Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 149 of 378
Found at i:42733512 original size:92 final size:92
Alignment explanation
Indices: 42733401--42733570 Score: 304
Period size: 92 Copynumber: 1.8 Consensus size: 92
42733391 GCCCCTAAGT
* *
42733401 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
42733466 CGAGTTCGGATGCCTAGTTACATTCAC
66 CGAGTTCGGATGCCTAGTTACATTCAC
* *
42733493 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
42733558 CGAGTTCGGATGC
66 CGAGTTCGGATGC
42733571 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTCAC
Found at i:42733567 original size:46 final size:46
Alignment explanation
Indices: 42733396--42733567 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
42733386 AACCCGCCCC
* * * *
42733396 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* *
42733442 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT---
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
42733489 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
42733534 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
42733568 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
42 6 0.06
43 1 0.01
45 2 0.02
46 90 0.85
47 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:42733586 original size:46 final size:46
Alignment explanation
Indices: 42733398--42733586 Score: 144
Period size: 46 Copynumber: 4.1 Consensus size: 46
42733388 CCCGCCCCTA
* ** * *
42733398 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T
*
42733443 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCT
* * * *
42733491 A-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCCT
42733536 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
42733582 AGTGA
1 AGTGA
42733587 CATGTCACTT
Statistics
Matches: 115, Mismatches: 12, Indels: 32
0.72 0.08 0.20
Matches are distributed among these distances:
44 8 0.07
45 3 0.03
46 95 0.83
47 1 0.01
48 3 0.03
49 1 0.01
50 4 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:42735138 original size:50 final size:50
Alignment explanation
Indices: 42735057--42735401 Score: 325
Period size: 50 Copynumber: 6.9 Consensus size: 50
42735047 TCCTTTGTGA
*
42735057 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* * * * *
42735107 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC-TATTAACTTTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAG
* * * ** * * * *
42735158 ATCACGTGTGTAGTACTAAGTGCAAGCTACTACATGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
** * * *
42735208 GTCATGTGAGTAGTACTAAGTGCAGGATACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* * * * * *
42735258 GTCCCATGTGTAGTACTAAGTGCAGGCCACTATGCGTACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAG
* * * * ** *
42735309 ATCACGTGTGCAATACTAAGTGCAGGCTACTACATGTACTAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* *
42735359 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
42735402 GAGCTTCGGT
Statistics
Matches: 226, Mismatches: 63, Indels: 12
0.75 0.21 0.04
Matches are distributed among these distances:
49 7 0.03
50 147 0.65
51 67 0.30
52 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
Found at i:42735187 original size:101 final size:100
Alignment explanation
Indices: 42735058--42735239 Score: 258
Period size: 101 Copynumber: 1.8 Consensus size: 100
42735048 CCTTTGTGAG
* ** * *
42735058 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCGCATGT-GTAGTA
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACATGTACCAGATGGATAAGT--CATGTAGTAGTA
*
42735122 CTAAGTGCAGGCTACTATGCGTACCTATTAACTTTGA
64 CTAAGTGCAGGATACTATGCGTACCTATTAACTTTGA
* *
42735159 TCACGTGTGTAGTACTAAGTGCAAGCTACTACATGTATCAGATGGTTAAGTCATGTGAGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACATGTACCAGATGGATAAGTCATGT-AGTAGTAC
42735224 TAAGTGCAGGATACTA
65 TAAGTGCAGGATACTA
42735240 CGTGTACCAG
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
99 5 0.07
101 66 0.93
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACATGTACCAGATGGATAAGTCATGTAGTAGTACT
AAGTGCAGGATACTATGCGTACCTATTAACTTTGA
Found at i:42735330 original size:151 final size:150
Alignment explanation
Indices: 42735056--42735401 Score: 498
Period size: 151 Copynumber: 2.3 Consensus size: 150
42735046 ATCCTTTGTG
* *
42735056 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCATGTG-GTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCCCATGTGTAGT
* * * * *
42735121 ACTAAGTGCAGGCTACTATGCGTACCTATTAACTTTGATCACGTGTGTAGTACTAAGTGCAAGCT
65 ACTAAGTGCAGGCCACTATGCGTACCCATTAACTTCGATCACGTGTGCAATACTAAGTGCAAGCT
*
42735186 ACTACATGTA-TCAGATGGTTA
130 ACTACATGTACT-AGATGGATA
* *
42735207 AGTCATGTGAGTAGTACTAAGTGCAGGATACTACGTGTACCAGATTGATAGGTCCCATGTGTAGT
1 AGTCATGTG-GTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCCCATGTGTAGT
* *
42735272 ACTAAGTGCAGGCCACTATGCGTACCCGTTAACTTCGATCACGTGTGCAATACTAAGTGCAGGCT
65 ACTAAGTGCAGGCCACTATGCGTACCCATTAACTTCGATCACGTGTGCAATACTAAGTGCAAGCT
*
42735337 ACTACATGTACTAGATTGATA
130 ACTACATGTACTAGATGGATA
* *
42735358 GGTCGCATGT-GTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 AGT--CATGTGGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
42735402 GAGCTTCGGT
Statistics
Matches: 174, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
151 168 0.97
152 1 0.01
153 5 0.03
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (150 bp):
AGTCATGTGGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCCCATGTGTAGTA
CTAAGTGCAGGCCACTATGCGTACCCATTAACTTCGATCACGTGTGCAATACTAAGTGCAAGCTA
CTACATGTACTAGATGGATA
Found at i:42735409 original size:101 final size:101
Alignment explanation
Indices: 42735221--42735414 Score: 298
Period size: 101 Copynumber: 1.9 Consensus size: 101
42735211 ATGTGAGTAG
*
42735221 TACTAAGTGCAGGATACTACGTGTACCAGATTGATAGGTCCCATGTGTAGTACTAAGTGCAGGCC
1 TACTAAGTGCAGGATACTACATGTACCAGATTGATAGGTCCCATGTGTAGTACTAAGTGCAGGCC
* **
42735286 ACTATGCGTACCCGTTAACTTCGATCACGTGTGCAA
66 ACTATGCGTACCAGAGAACTTCGATCACGTGTGCAA
* * * *
42735322 TACTAAGTGCAGGCTACTACATGTACTAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCT
1 TACTAAGTGCAGGATACTACATGTACCAGATTGATAGGTCCCATGTGTAGTACTAAGTGCAGGCC
* *
42735387 ACTATGCGTACCAGAGAGCTTCGGTCAC
66 ACTATGCGTACCAGAGAACTTCGATCAC
42735415 AAGGGTGGCA
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 83 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (101 bp):
TACTAAGTGCAGGATACTACATGTACCAGATTGATAGGTCCCATGTGTAGTACTAAGTGCAGGCC
ACTATGCGTACCAGAGAACTTCGATCACGTGTGCAA
Found at i:42735603 original size:16 final size:16
Alignment explanation
Indices: 42735582--42735613 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
42735572 AGAATGGACT
42735582 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
42735598 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
42735614 TAAAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:42739995 original size:37 final size:37
Alignment explanation
Indices: 42739945--42740016 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
42739935 GAATAAGAAG
42739945 GTTAAAGCTTGTTTCAAATGTGGCTCACCAGATCAAT
1 GTTAAAGCTTGTTTCAAATGTGGCTCACCAGATCAAT
*
42739982 GTTAAAGCTTGTTTCAAATGTGGCTCGCCAGATCA
1 GTTAAAGCTTGTTTCAAATGTGGCTCACCAGATCA
42740017 TTTTATTCGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (37 bp):
GTTAAAGCTTGTTTCAAATGTGGCTCACCAGATCAAT
Found at i:42740088 original size:26 final size:26
Alignment explanation
Indices: 42740052--42740102 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
42740042 TCCGAGAAAG
42740052 ATAAATTCTAGAATACTAGATCGACT
1 ATAAATTCTAGAATACTAGATCGACT
42740078 ATAAATTCTAGAATACTAGATCGAC
1 ATAAATTCTAGAATACTAGATCGAC
42740103 CAATACGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (26 bp):
ATAAATTCTAGAATACTAGATCGACT
Found at i:42741858 original size:40 final size:39
Alignment explanation
Indices: 42741813--42741939 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
42741803 CGGAACATAA
42741813 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
42741853 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
42741893 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
42741933 CCGGATA
1 CCGGATA
42741940 AAATTTCCAG
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
40 67 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:42741957 original size:40 final size:40
Alignment explanation
Indices: 42741829--42741979 Score: 137
Period size: 40 Copynumber: 3.8 Consensus size: 40
42741819 ATAACCATGT
* * *
42741829 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTC-CA
** ** * *
42741869 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
* *
42741909 GCACAATTGCCTTCGGGTCTTAACCCGGATAAAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
* *
42741949 GCATAATTGTCTTCGGGAT-TTAGCCCGGATA
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATA
42741980 TCATTCAATT
Statistics
Matches: 89, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
39 2 0.02
40 84 0.94
41 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
Found at i:42741963 original size:80 final size:80
Alignment explanation
Indices: 42741829--42741978 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
42741819 ATAACCATGT
* *
42741829 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
42741893 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * *
42741909 GCACAATTGCCTTCGGGTCTTAACCCGGATAAAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
42741972 CCCGGAT
64 CCCGGAT
42741979 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:42748037 original size:44 final size:44
Alignment explanation
Indices: 42747984--42748240 Score: 250
Period size: 44 Copynumber: 5.7 Consensus size: 44
42747974 CATATCCGTA
* *
42747984 CTGATGCATGTCCCAAACATGTCTTACACTAGCACAACTCTTAG
1 CTGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCTTAG
*
42748028 CTGATGCATGTCCTAGACATGTCTTACACTAGCACATCTCTTAG
1 CTGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCTTAG
* * *
42748072 CCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTC-GAG
1 CTGATGCATGTCCCAGACATGTCTTACACTAGC--ACATCTCTTAG
* * *
42748117 GTCGATGCATGTCCCAGACATTTCTTACACTAGCTC-TCGTCTTAATG
1 CT-GATGCATGTCCCAGACATGTCTTACACTAGCACATC-TCTT-A-G
** * * ** *
42748164 CCAATGCATGTCCTAAACATGTCTTACACTAGCATTTCATAATGT-G
1 CTGATGCATGTCCCAGACATGTCTTACACTAGCACATC-T-CT-TAG
*
42748210 ACCGATGCATGTCCCAGACATGTCTTACACT
1 -CTGATGCATGTCCCAGACATGTCTTACACT
42748241 GGCTCATATA
Statistics
Matches: 176, Mismatches: 26, Indels: 19
0.80 0.12 0.09
Matches are distributed among these distances:
43 2 0.01
44 74 0.42
45 2 0.01
46 65 0.37
47 31 0.18
48 1 0.01
