Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 97 of 199
Found at i:27242594 original size:18 final size:19
Alignment explanation
Indices: 27242571--27242606 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
27242561 TTATCTCTTA
27242571 CATAATTTAAAT-TATAAT
1 CATAATTTAAATATATAAT
*
27242589 CATAATTTTAATATATAA
1 CATAATTTAAATATATAA
27242607 AATAAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (19 bp):
CATAATTTAAATATATAAT
Found at i:27242776 original size:15 final size:15
Alignment explanation
Indices: 27242751--27242788 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
27242741 AACCCTCAAA
27242751 CCATAAA-CCATAAT
1 CCATAAACCCATAAT
*
27242765 CCCTAAACCCATAAT
1 CCATAAACCCATAAT
27242780 CCATAAACC
1 CCATAAACC
27242789 TTAAGATAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.45, C:0.37, G:0.00, T:0.18
Consensus pattern (15 bp):
CCATAAACCCATAAT
Found at i:27242776 original size:22 final size:22
Alignment explanation
Indices: 27242743--27242785 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
27242733 GTACCCCTAA
27242743 CCCTCAAACCATAAACCATAAT
1 CCCTCAAACCATAAACCATAAT
*
27242765 CCCT-AAACCCATAATCCATAA
1 CCCTCAAA-CCATAAACCATAA
27242786 ACCTTAAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.44, C:0.37, G:0.00, T:0.19
Consensus pattern (22 bp):
CCCTCAAACCATAAACCATAAT
Found at i:27242960 original size:7 final size:7
Alignment explanation
Indices: 27242950--27243046 Score: 52
Period size: 7 Copynumber: 13.3 Consensus size: 7
27242940 TCTCCTATCT
27242950 CCTAAAC
1 CCTAAAC
*
27242957 CCTAAAT
1 CCTAAAC
*
27242964 CATAAAC
1 CCTAAAC
*
27242971 CCTTAAC
1 CCTAAAC
27242978 CCTTAAATAAC
1 CC-T--A-AAC
*
27242989 CCTAACC
1 CCTAAAC
27242996 CCTAAAC
1 CCTAAAC
**
27243003 TTTAAAC
1 CCTAAAC
*
27243010 CC-CAAC
1 CCTAAAC
27243016 CCTTAAAC
1 CC-TAAAC
*
27243024 CATAAAC
1 CCTAAAC
* *
27243031 CATAATC
1 CCTAAAC
27243038 CCTAAAC
1 CCTAAAC
27243045 CC
1 CC
27243047 ATGATCCATA
Statistics
Matches: 66, Mismatches: 18, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
6 5 0.08
7 49 0.74
8 6 0.09
10 1 0.02
11 5 0.08
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (7 bp):
CCTAAAC
Found at i:27242996 original size:17 final size:18
Alignment explanation
Indices: 27242968--27243001 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
27242958 CTAAATCATA
*
27242968 AACCCTTAACCCTTAAAT
1 AACCCTTAACCCCTAAAT
27242986 AACCC-TAACCCCTAAA
1 AACCCTTAACCCCTAAA
27243002 CTTTAAACCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (18 bp):
AACCCTTAACCCCTAAAT
Found at i:27243029 original size:21 final size:21
Alignment explanation
Indices: 27242954--27243045 Score: 70
Period size: 21 Copynumber: 4.6 Consensus size: 21
27242944 CTATCTCCTA
*
27242954 AACCC-TAAATCATAAACCCTT
1 AACCCTTAAACCATAAACCC-T
27242975 AACCCTT-AA--AT-AACCCT
1 AACCCTTAAACCATAAACCCT
* ** *
27242992 AACCCCTAAACTTTAAACCCC
1 AACCCTTAAACCATAAACCCT
*
27243013 AACCCTTAAACCATAAACCAT
1 AACCCTTAAACCATAAACCCT
27243034 AATCCC-TAAACC
1 AA-CCCTTAAACC
27243046 CATGATCCAT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
17 7 0.12
18 7 0.12
19 2 0.04
20 1 0.02
21 36 0.63
22 4 0.07
ACGTcount: A:0.42, C:0.37, G:0.00, T:0.21
Consensus pattern (21 bp):
AACCCTTAAACCATAAACCCT
Found at i:27243048 original size:15 final size:15
Alignment explanation
Indices: 27243013--27243060 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
27243003 TTTAAACCCC
* *
27243013 AACCCTTAAACCATA
1 AACCCATAATCCATA
*
27243028 AA-CCATAATCCCTA
1 AACCCATAATCCATA
*
27243042 AACCCATGATCCATA
1 AACCCATAATCCATA
27243057 AACC
1 AACC
27243061 TTAAGATAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.19
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:27243579 original size:40 final size:41
Alignment explanation
Indices: 27243403--27243598 Score: 232
Period size: 41 Copynumber: 4.8 Consensus size: 41
27243393 AATGTTTTTT
* * * *
27243403 GCGGCGCTTTTTTTAAAAATGCCGCTAAATCCCCGAGCATTA
1 GCGGCGC-TTTTTCAAAAACGCCGCTAAAGCCCCAAGCATTA
* * *
27243445 GCGGCGCTTTTTCAAAAACGCCGTTAAAGCACCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCAAGCATTA
* * * *
27243486 GCGGCGCTTTTTTAGAAACGCCGCTAAAGCACCAATCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCAAGCATTA
* * *
27243527 GCGGCACATTTTCAAAAACGTCGCT-AAGCCCCAAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCAAGCATTA
* *
27243567 GCTGTGCTTTTTCAAAAACGCCGCTAAAGCCC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCC
27243599 AGAAAGGTCG
Statistics
Matches: 131, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
40 33 0.25
41 91 0.69
42 7 0.05
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCAAGCATTA
Found at i:27243710 original size:40 final size:38
Alignment explanation
Indices: 27243621--27243755 Score: 130
Period size: 40 Copynumber: 3.4 Consensus size: 38
27243611 TGGGTTTAGG
* *
27243621 TCTTTTGCGGCGTTTCTTGGAAAAACGCCGCTAATGCTCA
1 TCTTTAGCGGCGTTTC-T-GAAAAGCGCCGCTAATGCTCA
*
27243661 T-TTTCAGCGGCGTGTTCTGAAAAGCGCCGCAAATGCTCAA
1 TCTTT-AGCGGCGT-TTCTGAAAAGCGCCGCTAATGCTC-A
* *
27243701 TCTTTAGCGGCGTTT-TCCATAAAGCGCTGCTAATGCTCTA
1 TCTTTAGCGGCGTTTCT-GA-AAAGCGCCGCTAATGCTC-A
*
27243741 TTTTTAGCGGCGTTT
1 TCTTTAGCGGCGTTT
27243756 TTTGTCCAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
38 1 0.01
39 24 0.30
40 50 0.62
41 6 0.07
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (38 bp):
TCTTTAGCGGCGTTTCTGAAAAGCGCCGCTAATGCTCA
Found at i:27243756 original size:40 final size:39
Alignment explanation
Indices: 27243641--27243756 Score: 135
Period size: 40 Copynumber: 2.9 Consensus size: 39
27243631 CGTTTCTTGG
* * * *
27243641 AAAAACGCCGCTAATGCTCATTTTCAGCGGCGTGTTCTG
1 AAAAGCGCCGCTAATGCTCATTTTTAGCGGCGTTTTCTC
* *
27243680 AAAAGCGCCGCAAATGCTCAATCTTTAGCGGCGTTTTC-C
1 AAAAGCGCCGCTAATGCTC-ATTTTTAGCGGCGTTTTCTC
*
27243719 ATAAAGCGCTGCTAATGCTCTATTTTTAGCGGCGTTTT
1 A-AAAGCGCCGCTAATGCTC-ATTTTTAGCGGCGTTTT
27243757 TTGTCCAAAC
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
39 18 0.28
40 47 0.72
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (39 bp):
AAAAGCGCCGCTAATGCTCATTTTTAGCGGCGTTTTCTC
Found at i:27247066 original size:16 final size:16
Alignment explanation
Indices: 27247045--27247075 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27247035 AAAAATTCAG
27247045 AAAAAATTAATAAAAT
1 AAAAAATTAATAAAAT
*
27247061 AAAAAATTATTAAAA
1 AAAAAATTAATAAAA
27247076 ACATAAAGTT
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:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAAATTAATAAAAT
Found at i:27253902 original size:27 final size:27
Alignment explanation
Indices: 27253872--27254049 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
27253862 ATATTGAGCC
* *
27253872 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
27253899 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
27253926 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
27253954 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
27253981 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
27254008 TGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
27254035 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27254050 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:27261936 original size:27 final size:27
Alignment explanation
Indices: 27261906--27262084 Score: 191
Period size: 27 Copynumber: 6.6 Consensus size: 27
27261896 ATATTGAGCC
* * *
27261906 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
27261933 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
27261960 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAGTCA-ACT
** * *
27261988 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
27262015 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
*
27262042 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAGTC-AACT
27262069 CGCACACTTAGTGCTA
1 CGCACACTTAGTGCTA
27262085 TACAATTTAA
Statistics
Matches: 130, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 105 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:27262045 original size:82 final size:81
Alignment explanation
Indices: 27261927--27262082 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
27261917 TGCTATATAA
* * *
27261927 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
27261992 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
27262009 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
27262073 CACTTAGTGC
65 CACTTAGTGC
27262083 TATACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:27276778 original size:125 final size:126
