
* * * * * *
1532241 AGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCA-TCAG
1 A-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGACAG
* *
1532285 -G-TCTTGTCTCCCTGAGGTTACAGTGGAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAG
1532313 TAGACCGAAG
Statistics
Matches: 461, Mismatches: 100, Indels: 75
0.72 0.16 0.12
Matches are distributed among these distances:
40 2 0.00
41 80 0.17
42 13 0.03
43 61 0.13
44 198 0.43
45 6 0.01
46 97 0.21
47 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAG
Found at i:1531810 original size:87 final size:88
Alignment explanation
Indices: 1531674--1532312 Score: 393
Period size: 87 Copynumber: 7.3 Consensus size: 88
1531664 AGAATTTCAG
* * * ***
1531674 ATCTTATCTCCTTGAGGTTACAGTGGAGCAGATT-GAAGCCAGAGATCTTATCTCCCTGAGATTA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAAG-GATCTTATCTCCCTGAGATTA
* * *
1531738 CAGTGGAGCAGATTGAAGACA-CT
65 CAGTAGAGTAGATCGAAGACAGCT
* * * * *
1531761 ACCCTATCTCCCTGAAGATACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGA-AGTTA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCCCTGAGA-TTA
* *
1531825 CAGTAGAGTAGATCGCA-TCAG--
65 CAGTAGAGTAGATCGAAGACAGCT
* * * ** ** * *
1531846 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGG-TCTTATCCCCCTGAGGT
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AA-TAAAGGATCTTATCTCCCTGAGAT
* * **
1531910 TAAAGTGGAGTAGGCCGAAGAATTTCAG--
63 TACAGTAGAGTAGATCGAAG-A---CAGCT
* * ***
1531938 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATT-GAAGCCAGAGATCTTATCTCCCTGAGATTA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAAG-GATCTTATCTCCCTGAGATTA
* * *
1532002 CAGCAGAGCAGATTGAAGACA-CT
65 CAGTAGAGTAGATCGAAGACAGCT
* * *
1532025 ATCCTATCTCCCTGAAGTTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGA-AGTTA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCCCTGAGA-TTA
* *
1532089 CAGTAGAGTAGATCGCA-TCAG--
65 CAGTAGAGTAGATCGAAGACAGCT
* * * * ** **
1532110 GTCATATCTCCCTGAGGTTACAGTGGAGTAGACCAATGAATTTCA-GATCTTATCTCCCTGAGAT
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAA--AA-TAAAGGATCTTATCTCCCTGAGAT
* * * * * **
1532174 TACAGTGGAGCAAATTGAAGCCAGAG
63 TACAGTAGAGTAGATCGAAGACAGCT
* * * *
1532200 ATCTTATCTCCTTG-AGATTACAGCGGAGCAAATTAAAATAAAGGATCTTATCTCTCTGA-AGTT
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCCCTGAGA-TT
* *
1532263 ACAGTAGAGTAGATCGCA-TCAG--
64 ACAGTAGAGTAGATCGAAGACAGCT
* * *
1532285 GTCTTGTCTCCCTGAGGTTACAGTGGAG
1 ATCTTATCTCCCTGAAGTTACAGTGGAG
1532313 TAGACCGAAG
Statistics
Matches: 420, Mismatches: 102, Indels: 62
0.72 0.17 0.11
Matches are distributed among these distances:
85 77 0.18
86 11 0.03
87 188 0.45
88 53 0.13
89 5 0.01
90 53 0.13
92 33 0.08
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (88 bp):
ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCCCTGAGATTAC
AGTAGAGTAGATCGAAGACAGCT
Found at i:1531956 original size:264 final size:264
Alignment explanation
Indices: 1531624--1532183 Score: 978
Period size: 264 Copynumber: 2.1 Consensus size: 264
1531614 GTAGATCGCA
* *
1531624 TCAGGACTTATCTCCCTGAGGTTACAGTGGAGTAGGCCAAAGAATTTCAGATCTTATCTCCTTGA
1 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGGCCAAAGAATTTCAGATCTTATCTCCCTGA
**
1531689 GGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGA
66 GGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGA
*
1531754 AGACACTACCCTATCTCCCTGAAGATACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTG
131 AGACACTACCCTATCTCCCTGAAGATACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTG
*
1531819 AAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAA-
196 AAGTTACAGTAGAGTAGATCGCATCAGGTCATATCTCCCTGAGGTTACAGTGGAGTAGACC-AAT
1531883 GAATT
260 GAATT
* * *
1531888 TCAGGTCTTATCCCCCTGAGGTTAAAGTGGAGTAGGCCGAAGAATTTCAGATCTTATCTCCCTGA
1 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGGCCAAAGAATTTCAGATCTTATCTCCCTGA
1531953 GGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGA
66 GGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGA
* * *
1532018 AGACACTATCCTATCTCCCTGAAGTTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTG
131 AGACACTACCCTATCTCCCTGAAGATACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTG
1532083 AAGTTACAGTAGAGTAGATCGCATCAGGTCATATCTCCCTGAGGTTACAGTGGAGTAGACCAATG
196 AAGTTACAGTAGAGTAGATCGCATCAGGTCATATCTCCCTGAGGTTACAGTGGAGTAGACCAATG
1532148 AATT
261 AATT
* *
1532152 TCAGATCTTATCTCCCTGAGATTACAGTGGAG
1 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAG
1532184 CAAATTGAAG
Statistics
Matches: 279, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
263 2 0.01
264 277 0.99
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (264 bp):
TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGGCCAAAGAATTTCAGATCTTATCTCCCTGA
GGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGA
AGACACTACCCTATCTCCCTGAAGATACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTG
AAGTTACAGTAGAGTAGATCGCATCAGGTCATATCTCCCTGAGGTTACAGTGGAGTAGACCAATG
AATT
Found at i:1532255 original size:175 final size:174
Alignment explanation
Indices: 1531942--1532343 Score: 571
Period size: 175 Copynumber: 2.3 Consensus size: 174
1531932 TTTCAGATCT
* ** * *
1531942 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA---GAGATCTTATCTCCCTGAGATTACA
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG-AATTTCAGATCTTATCTCCCTGAGATTACA
* ** * * *
1532004 GCAGAGCAGATTGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGTAGATTAAAATAAAGG
65 GCAGAGCAAATTGAAGACAAGATCCTATCTCCCTGAAGTTACAGCGGAGCAAATTAAAATAAAGG
1532069 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCA
130 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCA
1532114 TATCTCCCTGAGGTTACAGTGGAGTAGACC-AATGAATTTCAGATCTTATCTCCCTGAGATTACA
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAA-GAATTTCAGATCTTATCTCCCTGAGATTACA
** * * *
1532178 GTGGAGCAAATTGAAGCCAGAGATCTTATCTCCTTG-AGATTACAGCGGAGCAAATTAAAATAAA
65 GCAGAGCAAATTGAAGACA-AGATCCTATCTCCCTGAAG-TTACAGCGGAGCAAATTAAAATAAA
*
1532242 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCT
128 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCA
*
1532289 TGTCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCT
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCT
1532344 AAGCAGTAGT
Statistics
Matches: 205, Mismatches: 18, Indels: 11
0.88 0.08 0.05
Matches are distributed among these distances:
171 3 0.01
172 28 0.14
174 41 0.20
175 131 0.64
176 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (174 bp):
TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAG
CAGAGCAAATTGAAGACAAGATCCTATCTCCCTGAAGTTACAGCGGAGCAAATTAAAATAAAGGA
TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCA
Found at i:1532380 original size:218 final size:219
Alignment explanation
Indices: 1531547--1532494 Score: 974
Period size: 218 Copynumber: 4.3 Consensus size: 219
1531537 ATACCTATCC
* * * *
