Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 210 of 378
Found at i:62173217 original size:39 final size:40
Alignment explanation
Indices: 62173145--62173394 Score: 267
Period size: 40 Copynumber: 6.3 Consensus size: 40
62173135 ACCCAATTAT
* * ** *
62173145 CTTCAGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
* * * *
62173183 CTTCGGGTCTTAGTCCGGATATGGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
* *
62173223 CTGCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
*
62173263 CTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGC
* * * *
62173303 CTTCAGGACTTAGCCCGGA-ATTAGTAACTTGCACAAACGC
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGC
* * *
62173343 CTTCGGGACTTAGCCCGGA-ATTAATCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGC
62173383 CTTCGGGACTTA
1 CTTCGGGACTTA
62173395 ACCCCGTTAG
Statistics
Matches: 185, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
38 10 0.05
39 17 0.09
40 158 0.85
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
Found at i:62173243 original size:40 final size:40
Alignment explanation
Indices: 62173181--62173394 Score: 279
Period size: 40 Copynumber: 5.3 Consensus size: 40
62173171 CTCGCACAAG
* * * *
62173181 GCCTTCGGGTCTTAGTCCGG-ATATGGTCACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAAT
* *
62173221 GCCTGCGGGACTTAGCCCGG-ATATAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAAT
*
62173261 GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAAT
* * *
62173301 GCCTTCAGGACTTAGCCCGGAATTAGTAACTTGCACAAAC
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAAT
* *
62173341 GCCTTCGGGACTTAGCCCGGAATTAATCACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAAT
*
62173381 GTCTTCGGGACTTA
1 GCCTTCGGGACTTA
62173395 ACCCCGTTAG
Statistics
Matches: 157, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 155 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAAT
Found at i:62176671 original size:41 final size:41
Alignment explanation
Indices: 62176590--62176725 Score: 175
Period size: 41 Copynumber: 3.3 Consensus size: 41
62176580 GGCTATTTGA
** *
62176590 GGCACTTAGTGTGCGA-TTTGACATAGCTTCGGCTATATAT
1 GGCACTTAGTGTGCGAGAATGAGATAGCTTCGGCTATATAT
*
62176630 GGCACTTAGTGTGCGAGAATGAGATAGCTTCGGCTACATAT
1 GGCACTTAGTGTGCGAGAATGAGATAGCTTCGGCTATATAT
* * * *
62176671 GGCACTTAGTGTGTGAGAAATGTGATAGCTTCAGCTATGTAT
1 GGCACTTAGTGTGCGAG-AATGAGATAGCTTCGGCTATATAT
*
62176713 GGCACTTAATGTG
1 GGCACTTAGTGTG
62176726 TGATTTGAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 16 0.19
41 36 0.43
42 32 0.38
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (41 bp):
GGCACTTAGTGTGCGAGAATGAGATAGCTTCGGCTATATAT
Found at i:62180782 original size:22 final size:24
Alignment explanation
Indices: 62180752--62180800 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 24
62180742 ATTAAGAAAT
*
62180752 TTTTCTTA-TATATATAATATA-AA
1 TTTTCTTATTA-AAATAATATATAA
62180775 TTTT-TTATTAAAATAATATATAA
1 TTTTCTTATTAAAATAATATATAA
62180798 TTT
1 TTT
62180801 ATAAGGAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTTCTTATTAAAATAATATATAA
Found at i:62189421 original size:19 final size:20
Alignment explanation
Indices: 62189397--62189434 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
62189387 GGTACCACCA
62189397 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
62189416 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
62189435 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:62191051 original size:28 final size:27
Alignment explanation
Indices: 62190988--62191057 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
62190978 ATAGTGAGTC
*
62190988 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
62191015 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
62191043 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
62191058 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:62194697 original size:19 final size:20
Alignment explanation
Indices: 62194673--62194710 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
62194663 GGTACCACCA
62194673 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
62194692 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
62194711 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:62195050 original size:93 final size:93
Alignment explanation
Indices: 62194940--62195110 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
62194930 ACCCCTAAGT
* *
62194940 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
62195005 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
62195033 GAACTCGGACTCAACTCAACGAGTTCTGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
62195098 CGAGTTCGGATGC
66 CGAGTTCGGATGC
62195111 TCGACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:62195126 original size:46 final size:46
Alignment explanation
Indices: 62194935--62195113 Score: 184
Period size: 46 Copynumber: 3.9 Consensus size: 46
62194925 AACCCACCCC
* * *
62194935 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCA
* * *
62194981 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CATCCA
* * * ** *
62195029 TCA-CGAACTCGGACTCAACTCAACGAGTTCTGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCA
*
62195074 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCG
62195114 ACCATCCTAG
Statistics
Matches: 106, Mismatches: 20, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 64 0.60
47 30 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCA
Found at i:62195563 original size:30 final size:30
Alignment explanation
Indices: 62195529--62195588 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
62195519 ATTTAATACG
62195529 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
62195559 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
62195589 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:62204313 original size:45 final size:45
Alignment explanation
Indices: 62204248--62204364 Score: 159
Period size: 45 Copynumber: 2.6 Consensus size: 45
62204238 TATCGTACAG
* * *
62204248 TACTATTCGAGCCTTTGAGCCTAGAAGGCTATAATGTCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGAAGGCTATAATGTCGGTGAAA
*
62204293 TACTATTCGGGCCTTCGAGCCTAGTAGGCTATAATGTCGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGAAGGCTATAATGTCGGTGAAA
*
62204338 TGA-TA-TCAGG-CTTCGAGCCTAGAAGGC
1 T-ACTATTCGGGCCTTCGAGCCTAGAAGGC
62204365 GAAATTCTGG
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
43 16 0.25
44 4 0.06
45 44 0.68
46 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGAAGGCTATAATGTCGGTGAAA
Found at i:62212051 original size:43 final size:45
Alignment explanation
Indices: 62211936--62212052 Score: 177
Period size: 45 Copynumber: 2.6 Consensus size: 45
62211926 TATCGTACAG
* * *
62211936 TACTATTCGGGCCTTTGAGCCTAGCAAGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
62211981 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
62212026 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGC
1 T-ACTATTCGGGCCTTCGAGCCTAGCAGGC
62212053 AAAATTCTGG
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
43 17 0.25
44 5 0.07
45 45 0.66
46 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:62215036 original size:28 final size:28
Alignment explanation
Indices: 62215004--62215073 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
62214994 AATGAGATTG
*
62215004 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
62215032 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
62215060 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
62215074 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:62222912 original size:28 final size:28
Alignment explanation
Indices: 62222880--62222949 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
62222870 AATGAGATTG
*
62222880 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
62222908 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
62222936 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
62222950 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:62230740 original size:43 final size:45
Alignment explanation
Indices: 62230624--62230740 Score: 159
Period size: 45 Copynumber: 2.6 Consensus size: 45
62230614 TATCGTACAG
* * *
62230624 TACTATTCGGGCCTTTGAGCCTAGCAAGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
*
62230669 TACTATTTGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
*
62230714 TGA-TA-TCGGG-CTTCGAGCCAAGCAGGC
1 T-ACTATTCGGGCCTTCGAGCCTAGCAGGC
62230741 GAAATTCTGG
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
43 16 0.25
44 4 0.06
45 44 0.68
46 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:62236644 original size:79 final size:82
Alignment explanation
Indices: 62236504--62236688 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
62236494 TCGAATGATG
* * *
62236504 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
62236568 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
62236584 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
62236646 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
62236664 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62236689 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:62236696 original size:40 final size:40
Alignment explanation
Indices: 62236505--62236696 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
62236495 CGAATGATGT
* * * * *
62236505 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
62236545 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
62236585 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
62236624 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
62236664 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
62236697 GTTATATCGG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:62240286 original size:40 final size:40
Alignment explanation
Indices: 62240231--62240422 Score: 278
Period size: 40 Copynumber: 4.8 Consensus size: 40
62240221 ATAACCACAA
* * *
62240231 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGGTATAACAACTC
* *
62240271 GCACAAATGCCTTCGGGTCTTAGCTCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGGTATAACAACTC
62240311 GCACAAATGCCTTCGGGTCTTAGCCCGGGTATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGGTATAACAACTC
* * *
62240351 GCACAAATGCCTTCGGGTCTTAGCCTGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGGTATAA-CAACTC
* *