Alignment explanation
Indices: 27276550--27276970 Score: 621
Period size: 126 Copynumber: 3.3 Consensus size: 126
27276540 ATTTAAAGAC
* * *
27276550 GCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCTTGAGAAAATAATTTCGAGTAGACGTTTCT
1 GCTCCCACGTAGACGCGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCGAGTAGACGTTTCT
** *
27276615 GAGCAAACAGTGTCAAAAACGCTTTAAATAGGATGCTTTGTCAGCAGAAGTACTGAAAAAA
66 GAGCAAACAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAGAAGTACTGAAAAAA
* * * *
27276676 GCTCTCACGTAGACGCGTTTTTGCTACAGTAGCTCCT-AAAAAATAATTTCGAGTAGACGTTTTT
1 GCTCCCACGTAGACGCGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCGAGTAGACGTTTCT
* * *
27276740 GAGTAAACAGTGTCAAGAACGCTTTAAGCAATATGCTTTGTCAGCAGAAGTACTGAAAAAA
66 GAGCAAACAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAGAAGTACTGAAAAAA
* * *
27276801 GCTTCCACATGGACGCGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCGAGTAGACGTTTCT
1 GCTCCCACGTAGACGCGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCGAGTAGACGTTTCT
* * * *
27276866 GAGCAAACAATGTCAAAAACGCTTTAAGCAAGATGCTTTGTTAGAAGAAGTACTGAAAGAA
66 GAGCAAACAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAGAAGTACTGAAAAAA
* *
27276927 GCTCCCACGTAGACACGCTTTTGCTACAGTAACTAC-TGAAAAAA
1 GCTCCCACGTAGACGCGCTTTTGCTACAGTAGCT-CTTGAAAAAA
27276971 GCTCTCACGT
Statistics
Matches: 261, Mismatches: 32, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
125 111 0.43
126 149 0.57
127 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (126 bp):
GCTCCCACGTAGACGCGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCGAGTAGACGTTTCT
GAGCAAACAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAGAAGTACTGAAAAAA
Found at i:27276966 original size:44 final size:44
Alignment explanation
Indices: 27276916--27277000 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
27276906 TTAGAAGAAG
*
27276916 TACTGAAAGAAGCTCCCACGTAGACACGCTTTTGCTACAGTAAC
1 TACTGAAAAAAGCTCCCACGTAGACACGCTTTTGCTACAGTAAC
* * *
27276960 TACTGAAAAAAGCTCTCACGTGGACGCGCTTTTGCTACAGT
1 TACTGAAAAAAGCTCCCACGTAGACACGCTTTTGCTACAGT
27277001 GGCGCATGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (44 bp):
TACTGAAAAAAGCTCCCACGTAGACACGCTTTTGCTACAGTAAC
Found at i:27282335 original size:18 final size:18
Alignment explanation
Indices: 27282276--27282337 Score: 51
Period size: 18 Copynumber: 3.5 Consensus size: 18
27282266 AACAAATAAT
27282276 AAATT-AATAATTATTT-A
1 AAATTAAATAA-TATTTAA
* *
27282293 AAATTACATAA-A-TAAA
1 AAATTAAATAATATTTAA
27282309 AAATCTTAAATAATATTTAA
1 AAA--TTAAATAATATTTAA
27282329 AAATTAAAT
1 AAATTAAAT
27282338 TTAACACTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 11
0.70 0.08 0.22
Matches are distributed among these distances:
15 1 0.03
16 5 0.14
17 5 0.14
18 17 0.49
19 1 0.03
20 6 0.17
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTAAATAATATTTAA
Found at i:27282525 original size:11 final size:11
Alignment explanation
Indices: 27282511--27282622 Score: 110
Period size: 11 Copynumber: 10.6 Consensus size: 11
27282501 AAATAGGGAT
*
27282511 TTGAGAGGAAT
1 TTGAGAGGAAA
*
27282522 TTGAGAGAAAA
1 TTGAGAGGAAA
*
27282533 TTGAGAGCAAA
1 TTGAGAGGAAA
**
27282544 TTGAGATTAAA
1 TTGAGAGGAAA
*
27282555 -T-AG-GG-AT
1 TTGAGAGGAAA
27282562 TTGAGA-GAAA
1 TTGAGAGGAAA
27282572 TTTGAGAGGAAA
1 -TTGAGAGGAAA
*
27282584 TTGAGAGCAAA
1 TTGAGAGGAAA
27282595 TTGAGAGGAAA
1 TTGAGAGGAAA
27282606 TTGAGAGGAAA
1 TTGAGAGGAAA
27282617 TT-AGAG
1 TTGAGAG
27282623 AAAGGATTTA
Statistics
Matches: 84, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
7 1 0.01
8 1 0.01
9 5 0.06
10 6 0.07
11 67 0.80
12 4 0.05
ACGTcount: A:0.44, C:0.02, G:0.31, T:0.23
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:27282559 original size:51 final size:51
Alignment explanation
Indices: 27282499--27282600 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
27282489 TAAAGCTCCT
*
27282499 TTAAATAGGGATTTGAGAGGAATTTGAGAGAAAATTGAGAGCAAATTGAGA
1 TTAAATAGGGATTTGAGAGAAATTTGAGAGAAAATTGAGAGCAAATTGAGA
*
27282550 TTAAATAGGGATTTGAGAGAAATTTGAGAGGAAATTGAGAGCAAATTGAGA
1 TTAAATAGGGATTTGAGAGAAATTTGAGAGAAAATTGAGAGCAAATTGAGA
27282601 GGAAATTGAG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.43, C:0.02, G:0.29, T:0.25
Consensus pattern (51 bp):
TTAAATAGGGATTTGAGAGAAATTTGAGAGAAAATTGAGAGCAAATTGAGA
Found at i:27288520 original size:8 final size:8
Alignment explanation
Indices: 27288507--27288553 Score: 62
Period size: 8 Copynumber: 5.9 Consensus size: 8
27288497 TTAAATTTAT
27288507 TTTTATTA
1 TTTTATTA
27288515 TTTTATTA
1 TTTTATTA
27288523 TTTTAGTTA
1 TTTTA-TTA
27288532 TTTTATT-
1 TTTTATTA
27288539 TTATT-TTA
1 TT-TTATTA
27288547 TTTTATT
1 TTTTATT
27288554 GTTAGCTACC
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
7 6 0.17
8 21 0.60
9 8 0.23
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (8 bp):
TTTTATTA
Found at i:27288525 original size:17 final size:17
Alignment explanation
Indices: 27288503--27288553 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
27288493 TGTATTAAAT
27288503 TTATTTTTATTATTTTA
1 TTATTTTTATTATTTTA
27288520 TTA-TTTTAGTTATTTTA
1 TTATTTTTA-TTATTTTA
*
27288537 TT-TTATT-TTATTTTA
1 TTATTTTTATTATTTTA
27288552 TT
1 TT
27288554 GTTAGCTACC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
15 10 0.32
16 5 0.16
17 16 0.52
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (17 bp):
TTATTTTTATTATTTTA
Found at i:27288537 original size:5 final size:5
Alignment explanation
Indices: 27288502--27288553 Score: 58
Period size: 5 Copynumber: 11.2 Consensus size: 5
27288492 GTGTATTAAA
* *
27288502 TTTAT TTT-T ATTAT TTTA- -TTAT TTTA- GTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
27288548 TTTAT T
1 TTTAT T
27288554 GTTAGCTACC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
3 3 0.08
4 6 0.15
5 30 0.77
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:27288544 original size:10 final size:10
Alignment explanation
Indices: 27288502--27288553 Score: 58
Period size: 9 Copynumber: 5.6 Consensus size: 10
27288492 GTGTATTAAA
27288502 TTTATTTT-T
1 TTTATTTTAT
*
27288511 ATTATTTTA-
1 TTTATTTTAT
27288520 -TTATTTTA-
1 TTTATTTTAT
*
27288528 GTTATTTTAT
1 TTTATTTTAT
27288538 TTTATTTTAT
1 TTTATTTTAT
27288548 TTTATT
1 TTTATT
27288554 GTTAGCTACC
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
8 8 0.21
9 15 0.39
10 15 0.39
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:27290192 original size:9 final size:9
Alignment explanation
Indices: 27290175--27290211 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
27290165 TGAGTTTTTG
27290175 AATTCGAAT
1 AATTCGAAT
*
27290184 AACTCGAAT
1 AATTCGAAT
27290193 AATTCGAAT
1 AATTCGAAT
27290202 AATTCGAAT
1 AATTCGAAT
27290211 A
1 A
27290212 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:27292690 original size:13 final size:14
Alignment explanation
Indices: 27292662--27292697 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
27292652 CAAAGTGAGT
27292662 AGAAAAATAAAAAA
1 AGAAAAATAAAAAA
*
27292676 AGAAAAA-AAAGAA
1 AGAAAAATAAAAAA
27292689 AGAAAAATA
1 AGAAAAATA
27292698 CTCATTTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (14 bp):
AGAAAAATAAAAAA
Found at i:27297139 original size:29 final size:29
Alignment explanation
Indices: 27297007--27297143 Score: 122
Period size: 29 Copynumber: 4.8 Consensus size: 29
27296997 CAAAGTCATT
27297007 CTTTG-AGAGGTTTGCCACAAAGGC-TAC
1 CTTTGTAGAGGTTTGCCACAAAGGCTTAC
* *
27297034 CTTT-TAATAGGTTTGCCACAAATGCTTAC
1 CTTTGT-AGAGGTTTGCCACAAAGGCTTAC
* * * * *
27297063 CTTTCTAGAGTTTTACCACAAGGGTTGTA-
1 CTTTGTAGAGGTTTGCCACAAAGGCT-TAC
* *
27297092 C-TTGAACAGGTTTGCCACAAAGGCTTAC
1 CTTTGTAGAGGTTTGCCACAAAGGCTTAC
* *
27297120 CTTTGTAGAGTTTTTCCACAAAGG
1 CTTTGTAGAGGTTTGCCACAAAGG
27297144 TGCCCTGAAA
Statistics
Matches: 84, Mismatches: 19, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
27 6 0.07
28 35 0.42
29 40 0.48
30 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (29 bp):
CTTTGTAGAGGTTTGCCACAAAGGCTTAC
Found at i:27297409 original size:53 final size:53
Alignment explanation
Indices: 27297294--27297444 Score: 155
Period size: 53 Copynumber: 2.9 Consensus size: 53
27297284 CTTAAAATTT
* ** * * * * *
27297294 TCCATATGATTCTATAACCTACTAGTTACAGTCTTACATGAAATGATTTTTTT
1 TCCATATGATACTATAACCTACTAGTTATGGTCTTACACGATATGAATTCTTC
*
27297347 TCCACATGATACTATAACCTACTAGTTATGGTCTTACACGATATGACATTCTTC
1 TCCATATGATACTATAACCTACTAGTTATGGTCTTACACGATATGA-ATTCTTC
* * *
27297401 T-CATATGATAC-ATAA-CTCACCAATTATGGTCTTACACAATATGA
1 TCCATATGATACTATAACCT-ACTAGTTATGGTCTTACACGATATGA
27297445 TTTTATTCAG
