Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008259.1 Hibiscus syriacus cultivar Beakdansim tig00110912_pilon, whole genome shotgun sequence
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: 2373650
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 11
Found at i:1929088 original size:22 final size:21
Alignment explanation
Indices: 1929045--1929090 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
1929035 TTAAAAATCC
*
1929045 TATTTGTTATATATTAAAAAA
1 TATTTGTTATATATCAAAAAA
* *
1929066 TATTTGTTATAATATCGATAAA
1 TATTTGTTAT-ATATCAAAAAA
1929088 TAT
1 TAT
1929091 GAGTAATTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (21 bp):
TATTTGTTATATATCAAAAAA
Found at i:1946949 original size:19 final size:19
Alignment explanation
Indices: 1946908--1946950 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
1946898 ATTTGAATAA
* * *
1946908 TTAAATCGAATATAATATT
1 TTAAATCAAATATAAAATC
1946927 TTAAATCAAATATAAAATC
1 TTAAATCAAATATAAAATC
1946946 TTAAA
1 TTAAA
1946951 ATTAATTAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.37
Consensus pattern (19 bp):
TTAAATCAAATATAAAATC
Found at i:1947965 original size:2 final size:2
Alignment explanation
Indices: 1947960--1947986 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1947950 AGACATATAT
1947960 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1947987 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1947991 original size:2 final size:2
Alignment explanation
Indices: 1947986--1948030 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1947976 ACACACACAC
1947986 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
1948028 AT A
1 AT A
1948031 AAGTATACAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1949652 original size:42 final size:41
Alignment explanation
Indices: 1949605--1949712 Score: 119
Period size: 42 Copynumber: 2.6 Consensus size: 41
1949595 AATTGGTAAG
* *
1949605 TCCTTCGGGCCAT-TAGTAAGTCTTTCGAGTATGATGATTAAA
1 TCCTTCGGGCCATCT-GTAAGTCTTTCGAGCAAGATGA-TAAA
* * *
1949647 TCCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGATAAG
1 TCCTTCGGGCCATCTGTAAGTCTTTCGAGCAAGATGATAAA
* *
1949688 TCCTTCGGGTCATCTATAAGATCTT
1 TCCTTCGGGCCATCTGTAAG-TCTT
1949713 CGGGCATGAT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 21 0.37
42 35 0.61
43 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.35
Consensus pattern (41 bp):
TCCTTCGGGCCATCTGTAAGTCTTTCGAGCAAGATGATAAA
Found at i:1949967 original size:259 final size:259
Alignment explanation
Indices: 1949434--1950111 Score: 907
Period size: 259 Copynumber: 2.6 Consensus size: 259
1949424 CCTCCGGGCT
* * * *
1949434 ATCTATAAGACATTTGGGCAAGATATTTTCATATGATGTTTATGAAGAATGAGAAAAACGATTTT
1 ATCTATAAGAC-TTTGGGCAAGATGTTTTCATATGATGTTTGTGAAAAATGA-AAAAGCGATTTT
* * * **
1949499 CAAAGTTCCTAATTTAATATTTTCA-AAAAAAAAATTAAGTTTGTGAAAAGTAAGAAAGTGATTT
64 CAAAGTTTCTCATTTAAGATTTTCAGAAAAAGGAA-T---TTT-TGAAAAGTAAGAAAGTGATTT
*
1949563 CCAAAGTTTCTTACCTAGTAGACTATTTCCAAAATTGGTAAGTCCTTCGGGCCATTAGTAAGTCT
124 CCAAAGTTTCTTACCTAGTAGACTATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCT
* * * *
1949628 TTCGAGTATGATGATTAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCCTT
189 TTCGAGCATGATGATTAAATCCTTCGAGTCATCTGTCAATCCTTCGAGCAAGATGATAAGTCCTT
1949693 CGGGTC
254 CGGGTC
* * * *
1949699 ATCTATAAGATCTTCGGGCATGATGCTTTCATATGATGTTTGTGAAAAATGAAAAAGTGATTTTC
1 ATCTATAAGA-CTTTGGGCAAGATGTTTTCATATGATGTTTGTGAAAAATGAAAAAGCGATTTTC
*
1949764 AAAGTTTCTCATTTAAGATTTTCAGAAAAGGGAATTTTTGAAAAGTAAGAAAGTGATTTCCAAAG
65 AAAGTTTCTCATTTAAGATTTTCAGAAAAAGGAATTTTTGAAAAGTAAGAAAGTGATTTCCAAAG
* * *
1949829 TTTCTTACCTAGTAGACTATTTCTAAAATTGGTAAGTCCTTC-GGCTATCAGTAAGTCTTTTGAG
130 TTTCTTACCTAGTAGACTATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAG
* * *
1949893 CATGATGATTAAATCCTTCGAGTCATCTGTTAATCCTTCGAGCAAGATGATATGTCCTTTGGGTC
195 CATGATGATTAAATCCTTCGAGTCATCTGTCAATCCTTCGAGCAAGATGATAAGTCCTTCGGGTC
* * * * *
1949958 ATCTATAAGACCTTTGGGTAGGATGTTTTCATATGA--TTTGTAAAAAATGATAAAGCAATTTTC
1 ATCTATAAGA-CTTTGGGCAAGATGTTTTCATATGATGTTTGTGAAAAATGAAAAAGCGATTTTC
* * *
1950021 AAAGTTTCTCATTTAAGATTTTTAG-AAATGGAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAG
65 AAAGTTTCTCATTTAAGATTTTCAGAAAAAGGAATTTTTGAAAAGTAAGAAAGTGATTTCCAAAG
* * * *
1950085 TTTCTTATCTAGAAAATTATTTCCAAA
130 TTTCTTACCTAGTAGACTATTTCCAAA
1950112 TTTTAAATTC
Statistics
Matches: 369, Mismatches: 42, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
256 59 0.16
257 47 0.13
259 108 0.29
260 68 0.18
261 3 0.01
264 33 0.09
265 50 0.14
266 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (259 bp):
ATCTATAAGACTTTGGGCAAGATGTTTTCATATGATGTTTGTGAAAAATGAAAAAGCGATTTTCA
AAGTTTCTCATTTAAGATTTTCAGAAAAAGGAATTTTTGAAAAGTAAGAAAGTGATTTCCAAAGT
TTCTTACCTAGTAGACTATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
ATGATGATTAAATCCTTCGAGTCATCTGTCAATCCTTCGAGCAAGATGATAAGTCCTTCGGGTC
Found at i:1958376 original size:32 final size:33
Alignment explanation
Indices: 1958340--1958402 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 33
1958330 ATGTGATATG
1958340 TGACA-GAAAAAAAGACATATATG-ATTATAAGA
1 TGACATGAAAAAAAGA-ATATATGAATTATAAGA
* * *
1958372 TGACATGAATATATGAATATATGAATTATAA
1 TGACATGAAAAAAAGAATATATGAATTATAA
1958403 CAATAATGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
32 12 0.46
33 14 0.54
ACGTcount: A:0.52, C:0.05, G:0.14, T:0.29
Consensus pattern (33 bp):
TGACATGAAAAAAAGAATATATGAATTATAAGA
Found at i:1958504 original size:22 final size:22
Alignment explanation
Indices: 1958476--1958534 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
1958466 GTTACAAAGA
*
1958476 TCCTTCAGGATATA-GACACAGG
1 TCCTTCAGGACATATG-CACAGG
*
1958498 TCCTTCAGGACATATGCATAGG
1 TCCTTCAGGACATATGCACAGG
*
1958520 TCCTTCGGGACATAT
1 TCCTTCAGGACATAT
1958535 TTCATATGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 32 0.97
23 1 0.03
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (22 bp):
TCCTTCAGGACATATGCACAGG
Found at i:1964054 original size:44 final size:44
Alignment explanation
Indices: 1963988--1964074 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
1963978 AATCTATCGA
1963988 AAACAGAACTCATTGCAACAAATGTACTAGGCTCCACTGGTTAG
1 AAACAGAACTCATTGCAACAAATGTACTAGGCTCCACTGGTTAG
*
1964032 AAACAGAACTCATTGCAGCAAATGTACTAGGCTCCACTGGTTA
1 AAACAGAACTCATTGCAACAAATGTACTAGGCTCCACTGGTTA
1964075 AAAAACATAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (44 bp):
AAACAGAACTCATTGCAACAAATGTACTAGGCTCCACTGGTTAG
Found at i:1972091 original size:81 final size:84
Alignment explanation
Indices: 1971982--1972180 Score: 228
Period size: 84 Copynumber: 2.4 Consensus size: 84
1971972 GTCGTGATTG
* * *
1971982 AGTATTACTTTAGCAGT-TTTTTATACAAACGTCGT-ATAGGGTTCGGTT-ATAGTGGA-ATTTT
1 AGTAATACTTTAGCAGTATTTTTATACAAACGTCGTAATAGGGTTC-ATTCATAGTGCATATTTT
* * *
1972043 TCCAACAAATGTTGCAATAA
65 TCCAACAAACGTCGCAAAAA
* ** *
1972063 AG-AGTACTTTAGCAGTATTTTTATACAAACACCGTAATAGGGTTCATTCATAGTGCATTTTTTT
1 AGTAATACTTTAGCAGTATTTTTATACAAACGTCGTAATAGGGTTCATTCATAGTGCATATTTTT
*
1972127 CCAACAAACGTCGTAAAAA
66 CCAACAAACGTCGCAAAAA
* * *
1972146 AGTAATACTTTAGCTGTATTTTTATATAAATGTCG
1 AGTAATACTTTAGCAGTATTTTTATACAAACGTCG
1972181 CTACAAACTT
Statistics
Matches: 97, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
80 13 0.13
81 20 0.21
82 16 0.16
83 22 0.23
84 26 0.27
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.38
Consensus pattern (84 bp):
AGTAATACTTTAGCAGTATTTTTATACAAACGTCGTAATAGGGTTCATTCATAGTGCATATTTTT
CCAACAAACGTCGCAAAAA
Found at i:1972171 original size:84 final size:82
Alignment explanation
Indices: 1971982--1972171 Score: 224
Period size: 83 Copynumber: 2.3 Consensus size: 82
1971972 GTCGTGATTG
* ** * *
1971982 AGTATTACTTTAGCAGT-TTTTTATACAAACGTCGTATAGGGTTCGGTTATAGTGGAATTTTTCC
1 AGTAATACTTTAGCAGTATTTTTATACAAACACCGTATAGGGTTCGATTATAGTGCAATTTTTCC
* * *
1972046 AACAAATGTTGCAATAA
66 AACAAACGTCGCAAAAA
* *
1972063 AG-AGTACTTTAGCAGTATTTTTATACAAACACCGTAATAGGGTTC-ATTCATAGTGCATTTTTT
1 AGTAATACTTTAGCAGTATTTTTATACAAACACCGT-ATAGGGTTCGATT-ATAGTGCA-ATTTT
*
1972126 TCCAACAAACGTCGTAAAAA
63 TCCAACAAACGTCGCAAAAA
*
1972146 AGTAATACTTTAGCTGTATTTTTATA
1 AGTAATACTTTAGCAGTATTTTTATA
1972172 TAAATGTCGC
Statistics
Matches: 92, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
80 13 0.14
81 20 0.22
82 16 0.17
83 22 0.24
84 21 0.23
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.38
Consensus pattern (82 bp):
AGTAATACTTTAGCAGTATTTTTATACAAACACCGTATAGGGTTCGATTATAGTGCAATTTTTCC
AACAAACGTCGCAAAAA
Found at i:1972347 original size:74 final size:73
Alignment explanation
Indices: 1972211--1972352 Score: 203
Period size: 74 Copynumber: 1.9 Consensus size: 73
1972201 GTCGCTATAG
* * * *
1972211 AGTAGCACTTTAGCGGCTTTTTATACAAATGTCGTAATAGGGTTCATTTATAGTGGCGTTTTTCC
1 AGTAGCACTTTAGCGGCTTTTTATACAAATATCGTAATAAGGTTCATTCATAGTGGCATTTTTCC
1972276 AACGATAA
66 AACGATAA
* * * *
1972284 AGTAGTACTTTAGCGGCGTTTTTATACAAATATTGTAATAAGGTTCGTTCATATTGGCATTTTTC
1 AGTAGCACTTTAGCGGC-TTTTTATACAAATATCGTAATAAGGTTCATTCATAGTGGCATTTTTC
1972349 CAAC
65 CAAC
1972353 AAACACCACA
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
73 16 0.27
74 44 0.73
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (73 bp):
AGTAGCACTTTAGCGGCTTTTTATACAAATATCGTAATAAGGTTCATTCATAGTGGCATTTTTCC
AACGATAA
Found at i:1985664 original size:23 final size:23
Alignment explanation
Indices: 1985638--1985682 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1985628 CACCACAGCT
*
1985638 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
1985661 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
1985683 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:1987999 original size:21 final size:21
Alignment explanation
Indices: 1987973--1988051 Score: 115
Period size: 21 Copynumber: 3.8 Consensus size: 21
1987963 TGATTTATTA
1987973 TTATGGATTTCAAGTTGGTTG
1 TTATGGATTTCAAGTTGGTTG
1987994 TTATGGATTTCAAGTTGGTTG
1 TTATGGATTTCAAGTTGGTTG
* **
1988015 TTATGAATTTCAAGTTTATTG
1 TTATGGATTTCAAGTTGGTTG
1988036 TTATGGATGTT-AAGTT
1 TTATGGAT-TTCAAGTT
1988052 TATTGGATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
21 51 0.96
22 2 0.04
ACGTcount: A:0.23, C:0.04, G:0.24, T:0.49
Consensus pattern (21 bp):
TTATGGATTTCAAGTTGGTTG
Found at i:1988052 original size:21 final size:21
Alignment explanation
Indices: 1987966--1988056 Score: 112
Period size: 21 Copynumber: 4.3 Consensus size: 21
1987956 TAAACGTTGA
*
1987966 TTTATTATTATGGATTTCAAG
1 TTTATTGTTATGGATTTCAAG
**
1987987 TTGGTTGTTATGGATTTCAAG
1 TTTATTGTTATGGATTTCAAG
** *
1988008 TTGGTTGTTATGAATTTCAAG
1 TTTATTGTTATGGATTTCAAG
1988029 TTTATTGTTATGGATGTT-AAG
1 TTTATTGTTATGGAT-TTCAAG
1988050 TTTATTG
1 TTTATTG
1988057 GATAATGCTA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
21 60 0.97
22 2 0.03
ACGTcount: A:0.23, C:0.03, G:0.22, T:0.52
Consensus pattern (21 bp):
TTTATTGTTATGGATTTCAAG
Found at i:1988310 original size:44 final size:44
Alignment explanation
Indices: 1988228--1988311 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 44
1988218 TTTTATATTC
* * ** * *
1988228 ACAAACGCCGCTATATGTCATTACCTTTACCGGTGTTTTTGGGA
1 ACAAACGCCACAATATGTCAGAACATTTACCGGCGTTTTTGGGA
*
1988272 ACAAACGCCACAATATGTCAGAACATTTAGCGGCGTTTTT
1 ACAAACGCCACAATATGTCAGAACATTTACCGGCGTTTTT
1988312 ACAAACGCCA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
