Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 28 of 89
Found at i:6169221 original size:33 final size:33
Alignment explanation
Indices: 6169184--6169301 Score: 135
Period size: 33 Copynumber: 3.8 Consensus size: 33
6169174 ATAAACTATA
6169184 TAGTATATATAAACTATATATTATATAGTTCAT
1 TAGTATATATAAACTATATATTATATAGTTCAT
*
6169217 TAGTATATAT-AAC-CTATA-TA-ATA--T-A-
1 TAGTATATATAAACTATATATTATATAGTTCAT
* *
6169242 TGGTATATACAAACTATATATTATATAGTTCAT
1 TAGTATATATAAACTATATATTATATAGTTCAT
* *
6169275 TAGTATATATAAACTATACAATATATA
1 TAGTATATATAAACTATATATTATATA
6169302 TAAACTATAT
Statistics
Matches: 69, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
25 8 0.12
26 4 0.06
27 5 0.07
28 2 0.03
29 6 0.09
30 2 0.03
31 5 0.07
32 4 0.06
33 33 0.48
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.42
Consensus pattern (33 bp):
TAGTATATATAAACTATATATTATATAGTTCAT
Found at i:6169248 original size:58 final size:58
Alignment explanation
Indices: 6169171--6169301 Score: 208
Period size: 58 Copynumber: 2.2 Consensus size: 58
6169161 TTCATTAGTA
* *
6169171 TATATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAACC
1 TATAT-AA-TATATAGTATATACAAACTATATATTATATAGTTCATTAGTATATATAAAC
*
6169231 TATATAATATATGGTATATACAAACTATATATTATATAGTTCATTAGTATATATAAAC
1 TATATAATATATAGTATATACAAACTATATATTATATAGTTCATTAGTATATATAAAC
*
6169289 TATACAATATATA
1 TATATAATATATA
6169302 TAAACTATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
58 59 0.89
59 2 0.03
60 5 0.08
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (58 bp):
TATATAATATATAGTATATACAAACTATATATTATATAGTTCATTAGTATATATAAAC
Found at i:6169258 original size:25 final size:25
Alignment explanation
Indices: 6169219--6169267 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
6169209 TAGTTCATTA
* *
6169219 GTATATATAACCTATATAATATATG
1 GTATATACAAACTATATAATATATG
*
6169244 GTATATACAAACTATATATTATAT
1 GTATATACAAACTATATAATATAT
6169268 AGTTCATTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (25 bp):
GTATATACAAACTATATAATATATG
Found at i:6169275 original size:109 final size:105
Alignment explanation
Indices: 6169061--6169315 Score: 343
Period size: 109 Copynumber: 2.4 Consensus size: 105
6169051 ATAAACTATA
* **
6169061 TAGTATATATAAACTATATAATATATATAGACTATATGGTATATATAAACTATACAATATATATA
1 TAGTATATATAAACTATATAATATATATAAACTATATATTATATATAAACTATACAATATATATA
*
6169126 AACTATATAGTATATATAAACTATATATTATATAGTTCAT
66 AACTATATAGTATATACAAACTATATATTATATAGTTCAT
* ** * *
6169166 TAGTATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAGTA-TATATAAC
1 TAGTATATATAAACTATATAATATATATAAACTATATATTATATA-TAAACTA-TACAATAT-A-
*
6169230 CTATATAA-TATATGGTATATACAAACTATATATTATATAGTTCAT
62 -TATA-AACTATATAGTATATACAAACTATATATTATATAGTTCAT
*
6169275 TAGTATATATAAACTATACAATATATATAAACTATATATTA
1 TAGTATATATAAACTATATAATATATATAAACTATATATTA
6169316 ATTTATTAAT
Statistics
Matches: 132, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
105 41 0.31
106 8 0.06
107 3 0.02
109 78 0.59
110 2 0.02
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (105 bp):
TAGTATATATAAACTATATAATATATATAAACTATATATTATATATAAACTATACAATATATATA
AACTATATAGTATATACAAACTATATATTATATAGTTCAT
Found at i:6172772 original size:14 final size:14
Alignment explanation
Indices: 6172753--6172799 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
6172743 ATTTTTTATT
6172753 TATATAAATTAAAC
1 TATATAAATTAAAC
6172767 TATAT-AATT----
1 TATATAAATTAAAC
6172776 TATATAAATTAAAC
1 TATATAAATTAAAC
*
6172790 TATATTAATT
1 TATATAAATT
6172800 TTCCTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:6172776 original size:23 final size:24
Alignment explanation
Indices: 6172750--6172800 Score: 95
Period size: 23 Copynumber: 2.2 Consensus size: 24
6172740 ATTATTTTTT
6172750 ATTTATATAAATTAAACTATA-TA
1 ATTTATATAAATTAAACTATATTA
6172773 ATTTATATAAATTAAACTATATTA
1 ATTTATATAAATTAAACTATATTA
6172797 ATTT
1 ATTT
6172801 TCCTTTGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
ATTTATATAAATTAAACTATATTA
Found at i:6173092 original size:16 final size:16
Alignment explanation
Indices: 6173069--6173170 Score: 134
Period size: 16 Copynumber: 6.4 Consensus size: 16
6173059 CGGATCATTT
6173069 ACAGGTCAGGTTAAAA
1 ACAGGTCAGGTTAAAA
*
6173085 ATAGGTCAGGTTAAAA
1 ACAGGTCAGGTTAAAA
*
6173101 ACAGGTAAGGTTAAAA
1 ACAGGTCAGGTTAAAA
* *
6173117 ATAGGTCAGGTTGAAA
1 ACAGGTCAGGTTAAAA
* *
6173133 ACATGTCAGGTTGAAA
1 ACAGGTCAGGTTAAAA
*
6173149 ACAGGTCAGGTT-GAA
1 ACAGGTCAGGTTAAAA
6173164 ACAGGTC
1 ACAGGTC
6173171 GGGTAATACC
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
15 9 0.12
16 67 0.88
ACGTcount: A:0.40, C:0.11, G:0.27, T:0.22
Consensus pattern (16 bp):
ACAGGTCAGGTTAAAA
Found at i:6174395 original size:26 final size:26
Alignment explanation
Indices: 6174366--6174416 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
6174356 TTTTATTATT
6174366 CGTTTTAGTCCATGTTGTATTTCTAA
1 CGTTTTAGTCCATGTTGTATTTCTAA
6174392 CGTTTTAGTCCATGTTGTATTTCTA
1 CGTTTTAGTCCATGTTGTATTTCTA
6174417 TGCATATATA
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:0.18, C:0.16, G:0.16, T:0.51
Consensus pattern (26 bp):
CGTTTTAGTCCATGTTGTATTTCTAA
Found at i:6174691 original size:8 final size:8
Alignment explanation
Indices: 6174678--6174705 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
6174668 GGAAGTCAAC
6174678 TCTTCTCT
1 TCTTCTCT
6174686 TCTTCTCT
1 TCTTCTCT
6174694 TCTTCTCT
1 TCTTCTCT
6174702 TCTT
1 TCTT
6174706 GCCGTGGGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (8 bp):
TCTTCTCT
Found at i:6175260 original size:19 final size:19
Alignment explanation
Indices: 6175236--6175284 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
6175226 GAATAAAATA
6175236 AGTGCATCGATGCATAGGC
1 AGTGCATCGATGCATAGGC
6175255 AGTGCATCGATGCATAGGC
1 AGTGCATCGATGCATAGGC
6175274 AGTGCATCGAT
1 AGTGCATCGAT
6175285 ACACTATAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (19 bp):
AGTGCATCGATGCATAGGC
Found at i:6175933 original size:118 final size:118
Alignment explanation
Indices: 6175629--6176336 Score: 880
Period size: 118 Copynumber: 6.0 Consensus size: 118
6175619 ATTACCAAAT
* * * * *
6175629 GGCACTATATGTGCAAAAATGATAAGGAAATCATACTAAGTGTATGCATTTCCATATGGAGCACT
1 GGCATTATATGTGCTAAAATGGTAAGGGAATCATACTAAGTGTATGTATTTCCATATGGAGCACT
* * * * * * *
6175694 GAA-TGTGCTAAAATGATAAGGAAATCGTACT-AAGTGTATGCATTTTCATAT-G
66 -AAGTGTGCTAAAATGTTAAGGAAATCATATTGAA-TATATGGATTTCCAAATAG
* * * *
6175746 GAGCACTGA-ATGTGCTAAAATGATAA-GAAATCATACTAAGTGTATGGATCTT-CATATGGAGC
1 G-GCA-TTATATGTGCTAAAATGGTAAGGGAATCATACTAAGTGTATGTAT-TTCCATATGGAGC
*
6175808 ACTAAGTGTGCTAAAATGTTAAGGAAATCATATTGAATATATGGATTCCCAAATAG
63 ACTAAGTGTGCTAAAATGTTAAGGAAATCATATTGAATATATGGATTTCCAAATAG
*
6175864 GGCATTATATGTGCTAAAATGGTAAGGGGATCATACTAAGTGTATGTATTTCCATATGGAGCACT
1 GGCATTATATGTGCTAAAATGGTAAGGGAATCATACTAAGTGTATGTATTTCCATATGGAGCACT
6175929 AAGTGTGCTAAAATGTTAAGGAAATCATATTGAATATATGGATTTCCAAATAG
66 AAGTGTGCTAAAATGTTAAGGAAATCATATTGAATATATGGATTTCCAAATAG
6175982 GGCATTATATGTGCTAAAATGGTAATGGG-ATCATACTAAGTGTATGTATTTCCATATGGAGCAC
1 GGCATTATATGTGCTAAAATGGTAA-GGGAATCATACTAAGTGTATGTATTTCCATATGGAGCAC
* * * *
6176046 TAAGTGTGCTAAACTGTCAAGAAAATCATATTGAATACATGGATTTCCAAATAG
65 TAAGTGTGCTAAAATGTTAAGGAAATCATATTGAATATATGGATTTCCAAATAG
* *
6176100 AGCATTATATGTGCTAAAATGGTAAGGGGATCATACTAAGTGTATGTATTTCCATATGGAGCACT
1 GGCATTATATGTGCTAAAATGGTAAGGGAATCATACTAAGTGTATGTATTTCCATATGGAGCACT
* * * *
6176165 AAGTGTGCTAAAATGTTAAGGAAATAATATTGAATATATGAATTTTCATATAG
66 AAGTGTGCTAAAATGTTAAGGAAATCATATTGAATATATGGATTTCCAAATAG
** * * **
6176218 GGCATTATATGTGCTAAAAATGGTAAAAGAATCATAC-AAATGGTATGAATTCTTGA-ATAGG-G
1 GGCATTATATGTGCT-AAAATGGTAAGGGAATCATACTAAGT-GTATGTATT-TCCATAT-GGAG
** ** * *
6176280 CACTTTGTGTGCTAAAATGAGAAGGAAATCATATTGAGTATAT-GATATTTCAAATAG
62 CACTAAGTGTGCTAAAATGTTAAGGAAATCATATTGAATATATGGAT-TTCCAAATAG
6176337 AGCACTGAGA
Statistics
Matches: 528, Mismatches: 47, Indels: 30
0.87 0.08 0.05
Matches are distributed among these distances:
116 4 0.01
117 97 0.18
118 344 0.65
119 79 0.15
120 4 0.01
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (118 bp):
GGCATTATATGTGCTAAAATGGTAAGGGAATCATACTAAGTGTATGTATTTCCATATGGAGCACT
AAGTGTGCTAAAATGTTAAGGAAATCATATTGAATATATGGATTTCCAAATAG
Found at i:6176215 original size:59 final size:58
Alignment explanation
Indices: 6175630--6176189 Score: 578
Period size: 59 Copynumber: 9.5 Consensus size: 58
6175620 TTACCAAATG
* * *
6175630 GCACTATATGTGCAAAAATGATAAGGAAATCATACTAAGTGTATGCATTTCCATATGGA
1 GCACTA-ATGTGCTAAAATGTTAAGGAAATCATACTAAGTGTATGGATTTCCATATGGA
* * * *
6175689 GCACTGAATGTGCTAAAATGATAAGGAAATCGTACTAAGTGTATGCATTTTCATATGGA
1 GCACT-AATGTGCTAAAATGTTAAGGAAATCATACTAAGTGTATGGATTTCCATATGGA
*
6175748 GCACTGAATGTGCTAAAATGATAA-GAAATCATACTAAGTGTATGGATCTT-CATATGGA
1 GCACT-AATGTGCTAAAATGTTAAGGAAATCATACTAAGTGTATGGAT-TTCCATATGGA
* * * *
6175806 GCACTAAGTGTGCTAAAATGTTAAGGAAATCATATTGAA-TATATGGATTCCCAAATAGG-
1 GCACTAA-TGTGCTAAAATGTTAAGGAAATCATACT-AAGTGTATGGATTTCCATAT-GGA
* * ** *
6175865 GCATTATATGTGCTAAAATGGTAAGGGGATCATACTAAGTGTATGTATTTCCATATGGA
1 GCACTA-ATGTGCTAAAATGTTAAGGAAATCATACTAAGTGTATGGATTTCCATATGGA
* * *
6175924 GCACTAAGTGTGCTAAAATGTTAAGGAAATCATATTGAA-TATATGGATTTCCAAATAGG-
1 GCACTAA-TGTGCTAAAATGTTAAGGAAATCATACT-AAGTGTATGGATTTCCATAT-GGA
* * * *
6175983 GCATTATATGTGCTAAAATGGTAATGG-GATCATACTAAGTGTATGTATTTCCATATGGA
1 GCACTA-ATGTGCTAAAATGTTAA-GGAAATCATACTAAGTGTATGGATTTCCATATGGA
* * * * ** * *
6176042 GCACTAAGTGTGCTAAACTGTCAAGAAAATCATATTGAA-TACATGGATTTCCAAATAGA
1 GCACTAA-TGTGCTAAAATGTTAAGGAAATCATACT-AAGTGTATGGATTTCCATATGGA
* * ** *
6176101 GCATTATATGTGCTAAAATGGTAAGGGGATCATACTAAGTGTATGTATTTCCATATGGA
1 GCACTA-ATGTGCTAAAATGTTAAGGAAATCATACTAAGTGTATGGATTTCCATATGGA
6176160 GCACTAAGTGTGCTAAAATGTTAAGGAAAT
1 GCACTAA-TGTGCTAAAATGTTAAGGAAAT
6176190 AATATTGAAT
Statistics
Matches: 415, Mismatches: 63, Indels: 46
0.79 0.12 0.09
Matches are distributed among these distances:
57 2 0.00
58 64 0.15
59 333 0.80
60 16 0.04
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.31
Consensus pattern (58 bp):
GCACTAATGTGCTAAAATGTTAAGGAAATCATACTAAGTGTATGGATTTCCATATGGA
Found at i:6176351 original size:59 final size:58
Alignment explanation
Indices: 6175637--6176353 Score: 441
Period size: 59 Copynumber: 12.2 Consensus size: 58
6175627 ATGGCACTAT
* * * *
6175637 ATGTGCAAAAATGATAAGGAAATCATACTAAGTGTATGCATTTCCATATGGAGCACTGA-
1 ATGTGCTAAAATG-TAAGGAAATCATACTAAGTGTATG-ATTTTCATATAGAGCACTTAG
* * *
6175696 ATGTGCTAAAATGATAAGGAAATCGTACTAAGTGTATGCATTTTCATATGGAGCACTGA-
1 ATGTGCTAAAATG-TAAGGAAATCATACTAAGTGTATG-ATTTTCATATAGAGCACTTAG
* * *
6175755 ATGTGCTAAAATGATAA-GAAATCATACTAAGTGTATGGATCTTCATATGGAGCACTAAG
1 ATGTGCTAAAATG-TAAGGAAATCATACTAAGTGTAT-GATTTTCATATAGAGCACTTAG
* * ** * * *
6175814 -TGTGCTAAAATGTTAAGGAAATCATATTGAA-TATATGGATTCCCAAATAGGGCA-TTAT
1 ATGTGCTAAAATG-TAAGGAAATCATACT-AAGTGTAT-GATTTTCATATAGAGCACTTAG
** * * *
6175872 ATGTGCTAAAATGGTAAGGGGATCATACTAAGTGTATGTATTTCCATATGGAGCACTAAG
1 ATGTGCTAAAAT-GTAAGGAAATCATACTAAGTGTATG-ATTTTCATATAGAGCACTTAG
* * * * * *
6175932 -TGTGCTAAAATGTTAAGGAAATCATATTGAA-TATATGGATTTCCAAATAGGGCA-TTAT
1 ATGTGCTAAAATG-TAAGGAAATCATACT-AAGTGTAT-GATTTTCATATAGAGCACTTAG
* * * *
6175990 ATGTGCTAAAATGGTAATGG-GATCATACTAAGTGTATGTATTTCCATATGGAGCACTAAG
1 ATGTGCTAAAAT-GTAA-GGAAATCATACTAAGTGTATG-ATTTTCATATAGAGCACTTAG
* * * ** * * *
6176050 -TGTGCTAAACTGTCAAGAAAATCATATTGAA-TACATGGATTTCCAAATAGAGCA-TTAT
1 ATGTGCTAAAATGT-AAGGAAATCATACT-AAGTGTAT-GATTTTCATATAGAGCACTTAG
** * * *
6176108 ATGTGCTAAAATGGTAAGGGGATCATACTAAGTGTATGTATTTCCATATGGAGCACTAAG
1 ATGTGCTAAAAT-GTAAGGAAATCATACTAAGTGTATG-ATTTTCATATAGAGCACTTAG
* * * * *
6176168 -TGTGCTAAAATGTTAAGGAAATAATATTGAA-TATATGAATTTTCATATAGGGCA-TTAT
1 ATGTGCTAAAATG-TAAGGAAATCATACT-AAGTGTATG-ATTTTCATATAGAGCACTTAG
* * * * *
6176226 ATGTGCTAAAAATGGTAA-AAGAATCATAC-AAATGGTATGAATTCTTGA-ATAGGGCACTTTG
1 ATGTGCT-AAAAT-GTAAGGA-AATCATACTAAGT-GTATG-ATT-TTCATATAGAGCACTTAG
* * * * * *
6176287 -TGTGCTAAAATGAGAAGGAAATCATATTGAGTATATGATATTTCAAATAGAGCACTGAG
1 ATGTGCTAAAATG-TAAGGAAATCATACTAAGTGTATGAT-TTTCATATAGAGCACTTAG
6176346 A-GTGCTAA
1 ATGTGCTAA
6176354 TATTATGAGG
Statistics
Matches: 522, Mismatches: 93, Indels: 86
0.74 0.13 0.12
Matches are distributed among these distances:
58 81 0.16
59 374 0.72
