Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397258.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 11097736
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 71999 characters in sequence are not A, C, G, or T
File 18 of 22
Found at i:8855335 original size:28 final size:26
Alignment explanation
Indices: 8855303--8855361 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
8855293 TCTTTATTAT
8855303 TCAATTA-AAAAATAAAATTAAAAAAATC
1 TCAATTATAAAAA-AAAA--AAAAAAATC
*
8855331 TCAATTATTAAAAAAAAAAAGAAAATC
1 TCAATTA-TAAAAAAAAAAAAAAAATC
8855358 TCAA
1 TCAA
8855362 CGTGGAATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 12 0.43
28 7 0.25
29 4 0.14
30 5 0.18
ACGTcount: A:0.66, C:0.08, G:0.02, T:0.24
Consensus pattern (26 bp):
TCAATTATAAAAAAAAAAAAAAAATC
Found at i:8864147 original size:16 final size:17
Alignment explanation
Indices: 8864116--8864148 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
8864106 CTTGCTGGGG
8864116 ATTTTCTTTCTTTTTCT
1 ATTTTCTTTCTTTTTCT
*
8864133 ATTTT-TTTGTTTTTCT
1 ATTTTCTTTCTTTTTCT
8864149 TTCTGGGTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.06, C:0.12, G:0.03, T:0.79
Consensus pattern (17 bp):
ATTTTCTTTCTTTTTCT
Found at i:8865131 original size:17 final size:17
Alignment explanation
Indices: 8865109--8865141 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8865099 TATTTTAATT
8865109 GAATACTTAACAAGTAC
1 GAATACTTAACAAGTAC
*
8865126 GAATACTTAATAAGTA
1 GAATACTTAACAAGTA
8865142 GTTTCTAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.27
Consensus pattern (17 bp):
GAATACTTAACAAGTAC
Found at i:8867996 original size:2 final size:2
Alignment explanation
Indices: 8867989--8868013 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8867979 GGATAACTTA
8867989 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
8868014 TGTATGTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:8868551 original size:28 final size:28
Alignment explanation
Indices: 8868508--8868574 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
8868498 CACACATTAT
*
8868508 TAAACATTCATCAATGCAGAAGCATATA
1 TAAACATCCATCAATGCAGAAGCATATA
*
8868536 TAAACATCCATTAATGCAGAAGCATATA
1 TAAACATCCATCAATGCAGAAGCATATA
8868564 TAAACATCCAT
1 TAAACATCCAT
8868575 AGGCATACAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.46, C:0.19, G:0.09, T:0.25
Consensus pattern (28 bp):
TAAACATCCATCAATGCAGAAGCATATA
Found at i:8870196 original size:80 final size:80
Alignment explanation
Indices: 8869986--8870179 Score: 257
Period size: 80 Copynumber: 2.4 Consensus size: 80
8869976 CAGTGGATAA
* * * * * *
8869986 GACTATTTCAACACATATATCTTATAGCACACATTTCATGA-CCTCATCAATCACTTACATGCTT
1 GACTATCTCAATACATACATCTCATAGCATACATTTCAT-ACCCTCATAAATCACTTACATGCTT
*
8870050 AGCCCATAGTGTATAT
65 AGCCCATAGTATATAT
*
8870066 GACTATCTCAATACATGCATCTCATAGCATACATTTCATACCCTCATAAATCACTTACATGCTTA
1 GACTATCTCAATACATACATCTCATAGCATACATTTCATACCCTCATAAATCACTTACATGCTTA
*
8870131 GCTCATAGTATATAT
66 GCCCATAGTATATAT
* *
8870146 GA-TATACTTAATACATACATCTCATGGCATACAT
1 GACTAT-CTCAATACATACATCTCATAGCATACAT
8870180 ATTACAATCT
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
79 4 0.04
80 96 0.96
ACGTcount: A:0.34, C:0.24, G:0.08, T:0.34
Consensus pattern (80 bp):
GACTATCTCAATACATACATCTCATAGCATACATTTCATACCCTCATAAATCACTTACATGCTTA
GCCCATAGTATATAT
Found at i:8886313 original size:50 final size:50
Alignment explanation
Indices: 8886253--8886362 Score: 202
Period size: 50 Copynumber: 2.2 Consensus size: 50
8886243 AACGACACTT
8886253 CATAATAATCTAATTCATTACTTACATCATTTTCAACCTTCCAATACTGGA
1 CATAA-AATCTAATTCATTACTTACATCATTTTCAACCTTCCAATACTGGA
*
8886304 CATAAAATCTAATTCATTACTTACATTATTTTCAACCTTCCAATACTGGA
1 CATAAAATCTAATTCATTACTTACATCATTTTCAACCTTCCAATACTGGA
8886354 CATAAAATC
1 CATAAAATC
8886363 AGATAAAGAG
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
50 53 0.91
51 5 0.09
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.36
Consensus pattern (50 bp):
CATAAAATCTAATTCATTACTTACATCATTTTCAACCTTCCAATACTGGA
Found at i:8892876 original size:13 final size:13
Alignment explanation
Indices: 8892858--8892882 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8892848 TTAACAATTA
8892858 ATAATTAATTAAT
1 ATAATTAATTAAT
8892871 ATAATTAATTAA
1 ATAATTAATTAA
8892883 AATACCATTT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAATTAATTAAT
Found at i:8893057 original size:18 final size:18
Alignment explanation
Indices: 8893031--8893066 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8893021 TATCATTTTG
8893031 ATTAATAATTAATAATTA
1 ATTAATAATTAATAATTA
* *
8893049 ATTATTAATTATTAATTA
1 ATTAATAATTAATAATTA
8893067 TAAAAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTAATAATTAATAATTA
Found at i:8893065 original size:7 final size:7
Alignment explanation
Indices: 8893031--8893067 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
8893021 TATCATTTTG
*
8893031 ATTAATA
1 ATTAATT
*
8893038 ATTAATA
1 ATTAATT
8893045 ATTAATT
1 ATTAATT
8893052 ATTAATT
1 ATTAATT
8893059 ATTAATT
1 ATTAATT
8893066 AT
1 AT
8893068 AAAAAATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (7 bp):
ATTAATT
Found at i:8893077 original size:17 final size:17
Alignment explanation
Indices: 8893055--8893088 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
8893045 ATTAATTATT
8893055 AATTA-TTAATTATAAAA
1 AATTATTTAATT-TAAAA
8893072 AATTATTTAATTTAAAA
1 AATTATTTAATTTAAAA
8893089 TAAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTATTTAATTTAAAA
Found at i:8895066 original size:28 final size:28
Alignment explanation
Indices: 8895033--8895086 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
8895023 TTGAAAAAAA
8895033 ATTTAAATAAATTATTAT-TTTTTATTAT
1 ATTT-AATAAATTATTATATTTTTATTAT
* *
8895061 ATTTAATAATTTTTTATATTTTTATT
1 ATTTAATAAATTATTATATTTTTATT
8895087 TTAAGTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (28 bp):
ATTTAATAAATTATTATATTTTTATTAT
Found at i:8895264 original size:25 final size:26
Alignment explanation
Indices: 8895224--8895272 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
8895214 ATGCCACATA
8895224 ATATGTCATATCACCATA-CAATATG
1 ATATGTCATATCACCATATCAATATG
8895249 ATATGTCAATAT-ACCATATCAATA
1 ATATGTC-ATATCACCATATCAATA
8895273 GCATGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.33
Consensus pattern (26 bp):
ATATGTCATATCACCATATCAATATG
Found at i:8895406 original size:29 final size:29
Alignment explanation
Indices: 8895333--8895406 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
8895323 TGCATTAATT
*
8895333 ATAAAAATTTATTT-AATTCAATAAAAAA
1 ATAAAAATCTATTTAAATTCAATAAAAAA
* **
8895361 ATTAAAA-CTTAACTAAATGT-AATAAAAAA
1 ATAAAAATC-TATTTAAAT-TCAATAAAAAA
8895390 ATAAAAATCTATTTAAA
1 ATAAAAATCTATTTAAA
8895407 ATTTTTAAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
28 9 0.26
29 24 0.69
30 2 0.06
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.32
Consensus pattern (29 bp):
ATAAAAATCTATTTAAATTCAATAAAAAA
Found at i:8896750 original size:19 final size:18
Alignment explanation
Indices: 8896728--8896771 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
8896718 TTATTTATAT
*
8896728 TAAATTTTATTATATTTGA
1 TAAATTTTATGATATTT-A
*
8896747 TAAATATTATGATATTTA
1 TAAATTTTATGATATTTA
8896765 T-AATTTT
1 TAAATTTT
8896772 TTGTTATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 5 0.23
18 2 0.09
19 15 0.68
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (18 bp):
TAAATTTTATGATATTTA
Found at i:8907241 original size:2 final size:2
Alignment explanation
Indices: 8907228--8907263 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
8907218 GTATTAAACA
*
8907228 AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8907264 GAGCATCTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8918327 original size:42 final size:43
Alignment explanation
Indices: 8918185--8918332 Score: 178
Period size: 42 Copynumber: 3.5 Consensus size: 43
8918175 GATGGAGAAA
** * *
8918185 GTCTCCACATTCCCATGATTTTATTG-TCAAGTGGATTGAGTAT
1 GTCTCCAC-TTCCCATGATTTTGGTGATAAAGTGGATTGAGTAG
* *
8918228 GTCTCCACTTCCCATGA-TTT-GTGATAAAATGGAATGAGTAG
1 GTCTCCACTTCCCATGATTTTGGTGATAAAGTGGATTGAGTAG
*
8918269 GTCTCCACTTCCCATGATTTTGGT-TTAAAGTGGATTGAGTAG
1 GTCTCCACTTCCCATGATTTTGGTGATAAAGTGGATTGAGTAG
**
8918311 GTCTCCACTTTTCATGATTTTG
1 GTCTCCACTTCCCATGATTTTG
8918333 TTGTGATTAG
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
40 2 0.02
41 33 0.36
42 47 0.51
43 10 0.11
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (43 bp):
GTCTCCACTTCCCATGATTTTGGTGATAAAGTGGATTGAGTAG
Found at i:8919751 original size:4 final size:4
Alignment explanation
Indices: 8919742--8919771 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
8919732 TCATAAGAAC
*
8919742 ATGT ATGT ATGT TTGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