1531547 TATCTCCTTGA-AGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGT
1 TATCTCCCTGAGA-TTACAGCGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGT
* * *
1531611 AGAGTAGATCGCATCAGGACTTATCTCCCTGAGGTTACAGTGGAGTAGGCCAAAGAATTTCAGAT
65 AGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGAT
* ** ** *
1531676 CTTATCTCCTTGAGGTTACAGTGGAGCAGATTGA-AGCCA-GAGATCTTATCTCCCTGAGATTAC
130 CTTATCTCCCTGAGGTTA-AGTGGAGCAGACCGAGA-ATATCAGATCTTATCTCCCTGAGATTAC
* ** * *
1531739 AGTGGAGCAGATTGAAGACA-CTACCC
193 AGTGGAGCAGATTGAAGCCAGAGATCT
* *
1531765 TATCTCCCTGAAGA-TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGT
1 TATCTCCCTG-AGATTACAGCGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGT
*
1531829 AGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGGT
65 AGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGAT
* * * * *
1531894 CTTATCCCCCTGAGGTTAAAGTGGAGTAGGCCGAAGAATTTCAGATCTTATCTCCCTGAGGTTAC
130 CTTATCTCCCTGAGGTT-AAGTGGAGCAGACCG-AGAATATCAGATCTTATCTCCCTGAGATTAC
1531959 AGTGGAGCAGATTGAAGCCAGAGATCT
193 AGTGGAGCAGATTGAAGCCAGAGATCT
* * * * ** * * *
1531986 TATCTCCCTGAGATTACAGCAGAGCAGATT-GAAGACACTATCCTATCTCCCTGAAGTTACAGTG
1 TATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
*** * * * * * *
1532050 GAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---GCA--TCAG
66 GAGTAGA-TCGCAT-CAGG-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAG
* * * * *
1532110 GTCATATCTCCCTGAGGTTACAGTGGAGTAGACCAATGAATTTCAGATCTTATCTCCCTGAGATT
128 ATCTTATCTCCCTGAGGTTA-AGTGGAGCAGACCGA-GAATATCAGATCTTATCTCCCTGAGATT
*
1532175 ACAGTGGAGCAAATTGAAGCCAGAGATCT
191 ACAGTGGAGCAGATTGAAGCCAGAGATCT
* *
1532204 TATCTCCTTGAGATTACAGCGGAGCAAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
*
1532269 GAGTAGATCGCATCAGGTCTTGTCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATC
66 GAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATC
* * * * * * *
1532334 TTATCTCCCTAAGCAG-T-AGTGGAGCAGATCGAGGATACCA-ATCTTATTTCCCCGAGATTATA
131 TTATCTCCCTGAG--GTTAAGTGGAGCAGACCGAGAATATCAGATCTTATCTCCCTGAGATTACA
* * * *
1532396 GCGAAGCAGATAGAAGCCAGAAATCT
194 GTGGAGCAGATTGAAGCCAGAGATCT
* * * * * * * * * *
1532422 TATTTCCCTGA-AGTTGCAGTGGAGCGGATCAAAATGATA-GATCTCATCCCTCTGAAGTTGCAA
1 TATCTCCCTGAGA-TTACAGCGGAGCAGATTAAAAT-AAAGGATCTTATCTCTCTGAAGTTACAG
*
1532485 TAGAGCAGAT
64 TAGAGTAGAT
1532495 TTCATCAGAC
Statistics
Matches: 608, Mismatches: 99, Indels: 46
0.81 0.13 0.06
Matches are distributed among these distances:
216 28 0.05
217 6 0.01
218 357 0.59
219 45 0.07
220 93 0.15
221 45 0.07
222 4 0.01
223 30 0.05
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (219 bp):
TATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
GAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATC
TTATCTCCCTGAGGTTAAGTGGAGCAGACCGAGAATATCAGATCTTATCTCCCTGAGATTACAGT
GGAGCAGATTGAAGCCAGAGATCT
Found at i:1532693 original size:44 final size:44
Alignment explanation
Indices: 1532617--1532827 Score: 180
Period size: 44 Copynumber: 4.9 Consensus size: 44
1532607 AACTACAAGG
* * * * *
1532617 CACAAATCCTATCTCCCTGAAGTTGTAATAGAGTGGATTAAAAC
1 CACAGATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAAC
* * * *** *
1532661 CACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGA-TCGCAT
1 CACAGATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAAC
* ** *
1532704 C-CAG-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAA
1 CACAGATCTTATCTCCCTGAAGTTGCAGTAGAGTAGA-TTAA-AAC
* * * *
1532748 C-CA-ATCCTATCTCCCTGAAGGTGCAGTGGAGTGGATTAAAAC
1 CACAGATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAAC
*
1532790 CACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 CACAGATCTTATCTCCCTGAAGTTGCAGTAGAGTAGAT
1532828 CGCATCAGGT
Statistics
Matches: 129, Mismatches: 32, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
41 27 0.21
42 6 0.05
43 7 0.05
44 89 0.69
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (44 bp):
CACAGATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAAC
Found at i:1532722 original size:41 final size:41
Alignment explanation
Indices: 1532626--1532855 Score: 131
Period size: 44 Copynumber: 5.4 Consensus size: 41
1532616 GCACAAATCC
* * ** * *
1532626 TATCTCCCTGAAGTTGTAATAGAGTGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGA-TAGAATC-CAG-TCT
* * * *
1532670 TATCTCTCTGAAGTTACAGTAGAGCAGATCGCATCCAGTCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATAGAATCCAGTCT
* * *
1532711 TATCTCCCTGAAGTTGCAGTGGAGTAGACAGA-AGAAACCAATCC
1 TATCTCCCTGAAGTTGCAGT--AG-AG-CAGATAGAATCCAGTCT
* * ** * *
1532755 TATCTCCCTGAAGGTGCAGTGGAGTGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGA-TAGAATC-CAG-TCT
* * * *
1532799 TATCTCTCTGAAGTTGCAGTAGAGTAGATCGCAT-CAGGTCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATAGAATCCA-GTCT
*
1532840 TATCCCCCTGAAGTTG
1 TATCTCCCTGAAGTTG
1532856 TAGAGGGGCA
Statistics
Matches: 142, Mismatches: 35, Indels: 21
0.72 0.18 0.11
Matches are distributed among these distances:
40 2 0.01
41 42 0.30
42 9 0.06
43 9 0.06
44 76 0.54
45 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (41 bp):
TATCTCCCTGAAGTTGCAGTAGAGCAGATAGAATCCAGTCT
Found at i:1532787 original size:129 final size:129
Alignment explanation
Indices: 1532621--1532855 Score: 391
Period size: 129 Copynumber: 1.8 Consensus size: 129
1532611 ACAAGGCACA
* *
1532621 AATCCTATCTCCCTGAAGTTGTAATAGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTTA
1 AATCCTATCTCCCTGAAGGTGCAATAGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTTA
*
1532686 CAGTAGAGCAGATCGCATCCA-GTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAACC
66 CAGTAGAGCAGATCGCAT-CAGGTCTTATCCCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAACC
* * *
1532750 AATCCTATCTCCCTGAAGGTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGGTGCAATAGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTTA
*
1532815 CAGTAGAGTAGATCGCATCAGGTCTTATCCCCCTGAAGTTG
66 CAGTAGAGCAGATCGCATCAGGTCTTATCCCCCTGAAGTTG
1532856 TAGAGGGGCA
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
128 2 0.02
129 96 0.98
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.27
Consensus pattern (129 bp):
AATCCTATCTCCCTGAAGGTGCAATAGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTTA
CAGTAGAGCAGATCGCATCAGGTCTTATCCCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAACC
Found at i:1532898 original size:129 final size:130
Alignment explanation
Indices: 1532621--1532934 Score: 343
Period size: 129 Copynumber: 2.4 Consensus size: 130
1532611 ACAAGGCACA
* * *
1532621 AATCCTATCTCCCTGAAGTTGTA-A-TAGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGT
1 AATCCTACCTCCCTGAAGGT-TACAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGT
* * *
1532684 TACAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAAC
65 TACAGTAGAGCAGATCGCATCCAGTCTTATCCCCCTGAAGTTGCAGAGGAGCAGACAGAAGAAAC
1532749 C
130 C
* *
1532750 AATCCTATCTCCCTGAAGG-TGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
