Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 66 of 425
Found at i:18231747 original size:25 final size:25
Alignment explanation
Indices: 18231719--18231766 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
18231709 ATATATAAAC
* *
18231719 CCTAGGGGTATAATGGTCATTTTGA
1 CCTAGGGGCAAAATGGTCATTTTGA
18231744 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
18231767 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTGA
Found at i:18232966 original size:27 final size:27
Alignment explanation
Indices: 18232936--18233007 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
18232926 TACCATACAG
* * *
18232936 GGGTATTTTGGTAGTTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAACTAA
** *
18232963 GGGTATTGCGGTAATTTCACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAA
*
18232990 GGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
18233008 GTAAATCGAG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAA
Found at i:18233055 original size:27 final size:27
Alignment explanation
Indices: 18233000--18233310 Score: 403
Period size: 27 Copynumber: 11.6 Consensus size: 27
18232990 GGGTATTTTA
* *
18233000 GTAATTTTGTAAATCGA-GGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
18233026 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
18233053 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
18233080 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
18233107 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
18233134 ATAATTATGTAAATCG-GGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* ** *
18233160 GTAATTATGTAAATTAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
18233187 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
18233214 GTAATTCTATAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
** **
18233241 GTAATTCTACAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
18233268 GTAATTCTATAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
18233295 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
18233311 GGAGTACTTT
Statistics
Matches: 251, Mismatches: 30, Indels: 7
0.87 0.10 0.02
Matches are distributed among these distances:
26 38 0.15
27 212 0.84
28 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:18233145 original size:134 final size:134
Alignment explanation
Indices: 18232999--18233309 Score: 455
Period size: 134 Copynumber: 2.3 Consensus size: 134
18232989 AGGGTATTTT
* *
18232999 AGTAATTTTGTAAATCGAGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 AGTAATTATGTAAATCGAGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
* * **
18233064 AATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
66 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTACAAATCGAGGGTA
18233129 AAACG
131 AAA-G
* * * *
18233134 A-TAATTATGTAAATCGGGGTAAAATGGTAATTATGTAAATTAAGGGTAAAACAGTAATTCTATA
1 AGTAATTATGTAAATCGAGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
*
18233198 AATCGAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAACGGTAATTCTACAAATCGAGGGTA
66 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTACAAATCGAGGGTA
*
18233263 AAAT
131 AAAG
* *
18233267 AGTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTGTAAATC
1 AGTAATTATGTAAATC-GA-GGTAAAACGGTAATTCTGTAAATC
18233310 GGGAGTACTT
Statistics
Matches: 155, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
133 2 0.01
134 131 0.85
135 22 0.14
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.28
Consensus pattern (134 bp):
AGTAATTATGTAAATCGAGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTACAAATCGAGGGTA
AAAG
Found at i:18239651 original size:30 final size:29
Alignment explanation
Indices: 18239615--18239682 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 29
18239605 ATGAATCGAA
18239615 AGCTTTGGCACTAAGTGTACGATTTAAACT
1 AGCTTTGGCACTAAGTGTACGATTT-AACT
* *
18239645 AGCTTTGGCACTAAGTGTGCGATTTGACT
1 AGCTTTGGCACTAAGTGTACGATTTAACT
18239674 AGCTTTGGC
1 AGCTTTGGC
18239683 TACTTGAGGC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 12 0.33
30 24 0.67
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTACGATTTAACT
Found at i:18242472 original size:13 final size:13
Alignment explanation
Indices: 18242454--18242485 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
18242444 TCGAACACGT
18242454 GCGTGTGCCACAG
1 GCGTGTGCCACAG
18242467 GCGTGTGCCACAG
1 GCGTGTGCCACAG
18242480 GCGTGT
1 GCGTGT
18242486 CCTTGCTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.12, C:0.28, G:0.41, T:0.19
Consensus pattern (13 bp):
GCGTGTGCCACAG
Found at i:18244358 original size:21 final size:21
Alignment explanation
Indices: 18244334--18244401 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
18244324 CTAGGAACTA
18244334 TGTGATCTGAAATCATTGAGT
1 TGTGATCTGAAATCATTGAGT
* * *
18244355 TGTGGTCT-AAGTTCA-TGATAT
1 TGTGATCTGAA-ATCATTGA-GT
* *
18244376 ATGTGATCTGAACTCATTAAGT
1 -TGTGATCTGAAATCATTGAGT
18244398 TGTG
1 TGTG
18244402 GTTTGAGTTC
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
20 5 0.14
21 15 0.43
22 11 0.31
23 4 0.11
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (21 bp):
TGTGATCTGAAATCATTGAGT
Found at i:18244393 original size:43 final size:43
Alignment explanation
Indices: 18244332--18244469 Score: 204
Period size: 43 Copynumber: 3.2 Consensus size: 43
18244322 CACTAGGAAC
* *
18244332 TATGTGATCTGAAATCATTGAGTTGTGGTCTAAGTTCATGATA
1 TATGTGATCTGAACTCATTGAGTTGTGGTCTAAGTTCACGATA
* * *
18244375 TATGTGATCTGAACTCATTAAGTTGTGGTTTGAGTTCACGATA
1 TATGTGATCTGAACTCATTGAGTTGTGGTCTAAGTTCACGATA
*
18244418 TATGTGACATCTGAACTCATTGAGTTGTGGTCTAAGTTCACGATG
1 TATGTG--ATCTGAACTCATTGAGTTGTGGTCTAAGTTCACGATA
18244463 TATGTGA
1 TATGTGA
18244470 CACATGTTTT
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
43 45 0.54
45 39 0.46
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (43 bp):
TATGTGATCTGAACTCATTGAGTTGTGGTCTAAGTTCACGATA
Found at i:18244445 original size:45 final size:45
Alignment explanation
Indices: 18244338--18244471 Score: 200
Period size: 45 Copynumber: 3.0 Consensus size: 45
18244328 GAACTATGTG
* *
18244338 ATCTGAAATCATTGAGTTGTGGTCTAAGTTCATGATATATGTG--
1 ATCTGAACTCATTGAGTTGTGGTCTAAGTTCACGATATATGTGAC
* * *
18244381 ATCTGAACTCATTAAGTTGTGGTTTGAGTTCACGATATATGTGAC
1 ATCTGAACTCATTGAGTTGTGGTCTAAGTTCACGATATATGTGAC
*
18244426 ATCTGAACTCATTGAGTTGTGGTCTAAGTTCACGATGTATGTGAC
1 ATCTGAACTCATTGAGTTGTGGTCTAAGTTCACGATATATGTGAC
18244471 A
1 A
18244472 CATGTTTTAG
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
43 38 0.47
45 42 0.52
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTGTGGTCTAAGTTCACGATATATGTGAC
Found at i:18246001 original size:13 final size:13
Alignment explanation
Indices: 18245983--18246010 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18245973 AAAGTACGAA
18245983 ATTTTTCTAAGTT
1 ATTTTTCTAAGTT
18245996 ATTTTTCTAAGTT
1 ATTTTTCTAAGTT
18246009 AT
1 AT
18246011 CCTAAAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.61
Consensus pattern (13 bp):
ATTTTTCTAAGTT
Found at i:18246601 original size:12 final size:12
Alignment explanation
Indices: 18246584--18246616 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
18246574 AGCTTTGGTC
18246584 ATTTTGGTATAT
1 ATTTTGGTATAT
18246596 ATTTTGGTATAT
1 ATTTTGGTATAT
18246608 ATTTTGGTA
1 ATTTTGGTA
18246617 ATGAATTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (12 bp):
ATTTTGGTATAT
Found at i:18251455 original size:16 final size:17
Alignment explanation
Indices: 18251424--18251458 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
18251414 AGACGGTGGA
18251424 TTTTGTTTGATGTTTAT
1 TTTTGTTTGATGTTTAT
*
18251441 TTTTGTTTG-TTTTTAT
1 TTTTGTTTGATGTTTAT
18251457 TT
1 TT
18251459 CAAAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.09, C:0.00, G:0.14, T:0.77
Consensus pattern (17 bp):
TTTTGTTTGATGTTTAT
Found at i:18254159 original size:32 final size:32
Alignment explanation
Indices: 18254118--18254182 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
18254108 GGAGTTGTTG
18254118 GAGATCTCATCACACTAGCCAACTATAGTTTT
1 GAGATCTCATCACACTAGCCAACTATAGTTTT
*
18254150 GAGATCTCATCACACTATCCAACTATAGTTTT
1 GAGATCTCATCACACTAGCCAACTATAGTTTT
18254182 G
1 G
18254183 GTACTTATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (32 bp):
GAGATCTCATCACACTAGCCAACTATAGTTTT
Found at i:18258398 original size:28 final size:29
Alignment explanation
Indices: 18258331--18258431 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
18258321 ATAGTGAATC
*
18258331 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
18258360 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
18258388 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
18258418 CGCACACTTAGTGC
1 CGCACACTTAGTGC
18258432 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:18264453 original size:18 final size:18
Alignment explanation
Indices: 18264430--18264467 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
18264420 AAGTGTCAAA
18264430 ACGACAAATTAAAACCAT
1 ACGACAAATTAAAACCAT
18264448 ACGACAAATTAAAACCAT
1 ACGACAAATTAAAACCAT
18264466 AC
1 AC
18264468 TTGAGAAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.55, C:0.24, G:0.05, T:0.16
Consensus pattern (18 bp):
ACGACAAATTAAAACCAT
Found at i:18265855 original size:41 final size:41
Alignment explanation
Indices: 18265772--18265855 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 41
18265762 ATAATGATAT
* *
18265772 TCGGGCTTTAAGCCTAGCAAGCCTTGTGCTGGTGAATTAAA
1 TCGGGCTTTAAGCCTAGCAAGCCTTGTGCCGGTGAATAAAA
* * * *
18265813 TCGGGCTTTATGCCTAGC-AGGCTTATTGCCGGTGTATAAAA
1 TCGGGCTTTAAGCCTAGCAAGCCTT-GTGCCGGTGAATAAAA
18265854 TC
1 TC
18265856 AAACCTTGAG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
40 5 0.14
41 31 0.86
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (41 bp):
TCGGGCTTTAAGCCTAGCAAGCCTTGTGCCGGTGAATAAAA
Found at i:18275292 original size:43 final size:44
Alignment explanation
Indices: 18275228--18275387 Score: 168
Period size: 43 Copynumber: 3.7 Consensus size: 44
18275218 GTACAATGAC
* * * *
18275228 ATATCCCAGATATGGTTTTACATGTTATCACATAT-CGATGCCA
1 ATATCCCAGACATGGTCTTACACGTAATCACATATACGATGCCA
* *
18275271 CTATCCCAGACAGGGTCTTACACG-AATCA-ATATACGATGCCA
1 ATATCCCAGACATGGTCTTACACGTAATCACATATACGATGCCA
* * *
18275313 ATGTCCCA-AGCATGGTCTTACACATAATCACA-ATACAATGCCA
1 ATATCCCAGA-CATGGTCTTACACGTAATCACATATACGATGCCA
* * *
18275356 ATGTCCCAGATATGGTCTTACATGTAATCACA
1 ATATCCCAGACATGGTCTTACACGTAATCACA
