Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 107 of 433
Found at i:32801597 original size:47 final size:47
Alignment explanation
Indices: 32801543--32801638 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
32801533 ATTGAGCATC
*
32801543 CTCTGTTGTTCTTATTTGTGGAACCTTATCTACAGTTCTTGGTTAAA
1 CTCTGTTGTTCTTATTTGCGGAACCTTATCTACAGTTCTTGGTTAAA
*
32801590 CTCTGTTGTTCTTATTTGCGGAACCTTATCTATAGTTCTTGGTTAAA
1 CTCTGTTGTTCTTATTTGCGGAACCTTATCTACAGTTCTTGGTTAAA
32801637 CT
1 CT
32801639 ATCTTTTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.19, C:0.18, G:0.17, T:0.47
Consensus pattern (47 bp):
CTCTGTTGTTCTTATTTGCGGAACCTTATCTACAGTTCTTGGTTAAA
Found at i:32807960 original size:45 final size:44
Alignment explanation
Indices: 32807874--32807960 Score: 102
Period size: 45 Copynumber: 2.0 Consensus size: 44
32807864 GCTATATGCC
* * * * *
32807874 TAAAATGAGTAAGACCATAGTTGAAAAATGATATGGCATCATAA
1 TAAAATGAGTAAAACCATAGCTGAAAAATCACATGGAATCATAA
* *
32807918 TAAAAGTGAGTAAAACCATAGCTGAAAGATCCCATGGAATCAT
1 TAAAA-TGAGTAAAACCATAGCTGAAAAATCACATGGAATCAT
32807961 GGGAATAATG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
44 5 0.14
45 30 0.86
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.23
Consensus pattern (44 bp):
TAAAATGAGTAAAACCATAGCTGAAAAATCACATGGAATCATAA
Found at i:32812197 original size:63 final size:63
Alignment explanation
Indices: 32812120--32812245 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
32812110 CCATTTATGT
32812120 GTTGTGGGATTAAATTCAATAAAATTGTGTTTAAATGAGGTTAATTTGGAATTATATAGATCA
1 GTTGTGGGATTAAATTCAATAAAATTGTGTTTAAATGAGGTTAATTTGGAATTATATAGATCA
*
32812183 GTTGTGGGATTAAATTCAATAAAATTGTGTTTAAATGAGGTTATTTTGGAATTATATAGATCA
1 GTTGTGGGATTAAATTCAATAAAATTGTGTTTAAATGAGGTTAATTTGGAATTATATAGATCA
32812246 AGAACAAAAG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.40
Consensus pattern (63 bp):
GTTGTGGGATTAAATTCAATAAAATTGTGTTTAAATGAGGTTAATTTGGAATTATATAGATCA
Found at i:32812748 original size:35 final size:35
Alignment explanation
Indices: 32812709--32812824 Score: 160
Period size: 35 Copynumber: 3.3 Consensus size: 35
32812699 TATATGAGCC
* *
32812709 TTGTATAATAGGCCATATGTGATGATATATGGAAT
1 TTGTATATTCGGCCATATGTGATGATATATGGAAT
**
32812744 TTGTATATTCGGCCATATGTGATGATATATTTAAT
1 TTGTATATTCGGCCATATGTGATGATATATGGAAT
* * *
32812779 TTGTATATTCGGCCATATGTAATGATATATTGAACC
1 TTGTATATTCGGCCATATGTGATGATATATGGAA-T
32812815 TTGTATATTC
1 TTGTATATTC
32812825 AGTCTTATAG
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
35 63 0.86
36 10 0.14
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (35 bp):
TTGTATATTCGGCCATATGTGATGATATATGGAAT
Found at i:32814329 original size:38 final size:38
Alignment explanation
Indices: 32814280--32814399 Score: 145
Period size: 38 Copynumber: 3.1 Consensus size: 38
32814270 TTTAAACTCA
* *
32814280 GATATAATACCAGCACTATGCCTGCGAGATTTAACCCG
1 GATATATTACCAGCACTATGCCTGCGGGATTTAACCCG
* *
32814318 GATATATTACCAGCACGAAGCCTGCGGGATTTAACCCG
1 GATATATTACCAGCACTATGCCTGCGGGATTTAACCCG
*
32814356 GATATAATT-CCAGCA-TATAGCCTGCGGGTCTTTAAGCCCG
1 GATAT-ATTACCAGCACTAT-GCCTGCGGG-ATTTAA-CCCG
32814396 GATA
1 GATA
32814400 CACATCAATA
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
37 1 0.01
38 54 0.76
39 8 0.11
40 8 0.11
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (38 bp):
GATATATTACCAGCACTATGCCTGCGGGATTTAACCCG
Found at i:32814380 original size:76 final size:80
Alignment explanation
Indices: 32814248--32814399 Score: 197
Period size: 78 Copynumber: 1.9 Consensus size: 80
32814238 CAAACATAAC
* *
32814248 ACCAGCACGAAGCCTATGGGACTTTAAACTCAGATATAATACCAGCACTATGCCTGCGAG-ATTT
1 ACCAGCACGAAGCCTACGGGACTTTAAACCCAGATATAATACCAGCACTATGCCTGCGAGTATTT
32814312 AA-CCCGGATATATT
66 AAGCCCGGATATATT
* * * * *
32814326 ACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGATATAATTCCAGCA-TATAGCCTGCGGGTCTT
1 ACCAGCACGAAGCCTACGGGACTTTAAACCCAGATATAATACCAGCACTAT-GCCTGCGAGTATT
32814388 TAAGCCCGGATA
65 TAAGCCCGGATA
32814400 CACATCAATA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
75 3 0.05
76 26 0.41
77 8 0.12
78 27 0.42
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (80 bp):
ACCAGCACGAAGCCTACGGGACTTTAAACCCAGATATAATACCAGCACTATGCCTGCGAGTATTT
AAGCCCGGATATATT
Found at i:32818652 original size:43 final size:43
Alignment explanation
Indices: 32818593--32818708 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 43
32818583 ATAAACCGAG
* * *
32818593 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTT
1 ATGTGATAACATGTAAGACCATGTCTGGGACAGTGGCATCGAT
** * *
32818636 AT-TCGATTTCCTGTAAGACCCTGTCTGGGACAGTGGCATCGAT
1 ATGT-GATAACATGTAAGACCATGTCTGGGACAGTGGCATCGAT
*
32818679 ATGTGATAACATGTAAGACCATATCTGGGA
1 ATGTGATAACATGTAAGACCATGTCTGGGA
32818709 TATGGAATTG
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
42 1 0.02
43 59 0.97
44 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (43 bp):
ATGTGATAACATGTAAGACCATGTCTGGGACAGTGGCATCGAT
Found at i:32823369 original size:33 final size:33
Alignment explanation
Indices: 32823332--32823422 Score: 173
Period size: 33 Copynumber: 2.8 Consensus size: 33
32823322 CGTTTTAATT
32823332 TGGATTTAGCCTGGACTGGTAATCCTAGTTGGC
1 TGGATTTAGCCTGGACTGGTAATCCTAGTTGGC
32823365 TGGATTTAGCCTGGACTGGTAATCCTAGTTGGC
1 TGGATTTAGCCTGGACTGGTAATCCTAGTTGGC
*
32823398 TGGATTTAGCCTGGATTGGTAATCC
1 TGGATTTAGCCTGGACTGGTAATCC
32823423 AGATTAGACT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.19, C:0.18, G:0.30, T:0.34
Consensus pattern (33 bp):
TGGATTTAGCCTGGACTGGTAATCCTAGTTGGC
Found at i:32826798 original size:2 final size:2
Alignment explanation
Indices: 32826791--32826815 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32826781 CCATTAGCAC
32826791 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 A
32826816 CATCACCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32834103 original size:3 final size:3
Alignment explanation
Indices: 32834095--32834139 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
32834085 TTGACATTTT
32834095 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
32834140 TATTTTTATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:32834438 original size:3 final size:3
Alignment explanation
Indices: 32834430--32834474 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
32834420 AGAAAAGGCA
32834430 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
32834475 TGTTATTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:32840929 original size:14 final size:14
Alignment explanation
Indices: 32840912--32840943 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
32840902 AATTTACAAT
32840912 ATTTTAAAATCCTA
1 ATTTTAAAATCCTA
32840926 ATTTTAAAATCCTA
1 ATTTTAAAATCCTA
32840940 ATTT
1 ATTT
32840944 CCAAACGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTTTAAAATCCTA
Found at i:32845972 original size:41 final size:41
Alignment explanation
Indices: 32845915--32845997 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
32845905 ATGATGTGAA
* *
32845915 TAACAAATTGCTTATCCAGGGTAGAATAATTTCACTCTTAT
1 TAACAAATTGCTTATCCAGGGAAGAATAATTCCACTCTTAT
* *
32845956 TAACACATTGCTTATCCGGGGAAGAATAATTCCACTCTTAT
1 TAACAAATTGCTTATCCAGGGAAGAATAATTCCACTCTTAT
32845997 T
1 T
32845998 TTCTCAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (41 bp):
TAACAAATTGCTTATCCAGGGAAGAATAATTCCACTCTTAT
Found at i:32847126 original size:18 final size:18
Alignment explanation
Indices: 32847089--32847126 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
32847079 GAGAATATTA
*
32847089 TTAAATTGTTAATATAAT
1 TTAAATTGTTAACATAAT
32847107 TTAAATT-TTAACATAGAT
1 TTAAATTGTTAACATA-AT
32847125 TT
1 TT
32847127 CAACTAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (18 bp):
TTAAATTGTTAACATAAT
Found at i:32850094 original size:62 final size:62
Alignment explanation
Indices: 32849997--32850117 Score: 145
Period size: 62 Copynumber: 2.0 Consensus size: 62
32849987 TGCGCAATGA
* * *
32849997 ACCATTAATCACAAATCTTCAAAACTTAATTCAAATACAGTAGCATCCTAAGTACCATCACT
1 ACCATTAATCACAAATCTTCAAAACTCAATTCAAATACAATAGCATCCTAAGAACCATCACT
* * * * * *
32850059 ACCATTAAT-ATCAAATCTTCATAGCTCAGTTCAAATGCAATAGCCTCGTAAGAACCATC
1 ACCATTAATCA-CAAATCTTCAAAACTCAATTCAAATACAATAGCATCCTAAGAACCATC
32850118 GCGCAATGAA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
61 1 0.02
62 48 0.98
ACGTcount: A:0.40, C:0.26, G:0.07, T:0.27
Consensus pattern (62 bp):
ACCATTAATCACAAATCTTCAAAACTCAATTCAAATACAATAGCATCCTAAGAACCATCACT
Found at i:32851781 original size:47 final size:47
Alignment explanation
Indices: 32851726--32851816 Score: 173
Period size: 47 Copynumber: 1.9 Consensus size: 47
32851716 ATGCCTTAGT
32851726 TTTTTTCCCGAATCGTCTCATTGTCGAGTCATCCCTTCATTCAGTAG
1 TTTTTTCCCGAATCGTCTCATTGTCGAGTCATCCCTTCATTCAGTAG
*
32851773 TTTTTTCCCGAATCGTCTCATTGTCGAGTCATCCCTTCCTTCAG
1 TTTTTTCCCGAATCGTCTCATTGTCGAGTCATCCCTTCATTCAG
32851817 AACTTTGGCT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.15, C:0.30, G:0.14, T:0.41
Consensus pattern (47 bp):
TTTTTTCCCGAATCGTCTCATTGTCGAGTCATCCCTTCATTCAGTAG
Found at i:32856635 original size:14 final size:14
Alignment explanation
Indices: 32856616--32856654 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
32856606 ATTAAAATAT
* *
32856616 AATATAATATTTTA
1 AATATAATAATTAA
32856630 AATATAAGTAATTAA
1 AATATAA-TAATTAA
32856645 AATATAATAA
1 AATATAATAA
32856655 AAAATAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
AATATAATAATTAA
Found at i:32856816 original size:18 final size:18
Alignment explanation
Indices: 32856788--32856846 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
32856778 TCCTCACCTC