49 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (44 bp):
CTGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCTTAG
Found at i:42748128 original size:46 final size:46
Alignment explanation
Indices: 42747986--42748240 Score: 229
Period size: 46 Copynumber: 5.6 Consensus size: 46
42747976 TATCCGTACT
* * * *
42747986 GATGCATGTCCCAAACATGTCTTACACTAGC--ACAACTCTTA-GCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTC-GAGGCC
* *
42748030 GATGCATGTCCTAGACATGTCTTACACTAGC--ACATCTCTTA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTC-GAGGCC
* *
42748074 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCC
* * ** *
42748120 GATGCATGTCCCAGACATTTCTTACACTAGCTCT-CGTCTTAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCT-TACATCTCGAGGCC
* * * * * * *
42748166 AATGCATGTCCTAAACATGTCTTACACTAGCATTTCATAAT-GTGACC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-TTACAT-CTCGAGGCC
42748213 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
42748241 GGCTCATATA
Statistics
Matches: 176, Mismatches: 28, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
44 69 0.39
45 1 0.01
46 74 0.42
47 31 0.18
48 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCC
Found at i:42753095 original size:40 final size:40
Alignment explanation
Indices: 42753028--42753229 Score: 253
Period size: 40 Copynumber: 5.0 Consensus size: 40
42753018 GGAATTTAGT
* ** *
42753028 CGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACC
1 CGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACC
* * * * *
42753068 CGGGTATAGCAACTCGTACAAATGCCTTCGGGTCTTAGCT
1 CGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACC
*
42753108 CGGATATAACAACTCGCACAAATGCCTTCGGGTCTGAACC
1 CGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACC
*
42753148 CGAATATAACAACTCGCACAAATGCCTTCGGGTCTTAACC
1 CGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACC
* * * *
42753188 CGGATATAATC-ACTAGCATAAATGCCTTCGGGGCTTAGCC
1 CGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAACC
42753228 CG
1 CG
42753230 AGTATTATTC
Statistics
Matches: 139, Mismatches: 22, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
40 138 0.99
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACC
Found at i:42753990 original size:2 final size:2
Alignment explanation
Indices: 42753983--42754022 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
42753973 ATGTGCAAAC
42753983 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
42754023 GCTAGAGCCG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42761195 original size:40 final size:40
Alignment explanation
Indices: 42761151--42761337 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
42761141 ATAACCACAA
* * *
42761151 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
42761191 GCACAAATGCCTTCGGGTCTT-AGCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
42761230 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
42761270 GCACAAATGCCTTCGGGTCTTAACCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* * *
42761310 GCATAAATGCCTTCGGGGCTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
42761338 GTATCATTCA
Statistics
Matches: 133, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.26
40 96 0.72
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:42761254 original size:79 final size:78
Alignment explanation
Indices: 42761131--42761341 Score: 305
Period size: 79 Copynumber: 2.7 Consensus size: 78
42761121 TTTTCGGAAT
* * *
42761131 TTAGCCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTTGCACA
1 TTAGCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACA
42761196 AATGCCTTCGGGTC
65 AATGCCTTCGGGTC
* *
42761210 TTAGCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACA
1 TTAGCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACA
42761275 AATGCCTTCGGGTC
65 AATGCCTTCGGGTC
* * * *
42761289 TTAACCCGGATATAATCACTAGCATAAATGCCTTCGGGGCTTAGCCCGGGTAT
1 TT-AGCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
42761342 CATTCAATTG
Statistics
Matches: 118, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 74 0.63
80 42 0.36
81 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (78 bp):
TTAGCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAA
ATGCCTTCGGGTC
Found at i:42766137 original size:12 final size:13
Alignment explanation
Indices: 42766120--42766151 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
42766110 GAAAATGGTA
42766120 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
42766132 AGTTTTGATGCAT
1 AGTTTTGATGCAT
42766145 -GTTTTGA
1 AGTTTTGA
42766152 AATGTGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:42768149 original size:27 final size:27
Alignment explanation
Indices: 42768080--42768142 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
42768070 CCTTATATGA
*
42768080 TAAAATGACCGAAATACCCCCATTGGG
1 TAAAATGACCGAAATACCCCCATAGGG
* * *
42768107 TAGAATGACCGAAATACCCCTATAGGT
1 TAAAATGACCGAAATACCCCCATAGGG
42768134 TAAAATGAC
1 TAAAATGAC
42768143 TGTAATATGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.21
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCCCATAGGG
Found at i:42768247 original size:23 final size:23
Alignment explanation
Indices: 42768204--42768250 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
42768194 CTATATTTGA
42768204 GCATGCCATGTTATATGTATGTT
1 GCATGCCATGTTATATGTATGTT
42768227 GCAT-CCATGTATAATAT-TATGTT
1 GCATGCCATGT-T-ATATGTATGTT
42768250 G
1 G
42768251 TATTGCATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.27
23 12 0.55
24 4 0.18
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.43
Consensus pattern (23 bp):
GCATGCCATGTTATATGTATGTT
Found at i:42768541 original size:18 final size:18
Alignment explanation
Indices: 42768515--42768570 Score: 78
Period size: 18 Copynumber: 3.1 Consensus size: 18
42768505 GCTTGGATAT
*
42768515 TGCACTGATTACTGTTAC
1 TGCACTGATCACTGTTAC
*
42768533 TGCATTGATCA-TGGTTAC
1 TGCACTGATCACT-GTTAC
42768551 TGCACTGATCACTGTTAC
1 TGCACTGATCACTGTTAC
42768569 TG
1 TG
42768571 AAATGGGCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 1 0.03
18 31 0.94
19 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (18 bp):
TGCACTGATCACTGTTAC
Found at i:42770421 original size:71 final size:69
Alignment explanation
Indices: 42770333--42770494 Score: 306
Period size: 71 Copynumber: 2.3 Consensus size: 69
42770323 GAGATGTATC
42770333 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTG-
42770398 AGGACA
64 AGGACA
42770404 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGTCGCATGCGTGATTCCAAGTGAG
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGTCGCATGCGTGATTCCAAGTGAG
42770469 GACA
66 GACA
42770473 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
42770495 AGACAAATCG
Statistics
Matches: 91, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
69 28 0.31
70 23 0.25
71 40 0.44
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (69 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGTCGCATGCGTGATTCCAAGTGAG
GACA
Found at i:42777947 original size:71 final size:71
Alignment explanation
Indices: 42777859--42778022 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
42777849 GAGATGTATC
42777859 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
42777924 AGGACA
66 AGGACA
*
42777930 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
42777995 CGGACA
66 AGGACA
42778001 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
42778023 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:42785006 original size:40 final size:40
Alignment explanation
Indices: 42784910--42785128 Score: 251
Period size: 40 Copynumber: 5.5 Consensus size: 40
42784900 CGAATGATGT
* * * *
42784910 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
42784951 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
42784991 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
42785031 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * * * *
42785071 CTGGGCTAATTCTCGAAGGCAATTGTACGAATTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
42785111 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
42785129 ACAATCGAGC
Statistics
Matches: 154, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
40 129 0.84
41 25 0.16
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:42785124 original size:120 final size:121
Alignment explanation
Indices: 42784910--42785128 Score: 298
Period size: 120 Copynumber: 1.8 Consensus size: 121
42784900 CGAATGATGT
* *
42784910 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* * *
42784975 GTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
66 GTACGAATTACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * * * *
42785031 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCTGGG-CTAATTCTCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* * *
42785094 TGTACGAATTACTATAACCGGGCTATGTCCCGAAG
65 TGTACGAATTACCAAAACCGGGCTAAGTCCCGAAG
42785129 ACAATCGAGC
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
119 1 0.01
120 57 0.68
121 26 0.31
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (121 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTACGAATTACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:42787683 original size:33 final size:33
Alignment explanation
Indices: 42787646--42787712 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
42787636 AGTTGGTTAA
42787646 AGACCCGAATTGGTCTTAAATGGTTTCAAATGG
1 AGACCCGAATTGGTCTTAAATGGTTTCAAATGG
*
42787679 AGACCCGAATTGGTCTTGAATGGTTTCAAATGG
1 AGACCCGAATTGGTCTTAAATGGTTTCAAATGG
42787712 A
1 A
42787713 CGTTTGAGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (33 bp):
AGACCCGAATTGGTCTTAAATGGTTTCAAATGG
Found at i:42792947 original size:46 final size:46
Alignment explanation
Indices: 42792841--42792972 Score: 158
Period size: 46 Copynumber: 2.8 Consensus size: 46
42792831 CGGCCACATT
* *
42792841 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGTCATCGGTATTAAG
1 ATGAGAGCTAGTGTAAGA-CATGTCTGGGACATGT-ATCGGCATCAAG
* * * *
42792889 ATGAGAGATAGTGTAAGACGTGTCTGGGACATGTATCGGCCTCGAG
1 ATGAGAGCTAGTGTAAGACATGTCTGGGACATGTATCGGCATCAAG
* *
42792935 ATGTA-AGCTAGTGTAAGACATGTCTAGGACATGCATCG
1 ATG-AGAGCTAGTGTAAGACATGTCTGGGACATGTATCG
42792973 ACTATATTAT
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 40 0.55
47 16 0.22
48 17 0.23
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (46 bp):
ATGAGAGCTAGTGTAAGACATGTCTGGGACATGTATCGGCATCAAG
Found at i:42792985 original size:46 final size:45
Alignment explanation
Indices: 42792823--42792979 Score: 129