18275388 ACTCAATAAC
Statistics
Matches: 98, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
41 5 0.05
42 30 0.31
43 61 0.62
44 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (44 bp):
ATATCCCAGACATGGTCTTACACGTAATCACATATACGATGCCA
Found at i:18277938 original size:20 final size:20
Alignment explanation
Indices: 18277915--18277953 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
18277905 TAAACATGGT
18277915 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
18277935 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
18277954 TGTATTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:18278087 original size:24 final size:24
Alignment explanation
Indices: 18278003--18278147 Score: 195
Period size: 25 Copynumber: 6.0 Consensus size: 24
18277993 GGAGGAAGTG
* *
18278003 TAAAATGGCTTATGCCCTAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
18278027 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
18278052 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
18278077 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
18278101 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
18278124 TAAAAGAGGC-TAGGCCTCCAGTTA
1 TAAAAG-GGCTTATGCC-CCAGTTA
18278148 AATGATAAAG
Statistics
Matches: 112, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
23 19 0.17
24 40 0.36
25 53 0.47
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:18278095 original size:49 final size:49
Alignment explanation
Indices: 18278009--18278157 Score: 196
Period size: 47 Copynumber: 3.0 Consensus size: 49
18277999 AGTGTAAAAT
* *
18278009 GGCTTATGCCCTAGTTATGATAAAGGGCTTATGCCCCAGTTATGATAAAG
1 GGCTTATGCCCCAGTTATTA-AAAGGGCTTATGCCCCAGTTATGATAAAG
*
18278059 GGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTA-AAAG
1 GGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATGATAAAG
*
18278107 GGCTT-TGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAAATGATAAAG
1 GGCTTATGCCCCAGTTATTAAAAG-GGCTTATGCC-CCAGTT--ATGATAAAG
18278158 CAGCTATGTT
Statistics
Matches: 89, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
47 23 0.26
48 18 0.20
49 23 0.26
50 21 0.24
51 4 0.04
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (49 bp):
GGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATGATAAAG
Found at i:18278377 original size:31 final size:31
Alignment explanation
Indices: 18278342--18278404 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
18278332 CGTTTACAGT
*
18278342 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATACGAAATATGA
**
18278373 AAAGGCTTCGGCCCAGTGTTACGAAATATGA
1 AAAGGCTTCGGCCCAGTAATACGAAATATGA
18278404 A
1 A
18278405 GTGTGAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATACGAAATATGA
Found at i:18293598 original size:39 final size:39
Alignment explanation
Indices: 18293550--18293657 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 39
18293540 GCTACTCGTT
* * * *
18293550 CAAACGCCTTCGGACATAGCCCGGTTATGGT-AACCCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATAT-CTCAACCCGCA
* *
18293589 CAAATGCCTTCGGGACTTAACCCGGATATCTCAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATATCTCAACCCGCA
* *
18293629 CAATTGCCTTCGGGCTTAGCCCGGATATC
1 CAAATGCCTTCGGACTTAGCCCGGATATC
18293658 ACAATTCGCA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
39 27 0.47
40 31 0.53
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.22
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATATCTCAACCCGCA
Found at i:18293667 original size:39 final size:40
Alignment explanation
Indices: 18293585--18293669 Score: 127
Period size: 39 Copynumber: 2.1 Consensus size: 40
18293575 TATGGTAACC
*
18293585 CGCACAAATGCCTTCGGGACTTAACCCGGATATCTCAACT
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
* * *
18293625 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAATT
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
18293664 CGCACA
1 CGCACA
18293670 TTCATACACA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 24 0.59
40 17 0.41
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (40 bp):
CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
Found at i:18305546 original size:38 final size:39
Alignment explanation
Indices: 18305402--18305561 Score: 243
Period size: 39 Copynumber: 4.2 Consensus size: 39
18305392 TATGGTAACC
* * *
18305402 CGCACAAATGCCTTC-GACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
18305440 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
18305479 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
18305518 CGCACAATTGCCTTC-GGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
18305556 CGCACA
1 CGCACA
18305562 TTCATACACA
Statistics
Matches: 111, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 42 0.38
39 69 0.62
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:18307589 original size:17 final size:19
Alignment explanation
Indices: 18307549--18307590 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
18307539 GCATATGCAT
18307549 ATGT-AAAGAGTTGTGACCA
1 ATGTCAAAGAGTTGTGA-CA
18307568 ATGTCAAAGAGTTG-GA-A
1 ATGTCAAAGAGTTGTGACA
18307585 ATGTCA
1 ATGTCA
18307591 CCAACAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.32
19 6 0.27
20 9 0.41
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (19 bp):
ATGTCAAAGAGTTGTGACA
Found at i:18319177 original size:26 final size:26
Alignment explanation
Indices: 18319146--18319253 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
18319136 TGAAATGTCC
*
18319146 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
18319172 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
18319198 ATCATGGAATATATACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
18319224 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
18319250 ATCA
1 ATCA
18319254 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:18326290 original size:26 final size:26
Alignment explanation
Indices: 18326259--18326366 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
18326249 TGAAATGCCC
*
18326259 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
18326285 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
18326311 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
18326337 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
18326363 ATCA
1 ATCA
18326367 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:18327833 original size:40 final size:40
Alignment explanation
Indices: 18327781--18327969 Score: 220
Period size: 40 Copynumber: 4.7 Consensus size: 40
18327771 GCCACTAGCT
* *
18327781 CAAATGCCTTCGGGACTTAGCCCGGTTATGGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
18327821 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
18327861 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * ** * *
18327901 CGAATGCCTTCGGGACTTAGCCCGG-AATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
18327941 CAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 CAAATGCCT-TCGGGACTTAGCCCGGTTAT
18327970 CATCCGAACA
Statistics
Matches: 129, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.02
40 125 0.97
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:18327954 original size:80 final size:81
Alignment explanation
Indices: 18327748--18327965 Score: 270
Period size: 80 Copynumber: 2.7 Consensus size: 81
18327738 AAACCAAGTA
** * *
18327748 CCTTCGGGGTTTAG-CCGG-ATATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTTATG
1 CCTTCGGGACTTAGCCCGGAATATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGGATATA
*
18327811 GTAACTTGCACAAATG
66 GTAACTCGCACAAATG
* * *
18327827 CCTTCGGGACTTAGCCCGGATATAATAG---CTCGCACAAACGCCTTCGGGACTTAGCCCGGATA
1 CCTTCGGGACTTAGCCCGGA-AT-ATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGGATA
* *
18327889 TAGTAGCTCGCACGAATG
64 TAGTAACTCGCACAAATG
18327907 CCTTCGGGACTTAGCCCGGAAT-TAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGGAATATAGCCACTAGCTCAAATGCCT-TCGGGACTTAGCCCGG
18327966 TTATCATCCG
Statistics
Matches: 118, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
77 3 0.03
79 16 0.14
80 93 0.79
82 2 0.02
83 4 0.03
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (81 bp):
CCTTCGGGACTTAGCCCGGAATATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGGATATA
GTAACTCGCACAAATG
Found at i:18335916 original size:40 final size:40
Alignment explanation
Indices: 18335864--18336052 Score: 220
Period size: 40 Copynumber: 4.7 Consensus size: 40
18335854 GCCACTAGCT
* *
18335864 CAAATGCCTTCGGGACTTAGCCCGGTTATGGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
18335904 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
18335944 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * ** * *
18335984 CGAATGCCTTCGGGACTTAGCCCGG-AATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
18336024 CAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 CAAATGCCT-TCGGGACTTAGCCCGGTTAT
18336053 CATCCGAACA
Statistics
Matches: 129, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.02
40 125 0.97
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:18336037 original size:80 final size:81
Alignment explanation
Indices: 18335831--18336048 Score: 270
Period size: 80 Copynumber: 2.7 Consensus size: 81
18335821 AAACCAAGTA
** * *
18335831 CCTTCGGGGTTTAG-CCGG-ATATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTTATG
1 CCTTCGGGACTTAGCCCGGAATATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGGATATA
*
18335894 GTAACTTGCACAAATG
66 GTAACTCGCACAAATG
* * *
18335910 CCTTCGGGACTTAGCCCGGATATAATAG---CTCGCACAAACGCCTTCGGGACTTAGCCCGGATA
1 CCTTCGGGACTTAGCCCGGA-AT-ATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGGATA
* *
18335972 TAGTAGCTCGCACGAATG
64 TAGTAACTCGCACAAATG
18335990 CCTTCGGGACTTAGCCCGGAAT-TAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGGAATATAGCCACTAGCTCAAATGCCT-TCGGGACTTAGCCCGG
18336049 TTATCATCCG
Statistics
Matches: 118, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
77 3 0.03
79 16 0.14
80 93 0.79
82 2 0.02
83 4 0.03
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (81 bp):
CCTTCGGGACTTAGCCCGGAATATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGGATATA
GTAACTCGCACAAATG
Found at i:18338775 original size:26 final size:26
Alignment explanation
Indices: 18338689--18338776 Score: 83
Period size: 24 Copynumber: 3.5 Consensus size: 26
18338679 TCGAGCTATG
* **
18338689 ATCAGTAAGCTCCTCCTGAGCTGATGG
1 ATCAGTAAGCT-CTCATGAGCTGATAA
* *
18338716 A-CAGTAAGCTCTGATAAGCTGA-AA