44 33 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
ACAAACGCCACAATATGTCAGAACATTTACCGGCGTTTTTGGGA
Found at i:1990787 original size:2 final size:2
Alignment explanation
Indices: 1990780--1990818 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1990770 TGGGAATTTC
1990780 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1990819 GTTTGTGGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1993580 original size:12 final size:13
Alignment explanation
Indices: 1993557--1993589 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
1993547 CAAAATTATT
1993557 AAGAATAAAAAAC
1 AAGAATAAAAAAC
1993570 AAGAA-AAAAAAC
1 AAGAATAAAAAAC
*
1993582 AAGGATAA
1 AAGAATAA
1993590 CTATAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.76, C:0.06, G:0.12, T:0.06
Consensus pattern (13 bp):
AAGAATAAAAAAC
Found at i:1994331 original size:27 final size:27
Alignment explanation
Indices: 1994293--1994345 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
1994283 AAGTACACCA
* *
1994293 TTTTTAATTATAATTAATTTAAAATTC
1 TTTTAAATTATAACTAATTTAAAATTC
1994320 TTTTAAATTATAACTAATTTAAAATT
1 TTTTAAATTATAACTAATTTAAAATT
1994346 ATTTATCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (27 bp):
TTTTAAATTATAACTAATTTAAAATTC
Found at i:1996160 original size:2 final size:2
Alignment explanation
Indices: 1996155--1996230 Score: 131
Period size: 2 Copynumber: 39.5 Consensus size: 2
1996145 ACACACACAC
1996155 AT AT AT AT AT AT AT AT AT AT AT -T AT AT -T AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1996194 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1996231 ATCATACACA
Statistics
Matches: 71, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
1 3 0.04
2 68 0.96
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1998082 original size:18 final size:18
Alignment explanation
Indices: 1998059--1998093 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1998049 ATTATTTCCT
1998059 ATCGAAGAGAAAATAACA
1 ATCGAAGAGAAAATAACA
1998077 ATCGAAGAGAAAATAAC
1 ATCGAAGAGAAAATAAC
1998094 CCCTAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.60, C:0.11, G:0.17, T:0.11
Consensus pattern (18 bp):
ATCGAAGAGAAAATAACA
Found at i:1998928 original size:2 final size:2
Alignment explanation
Indices: 1998921--1998954 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1998911 AATAAATTAA
1998921 AT AT AT AT 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 AT AT AT AT
1998955 TCGTATTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1999142 original size:2 final size:2
Alignment explanation
Indices: 1999137--1999162 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1999127 TCCATATAAT
1999137 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1999163 AAAGAAAAAA
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):
TA
Found at i:1999956 original size:3 final size:3
Alignment explanation
Indices: 1999948--2000005 Score: 68
Period size: 3 Copynumber: 20.0 Consensus size: 3
1999938 TTTGATTTAT
* *
1999948 TTA TTA TTA TTA TTA CTA -TA ATA TTA TTA TTA TTA -TA TT- TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
1999991 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
2000006 AATATATTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
2 5 0.10
3 43 0.88
4 1 0.02
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:1999974 original size:17 final size:18
Alignment explanation
Indices: 1999952--1999999 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 18
1999942 ATTTATTTAT
1999952 TATTATTATTACTATAATA
1 TATTATTATTACTAT-ATA
*
1999971 TTATTATTATTA-TATTTA
1 -TATTATTATTACTATATA
1999989 TATTATTATTA
1 TATTATTATTA
2000000 TTATTAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 11 0.41
18 2 0.07
19 3 0.11
20 11 0.41
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTATTATTACTATATA
Found at i:1999978 original size:23 final size:21
Alignment explanation
Indices: 1999948--2000005 Score: 82
Period size: 20 Copynumber: 2.7 Consensus size: 21
1999938 TTTGATTTAT
1999948 TTATTATTATTATTACTATAATA
1 TTATTATTATTATTA-T-TAATA
*
1999971 TTATTATTATTA-TATTTATA
1 TTATTATTATTATTATTAATA
1999991 TTATTATTATTATTA
1 TTATTATTATTATTA
2000006 AATATATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
21 3 0.09
22 2 0.06
23 12 0.36
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTATTATTATTATTAATA
Found at i:2000446 original size:22 final size:21
Alignment explanation
Indices: 2000407--2000447 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
2000397 GGTAGCCAAC
2000407 AGAAAAAAAAAAGAAGAACGG
1 AGAAAAAAAAAAGAAGAACGG
2000428 AGAACAAAAACAAAG-AGAAC
1 AGAA-AAAAA-AAAGAAGAAC
2000448 CCCACAACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.22
22 10 0.56
23 4 0.22
ACGTcount: A:0.71, C:0.10, G:0.20, T:0.00
Consensus pattern (21 bp):
AGAAAAAAAAAAGAAGAACGG
Found at i:2001481 original size:22 final size:21
Alignment explanation
Indices: 2001456--2001501 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
2001446 TATTTTAAAA
2001456 TTAATATTATAAAAATTATTAT
1 TTAATATTATAAAAATTA-TAT
* **
2001478 TTAATTTTATTCAAATTATAT
1 TTAATATTATAAAAATTATAT
2001499 TTA
1 TTA
2001502 TTAATATCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TTAATATTATAAAAATTATAT
Found at i:2002633 original size:9 final size:9
Alignment explanation
Indices: 2002619--2002643 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2002609 TTACATTTGA
2002619 ATTTAAATT
1 ATTTAAATT
2002628 ATTTAAATT
1 ATTTAAATT
2002637 ATTTAAA
1 ATTTAAA
2002644 AGCATATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
ATTTAAATT
Found at i:2005419 original size:15 final size:15
Alignment explanation
Indices: 2005399--2005430 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2005389 ATCAATACCT
2005399 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
2005414 TTTTGCATACATTCA
1 TTTTGCATACATGCA
2005429 TT
1 TT
2005431 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:2009119 original size:17 final size:17
Alignment explanation
Indices: 2009099--2009133 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
2009089 TATGTTTAGC
2009099 TCAAAAGTATGAAAACT
1 TCAAAAGTATGAAAACT
2009116 TCAAAAGTATGAAAACT
1 TCAAAAGTATGAAAACT
2009133 T
1 T
2009134 TTTGTTATCT
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:0.51, C:0.11, G:0.11, T:0.26
Consensus pattern (17 bp):
TCAAAAGTATGAAAACT
Found at i:2009222 original size:10 final size:10
Alignment explanation
Indices: 2009207--2009235 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
2009197 CAATCATTCT
2009207 TTACATTTTC
1 TTACATTTTC
2009217 TTACATTTTC
1 TTACATTTTC
2009227 TTACATTTT
1 TTACATTTT
2009236 TACATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.21, C:0.17, G:0.00, T:0.62
Consensus pattern (10 bp):
TTACATTTTC
Found at i:2009247 original size:10 final size:9
Alignment explanation
Indices: 2009201--2009248 Score: 53
Period size: 10 Copynumber: 5.1 Consensus size: 9
2009191 AGATAGCAAT
*
2009201 CATTCTTTA
1 CATTTTTTA
2009210 CATTTTCTTA
1 CATTTT-TTA
2009220 CATTTTCTTA
1 CATTTT-TTA
2009230 CA-TTTTTA
1 CATTTTTTA
2009238 CATTTATTTA
1 CATTT-TTTA
2009248 C
1 C
2009249 TATATTTCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
8 5 0.14
9 10 0.29
10 20 0.57
ACGTcount: A:0.23, C:0.19, G:0.00, T:0.58
Consensus pattern (9 bp):
CATTTTTTA
Found at i:2009248 original size:18 final size:19
Alignment explanation
Indices: 2009201--2009258 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 19
2009191 AGATAGCAAT
*
2009201 CATTCTTTACATTTTCTTA
1 CATTTTTTACATTTTCTTA
2009220 CATTTTCTTACA-TTT-TTA
1 CATTTT-TTACATTTTCTTA
2009238 CATTTATTTACTATATTTCTT
1 CATTT-TTTAC-AT-TTTCTT
2009259 TCGGAAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
18 12 0.38
19 10 0.31
20 5 0.16
21 3 0.09
22 2 0.06
ACGTcount: A:0.22, C:0.17, G:0.00, T:0.60
Consensus pattern (19 bp):
CATTTTTTACATTTTCTTA
Found at i:2012779 original size:15 final size:15
Alignment explanation
Indices: 2012752--2012795 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
2012742 TATTATGCTT
*
2012752 GAAG-AGAAGAAAAA
1 GAAGAAGAAAAAAAA
2012766 GAAGAAGAAAAAAAA
1 GAAGAAGAAAAAAAA
2012781 GAAGAGAGAAAAAAA
1 GAAGA-AGAAAAAAA
2012796 GGGGGTCAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 4 0.15
15 14 0.52
16 9 0.33
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (15 bp):
GAAGAAGAAAAAAAA
Found at i:2012792 original size:12 final size:12
Alignment explanation
Indices: 2012756--2012785 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2012746 ATGCTTGAAG
*
2012756 AGAAGAAAAAGA
1 AGAAGAAAAAAA
2012768 AGAAGAAAAAAA
1 AGAAGAAAAAAA
2012780 AGAAGA
1 AGAAGA
2012786 GAGAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AGAAGAAAAAAA
Found at i:2013138 original size:15 final size:16
Alignment explanation
Indices: 2013118--2013151 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2013108 TTCTATCTAT
*
2013118 TTTAAG-TTTAATTTA
1 TTTAAGATTCAATTTA
2013133 TTTAAGATTCAATTTA
1 TTTAAGATTCAATTTA
2013149 TTT
1 TTT
2013152 TCGAAAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (16 bp):
TTTAAGATTCAATTTA
Found at i:2014255 original size:83 final size:82
Alignment explanation
Indices: 2014065--2014374 Score: 415
Period size: 92 Copynumber: 3.6 Consensus size: 82
2014055 AACAAATGCC
* * *
2014065 ATGTGCTCATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGAACCAGTC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA-AAACAATC
* *
2014130 ATT-AATTTTGAAGAGAA
65 ATTGAATTTGGAAGAGGA
*
2014147 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGTAAAATCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAA-CAATC
2014212 ATTGAATTTGGAAGAGGA
65 ATTGAATTTGGAAGAGGA
2014230 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACA
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA--AA--AC-
*
2014295 GAACCAGTTATTGAATTTGGAAGAGGA
61 --A--A-TCATTGAATTTGGAAGAGGA
* * *
2014322 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTCTCTGATTTGGTTTG
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
2014375 ATATAAAACC
Statistics
Matches: 205, Mismatches: 11, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
81 2 0.01
82 61 0.30
83 67 0.33
85 2 0.01
86 1 0.00
87 1 0.00
89 1 0.00
91 1 0.00
92 69 0.34
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (82 bp):
ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACAATCA
TTGAATTTGGAAGAGGA
Found at i:2015314 original size:113 final size:113
Alignment explanation
Indices: 2015138--2015918 Score: 713
Period size: 124 Copynumber: 6.6 Consensus size: 113
2015128 TGCTAGATCG
*
2015138 AGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * *
2015203 AACTTTTTGCTCGAATTCATCTCTTGATGGATAAACATTTGCCAGA-AG
66 AACCTTTTGCTCAAATTCATCACTTGATGGATAAACATTT-CCAGAGAA
* * * *
2015251 TGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* ** * *
2015316 AACCTTTTGCTC-GACGCTATCAC-AGAAGGAGATAAATCGGCATCAACTTTTCCAGAGAA
66 AACCTTTTGCTCAAATTC-ATCACTTG-ATG-GAT-AA-----A-C-A--TTTCCAGAGAA
2015375 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * ** *
2015440 AACCTTTTAG-TTAAATTCATCATTTGATGGATTGACATTTCCAAAGAA
66 AACCTTTT-GCTCAAATTCATCACTTGATGGATAAACATTTCCAGAGAA
* * * * **
2015488 AGTTCATAATAAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCACAATAAGAAGAGTTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* *