62240391 GCATAAATGCCTTCGGGACTTAGCCCGGGTAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGGTAT
62240423 CATTCAAATG
Statistics
Matches: 137, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 136 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGGTATAACAACTC
Found at i:62243677 original size:79 final size:80
Alignment explanation
Indices: 62243534--62243741 Score: 190
Period size: 79 Copynumber: 2.6 Consensus size: 80
62243524 ACCTTCGGAG
* * ** * * * *
62243534 CTTAA-CCGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCA
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
62243598 CCAAGGCCTACGGGA
66 CCAAGGCCTACGGGA
* * * *
62243613 CTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCG
1 CTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCG
* * * *
62243675 CACGAATGCCTTCGGGT
64 CACCAAGGCCTACGGGA
* * * *
62243692 CTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
62243742 TTATAATTTC
Statistics
Matches: 104, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
78 2 0.02
79 65 0.62
80 36 0.35
81 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
CCAAGGCCTACGGGA
Found at i:62243686 original size:40 final size:40
Alignment explanation
Indices: 62243634--62243741 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
62243624 TATCACGATT
** *
62243634 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
62243674 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
62243714 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
62243742 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:62250770 original size:40 final size:40
Alignment explanation
Indices: 62250689--62250798 Score: 204
Period size: 40 Copynumber: 2.8 Consensus size: 40
62250679 CACAATTGCG
*
62250689 CTCGCACAATTGCCTTCGGGTCTTAG-CCGGATATAACAA
1 CTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAA
62250728 CTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAA
1 CTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAA
62250768 CTCGCACAAATGCCTTCGGGTCTTAGCCCGG
1 CTCGCACAAATGCCTTCGGGTCTTAGCCCGG
62250799 GTATCATTCA
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
39 25 0.36
40 44 0.64
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.24
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAA
Found at i:62254294 original size:59 final size:60
Alignment explanation
Indices: 62254198--62254330 Score: 205
Period size: 59 Copynumber: 2.2 Consensus size: 60
62254188 GACAAGATTG
* * *
62254198 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
* * *
62254258 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
62254317 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
62254331 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 52 0.78
60 15 0.22
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (60 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
Found at i:62254342 original size:29 final size:29
Alignment explanation
Indices: 62254228--62254330 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
62254218 AAAATTGTAC
*
62254228 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
62254257 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
62254287 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
62254316 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
62254331 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:62261895 original size:47 final size:47
Alignment explanation
Indices: 62261844--62262236 Score: 662
Period size: 47 Copynumber: 8.4 Consensus size: 47
62261834 GATGTACAAG
62261844 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
62261891 GTGTGTATATGTGATAAGGCCTAATGGCCAATCTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
62261938 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
62261985 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
62262032 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
62262079 GTGTATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
62262126 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
62262173 GTGTGTATATGTGATAA-GCCTAATGGCCAATGTGATGGATGTGAAA
1 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
62262219 GTGTATAAATGTGATAAG
1 GTGTGTATATGTGATAAG
62262237 TCCCGAAAGG
Statistics
Matches: 327, Mismatches: 18, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
46 41 0.13
47 286 0.87
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:62266142 original size:32 final size:33
Alignment explanation
Indices: 62266106--62266199 Score: 95
Period size: 31 Copynumber: 2.9 Consensus size: 33
62266096 CTATGGGCCA
* *
62266106 TACTGTTATCTGAAAAGGGCTAAGGCCCAGT-T
1 TACTGTTATCTGAAAAGGGCTTAGGCCCAGTAC
*
62266138 TACTG-TATTCTGAAAA-GGCTTCGGCCCAGTACC
1 TACTGTTA-TCTGAAAAGGGCTTAGGCCCAGTA-C
* * *
62266171 CATTGTTATCTGAATAGGGCTTAGGCCCA
1 TACTGTTATCTGAAAAGGGCTTAGGCCCA
62266200 ATGGGCTTGA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
31 14 0.28
32 13 0.26
33 10 0.20
34 13 0.26
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (33 bp):
TACTGTTATCTGAAAAGGGCTTAGGCCCAGTAC
Found at i:62268097 original size:15 final size:15
Alignment explanation
Indices: 62268077--62268106 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
62268067 GGATGTTATC
62268077 ATTATTATTATTTTT
1 ATTATTATTATTTTT
62268092 ATTATTATTATTTTT
1 ATTATTATTATTTTT
62268107 TATGTTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTATTATTATTTTT
Found at i:62274958 original size:17 final size:18
Alignment explanation
Indices: 62274916--62274964 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
62274906 AGTTGAAAAG
62274916 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
62274935 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
62274952 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
62274965 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:62275853 original size:40 final size:40
Alignment explanation
Indices: 62275787--62275953 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
62275777 AAATTGAATG
* * *
62275787 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
62275826 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
62275866 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
62275906 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
62275946 ATATCCGG
1 ATATCCGG
62275954 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:62281315 original size:12 final size:12
Alignment explanation
Indices: 62281298--62281330 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
62281288 TAAGGTGGAA
*
62281298 AAATGGCTTTGC
1 AAATGGCCTTGC
62281310 AAATGGCCTTGC
1 AAATGGCCTTGC
62281322 AAATGGCCT
1 AAATGGCCT
62281331 ATTTTTGTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (12 bp):
AAATGGCCTTGC
Found at i:62282799 original size:21 final size:20
Alignment explanation
Indices: 62282755--62282801 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
62282745 CAGTGGTTTT
*
62282755 CACATGAGCGTGTGCTTGTC
1 CACATGAGCGTGTGATTGTC
62282775 CACATGAGCGTGTGGGATT-TC
1 CACATGAGCGTGT--GATTGTC
62282796 CACATG
1 CACATG
62282802 GGCTTGTGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 13 0.54
21 8 0.33
22 3 0.12
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (20 bp):
CACATGAGCGTGTGATTGTC
Found at i:62295040 original size:42 final size:43
Alignment explanation
Indices: 62294992--62295106 Score: 135
Period size: 42 Copynumber: 2.7 Consensus size: 43
62294982 TCTGAGATGT
* *
62294992 CGTGTAAGACCATGTCTGGGACATCGGCATCG-TATCT-GATTT
1 CGTGTAAGACCATGTCTGGGACATCGGCATCGATA-CTAAATTA
* * **
62295034 TGTGTAAGACCCTGTCTGGGACAGAGGCATCGATACTAAATTA
1 CGTGTAAGACCATGTCTGGGACATCGGCATCGATACTAAATTA
* *
62295077 CATGTAAGACCATGTCTGGGACATCAGCAT
1 CGTGTAAGACCATGTCTGGGACATCGGCAT
62295107 TGTACCCGTT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
42 30 0.51
43 29 0.49
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATCGGCATCGATACTAAATTA
Found at i:62295266 original size:16 final size:16
Alignment explanation
Indices: 62295245--62295276 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
62295235 AATGTAACGC
62295245 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
*
62295261 CCCAAAAATCCTGAAA
1 CCCAAAAATCCCGAAA
62295277 TCTCAAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:62296796 original size:29 final size:28
Alignment explanation
Indices: 62296754--62296857 Score: 95
Period size: 29 Copynumber: 3.6 Consensus size: 28
62296744 ATATGATTTA
62296754 GGCCTAATGGGCCATATGAAGATAAATTG
1 GGCCTAATGGGCCATATGAA-ATAAATTG
* * * * *
62296783 GGCCTAGTGGGCCATAAGAATCTGAACTG
1 GGCCTAATGGGCCATATGAA-ATAAATTG
*
62296812 GGCC-AGATGGGCCATTTG-AATAAGATTG
1 GGCCTA-ATGGGCCATATGAAATAA-ATTG
*
62296840 GGCCTAATGGGCTATATG
1 GGCCTAATGGGCCATATG
62296858 CATGTATGTA
Statistics
Matches: 58, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
27 2 0.03
28 19 0.33
29 37 0.64
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (28 bp):
GGCCTAATGGGCCATATGAAATAAATTG
Found at i:62297158 original size:27 final size:26
Alignment explanation
Indices: 62297117--62297169 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
62297107 AACCATAATT
* *
62297117 AAGGGAAAATTACCAAAATGCCCCTA
1 AAGGGAAAATGACCAAAATACCCCTA
62297143 AAGGAGAAAATGACCAAAATACCCCTA
1 AAGG-GAAAATGACCAAAATACCCCTA
62297170 GGTGTTGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.49, C:0.23, G:0.15, T:0.13
Consensus pattern (26 bp):
AAGGGAAAATGACCAAAATACCCCTA
Found at i:62301135 original size:44 final size:44
Alignment explanation
Indices: 62300999--62301165 Score: 148
Period size: 42 Copynumber: 3.9 Consensus size: 44
62300989 GTACAATGGG
* * *
62300999 CAACGTCCCAGACGTGGTCTTACATGT-AATCACATATTGATGC
1 CAACGTCCCAGACATGGTCTTACACGTAAATCACATATCGATGC
* * * *
62301042 C-ACTGT-CCAAACAGGGTCTTACACG-AACTCATATA-CGATGC
1 CAAC-GTCCCAGACATGGTCTTACACGTAAATCACATATCGATGC
** * * *
62301083 TGATGTCCCAGACATGGTATTACACGTAAATCACAAATCGATGC
1 CAACGTCCCAGACATGGTCTTACACGTAAATCACATATCGATGC
* * *
62301127 CAACGTCCCAGACGTGGTCTTACATG-AAACCACATATCG
1 CAACGTCCCAGACATGGTCTTACACGTAAATCACATATCG
62301166 GAATCCTATG
Statistics
Matches: 95, Mismatches: 23, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
41 7 0.07
42 41 0.43
43 21 0.22
44 26 0.27
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (44 bp):
CAACGTCCCAGACATGGTCTTACACGTAAATCACATATCGATGC
Found at i:62310111 original size:29 final size:29
