Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 117 of 325
Found at i:36702053 original size:21 final size:21
Alignment explanation
Indices: 36702029--36702068 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
36702019 ATTTTGATCC
*
36702029 TTTAATTAGTAATTTTTTCGA
1 TTTAATTAGTAAATTTTTCGA
* *
36702050 TTTAGTTATTAAATTTTTC
1 TTTAATTAGTAAATTTTTC
36702069 AAATTTAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (21 bp):
TTTAATTAGTAAATTTTTCGA
Found at i:36703041 original size:15 final size:15
Alignment explanation
Indices: 36703014--36703056 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
36703004 GATGTTAATA
*
36703014 ATTTATATTTATTTT
1 ATTTATTTTTATTTT
*
36703029 GTTCT-TTTTTATTTT
1 ATT-TATTTTTATTTT
36703044 ATTTATTTTTATT
1 ATTTATTTTTATT
36703057 ATTTTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 1 0.04
15 21 0.91
16 1 0.04
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (15 bp):
ATTTATTTTTATTTT
Found at i:36703055 original size:30 final size:29
Alignment explanation
Indices: 36703014--36703072 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
36703004 GATGTTAATA
36703014 ATTTATATTTATT-TTGTTCTTTTTTATTTT
1 ATTTATATTTATTATT-TT-TTTTTTATTTT
* *
36703044 ATTTATTTTTATTATTTTTTTTTTCTTTT
1 ATTTATATTTATTATTTTTTTTTTATTTT
36703073 TCTTTCTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 10 0.38
30 14 0.54
31 2 0.08
ACGTcount: A:0.15, C:0.03, G:0.02, T:0.80
Consensus pattern (29 bp):
ATTTATATTTATTATTTTTTTTTTATTTT
Found at i:36703067 original size:15 final size:15
Alignment explanation
Indices: 36703021--36703072 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
36703011 ATAATTTATA
* *
36703021 TTTATTTTGTTCTTT
1 TTTATTTTATTTTTT
*
36703036 TTTATTTTATTTATT
1 TTTATTTTATTTTTT
*
36703051 TTTATTAT-TTTTTT
1 TTTATTTTATTTTTT
*
36703065 TTTCTTTT
1 TTTATTTT
36703073 TCTTTCTTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.12, C:0.04, G:0.02, T:0.83
Consensus pattern (15 bp):
TTTATTTTATTTTTT
Found at i:36708820 original size:14 final size:14
Alignment explanation
Indices: 36708801--36708827 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36708791 ACAATAAATC
36708801 ATAATTCAAAATAT
1 ATAATTCAAAATAT
36708815 ATAATTCAAAATA
1 ATAATTCAAAATA
36708828 GTCCTAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATTCAAAATAT
Found at i:36708899 original size:37 final size:37
Alignment explanation
Indices: 36708858--36708934 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
36708848 TTTATACTTG
36708858 TTATCAACTAATGTTTATTAGTAAAATTACAATTACA
1 TTATCAACTAATGTTTATTAGTAAAATTACAATTACA
*
36708895 TTATCAACTAATGTTTATTAGTAAAATTACATTTACA
1 TTATCAACTAATGTTTATTAGTAAAATTACAATTACA
36708932 TTA
1 TTA
36708935 AAAATCTATC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (37 bp):
TTATCAACTAATGTTTATTAGTAAAATTACAATTACA
Found at i:36713512 original size:20 final size:20
Alignment explanation
Indices: 36713489--36713527 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
36713479 TGTGATACCT
*
36713489 ACTAAATGAGTATGATCTGC
1 ACTAAATGAATATGATCTGC
**
36713509 ACTATCTGAATATGATCTG
1 ACTAAATGAATATGATCTG
36713528 AATCTGTATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (20 bp):
ACTAAATGAATATGATCTGC
Found at i:36716100 original size:25 final size:25
Alignment explanation
Indices: 36716058--36716112 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
36716048 TATTAAATAT
*
36716058 TAAAATAATAATATAAATATTCTTTC
1 TAAAATAATAATAAAAATATT-TTTC
36716084 TAAAA-AATAATAAAAATATTTTTC
1 TAAAATAATAATAAAAATATTTTTC
36716108 -AAAAT
1 TAAAAT
36716113 TTTTTAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 4 0.15
24 4 0.15
25 14 0.52
26 5 0.19
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (25 bp):
TAAAATAATAATAAAAATATTTTTC
Found at i:36717949 original size:25 final size:25
Alignment explanation
Indices: 36717920--36717976 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
36717910 CACTAATCAA
36717920 AGTTTAAGT-GTGAAACTAAAAACAG
1 AGTTTAAGTAG-GAAACTAAAAACAG
*
36717945 AGTTTAAGTAGGAAACTAAAAATAG
1 AGTTTAAGTAGGAAACTAAAAACAG
36717970 AGTTTAA
1 AGTTTAA
36717977 CTGGGAGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 29 0.97
26 1 0.03
ACGTcount: A:0.49, C:0.05, G:0.19, T:0.26
Consensus pattern (25 bp):
AGTTTAAGTAGGAAACTAAAAACAG
Found at i:36718837 original size:32 final size:32
Alignment explanation
Indices: 36718796--36718874 Score: 158
Period size: 32 Copynumber: 2.5 Consensus size: 32
36718786 TGAACAATAC
36718796 CCACACGCCCGTGTGATTAGGCCGTGTGGATT
1 CCACACGCCCGTGTGATTAGGCCGTGTGGATT
36718828 CCACACGCCCGTGTGATTAGGCCGTGTGGATT
1 CCACACGCCCGTGTGATTAGGCCGTGTGGATT
36718860 CCACACGCCCGTGTG
1 CCACACGCCCGTGTG
36718875 GCTTGGGACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.15, C:0.32, G:0.30, T:0.23
Consensus pattern (32 bp):
CCACACGCCCGTGTGATTAGGCCGTGTGGATT
Found at i:36718841 original size:19 final size:19
Alignment explanation
Indices: 36718817--36718875 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
36718807 TGTGATTAGG
36718817 CCGTGTGGATTCCACACGC
1 CCGTGTGGATTCCACACGC
*
36718836 CCGTGT-GATT----A-GG
1 CCGTGTGGATTCCACACGC
36718849 CCGTGTGGATTCCACACGC
1 CCGTGTGGATTCCACACGC
36718868 CCGTGTGG
1 CCGTGTGG
36718876 CTTGGGACAC
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
13 7 0.22
14 5 0.16
18 5 0.16
19 15 0.47
ACGTcount: A:0.14, C:0.31, G:0.32, T:0.24
Consensus pattern (19 bp):
CCGTGTGGATTCCACACGC
Found at i:36718899 original size:20 final size:20
Alignment explanation
Indices: 36718862--36718899 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
36718852 TGTGGATTCC
**
36718862 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTCCCTTGGG
36718882 ACACGCCCGTGTCCCTTG
1 ACACGCCCGTGTCCCTTG
36718900 TCCGTGGAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.37, G:0.32, T:0.21
Consensus pattern (20 bp):
ACACGCCCGTGTCCCTTGGG
Found at i:36723327 original size:48 final size:46
Alignment explanation
Indices: 36723260--36723487 Score: 248
Period size: 48 Copynumber: 4.9 Consensus size: 46
36723250 CGTTCGGGTT
* *
36723260 AGATGTGTGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCTTAG
1 AGATGTGTGCCAGTGTAAGA-CATGTATGGGACATGGCATCGGC-TAG
* *
36723308 AGATGTGTGCCAGTGTAAGATCATGTTTGGGACATGGCATCGACGTAG
1 AGATGTGTGCCAGTGTAAGA-CATGTATGGGACATGGCATCGGC-TAG
* * * * **
36723356 AGATGAGTGCCAGTGTAAGACATATCTGGGACAT-GCATCAGCCTCT
1 AGATGTGTGCCAGTGTAAGACATGTATGGGACATGGCATC-GGCTAG
** *
36723402 AGATGTAAGCCAGTGTAAGACATGTATGGGACA-AGCATCGGCTACG
1 AGATGTGTGCCAGTGTAAGACATGTATGGGACATGGCATCGGCTA-G
*
36723448 AGACGTGT--CAGTGTAAGACATGTATGGGACATGGCATCGG
1 AGATGTGTGCCAGTGTAAGACATGTATGGGACATGGCATCGG
36723488 TAACTTGGCC
Statistics
Matches: 153, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
44 23 0.15
45 10 0.07
46 44 0.29
47 14 0.09
48 62 0.41
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.24
Consensus pattern (46 bp):
AGATGTGTGCCAGTGTAAGACATGTATGGGACATGGCATCGGCTAG
Found at i:36725622 original size:3 final size:3
Alignment explanation
Indices: 36725614--36725639 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
36725604 TATATACACG
36725614 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
36725640 GATTGTACAC
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:36726463 original size:3 final size:3
Alignment explanation
Indices: 36726455--36726479 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
36726445 TGGTGTAGAG
36726455 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
36726480 GAAATTCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:36727304 original size:3 final size:3
Alignment explanation
Indices: 36727296--36727324 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
36727286 TAGATTATAG
36727296 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
36727325 TCCAATATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:36731143 original size:32 final size:32
Alignment explanation
Indices: 36731107--36731167 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
36731097 AAACTCGAAT
* *
36731107 TTCGAGTTAA-TCAAATCAAGTCGTTTGAATTA
1 TTCGAGTAAACTCAAAT-AAGTAGTTTGAATTA
36731139 TTCGAGTAAACTCAAATAAGTAGTTTGAA
1 TTCGAGTAAACTCAAATAAGTAGTTTGAA
36731168 CCGAGTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 20 0.77
33 6 0.23
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.34
Consensus pattern (32 bp):
TTCGAGTAAACTCAAATAAGTAGTTTGAATTA
Found at i:36731297 original size:19 final size:19
Alignment explanation
Indices: 36731275--36731330 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 19
36731265 CAAAAATTAA
36731275 AAAAATTCAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