2015552 AACCTTTT-C-CATAATTCTATCAC-AGAAGCAGATAGATTAGCATTAGCTTTTCCAGAGAA
66 AACCTTTTGCTCA-AATTC-ATCACTTGATG--GATA-A--A-C---A---TTTCCAGAGAA
* *
2015611 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAACTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* *
2015676 AACCTTTTGTTCAAATTCATCACTTGATGGATCAACATTTCCAGAGAA
66 AACCTTTTGCTCAAATTCATCACTTGATGGATAAACATTTCCAGAGAA
* * * *
2015724 AGTTCATAATAAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* *
2015788 AACCTTTTG--CATAATTCTATCAC-AGAAGCAGATAGATTAGCATCAACCTTTCCAGAGAA
66 AACCTTTTGCTCA-AATTC-ATCACTTGATG--GAT--A--A--A-C-A--TTTCCAGAGAA
* * * * *
2015847 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCAAAATAAGAAGAGCTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
2015912 AACCTTT
66 AACCTTT
2015919 GGAATGACTC
Statistics
Matches: 550, Mismatches: 67, Indels: 91
0.78 0.09 0.13
Matches are distributed among these distances:
110 3 0.01
111 16 0.03
112 91 0.17
113 158 0.29
114 3 0.01
115 3 0.01
116 3 0.01
117 3 0.01
119 2 0.00
120 4 0.01
121 2 0.00
122 2 0.00
123 86 0.16
124 160 0.29
125 12 0.02
126 2 0.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACCTTTTGCTCAAATTCATCACTTGATGGATAAACATTTCCAGAGAA
Found at i:2015626 original size:123 final size:122
Alignment explanation
Indices: 2015474--2016008 Score: 569
Period size: 124 Copynumber: 4.5 Consensus size: 122
2015464 TGATGGATTG
* *
2015474 ACATTTCCAAAGAAAGTTCATAATAAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCACAATA
1 ACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCACAATA
*
2015538 AGAAGAGTTTGTTCAACCTTTTCCATAATTCTATCACAGAAGCAGATAGATTAGCATT
66 AGAAGAGCTTGTTCAACCTTTTCCATAATTCTATCACAGAAGCAGATAGATTAGCA-T
* * *
2015596 AGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
1 A-CATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCACAAT
* * * * * ** *
2015661 GAGAATAACTTGTTTAACCTTTTGTTCA-AATTC-ATCAC-----TTGATGGA-T--CA-
65 AAGAAGAGCTTGTTCAACC-TTT-TCCATAATTCTATCACAGAAGCAGATAGATTAGCAT
* *
2015710 ACATTTCCAGAGAAAGTTCATAATAAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCACAATG
1 ACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCACAATA
*
2015774 AGAAGAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCAT
66 AGAAGAGCTTGTTCAACCTTTTCCATAATTCTATCACAGAAGCAGATAGATTAGCAT
* * * *
2015831 CAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCAAAA
1 --ACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCACAA
* *** * * * * * * *
2015896 TAAGAAGAGCTTATTCAACCTTTGGAATGACTCTATCACAGAAGGAAATAGGTCAACAT
64 TAAGAAGAGCTTGTTCAACCTTTTCCATAATTCTATCACAGAAGCAGATAGATTAGCAT
** * * *
2015955 -CATCCCCAGCGGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAG-AGAAGAA
1 ACATTTCCAG-AGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAA
2016009 TTTATTCAAC
Statistics
Matches: 347, Mismatches: 47, Indels: 39
0.80 0.11 0.09
Matches are distributed among these distances:
110 3 0.01
111 8 0.02
112 40 0.12
113 39 0.11
114 1 0.00
116 2 0.01
117 5 0.01
118 2 0.01
119 5 0.01
120 2 0.01
121 13 0.04
122 35 0.10
123 78 0.22
124 103 0.30
125 8 0.02
126 3 0.01
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (122 bp):
ACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCACAATA
AGAAGAGCTTGTTCAACCTTTTCCATAATTCTATCACAGAAGCAGATAGATTAGCAT
Found at i:2015650 original size:236 final size:234
Alignment explanation
Indices: 2015138--2015918 Score: 1136
Period size: 236 Copynumber: 3.3 Consensus size: 234
2015128 TGCTAGATCG
*
2015138 AGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* ** * *
2015203 AACTTTTTGCTCGAATTCATC-TCTTGATGGATAAACATTTGCC-AGAAGTGTTCATAATGAGAA
66 AACCTTTTG-TTAAATTCATCAT-TTGATGGATAAACATTT-CCAAGAA-AGTTCATAATAAGAA
* * * * * *
2015266 GAACTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTTAACCTTTTGC-TCGA
127 GAACTTATCTGAAG-AGGAAGAAGAAGTTCACAATGAGAAGAGTTTGTTCAACCTTTTGCAT-AA
** * * **
2015330 CGCTATCACAGAAGGAGATAAATCGGCATCAACTTTTCCAGAGAA
190 TTCTATCACAGAAGCAGATAGATTAGCATCAACTTTTCCAGAGAA
2015375 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
**
2015440 AACCTTTTAGTTAAATTCATCATTTGATGGATTGACATTTCCAAAGAAAGTTCATAATAAGAAGA
66 AACCTTTT-GTTAAATTCATCATTTGATGGATAAACATTTCC-AAGAAAGTTCATAATAAGAAGA
* *
2015505 ACTTATCTGAAGAGGAAGAAGAAGTTCACAATAAGAAGAGTTTGTTCAACCTTTTCCATAATTCT
129 ACTTATCTGAAGAGGAAGAAGAAGTTCACAATGAGAAGAGTTTGTTCAACCTTTTGCATAATTCT
* *
2015570 ATCACAGAAGCAGATAGATTAGCATTAGCTTTTCCAGAGAA
194 ATCACAGAAGCAGATAGATTAGCATCAACTTTTCCAGAGAA
* *
2015611 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAACTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* *
2015676 AACCTTTTGTTCAAATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGA
66 AACCTTTTGTT-AAATTCATCATTTGATGGATAAACATTTCCA-AGAAAGTTCATAATAAGAAGA
*
2015741 ACTTATCTGAAGAGGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTGCATAATTCT
129 ACTTATCTGAAGAGGAAGAAGAAGTTCACAATGAGAAGAGTTTGTTCAACCTTTTGCATAATTCT
*
2015806 ATCACAGAAGCAGATAGATTAGCATCAACCTTTCCAGAGAA
194 ATCACAGAAGCAGATAGATTAGCATCAACTTTTCCAGAGAA
* * * * *
2015847 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCAAAATAAGAAGAGCTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
2015912 AACCTTT
66 AACCTTT
2015919 GGAATGACTC
Statistics
Matches: 495, Mismatches: 42, Indels: 15
0.90 0.08 0.03
Matches are distributed among these distances:
235 4 0.01
236 363 0.73
237 122 0.25
238 6 0.01
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (234 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACCTTTTGTTAAATTCATCATTTGATGGATAAACATTTCCAAGAAAGTTCATAATAAGAAGAAC
TTATCTGAAGAGGAAGAAGAAGTTCACAATGAGAAGAGTTTGTTCAACCTTTTGCATAATTCTAT
CACAGAAGCAGATAGATTAGCATCAACTTTTCCAGAGAA
Found at i:2016179 original size:3 final size:3
Alignment explanation
Indices: 2016173--2016201 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2016163 TATTATTACT
2016173 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
2016202 TATTATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2016206 original size:3 final size:3
Alignment explanation
Indices: 2016200--2016251 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
2016190 AATAATAATA
* *
2016200 ATT ATT ATT ATT ATT ATA AAT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2016248 ATT A
1 ATT A
2016252 AAAATATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:2018468 original size:14 final size:15
Alignment explanation
Indices: 2018420--2018474 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
2018410 TAAAAGTGCA
*
2018420 GAAAATTAAATTACT
1 GAAAATTAAAGTACT
* *
2018435 GAAATTTAAAGTCCT
1 GAAAATTAAAGTACT
*
2018450 G-AAATTAAA-AACT
1 GAAAATTAAAGTACT
2018463 GAAAATTTAAAG
1 GAAAA-TTAAAG
2018475 GGCATAAATG
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
13 3 0.10
14 10 0.32
15 18 0.58
ACGTcount: A:0.53, C:0.07, G:0.11, T:0.29
Consensus pattern (15 bp):
GAAAATTAAAGTACT
Found at i:2018514 original size:14 final size:14
Alignment explanation
Indices: 2018479--2018517 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
2018469 TTAAAGGGCA
2018479 TAAATGTAAA-TGTG
1 TAAAT-TAAAGTGTG
2018493 TAAGATTAAAGTGTG
1 TAA-ATTAAAGTGTG
2018508 TAAATTAAAG
1 TAAATTAAAG
2018518 AGAAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 14 0.61
15 9 0.39
ACGTcount: A:0.46, C:0.00, G:0.21, T:0.33
Consensus pattern (14 bp):
TAAATTAAAGTGTG
Found at i:2023229 original size:61 final size:60
Alignment explanation
Indices: 2023112--2023232 Score: 170
Period size: 61 Copynumber: 2.0 Consensus size: 60
2023102 CATTTGACAT
* * * * * *
2023112 GATGCCTTCAAGTTCCAGGGGGAGGCATTCAACTGCGAGCTTCTTCGACCTCAATGTCGA
1 GATGCCTTCAAGTTCAAGGGGGAGGCATGCAACTACCAACTTCTTCGACCTAAATGTCGA
*
2023172 GATGCCTTCAAGTTCAAGGGGGAAGGCATGCAACTACCAACTTGTTCGACCTAAATGTCGA
1 GATGCCTTCAAGTTCAAGGGGG-AGGCATGCAACTACCAACTTCTTCGACCTAAATGTCGA
2023233 CATCGTGGAG
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
60 21 0.40
61 32 0.60
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.24
Consensus pattern (60 bp):
GATGCCTTCAAGTTCAAGGGGGAGGCATGCAACTACCAACTTCTTCGACCTAAATGTCGA
Found at i:2024581 original size:2 final size:2
Alignment explanation
Indices: 2024574--2024606 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2024564 ATTGAAACTA
2024574 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2024607 ATTTTTATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2033519 original size:81 final size:81
Alignment explanation
Indices: 2033424--2033585 Score: 315
Period size: 81 Copynumber: 2.0 Consensus size: 81
2033414 TAAATCATAG
*
2033424 AAGTGGATTTGGATATATATAAAGTGTCAAGGTGAGTGCAATTTAATTTGTACTTATTTTATTGA
1 AAGTGGATTTGGATATATATAAAGTGTCAAGGTGAGTGCAATTTAATTTGTACTTATTATATTGA
2033489 TCAAACTTTGGCTTGC
66 TCAAACTTTGGCTTGC
2033505 AAGTGGATTTGGATATATATAAAGTGTCAAGGTGAGTGCAATTTAATTTGTACTTATTATATTGA
1 AAGTGGATTTGGATATATATAAAGTGTCAAGGTGAGTGCAATTTAATTTGTACTTATTATATTGA
2033570 TCAAACTTTGGCTTGC
66 TCAAACTTTGGCTTGC
2033586 GATGAGCCAA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (81 bp):
AAGTGGATTTGGATATATATAAAGTGTCAAGGTGAGTGCAATTTAATTTGTACTTATTATATTGA
TCAAACTTTGGCTTGC
Found at i:2033554 original size:39 final size:39
Alignment explanation
Indices: 2033430--2033554 Score: 94
Period size: 39 Copynumber: 3.1 Consensus size: 39
2033420 ATAGAAGTGG
2033430 ATTTGGATATATATAAAGTGTCAAGGTGAGTGCAATTTA
1 ATTTGGATATATATAAAGTGTCAAGGTGAGTGCAATTTA
* ** * ** * **
2033469 ATTTGTACT-TAT-TTTATTGATCAAACTTTG-GCTTGCAAGTGG
1 ATTTGGA-TATATATAAAGTG-TC-AA-GGTGAG--TGCAATTTA
2033511 ATTTGGATATATATAAAGTGTCAAGGTGAGTGCAATTTA
1 ATTTGGATATATATAAAGTGTCAAGGTGAGTGCAATTTA
2033550 ATTTG
1 ATTTG
2033555 TACTTATTAT
Statistics
Matches: 59, Mismatches: 18, Indels: 18
0.62 0.19 0.19
Matches are distributed among these distances:
38 4 0.07
39 22 0.37
40 6 0.10
41 6 0.10
42 17 0.29
43 4 0.07
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (39 bp):
ATTTGGATATATATAAAGTGTCAAGGTGAGTGCAATTTA
Found at i:2034340 original size:32 final size:32
Alignment explanation
Indices: 2034299--2034459 Score: 190
Period size: 32 Copynumber: 5.1 Consensus size: 32
2034289 AGAGTCAAGA
2034299 ATTACCTATGTCTTTCGGGACATATGGACAGT
1 ATTACCTATGTCTTTCGGGACATATGGACAGT
* * *
2034331 ATTACCTATGT-TCTTCGGAACATATAGACAGG
1 ATTACCTATGTCT-TTCGGGACATATGGACAGT
* *
2034363 ATTACCTATGTCTTTCGGGAAATATGGACAAT
1 ATTACCTATGTCTTTCGGGACATATGGACAGT
*
2034395 -TTACCTATGT-TCTTCGAGACATATGGACA-T
1 ATTACCTATGTCT-TTCGGGACATATGGACAGT
*
2034425 TTTACCTATGTTCTTT-GGGACATATGGACAG-
1 ATTACCTATG-TCTTTCGGGACATATGGACAGT
2034456 ATTA
1 ATTA
2034460 TTATATGAGC
Statistics
Matches: 110, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
30 2 0.02
31 51 0.46
32 55 0.50
33 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (32 bp):
ATTACCTATGTCTTTCGGGACATATGGACAGT
Found at i:2034440 original size:63 final size:64
Alignment explanation
Indices: 2034299--2034454 Score: 221
Period size: 63 Copynumber: 2.5 Consensus size: 64
2034289 AGAGTCAAGA
*
2034299 ATTACCTATGTCTTTCGGGACATATGGACAGTATTACCTATGTTCTTCGGAACATATAGACAGG
1 ATTACCTATGTCTTTCGGGACATATGGACAATATTACCTATGTTCTTCGGAACATATAGACAGG
* * *
2034363 ATTACCTATGTCTTTCGGGAAATATGGACAAT-TTACCTATGTTCTTC-GAGACATATGGACA-T
1 ATTACCTATGTCTTTCGGGACATATGGACAATATTACCTATGTTCTTCGGA-ACATATAGACAGG
*
2034425 TTTACCTATGTTCTTT-GGGACATATGGACA
1 ATTACCTATG-TCTTTCGGGACATATGGACA
2034455 GATTATTATA
Statistics