60 61 0.12
61 6 0.01
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (58 bp):
ATGTGCTAAAATGTAAGGAAATCATACTAAGTGTATGATTTTCATATAGAGCACTTAG
Found at i:6176499 original size:44 final size:44
Alignment explanation
Indices: 6176449--6177505 Score: 1177
Period size: 44 Copynumber: 25.0 Consensus size: 44
6176439 TTAGTGATGC
* * *
6176449 AATAATGATAAGTATATTGGTAAAATAAACTTACAAGCTTATAG
1 AATAATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
* *
6176493 AATAATGGTATGTATATTGGTAAAATAAGCTTACGAGCTTATGG
1 AATAATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
* * *
6176537 AAAAATGATAAGTATATT-GTGAAATAAGCTTACGAGCTTATGA
1 AATAATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
* *
6176580 AATAATGGTGAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
1 AATAATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
*
6176624 AATAATGATGAA-TATAATGGTAAAATAAGCTTACGAGCTTATGG
1 AATAATGAT-AAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
*
6176668 AATAATGATGAA-TATATTGGTAAAATAAGCTTACGAGCTTATGA
1 AATAATGAT-AAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
* * *
6176712 AATAATGGTAAATATATT-GTAAAATAAGTTTACGAGC---T--
1 AATAATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
6176750 --T-ATGA-AA-TA-A-TGGTAAAATAAGCTTACGAGCTTATGG
1 AATAATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
* *
6176787 AATAATGATGAA-TATATTGGTAAAATAAGTTTACGAGCTTATGA
1 AATAATGAT-AAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
* * * *
6176831 AATAATGGTAAATATATT-GTAAATTAAGCTTACAAGC---T--
1 AATAATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
*
6176869 --T-ATGA-AA-TA-A-TGGTAAAATAAGCTTATGAGCTTATGG
1 AATAATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
* *
6176906 AATAATGATGAA-TATATTGGGAAAATAAGCTTACGAGCTTATGA
1 AATAATGAT-AAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
* * *
6176950 AATAATGGTAAATATATT-GTAAAATAAGCTTACGAGCTTATGA
1 AATAATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
* *
6176993 AATAATGGTAA--ATATTGGTAAAATAAGCTTACGAGCTTATAG
1 AATAATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
* *
6177035 AATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATAG
1 AATAATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
* * * *
6177079 AAAAAT-AGTAAGTAGATT-GTAAAATAAGCTTACGAGCTTCTAG
1 AATAATGA-TAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
* *
6177122 AAAAAT-AGTAAGTAGATT-GTAAAATAAGCTTACGAGCTTATGG
1 AATAATGA-TAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
* * * *
6177165 AAAAATGGTAAGTAGATT-GTAAAATAAGCTTACGAGCTTATGA
1 AATAATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
* *
6177208 AAAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
1 AATAATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
* *
6177252 AA-AA--AT-GGTA-ATTGGTAAAATAAGCTTAAGAGCTTATGGG
1 AATAATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTAT-GG
* *
6177292 AA-AATGGTAAGTATATT-GTAAAATAAGATTACGAGCTTATGG
1 AATAATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
* * *
6177334 AAATATTG-TAAGTATGTT-GTAAAATAAGCTTACGAGCTTATAG
1 -AATAATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
* * * * *
6177377 AAAAATGGTAAGTAGAAT-GTAAAATAAGCTTACGAGCTTATAG
1 AATAATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
* *
6177420 TATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
1 AATAATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
*
6177464 AATAATGATAAGTATATTAGTAAAATAAGCTTACGAGCTTAT
1 AATAATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
6177506 TGGATAAATG
Statistics
Matches: 892, Mismatches: 75, Indels: 92
0.84 0.07 0.09
Matches are distributed among these distances:
31 2 0.00
32 36 0.04
33 4 0.00
34 4 0.00
35 8 0.01
36 2 0.00
39 28 0.03
40 19 0.02
41 6 0.01
42 50 0.06
43 343 0.38
44 389 0.44
45 1 0.00
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (44 bp):
AATAATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
Found at i:6176572 original size:43 final size:43
Alignment explanation
Indices: 6176452--6177520 Score: 1177
Period size: 43 Copynumber: 25.2 Consensus size: 43
6176442 GTGATGCAAT
* * * * *
6176452 AATGATAAGTATATTGGTAAAATAAACTTACAAGCTTATAGAAT
1 AATGGTAAGTATATT-GTAAAATAAGCTTACGAGCTTATGGAAA
*
6176496 AATGGTATGTATATTGGTAAAATAAGCTTACGAGCTTATGGAAA
1 AATGGTAAGTATATT-GTAAAATAAGCTTACGAGCTTATGGAAA
* *
6176540 AATGATAAGTATATTGTGAAATAAGCTTACGAGCTTAT-GAAA
1 AATGGTAAGTATATTGTAAAATAAGCTTACGAGCTTATGGAAA
* *
6176582 TAATGGTGAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAAT
1 -AATGGTAAGTATATT-GTAAAATAAGCTTACGAGCTTATGGAAA
* * *
6176627 AATGATGAA-TATAATGGTAAAATAAGCTTACGAGCTTATGGAAT
1 AATGGT-AAGTAT-ATTGTAAAATAAGCTTACGAGCTTATGGAAA
*
6176671 AATGATGAA-TATATTGGTAAAATAAGCTTACGAGCTTAT-GAAA
1 AATGGT-AAGTATATT-GTAAAATAAGCTTACGAGCTTATGGAAA
* *
6176714 TAATGGTAAATATATTGTAAAATAAGTTTACGAGCTTAT-G---
1 -AATGGTAAGTATATTGTAAAATAAGCTTACGAGCTTATGGAAA
* *
6176754 -A----AA-TA-ATGGTAAAATAAGCTTACGAGCTTATGGAAT
1 AATGGTAAGTATATTGTAAAATAAGCTTACGAGCTTATGGAAA
* *
6176790 AATGATGAA-TATATTGGTAAAATAAGTTTACGAGCTTAT-GAAA
1 AATGGT-AAGTATATT-GTAAAATAAGCTTACGAGCTTATGGAAA
* * *
6176833 TAATGGTAAATATATTGTAAATTAAGCTTACAAGCTTAT-G---
1 -AATGGTAAGTATATTGTAAAATAAGCTTACGAGCTTATGGAAA
* * *
6176873 -A----AA-TA-ATGGTAAAATAAGCTTATGAGCTTATGGAAT
1 AATGGTAAGTATATTGTAAAATAAGCTTACGAGCTTATGGAAA
* *
6176909 AATGATGAA-TATATTGGGAAAATAAGCTTACGAGCTTAT-GAAA
1 AATGGT-AAGTATATT-GTAAAATAAGCTTACGAGCTTATGGAAA
*
6176952 TAATGGTAAATATATTGTAAAATAAGCTTACGAGCTTAT-GAAA
1 -AATGGTAAGTATATTGTAAAATAAGCTTACGAGCTTATGGAAA
* *
6176995 TAATGGTAA--ATATTGGTAAAATAAGCTTACGAGCTTATAGAAT
1 -AATGGTAAGTATATT-GTAAAATAAGCTTACGAGCTTATGGAAA
*
6177038 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATAGAAA
1 AATGGTAAGTATATT-GTAAAATAAGCTTACGAGCTTATGGAAA
* * * *
6177082 AATAGTAAGTAGATTGTAAAATAAGCTTACGAGCTTCTAGAAA
1 AATGGTAAGTATATTGTAAAATAAGCTTACGAGCTTATGGAAA
* *
6177125 AATAGTAAGTAGATTGTAAAATAAGCTTACGAGCTTATGGAAA
1 AATGGTAAGTATATTGTAAAATAAGCTTACGAGCTTATGGAAA
* *
6177168 AATGGTAAGTAGATTGTAAAATAAGCTTACGAGCTTATGAAAA
1 AATGGTAAGTATATTGTAAAATAAGCTTACGAGCTTATGGAAA
6177211 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAAA
1 AATGGTAAGTATATT-GTAAAATAAGCTTACGAGCTTATGGAAA
* * *
6177255 AATGGT-A--AT-TGGTAAAATAAGCTTAAGAGCTTATGGGAA
1 AATGGTAAGTATATTGTAAAATAAGCTTACGAGCTTATGGAAA
*
6177294 AATGGTAAGTATATTGTAAAATAAGATTACGAGCTTATGGAAA
1 AATGGTAAGTATATTGTAAAATAAGCTTACGAGCTTATGGAAA
* * * *
6177337 TATTGTAAGTATGTTGTAAAATAAGCTTACGAGCTTATAGAAA
1 AATGGTAAGTATATTGTAAAATAAGCTTACGAGCTTATGGAAA
* * * * *
6177380 AATGGTAAGTAGAATGTAAAATAAGCTTACGAGCTTATAGTAT
1 AATGGTAAGTATATTGTAAAATAAGCTTACGAGCTTATGGAAA
*
6177423 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAAT
1 AATGGTAAGTATATT-GTAAAATAAGCTTACGAGCTTATGGAAA
* *
6177467 AATGATAAGTATATTAGTAAAATAAGCTTACGAGCTTATTGGATA
1 AATGGTAAGTATATT-GTAAAATAAGCTTACGAGCTTA-TGGAAA
6177512 AATGGTAAG
1 AATGGTAAG
6177521 AAGATTGATA
Statistics
Matches: 900, Mismatches: 78, Indels: 93
0.84 0.07 0.09
Matches are distributed among these distances:
32 46 0.05
33 6 0.01
34 4 0.00
37 2 0.00
38 2 0.00
39 32 0.04
40 2 0.00
41 7 0.01
42 45 0.05
43 375 0.42
44 361 0.40
45 18 0.02
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (43 bp):
AATGGTAAGTATATTGTAAAATAAGCTTACGAGCTTATGGAAA
Found at i:6176575 original size:87 final size:87
Alignment explanation
Indices: 6176452--6177520 Score: 1207
Period size: 87 Copynumber: 12.6 Consensus size: 87
6176442 GTGATGCAAT
* * * *
6176452 AATGATAAGTATATTGGTAAAATAAACTTACAAGCTTATAGAATAATGGTATGTATATTGGTAAA
1 AATGATAAGTATATT-GTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAA
6176517 ATAAGCTTACGAGCTTATGGAAA
65 ATAAGCTTACGAGCTTATGGAAA
* * *
6176540 AATGATAAGTATATTGTGAAATAAGCTTACGAGCTTATGAAATAATGGTGAGTATATTGGTAAAA
1 AATGATAAGTATATTGTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAAA
*
6176605 TAAGCTTACGAGCTTATGGAAT
66 TAAGCTTACGAGCTTATGGAAA
* *
6176627 AATGATGAA-TATAATGGTAAAATAAGCTTACGAGCTTATGGAATAATGATGAA-TATATTGGTA
1 AATGAT-AAGTAT-ATTGTAAAATAAGCTTACGAGCTTATGGAATAATGGT-AAGTATATTGGTA
6176690 AAATAAGCTTACGAGCTTAT-GAAA
63 AAATAAGCTTACGAGCTTATGGAAA
* * *
6176714 TAATGGTAAATATATTGTAAAATAAGTTTACGAGCTTAT-G----A----AA-TA-A-TGGTAAA
1 -AATGATAAGTATATTGTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAA
*
6176767 ATAAGCTTACGAGCTTATGGAAT
65 ATAAGCTTACGAGCTTATGGAAA
* * *
6176790 AATGATGAA-TATATTGGTAAAATAAGTTTACGAGCTTATGAAATAATGGTAAATATATT-GTAA
1 AATGAT-AAGTATATT-GTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAA
* *
6176853 ATTAAGCTTACAAGC-T-T-----
64 AATAAGCTTACGAGCTTATGGAAA
* * * *
6176870 -ATGA-AA-TA-ATGGTAAAATAAGCTTATGAGCTTATGGAATAATGATGAA-TATATTGGGAAA
1 AATGATAAGTATATTGTAAAATAAGCTTACGAGCTTATGGAATAATGGT-AAGTATATTGGTAAA
6176930 ATAAGCTTACGAGCTTAT-GAAA
65 ATAAGCTTACGAGCTTATGGAAA
* * *
6176952 TAATGGTAAATATATTGTAAAATAAGCTTACGAGCTTATGAAATAATGGTAA--ATATTGGTAAA
1 -AATGATAAGTATATTGTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAA
* *
6177015 ATAAGCTTACGAGCTTATAGAAT
65 ATAAGCTTACGAGCTTATGGAAA
* * * * *
6177038 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATAGAAAAATAGTAAGTAGATT-GTAAA
1 AATGATAAGTATATT-GTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAA
* *
6177102 ATAAGCTTACGAGCTTCTAGAAA
65 ATAAGCTTACGAGCTTATGGAAA
* * *
6177125 AAT-AGTAAGTAGATTGTAAAATAAGCTTACGAGCTTATGGAAAAATGGTAAGTAGATT-GTAAA
1 AATGA-TAAGTATATTGTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAA
*
6177188 ATAAGCTTACGAGCTTATGAAAA
65 ATAAGCTTACGAGCTTATGGAAA
* *
6177211 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAAAAAT-G---GTA-ATTGGTAAA
1 AATGATAAGTATATT-GTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAA
* *
6177271 ATAAGCTTAAGAGCTTATGGGAA
65 ATAAGCTTACGAGCTTATGGAAA
* * * *
6177294 AATGGTAAGTATATTGTAAAATAAGATTACGAGCTTATGGAA-ATATTGTAAGTATGTT-GTAAA
1 AATGATAAGTATATTGTAAAATAAGCTTACGAGCTTATGGAATA-ATGGTAAGTATATTGGTAAA
*
6177357 ATAAGCTTACGAGCTTATAGAAA
65 ATAAGCTTACGAGCTTATGGAAA
* * * * *
6177380 AATGGTAAGTAGAATGTAAAATAAGCTTACGAGCTTATAGTATAATGGTAAGTATATTGGTAAAA
1 AATGATAAGTATATTGTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAAA
*
6177445 TAAGCTTACGAGCTTATGGAAT
66 TAAGCTTACGAGCTTATGGAAA
6177467 AATGATAAGTATATTAGTAAAATAAGCTTACGAGCTTATTGG-ATAAATGGTAAG
1 AATGATAAGTATATT-GTAAAATAAGCTTACGAGCTTA-TGGAAT-AATGGTAAG
6177521 AAGATTGATA
Statistics
Matches: 854, Mismatches: 75, Indels: 103
0.83 0.07 0.10
Matches are distributed among these distances:
75 72 0.08
76 49 0.06
77 9 0.01
78 1 0.00
79 4 0.00
81 2 0.00
82 32 0.04
83 44 0.05
84 3 0.00
85 47 0.06
86 199 0.23
87 263 0.31
88 117 0.14
89 12 0.01
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (87 bp):
AATGATAAGTATATTGTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAAA
TAAGCTTACGAGCTTATGGAAA
Found at i:6176766 original size:32 final size:32
Alignment explanation
Indices: 6176721--6176793 Score: 110
Period size: 32 Copynumber: 2.2 Consensus size: 32
6176711 AAATAATGGT
* *
6176721 AAATATATTGTAAAATAAGTTTACGAGCTTATG
1 AAATA-ATGGTAAAATAAGCTTACGAGCTTATG
6176754 AAATAATGGTAAAATAAGCTTACGAGCTTATG
1 AAATAATGGTAAAATAAGCTTACGAGCTTATG
*
6176786 GAATAATG
1 AAATAATG
6176794 ATGAATATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
32 32 0.86
33 5 0.14
ACGTcount: A:0.44, C:0.07, G:0.18, T:0.32
Consensus pattern (32 bp):
AAATAATGGTAAAATAAGCTTACGAGCTTATG
Found at i:6176813 original size:119 final size:122
Alignment explanation
Indices: 6176510--6177505 Score: 1176
Period size: 119 Copynumber: 7.9 Consensus size: 122
6176500 GTATGTATAT
* * *
6176510 TGGTAAAATAAGCTTACGAGCTTATGGAAAAATGATAAGTATATT-GTGAAATAAGCTTACGAGC
1 TGGTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
6176574 TTATGAAATAATGGTGAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAATGATGAATAT
66 TTATGAAATAATGGTAAGTATATT-GTAAAATAAGCTTACGAGCTTAT-G-A-AA--A-G--TA-
*
6176639 AA
121 AG
*
6176641 TGGTAAAATAAGCTTACGAGCTTATGGAATAATGATGAA-TATATTGGTAAAATAAGCTTACGAG
1 TGGTAAAATAAGCTTACGAGCTTATGGAATAATGGT-AAGTATATTGGTAAAATAAGCTTACGAG
* *
6176705 CTTATGAAATAATGGTAAATATATTGTAAAATAAGTTTACGAGCTTATG-AAA-TAA-
65 CTTATGAAATAATGGTAAGTATATTGTAAAATAAGCTTACGAGCTTATGAAAAGTAAG
* *
6176760 TGGTAAAATAAGCTTACGAGCTTATGGAATAATGATGAA-TATATTGGTAAAATAAGTTTACGAG
1 TGGTAAAATAAGCTTACGAGCTTATGGAATAATGGT-AAGTATATTGGTAAAATAAGCTTACGAG