36731294 -AAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
36731312 AAAAATTCCAAAT-TTTAT
1 AAAAATTCAAAATATTTAT
36731330 A
1 A
36731331 TTTTAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
17 4 0.12
18 19 0.56
19 11 0.32
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:36736713 original size:20 final size:21
Alignment explanation
Indices: 36736664--36736715 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
36736654 ATGTGAAAAA
*
36736664 TAAATAAATAATTCATGAAGT
1 TAAATAAATAACTCATGAAGT
* * *
36736685 TAAAAAAATAACTC-TTAATT
1 TAAATAAATAACTCATGAAGT
36736705 TAAATAAATAA
1 TAAATAAATAA
36736716 TTATTTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.33
Consensus pattern (21 bp):
TAAATAAATAACTCATGAAGT
Found at i:36737604 original size:18 final size:19
Alignment explanation
Indices: 36737581--36737620 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
36737571 TTGTTATTGT
*
36737581 TAAAATT-TATTATAAAAA
1 TAAAATTGTAATATAAAAA
*
36737599 TAAAATTGTAATATTAAAA
1 TAAAATTGTAATATAAAAA
36737618 TAA
1 TAA
36737621 TTATTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
TAAAATTGTAATATAAAAA
Found at i:36737748 original size:18 final size:17
Alignment explanation
Indices: 36737716--36737751 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
36737706 TGTTTTAAAA
36737716 AATTAAATAAAAATATT
1 AATTAAATAAAAATATT
*
36737733 AATTAATATAATAATATT
1 AATTAA-ATAAAAATATT
36737751 A
1 A
36737752 GGCTTAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AATTAAATAAAAATATT
Found at i:36738264 original size:13 final size:11
Alignment explanation
Indices: 36738238--36738275 Score: 58
Period size: 11 Copynumber: 3.3 Consensus size: 11
36738228 GATATTTCAG
36738238 TAACATTTTTC
1 TAACATTTTTC
36738249 TAACATTTATTCC
1 TAACATTT-TT-C
36738262 TAACATTTTTC
1 TAACATTTTTC
36738273 TAA
1 TAA
36738276 AATATAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 12 0.48
12 4 0.16
13 9 0.36
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (11 bp):
TAACATTTTTC
Found at i:36738481 original size:20 final size:19
Alignment explanation
Indices: 36738448--36738508 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
36738438 TTATCTCAAT
36738448 TAATCTAAAATAATATGAGA
1 TAATC-AAAATAATATGAGA
*
36738468 TAATCAAAATTAATA-GAGTT
1 TAATCAAAA-TAATATGAG-A
36738488 TAATC--AATAATATGAGA
1 TAATCAAAATAATATGAGA
36738505 TAAT
1 TAAT
36738509 AATAATTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
17 9 0.25
18 5 0.14
19 7 0.19
20 15 0.42
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (19 bp):
TAATCAAAATAATATGAGA
Found at i:36738511 original size:20 final size:19
Alignment explanation
Indices: 36738456--36738514 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
36738446 ATTAATCTAA
36738456 AATAATATGAGATAATCAA-
1 AATAATATGAGATAAT-AAT
*
36738475 AATTAATA-GAG-T-TTAAT
1 AA-TAATATGAGATAATAAT
36738492 CAATAATATGAGATAATAAT
1 -AATAATATGAGATAATAAT
36738512 AAT
1 AAT
36738515 TATTAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
16 2 0.06
17 6 0.19
18 6 0.19
19 9 0.28
20 9 0.28
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.32
Consensus pattern (19 bp):
AATAATATGAGATAATAAT
Found at i:36739632 original size:36 final size:36
Alignment explanation
Indices: 36739585--36739657 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
36739575 TATAAAGTAG
36739585 TTAGATTATAACATAATTACAATATGGGTGAAAAAC
1 TTAGATTATAACATAATTACAATATGGGTGAAAAAC
36739621 TTAGATTATAACATAATTACAATATGGGTGAAAAAC
1 TTAGATTATAACATAATTACAATATGGGTGAAAAAC
36739657 T
1 T
36739658 ATTATAACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.47, C:0.08, G:0.14, T:0.32
Consensus pattern (36 bp):
TTAGATTATAACATAATTACAATATGGGTGAAAAAC
Found at i:36756036 original size:16 final size:16
Alignment explanation
Indices: 36756015--36756048 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
36756005 ATCTTTCAAC
36756015 TAAGGTCTAACTTATT
1 TAAGGTCTAACTTATT
36756031 TAAGGTCTAACTTATT
1 TAAGGTCTAACTTATT
36756047 TA
1 TA
36756049 GGCGTATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (16 bp):
TAAGGTCTAACTTATT
Found at i:36760539 original size:3 final size:3
Alignment explanation
Indices: 36760531--36760842 Score: 158
Period size: 3 Copynumber: 103.0 Consensus size: 3
36760521 AAAAGAAAAT
* * * *
36760531 ATA ATA ATA ATA ATA ATG ATG ATA A-A GATA GTA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
* * * * * * *
36760576 ATA AAA ATG ATT GTA ATA ATA ATG GTA ATA ATA ATAA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
* * * *
36760622 ATA ATA CATTA ATA AGA ATA ATG ATA GTA CATTA ATA ATA ACA ATA ATA
1 ATA ATA -A-TA ATA ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA
* * *
36760671 A-A A-A ATA ATA GAAA ATA ATA ATA ATA CTA ACA ATA AT- ATAA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
* * * * * * * *
36760715 ATA ATA AAA ACA ACA AGA GA-A ATA GTA ACA ATA ATA GTA ATA AAA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
** *
36760760 AGG ATA A-A AGTA ATA ATA ATA ATA ATA ACA ATA ATA ATA A-A ATTA
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* *
36760805 ATA ATA A-A ATA A-A ATTA ATCA ATT TTA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA A-TA AT-A ATA ATA ATA ATA ATA ATA
36760843 GCAAATTAAC
Statistics
Matches: 234, Mismatches: 53, Indels: 44
0.71 0.16 0.13
Matches are distributed among these distances:
2 18 0.08
3 191 0.82
4 21 0.09
5 4 0.02
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:36761559 original size:17 final size:18
Alignment explanation
Indices: 36761523--36761563 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
36761513 ATTTGAAACG
* *
36761523 AAAACAAAAAGAGATCGA
1 AAAAAAAAAAGAGATAGA
36761541 AAAAAAAAAAGAGA-AGA
1 AAAAAAAAAAGAGATAGA
36761558 AAAAAA
1 AAAAAA
36761564 CCAAAATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.78, C:0.05, G:0.15, T:0.02
Consensus pattern (18 bp):
AAAAAAAAAAGAGATAGA
Found at i:36778558 original size:5 final size:5
Alignment explanation
Indices: 36778548--36778572 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
36778538 ATTTAGTAAA
36778548 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
36778573 TTAAAAAGTA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:36778766 original size:25 final size:25
Alignment explanation
Indices: 36778703--36778778 Score: 77
Period size: 25 Copynumber: 3.0 Consensus size: 25
36778693 ATGTTAACAA
36778703 AATATTCAAAAT-ATATTTTAT-ATT
1 AATATT-AAAATAATATTTTATAATT
*
36778727 AATATTAATATTAATATTTTATAATT
1 AATATTAA-AATAATATTTTATAATT
*
36778753 AA-ATTTAAAATAATATATTTGTAATT
1 AATA-TTAAAATAATAT-TTTATAATT
36778779 TTTTGTATTG
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
23 2 0.05
24 8 0.18
25 17 0.39
26 17 0.39
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (25 bp):
AATATTAAAATAATATTTTATAATT
Found at i:36779639 original size:20 final size:21
Alignment explanation
Indices: 36779611--36779657 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
36779601 AAAGCCATAT
*
36779611 GAAACAGAAAGAA-AAAAAGA
1 GAAAGAGAAAGAAGAAAAAGA
**
36779631 GAAAGAGAAAGAAGAAAGGGA
1 GAAAGAGAAAGAAGAAAAAGA
36779652 GAAAGA
1 GAAAGA
36779658 AGGTTCAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.68, C:0.02, G:0.30, T:0.00
Consensus pattern (21 bp):
GAAAGAGAAAGAAGAAAAAGA
Found at i:36787594 original size:5 final size:5
Alignment explanation
Indices: 36787584--36787611 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
36787574 AATAAATATA
36787584 AACCC AACCC AACCC AACCC AACCC AAC
1 AACCC AACCC AACCC AACCC AACCC AAC
36787612 TTAATAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.57, G:0.00, T:0.00
Consensus pattern (5 bp):
AACCC
Found at i:36787642 original size:22 final size:22
Alignment explanation
Indices: 36787617--36787668 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
36787607 CCAACTTAAT
* *
36787617 AATTAATTTAATTATAAAATTA
1 AATTAAATTAATTAAAAAATTA
*
36787639 AATTAAATTACTTAAAAAATTA
1 AATTAAATTAATTAAAAAATTA
36787661 AATCTAAA
1 AAT-TAAA
36787669 AACAAAAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
AATTAAATTAATTAAAAAATTA
Found at i:36788673 original size:31 final size:31
Alignment explanation
Indices: 36788599--36788673 Score: 75
Period size: 31 Copynumber: 2.4 Consensus size: 31
36788589 AACTAAATTT
36788599 TATAAAATTAATATATAAATCTAATAAAATTAA
1 TATAAAA-TAA-ATATAAATCTAATAAAATTAA
*
36788632 -ATAAATATAAATATAAATC-AACT-ATATTATA
1 TATAAA-ATAAATATAAATCTAA-TAAAATTA-A
36788663 TATAAAATAAA
1 TATAAAATAAA
36788674 AAATGTATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
30 7 0.19
31 16 0.43
