Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 255 of 279
Found at i:82909548 original size:11 final size:11
Alignment explanation
Indices: 82909517--82909551 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
82909507 ATCCATATAT
82909517 TATTTTTAAT-
1 TATTTTTAATA
82909527 TATTTTTAATA
1 TATTTTTAATA
*
82909538 TATTTATAATA
1 TATTTTTAATA
82909549 TAT
1 TAT
82909552 AATAAATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TATTTTTAATA
Found at i:82909921 original size:11 final size:12
Alignment explanation
Indices: 82909902--82909931 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
82909892 TAATATATAT
82909902 ATATATGGAATA
1 ATATATGGAATA
82909914 AT-TATGGAATA
1 ATATATGGAATA
82909925 ATATATG
1 ATATATG
82909932 ATGCTCCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.37
Consensus pattern (12 bp):
ATATATGGAATA
Found at i:82917194 original size:60 final size:60
Alignment explanation
Indices: 82917086--82917200 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
82917076 TGTTTAGGGT
* * * *
82917086 TAAATTTATTGAATTTTTTAGAATTAAAATTAAATGATTAATTTTGTAAACATTGAAGAC
1 TAAATTTATTGAATTTTTTAGAATTAAAATCAAATGATAAAATGTGTAAACATTGAAGAC
* * **
82917146 TAAATTTGTTGAA-TTTTTAGATTTAGCATCAAATTGATAAAATGTGTAAACATTG
1 TAAATTTATTGAATTTTTTAGAATTAAAATCAAA-TGATAAAATGTGTAAACATTG
82917201 TAGGTATAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
59 16 0.35
60 30 0.65
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.43
Consensus pattern (60 bp):
TAAATTTATTGAATTTTTTAGAATTAAAATCAAATGATAAAATGTGTAAACATTGAAGAC
Found at i:82918827 original size:86 final size:86
Alignment explanation
Indices: 82918682--82918855 Score: 330
Period size: 86 Copynumber: 2.0 Consensus size: 86
82918672 ATAAAAACTG
82918682 GTAGAATTGTTATCCTAGAAAATATAATTTATAATTAGAAAATAAATTCTCGCTATTTTTGGGAA
1 GTAGAATTGTTATCCTAGAAAATATAATTTATAATTAGAAAATAAATTCTCGCTATTTTTGGGAA
82918747 AAATAACAATAACTCAAAATT
66 AAATAACAATAACTCAAAATT
*
82918768 GTAGAATTGTTATCCTGGAAAATATAATTTATAATTAGAAAATAAATTCTCGCTATTTTTGGGAA
1 GTAGAATTGTTATCCTAGAAAATATAATTTATAATTAGAAAATAAATTCTCGCTATTTTTGGGAA
*
82918833 AAATAACAATAACTCAAAGTT
66 AAATAACAATAACTCAAAATT
82918854 GT
1 GT
82918856 GTAAAACTTT
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 86 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (86 bp):
GTAGAATTGTTATCCTAGAAAATATAATTTATAATTAGAAAATAAATTCTCGCTATTTTTGGGAA
AAATAACAATAACTCAAAATT
Found at i:82918990 original size:219 final size:219
Alignment explanation
Indices: 82918549--82919202 Score: 989
Period size: 219 Copynumber: 3.0 Consensus size: 219
82918539 ATAAAAATCG
*
82918549 GTAGAATTGTTATCCTGGAAAATATAATTTATAATTAGAAAATAAATTCTCGCTATTTTCT-GGC
1 GTAGAATTGTTATCCTGGAAAATATAATTTATAATTAGAAAATAAATTCTCGCTATTTT-TGGGA
82918613 AAAATAACAATAACTCAAAGTTGTGTAAAACTTTTTCTATATGTAGCCCTACCTCTTTAATAAAA
65 AAAATAACAATAACTCAAAGTTGTGTAAAACTTTTTCTATATGTAGCCCTACCTCTTTAATAAAA
* * * * *** **** * *
82918678 ACTGGTAGAATTGTTATCCTAGAAAATAT-AATTTATA-ATTAGAAAATAAATTCT---CGCTAT
130 ACCGGTAGAATTATTATCCTGGAAAATATAAATGTA-ACATCCCAAAATAGGGCCTAAACG-GAA
*** **** * *
82918738 TTTTGGGAAAAATAACAAT-AACTCAAAATT
193 CAGTGGTTGCAA-AACCATGAA-TC--CATT
82918768 GTAGAATTGTTATCCTGGAAAATATAATTTATAATTAGAAAATAAATTCTCGCTATTTTTGGGAA
1 GTAGAATTGTTATCCTGGAAAATATAATTTATAATTAGAAAATAAATTCTCGCTATTTTTGGGAA
82918833 AAATAACAATAACTCAAAGTTGTGTAAAACTTTTTCTATATGTAGCCCTACCTCTTTAATAAAAA
66 AAATAACAATAACTCAAAGTTGTGTAAAACTTTTTCTATATGTAGCCCTACCTCTTTAATAAAAA
82918898 CCGGTAGAATTATTATCCTGGAAAATATAAATGTAACATCCCAAAATAGGGCCTAAACGGAACAG
131 CCGGTAGAATTATTATCCTGGAAAATATAAATGTAACATCCCAAAATAGGGCCTAAACGGAACAG
82918963 TGGTTGCAAAACCATGAATCCATT
196 TGGTTGCAAAACCATGAATCCATT
82918987 GTAGAATTGTTATCCTGGAAAATATAATTTATAATTAGAAAATAAATTCTCGCTATTTTTGGGAA
1 GTAGAATTGTTATCCTGGAAAATATAATTTATAATTAGAAAATAAATTCTCGCTATTTTTGGGAA
82919052 AAATAACAATAACTCAAAGTTGTGTAAAACTTTTTCTATATGTAGCCCTACCTCTTTAATAAAAA
66 AAATAACAATAACTCAAAGTTGTGTAAAACTTTTTCTATATGTAGCCCTACCTCTTTAATAAAAA
82919117 CCGGTAGAATTATTATCCTGGAAAATATAAATGTAACATCCCAAAATAGGGCCTAAACGGAACAG
131 CCGGTAGAATTATTATCCTGGAAAATATAAATGTAACATCCCAAAATAGGGCCTAAACGGAACAG
82919182 TGGTTGCAAAACCATGAATCC
196 TGGTTGCAAAACCATGAATCC
82919203 GAGATAGAAA
Statistics
Matches: 405, Mismatches: 23, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
218 1 0.00
219 372 0.92
220 15 0.04
221 7 0.02
222 8 0.02
223 2 0.00
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.32
Consensus pattern (219 bp):
GTAGAATTGTTATCCTGGAAAATATAATTTATAATTAGAAAATAAATTCTCGCTATTTTTGGGAA
AAATAACAATAACTCAAAGTTGTGTAAAACTTTTTCTATATGTAGCCCTACCTCTTTAATAAAAA
CCGGTAGAATTATTATCCTGGAAAATATAAATGTAACATCCCAAAATAGGGCCTAAACGGAACAG
TGGTTGCAAAACCATGAATCCATT
Found at i:82920532 original size:53 final size:53
Alignment explanation
Indices: 82920354--82920560 Score: 189
Period size: 53 Copynumber: 3.8 Consensus size: 53
82920344 ATTAGGGTTT
* * * * * *
82920354 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * * * *
82920408 AAGAAAATCATGTAAGACCATGTCAAGACATTGCATTGATAAACTACAATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
82920463 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* * *
82920516 ATGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
82920561 TAAAAAGGAA
Statistics
Matches: 118, Mismatches: 33, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
53 45 0.38
54 36 0.31
55 37 0.31
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:82929605 original size:26 final size:26
Alignment explanation
Indices: 82929566--82929725 Score: 257
Period size: 26 Copynumber: 6.2 Consensus size: 26
82929556 TGATACAAAT
82929566 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
** *
82929592 TGATAATGAATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
82929618 TAATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
82929644 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
82929670 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
82929696 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
82929722 TGAT
1 TGAT
82929726 GGGAATTTCA
Statistics
Matches: 121, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 121 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:82929723 original size:52 final size:52
Alignment explanation
Indices: 82929566--82929725 Score: 284
Period size: 52 Copynumber: 3.1 Consensus size: 52
82929556 TGATACAAAT
*
82929566 TGATAATGGGTTAGGTAAATGTTCCATGATAATGAATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
*
82929618 TAATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
82929670 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
82929722 TGAT
1 TGAT
82929726 GGGAATTTCA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 103 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:82937061 original size:26 final size:26
Alignment explanation
Indices: 82937032--82937139 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
82937022 TGGTACAAAT
82937032 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
82937058 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
82937084 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
82937110 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
82937136 TGAT
1 TGAT
82937140 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:82938654 original size:26 final size:26
Alignment explanation
Indices: 82938625--82938677 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
82938615 TTTACAGTTT
82938625 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
82938651 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
82938677 T
1 T
82938678 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:82941809 original size:22 final size:22
Alignment explanation
Indices: 82941782--82941829 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
82941772 CCCTAAGGAT
82941782 GATGTCACGACATAGGCCAGTG
1 GATGTCACGACATAGGCCAGTG
* *
82941804 GATGTCACGACATCGGTCAGTG
1 GATGTCACGACATAGGCCAGTG
82941826 GATG
1 GATG
82941830 CCGTGATATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.25, C:0.21, G:0.33, T:0.21
Consensus pattern (22 bp):
GATGTCACGACATAGGCCAGTG
Found at i:82944274 original size:45 final size:45
Alignment explanation
Indices: 82944225--82944311 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
82944215 GTAAAATACG
**
82944225 CTATGGCATCACGAT-TCAAACATGTAAGACCATAGTTGAAAGGAA
1 CTATGGCATCA-GATAAAAAACATGTAAGACCATAGTTGAAAGGAA
* * *
82944270 CTATGGCATTATATAAAAAACGTGTAAGACCATAGTTGAAAG
1 CTATGGCATCAGATAAAAAACATGTAAGACCATAGTTGAAAG
82944312 ACATTATGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
44 2 0.06
45 34 0.94
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (45 bp):
CTATGGCATCAGATAAAAAACATGTAAGACCATAGTTGAAAGGAA
Found at i:82944320 original size:45 final size:45
Alignment explanation
Indices: 82944242--82944365 Score: 151
Period size: 45 Copynumber: 2.8 Consensus size: 45
82944232 ATCACGATTC
* *
82944242 AAACATGTAAGACCATAGTTGAAAGGA-ACTATGGCATTATATAAA
1 AAACGTGTAAGACCATAGTTGAAA-GACACTATGGCACTATATAAA
* **
82944287 AAACGTGTAAGACCATAGTTGAAAGACATTATGGCACTATATCGA
1 AAACGTGTAAGACCATAGTTGAAAGACACTATGGCACTATATAAA
* * **
82944332 AAACGTATAAGGCCATAGTTTCAAGACACTATGG
1 AAACGTGTAAGACCATAGTTGAAAGACACTATGG
82944366 AAACATGACG
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 2 0.03
45 66 0.97
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (45 bp):
AAACGTGTAAGACCATAGTTGAAAGACACTATGGCACTATATAAA
Found at i:82944404 original size:46 final size:45
Alignment explanation
Indices: 82944354--82944502 Score: 122
Period size: 46 Copynumber: 3.3 Consensus size: 45
82944344 CCATAGTTTC
*
82944354 AAGACACTATGGAAACATGACGGAAAATAAATAAGACCATGGTTGA
1 AAGACACTATGGAAACATGACAGAAAATAAATAAGACCATGGTT-A
* * * * *
82944400 AAGACATTAT-GACAACATGACAGAAAGTGAGTAAGACCATAGTTAA
1 AAGACACTATGGA-AACATGACAGAAAATAAATAAGACCATGGTT-A
* * * ** * *