* * *
6176824 CTTATGAAATAATGGTAAATATATTGTAAATTAAGCTTACAAGCTTATG-AAA-TAA-
65 CTTATGAAATAATGGTAAGTATATTGTAAAATAAGCTTACGAGCTTATGAAAAGTAAG
* * *
6176879 TGGTAAAATAAGCTTATGAGCTTATGGAATAATGATGAA-TATATTGGGAAAATAAGCTTACGAG
1 TGGTAAAATAAGCTTACGAGCTTATGGAATAATGGT-AAGTATATTGGTAAAATAAGCTTACGAG
* *
6176943 CTTATGAAATAATGGTAAATATATTGTAAAATAAGCTTACGAGCTTATGAAATAATGGTAAATAT
65 CTTATGAAATAATGGTAAGTATATTGTAAAATAAGCTTACGAGCTTATG-AA-AA--GT--A-AG
*
6177008 TGGTAAAATAAGCTTACGAGCTTATAGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1 TGGTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* * *
6177073 TTATAGAAA-AATAGTAAGTAGATTGTAAAATAAGCTTACGAGCTTCTAGAAAAATAGTAAG
66 TTAT-GAAATAATGGTAAGTATATTGTAAAATAAGCTTACGAGCTTAT-G--AAA-AGTAAG
* *
6177134 TAGATTGTAAAATAAGCTTACGAGCTTATGGAAAAATGGTAAGTAGATT-GTAAAATAAGCTTAC
1 T-G---GTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTAC
*
6177198 GAGCTTATGAAAAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAAAAATGGTAA
62 GAGCTTATGAAATAATGGTAAGTATATT-GTAAAATAAGCTTACGAGCTTAT-G-AAAA--GTAA
*
6177263 T
122 G
* *
6177264 TGGTAAAATAAGCTTAAGAGCTTATGGGAA-AATGGTAAGTATATT-GTAAAATAAGATTACGAG
1 TGGTAAAATAAGCTTACGAGCTTAT-GGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAG
* *
6177327 CTTATGGAAAT-ATTGTAAGTATGTTGTAAAATAAGCTTACGAGCTTATAGAAAAATGGTAAG
65 CTTAT-GAAATAATGGTAAGTATATTGTAAAATAAGCTTACGAGCTTAT-G-AAAA--GTAAG
* *
6177389 TAGAATGTAAAATAAGCTTACGAGCTTATAGTATAATGGTAAGTATATTGGTAAAATAAGCTTAC
1 T-G---GTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTAC
* *
6177454 GAGCTTATGGAATAATGATAAGTATATTAGTAAAATAAGCTTACGAGCTTAT
62 GAGCTTATGAAATAATGGTAAGTATATT-GTAAAATAAGCTTACGAGCTTAT
6177506 TGGATAAATG
Statistics
Matches: 783, Mismatches: 47, Indels: 70
0.87 0.05 0.08
Matches are distributed among these distances:
119 223 0.28
120 1 0.00
121 3 0.00
122 2 0.00
125 38 0.05
126 73 0.09
127 13 0.02
128 10 0.01
129 180 0.23
130 108 0.14
131 90 0.11
132 42 0.05
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (122 bp):
TGGTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
TTATGAAATAATGGTAAGTATATTGTAAAATAAGCTTACGAGCTTATGAAAAGTAAG
Found at i:6176891 original size:32 final size:32
Alignment explanation
Indices: 6176840--6176912 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
6176830 AAATAATGGT
* *
6176840 AAATATATTGTAAATTAAGCTTACAAGCTTATG
1 AAATA-ATGGTAAAATAAGCTTACAAGCTTATG
**
6176873 AAATAATGGTAAAATAAGCTTATGAGCTTATG
1 AAATAATGGTAAAATAAGCTTACAAGCTTATG
*
6176905 GAATAATG
1 AAATAATG
6176913 ATGAATATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
32 30 0.86
33 5 0.14
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.33
Consensus pattern (32 bp):
AAATAATGGTAAAATAAGCTTACAAGCTTATG
Found at i:6176953 original size:21 final size:21
Alignment explanation
Indices: 6176928--6176997 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
6176918 TATATTGGGA
6176928 AAATAAGCTTACGAGCTTATG
1 AAATAAGCTTACGAGCTTATG
* * ** ** * *
6176949 AAATAATGGTAAATATATTGTA
1 AAATAA-GCTTACGAGCTTATG
6176971 AAATAAGCTTACGAGCTTATG
1 AAATAAGCTTACGAGCTTATG
6176992 AAATAA
1 AAATAA
6176998 TGGTAAATAT
Statistics
Matches: 32, Mismatches: 16, Indels: 2
0.64 0.32 0.04
Matches are distributed among these distances:
21 19 0.59
22 13 0.41
ACGTcount: A:0.46, C:0.09, G:0.16, T:0.30
Consensus pattern (21 bp):
AAATAAGCTTACGAGCTTATG
Found at i:6178218 original size:2 final size:2
Alignment explanation
Indices: 6178213--6178241 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6178203 AGATGGGTGT
6178213 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6178242 GAGTGCATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6183812 original size:12 final size:12
Alignment explanation
Indices: 6183792--6183859 Score: 127
Period size: 12 Copynumber: 5.7 Consensus size: 12
6183782 TTCATGAACA
6183792 AGCTCGTTTATG
1 AGCTCGTTTATG
*
6183804 AGTTCGTTTATG
1 AGCTCGTTTATG
6183816 AGCTCGTTTATG
1 AGCTCGTTTATG
6183828 AGCTCGTTTATG
1 AGCTCGTTTATG
6183840 AGCTCGTTTATG
1 AGCTCGTTTATG
6183852 AGCTCGTT
1 AGCTCGTT
6183860 CATTTATGTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 54 1.00
ACGTcount: A:0.16, C:0.16, G:0.25, T:0.43
Consensus pattern (12 bp):
AGCTCGTTTATG
Found at i:6186288 original size:15 final size:15
Alignment explanation
Indices: 6186268--6186298 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6186258 GACAGAAAAT
6186268 CGATAATAAGTATTG
1 CGATAATAAGTATTG
6186283 CGATAATAAGTATTG
1 CGATAATAAGTATTG
6186298 C
1 C
6186299 CTACCTAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (15 bp):
CGATAATAAGTATTG
Found at i:6187020 original size:2 final size:2
Alignment explanation
Indices: 6187013--6187041 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6187003 GAAAATAATA
6187013 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6187042 GGTTAGAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:6189138 original size:36 final size:36
Alignment explanation
Indices: 6189088--6189163 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
6189078 TTATAGCAAA
*
6189088 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
6189124 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
6189160 AAAA
1 AAAA
6189164 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:6194082 original size:25 final size:25
Alignment explanation
Indices: 6194037--6194121 Score: 109
Period size: 25 Copynumber: 3.3 Consensus size: 25
6194027 TTTAAAACTT
6194037 TAGCAGCAGAACCTCAAAAAAAAAACC
1 TAGCAGCAGAACCTC--AAAAAAAACC
* *
6194064 TAGTAGCAGAACCTCAAAAAAACCC
1 TAGCAGCAGAACCTCAAAAAAAACC
*
6194089 TAGCAGCAGAACCT-TAAAAAAACC
1 TAGCAGCAGAACCTCAAAAAAAACC
6194113 TTAGCAGCA
1 -TAGCAGCA
6194122 ATCCCATCTC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
24 8 0.15
25 30 0.58
27 14 0.27
ACGTcount: A:0.49, C:0.26, G:0.13, T:0.12
Consensus pattern (25 bp):
TAGCAGCAGAACCTCAAAAAAAACC
Found at i:6195910 original size:18 final size:18
Alignment explanation
Indices: 6195876--6195911 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6195866 AAATAAATTT
*
6195876 CTTTAAAAACCAGTTTCC
1 CTTTAAAAACCAATTTCC
*
6195894 CTTTAAAAATCAATTTCC
1 CTTTAAAAACCAATTTCC
6195912 GTTAAAATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (18 bp):
CTTTAAAAACCAATTTCC
Found at i:6200754 original size:17 final size:17
Alignment explanation
Indices: 6200707--6200758 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 17
6200697 AAATAAATAC
6200707 AAATTAATTT-CTTTAA
1 AAATTAATTTCCTTTAA
** *
6200723 AAACCAGTTTCCCTTTAA
1 AAATTAATTT-CCTTTAA
6200741 AAATTAATTTCCTTTAA
1 AAATTAATTTCCTTTAA
6200758 A
1 A
6200759 TTCAAATAGA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 7 0.25
17 8 0.29
18 13 0.46
ACGTcount: A:0.40, C:0.15, G:0.02, T:0.42
Consensus pattern (17 bp):
AAATTAATTTCCTTTAA
Found at i:6201271 original size:23 final size:24
Alignment explanation
Indices: 6201245--6201292 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
6201235 TTTTTAACAA
6201245 TTTA-ATTTTCATTTTTAT-TATTT
1 TTTATATTTT-ATTTTTATGTATTT
*
6201268 TTTATATTTTATTTTTGTGTATTT
1 TTTATATTTTATTTTTATGTATTT
6201292 T
1 T
6201293 AGATTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (24 bp):
TTTATATTTTATTTTTATGTATTT
Found at i:6201466 original size:22 final size:23
Alignment explanation
Indices: 6201441--6201486 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
6201431 TTTGAACATT
*
6201441 TTTTATAATAATAA-TAATTATA
1 TTTTATAATAATAATTAAATATA
* *
6201463 TTTTATCATTATAATTAAATATA
1 TTTTATAATAATAATTAAATATA
6201486 T
1 T
6201487 AGCTACAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
TTTTATAATAATAATTAAATATA
Found at i:6201793 original size:137 final size:136
Alignment explanation
Indices: 6201602--6201863 Score: 366
Period size: 137 Copynumber: 1.9 Consensus size: 136
6201592 GTTATAAAAC
* *
6201602 TTGTCACTATATAACATTTTTGCACCAAAAAATAGGGAGACATATTTCTAATAGTATAAGTTTTC
1 TTGTCACTATATAACATTTTTGCACCAAAAAATA-GGAGAAATAGTTCTAATAGTATAAGTTTTC
*
6201667 ATAATGATTAAAATATATAA-ATACAAAATAATTAATTACTAAAAACTTAAATTTTATTAATTAC
65 ATAATGATTAAAATATATAACATA-AAAATAATTAATTACAAAAAACTTAAATTTTATTAATTAC
6201731 AATATATT
129 AATATATT
* * * * * *
6201739 TTGTTACTATATAACTTTTTTGACACTAAAAATATA-GAGAAATGGTTCTGATAGTATAATTTTT
1 TTGTCACTATATAACATTTTTG-CACCAAAAA-ATAGGAGAAATAGTTCTAATAGTATAAGTTTT
* *
6201803 TATAATGATTAAAATATATAAGCATAAAAATAATTAATTACAAAAAACTTGAATTTTATTA
64 CATAATGATTAAAATATATAA-CATAAAAATAATTAATTACAAAAAACTTAAATTTTATTA
6201864 TTTGATGTGA
Statistics
Matches: 110, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
137 63 0.57
138 41 0.37
139 6 0.05
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (136 bp):
TTGTCACTATATAACATTTTTGCACCAAAAAATAGGAGAAATAGTTCTAATAGTATAAGTTTTCA
TAATGATTAAAATATATAACATAAAAATAATTAATTACAAAAAACTTAAATTTTATTAATTACAA
TATATT
Found at i:6203122 original size:11 final size:11
Alignment explanation
Indices: 6203106--6203137 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
6203096 GAGGGGTACT
6203106 AAAATAAAACA
1 AAAATAAAACA
6203117 AAAATAAAACA
1 AAAATAAAACA
6203128 AAAATAAAAC
1 AAAATAAAAC
6203138 TTTTAAGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.81, C:0.09, G:0.00, T:0.09
Consensus pattern (11 bp):
AAAATAAAACA
Found at i:6205759 original size:2 final size:2
Alignment explanation
Indices: 6205752--6205802 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
6205742 CTCATGACTG
6205752 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6205794 AT AT AT AT A
1 AT AT AT AT A
6205803 ATTTCTAACA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6207998 original size:178 final size:176
Alignment explanation
Indices: 6207482--6208044 Score: 516
Period size: 178 Copynumber: 3.1 Consensus size: 176
6207472 CGAATTTTTA
** * * *
6207482 TCACAAATTTTTCCCTCCAATTTTTTGGCGCCAAATTAAAGGCATATAGTGACAAATTTTGCAAC
1 TCACAAAGATTTCTCTCCAATTTTTT-GCGCCAAA-TAAAGTCATATAGTGACAAATTTTGTAAC
* * * * * *
6207547 TAAAAGTTTTAGTAATTATGACAAAAAAATTGTCACAACAAATAATGAGATTTAGATTTGTTGTG
64 TATAAG-TTTAATAATTATTAAAAAAAAATTGTCACAACAAATAATGAAATTCA-ATTT-TTGTG
* * * *
6207612 ACAAATTTTGTTTGT-GATTATATATTTTAATTATAGTGACAAAATGTATAG
126 ACAAATTATATTTGTAG-TTATATATTTTAATTATAGTGACAAAATATATTG
* * ** * * * *
6207663 TCATAAATGA-TTATCTCCAATTTTTTGTACAAAAACAAAATCATATAGTGACATGA-TTTGTAA
1 TCACAAA-GATTTCTCTCCAATTTTTTGCGC-CAAATAAAGTCATATAGTGACA-AATTTTGTAA
* * *
6207726 TTATAAGTTATAATTATTGTTACAAAAAAAATTGTCACAACAAATAATGAAATTCAAGTTTTTAG
63 CTATAAGTT-TAATAATTATTA-AAAAAAAATTGTCACAACAAATAATGAAATTCAA-TTTTT-G
* * *
6207791 T-A-AAA-AATATTTTTCA-TTATATGTTTTAATTATAGTGACAAAATATATTG
124 TGACAAATTATATTTGT-AGTTATATATTTTAATTATAGTGACAAAATATATTG
*
6207841 TCACAAAGATTTCTCTCCATATTTTTTGCGCCAAA-AAAGTCATATATTGACAAATTTTGTAACT
1 TCACAAAGATTTCTCTCCA-ATTTTTTGCGCCAAATAAAGTCATATAGTGACAAATTTTGTAACT
* *
6207905 ATAAGTGTTAATAATTATTATAAAAAAATATTGCCAC-A-AAATAATGATATTCACATTTTTGTG
65 ATAAGT-TTAATAATTATTA-AAAAAAA-ATTGTCACAACAAATAATGAAATTCA-ATTTTTGTG
* * **
6207968 ACAAATTATATTTGTAGTTATAAATTTTAATTATAGTGATATCATATATTG
126 ACAAATTATATTTGTAGTTATATATTTTAATTATAGTGACAAAATATATTG
* ** * *
6208019 TCATAATTATTTTTCTCCACTTTTTT
1 TCACAAAGATTTCTCTCCAATTTTTT
6208045 TGTTTTAAAA
Statistics
Matches: 308, Mismatches: 55, Indels: 42
0.76 0.14 0.10
Matches are distributed among these distances:
175 2 0.01
176 21 0.07
177 60 0.19
178 112 0.36
179 14 0.05
180 40 0.13
181 59 0.19
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.40
Consensus pattern (176 bp):
TCACAAAGATTTCTCTCCAATTTTTTGCGCCAAATAAAGTCATATAGTGACAAATTTTGTAACTA
TAAGTTTAATAATTATTAAAAAAAAATTGTCACAACAAATAATGAAATTCAATTTTTGTGACAAA
TTATATTTGTAGTTATATATTTTAATTATAGTGACAAAATATATTG
Found at i:6208279 original size:138 final size:137
Alignment explanation
Indices: 6208122--6208384 Score: 395
Period size: 138 Copynumber: 1.9 Consensus size: 137
6208112 TCACATCAAA
6208122 TAATAAAATTTAAGTTTTTTGTAATTAATTATTTTTATACCTATATATTTTAATCATTATAAAAA
1 TAATAAAATTTAAGTTTTTTGTAATTAATTATTTTTATACCTATATATTTTAATCATTAT-AAAA
*
6208187 AATTATACTATCAGAACTATTTCT-CTATATTTTTAGTGTCAAAAA-GTTATATAGTAACAAAAT
65 AATTATACTATCAGAAATATTTCTCCTAT-TTTTTAGTG-CAAAAATGTTATATAGTAACAAAAT
6208250 ATATTGTAAT
128 ATATTGTAAT
* ** *
6208260 TAATAAAATTTAAGTTTTTTGTAATTAATTATTTTTGTAGTTATATATTTTAATCATTATGAAAA