32 13 0.35
33 1 0.03
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (31 bp):
TATAAAATAAATATAAATCTAATAAAATTAA
Found at i:36788809 original size:22 final size:21
Alignment explanation
Indices: 36788781--36788824 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
36788771 AATCTGAGTT
*
36788781 TGCTTCTTGGCACAGGTTTTTC
1 TGCTTCTTGGCAC-GGTGTTTC
36788803 TGCTTCTTGGCACGGTGTTTC
1 TGCTTCTTGGCACGGTGTTTC
36788824 T
1 T
36788825 TCCATACTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.07, C:0.23, G:0.25, T:0.45
Consensus pattern (21 bp):
TGCTTCTTGGCACGGTGTTTC
Found at i:36793137 original size:50 final size:50
Alignment explanation
Indices: 36793054--36793336 Score: 302
Period size: 50 Copynumber: 5.6 Consensus size: 50
36793044 CTAGTACGCA
* * ** *
36793054 TAGTAGCCTACACTTAGTACTACATACACGACCTAGCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* * *
36793104 TAGTATCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* * * * ***
36793154 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTATCGGGTACGTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CAATCTGGTACACG
*
36793205 TAGTAGCCTGCACTTAGTACTACAC-CTGCGACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACAC-GTGACCTAACAATCTGGTACACG
* * *
36793255 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-AA-CTGTCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTG--GT--ACACG
* *
36793307 TAGTAGCCTACACATAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
36793337 TTCTCACTGC
Statistics
Matches: 195, Mismatches: 31, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
48 3 0.02
49 2 0.01
50 119 0.61
51 40 0.21
52 31 0.16
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
Found at i:36793228 original size:101 final size:101
Alignment explanation
Indices: 36793104--36793285 Score: 303
Period size: 101 Copynumber: 1.8 Consensus size: 101
36793094 CTGGTACACG
* * *
36793104 TAGTATCCTGCACTTAGTACTACACAC-GTGACCTAACTATCTGATACACGTAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACAC-CTGCGACCTAACAATCTGATACACGTAGTAGCCTGCACT
36793168 TAGTACTACACACGTGATCGAAGCTATCGGGTACGTA
65 TAGTACTACACACGTGATCGAAGCTATCGGGTACGTA
*
36793205 TAGTAGCCTGCACTTAGTACTACACCTGCGACCTAACAATCTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACCTGCGACCTAACAATCTGATACACGTAGTAGCCTGCACTT
*
36793270 AGTACTACACATGTGA
66 AGTACTACACACGTGA
36793286 CCTAAAACTG
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
100 1 0.01
101 74 0.99
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACCTGCGACCTAACAATCTGATACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCGAAGCTATCGGGTACGTA
Found at i:36793286 original size:151 final size:152
Alignment explanation
Indices: 36793033--36793336 Score: 432
Period size: 151 Copynumber: 2.0 Consensus size: 152
36793023 CACCCTTGTA
* * *
36793033 ATCGAAGCTCTCTAGTACGCATAGTAGCCTACACTTAGTACTACATACACGACCTAGCAATCTGG
1 ATCGAAGCTATCGAGTACGCATAGTAGCCTACACTTAGTACTACATACACGACCTAACAATCTGG
* * *
36793098 TACACGTAGTATCCTGCACTTAGTACTACACACGTGACCT-AACTATCTGATACACGTAGTAGCC
66 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAACTATCTGAAACACATAGTAGCC
* *
36793162 TGCACTTAGTACTACACACGTG
131 TACACATAGTACTACACACGTG
* * * * *
36793184 ATCGAAGCTATCGGGTACGTATAGTAGCCTGCACTTAGTACTACA-CCTGCGACCTAACAATCTG
1 ATCGAAGCTATCGAGTACGCATAGTAGCCTACACTTAGTACTACATAC-ACGACCTAACAATCTG
* * *
36793248 GTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAAAACTGTCTTAAACACATAGTAG
65 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT-AAACTATCTGAAACACATAGTAG
36793313 CCTACACATAGTACTACACACGTG
129 CCTACACATAGTACTACACACGTG
36793337 TTCTCACTGC
Statistics
Matches: 134, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
150 1 0.01
151 93 0.69
153 40 0.30
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (152 bp):
ATCGAAGCTATCGAGTACGCATAGTAGCCTACACTTAGTACTACATACACGACCTAACAATCTGG
TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAACTATCTGAAACACATAGTAGCC
TACACATAGTACTACACACGTG
Found at i:36797812 original size:13 final size:13
Alignment explanation
Indices: 36797769--36797812 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
36797759 AATATATTTA
*
36797769 AACCCAAGTACCC
1 AACCCAATTACCC
36797782 AACCC-A--ACCC
1 AACCCAATTACCC
36797792 AACCCAATTACCC
1 AACCCAATTACCC
36797805 AACCCAAT
1 AACCCAAT
36797813 AATAAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 9 0.32
11 1 0.04
12 1 0.04
13 17 0.61
ACGTcount: A:0.41, C:0.48, G:0.02, T:0.09
Consensus pattern (13 bp):
AACCCAATTACCC
Found at i:36798168 original size:21 final size:21
Alignment explanation
Indices: 36798142--36798181 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
36798132 TTTTGAGGTA
*
36798142 TTTTATAATCTTATTTAATAT
1 TTTTATAATCATATTTAATAT
*
36798163 TTTTATAATGATATTTAAT
1 TTTTATAATCATATTTAAT
36798182 TATATTTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (21 bp):
TTTTATAATCATATTTAATAT
Found at i:36801555 original size:17 final size:17
Alignment explanation
Indices: 36801535--36801592 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
36801525 ATTTCAAGAC
36801535 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
36801552 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
36801571 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
36801589 TTAT
1 TTAT
36801593 ATAGTGAACA
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
17 13 0.43
18 4 0.13
19 4 0.13
20 9 0.30
ACGTcount: A:0.31, C:0.03, G:0.14, T:0.52
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:36804497 original size:29 final size:30
Alignment explanation
Indices: 36804458--36804523 Score: 111
Period size: 29 Copynumber: 2.3 Consensus size: 30
36804448 GAAGGAAAGG
36804458 AAAA-TAA-GTTGTGTTTAGGGTTTG-AAA
1 AAAATTAAGGTTGTGTTTAGGGTTTGAAAA
36804485 AAAATTAAGGTTGTGTTTAGGGTTTGAAAA
1 AAAATTAAGGTTGTGTTTAGGGTTTGAAAA
36804515 AAAATTAAG
1 AAAATTAAG
36804524 AGATTGTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
27 4 0.11
28 3 0.08
29 17 0.47
30 12 0.33
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (30 bp):
AAAATTAAGGTTGTGTTTAGGGTTTGAAAA
Found at i:36807850 original size:47 final size:47
Alignment explanation
Indices: 36807735--36807923 Score: 191
Period size: 47 Copynumber: 3.9 Consensus size: 47
36807725 TGCACATAGT
* ** * *
36807735 CACATATCACATACCGAGGCCATAGCCCAGCCATGGTCTTACAC-GGAT
1 CACATATCAC--ACCGATGCCATAGCCCAGATATGGTCTTATACAGGAG
* * *
36807783 CACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACACCGATGCCATAGCCCAGATATGGTCTTATACAGGAG
* * *
36807830 CACATATCACACCGATGCCATATCCCGGATATGGTCTTATACGGGAG
1 CACATATCACACCGATGCCATAGCCCAGATATGGTCTTATACAGGAG
* *
36807877 CACATATCACATCTCCTCGAAGCCATAGCCCAGCTATGGTCTTATAC
1 CACATATCACA----C-CGATGCCATAGCCCAGATATGGTCTTATAC
36807924 GGAAATCACA
Statistics
Matches: 119, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
46 26 0.22
47 56 0.47
48 10 0.08
51 1 0.01
52 26 0.22
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (47 bp):
CACATATCACACCGATGCCATAGCCCAGATATGGTCTTATACAGGAG
Found at i:36807919 original size:99 final size:94
Alignment explanation
Indices: 36807716--36807923 Score: 222
Period size: 93 Copynumber: 2.1 Consensus size: 94
36807706 CATAGTAAAA
** *
36807716 CTATGGTCTTGCACATAGTCACATATCACATACCGAGGCCATAGCCCAGCCATGGTCTTACACGG
1 CTATGGTCTTATACATAGTCACATATCACA-ACCGAGGCCATAGCCCAGACATGGTCTTACACGG
* * *
36807781 ATCACATATCACACTGATGCCATATCCCAG
65 AGCACATATCACACTGAAGCCATAGCCCAG
* * * * * *
36807811 ATATGGTCTTATACAGTAG-CACATATCAC-ACCGATGCCATATCCCGGATATGGTCTTATACGG
1 CTATGGTCTTATACA-TAGTCACATATCACAACCGAGGCCATAGCCCAGACATGGTCTTACAC-G
36807874 GAGCACATATCACATCTCCTCGAAGCCATAGCCCAG
64 GAGCACATATCACA----CT-GAAGCCATAGCCCAG
36807910 CTATGGTCTTATAC
1 CTATGGTCTTATAC
36807924 GGAAATCACA
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
93 26 0.28
94 14 0.15
95 22 0.24
96 3 0.03
98 2 0.02
99 26 0.28
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (94 bp):
CTATGGTCTTATACATAGTCACATATCACAACCGAGGCCATAGCCCAGACATGGTCTTACACGGA
GCACATATCACACTGAAGCCATAGCCCAG
Found at i:36811188 original size:15 final size:17
Alignment explanation
Indices: 36811156--36811192 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
36811146 TACAGTATCC
*
36811156 TTCTTTTTTCTTCTCCT
1 TTCTTTTTTCGTCTCCT
36811173 TTCTTTTTT-GTC-CCT
1 TTCTTTTTTCGTCTCCT
36811188 TTCTT
1 TTCTT
36811193 CTTCCTTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 2 0.11
17 9 0.47
ACGTcount: A:0.00, C:0.27, G:0.03, T:0.70
Consensus pattern (17 bp):
TTCTTTTTTCGTCTCCT
Found at i:36818615 original size:15 final size:15
Alignment explanation
Indices: 36818595--36818633 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