8919772 ATAATCAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.53
Consensus pattern (4 bp):
ATGT
Found at i:8924237 original size:3 final size:3
Alignment explanation
Indices: 8924231--8924264 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
8924221 ATGTTATTTG
8924231 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
8924265 TAACACTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:8932951 original size:12 final size:12
Alignment explanation
Indices: 8932934--8932958 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8932924 TTTTTAGTTC
8932934 TTGCTATCATGA
1 TTGCTATCATGA
8932946 TTGCTATCATGA
1 TTGCTATCATGA
8932958 T
1 T
8932959 GGATATAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (12 bp):
TTGCTATCATGA
Found at i:8938123 original size:20 final size:20
Alignment explanation
Indices: 8938079--8938123 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
8938069 AGGATGAACA
8938079 ATGTTTATGTTTATGTGTTT
1 ATGTTTATGTTTATGTGTTT
* *
8938099 GTGTTT-TGTATTATGTTTTT
1 ATGTTTATGT-TTATGTGTTT
8938119 ATGTT
1 ATGTT
8938124 GAACTGTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.13, C:0.00, G:0.20, T:0.67
Consensus pattern (20 bp):
ATGTTTATGTTTATGTGTTT
Found at i:8940546 original size:31 final size:30
Alignment explanation
Indices: 8940449--8940605 Score: 141
Period size: 28 Copynumber: 5.4 Consensus size: 30
8940439 GCTTAACATG
* * * *
8940449 TTTGTCTAAATTTAGATAAG-AAAACATGT
1 TTTGTCTTAATTTAGACAAGAAAAATATTT
* *
8940478 TTGGTCTTAATTTTGACAAG-AAAATA---
1 TTTGTCTTAATTTAGACAAGAAAAATATTT
*
8940504 TATGTCTTAATTTAAGACAAGAAAAATATTT
1 TTTGTCTTAATTT-AGACAAGAAAAATATTT
* *
8940535 TTTATCTTAATTTATACAAGAAAACATA---
1 TTTGTCTTAATTTAGACAAGAAAA-ATATTT
*
8940563 TTTGTCTCAATTTAGACAAGATAAAATATTT
1 TTTGTCTTAATTTAGACAAGA-AAAATATTT
8940594 TTTGTCTTAATT
1 TTTGTCTTAATT
8940606 ACAGATAAAA
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
26 11 0.11
27 6 0.06
28 27 0.26
29 24 0.23
30 10 0.10
31 25 0.24
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.41
Consensus pattern (30 bp):
TTTGTCTTAATTTAGACAAGAAAAATATTT
Found at i:8940591 original size:59 final size:57
Alignment explanation
Indices: 8940443--8940605 Score: 188
Period size: 59 Copynumber: 2.8 Consensus size: 57
8940433 ATGGTAGCTT
* * * * *
8940443 AACATGTTTGTCTAAATTTAGATAAG-AAAACATGTTTGGTCTTAATTTTGACAAGA
1 AACATATTTGTCTAAATTTAGACAAGAAAAATATTTTTTGTCTTAATTTTGACAAGA
* * *
8940499 AA-ATATATGTCTTAATTTAAGACAAGAAAAATATTTTTTATCTTAATTTAT-ACAAGAA
1 AACATATTTGTCTAAATTT-AGACAAGAAAAATATTTTTTGTCTTAATTT-TGACAAG-A
*
8940557 AACATATTTGTCTCAATTTAGACAAGATAAAATATTTTTTGTCTTAATT
1 AACATATTTGTCTAAATTTAGACAAGA-AAAATATTTTTTGTCTTAATT
8940606 ACAGATAAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
55 13 0.14
56 8 0.09
57 23 0.26
58 12 0.13
59 34 0.38
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.40
Consensus pattern (57 bp):
AACATATTTGTCTAAATTTAGACAAGAAAAATATTTTTTGTCTTAATTTTGACAAGA
Found at i:8945261 original size:2 final size:2
Alignment explanation
Indices: 8945256--8945282 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8945246 TTTGTTTCTT
8945256 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
8945283 TCTTATAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8947025 original size:35 final size:35
Alignment explanation
Indices: 8946956--8947026 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
8946946 TTCAATAGTG
* **
8946956 TCAGGCATAACCTTTACAACATGCCTTTTGCAAGA
1 TCAGGCATAACCTCTACAACATGCCTTTCACAAGA
* * *
8946991 TCAGGCGTAACCTCTATAACTTGCCTTTCACAAGA
1 TCAGGCATAACCTCTACAACATGCCTTTCACAAGA
8947026 T
1 T
8947027 GAAGTGTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (35 bp):
TCAGGCATAACCTCTACAACATGCCTTTCACAAGA
Found at i:8947861 original size:21 final size:22
Alignment explanation
Indices: 8947828--8947871 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
8947818 TGGTACTTCA
8947828 AGAACCGACTTC-TTCTTCTTGT
1 AGAACCGACTTCTTTCTT-TTGT
*
8947850 AGAATCGA-TTCTTTCTTTTGT
1 AGAACCGACTTCTTTCTTTTGT
8947871 A
1 A
8947872 CTTTTCTCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (22 bp):
AGAACCGACTTCTTTCTTTTGT
Found at i:8955373 original size:12 final size:12
Alignment explanation
Indices: 8955358--8955388 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
8955348 ATATATAATA
8955358 TGTGTGTGTGCG
1 TGTGTGTGTGCG
8955370 TGTGTGTGTGCG
1 TGTGTGTGTGCG
8955382 TGTGTGT
1 TGTGTGT
8955389 TTTATTGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.06, G:0.48, T:0.45
Consensus pattern (12 bp):
TGTGTGTGTGCG
Found at i:8972005 original size:54 final size:54
Alignment explanation
Indices: 8971947--8972119 Score: 179
Period size: 54 Copynumber: 3.1 Consensus size: 54
8971937 ATTATTAATT
8971947 TTTATATAATATCATCTCTTAAATATATTTTTAATGTCATATATTTTATTTTTA
1 TTTATATAATATCATCTCTTAAATATATTTTTAATGTCATATATTTTATTTTTA
* * * * * * *
8972001 TTTAT-TATTATAATCTTTTATATTTTATTTTTAATAT-ATTTATATTTTTTATTATTAATT
1 TTTATATAATATCATCTCTTA-AATATATTTTTAATGTCA--TATA--TTTTATT-TT--TA
* *
8972061 TTTATATAATATCATATCTTAAATATATTTTTAATGTCATATATTTTATTTTCA
1 TTTATATAATATCATCTCTTAAATATATTTTTAATGTCATATATTTTATTTTTA
8972115 TTTAT
1 TTTAT
8972120 TATTATAATC
Statistics
Matches: 93, Mismatches: 16, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
53 13 0.14
54 23 0.25
55 4 0.04
56 2 0.02
57 14 0.15
58 2 0.02
59 4 0.04
60 19 0.20
61 12 0.13
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.61
Consensus pattern (54 bp):
TTTATATAATATCATCTCTTAAATATATTTTTAATGTCATATATTTTATTTTTA
Found at i:8972064 original size:22 final size:23
Alignment explanation
Indices: 8971993--8972067 Score: 79
Period size: 22 Copynumber: 3.4 Consensus size: 23
8971983 TCATATATTT
*
8971993 TATTTT-TATTTATTATTA-TAA
1 TATTTTATATTTTTTATTATTAA
* *
8972014 TCTTTTATA--TTTTATTTTTAA
1 TATTTTATATTTTTTATTATTAA
8972035 TATATTTATATTTTTTATTATTAA
1 TAT-TTTATATTTTTTATTATTAA
8972059 T-TTTTATAT
1 TATTTTATAT
8972068 AATATCATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
20 6 0.14
21 10 0.23
22 15 0.34
23 1 0.02
24 12 0.27
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.69
Consensus pattern (23 bp):
TATTTTATATTTTTTATTATTAA
Found at i:8972068 original size:24 final size:23
Alignment explanation
Indices: 8971995--8972068 Score: 66
Period size: 24 Copynumber: 3.3 Consensus size: 23
8971985 ATATATTTTA
* *
8971995 TTTT-TATTTATTATTA-TAATC
1 TTTTATATTTTTTATTATTAATT
*
8972016 TTTTATA--TTTTATTTTTAATAT
1 TTTTATATTTTTTATTATTAAT-T
*
8972038 ATTTATATTTTTTATTATTAATT
1 TTTTATATTTTTTATTATTAATT
8972061 TTTATATA
1 TTT-TATA
8972069 ATATCATATC
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
20 6 0.15
21 8 0.20
22 8 0.20
23 3 0.07
24 16 0.39
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTTATATTTTTTATTATTAATT
Found at i:8972118 original size:114 final size:114
Alignment explanation
Indices: 8971916--8972147 Score: 437
Period size: 114 Copynumber: 2.0 Consensus size: 114
8971906 AAAATACAAG
*
8971916 TTTAATATATTTATATTTTTTATTATTAATTTTTATATAATATCATCTCTTAAATATATTTTTAA
1 TTTAATATATTTATATTTTTTATTATTAATTTTTATATAATATCATATCTTAAATATATTTTTAA
* *
8971981 TGTCATATATTTTATTTTTATTTATTATTATAATCTTTTATATTTTATT
66 TGTCATATATTTTATTTTCATTTATTATTATAATCTTATATATTTTATT
8972030 TTTAATATATTTATATTTTTTATTATTAATTTTTATATAATATCATATCTTAAATATATTTTTAA
1 TTTAATATATTTATATTTTTTATTATTAATTTTTATATAATATCATATCTTAAATATATTTTTAA
8972095 TGTCATATATTTTATTTTCATTTATTATTATAATCTTATATATTTTATT
66 TGTCATATATTTTATTTTCATTTATTATTATAATCTTATATATTTTATT
8972144 TTTA
1 TTTA
8972148 TTTCTTTAAT
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 115 1.00
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (114 bp):
TTTAATATATTTATATTTTTTATTATTAATTTTTATATAATATCATATCTTAAATATATTTTTAA
TGTCATATATTTTATTTTCATTTATTATTATAATCTTATATATTTTATT
Found at i:8972230 original size:7 final size:7
Alignment explanation
Indices: 8972220--8972279 Score: 54
Period size: 7 Copynumber: 8.7 Consensus size: 7
8972210 AATTTTAATT
8972220 TTTTATA
1 TTTTATA
*
8972227 TTTTATT
1 TTTTATA
8972234 TTTTA-A
1 TTTTATA
8972240 TTCTTATA
1 TT-TTATA
8972248 --TTATA
1 TTTTATA
*
8972253 TTTTTTA
1 TTTTATA
8972260 TTTTAATA
1 TTTT-ATA
*
8972268 TTTTTTA
1 TTTTATA
8972275 TTTTA
1 TTTTA
8972280 ATTATAACAT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
5 5 0.12
6 2 0.05
7 28 0.67
8 7 0.17
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTATA
Found at i:8972236 original size:14 final size:14
Alignment explanation
Indices: 8972211--8972279 Score: 59
Period size: 14 Copynumber: 4.8 Consensus size: 14
8972201 TATTACATAA
*
8972211 ATTTTAATTTTTTAT
1 ATTTT-ATTTTATAT
*
8972226 ATTTTATTTTTTA-
1 ATTTTATTTTATAT
*
8972239 ATTCTTATATTATAT
1 ATT-TTATTTTATAT
*
8972254 TTTTTATTTTAATAT
1 ATTTTATTTT-ATAT
*
8972269 TTTTTATTTTA
1 ATTTTATTTTA
8972280 ATTATAACAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