1 TAATAAAATTTAAGTTTTTTGTAATTAATTATTTTTATACCTATATATTTTAATCATTATAAAAA
* * * *
6208325 CTTATACTATTAGAAATATTTCTCCCTATTTTTTGGTGCAAAAATGTTATATAGTGACAA
66 ATTATACTATCAGAAATATTTCT-CCTATTTTTTAGTGCAAAAATGTTATATAGTAACAA
6208385 GTTTTGTAAC
Statistics
Matches: 113, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
137 30 0.27
138 79 0.70
139 4 0.04
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (137 bp):
TAATAAAATTTAAGTTTTTTGTAATTAATTATTTTTATACCTATATATTTTAATCATTATAAAAA
ATTATACTATCAGAAATATTTCTCCTATTTTTTAGTGCAAAAATGTTATATAGTAACAAAATATA
TTGTAAT
Found at i:6209252 original size:17 final size:17
Alignment explanation
Indices: 6209230--6209282 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
6209220 CTCTATTTGA
6209230 TTTTAAAGGAAATTAAT
1 TTTTAAAGGAAATTAAT
**
6209247 TTTTAAAGGGAAATTGGT
1 TTTTAAA-GGAAATTAAT
*
6209265 TTTTAAA-GAAATTTAT
1 TTTTAAAGGAAATTAAT
6209281 TT
1 TT
6209283 GTATTTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 9 0.29
17 7 0.23
18 15 0.48
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (17 bp):
TTTTAAAGGAAATTAAT
Found at i:6214079 original size:133 final size:135
Alignment explanation
Indices: 6213829--6214075 Score: 351
Period size: 133 Copynumber: 1.9 Consensus size: 135
6213819 TCACATCAAA
6213829 TAATAAAATTCAAGTTTTTTGTAATTAATTATTTTTATACCTATATATTTTAATCATTATAAAAA
1 TAATAAAATTCAAGTTTTTTGTAATTAATTATTTTTATACCTATATATTTTAATCATTATAAAAA
*
6213894 ATTATACTATCAGAACCATTTCTCTCTATTTTTAGTGTCAAAAAAGTTATAGTAACAAAAATATT
66 ATTATACTATCAGAAACATTTCTCTCTATTTTTAGTGTCAAAAAAGTTATAGTAACAAAAATATT
6213959 GTAAT
131 GTAAT
* * * * *
6213964 TAATAAAATTTAAG-TTTTTGTAATTAATTATTTTTGTA-TTGTATATTTTAATCATTATGAAAA
1 TAATAAAATTCAAGTTTTTTGTAATTAATTATTTTTATACCTATATATTTTAATCATTATAAAAA
* * * * *
6214027 CTTATACTATTAGAAATATTTC-C-CTATTTTTTG-GTGCAAAAATGTTATA
66 ATTATACTATCAGAAACATTTCTCTCTATTTTTAGTGT-CAAAAAAGTTATA
6214076 TAGTGACAAG
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
130 2 0.02
131 21 0.21
132 1 0.01
133 40 0.40
134 23 0.23
135 13 0.13
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.46
Consensus pattern (135 bp):
TAATAAAATTCAAGTTTTTTGTAATTAATTATTTTTATACCTATATATTTTAATCATTATAAAAA
ATTATACTATCAGAAACATTTCTCTCTATTTTTAGTGTCAAAAAAGTTATAGTAACAAAAATATT
GTAAT
Found at i:6216530 original size:3 final size:3
Alignment explanation
Indices: 6216522--6216547 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6216512 GAATTGGGTT
6216522 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
6216548 CGTGTTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:6221492 original size:2 final size:2
Alignment explanation
Indices: 6221485--6221514 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6221475 TTCTCATGAC
6221485 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6221515 ATTTAACATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6224595 original size:31 final size:31
Alignment explanation
Indices: 6224553--6224625 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
6224543 AAAATTAAAT
*
6224553 GTTTAGGTACTAAAATGGAT-CAAAACTTATA
1 GTTTAGGTACTAAAACGG-TCCAAAACTTATA
*
6224584 GTTTAGATACTAAAACGGTCCAAAACTTATA
1 GTTTAGGTACTAAAACGGTCCAAAACTTATA
*
6224615 ATTTAGGTACT
1 GTTTAGGTACT
6224626 TAATGCACAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 1 0.03
31 36 0.97
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (31 bp):
GTTTAGGTACTAAAACGGTCCAAAACTTATA
Found at i:6224845 original size:20 final size:19
Alignment explanation
Indices: 6224815--6224852 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
6224805 ATTTAAACTA
6224815 TATTAATTTTTTATTCAGG
1 TATTAATTTTTTATTCAGG
*
6224834 TATTAGATTTTTTTTTCAG
1 TATTA-ATTTTTTATTCAG
6224853 AAACGTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.24, C:0.05, G:0.11, T:0.61
Consensus pattern (19 bp):
TATTAATTTTTTATTCAGG
Found at i:6224865 original size:2 final size:2
Alignment explanation
Indices: 6224860--6224886 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6224850 CAGAAACGTT
6224860 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
6224887 TTATTTTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6225662 original size:70 final size:70
Alignment explanation
Indices: 6225579--6225718 Score: 262
Period size: 70 Copynumber: 2.0 Consensus size: 70
6225569 CCCATAGCAA
*
6225579 TATAAAATTAAAAGTAATAAATTTGAGTTTACAATACAACGGAGCTCCTAAATCATCCAAATAAT
1 TATAAAATAAAAAGTAATAAATTTGAGTTTACAATACAACGGAGCTCCTAAATCATCCAAATAAT
6225644 ACACT
66 ACACT
*
6225649 TATAAAATAAAAAGTAATAAATTTGAGTTTACAATACAAGGGAGCTCCTAAATCATCCAAATAAT
1 TATAAAATAAAAAGTAATAAATTTGAGTTTACAATACAACGGAGCTCCTAAATCATCCAAATAAT
6225714 ACACT
66 ACACT
6225719 GAGTTTAAAT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (70 bp):
TATAAAATAAAAAGTAATAAATTTGAGTTTACAATACAACGGAGCTCCTAAATCATCCAAATAAT
ACACT
Found at i:6226452 original size:20 final size:20
Alignment explanation
Indices: 6226429--6226470 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
6226419 TCAGTATTGG
* *
6226429 TACTAACCTATGGGTATCGA
1 TACTAACCCATGGATATCGA
*
6226449 TACTAACCCCTGGATATCGA
1 TACTAACCCATGGATATCGA
6226469 TA
1 TA
6226471 ATACTAACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (20 bp):
TACTAACCCATGGATATCGA
Found at i:6237545 original size:26 final size:26
Alignment explanation
Indices: 6237506--6237564 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
6237496 ACCGAAGTGC
* *
6237506 TAATACACATAAGGTTGTGCCCACCA
1 TAATACACACAAGGTCGTGCCCACCA
*
6237532 TAATACACACAAGGTCGTGCCTACCA
1 TAATACACACAAGGTCGTGCCCACCA
6237558 T-ATACAC
1 TAATACAC
6237565 TAAGTTTCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 6 0.20
26 24 0.80
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.22
Consensus pattern (26 bp):
TAATACACACAAGGTCGTGCCCACCA
Found at i:6238799 original size:20 final size:20
Alignment explanation
Indices: 6238774--6238812 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6238764 ATTAATTTTT
*
6238774 AATTTTAAATAGTTTATTTA
1 AATTTTAAATACTTTATTTA
6238794 AATTTTAAATACTTTATTT
1 AATTTTAAATACTTTATTT
6238813 TCTGTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (20 bp):
AATTTTAAATACTTTATTTA
Found at i:6239019 original size:17 final size:18
Alignment explanation
Indices: 6238997--6239030 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
6238987 TCAACTTCAT
6238997 AAATTTAAAAT-TAATTA
1 AAATTTAAAATATAATTA
6239014 AAATTTAAAATATAATT
1 AAATTTAAAATATAATT
6239031 TAATTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATTTAAAATATAATTA
Found at i:6250513 original size:25 final size:25
Alignment explanation
Indices: 6250478--6250567 Score: 126
Period size: 25 Copynumber: 3.6 Consensus size: 25
6250468 TTTTATTTTT
* * *
6250478 AAAACCATAGCAGTAGAACTTCAAA
1 AAAACCCTAGCAGCAGAACCTCAAA
**
6250503 AAAAAACTAGCAGCAGAACCTCAAA
1 AAAACCCTAGCAGCAGAACCTCAAA
*
6250528 AAAACCCTAGCAACAGAACCTCAAA
1 AAAACCCTAGCAGCAGAACCTCAAA
6250553 AAAACCCTAGCAGCA
1 AAAACCCTAGCAGCA
6250568 ATCCCATCTC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.52, C:0.27, G:0.11, T:0.10
Consensus pattern (25 bp):
AAAACCCTAGCAGCAGAACCTCAAA
Found at i:6254598 original size:17 final size:17
Alignment explanation
Indices: 6254572--6254608 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
6254562 ATGCCCTTTT
*
6254572 TTGATCTACCGTTCCAC
1 TTGATATACCGTTCCAC
6254589 TTGATATACCGTTCCAC
1 TTGATATACCGTTCCAC
6254606 TTG
1 TTG
6254609 TTCTAATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.30, G:0.14, T:0.38
Consensus pattern (17 bp):
TTGATATACCGTTCCAC
Found at i:6255938 original size:60 final size:60
Alignment explanation
Indices: 6255798--6255957 Score: 173
Period size: 60 Copynumber: 2.7 Consensus size: 60
6255788 TATTATTCTT
* * * * * *
6255798 ATTTTAAATTGGTTCCTAAACTTTTAAATATTTTAA-TCCA-TCCTTAAACTATGACTCC
1 ATTTTAAATTAGTCCCTAAACTTTTGAATATTTTAATTTCATTACTTAAACTATGACCCC
* * * *
6255856 AATCTAAATTAGTCCTTAAACTTTTGAATATTTTAATTTCATTAC-TACACTATGACCCCC
1 ATTTTAAATTAGTCCCTAAACTTTTGAATATTTTAATTTCATTACTTAAACTATGA-CCCC
* **
6255916 TTTTTAAATTAGTCCCTAAACTTTTGAATATTCAAATTTCAT
1 ATTTTAAATTAGTCCCTAAACTTTTGAATATTTTAATTTCAT
6255958 CCCTAAATCC
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
58 30 0.36
59 12 0.14
60 41 0.49
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.43
Consensus pattern (60 bp):
ATTTTAAATTAGTCCCTAAACTTTTGAATATTTTAATTTCATTACTTAAACTATGACCCC
Found at i:6257842 original size:17 final size:17
Alignment explanation
Indices: 6257795--6257847 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
6257785 AAATAAATAC
6257795 AAATAAATTT-CTTTAA
1 AAATAAATTTCCTTTAA
** *
6257811 AAACCAGTTTCCCTTTAA
1 AAATAAATTT-CCTTTAA
*
6257829 AAATTAATTTCCTTTAA
1 AAATAAATTTCCTTTAA
6257846 AA
1 AA
6257848 TCAAATAGAG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 7 0.24
17 9 0.31
18 13 0.45
ACGTcount: A:0.43, C:0.15, G:0.02, T:0.40
Consensus pattern (17 bp):
AAATAAATTTCCTTTAA
Found at i:6258877 original size:137 final size:137
Alignment explanation
Indices: 6258686--6258947 Score: 357
Period size: 137 Copynumber: 1.9 Consensus size: 137
6258676 GTTACAAAAC
* * *
6258686 TTGTCACTATATAACATTTTTTCACCAAAAAATAGGGAGACATATTTCTAATAGTATAAGTTTTC
1 TTGTCACTATATAACATTTTTTCACCAAAAAATAGAGAGAAATAGTTCTAATAGTATAAGTTTTC
*
6258751 ATAATGATTAAAATATATAA-ATACAAAATAATTAATTACTAAAAACTTAAATTTTATTAATTAC
66 ATAATGATTAAAATATATAAGATA-AAAATAATTAATTACAAAAAACTTAAATTTTATTAATTAC
6258815 AATATATT
130 AATATATT
* * * * * * *
6258823 TTGTTACTATATAAC-TTTTTTGACACTAAAAATATAGAGAAATGGTTCTGATAGTATAATTTTT
1 TTGTCACTATATAACATTTTTTCAC-CAAAAAATAGAGAGAAATAGTTCTAATAGTATAAGTTTT
* * *
6258887 TATAATGATTTAAATATATAAGTATAAAAATAATTAATTACAAAAAACTTGAATTTTATTA
65 CATAATGATTAAAATATATAAG-ATAAAAATAATTAATTACAAAAAACTTAAATTTTATTA
6258948 TTTGATGTGA
Statistics
Matches: 108, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
136 8 0.07
137 64 0.59
138 33 0.31
139 3 0.03
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (137 bp):
TTGTCACTATATAACATTTTTTCACCAAAAAATAGAGAGAAATAGTTCTAATAGTATAAGTTTTC
ATAATGATTAAAATATATAAGATAAAAATAATTAATTACAAAAAACTTAAATTTTATTAATTACA
ATATATT
Found at i:6263920 original size:15 final size:15
Alignment explanation
Indices: 6263881--6263912 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6263871 ACTATTGTGA
*
6263881 CAAATTTAATTTTGT
1 CAAAATTAATTTTGT
6263896 CAAAATTAATTTTGT
1 CAAAATTAATTTTGT
6263911 CA
1 CA
6263913 CTATTAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (15 bp):
CAAAATTAATTTTGT
Found at i:6264946 original size:134 final size:139
Alignment explanation
Indices: 6264704--6264963 Score: 372
Period size: 135 Copynumber: 1.9 Consensus size: 139
6264694 TCACATCAAA
6264704 TAATAAAATTCAAGTTTTTTGTAATTAATTATTTTTATACTTATATATTTTAATCATTATAAAAA
1 TAATAAAATTCAAGTTTTTTGTAATTAATTATTTTTATACTTATATATTTTAATCATTATAAAAA
*
6264769 AATTATACTATAAGAACTATTTCTCTATATTTTTAGTGTCAAAAA-GTTAT-TAGTAACAAAATA
66 AATTATACTATAAGAAATATTTCTCTATATTTTTAGTGTCAAAAATGTTATATAGTAACAAAATA
6264832 TATTGTAAT
131 TATTGTAAT
* * * *
6264841 TAATAAAATTTAAG-TTTTTGTAATTAATTA-TTTTGTAGTTATATATTTTAATCATTAT-GAAA
1 TAATAAAATTCAAGTTTTTTGTAATTAATTATTTTTATACTTATATATTTTAATCATTATAAAAA
* * * *
6264903 ACTTATACTATTAGAAATATTTCTCCCTAT-TTTTTGGTG-CAAAAATGTTATATAGTGACAA
66 AATTATACTATAAGAAATATTTCT--CTATATTTTTAGTGTCAAAAATGTTATATAGTAACAA
6264964 GTTTTGTAAC
Statistics
Matches: 110, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
134 30 0.27
135 39 0.35
136 28 0.25
137 13 0.12
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (139 bp):
TAATAAAATTCAAGTTTTTTGTAATTAATTATTTTTATACTTATATATTTTAATCATTATAAAAA
AATTATACTATAAGAAATATTTCTCTATATTTTTAGTGTCAAAAATGTTATATAGTAACAAAATA
TATTGTAAT
Found at i:6265118 original size:20 final size:21
Alignment explanation
Indices: 6265077--6265118 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
6265067 GTTTGCAGCT
6265077 ATATATTTAATTATAATGAAAA
1 ATATATTTAATTATAA-GAAAA
6265099 ATATA-TTATATTATAA-AAAA
1 ATATATTTA-ATTATAAGAAAA
6265119 CAAATGTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 4 0.21
21 3 0.16
22 12 0.63
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
ATATATTTAATTATAAGAAAA
Found at i:6268684 original size:58 final size:58
Alignment explanation
Indices: 6268591--6268746 Score: 149