82944446 AAGGCACTATGGCATCATG-TTGAAAATAAATAAGATCGTGGCTTA
1 AAGACACTATGGAAACATGACAGAAAATAAATAAGACCATGG-TTA
*
82944491 AAGACGCTATGG
1 AAGACACTATGG
82944503 CACCCTTGGA
Statistics
Matches: 79, Mismatches: 21, Indels: 7
0.74 0.20 0.07
Matches are distributed among these distances:
45 27 0.34
46 51 0.65
47 1 0.01
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (45 bp):
AAGACACTATGGAAACATGACAGAAAATAAATAAGACCATGGTTA
Found at i:82946424 original size:13 final size:13
Alignment explanation
Indices: 82946406--82946430 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82946396 TACAACGTTT
82946406 TATTTTTTTATTG
1 TATTTTTTTATTG
82946419 TATTTTTTTATT
1 TATTTTTTTATT
82946431 CATAACGTCA
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:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (13 bp):
TATTTTTTTATTG
Found at i:82959285 original size:13 final size:13
Alignment explanation
Indices: 82959260--82959295 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
82959250 GGTTGGTGAT
82959260 AAAGTAT-TCCTG
1 AAAGTATCTCCTG
82959272 AAAGTATCTCCTG
1 AAAGTATCTCCTG
82959285 AAAGTATCTCC
1 AAAGTATCTCC
82959296 ATGGAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (13 bp):
AAAGTATCTCCTG
Found at i:82960871 original size:18 final size:19
Alignment explanation
Indices: 82960831--82960871 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
82960821 AGTTAGTCAA
82960831 CAGTAATAATCAGTTAATT
1 CAGTAATAATCAGTTAATT
* *
82960850 -AGTAATATTCA-TTTATT
1 CAGTAATAATCAGTTAATT
82960867 CAGTA
1 CAGTA
82960872 TCAGTCGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (19 bp):
CAGTAATAATCAGTTAATT
Found at i:82960882 original size:18 final size:18
Alignment explanation
Indices: 82960858--82960907 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
82960848 TTAGTAATAT
*
82960858 TCATTTATTCAGTATCAG
1 TCATTTATTCAGTAACAG
*
82960876 TCGTTTATTCTA-TAACAG
1 TCATTTATTC-AGTAACAG
*
82960894 TCAATTATTCAGTA
1 TCATTTATTCAGTA
82960908 GCAGACAGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 1 0.04
18 24 0.92
19 1 0.04
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (18 bp):
TCATTTATTCAGTAACAG
Found at i:82961468 original size:3 final size:3
Alignment explanation
Indices: 82961460--82961492 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
82961450 ATTCAATACC
82961460 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
82961493 CTTACCATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:82962139 original size:17 final size:19
Alignment explanation
Indices: 82962105--82962142 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
82962095 AAACATTTAA
82962105 TTTTCTCTTTTCTTCTTTC
1 TTTTCTCTTTTCTTCTTTC
82962124 TTTTCTC-TTT-TTCTTTC
1 TTTTCTCTTTTCTTCTTTC
82962141 TT
1 TT
82962143 CCTTTCCCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCTCTTTTCTTCTTTC
Found at i:82962147 original size:21 final size:19
Alignment explanation
Indices: 82962105--82962147 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
82962095 AAACATTTAA
*
82962105 TTTTCTCTTTTCTTCTTTC
1 TTTTCTCTTTTCTTCTTCC
82962124 TTTTCTCTTTTTCTTTCTTCC
1 TTTTCTC-TTTTC-TTCTTCC
82962145 TTT
1 TTT
82962148 CCCTGTTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 5 0.24
21 9 0.43
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTCTCTTTTCTTCTTCC
Found at i:82962616 original size:24 final size:25
Alignment explanation
Indices: 82962563--82962609 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
82962553 TATCTAACTA
*
82962563 TCATT-AA-TTTAAGTTAATTCACT
1 TCATTAAACTTTAAATTAATTCACT
82962586 TCATTAAACTTTAAATTAA-TCACT
1 TCATTAAACTTTAAATTAATTCACT
82962610 CACTTAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 7 0.33
25 9 0.43
ACGTcount: A:0.38, C:0.15, G:0.02, T:0.45
Consensus pattern (25 bp):
TCATTAAACTTTAAATTAATTCACT
Found at i:82968161 original size:20 final size:20
Alignment explanation
Indices: 82968101--82968161 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
82968091 TTGTACAGGA
* *
82968101 TTGCACTTCGGTGCCTCTGA
1 TTGCACTTTGGTGCCTCTGT
*
82968121 TTGCACATTGGTGCCTCTGT
1 TTGCACTTTGGTGCCTCTGT
* *
82968141 TTTCACTTTGGTGCCTTTGT
1 TTGCACTTTGGTGCCTCTGT
82968161 T
1 T
82968162 ACGCATCTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.08, C:0.25, G:0.23, T:0.44
Consensus pattern (20 bp):
TTGCACTTTGGTGCCTCTGT
Found at i:82970564 original size:40 final size:40
Alignment explanation
Indices: 82970520--82970783 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
82970510 GCTCCTCGTT
* *
82970520 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
82970560 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
82970600 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
82970640 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
82970680 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
82970719 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
82970760 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
82970784 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:82978579 original size:40 final size:40
Alignment explanation
Indices: 82978535--82978796 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
82978525 GCTCCTCGTT
* *
82978535 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
82978575 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
82978615 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
82978654 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
82978693 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
82978732 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
82978773 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
82978797 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:83013345 original size:60 final size:62
Alignment explanation
Indices: 83013270--83013402 Score: 189
Period size: 62 Copynumber: 2.2 Consensus size: 62
83013260 CTGTGTGGTC
* * * **
83013270 ACCCGTGTGCCCTATTTATCAAA-CTA-GTGTCACATGGCCTGGTCACATGCCCGTGTGCTA
1 ACCCGTGTACCCTATTTATCAAATCAATGAGTCACACAGCCTGGTCACATGCCCGTGTGCTA
*
83013330 ACCCTTGTACCCTATTTATCAAATCAATGAGTCACACAGCCTGGTCACATGCCCGTGTGCTA
1 ACCCGTGTACCCTATTTATCAAATCAATGAGTCACACAGCCTGGTCACATGCCCGTGTGCTA
*
83013392 GCCCGTGTACC
1 ACCCGTGTACC
83013403 TCATACGGCT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 21 0.33
61 2 0.03
62 40 0.63
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.27
Consensus pattern (62 bp):
ACCCGTGTACCCTATTTATCAAATCAATGAGTCACACAGCCTGGTCACATGCCCGTGTGCTA
Found at i:83021370 original size:96 final size:96
Alignment explanation
Indices: 83021197--83021390 Score: 298
Period size: 96 Copynumber: 2.0 Consensus size: 96
83021187 GTGTCCGAGG
* * * * * * *
83021197 AAGTTTGTTATCGATGGGAATGATCAAGCAGATACGGAGCCCAGGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACGATCAAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
83021262 AAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
66 AAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
*
83021293 AAGTCTGTCATCGAAGGGAACGATGAAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACGATCAAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
* *
83021358 TAAAGTCGAAGCCAAGAGGGCAAAGAGGAGC
66 AAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
83021389 AA
1 AA
83021391 AAAGAAGCGA
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 88 1.00
ACGTcount: A:0.36, C:0.17, G:0.34, T:0.13
Consensus pattern (96 bp):
AAGTCTGTCATCGAAGGGAACGATCAAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
AAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
Found at i:83024946 original size:72 final size:69
Alignment explanation
Indices: 83024808--83024950 Score: 164
Period size: 72 Copynumber: 2.0 Consensus size: 69
83024798 TACTTCTCTC
* *
83024808 AAAAGCTTGTCTTTCAGATACTCTTCGGTTTCTCAAAAGCTTCTCTTTTAAACGCTCTCTGTTTT
1 AAAAGCTTGTCTTTCAAATACTCTTCGGTTTCTCAAAAGCTTCTCTTTTAAACGCTCTCTGATTT
83024873 TTCA
66 TTCA
* * * * *
83024877 AAAAGCTTTTCTTTCAAATGCTCTTCTTTGGTTTCTCAAATA-CTTCT-TTTTCTAACGTTCTTT
1 AAAAGCTTGTCTTTCAAATACTCTTC---GGTTTCTCAAA-AGCTTCTCTTTT-AAACGCTCTCT
83024940 GATTTTTCA
61 GATTTTTCA
83024949 AA
1 AA
83024951 CGTTTCTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
69 23 0.37
71 4 0.06
72 34 0.55
73 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.10, T:0.47
Consensus pattern (69 bp):
AAAAGCTTGTCTTTCAAATACTCTTCGGTTTCTCAAAAGCTTCTCTTTTAAACGCTCTCTGATTT
TTCA
Found at i:83034815 original size:12 final size:12
Alignment explanation
Indices: 83034798--83034822 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
83034788 TTGTGAAAAT
83034798 AAAATAAAATAA
1 AAAATAAAATAA
83034810 AAAATAAAATAA
1 AAAATAAAATAA
83034822 A
1 A
83034823 GAACACACAA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:83036838 original size:7 final size:7
Alignment explanation
Indices: 83036828--83036852 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
83036818 GTGAAAAGAT
83036828 ATTTATA
1 ATTTATA
83036835 ATTTATA
1 ATTTATA
83036842 ATTTATA
1 ATTTATA
83036849 ATTT
1 ATTT
83036853 TAAATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTATA
Found at i:83037004 original size:19 final size:20
Alignment explanation
Indices: 83036969--83037007 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
83036959 GCAAAAATTA
83036969 AAAATAATTAAGTAATTTTT
1 AAAATAATTAAGTAATTTTT
83036989 AAAA-AATTGAAG-AATTTTT
1 AAAATAATT-AAGTAATTTTT
83037008 TTTAATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (20 bp):
AAAATAATTAAGTAATTTTT
Found at i:83038990 original size:26 final size:26
Alignment explanation
Indices: 83038961--83039120 Score: 293
Period size: 26 Copynumber: 6.2 Consensus size: 26
83038951 TGGTACAAAT
83038961 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