Alignment explanation
Indices: 62310069--62310126 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
62310059 TAGTACTACA
62310069 CACGTGACCTAACTATCTGATACACGTAG
1 CACGTGACCTAACTATCTGATACACGTAG
62310098 CACGTGACCTAACTATCTGATACACGTAG
1 CACGTGACCTAACTATCTGATACACGTAG
62310127 TAGCCAGCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (29 bp):
CACGTGACCTAACTATCTGATACACGTAG
Found at i:62314869 original size:18 final size:18
Alignment explanation
Indices: 62314846--62314891 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
62314836 TACTGTTTAA
62314846 ACTGTTACTGCACTGATT
1 ACTGTTACTGCACTGATT
*
62314864 ACTGTTACTGCACTGTTT
1 ACTGTTACTGCACTGATT
*
62314882 ATTGTTACTG
1 ACTGTTACTG
62314892 TAATGGGCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (18 bp):
ACTGTTACTGCACTGATT
Found at i:62315853 original size:52 final size:53
Alignment explanation
Indices: 62315775--62315879 Score: 158
Period size: 52 Copynumber: 2.0 Consensus size: 53
62315765 TAATTCTCAT
* * *
62315775 GCCATGTCTAGAGTAATATGTCCGTTGAAACATTGAGTT-CGATGGATGCTTA
1 GCCATGTCTAGAGTAATATGTCCGTTGAAACATTAAATTCCAATGGATGCTTA
* *
62315827 GCCATGTCTAGAGTTATATGTCCGTTGAATCATTAAATTCCAATGGATGCTTA
1 GCCATGTCTAGAGTAATATGTCCGTTGAAACATTAAATTCCAATGGATGCTTA
62315880 AGTAGTACAC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
52 35 0.74
53 12 0.26
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (53 bp):
GCCATGTCTAGAGTAATATGTCCGTTGAAACATTAAATTCCAATGGATGCTTA
Found at i:62316686 original size:20 final size:20
Alignment explanation
Indices: 62316661--62316707 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
62316651 CCAGCACATG
* *
62316661 TTTTCATAAAATTTTAGAAT
1 TTTTCATAAAATTTTACAAC
*
62316681 TTTTCATCAAATTTTACAAC
1 TTTTCATAAAATTTTACAAC
62316701 TTTTCAT
1 TTTTCAT
62316708 TTTAGTCCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.34, C:0.13, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTTCATAAAATTTTACAAC
Found at i:62325990 original size:47 final size:47
Alignment explanation
Indices: 62325921--62326217 Score: 459
Period size: 47 Copynumber: 6.3 Consensus size: 47
62325911 CCCTTCGGGA
* * * * *
62325921 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62325968 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62326015 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
62326062 CTTATCGCACATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
62326109 CTTATCCCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62326156 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62326203 CTTATCACATATATA
1 CTTATCACATATATA
62326218 TGTATATCAT
Statistics
Matches: 226, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 226 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62326082 original size:94 final size:94
Alignment explanation
Indices: 62325921--62326217 Score: 531
Period size: 94 Copynumber: 3.2 Consensus size: 94
62325911 CCCTTCGGGA
* * * * *
62325921 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAC
62325986 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
62326015 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCGCACATATGCAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAC
62326080 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
62326109 CTTATCCCATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAC
62326174 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
62326203 CTTATCACATATATA
1 CTTATCACATATATA
62326218 TGTATATCAT
Statistics
Matches: 194, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 194 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:62338849 original size:42 final size:43
Alignment explanation
Indices: 62338747--62338901 Score: 136
Period size: 44 Copynumber: 3.6 Consensus size: 43
62338737 GGTGATTTCA
* * * * *
62338747 TGTAAGACAACGTCTGGGACGTTGGCATCGATTTGTGATTTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTTA-G
*
62338791 TGTAAGACTATGTCTGGGACATTGGCATCGTATATGAG-TTT-G
1 TGTAAGACCATGTCTGGGACATTGGCATCG-ATATGAGATTTAG
* ** * *
62338833 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATGTGA-TTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTTA-G
* * *
62338876 TGTAAGACAACGTCTAGGACATTGGC
1 TGTAAGACCATGTCTGGGACATTGGC
62338902 GTTGTATGAG
Statistics
Matches: 90, Mismatches: 17, Indels: 9
0.78 0.15 0.08
Matches are distributed among these distances:
41 8 0.09
42 27 0.30
43 20 0.22
44 30 0.33
45 5 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTTAG
Found at i:62338896 original size:43 final size:44
Alignment explanation
Indices: 62338732--62338901 Score: 145
Period size: 43 Copynumber: 4.0 Consensus size: 44
62338722 CATAGGATTC
* *
62338732 CGATAGGTGA-TTTCATGTAAGACAACGTCTGGGAC-GTTGGCAT
1 CGATATGTGAGTTACATGTAAGACAACGTCTGGGACAG-TGGCAT
* * * * * *
62338775 CGATTTGTGATTTACGTGTAAGACTATGTCTGGGACATTGGCAT
1 CGATATGTGAGTTACATGTAAGACAACGTCTGGGACAGTGGCAT
* ** * *
62338819 CG-TATATGAGTT-TGTGTAAGAC-CCTGTCTGGGACAGAGGCAT
1 CGATATGTGAGTTACATGTAAGACAAC-GTCTGGGACAGTGGCAT
* *
62338861 CGATATGTGA-TTACATGTAAGACAACGTCTAGGACATTGGC
1 CGATATGTGAGTTACATGTAAGACAACGTCTGGGACAGTGGC
62338902 GTTGTATGAG
Statistics
Matches: 99, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
42 28 0.28
43 41 0.41
44 30 0.30
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (44 bp):
CGATATGTGAGTTACATGTAAGACAACGTCTGGGACAGTGGCAT
Found at i:62340231 original size:10 final size:10
Alignment explanation
Indices: 62340216--62340241 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
62340206 TTAAAGTCAT
62340216 GTGTGTGCAA
1 GTGTGTGCAA
62340226 GTGTGTGCAA
1 GTGTGTGCAA
62340236 GTGTGT
1 GTGTGT
62340242 TTATAATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.15, C:0.08, G:0.42, T:0.35
Consensus pattern (10 bp):
GTGTGTGCAA
Found at i:62345020 original size:40 final size:40
Alignment explanation
Indices: 62344974--62345158 Score: 239
Period size: 40 Copynumber: 4.6 Consensus size: 40
62344964 CTTGCACAAG
* *
62344974 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
62345014 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
62345054 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * *
62345094 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAGA-
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAA-AT
*
62345135 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
62345159 CATTCGAATA
Statistics
Matches: 124, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 94 0.76
41 28 0.23
42 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:62353670 original size:40 final size:40
Alignment explanation
Indices: 62353505--62353672 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
62353495 AAATTGAATG
* * * * **
62353505 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGATT
* * * * **
62353545 ATATCCGGGTTAAGACCCAAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* *
62353585 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* *
62353625 CTATCCGGGCTAGGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGATT
62353665 ATATCCGG
1 ATATCCGG
62353673 TTATATTCCG
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 102 0.99
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:62357059 original size:40 final size:39
Alignment explanation
Indices: 62357014--62357178 Score: 165
Period size: 40 Copynumber: 4.2 Consensus size: 39
62357004 CGGAATATAA
62357014 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
62357054 CCGGATAGAATCTC-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTGCACAAATGCCTTCGGGTCTTAGC
* ** * *
62357092 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * *
62357132 CCGGATATAATTTC-CAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAA--TCACTGCACAAATGCCTTCGGGTCTTAGC
62357171 CCGGATAT
1 CCGGATAT
62357179 CATTCAATTT
Statistics
Matches: 103, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
38 32 0.31
39 13 0.13
40 56 0.54
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
CCGGATATAATCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:62365060 original size:40 final size:40
Alignment explanation
Indices: 62365015--62365182 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
62365005 CGGAATATAA
62365015 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
62365055 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
62365095 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
62365135 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
62365175 CCGGATAT
1 CCGGATAT
62365183 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:62365165 original size:80 final size:80
Alignment explanation
Indices: 62365031--62365180 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
62365021 ATAATCACGT
*
62365031 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
62365095 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
62365111 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
62365174 CCCGGAT
64 CCCGGAT
62365181 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:62368984 original size:28 final size:29
Alignment explanation
Indices: 62368922--62368985 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
62368912 GTGACGAGAT
** *
62368922 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCAAGCTGGAAAAATA
*
62368951 TGGCACTAAGTGTGCAAGCT-GAAAAATA
1 CGGCACTAAGTGTGCAAGCTGGAAAAATA
62368979 CGGCACT
1 CGGCACT
62368986 GGGTGTGCGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 13 0.43
29 17 0.57
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCAAGCTGGAAAAATA
Found at i:62373844 original size:29 final size:29
Alignment explanation
Indices: 62373811--62373970 Score: 169
Period size: 29 Copynumber: 5.6 Consensus size: 29
62373801 GTGACGAGAT
*
62373811 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
62373840 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
62373869 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
62373898 TGACACTATGTGTGC-AACTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* ** * * ***
62373926 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
62373955 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
62373971 GGCTTAAATT
Statistics
Matches: 112, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
28 22 0.20
29 90 0.80
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:62373881 original size:58 final size:58
Alignment explanation