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
51 2 0.02
52 27 0.33
53 49 0.59
54 5 0.06
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (53 bp):
TCCATATGATACTATAACCTACTAGTTATGGTCTTACACGATATGAATTCTTC
Found at i:27300803 original size:29 final size:29
Alignment explanation
Indices: 27300770--27300837 Score: 136
Period size: 29 Copynumber: 2.3 Consensus size: 29
27300760 GACTCATTCG
27300770 CATTTGTTTTGTCCCCTAGGGTTCGTTTC
1 CATTTGTTTTGTCCCCTAGGGTTCGTTTC
27300799 CATTTGTTTTGTCCCCTAGGGTTCGTTTC
1 CATTTGTTTTGTCCCCTAGGGTTCGTTTC
27300828 CATTTGTTTT
1 CATTTGTTTT
27300838 ACTCAATCAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.07, C:0.22, G:0.19, T:0.51
Consensus pattern (29 bp):
CATTTGTTTTGTCCCCTAGGGTTCGTTTC
Found at i:27301447 original size:16 final size:17
Alignment explanation
Indices: 27301401--27301447 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
27301391 ATCATATCAC
27301401 ATATTCACATGTATC-ATT
1 ATATTCACA--TATCAATT
27301419 ATATTCACA-ATCAATT
1 ATATTCACATATCAATT
27301435 ATATTCA-ATATCA
1 ATATTCACATATCA
27301448 CCATCCATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 4 0.15
16 14 0.52
18 9 0.33
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.40
Consensus pattern (17 bp):
ATATTCACATATCAATT
Found at i:27302042 original size:21 final size:20
Alignment explanation
Indices: 27301989--27302043 Score: 51
Period size: 20 Copynumber: 2.7 Consensus size: 20
27301979 TTAATCATAG
27301989 TTAATTAGTTTAATTATAAT
1 TTAATTAGTTTAATTATAAT
* *
27302009 TTATTTTA-CTTAATTACTAA-
1 TTA-ATTAGTTTAATTA-TAAT
27302029 TTAATTAAGTTTAAT
1 TTAATT-AGTTTAAT
27302044 GACATCTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
19 2 0.07
20 14 0.52
21 11 0.41
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (20 bp):
TTAATTAGTTTAATTATAAT
Found at i:27305341 original size:23 final size:22
Alignment explanation
Indices: 27305298--27305355 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
27305288 AAAGGGTATC
* *
27305298 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
27305319 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
27305342 TGCATATCATATCT
1 TACAAATCATATCT
27305356 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:27306054 original size:131 final size:132
Alignment explanation
Indices: 27305835--27306137 Score: 410
Period size: 131 Copynumber: 2.3 Consensus size: 132
27305825 AAGGCTGGTG
* * * *
27305835 GCTTAAATCTGCTTCCCTACTACCTCGAGAAGATAAGACTTGCCATCTTTGATTTGCTCCACTAC
1 GCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTTGCCATCTTCGATCTGCTCCACTAC
* *
27305900 TACTTAGAGAGACAAGATATACAATCTTTAATCTACTCCACTACTGCTCAGGGAGATAGGAATGA
66 TACTTAGAGAGACAAGATATACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGAATGA
27305965 TA
131 TA
* * * *
27305967 GCTTAAATATGCTT-CCTACTATCTCGGGAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAT
1 GCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTTGCCATCTTCGATCTGCTCCACTAC
* * * * * * ** *
27306031 TGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCTATTACTGCTCAGGGAGATAGGTCTGG
66 TACTTAGAGAGACAAGATATACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGAATGA
*
27306096 TG
131 TA
*
27306098 GCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATT
1 GCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATT
27306138 CACTGTCTTT
Statistics
Matches: 147, Mismatches: 23, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
131 111 0.76
132 36 0.24
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (132 bp):
GCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTTGCCATCTTCGATCTGCTCCACTAC
TACTTAGAGAGACAAGATATACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGAATGA
TA
Found at i:27306297 original size:44 final size:44
Alignment explanation
Indices: 27306190--27306582 Score: 158
Period size: 44 Copynumber: 8.8 Consensus size: 44
27306180 GATTTACTAT
* * * *
27306190 CTTCAGTCTACTCCACAGCAACTTCAGGGAGATAAGA--CTTCA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTCA
* * **
27306232 CTTCAATCTGCTCTACTGCAACTTCAGGGAGATAGGATTATTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTCA
*
27306276 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TTC-
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTCA
* * * * ** * *
27306318 CAT-GATCTACTCTACTGCAACTTCAAAGAGAAAAGATCTGTGATTTATA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A-TT-CA
* ** * * * * * * **
27306367 GCTTTAATCTATTCCGCTACAGCTTCAGGAAAATGAGATT-CGCTA
1 -CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTC-A
* * * * ** *
27306412 TCTTCAGTTTGCTCCACTGGAACTTCAGGGAGATAAGACTGGTCT
1 -CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTCA
* * ** *
27306457 CTTCAGT-TCGCTCCACTGTAACTTCAAAGAGATAGGATTATT-A
1 CTTCAATCT-GCTCCACTGCAACTTCAGGGAGATAAGATTATTCA
* * * *
27306500 GCTTTAATCTACTCCGCTGCAACTTCAGGGAGATAAGATT-TGCCA
1 -CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-TCA
* * * *
27306545 TCTTCAGTCTGC-CCTACTACAACTTTAGGGGGATAAGA
1 -CTTCAATCTGCTCC-ACTGCAACTTCAGGGAGATAAGA
27306583 CTTGCTTTCT
Statistics
Matches: 253, Mismatches: 78, Indels: 37
0.69 0.21 0.10
Matches are distributed among these distances:
41 27 0.11
42 34 0.13
43 5 0.02
44 103 0.41
45 56 0.22
46 1 0.00
47 2 0.01
48 1 0.00
49 1 0.00
50 2 0.01
51 21 0.08
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTCA
Found at i:27306672 original size:44 final size:44
Alignment explanation
Indices: 27306603--27307088 Score: 451
Period size: 44 Copynumber: 11.0 Consensus size: 44
27306593 GCAATAAGAC
*
27306603 TTGTAACTTTAATC-GCTCCACTGCAACTTCAAGGAGATAGGAT
1 TTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
* * * *
27306646 TTGTAAATTTAATCCGCTCCACTGCAACTTTAGAGAGATAGGAT
1 TTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
** * * * * *
27306690 TAT-TGGCTTTAATCTGCTCCATTACAACTTTAGGGAGTTAAGAT
1 T-TGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
* * ** * * * * *
27306734 TTGCCATCTTTTGTTTGCTTCACTGCAACTTTAGGGAGATAAGAC
1 TTG-TAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
* *
27306779 TTGTAACTTTAAT-TCGCTCGATTGCAACTTCAGGGAGATAGGAT
1 TTGTAACTTTAATCT-GCTCCACTGCAACTTCAGGGAGATAGGAT
* * *
27306823 TTGTAACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGAAT
1 TTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
** ** * *
27306867 TACTGGCTTTAATCTGCTCCACTTCAACTTCAGGGAGATAAGAT
1 TTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
* * * * * * * *
27306911 TTGTCATCTTCAGTCTGCTCCATTGTAACTTCAGGTAGATAAGAC
1 TTGT-AACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
*
27306956 TTGTAACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGAT
1 TTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
* * *
27307000 TAT-TAGCTTTAATCTGCTCCATTGTAACTTCAGGGAGATAGGAT
1 T-TGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
** * *
27307044 TAT-TGGCTTTAATCTGCTCCACTGCAACTTCATGGAGATAAGAT
1 T-TGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
27307088 T
1 T
27307089 CACCATCTTC
Statistics
Matches: 359, Mismatches: 76, Indels: 15
0.80 0.17 0.03
Matches are distributed among these distances:
43 15 0.04
44 274 0.76
45 70 0.19
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (44 bp):
TTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
Found at i:27306859 original size:133 final size:131
Alignment explanation
Indices: 27306609--27307088 Score: 455
Period size: 133 Copynumber: 3.6 Consensus size: 131
27306599 AGACTTGTAA
* * * *
27306609 CTTTAATC-GCTCCACTGCAACTTCAAGGAGATAGGATTTGTAAATTTAATCCGCTCCACTGCAA
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-AATTTAATTCGCTCCATTGCAA
* * ** * * * * * *
27306673 CTTTAGAGAGATAGGATTAT-TGGCTTTAATCTGCTCCATTACAACTTTAGGGAGTTAAGATTTG
65 CTTCAGGGAGATAGGATT-TGTAACTTTAATCCGCTCCACTACAACTTCAGGGAGAT-AGAATTA
*
27306737 CCAT
128 CCAG
** * * * * *
27306741 CTTTTGTTTGCTTCACTGCAACTTTAGGGAGATAAGACTTGTAACTTTAATTCGCTCGATTGCAA
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAA-TTTAATTCGCTCCATTGCAA
*
27306806 CTTCAGGGAGATAGGATTTGTAACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGAATTACT
65 CTTCAGGGAGATAGGATTTGTAACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGAATTACC
*
27306871 GG
130 AG
* * * * *
27306873 CTTTAATCTGCTCCACTTCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTGCTCCATTGTA
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAAT-TTAATTC-GCTCCATTGCA
* * * * * *
27306938 ACTTCAGGTAGATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAT
64 ACTTCAGGGAGATAGGATTTGTAACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGAATTAC
*
27307003 TAG