Period size: 46 Copynumber: 3.4 Consensus size: 45
42792813 TTATATTTTT
* * *
42792823 ACATGCATCGGCCACATTATGAGAGCTAGTGTAAGACCATGTCTGGG
1 ACATGCATC-GCTATATGATGAGAGCTAGTGTAAGA-CATGTCTGGG
* * * *
42792870 ACATGTCATCGGTATTAAGATGAGAGATAGTGTAAGACGTGTCTGGG
1 ACATG-CATCGCTA-TATGATGAGAGCTAGTGTAAGACATGTCTGGG
* ** *
42792917 ACATGTATCGGCCTCGA-GATGTA-AGCTAGTGTAAGACATGTCTAGG
1 ACATGCATC-G-CTATATGATG-AGAGCTAGTGTAAGACATGTCTGGG
42792963 ACATGCATCGACTATAT
1 ACATGCATCG-CTATAT
42792980 TATGTATCAG
Statistics
Matches: 86, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
45 4 0.05
46 35 0.41
47 24 0.28
48 23 0.27
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.26
Consensus pattern (45 bp):
ACATGCATCGCTATATGATGAGAGCTAGTGTAAGACATGTCTGGG
Found at i:42793095 original size:47 final size:47
Alignment explanation
Indices: 42793027--42793116 Score: 162
Period size: 47 Copynumber: 1.9 Consensus size: 47
42793017 TGGCACAGAT
* *
42793027 ACGTGAGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGATTTA
1 ACGTGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGATTTA
42793074 ACGTGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGA
1 ACGTGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGA
42793117 CATTGTACCC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (47 bp):
ACGTGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGATTTA
Found at i:42801985 original size:11 final size:10
Alignment explanation
Indices: 42801959--42801992 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
42801949 GGAGAGCACC
*
42801959 AAGAGTCAAA
1 AAGAGCCAAA
42801969 AAGAGCCAAA
1 AAGAGCCAAA
42801979 AATGAGCCAAA
1 AA-GAGCCAAA
42801990 AAG
1 AAG
42801993 GATAAAACGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.59, C:0.15, G:0.21, T:0.06
Consensus pattern (10 bp):
AAGAGCCAAA
Found at i:42816948 original size:22 final size:22
Alignment explanation
Indices: 42816923--42816977 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
42816913 ACTGGTTGTT
* * *
42816923 ATGTTGCAACATGGGATGTTCG
1 ATGTCGCAACACGAGATGTTCG
42816945 ATGTCGCAACACGAGATGTTCG
1 ATGTCGCAACACGAGATGTTCG
*
42816967 ATGTCACAACA
1 ATGTCGCAACA
42816978 TAGGGAGCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (22 bp):
ATGTCGCAACACGAGATGTTCG
Found at i:42829541 original size:6 final size:6
Alignment explanation
Indices: 42829530--42829567 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
42829520 TTTTACAAAT
42829530 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AA
42829568 CTTTTTGGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
AATTTA
Found at i:42840913 original size:40 final size:40
Alignment explanation
Indices: 42840819--42840963 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
42840809 TACTCGAATG
* *
42840819 ATATTCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
42840860 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * * *
42840900 ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
*
42840940 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
42840964 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:42848124 original size:2 final size:2
Alignment explanation
Indices: 42848117--42848144 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
42848107 GCTCTTGCAC
42848117 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
42848145 GTTTGCACAT
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:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42848947 original size:40 final size:40
Alignment explanation
Indices: 42848853--42848997 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
42848843 TACTCGAATG
*
42848853 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
42848894 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
42848934 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
*
42848974 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
42848998 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 63 0.68
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:42851274 original size:40 final size:40
Alignment explanation
Indices: 42851166--42851375 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
42851156 CGGGATTTAA
* * * * *
42851166 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
42851206 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
42851246 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
42851286 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
42851326 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
42851366 CCGGATATAT
1 CCGGATATAT
42851376 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:42859408 original size:40 final size:40
Alignment explanation
Indices: 42859300--42859509 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
42859290 CGGGATTTAA
* * * * *
42859300 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
42859340 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
42859380 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
42859420 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
42859460 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
42859500 CCGGATATAT
1 CCGGATATAT
42859510 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:42866404 original size:38 final size:39
Alignment explanation
Indices: 42866362--42866500 Score: 185
Period size: 38 Copynumber: 3.6 Consensus size: 39
42866352 TTTAAGCTCA
* * *
42866362 GATATAATACTAGTACGAAGCCTGCAGA-ATTTAACCGG
1 GATATAATACCAGCACGAAGCCTGCAGAGATTTAACCCG
42866400 GATATAATACCAGCACGAAGCCTGC-GAGATTTAACCCG
1 GATATAATACCAGCACGAAGCCTGCAGAGATTTAACCCG
* **
42866438 GATATAATACCAGCACAAAGCCTATA-AGATTTAACCCG
1 GATATAATACCAGCACGAAGCCTGCAGAGATTTAACCCG
* *
42866476 GATATAACACCAGTACGAAGCCTGC
1 GATATAATACCAGCACGAAGCCTGC
42866501 GGACCTTTAA
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
37 2 0.02
38 86 0.98
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (39 bp):
GATATAATACCAGCACGAAGCCTGCAGAGATTTAACCCG
Found at i:42866459 original size:76 final size:78
Alignment explanation
Indices: 42866329--42866512 Score: 205
Period size: 76 Copynumber: 2.4 Consensus size: 78
42866319 CGAATCCAGT
* * * * * * * *
42866329 CACCAGCACAAAACCTGCGGGACTTTAAGCTCAGATATAATACTAGTACGAAGCCTGC-AGAATT
1 CACCAGCACGAAGCCTGCGAGACTTTAAGCCCAGATATAATACCAGCACAAAGCCTACAAG-ATT
*
42866393 TAACCGGGATATAA
65 TAACCCGGATATAA
* * *
42866407 TACCAGCACGAAGCCTGCGAGA-TTTAA-CCCGGATATAATACCAGCACAAAGCCTATAAGATTT
1 CACCAGCACGAAGCCTGCGAGACTTTAAGCCCAGATATAATACCAGCACAAAGCCTACAAGATTT
42866470 AACCCGGATATAA
66 AACCCGGATATAA
*
42866483 CACCAGTACGAAGCCTGCG-GACCTTTAAGC
1 CACCAGCACGAAGCCTGCGAGA-CTTTAAGC
42866513 TCGGATACAC
Statistics
Matches: 88, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
75 2 0.02
76 55 0.62
77 12 0.14
78 19 0.22
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (78 bp):
CACCAGCACGAAGCCTGCGAGACTTTAAGCCCAGATATAATACCAGCACAAAGCCTACAAGATTT
AACCCGGATATAA
Found at i:42866886 original size:490 final size:490
Alignment explanation
Indices: 42866077--42867030 Score: 1638
Period size: 490 Copynumber: 1.9 Consensus size: 490
42866067 CATATACTTT
42866077 CATAAAATGACAGACATCGACCGAATAGGTCATGCTCTTATTCGTAGATATAGTAATCACTCACA
1 CATAAAATGACAGACATCGACCGAATAGGTCATGCTCTTATTCGTAGATATAGTAATCACTCACA
42866142 CACATATATCGTTCTTTGATACTAATAATTCACCTTAAAAATCAATTCACATGCGAGTACATAAT
66 CACATATATCGTTCTTTGATACTAATAATTCACCTTAAAAATCAATTCACATGCGAGTACATAAT
*
42866207 ACGTACCTGACTATCATAATGTATCATACATAATCAATAGTAGTTTACCTCGAACTTTCGAATTC
131 ACGTACCTGACTATCATAATGTATCATACATAATCAATAGTAGTTTACCTCGAAATTTCGAATTC
* * *
42866272 ATATTCTTACTTGAATCACCGACGTTAAGTATACTAGGTTTAAAACCCGAATCCAGTCACCAGCA
196 ATATTCTTACATGAATCACCGACGTTAAGCATACTAGGTTTAAAACCCAAATCCAGTCACCAGCA
* * * *
42866337 CAAAACCTGCGGGACTTTAAGCTCAGATATAATACTAGTACGAAGCCTGCAGAATTTAACCGGGA
261 CAAAACCTACGGGACTTTAAGCTCAGATATAATACCAGTACAAAGCCTGCAGAATTTAACCCGGA
* * * *
42866402 TATAATACCAGCACGAAGCCTGCGAGATTTAACCCGGATATAATACCAGCACAAAGCCTATAAGA
326 TATAATACCAGCAAGAAGCCTACGAGATTTAACCCAGATATAATACCAGCACAAAGCCTACAAGA
* *
42866467 TTTAACCCGGATATAACACCAGTACGAAGCCTGCGGACCTTTAAGCTCGGATACACATCAAATAT
391 TTTAACCCGGATATAACACCAGCACGAAGCCTGCGGACCTTTAAGCCCGGATACACATCAAATAT
42866532 CATGCATATATCGTTCTTTGATACTAATATAATGA
456 CATGCATATATCGTTCTTTGATACTAATATAATGA
* *
42866567 CATATAATGACAGACATCGACCGAATAGGTCATGCTCTTATTCGTAGATATAGTAATCACTTACA
1 CATAAAATGACAGACATCGACCGAATAGGTCATGCTCTTATTCGTAGATATAGTAATCACTCACA
*
42866632 CACATATATCGTTCTTTGATACTAATAATTCACCTTAAAAATCAATTCACATGCGAGTATATAAT
66 CACATATATCGTTCTTTGATACTAATAATTCACCTTAAAAATCAATTCACATGCGAGTACATAAT
*
42866697 ACGTACCTGACTATCATAATGTATCATACATAGTCAATAGTAGTTTACCTCGAAATTTCGAATTC
131 ACGTACCTGACTATCATAATGTATCATACATAATCAATAGTAGTTTACCTCGAAATTTCGAATTC
* * *
42866762 ATATTCTTACATGAATCACCGATGTTAAGCCTGCTAGGTTTAAAACCCAAATCCAGTCACCAGCA
196 ATATTCTTACATGAATCACCGACGTTAAGCATACTAGGTTTAAAACCCAAATCCAGTCACCAGCA
* * *
42866827 CAAAACCTACGGGACTTTAAGCTCGGATATAATACCAGTACAAAGCCTGCGGGATTTAACCCGGA
261 CAAAACCTACGGGACTTTAAGCTCAGATATAATACCAGTACAAAGCCTGCAGAATTTAACCCGGA
* * * * *
42866892 TATAATACCAGCAAGAAGCCTACGGGATTTAACTCAGATATAATACCAGCACGAAGCCTGCGAGA
326 TATAATACCAGCAAGAAGCCTACGAGATTTAACCCAGATATAATACCAGCACAAAGCCTACAAGA
*
42866957 TTTAACCCGGATATAACACCAGCACGAAGTCTGCGGACCTTTAAGCCCGGATACACATCAAATAT
391 TTTAACCCGGATATAACACCAGCACGAAGCCTGCGGACCTTTAAGCCCGGATACACATCAAATAT
42867022 CATGCATAT
456 CATGCATAT
42867031 TTAATCATAT
Statistics
Matches: 434, Mismatches: 30, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
490 434 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.27
Consensus pattern (490 bp):
CATAAAATGACAGACATCGACCGAATAGGTCATGCTCTTATTCGTAGATATAGTAATCACTCACA
CACATATATCGTTCTTTGATACTAATAATTCACCTTAAAAATCAATTCACATGCGAGTACATAAT
ACGTACCTGACTATCATAATGTATCATACATAATCAATAGTAGTTTACCTCGAAATTTCGAATTC
ATATTCTTACATGAATCACCGACGTTAAGCATACTAGGTTTAAAACCCAAATCCAGTCACCAGCA
CAAAACCTACGGGACTTTAAGCTCAGATATAATACCAGTACAAAGCCTGCAGAATTTAACCCGGA
TATAATACCAGCAAGAAGCCTACGAGATTTAACCCAGATATAATACCAGCACAAAGCCTACAAGA
TTTAACCCGGATATAACACCAGCACGAAGCCTGCGGACCTTTAAGCCCGGATACACATCAAATAT
CATGCATATATCGTTCTTTGATACTAATATAATGA
Found at i:42866901 original size:38 final size:38
Alignment explanation
Indices: 42866820--42867009 Score: 204
Period size: 38 Copynumber: 4.9 Consensus size: 38
42866810 AAATCCAGTC
* * *
42866820 ACCAGCACAAAACCTACGGGACTTTAAGCTCGGATATAAT
1 ACCAGCACAAAGCCTGCGGGA-TTTAA-CCCGGATATAAT
*
42866860 ACCAGTACAAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAAT
* * *
42866898 ACCAGCA-AGAAGCCTACGGGATTTAACTCAGATATAAT