Indices: 62373811--62373970 Score: 178
Period size: 57 Copynumber: 2.8 Consensus size: 58
62373801 GTGACGAGAT
* * ** *
62373811 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATATGGCACTATGTGTGCGAACTGGAAAAATA
* *
62373869 TGGCACTAAGTGTGCATGCTGGAAAAATATGACACTATGTGTGC-AACTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATATGGCACTATGTGTGCGAACTGGAAAAATA
* ** * * ***
62373926 CGGCACTGGGTGTGCGAGCTCGAAGGGTATGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCGTGCTGGAAAAATATGGCACTATGTGTGCG
62373971 GGCTTAAATT
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
57 44 0.52
58 40 0.48
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATATGGCACTATGTGTGCGAACTGGAAAAATA
Found at i:62378100 original size:12 final size:14
Alignment explanation
Indices: 62378085--62378116 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
62378075 GTGAGAACAC
62378085 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
62378097 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
62378111 ATGTGT
1 ATGTGT
62378117 TTAAAATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:62378277 original size:51 final size:51
Alignment explanation
Indices: 62378082--62378331 Score: 186
Period size: 51 Copynumber: 4.9 Consensus size: 51
62378072 ATTGTGAGAA
* * * * *
62378082 CACATGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAA-ATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTG-TAAAAGATAG-CTTAGGT
* * * ** *
62378134 CACGTGTGTAGTACTAAGTGCAGGCCACT-CGTGTACCAGAT-GGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAAAAGATAGCTTAGGT
* * ** *** * *
62378183 CGCATGTGTAGTTCTAAGTGCAGGCTACTATGCATACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAAAAGATAGCTTAGGT
* *
62378234 CACATGTGTGGTACTAAGTGCAGGCTACTATGTGTAAAAGATAGCTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAAAAGATAGCTTAGGT
* * * * *
62378285 CACAAGTGTGGTACTATGTGAAGGCCACT-T-TGTAAAGAAGATAGCTT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGT-AA-AAGATAGCTT
62378332 TGACTACAAG
Statistics
Matches: 159, Mismatches: 34, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
49 34 0.21
50 14 0.09
51 86 0.54
52 25 0.16
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAAAAGATAGCTTAGGT
Found at i:62378332 original size:51 final size:51
Alignment explanation
Indices: 62378222--62378355 Score: 148
Period size: 51 Copynumber: 2.6 Consensus size: 51
62378212 ATGCATACCC
* * * * * *
62378222 GATAGCTTCGATCACATGTGTGGTACTAAGTGCAGGCTACTATGTGTAAAA
1 GATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTATGTGTAAAA
62378273 GATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACT-T-TGTAAAGAA
1 GATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTATGTGT-AA-AA
* *
62378324 GATAGCTTT-GACTACAAGGGTGGTACTATGTG
1 GATAGCTTTGGTC-ACAAGTGTGGTACTATGTG
62378356 CAAGCCATCG
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
49 3 0.04
50 5 0.07
51 64 0.89
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (51 bp):
GATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTATGTGTAAAA
Found at i:62380786 original size:18 final size:19
Alignment explanation
Indices: 62380753--62380788 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
62380743 ATTTGGCCAT
*
62380753 ATGGGCTGGAATGGGCTAA
1 ATGGGCTCGAATGGGCTAA
62380772 ATGGGCTCG-ATGGGCTA
1 ATGGGCTCGAATGGGCTA
62380789 CTGGGACCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.22, C:0.14, G:0.42, T:0.22
Consensus pattern (19 bp):
ATGGGCTCGAATGGGCTAA
Found at i:62380909 original size:28 final size:29
Alignment explanation
Indices: 62380841--62380911 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 29
62380831 TGAATGTTAC
** *
62380841 TGGGCCTAACAGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATATGATT
*
62380870 TGGGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATATGATT
**
62380898 TGGGTTTAATGGGC
1 TGGGCCTAATGGGC
62380912 TAGATACAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 13 0.36
29 23 0.64
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.30
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATATGATT
Found at i:62381230 original size:25 final size:25
Alignment explanation
Indices: 62381198--62381250 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
62381188 ACCGTAATTA
* * *
62381198 AGGG-AAAATTACCGAAATGCCCCT
1 AGGGAAAAATGACCAAAATACCCCT
62381222 AGGGCAAAAATGACCAAAATACCCCT
1 AGGG-AAAAATGACCAAAATACCCCT
62381248 AGG
1 AGG
62381251 TGTAGAATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 4 0.17
26 20 0.83
ACGTcount: A:0.42, C:0.25, G:0.21, T:0.13
Consensus pattern (25 bp):
AGGGAAAAATGACCAAAATACCCCT
Found at i:62391311 original size:27 final size:26
Alignment explanation
Indices: 62391275--62391370 Score: 120
Period size: 27 Copynumber: 3.6 Consensus size: 26
62391265 TAGCGTACAA
*
62391275 GGGTATTTCGGTAATCCTACCATATAG
1 GGGTATTTCGATAATCCTACC-TATAG
*
62391302 GGGTATTTCGATAATCCTACTCTATAA
1 GGGTATTTCGATAATCCTAC-CTATAG
* *
62391329 GGGTATTTCGATAGTCCTACCCTACAG
1 GGGTATTTCGATAATCCTA-CCTATAG
*
62391356 GGGTATTTCAATAAT
1 GGGTATTTCGATAAT
62391371 TTTATAACCC
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
27 58 0.97
28 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (26 bp):
GGGTATTTCGATAATCCTACCTATAG
Found at i:62397232 original size:29 final size:29
Alignment explanation
Indices: 62397190--62397245 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
62397180 AGAAAGAGAC
62397190 TGATAAATAAACCTTATCACTCTTTATAT
1 TGATAAATAAACCTTATCACTCTTTATAT
* *
62397219 TGATGAATAAACCTTATCACTGTTTAT
1 TGATAAATAAACCTTATCACTCTTTAT
62397246 CCAAGAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.41
Consensus pattern (29 bp):
TGATAAATAAACCTTATCACTCTTTATAT
Found at i:62403098 original size:93 final size:93
Alignment explanation
Indices: 62402986--62403157 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
62402976 GCCCATAAGT
* *
62402986 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62403051 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
62403079 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62403144 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
62403158 CAAATATCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:62403153 original size:46 final size:46
Alignment explanation
Indices: 62402978--62403153 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
62402968 TGTAACCCGC
* * *
62402978 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
62403024 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
62403074 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
62403117 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62403154 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:62405575 original size:30 final size:30
Alignment explanation
Indices: 62405531--62405619 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
62405521 CAAAGATAAC
62405531 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
62405560 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
62405590 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
62405620 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:62405579 original size:15 final size:15
Alignment explanation
Indices: 62405531--62405610 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
62405521 CAAAGATAAC
*
62405531 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
62405545 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
62405560 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
62405575 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
62405590 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
62405605 AAGAAA
1 AAGAAA
62405611 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:62405619 original size:15 final size:15
Alignment explanation
Indices: 62405542--62405619 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
62405532 AGAAAACCGA
62405542 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
62405557 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
62405571 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
62405586 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
62405602 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
62405617 ATA
1 ATA
62405620 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:62408628 original size:46 final size:46
Alignment explanation
Indices: 62408561--62408734 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
62408551 TGTAACCCGC
*
62408561 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
62408607 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
62408657 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
62408699 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
62408735 ATGCCCAAAT
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 1 0.01
44 3 0.03
45 28 0.25
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:62408727 original size:92 final size:93
Alignment explanation
Indices: 62408569--62408739 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
62408559 GCCCATAAGT
* *
62408569 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
62408634 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
62408662 GAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
62408726 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
62408740 CAAATATCCT
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 47 0.63
93 28 0.37
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:62413492 original size:40 final size:40
Alignment explanation
Indices: 62413392--62413582 Score: 211
Period size: 40 Copynumber: 4.8 Consensus size: 40
62413382 CGAATGGTGT
* * * * * *
62413392 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAA
* * * *
62413433 CCGGGTCAATTCCCTAAGGCATTTGTGTGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
*
62413473 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * * *
62413513 TCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
62413553 CCGGGCTAATTCCCGAAGGCAATTGTGCGA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGA
62413583 ATCACTATAA
Statistics
Matches: 127, Mismatches: 23, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 105 0.83
41 22 0.17
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:62413597 original size:40 final size:39
Alignment explanation
Indices: 62413392--62413624 Score: 177