129 CAG
* * * ** *
27307006 CTTTAATCTGCTCCATTGTAACTTCAGGGAGATAGGATTAT-TGGCTTTAA-TCTGCTCCACTGC
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TGT-AATTTAATTC-GCTCCATTGC
* *
27307069 AACTTCATGGAGATAAGATT
63 AACTTCAGGGAGATAGGATT
27307089 CACCATCTTC
Statistics
Matches: 286, Mismatches: 55, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
131 1 0.00
132 83 0.29
133 200 0.70
134 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (131 bp):
CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTAATTCGCTCCATTGCAAC
TTCAGGGAGATAGGATTTGTAACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGAATTACCA
G
Found at i:27306911 original size:177 final size:177
Alignment explanation
Indices: 27306596--27307098 Score: 706
Period size: 177 Copynumber: 2.8 Consensus size: 177
27306586 GCTTTCTGCA
* *
27306596 ATAAGACTTGTAACTTTAA-TCGCTCCACTGCAACTTCAAGGAGATAGGATTTGTAAATTTAATC
1 ATAAGACTTGTAACTTTAATTCGCTCCACTGCAACTTCAGGGAGATAGGATTTGTAACTTTAATC
* * *
27306660 CGCTCCACTGCAACTTTAGAGAGATAGGATTATTGGCTTTAATCTGCTCCA-TTACAACTTTAGG
66 CGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTT-CAACTTCAGG
* ** * * *
27306724 GAGTTAAGATTTGCCATCTTTTGTTTGCTTCACTGCAACTTTAGGGAG
130 GAGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
* *
27306772 ATAAGACTTGTAACTTTAATTCGCTCGATTGCAACTTCAGGGAGATAGGATTTGTAACTTTAATC
1 ATAAGACTTGTAACTTTAATTCGCTCCACTGCAACTTCAGGGAGATAGGATTTGTAACTTTAATC
* * *
27306837 CGCTCCACTACAACTTCAGGGAGATAGAATTACTGGCTTTAATCTGCTCCACTTCAACTTCAGGG
66 CGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTTCAACTTCAGGG
* * * *
27306902 AGATAAGATTTGTCATCTTCAGTCTGCTCCATTGTAACTTCAGGTAG
131 AGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
* *
27306949 ATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAT-TAGCTTTAAT
1 ATAAGACTTGTAACTTTAATTCGCTCCACTGCAACTTCAGGGAGATAGGATT-TGTAACTTTAAT
* * * * *
27307013 CTGCTCCATTGTAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCATG
65 CCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTTCAACTTCAGG
**
27307078 GAGATAAGATTCACCATCTTC
130 GAGATAAGATTTGCCATCTTC
27307099 TTCAATATAT
Statistics
Matches: 289, Mismatches: 35, Indels: 5
0.88 0.11 0.02
Matches are distributed among these distances:
176 19 0.07
177 267 0.92
178 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (177 bp):
ATAAGACTTGTAACTTTAATTCGCTCCACTGCAACTTCAGGGAGATAGGATTTGTAACTTTAATC
CGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTTCAACTTCAGGG
AGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
Found at i:27323666 original size:14 final size:12
Alignment explanation
Indices: 27323629--27323658 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
27323619 AAATTTTATA
27323629 TTTAAAATATTT
1 TTTAAAATATTT
*
27323641 TTTTAAATATTT
1 TTTAAAATATTT
27323653 TTTAAA
1 TTTAAA
27323659 TAATATTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTAAAATATTT
Found at i:27327890 original size:12 final size:12
Alignment explanation
Indices: 27327873--27327900 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
27327863 GAATGTTTCT
27327873 AATGTTACAAGC
1 AATGTTACAAGC
27327885 AATGTTACAAGC
1 AATGTTACAAGC
27327897 AATG
1 AATG
27327901 AGTGGCATAT
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:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (12 bp):
AATGTTACAAGC
Found at i:27330531 original size:61 final size:61
Alignment explanation
Indices: 27330426--27330593 Score: 185
Period size: 61 Copynumber: 2.8 Consensus size: 61
27330416 ATTTTTGAAG
* * * * * *
27330426 GGAAAGCCTTTGTGGTGAGTACTGGTTATAAATGACAGCTTTTGTGGCATAACTTTAGACA
1 GGAAAGCCTTTGTGGTGAGTACTGGATATAAAGGATAGCCTTTGTGGCACAACTCTAGACA
* * *
27330487 GGAAAGCCTTTATGGTGAGTATTGGATATAAAGGATAGCCTTTGTGACACAACTCTAGACA
1 GGAAAGCCTTTGTGGTGAGTACTGGATATAAAGGATAGCCTTTGTGGCACAACTCTAGACA
** * * * * *
27330548 ACAAAACCTTTGTGGGGAGCACTAGATATAAAGGAT-GGCTTTGTGG
1 GGAAAGCCTTTGTGGTGAGTACTGGATATAAAGGATAGCCTTTGTGG
27330594 AAAAACTCAG
Statistics
Matches: 88, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
60 8 0.09
61 80 0.91
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (61 bp):
GGAAAGCCTTTGTGGTGAGTACTGGATATAAAGGATAGCCTTTGTGGCACAACTCTAGACA
Found at i:27330948 original size:16 final size:16
Alignment explanation
Indices: 27330927--27330957 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27330917 TTTCACTTTA
*
27330927 TGTCTTTTGTATTTTT
1 TGTCTTTTATATTTTT
27330943 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
27330958 GTATGCATAG
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:0.10, C:0.06, G:0.10, T:0.74
Consensus pattern (16 bp):
TGTCTTTTATATTTTT
Found at i:27340645 original size:30 final size:31
Alignment explanation
Indices: 27340611--27340668 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
27340601 GTAAATACTC
* **
27340611 AAAATTTGAGGGGTTAA-AGTGCAAATAAGA
1 AAAATTTGAAGGACTAATAGTGCAAATAAGA
27340641 AAAATTTGAAGGACTAATAGTGCAAATA
1 AAAATTTGAAGGACTAATAGTGCAAATA
27340669 TTTTAAGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.48, C:0.05, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAATTTGAAGGACTAATAGTGCAAATAAGA
Found at i:27349385 original size:25 final size:25
Alignment explanation
Indices: 27349325--27349385 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
27349315 CTACTAAATT
*
27349325 TTAATTTAATTATCTAATTTTTAAA
1 TTAATTAAATTATCTAATTTTTAAA
* * *
27349350 TTTATTGAATTAT-TAATATTTTATA
1 TTAATTAAATTATCTAAT-TTTTAAA
27349375 TTAATTAAATT
1 TTAATTAAATT
27349386 TTTGAGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 4 0.13
25 26 0.87
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATCTAATTTTTAAA
Found at i:27355663 original size:14 final size:14
Alignment explanation
Indices: 27355641--27355675 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
27355631 CACATTTTAC
* *
27355641 TATTATGTCTCTTT
1 TATTTTGTCTCTTA
27355655 TATTTTGTCTCTTA
1 TATTTTGTCTCTTA
27355669 TATTTTG
1 TATTTTG
27355676 CATACATAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.14, C:0.11, G:0.09, T:0.66
Consensus pattern (14 bp):
TATTTTGTCTCTTA
Found at i:27357443 original size:62 final size:59
Alignment explanation
Indices: 27357370--27357486 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 59
27357360 AGTGATTATC
* * * *
27357370 TTAATATTAAATTTAATTTAATGTTTATCTTATAGATAAATATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAAGAT
27357432 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
27357487 TTAAAGTGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 22 0.43
60 1 0.02
61 1 0.02
62 27 0.53
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.51
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAAGAT
Found at i:27358618 original size:31 final size:31
Alignment explanation
Indices: 27358582--27358653 Score: 144
Period size: 31 Copynumber: 2.3 Consensus size: 31
27358572 AAAACCGGGC
27358582 CGGGCTGGGCTCGGGCTTATTATTTTTTTCT
1 CGGGCTGGGCTCGGGCTTATTATTTTTTTCT
27358613 CGGGCTGGGCTCGGGCTTATTATTTTTTTCT
1 CGGGCTGGGCTCGGGCTTATTATTTTTTTCT
27358644 CGGGCTGGGC
1 CGGGCTGGGC
27358654 CCGGCCCTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.06, C:0.21, G:0.33, T:0.40
Consensus pattern (31 bp):
CGGGCTGGGCTCGGGCTTATTATTTTTTTCT
Found at i:27362877 original size:19 final size:19
Alignment explanation
Indices: 27362853--27362890 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
27362843 GACTTTTGCT
27362853 GATTATGGTTTGTTAGAAG
1 GATTATGGTTTGTTAGAAG
27362872 GATTATGGTTTGTTAGAAG
1 GATTATGGTTTGTTAGAAG
27362891 ACATTCATCT
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:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
GATTATGGTTTGTTAGAAG
Found at i:27364571 original size:26 final size:26
Alignment explanation
Indices: 27364535--27364588 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
27364525 ATGTTTGAAG
27364535 CTACATCGATTAGTTGGATATTCTAA
1 CTACATCGATTAGTTGGATATTCTAA
27364561 CTACATCGATTAGTTGGATATTCTAA
1 CTACATCGATTAGTTGGATATTCTAA
27364587 CT
1 CT
27364589 TTTGTACCCC
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:0.30, C:0.17, G:0.15, T:0.39
Consensus pattern (26 bp):
CTACATCGATTAGTTGGATATTCTAA
Found at i:27368530 original size:47 final size:47
Alignment explanation
Indices: 27368473--27368729 Score: 365
Period size: 47 Copynumber: 5.4 Consensus size: 47
27368463 ATTGATGTAC
* * *
27368473 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
27368520 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
27368569 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
27368616 ACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