1 ATCAGTAAGCTCTCATGAGCTGATAA
* *
18338740 AT-AGTAAGCTCTTATGAGCTGATAT
1 ATCAGTAAGCTCTCATGAGCTGATAA
18338765 ATCAGTAAGCTC
1 ATCAGTAAGCTC
18338777 ATACGAGTTG
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
24 19 0.38
25 12 0.24
26 18 0.36
27 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (26 bp):
ATCAGTAAGCTCTCATGAGCTGATAA
Found at i:18340215 original size:611 final size:613
Alignment explanation
Indices: 18339050--18340269 Score: 2300
Period size: 611 Copynumber: 2.0 Consensus size: 613
18339040 TCCACTTTTC
18339050 CTTTTCCTCGATCTAATCCTGATCTCAGCTTATCTTGATCTATAAATTATCAAATTTAGTACATT
1 CTTTTCCTCGATCTAATCCTGATCTCAGCTTATCTTGATCTATAAATTATCAAATTTAGTACATT
* *
18339115 CAGCATTCGGTCTATTCAATTTATCCTATAATTTACAATTTGGCAAATTTACACATTTGCCCCTA
66 CAGCATTCGGTCTATTCAATTTATCCTATAATCTACAATTTGGAAAATTTACACATTTGCCCCTA
*
18339180 ATGTTTCACATTTTCACAATTTAGTCCTTATAACATAAAATTGTAAATTCATGCAATTTAGTACA
131 ATGTTTCACATTTTCACAATTTAGTCCTTATAACATAAAATTGCAAATTCATGCAATTTAGTACA
18339245 AAACCATGCTTAGCTGAATTTAATACATGTTATTATCAACCCATATTTTTAATTTATTCACACTT
196 AAACCATGCTTAGCTGAATTTAATACATGTTATTATCAACCCATATTTTTAATTTATTCACACTT
18339310 TCAACCACCACATTTCACATTTTCTCAATTTAATCCCTATTTTTAATTTTCACTAAAAATCACTT
261 TCAACCACCACATTTCACATTTTCTCAATTTAATCCCTATTTTTAATTTTCACTAAAAATCACTT
18339375 TACAAAACTTGTTTAACTAATAACAAATATCCATAATCTATTATTAAACATAAAAACACTCATAT
326 TACAAAACTTGTTTAACTAATAACAAATATCCATAATCTATTATTAAACATAAAAACACTCATAT
*
18339440 ATTCATCAATGGAAATATTCAAAATCTTTAACAGTTTTCCAAACTAGTCCCTTGGCTAGCTAGTA
391 ATTCATCAATGGAAATATTCAAAATCTTTAACAGTTTTCCAAACTAGTCCCTGGGCTAGCTAGTA
18339505 CTAGTTGCAACGATCACAAAAACATAGAAATCATTAAAAACGGGACCAAAAATGGACTTACATGC
456 CTAGTTGCAACGATCACAAAAACATAGAAATCATTAAAAACGGGACCAAAAATGGACTTACATGC
*
18339570 TCAAGACACCATAGACGAATGTTCCAAGCTCTCAAATGGTGTTCTACAAGCCCTAATTTTGGTGG
521 TCAAGACACCATAGACGAATGTTCCAAGCTCTCAAATGGTGTTCTACAAGCCCTAATTTTGATGG
*
18339635 TGGTGCTTAATGAAGATGAAGACATTTG
586 TGATGCTTAATGAAGATGAAGACATTTG
** *
18339663 CTTTTCCTCGATCTAATCCTGATCTTGGCTTATCTTGATCTATATATTATCAAATTTAGTACATT
1 CTTTTCCTCGATCTAATCCTGATCTCAGCTTATCTTGATCTATAAATTATCAAATTTAGTACATT
* *
18339728 CAGTATTCGGTCTATTCAATTTATCCTATAATCTACAATTTGGAAAATTTACACATTTGCCCTTA
66 CAGCATTCGGTCTATTCAATTTATCCTATAATCTACAATTTGGAAAATTTACACATTTGCCCCTA
*
18339793 ATG-TTCACATTTTCACAATTTAGTCCTTATCACATAAAATTGCAAATTCATGCAATTTAGTACA
131 ATGTTTCACATTTTCACAATTTAGTCCTTATAACATAAAATTGCAAATTCATGCAATTTAGTACA
*
18339857 AAACCATGCTTAGCTGAATTTAATACATGTTGTTATCAACCCATATTTTTAATTTATTCACACTT
196 AAACCATGCTTAGCTGAATTTAATACATGTTATTATCAACCCATATTTTTAATTTATTCACACTT
18339922 TCAACCACCACATTTCACATTTTCTCAATTTAATCCCTA-TTTTAATTTTCACTAAAAATCACTT
261 TCAACCACCACATTTCACATTTTCTCAATTTAATCCCTATTTTTAATTTTCACTAAAAATCACTT
18339986 TACAAAACTTGTTTAACTAATAACAAATATCCATAATCTATTATTAAACATAAAAACACTCATAT
326 TACAAAACTTGTTTAACTAATAACAAATATCCATAATCTATTATTAAACATAAAAACACTCATAT
18340051 ATTCATCAATGGAAATATTCAAAATCTTTAACAGTTTTCCAAACTAGTCCCTGGGCTAGCTAGTA
391 ATTCATCAATGGAAATATTCAAAATCTTTAACAGTTTTCCAAACTAGTCCCTGGGCTAGCTAGTA
18340116 CTAGTTGCAACGATCACAAAAACATAGAAATCATTAAAAACGGGACCAAAAATGGACTTACATGC
456 CTAGTTGCAACGATCACAAAAACATAGAAATCATTAAAAACGGGACCAAAAATGGACTTACATGC
*
18340181 TCAAGACACCATAGACGAATGTTCCAAGCTCTCAAATGGTGTTCTACAAGCCCTATTTTTGATGG
521 TCAAGACACCATAGACGAATGTTCCAAGCTCTCAAATGGTGTTCTACAAGCCCTAATTTTGATGG
18340246 TGATGCTTAATGAAGATGAAGACA
586 TGATGCTTAATGAAGATGAAGACA
18340270 AAATGTTTTT
Statistics
Matches: 593, Mismatches: 14, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
611 305 0.51
612 162 0.27
613 126 0.21
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (613 bp):
CTTTTCCTCGATCTAATCCTGATCTCAGCTTATCTTGATCTATAAATTATCAAATTTAGTACATT
CAGCATTCGGTCTATTCAATTTATCCTATAATCTACAATTTGGAAAATTTACACATTTGCCCCTA
ATGTTTCACATTTTCACAATTTAGTCCTTATAACATAAAATTGCAAATTCATGCAATTTAGTACA
AAACCATGCTTAGCTGAATTTAATACATGTTATTATCAACCCATATTTTTAATTTATTCACACTT
TCAACCACCACATTTCACATTTTCTCAATTTAATCCCTATTTTTAATTTTCACTAAAAATCACTT
TACAAAACTTGTTTAACTAATAACAAATATCCATAATCTATTATTAAACATAAAAACACTCATAT
ATTCATCAATGGAAATATTCAAAATCTTTAACAGTTTTCCAAACTAGTCCCTGGGCTAGCTAGTA
CTAGTTGCAACGATCACAAAAACATAGAAATCATTAAAAACGGGACCAAAAATGGACTTACATGC
TCAAGACACCATAGACGAATGTTCCAAGCTCTCAAATGGTGTTCTACAAGCCCTAATTTTGATGG
TGATGCTTAATGAAGATGAAGACATTTG
Found at i:18342422 original size:161 final size:161
Alignment explanation
Indices: 18342157--18342478 Score: 599
Period size: 161 Copynumber: 2.0 Consensus size: 161
18342147 TGTATTTCAT
18342157 GCCGATATGTGTAATAACTCATTTCTTATTCATATCTTCTCATGTCAAGAACTTTTAGCAATTAC
1 GCCGATATGTGTAATAACTCATTTCTTATTCATATCTTCTCATGTCAAGAACTTTTAGCAATTAC
18342222 ATTTATCTGAAATATCGATGGATACACAGATAGTACACTCGAGGTGTATGAATCAAAATCTGTCA
66 ATTTATCTGAAATATCGATGGATACACAGATAGTACACTCGAGGTGTATGAATCAAAATCTGTCA
* *
18342287 ATTCATGTCTAATGGTACCCGTAGGGTACTA
131 ATTCATGTCTAATGGAACCCATAGGGTACTA
*
18342318 GCCGATATGTGTAATAACTCATTTCTTATTCATATCTTCTCATGTCAAGAACTTTTAGCAATTAG
1 GCCGATATGTGTAATAACTCATTTCTTATTCATATCTTCTCATGTCAAGAACTTTTAGCAATTAC
* *
18342383 ATTTATCTGAAATATCGATGGATACACAGATAGTACACTCGAGGTGTATGAATCAGAATTTGTCA
66 ATTTATCTGAAATATCGATGGATACACAGATAGTACACTCGAGGTGTATGAATCAAAATCTGTCA
18342448 ATTCATGTCTAATGGAACCCATAGGGTACTA
131 ATTCATGTCTAATGGAACCCATAGGGTACTA
18342479 TATTAGAGAG
Statistics
Matches: 156, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
161 156 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.34
Consensus pattern (161 bp):
GCCGATATGTGTAATAACTCATTTCTTATTCATATCTTCTCATGTCAAGAACTTTTAGCAATTAC
ATTTATCTGAAATATCGATGGATACACAGATAGTACACTCGAGGTGTATGAATCAAAATCTGTCA
ATTCATGTCTAATGGAACCCATAGGGTACTA
Found at i:18346079 original size:22 final size:22
Alignment explanation
Indices: 18346040--18346081 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
18346030 TTTGAACTAA
* *
18346040 TGTGTTATTGTTATTAGTTTGT
1 TGTGTTATTGCTACTAGTTTGT
*
18346062 TGTGTTATTGCTGCTAGTTT
1 TGTGTTATTGCTACTAGTTT
18346082 ATTGGACTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.12, C:0.05, G:0.24, T:0.60
Consensus pattern (22 bp):
TGTGTTATTGCTACTAGTTTGT
Found at i:18351969 original size:13 final size:12
Alignment explanation
Indices: 18351951--18351988 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
18351941 TGTATACCTG
18351951 TATTTTATTATTT
1 TATTTTATT-TTT
18351964 TATTTTATTTATT
1 TATTTTATTT-TT
18351977 TA-TTTATTTTT
1 TATTTTATTTTT
18351988 T
1 T
18351989 TAAGAACAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.12
12 8 0.33
13 13 0.54
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TATTTTATTTTT
Found at i:18351976 original size:17 final size:16
Alignment explanation
Indices: 18351953--18351990 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
18351943 TATACCTGTA
18351953 TTTTA-TTATTTTATTT
1 TTTTATTTA-TTTATTT
18351969 TATTTATTTATTTATTT
1 T-TTTATTTATTTATTT
18351986 TTTTA
1 TTTTA
18351991 AGAACAAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.25
17 12 0.60
18 3 0.15
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTATTTATTTATTT
Found at i:18352593 original size:45 final size:45
Alignment explanation
Indices: 18352529--18352618 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
18352519 TTCTGATATG
*
18352529 AAAGACCCCCCACACTTAAGATGTACATTGC-CTTCAATGTACAAA
1 AAAGACCCCCCACACTTAAGATGTACATTACTC-TCAATGTACAAA
*
18352574 AAAGACCCCTCACACTTAAGATGTACATTACTCTCAATGTACAAA
1 AAAGACCCCCCACACTTAAGATGTACATTACTCTCAATGTACAAA
18352619 GGTAGATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
45 41 0.98
46 1 0.02
ACGTcount: A:0.39, C:0.28, G:0.10, T:0.23
Consensus pattern (45 bp):
AAAGACCCCCCACACTTAAGATGTACATTACTCTCAATGTACAAA
Found at i:18362024 original size:28 final size:29
Alignment explanation
Indices: 18361957--18362057 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
18361947 ATAGTGAATC
*
18361957 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
18361986 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
18362014 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
18362044 CGCACACTTAGTGC
1 CGCACACTTAGTGC
18362058 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:18369876 original size:28 final size:29
Alignment explanation
Indices: 18369809--18369909 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
18369799 ATAGTGAATC
*
18369809 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
18369838 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
18369866 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
18369896 CGCACACTTAGTGC
1 CGCACACTTAGTGC
18369910 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:18371671 original size:35 final size:35
Alignment explanation
Indices: 18371612--18371700 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
18371602 TCTAAATGAC
* * * * * *
18371612 CTTGTATATTTGGCTACATGTGATGTTTTATTAAA
1 CTTGTATATTCGGCCATATATGATGATATATTAAA
*
18371647 CTTGTATATTCGGCCATATATGATGATATATTGAA
1 CTTGTATATTCGGCCATATATGATGATATATTAAA
*
18371682 CTTGTATATTCAGCCATAT
1 CTTGTATATTCGGCCATAT
18371701 GTTATTTTGG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (35 bp):
CTTGTATATTCGGCCATATATGATGATATATTAAA
Found at i:18378616 original size:35 final size:35
Alignment explanation
Indices: 18378557--18378680 Score: 149
Period size: 35 Copynumber: 3.5 Consensus size: 35
18378547 TCTAAATGAC
* * * * *
18378557 CTTGTATATTTGGCTACATGTGATGTTTTATTGAA
1 CTTGTATATTCGGCCATATGTGATGATATATTGAA
*
18378592 CTTGTATATTCGGCCATATATGATGATATATTGAA
1 CTTGTATATTCGGCCATATGTGATGATATATTGAA
* *
18378627 CTTGTATATTCGGCCATATGTGATGACATAATGAA
1 CTTGTATATTCGGCCATATGTGATGATATATTGAA
* *
18378662 CCTTGTGTATTTGGCCATA
1 -CTTGTATATTCGGCCATA
18378681 CAAGTAAGTA
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
35 61 0.79
36 16 0.21
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (35 bp):
CTTGTATATTCGGCCATATGTGATGATATATTGAA
Found at i:18399155 original size:17 final size:18
Alignment explanation
Indices: 18399133--18399167 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
18399123 AAGTTTTTTA
18399133 CTTTTTAC-AATTTAGTC
1 CTTTTTACAAATTTAGTC
18399150 CTTTTTACTAAATTTAGT
1 CTTTTTAC-AAATTTAGT
18399168 GCTCAAACGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.26, C:0.14, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTTTTACAAATTTAGTC
Found at i:18404952 original size:847 final size:842
Alignment explanation
Indices: 18403251--18404925 Score: 2358
Period size: 851 Copynumber: 2.0 Consensus size: 842
18403241 ATATTTCTAT
*