* *
32856788 CATGCCCATGTCCATGA-
1 CATGACCATGTCCATCAT
32856805 CTATGACCATGTCCATCAT
1 C-ATGACCATGTCCATCAT
*
32856824 CATGACCATGAT-CATGAT
1 CATGACCATG-TCCATCAT
32856842 CATGA
1 CATGA
32856847 TGATGTGCAC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.03
18 33 0.92
19 2 0.06
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (18 bp):
CATGACCATGTCCATCAT
Found at i:32856845 original size:12 final size:12
Alignment explanation
Indices: 32856800--32856847 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
32856790 TGCCCATGTC
* *
32856800 CATGACTATGAC
1 CATGACCATGAT
* *
32856812 CATGTCCATCAT
1 CATGACCATGAT
32856824 CATGACCATGAT
1 CATGACCATGAT
*
32856836 CATGATCATGAT
1 CATGACCATGAT
32856848 GATGTGCACG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (12 bp):
CATGACCATGAT
Found at i:32861496 original size:2 final size:2
Alignment explanation
Indices: 32861489--32861520 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
32861479 ATATGTTCTC
32861489 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
32861521 GACTCTTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32861936 original size:15 final size:14
Alignment explanation
Indices: 32861897--32861925 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
32861887 AAATACGATA
32861897 CTCTTTTCATGAAC
1 CTCTTTTCATGAAC
32861911 CTCTTTTCATGAAC
1 CTCTTTTCATGAAC
32861925 C
1 C
32861926 CTTGGTTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.31, G:0.07, T:0.41
Consensus pattern (14 bp):
CTCTTTTCATGAAC
Found at i:32862422 original size:24 final size:23
Alignment explanation
Indices: 32862382--32862426 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
32862372 TCACATAAAC
32862382 TCATAATTCAACTCAATTCAATTT
1 TCATAATTCAACTCAA-TCAATTT
*
32862406 TCATATTTCAA-TACAATCAAT
1 TCATAATTCAACT-CAATCAAT
32862427 ATCCAATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (23 bp):
TCATAATTCAACTCAATCAATTT
Found at i:32863195 original size:17 final size:17
Alignment explanation
Indices: 32863175--32863211 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
32863165 TCTTCTGTTC
32863175 TTTCTTTTATTGT-TTTA
1 TTTCTTTTATT-TATTTA
32863192 TTTCTTTTATTTATTTA
1 TTTCTTTTATTTATTTA
32863209 TTT
1 TTT
32863212 TACTTTATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTCTTTTATTTATTTA
Found at i:32863364 original size:5 final size:5
Alignment explanation
Indices: 32863356--32863410 Score: 101
Period size: 5 Copynumber: 11.0 Consensus size: 5
32863346 TTTATTTATT
*
32863356 TAATA TAATA TAATA TAATA TAGTA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
32863406 TAATA
1 TAATA
32863411 ATATTTTATA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:32864448 original size:23 final size:23
Alignment explanation
Indices: 32864418--32864462 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
32864408 CTTGAAATGA
32864418 AATTTCTATAAATTTAGATTTTT
1 AATTTCTATAAATTTAGATTTTT
32864441 AATTTCTATAAATTTAGATTTT
1 AATTTCTATAAATTTAGATTTT
32864463 AGAGGGTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (23 bp):
AATTTCTATAAATTTAGATTTTT
Found at i:32869317 original size:48 final size:48
Alignment explanation
Indices: 32869164--32869305 Score: 176
Period size: 48 Copynumber: 3.0 Consensus size: 48
32869154 ACATGGTAGG
* * * *
32869164 ATGCCAATGCCATTTCCCGAATATGGTCTAACATGGGATCAAATATTA
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCAAATATTA
* ** **
32869212 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCGTAGGTTA
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCAAATATTA
* * *
32869260 ATGTCAATGCCATGTCCCAAACATGGTCTTATATGGGATCACATAT
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCAAATAT
32869306 CGTTGCCAAT
Statistics
Matches: 78, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 78 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (48 bp):
ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCAAATATTA
Found at i:32870539 original size:36 final size:36
Alignment explanation
Indices: 32870492--32870564 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
32870482 TATTTGTGTG
32870492 AATAATGGTTAATAGGATTCGGTTAGAATGCAAGTA
1 AATAATGGTTAATAGGATTCGGTTAGAATGCAAGTA
* *
32870528 AATAATGGTTAATAGGATTCGGTTGGAATGCAGGTA
1 AATAATGGTTAATAGGATTCGGTTAGAATGCAAGTA
32870564 A
1 A
32870565 TCACTAAGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.37, C:0.05, G:0.27, T:0.30
Consensus pattern (36 bp):
AATAATGGTTAATAGGATTCGGTTAGAATGCAAGTA
Found at i:32889997 original size:5 final size:5
Alignment explanation
Indices: 32889987--32890011 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
32889977 GATACCAACC
32889987 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
32890012 TTTTATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:32891848 original size:12 final size:13
Alignment explanation
Indices: 32891831--32891862 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
32891821 GCAAATGTTA
32891831 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
32891843 AGTTTTGATGCAT
1 AGTTTTGATGCAT
32891856 -GTTTTGA
1 AGTTTTGA
32891863 ATTGTGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:32910766 original size:21 final size:21
Alignment explanation
Indices: 32910729--32910768 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
32910719 AATCATTAAA
*
32910729 TTGATGTTATGATATGTGTCT
1 TTGATGTTATGAAATGTGTCT
32910750 TTGATGTGTAT-AAATGTGT
1 TTGATGT-TATGAAATGTGT
32910769 AAGGGATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.23, C:0.03, G:0.25, T:0.50
Consensus pattern (21 bp):
TTGATGTTATGAAATGTGTCT
Found at i:32914044 original size:46 final size:44
Alignment explanation
Indices: 32913955--32914170 Score: 132
Period size: 46 Copynumber: 4.7 Consensus size: 44
32913945 ACATAACCGT
* *
32913955 GCCGATGCCATGTCCCAAACATGGTCTTACATTGACACATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCG-AG
* * *
32914001 GCCGATGCATGTCCCAGACATGTCTTATACTGGCTTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTCGAG
** * ** *
32914047 GTTGATGCATGTCCCAGACATGTCTTACA-TAGTACTCATCTTAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-G-ACACATCTCGAG
* * * * * *
32914092 GTCGATGCCATGTCCTAGACATGGTCTTACACTGGCTC-TCATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACACATC-T--CGAG
**
32914140 GATGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
32914171 AGCTCACACA
Statistics
Matches: 136, Mismatches: 23, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
44 10 0.07
45 28 0.21
46 68 0.50
47 23 0.17
48 7 0.05
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACACATCTCGAG
Found at i:32914153 original size:93 final size:94
Alignment explanation
Indices: 32913859--32914168 Score: 275
Period size: 93 Copynumber: 3.3 Consensus size: 94
32913849 AGTACCGGCC
* *
32913859 GATGCCATGTCCCAGACATGGTCTTACATTGGCTA-TCATCTTTGAGGTCGATGCCATGTCCCAA
1 GATGCCATGTCCCAGACATGGTCTTACA-TAG-TACTCATC-TT-A-GTCGATGCCATGTCCCAG
* * * **
32913923 ACATGGTTTTACACTAGCTCTCACATAACCGT-GCC
61 ACATGGTCTTACACTGGCTCT-ACATAA-TGTGGAT
* * * *
32913958 GATGCCATGTCCCAAACATGGTCTTACATTG-ACACATCTCGTAGCCGATG-CATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACATAGTACTCATCT--TAGTCGATGCCATGTCCCAGACA
* * * * *
32914021 T-GTCTTATACTGGCT-TACGT-CTCGAGGTT
64 TGGTCTTACACTGGCTCTACATAAT-GTGGAT
*
32914050 GATG-CATGTCCCAGACAT-GTCTTACATAGTACTCATCTTAATGTCGATGCCATGTCCTAGACA
1 GATGCCATGTCCCAGACATGGTCTTACATAGTACTCATCTT-A-GTCGATGCCATGTCCCAGACA
32914113 TGGTCTTACACTGGCTCT-CATAATGTGGAT
64 TGGTCTTACACTGGCTCTACATAATGTGGAT
32914143 GATG-CATGTCCCAGACAT-GTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
32914169 CTAGCTCACA
Statistics
Matches: 175, Mismatches: 24, Indels: 30
0.76 0.10 0.13
Matches are distributed among these distances:
89 1 0.01
90 11 0.06
91 27 0.15
92 21 0.12
93 46 0.26
94 13 0.07
95 13 0.07
96 8 0.05
97 5 0.03
98 3 0.02
99 27 0.15
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (94 bp):
GATGCCATGTCCCAGACATGGTCTTACATAGTACTCATCTTAGTCGATGCCATGTCCCAGACATG
GTCTTACACTGGCTCTACATAATGTGGAT
Found at i:32914551 original size:30 final size:30
Alignment explanation
Indices: 32914515--32914571 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
32914505 AATTCACATT
* *
32914515 TTTGGTAAAATGACCGTTTTGCCCCTAGAC
1 TTTGGTAAAATGACCATTTTACCCCTAGAC
32914545 TTTGGTAAAATGACCATTTTACCCCTA
1 TTTGGTAAAATGACCATTTTACCCCTA
32914572 TTCCCGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (30 bp):
TTTGGTAAAATGACCATTTTACCCCTAGAC
Found at i:32922950 original size:14 final size:13
Alignment explanation
Indices: 32922918--32922952 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
32922908 ACTTGCATTC
*
32922918 TAGAAGTTTTTAG
1 TAGAAATTTTTAG
32922931 TAGAAATTTTTAG
1 TAGAAATTTTTAG
32922944 TATGAAATT
1 TA-GAAATT
32922953 GCTTTGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (13 bp):
TAGAAATTTTTAG
Found at i:32934138 original size:5 final size:5
Alignment explanation
Indices: 32934125--32934186 Score: 115
Period size: 5 Copynumber: 12.2 Consensus size: 5
32934115 TTCTTTAGTT
32934125 TATATA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
32934176 TATAA TATAA T
1 TATAA TATAA T
32934187 TAAAACATAA
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 52 0.93
6 4 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:32957288 original size:11 final size:11
Alignment explanation
Indices: 32957250--32957282 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
32957240 TATTTAAAAA
32957250 TTATTTTGTGT
1 TTATTTTGTGT
32957261 TTATTTTGTGT
1 TTATTTTGTGT
32957272 TTATTTTGTGT
1 TTATTTTGTGT