Period size: 40 Copynumber: 5.8 Consensus size: 39
62413382 CGAATGGTGT
** * *
62413392 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGC-GAGTTACTAAA
* * * * *
62413432 TCCGGG-TCAATTCCCTAAGGCATTTGTGTGAGTTACCAAAA
1 -CCGGGCT-AAGTCCCGAAGGCAATTGTGCGAGTTA-CTAAA
* *
62413473 CCGGGTTAAGTCCCGAAGGC-ATTCGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCAATT-GTGCGAGTTA-CTAAA
* *
62413513 TCGGGTTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCAATT-GTGCGAGTTACTAAA
* * *
62413552 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 -CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTA-AA
* * *
62413593 CCGGGC-AATGTCCCGAAGACAATCGAGCGAGT
1 CCGGGCTAA-GTCCCGAAGGCAATTGTGCGAGT
62413625 CGCTATATCC
Statistics
Matches: 161, Mismatches: 23, Indels: 17
0.80 0.11 0.08
Matches are distributed among these distances:
39 8 0.05
40 121 0.75
41 32 0.20
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
Found at i:62413606 original size:80 final size:79
Alignment explanation
Indices: 62413391--62413624 Score: 222
Period size: 80 Copynumber: 2.9 Consensus size: 79
62413381 TCGAATGGTG
* * * *
62413391 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAAT-TCCCTAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-ATTGTGCGAA-TCACTAAA-CCGGGTCAATGTCCCGAAGGCAT
* *
62413455 TTGTGTGAGTTACCAAA
63 TCGTGCGAGTTACCAAA
* * * * * * *
62413472 ACCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACCAAAATCGGGTTAA-GTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT-GTGCGAATCA-CTAAACCGGGTCAATGTCCCGAAGGCATT
*
62413536 CGTGCGAGTTACTAAA
64 CGTGCGAGTTACCAAA
* * *
62413552 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGG-CAATGTCCCGAAGACAAT
1 TCCGGGCTAAGTCCCGAAGGC-ATTGTGCGAATCACTA-AACCGGGTCAATGTCCCGAAGGCATT
*
62413616 CGAGCGAGT
64 CGTGCGAGT
62413625 CGCTATATCC
Statistics
Matches: 123, Mismatches: 24, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
79 4 0.03
80 88 0.72
81 31 0.25
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAATCACTAAACCGGGTCAATGTCCCGAAGGCATTCG
TGCGAGTTACCAAA
Found at i:62421538 original size:8 final size:8
Alignment explanation
Indices: 62421507--62421539 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
62421497 TACTGCTAAA
*
62421507 GCCGAAAA
1 GCCGAAAT
62421515 GCCGAAAT
1 GCCGAAAT
62421523 GCCGAAAT
1 GCCGAAAT
62421531 GCCGAAAT
1 GCCGAAAT
62421539 G
1 G
62421540 TTGGCATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.39, C:0.24, G:0.27, T:0.09
Consensus pattern (8 bp):
GCCGAAAT
Found at i:62421660 original size:38 final size:38
Alignment explanation
Indices: 62421618--62421698 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 38
62421608 TAGGCTGAAG
*
62421618 AGGCCACCACGTGCATTTTCATAAACTTAGGCCGTTAT
1 AGGCCACCACGTGCATTTTCATAAACTTAGGCCATTAT
* *
62421656 AGGCCACCACGTGCGTTTTCATAGACTTAGGCCATTAT
1 AGGCCACCACGTGCATTTTCATAAACTTAGGCCATTAT
62421694 AGGCC
1 AGGCC
62421699 TCGATGGGTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (38 bp):
AGGCCACCACGTGCATTTTCATAAACTTAGGCCATTAT
Found at i:62421734 original size:18 final size:17
Alignment explanation
Indices: 62421711--62421745 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
62421701 GATGGGTCGA
62421711 AATGGGTCGTGTGGGCCC
1 AATGGG-CGTGTGGGCCC
*
62421729 AATGGGCTTGTGGGCCC
1 AATGGGCGTGTGGGCCC
62421746 TACATGGGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.11, C:0.23, G:0.43, T:0.23
Consensus pattern (17 bp):
AATGGGCGTGTGGGCCC
Found at i:62423633 original size:34 final size:34
Alignment explanation
Indices: 62423594--62423658 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
62423584 GAGATAAGGC
*
62423594 AGAGCATGCTGAACACTTGAGAACTGTTTTGTAG
1 AGAGCATGCTGAACACTTGAGAACTATTTTGTAG
* *
62423628 AGAGCATGTTGAACACTTGATAACTATTTTG
1 AGAGCATGCTGAACACTTGAGAACTATTTTG
62423659 CAGACTTTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (34 bp):
AGAGCATGCTGAACACTTGAGAACTATTTTGTAG
Found at i:62432475 original size:29 final size:29
Alignment explanation
Indices: 62432443--62432574 Score: 158
Period size: 29 Copynumber: 4.6 Consensus size: 29
62432433 AATTTAAGCC
* *** * *
62432443 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
** * *
62432472 CGCACACCCAGTGCCGTAT-TTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
62432500 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
62432529 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
62432558 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
62432575 CTCGTCACCG
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
28 22 0.24
29 68 0.76
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:62432515 original size:57 final size:58
Alignment explanation
Indices: 62432443--62432574 Score: 158
Period size: 57 Copynumber: 2.3 Consensus size: 58
62432433 AATTTAAGCC
* * * * * *
62432443 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTAT-TTTCCAGCT
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * **
62432500 TGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
62432558 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
62432575 CTCGTCACCG
Statistics
Matches: 62, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
57 38 0.61
58 24 0.39
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:62440542 original size:29 final size:29
Alignment explanation
Indices: 62440510--62440641 Score: 158
Period size: 29 Copynumber: 4.6 Consensus size: 29
62440500 AATTTAAGCC
* *** * *
62440510 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
** * *
62440539 CGCACACCCAGTGCCGTAT-TTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
62440567 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
62440596 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
62440625 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
62440642 CTCGTCACCG
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
28 22 0.24
29 68 0.76
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:62440572 original size:57 final size:58
Alignment explanation
Indices: 62440510--62440641 Score: 158
Period size: 57 Copynumber: 2.3 Consensus size: 58
62440500 AATTTAAGCC
* * * * * *
62440510 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTAT-TTTCCAGCT
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * **
62440567 TGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
62440625 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
62440642 CTCGTCACCG
Statistics
Matches: 62, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
57 38 0.61
58 24 0.39
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:62443956 original size:48 final size:48
Alignment explanation
Indices: 62443863--62443979 Score: 119
Period size: 48 Copynumber: 2.4 Consensus size: 48
62443853 AGGGGATACA
* * * * *
62443863 TTGAGTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTATAC
1 TTGATTTGGCTTCGGGCCATGATATCAGCACTTCGGATACAAGTTA-AC
* * * *
62443912 -TGATTTGGCTTCGGGCCATGATATCAGTACTTTGGATATAAGTTACC
1 TTGATTTGGCTTCGGGCCATGATATCAGCACTTCGGATACAAGTTAAC
* *
62443959 TTGATTTGGATTCGAGCCATG
1 TTGATTTGGCTTCGGGCCATG
62443980 GTATAGGTAC
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
47 1 0.02
48 55 0.98
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (48 bp):
TTGATTTGGCTTCGGGCCATGATATCAGCACTTCGGATACAAGTTAAC
Found at i:62445985 original size:13 final size:13
Alignment explanation
Indices: 62445964--62445995 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
62445954 CATCCATATC
62445964 TCAAACACATGTA
1 TCAAACACATGTA
*
62445977 TCAACCACATGTA
1 TCAAACACATGTA
62445990 TCAAAC
1 TCAAAC
62445996 TTACCCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.44, C:0.28, G:0.06, T:0.22
Consensus pattern (13 bp):
TCAAACACATGTA
Found at i:62446734 original size:43 final size:42
Alignment explanation
Indices: 62446683--62446799 Score: 110
Period size: 42 Copynumber: 2.7 Consensus size: 42
62446673 TCCCAAACGT
**
62446683 GGTCTTACATGTAATCACATATCGATGCCTCTATCCCAGACAG
1 GGTCTTACA-GTAATCACATATCGATGCCAATATCCCAGACAG
* * * * *
62446726 GGTCTTACA-CAAACTCATATACGATGCCAATGTCCCAGACAT
1 GGTCTTACAGTAATCACATAT-CGATGCCAATATCCCAGACAG
* *
62446768 GGTCTTACACGTAAATCACAAATTGATGCCAA
1 GGTCTTACA-GT-AATCACATATCGATGCCAA
62446800 CGTCCCAAAC
Statistics
Matches: 58, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
41 8 0.14
42 26 0.45
43 9 0.16
44 8 0.14
45 7 0.12
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (42 bp):
GGTCTTACAGTAATCACATATCGATGCCAATATCCCAGACAG
Found at i:62447813 original size:24 final size:25
Alignment explanation
Indices: 62447786--62447864 Score: 108
Period size: 25 Copynumber: 3.2 Consensus size: 25
62447776 GGAGACCTAG
62447786 CCTTTTTAAT-AACTGGGGCAAAGC
1 CCTTTTTAATAAACTGGGGCAAAGC
*
62447810 CC-TTTTGATAAACTGGGGCAAAGC
1 CCTTTTTAATAAACTGGGGCAAAGC
* * *
62447834 CCTTTTCAGTAAACTGGGGCATAGC
1 CCTTTTTAATAAACTGGGGCAAAGC
62447859 CCTTTT
1 CCTTTT
62447865 AGCACTTCCT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.12
24 18 0.38
25 24 0.50
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (25 bp):
CCTTTTTAATAAACTGGGGCAAAGC
Found at i:62447852 original size:25 final size:24
Alignment explanation
Indices: 62447796--62447864 Score: 111
Period size: 24 Copynumber: 2.8 Consensus size: 24
62447786 CCTTTTTAAT
*
62447796 AACTGGGGCAAAGCCCTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCATA
62447820 AACTGGGGCAAAGCCCTTTTCAGTA
1 AACTGGGGCAAAGCCCTTTTCA-TA
*
62447845 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
62447865 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
24 21 0.50
25 21 0.50
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (24 bp):
AACTGGGGCAAAGCCCTTTTCATA
Found at i:62448097 original size:27 final size:27
Alignment explanation
Indices: 62448067--62448279 Score: 232
Period size: 27 Copynumber: 7.9 Consensus size: 27
62448057 GGGGCAAAAT
* * *
62448067 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
62448094 GGTAGTTCTACCCTACAGGGGAATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
62448121 GGTATTTCTACCTTACAAGGGTATATC
1 GGTAATTCTACCCTACAAGGGTATTTC
**
62448148 AATAATTCTACCCTAC-AGGGATATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
*
62448175 AGTAATTCTACCCTAC-AGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
62448201 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
62448228 AGTAATTCTACCCTACAGGGGTACTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