83038987 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83039013 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83039039 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83039065 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
83039091 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83039117 TGAT
1 TGAT
83039121 GGGCATTTCA
Statistics
Matches: 129, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 129 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:83040639 original size:26 final size:26
Alignment explanation
Indices: 83040610--83040659 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
83040600 ACAGTTTTAT
83040610 CCCTAGGAGATAAATT-ACCGAAATAC
1 CCCTAGG-GATAAATTGACCGAAATAC
* *
83040636 CCCTAGGGTTAAATTGACCTAAAT
1 CCCTAGGGATAAATTGACCGAAAT
83040660 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (26 bp):
CCCTAGGGATAAATTGACCGAAATAC
Found at i:83042416 original size:25 final size:24
Alignment explanation
Indices: 83042395--83042442 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
83042385 CACAGCTTGT
* *
83042395 ATGAGCTTCCCGTTATTTAGCTCTC
1 ATGAGCTTCCCATTATTCAGCT-TC
*
83042420 ATGAGCTTTCCATTATTCAGCTT
1 ATGAGCTTCCCATTATTCAGCTT
83042443 AGAGGAGCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 1 0.05
25 19 0.95
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.42
Consensus pattern (24 bp):
ATGAGCTTCCCATTATTCAGCTTC
Found at i:83045279 original size:21 final size:21
Alignment explanation
Indices: 83045235--83045282 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
83045225 TGCAGGGCTC
**
83045235 ACACGCCTGTGTGGTCTAAGG
1 ACACGCCTGTGTGACCTAAGG
83045256 ACACGCCTGTGTGACCGTAA-G
1 ACACGCCTGTGTGACC-TAAGG
83045277 ACACGC
1 ACACGC
83045283 TCATGCTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.23, C:0.29, G:0.29, T:0.19
Consensus pattern (21 bp):
ACACGCCTGTGTGACCTAAGG
Found at i:83048199 original size:26 final size:26
Alignment explanation
Indices: 83048113--83048205 Score: 87
Period size: 26 Copynumber: 3.6 Consensus size: 26
83048103 CTCCGTTATT
* **
83048113 GACCAGTTGGGTTGAGAACATATATG
1 GACCAGTTGGATTGAGAACCGATATG
* * * *
83048139 GATCAATTGGACTGAGAGCCGATATG
1 GACCAGTTGGATTGAGAACCGATATG
***
83048165 GATTGGTTGGATTGAGAACCGATATG
1 GACCAGTTGGATTGAGAACCGATATG
*
83048191 GACCAGTTGAATTGA
1 GACCAGTTGGATTGA
83048206 CTAAAAAATA
Statistics
Matches: 51, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.27
Consensus pattern (26 bp):
GACCAGTTGGATTGAGAACCGATATG
Found at i:83052783 original size:6 final size:6
Alignment explanation
Indices: 83052772--83052812 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
83052762 TCATCACATT
*
83052772 CATCTA CATCTA CATCTA CATCTA CATCTA CAGCTA CATCT
1 CATCTA CATCTA CATCTA CATCTA CATCTA CATCTA CATCT
83052813 GCAGTAATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.32, C:0.34, G:0.02, T:0.32
Consensus pattern (6 bp):
CATCTA
Found at i:83057041 original size:35 final size:35
Alignment explanation
Indices: 83056995--83057064 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
83056985 CTTAGTTTAA
**
83056995 CATAGGACATGAATTTTAGTTTAACTAGACTCATT
1 CATAGGACATGAATTTTAGTCCAACTAGACTCATT
83057030 CATAGGACATGAATTTTAGTCCAACTAGACTCATT
1 CATAGGACATGAATTTTAGTCCAACTAGACTCATT
83057065 AAAGGAGGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (35 bp):
CATAGGACATGAATTTTAGTCCAACTAGACTCATT
Found at i:83065240 original size:19 final size:20
Alignment explanation
Indices: 83065174--83065240 Score: 50
Period size: 19 Copynumber: 3.5 Consensus size: 20
83065164 AGTTTTTTTA
**
83065174 TTGGAAATTTAATTTGGTAT
1 TTGGAAATTTAATTTATTAT
* *
83065194 GT-GAAATTTTATTTATT-T
1 TTGGAAATTTAATTTATTAT
* *
83065212 TCTTGTAATTTAATTT-TTAT
1 T-TGGAAATTTAATTTATTAT
83065232 TTGGAAATT
1 TTGGAAATT
83065241 ATTTTTTCAT
Statistics
Matches: 35, Mismatches: 9, Indels: 7
0.69 0.18 0.14
Matches are distributed among these distances:
18 1 0.03
19 21 0.60
20 13 0.37
ACGTcount: A:0.28, C:0.01, G:0.13, T:0.57
Consensus pattern (20 bp):
TTGGAAATTTAATTTATTAT
Found at i:83065379 original size:14 final size:13
Alignment explanation
Indices: 83065356--83065383 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
83065346 TTTGGTTGGA
83065356 ATTTTTAAAAATG
1 ATTTTTAAAAATG
83065369 ATTTTTAAAAATG
1 ATTTTTAAAAATG
83065382 AT
1 AT
83065384 CCTTGCCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTTTTAAAAATG
Found at i:83066586 original size:22 final size:22
Alignment explanation
Indices: 83066561--83066605 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
83066551 ATCTGTCCAC
*
83066561 AACCATTGGCAGTTAATCTACA
1 AACCATTGGCAGTTAAACTACA
**
83066583 AACCATTGGTGGTTAAACTACA
1 AACCATTGGCAGTTAAACTACA
83066605 A
1 A
83066606 TCTAATATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (22 bp):
AACCATTGGCAGTTAAACTACA
Found at i:83068198 original size:36 final size:36
Alignment explanation
Indices: 83068152--83068221 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
83068142 GAATATTGGA
*
83068152 TGGAGTCGATGGAAAGGATTTTGGAGGATTTAGACT
1 TGGAGTCGATGGAAAGGATTCTGGAGGATTTAGACT
83068188 TGGAGTCGATGGAAAGGATTCTGGAGGATTTAGA
1 TGGAGTCGATGGAAAGGATTCTGGAGGATTTAGA
83068222 ATTACTCTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.29, C:0.06, G:0.37, T:0.29
Consensus pattern (36 bp):
TGGAGTCGATGGAAAGGATTCTGGAGGATTTAGACT
Found at i:83071104 original size:37 final size:37
Alignment explanation
Indices: 83071054--83071128 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
83071044 ATGGAAGATG
*
83071054 CTTCAAAAGATGAAAACTCCTATTTTTAGTAAACTAT
1 CTTCAAAAGATGAAAAATCCTATTTTTAGTAAACTAT
83071091 CTTCAAAAGATGAAAAATCCTATTTTTAGTAAACTAT
1 CTTCAAAAGATGAAAAATCCTATTTTTAGTAAACTAT
83071128 C
1 C
83071129 ATCCCCCTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (37 bp):
CTTCAAAAGATGAAAAATCCTATTTTTAGTAAACTAT
Found at i:83074387 original size:22 final size:22
Alignment explanation
Indices: 83074325--83074387 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 22
83074315 TCAGCTCGAA
*
83074325 AGAGCTTACTGTTCAGCTTAAT
1 AGAGCTTACTGTTCAACTTAAT
*
83074347 AGAGCTTACCGTTTCAACTCGT-AT
1 AGAGCTTACTG-TTCAACT--TAAT
83074371 -GAGCTTACTGTTCAACT
1 AGAGCTTACTGTTCAACT
83074388 GAAAAAAGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
22 17 0.49
23 15 0.43
24 2 0.06
25 1 0.03
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.35
Consensus pattern (22 bp):
AGAGCTTACTGTTCAACTTAAT
Found at i:83074398 original size:45 final size:45
Alignment explanation
Indices: 83074325--83074429 Score: 131
Period size: 45 Copynumber: 2.3 Consensus size: 45
83074315 TCAGCTCGAA
* * * * *
83074325 AGAGCTTACTGTTCAGCTTAATAGAGCTTACCGTTTCAACTCG-T
1 AGAGCTTACTGTTCAACTGAAAAAAGCTTACCATTTCAACTCGTT
*
83074369 ATGAGCTTACTGTTCAACTGAAAAAAGCTTACCATTTCAGCTCGTT
1 A-GAGCTTACTGTTCAACTGAAAAAAGCTTACCATTTCAACTCGTT
*
83074415 AGAGCTAACTGTTCA
1 AGAGCTTACTGTTCA
83074430 TCAGCTCAGG
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 1 0.02
45 49 0.94
46 2 0.04
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (45 bp):
AGAGCTTACTGTTCAACTGAAAAAAGCTTACCATTTCAACTCGTT
Found at i:83075479 original size:12 final size:12
Alignment explanation
Indices: 83075462--83075503 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
83075452 CCGTGTGTGT
83075462 CACACGGGCTCA
1 CACACGGGCTCA
*
83075474 CACAC--GCCCA
1 CACACGGGCTCA
83075484 CACACGGGCTCA
1 CACACGGGCTCA
83075496 CACACGGG
1 CACACGGG
83075504 GCGTGTGTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 9 0.35
12 17 0.65
ACGTcount: A:0.26, C:0.45, G:0.24, T:0.05
Consensus pattern (12 bp):
CACACGGGCTCA
Found at i:83090705 original size:21 final size:22
Alignment explanation
Indices: 83090675--83090717 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
83090665 GCAGATTCCA
*
83090675 TCTACGGTGTT-TTGTTGTGTG
1 TCTACAGTGTTGTTGTTGTGTG
83090696 TCTACAGTGTTGGTTGTTGTGT
1 TCTACAGTGTT-GTTGTTGTGT
83090718 ATTAGCAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
23 9 0.47
ACGTcount: A:0.07, C:0.09, G:0.33, T:0.51
Consensus pattern (22 bp):
TCTACAGTGTTGTTGTTGTGTG
Found at i:83091264 original size:12 final size:12
Alignment explanation
Indices: 83091247--83091280 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
83091237 TGGCCCGCCC
83091247 ATATTAATTTTT
1 ATATTAATTTTT
*
83091259 ATATTATTTTTT
1 ATATTAATTTTT
83091271 ATA-TAATTTT
1 ATATTAATTTT
83091281 AAAAAAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:83091304 original size:18 final size:18
Alignment explanation
Indices: 83091283--83091322 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
83091273 ATAATTTTAA
*
83091283 AAAAATAC-ATAATACATC
1 AAAAATACTA-AAAACATC
83091301 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
83091319 AAAA
1 AAAA
83091323 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 19 0.95
19 1 0.05
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:83091447 original size:30 final size:30
Alignment explanation
Indices: 83091402--83091463 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
83091392 CTTAACAAGT
* * *
83091402 AAATGTCTCTAAAATAATAATAAAATTAAC
1 AAATATCTCTAAAATAATAACAAAAATAAC
*
83091432 AAATATCTTTAAAATAATAACAAAAATAAC
1 AAATATCTCTAAAATAATAACAAAAATAAC
83091462 AA
1 AA
83091464 TAAAAAAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.61, C:0.10, G:0.02, T:0.27
Consensus pattern (30 bp):
AAATATCTCTAAAATAATAACAAAAATAAC
Found at i:83091905 original size:20 final size:19
Alignment explanation
Indices: 83091857--83091908 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
83091847 CATGTGTATG
*
83091857 GTAAAAATAAT-TACATGT
1 GTAAAAATAATATACATAT
83091875 GTAAAAATAATATACATAT
1 GTAAAAATAATATACATAT
*
83091894 GTATATAATAATATA
1 GTA-AAAATAATATA
83091909 TGTAATACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.37
19 9 0.30
20 10 0.33
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.35
Consensus pattern (19 bp):
GTAAAAATAATATACATAT