1 AATCCTACCTCCCTGAAGGTTACAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
* * * * *
1532814 GCAGTAGAGTAGATCGCAT-CAGGTCTTATCCCCCTGAAGTTGTAGAGGGGCAGACTA-AAGATG
66 ACAGTAGAGCAGATCGCATCCA-GTCTTATCCCCCTGAAGTTGCAGAGGAGCAGAC-AGAAGA-A
* *
1532877 GCG
128 ACC
* ** * * * * *
1532880 GATTTTACCTCCCT-AAGGTTACAGTGGAGTAGATTGAAGCCACAAATCCTATCTC
1 AATCCTACCTCCCTGAAGGTTACAGTGGAGTGGATTAAAACCACAGATCTTATCTC
1532935 CTCGATGTTG
Statistics
Matches: 156, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
127 1 0.01
128 3 0.02
129 110 0.71
130 42 0.27
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (130 bp):
AATCCTACCTCCCTGAAGGTTACAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
ACAGTAGAGCAGATCGCATCCAGTCTTATCCCCCTGAAGTTGCAGAGGAGCAGACAGAAGAAACC
Found at i:1539005 original size:28 final size:28
Alignment explanation
Indices: 1538947--1539006 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
1538937 GTTTTATGAT
* *
1538947 TGAAAGCAACTTGTGTATGATTGACGGA
1 TGAAAGCAACTTGTGTATGATTGAAGAA
*
1538975 TGAAAGCGACTTGTGTATGATTGAAGAA
1 TGAAAGCAACTTGTGTATGATTGAAGAA
1539003 TGAA
1 TGAA
1539007 GTAAGGTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.28
Consensus pattern (28 bp):
TGAAAGCAACTTGTGTATGATTGAAGAA
Found at i:1540663 original size:19 final size:19
Alignment explanation
Indices: 1540623--1540664 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
1540613 TTTGACCAGT
* *
1540623 TTTTGGGTCTTGGTCTCGA
1 TTTTGGGTCTTGGGCTCCA
1540642 TTTTGGGCTCTTGGGC-CCA
1 TTTTGGG-TCTTGGGCTCCA
1540661 TTTT
1 TTTT
1540665 ACAATCTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.05, C:0.19, G:0.29, T:0.48
Consensus pattern (19 bp):
TTTTGGGTCTTGGGCTCCA
Found at i:1541965 original size:15 final size:15
Alignment explanation
Indices: 1541945--1541974 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1541935 TATGCATGCA
1541945 AAATATAAAAGACAT
1 AAATATAAAAGACAT
1541960 AAATATAAAAGACAT
1 AAATATAAAAGACAT
1541975 CAAGGTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.20
Consensus pattern (15 bp):
AAATATAAAAGACAT
Found at i:1545924 original size:17 final size:17
Alignment explanation
Indices: 1545898--1545931 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1545888 ATTTAGATAT
*
1545898 ATATATTTGTAATTGTA
1 ATATAATTGTAATTGTA
*
1545915 ATATAATTGTATTTGTA
1 ATATAATTGTAATTGTA
1545932 CCCTAAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (17 bp):
ATATAATTGTAATTGTA
Found at i:1546597 original size:21 final size:20
Alignment explanation
Indices: 1546560--1546609 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
1546550 CCAAATTTTG
1546560 TTTTAAAAA--ATTAGAAAA
1 TTTTAAAAATTATTAGAAAA
1546578 TTTTAAAAATTATATAGAAAA
1 TTTTAAAAATTAT-TAGAAAA
*
1546599 ATTTAAAAATT
1 TTTTAAAAATT
1546610 TAAAAATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
20 2 0.07
21 17 0.61
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (20 bp):
TTTTAAAAATTATTAGAAAA
Found at i:1546614 original size:7 final size:8
Alignment explanation
Indices: 1546595--1546629 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
1546585 AATTATATAG
1546595 AAAAATTT
1 AAAAATTT
1546603 AAAAATTT
1 AAAAATTT
1546611 AAAAATTT
1 AAAAATTT
1546619 -AAAATTT
1 AAAAATTT
1546626 AAAA
1 AAAA
1546630 GAATACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
AAAAATTT
Found at i:1546616 original size:16 final size:15
Alignment explanation
Indices: 1546595--1546629 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1546585 AATTATATAG
1546595 AAAAATTTAAAAATTT
1 AAAAATTT-AAAATTT
1546611 AAAAATTTAAAATTT
1 AAAAATTTAAAATTT
1546626 AAAA
1 AAAA
1546630 GAATACATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAAATTTAAAATTT
Found at i:1547948 original size:23 final size:27
Alignment explanation
Indices: 1547906--1547973 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 27
1547896 CAAGCTAAAG
1547906 AACGGTAAGCTC-TATCGAGCT-A-A-
1 AACGGTAAGCTCATATCGAGCTGATAT
*
1547929 AACGGTAAGCTCATA-GGAGCTGATAT
1 AACGGTAAGCTCATATCGAGCTGATAT
*
1547955 ATCGGTAAGCTCATA-CGAG
1 AACGGTAAGCTCATATCGAG
1547974 TTGTGGTGGG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
23 17 0.45
24 3 0.08
25 1 0.03
26 17 0.45
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (27 bp):
AACGGTAAGCTCATATCGAGCTGATAT
Found at i:1555594 original size:19 final size:19
Alignment explanation
Indices: 1555567--1555613 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
1555557 ATAGTAATCC
1555567 ATCAA-CATTT-AACTAA-T
1 ATCAATCATTTCAA-TAATT
1555584 ATCATATCATTTCAATAATT
1 ATCA-ATCATTTCAATAATT
1555604 ATCAATCATT
1 ATCAATCATT
1555614 CATATTCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.15
18 1 0.04
19 14 0.54
20 7 0.27
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (19 bp):
ATCAATCATTTCAATAATT
Found at i:1564777 original size:11 final size:11
Alignment explanation
Indices: 1564757--1564791 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
1564747 CTTTTTTTCA
1564757 CAATTTTTTTT
1 CAATTTTTTTT
1564768 CAATTTTTTTTTT
1 CAA--TTTTTTTT
1564781 CAATTTTTTTT
1 CAATTTTTTTT
1564792 TCACAACTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 11 0.50
13 11 0.50
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (11 bp):
CAATTTTTTTT
Found at i:1564778 original size:12 final size:12
Alignment explanation
Indices: 1564748--1564794 Score: 67
Period size: 13 Copynumber: 3.8 Consensus size: 12
1564738 TAGCTCTCTC
*
1564748 TTTTTTTCACAAT
1 TTTTTTTCA-ATT
1564761 TTTTTTTCAATTT
1 TTTTTTTCAA-TT
1564774 TTTTTTTCAATT
1 TTTTTTTCAATT
1564786 TTTTTTTCA
1 TTTTTTTCA
1564795 CAACTTGATA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
12 12 0.38
13 20 0.62
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTTTTCAATT
Found at i:1564852 original size:12 final size:12
Alignment explanation
Indices: 1564835--1564867 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
1564825 TGGAAACTAG
1564835 TTTTTTTTCAAT
1 TTTTTTTTCAAT
*
1564847 TTTTTTTTGAAT
1 TTTTTTTTCAAT
1564859 TTTTTTTTC
1 TTTTTTTTC
1564868 GAGAAACTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.79
Consensus pattern (12 bp):
TTTTTTTTCAAT
Found at i:1589339 original size:44 final size:44
Alignment explanation
Indices: 1589289--1589380 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
1589279 TATCGCATCA
* *
1589289 GATTGAAGCCAAAAATCTTATCT-CCTAGAGATTACAGCGGAGCT
1 GATTGAAGCCAAAAATCCTATCTCCCTA-AGATTACAGCGGAGCG
* ** *
1589333 GATTGAAGCTAGTAATCCTATCTCCCTAAGATTACAGTGGAGCG
1 GATTGAAGCCAAAAATCCTATCTCCCTAAGATTACAGCGGAGCG
1589377 GATT
1 GATT
1589381 AAAATGGAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 37 0.90
45 4 0.10
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
GATTGAAGCCAAAAATCCTATCTCCCTAAGATTACAGCGGAGCG
Found at i:1589495 original size:142 final size:142
Alignment explanation
Indices: 1589239--1589573 Score: 530
Period size: 142 Copynumber: 2.4 Consensus size: 142