32957283 GAATTTATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.09, C:0.00, G:0.18, T:0.73
Consensus pattern (11 bp):
TTATTTTGTGT
Found at i:32966757 original size:3 final size:3
Alignment explanation
Indices: 32966749--32966793 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
32966739 TGTATATTAA
32966749 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
32966794 TATGGTTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:32966989 original size:2 final size:2
Alignment explanation
Indices: 32966965--32967024 Score: 92
Period size: 2 Copynumber: 32.0 Consensus size: 2
32966955 GAATTATTAT
32966965 TA TA T- TA TA T- TA T- TA TA -A 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 TA TA TA TA TA TA
32967003 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
32967025 GTAAAGTAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
1 4 0.07
2 50 0.93
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32968659 original size:12 final size:12
Alignment explanation
Indices: 32968642--32968666 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32968632 GCCGACTACT
32968642 GTTACTGTTACC
1 GTTACTGTTACC
32968654 GTTACTGTTACC
1 GTTACTGTTACC
32968666 G
1 G
32968667 ATTCGGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:32968695 original size:45 final size:45
Alignment explanation
Indices: 32968644--32968749 Score: 149
Period size: 45 Copynumber: 2.4 Consensus size: 45
32968634 CGACTACTGT
* ** *
32968644 TACTGTTACCGTTACTGTTACCGATTCGGCACTTTATGTGTCGAA
1 TACTGTTACTGTTACTGTTACCGATTCAACACTGTATGTGTCGAA
* * *
32968689 TACTGTTACTGTTACTGTTATCGATTCAACACTGTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACCGATTCAACACTGTATGTGTCGAA
32968734 TACTGTTACTGTTACT
1 TACTGTTACTGTTACT
32968750 ATTCCGGATT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACCGATTCAACACTGTATGTGTCGAA
Found at i:32968939 original size:18 final size:18
Alignment explanation
Indices: 32968916--32969100 Score: 101
Period size: 18 Copynumber: 10.3 Consensus size: 18
32968906 AAAGGTATAA
*
32968916 AATAATTGATTATTATTG
1 AATAATTGATTATTACTG
* * *
32968934 AATAATTGACTGTTACCG
1 AATAATTGATTATTACTG
* * * *
32968952 GAT-ATTAGACTGTTATTG
1 AATAATT-GATTATTACTG
* *
32968970 AATAACTGAATATTACTG
1 AATAATTGATTATTACTG
*
32968988 AATAATTGATCATTACTG
1 AATAATTGATTATTACTG
* * **
32969006 AATAACTGATTGTCGCTG
1 AATAATTGATTATTACTG
*
32969024 AATGAA-TGA-CAGTTACTG
1 AAT-AATTGATTA-TTACTG
* *
32969042 AATAACTTAATTGTTACTG
1 AATAA-TTGATTATTACTG
32969061 AAT-ATCTGATT-TTACTG
1 AATAAT-TGATTATTACTG
* *
32969078 AATAATTGACTGTTACTG
1 AATAATTGATTATTACTG
*
32969096 GATAA
1 AATAA
32969101 CCGATCAATT
Statistics
Matches: 127, Mismatches: 30, Indels: 20
0.72 0.17 0.11
Matches are distributed among these distances:
17 19 0.15
18 93 0.73
19 15 0.12
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (18 bp):
AATAATTGATTATTACTG
Found at i:32969008 original size:36 final size:36
Alignment explanation
Indices: 32968916--32969100 Score: 121
Period size: 36 Copynumber: 5.1 Consensus size: 36
32968906 AAAGGTATAA
* * * * *
32968916 AATAATTGATTATTATTGAATAATTGACTGTTACCG
1 AATAATTGATCATTACTGAATAACTGAATGTTACTG
* * * *
32968952 GAT-ATTAGA-CTGTTATTGAATAACTGAATATTACTG
1 AATAATT-GATC-ATTACTGAATAACTGAATGTTACTG
* **
32968988 AATAATTGATCATTACTGAATAACTGATTGTCGCTG
1 AATAATTGATCATTACTGAATAACTGAATGTTACTG
*
32969024 AATGAA-TGA-CAGTTACTGAATAACTTAATTGTTACTG
1 AAT-AATTGATCA-TTACTGAATAACTGAA-TGTTACTG
* * *
32969061 AAT-ATCTGAT-TTTACTGAATAATTGACTGTTACTG
1 AATAAT-TGATCATTACTGAATAACTGAATGTTACTG
*
32969096 GATAA
1 AATAA
32969101 CCGATCAATT
Statistics
Matches: 115, Mismatches: 23, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
35 16 0.14
36 81 0.70
37 18 0.16
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (36 bp):
AATAATTGATCATTACTGAATAACTGAATGTTACTG
Found at i:32969077 original size:17 final size:19
Alignment explanation
Indices: 32969035--32969101 Score: 68
Period size: 17 Copynumber: 3.7 Consensus size: 19
32969025 ATGAATGACA
32969035 GTTACTGAATAACTTAATT
1 GTTACTGAATAACTTAATT
* *
32969054 GTTACTGAATATC-TGATT
1 GTTACTGAATAACTTAATT
* *
32969072 -TTACTGAATAA-TTGACT
1 GTTACTGAATAACTTAATT
*
32969089 GTTACTGGATAAC
1 GTTACTGAATAAC
32969102 CGATCAATTG
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 14 0.35
18 14 0.35
19 12 0.30
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (19 bp):
GTTACTGAATAACTTAATT
Found at i:32969079 original size:54 final size:55
Alignment explanation
Indices: 32968982--32969101 Score: 138
Period size: 54 Copynumber: 2.2 Consensus size: 55
32968972 TAACTGAATA
* *
32968982 TTACTGAATAA-TTGATCATTACTGAATAACTGATTGTCGCTGAATGAA-TGACAG
1 TTACTGAATAACTTAATCATTACTGAATAACTGATTGTCACTGAAT-AATTGACAG
** * * *
32969036 TTACTGAATAACTTAATTGTTACTGAATATCTGATT-TTACTGAATAATTGACTG
1 TTACTGAATAACTTAATCATTACTGAATAACTGATTGTCACTGAATAATTGACAG
*
32969090 TTACTGGATAAC
1 TTACTGAATAAC
32969102 CGATCAATTG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
53 2 0.04
54 34 0.61
55 20 0.36
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (55 bp):
TTACTGAATAACTTAATCATTACTGAATAACTGATTGTCACTGAATAATTGACAG
Found at i:32977469 original size:21 final size:23
Alignment explanation
Indices: 32977443--32977490 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
32977433 AAATGACAAA
* *
32977443 ATTTTTATAAAC-AATTATGAAT
1 ATTTTAATAAACTAACTATGAAT
*
32977465 ATTTTAATAATCTAACTATGAAT
1 ATTTTAATAAACTAACTATGAAT
32977488 ATT
1 ATT
32977491 CATTCAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (23 bp):
ATTTTAATAAACTAACTATGAAT
Found at i:32986107 original size:54 final size:54
Alignment explanation
Indices: 32986039--32986152 Score: 174
Period size: 54 Copynumber: 2.1 Consensus size: 54
32986029 CATGGCCTAG
* *** *
32986039 CACACGGGCGTGTGGCTTGGTTGTGTGTCACAAGTCAGTATACTCATCATTTTT
1 CACACGGGCATGTGGCTTGCCCGTGTGTCACAAGTCAGTATACTCACCATTTTT
*
32986093 CACACGGGCATGTGGCTTGCCCGTGTGTCACAAGTCAGTATGCTCACCATTTTT
1 CACACGGGCATGTGGCTTGCCCGTGTGTCACAAGTCAGTATACTCACCATTTTT
32986147 CACACG
1 CACACG
32986153 CCCTAGCACA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (54 bp):
CACACGGGCATGTGGCTTGCCCGTGTGTCACAAGTCAGTATACTCACCATTTTT
Found at i:32987960 original size:21 final size:21
Alignment explanation
Indices: 32987934--32987979 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
32987924 ATAAGTTTCC
* *
32987934 TTATCTCTCTGTACTTGTGAA
1 TTATCTCTCTGTACTTCTAAA
32987955 TTATCTCTCTGTACTTCTAAA
1 TTATCTCTCTGTACTTCTAAA
32987976 TTAT
1 TTAT
32987980 TGTGGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.22, C:0.20, G:0.09, T:0.50
Consensus pattern (21 bp):
TTATCTCTCTGTACTTCTAAA
Found at i:32990586 original size:95 final size:95
Alignment explanation
Indices: 32990424--32990661 Score: 274
Period size: 95 Copynumber: 2.5 Consensus size: 95
32990414 GACGTTTGGG
* *
32990424 TGATATGTGTGCTAGTGTAAGACATGTCTGGGACAT-GCATCGG--CCACATTATGAGAGCCAGT
1 TGATATGTGT-C-AGTGTAAGACAAGTCTGGGACATGGCATCGGCACCACATGATGAGAGCCAGT
32990486 GTAAGACCATGTCT-GAGACATGGC-TTCGG-CT
64 GTAAGACCATGTCTAG-GACATGGCATT-GGTCT
*
32990517 TGATATGTGTCAGTGTAAGACCAAATCTGGGACATGGCATCGGCACCAACA-GATGAGAGCCAGT
1 TGATATGTGTCAGTGTAAGA-CAAGTCTGGGACATGGCATCGGCACC-ACATGATGAGAGCCAGT
32990581 GTAAGACCATGTCTAGGACATGGCATTGGTCT
64 GTAAGACCATGTCTAGGACATGGCATTGGTCT
* * *
32990613 CGATATATGAGAGTCAGTGTAAGACAATGTCTGGGACATGGCGTCGGCA
1 TG--ATAT--GTGTCAGTGTAAGACAA-GTCTGGGACATGGCATCGGCA
32990662 TCTTACTCTA
Statistics
Matches: 125, Mismatches: 7, Indels: 19
0.83 0.05 0.13
Matches are distributed among these distances:
91 9 0.07
92 13 0.10
93 17 0.14
95 38 0.30
96 9 0.07
98 4 0.03
99 3 0.02
100 32 0.26
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (95 bp):
TGATATGTGTCAGTGTAAGACAAGTCTGGGACATGGCATCGGCACCACATGATGAGAGCCAGTGT
AAGACCATGTCTAGGACATGGCATTGGTCT
Found at i:32990589 original size:50 final size:50
Alignment explanation
Indices: 32990437--32990661 Score: 152
Period size: 50 Copynumber: 4.7 Consensus size: 50
32990427 TATGTGTGCT
* *
32990437 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG--CC-ACATTATGAGAGCC
1 AGTGTAAGACCAAGTCTGGGACATGGCATCGGCACCAACA-GATGAGAGCC
* * * ** * *
32990483 AGTGTAAGACCATGTCTGAGACATGGCTTCGG---C--TTGAT-ATGTGTC
1 AGTGTAAGACCAAGTCTGGGACATGGCATCGGCACCAACAGATGA-GAGCC
*
32990528 AGTGTAAGACCAAATCTGGGACATGGCATCGGCACCAACAGATGAGAGCC
1 AGTGTAAGACCAAGTCTGGGACATGGCATCGGCACCAACAGATGAGAGCC
* * * * * * * *
32990578 AGTGTAAGACCATGTCTAGGACATGGCATTGGTC-TCGATATATGAGAGTC
1 AGTGTAAGACCAAGTCTGGGACATGGCATCGG-CACCAACAGATGAGAGCC
*
32990628 AGTGTAAGA-CAATGTCTGGGACATGGCGTCGGCA
1 AGTGTAAGACCAA-GTCTGGGACATGGCATCGGCA
32990662 TCTTACTCTA
Statistics
Matches: 139, Mismatches: 28, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
44 1 0.01
45 33 0.24
46 9 0.06
47 14 0.10
48 7 0.05
49 3 0.02
50 70 0.50
51 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
AGTGTAAGACCAAGTCTGGGACATGGCATCGGCACCAACAGATGAGAGCC
Found at i:32991405 original size:12 final size:12
Alignment explanation
Indices: 32991390--32991429 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
32991380 TGGTGCATGT
32991390 AAGGGTGGCATA
1 AAGGGTGGCATA
*
32991402 AAGGGT-GCATGT
1 AAGGGTGGCAT-A
32991414 AAGGGTGGCATA
1 AAGGGTGGCATA
32991426 AAGG
1 AAGG
32991430 CTTGGTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 4 0.17
12 16 0.67
13 4 0.17
ACGTcount: A:0.33, C:0.07, G:0.42, T:0.17
Consensus pattern (12 bp):
AAGGGTGGCATA
Found at i:32991408 original size:24 final size:24
Alignment explanation
Indices: 32991381--32991429 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
32991371 TATATAGGTT