Matches: 84, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
62 24 0.29
63 30 0.36
64 30 0.36
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (64 bp):
ATTACCTATGTCTTTCGGGACATATGGACAATATTACCTATGTTCTTCGGAACATATAGACAGG
Found at i:2043250 original size:3 final size:3
Alignment explanation
Indices: 2043230--2043276 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
2043220 GCAAAATTTT
* * *
2043230 TAA TAA TAT TAA -AT TAA TAA TAA TAA TAA TAA TAA TATT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
2043275 TA
1 TA
2043277 TTTTTTCGAC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
2 1 0.03
3 33 0.92
4 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:2043772 original size:126 final size:126
Alignment explanation
Indices: 2043473--2043938 Score: 546
Period size: 126 Copynumber: 3.7 Consensus size: 126
2043463 TCTAAGGGTA
* * * * *
2043473 ACACTACTCCTACATAATGAGAAAATCTAGTCAAGTGATGACACTGCTCATCTGTTCATGAGTCT
1 ACACAACTCCTACATAATGAGAAGATCTGGTCATGTGATGACACTGCTCATCTATTCATGAGTCT
* * * ** * *
2043538 TGGCCATTTAAGGGTGATAACACTGCT-CA-TACT-AT-GATAAGTCTTGGTTATCTAGGATTG
66 TGGCCATCTAAGAGTGATAACACTGTTCCACT-CTGATGGGGAAGAC-TGGTTATCTAAG-TTG
* * * * * *
2043598 ACACGACTCCTATATAATGAGGACATCTGATCATTTGATGACACTGCTCATCTATTCATGAGTCT
1 ACACAACTCCTACATAATGAGAAGATCTGGTCATGTGATGACACTGCTCATCTATTCATGAGTCT
* * * * *
2043663 TGACCATCTAAGAGTGATAACACGGTTCCACTCTGCTGGGGATGGCTGGTTATCTAAGTTG
66 TGGCCATCTAAGAGTGATAACACTGTTCCACTCTGATGGGGAAGACTGGTTATCTAAGTTG
* *
2043724 ACACAACTCCTACATAATGAGAAGATCTGGCCATGTGATGACACTGCTCATCTGTTCATGAGTCT
1 ACACAACTCCTACATAATGAGAAGATCTGGTCATGTGATGACACTGCTCATCTATTCATGAGTCT
* * * *
2043789 TGGCCATCTAAGGGTGATAACACTATTCCACTATGATGGGGACGACTGGTTATCTAAGTTG
66 TGGCCATCTAAGAGTGATAACACTGTTCCACTCTGATGGGGAAGACTGGTTATCTAAGTTG
* * * * * *
2043850 ACATAGCTCCTATATAATGAGGAGATCTGGTCAGGTGATGACACTACTCATCTATTCATGAGTCT
1 ACACAACTCCTACATAATGAGAAGATCTGGTCATGTGATGACACTGCTCATCTATTCATGAGTCT
2043915 TGGCCATCTAA-AGGTGATAACACT
66 TGGCCATCTAAGA-GTGATAACACT
2043939 TCTCATACTA
Statistics
Matches: 291, Mismatches: 45, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
125 78 0.27
126 196 0.67
127 13 0.04
128 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (126 bp):
ACACAACTCCTACATAATGAGAAGATCTGGTCATGTGATGACACTGCTCATCTATTCATGAGTCT
TGGCCATCTAAGAGTGATAACACTGTTCCACTCTGATGGGGAAGACTGGTTATCTAAGTTG
Found at i:2044153 original size:37 final size:38
Alignment explanation
Indices: 2044112--2044184 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
2044102 AGATTCTTTA
*
2044112 TGTCTCAAATGAGACAA-AATTTGTTTTGAAAGAAAAT
1 TGTCTCAAATGAGACAACAATTTGTTTCGAAAGAAAAT
* * * *
2044149 TGTCTTAAGTGAGACAACATTTTGTTTCGAGAGAAA
1 TGTCTCAAATGAGACAACAATTTGTTTCGAAAGAAA
2044185 CAACATCAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 15 0.50
38 15 0.50
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (38 bp):
TGTCTCAAATGAGACAACAATTTGTTTCGAAAGAAAAT
Found at i:2045395 original size:22 final size:21
Alignment explanation
Indices: 2045356--2045413 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
2045346 CCCCTTTTTC
*
2045356 TTTGTTTCTTT-TCTTTTTGATT
1 TTTG-TTCTTTCT-TTTTTCATT
*
2045378 TTTGTTCTTTGCTTTTTTCCTT
1 TTTGTTCTTT-CTTTTTTCATT
*
2045400 TTTGCTCTTTCTTT
1 TTTGTTCTTTCTTT
2045414 ACTTCTTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 10 0.32
22 20 0.65
23 1 0.03
ACGTcount: A:0.02, C:0.16, G:0.09, T:0.74
Consensus pattern (21 bp):
TTTGTTCTTTCTTTTTTCATT
Found at i:2052154 original size:60 final size:61
Alignment explanation
Indices: 2052028--2052161 Score: 155
Period size: 60 Copynumber: 2.2 Consensus size: 61
2052018 GCATAATGGT
* * * * *
2052028 GCATCCCTGGGGACGCGCTTTACCTGGGTTTTAGCTGACTGGGATGCCATACGGGTAAGGT
1 GCATCCCTGGGGACGAGCTTTACCGGGGTTTTAGCTGACTCGGATGCCACACGGGTAAGGC
* * * **
2052089 TCATCCCTGGGGACGAGCTTT-CACGGGGTTTT-GCTGAGTCGGATGTCACGGGGGTAAGGC
1 GCATCCCTGGGGACGAGCTTTAC-CGGGGTTTTAGCTGACTCGGATGCCACACGGGTAAGGC
2052149 GCATCCCTGGGGA
1 GCATCCCTGGGGA
2052162 TGCGCCTTTC
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
60 34 0.56
61 27 0.44
ACGTcount: A:0.16, C:0.23, G:0.37, T:0.25
Consensus pattern (61 bp):
GCATCCCTGGGGACGAGCTTTACCGGGGTTTTAGCTGACTCGGATGCCACACGGGTAAGGC
Found at i:2052413 original size:17 final size:17
Alignment explanation
Indices: 2052391--2052446 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
2052381 TATTTTTTAT
2052391 TATTATATTTATATAAA
1 TATTATATTTATATAAA
*
2052408 TATTAT-TTTTTATTAAA
1 TATTATATTTATA-TAAA
* *
2052425 -ATAATATTTATATAAT
1 TATTATATTTATATAAA
2052441 TATTAT
1 TATTAT
2052447 TTATTTTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 12 0.39
17 19 0.61
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTATATTTATATAAA
Found at i:2052415 original size:30 final size:31
Alignment explanation
Indices: 2052381--2052448 Score: 93
Period size: 33 Copynumber: 2.2 Consensus size: 31
2052371 ATAATTGTTA
*
2052381 TATTTTTTATT-ATTATATTTATATAAATAT
1 TATTTTTTATTAATAATATTTATATAAATAT
*
2052411 TATTTTTTATTAAAATAATATTTATATAATTAT
1 TATTTTTTATT--AATAATATTTATATAAATAT
2052444 TATTT
1 TATTT
2052449 ATTTTAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 11 0.33
33 22 0.67
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (31 bp):
TATTTTTTATTAATAATATTTATATAAATAT
Found at i:2052437 original size:27 final size:27
Alignment explanation
Indices: 2052359--2052437 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 27
2052349 TTTAAGTTAG
2052359 TATTTTTT-TT-AAATAAT-TGTTATAT
1 TATTTTTTATTAAAATAATAT-TTATAT
* * * **
2052384 T-TTTTATTATTATATTTATATAAATAT
1 TATTTT-TTATTAAAATAATATTTATAT
2052411 TATTTTTTATTAAAATAATATTTATAT
1 TATTTTTTATTAAAATAATATTTATAT
2052438 AATTATTATT
Statistics
Matches: 39, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
24 4 0.10
25 3 0.08
26 2 0.05
27 25 0.64
28 5 0.13
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (27 bp):
TATTTTTTATTAAAATAATATTTATAT
Found at i:2052437 original size:33 final size:32
Alignment explanation
Indices: 2052395--2052456 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
2052385 TTTTATTATT
*
2052395 ATATTTATATAAATATTATTTTTTATTAAAATA
1 ATATTTATATAAATATTATTTATT-TTAAAATA
*
2052428 ATATTTATATAATTATTATTTATTTTAAA
1 ATATTTATATAAATATTATTTATTTTAAA
2052457 TTTATTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 5 0.19
33 22 0.81
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
ATATTTATATAAATATTATTTATTTTAAAATA
Found at i:2052447 original size:15 final size:15
Alignment explanation
Indices: 2052396--2052477 Score: 60
Period size: 15 Copynumber: 5.3 Consensus size: 15
2052386 TTTATTATTA
2052396 TATTTATATAAATAT
1 TATTTATATAAATAT
* *
2052411 TATTTTTTATTAAAATAA
1 TA-TTTATA-T-AAATAT
*
2052429 TATTTATATAATTAT
1 TATTTATATAAATAT
*
2052444 TATTTATTTTAAAT-T
1 TATTTA-TATAAATAT
* *
2052459 TATTAAT-TAATTAT
1 TATTTATATAAATAT
2052473 TATTT
1 TATTT
2052478 GTGCTAATTA
Statistics
Matches: 52, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
13 4 0.08
14 6 0.12
15 18 0.35
16 11 0.21
17 6 0.12
18 7 0.13
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTTATATAAATAT
Found at i:2052491 original size:29 final size:31
Alignment explanation
Indices: 2052423--2052491 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 31
2052413 TTTTTTATTA
* * **
2052423 AAATAATATTTATATAATTATTATTTATTTT
1 AAATTATATTAATATAATTATTATTTATGCT
*
2052454 AAATT-TATTAAT-TAATTATTATTTGTGCT
1 AAATTATATTAATATAATTATTATTTATGCT
2052483 -AATTATATT
1 AAATTATATT
2052492 TTTTGTCTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 4 0.12
29 18 0.56
30 6 0.19
31 4 0.12
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (31 bp):
AAATTATATTAATATAATTATTATTTATGCT
Found at i:2054290 original size:21 final size:21
Alignment explanation
Indices: 2054256--2054328 Score: 101
Period size: 21 Copynumber: 3.5 Consensus size: 21
2054246 TATGCCATCT
* *
2054256 CCGCAGGGTGACATTCCTAGC
1 CCGCAAGGTTACATTCCTAGC
2054277 CCGCAAGGTTACATTCCTAGC
1 CCGCAAGGTTACATTCCTAGC
* *
2054298 CCGCCAGGTTACATGCCTAGC
1 CCGCAAGGTTACATTCCTAGC
*
2054319 CCGCAGGGTT
1 CCGCAAGGTT
2054329 TTATGACACC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.19, C:0.34, G:0.26, T:0.21
Consensus pattern (21 bp):
CCGCAAGGTTACATTCCTAGC
Found at i:2054900 original size:19 final size:20
Alignment explanation
Indices: 2054876--2054918 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
2054866 TATTCCAATT
*
2054876 GAAATTTAAAA-TTGTATTC
1 GAAATTTAAAAGTTATATTC
2054895 GAAA-TTAAAAGTTATATTC
1 GAAATTTAAAAGTTATATTC
2054914 -AAATT
1 GAAATT
2054919 ATAGTTCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (20 bp):
GAAATTTAAAAGTTATATTC
Found at i:2054904 original size:18 final size:19
Alignment explanation
Indices: 2054876--2054919 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
2054866 TATTCCAATT
*
2054876 GAAATTTAAAA-TTGTATTC
1 GAAA-TTAAAAGTTATATTC
2054895 GAAATTAAAAGTTATATTC
1 GAAATTAAAAGTTATATTC
2054914 -AAATTA
1 GAAATTA
2054920 TAGTTCACAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.39
Consensus pattern (19 bp):
GAAATTAAAAGTTATATTC
Found at i:2055573 original size:139 final size:139
Alignment explanation
Indices: 2055321--2056239 Score: 1383
Period size: 139 Copynumber: 6.6 Consensus size: 139
2055311 TGTGTCTCCG
* * * * * * * * *
2055321 GGGACATGACTCACATGATAGGGCAATTATAACATATTCTCTGACATAACAATCGAATGCGCCCC
1 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCC
* * * *
2055386 TCTCCGGGAACACGCTTTCACCACTTTGCTATGTCCCCTCAAACATAATAGGTACTGACATGAAT
66 -C-CCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAAT
2055451 AGTGCCCCCGA
129 AGTGCCCCCGA
* * *
2055462 GGGACATGAGTGACATAATAGGGCAATGATAACATATTATCTGACAAAATAATGGAAGGTGCACC
1 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCC
* * *
2055527 CCCGAAAACACGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGGCATGAATAG
66 CCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAATAG
2055592 TG-CCCCGA
131 TGCCCCCGA
* *
2055600 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTTTGACAAAATAATGGAAGGCGCGTC
1 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCC
* * *
2055665 CCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTAATATAAATAG
66 CCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAATAG
2055730 TGCCCCCGA
131 TGCCCCCGA
* *
2055739 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGACACGCC
1 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCC
*
2055804 CCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATTAATAG
66 CCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAATAG
2055869 TGCCCCCGA
131 TGCCCCCGA
* * *
2055878 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAAAAAATAATGGAAGGTGCCCC
1 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCC
* * *
2055943 CCCAGAAATGCGCTTTCACCACTTTGCCAAGCCCCCTCAAACATAATAGGTACTGACATGAATAG
66 CCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAATAG
2056008 TGCCCCCGA
131 TGCCCCCGA
* * * *
2056017 GGGACATGAGTGACATAATAGGGCAATTATAACATATTATCTGACAAAATAATGGAGGGTGCGCC
1 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCC
* * * *
2056082 CCCGGAAACGCGCTTTGACCACTTTGCCAAGTCCCCTTAAACATAATAGTTACTAACATGAATAG
66 CCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAATAG
2056147 TGCCCCCGA
131 TGCCCCCGA
* * *
2056156 GGGACATGAGTGACATAATAGGACAATGGTAACATATTCTCTGACAAAATAATGGAAGGCGCACC