1589229 TTCCTAATCG
* *
1589239 AAAATGGTGGATCTTATCTCTCTGAAGTTACAGTAGAGTATATCGCATCAGATTGAAGCCAAAAA
1 AAAATGGAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAAAAA
* *
1589304 TCTTATCTCCTAGAGATTACAGCGGAGCTGATTGAAGCTAGTAATCCTATCTCCCTAAGATTACA
66 TCTTATCTCCTAGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCACTAAGATTACA
1589369 GTGGAGCGGATT
131 GTGGAGCGGATT
* * *
1589381 AAAATGGAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGAACGCATCAGATTGAAGCCAGAAA
1 AAAATGGAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAAAAA
* *
1589446 TCTTATCTCCCT-GAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCATTGAGATTAC
66 TCTTATCT-CCTAGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCACTAAGATTAC
1589510 AGTGGAGCGGATT
130 AGTGGAGCGGATT
** *
1589523 AAAATAAAGGATCTTATCTCTTTGAAGTTACAGCT-GAGTAGATCGCATCAG
1 AAAATGGAGGATCTTATCTCTCTGAAGTTACAG-TAGAGTAGATCGCATCAG
1589574 GTCTTATCTC
Statistics
Matches: 177, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
142 173 0.98
143 4 0.02
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (142 bp):
AAAATGGAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAAAAA
TCTTATCTCCTAGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCACTAAGATTACA
GTGGAGCGGATT
Found at i:1589497 original size:44 final size:44
Alignment explanation
Indices: 1589429--1589522 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
1589419 TAGAACGCAT
* *
1589429 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 CAGATTGAAGCCAGAAATCCTATCTCACTGAGATTACAGCGGAG
* * * *
1589473 CAGATTGAAGCTAGTAATCCTATCTCATTGAGATTACAGTGGAG
1 CAGATTGAAGCCAGAAATCCTATCTCACTGAGATTACAGCGGAG
*
1589517 CGGATT
1 CAGATT
1589523 AAAATAAAGG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (44 bp):
CAGATTGAAGCCAGAAATCCTATCTCACTGAGATTACAGCGGAG
Found at i:1590356 original size:11 final size:11
Alignment explanation
Indices: 1590340--1590375 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
1590330 GGCCAATGGA
1590340 TTTTTTCATTC
1 TTTTTTCATTC
*
1590351 TTTTTTTATTC
1 TTTTTTCATTC
*
1590362 TTTTTTCTTTC
1 TTTTTTCATTC
1590373 TTT
1 TTT
1590376 CGGGTTCTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTTCATTC
Found at i:1596695 original size:17 final size:17
Alignment explanation
Indices: 1596673--1596706 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1596663 CCCTGGAAGA
1596673 CAGTCTTAAAGTAGCCC
1 CAGTCTTAAAGTAGCCC
1596690 CAGTCTTAAAGTAGCCC
1 CAGTCTTAAAGTAGCCC
1596707 TAGTTCAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (17 bp):
CAGTCTTAAAGTAGCCC
Found at i:1596963 original size:22 final size:21
Alignment explanation
Indices: 1596938--1596979 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
1596928 TTAAATAAAT
*
1596938 TTTAGTTAATTTAGTTTAAGTA
1 TTTAATTAATTTAG-TTAAGTA
1596960 TTTAATTAATTTAGTTAAGT
1 TTTAATTAATTTAGTTAAGT
1596980 GTTAAATGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (21 bp):
TTTAATTAATTTAGTTAAGTA
Found at i:1610162 original size:21 final size:21
Alignment explanation
Indices: 1610136--1610197 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
1610126 AGGGTAGATC
* *
1610136 AGCTCTTACGAGCTTTTGTTA
1 AGCTCTTATGAGCTTCTGTTA
*
1610157 AGCTCTTATGAGCTTCTGTTT
1 AGCTCTTATGAGCTTCTGTTA
1610178 AGCTCTTATGAGCTTCTGTT
1 AGCTCTTATGAGCTTCTGTT
1610198 GATGTGTTCG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.45
Consensus pattern (21 bp):
AGCTCTTATGAGCTTCTGTTA
Found at i:1612071 original size:28 final size:29
Alignment explanation
Indices: 1612018--1612097 Score: 89
Period size: 28 Copynumber: 2.9 Consensus size: 29
1612008 ATTTTTTACT
***
1612018 TTTTTAAAAATAATTTTAATGCTTTT-AA
1 TTTTTAAAAATAATTTTAAAAATTTTGAA
1612046 TTTTTAAAAATAATTTTAAAAATTTTTGAA
1 TTTTTAAAAATAATTTTAAAAA-TTTTGAA
1612076 -TTTTAAAAAT--TTTT-AAAATTTT
1 TTTTTAAAAATAATTTTAAAAATTTT
1612098 CAAAAGTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
25 4 0.09
26 4 0.09
27 4 0.09
28 19 0.40
29 14 0.30
30 2 0.04
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (29 bp):
TTTTTAAAAATAATTTTAAAAATTTTGAA
Found at i:1612079 original size:17 final size:17
Alignment explanation
Indices: 1612057--1612089 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1612047 TTTTAAAAAT
1612057 AATTTTAAAAATTTTTG
1 AATTTTAAAAATTTTTG
1612074 AATTTTAAAAATTTTT
1 AATTTTAAAAATTTTT
1612090 AAAATTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
AATTTTAAAAATTTTTG
Found at i:1612901 original size:20 final size:21
Alignment explanation
Indices: 1612878--1612920 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
1612868 AATTTGAAAA
*
1612878 TTAAAATATTTATTT-TAATT
1 TTAAAATATTAATTTATAATT
*
1612898 TTAAATTATTAATTTATAATT
1 TTAAAATATTAATTTATAATT
1612919 TT
1 TT
1612921 TTTATGCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTAAAATATTAATTTATAATT
Found at i:1629275 original size:13 final size:13
Alignment explanation
Indices: 1629253--1629287 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
1629243 AAGTGAATGA
*
1629253 AGTTTGATTTGTC
1 AGTTTAATTTGTC
1629266 AGTTTAATTTGTC
1 AGTTTAATTTGTC
1629279 AGTTTAATT
1 AGTTTAATT
1629288 GCATTACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.23, C:0.06, G:0.17, T:0.54
Consensus pattern (13 bp):
AGTTTAATTTGTC
Found at i:1642627 original size:18 final size:17
Alignment explanation
Indices: 1642604--1642637 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1642594 CCACATTGAT
1642604 TAAAATTATAAAAAATTC
1 TAAAATT-TAAAAAATTC
*
1642622 TAAAATTTCAAAAATT
1 TAAAATTTAAAAAATT
1642638 ATATAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAAATTTAAAAAATTC
Found at i:1645366 original size:590 final size:590
Alignment explanation
Indices: 1644248--1645431 Score: 2359
Period size: 590 Copynumber: 2.0 Consensus size: 590
1644238 AATCCCAAAA
1644248 AAAATAAAATAAATGTTTATAGTAAATAGTTTATGAAAGTAAGTGATCACCTCTGTCTTTCAATT
1 AAAATAAAATAAATGTTTATAGTAAATAGTTTATGAAAGTAAGTGATCACCTCTGTCTTTCAATT
1644313 TGAGAAGAAAGAACAAAATTATTTTCTCACTACAAAACTAACATTTTATTCACCTTTATGTGCAC
66 TGAGAAGAAAGAACAAAATTATTTTCTCACTACAAAACTAACATTTTATTCACCTTTATGTGCAC
1644378 AAATTTGGACCCATTTCTTGTTTTAACTATATATATTTCTGATTAAATATTTTTAATTTCAGAAA
131 AAATTTGGACCCATTTCTTGTTTTAACTATATATATTTCTGATTAAATATTTTTAATTTCAGAAA
1644443 TAATTTATTGTTAATTAAATAAAAATGACACAATTTAATTTTTTTTTCTTATTAAAAAGTTTTGA
196 TAATTTATTGTTAATTAAATAAAAATGACACAATTTAATTTTTTTTTCTTATTAAAAAGTTTTGA
1644508 AATTATAAATAGAGGTAAGTATTAAATTTTTTTGTCTATTTTATTTACTTTTATTTTTTTAAAAA
261 AATTATAAATAGAGGTAAGTATTAAATTTTTTTGTCTATTTTATTTACTTTTATTTTTTTAAAAA
1644573 ATTATAAAGATAATTTAGGTGGATGTGATGATTTGAATACTTCAACCACAAACCGTCCATGATGA
326 ATTATAAAGATAATTTAGGTGGATGTGATGATTTGAATACTTCAACCACAAACCGTCCATGATGA
1644638 ATTTGAGGCTTAACTAGTTATTTTTAAGAGGAGATTTAATATCCACTTCATAATCTATACTTTTT
391 ATTTGAGGCTTAACTAGTTATTTTTAAGAGGAGATTTAATATCCACTTCATAATCTATACTTTTT
1644703 TCTTATTCCCTAACTATACTTCATACTTAAAAAACTCCATCCTAATCTTTTGTTTATGAATTTAA