Found at i:83091954 original size:15 final size:14
Alignment explanation
Indices: 83091929--83091973 Score: 58
Period size: 15 Copynumber: 3.3 Consensus size: 14
83091919 AATACTTAAG
83091929 TATATATATTATAT
1 TATATATATTATAT
83091943 TATATCATATTATAT
1 TATAT-ATATTATAT
*
83091958 TAT-TATAATA-AT
1 TATATATATTATAT
83091970 TATA
1 TATA
83091974 AAAGAATAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 5 0.18
13 5 0.18
14 6 0.21
15 12 0.43
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (14 bp):
TATATATATTATAT
Found at i:83092063 original size:20 final size:20
Alignment explanation
Indices: 83092040--83092081 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
83092030 AGTAAAACTT
83092040 AAGAAAAAGAAAGAAGGA-AA
1 AAGAAAAAGAAA-AAGGAGAA
*
83092060 AAGAGAAAGAAAAAGGAGAA
1 AAGAAAAAGAAAAAGGAGAA
83092080 AA
1 AA
83092082 AGTTAGGGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (20 bp):
AAGAAAAAGAAAAAGGAGAA
Found at i:83092066 original size:22 final size:21
Alignment explanation
Indices: 83092041--83092083 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
83092031 GTAAAACTTA
83092041 AGAAA-AAGAAAGAAGGAAAAAG
1 AGAAAGAA-AAAGAA-GAAAAAG
*
83092063 AGAAAGAAAAAGGAGAAAAAG
1 AGAAAGAAAAAGAAGAAAAAG
83092084 TTAGGGCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 10 0.53
23 2 0.11
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (21 bp):
AGAAAGAAAAAGAAGAAAAAG
Found at i:83092824 original size:17 final size:16
Alignment explanation
Indices: 83092764--83092820 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 16
83092754 TGTGATGAAT
83092764 TTATTGAATTTATATTAA
1 TTATTGAA--TATATTAA
*
83092782 TTGAATTG-ATATATATAC
1 TT--ATTGAATATAT-TAA
83092800 TTATTGAATATATTAA
1 TTATTGAATATATTAA
83092816 TTATT
1 TTATT
83092821 TGAAATGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
16 11 0.33
17 11 0.33
18 6 0.18
19 1 0.03
20 4 0.12
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.53
Consensus pattern (16 bp):
TTATTGAATATATTAA
Found at i:83096990 original size:48 final size:48
Alignment explanation
Indices: 83096914--83097331 Score: 360
Period size: 48 Copynumber: 8.7 Consensus size: 48
83096904 GGTGATAGGT
83096914 GTGCTAGTGTAAGACCATG-CTTGGGACATGGCATCGGCCACATTATGA
1 GTGCTAGTGTAAGACCATGTC-TGGGACATGGCATCGGCCACATTATGA
* * * * *
83096962 GATTC-AGTGTAAGACCATGTATGGGACATGGCATCGGCGTAGA-TATGT
1 G-TGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CACATTATGA
* * *
83097010 GTGCTAATGTAAGACCATGTCTGGGACATGGCATCGG-CA-TTGATATGT
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAT--TATGA
83097058 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGA
* *
83097106 GAG-TCAGTGTAAGACCATGTCTGGGACATGGCATC-G--ACATTGATATGT
1 GTGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACA-T--TATGA
* * * * * *
83097154 GTGTTAGTATAAGACCATGTCTAGGACATGACATCAGCCTCATTATGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGA
* * * *
83097202 -TAGCTAGCGTAAGACTATGTCTGGGACATGGAATC-G--ACATTGAGACGA
1 GT-GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT---ATGA
* * * * *
83097250 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGA-CATGT
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTATGA
* * *
83097298 GAGCCAGTGTAACACCATGTCTGGGACATGGCAT
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCAT
83097332 TGGCAATTTA
Statistics
Matches: 304, Mismatches: 40, Indels: 52
0.77 0.10 0.13
Matches are distributed among these distances:
45 7 0.02
46 2 0.01
47 6 0.02
48 274 0.90
49 9 0.03
50 2 0.01
51 3 0.01
52 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (48 bp):
GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGA
Found at i:83097076 original size:96 final size:96
Alignment explanation
Indices: 83096907--83097336 Score: 444
Period size: 96 Copynumber: 4.5 Consensus size: 96
83096897 CCATTTGGGT
* * * *
83096907 GATAGGTGTGCTAGTGTAAGACCATG-CTTGGGACATGGCATCGGCCA--CATTATGAGATTC-A
1 GATATGTGAGCTAGTGTAAGACCATGTC-TGGGACATGGCATCGG-CATTGA-TATGAG-TGCTA
* * *
83096968 GTGTAAGACCATGTATGGGACATGGCATCGGCGTA
62 GTGTAAGACCATGTCTGGGACATGGCATCAGCCTA
* * *
83097003 GATATGTGTGCTAATGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCTAGTGT
1 GATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGTGCTAGTGT
*
83097068 AAGACCATGTCTGGGACATGGCATCGGCC-A
66 AAGACCATGTCTGGGACATGGCATCAGCCTA
* * * * *
83097098 CATTATGAGAG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGTGTTAGT
1 GA-TATGTGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGTGCTAGT
* * *
83097162 ATAAGACCATGTCTAGGACATGACATCAGCCTCA
64 GTAAGACCATGTCTGGGACATGGCATCAGCCT-A
* * * * * * * *
83097196 -TTATGAT-AGCTAGCGTAAGACTATGTCTGGGACATGGAATCGACATTGAGACGAGAGCTAGTG
1 GATATG-TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGTGCTAGTG
*
83097259 TAAGACCATGTCTGGGACATGGCATCAGCCTC
65 TAAGACCATGTCTGGGACATGGCATCAGCCTA
* * * *
83097291 GACATGTGAGCCAGTGTAACACCATGTCTGGGACATGGCATTGGCA
1 GATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
83097337 ATTTACCCTC
Statistics
Matches: 282, Mismatches: 40, Indels: 24
0.82 0.12 0.07
Matches are distributed among these distances:
95 8 0.03
96 270 0.96
97 3 0.01
98 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (96 bp):
GATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGTGCTAGTGT
AAGACCATGTCTGGGACATGGCATCAGCCTA
Found at i:83097167 original size:144 final size:144
Alignment explanation
Indices: 83096906--83097336 Score: 500
Period size: 144 Copynumber: 3.0 Consensus size: 144
83096896 GCCATTTGGG
* *
83096906 TGATAGGTGTGCTAGTGTAAGACCATG-CTTGGGACATGGCATCGGCCACATTATGAGATTCAGT
1 TGATATGTGTGCTAGTGTAAGACCATGTC-TGGGACATGGCATCGGCCACATTATGAGAGTCAGT
* * * *
83096970 GTAAGACCATGTATGGGACATGGCATCGGCGTAGATATGTGTGCTAATGTAAGACCATGTCTGGG
65 GTAAGACCATGTCTGGGACATGGCATCGACATAGATATGTGTGCTAGTGTAAGACCATGTCTGGG
*
83097035 ACATGGCATCGGCAT
130 ACATGGCATCGGCAC
83097050 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGTCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGTCAGTG
* * * *
83097115 TAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGTGTTAGTATAAGACCATGTCTAGGA
66 TAAGACCATGTCTGGGACATGGCATCGACATAGATATGTGTGCTAGTGTAAGACCATGTCTGGGA
* *
83097180 CATGACATCAGC-C
131 CATGGCATCGGCAC
* * * * * *
83097193 TCATTATGAT-AGCTAGCGTAAGACTATGTCTGGGACATGGAATC-G--ACATTGA-GACGAGAG
1 TGA-TATG-TGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT-ATGA-GAG-T
* * * * * *
83097253 CTAGTGTAAGACCATGTCTGGGACATGGCATC-AGCCTCGACATGTGAGCCAGTGTAACACCATG
61 C-AGTGTAAGACCATGTCTGGGACATGGCATCGA-CATAGATATGTGTGCTAGTGTAAGACCATG
*
83097317 TCTGGGACATGGCATTGGCA
124 TCTGGGACATGGCATCGGCA
83097337 ATTTACCCTC
Statistics
Matches: 247, Mismatches: 31, Indels: 17
0.84 0.11 0.06
Matches are distributed among these distances:
141 7 0.03
142 4 0.02
143 5 0.02
144 229 0.93
145 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (144 bp):
TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGTCAGTG
TAAGACCATGTCTGGGACATGGCATCGACATAGATATGTGTGCTAGTGTAAGACCATGTCTGGGA
CATGGCATCGGCAC
Found at i:83112854 original size:49 final size:49
Alignment explanation
Indices: 83112776--83113004 Score: 255
Period size: 49 Copynumber: 4.7 Consensus size: 49
83112766 CTATTGTGAG
* *
83112776 GTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTA
* * *
83112825 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC-GATAACTTCA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT-A
* * * * * * **
83112875 ATCACGTGTGTAGTACTAATTGCAGGCTACTA-GTATATCAGATGGTTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTA
* *
83112923 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTG
1 -GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTA
** *
83112973 GTTGCATCTGTAGTACTAAGTGCAGGCTACTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTA
83113005 TGCGTACCAG
Statistics
Matches: 149, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
48 6 0.04
49 101 0.68
50 42 0.28
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTA
Found at i:83112948 original size:99 final size:100
Alignment explanation
Indices: 83112777--83113004 Score: 268
Period size: 99 Copynumber: 2.3 Consensus size: 100
83112767 TATTGTGAGG
* * * *
83112777 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTAGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAATTAGTCACATGTGTAGTACT
*
83112842 AAGTGCAGGCTACTATGCGTACC-GATAACTTCAA
66 AAGTGCAGGCTACTACGCGTACCGGATAACTTCAA
* * ** *
83112876 TCACGTGTGTAGTACTAATTGCAGGCTACTA-GTATATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAATTA-GTCACATGTGTAGTAC
* ***
83112940 TAAGTGCAGGCTACTACGTGTACCGGATAA-TTGGT
65 TAAGTGCAGGCTACTACGCGTACCGGATAACTTCAA
*
83112975 TGCA--TCTGTAGTACTAAGTGCAGGCTACTA
1 T-CACGTGTGTAGTACTAAGTGCAGGCTACTA
83113005 TGCGTACCAG
Statistics
Matches: 110, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
98 35 0.32
99 68 0.62
100 7 0.06
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAATTAGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCGGATAACTTCAA
Found at i:83113062 original size:148 final size:147
Alignment explanation
Indices: 83112774--83113063 Score: 401
Period size: 148 Copynumber: 2.0 Consensus size: 147
83112764 ATCTATTGTG
* *
83112774 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTAGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGTCGCATCTGTAGT
* * * *
83112839 ACTAAGTGCAGGCTACTATGCGTACCGATAACTTCAATCACGTGTGTAGTACTAATTGCAGGCTA
66 ACTAAGTGCAGGCTACTATGCGTACCGATAACTTCAATCAAGTGTGTAGAAATAATTGCAGGCAA
83112904 CTAGTATATCAGATGGTT
131 CTAG-ATATCAGATGGTT
* *
83112922 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTTGCATCTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGTCGCATCTGTAGT
*
83112987 ACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTTGGCAA-CAAGTGTG-A-AAAT-ATGTGCA
66 ACTAAGTGCAGGCTACTATGCGTACC-GATAAC-TT--CAATCAAGTGTGTAGAAATAAT-TGCA
83113048 GGCAACT-GAGTATCAG