Period size: 58 Copynumber: 2.7 Consensus size: 58
6268581 GGATTTAGGG
** * *
6268591 ATGAAATTTGAATATTC-AAAGTTTAGGGACTAATTTAAAAGGGGGTCATAGTGT-AGTA
1 ATGAAATTAAAATATTCAAAAGTTTAAGGAC-AATTTAAAAGGGAGTCATAGTGTAAG-A
* ** * *
6268649 ATGAAATTAAAATATTCAAAAGTTTAAGGACAATTTAGATTGGAGTCATAGTTTAAGG
1 ATGAAATTAAAATATTCAAAAGTTTAAGGACAATTTAAAAGGGAGTCATAGTGTAAGA
* *
6268707 ATG-GATTAAAATATTTAAAAGTTT-AGGAACCAATTTAAAA
1 ATGAAATTAAAATATTCAAAAGTTTAAGG-A-CAATTTAAAA
6268747 AGAATAATAT
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
56 3 0.04
57 20 0.25
58 44 0.54
59 14 0.17
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.33
Consensus pattern (58 bp):
ATGAAATTAAAATATTCAAAAGTTTAAGGACAATTTAAAAGGGAGTCATAGTGTAAGA
Found at i:6270079 original size:28 final size:29
Alignment explanation
Indices: 6270038--6270100 Score: 119
Period size: 28 Copynumber: 2.2 Consensus size: 29
6270028 TGATCATTGC
6270038 AAATTTTGAAGAGGATAGCAATGTTCTGA
1 AAATTTTGAAGAGGATAGCAATGTTCTGA
6270067 AAATTTTG-AGAGGATAGCAATGTTCTGA
1 AAATTTTGAAGAGGATAGCAATGTTCTGA
6270095 AAATTT
1 AAATTT
6270101 ATTCGATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 26 0.76
29 8 0.24
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.33
Consensus pattern (29 bp):
AAATTTTGAAGAGGATAGCAATGTTCTGA
Found at i:6270603 original size:136 final size:135
Alignment explanation
Indices: 6270422--6270678 Score: 358
Period size: 136 Copynumber: 1.9 Consensus size: 135
6270412 CACATAAAAT
6270422 ATAAAATTCAAGTTTTTTGTAATTAATTATTTTTATACTTATATATTTTAATCATTATAAAAAAT
1 ATAAAATTCAAGTTTTTTGTAATTAATTATTTTTATACTTATATATTTTAATCATTAT-AAAAAT
*
6270487 TATACTATCAGAACCA-TTC-TCTCTATTTTTAGTGTCAAAAAAGTTATATAGTAACAAATATAT
65 TATACTATCAGAAACATTTCTTC-CTATTTTTAGTG-CAAAAAAGTTATATAGTAACAAATATAT
6270550 TGTAATTA
128 TGTAATTA
* * * *
6270558 ATAAAATTTAAGTTTTTTTGTAATTAATTATTTTTGTA-TTGTATATTTTAATCATTATGAAAAT
1 ATAAAATTCAAG-TTTTTTGTAATTAATTATTTTTATACTTATATATTTTAATCATTATAAAAAT
* * * * * *
6270622 TTTACTATTAGAAATATTTCTTCCTATTTTTGGTGCAAAAATGTTATATAGTGACAA
65 TATACTATCAGAAACATTTCTTCCTATTTTTAGTGCAAAAAAGTTATATAGTAACAA
6270679 GTTTTGTAAC
Statistics
Matches: 107, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
135 37 0.35
136 44 0.41
137 26 0.24
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (135 bp):
ATAAAATTCAAGTTTTTTGTAATTAATTATTTTTATACTTATATATTTTAATCATTATAAAAATT
ATACTATCAGAAACATTTCTTCCTATTTTTAGTGCAAAAAAGTTATATAGTAACAAATATATTGT
AATTA
Found at i:6270640 original size:17 final size:19
Alignment explanation
Indices: 6270600--6270640 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
6270590 TTTGTATTGT
6270600 ATATTTTAATCATTATGAA
1 ATATTTTAATCATTATGAA
*
6270619 A-ATTTTACT-ATTA-GAA
1 ATATTTTAATCATTATGAA
6270635 ATATTT
1 ATATTT
6270641 CTTCCTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 4 0.20
17 8 0.40
18 7 0.35
19 1 0.05
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (19 bp):
ATATTTTAATCATTATGAA
Found at i:6277603 original size:15 final size:15
Alignment explanation
Indices: 6277564--6277595 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6277554 ACTATTGTGA
*
6277564 CAAATTTAATTTTGT
1 CAAAATTAATTTTGT
6277579 CAAAATTAATTTTGT
1 CAAAATTAATTTTGT
6277594 CA
1 CA
6277596 CTATTAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (15 bp):
CAAAATTAATTTTGT
Found at i:6278192 original size:180 final size:181
Alignment explanation
Indices: 6277754--6278253 Score: 444
Period size: 180 Copynumber: 2.8 Consensus size: 181
6277744 CGAATTTTTA
* ** ** *
6277754 TCACAAATGTTTCCCTCCAATTTTTTGGCGCCAAATTAAAGGCATATAGTGACAAATTTTGCAAC
1 TCACAAATGATTATCTCCAATTTTTT-GCGCCAAA-TAAAATCATATAGTGACAAA-TTTGTAAC
* * * * *
6277819 TAAAAGTTTTAGTAATTA-TG-AC-AAAAAAATTGTCACAACAAATAATGAGATT-TAGATTTGT
63 TATAAGTGTTAATAATTATTGTACAAAAAAAATTGTCACAACAAATAATGAAATTCAAGATTTGT
* * * * * *
6277880 TGTGACAAATTTTGTTTGTGATTATATATTTAATTATAGTGACAAAATGTATAG
128 TGTGAAAAAATATGTTTGTCATTATATATTTAATTATAATGACAAAATATATAG
* ** * * * *
6277934 TCATAAATGATTATCTCCAATTTTTTGTACAAAAACAAAATCATATAGTGACATGATTTGTAATT
1 TCACAAATGATTATCTCCAATTTTTTGCGC-CAAATAAAATCATATAGTGACA-AATTTGTAACT
6277999 ATAA--GTT-ATAATTATTGTTACAAAAAAAATTGTCACAACAAATAATGAAATTCAAG-TTT-T
64 ATAAGTGTTAATAATTATTG-TACAAAAAAAATTGTCACAACAAATAATGAAATTCAAGATTTGT
* *
6278059 TAGT-AAAAAATAT-TTT-TCATTATATGTTTTAATTATAATGACAAAATATATTG
128 T-GTGAAAAAATATGTTTGTCATTATAT-ATTTAATTATAATGACAAAATATATAG
* *
6278112 TCACAAA-GAGTTCTCTCCAAATTTTTTGCGCCAAA-AAAATCATATATTGACAAATATTGTAAC
1 TCACAAATGA-TTATCTCC-AATTTTTTGCGCCAAATAAAATCATATAGTGACAAAT-TTGTAAC
* * * * *
6278175 TATAAGTGTTAATAATTATTATA-AAAAAATATTGCCAC-A-AAATAATGATATTC-ACATTT-T
63 TATAAGTGTTAATAATTATTGTACAAAAAAAATTGTCACAACAAATAATGAAATTCAAGATTTGT
* * *
6278235 TGTGACAAATTATATTTGT
128 TGTGAAAAAATATGTTTGT
6278254 AGTTATAAAT
Statistics
Matches: 260, Mismatches: 41, Indels: 40
0.76 0.12 0.12
Matches are distributed among these distances:
175 3 0.01
176 33 0.13
177 45 0.17
178 56 0.22
179 52 0.20
180 69 0.27
181 2 0.01
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (181 bp):
TCACAAATGATTATCTCCAATTTTTTGCGCCAAATAAAATCATATAGTGACAAATTTGTAACTAT
AAGTGTTAATAATTATTGTACAAAAAAAATTGTCACAACAAATAATGAAATTCAAGATTTGTTGT
GAAAAAATATGTTTGTCATTATATATTTAATTATAATGACAAAATATATAG
Found at i:6278550 original size:138 final size:137
Alignment explanation
Indices: 6278392--6278654 Score: 395
Period size: 138 Copynumber: 1.9 Consensus size: 137
6278382 TCACATCAAA
6278392 TAATAAAATTCAAGTTTTTTGTAATTAATTATTTTTATACTTATATATTTTAATCATTATAAAAA
1 TAATAAAATTCAAGTTTTTTGTAATTAATTATTTTTATACTTATATATTTTAATCATTAT-AAAA
*
6278457 AATTATACTATAAGAACTATTTCT-CTATATTTTTAGTGTCAAAAA-GTTATATAGTAACAAAAT
65 AATTATACTATAAGAAATATTTCTCCTAT-TTTTTAGTG-CAAAAATGTTATATAGTAACAAAAT
6278520 ATATTGTAAT
128 ATATTGTAAT
* * * *
6278530 TAATAAAATTTAAGTTTTTTGTAATTAATTATTTTTGTAGTTATATATTTTAATCATTATGAAAA
1 TAATAAAATTCAAGTTTTTTGTAATTAATTATTTTTATACTTATATATTTTAATCATTATAAAAA
* * * *
6278595 CTTATACTATTAGAAATATTTCTCCCTATTTTTTGGTGCAAAAATGTTATATAGTGACAA
66 ATTATACTATAAGAAATATTTCT-CCTATTTTTTAGTGCAAAAATGTTATATAGTAACAA
6278655 GTTTTGTAAC
Statistics
Matches: 113, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
137 30 0.27
138 79 0.70
139 4 0.04
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (137 bp):
TAATAAAATTCAAGTTTTTTGTAATTAATTATTTTTATACTTATATATTTTAATCATTATAAAAA
ATTATACTATAAGAAATATTTCTCCTATTTTTTAGTGCAAAAATGTTATATAGTAACAAAATATA
TTGTAAT
Found at i:6278793 original size:17 final size:17
Alignment explanation
Indices: 6278771--6278804 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6278761 GCTATATATT
6278771 TAATTATAATGATAAAA
1 TAATTATAATGATAAAA
* *
6278788 TAATTATTATTATAAAA
1 TAATTATAATGATAAAA
6278805 AACAAAATGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
TAATTATAATGATAAAA
Found at i:6279509 original size:17 final size:17
Alignment explanation
Indices: 6279487--6279539 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
6279477 CTCTATTTGA
6279487 TTTTAAAGGAAATTAAT
1 TTTTAAAGGAAATTAAT
* **
6279504 TTTTAAAGGGAAACTGGT
1 TTTTAAA-GGAAATTAAT
*
6279522 TTTTAAA-GAAATTTAT
1 TTTTAAAGGAAATTAAT
6279538 TT
1 TT
6279540 GTATTTATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 8 0.28
17 7 0.24
18 14 0.48
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.43
Consensus pattern (17 bp):
TTTTAAAGGAAATTAAT
Found at i:6283788 original size:29 final size:29
Alignment explanation
Indices: 6283755--6283818 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
6283745 AGATCATTGC
6283755 AAATTTTGAAGAGGATAGCAATGTTCTGA
1 AAATTTTGAAGAGGATAGCAATGTTCTGA
6283784 AAATTTTGAAGAGGATAGCAATGTTCTGA
1 AAATTTTGAAGAGGATAGCAATGTTCTGA
6283813 AAATTT
1 AAATTT
6283819 ATTCGATGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (29 bp):
AAATTTTGAAGAGGATAGCAATGTTCTGA
Found at i:6284287 original size:138 final size:138
Alignment explanation
Indices: 6284134--6284396 Score: 379
Period size: 138 Copynumber: 1.9 Consensus size: 138
6284124 TCACATAAAA
6284134 TAATAAAATTCAAG-TTTTTTGTAATTAATTATTTTTATACTTATATATTTTAATCATTATAAAA
1 TAATAAAATTCAAGTTTTTTTGTAATTAATTATTTTTATA-TTATATATTTTAATCATTATAAAA
*
6284198 AATTATACTATCAGAACCATTTC-TCTCTATTTTTA-GTGTCAAAAAAGTTATATAGTAACAAAA
65 AATTATACTATCAGAAACATTTCTTC-CTATTTTTAGGTG-CAAAAAAGTTATATAGTAACAAAA
6284261 TATATTGTAAT
128 TATATTGTAAT
* * * *
6284272 TAATAAAATTTAAGTTTTTTTGTAATTAATTATTTTTGTATTGTATATTTTAATCATTATGAAAA
1 TAATAAAATTCAAGTTTTTTTGTAATTAATTATTTTTATATTATATATTTTAATCATTATAAAAA
* * * * * *
6284337 TTTATACTATTAGAAATATTTCTTCCTATTTTTTGGTGCAAAAATGTTATATAGTGACAA
66 ATTATACTATCAGAAACATTTCTTCCTATTTTTAGGTGCAAAAAAGTTATATAGTAACAA
6284397 GTTTTGTAAC
Statistics
Matches: 111, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
138 82 0.74
139 29 0.26
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (138 bp):
TAATAAAATTCAAGTTTTTTTGTAATTAATTATTTTTATATTATATATTTTAATCATTATAAAAA
ATTATACTATCAGAAACATTTCTTCCTATTTTTAGGTGCAAAAAAGTTATATAGTAACAAAATAT
ATTGTAAT
Found at i:6284594 original size:2 final size:2
Alignment explanation
Indices: 6284589--6284615 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6284579 TTTTCTCATA
6284589 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6284616 ATTAAATGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6291327 original size:2 final size:2
Alignment explanation
Indices: 6291320--6291348 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6291310 CTCATGACTG
6291320 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6291349 ATTTCTAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6295461 original size:11 final size:11
Alignment explanation
Indices: 6295445--6295471 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6295435 GAAACGGCCA
6295445 CAACAACATTC
1 CAACAACATTC
6295456 CAACAACATTC
1 CAACAACATTC
6295467 CAACA
1 CAACA
6295472 TATAAATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.37, G:0.00, T:0.15
Consensus pattern (11 bp):
CAACAACATTC
Found at i:6295947 original size:31 final size:31
Alignment explanation
Indices: 6295911--6295983 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
6295901 AAAATTAAAT
* *
6295911 GTTTAGGTGCTAAAATGGAT-CAAAACTTATA
1 GTTTAGGTACTAAAACGG-TCCAAAACTTATA
*
6295942 GTTTAGATACTAAAACGGTCCAAAACTTATA
1 GTTTAGGTACTAAAACGGTCCAAAACTTATA
*
6295973 ATTTAGGTACT
1 GTTTAGGTACT
6295984 TAATGCACAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 1 0.03
31 35 0.97
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.33
Consensus pattern (31 bp):
GTTTAGGTACTAAAACGGTCCAAAACTTATA
Found at i:6303793 original size:2 final size:2
Alignment explanation
Indices: 6303786--6303834 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
6303776 CATTTAAAAC
6303786 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6303828 AT AT AT A
1 AT AT AT A
6303835 CTATTCATTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6308856 original size:26 final size:26
Alignment explanation
Indices: 6308817--6308875 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
6308807 ACCGAAGTGC
* *
6308817 TAATACACATAAGGTTGTGCCCACCA
1 TAATACACACAAGGTCGTGCCCACCA
*
6308843 TAATACACACAAGGTCGTGCCTACCA
1 TAATACACACAAGGTCGTGCCCACCA
6308869 T-ATACAC
1 TAATACAC
6308876 TAAGTTTCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 6 0.20
26 24 0.80
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.22
Consensus pattern (26 bp):
TAATACACACAAGGTCGTGCCCACCA
Found at i:6311953 original size:189 final size:189
Alignment explanation
Indices: 6311633--6312172 Score: 902
Period size: 189 Copynumber: 2.9 Consensus size: 189
6311623 GGGAAATTGT
6311633 TTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGTCCAATATCC
1 TTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGTCCAATATCC
* *
6311698 TTGGTTGTGAAGTTGAAATTGGCCCTGAAATTGTTGTTGACAACCACCCGTCCCTTCGTTGTGAA
66 TTCGTTGTGAAGTTGAAATTGGCCCTGAAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAA
*
6311763 GTTGAACTTGTGTTGTCTTGAGTCCAATATCTGTGAAGTTGAGATTGGCTCCAAAAATG
131 GTTGAACTTGTGTTGTCTTGAGTCCAATATCTGTGAAGTTGAGATTGACTCCAAAAATG
* * *
6311822 TTTGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGGGTCCAATATAC
1 TTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGTCCAATATCC
*
6311887 TTCGTTGTGAAGTTGAAATTGGCCCTGAAATTGTTGTTGACAACCAGCCATCCCTTCGTTGTGAA