1 ACCAGCACA-AAGCCTGCGGGATTTAACCCGGATATAAT
* * *
42866936 ACCAGCACGAAGCCTGCGAGATTTAACCCGGATATAAC
1 ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAAT
* *
42866974 ACCAGCACGAAGTCTGC-GGACCTTTAAGCCCGGATA
1 ACCAGCACAAAGCCTGCGGGA--TTTAA-CCCGGATA
42867010 CACATCAAAT
Statistics
Matches: 129, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
37 3 0.02
38 90 0.70
39 10 0.08
40 26 0.20
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.19
Consensus pattern (38 bp):
ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:42866949 original size:76 final size:78
Alignment explanation
Indices: 42866819--42867002 Score: 241
Period size: 76 Copynumber: 2.4 Consensus size: 78
42866809 CAAATCCAGT
* * * *
42866819 CACCAGCACA-AAACCTACGGGACTTTAAGCTCGGATATAATACCAGTACAAAGCCTGCGGGATT
1 CACCAGCA-AGAAGCCTACGGGACTTTAAGCTCAGATATAATACCAGCACAAAGCCTGCGAGATT
42866883 TAACCCGGATATAA
65 TAACCCGGATATAA
* *
42866897 TACCAGCAAGAAGCCTACGGGA-TTTAA-CTCAGATATAATACCAGCACGAAGCCTGCGAGATTT
1 CACCAGCAAGAAGCCTACGGGACTTTAAGCTCAGATATAATACCAGCACAAAGCCTGCGAGATTT
42866960 AACCCGGATATAA
66 AACCCGGATATAA
* * *
42866973 CACCAGCACGAAGTCTGC-GGACCTTTAAGC
1 CACCAGCAAGAAGCCTACGGGA-CTTTAAGC
42867003 CCGGATACAC
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
75 3 0.03
76 59 0.64
77 11 0.12
78 19 0.21
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (78 bp):
CACCAGCAAGAAGCCTACGGGACTTTAAGCTCAGATATAATACCAGCACAAAGCCTGCGAGATTT
AACCCGGATATAA
Found at i:42873613 original size:38 final size:38
Alignment explanation
Indices: 42873538--42873727 Score: 220
Period size: 38 Copynumber: 4.9 Consensus size: 38
42873528 GAATCCAATC
* * * * *
42873538 ACCAGCACAAAACCTGTGGGACTTTAAGCTCGAATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAAT
*
42873578 ACCAGTACGAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* * * *
42873616 ACCAGCAAGAAGCCTACGGGATTTAACCCAGATATGAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* *
42873654 ACCAGCACGAAGCCTGCGAGATTTAACCCGGATATAAC
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
42873692 ACCAGCACGAAGCCTGC-GGACCTTTAAGCCCGGATA
1 ACCAGCACGAAGCCTGCGGGA--TTTAA-CCCGGATA
42873728 CACATCAAAT
Statistics
Matches: 129, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
37 2 0.02
38 92 0.71
39 10 0.08
40 25 0.19
ACGTcount: A:0.34, C:0.26, G:0.22, T:0.18
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:42894603 original size:68 final size:68
Alignment explanation
Indices: 42894514--42894671 Score: 289
Period size: 68 Copynumber: 2.3 Consensus size: 68
42894504 TTCACTTGGA
* * *
42894514 ATCACTCATGTGGCCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTATCTACATGGGATACATCC
42894579 CGT
66 CGT
42894582 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTATCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTATCTACATGGGATACATCC
42894647 CGT
66 CGT
42894650 ATCACACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
42894672 TATATAGTAT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 87 1.00
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.32
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTATCTACATGGGATACATCC
CGT
Found at i:42899761 original size:40 final size:40
Alignment explanation
Indices: 42899687--42899832 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
42899677 CCGCACCAAG
* * * * * *
42899687 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
42899727 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
42899767 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
42899807 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
42899833 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:42899847 original size:40 final size:40
Alignment explanation
Indices: 42899719--42899870 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
42899709 ATCACGATTT
* * * * *
42899719 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
42899759 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
42899799 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
42899839 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
42899871 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:42902163 original size:19 final size:19
Alignment explanation
Indices: 42902139--42902178 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
42902129 ATCTTACTTT
42902139 CACCAAGCTCAGTCCAAAA
1 CACCAAGCTCAGTCCAAAA
42902158 CACCAAGCTCAGTCCAAAA
1 CACCAAGCTCAGTCCAAAA
42902177 CA
1 CA
42902179 ATGGTGTACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.38, G:0.10, T:0.10
Consensus pattern (19 bp):
CACCAAGCTCAGTCCAAAA
Found at i:42911606 original size:40 final size:40
Alignment explanation
Indices: 42911512--42911656 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
42911502 TACTCGAATG
*
42911512 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
42911553 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
42911593 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
*
42911633 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
42911657 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 63 0.68
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:42916949 original size:11 final size:11
Alignment explanation
Indices: 42916933--42916987 Score: 64
Period size: 11 Copynumber: 5.4 Consensus size: 11
42916923 ACATGGGATT
42916933 TGATATGCACA
1 TGATATGCACA
*
42916944 TGATATG--TA
1 TGATATGCACA
42916953 TGATATGCACA
1 TGATATGCACA
*
42916964 TGATATG--TA
1 TGATATGCACA
42916973 TGATATGCACA
1 TGATATGCACA
42916984 TGAT
1 TGAT
42916988 GTATTCATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 16 0.44
11 20 0.56
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (11 bp):
TGATATGCACA
Found at i:42916958 original size:20 final size:20
Alignment explanation
Indices: 42916933--42916987 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
42916923 ACATGGGATT
42916933 TGATATGCACATGATATGTA
1 TGATATGCACATGATATGTA
42916953 TGATATGCACATGATATGTA
1 TGATATGCACATGATATGTA
42916973 TGATATGCACATGAT
1 TGATATGCACATGAT
42916988 GTATTCATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (20 bp):
TGATATGCACATGATATGTA
Found at i:42917063 original size:26 final size:25
Alignment explanation
Indices: 42917033--42917105 Score: 103
Period size: 27 Copynumber: 2.9 Consensus size: 25
42917023 GGAGGAAGTG
*
42917033 CAAAAAGGGCTATGCCCCAGTTTAC
1 CAAAAAGGGCTTTGCCCCAGTTTAC
*
42917058 CGAAAAAGGGCTTTTGCCCCAGTTTAT
1 C-AAAAAGGGC-TTTGCCCCAGTTTAC
42917085 C-AAAAGGGCTTTGCCCCAGTT
1 CAAAAAGGGCTTTGCCCCAGTT
42917106 ATTAAAAGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
24 12 0.27
25 9 0.20
26 9 0.20
27 14 0.32
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCCAGTTTAC
Found at i:42917102 original size:24 final size:24
Alignment explanation
Indices: 42917035--42917118 Score: 98
Period size: 24 Copynumber: 3.4 Consensus size: 24
42917025 AGGAAGTGCA
* *
42917035 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
42917059 GAAAAAGGGCTTTTGCCCCAGTTTATC
1 --AAAAGGGC-TTTGCCCCAGTTTATC
*
42917086 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
42917109 AAAAGAGGCT
1 AAAAG-GGCT
42917119 AGGCCTCCAG
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
23 9 0.17
24 14 0.26
25 8 0.15
26 8 0.15
27 14 0.26
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:42917362 original size:31 final size:31
Alignment explanation
Indices: 42917327--42917417 Score: 112
Period size: 38 Copynumber: 2.7 Consensus size: 31
42917317 CATTTACAGT
42917327 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
42917358 AAAGGCTTCGGCCCAGTGTTATGAAATATGAAATATGA
1 AAAGGCTTCGGCCCA--G---T--AATATGAAATATGA
42917396 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTAATATG
42917418 CTGAGATGAA
Statistics
Matches: 53, Mismatches: 0, Indels: 15
0.78 0.00 0.22
Matches are distributed among these distances:
30 5 0.09
31 15 0.28
33 2 0.04
36 2 0.04
38 29 0.55
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:42921643 original size:29 final size:29
Alignment explanation
Indices: 42921604--42921683 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
42921594 CTTAATAATC
*
42921604 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
42921634 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
42921663 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
42921684 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:42928092 original size:25 final size:25
Alignment explanation
Indices: 42928045--42928092 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
42928035 TTATATTATG
* * * *
42928045 AAAATGACTATTTTGCCCTTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
42928070 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
42928093 GTTTAATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:42928153 original size:20 final size:20
Alignment explanation
Indices: 42928128--42928194 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
42928118 GATTTGATAT
42928128 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
42928148 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
42928168 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
42928188 ACATGAT
1 ACATGAT
42928195 GTATTCATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:42928155 original size:11 final size:11
Alignment explanation
Indices: 42928139--42928194 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
42928129 CATGATTGAT
42928139 ATGATATGCAC
1 ATGATATGCAC
*
42928150 ATGATATG--T
1 ATGATATGCAC
42928159 ATGATATGCAC
1 ATGATATGCAC
*
42928170 ATGATATG--T
1 ATGATATGCAC
42928179 ATGATATGCAC
1 ATGATATGCAC
42928190 ATGAT
1 ATGAT
42928195 GTATTCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:42928208 original size:40 final size:39
Alignment explanation
Indices: 42928128--42928208 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 39
42928118 GATTTGATAT
*
42928128 ACATGATTGATATGATATGCACATGATATGTATGATATGC
1 ACATGATTGATATGATATGCACATGA-ATGTATCATATGC
42928168 ACATGATATG-TATGATATGCACATG-ATGTATTCATAATGC
1 ACATGAT-TGATATGATATGCACATGAATGTA-TCAT-ATGC
42928208 A
1 A
42928209 TTGGGTTGGG
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
38 5 0.14
39 3 0.08
40 27 0.73
41 2 0.05
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.35
Consensus pattern (39 bp):
ACATGATTGATATGATATGCACATGAATGTATCATATGC
Found at i:42928321 original size:50 final size:49
Alignment explanation
Indices: 42928242--42928349 Score: 148
Period size: 50 Copynumber: 2.2 Consensus size: 49
42928232 AGGAAGTGCA