62448255 GGTAATTCTATCCTACAGGGGTATT
1 GGTAATTCTACCCTACAAGGGTATT
62448280 CCGATATTTT
Statistics
Matches: 158, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 24 0.15
27 134 0.85
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:62448235 original size:80 final size:80
Alignment explanation
Indices: 62448068--62448285 Score: 267
Period size: 80 Copynumber: 2.7 Consensus size: 80
62448058 GGGCAAAATG
* * * * * * *
62448068 GTAATTTTACCCCACAAGGGTATCTCGGTAGTTCTACCCTACAGGGGAATTTCGGTATTTCTACC
1 GTAATTCTACCCTAC-AGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACC
*
62448133 TTACAAGGGTATATCA
65 CTACAAGGGTATATCA
* *
62448149 ATAATTCTACCCTACAGGGATATTTCAGTAATTCTACCCTACA-GGGTATTTCGATAATTCTACC
1 GTAATTCTACCCTACAGGG-TATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACC
* *
62448213 CTACAGGGGTATTTCA
65 CTACAAGGGTATATCA
* * *
62448229 GTAATTCTACCCTACAGGGGTACTTCGGTAATTCTATCCTACAGGGGTATTCCGATA
1 GTAATTCTACCCTACA-GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATA
62448286 TTTTACAAAT
Statistics
Matches: 117, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
80 70 0.60
81 47 0.40
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (80 bp):
GTAATTCTACCCTACAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCC
TACAAGGGTATATCA
Found at i:62448276 original size:54 final size:54
Alignment explanation
Indices: 62448068--62448279 Score: 266
Period size: 54 Copynumber: 3.9 Consensus size: 54
62448058 GGGCAAAATG
* * * * * * *
62448068 GTAATTTTACCCCACAAGGGTATCTCGGTAGTTCTACCCTACAGGGGAATTTCG
1 GTAATTCTACCCTACAAGGGTATATCGATAATTCTACCCTACAGGGGTATTTCA
* * * *
62448122 GTATTTCTACCTTACAAGGGTATATCAATAATTCTACCCTACAGGGATATTTCA
1 GTAATTCTACCCTACAAGGGTATATCGATAATTCTACCCTACAGGGGTATTTCA
*
62448176 GTAATTCTACCCTAC-AGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATATCGATAATTCTACCCTACAGGGGTATTTCA
* * *
62448229 GTAATTCTACCCTACAGGGGTACT-TCGGTAATTCTATCCTACAGGGGTATT
1 GTAATTCTACCCTACAAGGGTA-TATCGATAATTCTACCCTACAGGGGTATT
62448280 CCGATATTTT
Statistics
Matches: 137, Mismatches: 19, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
53 50 0.36
54 86 0.63
55 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.33
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATATCGATAATTCTACCCTACAGGGGTATTTCA
Found at i:62448305 original size:80 final size:80
Alignment explanation
Indices: 62448099--62448314 Score: 197
Period size: 80 Copynumber: 2.7 Consensus size: 80
62448089 ATCTCGGTAG
* * * * ** *
62448099 TTCTACCCTACAGGGGAATTTCGGTATTTCTACCTTACAAGG-GTATATCAATAATTCTACCCTA
1 TTCTACCCTACA-GGGTATTCCGATAATTCTACAATAC-AGGAGTATTTCAATAATTCTACCCTA
*
62448163 CAGGGATATTTCAGTAA
64 CAGGGATACTTCAGTAA
* ** * *
62448180 TTCTACCCTACAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACA
1 TTCTACCCTACAGGGTATTCCGATAATTCTACAATACAGGAGTATTTCAATAATTCTACCCTACA
* *
62448245 GGGGTACTTCGGTAA
66 GGGATACTTCAGTAA
* * *
62448260 TTCTATCCTACAGGGGTATTCCGAT-ATTTTACAA-ATC-GAGAGTATTTCGATAATT
1 TTCTACCCTACA-GGGTATTCCGATAATTCTACAATA-CAG-GAGTATTTCAATAATT
62448315 TCGCAAATTG
Statistics
Matches: 114, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
79 5 0.04
80 86 0.75
81 23 0.20
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (80 bp):
TTCTACCCTACAGGGTATTCCGATAATTCTACAATACAGGAGTATTTCAATAATTCTACCCTACA
GGGATACTTCAGTAA
Found at i:62448305 original size:107 final size:107
Alignment explanation
Indices: 62448099--62448314 Score: 242
Period size: 107 Copynumber: 2.0 Consensus size: 107
62448089 ATCTCGGTAG
* * *
62448099 TTCTACCCTACAGGGGAATTTCGGTATTTCTACCTTACAAGGGTATATCAATAATTCTACCCTAC
1 TTCTACCCTACAGGGGAATTTCAGTAATTCTACCCTACAAGGGTATATCAATAATTCTACCCTAC
* ** *
62448164 AGGGATATTTCAGTAATTCTACCCTACAGGGTATTTCGATAA
66 AGGGATATTCCAGTAATTCTACAATACAGAGTATTTCGATAA
* * ** *
62448206 TTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTACT-TCGGTAATTCTATCCTA
1 TTCTACCCTACAGGGGAATTTCAGTAATTCTACCCTACAAGGGTA-TATCAATAATTCTACCCTA
* *
62448270 CAGGGGTATTCC-G-ATATTTTACAA-ATCGAGAGTATTTCGATAA
65 CAGGGATATTCCAGTA-ATTCTACAATA-C-AGAGTATTTCGATAA
62448313 TT
1 TT
62448315 TCGCAAATTG
Statistics
Matches: 91, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
105 2 0.02
106 8 0.09
107 80 0.88
108 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (107 bp):
TTCTACCCTACAGGGGAATTTCAGTAATTCTACCCTACAAGGGTATATCAATAATTCTACCCTAC
AGGGATATTCCAGTAATTCTACAATACAGAGTATTTCGATAA
Found at i:62448359 original size:27 final size:27
Alignment explanation
Indices: 62448325--62448479 Score: 186
Period size: 27 Copynumber: 5.7 Consensus size: 27
62448315 TCGCAAATTG
*
62448325 GGGGTATTTTGGTAATTTTACAAGCCA
1 GGGGTATTTTGGTAATTTTACAAACCA
* *
62448352 GGGTTATTTTGGTAATTTTACAAACTA
1 GGGGTATTTTGGTAATTTTACAAACCA
*
62448379 GGGGTATTTTAGTAATTTTACAAACCA
1 GGGGTATTTTGGTAATTTTACAAACCA
** *
62448406 GGGGTATTTTGGTAATTTTACTGATC-
1 GGGGTATTTTGGTAATTTTACAAACCA
**
62448432 GAGGGTATTTTGGTAATTTTTTAAACCA
1 G-GGGTATTTTGGTAATTTTACAAACCA
* * *
62448460 AGGGTATTTTTGAAATTTTA
1 GGGGTATTTTGGTAATTTTA
62448480 TAAATCGAGA
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 1 0.01
27 106 0.99
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.43
Consensus pattern (27 bp):
GGGGTATTTTGGTAATTTTACAAACCA
Found at i:62448477 original size:81 final size:81
Alignment explanation
Indices: 62448325--62448479 Score: 213
Period size: 81 Copynumber: 1.9 Consensus size: 81
62448315 TCGCAAATTG
* *
62448325 GGGGTATTTTGGTAATTTTACAAGCCAGGGTTATTTTGGTAATTTTACAAACTAGGGGTATTTTA
1 GGGGTATTTTGGTAATTTTACAAGCCAGGGTTATTTTGGTAATTTTACAAACCAAGGGTATTTTA
*
62448390 GTAATTTTACAAACCA
66 GAAATTTTACAAACCA
* * * **
62448406 GGGGTATTTTGGTAATTTTACTGATCGAGGG-TATTTTGGTAATTTTTTAAACCAAGGGTATTTT
1 GGGGTATTTTGGTAATTTTAC-AAGCCAGGGTTATTTTGGTAATTTTACAAACCAAGGGTATTTT
*
62448470 TGAAATTTTA
65 AGAAATTTTA
62448480 TAAATCGAGA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
81 58 0.91
82 6 0.09
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.43
Consensus pattern (81 bp):
GGGGTATTTTGGTAATTTTACAAGCCAGGGTTATTTTGGTAATTTTACAAACCAAGGGTATTTTA
GAAATTTTACAAACCA
Found at i:62448503 original size:27 final size:27
Alignment explanation
Indices: 62448473--62448789 Score: 427
Period size: 27 Copynumber: 11.7 Consensus size: 27
62448463 GTATTTTTGA
* * * *
62448473 AATTTTATAAATCGAGAGTGAAATGGT
1 AATTCTATAAATCGAGGGTAAAACGGT
*
62448500 AATTCTGTAAATCGAGGGTAAAACGGT
1 AATTCTATAAATCGAGGGTAAAACGGT
*
62448527 AATTCTATAAATCGAGGGTAAAATGGT
1 AATTCTATAAATCGAGGGTAAAACGGT
*
62448554 AATTCTGTAAATCGAGGGTAAAACGGT
1 AATTCTATAAATCGAGGGTAAAACGGT
* * * * *
62448581 AATTTTATAAGTCAAAGGTAAAATGGT
1 AATTCTATAAATCGAGGGTAAAACGGT
62448608 AATTCTATAAATCGAGGGTAAAACGGT
1 AATTCTATAAATCGAGGGTAAAACGGT
* *
62448635 AATTTTGTAAATCGAGGGTAAAACGGT
1 AATTCTATAAATCGAGGGTAAAACGGT
* *
62448662 AATTCTATAAATCGATGGTAAAATGGT
1 AATTCTATAAATCGAGGGTAAAACGGT
*
62448689 AATTCTATAAATCGAGGGTAAAATGGT
1 AATTCTATAAATCGAGGGTAAAACGGT
* *
62448716 AATTTTATAAATCGAGGGTAAAACGAT
1 AATTCTATAAATCGAGGGTAAAACGGT
**
62448743 AATTCTATAAATTAAGGGTAAAACGGT
1 AATTCTATAAATCGAGGGTAAAACGGT
* *
62448770 AATTTTGTAAATCGAGGGTA
1 AATTCTATAAATCGAGGGTA
62448790 CTTTGGTAAT
Statistics
Matches: 252, Mismatches: 38, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 252 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
AATTCTATAAATCGAGGGTAAAACGGT
Found at i:62450702 original size:13 final size:13
Alignment explanation
Indices: 62450684--62450708 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62450674 ACAAACGATA
62450684 AAATTTTCACACG
1 AAATTTTCACACG
62450697 AAATTTTCACAC
1 AAATTTTCACAC
62450709 ATATAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:62455360 original size:39 final size:40
Alignment explanation
Indices: 62455317--62455483 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
62455307 CGGAATATAA
62455317 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTC-TAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
62455356 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
62455396 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
62455436 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
62455476 CCGGATAT
1 CCGGATAT
62455484 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
38 1 0.01
39 30 0.28
40 75 0.71
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:62470118 original size:26 final size:26
Alignment explanation
Indices: 62470061--62470171 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
62470051 CATGAAATTC
62470061 TTATCATGAAACATTTACCTAAACCCA
1 TTATCATGAAACATTTACCT-AACCCA
*
62470088 TTATCATGAAACATGTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
62470114 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
62470140 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
62470166 TTATCA
1 TTATCA
62470172 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
26 61 0.76
27 19 0.24
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:62481145 original size:15 final size:15
Alignment explanation
Indices: 62481125--62481181 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 15
62481115 TTTTCTTGCC
*
62481125 TCTCTTTTCTTTTGA
1 TCTCTTTTCTTTTCA
62481140 TCTCTTTTTGCTTTTCA
1 TCTC-TTTT-CTTTTCA
62481157 TCT-TTTTCTTTTC-
1 TCTCTTTTCTTTTCA
*
62481170 TC-ATTTTCTTTT
1 TCTCTTTTCTTTT
62481182 TACAAGAGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
13 11 0.29
14 6 0.16
15 8 0.21
16 4 0.11
17 9 0.24
ACGTcount: A:0.05, C:0.21, G:0.04, T:0.70
Consensus pattern (15 bp):
TCTCTTTTCTTTTCA
Found at i:62481153 original size:17 final size:16
Alignment explanation
Indices: 62481124--62481169 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
62481114 CTTTTCTTGC
*
62481124 CTCTCTTTTCTTTTGAT
1 CTCT-TTTTCTTTTCAT
62481141 CTCTTTTTGCTTTTCA-
1 CTCTTTTT-CTTTTCAT
62481157 -TCTTTTTCTTTTC
1 CTCTTTTTCTTTTC
62481170 TCATTTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
16 4 0.15
17 10 0.37
ACGTcount: A:0.04, C:0.24, G:0.04, T:0.67
Consensus pattern (16 bp):
CTCTTTTTCTTTTCAT
Found at i:62481669 original size:27 final size:27
Alignment explanation
Indices: 62481639--62481806 Score: 291
Period size: 27 Copynumber: 6.2 Consensus size: 27
62481629 TAGTATTTTA
62481639 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
62481666 GTAATTCTACCCTACAGGAGTATTGCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
62481693 ATAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