1 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCC
* *
2056221 TCCGGGAAA-GCGCCTTCAC
66 -CCCGGAAACGCGCTTTCAC
2056240 GTGAATAGTA
Statistics
Matches: 711, Mismatches: 65, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
138 127 0.18
139 522 0.73
140 8 0.01
141 54 0.08
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (139 bp):
GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCC
CCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAATAG
TGCCCCCGA
Found at i:2061130 original size:20 final size:19
Alignment explanation
Indices: 2061107--2061156 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 19
2061097 AAAAAAAAAT
2061107 AATAATTAATAATTTCATTA
1 AATAATTAA-AATTTCATTA
2061127 AATAATATAAAATTTCATTA
1 AATAAT-TAAAATTTCATTA
*
2061147 AATTATTAAA
1 AATAATTAAA
2061157 TTTGAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 4 0.14
20 21 0.75
21 3 0.11
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (19 bp):
AATAATTAAAATTTCATTA
Found at i:2061545 original size:5 final size:5
Alignment explanation
Indices: 2061535--2061559 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2061525 TTCTTTTAGA
2061535 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
2061560 TTATATGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:2061822 original size:26 final size:25
Alignment explanation
Indices: 2061793--2061846 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
2061783 CATAAATTTT
* *
2061793 ATACTTAAACCCTAAACCTCTAAATC
1 ATACTCAAACCCTAAACC-CAAAATC
* *
2061819 ATACTCAATCCTTAAACCCAAAATC
1 ATACTCAAACCCTAAACCCAAAATC
2061844 ATA
1 ATA
2061847 TCCCCACTCC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (25 bp):
ATACTCAAACCCTAAACCCAAAATC
Found at i:2064168 original size:16 final size:16
Alignment explanation
Indices: 2064147--2064177 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2064137 GTTGAGCGTG
2064147 GATGAGCACCGTTAAC
1 GATGAGCACCGTTAAC
2064163 GATGAGCACCGTTAA
1 GATGAGCACCGTTAA
2064178 ATTAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (16 bp):
GATGAGCACCGTTAAC
Found at i:2069132 original size:35 final size:34
Alignment explanation
Indices: 2069093--2069208 Score: 119
Period size: 35 Copynumber: 3.3 Consensus size: 34
2069083 TATGAGGAAC
2069093 CATGATGCTTCACCAAGAGATGATTATGT-AAA-GA
1 CATGAT-CTTCACCAAGAGATGATTAT-TCAAAGGA
* *
2069127 GCATGATTCTTCACCAAGAGATGCTTCTTCAAAGGA
1 -CATGA-TCTTCACCAAGAGATGATTATTCAAAGGA
* * *
2069163 CATGATCTTTCACCAAGAGATGCTTCTTCAAAAGA
1 CATGATC-TTCACCAAGAGATGATTATTCAAAGGA
2069198 CATGATGCTTC
1 CATGAT-CTTC
2069209 TCCATAGGAC
Statistics
Matches: 73, Mismatches: 3, Indels: 10
0.85 0.03 0.12
Matches are distributed among these distances:
34 3 0.04
35 66 0.90
36 4 0.05
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (34 bp):
CATGATCTTCACCAAGAGATGATTATTCAAAGGA
Found at i:2069206 original size:20 final size:20
Alignment explanation
Indices: 2069146--2069224 Score: 62
Period size: 20 Copynumber: 4.2 Consensus size: 20
2069136 TTCACCAAGA
*
2069146 GATGCTTCTTCAAAGGACAT
1 GATGCTTCTTCAAAAGACAT
*
2069166 GAT-C-T-TTCACCAAG--A-
1 GATGCTTCTTCA-AAAGACAT
2069181 GATGCTTCTTCAAAAGACAT
1 GATGCTTCTTCAAAAGACAT
* * *
2069201 GATGCTTCTCCATAGGACAT
1 GATGCTTCTTCAAAAGACAT
2069221 GATG
1 GATG
2069225 TTCCACCAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
15 3 0.07
16 2 0.04
17 8 0.17
18 7 0.15
19 2 0.04
20 24 0.52
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (20 bp):
GATGCTTCTTCAAAAGACAT
Found at i:2069218 original size:55 final size:55
Alignment explanation
Indices: 2069146--2069268 Score: 174
Period size: 55 Copynumber: 2.2 Consensus size: 55
2069136 TTCACCAAGA
* * *
2069146 GATGCTTCTTCAAAGGACATGATCTTTCACCAAGAGATGCTTCTTCAAAAGACAT
1 GATGCTTCTCCATAGGACATGATCTTCCACCAAGAGATGCTTCTTCAAAAGACAT
* * *
2069201 GATGCTTCTCCATAGGACATGATGTTCCACCAAGAGATGTTTCTTCAAAGGACAT
1 GATGCTTCTCCATAGGACATGATCTTCCACCAAGAGATGCTTCTTCAAAAGACAT
* *
2069256 GATTCTTCACCAT
1 GATGCTTCTCCAT
2069269 GAGGTGCTTC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 60 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (55 bp):
GATGCTTCTCCATAGGACATGATCTTCCACCAAGAGATGCTTCTTCAAAAGACAT
Found at i:2069267 original size:35 final size:34
Alignment explanation
Indices: 2069214--2069375 Score: 141
Period size: 35 Copynumber: 4.7 Consensus size: 34
2069204 GCTTCTCCAT
*
2069214 AGGACATGATGT-TCCACCAAGAGATGTTTCTTCAA
1 AGGACATGAT-TCTTCACCAAGAGATGTTT-TTCAA
* * * *
2069249 AGGACATGATTCTTCACCATGAGGTGCTTCTCCAA
1 AGGACATGATTCTTCACCAAGAGATG-TTTTTCAA
* *
2069284 AGGGCATGATGCTTCACCAAGAGATG-TTTTCAAA
1 AGGACATGATTCTTCACCAAGAGATGTTTTTC-AA
* * * * *
2069318 AAGATATGATGCTTCACCAAGAGATGTCTTTCGA
1 AGGACATGATTCTTCACCAAGAGATGTTTTTCAA
2069352 AGAGACATGATGT-TTCACCAAGAG
1 AG-GACATGAT-TCTTCACCAAGAG
2069376 GTTCCTTCTA
Statistics
Matches: 102, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
33 3 0.03
34 28 0.27
35 69 0.68
36 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (34 bp):
AGGACATGATTCTTCACCAAGAGATGTTTTTCAA
Found at i:2069369 original size:69 final size:70
Alignment explanation
Indices: 2069201--2069375 Score: 205
Period size: 69 Copynumber: 2.5 Consensus size: 70
2069191 CAAAAGACAT
* * * *
2069201 GATGCTTCTCCATAGGACATGATGTTCCACCAAGAGATGTTTCTTCAAAGGACATGATTCTTCAC
1 GATGCTTCTCCAAAGGACATGATGTTTCACCAAGAGATGTTTCTTCAAAAGACATGATGCTTCAC
*
2069266 CATGA
66 CAAGA
* * * *
2069271 GGTGCTTCTCCAAAGGGCATGATGCTTCACCAAGAGATG-TT-TTCAAAAAGATATGATGCTTCA
1 GATGCTTCTCCAAAGGACATGATGTTTCACCAAGAGATGTTTCTTC-AAAAGACATGATGCTTCA
2069334 CCAAGA
65 CCAAGA
*
2069340 GATGTCTT-T-CGAAGAGACATGATGTTTCACCAAGAG
1 GATG-CTTCTCCAAAG-GACATGATGTTTCACCAAGAG
2069376 GTTCCTTCTA
Statistics
Matches: 89, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
68 7 0.08
69 45 0.51
70 37 0.42
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (70 bp):
GATGCTTCTCCAAAGGACATGATGTTTCACCAAGAGATGTTTCTTCAAAAGACATGATGCTTCAC
CAAGA
Found at i:2069860 original size:3 final size:3
Alignment explanation
Indices: 2069852--2069927 Score: 111
Period size: 3 Copynumber: 25.3 Consensus size: 3
2069842 ATTTCTTTGA
*
2069852 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT CT-T TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
2069897 TAT TAT TAT TAT CT-T TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT T
2069928 TTCAGGTTAC
Statistics
Matches: 67, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
2 2 0.03
3 63 0.94
4 2 0.03
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2071215 original size:109 final size:109
Alignment explanation
Indices: 2071024--2071232 Score: 235
Period size: 109 Copynumber: 1.9 Consensus size: 109
2071014 CTAACTTAAG
* * * * *
2071024 CGTGTTTTTGCATGTTAGTCATCTGTAAAGACTGAACCTGTTATTTACTCGTTTTTATGCATCTT
1 CGTGTTTTTGCATGTTAGTCACCTGTAAAGACTAAAACTATTATTTACTCATTTTTATGCATCTT
*
2071089 ATATATATTTAGGGTTATTTGTTATTTAGTCCCCCATAATTTAC
66 ATATATATTTAGGGTTATTTGTTATGTAGTCCCCCATAATTTAC
* ** *
2071133 CGTGTTTTTGCATGTTGGTCACCTGTAGGGACTAAAATTATTATTTAC-CATTTTCTGATGCATG
1 CGTGTTTTTGCATGTTAGTCACCTGTAAAGACTAAAACTATTATTTACTCATTTT-T-ATGCAT-
* * * * *
2071197 C-TATGTAT-TTTTGTGTTATTTTTTGTGTAGTCCCCC
63 CTTATATATATTTAGGGTTATTTGTTATGTAGTCCCCC
2071233 TTATTTAGGT
Statistics
Matches: 82, Mismatches: 15, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
108 5 0.06
109 64 0.78
110 12 0.15
111 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.17, T:0.47
Consensus pattern (109 bp):
CGTGTTTTTGCATGTTAGTCACCTGTAAAGACTAAAACTATTATTTACTCATTTTTATGCATCTT
ATATATATTTAGGGTTATTTGTTATGTAGTCCCCCATAATTTAC
Found at i:2074382 original size:55 final size:55
Alignment explanation
Indices: 2074293--2074515 Score: 313
Period size: 55 Copynumber: 4.0 Consensus size: 55
2074283 ATTACCAAAT
* * * *
2074293 GGCACTAAGCGTGCAAAAACTTAAGAAATCCATACCAAGTGTATGAATTTTGGTATG
1 GGCACTATGTGTGC-AAAAC-TAAGAAATCCATACTAAGTGTATGAATTTTCGTATG
* * *
2074350 GGCACTTTGTGCGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTTCGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTTCGTATG
* * *
2074405 GGCACTATGTGTGTAAAACTAAAAAATTCATACTAAGTGTATGAATTTTCGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTTCGTATG
* *
2074460 GGCACTATGTGTGC-AAACTAAGAAATCCATACTAAGTGTATTAATTTTTGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTTCGTATG
2074514 GG
1 GG
2074516 AAATATATGT
Statistics
Matches: 150, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
54 38 0.25
55 97 0.65
56 5 0.03
57 10 0.07
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (55 bp):
GGCACTATGTGTGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTTCGTATG
Found at i:2074545 original size:109 final size:110
Alignment explanation
Indices: 2074308--2074526 Score: 314
Period size: 109 Copynumber: 2.0 Consensus size: 110
2074298 TAAGCGTGCA
* * * * *
2074308 AAAACTTAAGAAATCCATACCAAGTGTATGAATTTTGGTATGGGCACTTTGTGCGCAAAACTAAG
1 AAAAC-TAAAAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTATGTGCGCAAAACTAAG
* * * *
2074373 AAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTATGTGTGT
65 AAATCCATACTAAGTGTATGAATTTTCGTATGGGAAATATATGTGT
*
2074419 AAAACTAAAAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTATGTGTGC-AAACTAAGA
1 AAAACTAAAAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTATGTGCGCAAAACTAAGA
* *
2074483 AATCCATACTAAGTGTATTAATTTTTGTATGGGAAATATATGTG
66 AATCCATACTAAGTGTATGAATTTTCGTATGGGAAATATATGTG
2074527 AAATTATCAG
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
109 47 0.49
110 44 0.46
111 5 0.05
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (110 bp):
AAAACTAAAAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTATGTGCGCAAAACTAAGA
AATCCATACTAAGTGTATGAATTTTCGTATGGGAAATATATGTGT
Found at i:2074559 original size:109 final size:110
Alignment explanation
Indices: 2074334--2074560 Score: 271
Period size: 109 Copynumber: 2.1 Consensus size: 110
2074324 ATACCAAGTG
* * *
2074334 TATGAATTTTGGTATGGGCACTTTGTGCGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTT
1 TATGAATTTTCGTATGGGCACTATGTGCGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTT
* * * * **
2074399 CGTATGGGCACTATGTGTGTAAAACTAAAAAATTCATACTAAGTG
66 CGTATGGGAAATATATGTGTAAAACTAAAAAATTCATAATAAGAA
* *
2074444 TATGAATTTTCGTATGGGCACTATGTGTGC-AAACTAAGAAATCCATACTAAGTGTATTAATTTT
1 TATGAATTTTCGTATGGGCACTATGTGCGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTT
* * * *
2074508 TGTATGGGAAATATATGTG-AAATTA-TCAGAAGTTCATAATAAGAA
66 CGTATGGGAAATATATGTGTAAA--ACTAAAAAATTCATAATAAGAA
*
2074553 TGTGAATT
1 TATGAATT
2074561 ACCGTATTAG
Statistics
Matches: 99, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
108 3 0.03
109 68 0.69
110 28 0.28
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (110 bp):
TATGAATTTTCGTATGGGCACTATGTGCGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTT
CGTATGGGAAATATATGTGTAAAACTAAAAAATTCATAATAAGAA
Found at i:2074804 original size:68 final size:68
Alignment explanation
Indices: 2074726--2075184 Score: 767
Period size: 68 Copynumber: 6.8 Consensus size: 68
2074716 AAAGATTAAT
* * *
2074726 AGGCATAACTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTTCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2074791 TTG
66 TTG
*
2074794 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2074859 TTG
66 TTG
* *
2074862 AGGCCTAACTTTGCATTTGACAGAAAGGTGTCAATTATGACAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2074927 TTG