32991381 GGTGCATGTAAGGGTGGCATAAAG
1 GGTGCATGTAAGGGTGGCATAAAG
32991405 GGTGCATGTAAGGGTGGCATAAAG
1 GGTGCATGTAAGGGTGGCATAAAG
32991429 G
1 G
32991430 CTTGGTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.43, T:0.20
Consensus pattern (24 bp):
GGTGCATGTAAGGGTGGCATAAAG
Found at i:33005389 original size:2 final size:2
Alignment explanation
Indices: 33005384--33005409 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33005374 TATATATATA
33005384 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
33005410 AATGAGATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:33005583 original size:15 final size:15
Alignment explanation
Indices: 33005565--33005621 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
33005555 TATCTGTTTT
33005565 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
33005580 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
33005595 ATTGAATTTATATTG
1 ATTGAATTTATATTG
33005610 ATTGAA-TTATAT
1 ATTGAATTTATAT
33005622 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:33005600 original size:30 final size:28
Alignment explanation
Indices: 33005561--33005619 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
33005551 TGAATATCTG
33005561 TTTTATTGAATTTATATTGATTGAAATTA
1 TTTTATTGAATTTATATTGATTG-AATTA
33005590 TTTTGATTGAATTTATATTGATTGAATTA
1 TTTT-ATTGAATTTATATTGATTGAATTA
33005619 T
1 T
33005620 ATAATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (28 bp):
TTTTATTGAATTTATATTGATTGAATTA
Found at i:33006031 original size:23 final size:23
Alignment explanation
Indices: 33006005--33006079 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 23
33005995 AGGCACTTTA
33006005 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
33006028 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
* **
33006049 TGTGTCGT-TTT-AGGCACTTTA
1 TGTGTCGTATTTCAGGCACCTCG
33006070 TGTGTCGTAT
1 TGTGTCGTAT
33006080 ACTGATCAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
21 35 0.76
22 2 0.04
23 9 0.20
ACGTcount: A:0.13, C:0.21, G:0.27, T:0.39
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:33006262 original size:18 final size:19
Alignment explanation
Indices: 33006241--33006281 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
33006231 AATGAAATGA
33006241 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
33006259 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
33006278 GAAA
1 GAAA
33006282 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:33015930 original size:26 final size:26
Alignment explanation
Indices: 33015901--33015952 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
33015891 TTAAATAGAT
33015901 GTTGTTCATAAAACTCTATTAACAAA
1 GTTGTTCATAAAACTCTATTAACAAA
33015927 GTTGTTCATAAAACTCTATTAACAAA
1 GTTGTTCATAAAACTCTATTAACAAA
33015953 ATAAATTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (26 bp):
GTTGTTCATAAAACTCTATTAACAAA
Found at i:33018042 original size:2 final size:2
Alignment explanation
Indices: 33018035--33018061 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
33018025 GAAAATAATA
33018035 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
33018062 ATGTATGTCA
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:33019004 original size:17 final size:17
Alignment explanation
Indices: 33018943--33019010 Score: 63
Period size: 16 Copynumber: 4.2 Consensus size: 17
33018933 TATTTGCATT
*
33018943 ATTTTAGATTCAAATT-
1 ATTTTAGATTTAAATTA
* *
33018959 ATTTTA-AGTTTAGA-TC
1 ATTTTAGA-TTTAAATTA
*
33018975 ATTTGAG-TTTAAATTA
1 ATTTTAGATTTAAATTA
33018991 ATTTTAGATTTAAATTA
1 ATTTTAGATTTAAATTA
33019008 ATT
1 ATT
33019011 CATATTTAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
15 7 0.17
16 22 0.54
17 12 0.29
ACGTcount: A:0.37, C:0.03, G:0.09, T:0.51
Consensus pattern (17 bp):
ATTTTAGATTTAAATTA
Found at i:33019725 original size:6 final size:6
Alignment explanation
Indices: 33019714--33019740 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
33019704 TGACATAGAG
33019714 TGTGTA TGTGTA TGTGTA TGTGTA TGT
1 TGTGTA TGTGTA TGTGTA TGTGTA TGT
33019741 ATATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (6 bp):
TGTGTA
Found at i:33022438 original size:10 final size:10
Alignment explanation
Indices: 33022425--33022459 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
33022415 AGTACAAAAA
33022425 TATTTTTTAT
1 TATTTTTTAT
33022435 TATTTTTTAT
1 TATTTTTTAT
*
33022445 ATATTTTTCAT
1 -TATTTTTTAT
33022456 TATT
1 TATT
33022460 CAATTTAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (10 bp):
TATTTTTTAT
Found at i:33025888 original size:6 final size:6
Alignment explanation
Indices: 33025881--33025962 Score: 128
Period size: 6 Copynumber: 13.7 Consensus size: 6
33025871 ACTTGTTCAC
* * *
33025881 CCTCAC CCTCAC CCTCAC CCTCAA CCTCAA CCTCAA CCTCAA CCTCAA
1 CCTCAA CCTCAA CCTCAA CCTCAA CCTCAA CCTCAA CCTCAA CCTCAA
*
33025929 CCTCAA CCTCAA CCTCAA CCTCAC CCTCAA CCTC
1 CCTCAA CCTCAA CCTCAA CCTCAA CCTCAA CCTC
33025963 TTTCCTTTCT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 73 1.00
ACGTcount: A:0.27, C:0.56, G:0.00, T:0.17
Consensus pattern (6 bp):
CCTCAA
Found at i:33030899 original size:3 final size:3
Alignment explanation
Indices: 33030891--33030971 Score: 162
Period size: 3 Copynumber: 27.0 Consensus size: 3
33030881 AAAATAAAGG
33030891 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
33030939 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
33030972 GTTAGAATTA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:33038698 original size:93 final size:93
Alignment explanation
Indices: 33038586--33038757 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
33038576 CGCCCATAAG
* *
33038586 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
33038651 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
33038679 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
33038744 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
33038758 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:33038754 original size:46 final size:46
Alignment explanation
Indices: 33038579--33038754 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
33038569 ATGTAACCGC
* * *
33038579 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
33038625 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
33038675 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
33038718 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
33038755 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:33046704 original size:47 final size:47
Alignment explanation
Indices: 33046595--33046705 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
33046585 CCGGGATAAG
*
33046595 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
33046642 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
33046689 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
33046706 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:33051439 original size:93 final size:93
Alignment explanation
Indices: 33051327--33051498 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
33051317 CGCCCATAAG
* *
33051327 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
33051392 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
33051420 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
33051485 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
33051499 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:33051495 original size:46 final size:46
Alignment explanation
Indices: 33051320--33051495 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
33051310 TGTAACCCGC
* * *
33051320 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
33051366 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
33051416 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
33051459 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
33051496 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:33055446 original size:25 final size:25
Alignment explanation
Indices: 33055386--33055447 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
33055376 CATTTCACAA
* * *
33055386 CTTGTGTGAGCATTTATAGATACGG
1 CTTGTGTGAGCAATTACAGATACAG
* * *
33055411 CTCGTGAGAGCAATTACAGTTACAG
1 CTTGTGTGAGCAATTACAGATACAG
33055436 CTTGTGTGAGCA
1 CTTGTGTGAGCA
33055448 TCTTTCCCGC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (25 bp):
CTTGTGTGAGCAATTACAGATACAG
Found at i:33057337 original size:13 final size:13
Alignment explanation
Indices: 33057319--33057343 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33057309 CAATAATTAC
33057319 ATGAATTGGTTAT
1 ATGAATTGGTTAT
33057332 ATGAATTGGTTA
1 ATGAATTGGTTA
33057344 GATTGAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (13 bp):
ATGAATTGGTTAT
Found at i:33061824 original size:2 final size:2
Alignment explanation
Indices: 33061817--33061842 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33061807 CATAACTTTA
33061817 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
33061843 TTGTATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33067338 original size:27 final size:27
Alignment explanation
Indices: 33067300--33067353 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
33067290 TCCAACATTG
33067300 GATGATTCTGCAATATCGTGCTTGCAA
1 GATGATTCTGCAATATCGTGCTTGCAA
33067327 GATGATTCTGCAATATCGTGCTTGCAA
1 GATGATTCTGCAATATCGTGCTTGCAA
33067354 CGCATGTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (27 bp):
GATGATTCTGCAATATCGTGCTTGCAA
Found at i:33068600 original size:17 final size:17
Alignment explanation
Indices: 33068580--33068614 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