13 3 0.06
14 23 0.49
15 21 0.45
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.72
Consensus pattern (14 bp):
ATTTTATTTTATAT
Found at i:8972279 original size:15 final size:15
Alignment explanation
Indices: 8972250--8972281 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
8972240 TTCTTATATT
8972250 ATATTTTTTATTTTA
1 ATATTTTTTATTTTA
8972265 ATATTTTTTATTTTA
1 ATATTTTTTATTTTA
8972280 AT
1 AT
8972282 TATAACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
ATATTTTTTATTTTA
Found at i:8980324 original size:29 final size:26
Alignment explanation
Indices: 8980307--8980356 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
8980297 AAAGATTCCT
8980307 TACCAAAAGAAGAAATAGGAAAGTCA
1 TACCAAAAGAAGAAATAGGAAAGTCA
*
8980333 TGCCAAAAGAAGAAATAGGAAAGT
1 TACCAAAAGAAGAAATAGGAAAGT
8980357 TTATGACTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.56, C:0.10, G:0.22, T:0.12
Consensus pattern (26 bp):
TACCAAAAGAAGAAATAGGAAAGTCA
Found at i:8980399 original size:6 final size:6
Alignment explanation
Indices: 8980383--8980415 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
8980373 TGACTTTCTA
8980383 AAATG- AAATGT AAATGT AAATG- AAATGT AAATG
1 AAATGT AAATGT AAATGT AAATGT AAATGT AAATG
8980416 CAAGGCAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 10 0.38
6 16 0.62
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (6 bp):
AAATGT
Found at i:8980405 original size:17 final size:17
Alignment explanation
Indices: 8980383--8980415 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
8980373 TGACTTTCTA
8980383 AAATGAAATGTAAATGT
1 AAATGAAATGTAAATGT
8980400 AAATGAAATGTAAATG
1 AAATGAAATGTAAATG
8980416 CAAGGCAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (17 bp):
AAATGAAATGTAAATGT
Found at i:8980408 original size:11 final size:12
Alignment explanation
Indices: 8980383--8980415 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
8980373 TGACTTTCTA
8980383 AAATG-AAATGT
1 AAATGTAAATGT
8980394 AAATGTAAATG-
1 AAATGTAAATGT
8980405 AAATGTAAATG
1 AAATGTAAATG
8980416 CAAGGCAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (12 bp):
AAATGTAAATGT
Found at i:8987148 original size:292 final size:292
Alignment explanation
Indices: 8986601--8987172 Score: 876
Period size: 292 Copynumber: 2.0 Consensus size: 292
8986591 CAGCTTCAGC
* *
8986601 TATAATAGGGAATGCTCAAGATGTAAAGATTAAGATTGGCTCTTTGGAAGAGAAGATAAATTTGA
1 TATAATAGGGAATGCTAAAGATGTAAAGATTAAGATTGGCTCTTGGGAAGAGAAGATAAATTTGA
* *
8986666 CTATAGCCATTACAGATGATTATGATTTTATCTTAAGCTTGGATTTTATGATGAAAGCATAAGCC
66 CTATAGCCATCACAGATGATTATGATTTTATCTTAAGCTTGGATTTTATGATGAAAGCACAAGCC
* * * * *
8986731 ATCCTTTTCCTTGCTGTAAGTTGTTTAATGTTTTTTGGAGAACAACCATGTGTTGTACCAATTAC
131 ATCCTTTTCCCTACTGTAAGTTGTTTAATGTTTTTTGGAGAACAACCATGTCTGGTACCAACTAC
* ** * *
8986796 AATCCTATCTAAGAACGGCAAGAAGATGATATTAGCTATACAGTTTAAAAAAGAGATAAAAAAAA
196 AATCCTACCTAAGAACGAAAAAAAGATGATATTAGCTATACAGTTGAAAAAAGAGATAAAAAAAA
*
8986861 ATGAGTCCTCTTATGTGGCTTTTGGGAAATGT
261 ATGAATCCTCTTATGTGGCTTTTGGGAAATGT
*
8986893 TATAAT-GGGAAATGCTAAAGATGTAAAGATTAAGATTGGCTCTTGGGAAGGGAAGATAAATTTG
1 TATAATAGGG-AATGCTAAAGATGTAAAGATTAAGATTGGCTCTTGGGAAGAGAAGATAAATTTG
* * *
8986957 ACTGTAGCCATCACAGATGATTTTGATTTTGTCTTAAGCTTGGATTTTATGATGAAAGCACAAGC
65 ACTATAGCCATCACAGATGATTATGATTTTATCTTAAGCTTGGATTTTATGATGAAAGCACAAGC
** *
8987022 CATTTTTTTCCCTACTGTAAGTTGTTTAATGTTTTTTGGAGAACAACCATGTCTGGTACCGACTA
130 CATCCTTTTCCCTACTGTAAGTTGTTTAATGTTTTTTGGAGAACAACCATGTCTGGTACCAACTA
* * *
8987087 CAATCCTACCTAAGAGCGAAAAAAAGATGATATTAGCTATACAGTTGAAAAAGGGGATAAAAAAA
195 CAATCCTACCTAAGAACGAAAAAAAGATGATATTAGCTATACAGTTGAAAAAAGAGATAAAAAAA
** *
8987152 GGTGAATCTTCTTATGTGGCT
260 AATGAATCCTCTTATGTGGCT
8987173 ATGCCCATCC
Statistics
Matches: 251, Mismatches: 28, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
291 3 0.01
292 248 0.99
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.33
Consensus pattern (292 bp):
TATAATAGGGAATGCTAAAGATGTAAAGATTAAGATTGGCTCTTGGGAAGAGAAGATAAATTTGA
CTATAGCCATCACAGATGATTATGATTTTATCTTAAGCTTGGATTTTATGATGAAAGCACAAGCC
ATCCTTTTCCCTACTGTAAGTTGTTTAATGTTTTTTGGAGAACAACCATGTCTGGTACCAACTAC
AATCCTACCTAAGAACGAAAAAAAGATGATATTAGCTATACAGTTGAAAAAAGAGATAAAAAAAA
ATGAATCCTCTTATGTGGCTTTTGGGAAATGT
Found at i:8992019 original size:15 final size:15
Alignment explanation
Indices: 8991999--8992033 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
8991989 CATTCTTAGA
8991999 AATCATATATACAGC
1 AATCATATATACAGC
* *
8992014 AATCATATTTCCAGC
1 AATCATATATACAGC
8992029 AATCA
1 AATCA
8992034 CATTGTTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.29
Consensus pattern (15 bp):
AATCATATATACAGC
Found at i:8992711 original size:21 final size:19
Alignment explanation
Indices: 8992675--8992715 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
8992665 ACATGTTGAA
8992675 TAGTTAATTTAAGTTATTT
1 TAGTTAATTTAAGTTATTT
*
8992694 TAGTTAAGTTTTATGTTATTT
1 TAGTTAA--TTTAAGTTATTT
8992715 T
1 T
8992716 GTTTTAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
21 12 0.63
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (19 bp):
TAGTTAATTTAAGTTATTT
Found at i:9000483 original size:147 final size:145
Alignment explanation
Indices: 9000236--9000520 Score: 428
Period size: 147 Copynumber: 2.0 Consensus size: 145
9000226 TTAGCCTACC
*
9000236 ATGTTTATGTACTTTGGATGCTTGATATTACATATGGTTGTCTATATGCTTATATTTCTACTTGA
1 ATGTTTATGTACTTTGGATGCTTAATATTACATATGGTTGTCTATATGCTTATATTTCTACTTGA
* * *
9000301 ACTCAATGATGTCATGCCCACATTTTGCTTATATATGTATTTACATATATATACATATAT-TCAT
66 ACTCAATGACGTCATGCCCACATTTTGCTTATATA--TATATACAAATATATACATATATAT-AT
9000365 ACATATATATATGTATAT
128 ACATATATATATGTATAT
* **
9000383 ATGTTTATGTCCTTTGGATGCTTAATATTATTTATGGTTGTCTATATGCTTATATTTCTACTTGA
1 ATGTTTATGTACTTTGGATGCTTAATATTACATATGGTTGTCTATATGCTTATATTTCTACTTGA
* * * *
9000448 ACTCAATGGCGTCATGCCCGCATTTTGCTTTTATATATATACAAATATATATATATATATATACA
66 ACTCAATGACGTCATGCCCACATTTTGCTTATATATATATACAAATATATACATATATATATACA
*
9000513 TTTATATA
131 TATATATA
9000521 CATGTGTATA
Statistics
Matches: 125, Mismatches: 12, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
145 32 0.26
146 1 0.01
147 92 0.74
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.46
Consensus pattern (145 bp):
ATGTTTATGTACTTTGGATGCTTAATATTACATATGGTTGTCTATATGCTTATATTTCTACTTGA
ACTCAATGACGTCATGCCCACATTTTGCTTATATATATATACAAATATATACATATATATATACA
TATATATATGTATAT
Found at i:9000523 original size:10 final size:10
Alignment explanation
Indices: 9000480--9000535 Score: 58
Period size: 10 Copynumber: 5.4 Consensus size: 10
9000470 TTTTGCTTTT
9000480 ATATATATAC
1 ATATATATAC
*
9000490 AAATATATATAT
1 --ATATATATAC
9000502 ATATATATAC
1 ATATATATAC
*
9000512 ATTTATATAC
1 ATATATATAC
* *
9000522 ATGTGTATAC
1 ATATATATAC
9000532 ATAT
1 ATAT
9000536 GTGTGTGTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
10 29 0.76
12 9 0.24
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (10 bp):
ATATATATAC
Found at i:9002076 original size:35 final size:35
Alignment explanation
Indices: 9002008--9002105 Score: 124
Period size: 35 Copynumber: 2.8 Consensus size: 35
9001998 GAGGATTTGT
* * * *
9002008 GGTTAAGCTTGTTAAAAACCATTGTAAGGGTTTAA
1 GGTTGAGCTCGTTAAAAACCATTGTGAGAGTTTAA
* *
9002043 GGTTGAGCTCGTTGAAAACCATTGTGAGAGTTTAT
1 GGTTGAGCTCGTTAAAAACCATTGTGAGAGTTTAA
* *
9002078 GGTTGATCTCATTAAAAACCATTGTGAG
1 GGTTGAGCTCGTTAAAAACCATTGTGAG
9002106 GGTTATTGCT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (35 bp):
GGTTGAGCTCGTTAAAAACCATTGTGAGAGTTTAA
Found at i:9002119 original size:35 final size:35
Alignment explanation
Indices: 9002019--9002109 Score: 128
Period size: 35 Copynumber: 2.6 Consensus size: 35
9002009 GTTAAGCTTG
* * * *
9002019 TTAAAAACCATTGTAAGGGTTTAAGGTTGAGCTCG
1 TTAAAAACCATTGTGAGGGTTTATGGTTGATCTCA
* *
9002054 TTGAAAACCATTGTGAGAGTTTATGGTTGATCTCA
1 TTAAAAACCATTGTGAGGGTTTATGGTTGATCTCA
9002089 TTAAAAACCATTGTGAGGGTT
1 TTAAAAACCATTGTGAGGGTT
9002110 ATTGCTTGAT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (35 bp):
TTAAAAACCATTGTGAGGGTTTATGGTTGATCTCA
Found at i:9004855 original size:24 final size:24
Alignment explanation
Indices: 9004826--9004881 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
9004816 TTATCACTTA
9004826 AAGAAAAAAGAAAGAGAGAAGAAG
1 AAGAAAAAAGAAAGAGAGAAGAAG
*
9004850 AAGAAAAAAGAAAGAGAGAATAAG
1 AAGAAAAAAGAAAGAGAGAAGAAG
9004874 AAGAAAAA
1 AAGAAAAA
9004882 CTTACATGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (24 bp):
AAGAAAAAAGAAAGAGAGAAGAAG
Found at i:9006635 original size:19 final size:19
Alignment explanation
Indices: 9006611--9006649 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
9006601 GACGTATTAA
9006611 GCTTATTCAAA-ATGAACTT
1 GCTTA-TCAAACATGAACTT
*
9006630 GCTTATCAAACTTGAACTT
1 GCTTATCAAACATGAACTT
9006649 G
1 G
9006650 TTTGATCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (19 bp):