66 TTG
* *
2074930 AGGCCTAACTGTGCATTTGACATAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2074995 TTG
66 TTG
*
2074998 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGGTGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2075063 TTG
66 TTG
* * ** *
2075066 AGGCCTAACTATGCATTTGAAAGAAATATGTCAATTATGACAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2075131 TTG
66 TTG
* *
2075134 AGGCCTAACTGTGCATTTGACACAAAGGTGTCAATTATGTC-GTTAGATGAA
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
2075185 CGGTTAAAGA
Statistics
Matches: 366, Mismatches: 25, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
67 10 0.03
68 356 0.97
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:2075286 original size:81 final size:81
Alignment explanation
Indices: 2075135--2075371 Score: 309
Period size: 81 Copynumber: 2.9 Consensus size: 81
2075125 GTGCCTTTGA
* * * *
2075135 GGCCTAACTGTGCATTTGACACAAAGGTGTCAATTATGTC-GTTAGATGAACGGTTAAAGACCGT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCAT
2075199 TGAGTAAAAGATAAAT
66 TGAGTAAAAGATAAAT
* *
2075215 GGCCTAGCTATGCATTTGCCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCAT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCAT
*
2075280 TGAGTAAAATATAAAT
66 TGAGTAAAAGATAAAT
** * * * * *
2075296 GGCCTAGCTGTGCATTTGGTAGACAA-GTGTCAATCATGCAACTTAGATGAAAGGTTAAATA-CA
1 GGCCTAGCTGTGCATTTGACAGA-AAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCA
2075359 TTTGAGTAAAAGA
65 -TTGAGTAAAAGA
2075372 CTAGATGTAT
Statistics
Matches: 138, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
80 37 0.27
81 99 0.72
82 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.27
Consensus pattern (81 bp):
GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCAT
TGAGTAAAAGATAAAT
Found at i:2075456 original size:45 final size:45
Alignment explanation
Indices: 2075399--2075615 Score: 283
Period size: 45 Copynumber: 4.8 Consensus size: 45
2075389 TATAACGTTA
* * *
2075399 TATAAAAGGCATGAAATGATGCAATAAATGAAGTGTATAATAGTG
1 TATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTG
* * * *
2075444 TATAAAATGCATGAAATGATGCCATAATTGAAATGTATATTAGTG
1 TATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTG
*
2075489 TATAAAAAGGCATGAAAGGATGCGATAAATGAAATGTATAATAGCT-
1 TAT-AAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAG-TG
* *
2075535 TATAAAAGGCATGAAAGGATGCCATAAATGAAACGTATAATAGTA
1 TATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTG
* **
2075580 TATAAAAAGGCATGAAAGAATATCATAAATGAAATG
1 TAT-AAAAGGCATGAAAGGATGCCATAAATGAAATG
2075616 CATATGGGTG
Statistics
Matches: 152, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
44 1 0.01
45 84 0.55
46 66 0.43
47 1 0.01
ACGTcount: A:0.48, C:0.06, G:0.20, T:0.26
Consensus pattern (45 bp):
TATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTG
Found at i:2075539 original size:91 final size:90
Alignment explanation
Indices: 2075397--2075615 Score: 298
Period size: 91 Copynumber: 2.4 Consensus size: 90
2075387 TGTATAACGT
* * * *
2075397 TATAT-AAAAGGCATGAAATGATGCAATAAATGAAGTGTATAATAGTGTATAAAATGCATGAAAT
1 TATATAAAAAGGCATGAAAGGATGC-ATAAATGAAATGTATAATAGTGTATAAAAGGCATGAAAG
* * *
2075461 GATGCCATAATTGAAATGTATATTAG
65 GATGCCATAAATGAAACGTATAATAG
*
2075487 TGTATAAAAAGGCATGAAAGGATGCGATAAATGAAATGTATAATAGCT-TATAAAAGGCATGAAA
1 TATATAAAAAGGCATGAAAGGATGC-ATAAATGAAATGTATAATAG-TGTATAAAAGGCATGAAA
2075551 GGATGCCATAAATGAAACGTATAATAG
64 GGATGCCATAAATGAAACGTATAATAG
* *
2075578 TATATAAAAAGGCATGAAAGAATATCATAAATGAAATG
1 TATATAAAAAGGCATGAAAGGAT-GCATAAATGAAATG
2075616 CATATGGGTG
Statistics
Matches: 114, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
90 4 0.04
91 108 0.95
92 2 0.02
ACGTcount: A:0.48, C:0.06, G:0.20, T:0.26
Consensus pattern (90 bp):
TATATAAAAAGGCATGAAAGGATGCATAAATGAAATGTATAATAGTGTATAAAAGGCATGAAAGG
ATGCCATAAATGAAACGTATAATAG
Found at i:2075643 original size:91 final size:90
Alignment explanation
Indices: 2075452--2075748 Score: 274
Period size: 91 Copynumber: 3.3 Consensus size: 90
2075442 TGTATAAAAT
* * * *
2075452 GCATGAAATGATGCCATAATTGAAATGTATATTAGTGTATAAAAAGGCATGAAAGGATGCGATAA
1 GCATGAAAGGATGCCATAAATGAAATGTATATTAGTGTATAAAAAGGCATGAAAGAATTC-ATAA
* * * * *
2075517 ATGAAATGTATAATAGCT-TATAAAAG
65 ATGAAATGCAT-ATGGCTGCATTATAG
* * *
2075543 GCATGAAAGGATGCCATAAATGAAACGTATAATAGTATATAAAAAGGCATGAAAGAATATCATAA
1 GCATGAAAGGATGCCATAAATGAAATGTATATTAGTGTATAAAAAGGCATGAAAGAAT-TCATAA
* *
2075608 ATGAAATGCATATGGGTGCATTATCG
65 ATGAAATGCATATGGCTGCATTATAG
** * * * * * ** * *
2075634 GCACAAAAGGATGCCATAATTGAAATGCATATTGGTGCAT-TATCGGTATAAAAGAATTTCATAA
1 GCATGAAAGGATGCCATAAATGAAATGTATATTAGTGTATAAAAAGGCATGAAAGAA-TTCATAA
* ** *
2075698 TTGAAATGCATATGATTGCATTATTG
65 ATGAAATGCATATGGCTGCATTATAG
*
2075724 GCATGAAAGAATGCCATAAATGAAA
1 GCATGAAAGGATGCCATAAATGAAA
2075749 ATGCATAACG
Statistics
Matches: 167, Mismatches: 36, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
90 64 0.38
91 102 0.61
92 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.27
Consensus pattern (90 bp):
GCATGAAAGGATGCCATAAATGAAATGTATATTAGTGTATAAAAAGGCATGAAAGAATTCATAAA
TGAAATGCATATGGCTGCATTATAG
Found at i:2075643 original size:136 final size:136
Alignment explanation
Indices: 2075399--2075660 Score: 312
Period size: 136 Copynumber: 1.9 Consensus size: 136
2075389 TATAACGTTA
* ** * *
2075399 TATAAAAGGCATGAAATGATGCAATAAATGAAGTGTATAATAGTGTATAAAATGCATGAAATGAT
1 TATAAAAGGCATGAAAGGATGCAATAAATGAAACGTATAATAGTATATAAAAGGCATGAAATGAT
* * * * * ** *
2075464 GCCATAATTGAAATGTATATTAGTGTATAAAAAGGCATGAAAGGATGCGATAAATGAAATGTATA
66 ACCATAAATGAAATGCATATGAGTGCATAAAAAGGCACAAAAGGATGCCATAAATGAAATGTATA
2075529 ATAGCT
131 ATAGCT
*
2075535 TATAAAAGGCATGAAAGGATGCCATAAATGAAACGTATAATAGTATATAAAAAGGCATGAAA-GA
1 TATAAAAGGCATGAAAGGATGCAATAAATGAAACGTATAATAGTATAT-AAAAGGCATGAAATG-
* * * ** *
2075599 ATATCATAAATGAAATGCATATGGGTGCAT-TATCGGCACAAAAGGATGCCATAATTGAAATG
64 ATACCATAAATGAAATGCATATGAGTGCATAAAAAGGCACAAAAGGATGCCATAAATGAAATG
2075661 CATATTGGTG
Statistics
Matches: 104, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
136 69 0.66
137 35 0.34
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.26
Consensus pattern (136 bp):
TATAAAAGGCATGAAAGGATGCAATAAATGAAACGTATAATAGTATATAAAAGGCATGAAATGAT
ACCATAAATGAAATGCATATGAGTGCATAAAAAGGCACAAAAGGATGCCATAAATGAAATGTATA
ATAGCT
Found at i:2075671 original size:45 final size:45
Alignment explanation
Indices: 2075588--2075755 Score: 185
Period size: 45 Copynumber: 3.7 Consensus size: 45
2075578 TATATAAAAA
* ** *
2075588 GGCATGAAAGAATATCATAAATGAAATGCATATGGGTGCATTATC
1 GGCATAAAAGAATGCCATAAATGAAATGCATATTGGTGCATTATC
* * *
2075633 GGCACAAAAGGATGCCATAATTGAAATGCATATTGGTGCATTATC
1 GGCATAAAAGAATGCCATAAATGAAATGCATATTGGTGCATTATC
* ** * * *
2075678 GGTATAAAAGAATTTCATAATTGAAATGCATA-TGATTGCATTATT
1 GGCATAAAAGAATGCCATAAATGAAATGCATATTG-GTGCATTATC
*
2075723 GGCATGAAAGAATGCCATAAATGAAAATGCATA
1 GGCATAAAAGAATGCCATAAATG-AAATGCATA
2075756 ACGGTACATT
Statistics
Matches: 102, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
44 2 0.02
45 91 0.89
46 9 0.09
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.28
Consensus pattern (45 bp):
GGCATAAAAGAATGCCATAAATGAAATGCATATTGGTGCATTATC
Found at i:2078064 original size:41 final size:41
Alignment explanation
Indices: 2077997--2078078 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
2077987 TCAGACACAC
2077997 CCATCATGTATTTTAGAGGATATAACTTGAAAATCAACTAA
1 CCATCATGTATTTTAGAGGATATAACTTGAAAATCAACTAA
* *
2078038 CCATCATGTATTTTAGCGGATCTAACTTGAAAATCAACTAA
1 CCATCATGTATTTTAGAGGATATAACTTGAAAATCAACTAA
2078079 GTGGTGTGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (41 bp):
CCATCATGTATTTTAGAGGATATAACTTGAAAATCAACTAA
Found at i:2082228 original size:17 final size:17
Alignment explanation
Indices: 2082194--2082231 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
2082184 TTCTAAATCA
2082194 TTTTTCAAAATTTCATTT
1 TTTTTCAAAA-TTCATTT
2082212 TTTTTCAAAA-TCAATTT
1 TTTTTCAAAATTC-ATTT
2082229 TTT
1 TTT
2082232 CTTTCAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.11
17 7 0.37
18 10 0.53
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTTCAAAATTCATTT
Found at i:2085355 original size:20 final size:21
Alignment explanation
Indices: 2085317--2085359 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2085307 TTTCTATGTA
*
2085317 CCTCTGAACTCAGAAGTAGTG
1 CCTCCGAACTCAGAAGTAGTG
2085338 CCTCCGAACTCA-AAGTAGTG
1 CCTCCGAACTCAGAAGTAGTG
2085358 CC
1 CC
2085360 AACATTGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (21 bp):
CCTCCGAACTCAGAAGTAGTG
Found at i:2091850 original size:21 final size:22
Alignment explanation
Indices: 2091825--2091873 Score: 91
Period size: 21 Copynumber: 2.3 Consensus size: 22
2091815 TGCTGCTTTG
2091825 TTCTTGGTGGATTTCT-ATTTC
1 TTCTTGGTGGATTTCTGATTTC
2091846 TTCTTGGTGGATTTCTGATTTC
1 TTCTTGGTGGATTTCTGATTTC
2091868 TTCTTG
1 TTCTTG
2091874 TTGTGTGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.08, C:0.14, G:0.20, T:0.57
Consensus pattern (22 bp):
TTCTTGGTGGATTTCTGATTTC
Found at i:2092555 original size:2 final size:2
Alignment explanation
Indices: 2092548--2092653 Score: 79
Period size: 2 Copynumber: 57.0 Consensus size: 2
2092538 GTAATAAATA
* *
2092548 AT AT AT AT AT AT AC ACT AT AT -T AT ACT AT A- AT AC A- AT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT
* *
2092589 A- AT AT A- AT AT AT AT AC A- AT AT AC AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
2092627 A- AT AT AC AT AT A- AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2092654 TTTCAAAAAC
Statistics
Matches: 84, Mismatches: 8, Indels: 24
0.72 0.07 0.21
Matches are distributed among these distances:
1 10 0.12
2 71 0.85
3 3 0.04
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:2092648 original size:11 final size:11
Alignment explanation
Indices: 2092550--2092653 Score: 113
Period size: 11 Copynumber: 9.4 Consensus size: 11
2092540 AATAAATAAT
2092550 ATATATATATA
1 ATATATATATA
2092561 CACTATAT-TATA
1 -A-TATATATATA
* *
2092573 CTATA-ATACA
1 ATATATATATA
2092583 ATATATAATATA
1 ATATAT-ATATA
*
2092595 ATATATATACA
1 ATATATATATA
*
2092606 ATATACATATA
1 ATATATATATA
2092617 ATATATATATA
1 ATATATATATA
*
2092628 ATATACATATA
1 ATATATATATA
*
2092639 ATATATATATT
1 ATATATATATA
2092650 ATAT
1 ATAT
2092654 TTTCAAAAAC
Statistics
Matches: 77, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
10 11 0.14
11 46 0.60
12 15 0.19
13 5 0.06
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (11 bp):
ATATATATATA
Found at i:2092667 original size:24 final size:24
Alignment explanation
Indices: 2092640--2092711 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 24
2092630 ATACATATAA
2092640 TATATATATTATATTTTCAAAAAC
1 TATATATATTATATTTTCAAAAAC
*
2092664 TATATA-A-TATATTTTCAAAAAT
1 TATATATATTATATTTTCAAAAAC
*
2092686 TATATATTATATATGTTTTCAAAAAC
1 TATATA-TAT-TATATTTTCAAAAAC
2092712 CATTTTAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 20 0.49
23 1 0.02
24 7 0.17
26 13 0.32
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.46
Consensus pattern (24 bp):
TATATATATTATATTTTCAAAAAC
Found at i:2092724 original size:60 final size:59
Alignment explanation
Indices: 2092651--2092808 Score: 169
Period size: 60 Copynumber: 2.6 Consensus size: 59
2092641 ATATATATTA
*