62481720 GTAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
62481747 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
62481774 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
62481801 GTAATT
1 GTAATT
62481807 TTGTAAATCG
Statistics
Matches: 131, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 131 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:62481830 original size:81 final size:81
Alignment explanation
Indices: 62481664--62481835 Score: 213
Period size: 81 Copynumber: 2.1 Consensus size: 81
62481654 AGGGGTATTT
*
62481664 CGGTAATTCTACCCTACAGGAGTATTGCGATAATTCTACCCTATAGGGGTATTTCGGTAATTCTA
1 CGGTAATTCTACCCTACAGGAGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
** ***
62481729 CCCTACAAGGGTATTT
66 CAATACAAGGGTAAAA
* * * *
62481745 CGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTTTG
1 CGGTAATTCTACCCTACAGGAGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAA--TTC
*
62481810 TA-AAT-CGAGGGTAAAA
64 TACAATACAAGGGTAAAA
62481826 CGGTAATTCT
1 CGGTAATTCT
62481836 GTAAATCAAG
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
81 73 0.94
82 1 0.01
83 4 0.05
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (81 bp):
CGGTAATTCTACCCTACAGGAGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
CAATACAAGGGTAAAA
Found at i:62481857 original size:27 final size:26
Alignment explanation
Indices: 62481791--62481860 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 26
62481781 TACCCTACAG
* *
62481791 GGGTATTTCGGTAATTTTGTAAATCGA
1 GGGTATTT-GGTAATTCTGTAAATCAA
***
62481818 GGGTAAAACGGTAATTCTGTAAATCAA
1 GGGT-ATTTGGTAATTCTGTAAATCAA
62481845 GGGTACTTTGGTAATT
1 GGGTA-TTTGGTAATT
62481861 TTACAAGTCG
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
26 1 0.03
27 31 0.94
28 1 0.03
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.36
Consensus pattern (26 bp):
GGGTATTTGGTAATTCTGTAAATCAA
Found at i:62481886 original size:27 final size:27
Alignment explanation
Indices: 62481856--62481920 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
62481846 GGTACTTTGG
62481856 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
* * *
62481883 TAATTTTACAGGTCGAGGGTATTTTAG
1 TAATTTTACAAGTCGAGGGTATTTCAA
*
62481910 TAATTTCACAA
1 TAATTTTACAA
62481921 ATTAGGGGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCAA
Found at i:62482204 original size:81 final size:80
Alignment explanation
Indices: 62481827--62482212 Score: 398
Period size: 81 Copynumber: 4.8 Consensus size: 80
62481817 AGGGTAAAAC
* * * ** ***
62481827 GGTAATTCTGTAAATCAAGGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTCAATAATTTTA
1 GGTAATTTTATAAA-CAAGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTGGTAATTTTA
** *
62481891 CAGGTCGAG-GGTATTTT
64 CA-AACCAGTGGTATTTT
* * * * * * *
62481908 AGTAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTAC
1 GGTAATTTTATAAA-CAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTAC
*
62481973 AAACCAGGGGTATTTT
65 AAACCAGTGGTATTTT
* *
62481989 GGTAATTTTATAAACCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTAT
1 GGTAATTTTATAAA-CAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTAC
* *
62482054 AAACAAATGGTATTTT
65 AAACCAGTGGTATTTT
* * * * ** *
62482070 AGTAATTTTACAAACCAGAGGTATTTTGGAAATTTTGTAAACCAAGGGTATTTTGGTAATTTTAC
1 GGTAATTTTATAAACAAG-GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTAC
62482135 AAACCAGTGGTATTTT
65 AAACCAGTGGTATTTT
* * *
62482151 GGTGATTTTATAAACTAAGGGTATTTTAGTGATTTTACAAACCAGGGGTATTTTGGTAATTT
1 GGTAATTTTATAAAC-AAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
62482213 GGTAAACTAA
Statistics
Matches: 253, Mismatches: 48, Indels: 8
0.82 0.16 0.03
Matches are distributed among these distances:
80 5 0.02
81 245 0.97
82 3 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (80 bp):
GGTAATTTTATAAACAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACA
AACCAGTGGTATTTT
Found at i:62482219 original size:27 final size:27
Alignment explanation
Indices: 62481899--62482212 Score: 412
Period size: 27 Copynumber: 11.6 Consensus size: 27
62481889 TACAGGTCGA
* * **
62481899 GGGTATTTTAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
62481926 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
62481953 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
62481980 GGGTATTTTGGTAATTTTATAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
62482007 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
62482034 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
62482061 TGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * ** *
62482088 AGGTATTTTGGAAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
62482115 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * * *
62482142 TGGTATTTTGGTGATTTTATAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
62482169 GGGTATTTTAGTGATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
62482196 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
62482213 GGTAAACTAA
Statistics
Matches: 248, Mismatches: 39, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 248 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:62482219 original size:54 final size:54
Alignment explanation
Indices: 62481898--62482222 Score: 454
Period size: 54 Copynumber: 6.0 Consensus size: 54
62481888 TTACAGGTCG
* ** *
62481898 AGGGTATTTTAGTAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACTA
* *
62481952 GGGGTATTTT-GATAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
1 AGGGTATTTTAG-TAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACTA
* * *
62482006 GGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACTA
* * * * *
62482060 ATGGTATTTTAGTAATTTTACAAACCAGAGGTATTTTGGAAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACTA
* * *
62482114 AGGGTATTTTGGTAATTTTACAAACCAGTGGTATTTTGGTGATTTTATAAACTA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACTA
* **
62482168 AGGGTATTTTAGTGATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAACTA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACTA
62482222 A
1 A
62482223 AGTATTCTAA
Statistics
Matches: 242, Mismatches: 27, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
53 1 0.00
54 240 0.99
55 1 0.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACTA
Found at i:62483683 original size:66 final size:65
Alignment explanation
Indices: 62483566--62483715 Score: 169
Period size: 66 Copynumber: 2.3 Consensus size: 65
62483556 AACTTAGGTC
* * *
62483566 ACACGGCCAAACACACGCCCGTGTGCTAGGCCATGCCAAATCTGTAAGGTATACTGACTTATACA
1 ACACGGCCAATCACACGCCCGTGTGCTAGACCATGCCAAATCTATAAGGTATACTGACTTATACA
** * *
62483631 ACACGGCCAAGTCACACGCCCGTGTGCTAGACCATGTGCC-AAT-TATGGGGTATACTGGCTTGT
1 ACACGGCCAA-TCACACGCCCGTGTGCTAGACCA--TGCCAAATCTATAAGGTATACTGACTTAT
*
62483694 ACC
63 ACA
* *
62483697 ACATGGCCGATCACACGCC
1 ACACGGCCAATCACACGCC
62483716 TCACTACAGG
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
65 19 0.26
66 46 0.64
67 3 0.04
68 4 0.06
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.20
Consensus pattern (65 bp):
ACACGGCCAATCACACGCCCGTGTGCTAGACCATGCCAAATCTATAAGGTATACTGACTTATACA
Found at i:62483753 original size:12 final size:12
Alignment explanation
Indices: 62483736--62483761 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
62483726 AAAATAGGGC
62483736 TTTAGTGGCGTT
1 TTTAGTGGCGTT
62483748 TTTAGTGGCGTT
1 TTTAGTGGCGTT
62483760 TT
1 TT
62483762 ATTAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.31, T:0.54
Consensus pattern (12 bp):
TTTAGTGGCGTT
Found at i:62483886 original size:41 final size:40
Alignment explanation
Indices: 62483850--62484157 Score: 345
Period size: 41 Copynumber: 7.6 Consensus size: 40
62483840 CAGCGGCATT
* *
62483850 TTTTACTAAAACGCCACTAAAAA-CAGAGCATTAGCGGCGC
1 TTTTAGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGC-C
**
62483890 TTTCGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC
1 TTTTAGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGC-C
*
62483931 -TTTAGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCG
1 TTTTA-GTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCC
* *
62483971 TTTTAGGTAAAACGCCGGTAAAAACCAGAGAATTAGCGGCGC
1 TTTTA-GTAAAACGCCGCTAAAAACCAGAGCATTAGCGGC-C
* *
62484013 TTTCTA-TAAAACGACGCTAAAAA-CAGGGCATTAGCGGCGC
1 TTT-TAGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGC-C
** * * * *
62484053 TTTCGGTAAAATGCCACTAAAAACTAGAGCATTAACGGCGC
1 TTTTAGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGC-C
**
62484094 TTTGGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCAC
1 TTTTAGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGC-C
*
62484135 TTTTGGTAAAACGCCGCTAAAAA
1 TTTTAGTAAAACGCCGCTAAAAA
62484158 TCCCATAACC
Statistics
Matches: 232, Mismatches: 29, Indels: 13
0.85 0.11 0.05
Matches are distributed among these distances:
40 53 0.23
41 174 0.75
42 3 0.01
43 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.19
Consensus pattern (40 bp):
TTTTAGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCC
Found at i:62484046 original size:122 final size:123
Alignment explanation
Indices: 62483856--62484157 Score: 439
Period size: 122 Copynumber: 2.5 Consensus size: 123
62483846 CATTTTTTAC
* *
62483856 TAAAACGCCACTAAAAA-CAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGC
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCTGTAAAACGCCGCTAAAAACCAGAGC
* * *
62483920 ATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGTTTTAGG
66 ATTAGCGGCGCTTTAGGTAAAACGCCACTAAAAACCAGAGCATTAACGGCGCTTTAGG
* * * * *
62483978 TAAAACGCCGGTAAAAACCAGAGAATTAGCGGCGCTTTCTATAAAACGACGCTAAAAA-CAGGGC
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCTGTAAAACGCCGCTAAAAACCAGAGC
* * * *
62484042 ATTAGCGGCGCTTTCGGTAAAATGCCACTAAAAACTAGAGCATTAACGGCGCTTTGGG
66 ATTAGCGGCGCTTTAGGTAAAACGCCACTAAAAACCAGAGCATTAACGGCGCTTTAGG
*
62484100 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCACTTT-TGGTAAAACGCCGCTAAAAA
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCT-GTAAAACGCCGCTAAAAA
62484158 TCCCATAACC
Statistics
Matches: 159, Mismatches: 19, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
121 1 0.01
122 122 0.77
123 36 0.23
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (123 bp):
TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCTGTAAAACGCCGCTAAAAACCAGAGC
ATTAGCGGCGCTTTAGGTAAAACGCCACTAAAAACCAGAGCATTAACGGCGCTTTAGG