27368663 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
27368710 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
27368730 TCCCGAAGGG
Statistics
Matches: 192, Mismatches: 14, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
46 1 0.01
47 150 0.78
49 40 0.21
50 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.27
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:27368607 original size:22 final size:22
Alignment explanation
Indices: 27368580--27368701 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
27368570 CATGTGTATG
27368580 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
27368602 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
27368627 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
27368649 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
27368674 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
27368696 TGTGAT
1 TGTGAT
27368702 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:27372330 original size:57 final size:57
Alignment explanation
Indices: 27372263--27372371 Score: 182
Period size: 57 Copynumber: 1.9 Consensus size: 57
27372253 CATTTTGACA
**
27372263 AACATAAATATGTGCATTAAGAGACATTATCACAGCAACTATAAATTACATTTGGCC
1 AACATAAATATGCACATTAAGAGACATTATCACAGCAACTATAAATTACATTTGGCC
* *
27372320 AACATAAATATGCACATTAAGAGACATTTTGACAGCAACTATAAATTACATT
1 AACATAAATATGCACATTAAGAGACATTATCACAGCAACTATAAATTACATT
27372372 AAGGCCGCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 48 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (57 bp):
AACATAAATATGCACATTAAGAGACATTATCACAGCAACTATAAATTACATTTGGCC
Found at i:27372383 original size:57 final size:57
Alignment explanation
Indices: 27372263--27372385 Score: 176
Period size: 57 Copynumber: 2.2 Consensus size: 57
27372253 CATTTTGACA
** *
27372263 AACATAAATATGTGCATTAAGAGACATTATCACAGCAACTATAAATTACATTTGGCC
1 AACATAAATATGCACATTAAGAGACATTATCACAGCAACTATAAATTACATTAGGCC
* *
27372320 AACATAAATATGCACATTAAGAGACATTTTGACAGCAACTATAAATTACATTAAGGCC
1 AACATAAATATGCACATTAAGAGACATTATCACAGCAACTATAAATTACATT-AGGCC
*
27372378 -GCATAAAT
1 AACATAAAT
27372386 GTAGAAATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 55 0.93
58 4 0.07
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (57 bp):
AACATAAATATGCACATTAAGAGACATTATCACAGCAACTATAAATTACATTAGGCC
Found at i:27380839 original size:5 final size:5
Alignment explanation
Indices: 27380829--27380858 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
27380819 TCCAAAACTC
27380829 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
27380859 TTTAATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:27384364 original size:16 final size:18
Alignment explanation
Indices: 27384328--27384364 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
27384318 TAATATTAAA
*
27384328 TAATAAAATATTATTATT
1 TAATAAAATATTATCATT
27384346 TAATAAAA-A-TATCATT
1 TAATAAAATATTATCATT
27384362 TAA
1 TAA
27384365 AAGCATCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 9 0.50
17 1 0.06
18 8 0.44
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATAAAATATTATCATT
Found at i:27384653 original size:22 final size:22
Alignment explanation
Indices: 27384628--27384670 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
27384618 TTATTTAAGG
27384628 TCTTCTACCATAAATATTCTTC
1 TCTTCTACCATAAATATTCTTC
27384650 TCTTCTACCATAAATATTCTT
1 TCTTCTACCATAAATATTCTT
27384671 TTTTTTAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.47
Consensus pattern (22 bp):
TCTTCTACCATAAATATTCTTC
Found at i:27386525 original size:16 final size:16
Alignment explanation
Indices: 27386506--27386538 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
27386496 AAAGAAGGGA
27386506 CGAATCAAATTATCAT
1 CGAATCAAATTATCAT
27386522 CGAATCAAATTATCAT
1 CGAATCAAATTATCAT
27386538 C
1 C
27386539 CCATTGTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.30
Consensus pattern (16 bp):
CGAATCAAATTATCAT
Found at i:27389812 original size:22 final size:22
Alignment explanation
Indices: 27389786--27389830 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
27389776 ATTATATGTA
27389786 TTAATTCATAATATAA-TTAATT
1 TTAATTCAT-ATATAATTTAATT
* *
27389808 TTAATTTATATCTAATTTAATT
1 TTAATTCATATATAATTTAATT
27389830 T
1 T
27389831 GGGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTCATATATAATTTAATT
Found at i:27392826 original size:39 final size:37
Alignment explanation
Indices: 27392756--27392828 Score: 103
Period size: 39 Copynumber: 1.9 Consensus size: 37
27392746 AATAGATTAA
27392756 TATTAAATTAAATTAAATACTTATCTTAATATTATTT
1 TATTAAATTAAATTAAATACTTATCTTAATATTATTT
*
27392793 TATTAATTTAATATTAAAGTGA-TTATCTTAATATTA
1 TATTAAATTAA-ATTAAA-T-ACTTATCTTAATATTA
27392829 AATTAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 10 0.31
38 6 0.19
39 15 0.47
40 1 0.03
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (37 bp):
TATTAAATTAAATTAAATACTTATCTTAATATTATTT
Found at i:27392892 original size:61 final size:59
Alignment explanation
Indices: 27392820--27392935 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 59
27392810 AGTGATTATC
* * * *
27392820 TTAATATTAAATTAAATTTAATGGTTATCCTATG-TATAATATTGTATTATTTTAATAAGAT
1 TTAATATTAAATTAAATCTAATAGTTAT-CT-TGATA-AATATTATATTAGTTTAATAAGAT
* *
27392881 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAGTTTAATA
1 TTAATATTAAATTAAATCTAATAGTTATCTTGATAAATATTATATTAGTTTAATA
27392936 TTAAAGTAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
59 20 0.42
60 4 0.08
61 24 0.50
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTAAATCTAATAGTTATCTTGATAAATATTATATTAGTTTAATAAGAT
Found at i:27398339 original size:12 final size:12
Alignment explanation
Indices: 27398322--27398348 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
27398312 AAAGAAAGAT
27398322 AAATAAAAAATA
1 AAATAAAAAATA
27398334 AAATAAAAAATA
1 AAATAAAAAATA
27398346 AAA
1 AAA
27398349 AAGAAACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAATAAAAAATA
Found at i:27398530 original size:5 final size:5
Alignment explanation
Indices: 27398522--27398580 Score: 61
Period size: 5 Copynumber: 12.0 Consensus size: 5
27398512 AAAAAATTAG
* *
27398522 TAAAA TAAAA -ATAAA TAATA TAACAA -ATAA T-AAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TA-AAA TAAAA TAA-AA TAAAA TAAAA TAAAA TAAAA TAAAA
27398571 TAAAA TAAAA
1 TAAAA TAAAA
27398581 GGGGGTGGCC
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
4 6 0.13
5 37 0.82
6 2 0.04
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:27398538 original size:34 final size:33
Alignment explanation
Indices: 27398436--27398580 Score: 86
Period size: 34 Copynumber: 4.3 Consensus size: 33
27398426 AAACACTTAA
* * *
27398436 AAAAATAGAAATAACAAAAAAAATTAAAATAAATT
1 AAAAATAAAAATAATAAATAAAA-TAAAATAAA-T
* * *
27398471 TAAAATATAAGT-ATAAGTATAAGAAT-AAA-AAAT
1 AAAAATAAAAATAATAA--ATAA-AATAAAATAAAT
* *
27398504 AAAAAATAAAAA-AATTAGTAAAATAAAAATAAAT
1 -AAAAATAAAAATAATAAATAAAAT-AAAATAAAT
*
27398538 -AATATAACAAATAATAAATAAAATAAAATAAA-
1 AAAAATAA-AAATAATAAATAAAATAAAATAAAT
27398570 ATAAAATAAAA
1 A-AAAATAAAA
27398581 GGGGGTGGCC
Statistics
Matches: 84, Mismatches: 14, Indels: 26
0.68 0.11 0.21
Matches are distributed among these distances:
31 3 0.04
32 9 0.11
33 17 0.20
34 37 0.44
35 12 0.14
36 4 0.05
37 2 0.02
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.22
Consensus pattern (33 bp):
AAAAATAAAAATAATAAATAAAATAAAATAAAT
Found at i:27398576 original size:15 final size:14
Alignment explanation
Indices: 27398489--27398580 Score: 71
Period size: 15 Copynumber: 6.1 Consensus size: 14
27398479 AAGTATAAGT
27398489 ATAAGAATAAAAAATA
1 ATAA-AATAAAAAA-A
27398505 A-AAAATAAAAAAA
1 ATAAAATAAAAAAA
27398518 TTAGTAAAATAAAAATAA
1 --A-TAAAATAAAAA-AA
* *
27398536 ATAATATAACAAATA
1 ATAAAATAA-AAAAA
27398551 AT-AAATAAAATAAA
1 ATAAAATAAAA-AAA
27398565 ATAAAATAAAATAAA
1 ATAAAATAAAA-AAA
27398580 A
1 A
27398581 GGGGGTGGCC
Statistics
Matches: 64, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
13 3 0.05
14 18 0.28
15 26 0.41
16 5 0.08
17 10 0.16
18 2 0.03
ACGTcount: A:0.76, C:0.01, G:0.02, T:0.21
Consensus pattern (14 bp):
ATAAAATAAAAAAA
Found at i:27398991 original size:104 final size:102
Alignment explanation
Indices: 27398832--27399027 Score: 270
Period size: 104 Copynumber: 1.9 Consensus size: 102
27398822 ACTCTTTGAC
* * *
27398832 TTTGAAAAATTAGCTCCAGGTTTCACACGGCCTAGGACACGCCCGCGTGTCCAGGCCGTATGGGT
1 TTTGAAAAATTAGCTCCAAGTTTCACACGGCCAAGGACACACCCGCGTGTCCAGGCCGTATGGGT
* *
27398897 CACATGGCCATGTCGCCAGGCCGTGTAATCGTTGAATT