126 GGCAACTAGA-TATCAG
83113064 TTATTATTCC
Statistics
Matches: 127, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
147 1 0.01
148 96 0.76
149 17 0.13
150 3 0.02
151 7 0.06
152 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (147 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGTCGCATCTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCGATAACTTCAATCAAGTGTGTAGAAATAATTGCAGGCAA
CTAGATATCAGATGGTT
Found at i:83118670 original size:17 final size:16
Alignment explanation
Indices: 83118633--83118672 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
83118623 ATTTTTAATG
83118633 TTAGTTAAAGGTTAGT
1 TTAGTTAAAGGTTAGT
83118649 TTAGTTAAATGGTTA-T
1 TTAGTTAAA-GGTTAGT
83118665 TATAGTTA
1 T-TAGTTA
83118673 TAATAGATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (16 bp):
TTAGTTAAAGGTTAGT
Found at i:83119152 original size:43 final size:43
Alignment explanation
Indices: 83119103--83119267 Score: 190
Period size: 43 Copynumber: 3.9 Consensus size: 43
83119093 TACCAAGATG
83119103 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTATATTA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTATATTA
* * * *
83119146 AGATTACGTGTAAGACCATGTCTAGGACATTGGCATCATATTA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTATATTA
* * * * * *
83119189 TGATTTCGTGTAAGACCCTCTCTGGGACAGTGGCATCGATA-TA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCAT-TATATTA
* * *
83119232 TGATAACATGTAAGACCATATCTGGGA-TTTGGCATT
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATT
83119268 GTATGAGCTT
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
42 6 0.06
43 93 0.91
44 3 0.03
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.32
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATTATATTA
Found at i:83123577 original size:12 final size:12
Alignment explanation
Indices: 83123560--83123589 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
83123550 CCACACTAGC
83123560 GTGTGGTAGCCT
1 GTGTGGTAGCCT
*
83123572 GTGTGGTAGGCT
1 GTGTGGTAGCCT
83123584 GTGTGG
1 GTGTGG
83123590 CAGCACGCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.10, G:0.50, T:0.33
Consensus pattern (12 bp):
GTGTGGTAGCCT
Found at i:83135527 original size:11 final size:11
Alignment explanation
Indices: 83135511--83135535 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
83135501 ATTTAGTAAT
83135511 ATTAAAATAAA
1 ATTAAAATAAA
83135522 ATTAAAATAAA
1 ATTAAAATAAA
83135533 ATT
1 ATT
83135536 TAACTTGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
ATTAAAATAAA
Found at i:83137188 original size:42 final size:42
Alignment explanation
Indices: 83137129--83137215 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
83137119 ACACATATTA
83137129 ATAACTAAGATCACAACTATCATATGTCAACCTTTTGAATTC
1 ATAACTAAGATCACAACTATCATATGTCAACCTTTTGAATTC
83137171 ATAACTAAGATCACAACTATCATATGTCAACCTTTTGAATTC
1 ATAACTAAGATCACAACTATCATATGTCAACCTTTTGAATTC
83137213 ATA
1 ATA
83137216 CATATTAGCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (42 bp):
ATAACTAAGATCACAACTATCATATGTCAACCTTTTGAATTC
Found at i:83138148 original size:7 final size:7
Alignment explanation
Indices: 83138136--83138161 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
83138126 TTTCAATTTC
83138136 ATATTGA
1 ATATTGA
83138143 ATATTGA
1 ATATTGA
83138150 ATATTGA
1 ATATTGA
83138157 ATATT
1 ATATT
83138162 TAAATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (7 bp):
ATATTGA
Found at i:83139722 original size:20 final size:20
Alignment explanation
Indices: 83139697--83139741 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
83139687 ATCCCTTACC
*
83139697 CTATTCTGCTTTCATTTTCT
1 CTATTCTGCTTTAATTTTCT
83139717 CTATTCTGCTTTAATTTTCT
1 CTATTCTGCTTTAATTTTCT
83139737 CTATT
1 CTATT
83139742 TAGTGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.13, C:0.22, G:0.04, T:0.60
Consensus pattern (20 bp):
CTATTCTGCTTTAATTTTCT
Found at i:83140788 original size:21 final size:21
Alignment explanation
Indices: 83140764--83140805 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
83140754 TTTTGACATA
83140764 ACCAAACCATGCAATCATATT
1 ACCAAACCATGCAATCATATT
83140785 ACCAAACCATGCAATCATATT
1 ACCAAACCATGCAATCATATT
83140806 TTCGCAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.29, G:0.05, T:0.24
Consensus pattern (21 bp):
ACCAAACCATGCAATCATATT
Found at i:83161139 original size:15 final size:14
Alignment explanation
Indices: 83161119--83161150 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
83161109 CACACCCCAA
83161119 AAATTGGGTTAGTAG
1 AAATTGGGTTAGT-G
83161134 AAATTGGGTTAGTG
1 AAATTGGGTTAGTG
83161148 AAA
1 AAA
83161151 CCAATAGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (14 bp):
AAATTGGGTTAGTG
Found at i:83162926 original size:24 final size:24
Alignment explanation
Indices: 83162875--83162926 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
83162865 AAGATCTGTG
* * *
83162875 TCTGCATTTGTATTCGCATTTATG
1 TCTGCATTTGTATTCGAATCTATA
83162899 TCTGCATTTGTA-TCTGAATCTATA
1 TCTGCATTTGTATTC-GAATCTATA
83162923 TCTG
1 TCTG
83162927 TATCTGTCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.48
Consensus pattern (24 bp):
TCTGCATTTGTATTCGAATCTATA
Found at i:83164281 original size:18 final size:18
Alignment explanation
Indices: 83164258--83164294 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
83164248 AATTTATATA
83164258 AAAATCCCTA-AAGGATTT
1 AAAATCCC-AGAAGGATTT
83164276 AAAATCCCAGAAGGATTT
1 AAAATCCCAGAAGGATTT
83164294 A
1 A
83164295 GAGTTCCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (18 bp):
AAAATCCCAGAAGGATTT
Found at i:83170325 original size:35 final size:35
Alignment explanation
Indices: 83170279--83170354 Score: 152
Period size: 35 Copynumber: 2.2 Consensus size: 35
83170269 TCAATTCTAG
83170279 TTGATCCAATAGCATTATGCGTTTGGGCTATTGCC
1 TTGATCCAATAGCATTATGCGTTTGGGCTATTGCC
83170314 TTGATCCAATAGCATTATGCGTTTGGGCTATTGCC
1 TTGATCCAATAGCATTATGCGTTTGGGCTATTGCC
83170349 TTGATC
1 TTGATC
83170355 GTTATTGGAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (35 bp):
TTGATCCAATAGCATTATGCGTTTGGGCTATTGCC
Found at i:83173637 original size:24 final size:24
Alignment explanation
Indices: 83173592--83173637 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
83173582 CAGATCCAAT
*
83173592 TACATCAGCCCAAGACCTAAAAAA
1 TACATCAGCCCAAGACCCAAAAAA
*
83173616 TACAT-AGCCCAATGGCCCAAAA
1 TACATCAGCCCAA-GACCCAAAA
83173638 CCTAGACCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.46, C:0.30, G:0.11, T:0.13
Consensus pattern (24 bp):
TACATCAGCCCAAGACCCAAAAAA
Found at i:83175951 original size:127 final size:127
Alignment explanation
Indices: 83175799--83176115 Score: 465
Period size: 127 Copynumber: 2.5 Consensus size: 127
83175789 TGAAAATTCC
** * *
83175799 CTAAAACGAAGGCAATGTTTGATGTTTGGAAATTTGGGGAATCGTGTCCTATCGTGCTGGGTTTC
1 CTAAAAC-AAGGCAATGTTCAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTC
* * *
83175864 GATTTCTCG-TTTGTTCAAAATAATTGAATATTTCTTTAGAATTTCACTTGTGTTTTCCAAATT
65 GATTTC-CGATTTGTTCAAAATAATTGAATATTCCTTTAGAATTTCACTCGTGTTTTACAAATT
* * *
83175927 TTAAAACAAGGCAATGTTCAATGTTTGGAAATTCGGGAAATCGTGCCCTATCGTGTTGGGTTTCG
1 CTAAAACAAGGCAATGTTCAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCG
*
83175992 ATTTCCGATTTGTTCAAAATAATTGAATATTCCTTTAGAATTTCACTCGTGTTTTATAAATT
66 ATTTCCGATTTGTTCAAAATAATTGAATATTCCTTTAGAATTTCACTCGTGTTTTACAAATT
* * * * *
83176054 CTAAAGCAACGCAATGTTCAATGTTTGGAAATTCGAGGCATTGTGCCCTATCGTGCTGGGTT
1 CTAAAACAAGGCAATGTTCAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTT
83176116 ACGGTTTTTC
Statistics
Matches: 169, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
126 2 0.01
127 161 0.95
128 6 0.04
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (127 bp):
CTAAAACAAGGCAATGTTCAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCG
ATTTCCGATTTGTTCAAAATAATTGAATATTCCTTTAGAATTTCACTCGTGTTTTACAAATT
Found at i:83186759 original size:133 final size:132
Alignment explanation
Indices: 83186600--83187030 Score: 348
Period size: 133 Copynumber: 3.2 Consensus size: 132
83186590 AGTCACCAGT
* * * * ** *
83186600 CTTATCTATCTGAGGTAGCAAG-AGAGCAGGTTGAAGAATTG-AGTCTTATCTTTCTGAGGTAGC
1 CTTATCTCTCTGAAGTTGC-AGTAGAGCAGGTTG-A-AATAGAAGTCTTATCTCCCTGAAGTAG-
* * * *
83186663 AAG-AAAAAAAACTAAAGATTGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGTC
62 AAGTAAAAAAAACTAAAGATAGAAGATCTTATCTCCCTAAAGTTGCAGTGGAACAGATCGAAGCC
83186727 ACAAAC
127 ACAAAC
* * * *
83186733 CTTATCTCTCTGAAGTTGTAGTAGAGCGGGTTGAAATAGCAAGTCTTATCTCCCTGAAGTTGTAG
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATAG-AAGTCTTATCTCCCTGAAGTAGAAG
** ** * * * *
83186798 TGGAGCAGACTGAAGATAGAAGATCTTATCTCCCTAAAGTTGTAGTGGAACAGATCGAAGCCCCA
65 TAAAAAAAACTAAAGATAGAAGATCTTATCTCCCTAAAGTTGCAGTGGAACAGATCGAAGCCACA
*
83186863 ATC
130 AAC
* * * * * *
83186866 CTTATCTCTCTGAAGTTGCAGTAGAGCAAGATAAAATTACCCAAGTCTTATCTCCCTGAAGTTGT
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAA-TA--GAAGTCTTATCTCCCTGAAGTAGA
** ** * * * ** * * *
83186931 AGTGGAGCAGACTAAAGTTAGCAGATCTTATCTCTTTGAAGTTGCAGTGGAGA-AGATCAAAGTC
63 AGTAAAAAAAACTAAAGATAGAAGATCTTATCTCCCTAAAGTTGCAGTGGA-ACAGATCGAAGCC
*
83186995 ACAATC
127 ACAAAC
* *
83187001 CTTATCTCTCTGAAGTTGCTGTAAAGCAGG
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGG
83187031 ATAAAAAAAT
Statistics
Matches: 247, Mismatches: 43, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
131 4 0.02
132 5 0.02
133 127 0.51
134 2 0.01
135 108 0.44
136 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (132 bp):
CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATAGAAGTCTTATCTCCCTGAAGTAGAAGT
AAAAAAAACTAAAGATAGAAGATCTTATCTCCCTAAAGTTGCAGTGGAACAGATCGAAGCCACAA
AC
Found at i:83186781 original size:44 final size:44
Alignment explanation
Indices: 83186688--83186941 Score: 219
Period size: 44 Copynumber: 5.7 Consensus size: 44
83186678 AGATTGAAGA
* * * *