GCTTATCAAACATGAACTT
Found at i:9007077 original size:13 final size:13
Alignment explanation
Indices: 9007061--9007085 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9007051 TTTTTCACCT
9007061 AATTTTTTTTTCA
1 AATTTTTTTTTCA
9007074 AATTTTTTTTTC
1 AATTTTTTTTTC
9007086 TTATTCTTCT
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:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (13 bp):
AATTTTTTTTTCA
Found at i:9007529 original size:42 final size:42
Alignment explanation
Indices: 9007470--9007552 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
9007460 GTTAAGTGAT
*
9007470 AGATTAGAATTTAGGATAGACATATACCTAAATACCTTAGAC
1 AGATTAAAATTTAGGATAGACATATACCTAAATACCTTAGAC
9007512 AGATTAAAATTTAGGATAGACATATACCTAAATACCTTAGA
1 AGATTAAAATTTAGGATAGACATATACCTAAATACCTTAGA
9007553 AAGCCAAATT
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:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (42 bp):
AGATTAAAATTTAGGATAGACATATACCTAAATACCTTAGAC
Found at i:9009941 original size:28 final size:28
Alignment explanation
Indices: 9009910--9009971 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
9009900 TTAAGTTAGA
*
9009910 ATAAATCAAACACAATTATAAATTTTAT
1 ATAAATCAAACACAATTATAAATTATAT
* *
9009938 ATAAATCAATCACAATTATGAATTATAT
1 ATAAATCAAACACAATTATAAATTATAT
9009966 ATAAAT
1 ATAAAT
9009972 TATATAACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.53, C:0.10, G:0.02, T:0.35
Consensus pattern (28 bp):
ATAAATCAAACACAATTATAAATTATAT
Found at i:9012163 original size:31 final size:31
Alignment explanation
Indices: 9012125--9012183 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
9012115 ATATTGGTGA
* *
9012125 AATTTTAAGTAACAATTAATAATACAATATT
1 AATTTTAAGCAACAAATAATAATACAATATT
9012156 AATTTTAAGCAACAAATAATAATACAAT
1 AATTTTAAGCAACAAATAATAATACAAT
9012184 GCTACAATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.34
Consensus pattern (31 bp):
AATTTTAAGCAACAAATAATAATACAATATT
Found at i:9012318 original size:19 final size:21
Alignment explanation
Indices: 9012275--9012319 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
9012265 TTTTACAATG
*
9012275 AAAGGACAAAAGAGAAGAGAA
1 AAAGAACAAAAGAGAAGAGAA
*
9012296 AAAGAACAAAA-AG-AGATAA
1 AAAGAACAAAAGAGAAGAGAA
9012315 AAAGA
1 AAAGA
9012320 GATGTGAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 10 0.45
20 2 0.09
21 10 0.45
ACGTcount: A:0.71, C:0.04, G:0.22, T:0.02
Consensus pattern (21 bp):
AAAGAACAAAAGAGAAGAGAA
Found at i:9012454 original size:2 final size:2
Alignment explanation
Indices: 9012447--9012473 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9012437 GGACCCATTA
9012447 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
9012474 ACATATTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9017024 original size:22 final size:22
Alignment explanation
Indices: 9016996--9017048 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
9016986 GAAAGGCTTT
9016996 ACTTTCAAGCTTTGACCTCTAC
1 ACTTTCAAGCTTTGACCTCTAC
9017018 ACTTTCAAGCTTTGACCTCTAC
1 ACTTTCAAGCTTTGACCTCTAC
*
9017040 TCTTT-AAGC
1 ACTTTCAAGC
9017049 AAACGCATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 4 0.13
22 26 0.87
ACGTcount: A:0.23, C:0.30, G:0.09, T:0.38
Consensus pattern (22 bp):
ACTTTCAAGCTTTGACCTCTAC
Found at i:9023550 original size:21 final size:19
Alignment explanation
Indices: 9023526--9023566 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
9023516 AATTTAAAAC
9023526 AAAATAACATAAAACTTAACT
1 AAAATAAC-TAAAA-TTAACT
*
9023547 AAAATAACTTAAATTAACT
1 AAAATAACTAAAATTAACT
9023566 A
1 A
9023567 CTCAACATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAATAACTAAAATTAACT
Found at i:9028902 original size:169 final size:169
Alignment explanation
Indices: 9028622--9028959 Score: 631
Period size: 169 Copynumber: 2.0 Consensus size: 169
9028612 GACTATGTAT
* *
9028622 TCATTAAGCCTTAAATGTTCACGTGATCTCTAAAATTTGGTGTACATCCAACTTTAGCTTATAAG
1 TCATTAAGCCTTAAATGTTCACGTGATCTCCAAAATTTGGTGTACATCCAACGTTAGCTTATAAG
9028687 GTACCATAAATAACTTAACATGTCAAATAAAATATGGCCAATAGCTATAGTTAGCAGTGAATGCC
66 GTACCATAAATAACTTAACATGTCAAATAAAATATGGCCAATAGCTATAGTTAGCAGTGAATGCC
*
9028752 AAATGTGGTTTGATTGAATATTTCTTTCTTGAATCTTGA
131 AAATGTGATTTGATTGAATATTTCTTTCTTGAATCTTGA
9028791 TCATTAAGCCTTAAATGTTCACGTGATCTCCAAAATTTGGTGTACATCCAACGTTAGCTTATAAG
1 TCATTAAGCCTTAAATGTTCACGTGATCTCCAAAATTTGGTGTACATCCAACGTTAGCTTATAAG
*
9028856 GTACCATAAATAACTTAACATGTCAAATAAAATATGGCCTATAGCTATAGTTAGCAGTGAATGCC
66 GTACCATAAATAACTTAACATGTCAAATAAAATATGGCCAATAGCTATAGTTAGCAGTGAATGCC
*
9028921 AAATGTGATTTGATTGAATATTTTTTTCTTGAATCTTGA
131 AAATGTGATTTGATTGAATATTTCTTTCTTGAATCTTGA
9028960 CAATTGGTAT
Statistics
Matches: 164, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
169 164 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (169 bp):
TCATTAAGCCTTAAATGTTCACGTGATCTCCAAAATTTGGTGTACATCCAACGTTAGCTTATAAG
GTACCATAAATAACTTAACATGTCAAATAAAATATGGCCAATAGCTATAGTTAGCAGTGAATGCC
AAATGTGATTTGATTGAATATTTCTTTCTTGAATCTTGA
Found at i:9030396 original size:8 final size:8
Alignment explanation
Indices: 9030383--9030410 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
9030373 CATATATATG
9030383 ATGGCTTT
1 ATGGCTTT
9030391 ATGGCTTT
1 ATGGCTTT
9030399 ATGGCTTT
1 ATGGCTTT
9030407 ATGG
1 ATGG
9030411 TTACATATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.14, C:0.11, G:0.29, T:0.46
Consensus pattern (8 bp):
ATGGCTTT
Found at i:9034361 original size:19 final size:19
Alignment explanation
Indices: 9034337--9034375 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
9034327 TGATGAACTA
9034337 TGTACAATGGTATGCAATG
1 TGTACAATGGTATGCAATG
9034356 TGTACAATGGTATGCAATG
1 TGTACAATGGTATGCAATG
9034375 T
1 T
9034376 ATGATTATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.33
Consensus pattern (19 bp):
TGTACAATGGTATGCAATG
Found at i:9035115 original size:26 final size:26
Alignment explanation
Indices: 9035084--9035151 Score: 129
Period size: 26 Copynumber: 2.7 Consensus size: 26
9035074 TGTTTTATAC
9035084 TCATTTACATAAACTTGTTTATGTAA
1 TCATTTACATAAACTTGTTTATGTAA
9035110 TCATTTACATAAACTTGTTTATGTAA
1 TCATTTACATAAACTTGTTTATGTAA
9035136 TCATTTACAT-AACTTG
1 TCATTTACATAAACTTG
9035152 GATTTAAATG
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
25 6 0.14
26 36 0.86
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (26 bp):
TCATTTACATAAACTTGTTTATGTAA
Found at i:9051732 original size:4 final size:4
Alignment explanation
Indices: 9051723--9051758 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
9051713 GTTGATGGGT
*
9051723 TTTA TTTA TTTA TGTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
9051759 ATGTTTTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:9055019 original size:2 final size:2
Alignment explanation
Indices: 9055012--9055042 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9055002 AAAATCTGTA
9055012 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9055043 AGAGTAAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9082350 original size:23 final size:23
Alignment explanation
Indices: 9082324--9082369 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
9082314 TTTTAATTTT
* *
9082324 TTATAT-ATTCTTAATATAATTAG
1 TTATATGATTATT-ATAAAATTAG
9082347 TTATATGATTATTATAAAATTAG
1 TTATATGATTATTATAAAATTAG
9082370 ATGCCTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (23 bp):
TTATATGATTATTATAAAATTAG
Found at i:9089878 original size:34 final size:30
Alignment explanation
Indices: 9089814--9089883 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
9089804 AAAAAATTTT
9089814 AAAATTTGTGCATATCGTTTTAATTTTAAA
1 AAAATTTGTGCATATCGTTTTAATTTTAAA
*
9089844 ACAATTTGTGCATATCGTTTTACTAAATTTTAAA
1 AAAATTTGTGCATATCG-TTT--T-AATTTTAAA
9089878 AAAATT
1 AAAATT
9089884 ATTAAATGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 16 0.47
31 3 0.09
33 1 0.03
34 14 0.41
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.44
Consensus pattern (30 bp):
AAAATTTGTGCATATCGTTTTAATTTTAAA
Found at i:9090510 original size:2 final size:2
Alignment explanation
Indices: 9090503--9090536 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9090493 AATGTTTTAA
9090503 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9090537 CTAAGTGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9090875 original size:21 final size:21
Alignment explanation
Indices: 9090851--9090891 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9090841 ATGATCGTAA
*
9090851 TTATAAAATATGTACCACATG
1 TTATAAAATACGTACCACATG
* *
9090872 TTATAAGATACGTATCACAT
1 TTATAAAATACGTACCACAT
9090892 ATCATATAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (21 bp):
TTATAAAATACGTACCACATG
Found at i:9095797 original size:31 final size:31
Alignment explanation
Indices: 9095755--9095825 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