456 TCTTATTCCCTAACTATACTTCATACTTAAAAAACTCCATCCTAATCTTTTGTTTATGAATTTAA
1644768 GTAAAAAAAAACCCATTTCTTATAATAATATATTTATATAAAAATTTTATATTAATTAAGTTAAA
521 GTAAAAAAAAACCCATTTCTTATAATAATATATTTATATAAAAATTTTATATTAATTAAGTTAAA
1644833 TGGTT
586 TGGTT
1644838 AAAATAAAATAAATGTTTATAGTAAATAGTTTATGAAAGTAAGTGATCACCTCTGTCTTTCAATT
1 AAAATAAAATAAATGTTTATAGTAAATAGTTTATGAAAGTAAGTGATCACCTCTGTCTTTCAATT
1644903 TGAGAAGAAAGAACAAAATTATTTTCTCACTACAAAACTAACATTTTATTCACCTTTATGTGCAC
66 TGAGAAGAAAGAACAAAATTATTTTCTCACTACAAAACTAACATTTTATTCACCTTTATGTGCAC
1644968 AAATTTGGACCCATTTCTTGTTTTAACTATATATATTTCTGATTAAATATTTTTAATTTCAGAAA
131 AAATTTGGACCCATTTCTTGTTTTAACTATATATATTTCTGATTAAATATTTTTAATTTCAGAAA
1645033 TAATTTATTGTTAATTAAATAAAAATGACACAATTTAATTTTTTTTTCTTATTAAAAAGTTTTGA
196 TAATTTATTGTTAATTAAATAAAAATGACACAATTTAATTTTTTTTTCTTATTAAAAAGTTTTGA
1645098 AATTATAAATAGAGGTAAGTATTAAATTTTTTTGTCTATTTTATTTACTTTTATTTTTTTAAAAA
261 AATTATAAATAGAGGTAAGTATTAAATTTTTTTGTCTATTTTATTTACTTTTATTTTTTTAAAAA
1645163 ATTATAAAGATAATTTAGGTGGATGTGATGATTTGAATACTTCAACCACAAACCGTCCATGATGA
326 ATTATAAAGATAATTTAGGTGGATGTGATGATTTGAATACTTCAACCACAAACCGTCCATGATGA
1645228 ATTTGAGGCTTAACTAGTTATTTTTAAGAGGAGATTTAATATCCACTTCATAATCTATACTTTTT
391 ATTTGAGGCTTAACTAGTTATTTTTAAGAGGAGATTTAATATCCACTTCATAATCTATACTTTTT
1645293 TCTTATTCCCTAACTATACTTCATACTTAAAAAACTCCATCCTAATCTTTTGTTTATGAATTTAA
456 TCTTATTCCCTAACTATACTTCATACTTAAAAAACTCCATCCTAATCTTTTGTTTATGAATTTAA
1645358 GTAAAAAAAAACCCATTTCTTATAATAATATATTTATATAAAAATTTTATATTAATTAAGTTAAA
521 GTAAAAAAAAACCCATTTCTTATAATAATATATTTATATAAAAATTTTATATTAATTAAGTTAAA
*
1645423 TGTTT
586 TGGTT
1645428 AAAA
1 AAAA
1645432 CTTAGGTATC
Statistics
Matches: 593, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
590 593 1.00
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (590 bp):
AAAATAAAATAAATGTTTATAGTAAATAGTTTATGAAAGTAAGTGATCACCTCTGTCTTTCAATT
TGAGAAGAAAGAACAAAATTATTTTCTCACTACAAAACTAACATTTTATTCACCTTTATGTGCAC
AAATTTGGACCCATTTCTTGTTTTAACTATATATATTTCTGATTAAATATTTTTAATTTCAGAAA
TAATTTATTGTTAATTAAATAAAAATGACACAATTTAATTTTTTTTTCTTATTAAAAAGTTTTGA
AATTATAAATAGAGGTAAGTATTAAATTTTTTTGTCTATTTTATTTACTTTTATTTTTTTAAAAA
ATTATAAAGATAATTTAGGTGGATGTGATGATTTGAATACTTCAACCACAAACCGTCCATGATGA
ATTTGAGGCTTAACTAGTTATTTTTAAGAGGAGATTTAATATCCACTTCATAATCTATACTTTTT
TCTTATTCCCTAACTATACTTCATACTTAAAAAACTCCATCCTAATCTTTTGTTTATGAATTTAA
GTAAAAAAAAACCCATTTCTTATAATAATATATTTATATAAAAATTTTATATTAATTAAGTTAAA
TGGTT
Found at i:1649561 original size:19 final size:18
Alignment explanation
Indices: 1649525--1649573 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
1649515 TCAGAAATAA
1649525 AAAAATATAAAATTTATT
1 AAAAATATAAAATTTATT
1649543 AAAAAT-TACAAATTCTATT
1 AAAAATATA-AAATT-TATT
* *
1649562 TAAAATGTAAAA
1 AAAAATATAAAA
1649574 AAATAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 2 0.07
18 11 0.41
19 12 0.44
20 2 0.07
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (18 bp):
AAAAATATAAAATTTATT
Found at i:1655491 original size:19 final size:18
Alignment explanation
Indices: 1655455--1655503 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
1655445 TCAGAAATAA
1655455 AAAAATATAAAATTTATT
1 AAAAATATAAAATTTATT
1655473 AAAAAT-TACAAATTCTATT
1 AAAAATATA-AAATT-TATT
* *
1655492 TAAAATGTAAAA
1 AAAAATATAAAA
1655504 AAATAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 2 0.07
18 11 0.41
19 12 0.44
20 2 0.07
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (18 bp):
AAAAATATAAAATTTATT
Found at i:1657134 original size:23 final size:22
Alignment explanation
Indices: 1657094--1657136 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
1657084 TTTATATTTA
1657094 TTTATATAAAAAAAAATATATT
1 TTTATATAAAAAAAAATATATT
* *
1657116 TTTATTATAAAGAATAATATA
1 TTTA-TATAAAAAAAAATATA
1657137 AATAACACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
TTTATATAAAAAAAAATATATT
Found at i:1658149 original size:3 final size:3
Alignment explanation
Indices: 1658131--1658176 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
1658121 ATAACATGTT
*
1658131 ATA A-A ATA AAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1658177 GCAAAGAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:1658832 original size:17 final size:17
Alignment explanation
Indices: 1658809--1658843 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1658799 ATTCAATTCG
*
1658809 AAAAAAAATAATTCTAAT
1 AAAAAAAGTAATT-TAAT
1658827 AAAAAAAGTAATTTAAT
1 AAAAAAAGTAATTTAAT
1658844 TTTTTTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (17 bp):
AAAAAAAGTAATTTAAT
Found at i:1659131 original size:28 final size:28
Alignment explanation
Indices: 1659079--1659133 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
1659069 AAATTTTCAA
*
1659079 AAAAAATTATAATATTATTTTAAAATTT
1 AAAAAATTATAATATTATTTAAAAATTT
1659107 AAAAAATATATAA-ATT-TCTTAAAAATT
1 AAAAAAT-TATAATATTAT-TTAAAAATT
1659134 ATATTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 1 0.04
28 18 0.75
29 5 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (28 bp):
AAAAAATTATAATATTATTTAAAAATTT
Found at i:1659148 original size:20 final size:19
Alignment explanation
Indices: 1659092--1659149 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
1659082 AAATTATAAT
*
1659092 ATTATTTTAAAATTTAAAA
1 ATTATATTAAAATTTAAAA
* *
1659111 AATATA-TAAATTTCTTAAAA
1 ATTATATTAAA-AT-TTAAAA
1659131 ATTATATTAAAATGTTAAA
1 ATTATATTAAAAT-TTAAA
1659150 TTATATATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
18 4 0.13
19 5 0.17
20 17 0.57
21 4 0.13
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
ATTATATTAAAATTTAAAA
Found at i:1660485 original size:7 final size:7
Alignment explanation
Indices: 1660471--1660505 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
1660461 GTTACATTTG
1660471 AAATATA
1 AAATATA
*
1660478 ATATATA
1 AAATATA
1660485 AAA-ATA
1 AAATATA
1660491 AAATATA
1 AAATATA
1660498 AAATATA
1 AAATATA
1660505 A
1 A
1660506 GTGTTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAATATA
Found at i:1660496 original size:13 final size:14
Alignment explanation
Indices: 1660471--1660505 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
1660461 GTTACATTTG
*
1660471 AAATATAATATATA
1 AAATATAAAATATA
1660485 AAA-ATAAAATATA
1 AAATATAAAATATA
1660498 AAATATAA
1 AAATATAA
1660506 GTGTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAATATAAAATATA
Found at i:1664577 original size:19 final size:19
Alignment explanation
Indices: 1664546--1664605 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
1664536 TTAAAAATAA
*
1664546 TTTTT-ATACTTTTTAATT
1 TTTTTAATAATTTTTAATT
*
1664564 TTTTTAATAATTTTTATAAT
1 TTTTTAATAATTTTTA-ATT
*
1664584 TTTTGAA-AA-TTTTAATT
1 TTTTTAATAATTTTTAATT
1664601 TTTTT
1 TTTTT
1664606 TACATTTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 6 0.17
18 10 0.29
19 11 0.31
20 8 0.23
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTTAATAATTTTTAATT
Found at i:1664596 original size:28 final size:28