36818585 ATGTTTACTC
36818595 ATACAATATTATATA
1 ATACAATATTATATA
36818610 ATACAATATTATATA
1 ATACAATATTATATA
36818625 ATA-AATATT
1 ATACAATATT
36818634 TAAAAATAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (15 bp):
ATACAATATTATATA
Found at i:36822449 original size:30 final size:31
Alignment explanation
Indices: 36822395--36822461 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 31
36822385 TAATTTAATC
*
36822395 AATTTTAATTTTTGTATTTTTTGAAATATTT-
1 AATTTTAATTTTTGTATCTTTTGAAAT-TTTA
36822426 AATTTT-ATTCTTTGTA-CTTTTGAAATTTTA
1 AATTTTAATT-TTTGTATCTTTTGAAATTTTA
36822456 AATTTT
1 AATTTT
36822462 TAGTCATGAC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
29 3 0.09
30 18 0.55
31 12 0.36
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.63
Consensus pattern (31 bp):
AATTTTAATTTTTGTATCTTTTGAAATTTTA
Found at i:36825080 original size:28 final size:23
Alignment explanation
Indices: 36825048--36825113 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 23
36825038 TTTGTCCATT
*
36825048 TATTTTATAAAATTTATTTATTTA
1 TATTTTATAAAATTTA-ATATTTA
*
36825072 TTTTAATTTATCAAAATTTAATATTTA
1 ---TATTTTAT-AAAATTTAATATTTA
36825099 TATTTTATAAAATTT
1 TATTTTATAAAATTT
36825114 TATAAAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
23 7 0.20
24 7 0.20
27 13 0.37
28 8 0.23
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TATTTTATAAAATTTAATATTTA
Found at i:36825081 original size:27 final size:27
Alignment explanation
Indices: 36825046--36825099 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
36825036 TTTTTGTCCA
* *
36825046 TTTATTTTAT-AAAATTTATTTATTTAT
1 TTTAATTTATCAAAATTTA-ATATTTAT
36825073 TTTAATTTATCAAAATTTAATATTTAT
1 TTTAATTTATCAAAATTTAATATTTAT
36825100 ATTTTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (27 bp):
TTTAATTTATCAAAATTTAATATTTAT
Found at i:36840119 original size:3 final size:3
Alignment explanation
Indices: 36840111--36840151 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
36840101 ATACACACAA
36840111 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
36840152 ACCATAAAAG
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:36850735 original size:25 final size:25
Alignment explanation
Indices: 36850707--36850757 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
36850697 TTCCTTATAA
**
36850707 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
36850732 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
36850757 A
1 A
36850758 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:36850756 original size:12 final size:12
Alignment explanation
Indices: 36850710--36850757 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
36850700 CTTATAAACT
36850710 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
36850722 TTCTATTAGGACT
1 TTAAATTAGGA-A
36850735 TTAAATTAGGAA
1 TTAAATTAGGAA
*
36850747 TTAGATTAGGA
1 TTAAATTAGGA
36850758 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:36855395 original size:25 final size:25
Alignment explanation
Indices: 36855367--36855417 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
36855357 TTCCTTATAA
**
36855367 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
36855392 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
36855417 A
1 A
36855418 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:36855416 original size:12 final size:12
Alignment explanation
Indices: 36855370--36855417 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
36855360 CTTATAAACT
36855370 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
36855382 TTCTATTAGGACT
1 TTAAATTAGGA-A
36855395 TTAAATTAGGAA
1 TTAAATTAGGAA
*
36855407 TTAGATTAGGA
1 TTAAATTAGGA
36855418 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:36860795 original size:19 final size:19
Alignment explanation
Indices: 36860771--36860811 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
36860761 AGTAAAATAT
*
36860771 TTTCCAGAAAATAATTTAC
1 TTTCCAAAAAATAATTTAC
*
36860790 TTTCCAAAAAATGATTTAC
1 TTTCCAAAAAATAATTTAC
36860809 TTT
1 TTT
36860812 TCTGGTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (19 bp):
TTTCCAAAAAATAATTTAC
Found at i:36864615 original size:6 final size:6
Alignment explanation
Indices: 36864595--36864632 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
36864585 GGGACGCAAT
*
36864595 GAAGG- GAAGGA GAAGGG GAAGGA GAAGGA GAAGGA GAA
1 GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAA
36864633 AGCGTTTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (6 bp):
GAAGGA
Found at i:36868791 original size:27 final size:27
Alignment explanation
Indices: 36868761--36868833 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 27
36868751 TGTCTTGATT
36868761 TTGTTAGATATTGATTATGTTTCAAGC
1 TTGTTAGATATTGATTATGTTTCAAGC
*
36868788 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG-----ATTATGTTTCAAGC
*
36868820 TTGTTGGATATTGA
1 TTGTTAGATATTGA
36868834 AATGATTGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
27 14 0.36
32 25 0.64
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTCAAGC
Found at i:36868813 original size:32 final size:32
Alignment explanation
Indices: 36868774--36868834 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
36868764 TTAGATATTG
36868774 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
* *
36868806 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTCAAGCTTGTTAGATATTGAA
36868835 ATGATTGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.05, G:0.18, T:0.49
Consensus pattern (32 bp):
ATTATGTTTCAAGCTTGTTAGATATTGAATTT
Found at i:36869847 original size:22 final size:22
Alignment explanation
Indices: 36869816--36869864 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
36869806 GGACAATGTT
36869816 GTTATAATGTGCTGTAATATTA
1 GTTATAATGTGCTGTAATATTA
* *
36869838 GTTATCATGTGGTGTAATATTA
1 GTTATAATGTGCTGTAATATTA
36869860 GTTAT
1 GTTAT
36869865 GCACTTGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.04, G:0.20, T:0.47
Consensus pattern (22 bp):
GTTATAATGTGCTGTAATATTA
Found at i:36869877 original size:22 final size:22
Alignment explanation
Indices: 36869787--36869877 Score: 59
Period size: 22 Copynumber: 4.2 Consensus size: 22
36869777 TAATGTGGTG
36869787 TAATATTAGTTATGCACT-TGGA
1 TAATATTAGTTAT-CACTGTGGA
* * *
36869809 CAATGTT-GTTAT-AATGTGCTG-
1 TAATATTAGTTATCACTGTG--GA
*
36869830 TAATATTAGTTATCA-TGTGGTG
1 TAATATTAGTTATCACTGTGG-A
36869852 TAATATTAGTTATGCACT-TGGA
1 TAATATTAGTTAT-CACTGTGGA
36869874 TAAT
1 TAAT
36869878 GTTGTTGTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 18
0.69 0.08 0.23
Matches are distributed among these distances:
19 2 0.04
20 3 0.06
21 10 0.19
22 32 0.59
23 6 0.11
24 1 0.02
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.43
Consensus pattern (22 bp):
TAATATTAGTTATCACTGTGGA
Found at i:36870383 original size:15 final size:14
Alignment explanation
Indices: 36870322--36870380 Score: 84
Period size: 14 Copynumber: 4.2 Consensus size: 14
36870312 CCAGAAAAGT
* *
36870322 AAATCATTTTTCAG
1 AAATTATTTTCCAG
36870336 AAATTATTTTCCAGG
1 AAATTATTTTCCA-G
36870351 AAATTATTTTCCAG
1 AAATTATTTTCCAG
36870365 AAATTATTTTCC-G
1 AAATTATTTTCCAG
36870378 AAA
1 AAA
36870381 AATATTTTAC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
13 4 0.10
14 24 0.57
15 14 0.33
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (14 bp):
AAATTATTTTCCAG
Found at i:36870383 original size:29 final size:29
Alignment explanation
Indices: 36870322--36870388 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
36870312 CCAGAAAAGT
* * *
36870322 AAATCATTTTTCAGAAATTATTTTCCAGG
1 AAATTATTTTCCAGAAATTATTTTCCAGA
36870351 AAATTATTTTCCAGAAATTATTTTCC-GA
1 AAATTATTTTCCAGAAATTATTTTCCAGA
*
36870379 AAAATATTTT
1 AAATTATTTT
36870389 ACCTGCAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 10 0.29
29 24 0.71
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.43
Consensus pattern (29 bp):
AAATTATTTTCCAGAAATTATTTTCCAGA
Found at i:36870386 original size:14 final size:14
Alignment explanation
Indices: 36870336--36870388 Score: 63
Period size: 14 Copynumber: 3.7 Consensus size: 14
36870326 CATTTTTCAG
*
36870336 AAATTATTTTCCAGG
1 AAATTATTTTCC-GA
36870351 AAATTATTTTCC-A
1 AAATTATTTTCCGA
36870364 GAAATTATTTTCCGA
1 -AAATTATTTTCCGA
*
36870379 AAAATATTTT
1 AAATTATTTT
36870389 ACCTGCAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
14 21 0.62
15 13 0.38
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (14 bp):
AAATTATTTTCCGA
Found at i:36870558 original size:19 final size:19
Alignment explanation
Indices: 36870536--36870575 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