42928242 AAAAGGGC-TATGCCCCAGTTTACCGAAAAGGGCTTTTGCCCAAGTTTATT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGC-TTTGCCCAAG-TTATT
* * *
42928292 AAAAGGGCTTTTGCCCCAGTTTATC-AAAAGGGCTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCAAGTTATT
42928340 AAAAGAGGCT
1 AAAAG-GGCT
42928350 AGGCCTCCAA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
48 10 0.19
49 13 0.25
50 16 0.30
51 14 0.26
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (49 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCAAGTTATT
Found at i:42928333 original size:24 final size:24
Alignment explanation
Indices: 42928242--42928349 Score: 128
Period size: 25 Copynumber: 4.4 Consensus size: 24
42928232 AGGAAGTGCA
* *
42928242 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
* *
42928266 GAAAAGGGCTTTTGCCCAAGTTTATT
1 -AAAAGGGC-TTTGCCCCAGTTTATC
42928292 AAAAGGGCTTTTGCCCCAGTTTATC
1 AAAAGGGC-TTTGCCCCAGTTTATC
*
42928317 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
42928340 AAAAGAGGCT
1 AAAAG-GGCT
42928350 AGGCCTCCAA
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
23 9 0.12
24 14 0.19
25 39 0.53
26 12 0.16
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:42928598 original size:31 final size:31
Alignment explanation
Indices: 42928557--42928620 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
42928547 CATTTACAAT
*
42928557 AAAGCCTTCGGCCTAGTAATATGAAATATGA
1 AAAGCCTTCGGCCCAGTAATATGAAATATGA
* **
42928588 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGCCTTCGGCCCAGTAATATGAAATATGA
42928619 AA
1 AA
42928621 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGCCTTCGGCCCAGTAATATGAAATATGA
Found at i:42928657 original size:38 final size:38
Alignment explanation
Indices: 42928577--42928659 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
42928567 GCCTAGTAAT
* *
42928577 ATGAAATATGAAAAGGCTTCGGCCCAGTGTTATGAAAT
1 ATGAAATATGAAAAGGCTTCGGCCCAGTGATATGAAAG
*
42928615 ATGAAATATGAAAAGGCTTCGGCCCAGT-ATATGCTAAG
1 ATGAAATATGAAAAGGCTTCGGCCCAGTGATATG-AAAG
42928653 ATGAAAT
1 ATGAAAT
42928660 TTGGGCTTAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
37 4 0.10
38 37 0.90
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (38 bp):
ATGAAATATGAAAAGGCTTCGGCCCAGTGATATGAAAG
Found at i:42930548 original size:44 final size:43
Alignment explanation
Indices: 42930491--42930573 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 43
42930481 GATTCCGATA
* * *
42930491 TGTGATTTTGTGTAAGACCAC-GTTTAGGACATTGGCATCAATT
1 TGTGATTTCGTGTAAGACC-CTGTCTAGGACAGTGGCATCAATT
42930534 TGTGATTTACGTGTAAGACCCTGTCTAGGACAGTGGCATC
1 TGTGATTT-CGTGTAAGACCCTGTCTAGGACAGTGGCATC
42930574 GATATATGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
43 9 0.26
44 26 0.74
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (43 bp):
TGTGATTTCGTGTAAGACCCTGTCTAGGACAGTGGCATCAATT
Found at i:42937451 original size:39 final size:39
Alignment explanation
Indices: 42937397--42937540 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
42937387 GAATGTTCGA
42937397 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
42937436 GTGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
42937475 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
42937514 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
42937541 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 86 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:42937487 original size:78 final size:79
Alignment explanation
Indices: 42937398--42937580 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
42937388 AATGTTCGAG
42937398 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
42937462 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
* *
42937476 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
** *
42937541 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
42937555 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
42937581 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:42945473 original size:38 final size:39
Alignment explanation
Indices: 42945421--42945563 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
42945411 GAATGTTCGA
42945421 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
42945460 GTGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
42945498 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
42945537 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
42945564 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:42945509 original size:77 final size:79
Alignment explanation
Indices: 42945422--42945603 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
42945412 AATGTTCGAG
42945422 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATA-CCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
42945485 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
42945499 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
42945564 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
42945578 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
42945604 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:42949601 original size:46 final size:45
Alignment explanation
Indices: 42949534--42949708 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 45
42949524 TGTAACCCGC
*
42949534 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
* *
42949580 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** * *
42949626 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
* *
42949673 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
42949709 ATGCCCAAAT
Statistics
Matches: 105, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 64 0.61
47 30 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:42949654 original size:93 final size:93
Alignment explanation
Indices: 42949542--42949713 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
42949532 GCCCATAAGT
*
42949542 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TCAGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
42949606 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
** *
42949635 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTCAGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
* *
42949700 TGAGTTCGGATGCC
66 CGAGCTCGGATGCC
42949714 CAAATATCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 3 0.04
93 69 0.96
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTCAGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:42955932 original size:14 final size:13
Alignment explanation
Indices: 42955909--42955940 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
42955899 AGAATATCAA
42955909 AACAATAATTAAG
1 AACAATAATTAAG
42955922 AACACATAATTAAG
1 AACA-ATAATTAAG
42955936 AACAA
1 AACAA
42955941 GTCAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:42963956 original size:46 final size:48
Alignment explanation
Indices: 42963812--42964077 Score: 259
Period size: 47 Copynumber: 5.7 Consensus size: 48
42963802 TTTGTGAGCT
* * *
42963812 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCAC-A-TTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATAT-A-AGCC
* * * * * * *
42963858 AGTGTAAGATCATGTCTGGGACATGGCATCGACATTGAGACGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGA-TATAAGCC
*
42963906 AGTGTAAGA-CATGTCTGGGATAT-GCATCGGCCTCGAGATATAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATAAGCC
* *
42963952 AGTGTGAGA-CATGTCTGGGACAT-GCATCGG-CTACGAGATGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGAT-ATAAGCC
* * *
42963998 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGATATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATAAGCC
42964045 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
42964078 ACCTTACCCA
Statistics
Matches: 186, Mismatches: 21, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
45 3 0.02
46 71 0.38
47 82 0.44
48 28 0.15
49 1 0.01
51 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATAAGCC
Found at i:42964064 original size:140 final size:141
Alignment explanation
Indices: 42963812--42964077 Score: 387
Period size: 140 Copynumber: 1.9 Consensus size: 141
42963802 TTTGTGAGCT
* *
42963812 AGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGAGAGCCAGTGTAAGATCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
* *
42963877 GACATGGCATCGACATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGATAT-GCATCGGCCTCG
66 GACATGGCATCGACATTGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCG
42963941 AGATATAAGCC
131 AGATATAAGCC
* * * * *
42963952 AGTGTGAGACATGTCTGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGACCAC-ATGATGAGAGCCAGTGTAAGACCATGTCTG
*
42964016 GGACATGGCATCGAC-TTGAGA-TATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
65 GGACATGGCATCGACATTGAGACGA-GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGC
42964078 ACCTTACCCA
Statistics
Matches: 112, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
138 1 0.01
139 19 0.17
140 83 0.74
141 9 0.08
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACATTGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCG
AGATATAAGCC
Found at i:42967988 original size:40 final size:40
Alignment explanation
Indices: 42967933--42968182 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
42967923 AACATTGGAA
42967933 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
42967973 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
42968013 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
42968053 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
42968093 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
42968132 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
42968173 CTATATCCGG
1 ATATATCCGG
42968183 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:42976161 original size:40 final size:40
Alignment explanation
Indices: 42976106--42976356 Score: 387
Period size: 40 Copynumber: 6.3 Consensus size: 40
42976096 GTGAACATTG
42976106 GATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT
42976146 GATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT
42976186 GATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT
42976226 GATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT
* * *
42976266 GATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-T
1 GATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT
* * * * * * *
42976305 CACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTC
1 GA-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT
*
42976346 GCTATATCCGG
1 GATATATCCGG
42976357 TTAAATCCCG