Alignment explanation
Indices: 1664541--1664599 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
1664531 AAAAATTAAA
* **
1664541 AATAATTTTTATACTTTTTAATTTTTTT
1 AATAATTTTTATAATTTTTAATAATTTT
1664569 AATAATTTTTATAATTTTTGAA-AATTTT
1 AATAATTTTTATAATTTTT-AATAATTTT
1664597 AAT
1 AAT
1664600 TTTTTTTACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 25 0.93
29 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (28 bp):
AATAATTTTTATAATTTTTAATAATTTT
Found at i:1664606 original size:19 final size:19
Alignment explanation
Indices: 1664556--1664607 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
1664546 TTTTTATACT
1664556 TTTTAA-TTTTTTTAATAA
1 TTTTAATTTTTTTTAATAA
* * *
1664574 TTTTTATAATTTTTGAA-AA
1 TTTTAAT-TTTTTTTAATAA
1664593 TTTTAATTTTTTTTA
1 TTTTAATTTTTTTTA
1664608 CATTTAAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
18 11 0.42
19 8 0.31
20 7 0.27
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTAATTTTTTTTAATAA
Found at i:1672249 original size:27 final size:27
Alignment explanation
Indices: 1672211--1672290 Score: 133
Period size: 27 Copynumber: 3.0 Consensus size: 27
1672201 ACATGCCATA
1672211 AAAGAAAAGCCTTTGCGGTGAATTATG
1 AAAGAAAAGCCTTTGCGGTGAATTATG
*
1672238 AAAGAAAAGCCTTTGCCGTGAATTATG
1 AAAGAAAAGCCTTTGCGGTGAATTATG
* *
1672265 AAAGAAAAGCCTTTGTGGCGAATTAT
1 AAAGAAAAGCCTTTGCGGTGAATTAT
1672291 TGAAGGATCT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (27 bp):
AAAGAAAAGCCTTTGCGGTGAATTATG
Found at i:1674894 original size:45 final size:45
Alignment explanation
Indices: 1674830--1674965 Score: 272
Period size: 45 Copynumber: 3.0 Consensus size: 45
1674820 TATTTGTATT
1674830 CTGCTTAAGATCTCTAAGGAACTCACTAAGTTCTTTTGAACTTAC
1 CTGCTTAAGATCTCTAAGGAACTCACTAAGTTCTTTTGAACTTAC
1674875 CTGCTTAAGATCTCTAAGGAACTCACTAAGTTCTTTTGAACTTAC
1 CTGCTTAAGATCTCTAAGGAACTCACTAAGTTCTTTTGAACTTAC
1674920 CTGCTTAAGATCTCTAAGGAACTCACTAAGTTCTTTTGAACTTAC
1 CTGCTTAAGATCTCTAAGGAACTCACTAAGTTCTTTTGAACTTAC
1674965 C
1 C
1674966 CTATTACTTT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 91 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (45 bp):
CTGCTTAAGATCTCTAAGGAACTCACTAAGTTCTTTTGAACTTAC
Found at i:1674896 original size:26 final size:26
Alignment explanation
Indices: 1674867--1674942 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 26
1674857 AAGTTCTTTT
1674867 GAACTTACCTGCTTAAGATCTCTAAG
1 GAACTTACCTGCTTAAGATCTCTAAG
* ***
1674893 GAAC-T--C-AC-TAAG-T-TCTTTT
1 GAACTTACCTGCTTAAGATCTCTAAG
1674912 GAACTTACCTGCTTAAGATCTCTAAG
1 GAACTTACCTGCTTAAGATCTCTAAG
1674938 GAACT
1 GAACT
1674943 CACTAAGTTC
Statistics
Matches: 35, Mismatches: 8, Indels: 14
0.61 0.14 0.25
Matches are distributed among these distances:
19 7 0.20
20 2 0.06
21 4 0.11
22 2 0.06
23 2 0.06
24 4 0.11
25 2 0.06
26 12 0.34
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.33
Consensus pattern (26 bp):
GAACTTACCTGCTTAAGATCTCTAAG
Found at i:1676008 original size:25 final size:26
Alignment explanation
Indices: 1675967--1676017 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
1675957 ATAATTTAAC
* *
1675967 TTTTAATATAAATATAGTATTAATAT
1 TTTTAATATAAATATAGCATAAATAT
1675993 TTTTAAT-TATAA-ATAGCATAAATAT
1 TTTTAATATA-AATATAGCATAAATAT
1676018 AAATATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (26 bp):
TTTTAATATAAATATAGCATAAATAT
Found at i:1685644 original size:5 final size:5
Alignment explanation
Indices: 1685629--1685663 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
1685619 CATAAGCTCG
*
1685629 GGCCC GACCC GGCCC GGCCC GGCCC GGCCC GGCCC
1 GGCCC GGCCC GGCCC GGCCC GGCCC GGCCC GGCCC
1685664 TTTTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.03, C:0.60, G:0.37, T:0.00
Consensus pattern (5 bp):
GGCCC
Found at i:1685743 original size:10 final size:11
Alignment explanation
Indices: 1685717--1685742 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1685707 AAAAATTAAA
1685717 AAAAATATTTT
1 AAAAATATTTT
1685728 AAAAATATTTT
1 AAAAATATTTT
1685739 AAAA
1 AAAA
1685743 TTAAAAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:1685796 original size:40 final size:40
Alignment explanation
Indices: 1685709--1685853 Score: 125
Period size: 40 Copynumber: 3.6 Consensus size: 40
1685699 ATTAAAACAA
* * **
1685709 AAATTAAAAAAAATATTTTAAAAATATTTTAAAATTA--AA
1 AAATTTAAAAAAATATTTTAAAAA-AATTTAAAATTATTTT
* * *
1685748 AAACTTTAAAAAAGTATTTTAAAAAAATTTAAATTTTTTTT
1 AAA-TTTAAAAAAATATTTTAAAAAAATTTAAAATTATTTT
* * * * *
1685789 AATTTTAAAATACTATTTTAAAAGTATTTTAAAATTATTTT
1 AAATTTAAAAAAATATTTTAAAA-AAATTTAAAATTATTTT
*
1685830 AAAATTAAAAAAAT-TTTTAAAAAA
1 AAATTTAAAAAAATATTTTAAAAAA
1685854 TAAAAATATT
Statistics
Matches: 83, Mismatches: 19, Indels: 8
0.75 0.17 0.07
Matches are distributed among these distances:
39 13 0.16
40 45 0.54
41 25 0.30
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (40 bp):
AAATTTAAAAAAATATTTTAAAAAAATTTAAAATTATTTT
Found at i:1685834 original size:11 final size:11
Alignment explanation
Indices: 1685790--1685836 Score: 67
Period size: 11 Copynumber: 4.1 Consensus size: 11
1685780 ATTTTTTTTA
1685790 ATTTTAAAATACT
1 ATTTTAAAAT--T
*
1685803 ATTTTAAAAGT
1 ATTTTAAAATT
1685814 ATTTTAAAATT
1 ATTTTAAAATT
1685825 ATTTTAAAATT
1 ATTTTAAAATT
1685836 A
1 A
1685837 AAAAAATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
11 23 0.72
13 9 0.28
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (11 bp):
ATTTTAAAATT
Found at i:1685852 original size:19 final size:19
Alignment explanation
Indices: 1685819--1685864 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
1685809 AAAGTATTTT
* *
1685819 AAAATTATTTTAAAATTAAA
1 AAAATT-TTTAAAAAATAAA
1685839 AAAATTTTTAAAAAATAAA
1 AAAATTTTTAAAAAATAAA
*
1685858 AATATTT
1 AAAATTT
1685865 ATTATATTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATTTTTAAAAAATAAA
Found at i:1693023 original size:44 final size:44
Alignment explanation
Indices: 1692900--1693025 Score: 146
Period size: 44 Copynumber: 2.9 Consensus size: 44
1692890 TTTGATCTGC
* * *
1692900 TCCACTATTGCTTAGGGAGA-CAGATTCTACAATCTTCAACCTAT
1 TCCACTGTTGCCTAGGGAGATAAGATT-TACAATCTTCAACCTAT
** * * *
1692944 TCCACTGCAGTCTAGGGAGATAGGACTTACAATCTTCAACCTAT
1 TCCACTGTTGCCTAGGGAGATAAGATTTACAATCTTCAACCTAT
* *
1692988 TCCACTGTTGCCTAGGGAGATAAGATTTGCTATCTTCA
1 TCCACTGTTGCCTAGGGAGATAAGATTTACAATCTTCA
1693026 CCGATCTCTA
Statistics
Matches: 66, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
44 63 0.95
45 3 0.05
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (44 bp):
TCCACTGTTGCCTAGGGAGATAAGATTTACAATCTTCAACCTAT
Found at i:1694303 original size:43 final size:44
Alignment explanation
Indices: 1694264--1694349 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 44
1694254 TTTTTTCATT
* *
1694264 TTCATCATTTTTTTGACTCAAAGC-GCCTTTGCGGGTTTTCACA
1 TTCATCATTTTTTTGACTCAAAGCACCCTTTGCGAGTTTTCACA
* * * *
1694307 TTGATCTTTTTTTTTACTCAAGGCACCCTTTGCGAGTTTTCAC