36870526 TCAATCTAAT
*
36870536 TTGATTAGTGGTTGATTTG
1 TTGATTAGTGATTGATTTG
36870555 TTGATTAGTGATTGATTTG
1 TTGATTAGTGATTGATTTG
36870574 TT
1 TT
36870576 TTGTTTATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.55
Consensus pattern (19 bp):
TTGATTAGTGATTGATTTG
Found at i:36871270 original size:16 final size:16
Alignment explanation
Indices: 36871231--36871261 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36871221 GGCCCGTCTC
36871231 AAATATATTATATTAT
1 AAATATATTATATTAT
*
36871247 AAAAATATTATATTA
1 AAATATATTATATTA
36871262 ATTATATATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATATATTATATTAT
Found at i:36872265 original size:17 final size:19
Alignment explanation
Indices: 36872243--36872279 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
36872233 ATTATTATCC
36872243 TAACTTT-TTTAAA-ATTT
1 TAACTTTCTTTAAATATTT
36872260 TAACTTTCTTTAAATATTT
1 TAACTTTCTTTAAATATTT
36872279 T
1 T
36872280 TTAGAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 6 0.33
19 5 0.28
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (19 bp):
TAACTTTCTTTAAATATTT
Found at i:36872313 original size:25 final size:24
Alignment explanation
Indices: 36872268--36872353 Score: 59
Period size: 24 Copynumber: 3.4 Consensus size: 24
36872258 TTTAACTTTC
*
36872268 TTTAAATATTTTTTAGAAT-TTTTTT
1 TTTAAAT-TTTTATA-AATATTTTTT
*
36872293 TTGAAATTTTTATAAATATTTTGGATT
1 TTTAAATTTTTATAAATATTTT---TT
* * *
36872320 TTAAAATTTATTTTGAAT-TTTTTT
1 TTTAAATTT-TTATAAATATTTTTT
36872344 TTTAAATTTT
1 TTTAAATTTT
36872354 GTTGAGAAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
23 4 0.08
24 20 0.40
25 6 0.12
27 14 0.28
28 6 0.12
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
TTTAAATTTTTATAAATATTTTTT
Found at i:36875095 original size:24 final size:24
Alignment explanation
Indices: 36875068--36875119 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
36875058 TTAGTAAGTC
*
36875068 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
36875092 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
36875116 AAAT
1 AAAT
36875120 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:36877066 original size:24 final size:24
Alignment explanation
Indices: 36877039--36877090 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
36877029 TTAGTAAGTC
*
36877039 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
36877063 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
36877087 AAAT
1 AAAT
36877091 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:36884182 original size:16 final size:17
Alignment explanation
Indices: 36884151--36884183 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
36884141 TTCATAAGTA
36884151 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
36884168 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
36884184 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:36884370 original size:44 final size:44
Alignment explanation
Indices: 36884320--36884410 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
36884310 CTATTTTGTA
36884320 CATACATTTCCATATGACCAGTTCTTGTAAACATTTCACACAAC
1 CATACATTTCCATATGACCAGTTCTTGTAAACATTTCACACAAC
*
36884364 CATACATTTCTATATGACCAGTTCTTGTAAACATTTCACACAAC
1 CATACATTTCCATATGACCAGTTCTTGTAAACATTTCACACAAC
36884408 CAT
1 CAT
36884411 TTCATATAAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.34, C:0.26, G:0.07, T:0.33
Consensus pattern (44 bp):
CATACATTTCCATATGACCAGTTCTTGTAAACATTTCACACAAC
Found at i:36884622 original size:46 final size:46
Alignment explanation
Indices: 36884508--36884872 Score: 552
Period size: 46 Copynumber: 8.0 Consensus size: 46
36884498 TTATCTTTGA
* ** ***
36884508 CATGATGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
36884553 CATGTTGCCATGATATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * *
36884599 CCTGTTGCCATGGTATATTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * *
36884645 CTTATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
36884691 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
36884737 CCTGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
36884783 CATGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
36884829 CATGTTGCCATGGTGTCTTTCAGCCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
36884873 TTCAGAAAGC
Statistics
Matches: 292, Mismatches: 27, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
45 34 0.12
46 258 0.88
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:36888824 original size:18 final size:18
Alignment explanation
Indices: 36888788--36888824 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
36888778 TGTAATATAT
*
36888788 TTCAAAATTCACTATTAA
1 TTCAAAATTCACTAATAA
*
36888806 TTCAAAATTCTCTAATAA
1 TTCAAAATTCACTAATAA
36888824 T
1 T
36888825 CCTTATCATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (18 bp):
TTCAAAATTCACTAATAA
Found at i:36889732 original size:16 final size:17
Alignment explanation
Indices: 36889701--36889733 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
36889691 TTCATAAGTA
36889701 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
36889718 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
36889734 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:36890071 original size:46 final size:45
Alignment explanation
Indices: 36890019--36890378 Score: 436
Period size: 46 Copynumber: 7.9 Consensus size: 45
36890009 TTTGACATGA
*** *
36890019 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGTTACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT-TTACGT
* ** * ** * *
36890065 TGCCATGGTATCTTTTAACCATGGTCTTATTCATTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTACGT
* * *
36890110 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCCTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTAC-GT
*
36890156 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT-ATAT-CTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTAC-GT
* * *
36890200 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCCTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTAC-GT
* *
36890246 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT-TTACGT
* *
36890292 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT-TTACGT
*
36890338 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATTT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTT
36890379 CAGAAAGCAC
Statistics
Matches: 284, Mismatches: 26, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
44 40 0.14
45 44 0.15
46 200 0.70
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTACGT
Found at i:36890230 original size:90 final size:91
Alignment explanation
Indices: 36890014--36890373 Score: 526
Period size: 90 Copynumber: 4.0 Consensus size: 91
36890004 TTATCTTTGA
* *** * * *
36890014 CATGATGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGTTAC-ATTGCCATGGTATCT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT-ATCCTGTTGCCATGGTATCT
* ** ****
36890078 TTTAACCATGGTCTTATTCATTCCCGT
65 TTCAACCATGGTCTTACACATTTATAT
*
36890105 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCCTGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCCTGTTGCCATGGTATCTT
36890170 TCAACCATGGTCTTACACATTTATAT
66 TCAACCATGGTCTTACACATTTATAT
*
36890196 C-TGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCCTGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCCTGTTGCCATGGTATCTT
36890260 TCAACCATGGTCTTACACATTTCATAT
66 TCAACCATGGTCTTACACATTT-ATAT
* *
36890287 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCCTGTTGCCATGGTATCTT
36890352 TCAACCATGGTCTTACACATTT
66 TCAACCATGGTCTTACACATTT
36890374 CATTTCAGAA
Statistics
Matches: 248, Mismatches: 18, Indels: 5
0.92 0.07 0.02
Matches are distributed among these distances:
90 87 0.35
91 79 0.32
92 82 0.33
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (91 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCCTGTTGCCATGGTATCTT
TCAACCATGGTCTTACACATTTATAT
Found at i:36890341 original size:182 final size:181
Alignment explanation
Indices: 36890019--36890373 Score: 541
Period size: 182 Copynumber: 2.0 Consensus size: 181
36890009 TTTGACATGA
*** * *
36890019 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGTTACATTGCCATGGTATCTTTTAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGATACATTGCCATGGTATCTTTCAAC
** * * *
36890084 CATGGTCTTATTCATTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTAT
66 CATGGTCTTACACATTCACATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
*
36890149 ATCCTGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTATATCTGT
131 ATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTATATCTGT
* * *