33068570 ATTTATTTAA
*
33068580 TCAATTAATTTAATTTC
1 TCAATTAAATTAATTTC
*
33068597 TCAATTAAATTATTTTC
1 TCAATTAAATTAATTTC
33068614 T
1 T
33068615 TAATCCAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.54
Consensus pattern (17 bp):
TCAATTAAATTAATTTC
Found at i:33070240 original size:12 final size:12
Alignment explanation
Indices: 33070229--33070270 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
33070219 AGGTATTAAA
*
33070229 AGAAAGAGTAA-
1 AGAAAGAGAAAT
*
33070240 AGAAATAGAAAT
1 AGAAAGAGAAAT
*
33070252 AGAAATAGAAAT
1 AGAAAGAGAAAT
33070264 AGAAAGA
1 AGAAAGA
33070271 CACGCAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (12 bp):
AGAAAGAGAAAT
Found at i:33070251 original size:6 final size:6
Alignment explanation
Indices: 33070240--33070268 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
33070230 GAAAGAGTAA
33070240 AGAAAT AGAAAT AGAAAT AGAAAT AGAAA
1 AGAAAT AGAAAT AGAAAT AGAAAT AGAAA
33070269 GACACGCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (6 bp):
AGAAAT
Found at i:33072052 original size:60 final size:60
Alignment explanation
Indices: 33071959--33072075 Score: 189
Period size: 60 Copynumber: 1.9 Consensus size: 60
33071949 TGATAGTTAT
* * **
33071959 ATTGTGGATGAATTGTAAATGAGGTTATAAGTGTAATGTTGGTTTGGTATATATATAAAC
1 ATTGTGGATGAATTGTAAATAAGGTTATAAGTGTAATGTTAGTTTAATATATATATAAAC
*
33072019 ATTGTGGATGGATTGTAAATAAGGTTATAAGTGTAATGTTAGTTTAATATATATATA
1 ATTGTGGATGAATTGTAAATAAGGTTATAAGTGTAATGTTAGTTTAATATATATATA
33072076 TAAACATGTG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.35, C:0.01, G:0.23, T:0.41
Consensus pattern (60 bp):
ATTGTGGATGAATTGTAAATAAGGTTATAAGTGTAATGTTAGTTTAATATATATATAAAC
Found at i:33074543 original size:27 final size:27
Alignment explanation
Indices: 33074495--33074653 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
33074485 GCGAGGTTGC
* *
33074495 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
33074522 CAGATATTGTGCCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
33074548 CAGATATATGTAGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
** *
33074575 CAGATAATCATGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
33074602 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
33074629 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
33074654 GACGGTTCCT
Statistics
Matches: 112, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
26 10 0.09
27 97 0.87
28 5 0.04
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:33074595 original size:54 final size:54
Alignment explanation
Indices: 33074537--33074653 Score: 207
Period size: 54 Copynumber: 2.2 Consensus size: 54
33074527 ATTGTGCCAG
33074537 AGCCACCAGAACAGATATATGTAGCAGAGCCACCAGATCAGATAATCATGGCAT
1 AGCCACCAGAACAGATATATGTAGCAGAGCCACCAGATCAGATAATCATGGCAT
* **
33074591 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCAT
1 AGCCACCAGAACAGATATATGTAGCAGAGCCACCAGATCAGATAATCATGGCAT
33074645 AGCCACCAG
1 AGCCACCAG
33074654 GACGGTTCCT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (54 bp):
AGCCACCAGAACAGATATATGTAGCAGAGCCACCAGATCAGATAATCATGGCAT
Found at i:33076305 original size:26 final size:26
Alignment explanation
Indices: 33076274--33076381 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
33076264 TGAAATGCCC
*
33076274 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
33076300 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * * *
33076326 ATCATAGAATATTTATCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
33076352 ATCATGGAACATTTACCTACCCCATT
1 ATCATGGAACATTTACCTAACCCATT
33076378 ATCA
1 ATCA
33076382 ATTTGTACCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:33077492 original size:25 final size:25
Alignment explanation
Indices: 33077464--33077514 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
33077454 AGTTTCCACC
*
33077464 AACAATTTCTTACAAATTTATTCAT
1 AACAATTTCTGACAAATTTATTCAT
* *
33077489 AACAGTTTCTGATAAATTTATTCAT
1 AACAATTTCTGACAAATTTATTCAT
33077514 A
1 A
33077515 TAACTCGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.43
Consensus pattern (25 bp):
AACAATTTCTGACAAATTTATTCAT
Found at i:33078307 original size:17 final size:19
Alignment explanation
Indices: 33078287--33078324 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
33078277 CCAACTACCC
*
33078287 ACCCAA-TAC-AACCCAAA
1 ACCCAATTACTAAACCAAA
33078304 ACCCAATTACTAAACCAAA
1 ACCCAATTACTAAACCAAA
33078323 AC
1 AC
33078325 AGCCCAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.37, G:0.00, T:0.11
Consensus pattern (19 bp):
ACCCAATTACTAAACCAAA
Found at i:33079560 original size:150 final size:143
Alignment explanation
Indices: 33079393--33079835 Score: 436
Period size: 147 Copynumber: 3.0 Consensus size: 143
33079383 CTATTGCTAT
* *
33079393 TATTATA-TTGTTATTTTTTATTTTCTATTACCAATATCATTATTATTACTATTATTATATATTA
1 TATTATATTTGTT-TTTTTTATTTT-TATT---ATTATCATTATTATTATTATTATTATATATTA
* *
33079457 GTGAATACTTTTTATTATATATGTATAGGTATATATATTTATATATAGTATTATTTTTTATTTAC
61 GTGTATA-TTTTTATTATATATGTATA--TATATATATTTATATATAGTATTATTTTTTAATTAC
33079522 TTTATTTTAATATTTTTATTA
123 TTTATTTTAATATTTTTATTA
*
33079543 TATTATATTTGTTTTTTTGTATTTTAATATTATTA-CTATTATCATTATTATTATTA-ATATTAG
1 TATTATATTTGTTTTTTT-TATTTT--TATTATTATC-ATTATTATTATTATTATTATATATTAG
* * * * *
33079606 TGTGTATTTTTATTATATATGGGTTGTATATGTATATATTTATATATAGCATTATTCTTT-GTTA
62 TGTATATTTTTATTATATA-----TGTATATATATATATTTATATATAGTATTATTTTTTAATTA
33079670 CTTTATTTTAATATTTTTATTA
122 CTTTATTTTAATATTTTTATTA
* * *** * *
33079692 TATTGCT-TTTGCGTTTCAATATTATTATTATTATTATTATTATTATTATTATTAT-TATTAGTG
1 TATT-ATATTTG-TTTTTTTTATTTTTATTATTATCATTATTATTATTATTATTATATATTAGTG
* * * *
33079755 TATATTTTTATTATATTTGCATATATATGTA-TT-TATATAGTAGTA-TTTTTAATTACTTTATT
64 TATATTTTTATTATATATGTATATATATATATTTATATATAGTATTATTTTTTAATTACTTTATT
*
33079817 TTAATGTTATTATATTA
129 TTAATATT-TT-TATTA
33079834 TA
1 TA
33079836 CACTCTTCTT
Statistics
Matches: 249, Mismatches: 28, Indels: 40
0.79 0.09 0.13
Matches are distributed among these distances:
139 4 0.02
140 27 0.11
141 4 0.02
142 18 0.07
147 62 0.25
148 12 0.05
149 58 0.23
150 43 0.17
151 11 0.04
152 10 0.04
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.60
Consensus pattern (143 bp):
TATTATATTTGTTTTTTTTATTTTTATTATTATCATTATTATTATTATTATTATATATTAGTGTA
TATTTTTATTATATATGTATATATATATATTTATATATAGTATTATTTTTTAATTACTTTATTTT
AATATTTTTATTA
Found at i:33079768 original size:3 final size:3
Alignment explanation
Indices: 33079711--33079751 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
33079701 TGCGTTTCAA
33079711 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
33079752 GTGTATATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:33079903 original size:3 final size:3
Alignment explanation
Indices: 33079889--33080107 Score: 53
Period size: 3 Copynumber: 72.3 Consensus size: 3
33079879 TTAATTTAAC
* * * * * *
33079889 TTA TTAA TTA TTA TTA TCA TTA TCA CTA TTG TTA TTA CT- TTA CTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
33079934 TCGTA ATA TAA TATA TTA TTA ATA TTA CTT- TTA TT- TTCA TTA TTA
1 T--TA TTA TTA T-TA TTA TTA TTA TTA -TTA TTA TTA TT-A TTA TTA
* * * * **
33079979 TTA TTA TTA CTA TTA TTCT TTA TTG TCA TGG TTA TTA TGT- TTA TT-
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* * * * * *
33080024 TTCA -TA GCTA TTA TT- TT- TTA TCA CTA ATA TTA CTA TTG TTA -TA
1 TT-A TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
33080067 TTTA TTA TTA TTA CTT- TTA TTA TAA TTA CTA TTA TTA TTA T
1 -TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA T
33080108 AGCTTTTCTT
Statistics
Matches: 152, Mismatches: 43, Indels: 42
0.64 0.18 0.18
Matches are distributed among these distances:
2 17 0.11
3 115 0.76
4 18 0.12
5 2 0.01
ACGTcount: A:0.30, C:0.08, G:0.04, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:33080085 original size:15 final size:15
Alignment explanation
Indices: 33080067--33080107 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
33080057 TATTGTTATA
33080067 TTTATTATTATTACT
1 TTTATTATTATTACT
*
33080082 TTTATTATAATTACT
1 TTTATTATTATTACT
*
33080097 ATTATTATTAT
1 TTTATTATTAT
33080108 AGCTTTTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTATTATTATTACT
Found at i:33080089 original size:24 final size:24
Alignment explanation
Indices: 33080046--33080103 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
33080036 ATTTTTTATC
* * *
33080046 ACTAATATTACTATTGTTATATTT
1 ACTATTATTACTATTATTATAATT
* *
33080070 ATTATTATTACTTTTATTATAATT
1 ACTATTATTACTATTATTATAATT
33080094 ACTATTATTA
1 ACTATTATTA
33080104 TTATAGCTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (24 bp):
ACTATTATTACTATTATTATAATT
Found at i:33091356 original size:88 final size:88
Alignment explanation
Indices: 33091198--33091384 Score: 347
Period size: 88 Copynumber: 2.1 Consensus size: 88
33091188 GAAACTAGAG
*
33091198 GAAGCAGAGTGGGTTCGAGCTCGATATGACCAGTTAAACCTTATCAAAGAAAAATGTTTGAAGGC
1 GAAG-AGAATGGGTTCGAGCTCGATATGACCAGTTAAACCTTATCAAAGAAAAATGTTTGAAGGC
33091263 AATCTGTCATGGACAAATGTACCA
65 AATCTGTCATGGACAAATGTACCA
33091287 GAAGAGAATGGGTTCGAGCTCGATATGACCAGTTAAACCTTATCAAAGAAAAATGTTTGAAGGCA
1 GAAGAGAATGGGTTCGAGCTCGATATGACCAGTTAAACCTTATCAAAGAAAAATGTTTGAAGGCA
*
33091352 ATCTGTCATGGACAGATGTACCA
66 ATCTGTCATGGACAAATGTACCA
33091375 GAAGAGAATG
1 GAAGAGAATG
33091385 ATTGTGGCCC
Statistics
Matches: 96, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
88 92 0.96
89 4 0.04
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.23
Consensus pattern (88 bp):
GAAGAGAATGGGTTCGAGCTCGATATGACCAGTTAAACCTTATCAAAGAAAAATGTTTGAAGGCA