Statistics
Matches: 192, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 190 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
GATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT
Found at i:42984412 original size:293 final size:293
Alignment explanation
Indices: 42983885--42984472 Score: 1176
Period size: 293 Copynumber: 2.0 Consensus size: 293
42983875 AGGTGCAATT
42983885 ATAATTGGAGCATTAATTAATTTATCCTTTAAAGTATTAAATGCTTCTAAACATTCTTGATCGAA
1 ATAATTGGAGCATTAATTAATTTATCCTTTAAAGTATTAAATGCTTCTAAACATTCTTGATCGAA
42983950 GTTAAAAGGTATATCTTTTTCTAGCAATTTAGTTAAAGACTTAGCTATTTTAGAAAAATCCTTAA
66 GTTAAAAGGTATATCTTTTTCTAGCAATTTAGTTAAAGACTTAGCTATTTTAGAAAAATCCTTAA
42984015 TGAATCTTCTATAAAAACCAGCATGTCTTAAAAATCTTCTAATAGCCTTAACTAACTAGGAAGTG
131 TGAATCTTCTATAAAAACCAGCATGTCTTAAAAATCTTCTAATAGCCTTAACTAACTAGGAAGTG
42984080 GTAATTTCTCGATTGTTTCTACTTTAGTTTGTCCACCTCAATCCCTTTATTAGAAATTTTATGCC
196 GTAATTTCTCGATTGTTTCTACTTTAGTTTGTCCACCTCAATCCCTTTATTAGAAATTTTATGCC
42984145 CTAGTATAATACCTTCTTGAACCATGATGTGGC
261 CTAGTATAATACCTTCTTGAACCATGATGTGGC
42984178 ATAATTGGAGCATTAATTAATTTATCCTTTAAAGTATTAAATGCTTCTAAACATTCTTGATCGAA
1 ATAATTGGAGCATTAATTAATTTATCCTTTAAAGTATTAAATGCTTCTAAACATTCTTGATCGAA
42984243 GTTAAAAGGTATATCTTTTTCTAGCAATTTAGTTAAAGACTTAGCTATTTTAGAAAAATCCTTAA
66 GTTAAAAGGTATATCTTTTTCTAGCAATTTAGTTAAAGACTTAGCTATTTTAGAAAAATCCTTAA
42984308 TGAATCTTCTATAAAAACCAGCATGTCTTAAAAATCTTCTAATAGCCTTAACTAACTAGGAAGTG
131 TGAATCTTCTATAAAAACCAGCATGTCTTAAAAATCTTCTAATAGCCTTAACTAACTAGGAAGTG
42984373 GTAATTTCTCGATTGTTTCTACTTTAGTTTGTCCACCTCAATCCCTTTATTAGAAATTTTATGCC
196 GTAATTTCTCGATTGTTTCTACTTTAGTTTGTCCACCTCAATCCCTTTATTAGAAATTTTATGCC
42984438 CTAGTATAATACCTTCTTGAACCATGATGTGGC
261 CTAGTATAATACCTTCTTGAACCATGATGTGGC
42984471 AT
1 AT
42984473 TTCTCCTAGT
Statistics
Matches: 295, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
293 295 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (293 bp):
ATAATTGGAGCATTAATTAATTTATCCTTTAAAGTATTAAATGCTTCTAAACATTCTTGATCGAA
GTTAAAAGGTATATCTTTTTCTAGCAATTTAGTTAAAGACTTAGCTATTTTAGAAAAATCCTTAA
TGAATCTTCTATAAAAACCAGCATGTCTTAAAAATCTTCTAATAGCCTTAACTAACTAGGAAGTG
GTAATTTCTCGATTGTTTCTACTTTAGTTTGTCCACCTCAATCCCTTTATTAGAAATTTTATGCC
CTAGTATAATACCTTCTTGAACCATGATGTGGC
Found at i:42987829 original size:15 final size:15
Alignment explanation
Indices: 42987809--42987843 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
42987799 AAAAATTTAG
*
42987809 TGTTCATACTATTTC
1 TGTTCATAATATTTC
42987824 TGTTCATAATATTTC
1 TGTTCATAATATTTC
*
42987839 AGTTC
1 TGTTC
42987844 CCCGGAAACG
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:0.23, C:0.17, G:0.09, T:0.51
Consensus pattern (15 bp):
TGTTCATAATATTTC
Found at i:42990402 original size:16 final size:16
Alignment explanation
Indices: 42990381--42990420 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
42990371 ATTTACATAG
42990381 AATCAAAAAATAAAAA
1 AATCAAAAAATAAAAA
*
42990397 AATCAAAAAATCAAAA
1 AATCAAAAAATAAAAA
42990413 AATACAAA
1 AAT-CAAA
42990421 TAAAATCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.78, C:0.10, G:0.00, T:0.12
Consensus pattern (16 bp):
AATCAAAAAATAAAAA
Found at i:42995622 original size:40 final size:40
Alignment explanation
Indices: 42995578--42995687 Score: 211
Period size: 40 Copynumber: 2.8 Consensus size: 40
42995568 TAGTGGCTAC
42995578 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACATTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACATTCT
42995618 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACATTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACATTCT
*
42995658 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGC
42995688 ACGTGGTTAT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 69 1.00
ACGTcount: A:0.25, C:0.27, G:0.28, T:0.20
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACATTCT
Found at i:43003690 original size:40 final size:40
Alignment explanation
Indices: 43003646--43003755 Score: 211
Period size: 40 Copynumber: 2.8 Consensus size: 40
43003636 TAGTGGCTAC
43003646 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACATTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACATTCT
43003686 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACATTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACATTCT
*
43003726 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGC
43003756 ACGTGGTTAT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 69 1.00
ACGTcount: A:0.25, C:0.27, G:0.28, T:0.20
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACATTCT
Found at i:43003771 original size:40 final size:40
Alignment explanation
Indices: 43003601--43003755 Score: 204
Period size: 40 Copynumber: 3.9 Consensus size: 40
43003591 TATGCTGGAA
* * **
43003601 ATTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGAC
** *
43003641 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
*
43003681 ATTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
* *
43003721 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTCGTGC
43003756 ACGTGGTTAT
Statistics
Matches: 102, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 3 0.03
40 99 0.97
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
Found at i:43007091 original size:46 final size:46
Alignment explanation
Indices: 43007032--43007253 Score: 261
Period size: 46 Copynumber: 4.8 Consensus size: 46
43007022 TATTTGGGCA
*
43007032 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43007078 TCTGAGCTCGTTGAGTTGATTCCGAGTTCACTTATGGATGCGGATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *** * *
43007124 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* *
43007171 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
43007217 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43007254 GCGGGTTACA
Statistics
Matches: 147, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
45 1 0.01
46 105 0.71
47 32 0.22
48 1 0.01
49 3 0.02
50 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43012822 original size:40 final size:39
Alignment explanation
Indices: 43012655--43012836 Score: 229
Period size: 39 Copynumber: 4.6 Consensus size: 39
43012645 AATGTTCGAG
* * *
43012655 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGTGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
43012694 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
43012733 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCTAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
43012772 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
43012812 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
43012837 TGTTTTGAAC
Statistics
Matches: 125, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 86 0.69
40 39 0.31
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:43033050 original size:17 final size:17
Alignment explanation
Indices: 43033025--43033093 Score: 56
Period size: 17 Copynumber: 4.2 Consensus size: 17
43033015 GATGATGATG
*
43033025 TTTAATTTTATTTTATC
1 TTTATTTTTATTTTATC
43033042 TTTATTTTTATTTT-T-
1 TTTATTTTTATTTTATC
* *
43033057 ATT-TTTTTATTTTATG
1 TTTATTTTTATTTTATC
* *
43033073 TTT-TTATTAATTTTACC
1 TTTATT-TTTATTTTATC
43033090 TTTA
1 TTTA
43033094 ACTTTTAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
14 10 0.24
15 3 0.07
16 5 0.12
17 24 0.57
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.74
Consensus pattern (17 bp):
TTTATTTTTATTTTATC
Found at i:43033067 original size:20 final size:21
Alignment explanation
Indices: 43033042--43033080 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
43033032 TTATTTTATC
43033042 TTTATTTT-TATTTTTATTTT
1 TTTATTTTATATTTTTATTTT
*
43033062 TTTATTTTATGTTTTTATT
1 TTTATTTTATATTTTTATT
43033081 AATTTTACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (21 bp):
TTTATTTTATATTTTTATTTT
Found at i:43033069 original size:13 final size:13
Alignment explanation
Indices: 43033035--43033080 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
43033025 TTTAATTTTA
43033035 TTTTATCTTTATTT
1 TTTTAT-TTTATTT
*
43033049 TTAT-TTTTATTT
1 TTTTATTTTATTT
*
43033061 TTTTATTTTATGT
1 TTTTATTTTATTT
43033074 TTTTATT
1 TTTTATT
43033081 AATTTTACCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 10 0.36
13 15 0.54
14 3 0.11
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.80
Consensus pattern (13 bp):
TTTTATTTTATTT
Found at i:43040643 original size:93 final size:93
Alignment explanation
Indices: 43040531--43040702 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
43040521 GCCCATAAGT
* *
43040531 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43040596 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
43040624 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43040689 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
43040703 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:43040698 original size:46 final size:46
Alignment explanation
Indices: 43040523--43040698 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
43040513 TGTAACCCGC
* * *
43040523 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
43040569 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
43040619 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
43040662 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43040699 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:43043124 original size:30 final size:30
Alignment explanation
Indices: 43043080--43043168 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
43043070 CAAAGATAAC
43043080 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
43043109 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
43043139 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
43043169 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:43043128 original size:15 final size:15
Alignment explanation
Indices: 43043080--43043159 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
43043070 CAAAGATAAC
*
43043080 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
43043094 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
43043109 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
43043124 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
43043139 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
43043154 AAGAAA
1 AAGAAA
43043160 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:43043168 original size:15 final size:15
Alignment explanation
Indices: 43043091--43043168 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
43043081 AGAAAACCGA