36890200 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTAT-ATCCTGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGATAC-ATTGCCATGGTATCTTTCAA
*
36890264 CCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
65 CCATGGTCTTACACA-TTCACATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
*
36890329 ATATCATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTT
129 ATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
36890374 CATTTCAGAA
Statistics
Matches: 156, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
180 2 0.01
181 66 0.42
182 88 0.56
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (181 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGATACATTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTCACATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
ATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTATATCTGT
Found at i:36893477 original size:101 final size:101
Alignment explanation
Indices: 36893342--36893544 Score: 289
Period size: 101 Copynumber: 2.0 Consensus size: 101
36893332 CACAGCTCTG
* * * *
36893342 CCATGGTCTTACGTTCATAGTGCTATAACTCAGTTATGGTCTTATCATCAGAATGTCATAGCCCA
1 CCATGGTCATAAGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGTCATAGCCCA
36893407 ACTATAGTCTTACATATAAACACTATCATGGACCAA
66 ACTATAGTCTTACATATAAACACTATCATGGACCAA
* **
36893443 CCATGGTCATAAGTTCATAGTGCCATAACCCAGTTATGGTTTTATCATCAGAATGTTGTAGCCCA
1 CCATGGTCATAAGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGTCATAGCCCA
* * * * * *
36893508 GCTATGGTCTTACATATATACATTGTCATGGTCCAA
66 ACTATAGTCTTACATATAAACACTATCATGGACCAA
36893544 C
1 C
36893545 TGTGGTTTTA
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 89 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.33
Consensus pattern (101 bp):
CCATGGTCATAAGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGTCATAGCCCA
ACTATAGTCTTACATATAAACACTATCATGGACCAA
Found at i:36895800 original size:13 final size:12
Alignment explanation
Indices: 36895774--36895806 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
36895764 TTCTAAATTT
36895774 AAAAAATT-ATA
1 AAAAAATTAATA
36895785 AAAAAATTAATA
1 AAAAAATTAATA
36895797 AAAATAATTA
1 AAAA-AATTA
36895807 TGAGCTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.40
12 7 0.35
13 5 0.25
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
AAAAAATTAATA
Found at i:36895801 original size:10 final size:11
Alignment explanation
Indices: 36895774--36895807 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
36895764 TTCTAAATTT
36895774 AAAAAATTATA
1 AAAAAATTATA
36895785 AAAAAATTAATA
1 AAAAAATT-ATA
36895797 AAAATAATTAT
1 AAAA-AATTAT
36895808 GAGCTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.38
12 9 0.43
13 4 0.19
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAAAATTATA
Found at i:36896618 original size:50 final size:50
Alignment explanation
Indices: 36896543--36896649 Score: 187
Period size: 50 Copynumber: 2.1 Consensus size: 50
36896533 CCATGGCAAC
* *
36896543 AAGTGATAAGTGATAGTTTCGGCTACATTTATCTGATCAAGAACAAGTGA
1 AAGTGATAAGTGATAGTTTCGGCTACACTTATCTAATCAAGAACAAGTGA
*
36896593 AAGTGATAAGTGATAGTTTCGGCTACACTTATCTAATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGTTTCGGCTACACTTATCTAATCAAGAACAAGTGA
36896643 AAGTGAT
1 AAGTGAT
36896650 CAAGGACAAG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.29
Consensus pattern (50 bp):
AAGTGATAAGTGATAGTTTCGGCTACACTTATCTAATCAAGAACAAGTGA
Found at i:36896653 original size:20 final size:20
Alignment explanation
Indices: 36896628--36896669 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
36896618 CACTTATCTA
36896628 ATCAAGGACAAGTGAAAGTG
1 ATCAAGGACAAGTGAAAGTG
36896648 ATCAAGGACAAGTGAAAGTG
1 ATCAAGGACAAGTGAAAGTG
36896668 AT
1 AT
36896670 AAGTGATAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.10, G:0.29, T:0.17
Consensus pattern (20 bp):
ATCAAGGACAAGTGAAAGTG
Found at i:36896690 original size:70 final size:71
Alignment explanation
Indices: 36896576--36896719 Score: 218
Period size: 70 Copynumber: 2.0 Consensus size: 71
36896566 TACATTTATC
* * *
36896576 TGATCAAGAACAAGTGAAAGTGATAAGTGATAGTTTCGGCTACACTTATCTAATCAAGGACAAGT
1 TGATCAAGAACAAGTGAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTAATCAAGGACAAAT
36896641 GA-AAG
66 GACAAG
* * * *
36896646 TGATCAAGGACAAGTGAAAGTGATAAGTGATAGCTTCAGTTACACTTATCTGATCAATGACAAAT
1 TGATCAAGAACAAGTGAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTAATCAAGGACAAAT
36896711 GACAAG
66 GACAAG
36896717 TGA
1 TGA
36896720 AAAGTGGTAG
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
70 60 0.91
71 6 0.09
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (71 bp):
TGATCAAGAACAAGTGAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTAATCAAGGACAAAT
GACAAG
Found at i:36896759 original size:31 final size:31
Alignment explanation
Indices: 36896715--36896832 Score: 137
Period size: 31 Copynumber: 3.8 Consensus size: 31
36896705 ACAAATGACA
36896715 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* * *
36896746 AATGAAAATTGGTAGCTTCAGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* * * * * *
36896777 AGTGAAAAATGATAGCTTCGGTTGCTTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* *
36896808 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCAGCTAC
36896833 AAGTCACAAG
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
Found at i:36904254 original size:23 final size:23
Alignment explanation
Indices: 36904223--36904267 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
36904213 AGTTGTCCAA
* **
36904223 TTTTTCTTTTCTGTTCTTCTTTC
1 TTTTCCTTTTCTAATCTTCTTTC
36904246 TTTTCCTTTTCTAATCTTCTTT
1 TTTTCCTTTTCTAATCTTCTTT
36904268 TTTCTTCTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.04, C:0.22, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTTCCTTTTCTAATCTTCTTTC
Found at i:36908084 original size:35 final size:35
Alignment explanation
Indices: 36908038--36908107 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
36908028 GTACCGCACA
36908038 AAAACTGAAGTACTGTGTGCATGGGAAAAAATGGG
1 AAAACTGAAGTACTGTGTGCATGGGAAAAAATGGG
36908073 AAAACTGAAGTACTGTGTGCATGGGAAAAAATGGG
1 AAAACTGAAGTACTGTGTGCATGGGAAAAAATGGG
36908108 CGTCATCTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.09, G:0.31, T:0.20
Consensus pattern (35 bp):
AAAACTGAAGTACTGTGTGCATGGGAAAAAATGGG
Found at i:36910937 original size:30 final size:30
Alignment explanation
Indices: 36910894--36910952 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
36910884 CTTAACAAGC
36910894 AAATGCCTCTAAAATAATAACAAAATTAAT
1 AAATGCCTCTAAAATAATAACAAAATTAAT
* *
36910924 AAATGGCTTTAAAATAATAACAAAATTAA
1 AAATGCCTCTAAAATAATAACAAAATTAA
36910953 CAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.10, G:0.05, T:0.27
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAT
Found at i:36918858 original size:16 final size:17
Alignment explanation
Indices: 36918829--36918861 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
36918819 AAATAAATAA
36918829 TAAAATTATAGTTAAAT
1 TAAAATTATAGTTAAAT
36918846 TAAAATT-TAGTTAAAT
1 TAAAATTATAGTTAAAT
36918862 GTTTAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (17 bp):
TAAAATTATAGTTAAAT
Found at i:36923994 original size:19 final size:19
Alignment explanation
Indices: 36923970--36924008 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
36923960 AGTATGTTCT
36923970 TGAGTTAAATTACAAGTTG
1 TGAGTTAAATTACAAGTTG
36923989 TGAGTTAAATTACAAGTTG
1 TGAGTTAAATTACAAGTTG
36924008 T
1 T
36924009 ACAAGTATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (19 bp):
TGAGTTAAATTACAAGTTG
Found at i:36924973 original size:26 final size:26
Alignment explanation
Indices: 36924937--36924988 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
36924927 CGGGGTTGGA
36924937 TATCGTCAAAAGCAGAATCACACTAT
1 TATCGTCAAAAGCAGAATCACACTAT
36924963 TATCGTCAAAAGCAGAATCACACTAT
1 TATCGTCAAAAGCAGAATCACACTAT
36924989 CAAGCTATCA
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:0.23, G:0.12, T:0.23
Consensus pattern (26 bp):
TATCGTCAAAAGCAGAATCACACTAT
Found at i:36927416 original size:12 final size:12
Alignment explanation
Indices: 36927399--36927426 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
36927389 ATGGTGGAAT
36927399 GATGTTTTAGAA
1 GATGTTTTAGAA
36927411 GATGTTTTAGAA
1 GATGTTTTAGAA
36927423 GATG
1 GATG
36927427 GCTGATACGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (12 bp):
GATGTTTTAGAA
Found at i:36931189 original size:49 final size:48
Alignment explanation
Indices: 36931093--36931432 Score: 220
Period size: 49 Copynumber: 7.0 Consensus size: 48
36931083 ATCTTTCATG
* ** *
36931093 AAAATAATAACCTTGCTCCCAAATGCATAGGGGAAGAATTACAGAAGGT