66 CACACGACCATGT-GCCAGGCCGTGTAATCGTTGAATT
* * *
27398935 TTTGAAAATTTAAG-TCCAAGTATTCACACGGCCAAGGACACACCTC-TGTGTCCAGGCCGTGTG
1 TTTGAAAAATT-AGCTCCAAGT-TTCACACGGCCAAGGACACACC-CGCGTGTCCAGGCCGTATG
27398998 GGTCACACGACCATGTGCCAGGCCGTGTAA
63 GGTCACACGACCATGTGCCAGGCCGTGTAA
27399028 CTAACTGTCG
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
103 30 0.37
104 51 0.62
105 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.23
Consensus pattern (102 bp):
TTTGAAAAATTAGCTCCAAGTTTCACACGGCCAAGGACACACCCGCGTGTCCAGGCCGTATGGGT
CACACGACCATGTGCCAGGCCGTGTAATCGTTGAATT
Found at i:27401975 original size:6 final size:6
Alignment explanation
Indices: 27401948--27402009 Score: 72
Period size: 6 Copynumber: 10.2 Consensus size: 6
27401938 TACTAGAAGC
* *
27401948 AAATAA AAGA-AA AATTATA AAACAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AA-ATAA AAATA-A AAATAA AAATAA AAATAA AAATAA AAATAA
*
27401997 AAATAA GAATAA A
1 AAATAA AAATAA A
27402010 TGGCTAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
6 42 0.89
7 5 0.11
ACGTcount: A:0.79, C:0.02, G:0.03, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:27405536 original size:16 final size:16
Alignment explanation
Indices: 27405515--27405545 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27405505 TTCATTATTA
*
27405515 TGTCTTTTGTATTTTT
1 TGTCTTTTATATTTTT
27405531 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
27405546 GCACGAAAAG
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:0.10, C:0.06, G:0.10, T:0.74
Consensus pattern (16 bp):
TGTCTTTTATATTTTT
Found at i:27424844 original size:20 final size:20
Alignment explanation
Indices: 27424801--27424841 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
27424791 TGATCAGTTT
27424801 AATTAAAAAAATCATTAAAA
1 AATTAAAAAAATCATTAAAA
*
27424821 AATTATAAAAAT-ATTAAAA
1 AATTAAAAAAATCATTAAAA
27424840 AA
1 AA
27424842 ATTGATTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
AATTAAAAAAATCATTAAAA
Found at i:27425314 original size:14 final size:14
Alignment explanation
Indices: 27425295--27425326 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
27425285 ATAAATGAGT
27425295 TCGAATCGTCAAAA
1 TCGAATCGTCAAAA
27425309 TCGAATCGTCAAAA
1 TCGAATCGTCAAAA
27425323 TCGA
1 TCGA
27425327 CTAACTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.22
Consensus pattern (14 bp):
TCGAATCGTCAAAA
Found at i:27428932 original size:44 final size:44
Alignment explanation
Indices: 27428878--27428966 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
27428868 TACCGATGGG
*
27428878 TGGTTTAACTAGCCTCCAAGTCTCATTCTTTTGAAACGATTTCA
1 TGGTTGAACTAGCCTCCAAGTCTCATTCTTTTGAAACGATTTCA
* *
27428922 TGGTTGAACTAGCCTCCAAGTCTCGTTCTTTTGAAGCGATTTCA
1 TGGTTGAACTAGCCTCCAAGTCTCATTCTTTTGAAACGATTTCA
27428966 T
1 T
27428967 CTCTTCTTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.38
Consensus pattern (44 bp):
TGGTTGAACTAGCCTCCAAGTCTCATTCTTTTGAAACGATTTCA
Found at i:27430244 original size:32 final size:32
Alignment explanation
Indices: 27430203--27430266 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
27430193 TATTTGAAAA
*
27430203 GGCTTTTATTGCACAAGACTATCATACCTTTC
1 GGCTTTTATTGCACAAGACTATAATACCTTTC
27430235 GGCTTTTATTGCACAAGACTATAATACCTTTC
1 GGCTTTTATTGCACAAGACTATAATACCTTTC
27430267 TCACTCATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (32 bp):
GGCTTTTATTGCACAAGACTATAATACCTTTC
Found at i:27433984 original size:15 final size:15
Alignment explanation
Indices: 27433964--27433994 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
27433954 AGTTTATACG
27433964 AATCCATATCATCAA
1 AATCCATATCATCAA
27433979 AATCCATATCATCAA
1 AATCCATATCATCAA
27433994 A
1 A
27433995 CACGATAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (15 bp):
AATCCATATCATCAA
Found at i:27434062 original size:25 final size:25
Alignment explanation
Indices: 27434034--27434222 Score: 159
Period size: 25 Copynumber: 7.6 Consensus size: 25
27434024 AAGTAAAACC
* *
27434034 AAGCATTTGTGGCGAGTTATCTTTA
1 AAGCCTTTGTGGCGAGTTATCTATA
* * *
27434059 AAGCCGTTGTGGCGAATTATCTAAA
1 AAGCCTTTGTGGCGAGTTATCTATA
* *
27434084 AAGCCTTTGTGGTGAGTTATCTGT-
1 AAGCCTTTGTGGCGAGTTATCTATA
* ** * *
27434108 AAGCCCTTGTGGAAAATTATC-AGAA
1 AAGCCTTTGTGGCGAGTTATCTA-TA
* *
27434133 AATCCTTTTGTGGTGAGTTATCTATA
1 AAGCC-TTTGTGGCGAGTTATCTATA
* *
27434159 AAGCCTTTGTGACAAGTTATCTATA
1 AAGCCTTTGTGGCGAGTTATCTATA
* * *
27434184 AAGCCTTTGCGGTGAATTATCTGA-A
1 AAGCCTTTGTGGCGAGTTATCT-ATA
27434209 AAGCCTTTGTGGCG
1 AAGCCTTTGTGGCG
27434223 TGTTGCACGA
Statistics
Matches: 126, Mismatches: 33, Indels: 10
0.75 0.20 0.06
Matches are distributed among these distances:
24 17 0.13
25 90 0.71
26 18 0.14
27 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
AAGCCTTTGTGGCGAGTTATCTATA
Found at i:27434105 original size:50 final size:50
Alignment explanation
Indices: 27434034--27434222 Score: 204
Period size: 50 Copynumber: 3.8 Consensus size: 50
27434024 AAGTAAAACC
* * * *
27434034 AAGCATTTGTGGCGAGTTATCTTTAAAGCCGTTGTGGCGAATTATCTAAA
1 AAGCCTTTGTGGTGAGTTATCTGTAAAGCCTTTGTGGCGAATTATCTAAA
* **
27434084 AAGCCTTTGTGGTGAGTTATCTGT-AAGCCCTTGTGGAAAATTATC-AGAA
1 AAGCCTTTGTGGTGAGTTATCTGTAAAGCCTTTGTGGCGAATTATCTA-AA
* * * *
27434133 AATCCTTTTGTGGTGAGTTATCTATAAAGCCTTTGTGAC-AAGTTATCTATA
1 AAGCC-TTTGTGGTGAGTTATCTGTAAAGCCTTTGTGGCGAA-TTATCTAAA
* * *
27434184 AAGCCTTTGCGGTGAATTATCTGAAAAGCCTTTGTGGCG
1 AAGCCTTTGTGGTGAGTTATCTGTAAAGCCTTTGTGGCG
27434223 TGTTGCACGA
Statistics
Matches: 115, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
48 1 0.01
49 24 0.21
50 69 0.60
51 20 0.17
52 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (50 bp):
AAGCCTTTGTGGTGAGTTATCTGTAAAGCCTTTGTGGCGAATTATCTAAA
Found at i:27434177 original size:75 final size:75
Alignment explanation
Indices: 27434058--27434222 Score: 188
Period size: 75 Copynumber: 2.2 Consensus size: 75
27434048 AGTTATCTTT
* *** * *
27434058 AAAGCCGTTGTGGCGAATTATCTAAAAAGCCTTTGTGGTGAGTTATCTGT-AAGCCCTTGTGGAA
1 AAAGCCTTTGTGGCGAATTATCTAAAAAGCCTTTGTGACAAGTTATCTATAAAGCCCTTGCGGAA
27434122 AATTATCAGA
66 AATTATCAGA
* * * * * *
27434132 AAATCCTTTTGTGGTGAGTTATCTATAAAGCCTTTGTGACAAGTTATCTATAAAGCCTTTGCGGT
1 AAAGCC-TTTGTGGCGAATTATCTAAAAAGCCTTTGTGACAAGTTATCTATAAAGCCCTTGCGGA
* *
27434197 GAATTATCTGA
65 AAATTATCAGA
27434208 AAAGCCTTTGTGGCG
1 AAAGCCTTTGTGGCG
27434223 TGTTGCACGA
Statistics
Matches: 73, Mismatches: 16, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
74 5 0.07
75 44 0.60
76 24 0.33
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (75 bp):
AAAGCCTTTGTGGCGAATTATCTAAAAAGCCTTTGTGACAAGTTATCTATAAAGCCCTTGCGGAA
AATTATCAGA
Found at i:27437850 original size:39 final size:39
Alignment explanation
Indices: 27437807--27438026 Score: 252
Period size: 39 Copynumber: 5.6 Consensus size: 39
27437797 TACTCGTTCA
*
27437807 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
*
27437846 AATGCCTTC-GGATCTTAGTCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGGA-CTTAGCCCGGTTATAGTAACTCGCAC
*
27437885 AATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA-C
*
27437925 AATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCAC
* * * * *
27437963 AAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCAC
*
27438004 AAAGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
27438027 ACATCATTCA
Statistics
Matches: 156, Mismatches: 13, Indels: 23
0.81 0.07 0.12
Matches are distributed among these distances:
38 6 0.04
39 92 0.59
40 49 0.31
41 9 0.06
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
Found at i:27445948 original size:39 final size:39
Alignment explanation
Indices: 27445905--27446072 Score: 218
Period size: 39 Copynumber: 4.3 Consensus size: 39
27445895 TACTCGTTCA
*
27445905 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
*
27445944 AATGCCTTC-GGATCTTAGTCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGGA-CTTAGCCCGGTTATAGTAACTCGCAC
* *
27445983 AATGCCTTCGGGACTTAACCCAGATT-TAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCC-GGTTATAGTAACTCGCA-C
*
27446023 AATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCAC
27446061 AAATGCCTTCGG
1 -AATGCCTTCGG
27446073 ATCTTAGTCC
Statistics
Matches: 114, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
38 5 0.04
39 90 0.79
40 19 0.17
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
Found at i:27460584 original size:40 final size:39
Alignment explanation
Indices: 27460524--27460666 Score: 171
Period size: 40 Copynumber: 3.6 Consensus size: 39
27460514 TTTGAATACA
* * *
27460524 CACACACGTGTCCTTGATTGTACTTTGGTACCCCTAATTG