1 TTCATCATTTTTTTGACTCAAAGCACCCTTTGCGAGTTTTCAC
1694350 CTTGGTCTCT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 20 0.56
44 16 0.44
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.44
Consensus pattern (44 bp):
TTCATCATTTTTTTGACTCAAAGCACCCTTTGCGAGTTTTCACA
Found at i:1708529 original size:17 final size:17
Alignment explanation
Indices: 1708507--1708551 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
1708497 AAGAAAACGA
1708507 TTTACGAAAACAACA-GT
1 TTTACGAAAACAA-ATGT
*
1708524 TTTACGCAAACAAATGT
1 TTTACGAAAACAAATGT
1708541 TTT-CGAAAACA
1 TTTACGAAAACA
1708552 CAAGTTCGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.32
17 17 0.68
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (17 bp):
TTTACGAAAACAAATGT
Found at i:1722364 original size:24 final size:24
Alignment explanation
Indices: 1722329--1722380 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
1722319 ATAAAAAAAT
*
1722329 AAAAAGTAGTCCAAAATCAACAGA
1 AAAAAGTAGTCCAAAAGCAACAGA
* *
1722353 AAAAAGTTGTCCAAAAGCAATAGA
1 AAAAAGTAGTCCAAAAGCAACAGA
1722377 AAAA
1 AAAA
1722381 TATGAAATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (24 bp):
AAAAAGTAGTCCAAAAGCAACAGA
Found at i:1722863 original size:7 final size:7
Alignment explanation
Indices: 1722853--1722904 Score: 97
Period size: 7 Copynumber: 7.6 Consensus size: 7
1722843 GGATTTTGTT
1722853 TTTTTTA
1 TTTTTTA
1722860 -TTTTTA
1 TTTTTTA
1722866 TTTTTTA
1 TTTTTTA
1722873 TTTTTTA
1 TTTTTTA
1722880 TTTTTTA
1 TTTTTTA
1722887 TTTTTTA
1 TTTTTTA
1722894 TTTTTTA
1 TTTTTTA
1722901 TTTT
1 TTTT
1722905 ACCTTACAGC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.14
7 38 0.86
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTTA
Found at i:1726207 original size:34 final size:35
Alignment explanation
Indices: 1726152--1726218 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
1726142 CAAACACTAG
* *
1726152 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTGTACAGAAAAGT
* *
1726187 AAAACATTTTCCCG-AAATCATTGTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTGTACAGAAAA
1726219 TATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTGTACAGAAAAGT
Found at i:1729057 original size:25 final size:25
Alignment explanation
Indices: 1728961--1729082 Score: 111
Period size: 25 Copynumber: 4.8 Consensus size: 25
1728951 ACAGCTTTTA
* * *
1728961 TGAGCATCCAGATATATGGCTCTTCG
1 TGAGCTTCCCGATATATGGCTCTT-T
* * *
1728987 TGAGTTTCCCGATAAAAGGCTCTTT
1 TGAGCTTCCCGATATATGGCTCTTT
** *
1729012 GTGAGCTTCCTAAT-TAAGGCTCTTT
1 -TGAGCTTCCCGATATATGGCTCTTT
**
1729037 TGAGCTTCCCGATATATGGCTCGCT
1 TGAGCTTCCCGATATATGGCTCTTT
*
1729062 TGAACTTCCCGATATATGGCT
1 TGAGCTTCCCGATATATGGCT
1729083 ATCCGGAGTT
Statistics
Matches: 78, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
24 11 0.14
25 38 0.49
26 29 0.37
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.34
Consensus pattern (25 bp):
TGAGCTTCCCGATATATGGCTCTTT
Found at i:1731477 original size:19 final size:17
Alignment explanation
Indices: 1731455--1731503 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 17
1731445 TTTTATTTTT
1731455 ATTTTATTTTTATTATTAC
1 ATTTTATTTTTATTA--AC
1731474 ATTTTTAGTTTTTATTAAC
1 A-TTTTA-TTTTTATTAAC
1731493 ATTATTATTTT
1 ATT-TTATTTT
1731504 GTAATTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 6 0.22
19 7 0.26
20 5 0.19
21 9 0.33
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
ATTTTATTTTTATTAAC
Found at i:1733167 original size:23 final size:24
Alignment explanation
Indices: 1733138--1733211 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
1733128 AACGTAATCG
*
1733138 AACATGTTCACAAACAT-TAAATG
1 AACATGTTCACAAACATGTAAATA
* * *
1733161 AATATGTTCATAAACATGTAATTA
1 AACATGTTCACAAACATGTAAATA
* *
1733185 AACATGCTCACAAACAATGTTAATA
1 AACATGTTCACAAAC-ATGTAAATA
1733210 AA
1 AA
1733212 TAATAAACAA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
23 15 0.38
24 16 0.40
25 9 0.22
ACGTcount: A:0.49, C:0.15, G:0.08, T:0.28
Consensus pattern (24 bp):
AACATGTTCACAAACATGTAAATA
Found at i:1736191 original size:2 final size:2
Alignment explanation
Indices: 1736184--1736209 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1736174 AATATTTAAA
1736184 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1736210 TTGGTGCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1740265 original size:23 final size:21
Alignment explanation
Indices: 1740237--1740289 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 21
1740227 TATTATATAT
1740237 TATAAAAATTTAAAAATTGAATA
1 TATAAAAATTTAAAAA-TGAA-A
**
1740260 TATAAAAAAATAAAAATGAAA
1 TATAAAAATTTAAAAATGAAA
1740281 TA-AAAAATT
1 TATAAAAATT
1740290 AAGTTAAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 5 0.19
21 3 0.12
22 4 0.15
23 14 0.54
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (21 bp):
TATAAAAATTTAAAAATGAAA
Found at i:1740343 original size:15 final size:14
Alignment explanation
Indices: 1740295--1740342 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
1740285 AAATTAAGTT
1740295 AAAAGTTAACATTT-
1 AAAAGTTAAC-TTTA
*
1740309 AAAAGCTTACTCTTTA
1 AAAAG-TTA-ACTTTA
1740325 AAAAGTTAACTTTA
1 AAAAGTTAACTTTA
1740339 AAAA
1 AAAA
1740343 ATATTTTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 14 0.48
15 9 0.31
16 6 0.21
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.33
Consensus pattern (14 bp):
AAAAGTTAACTTTA
Found at i:1740385 original size:23 final size:24
Alignment explanation
Indices: 1740354--1740403 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
1740344 TATTTTTTGT
*
1740354 AAATCT-AAAAGTACACAACAAATA
1 AAATCTAAAAAATACACAA-AAATA
*
1740378 AAAT-TAAAAAATATACAAAAATA
1 AAATCTAAAAAATACACAAAAATA
1740401 AAA
1 AAA
1740404 AAAGTCAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.70, C:0.10, G:0.02, T:0.18
Consensus pattern (24 bp):
AAATCTAAAAAATACACAAAAATA
Found at i:1747933 original size:11 final size:11
Alignment explanation
Indices: 1747917--1747955 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
1747907 GTAGGAAACT
1747917 TTTTTTTGCGG
1 TTTTTTTGCGG
1747928 TTTTTTTGCGG
1 TTTTTTTGCGG
*
1747939 TTTTTTTTGCAG
1 -TTTTTTTGCGG
1747951 TTTTT
1 TTTTT
1747956 GCTTTTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.03, C:0.08, G:0.21, T:0.69
Consensus pattern (11 bp):
TTTTTTTGCGG
Found at i:1747933 original size:12 final size:12
Alignment explanation
Indices: 1747916--1747955 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
1747906 GGTAGGAAAC
1747916 TTTTTTTTGCGG
1 TTTTTTTTGCGG
1747928 -TTTTTTTGCGG
1 TTTTTTTTGCGG
*
1747939 TTTTTTTTGCAG
1 TTTTTTTTGCGG
1747951 TTTTT
1 TTTTT
1747956 GCTTTTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 11 0.42
12 15 0.58
ACGTcount: A:0.03, C:0.07, G:0.20, T:0.70
Consensus pattern (12 bp):
TTTTTTTTGCGG
Found at i:1748608 original size:21 final size:22
Alignment explanation
Indices: 1748560--1748608 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