9095745 GTTAATTAAT
* * * *
9095755 AATTAAAAAATTTTATTTAATTTAA-AATAAA
1 AATTTAAAAATTTAATTAAATATAATAA-AAA
9095786 AATTTAAAAATTTAATTAAATATAATAAAAA
1 AATTTAAAAATTTAATTAAATATAATAAAAA
9095817 AATTTAAAA
1 AATTTAAAA
9095826 CTGAAGTAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 33 0.94
32 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (31 bp):
AATTTAAAAATTTAATTAAATATAATAAAAA
Found at i:9109771 original size:76 final size:76
Alignment explanation
Indices: 9109679--9109834 Score: 303
Period size: 76 Copynumber: 2.1 Consensus size: 76
9109669 TACAAAGTAG
9109679 ATTAGGCTTGAAAGTCTTTTACGTGCGAGGAAAGTATTAACACCCCTACAACATCCATTTAATTG
1 ATTAGGCTTGAAAGTCTTTTACGTGCGAGGAAAGTATTAACACCCCTACAACATCCATTTAATTG
9109744 GTACCCTATCA
66 GTACCCTATCA
*
9109755 ATTAGGCTTGAAAGTCTTTTACGTGTGAGGAAAGTATTAACACCCCTACAACATCCATTTAATTG
1 ATTAGGCTTGAAAGTCTTTTACGTGCGAGGAAAGTATTAACACCCCTACAACATCCATTTAATTG
9109820 GTACCCTATCA
66 GTACCCTATCA
9109831 ATTA
1 ATTA
9109835 TGTGTCATTT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 79 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.31
Consensus pattern (76 bp):
ATTAGGCTTGAAAGTCTTTTACGTGCGAGGAAAGTATTAACACCCCTACAACATCCATTTAATTG
GTACCCTATCA
Found at i:9110123 original size:23 final size:24
Alignment explanation
Indices: 9110059--9110124 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 24
9110049 GCAGAATTTA
*
9110059 TTTA-TTTAATTCTTTAATTTTATCT
1 TTTATTTTAATACTTT--TTTTATCT
*
9110084 TTTATTTTAATCCTTTTTTTAT-T
1 TTTATTTTAATACTTTTTTTATCT
* *
9110107 TTTATTTTATTAGTTTTT
1 TTTATTTTAATACTTTTT
9110125 CAAATAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.44
24 6 0.17
25 4 0.11
26 10 0.28
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.73
Consensus pattern (24 bp):
TTTATTTTAATACTTTTTTTATCT
Found at i:9110192 original size:204 final size:207
Alignment explanation
Indices: 9109898--9110297 Score: 551
Period size: 206 Copynumber: 1.9 Consensus size: 207
9109888 TTCTTTTTCC
* * *
9109898 TATTTCTTATTTATTAGCTTTTTAAAAAAATAAAAATTCTTGATATTGAACATTTCCCAAAATCT
1 TATTTCTTATTTATTAGCTTTTTAAAAAAATAAAAATTATTAATATTGAAAATTTCCCAAAATCT
* * * * *
9109963 CCTAAACACTTATGGTAACATTTTGAAAAA-T-TCTCACTTAGAAATTCCCAAAAAGCCACTTTT
66 CCCAAACACTTATGGTAAAATTTTGAAAAATTCTCTCACCTAGAAACTACCAAAAAGCCACTTTT
* ** * *
9110026 GGTTTTCTTGAGATTTTGTCATT-GCAGAATTTATTTATTTAATTCTTTAATTTTATCTTTTATT
131 GGTTTTCATGAGATTTCATCATTAG-AGAATTTATTTATTTAACTCTATAATTTTATCTTTTATT
9110090 TTAATCCTTTTTT
195 TTAATCCTTTTTT
* **
9110103 TATTT-TTATTTTATTAG-TTTTTCAAATAAAT-AAAATTATTAATATTGAAAATTTTTCAAAAT
1 TATTTCTTA-TTTATTAGCTTTTT-AAAAAAATAAAAATTATTAATATTGAAAATTTCCCAAAAT
* ** *
9110165 GTCCCAAACACTTATGGTAAAATTTTGAAAAATTCTCTCACCTAGAAACTATGAAGAAGCCACTT
64 CTCCCAAACACTTATGGTAAAATTTTGAAAAATTCTCTCACCTAGAAACTACCAAAAAGCCACTT
9110230 TTGGTTTTCATGAGATTTCATCATTAGAGAATTTATTTATTTAACTCTATAATTTTATCTTTTAT
129 TTGGTTTTCATGAGATTTCATCATTAGAGAATTTATTTATTTAACTCTATAATTTTATCTTTTAT
9110295 TTT
194 TTT
9110298 TTTTCTTTTC
Statistics
Matches: 170, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
204 63 0.37
205 21 0.12
206 85 0.50
207 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.46
Consensus pattern (207 bp):
TATTTCTTATTTATTAGCTTTTTAAAAAAATAAAAATTATTAATATTGAAAATTTCCCAAAATCT
CCCAAACACTTATGGTAAAATTTTGAAAAATTCTCTCACCTAGAAACTACCAAAAAGCCACTTTT
GGTTTTCATGAGATTTCATCATTAGAGAATTTATTTATTTAACTCTATAATTTTATCTTTTATTT
TAATCCTTTTTT
Found at i:9113555 original size:10 final size:10
Alignment explanation
Indices: 9113536--9113570 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
9113526 TAGCTTTTCC
9113536 TAAAATAAAT
1 TAAAATAAAT
*
9113546 TAAGATAAAT
1 TAAAATAAAT
9113556 TAAAATGAAAT
1 TAAAAT-AAAT
9113567 TAAA
1 TAAA
9113571 CTAATGACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (10 bp):
TAAAATAAAT
Found at i:9119065 original size:10 final size:10
Alignment explanation
Indices: 9119040--9119065 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
9119030 AAAAATTAAA
9119040 AAAAATAATT
1 AAAAATAATT
9119050 AAAAATAATT
1 AAAAATAATT
9119060 AAAAAT
1 AAAAAT
9119066 TAACACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAATAATT
Found at i:9124495 original size:73 final size:73
Alignment explanation
Indices: 9124373--9124556 Score: 199
Period size: 73 Copynumber: 2.5 Consensus size: 73
9124363 TAGATAGAAT
* *** * * *
9124373 GCTCTTAGTTGACTAACATTGCTACTTAGTCGATTAAGTCATCTGTGTCTTTGAACCCAG-TTTC
1 GCTCTTAGTCGACTAACAAAACTTCTTAGTCGATTAAGTCATCTCTGTCTCTGAACCCAGTTTTC
** *
9124437 TGGTAGTAG
66 -GACAGTAA
* * * * *
9124446 GCTCTTAGTCGACTAATAAATCTTCTTAGTCGATTAAGTCGTTTCTGTCTCTGAACTCAGTTTTC
1 GCTCTTAGTCGACTAACAAAACTTCTTAGTCGATTAAGTCATCTCTGTCTCTGAACCCAGTTTTC
9124511 GACAGTAA
66 GACAGTAA
* *
9124519 GCTCTTAGTCGACTAACAAAACTTCTTAATTGATTAAG
1 GCTCTTAGTCGACTAACAAAACTTCTTAGTCGATTAAG
9124557 ACATTTTTTT
Statistics
Matches: 92, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
73 88 0.96
74 4 0.04
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.38
Consensus pattern (73 bp):
GCTCTTAGTCGACTAACAAAACTTCTTAGTCGATTAAGTCATCTCTGTCTCTGAACCCAGTTTTC
GACAGTAA
Found at i:9128992 original size:68 final size:68
Alignment explanation
Indices: 9128907--9129081 Score: 233
Period size: 68 Copynumber: 2.6 Consensus size: 68
9128897 AATGTGCATA
* * * *
9128907 AAAGTATAAAGAATGCCATTAGATTATGTATATTATGTATATTCCGTATACTACATGAGATGATT
1 AAAGAATAAAGAATGCCATTAGATTATGTATATGATGTATATTCCATATACTACATGAGATAATT
*
9128972 GAG
66 AAG
* * * *
9128975 AAAGAATTATGAATGCCATTAAATTGTGTATATGATGTATATTCCATATACTACATGAGATAATT
1 AAAGAATAAAGAATGCCATTAGATTATGTATATGATGTATATTCCATATACTACATGAGATAATT
9129040 AAG
66 AAG
* * * *
9129043 AAAGTATAAAGAATGCCATAAGATTTTGTTTATGATGTA
1 AAAGAATAAAGAATGCCATTAGATTATGTATATGATGTA
9129082 AATTTGATAT
Statistics
Matches: 91, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 91 1.00
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (68 bp):
AAAGAATAAAGAATGCCATTAGATTATGTATATGATGTATATTCCATATACTACATGAGATAATT
AAG
Found at i:9145217 original size:28 final size:28
Alignment explanation
Indices: 9145164--9145218 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
9145154 TCATGCTATA
* **
9145164 CATTCTCACTTGTATTTCATTTTACTTG
1 CATTCTCACTTGAATTTCATCCTACTTG
9145192 CATT-TCATCTTGAATTTCATCCTACTT
1 CATTCTCA-CTTGAATTTCATCCTACTT
9145219 TCCAAGATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.20, C:0.24, G:0.05, T:0.51
Consensus pattern (28 bp):
CATTCTCACTTGAATTTCATCCTACTTG
Found at i:9147270 original size:22 final size:24
Alignment explanation
Indices: 9147239--9147283 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
9147229 ATCTCATTAA
9147239 TCAATACAAAA-TAAAA-AAATTT
1 TCAATACAAAACTAAAATAAATTT
*
9147261 TCAATCCAAAACTAAAATAAATT
1 TCAATACAAAACTAAAATAAATT
9147284 AATTTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 5 0.25
24 5 0.25
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (24 bp):
TCAATACAAAACTAAAATAAATTT
Found at i:9147295 original size:24 final size:24
Alignment explanation
Indices: 9147268--9147313 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
9147258 TTTTCAATCC
* * *
9147268 AAAACTAAAATAAATTAATTTTTT
1 AAAAATAAAAAAAATAAATTTTTT
9147292 AAAAATAAAAAAAATAAATTTT
1 AAAAATAAAAAAAATAAATTTT
9147314 GAAAACTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
AAAAATAAAAAAAATAAATTTTTT
Found at i:9147318 original size:23 final size:24
Alignment explanation
Indices: 9147268--9147318 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
9147258 TTTTCAATCC
* * * *
9147268 AAAACTAAAATAAATTAATTTTTT
1 AAAAATAAAATAAAATAAATTTTG
9147292 AAAAATAAAA-AAAATAAATTTTG
1 AAAAATAAAATAAAATAAATTTTG
9147315 AAAA
1 AAAA
9147319 CTTTTTAAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (24 bp):
AAAAATAAAATAAAATAAATTTTG
Found at i:9147777 original size:260 final size:260
Alignment explanation
Indices: 9147299--9147832 Score: 824
Period size: 260 Copynumber: 2.1 Consensus size: 260
9147289 TTTAAAAATA
* *
9147299 AAAAAAATAAATTTT-GAAAACTTTTTAAGAATATATATTTTTAAAAAAAATTAAAATTGGGCCC
1 AAAAAAAT--ATTTTAGAAAACTTTTTAAAAATATATATTTTTAAAAAAAATTAAAATAGGGCCC
* * * **
9147363 ACCCCAATGGGCAACAGCCCAAGGGTCAGCTGCACACTTGGGCTGCTGCCTGCAGCAGCACTTGC
64 ACCCCAATGGGCAACAGCCAAAGGGTCAGCTGCACACTTGAGATGCTGCAGGCAGCAGCACTTGC
* * * *
9147428 TTCTGCCTTACGGCAGCGTTTACTGCTAGATGTGGCAGCGTGTGCTGCTATCCGGGTTGTTGCCT
129 TACTGCCTTACGGCAGCGTTTACTGCTAGACGTGGCAGCATGTGCTACTATCCGGGTTGTTGCCT
* * * *
9147493 GCAACACACAATAGGGGCCTGTTTGCTGCCCAGGAGCACACCCTACCTTTCTTTTTTTTTTTAAG
194 ACAACACACAATAGGGGCCTGTTTGCTGCCCAGAAGCACACCCCACCTTT-ATTTTTTTTTTAAG
9147558 CAC
258 CAC
*
9147561 AAAAAAATATTTTAG-AAACTTTTTAAAAATATATATTTTTTAAAAAAATTAAAATAGGGCCCA-
1 AAAAAAATATTTTAGAAAACTTTTTAAAAATATATATTTTTAAAAAAAATTAAAATAGGGCCCAC
** *
9147624 CCTGATTGGCAACAGCCAAAGGGTCAGCTGCACACTTGAGATGCTGCAGGCAAGCAGCACTTGCT