Found at i:62484062 original size:163 final size:163
Alignment explanation
Indices: 62483856--62484157 Score: 498
Period size: 163 Copynumber: 1.9 Consensus size: 163
62483846 CATTTTTTAC
* *
62483856 TAAAACGCCACTAAAAACAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCA
1 TAAAACGACACTAAAAACAGAGCATTAGCGGCGCTTTCGGTAAAACGCCACTAAAAACCAGAGCA
* *
62483921 TTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGC-GTTTTAGGTAAAACG
66 TTAACGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCACTTTT-GGTAAAACG
*
62483985 CCGGTAAAAACCAGAGAATTAGCGGCGCTTTCTA
130 CCGCTAAAAACCAGAGAATTAGCGGCGCTTTCTA
* * * *
62484019 TAAAACGACGCTAAAAACAGGGCATTAGCGGCGCTTTCGGTAAAATGCCACTAAAAACTAGAGCA
1 TAAAACGACACTAAAAACAGAGCATTAGCGGCGCTTTCGGTAAAACGCCACTAAAAACCAGAGCA
*
62484084 TTAACGGCGCTTTGGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCACTTTTGGTAAAACGC
66 TTAACGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCACTTTTGGTAAAACGC
62484149 CGCTAAAAA
131 CGCTAAAAA
62484158 TCCCATAACC
Statistics
Matches: 128, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
163 124 0.97
164 4 0.03
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (163 bp):
TAAAACGACACTAAAAACAGAGCATTAGCGGCGCTTTCGGTAAAACGCCACTAAAAACCAGAGCA
TTAACGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCACTTTTGGTAAAACGC
CGCTAAAAACCAGAGAATTAGCGGCGCTTTCTA
Found at i:62485255 original size:15 final size:15
Alignment explanation
Indices: 62485235--62485266 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
62485225 TTTAATTTAG
*
62485235 AAGATAAATGTATAT
1 AAGATAAATATATAT
62485250 AAGATAAATATATAT
1 AAGATAAATATATAT
62485265 AA
1 AA
62485267 AATATTATTT
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:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:62485305 original size:24 final size:24
Alignment explanation
Indices: 62485238--62485305 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
62485228 AATTTAGAAG
* *
62485238 ATAAATGTATATAAGATAAATATAT
1 ATAAATATATATATGA-AAATATAT
* *
62485263 ATAAA-ATATTATTTTAAAATATAT
1 ATAAATATA-TATATGAAAATATAT
62485287 ATAAATATATATATGAAAA
1 ATAAATATATATATGAAAA
62485306 GTGGTTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
ATAAATATATATATGAAAATATAT
Found at i:62487399 original size:40 final size:40
Alignment explanation
Indices: 62487283--62487503 Score: 283
Period size: 40 Copynumber: 5.5 Consensus size: 40
62487273 ACCCAAGTAT
* *
62487283 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
62487322 CTTCGGGTCTTAGCCC--ATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
62487360 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
62487400 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
62487443 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
62487483 CTT-GGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
62487504 CATCCGAATA
Statistics
Matches: 161, Mismatches: 12, Indels: 18
0.84 0.06 0.09
Matches are distributed among these distances:
38 32 0.20
39 31 0.19
40 62 0.39
43 36 0.22
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:62487462 original size:83 final size:80
Alignment explanation
Indices: 62487283--62487503 Score: 283
Period size: 83 Copynumber: 2.8 Consensus size: 80
62487273 ACCCAAGTAT
* * *
62487283 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCC--ATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
**
62487344 TCACTAGCATGAATGC
65 TCACTAGCACAAATGC
*
62487360 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
62487424 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* *
62487443 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTT-GGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
62487504 CATCCGAATA
Statistics
Matches: 127, Mismatches: 9, Indels: 11
0.86 0.06 0.07
Matches are distributed among these distances:
77 12 0.09
78 38 0.30
79 2 0.02
80 9 0.07
82 17 0.13
83 49 0.39
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:62493793 original size:40 final size:40
Alignment explanation
Indices: 62493703--62493915 Score: 258
Period size: 40 Copynumber: 5.3 Consensus size: 40
62493693 ACCCAAGTAT
*
62493703 CTTCGGGATTTAG-CCGGATATAG-CAACT-GCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
62493741 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
62493781 CTTCAGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
62493821 CTTCGGGACTTAGCCC-GAGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGA-TATAGTC-ACTA---GCACAAATGC
* * *
62493864 CTTCGGGACTTAGCCCAGA-ATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
62493903 CTTCGGGACTTAG
1 CTTCGGGACTTAG
62493916 ACCAGACATC
Statistics
Matches: 154, Mismatches: 11, Indels: 19
0.84 0.06 0.10
Matches are distributed among these distances:
38 11 0.07
39 39 0.25
40 69 0.45
42 7 0.05
43 26 0.17
44 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:62496699 original size:18 final size:18
Alignment explanation
Indices: 62496668--62496702 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62496658 CCCAAGGTTA
**
62496668 TTAATGATTTTGATGATC
1 TTAATGATGATGATGATC
62496686 TTAATGATGATGATGAT
1 TTAATGATGATGATGAT
62496703 GTTGATACTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (18 bp):
TTAATGATGATGATGATC
Found at i:62496714 original size:18 final size:17
Alignment explanation
Indices: 62496693--62496735 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
62496683 ATCTTAATGA
62496693 TGATGATGATGTTGATAC
1 TGATGATGATGTTGAT-C
*
62496711 TGATGTTGATGTTGATC
1 TGATGATGATGTTGATC
62496728 TCGATGAT
1 T-GATGAT
62496736 TATACCCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.23, C:0.07, G:0.28, T:0.42
Consensus pattern (17 bp):
TGATGATGATGTTGATC
Found at i:62498761 original size:133 final size:133
Alignment explanation
Indices: 62498523--62498774 Score: 486
Period size: 133 Copynumber: 1.9 Consensus size: 133
62498513 TGGTGATTCC
62498523 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
62498588 TGGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
66 TGGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
62498653 TAT
131 TAT
62498656 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
* *
62498721 TGGACTTAGTTTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
66 TGGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATAT
62498775 TGTTGAATTC
Statistics
Matches: 117, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
133 117 1.00
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.52
Consensus pattern (133 bp):
ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
TGGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
TAT
Found at i:62500905 original size:25 final size:21
Alignment explanation
Indices: 62500839--62500899 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
62500829 GTTTTTATAT
*
62500839 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
62500860 TTTGATTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
62500881 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
62500900 GAATTAATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.31, C:0.10, G:0.11, T:0.48
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:62507416 original size:43 final size:43
Alignment explanation
Indices: 62507369--62507728 Score: 453
Period size: 43 Copynumber: 8.5 Consensus size: 43
62507359 CTGGGCAAAT
* *
62507369 TAGCGGCGTTTTTTAAAAAAGCGCTGCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
*
62507412 TAGCGGCGTTTTTTAGAAAAGCGCCGCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
*
62507455 TAGCGGCGTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
*
62507498 TAGCGGCATTTTTTATAAAAGCGCCGCTAAAAGTACAGGTC--
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
*
62507539 TAGCGGTGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
* * * *
62507582 TAGCAGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTA-GTCTT
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTAC-AGGTCTA
* * * * * *
62507625 TAGCGGCGCTTTATA-AAAAACGCCGCT-AAAGTCCTGGTCTT
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
* * * * * *
62507666 TGGCGGCGTTTTTT-TAAGAGCGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
*
62507708 TAGCGGCGCTTTTTTAAAAAA
1 TAGCGGCG-TTTTTTATAAAA
62507729 TGCCGTGAAC
Statistics
Matches: 282, Mismatches: 27, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
41 71 0.25
42 31 0.11
43 176 0.62
44 4 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (43 bp):
TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
Found at i:62507518 original size:86 final size:86
Alignment explanation
Indices: 62507368--62507728 Score: 482
Period size: 84 Copynumber: 4.2 Consensus size: 86
62507358 ACTGGGCAAA
* *
62507368 TTAGCGGCGTTTTTTAAAAAAGCGCTGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTAGAAAAG
1 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAG
62507433 CGCCGCTAAAAGTACAGGTCT
66 CGCCGCTAAAAGTACAGGTCT
* * *
62507454 ATAGCGGCGTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCATTTTTTATAAAAG
1 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAG
62507519 CGCCGCTAAAAGTACAGGTC-
66 CGCCGCTAAAAGTACAGGTCT
* * *
62507539 -TAGCGGTGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTATAGCAGCGTTTTTTATAAAAG
1 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAG
* *
62507603 CGCCGCTAAAGGTCCTA-GTCT
66 CGCCGCTAAAAGTAC-AGGTCT
* * * * * * *
62507624 TTAGCGGCGCTTTATAAAAAA-CGCCGCT-AAAGTCCTGGTCTTTGGCGGCGTTTTTT-TAAGAG
1 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAG
* * *
62507686 CGCCGCTAAAGGTCCTGGTCT
66 CGCCGCTAAAAGTACAGGTCT
62507707 TTAGCGGCGCTTTTTTAAAAAA
1 TTAGCGGCG-TTTTTTAAAAAA
62507729 TGCCGTGAAC
Statistics
Matches: 246, Mismatches: 24, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
83 33 0.13
84 109 0.44
85 8 0.03
86 96 0.39
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (86 bp):
TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAG
CGCCGCTAAAAGTACAGGTCT
Found at i:62511820 original size:29 final size:29
Alignment explanation
Indices: 62511781--62511859 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
62511771 CTTAATAATC
*
62511781 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
62511811 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
62511840 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
62511860 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Done.