43043091 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
43043106 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
43043120 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
43043135 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
43043151 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
43043166 ATA
1 ATA
43043169 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:43046218 original size:93 final size:93
Alignment explanation
Indices: 43046106--43046277 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
43046096 GCCCATAAGT
* *
43046106 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43046171 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
43046199 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43046264 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
43046278 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:43046273 original size:46 final size:46
Alignment explanation
Indices: 43046098--43046273 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
43046088 TGTAACCCGC
* * *
43046098 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
43046144 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
43046194 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
43046237 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43046274 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:43060772 original size:80 final size:80
Alignment explanation
Indices: 43060688--43060836 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
43060678 TATGGTAACC
* * * *
43060688 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
43060752 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
43060768 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
43060833 CCGG
66 CCGG
43060837 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:43060778 original size:40 final size:38
Alignment explanation
Indices: 43060729--43060836 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
43060719 ATCACGATTT
*
43060729 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
43060769 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
43060809 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
43060837 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:43074048 original size:39 final size:39
Alignment explanation
Indices: 43074005--43074219 Score: 199
Period size: 40 Copynumber: 5.5 Consensus size: 39
43073995 GCTCGATTGT
* *
43074005 CTTCGGGACATAGCCCGGTTATAGT-ATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
43074044 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
43074084 CTT-GGGACTTAACCCGGTTTTGGTAACTCG--CAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
43074121 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
43074161 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
43074202 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAGCCCGG
43074220 ACATCATTCG
Statistics
Matches: 150, Mismatches: 16, Indels: 18
0.82 0.09 0.10
Matches are distributed among these distances:
37 10 0.07
38 28 0.19
39 43 0.29
40 44 0.29
41 23 0.15
42 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.27
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:43074138 original size:77 final size:79
Alignment explanation
Indices: 43074031--43074220 Score: 231
Period size: 77 Copynumber: 2.4 Consensus size: 79
43074021 GGTTATAGTA
* *
43074031 TTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGCCTT-GGGACTTA
1 TTCGCA-AA-TGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTA
* *
43074095 ACCCGGTTTTGGTAAC
64 ACCCGGATTTAGTAAC
* * * *
43074111 -TCGCAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGAC
1 TTCGCAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTAAC
*
43074175 CCGGATTTAGTCAC
66 CCGGATTTAGTAAC
* *
43074189 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 TT--CGCAAATGCCTTCGGGACTTAGCCCGGA
43074221 CATCATTCGA
Statistics
Matches: 93, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
77 42 0.45
78 21 0.23
79 6 0.06
81 24 0.26
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (79 bp):
TTCGCAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTAAC
CCGGATTTAGTAAC
Found at i:43074177 original size:40 final size:40
Alignment explanation
Indices: 43074032--43074220 Score: 222
Period size: 40 Copynumber: 4.8 Consensus size: 40
43074022 GTTATAGTAT
* *
43074032 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAAC
1 TCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAAC
* * *
43074072 TCGCACAAATGCCTT-GGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAAC
* * *
43074111 TCG--CAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAAC
* *
43074149 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAAC
* * * *
43074189 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 -TCGCACAAATGCCTTCGGGAATTAACCCGGA
43074221 CATCATTCGA
Statistics
Matches: 130, Mismatches: 15, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
37 10 0.08
38 27 0.21
39 23 0.18
40 44 0.34
41 26 0.20
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAAC
Found at i:43082262 original size:41 final size:40
Alignment explanation
Indices: 43082081--43082275 Score: 239
Period size: 40 Copynumber: 4.8 Consensus size: 40
43082071 GGATATAGCG
* * * * *
43082081 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGG-TTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATT-TAGTA
* * *
43082121 GCTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
43082161 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
* * *
43082201 ACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
* * *
43082241 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 AC-TCGCACAAATGCCTTCGGGACTTAACCCGGAT
43082276 ACCATTCGAA
Statistics
Matches: 135, Mismatches: 18, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
40 106 0.79
41 29 0.21
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
Found at i:43086054 original size:21 final size:20
Alignment explanation
Indices: 43086030--43086131 Score: 82
Period size: 20 Copynumber: 5.0 Consensus size: 20
43086020 GGCCTGGAGC
43086030 AATTTTGACTTGTTTGAAAAT
1 AATTTTGACTTGTTT-AAAAT
43086051 AATTTTGA-TATG-TTAAAAT
1 AATTTTGACT-TGTTTAAAAT
* * * *
43086070 TATTTTAACTTGATTGAAAT
1 AATTTTGACTTGTTTAAAAT
* *
43086090 CATTTTGACTTGGTTAAAAT
1 AATTTTGACTTGTTTAAAAT
* *
43086110 CATTTTCACTTGATTTTAAAAT
1 AATTTTGACTTG--TTTAAAAT
43086132 TGTTTCAAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
19 13 0.19
20 37 0.55
21 10 0.15
22 7 0.10
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.48
Consensus pattern (20 bp):
AATTTTGACTTGTTTAAAAT
Found at i:43086075 original size:40 final size:41
Alignment explanation
Indices: 43086031--43086131 Score: 109
Period size: 40 Copynumber: 2.5 Consensus size: 41
43086021 GCCTGGAGCA
* *
43086031 ATTTTGACTTGTTTGAAAATAATTTTGA-TAT-GTTAAAATT
1 ATTTTAACTTGTTTGAAAATAATTTTGACT-TGGTTAAAATC
* *
43086071 ATTTTAACTTGATTG-AAATCATTTTGACTTGGTTAAAATC
1 ATTTTAACTTGTTTGAAAATAATTTTGACTTGGTTAAAATC
* *
43086111 ATTTTCACTTGATTTTAAAAT
1 ATTTTAACTTG-TTTGAAAAT
43086132 TGTTTCAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
39 12 0.24
40 32 0.64
41 2 0.04
42 4 0.08
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.49
Consensus pattern (41 bp):
ATTTTAACTTGTTTGAAAATAATTTTGACTTGGTTAAAATC
Found at i:43095669 original size:16 final size:16
Alignment explanation
Indices: 43095650--43095682 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
43095640 AGATGGTACC
*
43095650 GTATGAGGCTTTGTAT
1 GTATAAGGCTTTGTAT
43095666 GTATAAGGCTTTGTAT
1 GTATAAGGCTTTGTAT
43095682 G
1 G
43095683 GTCAAAAATG
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:0.21, C:0.06, G:0.30, T:0.42
Consensus pattern (16 bp):
GTATAAGGCTTTGTAT
Found at i:43097834 original size:16 final size:15
Alignment explanation
Indices: 43097813--43097847 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
43097803 CAACCCACTT
43097813 TTTTGGCTTTTCAGCC
1 TTTTGGCTTTTCAG-C
43097829 TTTTGGCTTTTCAGC
1 TTTTGGCTTTTCAGC
43097844 TTTT
1 TTTT
43097848 CAACCTTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.06, C:0.20, G:0.17, T:0.57
Consensus pattern (15 bp):
TTTTGGCTTTTCAGC
Found at i:43101975 original size:46 final size:47
Alignment explanation
Indices: 43101826--43102031 Score: 185
Period size: 46 Copynumber: 4.4 Consensus size: 47
43101816 TTTATTTGCT
* * * *
43101826 AGTGTAAGGCATGTCTGGGACATGCATCGGCCAC-ATTAT-AAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTAGAGCC
* * * * * *
43101872 AGTGTAAGACCATATTTGGGACATAGCATCGGCATTGAGACG-AGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAGAGCC
*
43101920 AGTGTAAGACATGTCTGGGACATGCATAGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAGAGCC
* * *
43101966 AGTGTAAGACATGTTTGGGACATGCATC-GACTACGAGATGT---GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAGAGCC
43102010 AGTGTAAGACCATGTCTGGGAC
1 AGTGTAAGA-CATGTCTGGGAC
43102032 TGGCATTGGC
Statistics
Matches: 132, Mismatches: 21, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
44 11 0.08
45 14 0.11
46 58 0.44
47 25 0.19
48 23 0.17
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAGAGCC
Found at i:43102222 original size:47 final size:47
Alignment explanation
Indices: 43101826--43102234 Score: 205
Period size: 47 Copynumber: 8.7 Consensus size: 47
43101816 TTTATTTGCT
*
43101826 AGTGTAAG-GCATGTCTGGGACAT-GCATCGGCCACATT-AT-AA-GAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G--AC-TTGATGAATGAGCC
* * * * *
43101872 AGTGTAAGACCATATTTGGGACATAGCATCGGCATTGA-GACGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGATGA--ATGAGCC
* * *
43101920 AGTGTAAGA-CATGTCTGGGACAT-GCATAGGCCTCGA-G-ATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCAT-CGACTTGATGAATG--AGCC
* * * *
43101966 AGTGTAAGA-CATGTTTGGGACAT-GCATCGAC-T-ACGAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGA-ATGAGCC
* * * * * **
43102010 AGTGTAAGACCATGTCTGGGAC-TGGCATTGGCATGTAT-AGAGGTGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTG-ATGA-ATGAGCC
* * *
43102057 AGTGTAAGGCCATGTCTTGGACATGGCATCAGCACGGATATG-TG-A-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-AC---T-TGATGAATGAGCC
* * *
43102107 AGTGTAAGACCATGTCTCGGACATGGCATCGACCTTTATTTTG-AT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CTTGA---TGAATGAGCC
* *
43102156 AGTGTAAGGCCATATCTGGGACATGGCATCGACTTGATGAATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGAATGAGCC
43102203 AGTGTAAGACCATGTCTGGGACATGGCATCGA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA
43102235 TATTATACCC
Statistics
Matches: 287, Mismatches: 42, Indels: 67
0.72 0.11 0.17
Matches are distributed among these distances:
43 2 0.01
44 14 0.05
45 26 0.09
46 54 0.19
47 87 0.30
48 31 0.11
49 37 0.13
50 32 0.11
51 1 0.00
52 1 0.00
54 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGAATGAGCC
Found at i:43103746 original size:25 final size:26
Alignment explanation
Indices: 43103691--43103747 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
43103681 TGCTTGTGAG
43103691 AGCATACCAATCTACAGCTCGAATGA
1 AGCATACCAATCTACAGCTCGAATGA
* *
43103717 A-CATACCGAT-TCACAGCTCGTAT-A
1 AGCATACCAATCT-ACAGCTCGAATGA
43103741 AGCATAC
1 AGCATAC
43103748 ATGTACAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 3 0.11
25 23 0.85
26 1 0.04
ACGTcount: A:0.37, C:0.28, G:0.14, T:0.21
Consensus pattern (26 bp):
AGCATACCAATCTACAGCTCGAATGA
Found at i:43109712 original size:43 final size:42
Alignment explanation
Indices: 43109665--43109822 Score: 131
Period size: 43 Copynumber: 3.7 Consensus size: 42
43109655 AACATAAACA
* *
43109665 ATGCCAACGTCCTAGACATGGTCTTACATGTAATCAAACATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAA-ATCG
* * * *
43109708 ATGCC-ACTATCCCAGACAGGGTCTTACACGAAATCAGATAT-G
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAATCA-AAATCG
* * * * * *
43109750 ATGCCGATGTTCCAGACATGGTCTTACACATAAAACAGAAGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AATCA-AAATCG
**
43109794 ATGCCAACGTCCCAGATGTGGTCTTACAC
1 ATGCCAACGTCCCAGACATGGTCTTACAC
43109823 AAAATCACAT
Statistics
Matches: 90, Mismatches: 20, Indels: 9
0.76 0.17 0.08
Matches are distributed among these distances:
42 26 0.29
43 38 0.42
44 26 0.29
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAAATCG
Found at i:43110301 original size:13 final size:13
Alignment explanation
Indices: 43110283--43110312 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
43110273 CTTCGCCGAA
43110283 TATTAATGGTTCT
1 TATTAATGGTTCT
43110296 TATTAATGGTTCT
1 TATTAATGGTTCT
43110309 TATT
1 TATT
43110313 CAAGTCCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.07, G:0.13, T:0.57
Consensus pattern (13 bp):
TATTAATGGTTCT
Found at i:43111091 original size:20 final size:20
Alignment explanation
Indices: 43111068--43111107 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
43111058 GGACTATTAC
43111068 AAATAAAGAGGGACAACCTT
1 AAATAAAGAGGGACAACCTT
* *
43111088 AAATCAAGGGGGACAACCTT
1 AAATAAAGAGGGACAACCTT
43111108 TTCTTGTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (20 bp):
AAATAAAGAGGGACAACCTT
Found at i:43113463 original size:38 final size:35
Alignment explanation
Indices: 43113404--43113521 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
43113394 TCAATCATGC
*
43113404 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
43113443 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
43113474 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
43113505 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
43113522 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:43113465 original size:31 final size:31
Alignment explanation
Indices: 43113427--43113521 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
43113417 CCTTTTCATA
*
43113427 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
43113458 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
43113489 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
43113520 TT
1 TT
43113522 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:43113764 original size:24 final size:24
Alignment explanation
Indices: 43113713--43113855 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
43113703 GCTTTATCAT
*
43113713 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
43113738 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
43113762 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
* *
43113785 ATAACTAGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
43113809 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
43113833 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
43113856 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 22 0.20
24 75 0.69
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:43113796 original size:47 final size:48
Alignment explanation
Indices: 43113713--43113854 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 48
43113703 GCTTTATCAT
* *
43113713 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
* **
43113762 ATAACTGGGGCATAAGCCCTTTT-ATAACTAGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
43113809 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
43113855 TTCACTTCCT
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
47 43 0.51
48 30 0.35
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:43113931 original size:20 final size:20
Alignment explanation
Indices: 43113906--43113965 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
43113896 TATGATTACC
43113906 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
43113926 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
43113946 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
43113966 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:43115276 original size:27 final size:27
Alignment explanation
Indices: 43115214--43115278 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
43115204 GGGCATATTC
43115214 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
43115241 GTCAGTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
*
43115268 GTCTTTTTACC
1 GTCATTTTACC
43115279 TAATAGGGAT
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:0.23, G:0.22, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:43115362 original size:27 final size:27
Alignment explanation
Indices: 43115332--43115498 Score: 104
Period size: 27 Copynumber: 6.1 Consensus size: 27
43115322 GTAAATCTAC
43115332 AAACTAAGGGTATTTCAGTAATTTTGT
1 AAACTAAGGGTATTTCAGTAATTTTGT
* *
43115359 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACTAAGGGTATTTC-AGTAATTTTGT
* * *
43115385 AGAAAGTCAAGGGTATTTCTGTAACTTTGT
1 --AAACT-AAGGGTATTTCAGTAATTTTGT
* * ** **
43115415 AAATTAGGGGTATTTTGGTAATTTTAC
1 AAACTAAGGGTATTTCAGTAATTTTGT
* * * * * **
43115442 AAATTGAGGGTTTTTCGGCAATTTTAC
1 AAACTAAGGGTATTTCAGTAATTTTGT
* *
43115469 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACTAAGGGTATTTCAGTAATTTTGT
43115496 AAA
1 AAA
43115499 TCGAGGGTAA
Statistics
Matches: 106, Mismatches: 28, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
26 1 0.01
27 80 0.75
28 8 0.08
29 16 0.15
30 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
AAACTAAGGGTATTTCAGTAATTTTGT
Found at i:43115505 original size:27 final size:27
Alignment explanation
Indices: 43115338--43115615 Score: 98
Period size: 27 Copynumber: 10.2 Consensus size: 27
43115328 CTACAAACTA
* * *
43115338 AGGGTATTTCAGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTGTAAATCG
* *
43115365 ATGGTATTTCTA-TAATTTT-TAGAAAGTCA
1 AGGGTATTT-TAGTAATTTTGT--AAA-TCG
* *
43115394 AGGGTATTTCT-GTAACTTTGTAAAT-T
1 AGGGTATTT-TAGTAATTTTGTAAATCG
* ** *
43115420 AGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTTAGTAATTTTGTAAATCG
* * ** * *
43115448 AGGGT-TTTTCGGCAATTTTACAAACCA
1 AGGGTATTTT-AGTAATTTTGTAAATCG
43115475 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTAGTAATTTTGTAAATCG
**** * * *
43115502 AGGGTAAAACAGTAATTCTATAAATCA
1 AGGGTATTTTAGTAATTTTGTAAATCG
*** * *
43115529 AGGGTAAAATAGTAATTCTATAAATCG
1 AGGGTATTTTAGTAATTTTGTAAATCG
*** * *
43115556 AGGGTAAAATGGTAATTCTGTAAATCG
1 AGGGTATTTTAGTAATTTTGTAAATCG
***** *
43115583 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTATTTTAGTAATTTTGTAAATCG
43115610 AGGGTA
1 AGGGTA
43115616 AAATGATAAT
Statistics
Matches: 208, Mismatches: 32, Indels: 22
0.79 0.12 0.08
Matches are distributed among these distances:
26 7 0.03
27 170 0.82
28 12 0.06
29 18 0.09
30 1 0.00
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.36
Consensus pattern (27 bp):
AGGGTATTTTAGTAATTTTGTAAATCG
Found at i:43115616 original size:27 final size:27
Alignment explanation
Indices: 43115486--43115777 Score: 338
Period size: 27 Copynumber: 10.8 Consensus size: 27
43115476 GGGTATTTTA
* *
43115486 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * **
43115513 GTAATTCTATAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
43115540 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
43115567 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
43115594 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
43115621 ATAATTATGTAAATCGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
43115648 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* *
43115675 GTAATTCTGTAAGTCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
43115702 ATAATTATGTAAATC-AGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* * *
43115729 ATAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
*
43115756 GTAATTCTGTAAATCAAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
43115778 CTTTAGTAAT
Statistics
Matches: 233, Mismatches: 27, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.00
27 230 0.99
28 2 0.01
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:43115788 original size:81 final size:80
Alignment explanation
Indices: 43115486--43115777 Score: 392
Period size: 81 Copynumber: 3.6 Consensus size: 80
43115476 GGGTATTTTA
* * * * * *
43115486 GTAATTTTGTAAA-TCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAAT-AGTAATTCTA
1 GTAATTATGTAAATTAG-GGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATGA-TAATTATG
*
43115549 TAAATCGAGGGTAAAATG
64 TAAATCG-GGGTAAAACG
* * *
43115567 GTAATTCTGTAAA-TCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGATAATTATGT
1 GTAATTATGTAAATTAG-GGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATGATAATTATGT
43115631 AAATCGGGGGTAAAACG
65 AAATC-GGGGTAAAACG
* *
43115648 GTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAATGATAATTATGTA
1 GTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATGATAATTATGTA
43115713 AATCAGGGGTAAAACG
66 AATC-GGGGTAAAACG
*
43115729 ATAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAATCAAGGGTA
1 GTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAATCAAGGGTA
43115778 CTTTAGTAAT
Statistics
Matches: 194, Mismatches: 14, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
81 190 0.98
82 4 0.02
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (80 bp):
GTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATGATAATTATGTA
AATCGGGGTAAAACG
Done.