66 CCCAATGGGCAACAGCCAAAGGGTCAGCTGCACACTTGAGATGCTGCAGGC-AGCAGCACTTGCT
*
9147689 ACTGCCTTACGGCAGCGTTTATTGCTAGACGTGGCAGCATGTGCTACTATCCGGGTTGTTGCCTA
130 ACTGCCTTACGGCAGCGTTTACTGCTAGACGTGGCAGCATGTGCTACTATCCGGGTTGTTGCCTA
9147754 CAACACACAATAGGGGCCTGTTTGCTGCCCAGAAGCACACCCCACCTTTATTTTTTTTTTAAGCA
195 CAACACACAATAGGGGCCTGTTTGCTGCCCAGAAGCACACCCCACCTTTATTTTTTTTTTAAGCA
9147819 C
260 C
9147820 -AAAAAATATTTTA
1 AAAAAAATATTTTA
9147833 ATAAAAGAAA
Statistics
Matches: 250, Mismatches: 20, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
258 13 0.05
259 59 0.24
260 169 0.68
261 1 0.00
262 8 0.03
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (260 bp):
AAAAAAATATTTTAGAAAACTTTTTAAAAATATATATTTTTAAAAAAAATTAAAATAGGGCCCAC
CCCAATGGGCAACAGCCAAAGGGTCAGCTGCACACTTGAGATGCTGCAGGCAGCAGCACTTGCTA
CTGCCTTACGGCAGCGTTTACTGCTAGACGTGGCAGCATGTGCTACTATCCGGGTTGTTGCCTAC
AACACACAATAGGGGCCTGTTTGCTGCCCAGAAGCACACCCCACCTTTATTTTTTTTTTAAGCAC
Found at i:9147843 original size:19 final size:19
Alignment explanation
Indices: 9147821--9147880 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
9147811 TTTAAGCACA
9147821 AAAAATATTTTAATAAAAG
1 AAAAATATTTTAATAAAAG
*
9147840 AAAAATATATTT-ATAATA-
1 AAAAATAT-TTTAATAAAAG
* *
9147858 ACAAA-ATTTTAATATAAG
1 AAAAATATTTTAATAAAAG
9147876 AAAAA
1 AAAAA
9147881 CTTTCTTCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
16 3 0.09
17 6 0.18
18 8 0.24
19 13 0.39
20 3 0.09
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (19 bp):
AAAAATATTTTAATAAAAG
Found at i:9149238 original size:29 final size:28
Alignment explanation
Indices: 9149158--9149325 Score: 135
Period size: 29 Copynumber: 5.9 Consensus size: 28
9149148 TTAAGACAAC
* * * *
9149158 TCTTGTCTAGATTAAAACAAAAAATATTTT
1 TCTTGTTTAAATTAAGAC-AAACATA-TTT
*
9149188 TCTTGCCTTAAATT-AGAACAAACATATTT
1 TCTTG-TTTAAATTAAG-ACAAACATATTT
* * *
9149217 TCTTATCTAAATTAAGACCAAATATAATTT
1 TCTTGTTTAAATTAAGA-CAAACAT-ATTT
* * *
9149247 T-TT-TTTAAATTAAGACAAATATGTTC
1 TCTTGTTTAAATTAAGACAAACATATTT
*
9149273 TCTTGTTTAAATTAAGACATAACATGTTT
1 TCTTGTTTAAATTAAGACA-AACATATTT
*
9149302 TCTTGTTTAAATTTAGACAAACAT
1 TCTTGTTTAAATTAAGACAAACAT
9149326 GTTAAAGCTA
Statistics
Matches: 115, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
26 3 0.03
27 9 0.08
28 37 0.32
29 42 0.37
30 17 0.15
31 7 0.06
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (28 bp):
TCTTGTTTAAATTAAGACAAACATATTT
Found at i:9151352 original size:21 final size:21
Alignment explanation
Indices: 9151316--9151366 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
9151306 ACATGTTGAG
9151316 TAGTT-AA-TTTAAGTTATTT
1 TAGTTAAATTTTAAGTTATTT
*
9151335 TAGTTAAATTTTACGTTATTT
1 TAGTTAAATTTTAAGTTATTT
*
9151356 TATTTTAAATT
1 TA-GTTAAATT
9151367 ACTTTAAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 5 0.19
20 2 0.07
21 13 0.48
22 7 0.26
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (21 bp):
TAGTTAAATTTTAAGTTATTT
Found at i:9155189 original size:3 final size:3
Alignment explanation
Indices: 9155181--9155212 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
9155171 AGGAAAACCC
9155181 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
9155213 CTACTGCTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:9155397 original size:2 final size:2
Alignment explanation
Indices: 9155390--9155424 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9155380 TTCTAATTTC
9155390 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
9155425 CTTGTCGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:9157017 original size:22 final size:22
Alignment explanation
Indices: 9156991--9157036 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
9156981 ACTCCTACGC
9156991 AATATATACTTATAAAATTAAT
1 AATATATACTTATAAAATTAAT
9157013 AATATATACTTATAAAATTAAT
1 AATATATACTTATAAAATTAAT
9157035 AA
1 AA
9157037 ATAAGTAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (22 bp):
AATATATACTTATAAAATTAAT
Found at i:9167713 original size:68 final size:67
Alignment explanation
Indices: 9167593--9167909 Score: 201
Period size: 68 Copynumber: 4.6 Consensus size: 67
9167583 AAAATGTGGT
* * * *
9167593 ACATTCACCCAA-CTTGACCCCTATGGTATTCTTACCCCTACATTGGGATTCATAAAGGG-AAAA
1 ACATTCA-CCAATCTTGA-CCTTGTGATATTCTTACCCC-ACATTGAGATTCAT-AAGGGAAAAA
*
9167656 GATGGC
62 GATGAC
* * *
9167662 ATATTCACCAATTTTGACCTTGTGATATTCTTAGCCCCACATTGAGATTCATAGGGGAAAAAGAT
1 ACATTCACCAATCTTGACCTTGTGATATTCTTA-CCCCACATTGAGATTCATAAGGGAAAAAGAT
9167727 GAC
65 GAC
** * * * * * *
9167730 ACATTCACCAATCTTGATGTTGTGGTAGTCATACCCCACATTG-GACTTTTATAAGGGTAAGAGA
1 ACATTCACCAATCTTGACCTTGTGATATTCTTACCCCACATTGAGA--TTCATAAGGGAAAAAGA
**
9167794 TGGT
64 TGAC
* ** * * ** * * *
9167798 ACGTTCACCAATCTCAACCTTTTGGTATTCTTACCCTCACACCGGGCTTTTATAAAGGGAAAAA-
1 ACATTCACCAATCTTGACCTTGTGATATTCTTACCC-CACATTGAG-ATTCAT-AAGGGAAAAAG
*
9167862 ATGGC
63 ATGAC
* * * * *
9167867 ACATTCATCAATCTTGACATTGTGGTCTTATTACCCCCACATT
1 ACATTCACCAATCTTGACCTTGTGATATTCTTA-CCCCACATT
9167910 AGGCTAAAAT
Statistics
Matches: 193, Mismatches: 45, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
66 2 0.01
67 14 0.07
68 108 0.56
69 57 0.30
70 12 0.06
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (67 bp):
ACATTCACCAATCTTGACCTTGTGATATTCTTACCCCACATTGAGATTCATAAGGGAAAAAGATG
AC
Found at i:9171660 original size:105 final size:105
Alignment explanation
Indices: 9171511--9171830 Score: 444
Period size: 105 Copynumber: 3.0 Consensus size: 105
9171501 GGCACTGATG
* * * * *
9171511 TATCAAA-AGGAAAAAACTCCCACTAACCAAAAATATATATTAAGTGGGTATAATTCTAGCCTTT
1 TATCAAATAGGTATAAACTCCCACTAACC-AAAATATATATTAAGTGGGTATAATTCTAACATGT
* *
9171575 TATCTTATAACAAAATTGTTATAATACAGTTTGATATCTTA
65 TATCTAATAACAAAATTATTATAATACAGTTTGATATCTTA
* * *
9171616 TATCAAATAGGTATAAACTCCCATTAACCAAAATATATATTAAGTGAGTATAATTCTAATATGTT
1 TATCAAATAGGTATAAACTCCCACTAACCAAAATATATATTAAGTGGGTATAATTCTAACATGTT
* * *
9171681 ATCTAATAACAACATCACTATAATACAGTTTGATATCTTA
66 ATCTAATAACAAAATTATTATAATACAGTTTGATATCTTA
* * * *
9171721 TATCAAGTAGGTATAAACTCCTACTAACCAAAATATATATTAACTAGGTATAATTCTAACATGTT
1 TATCAAATAGGTATAAACTCCCACTAACCAAAATATATATTAAGTGGGTATAATTCTAACATGTT
* * *
9171786 ATCTCATAACAATATTATTATAATATAGTTTGATATCTTA
66 ATCTAATAACAAAATTATTATAATACAGTTTGATATCTTA
9171826 TATCA
1 TATCA
9171831 GATAACCAAA
Statistics
Matches: 189, Mismatches: 25, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
105 171 0.90
106 18 0.10
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (105 bp):
TATCAAATAGGTATAAACTCCCACTAACCAAAATATATATTAAGTGGGTATAATTCTAACATGTT
ATCTAATAACAAAATTATTATAATACAGTTTGATATCTTA
Found at i:9179864 original size:21 final size:21
Alignment explanation
Indices: 9179830--9179869 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9179820 AAATGACCTT
* *
9179830 ATCTATTGACAGATGCAAAAC
1 ATCTATCGACAGATACAAAAC
*
9179851 ATCTATCGATAGATACAAA
1 ATCTATCGACAGATACAAA
9179870 TTAAAATCCT
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:0.17, G:0.12, T:0.25
Consensus pattern (21 bp):
ATCTATCGACAGATACAAAAC
Found at i:9188261 original size:20 final size:20
Alignment explanation
Indices: 9188236--9188274 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9188226 GCGCACGTAT
9188236 GTATATATACATATATATAC
1 GTATATATACATATATATAC
**
9188256 GTATATATATTTATATATA
1 GTATATATACATATATATA
9188275 ATCCTTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (20 bp):
GTATATATACATATATATAC
Found at i:9192497 original size:51 final size:52
Alignment explanation
Indices: 9192417--9192541 Score: 164
Period size: 51 Copynumber: 2.4 Consensus size: 52
9192407 GGGGGGGCTG
* * * *
9192417 GGGGAATCAGGTCGGGATTCCAAGAGGGGGGAAGGAGTTAGGTCGGCGAT-A
1 GGGGAATTAGGTCGGGACTCGAAGAGGGGGGAAGGAGTTAGGTCAGCGATGA
*
9192468 GGGGAATTAGGTCGGGACTCG-AGAGGGGGGGAAGGAGTTAGGTCAGCGATGG
1 GGGGAATTAGGTCGGGACTCGAAGA-GGGGGGAAGGAGTTAGGTCAGCGATGA
*
9192520 GGGAGAATTAGGTCGAGACTCG
1 GGG-GAATTAGGTCGGGACTCG
9192542 GAAGGGGAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
50 3 0.05
51 42 0.65
52 3 0.05
53 17 0.26
ACGTcount: A:0.25, C:0.11, G:0.48, T:0.16
Consensus pattern (52 bp):
GGGGAATTAGGTCGGGACTCGAAGAGGGGGGAAGGAGTTAGGTCAGCGATGA
Found at i:9199377 original size:2 final size:2
Alignment explanation
Indices: 9199370--9199395 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9199360 ATTAATTTTG
9199370 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
9199396 AGCAATACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9206449 original size:15 final size:14
Alignment explanation
Indices: 9206431--9206481 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
9206421 AGGATGAAGA
9206431 AGATGAGATGCAAAG
1 AGATGAGATG-AAAG
9206446 AGATGAAGATG-AAG
1 AGATG-AGATGAAAG
*
9206460 AAGATGACATGGAAAG
1 -AGATGAGAT-GAAAG
9206476 AGATGA
1 AGATGA