ATCTGTCATGGACAAATGTACCA
Found at i:33093013 original size:2 final size:2
Alignment explanation
Indices: 33093006--33093033 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
33092996 TCAAAGAAGA
33093006 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
33093034 GATTGATGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33094672 original size:76 final size:76
Alignment explanation
Indices: 33094473--33094793 Score: 405
Period size: 77 Copynumber: 4.2 Consensus size: 76
33094463 GGTATCCTGA
* * * * *
33094473 TATTTTT-ATTTCTGTTTTTCAAAAAATCAACTCATGTTGCAAGAGGCGAGTTGAGCCTCGGGCC
1 TATTTTTAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
*
33094537 ACATGCCGA-G
66 ACACGCCGAGG
* *
33094547 -ATTTTTCAATTTCTATTTTTTTAAAAAAATCAACTCATATTTCGAGAGGTGAGTTGAGCCTCGG
1 TATTTTT-AATTTCTA--TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
*
33094611 GTCACACGCTGAGG
63 GTCACACGCCGAGG
** * * * *
33094625 TACCTTTAGTTCCTATTTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGAC
1 TATTTTTAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
*
33094690 ACAAGCCGAGG
66 ACACGCCGAGG
* *
33094701 TATTTTTAATTTTTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
1 TATTTTTAATTTCTATTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
*
33094766 CACACGCTGAGG
65 CACACGCCGAGG
*
33094778 TATTTTTAGTTTCTAT
1 TATTTTTAATTTCTAT
33094794 CAACTCATAT
Statistics
Matches: 208, Mismatches: 32, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
73 6 0.03
75 6 0.03
76 70 0.34
77 115 0.55
78 7 0.03
79 4 0.02
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (76 bp):
TATTTTTAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
ACACGCCGAGG
Found at i:33094685 original size:153 final size:153
Alignment explanation
Indices: 33094487--33094793 Score: 467
Period size: 153 Copynumber: 2.0 Consensus size: 153
33094477 TTTATTTCTG
* * *
33094487 TTTTTCAAAAAATCAACTCATGTTGCAAGAGGCGAGTTGAGCCTCGGGCCACATGCCGA-G-ATT
1 TTTTTCAAAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCGGGACACAAGCCGAGGTATT
* *
33094550 TTTCAATTTCTAT-TTTTTTAAAAAAATCAACTCATATTTCGAGAGGTGAGTTGAGCCTCGGGTC
66 TTT-AATTT-T-TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
33094614 ACACGCTGAGGTACCTTTAGTTCCTA
128 ACACGCTGAGGTACCTTTAGTTCCTA
** *
33094640 TTTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACACAAGCCGAGGTATT
1 TTTTTCAAAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCGGGACACAAGCCGAGGTATT
33094705 TTTAATTTTTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
66 TTTAATTTTTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
** *
33094770 CGCTGAGGTATTTTTAGTTTCTA
131 CGCTGAGGTACCTTTAGTTCCTA
33094793 T
1 T
33094794 CAACTCATAT
Statistics
Matches: 140, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
152 1 0.01
153 127 0.91
154 6 0.04
155 6 0.04
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (153 bp):
TTTTTCAAAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCGGGACACAAGCCGAGGTATT
TTTAATTTTTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
CGCTGAGGTACCTTTAGTTCCTA
Found at i:33094817 original size:64 final size:64
Alignment explanation
Indices: 33094728--33094847 Score: 213
Period size: 64 Copynumber: 1.9 Consensus size: 64
33094718 TTTCAAAAAA
* * *
33094728 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTAGTTTCT
1 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACACACTGAGGTATTTTTAGTTTCT
33094792 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACACACTGAGGTATTTT
1 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACACACTGAGGTATTTT
33094848 CAATTTTTAC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (64 bp):
ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACACACTGAGGTATTTTTAGTTTCT
Found at i:33095119 original size:28 final size:28
Alignment explanation
Indices: 33095075--33095129 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
33095065 AGTTGCATGA
33095075 AGTGGATCAAAACAACAAGACGCAGTGG
1 AGTGGATCAAAACAACAAGACGCAGTGG
**
33095103 AGTGGATCAAAGTAACAAGACGCAGTG
1 AGTGGATCAAAACAACAAGACGCAGTG
33095130 CACTAGAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.42, C:0.16, G:0.29, T:0.13
Consensus pattern (28 bp):
AGTGGATCAAAACAACAAGACGCAGTGG
Found at i:33095321 original size:17 final size:19
Alignment explanation
Indices: 33095301--33095338 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
33095291 CCAACTACCC
*
33095301 ACCCAA-TAC-AACCCAAA
1 ACCCAATTACTAAACCAAA
33095318 ACCCAATTACTAAACCAAA
1 ACCCAATTACTAAACCAAA
33095337 AC
1 AC
33095339 AGCCCAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.37, G:0.00, T:0.11
Consensus pattern (19 bp):
ACCCAATTACTAAACCAAA
Found at i:33096382 original size:3 final size:3
Alignment explanation
Indices: 33096376--33096401 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
33096366 TTTTTTATAT
33096376 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
33096402 TTATTATTAT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:33096406 original size:3 final size:3
Alignment explanation
Indices: 33096400--33096974 Score: 158
Period size: 3 Copynumber: 189.0 Consensus size: 3
33096390 ATAATAATAA
33096400 TAT TAT TAT TAT TAT TAT TAT TAT 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
* * * ** **
33096448 TCAT ATGT GTAT TAT TAT TA- CAT TAT TGT TAT TAT TGC TAT TAT CCT
1 T-AT -TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * ** **
33096495 TAT TAT TAC TAT TAT TTT TAT TTT TAT TGC TAT TGC TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
33096542 TGT TAT T-T T-T TAT TTT CTAT TAC CAA TAT CAT TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
33096586 TAT TAT TAT ATAT TAGT GAA TACT TTT TAT TAT ATAT GTA- TAGG TA-
1 TAT TAT TAT -TAT TA-T TAT TA-T TAT TAT TAT -TAT -TAT TA-T TAT
* * *
33096632 TAT ATATT TAT GTA- TAG TAT TAT T-T T-T TATT TAC T-T TAT T-T TAA
1 TAT -TA-T TAT -TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * * * *
33096676 TAT TTT TAT TA- TAT TA- TATT TGT TTT TTT GTAT T-T TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT -TAT TAT TAT TAT TAT
* * * * * *
33096720 TAC TAT TAT CAT TAT TAT TAT TAA TAT TAG TGT GTAT TTT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* * * * *
33096766 ATAT GT-G TAT GTA- TAT GTATT TAT T-T ATAT ATAG CAT TAT TCTT TGT
1 -TAT -TAT TAT -TAT TAT -TA-T TAT TAT -TAT -TAT TAT TAT T-AT TAT
* * * ** *
33096813 TAC T-T TAT T-T TAA TAT TTT TAT TA- TAT T-T GCT T-T TGGGT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T--AT TAT
* *
33096854 CAA TAT TAT TAT TAT TAT TAT TAT 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
* * *
33096902 TAT TAT TAT TA- TAT GTAT GTATT TAT ATAG TAG TAT TTT TAAT TACCT
1 TAT TAT TAT TAT TAT -TAT -TA-T TAT -TAT TAT TAT TAT T-AT TA--T
*
33096950 TAT T-T TAA TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
33096975 ACACTTTCCT
Statistics
Matches: 418, Mismatches: 101, Indels: 106
0.67 0.16 0.17
Matches are distributed among these distances:
2 45 0.11
3 302 0.72
4 62 0.15
5 9 0.02
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:33097043 original size:3 final size:3
Alignment explanation
Indices: 33097029--33097247 Score: 53
Period size: 3 Copynumber: 72.3 Consensus size: 3
33097019 TTAATTTAAC
* * * * * *
33097029 TTA TTAA TTA TTA TTA TCA TTA TCA CTA TTG TTA TTA CT- TTA CTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
33097074 TCGTA ATA TAA TATA TTA TTA ATA TTA CTT- TTA TT- TTCA TTA TTA
1 T--TA TTA TTA T-TA TTA TTA TTA TTA -TTA TTA TTA TT-A TTA TTA
* * * * **
33097119 TTA TTA TTA CTA TTA TTCT TTA TTG TCA TGG TTA TTA TGT- TTA TT-
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* * * * * *
33097164 TTCA -TA GCTA TTA TT- TT- TTA TCA CTA ATA TTA CTA TTG TTA -TA
1 TT-A TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
33097207 TTTA TTA TTA TTA CTT- TTA TTA TAA TTA CTA TTA TTA TTA T
1 -TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA T
33097248 AGCTTTTCTT
Statistics
Matches: 152, Mismatches: 43, Indels: 42
0.64 0.18 0.18
Matches are distributed among these distances:
2 17 0.11
3 115 0.76
4 18 0.12
5 2 0.01
ACGTcount: A:0.30, C:0.08, G:0.04, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:33097225 original size:15 final size:15
Alignment explanation
Indices: 33097207--33097247 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
33097197 TATTGTTATA
33097207 TTTATTATTATTACT
1 TTTATTATTATTACT
*
33097222 TTTATTATAATTACT
1 TTTATTATTATTACT
*
33097237 ATTATTATTAT
1 TTTATTATTAT
33097248 AGCTTTTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTATTATTATTACT
Found at i:33097229 original size:24 final size:24
Alignment explanation
Indices: 33097186--33097243 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
33097176 ATTTTTTATC
* * *
33097186 ACTAATATTACTATTGTTATATTT
1 ACTATTATTACTATTATTATAATT
* *
33097210 ATTATTATTACTTTTATTATAATT
1 ACTATTATTACTATTATTATAATT
33097234 ACTATTATTA
1 ACTATTATTA
33097244 TTATAGCTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (24 bp):
ACTATTATTACTATTATTATAATT
Found at i:33099856 original size:21 final size:20
Alignment explanation
Indices: 33099790--33099857 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
33099780 ATAAAATTTA
* *
33099790 ATTAGAATATATAAATTATTT
1 ATTA-AATATTTAAATTATAT
* *
33099811 TTTAAATATTTAAA-TATAACC
1 ATTAAATATTTAAATTAT-A-T
33099832 ATTAAATATTTATAATTATAT
1 ATTAAATATTTA-AATTATAT
33099853 ATTAA
1 ATTAA
33099858 CACATTTGTA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
19 3 0.08
20 9 0.24
21 19 0.51
22 3 0.08
23 3 0.08