1 CACATACGTGCCCCTGATTGTACTTTGGTACCCCTAA-TG
* * *
27460564 CACATACGTGTCCCTGATTGTACTTCGGTACCCTTGAATG
1 CACATACGTGCCCCTGATTGTACTTTGGTACCCCT-AATG
27460604 CACATACGTGCCCCT-ATTTGTACTTTGGTACCCCTAAATG
1 CACATACGTGCCCCTGA-TTGTACTTTGGTACCCCT-AATG
* *
27460644 CATATACGTGCCCCTGTTTGTAC
1 CACATACGTGCCCCTGATTGTAC
27460667 CTCAGTAACT
Statistics
Matches: 90, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 1 0.01
40 87 0.97
41 2 0.02
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (39 bp):
CACATACGTGCCCCTGATTGTACTTTGGTACCCCTAATG
Found at i:27465861 original size:15 final size:15
Alignment explanation
Indices: 27465808--27465861 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
27465798 GGAAGAGGTA
27465808 GAGAATTTGTTCGTT
1 GAGAATTTGTTCGTT
* *
27465823 GAGAGTTCGTT-G-T
1 GAGAATTTGTTCGTT
*
27465836 GAAGAACTTGTTCGTT
1 G-AGAATTTGTTCGTT
27465852 GAGAATTTGT
1 GAGAATTTGT
27465862 GTCAAGGTGG
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
13 2 0.07
14 8 0.27
15 18 0.60
16 2 0.07
ACGTcount: A:0.22, C:0.07, G:0.30, T:0.41
Consensus pattern (15 bp):
GAGAATTTGTTCGTT
Found at i:27466621 original size:119 final size:119
Alignment explanation
Indices: 27466409--27466643 Score: 310
Period size: 119 Copynumber: 2.0 Consensus size: 119
27466399 AGAAAATTTA
* * * * * *
27466409 TTTAAGCTCAACTCCTATCTCTTAAGTTGTAGCCTCACCTTTGTACGATCTAGTATTGGTTTTAA
1 TTTAAACTCAACTCCTATCTCTCAAGTTGCAACCTCACCTTTGTACAATCTAGTATTGGTTCTAA
** * *
27466474 CTCACTGCTCTTGTAATCACTTAGAAAGTGTCTACAATAACCATCTAAGAATGG
66 CTCACTGCTCTTCCAATCACTTAAAAAGTGTCTACAACAACCATCTAAGAATGG
* *
27466528 TTTAAACTCAACTCCTATCTCTCAAGTTGCAATCTCACCTTTGTACAATCTATTATTGGTTCTAA
1 TTTAAACTCAACTCCTATCTCTCAAGTTGCAACCTCACCTTTGTACAATCTAGTATTGGTTCTAA
* * * *
27466593 CATC-TTGTTCTTCCAATCACTTAAAAAGTGTTTACAACAACTATCTAAGAA
66 C-TCACTGCTCTTCCAATCACTTAAAAAGTGTCTACAACAACCATCTAAGAA
27466644 AAAGATATCT
Statistics
Matches: 99, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
119 97 0.98
120 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.37
Consensus pattern (119 bp):
TTTAAACTCAACTCCTATCTCTCAAGTTGCAACCTCACCTTTGTACAATCTAGTATTGGTTCTAA
CTCACTGCTCTTCCAATCACTTAAAAAGTGTCTACAACAACCATCTAAGAATGG
Found at i:27474495 original size:29 final size:31
Alignment explanation
Indices: 27474460--27474557 Score: 91
Period size: 29 Copynumber: 3.3 Consensus size: 31
27474450 AATGGATAGT
27474460 CTTTGTGGC-ATAACT-TTGGACAGGAAAGC
1 CTTTGTGGCGATAACTATTGGACAGGAAAGC
* * *
27474489 CTTTGTGGCGAGTAA-TGAATGAAAAGGACAA-C
1 CTTTGTGGCGA-TAACT-ATTGGACAGGA-AAGC
*
27474521 CTTTGTGGCGA-AACTCTT-GACAGGAAAGC
1 CTTTGTGGCGATAACTATTGGACAGGAAAGC
27474550 CTTTGTGG
1 CTTTGTGG
27474558 TAACCTCTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
28 2 0.04
29 23 0.42
30 5 0.09
31 4 0.07
32 19 0.35
33 2 0.04
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (31 bp):
CTTTGTGGCGATAACTATTGGACAGGAAAGC
Found at i:27476591 original size:16 final size:15
Alignment explanation
Indices: 27476572--27476610 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
27476562 AAGTATAATA
27476572 TTATTGAAATTTTAGT
1 TTATTGAAATTTT-GT
27476588 TTATT-AAATTTTGT
1 TTATTGAAATTTTGT
*
27476602 TAATTGAAA
1 TTATTGAAA
27476611 GAATAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 6 0.29
15 10 0.48
16 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (15 bp):
TTATTGAAATTTTGT
Found at i:27480281 original size:64 final size:63
Alignment explanation
Indices: 27480213--27480371 Score: 187
Period size: 64 Copynumber: 2.5 Consensus size: 63
27480203 ACGGGCATGG
* *
27480213 GACACGAGCGTGTGTCCAGGCCGTGTAACTCACTGAT-TACAAGGTAAGGATCACAT-GGGCCAG
1 GACACGAGCGTGTGTCCAGGCCGTGTAACTCACT-ATCTACAA-GTAAGAAAC-CATAGGGCCAG
27480276 A
63 A
* * ** * *
27480277 GACACGAGCGTGTGTCCAGGCCATGTGACTCACTATCTGTAATTTAGAAACCATACGGGCCAGA
1 GACACGAGCGTGTGTCCAGGCCGTGTAACTCACTATCTACAAGTAAGAAACCATA-GGGCCAGA
*
27480341 GACACGGGCGTGTGTCCAGGCCGTGTAACTC
1 GACACGAGCGTGTGTCCAGGCCGTGTAACTC
27480372 GCTGTTTGTG
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
62 3 0.04
63 7 0.09
64 71 0.88
ACGTcount: A:0.26, C:0.25, G:0.29, T:0.20
Consensus pattern (63 bp):
GACACGAGCGTGTGTCCAGGCCGTGTAACTCACTATCTACAAGTAAGAAACCATAGGGCCAGA
Found at i:27480386 original size:64 final size:64
Alignment explanation
Indices: 27480269--27480424 Score: 215
Period size: 64 Copynumber: 2.5 Consensus size: 64
27480259 AGGATCACAT
* * *
27480269 GGGCCAGAGACACGAGCGTGTGTCCAGGCCATGTGACTCACTATCTGTAATTTAGAAACCATAC
1 GGGCCAGAGACACGGGCGTGTGTCCAGGCCATGTAACTCACTATCTGTAATTTAAAAACCATAC
* * * * *
27480333 GGGCCAGAGACACGGGCGTGTGTCCAGGCCGTGTAACTCGCTGTTTGTGATTTAAAAACCATAC
1 GGGCCAGAGACACGGGCGTGTGTCCAGGCCATGTAACTCACTATCTGTAATTTAAAAACCATAC
* *
27480397 GGGCCAGTGACACGGGTGTGTGT-CAGGC
1 GGGCCAGAGACACGGGCGTGTGTCCAGGC
27480425 ATTGCGAGGG
Statistics
Matches: 82, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
63 5 0.06
64 77 0.94
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.22
Consensus pattern (64 bp):
GGGCCAGAGACACGGGCGTGTGTCCAGGCCATGTAACTCACTATCTGTAATTTAAAAACCATAC
Found at i:27487253 original size:17 final size:17
Alignment explanation
Indices: 27487211--27487253 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
27487201 ATCTCAAGAA
*
27487211 AATAGAAGCTATAATTG
1 AATAGAAGTTATAATTG
*
27487228 AATAGAAGTTATAGTTG
1 AATAGAAGTTATAATTG
27487245 AATAGAAGT
1 AATAGAAGT
27487254 AACCGGCGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.21, T:0.30
Consensus pattern (17 bp):
AATAGAAGTTATAATTG
Found at i:27489096 original size:20 final size:20
Alignment explanation
Indices: 27489080--27489126 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
27489070 CCATTTTCCT
27489080 TTTTTTCTTTTCTTTTTAAG
1 TTTTTTCTTTTCTTTTTAAG
27489100 TTTTTTC-TTTC-TTTTAA-
1 TTTTTTCTTTTCTTTTTAAG
27489117 -TTTTTCTTTT
1 TTTTTTCTTTT
27489127 TGATTGTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 6 0.23
17 3 0.12
18 6 0.23
19 4 0.15
20 7 0.27
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTTTTCTTTTCTTTTTAAG
Found at i:27489103 original size:19 final size:17
Alignment explanation
Indices: 27489081--27489126 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
27489071 CATTTTCCTT
27489081 TTTTTCTTTTCTTTTTAA
1 TTTTTCTTTTC-TTTTAA
27489099 GTTTTT-TCTTTCTTTTAA
1 -TTTTTCT-TTTCTTTTAA
27489117 TTTTTCTTTT
1 TTTTTCTTTT
27489127 TGATTGTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 8 0.32
18 8 0.32
19 9 0.36
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTTCTTTTCTTTTAA
Found at i:27489826 original size:63 final size:64
Alignment explanation
Indices: 27489752--27489877 Score: 173
Period size: 63 Copynumber: 2.0 Consensus size: 64
27489742 GATCACATAG
* *
27489752 GCCAGAGACACAGGCGTGAGTCTAAGCCGTATGACTCACT-TGTGTAATTTAGAAACCACACGA
1 GCCAGAGACACAGGCGTGAGTCTAAGCCATATAACTCACTGTGTGTAATTTAGAAACCACACGA
* * * * * *
27489815 GCCAGAGACACAGGCGTGTGTCTAGGTCATGTAACTCACTGTTTGTGATTTAGAAACCACACG
1 GCCAGAGACACAGGCGTGAGTCTAAGCCATATAACTCACTGTGTGTAATTTAGAAACCACACG
27489878 GGCGTGTGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
63 34 0.63
64 20 0.37
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (64 bp):
GCCAGAGACACAGGCGTGAGTCTAAGCCATATAACTCACTGTGTGTAATTTAGAAACCACACGA
Found at i:27493799 original size:190 final size:189
Alignment explanation
Indices: 27493460--27493837 Score: 639
Period size: 190 Copynumber: 2.0 Consensus size: 189
27493450 GACTAAAGAT
* * *
27493460 TTGTCTGACTGAGTGTATCACTTTGAAATACTCTAGTGTTGTTAGTGAAAAGAAAGAAAGAACTT
1 TTGTCTAACCGAGTGCATCACTTTGAAATACTCTAGTGTTGTTAGTGAAAAGAAAGAAAGAACTT
* * *
27493525 TGAGATTGTGTATTGACTATAGAAAGTTGATAATAGTCACAATGAAGAATAATATTTGATACCTC
66 TAAGATTGTGTATTGACTACAGAAAGTTGATAATAGTCACAATGAAGAATAAAATTTGATACCTC
*
27493590 GTATTGATGACTTGTTTGATTAGTTGTGAGAAGCTACTGTGTTTTTAAAAGATTGACAAC
131 GTATTGATGACTTGTTTGATCAGTTGTGAGAAGCTACTGTGTTTTT-AAAGATTGACAAC
* * * *
27493650 TTGTCTAACCGAGTGCATCACTTTGAAATGCTTTAGTGTTTTTAGTGAAAAGAAATAAAGAACTT
1 TTGTCTAACCGAGTGCATCACTTTGAAATACTCTAGTGTTGTTAGTGAAAAGAAAGAAAGAACTT
*
27493715 TAAGATTGTGTATTGACTACAGAAAGTTGATAATAGTCACCATGAAGAATAAAATTTGATACCTC
66 TAAGATTGTGTATTGACTACAGAAAGTTGATAATAGTCACAATGAAGAATAAAATTTGATACCTC
27493780 GTATTGATGACTTGTTTGATCAGTTGTGAGAAGCTACTGTGTTTTTAAAGATTGACAA
131 GTATTGATGACTTGTTTGATCAGTTGTGAGAAGCTACTGTGTTTTTAAAGATTGACAA
27493838 TTCGATTATT
Statistics
Matches: 176, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
189 12 0.07
190 164 0.93
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.35
Consensus pattern (189 bp):
TTGTCTAACCGAGTGCATCACTTTGAAATACTCTAGTGTTGTTAGTGAAAAGAAAGAAAGAACTT