2092651 TATTTTCAAAAACTATATAATATAT-TTTCAAAAATTATATATTATATATGTTTTCAAAAACC
1 TATTTT-AAAAACTATATAATATATCTTTC-AAAA--ATATATTATATACGTTTTCAAAAACC
* *
2092713 -ATTTTAAAAACTATATCTATATATGCTTTCAAAACTATATTATATACGTTTTCAAAAACC
1 TATTTTAAAAACTATAT-AATATAT-CTTTCAAAAATATATTATATACGTTTTCAAAAACC
* * *
2092773 TTTTTTTTAAAACTATATATTATATGCTTT-AAAAAT
1 -TATTTTAAAAACTATATAATATAT-CTTTCAAAAAT
2092809 CCATCTTTTA
Statistics
Matches: 83, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
60 40 0.48
61 21 0.25
62 18 0.22
63 4 0.05
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (59 bp):
TATTTTAAAAACTATATAATATATCTTTCAAAAATATATTATATACGTTTTCAAAAACC
Found at i:2092765 original size:23 final size:24
Alignment explanation
Indices: 2092714--2092769 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 24
2092704 TCAAAAACCA
* *
2092714 TTTTAAAAACTATATCTATATATG
1 TTTTCAAAACTATATCTATATACG
*
2092738 CTTTCAAAACTATAT-TATATACG
1 TTTTCAAAACTATATCTATATACG
2092761 TTTTCAAAA
1 TTTTCAAAA
2092770 ACCTTTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (24 bp):
TTTTCAAAACTATATCTATATACG
Found at i:2092770 original size:24 final size:25
Alignment explanation
Indices: 2092714--2092771 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
2092704 TCAAAAACCA
*
2092714 TTTT-AAAAACTATATCTATATATG
1 TTTTCAAAAACTATATCTATATACG
*
2092738 CTTTC-AAAACTATAT-TATATACG
1 TTTTCAAAAACTATATCTATATACG
2092761 TTTTCAAAAAC
1 TTTTCAAAAAC
2092772 CTTTTTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 11 0.38
24 18 0.62
ACGTcount: A:0.41, C:0.14, G:0.03, T:0.41
Consensus pattern (25 bp):
TTTTCAAAAACTATATCTATATACG
Found at i:2092797 original size:40 final size:38
Alignment explanation
Indices: 2092777--2092870 Score: 128
Period size: 34 Copynumber: 2.6 Consensus size: 38
2092767 AAAACCTTTT
2092777 TTTTAAAA-CTATATATTATATGCTTTAAAAATCCATC
1 TTTTAAAATCTATATATTATATGCTTTAAAAATCCATC
2092814 TTTTAAAATCTATATATTATATG-TTTAAAAA---ATC
1 TTTTAAAATCTATATATTATATGCTTTAAAAATCCATC
*
2092848 ATTTAAATAT-TATATATTATATG
1 TTTTAAA-ATCTATATATTATATG
2092871 TTTTCAGAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
34 22 0.41
35 2 0.04
37 16 0.30
38 14 0.26
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (38 bp):
TTTTAAAATCTATATATTATATGCTTTAAAAATCCATC
Found at i:2092827 original size:38 final size:34
Alignment explanation
Indices: 2092777--2092891 Score: 126
Period size: 34 Copynumber: 3.2 Consensus size: 34
2092767 AAAACCTTTT
2092777 TTTTAAAA-CTATATATTATATGCTTTAAAAATCCATC
1 TTTTAAAATCTATATATTATATG-TTTAAAAA---ATC
2092814 TTTTAAAATCTATATATTATATGTTTAAAAAATC
1 TTTTAAAATCTATATATTATATGTTTAAAAAATC
* * *
2092848 ATTTAAATAT-TATATATTATATGTTTTCAGAAAATA
1 TTTTAAA-ATCTATATATTATATG-TTT-AAAAAATC
2092884 TTTTAAAA
1 TTTTAAAA
2092892 AATATACTAT
Statistics
Matches: 70, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
34 22 0.31
35 6 0.09
36 12 0.17
37 16 0.23
38 14 0.20
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.46
Consensus pattern (34 bp):
TTTTAAAATCTATATATTATATGTTTAAAAAATC
Found at i:2092889 original size:36 final size:35
Alignment explanation
Indices: 2092777--2092891 Score: 123
Period size: 38 Copynumber: 3.2 Consensus size: 35
2092767 AAAACCTTTT
2092777 TTTTAAAA-CTATATATTATATGCTTT-AAAAATCCA
1 TTTTAAAATCTATATATTATATG-TTTAAAAAAT-CA
2092812 TCTTTTAAAATCTATATATTATATGTTTAAAAAATCA
1 --TTTTAAAATCTATATATTATATGTTTAAAAAATCA
*
2092849 -TTTAAATAT-TATATATTATATGTTTTCAGAAAAT-A
1 TTTTAAA-ATCTATATATTATATG-TTT-AAAAAATCA
2092884 TTTTAAAA
1 TTTTAAAA
2092892 AATATACTAT
Statistics
Matches: 71, Mismatches: 1, Indels: 14
0.83 0.01 0.16
Matches are distributed among these distances:
34 19 0.27
35 7 0.10
36 12 0.17
37 13 0.18
38 20 0.28
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.46
Consensus pattern (35 bp):
TTTTAAAATCTATATATTATATGTTTAAAAAATCA
Found at i:2093131 original size:27 final size:27
Alignment explanation
Indices: 2093094--2093146 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
2093084 TGCGTGTGTT
*
2093094 TATATATTATATATATATACAAATAAA
1 TATACATTATATATATATACAAATAAA
*
2093121 TATACATTATATATATATACATATAA
1 TATACATTATATATATATACAAATAA
2093147 TGTATATATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (27 bp):
TATACATTATATATATATACAAATAAA
Found at i:2093154 original size:15 final size:15
Alignment explanation
Indices: 2093094--2093142 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
2093084 TGCGTGTGTT
*
2093094 TATATATTATATATA
1 TATACATTATATATA
*
2093109 TATACA--A-ATAAA
1 TATACATTATATATA
2093121 TATACATTATATATA
1 TATACATTATATATA
2093136 TATACAT
1 TATACAT
2093143 ATAATGTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
12 10 0.36
13 1 0.04
14 1 0.04
15 16 0.57
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (15 bp):
TATACATTATATATA
Found at i:2094095 original size:22 final size:21
Alignment explanation
Indices: 2094047--2094096 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
2094037 TAGTAAAGTG
*
2094047 TTATTTAAAATATTATTTGTT
1 TTATTAAAAATATTATTTGTT
2094068 TTATTAAAAATATTAATTT-TT
1 TTATTAAAAATATT-ATTTGTT
2094089 TTAATTAA
1 TT-ATTAA
2094097 TTTTAGATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
TTATTAAAAATATTATTTGTT
Found at i:2094178 original size:44 final size:46
Alignment explanation
Indices: 2094096--2094188 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 46
2094086 TTTTTAATTA
* * * * *
2094096 ATTTTAGATAAAAAAAATAATATTTTAGATAACGTCTAATATTAAC
1 ATTTTAGATAAAAAAAATAAAACTTAAGACAACATCTAATATTAAC
2094142 ATTTTAGAT-AAAAAAATAAAACTTAAG-CAACATCTAATATTAAC
1 ATTTTAGATAAAAAAAATAAAACTTAAGACAACATCTAATATTAAC
2094186 ATT
1 ATT
2094189 ATGATAGAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 18 0.43
45 15 0.36
46 9 0.21
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (46 bp):
ATTTTAGATAAAAAAAATAAAACTTAAGACAACATCTAATATTAAC
Found at i:2098196 original size:75 final size:76
Alignment explanation
Indices: 2098102--2098255 Score: 238
Period size: 75 Copynumber: 2.0 Consensus size: 76
2098092 TATGTTGCAT
*
2098102 TTTCATATCAGTACTTTGTGTACTTTCGGCACTATGTGTGCATCCATGGTATTCATAATGAG-TT
1 TTTCATATCAATACTTTGTGTACTTTCGGCACTATGTGTGCATCCATGGTATTCATAATGAGTTT
*
2098166 GTGAATTACCA
66 ATGAATTACCA
* * * *
2098177 TTTCGTATCAATATTTTGTGTACTTTTGGCACTATGTTTGCATCCATGGTATTCATAATGAGTTT
1 TTTCATATCAATACTTTGTGTACTTTCGGCACTATGTGTGCATCCATGGTATTCATAATGAGTTT
*
2098242 ATGAATTACTA
66 ATGAATTACCA
2098253 TTT
1 TTT
2098256 TGTTATATTA
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
75 57 0.80
76 14 0.20
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (76 bp):
TTTCATATCAATACTTTGTGTACTTTCGGCACTATGTGTGCATCCATGGTATTCATAATGAGTTT
ATGAATTACCA
Found at i:2101215 original size:15 final size:15
Alignment explanation
Indices: 2101195--2101388 Score: 354
Period size: 15 Copynumber: 13.0 Consensus size: 15
2101185 TAATAACCTT
2101195 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
2101210 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
2101225 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
2101240 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
2101255 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
2101270 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
2101285 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
2101300 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
2101315 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
2101330 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
2101345 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
2101360 A-TTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
2101374 AATTATTATAAAATA
1 ATTTATTTTAAAATA
2101389 TGAATTGATT
Statistics
Matches: 175, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
14 13 0.07
15 162 0.93
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:2101411 original size:37 final size:33
Alignment explanation
Indices: 2101210--2101443 Score: 124
Period size: 30 Copynumber: 7.5 Consensus size: 33
2101200 TTTTAAAATA
* * * *
2101210 ATTTATTTTAAAATAATTTATT--T-TAAAATA
1 ATTTATTTTAAAATAAATTATTAGTATAGATTG
* * * *
2101240 ATTTATTTTAAAATAATTTATT--T-TAAAATA
1 ATTTATTTTAAAATAAATTATTAGTATAGATTG
* * * *
2101270 ATTTATTTTAAAATAATTTATT--T-TAAAATA
1 ATTTATTTTAAAATAAATTATTAGTATAGATTG
* * * *
2101300 ATTTATTTTAAAATAATTTATT--T-TAAAATA
1 ATTTATTTTAAAATAAATTATTAGTATAGATTG
* *
2101330 ATTTATTTTAAAATAATTTATTA-TA-A-AAT-
1 ATTTATTTTAAAATAAATTATTAGTATAGATTG
*
2101359 AATTATTTTAAAATAAATTATTA-TAAAATATGAATTG
1 ATTTATTTTAAAATAAATTATTAGT---ATA-G-ATTG
*
2101396 ATTTATTTTAAAATAATTTATTAGTATAGATTG
1 ATTTATTTTAAAATAAATTATTAGTATAGATTG
2101429 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
2101444 TGGATTGATT
Statistics
Matches: 188, Mismatches: 5, Indels: 19
0.89 0.02 0.09
Matches are distributed among these distances:
29 22 0.12
30 115 0.61
31 2 0.01
32 1 0.01
33 20 0.11
34 1 0.01
35 3 0.02
36 2 0.01
37 21 0.11
38 1 0.01
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (33 bp):
ATTTATTTTAAAATAAATTATTAGTATAGATTG
Found at i:2101508 original size:80 final size:79
Alignment explanation
Indices: 2101387--2101863 Score: 360
Period size: 80 Copynumber: 5.9 Consensus size: 79
2101377 TATTATAAAA
* * * *
2101387 TATGAATTGATTTATTTTAAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGA
1 TATGGATTGATTTATTTT-AAATAATTTAATAATATGGATTGATTTATTTTAAAATATGGATTGA
2101452 TTTATTATTGTAGTTG
65 TTTATTATTGTA-TTG
2101468 TATGGATTGATTTATTTTAAATAATTTAATAATATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTAATAATATGGATTGATTTATTTTAAAATATGGATTGAT
*
2101533 TTATTTTAAATAATTTATTAG
66 TTA--TT--AT--TGTATT-G
***
2101554 TATGGATTGATTTA---T---T--TTT-A-AATATGGATTGATTTATTATTGTAGTTGTATGGAT
1 TATGGATTGATTTATTTTAAATAATTTAATAATATGGATTGATTTA-T-TT-TA-AAATATGGAT
*
2101609 TGATTTATTTTAAATAATTTATTAG
62 TGATTTA--TT--AT--TGTATT-G
** * * ***
2101634 TATGGATTGATTTATTTT-AA-AA--TAAGGAT-T-GATTTA-TTATTGTAGTTGTATGGATTGA
1 TATGGATTGATTTATTTTAAATAATTTAATAATATGGATTGATTTATTTTA-AAATATGGATTGA
*
2101692 TTTATTTTAAATAATTTATTAG
65 TTTA--TT--AT--TGTATT-G
* * *
2101714 TATGGATTGATTTATTTTAAATAATTTATTAGA-ATGGATTGATTTATTTTAAAATAAGAATTGA
1 TATGGATTGATTTATTTTAAATAATTTAATA-ATATGGATTGATTTATTTTAAAATATGGATTGA
2101778 TTTATTATTGTAGTTG
65 TTTATTATTGTA-TTG
* *
2101794 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTAATAATATGGATTGATTTATTTTAAAATATGGATTGAT
2101859 TTATT
66 TTATT
2101864 TTAAATAATT
Statistics
Matches: 341, Mismatches: 25, Indels: 61
0.80 0.06 0.14
Matches are distributed among these distances:
76 16 0.05
77 2 0.01
78 5 0.01
79 2 0.01
80 220 0.65
81 22 0.06
82 7 0.02
83 5 0.01
84 12 0.04
85 6 0.02
86 37 0.11
87 7 0.02
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (79 bp):
TATGGATTGATTTATTTTAAATAATTTAATAATATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTATTG
Found at i:2101509 original size:32 final size:32
Alignment explanation
Indices: 2101468--2101577 Score: 123
Period size: 32 Copynumber: 3.7 Consensus size: 32
2101458 ATTGTAGTTG
2101468 TATGGATTGATTTATTTTAAATAATTTAATAA
1 TATGGATTGATTTATTTTAAATAATTTAATAA
2101500 TATGGATTG----A-TTT--AT--TTTAA-AA
1 TATGGATTGATTTATTTTAAATAATTTAATAA
* *
2101522 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTAATAA
2101554 TATGGATTGATTTATTTTTAAATA
1 TATGGATTGATTTA-TTTTAAATA
2101578 TGGATTGATT
Statistics
Matches: 65, Mismatches: 2, Indels: 21