18403251 CCCATGCTTAGCACATTTTATGGATGATTTTTCCTTAAAATTGGTGAATTTGAAGCTCCTAATGC
1 CCCATGCTTAACACATTTTATGGATGATTTTTCCTTAAAATTGGTGAATTTGAAGCTCCTAATGC
* * * ** *
18403316 CTTAATTTCATATTTTATACTTAGGTGAGCATAGGAGAGTGAAAGGAACGAGAAACGGGCCAAAA
66 CGTAATTTCATATTTTATACTTAGGCGAGCATAAGAGAGCAAAAGGAACAAGAAACGGGCCAAAA
* * *
18403381 ATAGAGAAAATGCGCCAACATATGAAATCAACACGGCTTGGACCTCCTCACACGGGCAGACCACA
131 AAAGAGAAAATGCGCCAACATATAAAATCAACACGGCCTGGACCTCCTCACACGGGCAGACCACA
* *
18403446 CAGCCGTGTCAATTTGGCAGAATCGAAGCACGACTCACACGGGTGGACCACACGCTCGTCCCTAT
196 CAGCCGTGTCAATTTGGAAGAATCGAAGCACGACTCACACGGGTGGACCACACGCCCGTCCCTAT
* * * * *
18403511 TTAACAGGCTTGACCACGACCTGAAGTAATCCACCACGGGCTTGTTACACTGGCTTGTCACACGG
261 TCAACAGGCTCGACCACGACCTGAAGTAAT----C-CGGGCATG-T--AC-GGCTTGCCACACAG
* * *
18403576 GCGTGTCCTTATCAAGCCCAAATTGAGTCCAATTTAGAAAAGGTCAATTTTGAGGGTTCTTAGGC
317 GCGTGTCCCTACCAAGCCCAAATTGAGTCCAATTCAGAAAAGGTCAATTTTGAGGGTTCTTAGGC
*
18403641 ATTCTAAAGCCTATAAATACACCCTAGAGGAGGAGGAAAAGAGGACACATAGAGAAGGAAGCAGG
382 ATTCCAAAGCCTATAAATACACCCTAGAGGAGGAGGAAAAGAGGA-ACATAGAGAAGGAAGCAGG
* * * *
18403706 CAACTGCTCAAGGAAAGCCGATTGATCCATCTCAGAAGTCGGATTCATCATCAAAACTGAATATC
446 CAACTGCTCAAGGAAAGCCGATTGATCCATCTCAGAAGCCAGATTCATCATCAAAACTAAAGATC
* *
18403771 TCCCTTCAATTTCCCTTCAGAAATTTTGGGTTTTTCTTTATGTTTTGTATTCATTATTCTTCTGA
511 TCCCCTCAATTTCCCTTCAGAAATTTTGGGTCTTTCTTTATGTTTTGTATTCATTATTCTTCTGA
* *
18403836 GATGTTTACCTTTTTATTTATGAACTAAAACCCCTAAATACCTAAGGGGAATGAAACCTAAGATA
576 GATGTTTACCTTTTTAGTTATGAACTAAAACCCCTAAATACCTAAGGGGAATGAAACCTAAGACA
*
18403901 AATCTTGTTATTATTATCTGAATTGTATGATAAATATTTGACTTGTTCATAAGTATGTGTTCTTA
641 AATCTTGTTATTATTATCTGAATTGTATGATAAATATTTGACTTGTTCATAAGTATGTGCTCTTA
* *
18403966 ACTCTTGTCTTGATATTCCAGGATATTGATTCAAGTTAAGCTCTTATTCAGAGGAATAGACCCTG
706 ACTCTTATCTTGATATTCCAGGATATTGATTCAAGTTAAGCTCTTATTCAGAGGAATAGACCCGG
* * * * * ** *
18404031 TCTAAAAGTACATTTGTCATAATTAAGCGGAGTTGATTGCGCGCTGATAAACCGTAATTTATACA
771 TCCAAAAGTACAATTGTCATAATTAAGCGAAGTTGATTACGCGCTGAGAAA-C-TAAGGTAGACA
*
18404096 TATTTTTAC
834 TAATTTTAC
* * *
18404105 CCCATGCTTAACACATTTTATGGATGGTTTTTCCTTGAAATTGGTGAATTTGATGCTCCTAATGC
1 CCCATGCTTAACACATTTTATGGATGATTTTTCCTTAAAATTGGTGAATTTGAAGCTCCTAATGC
*
18404170 CGTAATTTCATGTTTTATACTTAGGCGAGCATAAGAGAGCAAAAGGAACAAGAAACGGGCCAAAA
66 CGTAATTTCATATTTTATACTTAGGCGAGCATAAGAGAGCAAAAGGAACAAGAAACGGGCC--AA
* *
18404235 ACGGGCCAAAACGGAGAAAATGGGCCAACGTATAAAATCAACACGGCCTGGACCTCCTCACACGG
129 A------AAAA--GAGAAAATGCGCCAACATATAAAATCAACACGGCCTGGACCTCCTCACACGG
* *
18404300 GCAGACCACACGGCCGTGTCAATTTGGAAGAATCGAAGCACGACTCACACTGGTGGACCACACGC
186 GCAGACCACACAGCCGTGTCAATTTGGAAGAATCGAAGCACGACTCACACGGGTGGACCACACGC
* * * * * * *
18404365 CCGTGCCTCTTCAACAGGCTCGACCAGGGCTTGAAGTAAT-CGTGCATG-A-GTC-TGCCACACA
251 CCGTCCCTATTCAACAGGCTCGACCACGACCTGAAGTAATCCGGGCATGTACGGCTTGCCACACA
* * *
18404426 GGCGTGTCCCTACCGAGCCCAAGTTTAGTCCAATTCAGAAAAGGTCAATTTTGAGGGTTCTTAGG
316 GGCGTGTCCCTACCAAGCCCAAATTGAGTCCAATTCAGAAAAGGTCAATTTTGAGGGTTCTTAGG
* *
18404491 CATTCCAAAGCCTATAAATACACCCTAGAGGAGGAGG-AAAGCA-G-ACATAGAGAAGGAGGTAG
381 CATTCCAAAGCCTATAAATACACCCTAGAGGAGGAGGAAAAG-AGGAACATAGAGAAGGAAGCAG
* * *
18404553 GGAACTGCTCAAGGGAAGCCGATTGATCCATCTCAGAAGCCAGATTCATCATCAAGACTAAAGAT
445 GCAACTGCTCAAGGAAAGCCGATTGATCCATCTCAGAAGCCAGATTCATCATCAAAACTAAAGAT
* *
18404618 CTCCCCTCAATTTCCCTTCAGTAGTTTTGGG-CTTTCTTTATGTTTTGTATTCATTATTCTTCTG
510 CTCCCCTCAATTTCCCTTCAGAAATTTTGGGTCTTTCTTTATGTTTTGTATTCATTATTCTTCTG
* * *
18404682 AGATGTTTTCCTTTTTAGTTATGAACTAAATCCCCTAAATATCTAAGGGGAATGAAACCTAAGAC
575 AGATGTTTACCTTTTTAGTTATGAACTAAAACCCCTAAATACCTAAGGGGAATGAAACCTAAGAC
* * * * *
18404747 GAATCTTGTTATTATTTTCTGAATTGTATGATAAATATTTGGCTTGTTCTTAATTATGTGCTCTT
640 AAATCTTGTTATTATTATCTGAATTGTATGATAAATATTTGACTTGTTCATAAGTATGTGCTCTT
* *
18404812 AATTTCTTATTTTGATATTCCAGGATATTGATTCAAGTTAAGCTCTTATTCAGAGGAGGAATAGA
705 AA-CTCTTATCTTGATATTCCAGGATATTGATTCAAGTTAAGCTCTTATTC--A-GAGGAATAGA
*
18404877 CCCGGTCCAAGAGTACAATTGTCATAATTAAGCGAAGTTGATTACGCGC
766 CCCGGTCCAAAAGTACAATTGTCATAATTAAGCGAAGTTGATTACGCGC
18404926 CTAGAGATAG
Statistics
Matches: 734, Mismatches: 72, Indels: 33
0.87 0.09 0.04
Matches are distributed among these distances:
847 153 0.21
848 147 0.20
850 6 0.01
851 156 0.21
852 2 0.00
854 116 0.16
856 3 0.00
858 6 0.01
862 3 0.00
864 142 0.19
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (842 bp):
CCCATGCTTAACACATTTTATGGATGATTTTTCCTTAAAATTGGTGAATTTGAAGCTCCTAATGC
CGTAATTTCATATTTTATACTTAGGCGAGCATAAGAGAGCAAAAGGAACAAGAAACGGGCCAAAA
AAAGAGAAAATGCGCCAACATATAAAATCAACACGGCCTGGACCTCCTCACACGGGCAGACCACA
CAGCCGTGTCAATTTGGAAGAATCGAAGCACGACTCACACGGGTGGACCACACGCCCGTCCCTAT
TCAACAGGCTCGACCACGACCTGAAGTAATCCGGGCATGTACGGCTTGCCACACAGGCGTGTCCC
TACCAAGCCCAAATTGAGTCCAATTCAGAAAAGGTCAATTTTGAGGGTTCTTAGGCATTCCAAAG
CCTATAAATACACCCTAGAGGAGGAGGAAAAGAGGAACATAGAGAAGGAAGCAGGCAACTGCTCA
AGGAAAGCCGATTGATCCATCTCAGAAGCCAGATTCATCATCAAAACTAAAGATCTCCCCTCAAT
TTCCCTTCAGAAATTTTGGGTCTTTCTTTATGTTTTGTATTCATTATTCTTCTGAGATGTTTACC
TTTTTAGTTATGAACTAAAACCCCTAAATACCTAAGGGGAATGAAACCTAAGACAAATCTTGTTA
TTATTATCTGAATTGTATGATAAATATTTGACTTGTTCATAAGTATGTGCTCTTAACTCTTATCT
TGATATTCCAGGATATTGATTCAAGTTAAGCTCTTATTCAGAGGAATAGACCCGGTCCAAAAGTA
CAATTGTCATAATTAAGCGAAGTTGATTACGCGCTGAGAAACTAAGGTAGACATAATTTTAC
Found at i:18408767 original size:18 final size:18
Alignment explanation
Indices: 18408727--18408786 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
18408717 CACAGCCATT
* *
18408727 CGACACAACTGTGTGGAC
1 CGACACAGCTGTGTGCAC
* *
18408745 TGACACAGTTGTGTGCAC
1 CGACACAGCTGTGTGCAC
*
18408763 CGACACGGCTGTGTGCAC
1 CGACACAGCTGTGTGCAC
*
18408781 CCACAC
1 CGACAC
18408787 GCCCAAGGAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.23, C:0.32, G:0.27, T:0.18
Consensus pattern (18 bp):
CGACACAGCTGTGTGCAC
Found at i:18420441 original size:539 final size:542
Alignment explanation
Indices: 18419421--18420481 Score: 1636
Period size: 539 Copynumber: 2.0 Consensus size: 542
18419411 TGATTGCGCG
* **
18419421 CCTAGAGATAGGGTGACAAGATTTTGCCGGATTAGGGTGAAACCTAATAAGGGGATCCATAGATC
1 CCTAGAGATAGGGTGACAAGATTTTGCCAGATTAGGGTGAAACCTAATAAGGAAATCCATAGATC
* * * * *
18419486 GAGTTAATGTAACCCTAGGGTGTTAATTAGAGAAAAGTCTAAATTATTCAATCTAGGGATTAGAC
66 AAGTTAATGCAACCCTAGGGAGTTAATTAGAGAAAAGTCTAAATTATTAAACCTAGGGATTAGAC
* * *
18419551 GTTATTAGTCTTGAATAGGGATAATAACATAACTTAGGAAACTCTACGGAACAAGTTAAATGAAT
131 GTTATTAGTCTCGAAGAGGGATAATAACATAACATAGGAAACTCTACGGAACAAGTTAAATGAAT
* * *
18419616 AAATCGTCTGATTCGGAGTCAGAATAACAAGTGAAGTCTAGGTGGATTTTTCCTTAGGTATTGTC
196 AAATCATCCGATTCAGAGTCAGAATAACAAGTGAAGTCTAGGTGGATTTTTCCTTAGGTATTGTC
18419681 TTAATCCAATCGTTTTCCAAAAGTAATCCTCCAAATCTATTTTCTGTGAATTCTTAGTTTAGTTA
261 TTAATCCAATCGTTTTCCAAAAGTAATCCTCCAAATCTATTTTCTGTGAATTCTTAGTTTAGTTA
* *
18419746 ATTAGTTAGTTAAAACAAACCCCTTTACTCTTAGGCTAAATAATAAAAAGACAGTCATTACTAGC
326 ATTAGTTAGATAAAACAAACACCTTTACTCTTAGGCTAAATAATAAAAAGACAGTCATTACTAGC
* * * *
18419811 ACTTTTAGTTCCTTTGGGTTTGACAATCTGGTCTTGCTAAAACTATACTATTGTTCGATAGGTAC
391 ACTTTTAGCTCCTTTGGGTTCGACAATCTGATCTTGCTAAAACTATACTACTGTTCGATAGGTAC
*
18419876 ACTTGCCTATATCGTGATAATAGTTAGTCTCAAGAATGATTCATTATAAATATTTAAAACCTGTC
456 ACTTGCCTATATCGTGATAATAGTTAGTCTCAAGAACGATTCATTATAAATATTTAAAACCTGTC
18419941 ACACAAAAATATCGATCACGCA
521 ACACAAAAATATCGATCACGCA
18419963 CCTAGAGATAGGGTGACAAGATTTTGCCAGATTAGGGTGAAACCTAATAAGGAAATCCATAGATC
1 CCTAGAGATAGGGTGACAAGATTTTGCCAGATTAGGGTGAAACCTAATAAGGAAATCCATAGATC
* * *
18420028 AAGTTAATGCAACCCTAGGGAGTTAATTAGA-AAGAGATTTCAATTATTAAACCTAGGG-TTAGA
66 AAGTTAATGCAACCCTAGGGAGTTAATTAGAGAAAAG-TCTAAATTATTAAACCTAGGGATTAGA
* * * * ** *
18420091 TGTTGTTAGTCTCG-AGAGGGATAATAATATAACATAGGGATTTCTACGGATCAAGTTAAATGAA
130 CGTTATTAGTCTCGAAGAGGGATAATAACATAACATAGGAAACTCTACGGAACAAGTTAAATGAA
*
18420155 TAAATCATCCGATTCAGAGTCA-AATAACTAGTGAAGTCTAGGTGGATTTTTCCTTAGGTATTGT
195 TAAATCATCCGATTCAGAGTCAGAATAACAAGTGAAGTCTAGGTGGATTTTTCCTTAGGTATTGT
* * *
18420219 CTTAATTCAATCGTTTTTTCCAAAAGTAATTCC-CCAATTCTATTTTCTGTGATTTCTTAGTTTA
260 CTTAATCCAATCG--TTTTCCAAAAGTAA-TCCTCCAAATCTATTTTCTGTGAATTCTTAGTTTA
* *
18420283 GTTAATTAGTTAGAT-AAACAAA-ACCTATTATTCTTAGGCTAGATAAT-AAAAGACAGTCATTA
322 GTTAATTAGTTAGATAAAACAAACACCT-TTACTCTTAGGCTAAATAATAAAAAGACAGTCATTA
* *
18420345 CTAGTACTTTTAGCTCCTTTGGGTTCGACAATCTGATCTTGCTAAAGCTATACTACTGTTCGATA
386 CTAGCACTTTTAGCTCCTTTGGGTTCGACAATCTGATCTTGCTAAAACTATACTACTGTTCGATA
* *
18420410 GGTACACTTGCCT-TCATCGTGATAATAGTTAGTTTCAAGAACGATTCGTTATAAATATTTAAAA
451 GGTACACTTGCCTAT-ATCGTGATAATAGTTAGTCTCAAGAACGATTCATTATAAATATTTAAAA
18420474 CCTGTCAC
515 CCTGTCAC
18420482 GAATATCACG
Statistics
Matches: 472, Mismatches: 41, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
538 1 0.00
539 197 0.42
540 87 0.18
541 77 0.16
542 110 0.23
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (542 bp):
CCTAGAGATAGGGTGACAAGATTTTGCCAGATTAGGGTGAAACCTAATAAGGAAATCCATAGATC
AAGTTAATGCAACCCTAGGGAGTTAATTAGAGAAAAGTCTAAATTATTAAACCTAGGGATTAGAC
GTTATTAGTCTCGAAGAGGGATAATAACATAACATAGGAAACTCTACGGAACAAGTTAAATGAAT
AAATCATCCGATTCAGAGTCAGAATAACAAGTGAAGTCTAGGTGGATTTTTCCTTAGGTATTGTC
TTAATCCAATCGTTTTCCAAAAGTAATCCTCCAAATCTATTTTCTGTGAATTCTTAGTTTAGTTA
ATTAGTTAGATAAAACAAACACCTTTACTCTTAGGCTAAATAATAAAAAGACAGTCATTACTAGC
ACTTTTAGCTCCTTTGGGTTCGACAATCTGATCTTGCTAAAACTATACTACTGTTCGATAGGTAC
ACTTGCCTATATCGTGATAATAGTTAGTCTCAAGAACGATTCATTATAAATATTTAAAACCTGTC
ACACAAAAATATCGATCACGCA
Found at i:18423165 original size:26 final size:26
Alignment explanation
Indices: 18423134--18423184 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
18423124 TTGAGGTAAG
18423134 ATCATCACAAGTTCGACAGTTTTAAT
1 ATCATCACAAGTTCGACAGTTTTAAT
*
18423160 ATCATCCCAAGTTCGACAGTTTTAA
1 ATCATCACAAGTTCGACAGTTTTAA
18423185 GGTAAACAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (26 bp):
ATCATCACAAGTTCGACAGTTTTAAT
Found at i:18425028 original size:14 final size:14
Alignment explanation
Indices: 18425009--18425037 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18424999 CATATTTCGA
18425009 GAAAAAGCTCTGTT
1 GAAAAAGCTCTGTT
18425023 GAAAAAGCTCTGTT
1 GAAAAAGCTCTGTT
18425037 G
1 G
18425038 TACGCAACTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (14 bp):
GAAAAAGCTCTGTT
Found at i:18428434 original size:30 final size:30
Alignment explanation
Indices: 18428400--18428459 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
18428390 AATAATTCAT
18428400 ACTTTGGA-AAAATGACCAATTTT-CCCCTAG
1 ACTTT-GACAAAATGACC-ATTTTACCCCTAG
*
18428430 ACTTTGACAAAATGATCATTTTACCCCTAG