9206482 AAATGAAGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
14 6 0.19
15 17 0.55
16 8 0.26
ACGTcount: A:0.49, C:0.04, G:0.33, T:0.14
Consensus pattern (14 bp):
AGATGAGATGAAAG
Found at i:9206459 original size:30 final size:30
Alignment explanation
Indices: 9206423--9206490 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
9206413 CTTGATTGAG
*
9206423 GATGAAGAAGATGAGATGCAAAGAGATGAA
1 GATGAAGAAGATGACATGCAAAGAGATGAA
*
9206453 GATGAAGAAGATGACATGGAAAGAGATGAA
1 GATGAAGAAGATGACATGCAAAGAGATGAA
*
9206483 AATGAAGA
1 GATGAAGA
9206491 TGAAGATGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.32, T:0.13
Consensus pattern (30 bp):
GATGAAGAAGATGACATGCAAAGAGATGAA
Found at i:9211491 original size:2 final size:2
Alignment explanation
Indices: 9211486--9211510 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9211476 CATATATATA
9211486 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
9211511 ATCTGTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:9215629 original size:2 final size:2
Alignment explanation
Indices: 9215622--9215649 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9215612 CCAAGAATGC
9215622 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
9215650 TAAAAGGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:9220097 original size:40 final size:40
Alignment explanation
Indices: 9220053--9220166 Score: 147
Period size: 40 Copynumber: 2.9 Consensus size: 40
9220043 ATGCTTTAAC
* * *
9220053 TTTGAAAAGGTAGTGACTTTGTGAGGTTGTGCTTATTTCT
1 TTTGAAAAGGTAGTGACATTGTGAGGTTGTGCTTACTCCT
* * *
9220093 TTTGAAAAGATAGTGACGTTGTGAGCTTGTGCTTACTCCT
1 TTTGAAAAGGTAGTGACATTGTGAGGTTGTGCTTACTCCT
* * *
9220133 CTTGAAAAGGAAGTGACATTGTGAAGTTGTGCTT
1 TTTGAAAAGGTAGTGACATTGTGAGGTTGTGCTT
9220167 GTTCCTCTTT
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.24, C:0.11, G:0.27, T:0.39
Consensus pattern (40 bp):
TTTGAAAAGGTAGTGACATTGTGAGGTTGTGCTTACTCCT
Found at i:9220173 original size:40 final size:40
Alignment explanation
Indices: 9220054--9220182 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
9220044 TGCTTTAACT
* * * * *
9220054 TTGAAAAGGTAGTGACTTTGTGAGGTTGTGCTTATTTCTT
1 TTGAAAAGGAAGTGACATTGTGAAGTTGTGCTTATTCCTC
* *
9220094 TTGAAAA-GATAGTGACGTTGTG-AGCTTGTGCTTACTCCTC
1 TTGAAAAGGA-AGTGACATTGTGAAG-TTGTGCTTATTCCTC
*
9220134 TTGAAAAGGAAGTGACATTGTGAAGTTGTGCTTGTTCCTC
1 TTGAAAAGGAAGTGACATTGTGAAGTTGTGCTTATTCCTC
*
9220174 TTTAAAAGG
1 TTGAAAAGG
9220183 CAATATTTGT
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
39 2 0.03
40 69 0.92
41 4 0.05
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (40 bp):
TTGAAAAGGAAGTGACATTGTGAAGTTGTGCTTATTCCTC
Found at i:9224699 original size:17 final size:17
Alignment explanation
Indices: 9224677--9224718 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
9224667 AAAGAGGAAG
* *
9224677 GAAGAGAAAGAGAATGA
1 GAAGAGAAAGAAAAAGA
9224694 GAAGAGAAAGAAAAAGA
1 GAAGAGAAAGAAAAAGA
9224711 GAAG-GAAA
1 GAAGAGAAA
9224719 ACAAGAGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.02
Consensus pattern (17 bp):
GAAGAGAAAGAAAAAGA
Found at i:9225190 original size:23 final size:23
Alignment explanation
Indices: 9225164--9225218 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
9225154 TATGAAAAGA
* *
9225164 TTAAAATATT-TTTTTTTATTAAT
1 TTAAAATATTATTATTATATT-AT
* *
9225187 TTAAAAAATTATTATTATATTTT
1 TTAAAATATTATTATTATATTAT
9225210 TTAAAATAT
1 TTAAAATAT
9225219 AAAATATATG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTAAAATATTATTATTATATTAT
Found at i:9248380 original size:417 final size:417
Alignment explanation
Indices: 9247581--9248411 Score: 1450
Period size: 417 Copynumber: 2.0 Consensus size: 417
9247571 AATTGATATG
*
9247581 GTCAAGGAGTAGTTGTTCGTGGCCAAGGTTTCTAGTCATGAGAAGAAAAACACATGGCTCCTCGA
1 GTCAAGGAGTAGTTGTTCGTGGCCAAGGTTTCTAGTCATGAAAAGAAAAACACATGGCTCCTCGA
*
9247646 TGGCATGTGTTCCAATCACATGATAAGTAATGATAAGCTCTTCAATGTATTGGACTTGAGTTACA
66 TAGCATGTGTTCCAATCACATGATAAGTAATGATAAGCTCTTCAATGTATTGGACTTGAGTTACA
* *
9247711 GAGCAAGGGTTAAGATTGGAAATGGCTTCTAAATGAAGATTCTTGGAACAAGAATTTTGGCAATG
131 GAGCAAGGGTTAAGATTGGAAATGGCTTCTAAATGAAGACTCTTGGAACAAGAATTATGGCAATG
* *
9247776 GAAACTTTCTCTAGCATCAAATATATTTAAGATGTTTACTTTGTTCAGAGTTAACAGAAAACTTA
196 GAAACTCTCTCTAGCATCAAATATATTTAAGATGTTTACTTTGTTCAGAGGTAACAGAAAACTTA
* *
9247841 CTTAGTGTTGGCCAACTTATTGAGAATCATTTTGCTTTACTATTTAAGAATAATTATTGCACCAT
261 CTTAATGTTGGCCAACTTACTGAGAATCATTTTGCTTTACTATTTAAGAATAATTATTGCACCAT
* *
9247906 TTTTTATCTGAACGGTGAAAAATTATTGATAGTAAAGTTGAGGAATCGATGCTATTCCTTAAACT
326 TGTTTATCCGAACGGTGAAAAATTATTGATAGTAAAGTTGAGGAATCGATGCTATTCCTTAAACT
9247971 AGATTAAGATAAAGCACATTGTTCGTA
391 AGATTAAGATAAAGCACATTGTTCGTA
9247998 GTCAAGGAGTAGTTGTTCGTGGCCAAGGTTTCTAGTCATGAAAAGAAAAACACATGGCTCCTCGA
1 GTCAAGGAGTAGTTGTTCGTGGCCAAGGTTTCTAGTCATGAAAAGAAAAACACATGGCTCCTCGA
*
9248063 TAGCATGTGTTCCAATCACATGATAAGTAATGATAAGCTCATT-AATGTATTGGACTTGAGTTAT
66 TAGCATGTGTTCCAATCACATGATAAGTAATGATAAGCTC-TTCAATGTATTGGACTTGAGTTAC
*
9248127 AGAGCATGGGTTAAGATTGGAAATGGCTTCTAAATGAAGACTCTTGGAACAAGAATTATGGCAAT
130 AGAGCAAGGGTTAAGATTGGAAATGGCTTCTAAATGAAGACTCTTGGAACAAGAATTATGGCAAT
9248192 GGAAACTCTCTCTAGCATCAAATATATTTAAGATGTTTACTTTGTTCCAGAGGTAACAGAAAACT
195 GGAAACTCTCTCTAGCATCAAATATATTTAAGATGTTTACTTTGTT-CAGAGGTAACAGAAAACT
* * * *
9248257 TACTTAATGTTGGCCAACTTGCTGAGAATCATTTTTCTTTACTGTTTAAGAATAATTATTGCACT
259 TACTTAATGTTGGCCAACTTACTGAGAATCATTTTGCTTTACTATTTAAGAATAATTATTGCACC
* *
9248322 ATTGTTTATCCGAATGGTGAAAAATTATTGATAGTAAAGTTGAGGAATCGAT-CTATTCCTTACA
324 ATTGTTTATCCGAACGGTGAAAAATTATTGATAGTAAAGTTGAGGAATCGATGCTATTCCTTAAA
* *
9248386 CTGGATTAAGATAGAGCACATTGTTC
389 CTAGATTAAGATAAAGCACATTGTTC
9248412 ATGTTAATCA
Statistics
Matches: 392, Mismatches: 20, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
417 265 0.68
418 127 0.32
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (417 bp):
GTCAAGGAGTAGTTGTTCGTGGCCAAGGTTTCTAGTCATGAAAAGAAAAACACATGGCTCCTCGA
TAGCATGTGTTCCAATCACATGATAAGTAATGATAAGCTCTTCAATGTATTGGACTTGAGTTACA
GAGCAAGGGTTAAGATTGGAAATGGCTTCTAAATGAAGACTCTTGGAACAAGAATTATGGCAATG
GAAACTCTCTCTAGCATCAAATATATTTAAGATGTTTACTTTGTTCAGAGGTAACAGAAAACTTA
CTTAATGTTGGCCAACTTACTGAGAATCATTTTGCTTTACTATTTAAGAATAATTATTGCACCAT
TGTTTATCCGAACGGTGAAAAATTATTGATAGTAAAGTTGAGGAATCGATGCTATTCCTTAAACT
AGATTAAGATAAAGCACATTGTTCGTA
Found at i:9258489 original size:20 final size:21
Alignment explanation
Indices: 9258466--9258505 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
9258456 AAGTGAGTTG
*
9258466 TTTTAATTTTA-TGTTATTTC
1 TTTTAATTTGATTGTTATTTC
9258486 TTTTAATTTGATTGTTATTT
1 TTTTAATTTGATTGTTATTT
9258506 TTTAGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (21 bp):
TTTTAATTTGATTGTTATTTC
Found at i:9272405 original size:20 final size:20
Alignment explanation
Indices: 9272382--9272422 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
9272372 TGGATTTTGG
9272382 CATTTAGAATATCTTTAAGT
1 CATTTAGAATATCTTTAAGT
9272402 CATTTAGAATATCTTTAAGT
1 CATTTAGAATATCTTTAAGT
9272422 C
1 C
9272423 TTATGCTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (20 bp):
CATTTAGAATATCTTTAAGT
Found at i:9281942 original size:2 final size:2
Alignment explanation
Indices: 9281935--9282007 Score: 56
Period size: 2 Copynumber: 36.0 Consensus size: 2
9281925 TTCAGGTATG
* * * *
9281935 TA TA TA TA TA CA TA CA TA TA AA TA TA CA TA TCA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
* * * * *
9281978 TA TC TA TA TG TA TG TA GA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9282008 CAGATATGTA
Statistics
Matches: 52, Mismatches: 18, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
2 50 0.96
3 2 0.04
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (2 bp):
TA
Found at i:9282014 original size:16 final size:16
Alignment explanation
Indices: 9281993--9282025 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9281983 ATATGTATGT
*
9281993 AGATATGTATATATAC
1 AGATATGTACATATAC
9282009 AGATATGTACATATAC
1 AGATATGTACATATAC
9282025 A
1 A
9282026 TACATATCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.33
Consensus pattern (16 bp):
AGATATGTACATATAC
Found at i:9282058 original size:2 final size:2
Alignment explanation
Indices: 9282051--9282075 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9282041 ATGTATTATA
9282051 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
9282076 AATCAGGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:9293130 original size:2 final size:2
Alignment explanation
Indices: 9293123--9293180 Score: 80
Period size: 2 Copynumber: 29.0 Consensus size: 2
9293113 TTCAGTTGAG
* * * *
9293123 AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT GT AT GT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9293165 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
9293181 GTATGTATGT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9293163 original size:26 final size:26