0.74 0.02 0.24
Matches are distributed among these distances:
22 11 0.17
23 5 0.08
25 2 0.03
26 1 0.02
27 6 0.09
28 1 0.02
29 2 0.03
31 4 0.06
32 24 0.37
33 9 0.14
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTAATAA
Found at i:2101523 original size:22 final size:22
Alignment explanation
Indices: 2101492--2101542 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
2101482 TTTTAAATAA
2101492 TTTAATAATATGGATTGATTTAT
1 TTTAA-AATATGGATTGATTTAT
2101515 TTTAAAATATGGATTGATTTAT
1 TTTAAAATATGGATTGATTTAT
2101537 TTTAAA
1 TTTAAA
2101543 TAATTTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 23 0.82
23 5 0.18
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TTTAAAATATGGATTGATTTAT
Found at i:2101568 original size:18 final size:18
Alignment explanation
Indices: 2101545--2101592 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
2101535 ATTTTAAATA
*
2101545 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
2101563 ATTTATTTTTAAATATGGATTG
1 ATTTA---TT-AATATGGATTG
2101585 ATTTATTA
1 ATTTATTA
2101593 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
19 2 0.08
21 2 0.08
22 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:2101570 original size:134 final size:133
Alignment explanation
Indices: 2101376--2101783 Score: 529
Period size: 134 Copynumber: 3.2 Consensus size: 133
2101366 TTAAAATAAA
* * *
2101376 TTATTATAAAATATGAATTGATTTATTTTAAAATAATTTATTAGTATAGATTGATTTATTTTAAA
1 TTATTTTAAAATAAGAATTGATTTATTTT-AAATAATTTATTAGTATGGATTGATTTATTTT-AA
*
2101441 ATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTAATAATATGGA
64 ATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAATATGGA
2101506 TTGAT
129 TTGAT
* *
2101511 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTTAAA
1 TTATTTTAAAATAAGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-TTTTAAA
*
2101576 TATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
65 TATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAATATGGAT
2101641 TGAT
130 TGAT
* *
2101645 TTATTTTAAAATAAGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AA
1 TTATTTTAAAATAAGAATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAA
2101702 -AT--A---A--T-TTA-T-TA---GTATGGATTGATTTATTTTAAATAATTTATTAGA-ATGGA
65 TATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTA-ATATGGA
2101752 TTGAT
129 TTGAT
2101757 TTATTTTAAAATAAGAATTGATTTATT
1 TTATTTTAAAATAAGAATTGATTTATT
2101784 ATTGTAGTTG
Statistics
Matches: 259, Mismatches: 9, Indels: 31
0.87 0.03 0.10
Matches are distributed among these distances:
112 66 0.25
115 2 0.01
116 1 0.00
117 3 0.01
118 1 0.00
120 1 0.00
123 1 0.00
125 2 0.01
126 2 0.01
127 4 0.02
128 18 0.07
129 2 0.01
130 2 0.01
132 2 0.01
134 121 0.47
135 31 0.12
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (133 bp):
TTATTTTAAAATAAGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAT
ATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAATATGGATT
GAT
Found at i:2101579 original size:22 final size:22
Alignment explanation
Indices: 2101554--2101624 Score: 81
Period size: 22 Copynumber: 3.1 Consensus size: 22
2101544 AATTTATTAG
2101554 TATGGATTGATTTATTTTTAAA
1 TATGGATTGATTTATTTTTAAA
**
2101576 TATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTATT-TT-TA--AA
2101602 TATGGATTGATTTA-TTTTAAA
1 TATGGATTGATTTATTTTTAAA
2101623 TA
1 TA
2101625 ATTTATTAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
21 2 0.05
22 16 0.39
23 4 0.10
24 4 0.10
25 1 0.02
26 14 0.34
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.54
Consensus pattern (22 bp):
TATGGATTGATTTATTTTTAAA
Found at i:2101641 original size:192 final size:193
Alignment explanation
Indices: 2101468--2101874 Score: 611
Period size: 192 Copynumber: 2.1 Consensus size: 193
2101458 ATTGTAGTTG
2101468 TATGGATTGATTTATTTTAAATAATTTAATAATATGGATTGATTTA-TTT-TAA-A-A-TATGGA
1 TATGGATTGATTTATTTTAAATAATTTAATAATATGGATTGATTTATTTTATAATATAGTATGGA
* * * *
2101528 TTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTTAAATATGGATTGATTTATTA
66 TTGATTTATTTTAAATAATTTATTAGAATGGATTGATTTATTTTAAAATAAGAATTGATTTATTA
2101593 TTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
131 TTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * * **
2101656 TAAGGATTGATTTA--TT--AT--TGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGT
1 TATGGATTGATTTATTTTAAATAATTTAATAATATGGATTGATTTATTTT--ATAA--TA-TAGT
2101715 ATGGATTGATTTATTTTAAATAATTTATTAGAATGGATTGATTTATTTTAAAATAAGAATTGATT
61 ATGGATTGATTTATTTTAAATAATTTATTAGAATGGATTGATTTATTTTAAAATAAGAATTGATT
2101780 TATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA
126 TATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA
2101845 AAA
191 AAA
2101848 TATGGATTGATTTATTTTAAATAATTT
1 TATGGATTGATTTATTTTAAATAATTT
2101875 TCAAAATTCG
Statistics
Matches: 192, Mismatches: 11, Indels: 22
0.85 0.05 0.10
Matches are distributed among these distances:
182 18 0.09
183 3 0.02
184 2 0.01
186 5 0.03
188 13 0.07
189 1 0.01
191 1 0.01
192 143 0.74
194 2 0.01
196 2 0.01
198 2 0.01
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (193 bp):
TATGGATTGATTTATTTTAAATAATTTAATAATATGGATTGATTTATTTTATAATATAGTATGGA
TTGATTTATTTTAAATAATTTATTAGAATGGATTGATTTATTTTAAAATAAGAATTGATTTATTA
TTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:2101722 original size:32 final size:32
Alignment explanation
Indices: 2101681--2101766 Score: 163
Period size: 32 Copynumber: 2.7 Consensus size: 32
2101671 TATTGTAGTT
2101681 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
2101713 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
2101745 GAATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
2101767 ATAAGAATTG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:2101779 original size:214 final size:215
Alignment explanation
Indices: 2101387--2101783 Score: 586
Period size: 214 Copynumber: 1.9 Consensus size: 215
2101377 TATTATAAAA
*
2101387 TATGAATTGATTTATTTTAAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGA
1 TATGAATTGATTTATTTTAAAATAATTTATTAGTATAGATTGATTTATTTTAAAATAAGGATTGA
2101452 TTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTAATAATATGGATTGATTTATTT
66 TTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTAATAATATGGATTGATTTATTT
** * * * * *
2101517 TAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTTAAATATGGA
131 TAAAATATGGATTGATGGATTTGAAATAATTTATAAATAAGAATTGATTTATTTTTAAATATGGA
2101582 TTGATTTATTATTGTAGTTG
196 TTGATTTATTATTGTAGTTG
* *
2101602 TATGGATTGATTTATTTT-AAATAATTTATTAGTATGGATTGATTTATTTTAAAATAAGGATTGA
1 TATGAATTGATTTATTTTAAAATAATTTATTAGTATAGATTGATTTATTTTAAAATAAGGATTGA
* *
2101666 TTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTT
66 TTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTAATAATATGGATTGATTTATTT
** ** *
2101731 T-AAATAATTTATTAGAATGGA-TTGATTTATTTTA-AAATAAGAATTGATTTATT
131 TAAAAT-ATGGATT-G-ATGGATTTGAAATAATTTATAAATAAGAATTGATTTATT
2101784 ATTGTAGTTG
Statistics
Matches: 162, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
213 4 0.02
214 128 0.79
215 27 0.17
216 3 0.02
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (215 bp):
TATGAATTGATTTATTTTAAAATAATTTATTAGTATAGATTGATTTATTTTAAAATAAGGATTGA
TTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTAATAATATGGATTGATTTATTT
TAAAATATGGATTGATGGATTTGAAATAATTTATAAATAAGAATTGATTTATTTTTAAATATGGA
TTGATTTATTATTGTAGTTG
Found at i:2101851 original size:22 final size:22
Alignment explanation
Indices: 2101826--2101868 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2101816 AATTTATTAG
2101826 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2101848 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2101869 TAATTTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2101875 original size:112 final size:111
Alignment explanation
Indices: 2101433--2101881 Score: 473
Period size: 112 Copynumber: 4.1 Consensus size: 111
2101423 AGATTGATTT
* *
2101433 ATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTAAT
1 ATTTTAAAATAAGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATT
*
2101498 AATATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATA
66 AGTATGGATTGATTTATTTT-AAATATGGATTGATTTATTTTAAATA
* * * ** *
2101545 A-TTTATTAGTATGGATTGATTTATT-TT-TA--AATATGGATTGATTTA--TT--AT--TGTAG
1 ATTTTA-AAATAAGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTA-
* * * * *
2101599 TT-GTATGGATTGATTTATTTTAAATA---ATTTATTAGTATGGATTGATTT
64 TTAGTATGGATTGATTTATTTTAAATATGGATTGATT--TAT--TTTAAATA
2101647 ATTTTAAAATAAGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATT
1 ATTTTAAAATAAGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATT
** ** * * *
2101712 AGTATGGATTGATTTATTTTAAATAATTTATTAGAATGGA--TTGATTT
66 AGTATGGATTGATTTATTTTAAAT-ATGGATT-G-ATTTATTTTAAATA
*
2101759 ATTTTAAAATAAGAATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATT
1 ATTTTAAAATAAGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATT
2101824 AGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATA
66 AGTATGGATTGATTTATTTT-AAATATGGATTGATTTATTTTAAATA
2101871 ATTTTCAAAAT
1 ATTTT-AAAAT
2101882 TCGACTAAAC
Statistics
Matches: 280, Mismatches: 29, Indels: 55
0.77 0.08 0.15
Matches are distributed among these distances:
98 6 0.02
100 3 0.01
101 5 0.02
102 42 0.15
103 7 0.03
104 4 0.01
106 16 0.06
108 16 0.06
110 7 0.03
111 9 0.03
112 149 0.53
113 10 0.04
116 4 0.01
118 2 0.01
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (111 bp):
ATTTTAAAATAAGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATT
AGTATGGATTGATTTATTTTAAATATGGATTGATTTATTTTAAATA
Found at i:2108792 original size:29 final size:29
Alignment explanation
Indices: 2108760--2108911 Score: 117
Period size: 29 Copynumber: 5.2 Consensus size: 29
2108750 ATTTTAGTGA
* *
2108760 TATTTTAGG-AATTAATTCGAAATGGGTGC
1 TATTTT-GGAAATTAATTTGAAAAGGGTGC
* ** **
2108789 TATTTTGGTAATTTTTTTTTGAAAAAAGTGC
1 TATTTTGG-AA-ATTAATTTGAAAAGGGTGC
** * ** *
2108820 TATTCGGGGAATTAATTTGAAATTGGTGT
1 TATTTTGGAAATTAATTTGAAAAGGGTGC
**
2108849 TATTTTGGAAATTAATTCAAAAAGGGTGC
1 TATTTTGGAAATTAATTTGAAAAGGGTGC
* *
2108878 TATTTTGGAAATTATTTTAAAAAGGGTGC
1 TATTTTGGAAATTAATTTGAAAAGGGTGC
2108907 TATTT
1 TATTT
2108912 GTGTAAAATA
Statistics
Matches: 93, Mismatches: 27, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
28 2 0.02
29 71 0.76
30 2 0.02
31 18 0.19
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.43
Consensus pattern (29 bp):
TATTTTGGAAATTAATTTGAAAAGGGTGC
Found at i:2108877 original size:89 final size:89
Alignment explanation
Indices: 2108726--2108895 Score: 225
Period size: 89 Copynumber: 1.9 Consensus size: 89
2108716 CCCGTTGACC
* * ** * *
2108726 AGTGCTATTCTGGGAATTTATTCGATTTTAGTGATATTTTAGGAATTAATTCGAAATGGGTGCTA
1 AGTGCTATTCGGGGAATTAATTCGAAATTAGTGATATTTTAGGAATTAATTCAAAAAGGGTGCTA
* *
2108791 TTTTGGTAATTTTTTTTTGAAAAA
66 TTTTGGAAATTATTTTTTGAAAAA
* * *
2108815 AGTGCTATTCGGGGAATTAATTTGAAATTGGTGTTATTTT-GGAAATTAATTCAAAAAGGGTGCT
1 AGTGCTATTCGGGGAATTAATTCGAAATTAGTGATATTTTAGG-AATTAATTCAAAAAGGGTGCT
2108879 ATTTTGGAAATTATTTT
65 ATTTTGGAAATTATTTT
2108896 AAAAAGGGTG
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
88 2 0.03
89 67 0.97
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.44
Consensus pattern (89 bp):
AGTGCTATTCGGGGAATTAATTCGAAATTAGTGATATTTTAGGAATTAATTCAAAAAGGGTGCTA
TTTTGGAAATTATTTTTTGAAAAA
Done.