1 ACTTTGACAAAATGACCATTTTACCCCTAG
18428460 GTTCGAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (30 bp):
ACTTTGACAAAATGACCATTTTACCCCTAG
Found at i:18429819 original size:37 final size:37
Alignment explanation
Indices: 18429769--18429842 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
18429759 GTGTAAGACC
*
18429769 ATATTTGGGATATGGCATCTATATGAGACTTCGTGTA
1 ATATTTGGGATATGGCATCGATATGAGACTTCGTGTA
*
18429806 ATATTTGGGATATGGCATCGATATGAGATTTCGTGTA
1 ATATTTGGGATATGGCATCGATATGAGACTTCGTGTA
18429843 CGACCATAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.27, C:0.09, G:0.26, T:0.38
Consensus pattern (37 bp):
ATATTTGGGATATGGCATCGATATGAGACTTCGTGTA
Found at i:18431288 original size:42 final size:42
Alignment explanation
Indices: 18431229--18431311 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
18431219 ACAAGTAAGG
18431229 GTGGCAAAATGGCTTGGTAAATAGCCTTTTTTTGGTCCACAC
1 GTGGCAAAATGGCTTGGTAAATAGCCTTTTTTTGGTCCACAC
*
18431271 GTGGCAAAATGGCTTGGTAAATAGCCTTTTTTTTGTCCACA
1 GTGGCAAAATGGCTTGGTAAATAGCCTTTTTTTGGTCCACA
18431312 TGGGTAGACA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (42 bp):
GTGGCAAAATGGCTTGGTAAATAGCCTTTTTTTGGTCCACAC
Found at i:18435398 original size:22 final size:22
Alignment explanation
Indices: 18435370--18435413 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
18435360 GTATTGATAC
18435370 CAAATTACATTACTGAATTCTT
1 CAAATTACATTACTGAATTCTT
*
18435392 CAAATTACGTTACTGAATTCTT
1 CAAATTACATTACTGAATTCTT
18435414 ACACTATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.18, G:0.07, T:0.41
Consensus pattern (22 bp):
CAAATTACATTACTGAATTCTT
Found at i:18447470 original size:27 final size:28
Alignment explanation
Indices: 18447393--18447461 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
18447383 GCGTAGATCA
*
18447393 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
18447421 CGAAATTACCCCTAAAGAGTAAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
*
18447449 CGATA-TACCCCTA
1 CGAAATTACCCCTA
18447462 GGGTTTAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGTAAAATTAC
Found at i:18454922 original size:27 final size:28
Alignment explanation
Indices: 18454845--18454913 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
18454835 GCGTAGATCA
*
18454845 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
18454873 CGAAATTACCCCTAAAGAGTAAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
*
18454901 CGATA-TACCCCTA
1 CGAAATTACCCCTA
18454914 GGGTTTAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGTAAAATTAC
Found at i:18457711 original size:14 final size:14
Alignment explanation
Indices: 18457692--18457720 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18457682 GGCCAGAACG
18457692 TCTAGCAGCACAGT
1 TCTAGCAGCACAGT
18457706 TCTAGCAGCACAGT
1 TCTAGCAGCACAGT
18457720 T
1 T
18457721 TCGAATTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (14 bp):
TCTAGCAGCACAGT
Found at i:18459154 original size:18 final size:16
Alignment explanation
Indices: 18459114--18459156 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
18459104 GCTAAATTGG
18459114 TAAAGATTAATATATA
1 TAAAGATTAATATATA
18459130 -AATAGATATAATTATATA
1 TAA-AGAT-TAA-TATATA
18459148 TAAAGATTA
1 TAAAGATTA
18459157 TCATCTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
15 2 0.09
16 4 0.17
17 5 0.22
18 10 0.43
19 2 0.09
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (16 bp):
TAAAGATTAATATATA
Found at i:18468646 original size:21 final size:21
Alignment explanation
Indices: 18468622--18468661 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18468612 TATTTGGTAA
*
18468622 AAATTTTCTAATTAAAAGATC
1 AAATCTTCTAATTAAAAGATC
* *
18468643 AAATCTTCTATTTGAAAGA
1 AAATCTTCTAATTAAAAGA
18468662 ACTTCAATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (21 bp):
AAATCTTCTAATTAAAAGATC
Found at i:18469289 original size:8 final size:8
Alignment explanation
Indices: 18469276--18469300 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18469266 CGTTTGGGTG
18469276 TTGAAACT
1 TTGAAACT
18469284 TTGAAACT
1 TTGAAACT
18469292 TTGAAACT
1 TTGAAACT
18469300 T
1 T
18469301 CAAAATACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (8 bp):
TTGAAACT
Found at i:18469373 original size:25 final size:25
Alignment explanation
Indices: 18469342--18469392 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
18469332 AGGGTAAACT
18469342 ACACAAATCATCATTCAAATTTTAA
1 ACACAAATCATCATTCAAATTTTAA
18469367 ACACAAATCATCATTCAAATTTTAA
1 ACACAAATCATCATTCAAATTTTAA
18469392 A
1 A
18469393 AGTTTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (25 bp):
ACACAAATCATCATTCAAATTTTAA
Found at i:18476477 original size:22 final size:23
Alignment explanation
Indices: 18476451--18476496 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
18476441 CAACCAAACC
18476451 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
18476473 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
18476496 A
1 A
18476497 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:18476502 original size:23 final size:23
Alignment explanation
Indices: 18476458--18476502 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
18476448 ACCAATTCAA
*
18476458 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
18476481 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
18476503 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:18476766 original size:24 final size:24
Alignment explanation
Indices: 18476734--18476781 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
18476724 TTCGTGCTTA
18476734 GTAAGCTCATGTAACAAGAATTAT
1 GTAAGCTCATGTAACAAGAATTAT
18476758 GTAAGCTCATGTAACAAGAATTAT
1 GTAAGCTCATGTAACAAGAATTAT
18476782 ACTTACCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (24 bp):
GTAAGCTCATGTAACAAGAATTAT
Found at i:18479994 original size:21 final size:21
Alignment explanation
Indices: 18479978--18480028 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
18479968 TAATTTTGTC
18479978 ATTTTTTATTTTTATTTTAAT
1 ATTTTTTATTTTTATTTTAAT
* *
18479999 ATTTTTTATTTTAAATTTAAT
1 ATTTTTTATTTTTATTTTAAT
*
18480020 -TTTTATATT
1 ATTTTTTATT
18480029 CTAATTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (21 bp):
ATTTTTTATTTTTATTTTAAT
Found at i:18480004 original size:15 final size:14
Alignment explanation
Indices: 18479986--18480016 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
18479976 TCATTTTTTA
18479986 TTTTTATTTTAATAT
1 TTTTTATTTTAA-AT
18480001 TTTTTATTTTAAAT
1 TTTTTATTTTAAAT
18480015 TT
1 TT
18480017 AATTTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTATTTTAAAT
Found at i:18482940 original size:12 final size:11
Alignment explanation
Indices: 18482922--18482965 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
18482912 AAAAAATTTG
18482922 AAAAAAAATAA
1 AAAAAAAATAA
18482933 AAATAAAAATGAA
1 AAA-AAAAAT-AA
*
18482946 AAAAATAATAA
1 AAAAAAAATAA
18482957 AAGAAAAAA
1 AA-AAAAAA
18482966 AAGTGAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 7 0.25
12 16 0.57
13 5 0.18
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.11
Consensus pattern (11 bp):
AAAAAAAATAA
Found at i:18482949 original size:15 final size:16
Alignment explanation
Indices: 18482931--18482966 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
18482921 GAAAAAAAAT
*
18482931 AAAAATAA-AAATGAA
1 AAAAATAATAAAAGAA
18482946 AAAAATAATAAAAGAA
1 AAAAATAATAAAAGAA
18482962 AAAAA
1 AAAAA
18482967 AGTGAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (16 bp):
AAAAATAATAAAAGAA
Found at i:18485105 original size:58 final size:55
Alignment explanation
Indices: 18484983--18485106 Score: 133
Period size: 56 Copynumber: 2.2 Consensus size: 55
18484973 TATCATGTAA
* * * *
18484983 CAGGATTACCAGTCCAGGCTAAATCCTTTTATATCGTATGCTCAGAGGAGCTCAAT
1 CAGGATTACCAGTCCAGGCTAAACCCTATCATAACGTATGCTCAGAGGA-CTCAAT
* * *
18485039 TAGGATTACTAGTCCAGGCTAAACCCTAATCATAACGTATGCTCAAGAGGTA-TTATAT
1 CAGGATTACCAGTCCAGGCTAAACCCT-ATCATAACGTATGCTC-AGAGG-ACTCA-AT
18485097 CAGGATTACC
1 CAGGATTACC
18485107 CGTTTGGTCT
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
56 24 0.44
57 15 0.27
58 15 0.27
59 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (55 bp):
CAGGATTACCAGTCCAGGCTAAACCCTATCATAACGTATGCTCAGAGGACTCAAT
Found at i:18495071 original size:43 final size:42
Alignment explanation
Indices: 18494979--18495090 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 42
18494969 TGAGATTACC
* *
18494979 TGTAAGACCATATCTGGGATATGGCATCGATATAAGACTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATAAGACTCCA
* * **
18495021 TGAAAGACCATAACTGGTCTATTGGCATCGATATAAGA-TCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATAAGACT-CCA
18495064 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
18495091 TGGTATGGTG
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
42 24 0.41
43 34 0.59
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATAAGACTCCA
Found at i:18495215 original size:21 final size:20
Alignment explanation
Indices: 18495174--18495218 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
18495164 GGAAATGTTA
*
18495174 ATGTTGCAAATGACTATGGT
1 ATGTTGCAAATGACTAAGGT
18495194 ATGTTGCAAGATGA-TACAGGT
1 ATGTTGCAA-ATGACTA-AGGT
18495215 ATGT
1 ATGT
18495219 ATGTAAGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.31, C:0.09, G:0.27, T:0.33
Consensus pattern (20 bp):
ATGTTGCAAATGACTAAGGT
Found at i:18496714 original size:22 final size:22
Alignment explanation
Indices: 18496687--18496730 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
18496677 TTTCATATAG
*
18496687 TAGTGGATCCCATTTGAGCTAA
1 TAGTGGATCCCATTCGAGCTAA
18496709 TAGTGGATCCCATTCGAGCTAA
1 TAGTGGATCCCATTCGAGCTAA
18496731 GGCTGATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (22 bp):
TAGTGGATCCCATTCGAGCTAA
Found at i:18501355 original size:40 final size:40
Alignment explanation
Indices: 18501300--18501377 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
18501290 TAGTAATGAA
18501300 TGTCTTTTTATTATCTAGCCTAAGAATAATGGGGTTTTAC
1 TGTCTTTTTATTATCTAGCCTAAGAATAATGGGGTTTTAC
18501340 TGTCTTTTTATTATCTAGCCTAAGAATAATGGGGTTTT
1 TGTCTTTTTATTATCTAGCCTAAGAATAATGGGGTTTT
18501378 GTTTTAATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.46
Consensus pattern (40 bp):
TGTCTTTTTATTATCTAGCCTAAGAATAATGGGGTTTTAC
Found at i:18517189 original size:13 final size:13
Alignment explanation
Indices: 18517171--18517195 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18517161 TATGTTATAT