1 AAAATAATAACCTTGCTCCCAAATGCAT-GGGGGAGGCTTACGGAAGGT
* *
36931142 AAAATAATAACATTGCTCTCAAATGCATGTGGGGAGGCTTACGGAAGGT
1 AAAATAATAACCTTGCTCCCAAATGCATG-GGGGAGGCTTACGGAAGGT
* * * * * * * * *
36931191 AGAATGATAA-CTCTACTCTCAGATGTATGGGGGAAGCTTGCGAAAGGT
1 AAAATAATAACCT-TGCTCCCAAATGCATGGGGGAGGCTTACGGAAGGT
* * * * * *
36931239 AAAATAATAACCTTGTTCCCAGACGTATGGGAGGAGACTTACGAAAGGT
1 AAAATAATAACCTTGCTCCCAAATGCATGGG-GGAGGCTTACGGAAGGT
* * ** * * * *
36931288 AGTAAACAATAACCCTGCTCTTAGACGTATGGGGGAGGCTTATGGAAGGT
1 A--AAATAATAACCTTGCTCCCAAATGCATGGGGGAGGCTTACGGAAGGT
* * * * *
36931338 AGAGTAATAACCTTGCTCCCATACAT--ATGAAGGGAGACTTATGGAAGGT
1 AAAATAATAACCTTGCTCCCA-A-ATGCATG-GGGGAGGCTTACGGAAGGT
* * * * *
36931387 ATAATAATAACCCTACTCCCTAATGCAT-GGAGAGGCTTACGGAAGG
1 AAAATAATAACCTTGCTCCCAAATGCATGGGGGAGGCTTACGGAAGG
36931433 CTCAATGTCT
Statistics
Matches: 229, Mismatches: 51, Indels: 24
0.75 0.17 0.08
Matches are distributed among these distances:
47 16 0.07
48 58 0.25
49 114 0.50
50 16 0.07
51 25 0.11
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.23
Consensus pattern (48 bp):
AAAATAATAACCTTGCTCCCAAATGCATGGGGGAGGCTTACGGAAGGT
Found at i:36931249 original size:48 final size:48
Alignment explanation
Indices: 36931137--36931348 Score: 160
Period size: 48 Copynumber: 4.3 Consensus size: 48
36931127 AGAATTACAG
* * * * *
36931137 AAGGTAAAATAATAACAT-TGCTCTCAAATGCATGTGGGGAGGCTTACGG
1 AAGGTAAAATAATAAC-TCTGCTCTCAGACGTATG-GGGGAAGCTTACGA
* * * * *
36931186 AAGGTAGAATGATAACTCTACTCTCAGATGTATGGGGGAAGCTTGCGA
1 AAGGTAAAATAATAACTCTGCTCTCAGACGTATGGGGGAAGCTTACGA
* *
36931234 AAGGTAAAATAATAAC-CTTGTTCCCAGACGTATGGGAGG-AGACTTACGA
1 AAGGTAAAATAATAACTC-TGCTCTCAGACGTATGGG-GGAAG-CTTACGA
* * * * * *
36931283 AAGGTAGTAAACAATAACCCTGCTCTTAGACGTATGGGGGAGGCTTATGG
1 AAGGTA--AAATAATAACTCTGCTCTCAGACGTATGGGGGAAGCTTACGA
* *
36931333 AAGGTAGAGTAATAAC
1 AAGGTAAAATAATAAC
36931349 CTTGCTCCCA
Statistics
Matches: 130, Mismatches: 25, Indels: 17
0.76 0.15 0.10
Matches are distributed among these distances:
47 1 0.01
48 49 0.38
49 41 0.32
50 13 0.10
51 25 0.19
52 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (48 bp):
AAGGTAAAATAATAACTCTGCTCTCAGACGTATGGGGGAAGCTTACGA
Found at i:36931280 original size:97 final size:97
Alignment explanation
Indices: 36931137--36931404 Score: 261
Period size: 99 Copynumber: 2.7 Consensus size: 97
36931127 AGAATTACAG
* * * * * *
36931137 AAGGTAAAATAATAACATTGCTCTCAAATGCATGTGG-GGAGGCTTACGGAAGGTAGAATGATAA
1 AAGGTAAAATAATAACCTTGCTCCCAAACGTATG-GGAGGAGACTTACGGAAGGTAGAATAATAA
* * *
36931201 CTCTACTCTCAGATGTATGGGGGAAGCTTGCGA
65 CCCTACTCTCAGACGTATGGGGGAAGCTTACGA
* * * *
36931234 AAGGTAAAATAATAACCTTGTTCCCAGACGTATGGGAGGAGACTTACGAAAGGTAGTAAACAATA
1 AAGGTAAAATAATAACCTTGCTCCCAAACGTATGGGAGGAGACTTACGGAAGGTAG--AATAATA
* * * * *
36931299 ACCCTGCTCTTAGACGTATGGGGGAGGCTTATGG
64 ACCCTACTCTCAGACGTATGGGGGAAGCTTACGA
* * * * * * *
36931333 AAGGTAGAGTAATAACCTTGCTCCCATACATAT-GAAGGGAGACTTATGGAAGGTATAATAATAA
1 AAGGTAAAATAATAACCTTGCTCCCAAACGTATGGGA-GGAGACTTACGGAAGGTAGAATAATAA
36931397 CCCTACTC
65 CCCTACTC
36931405 CCTAATGCAT
Statistics
Matches: 138, Mismatches: 29, Indels: 8
0.79 0.17 0.05
Matches are distributed among these distances:
96 2 0.01
97 59 0.43
98 2 0.01
99 75 0.54
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.24
Consensus pattern (97 bp):
AAGGTAAAATAATAACCTTGCTCCCAAACGTATGGGAGGAGACTTACGGAAGGTAGAATAATAAC
CCTACTCTCAGACGTATGGGGGAAGCTTACGA
Found at i:36932141 original size:9 final size:9
Alignment explanation
Indices: 36932122--36932167 Score: 76
Period size: 9 Copynumber: 5.1 Consensus size: 9
36932112 TGAGTTTTCG
36932122 AATTCGAAT
1 AATTCGAAT
36932131 AACTT-GAAT
1 AA-TTCGAAT
36932140 AATTCGAAT
1 AATTCGAAT
36932149 AATTCGAAT
1 AATTCGAAT
36932158 AATTCGAAT
1 AATTCGAAT
36932167 A
1 A
36932168 TTAAACTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
8 2 0.06
9 31 0.89
10 2 0.06
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.33
Consensus pattern (9 bp):
AATTCGAAT
Found at i:36932845 original size:86 final size:86
Alignment explanation
Indices: 36932755--36932928 Score: 312
Period size: 86 Copynumber: 2.0 Consensus size: 86
36932745 ATTAAAATTG
*
36932755 AATTATTAATTATGCCATAAAATATTCGTGTTAAAATTTTATATTGGTATCAATTTCACATTTTA
1 AATTATTAATTATGCCATAAAATATTCGTGTTAAAATTTTATATTGGTATAAATTTCACATTTTA
36932820 TCTTTAAAATAACTTTTATTA
66 TCTTTAAAATAACTTTTATTA
* * *
36932841 AATTATTAATTATGTCATAAAATATTCGTGTTAAAATTTTATATTGGTATAAATTTTATATTTTA
1 AATTATTAATTATGCCATAAAATATTCGTGTTAAAATTTTATATTGGTATAAATTTCACATTTTA
36932906 TCTTTAAAATAACTTTTATTA
66 TCTTTAAAATAACTTTTATTA
36932927 AA
1 AA
36932929 AAATCACATT
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.49
Consensus pattern (86 bp):
AATTATTAATTATGCCATAAAATATTCGTGTTAAAATTTTATATTGGTATAAATTTCACATTTTA
TCTTTAAAATAACTTTTATTA
Found at i:36933188 original size:10 final size:10
Alignment explanation
Indices: 36933173--36933197 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
36933163 AACAAATATA
36933173 TTCGATTCGT
1 TTCGATTCGT
36933183 TTCGATTCGT
1 TTCGATTCGT
36933193 TTCGA
1 TTCGA
36933198 ATTCTATCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.48
Consensus pattern (10 bp):
TTCGATTCGT
Found at i:36934523 original size:25 final size:25
Alignment explanation
Indices: 36934476--36934523 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
36934466 ATGTTGTTCG
*
36934476 AATATTGCATTGTTAATGATGTCTA
1 AATATTGCATTATTAATGATGTCTA
* * *
36934501 AATATTGTATTATTGATGCTGTC
1 AATATTGCATTATTAATGATGTC
36934524 CGAATCAGCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (25 bp):
AATATTGCATTATTAATGATGTCTA
Found at i:36935544 original size:15 final size:15
Alignment explanation
Indices: 36935514--36935563 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
36935504 TATAAATTAT
36935514 ATAATAT-ATA-AAA
1 ATAATATAATATAAA
36935527 ATAATATAATATAAA
1 ATAATATAATATAAA
* *
36935542 ATATTATAAATTTAAA
1 ATAATAT-AATATAAA
36935558 A-AATAT
1 ATAATAT
36935564 TCTAGACTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 7 0.23
14 3 0.10
15 13 0.42
16 8 0.26
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
ATAATATAATATAAA
Found at i:36936088 original size:3 final size:3
Alignment explanation
Indices: 36936080--36936113 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
36936070 CCATACTAGT
36936080 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
36936114 TTAAGAGAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:36937384 original size:21 final size:21
Alignment explanation
Indices: 36937360--36937424 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
36937350 AATTAAATTT
36937360 TAAAATTTTGATGGATGTTCA
1 TAAAATTTTGATGGATGTTCA
* *
36937381 TAAAA-ATTGAT--ATGAT-A
1 TAAAATTTTGATGGATGTTCA
36937398 TTAAAATTTTGATGGATGTTCA
1 -TAAAATTTTGATGGATGTTCA
36937420 TAAAA
1 TAAAA
36937425 ATTGATATGA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
17 1 0.03
18 9 0.26
19 5 0.14
20 5 0.14
21 14 0.40
22 1 0.03
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (21 bp):
TAAAATTTTGATGGATGTTCA
Found at i:36937387 original size:22 final size:22
Alignment explanation
Indices: 36937361--36937427 Score: 81
Period size: 22 Copynumber: 3.3 Consensus size: 22
36937351 ATTAAATTTT
36937361 AAAATTTTGATGGATGTTCATA
1 AAAATTTTGATGGATGTTCATA
* *
36937383 AAAA--TTGAT--ATGAT-ATT
1 AAAATTTTGATGGATGTTCATA
36937400 AAAATTTTGATGGATGTTCATA
1 AAAATTTTGATGGATGTTCATA
36937422 AAAATT
1 AAAATT
36937428 GATATGATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
17 6 0.17
18 4 0.11
19 5 0.14
20 5 0.14
21 4 0.11
22 12 0.33
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (22 bp):
AAAATTTTGATGGATGTTCATA
Found at i:36937413 original size:39 final size:39
Alignment explanation
Indices: 36937359--36937435 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
36937349 CAATTAAATT
36937359 TTAAAATTTTGATGGATGTTCATAAAAATTGATATGATA
1 TTAAAATTTTGATGGATGTTCATAAAAATTGATATGATA
36937398 TTAAAATTTTGATGGATGTTCATAAAAATTGATATGAT
1 TTAAAATTTTGATGGATGTTCATAAAAATTGATATGAT
36937436 TTGATTTGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.40, C:0.03, G:0.16, T:0.42
Consensus pattern (39 bp):
TTAAAATTTTGATGGATGTTCATAAAAATTGATATGATA
Found at i:36940746 original size:14 final size:16
Alignment explanation
Indices: 36940712--36940748 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
36940702 TTTGTAATAT
*
36940712 AAATTTAGCACTTATA
1 AAATTTAGCACGTATA
36940728 AAATTTAGCA-GTA-A
1 AAATTTAGCACGTATA
36940742 AAATTTA
1 AAATTTA
36940749 TTATTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 8 0.40
15 2 0.10
16 10 0.50