83186688 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGT-CACAAA
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAATAC-CAAG
* * * * * *
83186732 CCTTATCTCTCTGAAGTTGTAGTAGAGCGGGTTGAAATAGCAAG
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAATACCAAG
* *
83186776 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATA-GAAG
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAA-ATACCAAG
* * * ***
83186820 ATCTTATCTCCCTAAAGTTGTAGTGGAACAGATCGAAGCCCCAA-
1 -TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAATACCAAG
* * * *
83186864 TCCTTATCTCTCTGAAGTTGCAGTAGAGCAAGA-TAAAATTACCCAAG
1 T-CTTATCTCCCTGAAGTTGTAGTGGAGC-AGATTGAAA-TA-CCAAG
83186911 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGA
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGA
83186942 CTAAAGTTAG
Statistics
Matches: 163, Mismatches: 38, Indels: 17
0.75 0.17 0.08
Matches are distributed among these distances:
43 1 0.01
44 90 0.55
45 43 0.26
46 28 0.17
47 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAATACCAAG
Found at i:83186973 original size:135 final size:133
Alignment explanation
Indices: 83186673--83187036 Score: 505
Period size: 135 Copynumber: 2.7 Consensus size: 133
83186663 AAGAAAAAAA
* * *
83186673 ACTAAAGATTGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGTCACAAACCTTAT
1 ACTAAAGATAGAAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAGTCACAATCCTTAT
* * * * *
83186738 CTCTCTGAAGTTGTAGTAGAGCGGGTTGAAATAGCAAGTCTTATCTCCCTGAAGTTGTAGTGGAG
66 CTCTCTGAAGTTGCAGTAGAGCAGGATAAAATACCAAGTCTTATCTCCCTGAAGTTGTAGTGGAG
83186803 CAG
131 CAG
* * * * *
83186806 ACTGAAGATAGAAGATCTTATCTCCCTAAAGTTGTAGTGGAACAGATCGAAGCCCCAATCCTTAT
1 ACTAAAGATAGAAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAGTCACAATCCTTAT
*
83186871 CTCTCTGAAGTTGCAGTAGAGCAAGATAAAATTACCCAAGTCTTATCTCCCTGAAGTTGTAGTGG
66 CTCTCTGAAGTTGCAGTAGAGCAGGATAAAA-TA-CCAAGTCTTATCTCCCTGAAGTTGTAGTGG
83186936 AGCAG
129 AGCAG
* * ** *
83186941 ACTAAAGTTAGCAGATCTTATCTCTTTGAAGTTGCAGTGGAGA-AGATCAAAGTCACAATCCTTA
1 ACTAAAGATAGAAGATCTTATCTCCCTGAAGTTGCAGTGGA-ACAGATCGAAGTCACAATCCTTA
* *
83187005 TCTCTCTGAAGTTGCTGTAAAGCAGGATAAAA
65 TCTCTCTGAAGTTGCAGTAGAGCAGGATAAAA
83187037 AAATACACGA
Statistics
Matches: 201, Mismatches: 27, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
133 83 0.41
134 2 0.01
135 115 0.57
136 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (133 bp):
ACTAAAGATAGAAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAGTCACAATCCTTAT
CTCTCTGAAGTTGCAGTAGAGCAGGATAAAATACCAAGTCTTATCTCCCTGAAGTTGTAGTGGAG
CAG
Found at i:83187019 original size:44 final size:43
Alignment explanation
Indices: 83186687--83187019 Score: 201
Period size: 44 Copynumber: 7.5 Consensus size: 43
83186677 AAGATTGAAG
* *
83186687 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGTCACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATCAAAGTCAC-A
* * * * ** * *
83186731 ACCTTATCTCTCTGAAGTTGTAGTAGAGCGGGTTGAAA-T-AGCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAG-AAGATCAAAGTCA-CA
* * * *
83186774 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-CTGAAGAT-AGAA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGAAGATC-AAAG-TCA-CA
* * * * *
83186819 GATCTTATCTCCCTAAAGTTGTAGTGGA-ACAGATCGAAGCCCCA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGA-AGATCAAAGTCACA
* * * * *
83186863 ATCCTTATCTCTCTGAAGTTGCAGTAGAGCAAGATAAAATTACCCA
1 AT-CTTATCTCCCTGAAGTTGCAGTGGAG-AAGATCAAAGT-CACA
* * *
83186909 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-CTAAAGTTAGCA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGAAGATC-AAAGTCA-CA
**
83186954 GATCTTATCTCTTTGAAGTTGCAGTGGAGAAGATCAAAGTCACA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATCAAAGTCACA
*
83186998 ATCCTTATCTCTCTGAAGTTGC
1 AT-CTTATCTCCCTGAAGTTGC
83187020 TGTAAAGCAG
Statistics
Matches: 224, Mismatches: 45, Indels: 40
0.72 0.15 0.13
Matches are distributed among these distances:
43 10 0.04
44 92 0.41
45 88 0.39
46 33 0.15
47 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATCAAAGTCACA
Found at i:83190443 original size:23 final size:23
Alignment explanation
Indices: 83190393--83190487 Score: 79
Period size: 23 Copynumber: 4.1 Consensus size: 23
83190383 TTAATGAGTA
* *
83190393 TATG-CAAACCCTATAGGAAATAT
1 TATGCCAAA-CCTATAGGAACTGT
*
83190416 CATGCCAAACCTATAGGAA-TCGT
1 TATGCCAAACCTATAGGAACT-GT
*
83190439 TATG-CAAACCTTATAGTAACTGT
1 TATGCCAAACC-TATAGGAACTGT
* * *
83190462 TATGCGAACCCTAGAGGAACTGT
1 TATGCCAAACCTATAGGAACTGT
83190485 TAT
1 TAT
83190488 TGTGTAAACC
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
22 7 0.12
23 43 0.73
24 9 0.15
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (23 bp):
TATGCCAAACCTATAGGAACTGT
Found at i:83190811 original size:23 final size:23
Alignment explanation
Indices: 83190785--83190849 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
83190775 GTATAAGAAC
*
83190785 TGTTATGCGAATCCC-ATAGTAAA
1 TGTTATGCGAA-CCCTATAGAAAA
83190808 TGTTATGCGAACCCTATAGAAAA
1 TGTTATGCGAACCCTATAGAAAA
* * * *
83190831 TATCATGTGAAGCCTATAG
1 TGTTATGCGAACCCTATAG
83190850 GAACTATTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
22 3 0.08
23 33 0.92
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.29
Consensus pattern (23 bp):
TGTTATGCGAACCCTATAGAAAA
Found at i:83191281 original size:21 final size:21
Alignment explanation
Indices: 83191257--83191309 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
83191247 ATGCCTTCTG
83191257 TGTTGCAACACGGCCCTTTGA
1 TGTTGCAACACGGCCCTTTGA
83191278 TGTTGCAACACGGCCCTTTGA
1 TGTTGCAACACGGCCCTTTGA
83191299 TGTTGCAACAC
1 TGTTGCAACAC
83191310 TGCGCCTGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (21 bp):
TGTTGCAACACGGCCCTTTGA
Found at i:83196026 original size:43 final size:42
Alignment explanation
Indices: 83195956--83196063 Score: 103
Period size: 43 Copynumber: 2.5 Consensus size: 42
83195946 CCACCCCTCA
* *
83195956 TACAAACCTCTATAG-GCGAACCCTACTT-ATGCAAAGCCTATATG
1 TACAAACC-CTAT-GTGTGAACCCTACTTGA-GCAAACCCT-TATG
*
83196000 TACAAACCCTATGTGTGAACCTTACTTGAGCAAACCCTTATG
1 TACAAACCCTATGTGTGAACCCTACTTGAGCAAACCCTTATG
* * *
83196042 TGCGAACCCCTAGGTGTGAACC
1 TAC-AAACCCTATGTGTGAACC
83196064 ACATGTGTGA
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
42 7 0.13
43 39 0.71
44 9 0.16
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (42 bp):
TACAAACCCTATGTGTGAACCCTACTTGAGCAAACCCTTATG
Found at i:83199072 original size:15 final size:15
Alignment explanation
Indices: 83199028--83199080 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
83199018 TATAATTTAT
83199028 AATTAAATTTAAATAA
1 AATTAAA-TTAAATAA
* ** * *
83199044 AAATATTTTGAATAT
1 AATTAAATTAAATAA
83199059 AATTAAATTAAATAA
1 AATTAAATTAAATAA
83199074 AATTAAA
1 AATTAAA
83199081 AAAGTACTTT
Statistics
Matches: 27, Mismatches: 10, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
15 23 0.85
16 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
AATTAAATTAAATAA
Found at i:83199081 original size:36 final size:36
Alignment explanation
Indices: 83199009--83199082 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
83198999 ATTTTTCCCT
*
83199009 AATATTTAATATAATTTATAATTAAATTTAAATAAA
1 AATATTTAATATAATTTATAATTAAATTAAAATAAA
83199045 AATATTTTGAATATAA-TTA-AATTAAA-TAAAATTAAA
1 AATA-TTT-AATATAATTTATAATTAAATTAAAA-TAAA
83199081 AA
1 AA
83199083 AGTACTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
35 4 0.12
36 17 0.50
37 6 0.18
38 7 0.21
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (36 bp):
AATATTTAATATAATTTATAATTAAATTAAAATAAA
Found at i:83199283 original size:27 final size:26
Alignment explanation
Indices: 83199253--83199332 Score: 70
Period size: 27 Copynumber: 3.0 Consensus size: 26
83199243 AAAATTCTTG
* **
83199253 AATTTTAAATTTTTTTTATTTTTCATA
1 AATTTTAAATTTTTTTAAAATTT-ATA
**
83199280 AATTTTGGATTTTTTATAAAATTTATA
1 AATTTTAAATTTTTT-TAAAATTTATA
* *
83199307 TATTTTAAATTTTTTTACGAATTTAT
1 AATTTTAAATTTTTTTA-AAATTTAT
83199333 TGAAAATATG
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
26 2 0.05
27 35 0.83
28 5 0.12
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.61
Consensus pattern (26 bp):
AATTTTAAATTTTTTTAAAATTTATA
Found at i:83199921 original size:20 final size:20
Alignment explanation
Indices: 83199886--83199923 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
83199876 TGCATAATGT
*
83199886 AATAAACATATTTAAAAAAA
1 AATAAACATATATAAAAAAA
*
83199906 AATAAACATCTATAAAAA
1 AATAAACATATATAAAAA
83199924 TTTAATTTAA
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:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (20 bp):
AATAAACATATATAAAAAAA
Found at i:83200024 original size:20 final size:19
Alignment explanation
Indices: 83199993--83200043 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
83199983 CTTGTGTTGC
83199993 ATTTGAAGACATTTATGATGT
1 ATTTG-AGACATTTAT-ATGT
* *
83200014 ATTTGAGACATTTGTTTGT
1 ATTTGAGACATTTATATGT
83200033 ATTTG-GACATT
1 ATTTGAGACATT
83200044 ATGTAAGGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 6 0.21
19 8 0.29
20 9 0.32
21 5 0.18
ACGTcount: A:0.27, C:0.06, G:0.20, T:0.47
Consensus pattern (19 bp):
ATTTGAGACATTTATATGT
Found at i:83206040 original size:51 final size:54
Alignment explanation
Indices: 83205972--83206084 Score: 137
Period size: 51 Copynumber: 2.1 Consensus size: 54
83205962 GTGTCGACTG
* *
83205972 CTATTACTATTTCGGATTCGTTTCGAA-GAGGTAC-TT-TGTACC-TTACTGTTA
1 CTATTACTATTTCGGATTCG-TTCCAATGAGGTACTTTGTGTACCGCTACTGTTA
* *
83206023 CTGTTACTA-TTCTGGATTTGTTCCAATGAGGTACTTTGTGTACCGCTACTGTTA
1 CTATTACTATTTC-GGATTCGTTCCAATGAGGTACTTTGTGTACCGCTACTGTTA
83206077 CTATTACT
1 CTATTACT
83206085 GTTACTGTTC
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
50 8 0.15
51 21 0.40
52 2 0.04
53 6 0.12
54 15 0.29
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.43
Consensus pattern (54 bp):