18517171 GTGTGAAAATTTC
1 GTGTGAAAATTTC
18517184 GTGTGAAAATTT
1 GTGTGAAAATTT
18517196 TATTGTTTGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:18521381 original size:26 final size:26
Alignment explanation
Indices: 18521352--18521406 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
18521342 TCAGTCTTGA
*
18521352 GCACGGTTGATGGGTACGGGCGTGTC
1 GCACGGTTGATGGGTACGGGCATGTC
18521378 GCACGGTTGATGGGTACGGGCATGTC
1 GCACGGTTGATGGGTACGGGCATGTC
18521404 GCA
1 GCA
18521407 TGCCCGTGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.15, C:0.20, G:0.44, T:0.22
Consensus pattern (26 bp):
GCACGGTTGATGGGTACGGGCATGTC
Found at i:18522585 original size:16 final size:17
Alignment explanation
Indices: 18522556--18522591 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
18522546 TAAACATTTT
18522556 ATAAGGCTATGACATTG
1 ATAAGGCTATGACATTG
18522573 ATAAGGC-ATGACATTG
1 ATAAGGCTATGACATTG
18522589 ATA
1 ATA
18522592 CCCCTAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (17 bp):
ATAAGGCTATGACATTG
Found at i:18526617 original size:25 final size:24
Alignment explanation
Indices: 18526589--18526635 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
18526579 AAATATAACA
*
18526589 TAAAAGAAATAAAACAAATGAAACG
1 TAAAAGAAATAAAA-AAAGGAAACG
*
18526614 TAAAAGAAGTAAAAAAAGGAAA
1 TAAAAGAAATAAAAAAAGGAAA
18526636 GAAAGTTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.70, C:0.04, G:0.15, T:0.11
Consensus pattern (24 bp):
TAAAAGAAATAAAAAAAGGAAACG
Found at i:18527688 original size:39 final size:40
Alignment explanation
Indices: 18527581--18527691 Score: 102
Period size: 38 Copynumber: 2.8 Consensus size: 40
18527571 GACCTTGAGT
* * **
18527581 CGATGAGACACTGGGTTTC-ACTAAATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTATCAACT--ATTACTTCGGATAGAGC
** * *
18527622 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTATCAACTATTACTTCGGATAGAGC
*
18527660 CGATGAGACACTGGGTGTCAACTATTACTTCG
1 CGATGAGACACTGGGTATCAACTATTACTTCG
18527692 AACTATCCGA
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.34
39 19 0.34
41 15 0.27
42 3 0.05
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTATCAACTATTACTTCGGATAGAGC
Found at i:18527847 original size:18 final size:18
Alignment explanation
Indices: 18527824--18527863 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
18527814 AAAAAAAAAG
18527824 GAAATT-GAATTATGAATA
1 GAAATTGGAATTATG-ATA
*
18527842 GAAATTGGAATTGTGATA
1 GAAATTGGAATTATGATA
18527860 GAAA
1 GAAA
18527864 GAGAAAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (18 bp):
GAAATTGGAATTATGATA
Found at i:18529309 original size:34 final size:34
Alignment explanation
Indices: 18529250--18529348 Score: 155
Period size: 34 Copynumber: 2.9 Consensus size: 34
18529240 GTAAATTCGA
18529250 TTGTATATAT-TAATAGTGCCGAATTGAATTATTAT
1 TTGTATATATGT-ATA-TGCCGAATTGAATTATTAT
18529285 TTGTATATATGTATATGCCGAATTGAATTATTAT
1 TTGTATATATGTATATGCCGAATTGAATTATTAT
* *
18529319 TTTTATATATGTATATGTCGAATTGAATTA
1 TTGTATATATGTATATGCCGAATTGAATTA
18529349 AGCATGGGAG
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
34 47 0.77
35 13 0.21
36 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.47
Consensus pattern (34 bp):
TTGTATATATGTATATGCCGAATTGAATTATTAT
Found at i:18534731 original size:46 final size:46
Alignment explanation
Indices: 18534681--18534853 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
18534671 TGGTTGAGCA
*
18534681 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
18534727 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
18534774 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
18534820 -CTCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
18534854 GGGGCGAGTT
Statistics
Matches: 108, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 60 0.56
47 29 0.27
48 3 0.03
50 6 0.06
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:18534837 original size:93 final size:93
Alignment explanation
Indices: 18534678--18534848 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
18534668 GGATGGTTGA
*
18534678 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
*
18534743 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
*
18534771 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC-CGAACTCGTTGAG
18534835 TTGAGTCCAAGTTC
65 TTGAGTCCAAGTTC
18534849 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:18539861 original size:29 final size:29
Alignment explanation
Indices: 18539829--18539931 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
18539819 GTGACGAGAT
* *
18539829 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
18539858 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
18539887 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
18539916 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
18539932 TGATCGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:18547836 original size:29 final size:29
Alignment explanation
Indices: 18547804--18547906 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
18547794 GTGACGAGAT
* *
18547804 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
18547833 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
18547862 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
18547891 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
18547907 TGATCGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:18555827 original size:46 final size:47
Alignment explanation
Indices: 18555772--18555937 Score: 166
Period size: 46 Copynumber: 3.6 Consensus size: 47
18555762 TTTTGTAGTC
** * *
18555772 GATGCATGTCTTAGATATGTCTTACACTGGCT-TACATCTCGA-GCCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCAATGCCT
*
18555818 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAATGCCT
* *
18555865 -ATGCCAAGTCCCAGACATGGTCTTACACTGGCTCTC--GT-AATGTGGCC-
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCAA--T-GCCT
18555912 GATGCATGTCCCAGACATGTCTTACA
1 GATGCATGTCCCAGACATGTCTTACA
18555938 TTAGCACACA
Statistics
Matches: 103, Mismatches: 9, Indels: 16
0.80 0.07 0.12
Matches are distributed among these distances:
45 2 0.02
46 47 0.46
47 32 0.31
48 22 0.21
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAATGCCT
Found at i:18556658 original size:13 final size:13
Alignment explanation
Indices: 18556640--18556664 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18556630 TCTAAAATGC
18556640 AAAAATCATCAAG
1 AAAAATCATCAAG
18556653 AAAAATCATCAA
1 AAAAATCATCAA
18556665 AATCACTTAC
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:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:18557095 original size:28 final size:29
Alignment explanation
Indices: 18557048--18557102 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
18557038 TACAGGGTTT
*
18557048 TCACACGGCCAAGCACACGCCCGTGTCCC
1 TCACACCGCCAAGCACACGCCCGTGTCCC
*
18557077 TCACACCGCCTAG-ACACGCCCGTGTC
1 TCACACCGCCAAGCACACGCCCGTGTC
18557103 GTGTCCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.20, C:0.47, G:0.20, T:0.13
Consensus pattern (29 bp):
TCACACCGCCAAGCACACGCCCGTGTCCC
Found at i:18560128 original size:17 final size:17
Alignment explanation
Indices: 18560103--18560136 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18560093 TTTAATTCAA
*
18560103 GATATATCAATCAAAAT
1 GATAAATCAATCAAAAT
*
18560120 GATAAATCAATTAAAAT
1 GATAAATCAATCAAAAT
18560137 TTATCCTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.29
Consensus pattern (17 bp):
GATAAATCAATCAAAAT
Found at i:18581011 original size:30 final size:30
Alignment explanation
Indices: 18580975--18581034 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
18580965 TCTTTAATAC
*
18580975 AAACTTTGGAAAAATTACATTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
18581005 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
18581035 GGGCTCGGGA
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:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:18583366 original size:31 final size:31
Alignment explanation
Indices: 18583331--18583394 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
18583321 CTTTTTCATA
18583331 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
18583362 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
18583393 TT
1 TT
18583395 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:18583490 original size:42 final size:42
Alignment explanation
Indices: 18583418--18583501 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
18583408 TGGCCCATAG
**
18583418 GCCCATTTCAATATCACATATAATGTCAATGAAAGAATGCAA
1 GCCCATTTCAATATCACATATAATACCAATGAAAGAATGCAA
* *
18583460 GCCCATTTCAATATCACATGA-AATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACAT-ATAATACCAATGAAAGAATGCAA
18583502 ACCATTTGGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 36 0.97
43 1 0.03
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (42 bp):
GCCCATTTCAATATCACATATAATACCAATGAAAGAATGCAA
Found at i:18583708 original size:47 final size:47
Alignment explanation
Indices: 18583648--18583842 Score: 309
Period size: 47 Copynumber: 4.1 Consensus size: 47
18583638 GGCCTTGCCT
* * *
18583648 CTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCGTAAGCC
1 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
*
18583695 CTTTTGATCACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
* *
18583742 CTTTTGATAACTGGGGCGTAAGCCCTTTTAATAACTGGGGCGTAAGCC
1 CTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCC
* *
18583790 CTTTTGATCACTGGAGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
18583837 CTTTTG
1 CTTTTG
18583843 CACTTCCTCC
Statistics
Matches: 136, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
47 93 0.68
48 43 0.32
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.29
Consensus pattern (47 bp):
CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
Found at i:18583716 original size:24 final size:24
Alignment explanation
Indices: 18583648--18583841 Score: 277
Period size: 24 Copynumber: 8.2 Consensus size: 24
18583638 GGCCTTGCCT
*
18583648 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
18583672 C-TTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
18583695 CTTTTGATCACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
18583719 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
18583742 CTTTTGATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