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (20 bp):
ATTAAATATTTAAATTATAT
Found at i:33102367 original size:17 final size:17
Alignment explanation
Indices: 33102342--33102376 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
33102332 TTGTCACTAT
* *
33102342 ATATTTTAAATTTAAAA
1 ATATATTAAATATAAAA
33102359 ATATATTAAATATAAAA
1 ATATATTAAATATAAAA
33102376 A
1 A
33102377 ATGTGATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATATTAAATATAAAA
Found at i:33103538 original size:20 final size:20
Alignment explanation
Indices: 33103515--33103553 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33103505 GATTTTTTAA
*
33103515 TTTATATATATTTTTATATT
1 TTTATATAAATTTTTATATT
*
33103535 TTTATTTAAATTTTTATAT
1 TTTATATAAATTTTTATAT
33103554 AATATTTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTATATAAATTTTTATATT
Found at i:33103570 original size:12 final size:12
Alignment explanation
Indices: 33103508--33103570 Score: 56
Period size: 12 Copynumber: 5.1 Consensus size: 12
33103498 ATATTTTGAT
33103508 TTTTTAATTTATA
1 TTTTT-ATTTATA
*
33103521 TATATT-TTTATA
1 T-TTTTATTTATA
*
33103533 TTTTTATTTAAA
1 TTTTTATTTATA
*
33103545 TTTTTATATAATA
1 TTTTTAT-TTATA
*
33103558 TTTTGATTTATA
1 TTTTTATTTATA
33103570 T
1 T
33103571 ACATTTTTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
11 3 0.08
12 24 0.60
13 10 0.25
14 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
TTTTTATTTATA
Found at i:33103577 original size:49 final size:46
Alignment explanation
Indices: 33103509--33103602 Score: 134
Period size: 49 Copynumber: 2.0 Consensus size: 46
33103499 TATTTTGATT
*
33103509 TTTTAATTTATATATATTTTTATATTTTTATTTAAATTTTTATATAATA
1 TTTTAATTTATATACATTTTTA-A-TTTT-TTTAAATTTTTATATAATA
* *
33103558 TTTTGATTTATATACATTTTTAATTTTTTTCAATTTTTATATAAT
1 TTTTAATTTATATACATTTTTAATTTTTTTAAATTTTTATATAAT
33103603 TTGAAAAATC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
46 17 0.40
47 4 0.10
48 1 0.02
49 20 0.48
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (46 bp):
TTTTAATTTATATACATTTTTAATTTTTTTAAATTTTTATATAATA
Found at i:33103586 original size:25 final size:24
Alignment explanation
Indices: 33103490--33103586 Score: 76
Period size: 25 Copynumber: 4.0 Consensus size: 24
33103480 AAAATACATT
*
33103490 TTTATATA-ATATTTTGATTTTTTAA
1 TTTATATATAT-TTTTAATTTTTT-A
33103515 TTTATATATATTTTT-ATATTTTTA
1 TTTATATATATTTTTAAT-TTTTTA
* *
33103539 TTTA-A-ATTTTTATATAATATTTTGA
1 TTTATATATATTT-T-TAAT-TTTTTA
*
33103564 TTTATATACATTTTTAATTTTTT
1 TTTATATATATTTTTAATTTTTT
33103587 TCAATTTTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
22 5 0.08
23 2 0.03
24 12 0.20
25 33 0.55
26 4 0.07
27 4 0.07
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.66
Consensus pattern (24 bp):
TTTATATATATTTTTAATTTTTTA
Found at i:33103604 original size:57 final size:57
Alignment explanation
Indices: 33103487--33103601 Score: 153
Period size: 57 Copynumber: 2.0 Consensus size: 57
33103477 AAAAAAATAC
* *
33103487 ATTTTTATATAATATTTTGATTTTTTAATTTATATATATTTTTATATTTTTATTTAA
1 ATTTTTATATAATATTTTGATTTTATAATTTATATATATTTTTATATTTTTATATAA
* *
33103544 ATTTTTATATAATATTTTGATTTATATACATTTTTA-ATTTTTTTCA-ATTTTTATATAA
1 ATTTTTATATAATATTTTGATTT-TATA-ATTTATATATATTTTT-ATATTTTTATATAA
33103602 TTTGAAAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
57 23 0.45
58 21 0.41
59 7 0.14
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (57 bp):
ATTTTTATATAATATTTTGATTTTATAATTTATATATATTTTTATATTTTTATATAA
Found at i:33107051 original size:21 final size:21
Alignment explanation
Indices: 33107013--33107068 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
33107003 AGAAGTAAAA
*
33107013 AAAATTAA-TTAAAATAATCT-
1 AAAATTAATTTAAATTAAT-TG
*
33107033 CAAATTAATTTAAATTAATTG
1 AAAATTAATTTAAATTAATTG
*
33107054 AAAATTAATCTAAAT
1 AAAATTAATTTAAAT
33107069 ATAAAACATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 8 0.27
21 22 0.73
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (21 bp):
AAAATTAATTTAAATTAATTG
Found at i:33109476 original size:42 final size:42
Alignment explanation
Indices: 33109428--33109513 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
33109418 AAGATTTTTT
33109428 AGTTAGGGCCATTTGTGAACTTAATTGAAGATGATTTTTCAA
1 AGTTAGGGCCATTTGTGAACTTAATTGAAGATGATTTTTCAA
*
33109470 AGTTAGGGCCATTTGTGAACTTTATTGAAGATGATTTTTCAA
1 AGTTAGGGCCATTTGTGAACTTAATTGAAGATGATTTTTCAA
33109512 AG
1 AG
33109514 GATTTTATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.38
Consensus pattern (42 bp):
AGTTAGGGCCATTTGTGAACTTAATTGAAGATGATTTTTCAA
Found at i:33111017 original size:199 final size:199
Alignment explanation
Indices: 33110677--33111072 Score: 749
Period size: 199 Copynumber: 2.0 Consensus size: 199
33110667 TTTCGAGTTA
* *
33110677 GTTACAACGTGTAAAATAGTAGATTCTTCTATCTTCCTATGAGAACCAATACAAGTAGTCATCTT
1 GTTACAACGTGTAAAATAGTAGATTCTTCTATCTACCTATGAGAACCAAAACAAGTAGTCATCTT
33110742 TTTTTTCACATCTAGTTGCACTTAAGGAATGGGAATCAAAAGCCAAGATTAAATTCAGTGAAATC
66 TTTTTTCACATCTAGTTGCACTTAAGGAATGGGAATCAAAAGCCAAGATTAAATTCAGTGAAATC
*
33110807 TCTTCAGGGAAATTCAATTATATTCTCCTACAAGTTGCTAACACATACAGCTATCCATACGTTTA
131 TCTTCAGGGAAATTCAATTATATTCTCCTACAAGTTGCTAACACATACAGCTATCCATACGATTA
33110872 TCAT
196 TCAT
33110876 GTTACAACGTGTAAAATAGTAGATTCTTCTATCTACCTATGAGAACCAAAACAAGTAGTCATCTT
1 GTTACAACGTGTAAAATAGTAGATTCTTCTATCTACCTATGAGAACCAAAACAAGTAGTCATCTT
33110941 TTTTTTCACATCTAGTTGCACTTAAGGAATGGGAATCAAAAGCCAAGCA-TAAATTCAGTGAAAT
66 TTTTTTCACATCTAGTTGCACTTAAGGAATGGGAATCAAAAGCCAAG-ATTAAATTCAGTGAAAT
33111005 CTCTTCAGGGAAATTCAATTATATTCTCCTACAAGTTGCTAACACATACAGCTATCCATACGATT
130 CTCTTCAGGGAAATTCAATTATATTCTCCTACAAGTTGCTAACACATACAGCTATCCATACGATT
33111070 ATC
195 ATC
33111073 GTAACAACCT
Statistics
Matches: 193, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
199 192 0.99
200 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (199 bp):
GTTACAACGTGTAAAATAGTAGATTCTTCTATCTACCTATGAGAACCAAAACAAGTAGTCATCTT
TTTTTTCACATCTAGTTGCACTTAAGGAATGGGAATCAAAAGCCAAGATTAAATTCAGTGAAATC
TCTTCAGGGAAATTCAATTATATTCTCCTACAAGTTGCTAACACATACAGCTATCCATACGATTA
TCAT
Found at i:33118872 original size:45 final size:43
Alignment explanation
Indices: 33118769--33119646 Score: 432
Period size: 44 Copynumber: 19.9 Consensus size: 43
33118759 GAATTTGTCG
* * *
33118769 CTTCAATCTACTCCATTGCAACTTCAGGGAGATAAAATTTGTA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTCTA
* * *
33118812 GCTTCAATCTGCTCCACTGCAACTTCTA-GGAAATAAGATTCACTA
1 -CTTCAATCTACTCCACTGCAACTTC-AGGGAGATAAGATT-TCTA
*
33118857 CTTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATTTTCTA
1 C-TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGA-TTTCTA
* ** * *
33118902 TTTTTGATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGTAA
1 -CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTCT-A
* * *
33118947 CTTCAATCTGCTCCATTGCAACTTTAGGGAGATAAGATTTGTAATTCGTA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGA----T--TTC-TA
* ** ** ** * * * *
33118997 GCTTTAATCTGTTTTACTGCCTCTTCAGAGAAATAAAATTTGTA
1 -CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTCTA
* * * *
33119041 GCTTCAATCTGCTCCACTACGACTTCGGGGAGATAAGA-TTCGTAA
1 -CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTC-T-A
* * * *
33119086 CTTTAA-CTTGCCCCACTACAACTTCAGGGAGAT-AG----CT-
1 CTTCAATC-TACTCCACTGCAACTTCAGGGAGATAAGATTTCTA
* ** **
33119123 -TT-AATCTGCTATACTGCAACTTCAAAGAGATAAGATTTGCTA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTT-CTA
* * * * * * * * *
33119165 TCTTCAGTCTGCTCCACTACAACTTTAAGGAGACAAAACTTGTAA
1 -CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTCT-A
* * * * * * *
33119210 CTTCAACCTGCTCCACTACAACTTTAGGGAGATATGGTTTATA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTCTA
* * * ** *
33119253 GCTTTAATCTGCTCTACTGCAACTTCAGAAAGATAAGATTCACTA
1 -CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT-TCTA
* * * * *
33119298 TCTTCAGTCTACTCCACTGTAACTTTAGGGAGATAAGACTTGTAA
1 -CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTCT-A
* * * * * * *
33119343 CTTCCATTTGCTCCACTGAAACTTCAGAGAGATAAGGTTTATA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTCTA
* ** * ** *
33119386 GCTTTAATCGGCTCTACTGCAACTTCAGAAAGATAAGATTCGCTA
1 -CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT-TCTA
** * * * *
33119431 TCTTCTGTCTGCTCCACTGCAACTTCA-GAAGATAAGACTTGTAA
1 -CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTCT-A
* * *
33119475 CTTCAA-CTTGCTCCACTGCAACTTCAGGGAGATAAGGTTTATA
1 CTTCAATC-TACTCCACTGCAACTTCAGGGAGATAAGATTTCTA
* * * * *
33119518 GCTTTAATCTGCTCCACTGTAACTTTAGAGAGATAAGATTTGCTA
1 -CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTT-CTA
* * ** * *
33119563 TCTTCAGTATACTCCACTGCAACTTCAGGGAGATCCGATTTGTGG
1 -CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTCT-A
* *
33119608 CTTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGATT
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
33119647 CGCCACGATG
Statistics
Matches: 636, Mismatches: 156, Indels: 84
0.73 0.18 0.10
Matches are distributed among these distances:
35 21 0.03
36 5 0.01
39 1 0.00
40 1 0.00
41 2 0.00
42 1 0.00
43 31 0.05
44 347 0.55
45 193 0.30
46 2 0.00
47 1 0.00
48 1 0.00
50 3 0.00
51 27 0.04
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (43 bp):
CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTCTA
Found at i:33118878 original size:89 final size:87
Alignment explanation
Indices: 33118770--33119646 Score: 554
Period size: 89 Copynumber: 9.9 Consensus size: 87
33118760 AATTTGTCGC
* * * *
33118770 TTCAATCTACTCCATTGCAACTTCAGGGAGATAAAATTTGTAGCTTCAATCTGCTCCACTGCAAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAAC
* *
33118835 TTCTAGGAAATAAGATTCACTACT
66 TTC-AGGAGATAAGATT-AGTACT
* * * ** * *
33118859 TTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATTTTCTATTTTTGATCTACTCCACTGCAA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTTGTAGCTTTAATCTGCTCCACTGCAA
*
33118924 CTTCAAGGAGATAAGATTTGTAAC-
65 CTTC-AGGAGATAAGATTAGT-ACT
* * * **
33118948 TTCAATCTGCTCCATTGCAACTTTAGGGAGATAAGATTTGTAATTCGTAGCTTTAATCTGTTTTA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA----T--TT-GTAGCTTTAATCTGCTCCA
** * * *
33119013 CTGCCTCTTCAGAGAAATAAAATTTGTAGC-
59 CTGCAACTTCAG-GAGATAAGATTAGTA-CT
* * * * * * *
33119043 TTCAATCTGCTCCACTACGACTTCGGGGAGATAAGATTCGTAACTTTAA-CTTGCCCCACTACAA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATC-TGCTCCACTGCAA
33119107 CTTCAGG-G---AGA-TAG--CT
65 CTTCAGGAGATAAGATTAGTACT
** ** * * * *
33119123 TT-AATCTGCTATACTGCAACTTCAAAGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTACAA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTGCTCCACTGCAA
* * *
33119187 CTTTAAGGAGACAAAACTT-GTAAC-
65 C-TTCAGGAGATAAGA-TTAGT-ACT
* * * * * * *
33119211 TTCAACCTGCTCCACTACAACTTTAGGGAGATATGGTTTATAGCTTTAATCTGCTCTACTGCAAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAAC
* *
33119276 TTCAGAAAGATAAGATTCACTA-T
66 TTCAG-GAGATAAGATT-AGTACT
* * * * * * ** * *
33119299 CTTCAGTCTACTCCACTGTAACTTTAGGGAGATAAGACTTGTAACTTCCATTTGCTCCACTGAAA
1 -TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAA
*
33119364 CTTCAGAGAGATAAGGTTTA-TAGCT
65 CTTCAG-GAGATAA-GATTAGTA-CT
* * ** * * *
33119389 TT-AATCGGCTCTACTGCAACTTCAGAAAGATAAGATTCGCTATCTTCT-GTCTGCTCCACTGCA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTT-TAATCTGCTCCACTGCA
*
33119452 ACTTCAGAAGATAAGACTT-GTAAC-
64 ACTTCAGGAGATAAGA-TTAGT-ACT
* * *
33119476 TTCAA-CTTGCTCCACTGCAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTGCTCCACTGTAA
1 TTCAATC-TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAA
* *
33119540 CTTTAGAGAGATAAGATTTGCTA-T
65 CTTCAG-GAGATAAGATTAG-TACT
* * * ** * * *
33119564 CTTCAGTATACTCCACTGCAACTTCAGGGAGATCCGATTTGTGGCTTTAGTCTACTCCACTGCAA
1 -TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAA
33119629 CTTCAGGGAGATAAGATT
65 CTTCA-GGAGATAAGATT
33119647 CGCCACGATG
Statistics
Matches: 601, Mismatches: 139, Indels: 96
0.72 0.17 0.11
Matches are distributed among these distances:
79 30 0.05
80 21 0.03
81 6 0.01
82 3 0.00
83 2 0.00
85 2 0.00
86 2 0.00
87 39 0.06
88 127 0.21
89 254 0.42
90 45 0.07
91 1 0.00
92 1 0.00
94 5 0.01
95 63 0.10
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (87 bp):
TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAAC
TTCAGGAGATAAGATTAGTACT
Found at i:33119355 original size:133 final size:133
Alignment explanation
Indices: 33119117--33119596 Score: 669
Period size: 133 Copynumber: 3.6 Consensus size: 133
33119107 CTTCAGGGAG
* * *
33119117 ATAGCTTTAATCTGCTATACTGCAACTTCA-AAGAGATAAGATTTGCTATCTTCAGTCTGCTCCA
1 ATAGCTTTAATCTGCTCTACTGCAACTTCAGAA-AGATAAGATTCGCTATCTTCAGTCTACTCCA
* * * * * * * *
33119181 CTACAACTTTAAGGAGACAAAACTTGTAACTTCAACCTGCTCCACTACAACTTTAGGGAGATATG
65 CTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTTGCTCCACTACAACTTCAGGGAGATAAG
33119246 GTTT
130 GTTT
*
33119250 ATAGCTTTAATCTGCTCTACTGCAACTTCAGAAAGATAAGATTCACTATCTTCAGTCTACTCCAC
1 ATAGCTTTAATCTGCTCTACTGCAACTTCAGAAAGATAAGATTCGCTATCTTCAGTCTACTCCAC
* * * * *
33119315 TGTAACTTTAGGGAGATAAGACTTGTAACTTCCATTTGCTCCACTGA-AACTTCAGAGAGATAAG
66 TGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTTGCTCCACT-ACAACTTCAGGGAGATAAG
33119379 GTTT
130 GTTT
* * *
33119383 ATAGCTTTAATCGGCTCTACTGCAACTTCAGAAAGATAAGATTCGCTATCTTCTGTCTGCTCCAC
1 ATAGCTTTAATCTGCTCTACTGCAACTTCAGAAAGATAAGATTCGCTATCTTCAGTCTACTCCAC
* *
33119448 TGCAACTTCA-GAAGATAAGACTTGTAACTTCAACTTGCTCCACTGCAACTTCAGGGAGATAAGG
66 TGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTTGCTCCACTACAACTTCAGGGAGATAAGG
33119512 TTT
131 TTT
* * * * * *
33119515 ATAGCTTTAATCTGCTCCACTGTAACTTTAGAGAGATAAGATTTGCTATCTTCAGTATACTCCAC
1 ATAGCTTTAATCTGCTCTACTGCAACTTCAGAAAGATAAGATTCGCTATCTTCAGTCTACTCCAC
33119580 TGCAACTTCAGGGAGAT
66 TGCAACTTCAGGGAGAT
33119597 CCGATTTGTG
Statistics
Matches: 307, Mismatches: 36, Indels: 8
0.87 0.10 0.02
Matches are distributed among these distances:
132 117 0.38
133 187 0.61
134 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (133 bp):
ATAGCTTTAATCTGCTCTACTGCAACTTCAGAAAGATAAGATTCGCTATCTTCAGTCTACTCCAC
TGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTTGCTCCACTACAACTTCAGGGAGATAAGG
TTT
Found at i:33121381 original size:31 final size:32
Alignment explanation
Indices: 33121343--33121407 Score: 105
Period size: 31 Copynumber: 2.0 Consensus size: 32
33121333 ATGAATCGAC
*
33121343 TCACAAATATGAATCGATACC-TTGGAAGCTT
1 TCACAAATATGAATCAATACCATTGGAAGCTT
33121374 TCACAAATATGAATCAATACCTATTGGAAGCTT
1 TCACAAATATGAATCAATACC-ATTGGAAGCTT
33121407 T
1 T
33121408 TGGCGATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 20 0.65
33 11 0.35
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (32 bp):
TCACAAATATGAATCAATACCATTGGAAGCTT
Found at i:33126650 original size:39 final size:39
Alignment explanation
Indices: 33126591--33126722 Score: 145
Period size: 39 Copynumber: 3.6 Consensus size: 39
33126581 ATCGTGATCT
* * *
33126591 GAAGCCCGAAGTCTAGCTGAAGCACATCAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
33126630 GAAGCCTGAAGGCTAACTGAAGCACATAAGTGCTAAAC-
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
** *
33126668 ---G---GAA-GCTAACTGAAGCACATAAGTATTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
33126700 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
33126723 TTATCAGAGC
Statistics
Matches: 79, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
31 25 0.32
32 3 0.04
35 2 0.03
38 3 0.04
39 46 0.58
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.15
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:33126673 original size:21 final size:21
Alignment explanation
Indices: 33126609--33126673 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
33126599 AAGTCTAGCT
*
33126609 GAAGCACATCAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
*
33126630 GAAGC-C-TGAAG-GCT-AACT
1 GAAGCACAT-AAGTGCTAAACG
33126648 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
33126669 GAAGC
1 GAAGC
33126674 TAACTGAAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 8 0.22
19 8 0.22
20 7 0.19
21 13 0.36
ACGTcount: A:0.38, C:0.22, G:0.26, T:0.14
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Found at i:33126698 original size:31 final size:31
Alignment explanation
Indices: 33126641--33126704 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
33126631 AAGCCTGAAG
* *
33126641 GCTAACTGAAGCACATAAGTGCTAAACGGAA
1 GCTAACTGAAGCACATAAGTACTAAACAGAA
*
33126672 GCTAACTGAAGCACATAAGTATTAAACAGAA
1 GCTAACTGAAGCACATAAGTACTAAACAGAA
33126703 GC
1 GC
33126705 CCGAAGGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.19, G:0.20, T:0.17
Consensus pattern (31 bp):
GCTAACTGAAGCACATAAGTACTAAACAGAA
Found at i:33133522 original size:21 final size:22
Alignment explanation
Indices: 33133491--33133541 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
33133481 GTAAATGGAC
*
33133491 TTTGATGTTTTAGACTTATTTA
1 TTTGATTTTTTAGACTTATTTA
* **
33133513 TTT-ATTTTTTGGTTTTATTTA
1 TTTGATTTTTTAGACTTATTTA
33133534 TTTGATTT
1 TTTGATTT
33133542 AGTGGGCCGG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.18, C:0.02, G:0.12, T:0.69
Consensus pattern (22 bp):
TTTGATTTTTTAGACTTATTTA
Found at i:33136514 original size:31 final size:31
Alignment explanation
Indices: 33136476--33136537 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
33136466 ACAAGAAAGA
33136476 TTGAATAGAGGAGTGGCTAATCCGGAATGGT
1 TTGAATAGAGGAGTGGCTAATCCGGAATGGT
33136507 TTGAATAGAGGAGTGGCTAATCCGGAATGGT
1 TTGAATAGAGGAGTGGCTAATCCGGAATGGT
33136538 GGGATTGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.35, T:0.26
Consensus pattern (31 bp):
TTGAATAGAGGAGTGGCTAATCCGGAATGGT
Found at i:33145421 original size:21 final size:21
Alignment explanation
Indices: 33145367--33145431 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
33145357 ACTTATATTA
*
33145367 TCATTTC-ATTTAAATTATTTTT
1 TCATTTCAATTT-AATTA-TTTC
*
33145389 TCGATTTAAATTTAATTATTTC
1 TC-ATTTCAATTTAATTATTTC
**
33145411 TCATTTCAATTTTTTTATTTC
1 TCATTTCAATTTAATTATTTC
33145432 AATTTATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 16 0.44
22 7 0.19
23 9 0.25
24 4 0.11
ACGTcount: A:0.26, C:0.11, G:0.02, T:0.62
Consensus pattern (21 bp):
TCATTTCAATTTAATTATTTC
Found at i:33145491 original size:5 final size:5
Alignment explanation
Indices: 33145481--33145527 Score: 58
Period size: 5 Copynumber: 8.6 Consensus size: 5
33145471 CATAATCATA
33145481 ATTTC ATTTC ATGTTC ATTTAAC ATTTC ATTTC ATTTC ATATTC ATT
1 ATTTC ATTTC AT-TTC ATTT--C ATTTC ATTTC ATTTC AT-TTC ATT
33145528 ACAAATTACA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
5 23 0.61
6 10 0.26
7 5 0.13
ACGTcount: A:0.26, C:0.17, G:0.02, T:0.55
Consensus pattern (5 bp):
ATTTC
Found at i:33145499 original size:11 final size:10
Alignment explanation
Indices: 33145481--33145527 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 10
33145471 CATAATCATA
33145481 ATTTCATTTC
1 ATTTCATTTC
33145491 ATGTTCATTTAAC
1 AT-TTCATTT--C
33145504 ATTTCATTTC
1 ATTTCATTTC
33145514 ATTTCATATTC
1 ATTTCAT-TTC
33145525 ATT
1 ATT
33145528 ACAAATTACA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
10 10 0.30
11 13 0.39
12 7 0.21
13 3 0.09
ACGTcount: A:0.26, C:0.17, G:0.02, T:0.55
Consensus pattern (10 bp):
ATTTCATTTC
Done.