Alignment explanation
Indices: 9293123--9293192 Score: 122
Period size: 26 Copynumber: 2.7 Consensus size: 26
9293113 TTCAGTTGAG
* *
9293123 ATATATATATATATGTATATATATAT
1 ATATATGTATGTATGTATATATATAT
9293149 ATATATGTATGTATGTATATATATAT
1 ATATATGTATGTATGTATATATATAT
9293175 ATATATGTATGTATGTAT
1 ATATATGTATGTATGTAT
9293193 GTCTTGAGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (26 bp):
ATATATGTATGTATGTATATATATAT
Found at i:9293185 original size:22 final size:22
Alignment explanation
Indices: 9293123--9293188 Score: 114
Period size: 22 Copynumber: 3.0 Consensus size: 22
9293113 TTCAGTTGAG
*
9293123 ATATATATATATATGTATATAT
1 ATATATATATATATGTATGTAT
*
9293145 ATATATATATGTATGTATGTAT
1 ATATATATATATATGTATGTAT
9293167 ATATATATATATATGTATGTAT
1 ATATATATATATATGTATGTAT
9293189 GTATGTCTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (22 bp):
ATATATATATATATGTATGTAT
Found at i:9296912 original size:20 final size:20
Alignment explanation
Indices: 9296889--9296926 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9296879 TGACTTTCAT
9296889 ATGAAAA-AAATGTTAGATTA
1 ATGAAAATAAAT-TTAGATTA
9296909 ATGAAAATAAATTTAGAT
1 ATGAAAATAAATTTAGAT
9296927 AAATTCCCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (20 bp):
ATGAAAATAAATTTAGATTA
Found at i:9321424 original size:13 final size:13
Alignment explanation
Indices: 9321402--9321438 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
9321392 GGAAAGGAAG
9321402 AAAAAG-GAAAGA
1 AAAAAGAGAAAGA
9321414 AAAAAGAGAAAGA
1 AAAAAGAGAAAGA
9321427 AGAAAA-AGAAAG
1 A-AAAAGAGAAAG
9321439 GAAAGGTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.26
13 13 0.57
14 4 0.17
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AAAAAGAGAAAGA
Found at i:9325784 original size:21 final size:21
Alignment explanation
Indices: 9325758--9325831 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
9325748 CTTAATGAAA
9325758 TTACACGCCATGGTTAGGTTG
1 TTACACGCCATGGTTAGGTTG
*
9325779 TTACACGCCAT-GTATA-ATTG
1 TTACACGCCATGGT-TAGGTTG
* *
9325799 TGACACGCCATAGTTAGGTTG
1 TTACACGCCATGGTTAGGTTG
*
9325820 TTACATGCCATG
1 TTACACGCCATG
9325832 TTGAAAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
20 17 0.39
21 27 0.61
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (21 bp):
TTACACGCCATGGTTAGGTTG
Found at i:9325997 original size:30 final size:30
Alignment explanation
Indices: 9325950--9326104 Score: 116
Period size: 30 Copynumber: 5.4 Consensus size: 30
9325940 GCTACCCGCT
9325950 ATGTTGAAAATAAATACTGTTGTTACACGCC
1 ATGTTGAAAA-AAATACTGTTGTTACACGCC
* *
9325981 ATGTTGAAAAAAATACTATTGTTATACGCC
1 ATGTTGAAAAAAATACTGTTGTTACACGCC
* *
9326011 ATGGTT--AAAAAA-A--GTTGTTGCATGCC
1 AT-GTTGAAAAAAATACTGTTGTTACACGCC
*
9326037 ATGTTGAATAAAAAAATATTGTTGTT--A---C
1 ATGTTG---AAAAAAATACTGTTGTTACACGCC
*
9326065 ATGTTG-AAAAAATATTGTTGTTACACGCC
1 ATGTTGAAAAAAATACTGTTGTTACACGCC
* *
9326094 ATATTTAAAAA
1 ATGTTGAAAAA
9326105 CATTTTGTTA
Statistics
Matches: 101, Mismatches: 8, Indels: 31
0.72 0.06 0.22
Matches are distributed among these distances:
24 16 0.16
25 3 0.03
26 12 0.12
28 8 0.08
29 11 0.11
30 30 0.30
31 15 0.15
33 6 0.06
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.34
Consensus pattern (30 bp):
ATGTTGAAAAAAATACTGTTGTTACACGCC
Found at i:9336675 original size:61 final size:61
Alignment explanation
Indices: 9336586--9336747 Score: 163
Period size: 60 Copynumber: 2.7 Consensus size: 61
9336576 TGGGAACTTC
* **
9336586 CCACATCACCAAATAGGAATCGAGGCTTCAAGTTCCCTTTTTACATACTCGTT-GAAACT-T
1 CCACACCACCAAATATAAATCGAGGCTTCAAGTTCCCTTTTTACATACTC-TTGGAAACTCT
* * *
9336646 CC-CATGCCATCAAATATAAATCGAGGCTTCAAG-TCACC-TTTTACCTACTCTTGGGAACTCT
1 CCACA--CCACCAAATATAAATCGAGGCTTCAAGTTC-CCTTTTTACATACTCTTGGAAACTCT
* * * *
9336707 CCACACCACCCAATATAACTCAAGGCTTCAAGTCCCCTTTT
1 CCACACCACCAAATATAAATCGAGGCTTCAAGTTCCCTTTT
9336748 ATAATCAAAT
Statistics
Matches: 83, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
59 4 0.05
60 45 0.54
61 32 0.39
62 2 0.02
ACGTcount: A:0.29, C:0.31, G:0.12, T:0.28
Consensus pattern (61 bp):
CCACACCACCAAATATAAATCGAGGCTTCAAGTTCCCTTTTTACATACTCTTGGAAACTCT
Found at i:9347297 original size:13 final size:13
Alignment explanation
Indices: 9347279--9347305 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9347269 AAAGTCAGCT
9347279 TTCCTAAAATACC
1 TTCCTAAAATACC
9347292 TTCCTAAAATACC
1 TTCCTAAAATACC
9347305 T
1 T
9347306 AAAACACATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (13 bp):
TTCCTAAAATACC
Found at i:9347306 original size:22 final size:22
Alignment explanation
Indices: 9347281--9347326 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
9347271 AGTCAGCTTT
* *
9347281 CCTAAAATACCTTCCTAAAATA
1 CCTAAAACACATTCCTAAAATA
*
9347303 CCTAAAACACATTCCTAAATTA
1 CCTAAAACACATTCCTAAAATA
9347325 CC
1 CC
9347327 CTTAAATTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.26
Consensus pattern (22 bp):
CCTAAAACACATTCCTAAAATA
Found at i:9359389 original size:38 final size:38
Alignment explanation
Indices: 9359339--9359424 Score: 104
Period size: 38 Copynumber: 2.3 Consensus size: 38
9359329 TATCTCTGAC
** *
9359339 AAAG-AATCAAATCACGTGCGGTACCAAAGCAACCAAT
1 AAAGAAATCAAATCACGCACAGTACCAAAGCAACCAAT
* *
9359376 AAAGAAATCAAATCACGCACAGTATCGAAGCAACCAAT
1 AAAGAAATCAAATCACGCACAGTACCAAAGCAACCAAT
*
9359414 GAA-AAATCAAA
1 AAAGAAATCAAA
9359425 GTCATAGGGG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
37 12 0.29
38 30 0.71
ACGTcount: A:0.51, C:0.22, G:0.14, T:0.13
Consensus pattern (38 bp):
AAAGAAATCAAATCACGCACAGTACCAAAGCAACCAAT
Found at i:9363601 original size:33 final size:33
Alignment explanation
Indices: 9363564--9363713 Score: 131
Period size: 35 Copynumber: 4.5 Consensus size: 33
9363554 GAGTTTATGG
* *
9363564 TTGATCTCATAAAAAGTATTGTGAGGGTTTTAT
1 TTGATCTCATAAAAAGTATTGTGAGGGTTTCAC
* * *
9363597 TTGATCTTATAAAAAAATTATTATGAGGGTTTCAC
1 TTGATCTCAT--AAAAAGTATTGTGAGGGTTTCAC
*
9363632 TTGATCTCATAAAAAGCATTGTGA-GGTTTCAC
1 TTGATCTCATAAAAAGTATTGTGAGGGTTTCAC
* * * * * ** *
9363664 TGGATCCCGTAAAAGGCTATTATGAAAGTTTCAA
1 TTGATCTCATAAAAAG-TATTGTGAGGGTTTCAC
*
9363698 TTGATCCCATAAAAAG
1 TTGATCTCATAAAAAG
9363714 CCCATTCCTC
Statistics
Matches: 93, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
32 20 0.22
33 26 0.28
34 19 0.20
35 28 0.30
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (33 bp):
TTGATCTCATAAAAAGTATTGTGAGGGTTTCAC
Found at i:9363677 original size:32 final size:34
Alignment explanation
Indices: 9363564--9363714 Score: 119
Period size: 34 Copynumber: 4.5 Consensus size: 34
9363554 GAGTTTATGG
* * * * *
9363564 TTGATCTCATAAAAAG-TATTGTGAGGGTTTTAT
1 TTGATCCCATAAAAAGCTATTATGAAGGTTTCAC
** ** *
9363597 TTGATCTTATAAAAAAATTATTATGAGGGTTTCAC
1 TTGATCCCAT-AAAAAGCTATTATGAAGGTTTCAC
* *
9363632 TTGATCTCATAAAAAGC-ATTGTG-AGGTTTCAC
1 TTGATCCCATAAAAAGCTATTATGAAGGTTTCAC
* * * * *
9363664 TGGATCCCGTAAAAGGCTATTATGAAAGTTTCAA
1 TTGATCCCATAAAAAGCTATTATGAAGGTTTCAC
9363698 TTGATCCCATAAAAAGC
1 TTGATCCCATAAAAAGC
9363715 CCATTCCTCT
Statistics
Matches: 94, Mismatches: 20, Indels: 7
0.78 0.17 0.06
Matches are distributed among these distances:
32 21 0.22
33 19 0.20
34 31 0.33
35 23 0.24
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (34 bp):
TTGATCCCATAAAAAGCTATTATGAAGGTTTCAC
Found at i:9363923 original size:36 final size:36
Alignment explanation
Indices: 9363856--9363924 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
9363846 TTAGCTTAGG
*
9363856 AAAATATTTTACCTTGATTCATTGTGTTTGCTTATT
1 AAAATATTTTACCTTGATTCATTATGTTTGCTTATT
*
9363892 AAAATATTTTATCTTGATTCATTAT-TATTGCTT
1 AAAATATTTTACCTTGATTCATTATGT-TTGCTT
9363925 GCATTTGACT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 1 0.03
36 29 0.97
ACGTcount: A:0.28, C:0.10, G:0.09, T:0.54
Consensus pattern (36 bp):
AAAATATTTTACCTTGATTCATTATGTTTGCTTATT
Found at i:9363988 original size:47 final size:48
Alignment explanation
Indices: 9363929--9364036 Score: 137
Period size: 48 Copynumber: 2.3 Consensus size: 48
9363919 TTGCTTGCAT
* * *
9363929 TTGACTTAGG-AAAACATTTTTACTTTGATTTATTATTTGTTCATTAC
1 TTGACTTAGGAAAAACATTTTTACTTGGATTTATCATTTGTCCATTAC
* * * *
9363976 TTGACTTTGGAAAAATATTTTTGCTTGGATTTGTCATTTGTCCATTAC
1 TTGACTTAGGAAAAACATTTTTACTTGGATTTATCATTTGTCCATTAC
*
9364024 TTGACTTAAGAAA
1 TTGACTTAGGAAA
9364037 CTATCTTTTC
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
47 9 0.18
48 42 0.82
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (48 bp):
TTGACTTAGGAAAAACATTTTTACTTGGATTTATCATTTGTCCATTAC
Found at i:9364531 original size:2 final size:2
Alignment explanation
Indices: 9364526--9364550 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9364516 GCTATGTGTG
9364526 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9364551 GCATTATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.