18583766 CTTTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* * *
18583790 CTTTTGATCACTGGAGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
18583814 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
18583837 CTTTT
1 CTTTT
18583842 GCACTTCCTC
Statistics
Matches: 150, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
23 62 0.41
24 88 0.59
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:18583784 original size:95 final size:94
Alignment explanation
Indices: 18583648--18583842 Score: 345
Period size: 95 Copynumber: 2.1 Consensus size: 94
18583638 GGCCTTGCCT
* *
18583648 CTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCGTAAGCCCTTTTGATCACTGGGGCA
1 CTTTTGATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCGTAAGCCCTTTTGATCACTGGAGCA
18583713 TAAGCCCTTTAATAACTGGGGCATAAGCC
66 TAAGCCCTTTAATAACTGGGGCATAAGCC
**
18583742 CTTTTGATAACTGGGGCGTAAGCCCTTTTAATAACTGGGGCGTAAGCCCTTTTGATCACTGGAGC
1 CTTTTGATAACTGGGGCAAAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTTGATCACTGGAGC
18583807 ATAAGCCCTTTAATAACTGGGGCATAAGCC
65 ATAAGCCCTTTAATAACTGGGGCATAAGCC
18583837 CTTTTG
1 CTTTTG
18583843 CACTTCCTCC
Statistics
Matches: 96, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
94 22 0.23
95 74 0.77
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.29
Consensus pattern (94 bp):
CTTTTGATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCGTAAGCCCTTTTGATCACTGGAGCA
TAAGCCCTTTAATAACTGGGGCATAAGCC
Found at i:18583917 original size:20 final size:20
Alignment explanation
Indices: 18583887--18583937 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
18583877 GCATTTATGA
*
18583887 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
* *
18583907 ATATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
18583927 ACATATCATGT
1 ACATATCATGT
18583938 TTATCAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:18584002 original size:25 final size:25
Alignment explanation
Indices: 18583974--18584021 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
18583964 ATACATAAAC
*
18583974 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGTAAAATGGTCATTTTTA
18583999 CCTAGGGGTAAAATGGTCATTTT
1 CCTAGGGGTAAAATGGTCATTTT
18584022 CATATTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (25 bp):
CCTAGGGGTAAAATGGTCATTTTTA
Found at i:18585244 original size:27 final size:27
Alignment explanation
Indices: 18585182--18585246 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
18585172 GGGCATATTC
18585182 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
18585209 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
*
18585236 GTCTTTTTACC
1 GTCATTTTACC
18585247 TTTTAGGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:18585330 original size:27 final size:27
Alignment explanation
Indices: 18585300--18585351 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
18585290 GTAAATCAAC
18585300 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
18585327 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
18585352 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:18585446 original size:27 final size:27
Alignment explanation
Indices: 18585390--18585460 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
18585380 TGTAAATTAG
* ***
18585390 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTCACAAACCAA
18585417 GGGT-TTTTCGGTAATTTCACAAACCAA
1 GGGTATTTT-GGTAATTTCACAAACCAA
* *
18585444 GGGCATTTTAGTAATTT
1 GGGTATTTTGGTAATTT
18585461 TGTAAATCGA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 4 0.11
27 28 0.78
28 4 0.11
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTCACAAACCAA
Found at i:18585483 original size:27 final size:27
Alignment explanation
Indices: 18585453--18585772 Score: 299
Period size: 27 Copynumber: 11.9 Consensus size: 27
18585443 AGGGCATTTT
* *
18585453 AGTAATTTTGTAAATCGAAGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
18585480 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * * * *
18585507 AGTAATTCTATAAATCAAAGTTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
18585534 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
18585561 AGCAATTCAGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
18585588 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
18585615 -GATAATTATGTAAAT-TAGGGGTAAAAT
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
* *
18585642 GGTAATTCTGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
18585669 GGTAATTCTGTAAGTTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
18585696 -GATAATTATGTAAATC-AGGGGTAAAAC
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
* * **
18585723 GGTAATTATGTAAATTAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
18585750 GGTAATTCTGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
18585773 CTTTGGTAAT
Statistics
Matches: 251, Mismatches: 34, Indels: 16
0.83 0.11 0.05
Matches are distributed among these distances:
26 4 0.02
27 243 0.97
28 4 0.02
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:18585512 original size:81 final size:82
Alignment explanation
Indices: 18585427--18585594 Score: 180
Period size: 81 Copynumber: 2.1 Consensus size: 82
18585417 GGGTTTTTCG
* *** * * * *
18585427 GTAATTTC-ACAAACCAAGGGCATTTTAGTAATTTTGTAAATCGAA-GGTAAAACAGTAATTCTG
1 GTAATTTCTACAAACCAAAGGCAAAATAGTAATTCTATAAATC-AAGGGTAAAACAGCAATTCAG
18585490 TAAATCAAGGGTAAAACA
65 TAAATCAAGGGTAAAACA
* * **
18585508 GTAA-TTCTATAAATCAAAGTTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGCAATTCAGT
1 GTAATTTCTACAAACCAAAGGCAAAATAGTAATTCTATAAATCAAGGGTAAAACAGCAATTCAGT
* *
18585572 AAATCGAGGGTAAAACG
66 AAATCAAGGGTAAAACA
18585589 GTAATT
1 GTAATT
18585595 CTGTAAGTCG
Statistics
Matches: 70, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
80 5 0.07
81 64 0.91
82 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (82 bp):
GTAATTTCTACAAACCAAAGGCAAAATAGTAATTCTATAAATCAAGGGTAAAACAGCAATTCAGT
AAATCAAGGGTAAAACA
Found at i:18585595 original size:81 final size:81
Alignment explanation
Indices: 18585455--18585772 Score: 345
Period size: 81 Copynumber: 3.9 Consensus size: 81
18585445 GGCATTTTAG
* * * *
18585455 TAATTTTGTAAATCGAA-GGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 TAATTATGTAAATC-AAGGGTAAAACAGTAATTCAGTAAATCAAGGGTAAAACGGTAATTCTGTA
* * *
18585519 AATCAAAGTTAAAATAG-
65 AATCGAGGGTAAAA-AGA
* * * *
18585536 TAATTCTATAAATCAAGGGTAAAACAGCAATTCAGTAAATCGAGGGTAAAACGGTAATTCTGTAA
1 TAATTATGTAAATCAAGGGTAAAACAGTAATTCAGTAAATCAAGGGTAAAACGGTAATTCTGTAA
* *
18585601 GTCGAGGGTAAAACGA
66 ATCGAGGGTAAAAAGA
* * ** * * *
18585617 TAATTATGTAAATTAGGGGTAAAATGGTAATTCTGTAAATTAGGGGTAAAACGGTAATTCTGTAA
1 TAATTATGTAAATCAAGGGTAAAACAGTAATTCAGTAAATCAAGGGTAAAACGGTAATTCTGTAA
* * *
18585682 GTTGAGGGTAAAACGA
66 ATCGAGGGTAAAAAGA
* * *
18585698 TAATTATGTAAATCAGGGGTAAAACGGTAATT-ATGTAAATTAAGGGTAAAACGGTAATTCTGTA
1 TAATTATGTAAATCAAGGGTAAAACAGTAATTCA-GTAAATCAAGGGTAAAACGGTAATTCTGTA
*
18585762 AATCGGGGGTA
65 AATCGAGGGTA
18585773 CTTTGGTAAT
Statistics
Matches: 203, Mismatches: 31, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
80 3 0.01
81 200 0.99
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (81 bp):
TAATTATGTAAATCAAGGGTAAAACAGTAATTCAGTAAATCAAGGGTAAAACGGTAATTCTGTAA
ATCGAGGGTAAAAAGA
Found at i:18585772 original size:54 final size:54
Alignment explanation
Indices: 18585454--18585765 Score: 331
Period size: 54 Copynumber: 5.8 Consensus size: 54
18585444 GGGCATTTTA
* * * *
18585454 GTAATTTTGTAAATCGAA-GGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTATGTAAAT-TAAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACG
* * * * * ** * *
18585508 GTAATTCTATAAATCAAAGTTAAAATAGTAATTCTATAAATCAAGGGTAAAACA
1 GTAATTATGTAAATTAAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACG
* ** * *
18585562 GCAATTCA-GTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATT-ATGTAAATTAAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACG
* * * * *
18585616 ATAATTATGTAAATTAGGGGTAAAATGGTAATTCTGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATTAAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACG
* * * * * *
18585670 GTAATTCTGTAAGTTGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATTAAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACG
18585724 GTAATTATGTAAATTAAGGGTAAAACGGTAATTCTGTAAATC
1 GTAATTATGTAAATTAAGGGTAAAACGGTAATTCTGTAAATC
18585766 GGGGGTACTT
Statistics
Matches: 213, Mismatches: 42, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
53 3 0.01
54 210 0.99
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (54 bp):
GTAATTATGTAAATTAAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACG
Found at i:18585799 original size:27 final size:27
Alignment explanation
Indices: 18585769--18585867 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 27
18585759 GTAAATCGGG
*
18585769 GGTACTTT-GGTAATTTTACAAGTCGAA
1 GGTA-TTTCGGTAATTTTACAAATCGAA
* *
18585796 GGTATTTCGGTAAATTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAA
* * *
18585823 GGTATTTCAGTATTTTTACAAA-CTAA
1 GGTATTTCGGTAATTTTACAAATCGAA
18585849 GGGTATTTCGGTAATTTTA
1 -GGTATTTCGGTAATTTTA
18585868 GTAAACTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.08
27 55 0.92
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATCGAA
Found at i:18585807 original size:54 final size:53
Alignment explanation
Indices: 18585761--18585865 Score: 124
Period size: 54 Copynumber: 2.0 Consensus size: 53
18585751 GTAATTCTGT
* * *
18585761 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCGGTAAATTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCGGT-AATTTAC
* *
18585815 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTT
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTT
18585866 TAGTAAACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
53 11 0.25
54 33 0.75
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.37
Consensus pattern (53 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTTAC
Found at i:18585881 original size:27 final size:27
Alignment explanation
Indices: 18585778--18585882 Score: 72
Period size: 27 Copynumber: 3.9 Consensus size: 27
18585768 GGGTACTTTG
* * *
18585778 GTAATTTTACAAGTCGAAG-GTATTTCG
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* * *
18585805 GTAAATTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
18585832 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
18585859 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