CTATTACTATTTCGGATTCGTTCCAATGAGGTACTTTGTGTACCGCTACTGTTA
Found at i:83212391 original size:3 final size:3
Alignment explanation
Indices: 83212383--83212420 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
83212373 ATGAATGGTA
83212383 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
83212421 GGTATTGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:83212792 original size:6 final size:6
Alignment explanation
Indices: 83212778--83212824 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
83212768 TGTGTACCGC
* * *
83212778 TACTGT TACTAT TACTGT TACTAT TACTGT TACTGT TACCGT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTG
83212825 ACACAGTGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (6 bp):
TACTGT
Found at i:83212824 original size:12 final size:12
Alignment explanation
Indices: 83212778--83212823 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
83212768 TGTGTACCGC
83212778 TACTGTTACTAT
1 TACTGTTACTAT
83212790 TACTGTTACTAT
1 TACTGTTACTAT
*
83212802 TACTGTTACTGT
1 TACTGTTACTAT
*
83212814 TACCGTTACT
1 TACTGTTACT
83212824 GACACAGTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.48
Consensus pattern (12 bp):
TACTGTTACTAT
Found at i:83212969 original size:18 final size:18
Alignment explanation
Indices: 83212946--83213012 Score: 80
Period size: 18 Copynumber: 3.7 Consensus size: 18
83212936 TATTAAAAAC
* *
83212946 TGACTGCTACTGAATAAT
1 TGACTGTTACTGAATAAA
*
83212964 TGACTGTTACTGACTAAA
1 TGACTGTTACTGAATAAA
* *
83212982 CGACTGATACTGAATAAA
1 TGACTGTTACTGAATAAA
*
83213000 TGATTGTTACTGA
1 TGACTGTTACTGA
83213013 TTAACCGATT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (18 bp):
TGACTGTTACTGAATAAA
Found at i:83212994 original size:36 final size:37
Alignment explanation
Indices: 83212942--83213012 Score: 108
Period size: 36 Copynumber: 1.9 Consensus size: 37
83212932 AAAGTATTAA
* *
83212942 AAACTGACTGCTACTGAATAATTGACTGTTACTGACT
1 AAACTGACTGATACTGAATAAATGACTGTTACTGACT
*
83212979 AAAC-GACTGATACTGAATAAATGATTGTTACTGA
1 AAACTGACTGATACTGAATAAATGACTGTTACTGA
83213013 TTAACCGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 27 0.87
37 4 0.13
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (37 bp):
AAACTGACTGATACTGAATAAATGACTGTTACTGACT
Found at i:83213022 original size:18 final size:18
Alignment explanation
Indices: 83212953--83213029 Score: 64
Period size: 18 Copynumber: 4.3 Consensus size: 18
83212943 AACTGACTGC
** *
83212953 TACTGAATAATTGACTGT
1 TACTGAATAAACGATTGT
* * *
83212971 TACTGACTAAACGACTGA
1 TACTGAATAAACGATTGT
*
83212989 TACTGAATAAATGATTGT
1 TACTGAATAAACGATTGT
* * *
83213007 TACTGATTAACCGATTAT
1 TACTGAATAAACGATTGT
83213025 TACTG
1 TACTG
83213030 TTGACTGACT
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (18 bp):
TACTGAATAAACGATTGT
Found at i:83214889 original size:18 final size:18
Alignment explanation
Indices: 83214866--83214901 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
83214856 AAAAATGACT
*
83214866 TATGTACATAAATTTATA
1 TATGTACAAAAATTTATA
*
83214884 TATGTAGAAAAATTTATA
1 TATGTACAAAAATTTATA
83214902 AAATAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (18 bp):
TATGTACAAAAATTTATA
Found at i:83223522 original size:13 final size:14
Alignment explanation
Indices: 83223482--83223522 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
83223472 TAAAGTGATA
*
83223482 ATTTTTTA-TTAAT
1 ATTTTTTATTTTAT
83223495 ATTTTTTATTGTTAT
1 ATTTTTTATT-TTAT
83223510 A-TTTTTATTTTAT
1 ATTTTTTATTTTAT
83223523 TTATATAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 12 0.48
14 9 0.36
15 4 0.16
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (14 bp):
ATTTTTTATTTTAT
Found at i:83225239 original size:17 final size:16
Alignment explanation
Indices: 83225169--83225304 Score: 67
Period size: 16 Copynumber: 8.7 Consensus size: 16
83225159 GTTAATAATA
83225169 AAAATAATATAATAATAT
1 AAAATAATAT-ATAA-AT
* * * *
83225187 ATAATAATTTACATAT
1 AAAATAATATATAAAT
83225203 ATAAAT-ATAGTA-AAAT
1 A-AAATAATA-TATAAAT
83225219 -AAATAATATATAAAGT
1 AAAATAATATATAAA-T
*
83225235 AAAAT-GTATATATAAT
1 AAAATAATATATA-AAT
83225251 AAAA-AAT-TAT-AA-
1 AAAATAATATATAAAT
* *
83225263 GAAA-CATATAT-AAT
1 AAAATAATATATAAAT
*
83225277 AATATAATATATAAAT
1 AAAATAATATATAAAT
83225293 AAAACTAATATA
1 AAAA-TAATATA
83225305 CATTATTTTT
Statistics
Matches: 90, Mismatches: 15, Indels: 27
0.68 0.11 0.20
Matches are distributed among these distances:
12 5 0.06
13 7 0.08
14 8 0.09
15 15 0.17
16 27 0.30
17 20 0.22
18 8 0.09
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (16 bp):
AAAATAATATATAAAT
Found at i:83225252 original size:21 final size:21
Alignment explanation
Indices: 83225199--83225253 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
83225189 AATAATTTAC
*
83225199 ATATATAAATATAGTAAAATAA
1 ATATAT-AATAAAGTAAAATAA
**
83225221 ATA-ATATATAAAGTAAAATGT
1 ATATATA-ATAAAGTAAAATAA
83225242 ATATATAATAAA
1 ATATATAATAAA
83225254 AAATTATAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 1 0.04
21 21 0.75
22 6 0.21
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
ATATATAATAAAGTAAAATAA
Found at i:83225884 original size:13 final size:14
Alignment explanation
Indices: 83225866--83225930 Score: 55
Period size: 13 Copynumber: 4.9 Consensus size: 14
83225856 AAAGGGAAGC
83225866 CCTCCGGCC-CCGA
1 CCTCCGGCCTCCGA
* *
83225879 CCTCCGACCTCCGG
1 CCTCCGGCCTCCGA
* * *
83225893 CC-CAGACCTCCGG
1 CCTCCGGCCTCCGA
*
83225906 CCTCCGGCC-CAGA
1 CCTCCGGCCTCCGA
83225919 CCTCCGGCCTCC
1 CCTCCGGCCTCC
83225931 AGCCACTGCA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
13 31 0.76
14 10 0.24
ACGTcount: A:0.09, C:0.58, G:0.22, T:0.11
Consensus pattern (14 bp):
CCTCCGGCCTCCGA
Found at i:83225891 original size:20 final size:20
Alignment explanation
Indices: 83225866--83225930 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
83225856 AAAGGGAAGC
* *
83225866 CCTCCGGCCCCGACCTCCGA
1 CCTCCGGCCCAGACCTCCGG
83225886 CCTCCGGCCCAGACCTCCGG
1 CCTCCGGCCCAGACCTCCGG
83225906 CCTCCGGCCCAGACCTCCGG
1 CCTCCGGCCCAGACCTCCGG
83225926 CCTCC
1 CCTCC
83225931 AGCCACTGCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.09, C:0.58, G:0.22, T:0.11
Consensus pattern (20 bp):
CCTCCGGCCCAGACCTCCGG
Found at i:83226816 original size:111 final size:114
Alignment explanation
Indices: 83226673--83226881 Score: 345
Period size: 117 Copynumber: 1.8 Consensus size: 114
83226663 AACTGGGTTT
83226673 TGTAAATGGACTTTATTATTTAATAAG-TTTTTTTTGTTTT-GTTTTTTTAC-TTATTTATTTAT
1 TGTAAATGGACTTTATTATTTAATAAGTTTTTTTTTGTTTTAGTTTTTTTACTTTATTTATTTAT
83226735 TTATGGGCC-GACAAATTTGGGCTATTACAGTGAGGTTTTGTAAATAGAC
66 TTATGGGCCGGA-AAATTTGGGCTATTACAGTGAGGTTTTGTAAATAGAC
*
83226784 TGTAAATGGACTTTATTATTTAATAAGTTTTTTTTTGTTTTATTTTTTTTACTTATTTATTTATT
1 TGTAAATGGACTTTATTATTTAATAAGTTTTTTTTTGTTTTAGTTTTTTTAC---TTTATTTATT
83226849 TATTTATGGGCCGGAAAATTTGGGCTATTACAG
63 TATTTATGGGCCGGAAAATTTGGGCTATTACAG
83226882 CTGCCCCTCT
Statistics
Matches: 90, Mismatches: 1, Indels: 8
0.91 0.01 0.08
Matches are distributed among these distances:
111 27 0.30
112 13 0.14
113 9 0.10
117 39 0.43
118 2 0.02
ACGTcount: A:0.25, C:0.07, G:0.16, T:0.53
Consensus pattern (114 bp):
TGTAAATGGACTTTATTATTTAATAAGTTTTTTTTTGTTTTAGTTTTTTTACTTTATTTATTTAT
TTATGGGCCGGAAAATTTGGGCTATTACAGTGAGGTTTTGTAAATAGAC
Found at i:83227280 original size:44 final size:44
Alignment explanation
Indices: 83227170--83227886 Score: 958
Period size: 44 Copynumber: 16.3 Consensus size: 44
83227160 ATACAAATGT
* *
83227170 CAAATCTGCTATCTTCGATCTGCTC-CTCATCTAACACAGAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCT-GTC-AATACAGAGACGC
* * * * * *
83227215 AAAATCTGTTATTTTCAATCTGCTCTTTATCAATACTA-AGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGTCAATAC-AGAGACGC
83227259 CAAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGC
83227303 CAAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGC
* * * *
83227347 CAAATCTACTATCTTCGATATGCTCCCCGTCAATACAGAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGC
* * *
83227391 CAAATCTGTTATCTTCGATATGCTCTCCGTCAATACAGAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGC
*
83227435 CAAATCTGCTATCTTTGATCTGCTCTCTGAT-AATACAGAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTG-TCAATACAGAGACGC
* *
83227479 CAAATCTGTTATCTTCGATCTGCTCTCCGTCAATACAGAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGC
* *
83227523 CAAATCTGCTATCTTCAATCTGCTCTCCGTCAATACAGAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGC
* * *
83227567 CAAATCTGCTATCTTTGATCTGCTCTCTGTCAACACAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGC
* * * * *
83227611 CAAATTTGTTATCTTCGATTTGCTCTCTGACAATACAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGC
*
83227655 CAAATCT-ATCATCTTCGATCTGCTCTCTGTCAATACAGAGACGC
1 CAAATCTGCT-ATCTTCGATCTGCTCTCTGTCAATACAGAGACGC
* * *
83227699 CAAATCTGCTATCTTTGATCTGCTCTCTGTCAACACAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGC
* * * * *
83227743 CAAATTTGTTATCTTCGATTTGCTCTCTGACAATACAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGC
*
83227787 CAAATCT-ATCATCTTCGATCTGCTCTCTGTCAATACAGAGACGC
1 CAAATCTGCT-ATCTTCGATCTGCTCTCTGTCAATACAGAGACGC
* * * *
83227831 CAAATCTGCTATCTTCGATTTGCTCTCTGACAATATAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGC
*
83227875 CAAATCAGCTAT
1 CAAATCTGCTAT
83227887 TGGTGATCTA
Statistics
Matches: 598, Mismatches: 65, Indels: 19
0.88 0.10 0.03
Matches are distributed among these distances:
43 4 0.01
44 565 0.94
45 28 0.05
46 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (44 bp):
CAAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGC
Found at i:83239983 original size:21 final size:21
Alignment explanation
Indices: 83239930--83239984 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
83239920 AATAATTTAC
*
83239930 ATATATAAATATAGTAAAATAA
1 ATATAT-AATAAAGTAAAATAA
**
83239952 ATA-ATATATAAAGTAAAATGT
1 ATATATA-ATAAAGTAAAATAA