66 TTCGTTGTGAAGTTGAAATTGGCCCTGAAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAA
* *
6311952 GTTGAACTTGTGTTGTCTCGAGTCCAATATCTGTGAAGTTGAGATTGACTCCAAAACTG
131 GTTGAACTTGTGTTGTCTTGAGTCCAATATCTGTGAAGTTGAGATTGACTCCAAAAATG
* *
6312011 TTTGTTGACAGTCAGCCACCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGTCCAATATCC
1 TTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGTCCAATATCC
** * *
6312076 TTCGTTGTGAAGTTGAAATTGGCTCC-GAAATTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTG
66 TTCGTTGTGAAGTTGAAATTGGC-CCTGAAATTG-TTGTTGACAACCAGCCGTCCCTTCGTTGTG
* *
6312140 AAGTTGAGCTTGTGTTGTCTTAAGTCCAATATC
129 AAGTTGAACTTGTGTTGTCTTGAGTCCAATATC
6312173 CTTTGCTGTG
Statistics
Matches: 327, Mismatches: 22, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
189 270 0.83
190 57 0.17
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (189 bp):
TTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGTCCAATATCC
TTCGTTGTGAAGTTGAAATTGGCCCTGAAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAA
GTTGAACTTGTGTTGTCTTGAGTCCAATATCTGTGAAGTTGAGATTGACTCCAAAAATG
Found at i:6312152 original size:98 final size:98
Alignment explanation
Indices: 6311625--6312198 Score: 730
Period size: 98 Copynumber: 6.0 Consensus size: 98
6311615 CTAGAACTGG
* * *
6311625 GAAATTGTTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGTC
1 GAAATTG-TTTGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTC
*
6311690 CAATATCCTTGGTTGTGAAGTTGAAATTGGC-CC
65 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCC
* * * * *
6311723 TGAAATTG-TTGTTGACAACCACCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTC
1 -GAAATTGTTTGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTC
*
6311787 CAATA----TC--TGTGAAGTTGAGATTGGCTCC
65 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCC
* * *
6311815 AAAAATGTTTGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGGGTCC
1 GAAATTGTTTGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCC
*
6311880 AATATACTTCGTTGTGAAGTTGAAATTGGC-CC
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCC
* ** * * *
6311912 TGAAATTG-TTGTTGACAACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTC
1 -GAAATTGTTTGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTC
* *
6311976 CAATA----TC--TGTGAAGTTGAGATTGACTCC
65 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCC
* * * * *
6312004 AAAACTGTTTGTTGACAGTCAGCCACCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGTCC
1 GAAATTGTTTGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCC
6312069 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCC
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCC
* *
6312102 GAAATTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTAAGTCC
1 GAAATTGTTTGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCC
* *
6312167 AATATCCTTTGCTGTGAAGTTGAAATTGGCTC
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTC
6312199 TTAAATTGGG
Statistics
Matches: 410, Mismatches: 48, Indels: 35
0.83 0.10 0.07
Matches are distributed among these distances:
91 43 0.10
92 113 0.28
93 3 0.01
96 4 0.01
97 109 0.27
98 131 0.32
99 7 0.02
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (98 bp):
GAAATTGTTTGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCC
AATATCCTTCGTTGTGAAGTTGAAATTGGCTCC
Found at i:6322133 original size:11 final size:10
Alignment explanation
Indices: 6322066--6322150 Score: 56
Period size: 9 Copynumber: 8.9 Consensus size: 10
6322056 CATGTTAGAT
6322066 ATAAA-AAAA
1 ATAAATAAAA
*
6322075 ATAAA-GAAA
1 ATAAATAAAA
6322084 ATAAAT--AA
1 ATAAATAAAA
**
6322092 ATAAATTCAA
1 ATAAATAAAA
**
6322102 CCAAAT-AAA
1 ATAAATAAAA
*
6322111 AGAAAT-AAA
1 ATAAATAAAA
6322120 ATAAAATAAAA
1 AT-AAATAAAA
6322131 ATAAATAAATA
1 ATAAATAAA-A
6322142 ATAAATAAA
1 ATAAATAAA
6322151 TAGGAAATGA
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
8 8 0.13
9 23 0.37
10 17 0.27
11 15 0.24
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (10 bp):
ATAAATAAAA
Found at i:6322140 original size:14 final size:13
Alignment explanation
Indices: 6322066--6322152 Score: 57
Period size: 14 Copynumber: 6.2 Consensus size: 13
6322056 CATGTTAGAT
6322066 ATAAAAAAAATAA
1 ATAAAAAAAATAA
* *
6322079 AGAAAATAAATAA
1 ATAAAAAAAATAA
** **
6322092 ATAAATTCAACCAA
1 ATAAA-AAAAATAA
*
6322106 ATAAAAGAAATAAA
1 ATAAAAAAAAT-AA
6322120 ATAAAATAAAAATAA
1 AT-AAA-AAAAATAA
6322135 ATAAATAATAAATAA
1 ATAAA-AA-AAATAA
6322150 ATA
1 ATA
6322153 GGAAATGATA
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
13 17 0.30
14 19 0.33
15 16 0.28
16 5 0.09
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.20
Consensus pattern (13 bp):
ATAAAAAAAATAA
Found at i:6322151 original size:11 final size:11
Alignment explanation
Indices: 6322123--6322152 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
6322113 AAATAAAATA
6322123 AAATAAA-AAT
1 AAATAAATAAT
6322133 AAATAAATAAT
1 AAATAAATAAT
6322144 AAATAAATA
1 AAATAAATA
6322153 GGAAATGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.37
11 12 0.63
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAATAAATAAT
Found at i:6322151 original size:19 final size:18
Alignment explanation
Indices: 6322081--6322152 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 18
6322071 AAAAATAAAG
6322081 AAAATAAATAAATAAATTCA
1 AAAATAAATAAATAAA-T-A
*
6322101 ACCAAATAAAAGAAATAAAATA
1 A--AAAT-AAATAAAT-AAATA
*
6322123 AAATAAAAATAAATAAATA
1 AAA-ATAAATAAATAAATA
6322142 ATAAATAAATA
1 A-AAATAAATA
6322153 GGAAATGATA
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
19 12 0.29
20 12 0.29
21 1 0.02
22 6 0.14
23 8 0.19
24 3 0.07
ACGTcount: A:0.74, C:0.04, G:0.01, T:0.21
Consensus pattern (18 bp):
AAAATAAATAAATAAATA
Found at i:6323448 original size:16 final size:14
Alignment explanation
Indices: 6323400--6323457 Score: 57
Period size: 16 Copynumber: 3.9 Consensus size: 14
6323390 ACTCTCTAAC
6323400 TAAATTTAT-ATTT
1 TAAATTTATAATTT
6323413 TAAATTTTAATTAATTT
1 TAAA-TTT-A-TAATTT
6323430 TAAATTTATAAATTAT
1 TAAATTTAT-AATT-T
6323446 TAAATTTA-AATT
1 TAAATTTATAATT
6323458 ACATAATCTC
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
13 4 0.10
14 8 0.21
15 6 0.15
16 13 0.33
17 8 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TAAATTTATAATTT
Found at i:6323458 original size:72 final size:73
Alignment explanation
Indices: 6323370--6323507 Score: 190
Period size: 72 Copynumber: 1.9 Consensus size: 73
6323360 TTTTATTTTT
* * * *
6323370 TTATTAAATTTTAATTACATACTCTCTAACTAAATTTAT-ATTTTAAAT-TTTAATTAATTTTAA
1 TTATTAAATTTAAATTACATAATCTCTAA-TAAATTTATAATTTTAAATAGTTAATTAAATTTAA
6323433 ATTTATAAA
65 ATTTATAAA
* * *
6323442 TTATTAAATTTAAATTACATAATCTCTAATTAATTTTTAATTTTAAATAGTTATTTAAATTTAAA
1 TTATTAAATTTAAATTACATAATCTCTAATAAATTTATAATTTTAAATAGTTAATTAAATTTAAA
6323507 T
66 T
6323508 ACTCTATTTC
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
71 7 0.12
72 36 0.63
73 14 0.25
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.51
Consensus pattern (73 bp):
TTATTAAATTTAAATTACATAATCTCTAATAAATTTATAATTTTAAATAGTTAATTAAATTTAAA
TTTATAAA
Found at i:6323515 original size:19 final size:18
Alignment explanation
Indices: 6323477--6323516 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6323467 CTAATTAATT
* *
6323477 TTTAATTTTAAATAGTTA
1 TTTAAATTTAAATACTTA
6323495 TTTAAATTTAAATACTCTA
1 TTTAAATTTAAATACT-TA
6323514 TTT
1 TTT
6323517 CTGTTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTAAATTTAAATACTTA
Found at i:6334160 original size:25 final size:25
Alignment explanation
Indices: 6334109--6334199 Score: 137
Period size: 25 Copynumber: 3.6 Consensus size: 25
6334099 TTTTATTTTT
*
6334109 AAAACCATAGCAGCAGAACCTCAAAA
1 AAAACCCTAGCAGCAGAACCTC-AAA
**
6334135 AAAAAACTAGCAGCAGAACCTCAAA
1 AAAACCCTAGCAGCAGAACCTCAAA
*
6334160 AAAACCCTAGCAACAGAACCTCAAA
1 AAAACCCTAGCAGCAGAACCTCAAA
6334185 AAAACCCTAGCAGCA
1 AAAACCCTAGCAGCA
6334200 ATCCCATCTC
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
25 39 0.67
26 19 0.33
ACGTcount: A:0.53, C:0.29, G:0.11, T:0.08
Consensus pattern (25 bp):
AAAACCCTAGCAGCAGAACCTCAAA
Found at i:6336600 original size:18 final size:18
Alignment explanation
Indices: 6336566--6336601 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6336556 AAATAAATTT
*
6336566 CTTTAAAAACCAGTTTCC
1 CTTTAAAAACCAATTTCC
*
6336584 CTTTAAAAACTAATTTCC
1 CTTTAAAAACCAATTTCC
6336602 GTTAAAATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (18 bp):
CTTTAAAAACCAATTTCC
Found at i:6338189 original size:17 final size:17
Alignment explanation
Indices: 6338163--6338199 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
6338153 ATGCCCTTTT
*
6338163 TTGATCTACCGTTCCAC
1 TTGATATACCGTTCCAC
6338180 TTGATATACCGTTCCAC
1 TTGATATACCGTTCCAC
6338197 TTG
1 TTG
6338200 TTCTAATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.30, G:0.14, T:0.38
Consensus pattern (17 bp):
TTGATATACCGTTCCAC
Found at i:6341434 original size:17 final size:17
Alignment explanation
Indices: 6341387--6341439 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
6341377 AAATAAATAC
6341387 AAATAAATTT-CTTTAA
1 AAATAAATTTCCTTTAA
** *
6341403 AAACCAGTTTCCCTTTAA
1 AAATAAATTT-CCTTTAA
*
6341421 AAATTAATTTCCTTTAA
1 AAATAAATTTCCTTTAA
6341438 AA
1 AA
6341440 TCAAATAGAG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 7 0.24
17 9 0.31
18 13 0.45
ACGTcount: A:0.43, C:0.15, G:0.02, T:0.40
Consensus pattern (17 bp):
AAATAAATTTCCTTTAA
Found at i:6347903 original size:15 final size:15
Alignment explanation
Indices: 6347864--6347895 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6347854 ACTATTGTGA
*
6347864 CAAATTTAATTTTGT
1 CAAAATTAATTTTGT
6347879 CAAAATTAATTTTGT
1 CAAAATTAATTTTGT
6347894 CA
1 CA
6347896 CTATTAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (15 bp):
CAAAATTAATTTTGT
Found at i:6348402 original size:177 final size:181
Alignment explanation
Indices: 6348096--6348577 Score: 456
Period size: 177 Copynumber: 2.7 Consensus size: 181
6348086 AAATTAAAGG
* * * * * *
6348096 CATACAGTGACAAATTTTGCAACTAAAAGTTTTAGTAATTATGACAAAAAAA-TTGTCACAACAA
1 CATATAGTGACAAATTTTGTAACTATAAGTGTTAATAATTATTACAAAAAAATTTGTCACAACAA
* * * * * * *
6348160 ATAATGAGATT-TAGATTTGTTGTGACAAATTTTGTTTGTGATTATATATTTTAATTATAGTGAC
66 ATAATGAAATTCAAGATTTGTAGTGAAAAAATATGTTTGTCATTATATATTTTAATTATAGTGAC
* * *
6348224 AAAATGTATAGTCATAAATGA-TTATCTCCA-ATTTTTTGTACAAAAACAAAAT
131 AAAATATATAGTCACAAA-GATTTATCTCCATATTTTTTGCAC-AAAA-AAAAT
* * * *
6348276 CATATAGTGACATGA-TTTGTAATTATAAGT-TATAATTATTGTTACAAAAAAATTTGTCACAAC
1 CATATAGTGACA-AATTTTGTAACTATAAGTGT-TAATAATTATTACAAAAAAATTTGTCACAAC
*
6348339 AAATAATGAAATTCAAGA-TT-TAGT-AAAAAATAT-TTT-TCATTATATGTTTTAATTATAGTG
64 AAATAATGAAATTCAAGATTTGTAGTGAAAAAATATGTTTGTCATTATATATTTTAATTATAGTG
* * * * *
6348399 ACAAAATATATTGTCACAAAGATTTCTCTCCATATTTTTTGCGCTAAAAAAGT
129 ACAAAATATATAGTCACAAAGATTTATCTCCATATTTTTTGCACAAAAAAAAT
* * *
6348452 CATATATTGACAAATTTTGTAACTATAAGTGTTAATAATTATTATAAAAAAATATTGCCAC-A-A
1 CATATAGTGACAAATTTTGTAACTATAAGTGTTAATAATTATTACAAAAAAAT-TTGTCACAACA
* * * * * * * *
6348515 AATAATGATATTC-ACATTT-TTGTGACAAATTATATTTGT-AGTTATAAATTTTAGTTATAGTG
65 AATAATGAAATTCAAGATTTGTAGTGAAAAAATATGTTTGTCA-TTATATATTTTAATTATAGTG
6348577 A
129 A
6348578 TAGCATATAT
Statistics
Matches: 248, Mismatches: 40, Indels: 30
0.78 0.13 0.09
Matches are distributed among these distances:
174 2 0.01
175 19 0.08
176 57 0.23
177 61 0.25
178 32 0.13
179 7 0.03
180 42 0.17
181 25 0.10
182 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (181 bp):
CATATAGTGACAAATTTTGTAACTATAAGTGTTAATAATTATTACAAAAAAATTTGTCACAACAA
ATAATGAAATTCAAGATTTGTAGTGAAAAAATATGTTTGTCATTATATATTTTAATTATAGTGAC
AAAATATATAGTCACAAAGATTTATCTCCATATTTTTTGCACAAAAAAAAT
Found at i:6348850 original size:138 final size:137
Alignment explanation
Indices: 6348692--6348954 Score: 386
Period size: 138 Copynumber: 1.9 Consensus size: 137
6348682 TCAAATAAAA
6348692 TAATAAAATTCAAGTTTTTTGTAATTAATTATTTTTATACTTATATATTTTAATCATTATAAAAA
1 TAATAAAATTCAAGTTTTTTGTAATTAATTATTTTTATACTTATATATTTTAATCATTA-AAAAA
*
6348757 AATTATACTATCAGAACTATTTCT-CTATATTTTTAGTGTCAAAAA-GTTATATAGTAACAAAAT
65 AATTATACTATCAGAAATATTTCTCCTAT-TTTTTAGTG-CAAAAATGTTATATAGTAACAAAAT
6348820 ATATTGTAAT
128 ATATTGTAAT
* * * **