18585883 CTAAACAGGG
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
26 2 0.03
27 52 0.84
28 8 0.13
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:18602038 original size:40 final size:39
Alignment explanation
Indices: 18601994--18602177 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 39
18601984 GCTACTCATT
*
18601994 CAAATGCCTTCGAGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCG-GACTTAGCCCGGATT-TAGTAACTCGCA
*
18602034 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCA
* *
18602074 C-AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
18602112 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
18602153 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
18602178 CATCATTTGA
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
38 26 0.20
39 20 0.16
40 67 0.53
41 14 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:18602113 original size:78 final size:80
Alignment explanation
Indices: 18601996--18602177 Score: 237
Period size: 78 Copynumber: 2.3 Consensus size: 80
18601986 TACTCATTCA
* * *
18601996 AATGCCTTCGAGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCG-GGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
18602059 ATTTAGTAAC-TCGCAC
64 ATTTAGTAACTTAGCAC
**
18602075 AATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
*
18602139 TTAGTCACTTAGCAC
66 TTAGTAACTTAGCAC
*
18602154 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGA
18602178 CATCATTTGA
Statistics
Matches: 91, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
77 3 0.03
78 50 0.55
79 27 0.30
80 11 0.12
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
TTAGTAACTTAGCAC
Found at i:18612857 original size:47 final size:47
Alignment explanation
Indices: 18612804--18613112 Score: 217
Period size: 47 Copynumber: 6.6 Consensus size: 47
18612794 GATAATGTCA
* *
18612804 ATGCCATGTCCCAGACATGGTCATACACTGGCTCATCTATCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATCAAGCCG
* ** *
18612851 ATGCCATGTCCCAGACATGGTCTTACACTGACTC-TCACATATTCGTGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT--C-TA-TCAAGCCG
* * * * **
18612901 ATGCCATGTCCCAGACATGGTCTTACATTGAC-AAT-TTTGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATCAAGCCG
* * ** * *
18612946 TTG-CATGTCCCAGACAT-GTCTTACACTGGCTTAGATCTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATC-AAGCCG
* * *
18612992 ATG-CATGTCCCAGACA-AGTCTTACACTAGCTC-TCGTCTCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-TATCAA-GCCG
* * ***
18613038 ATGTCATGTCCCAGACATGGTCTTACACTTGCTC-TCGTAATTTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-T-ATCAAGCCG
*
18613086 ATG-CATGTCCCAAACAT-GTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
18613113 AGCACACAAT
Statistics
Matches: 213, Mismatches: 35, Indels: 29
0.77 0.13 0.10
Matches are distributed among these distances:
43 11 0.05
44 15 0.07
45 9 0.04
46 55 0.26
47 58 0.27
48 26 0.12
49 3 0.01
50 36 0.17
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATCAAGCCG
Found at i:18612919 original size:50 final size:48
Alignment explanation
Indices: 18612804--18613066 Score: 162
Period size: 46 Copynumber: 5.6 Consensus size: 48
18612794 GATAATGTCA
*
18612804 ATGCCATGTCCCAGACATGGTCATACACTG--GCTCATCTATCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACGCTCATCTATC-AGTCG
*
18612851 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCA-CATATTC-GTGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACGCTCATC-TA-TCAGT-C-G
* ** * * *
18612901 ATGCCATGTCCCAGACATGGTCTTACATTGACAAT--TTTGT-AGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACGCTCATCTATCAGTCG
* * ** * *
18612946 TTG-CATGTCCCAGACAT-GTCTTACACTG--GCTTAGATCTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACGCTCATCTATC-A-GTCG
* * *
18612992 ATG-CATGTCCCAGACA-AGTCTTACACT-A-GCTC-TCGTCTCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACGCTCATC-TATC-A-GTCG
*
18613038 ATGTCATGTCCCAGACATGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
18613067 TGCTCTCGTA
Statistics
Matches: 176, Mismatches: 22, Indels: 35
0.76 0.09 0.15
Matches are distributed among these distances:
41 1 0.01
43 12 0.07
44 14 0.08
45 4 0.02
46 45 0.26
47 44 0.25
48 14 0.08
49 7 0.04
50 35 0.20
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACGCTCATCTATCAGTCG
Found at i:18613838 original size:13 final size:13
Alignment explanation
Indices: 18613820--18613844 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18613810 TCTAAAATGC
18613820 AAAAATCATCAAG
1 AAAAATCATCAAG
18613833 AAAAATCATCAA
1 AAAAATCATCAA
18613845 AATCACTTAC
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:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:18616326 original size:42 final size:42
Alignment explanation
Indices: 18616280--18616416 Score: 130
Period size: 42 Copynumber: 3.3 Consensus size: 42
18616270 AGCAATCATG
* *
18616280 CTGGCACGTAAGTGCATCATCGGATGTACTGAATAAAATATA
1 CTGGCACATAAGTGCATCATCGGATATACTGAATAAAATATA
* * * * * *
18616322 CTGGCACTTCAGTACATCATTGGATATACTGAATTAATTATA
1 CTGGCACATAAGTGCATCATCGGATATACTGAATAAAATATA
* * * * * **
18616364 TTGACACATAAGTGCATCATCAGATAAACCGAAGCAAATATA
1 CTGGCACATAAGTGCATCATCGGATATACTGAATAAAATATA
*
18616406 CTGGCATATAA
1 CTGGCACATAA
18616417 ATAGGGTAAC
Statistics
Matches: 73, Mismatches: 22, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (42 bp):
CTGGCACATAAGTGCATCATCGGATATACTGAATAAAATATA
Found at i:18617406 original size:6 final size:6
Alignment explanation
Indices: 18617369--18617438 Score: 56
Period size: 6 Copynumber: 11.3 Consensus size: 6
18617359 TATTTTTAAA
* *
18617369 AATATAT AATAATT AAT-TT AAGT-TT TATATT AATATT AATATT AA-ATA
1 AATAT-T AAT-ATT AATATT AA-TATT AATATT AATATT AATATT AATATT
18617417 AATATT ATTATATT AATATT AA
1 AATATT A--ATATT AATATT AA
18617439 ATAAAGTAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
5 9 0.17
6 29 0.55
7 7 0.13
8 8 0.15
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (6 bp):
AATATT
Found at i:18625485 original size:20 final size:18
Alignment explanation
Indices: 18625461--18625525 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 18
18625451 CCGAAGTGTA
18625461 TTCAGGGGCACAAATGTGC
1 TTCAGGGGCACAAA-GTGC
*
18625480 TGTCAGGGGTACTAAAGTGC
1 T-TCAGGGGCAC-AAAGTGC
*
18625500 ATTTAGGGGCACAAAAGTGC
1 -TTCAGGGGCAC-AAAGTGC
18625520 TATCAG
1 T-TCAG
18625526 CGACACCGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 2 0.05
20 31 0.84
21 4 0.11
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (18 bp):
TTCAGGGGCACAAAGTGC
Found at i:18625538 original size:40 final size:39
Alignment explanation
Indices: 18625417--18625544 Score: 112
Period size: 40 Copynumber: 3.2 Consensus size: 39
18625407 GGCACTGGAA
* ** *
18625417 TGCATTCAGGGGAATGAATGTGCTGTCAAGCGCACCGAAG
1 TGCATTCAGGGGCACAAAAGTGCTGTC-AGCGCACCGAAG
* * * * **
18625457 TGTATTCAGGGGCACAAATGTGCTGTCAGGGGTACTAAAG
1 TGCATTCAGGGGCACAAAAGTGCTGTCA-GCGCACCGAAG
* *
18625497 TGCATTTAGGGGCACAAAAGTGCTATCAGCGACACCGAAG
1 TGCATTCAGGGGCACAAAAGTGCTGTCAGCG-CACCGAAG
*
18625537 TGTATTCA
1 TGCATTCA
18625545 AAGACACCGA
Statistics
Matches: 68, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
39 3 0.04
40 65 0.96
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (39 bp):
TGCATTCAGGGGCACAAAAGTGCTGTCAGCGCACCGAAG
Found at i:18626099 original size:17 final size:17
Alignment explanation
Indices: 18626077--18626112 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
18626067 TACCATAAGT
18626077 TAGCTAAATTTTCACTC
1 TAGCTAAATTTTCACTC
18626094 TAGCTAAATTTTCACTC
1 TAGCTAAATTTTCACTC
18626111 TA
1 TA
18626113 ACATATTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.42
Consensus pattern (17 bp):
TAGCTAAATTTTCACTC
Found at i:18631942 original size:18 final size:18
Alignment explanation
Indices: 18631919--18631955 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
18631909 ATTCGAAGGT
18631919 AAGAATTTCGAGGACAAA
1 AAGAATTTCGAGGACAAA
18631937 AAGAATTTCGAGGACAAA
1 AAGAATTTCGAGGACAAA
18631955 A
1 A
18631956 TTTCTTAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.11, G:0.22, T:0.16
Consensus pattern (18 bp):
AAGAATTTCGAGGACAAA
Found at i:18632273 original size:37 final size:37
Alignment explanation
Indices: 18632224--18632296 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
18632214 CTAGGAAAAC
* * *
18632224 TTAGTTAGTTCACGGAGTGATAGGATTTTTTTATGTG
1 TTAGTTAGTTCACGGAGCGATAAGATTGTTTTATGTG
18632261 TTAGTTAGTTCACGGAGCGATAAGATTGTTTTATGT
1 TTAGTTAGTTCACGGAGCGATAAGATTGTTTTATGT
18632297 AGAAATGATA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.23, C:0.07, G:0.26, T:0.44
Consensus pattern (37 bp):
TTAGTTAGTTCACGGAGCGATAAGATTGTTTTATGTG
Found at i:18634503 original size:6 final size:6
Alignment explanation
Indices: 18634494--18634531 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
18634484 TGTTTATTTA
* *
18634494 ATTAAT ATTAAT ATGAAT ACTAAT ATTAAT ATTAAT AT
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT AT
18634532 AAAATTTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (6 bp):
ATTAAT
Found at i:18634541 original size:18 final size:18
Alignment explanation
Indices: 18634500--18634537 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
18634490 TTTAATTAAT
*
18634500 ATTAATATGAATACTAAT
1 ATTAATATGAATACTAAA
*
18634518 ATTAATATTAATA-TAAA
1 ATTAATATGAATACTAAA
18634535 ATT
1 ATT
18634538 TAATTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (18 bp):
ATTAATATGAATACTAAA
Found at i:18634593 original size:22 final size:23
Alignment explanation
Indices: 18634539--18634593 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
18634529 TATAAAATTT
18634539 AATTTTATTATTATATTTTTTTGA
1 AATTTT-TTATTATATTTTTTTGA
* *
18634563 AAATATTTATGTAT-TTTTTTTG-
1 AATTTTTTAT-TATATTTTTTTGA
18634585 AATTTTTTA
1 AATTTTTTA
18634594 GAATTAGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 7 0.27
23 12 0.46
24 7 0.27
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.65
Consensus pattern (23 bp):
AATTTTTTATTATATTTTTTTGA
Found at i:18634870 original size:13 final size:13
Alignment explanation
Indices: 18634854--18634881 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18634844 ACAATGTAAC
18634854 TTCGTTTGTGATT
1 TTCGTTTGTGATT
18634867 TTCGTTTGTGATT
1 TTCGTTTGTGATT
18634880 TT
1 TT
18634882 AACGAGAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.07, G:0.21, T:0.64
Consensus pattern (13 bp):
TTCGTTTGTGATT
Done.