83239973 ATATATAATAAA
1 ATATATAATAAA
83239985 AATTTGTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 1 0.04
21 21 0.75
22 6 0.21
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
ATATATAATAAAGTAAAATAA
Found at i:83253911 original size:19 final size:20
Alignment explanation
Indices: 83253887--83253924 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
83253877 ATTGTTTGGA
83253887 TATTGTATAA-AA-CTTATTT
1 TATTGT-TAATAATCTTATTT
83253906 TATTGTTAATAATCTTATT
1 TATTGTTAATAATCTTATT
83253925 ATTTTAAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.18
19 8 0.47
20 6 0.35
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (20 bp):
TATTGTTAATAATCTTATTT
Found at i:83253944 original size:30 final size:30
Alignment explanation
Indices: 83253908--83253970 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
83253898 ACTTATTTTA
83253908 TTGTTAATAATCTTATTATTTTAAAGGCAT
1 TTGTTAATAATCTTATTATTTTAAAGGCAT
** * * *
83253938 TTGTTAATTTTTTTATTATTTTAGAGGTAT
1 TTGTTAATAATCTTATTATTTTAAAGGCAT
83253968 TTG
1 TTG
83253971 CTTGTTAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATAATCTTATTATTTTAAAGGCAT
Found at i:83257234 original size:22 final size:23
Alignment explanation
Indices: 83257184--83257240 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 23
83257174 CCTTCAAAAA
* *
83257184 TCTATCAAATTTC-ATTGAAATT
1 TCTATCAAAATTCTATTCAAATT
*
83257206 T-TCTCAAAATTCTA-TCAAATT
1 TCTATCAAAATTCTATTCAAATT
83257227 TCTATCAAAATTCT
1 TCTATCAAAATTCT
83257241 TTGTTTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 16 0.55
22 13 0.45
ACGTcount: A:0.37, C:0.18, G:0.02, T:0.44
Consensus pattern (23 bp):
TCTATCAAAATTCTATTCAAATT
Found at i:83257240 original size:11 final size:11
Alignment explanation
Indices: 83257177--83257240 Score: 58
Period size: 11 Copynumber: 5.9 Consensus size: 11
83257167 AATATTCCCT
*
83257177 TCAAAAATCTA
1 TCAAAATTCTA
*
83257188 TCAAATTTC-A
1 TCAAAATTCTA
** * *
83257198 TTGAAATTTTC
1 TCAAAATTCTA
83257209 TCAAAATTCTA
1 TCAAAATTCTA
*
83257220 TCAAATTTCTA
1 TCAAAATTCTA
83257231 TCAAAATTCT
1 TCAAAATTCT
83257241 TTGTTTAATT
Statistics
Matches: 39, Mismatches: 13, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
10 6 0.15
11 33 0.85
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.41
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:83257269 original size:14 final size:15
Alignment explanation
Indices: 83257244--83257275 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
83257234 AAATTCTTTG
83257244 TTTAATTTTTTTTAA
1 TTTAATTTTTTTTAA
*
83257259 TTTAATTTTTTTAAA
1 TTTAATTTTTTTTAA
83257274 TT
1 TT
83257276 AAAAAAATCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTAATTTTTTTTAA
Found at i:83257277 original size:14 final size:15
Alignment explanation
Indices: 83257245--83257277 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
83257235 AATTCTTTGT
*
83257245 TTAATTTTTTTTAAT
1 TTAATTTTTTTTAAA
83257260 TTAA-TTTTTTTAAA
1 TTAATTTTTTTTAAA
83257274 TTAA
1 TTAA
83257278 AAAAATCCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTAATTTTTTTTAAA
Found at i:83264277 original size:126 final size:126
Alignment explanation
Indices: 83264052--83264558 Score: 784
Period size: 126 Copynumber: 4.0 Consensus size: 126
83264042 TTATAGCCTC
*
83264052 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCATAAATTTTGCTG
1 ATTTTTCCACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCATAAATTTTGCTG
* * * *
83264117 ACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* *
83264178 ATTTTTCCACGAACTACTGTAGCAAAAGAGCGTCCACGTAGGAGCTTTTTCCAGAAATTTTGCTG
1 ATTTTTCCACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCATAAATTTTGCTG
*
83264243 ACAGTGTATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* * **
83264304 ATTTTTCCACGAACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTTTTCCATAAATTTTTCCA
1 ATTTTTCCACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCATAAATTTTGCTG
** * *
83264369 ACAGTGCATCCTGCTTGAAGTGTTTTAGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* * *
83264430 A-TTTTCCACGAACTACTGTAGCGAAAGAGCGTCCACGTGGGAGTTTTTTCCAAAAATTTTGCTG
1 ATTTTTCCACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCATAAATTTTGCTG
* * *
83264494 ACTGTGCATCCTGCTTGAAACATTTTCCGACACTATTT-TTCCAGAAACGTCTGCTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCATTTT-CGACACTATTTGTT-CAGAAACGTCTACTCAGAATT
83264556 ATT
1 ATT
83264559 CTTGCAGAAA
Statistics
Matches: 345, Mismatches: 33, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
125 80 0.23
126 264 0.77
127 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (126 bp):
ATTTTTCCACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCATAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
Found at i:83266999 original size:24 final size:24
Alignment explanation
Indices: 83266972--83267017 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
83266962 CTAGCTAATC
83266972 GGTCACATAAAGAATTTAGCAACT
1 GGTCACATAAAGAATTTAGCAACT
*
83266996 GGTCATATAAAGAATTTAGCAA
1 GGTCACATAAAGAATTTAGCAA
83267018 AAAAAATACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.26
Consensus pattern (24 bp):
GGTCACATAAAGAATTTAGCAACT
Found at i:83274364 original size:24 final size:25
Alignment explanation
Indices: 83274336--83274382 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
83274326 AATAGTTGGA
83274336 CAAAA-ATAGTCAA-AAAAATATAGT
1 CAAAAGAT-GTCAATAAAAATATAGT
*
83274360 CAAAAGATGTCAATTAAAATATA
1 CAAAAGATGTCAATAAAAATATA
83274383 CAAATCTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.23
Consensus pattern (25 bp):
CAAAAGATGTCAATAAAAATATAGT
Found at i:83276923 original size:26 final size:26
Alignment explanation
Indices: 83276894--83276947 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
83276884 TGTGCTTCTA
83276894 TTGTGAATTTGGGTGATAGTGTTTTT
1 TTGTGAATTTGGGTGATAGTGTTTTT
83276920 TTGTGAATTTGGGTGATAGTGTTTTT
1 TTGTGAATTTGGGTGATAGTGTTTTT
83276946 TT
1 TT
83276948 TACTTCTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.15, C:0.00, G:0.30, T:0.56
Consensus pattern (26 bp):
TTGTGAATTTGGGTGATAGTGTTTTT
Found at i:83289495 original size:33 final size:33
Alignment explanation
Indices: 83289453--83289519 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
83289443 ACAAGGCTAA
83289453 AGGAGTCCATACACCCATGGTTTCTTGCGCTCT
1 AGGAGTCCATACACCCATGGTTTCTTGCGCTCT
83289486 AGGAGTCCATACACCCATGGTTTCTTGCGCTCT
1 AGGAGTCCATACACCCATGGTTTCTTGCGCTCT
83289519 A
1 A
83289520 TCCAAACACG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.19, C:0.30, G:0.21, T:0.30
Consensus pattern (33 bp):
AGGAGTCCATACACCCATGGTTTCTTGCGCTCT
Found at i:83292777 original size:21 final size:21
Alignment explanation
Indices: 83292753--83292818 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
83292743 ATCTAATTAA
*
83292753 TTTAGGGTTTAAAGTTTAGGG
1 TTTAGGATTTAAAGTTTAGGG
* * * *
83292774 TTTAGAATTTTATGTTTAGGA
1 TTTAGGATTTAAAGTTTAGGG
*
83292795 TTTAGGATTTCAA-TATTAGGG
1 TTTAGGATTTAAAGT-TTAGGG
83292816 TTT
1 TTT
83292819 CGGGTTTATA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 1 0.03
21 34 0.97
ACGTcount: A:0.26, C:0.02, G:0.24, T:0.48
Consensus pattern (21 bp):
TTTAGGATTTAAAGTTTAGGG
Found at i:83310708 original size:65 final size:65
Alignment explanation
Indices: 83310604--83310728 Score: 241
Period size: 65 Copynumber: 1.9 Consensus size: 65
83310594 TGTTGCTTTC
*
83310604 GTTTGGCTTGATACAGGGGGTGAACATTTGTATGTCGTGTACCACTTGCCATCCTTGCAACAATT
1 GTTTGGCTTGATACAGGGGGCGAACATTTGTATGTCGTGTACCACTTGCCATCCTTGCAACAATT
83310669 GTTTGGCTTGATACAGGGGGCGAACATTTGTATGTCGTGTACCACTTGCCATCCTTGCAA
1 GTTTGGCTTGATACAGGGGGCGAACATTTGTATGTCGTGTACCACTTGCCATCCTTGCAA
83310729 TAATCAGAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 59 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.33
Consensus pattern (65 bp):
GTTTGGCTTGATACAGGGGGCGAACATTTGTATGTCGTGTACCACTTGCCATCCTTGCAACAATT
Found at i:83315990 original size:28 final size:28
Alignment explanation
Indices: 83315927--83316192 Score: 428
Period size: 28 Copynumber: 9.5 Consensus size: 28
83315917 ATATTAAGTC
* *
83315927 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
83315954 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
83315982 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
83316010 CGCGCACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
83316038 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
83316066 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
83316094 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
83316122 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
* * *
83316150 CGCACACTTAGTGCTGTACA-ATTTAAACC
1 CGCACACTTAGTGC--TACATAATCAAACT
83316179 CGCACACTTAGTGC
1 CGCACACTTAGTGC
83316193 CAATCTCATG
Statistics
Matches: 227, Mismatches: 9, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
27 22 0.10
28 182 0.80
29 19 0.08
30 4 0.02
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:83339010 original size:23 final size:22
Alignment explanation
Indices: 83338979--83339021 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
83338969 CGGCTCAAAA
83338979 TACATAATA-TATATATAAATTT
1 TACATAATAGTA-ATATAAATTT
83339001 TACATTAATAGTAATATAAAT
1 TACA-TAATAGTAATATAAAT
83339022 GTTAACTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.21
23 13 0.68
24 2 0.11
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (22 bp):
TACATAATAGTAATATAAATTT
Found at i:83341195 original size:25 final size:26
Alignment explanation
Indices: 83341167--83341217 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
83341157 CTTATTTCAT
* *
83341167 TAAATAAAAT-TTTTTAAAAATATAA
1 TAAATAAAATATATTTAAAAACATAA
83341192 TAAATAAAATATATTTAAAAACATAA
1 TAAATAAAATATATTTAAAAACATAA
83341218 AAACAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (26 bp):
TAAATAAAATATATTTAAAAACATAA
Done.