1748550 TTGGCTCGTA
*
1748560 TCAATTTATTTATTTTATATTT
1 TCAATTAATTTATTTTATATTT
*
1748582 TTAATTAATTT-TTTTAGT-TTT
1 TCAATTAATTTATTTTA-TATTT
1748603 TCAATT
1 TCAATT
1748609 TCTTGTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
TCAATTAATTTATTTTATATTT
Found at i:1754357 original size:15 final size:13
Alignment explanation
Indices: 1754331--1754367 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
1754321 ATTTAAATAC
1754331 TTATA-TTTTAT-
1 TTATATTTTTATA
1754342 TTAATATTTTTATA
1 TT-ATATTTTTATA
1754356 TTATATTTTTAT
1 TTATATTTTTAT
1754368 TGTATTCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 2 0.09
12 3 0.13
13 16 0.70
14 2 0.09
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTATATTTTTATA
Found at i:1754411 original size:15 final size:17
Alignment explanation
Indices: 1754391--1754422 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
1754381 TTTTTAGAAA
1754391 GATCTC-TTAT-TCATT
1 GATCTCATTATGTCATT
1754406 GATCTCATTATGTCATT
1 GATCTCATTATGTCATT
1754423 TTAGAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.22, C:0.19, G:0.09, T:0.50
Consensus pattern (17 bp):
GATCTCATTATGTCATT
Found at i:1767839 original size:17 final size:18
Alignment explanation
Indices: 1767804--1767839 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
1767794 TAAAAATCAC
1767804 TTAACAACACAAATTTAA
1 TTAACAACACAAATTTAA
*
1767822 TTAACAAC-CAAGTTTAA
1 TTAACAACACAAATTTAA
1767839 T
1 T
1767840 AATCTATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.50, C:0.17, G:0.03, T:0.31
Consensus pattern (18 bp):
TTAACAACACAAATTTAA
Found at i:1769100 original size:50 final size:50
Alignment explanation
Indices: 1768943--1769101 Score: 139
Period size: 50 Copynumber: 3.1 Consensus size: 50
1768933 TTTTGTGCCT
1768943 TTATTTGAAAGATAATGACTAATTAATTTAATTCTATTTTAGAACTTCAA
1 TTATTTGAAAGATAATGACTAATTAATTTAATTCTATTTTAGAACTTCAA
** * * * * **
1768993 TTATTT-AATTATAATTAATTAAATAATAATTTGAATAT-TAGTATTTTG---TGCCT
1 TTATTTGAAAGATAA-TGACT-AAT--TAATTT-AAT-TCTA-T-TTTAGAACTTCAA
1769046 TTATTTGAAAGATAATGACTAATTAATTTAATTCTATTTTAGAACTTCAA
1 TTATTTGAAAGATAATGACTAATTAATTTAATTCTATTTTAGAACTTCAA
1769096 TTATTT
1 TTATTT
1769102 AATTATAATT
Statistics
Matches: 80, Mismatches: 16, Indels: 26
0.66 0.13 0.21
Matches are distributed among these distances:
47 4 0.05
48 2 0.03
49 11 0.14
50 23 0.29
51 3 0.04
52 3 0.04
53 17 0.21
54 11 0.14
55 2 0.03
56 4 0.05
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (50 bp):
TTATTTGAAAGATAATGACTAATTAATTTAATTCTATTTTAGAACTTCAA
Found at i:1769111 original size:103 final size:104
Alignment explanation
Indices: 1768922--1769130 Score: 395
Period size: 103 Copynumber: 2.0 Consensus size: 104
1768912 TTATTCAACA
1768922 AATATTAGTAATTTTGTGCCTTTATTTGAAAGATAATGACTAATTAATTTAATTCTATTTTAGAA
1 AATATTAGTAATTTTGTGCCTTTATTTGAAAGATAATGACTAATTAATTTAATTCTATTTTAGAA
1768987 CTTCAATTATTTAATTATAATTAA-TTAAATAATAATTTG
66 CTTCAATTATTTAATTATAATTAATTTAAA-AATAATTTG
1769026 AATATTAGT-ATTTTGTGCCTTTATTTGAAAGATAATGACTAATTAATTTAATTCTATTTTAGAA
1 AATATTAGTAATTTTGTGCCTTTATTTGAAAGATAATGACTAATTAATTTAATTCTATTTTAGAA
1769090 CTTCAATTATTTAATTATAATTAATTTAAAAATAATTTG
66 CTTCAATTATTTAATTATAATTAATTTAAAAATAATTTG
1769129 AA
1 AA
1769131 AATATTAAAT
Statistics
Matches: 104, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
103 90 0.87
104 14 0.13
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.47
Consensus pattern (104 bp):
AATATTAGTAATTTTGTGCCTTTATTTGAAAGATAATGACTAATTAATTTAATTCTATTTTAGAA
CTTCAATTATTTAATTATAATTAATTTAAAAATAATTTG
Found at i:1771975 original size:157 final size:156
Alignment explanation
Indices: 1771687--1772018 Score: 630
Period size: 157 Copynumber: 2.1 Consensus size: 156
1771677 TAATTTGAAA
1771687 ATATTAAATTAATTCTCAAGTCATTTCTATACTTGGTGAAAAAAAGCATTCATTTGTGAATGCGA
1 ATATTAAATTAATTCTCAAGTCATTTCTATACTTGGTGAAAAAAAGCATTCATTTGTGAATGCGA
1771752 CCCATTTCTCTAACTTCATCATTTGCATTCATTTGATTCTACATGCAATTTATTTCTAGTTTCAA
66 CCCATTTCTCTAACTTCATCATTTGCATTCATTTGATTCTACATGCAATTTATTTCTAGTTTCAA
1771817 TAGGCTAGCAAAGGGGTCGGTTGGAC
131 TAGGCTAGCAAAGGGGTCGGTTGGAC
1771843 ATAATTAAATTAATTCTCAAGTCATTTCTATACTTGGTGAAAAAAAGCATTCATTTGTGAATGCG
1 AT-ATTAAATTAATTCTCAAGTCATTTCTATACTTGGTGAAAAAAAGCATTCATTTGTGAATGCG
1771908 ACCCATTTCTCTAACTTCATCATTTGCATTCATTTGATTCTACATGCAATTTATTTCTAGTTTCA
65 ACCCATTTCTCTAACTTCATCATTTGCATTCATTTGATTCTACATGCAATTTATTTCTAGTTTCA
1771973 ATAGGCTAGCAAAGGGGTCGGTTGGAC
130 ATAGGCTAGCAAAGGGGTCGGTTGGAC
*
1772000 ATA-TATAATTAAGTCTCAA
1 ATATTA-AATTAATTCTCAA
1772019 ATAATTTAGA
Statistics
Matches: 173, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
155 2 0.01
156 15 0.09
157 156 0.90
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (156 bp):
ATATTAAATTAATTCTCAAGTCATTTCTATACTTGGTGAAAAAAAGCATTCATTTGTGAATGCGA
CCCATTTCTCTAACTTCATCATTTGCATTCATTTGATTCTACATGCAATTTATTTCTAGTTTCAA
TAGGCTAGCAAAGGGGTCGGTTGGAC
Found at i:1776923 original size:12 final size:12
Alignment explanation
Indices: 1776908--1776941 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1776898 TAATGAGAAT
1776908 ATAAATAAGGAA
1 ATAAATAAGGAA
*
1776920 ATAAATAAAGAA
1 ATAAATAAGGAA
*
1776932 ATGAATAAGG
1 ATAAATAAGG
1776942 CTATAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.18, T:0.18
Consensus pattern (12 bp):
ATAAATAAGGAA
Found at i:1777159 original size:11 final size:11
Alignment explanation
Indices: 1777143--1777180 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
1777133 TTTTAGACAT
*
1777143 AAAAAAAATTA
1 AAAAAAAATGA
1777154 AAAAAAAATGA
1 AAAAAAAATGA
*
1777165 AAAAAGAA-GA
1 AAAAAAAATGA
1777175 AAAAAA
1 AAAAAA
1777181 GTACACAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
10 7 0.29
11 17 0.71
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAAAAATGA
Found at i:1780323 original size:32 final size:31
Alignment explanation
Indices: 1780232--1780325 Score: 111
Period size: 32 Copynumber: 3.1 Consensus size: 31
1780222 ATACATATTA
* *
1780232 CATTTTCATACCCTGT-ATCATTCACATTTG
1 CATTTTCATACCCTGTAATTATTCACATTTT
* **
1780262 C-TTATCATACCCTGTAATTGGTCACATTTT
1 CATTTTCATACCCTGTAATTATTCACATTTT
*
1780292 CATTTTTCATACCCTGTAATTATTCATATTTT
1 CA-TTTTCATACCCTGTAATTATTCACATTTT
1780324 CA
1 CA
1780326 CATTTCATTT
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
29 13 0.25
30 12 0.23
32 27 0.52
ACGTcount: A:0.24, C:0.23, G:0.06, T:0.46
Consensus pattern (31 bp):
CATTTTCATACCCTGTAATTATTCACATTTT
Found at i:1780332 original size:32 final size:32
Alignment explanation
Indices: 1780266--1780333 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
1780256 CATTTGCTTA
* **
1780266 TCATACCCTGTAATTGGTCACATTTTCATTTT
1 TCATACCCTGTAATTAGTCACATTTTCACATT
* *
1780298 TCATACCCTGTAATTATTCATATTTTCACATT
1 TCATACCCTGTAATTAGTCACATTTTCACATT
1780330 TCAT
1 TCAT
1780334 TTATTCAATC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (32 bp):
TCATACCCTGTAATTAGTCACATTTTCACATT
Done.