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (16 bp):
AAATTTAGCACGTATA
Found at i:36943400 original size:29 final size:30
Alignment explanation
Indices: 36943368--36943426 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
36943358 TTTAGTCTAA
*
36943368 TGTGTAATTTTATACATG-AACTTTGATTT
1 TGTGCAATTTTATACATGAAACTTTGATTT
* *
36943397 TGTGCAATTTTATATATGAAATTTTGATTT
1 TGTGCAATTTTATACATGAAACTTTGATTT
36943427 GATCTAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.53
Consensus pattern (30 bp):
TGTGCAATTTTATACATGAAACTTTGATTT
Found at i:36946563 original size:30 final size:30
Alignment explanation
Indices: 36946465--36946563 Score: 83
Period size: 30 Copynumber: 3.1 Consensus size: 30
36946455 CTAACTCCCA
* *
36946465 TAATTCCCTATTAGATCAATG-AGAGTTCTC
1 TAATTCCCTATTAGGTCAA-GAATAGTTCTC
* *
36946495 TAATTCCCTATTAGGTCGAGAACACATTATTATCTC
1 TAATTCCCTATTAGGTC---AAGA-A-TAGT-TCTC
*
36946531 TAATTCCCTATTAGGTTAAGAATAGTTCTC
1 TAATTCCCTATTAGGTCAAGAATAGTTCTC
36946561 TAA
1 TAA
36946564 CAACCTACTA
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
30 23 0.42
31 3 0.05
32 1 0.02
33 5 0.09
34 1 0.02
35 2 0.04
36 20 0.36
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (30 bp):
TAATTCCCTATTAGGTCAAGAATAGTTCTC
Found at i:36946576 original size:66 final size:66
Alignment explanation
Indices: 36946465--36946608 Score: 164
Period size: 66 Copynumber: 2.2 Consensus size: 66
36946455 CTAACTCCCA
*** * * * * *
36946465 TAATTCCCTATTAGATCAATGAGAGTTCTCTAATTCCCTATTAGGTCGAGAACACATTATTATCT
1 TAATTCCCTATTAGATCAATGAGAGTTCTCTAACAACCTACTAGGTCGAGAAAAAAGTATTACCT
36946530 C
66 C
* * * *
36946531 TAATTCCCTATTAGGTTAA-GAATAGTTCTCTAACAACCTACTAGGTCGAGAAAAAAGTGTTACC
1 TAATTCCCTATTAGATCAATG-AGAGTTCTCTAACAACCTACTAGGTCGAGAAAAAAGTATTACC
36946595 TC
65 TC
36946597 TAATTCCCTATT
1 TAATTCCCTATT
36946609 GGGTCAATAA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
65 1 0.02
66 64 0.98
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (66 bp):
TAATTCCCTATTAGATCAATGAGAGTTCTCTAACAACCTACTAGGTCGAGAAAAAAGTATTACCT
C
Found at i:36949307 original size:40 final size:40
Alignment explanation
Indices: 36949263--36949373 Score: 152
Period size: 40 Copynumber: 2.8 Consensus size: 40
36949253 TGAGTTACCA
* * *
36949263 TAGTGAATCAGGAACAAGTCCTATCCACTTTATATAT-TTC
1 TAGTGAATCAGGAATAAATCCTATTCACTTTA-ATATCTTC
* * *
36949303 TAGTGAATCAGGAATAAATCCTATTCGCTTTAATTTCTTT
1 TAGTGAATCAGGAATAAATCCTATTCACTTTAATATCTTC
36949343 TAGTGAATCAGGAATAAATCCTATTCACTTT
1 TAGTGAATCAGGAATAAATCCTATTCACTTT
36949374 TAATTCTCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
39 3 0.05
40 60 0.95
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (40 bp):
TAGTGAATCAGGAATAAATCCTATTCACTTTAATATCTTC
Found at i:36950260 original size:16 final size:18
Alignment explanation
Indices: 36950234--36950272 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
36950224 TAAACCCCAA
36950234 TTTCTCCTTTTT-CTTTC
1 TTTCTCCTTTTTCCTTTC
36950251 TTTC-CCTTTTTCCTTTC
1 TTTCTCCTTTTTCCTTTC
36950268 TTTCT
1 TTTCT
36950273 TTCTCCCCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTCTCCTTTTTCCTTTC
Found at i:36950320 original size:12 final size:13
Alignment explanation
Indices: 36950303--36950331 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
36950293 TCTATTCTGA
36950303 TCTTCCTTTT-TT
1 TCTTCCTTTTGTT
36950315 TCTTCCTTTTGTT
1 TCTTCCTTTTGTT
36950328 TCTT
1 TCTT
36950332 TTGTTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.72
Consensus pattern (13 bp):
TCTTCCTTTTGTT
Found at i:36950502 original size:8 final size:8
Alignment explanation
Indices: 36950489--36950515 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
36950479 TTTAATTAAT
36950489 ATAATATA
1 ATAATATA
36950497 ATAATATA
1 ATAATATA
36950505 ATAATATA
1 ATAATATA
36950513 ATA
1 ATA
36950516 TTATTTACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
ATAATATA
Found at i:36955363 original size:9 final size:9
Alignment explanation
Indices: 36955337--36955379 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
36955327 AATTGAAAAA
36955337 GAATAATTT
1 GAATAATTT
*
36955346 -TATAATTT
1 GAATAATTT
*
36955354 GAACAATTT
1 GAATAATTT
36955363 GAATAATTT
1 GAATAATTT
36955372 GAATAATT
1 GAATAATT
36955380 GATTGGTGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
8 7 0.24
9 22 0.76
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (9 bp):
GAATAATTT
Found at i:36956031 original size:69 final size:69
Alignment explanation
Indices: 36955898--36956049 Score: 234
Period size: 69 Copynumber: 2.2 Consensus size: 69
36955888 TCCAAACAAG
** * *
36955898 AAAGAGAGGGAGGGAGCATGTTTGGGGGCATGGATTGGAGCTTGGGACAGTCTGAGATCCACAAA
1 AAAGAGAGGGAGGGAGCATGTTTGGGGGCATGGATTGGAGCTTGGGACACCCCGAGATCAACAAA
36955963 TCGC
66 TCGC
*
36955967 AAAGAGAGGGAGGGAGCATGTTTGGGGGCATGGATTGGAGCTTGGGACAACCCCG-TATCAACAA
1 AAAGAGAGGGAGGGAGCATGTTTGGGGGCATGGATTGGAGCTTGGGAC-ACCCCGAGATCAACAA
36956031 ATCGC
65 ATCGC
36956036 AAAGAGAGGTGAGG
1 AAAGAGAGG-GAGG
36956050 TGTTGAAACC
Statistics
Matches: 76, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
69 69 0.91
70 7 0.09
ACGTcount: A:0.30, C:0.14, G:0.39, T:0.17
Consensus pattern (69 bp):
AAAGAGAGGGAGGGAGCATGTTTGGGGGCATGGATTGGAGCTTGGGACACCCCGAGATCAACAAA
TCGC
Found at i:36959953 original size:10 final size:9
Alignment explanation
Indices: 36959909--36959960 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
36959899 TAATTTGAGT
36959909 TAATTTTAA
1 TAATTTTAA
**
36959918 TAATTCGAA
1 TAATTTTAA
*
36959927 TAATTTAAA
1 TAATTTTAA
*
36959936 TAAATTTAA
1 TAATTTTAA
36959945 TATATTTTAA
1 TA-ATTTTAA
36959955 -AATTTT
1 TAATTTT
36959961 TTAATTATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
8 5 0.14
9 24 0.69
10 6 0.17
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (9 bp):
TAATTTTAA
Found at i:36959988 original size:17 final size:16
Alignment explanation
Indices: 36959957--36959996 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
36959947 TATTTTAAAA
36959957 TTTTTTAATTATTTAT
1 TTTTTTAATTATTTAT
*
36959973 TTTTTTAATTTTTTTAT
1 TTTTTTAA-TTATTTAT
*
36959990 TATTTTA
1 TTTTTTA
36959997 CCTTTCTCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTAATTATTTAT
Found at i:36960393 original size:22 final size:20
Alignment explanation
Indices: 36960356--36960396 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
36960346 TAAAGTTAAA
36960356 AAATTATAAAAGAAAAAATT
1 AAATTATAAAAGAAAAAATT
*
36960376 AAATTACTCAAAATAAAAAAT
1 AAATTA-T-AAAAGAAAAAAT
36960397 AGGGACCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 1 0.06
22 11 0.61
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.24
Consensus pattern (20 bp):
AAATTATAAAAGAAAAAATT
Found at i:36965183 original size:19 final size:19
Alignment explanation
Indices: 36965159--36965196 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
36965149 ACAAGGAACA
36965159 GTAGAATAATCCATATTTG
1 GTAGAATAATCCATATTTG
36965178 GTAGAATAATCCATATTTG
1 GTAGAATAATCCATATTTG
36965197 ATATGGTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (19 bp):
GTAGAATAATCCATATTTG
Found at i:36967427 original size:18 final size:18
Alignment explanation
Indices: 36967400--36967434 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
36967390 GATAAATCCT
36967400 AATCAAGGATTTACTCCC
1 AATCAAGGATTTACTCCC
*
36967418 AATCAGGGATTTACTCC
1 AATCAAGGATTTACTCC
36967435 TATATTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (18 bp):
AATCAAGGATTTACTCCC
Found at i:36972863 original size:60 final size:59
Alignment explanation
Indices: 36972783--36972923 Score: 180
Period size: 60 Copynumber: 2.4 Consensus size: 59
36972773 TTTAGTGTTA
*
36972783 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCT-TAC-AGTAAC-AGAGTAT
1 ACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAG-CCCTATACAAGT--CGAGA-TAT
*
36972844 ACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCCTATACAAGTCGAGATAT
1 ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATACAAGTCGAGATAT
* *
36972903 ATTGGGCCTTGCCCATATCAA
1 ACTGGGCCTAGCCCATATCAA
36972924 CACAGTTGGG
Statistics
Matches: 72, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
59 26 0.36
60 35 0.49
61 11 0.15
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATACAAGTCGAGATAT
Found at i:36972956 original size:19 final size:20
Alignment explanation
Indices: 36972913--36972958 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
36972903 ATTGGGCCTT
*
36972913 GCCCATATCAACACAGTTGG
1 GCCCATATCAACACAATTGG
* *
36972933 GCCCATTTCAATACAATT-G
1 GCCCATATCAACACAATTGG
36972952 GCCCATA
1 GCCCATA
36972959 ACAGAACAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (20 bp):
GCCCATATCAACACAATTGG
Done.