6348830 TAATAAAATTTAAGTTTTTTGTAATTAATTATTTTTGTAGTTATATATTTTAATCATTACGAAAA
1 TAATAAAATTCAAGTTTTTTGTAATTAATTATTTTTATACTTATATATTTTAATCATTAAAAAAA
* * * *
6348895 CTTATACTATTAGAAATATTTCTCCCTATTTTTTGGTGCAAAAATGTTATATAGTGACAA
66 ATTATACTATCAGAAATATTTCT-CCTATTTTTTAGTGCAAAAATGTTATATAGTAACAA
6348955 GTTTTGTAAC
Statistics
Matches: 112, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
137 30 0.27
138 78 0.70
139 4 0.04
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.46
Consensus pattern (137 bp):
TAATAAAATTCAAGTTTTTTGTAATTAATTATTTTTATACTTATATATTTTAATCATTAAAAAAA
ATTATACTATCAGAAATATTTCTCCTATTTTTTAGTGCAAAAATGTTATATAGTAACAAAATATA
TTGTAAT
Found at i:6349826 original size:17 final size:17
Alignment explanation
Indices: 6349804--6349856 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
6349794 CTCTATTTGA
6349804 TTTTAAAGGAAATTAAT
1 TTTTAAAGGAAATTAAT
* **
6349821 TTTTAAAGGGAAACTGGT
1 TTTTAAA-GGAAATTAAT
*
6349839 TTTTAAA-GAAATTTAT
1 TTTTAAAGGAAATTAAT
6349855 TT
1 TT
6349857 GTATTTATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 8 0.28
17 7 0.24
18 14 0.48
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.43
Consensus pattern (17 bp):
TTTTAAAGGAAATTAAT
Found at i:6353245 original size:137 final size:139
Alignment explanation
Indices: 6353013--6353270 Score: 378
Period size: 137 Copynumber: 1.9 Consensus size: 139
6353003 CACATCAAAA
6353013 AATAAAATTCAAGTTTTTTGTAATTAATTATTTTTATACTTATATATATTTTAATCATTATAAAA
1 AATAAAATTCAAGTTTTTTGTAATTAATTATTTTTATAC-TATATATATTTTAATCATTATAAAA
* *
6353078 AATTATACTATCAGAACCATTTCTCTCTATTTTTA-GTGTCAAAAAAGTTATATAGTAATAAAAT
65 AATTATACTATCAGAAACATTTCTCCCTATTTTTAGGTG-CAAAAAAGTTATATAGTAATAAAAT
6353142 ATATTGTAATT
129 ATATTGTAATT
* * * *
6353153 AATAAAATTTAAGTTTTTTGTAATTAATTATTTTTTTA-T-TGTATATTTTAATCATTATGAAAA
1 AATAAAATTCAAGTTTTTTGTAATTAATTATTTTTATACTATATATATTTTAATCATTATAAAAA
* * * * *
6353216 CTTATACTATTAGAAATATTTCTCCCTATTTTTTGGTGCAAAAATGTTATATAGT
66 ATTATACTATCAGAAACATTTCTCCCTATTTTTAGGTGCAAAAAAGTTATATAGT
6353271 GACAAGTTTT
Statistics
Matches: 106, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
137 66 0.62
138 4 0.04
140 36 0.34
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (139 bp):
AATAAAATTCAAGTTTTTTGTAATTAATTATTTTTATACTATATATATTTTAATCATTATAAAAA
ATTATACTATCAGAAACATTTCTCCCTATTTTTAGGTGCAAAAAAGTTATATAGTAATAAAATAT
ATTGTAATT
Found at i:6353471 original size:2 final size:2
Alignment explanation
Indices: 6353466--6353492 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6353456 TTTTCTCATA
6353466 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6353493 ATTAAATGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6360595 original size:2 final size:2
Alignment explanation
Indices: 6360588--6360618 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6360578 CTCATGACTG
6360588 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6360619 ATTTCTAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6363731 original size:31 final size:31
Alignment explanation
Indices: 6363686--6363758 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
6363676 AAAATTAAAT
* *
6363686 GTTTAGGTATTAAAATGGAT-CAAAACTTATA
1 GTTTAGGTACTAAAACGG-TCCAAAACTTATA
*
6363717 GTTTAGATACTAAAACGGTCCAAAACTTATA
1 GTTTAGGTACTAAAACGGTCCAAAACTTATA
*
6363748 ATTTAGGTACT
1 GTTTAGGTACT
6363759 TAATGCACAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 1 0.03
31 35 0.97
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (31 bp):
GTTTAGGTACTAAAACGGTCCAAAACTTATA
Found at i:6364786 original size:70 final size:70
Alignment explanation
Indices: 6364706--6364843 Score: 249
Period size: 70 Copynumber: 2.0 Consensus size: 70
6364696 CCCATAGCAA
*
6364706 TATAAAATAAAAAGTAATAAATTTAAGTTTACAATACAACGGAGCTCCTAAATCTTCCAAATAAT
1 TATAAAATAAAAAGTAATAAATTTAAGTTTACAATACAACGGAGCTCCTAAATCATCCAAATAAT
6364771 ACACT
66 ACACT
* *
6364776 TATAAAATAAAAAGTAATAAATTTGAGTTTACAATACAAGGGAGCTCCTAAATCATCCAAATAAT
1 TATAAAATAAAAAGTAATAAATTTAAGTTTACAATACAACGGAGCTCCTAAATCATCCAAATAAT
6364841 ACA
66 ACA
6364844 ATGAGTTTAA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (70 bp):
TATAAAATAAAAAGTAATAAATTTAAGTTTACAATACAACGGAGCTCCTAAATCATCCAAATAAT
ACACT
Found at i:6365579 original size:20 final size:20
Alignment explanation
Indices: 6365556--6365597 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
6365546 TTAGTATTGG
* *
6365556 TACTAACCTATGGGTATCGA
1 TACTAACCCATGGATATCGA
*
6365576 TACTAACCCCTGGATATCGA
1 TACTAACCCATGGATATCGA
6365596 TA
1 TA
6365598 ATACTAACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (20 bp):
TACTAACCCATGGATATCGA
Found at i:6369093 original size:125 final size:125
Alignment explanation
Indices: 6368910--6369377 Score: 488
Period size: 125 Copynumber: 3.7 Consensus size: 125
6368900 CATCTAAGGG
* * * *
6368910 TGACAAGACTCCTACATAATGAAGAAATCT-AGTCAGGAT-ATGACACTGCTCATACTATGATGA
1 TGACACGACTCCTACATAATGAGGAGATCTGA-TCATG-TGATGACACTGCTCATACTATGATGA
6368973 ATCTTGGACATCTAAAGGTGATAACACTGCTCATACTATGATAAGTCTTGGTTATCTAGGAT
64 ATCTTGGACATCTAAAGGTGATAACACTGCTCATACTATGATAAGTCTTGGTTATCTAGGAT
* * * * *
6369035 TGACACGACTCCTACGTGATGAGGAGTTCTGGTCGATG-GATGACATTGCTCATACTATGATGAA
1 TGACACGACTCCTACATAATGAGGAGATCTGATC-ATGTGATGACACTGCTCATACTATGATGAA
6369099 TCTTGGACATCTAAAGGTGATAACACTGCTCATACTATGATAAGTCTTGGTTATCTAGGAT
65 TCTTGGACATCTAAAGGTGATAACACTGCTCATACTATGATAAGTCTTGGTTATCTAGGAT
* * * * *
6369160 TGACACGACTCCTACATAATGAGGAGATCTGATCATGTGATGACACTACCCAT-CTGTTCATGAG
1 TGACACGACTCCTACATAATGAGGAGATCTGATCATGTGATGACACTGCTCATACT-ATGATGAA
* * * * ** * *
6369224 TCTTGGTCATCTAAGGGTGATAACACGGTTCCACT-CTGATGGGGATGGC-TGGTTATCTAGG-T
65 TCTTGGACATCTAAAGGTGATAACACTGCT-CA-TACT-AT-GATAAGTCTTGGTTATCTAGGAT
* * * * *
6369286 TGACAC-AGTTCCTACATAATAAGGAGATCTGGTCA-GTTGATGACACGGCTCATACGTGATGAA
1 TGACACGA-CTCCTACATAATGAGGAGATCTGATCATG-TGATGACACTGCTCATAC-T-ATGAT
* *
6369349 GAGT-TCTGGTCATCTAAAGGTGATAACAC
62 GAATCT-TGGACATCTAAAGGTGATAACAC
6369378 GGTTCCTACG
Statistics
Matches: 292, Mismatches: 37, Indels: 25
0.82 0.10 0.07
Matches are distributed among these distances:
124 5 0.02
125 186 0.64
126 50 0.17
127 17 0.06
128 34 0.12
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (125 bp):
TGACACGACTCCTACATAATGAGGAGATCTGATCATGTGATGACACTGCTCATACTATGATGAAT
CTTGGACATCTAAAGGTGATAACACTGCTCATACTATGATAAGTCTTGGTTATCTAGGAT
Found at i:6369155 original size:44 final size:43
Alignment explanation
Indices: 6368952--6369148 Score: 139
Period size: 44 Copynumber: 4.7 Consensus size: 43
6368942 TCAGGATATG
6368952 ACACTGCTCATACTATGATGAA-TCTTGGACATCTAAAGGTGATA
1 ACACTGCTCATACTATGAT-AAGTCTTGGACATCTAAAGG-GATA
** *
6368996 ACACTGCTCATACTATGATAAGTCTTGGTTATCT--A-GGATTG
1 ACACTGCTCATACTATGATAAGTCTTGGACATCTAAAGGGA-TA
* ** * * *
6369037 ACAC-GACTCCTACGTGATGAGGAGT-TCTGG---TC--GATGGATG
1 ACACTG-CTCATAC-T-ATGATAAGTCT-TGGACATCTAAAGGGATA
*
6369077 ACATTGCTCATACTATGATGAA-TCTTGGACATCTAAAGGTGATA
1 ACACTGCTCATACTATGAT-AAGTCTTGGACATCTAAAGG-GATA
6369121 ACACTGCTCATACTATGATAAGTCTTGG
1 ACACTGCTCATACTATGATAAGTCTTGG
6369149 TTATCTAGGA
Statistics
Matches: 121, Mismatches: 14, Indels: 36
0.71 0.08 0.21
Matches are distributed among these distances:
38 8 0.07
39 3 0.02
40 17 0.14
41 18 0.15
42 3 0.02
43 16 0.13
44 56 0.46
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.31
Consensus pattern (43 bp):
ACACTGCTCATACTATGATAAGTCTTGGACATCTAAAGGGATA
Found at i:6369327 original size:126 final size:129
Alignment explanation
Indices: 6369146--6369383 Score: 317
Period size: 126 Copynumber: 1.9 Consensus size: 129
6369136 TGATAAGTCT
* *
6369146 TGGTTATCTAGGATTGACACGACTCCTACATAATGAGGAGATCTGATCATGTGATGACACTACCC
1 TGGTTATCTAGGATTGACACGACTCCTACATAATAAGGAGATCTGATCATGTGATGACACGACCC
* * *
6369211 AT-C-TGTTCATGAG-TCTTGGTCATCTAAGGGTGATAACACGGTTCCACTCTGATGGGGATGGC
66 ATACGTGATCAAGAGTTC-TGGTCATCTAAAGGTGATAACACGGTTCCACTCTGATGGGGATGGC
* * *
6369273 TGGTTATCTAGG-TTGACAC-AGTTCCTACATAATAAGGAGATCTGGTCA-GTTGATGACACGGC
1 TGGTTATCTAGGATTGACACGA-CTCCTACATAATAAGGAGATCTGATCATG-TGATGACACGAC
* *
6369335 TCATACGTGATGAAGAGTTCTGGTCATCTAAAGGTGATAACACGGTTCC
64 CCATACGTGATCAAGAGTTCTGGTCATCTAAAGGTGATAACACGGTTCC
6369384 TACGTGATGA
Statistics
Matches: 96, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
125 2 0.02
126 44 0.46
127 13 0.14
128 35 0.36
129 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (129 bp):
TGGTTATCTAGGATTGACACGACTCCTACATAATAAGGAGATCTGATCATGTGATGACACGACCC
ATACGTGATCAAGAGTTCTGGTCATCTAAAGGTGATAACACGGTTCCACTCTGATGGGGATGGC
Found at i:6369454 original size:46 final size:44
Alignment explanation
Indices: 6369227--6369455 Score: 152
Period size: 46 Copynumber: 5.2 Consensus size: 44
6369217 TCATGAGTCT
* * *
6369227 TGGTCATCTAAGGGTGATAACACGGTTCC-ACTCTGATGGGGATGGC
1 TGGTTATCTAA-GGTGATAACACGGTTCCTAC-GTGATGAGGA-GGC
* * * * * *
6369273 TGGTTATCT-AGGT--TGACACAGTTCCTACATAATAAGGAGATC
1 TGGTTATCTAAGGTGATAACACGGTTCCTACGTGATGAGGAG-GC
* * * * * *
6369315 TGG---TC--AGTTGATGACACGGCTCATACGTGATGAAGAGTTC
1 TGGTTATCTAAGGTGATAACACGGTTCCTACGTGATGAGGAG-GC
* *
6369355 TGGTCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGAC
1 TGGTTATCT-AAGGTGATAACACGGTTCCTACGTGATGAGGA-GGC
*
6369401 TGATTATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGATGGC
1 TGGTTATCTAA-GGTGATAACACGGTTCCTACGTGATGAGGA-GGC
6369447 TGGTTATCT
1 TGGTTATCT
6369456 GGGTTGACAC
Statistics
Matches: 143, Mismatches: 28, Indels: 24
0.73 0.14 0.12
Matches are distributed among these distances:
38 3 0.02
39 2 0.01
40 24 0.17
41 1 0.01
42 20 0.14
43 4 0.03
44 3 0.02
45 3 0.02
46 82 0.57
47 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (44 bp):
TGGTTATCTAAGGTGATAACACGGTTCCTACGTGATGAGGAGGC
Found at i:6371230 original size:24 final size:25
Alignment explanation
Indices: 6371196--6371284 Score: 153
Period size: 25 Copynumber: 3.6 Consensus size: 25
6371186 TTTTATTTTT
*
6371196 AAAACCATAGCAGCAGAACCTCAAA
1 AAAACCCTAGCAGCAGAACCTCAAA
*
6371221 AAAA-CCTAGCAGTAGAACCTCAAA
1 AAAACCCTAGCAGCAGAACCTCAAA
6371245 AAAACCCTAGCAGCAGAACCTCAAA
1 AAAACCCTAGCAGCAGAACCTCAAA
6371270 AAAACCCTAGCAGCA
1 AAAACCCTAGCAGCA
6371285 ATCCCATCTC
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
24 22 0.37
25 38 0.63
ACGTcount: A:0.49, C:0.29, G:0.12, T:0.09
Consensus pattern (25 bp):
AAAACCCTAGCAGCAGAACCTCAAA
Found at i:6372356 original size:34 final size:35
Alignment explanation
Indices: 6372313--6372403 Score: 141
Period size: 34 Copynumber: 2.6 Consensus size: 35
6372303 TTATATATAT
6372313 ATATATTATAAGTTTTCAAAATG-TTTTAAAAACC
1 ATATATTATAAGTTTTCAAAATGTTTTTAAAAACC
6372347 ATATATTATATA-TTTTCAAAATGTTTTTAAAAACC
1 ATATATTATA-AGTTTTCAAAATGTTTTTAAAAACC
6372382 ATATATTATATAAGTTTTCAAA
1 ATATA-T-TATAAGTTTTCAAA
6372404 TAATTTTTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
34 21 0.40
35 17 0.33
36 2 0.04
37 12 0.23
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (35 bp):
ATATATTATAAGTTTTCAAAATGTTTTTAAAAACC
Found at i:6372382 original size:35 final size:35
Alignment explanation
Indices: 6372313--6372403 Score: 150
Period size: 35 Copynumber: 2.6 Consensus size: 35
6372303 TTATATATAT
6372313 ATATATTATA-AGTTTTCAAAATGTTTTAAAAACC
1 ATATATTATATAGTTTTCAAAATGTTTTAAAAACC
6372347 ATATATTATATA-TTTTCAAAATGTTTTTAAAAACC
1 ATATATTATATAGTTTTCAAAATG-TTTTAAAAACC
6372382 ATATATTATATAAGTTTTCAAA
1 ATATATTATAT-AGTTTTCAAA
6372404 TAATTTTTAA
Statistics
Matches: 53, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
34 21 0.40
35 23 0.43
36 1 0.02
37 8 0.15
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (35 bp):
ATATATTATATAGTTTTCAAAATGTTTTAAAAACC
Found at i:6375496 original size:17 final size:18
Alignment explanation
Indices: 6375470--6375503 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
6375460 TTTCTAATTA
6375470 AATTATATTTTAAATTTT
1 AATTATATTTTAAATTTT
6375488 AATTA-ATTTTAAATTT
1 AATTATATTTTAAATTT
6375504 ATAAAGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
AATTATATTTTAAATTTT
Found at i:6375750 original size:33 final size:33
Alignment explanation
Indices: 6375713--6375832 Score: 84
Period size: 33 Copynumber: 3.5 Consensus size: 33
6375703 TAAATAAACT
6375713 ATTTAAAATTAAAAATTAATTAGAGATTATGTA
1 ATTTAAAATTAAAAATTAATTAGAGATTATGTA
* * *
6375746 ATTTAAATTTAATAATGTATAAATTTA-AAATTAAT-TAAA
1 ATTTAAAATTAA-AA---ATTAA-TTAGAGATT-ATGT--A
* *
6375785 ATTTAAAA-TATAAATTTAATTAGAGAGTATGTA
1 ATTTAAAATTA-AAAATTAATTAGAGATTATGTA
*
6375818 ATTTAAATTTAAAAA
1 ATTTAAAATTAAAAA
6375833 AAAATAAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 24
0.66 0.10 0.24
Matches are distributed among these distances:
33 22 0.34
34 9 0.14
35 7 0.11
37 9 0.14
38 9 0.14
39 9 0.14
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.41
Consensus pattern (33 bp):
ATTTAAAATTAAAAATTAATTAGAGATTATGTA
Found at i:6375784 original size:16 final size:16
Alignment explanation
Indices: 6375748--6375793 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
6375738 ATTATGTAAT
6375748 TTAAATTTAATAATGTA
1 TTAAATTTAA-AATGTA
6375765 -TAAATTTAAAAT-TAA
1 TTAAATTTAAAATGT-A
6375780 TTAAAATTTAAAAT
1 TT-AAATTTAAAAT
6375794 ATAAATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 1 0.04
15 4 0.15
16 10 0.38
17 11 0.42
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
TTAAATTTAAAATGTA
Found at i:6375840 original size:72 final size:73
Alignment explanation
Indices: 6375695--6375840 Score: 188
Period size: 72 Copynumber: 2.0 Consensus size: 73
6375685 AATAGAGTAT
* * *
6375695 TTTAAATTTAAATAAACTATTTAAAATTAAAAATTAATTAGAGATTATGTAATTTAAATTTAATA
1 TTTAAAATTAAATAAAC-ATTTAAAATTAAAAATTAATTAGAGAGTATGTAATTTAAATTTAAAA
***
6375760 ATGTATAAA
65 AAAAATAAA
* *
6375769 TTTAAAATTAATTAAA-ATTTAAAA-TATAAATTTAATTAGAGAGTATGTAATTTAAATTTAAAA
1 TTTAAAATTAAATAAACATTTAAAATTA-AAAATTAATTAGAGAGTATGTAATTTAAATTTAAAA
6375832 AAAAATAAA
65 AAAAATAAA
6375841 AATTTACAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
71 2 0.03
72 47 0.75
74 14 0.22
ACGTcount: A:0.54, C:0.01, G:0.05, T:0.40
Consensus pattern (73 bp):
TTTAAAATTAAATAAACATTTAAAATTAAAAATTAATTAGAGAGTATGTAATTTAAATTTAAAAA
AAAATAAA
Found at i:6377144 original size:25 final size:26
Alignment explanation
Indices: 6377112--6377172 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
6377102 ATAAAGGAAA
*
6377112 CTTA-GTGTAT-ATGGTAGGCACGAC
1 CTTATGTGTATAATGGTAGGCACAAC
* *
6377136 CTTGTGTGTATAATGGTGGGCACAAC
1 CTTATGTGTATAATGGTAGGCACAAC
6377162 CTTATGTGTAT
1 CTTATGTGTAT
6377173 TAGCACTTCG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 3 0.10
25 6 0.19
26 22 0.71
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (26 bp):
CTTATGTGTATAATGGTAGGCACAAC
Found at i:6387377 original size:15 final size:15
Alignment explanation
Indices: 6387340--6387371 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6387330 ACTATTGTGA
*
6387340 CAAATTTAATTTTGT
1 CAAAATTAATTTTGT
6387355 CAAAATTAATTTTGT
1 CAAAATTAATTTTGT
6387370 CA
1 CA
6387372 CTATTAGTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (15 bp):
CAAAATTAATTTTGT
Found at i:6388002 original size:177 final size:177
Alignment explanation
Indices: 6387530--6388073 Score: 487
Period size: 178 Copynumber: 3.0 Consensus size: 177
6387520 CGAATTTTTA
* ** * *
6387530 TCACAAATATTTTCCTCCAATTTTTTGGCGCTAAATTAAAGGCATATATAGTGACAAATTTTGTA
1 TCACAAAGA-TTTCCTCCAATTTTTT-GCGC-AAAAAAAAGTCATATAT--TGACAATTTTTGTA
* * * * *
6387595 ACTAAAAGTTTTAGTAACTATGACAAAAAAAAATTGTCACAACAAATAATGAGATT-TAGATTTG
61 ACTATAAG-TTTAATAATTAT--TAAAAAAAAATTGTCACAACAAATAATGAGATTCAAG-TTTG
* * *
6387659 TTGTGACAAAATTTGTTTGTGATTATATATTTTAATTATAGTGACAAAATGTATAG
122 TTGTGACAAAATATGTTTGTCATTATATATTTTAATTATAGTGACAAAATATATAG
** * * *
6387715 TCACAAATGATTAT-CTCCAATTTTTTGTACAAAAACAAAATCATATAGTGAC-ATGATTTGTAA
1 TCACAAA-GATT-TCCTCCAATTTTTTGCGCAAAAA-AAAGTCATATATTGACAAT-TTTTGTAA
* * * * * *
6387778 TTATAAGTTATAATTATTGTTACAAAAAAGTTGTTACAACAAATAATGAGATTCAAGTTT-TTAG
62 CTATAAGTT-TAATAATTATTAAAAAAAAATTGTCACAACAAATAATGAGATTCAAGTTTGTT-G
* * * *
6387842 TGA-AAAA-ATGTTTTTCATTCTATGTTTTAATTATAGTGACAAAATATATTG
125 TGACAAAATATGTTTGTCATTATATATTTTAATTATAGTGACAAAATATATAG
6387893 TCACAAAGATTTCCCTCCATATTTTTTGCGC-AAAAAAAGTCATATATTGACAATTTTTGTAACT
1 TCACAAAGATTT-CCTCCA-ATTTTTTGCGCAAAAAAAAGTCATATATTGACAATTTTTGTAACT
* * * * *
6387957 ATAAGTGTTAATAATTATTATAAAAAATATTGCCACAA-AAATAATGATATTCACGTTT-ATGTG
64 ATAAGT-TTAATAATTATTA-AAAAAAAATTGTCACAACAAATAATGAGATTCAAGTTTGTTGTG
* * * * * *
6388020 ACAAATTATATTTGT-AGTTATAAATTTTAATTATAGTGATAGAATATATTG
127 ACAAAATATGTTTGTCA-TTATATATTTTAATTATAGTGACAAAATATATAG
6388071 TCA
1 TCA
6388074 TAATTATTTT
Statistics
Matches: 291, Mismatches: 52, Indels: 39
0.76 0.14 0.10
Matches are distributed among these distances:
176 5 0.02
177 65 0.22
178 106 0.36
179 15 0.05
180 36 0.12
181 5 0.02
182 22 0.08
183 3 0.01
184 11 0.04
185 21 0.07
186 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.39
Consensus pattern (177 bp):
TCACAAAGATTTCCTCCAATTTTTTGCGCAAAAAAAAGTCATATATTGACAATTTTTGTAACTAT
AAGTTTAATAATTATTAAAAAAAAATTGTCACAACAAATAATGAGATTCAAGTTTGTTGTGACAA
AATATGTTTGTCATTATATATTTTAATTATAGTGACAAAATATATAG
Found at i:6388331 original size:138 final size:138
Alignment explanation
Indices: 6388173--6388435 Score: 386
Period size: 138 Copynumber: 1.9 Consensus size: 138
6388163 TTACATCAAA
*
6388173 TAATAAAATTCAAGTTTTTTGTAATTAATTAGTTTTATACTTATATATTTTAATCATTATAAAAA
1 TAATAAAATTCAAGTTTTTTGTAATTAATTAATTTTATACTTATATATTTTAATCATTATAAAAA
* *
6388238 ATTATACTATCAGAACTATTTCTCTCAATTTTTACTGTTG-AAAAA-GTTATATAGTAACAAAAT
66 ATTATACTATCAGAAATATTTCTCCCAATTTTT-CTG-TGCAAAAATGTTATATAGTAACAAAAT
6388301 ATATTGTAAT
129 ATATTGTAAT
* * * *
6388311 TAATAAAATTTAAGTTTTTTGTAATTAATTAATTTTGTAGTTATATATTTTAATCATTATGAAAA
1 TAATAAAATTCAAGTTTTTTGTAATTAATTAATTTTATACTTATATATTTTAATCATTATAAAAA
* * * * *
6388376 TTTATACTATTAGAAATATTTCTCCCTATTTTTTTGTGCAAAAATGTTATATAGTGACAA
66 ATTATACTATCAGAAATATTTCTCCCAATTTTTCTGTGCAAAAATGTTATATAGTAACAA
6388436 TTTTGTAACT
Statistics
Matches: 111, Mismatches: 12, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
136 2 0.02
137 7 0.06
138 102 0.92
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (138 bp):
TAATAAAATTCAAGTTTTTTGTAATTAATTAATTTTATACTTATATATTTTAATCATTATAAAAA
ATTATACTATCAGAAATATTTCTCCCAATTTTTCTGTGCAAAAATGTTATATAGTAACAAAATAT
ATTGTAAT
Found at i:6389320 original size:18 final size:18
Alignment explanation
Indices: 6389283--6389325 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
6389273 CTCTATTTGA
*
6389283 TTTTAAA-GGAAATTGAT
1 TTTTAAAGGGAAACTGAT
*
6389300 TTTTAAAGGGAAACTGGT
1 TTTTAAAGGGAAACTGAT
6389318 TTTTAAAG
1 TTTTAAAG
6389326 AAATTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.37, C:0.02, G:0.21, T:0.40
Consensus pattern (18 bp):
TTTTAAAGGGAAACTGAT
Found at i:6390613 original size:3 final size:3
Alignment explanation
Indices: 6390607--6390734 Score: 211
Period size: 3 Copynumber: 42.7 Consensus size: 3
6390597 TTTTTATCCA
* *
6390607 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
6390655 TAT CAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
6390703 TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6390735 AATATATTAA
Statistics
Matches: 115, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 115 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:6390774 original size:20 final size:19
Alignment explanation
Indices: 6390733--6390777 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
6390723 CTATTATTAT
* *
6390733 TAAATATATTAAATACATA
1 TAAATATATTAAAAACAAA
*
6390752 TAAATATTATTAAAAATAAA
1 TAAATA-TATTAAAAACAAA
6390772 TAAATA
1 TAAATA
6390778 AAAAAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAATATATTAAAAACAAA
Found at i:6391261 original size:15 final size:15
Alignment explanation
Indices: 6391241--6391273 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
6391231 AGAGACAGAG
6391241 ACAGAGAAAAAAAAA
1 ACAGAGAAAAAAAAA
6391256 ACAGAGAAAAAAAAA
1 ACAGAGAAAAAAAAA
6391271 ACA
1 ACA
6391274 AATATACCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.79, C:0.09, G:0.12, T:0.00
Consensus pattern (15 bp):
ACAGAGAAAAAAAAA
Found at i:6392127 original size:19 final size:19
Alignment explanation
Indices: 6392103--6392141 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
6392093 TAATTTAGTC
6392103 ATTTATTTTA-TATGTTTTA
1 ATTTATTTTATTAT-TTTTA
6392122 ATTTATTTTATTATTTTTA
1 ATTTATTTTATTATTTTTA
6392141 A
1 A
6392142 AAAATATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
ATTTATTTTATTATTTTTA
Found at i:6392200 original size:21 final size:20
Alignment explanation
Indices: 6392168--6392209 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
6392158 AGAATTTTTC
**
6392168 TTTTATTATATTGTTAAATA
1 TTTTATTATATTCATAAATA
6392188 TTTTATATATATTCATAAATA
1 TTTTAT-TATATTCATAAATA
6392209 T
1 T
6392210 ATATAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTTATTATATTCATAAATA
Found at i:6403573 original size:13 final size:13
Alignment explanation
Indices: 6403555--6403580 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6403545 ATTATGCTTG
6403555 AAAAAAAGAAAAA
1 AAAAAAAGAAAAA
6403568 AAAAAAAGAAAAA
1 AAAAAAAGAAAAA
6403581 GGTGGGTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAA
Found at i:6404759 original size:83 final size:83
Alignment explanation
Indices: 6404620--6405172 Score: 991
Period size: 83 Copynumber: 6.7 Consensus size: 83
6404610 CATTAACTGA
*
6404620 AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
* *
6404685 ATCAATCATTGAATTTAG
66 ACCAATCATTGAATTTGG
*
6404703 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
6404768 ACCAATCATTGAATTTGG
66 ACCAATCATTGAATTTGG
6404786 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
6404851 ACCAATCATTGAATTTGG
66 ACCAATCATTGAATTTGG
6404869 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
*
6404934 ACCAATCATTGAATTTAG
66 ACCAATCATTGAATTTGG
*
6404952 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAG
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
6405016 AACCAATCATTGAATTTGG
65 AACCAATCATTGAATTTGG
*
6405035 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTTTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
*
6405100 ATCAATCATTGAATTTGG
66 ACCAATCATTGAATTTGG
* * *
6405118 AAGATGAATTTGTTAATAACATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTG
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
6405173 TTTTGGTAAG
Statistics
Matches: 453, Mismatches: 15, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
82 4 0.01
83 445 0.98
84 4 0.01
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (83 bp):
AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
ACCAATCATTGAATTTGG
Found at i:6406012 original size:113 final size:113
Alignment explanation
Indices: 6405843--6406253 Score: 657
Period size: 113 Copynumber: 3.7 Consensus size: 113
6405833 TCAGCTTTTC
*
6405843 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAATTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* **
6405908 CAACCTTTTACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGTTC
66 CAACCTTTTACCTGAATCCATCATTTGATGGATCATCTTTTCCAGTGA
6405956 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
** * * *
6406021 CAACCTTTTATATGAATCCATCATTTAATGGATCAGCTTTTCCAGAGA
66 CAACCTTTTACCTGAATCCATCATTTGATGGATCATCTTTTCCAGTGA
*
6406069 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* *
6406134 CAACCTTTTACCTGAATCCATCAATTGATGGATTATCTTTTCC-G-GA
66 CAACCTTTTACCTGAATCCATCATTTGATGGATCATCTTTTCCAGTGA
* * *
6406180 GAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAACTTGT
1 G-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
6406245 TCAA-CTTTT
65 TCAACCTTTT
6406254 GGCATAATTC
Statistics
Matches: 277, Mismatches: 20, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
111 7 0.03
112 65 0.23
113 205 0.74
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (113 bp):
GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
CAACCTTTTACCTGAATCCATCATTTGATGGATCATCTTTTCCAGTGA
Found at i:6406581 original size:3 final size:3
Alignment explanation
Indices: 6406575--6406692 Score: 184
Period size: 3 Copynumber: 39.7 Consensus size: 3
6406565 TTTTTATCCA
* *
6406575 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
6406623 TAT CAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
6406670 TAT TAT TAT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
6406693 AATATATTAA
Statistics
Matches: 104, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
2 2 0.02
3 102 0.98
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Done.