TAAGATTGTGTATTGACTACAGAAAGTTGATAATAGTCACAATGAAGAATAAAATTTGATACCTC
GTATTGATGACTTGTTTGATCAGTTGTGAGAAGCTACTGTGTTTTTAAAGATTGACAAC
Found at i:27495174 original size:10 final size:10
Alignment explanation
Indices: 27495132--27495181 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
27495122 ACAATTAAGG
27495132 TAATTAATTA
1 TAATTAATTA
*
27495142 TAGTTAATTA
1 TAATTAATTA
*
27495152 T-GTTAATTTA
1 TAATTAA-TTA
27495162 TAATTAATTA
1 TAATTAATTA
27495172 TAATTTAATT
1 TAA-TTAATT
27495182 TATGTATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 5 0.14
10 20 0.57
11 10 0.29
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (10 bp):
TAATTAATTA
Found at i:27497797 original size:6 final size:6
Alignment explanation
Indices: 27497786--27497813 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
27497776 TAAACAAAAA
27497786 AAAATT AAAATT AAAATT AAAATT AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAA
27497814 CAAGAAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:27500844 original size:40 final size:39
Alignment explanation
Indices: 27500614--27500837 Score: 231
Period size: 40 Copynumber: 5.6 Consensus size: 39
27500604 TGAATGATGT
* * * *
27500614 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
27500654 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* * *
27500694 TCGGGCTAAG-CCCGAAGGCATTGGTACGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27500732 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
27500773 CCGGACTAAGAT-CTGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
27500813 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
27500838 AACGAGTAGC
Statistics
Matches: 156, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
39 34 0.22
40 111 0.71
41 11 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27500859 original size:119 final size:119
Alignment explanation
Indices: 27500613--27500860 Score: 324
Period size: 119 Copynumber: 2.1 Consensus size: 119
27500603 TTGAATGATG
* *
27500613 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
** *
27500678 GTGCGAGTTACTAATTTCGGGCTAAGCCCGAAGGCATTGGTACGAGTTACTAAA
66 GTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * *
27500732 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGACTAAGATCTGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATT
* * *
27500796 TGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
65 TGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
27500852 TCC-GGTTAA
1 TCCGGGTTAA
27500861 ATTCCAAAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
118 2 0.02
119 79 0.70
120 32 0.28
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:27508927 original size:40 final size:39
Alignment explanation
Indices: 27508870--27509113 Score: 269
Period size: 40 Copynumber: 6.1 Consensus size: 39
27508860 TTGAATGATG
* * *
27508870 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTATA
*
27508910 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATA
* * *
27508949 TTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATA
*
27508989 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATA
* *
27509029 ACCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATA
* * **
27509069 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTA-CTATA
27509109 TCCGG
1 TCCGG
27509114 TTAAATTCCG
Statistics
Matches: 177, Mismatches: 19, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
39 38 0.21
40 130 0.73
41 9 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:27509116 original size:119 final size:119
Alignment explanation
Indices: 27508870--27509127 Score: 335
Period size: 119 Copynumber: 2.2 Consensus size: 119
27508860 TTGAATGATG
* *
27508870 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
* **
27508935 GTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * *
27508989 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATT
* * *
27509053 TGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
65 TGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
27509109 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
27509128 TACGTGATTT
Statistics
Matches: 122, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
118 2 0.02
119 89 0.73
120 31 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:27511091 original size:16 final size:16
Alignment explanation
Indices: 27511069--27511107 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
27511059 TTTTTTTTTG
*
27511069 AATTTTTATGTTTATTT
1 AATTTTAAT-TTTATTT
27511086 AATTTTAATTTTATTT
1 AATTTTAATTTTATTT
27511102 AATTTT
1 AATTTT
27511108 TTCAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
AATTTTAATTTTATTT
Found at i:27511092 original size:10 final size:9
Alignment explanation
Indices: 27511088--27511121 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
27511078 GTTTATTTAA
27511088 TTTTAATTT
1 TTTTAATTT
27511097 TATTTAATTT
1 T-TTTAATTT
*
27511107 TTTCAATTT
1 TTTTAATTT
27511116 TTTTAA
1 TTTTAA
27511122 AAAATTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTTAATTT
Found at i:27516832 original size:6 final size:6
Alignment explanation
Indices: 27516821--27516861 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
27516811 ATATAGGATC
*
27516821 TTGTTT TTGTTT TTGTTT TT-TTG TT-TTT TTGTTT TT-TTT TT
1 TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT TT
27516862 TTTGATGTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
5 13 0.41
6 19 0.59
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (6 bp):
TTGTTT
Found at i:27516843 original size:8 final size:8
Alignment explanation
Indices: 27516830--27516864 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
27516820 CTTGTTTTTG
27516830 TTTTTGTT
1 TTTTTGTT
27516838 TTTTTGTT
1 TTTTTGTT
27516846 TTTTTGTT
1 TTTTTGTT
27516854 TTTTT-TT
1 TTTTTGTT
27516861 TTTT
1 TTTT
27516865 GATGTCTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (8 bp):
TTTTTGTT
Found at i:27516851 original size:16 final size:15
Alignment explanation
Indices: 27516824--27516864 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
27516814 TAGGATCTTG
*
27516824 TTTTTGTTTTTGTTT
1 TTTTTTTTTTTGTTT
27516839 TTTTGTTTTTTTGTTT
1 TTTT-TTTTTTTGTTT
27516855 TTTTTTTTTT
1 TTTTTTTTTT
27516865 GATGTCTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (15 bp):
TTTTTTTTTTTGTTT
Found at i:27516852 original size:22 final size:22
Alignment explanation
Indices: 27516824--27516865 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
27516814 TAGGATCTTG
27516824 TTTTTGTTTTTGTTTTTTTGTT
1 TTTTTGTTTTTGTTTTTTTGTT
*
27516846 TTTTTGTTTTTTTTTTTTTG
1 TTTTTGTTTTTGTTTTTTTG
27516866 ATGTCTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (22 bp):
TTTTTGTTTTTGTTTTTTTGTT
Found at i:27528086 original size:30 final size:30
Alignment explanation
Indices: 27528025--27528086 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
27528015 GGAGGGGAGG
* * **
27528025 GGAGTAAAAGTTTTGGGGGAAATGTCGAAA
1 GGAGTAAAAGTTTTGAGGGAAAAGTAAAAA
27528055 GGAGTAAAAGTTTTGAGGGAAAAGTAAAAA
1 GGAGTAAAAGTTTTGAGGGAAAAGTAAAAA
27528085 GG
1 GG
27528087 TTAGGGAGTT
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:0.42, C:0.02, G:0.35, T:0.21
Consensus pattern (30 bp):
GGAGTAAAAGTTTTGAGGGAAAAGTAAAAA
Found at i:27528145 original size:9 final size:9
Alignment explanation
Indices: 27528131--27528164 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
27528121 AGTTTGATAC
27528131 TCGAATTAT
1 TCGAATTAT
27528140 TCGAATTAT
1 TCGAATTAT
*
27528149 TCGAGTTAT
1 TCGAATTAT
*
27528158 TTGAATT
1 TCGAATT
27528165 CGAAAACTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.47
Consensus pattern (9 bp):
TCGAATTAT
Found at i:27533637 original size:14 final size:14
Alignment explanation
Indices: 27533620--27533646 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27533610 TCAACTTGAA
27533620 ATATATATTCATTC
1 ATATATATTCATTC
27533634 ATATATATTCATT
1 ATATATATTCATT
27533647 TCGAACATAT
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:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATATATTCATTC
Found at i:27533787 original size:28 final size:27
Alignment explanation
Indices: 27533735--27533843 Score: 112
Period size: 28 Copynumber: 3.9 Consensus size: 27
27533725 CGAGACTGAT
* * * *
27533735 TTTCTCACACAAGCTGTAATTTTTGAA
1 TTTCTCACACTAGTTGTGATATTTGAA
*
27533762 TTTGCTTACACTAGTTGTGATATTTGAA
1 TTT-CTCACACTAGTTGTGATATTTGAA
*
27533790 TTTTCTCACA-TGAGCTGTGATATTTGAA
1 -TTTCTCACACT-AGTTGTGATATTTGAA
*
27533818 CTTTCTCACACAAGTTGTGATATTTG
1 -TTTCTCACACTAGTTGTGATATTTG
27533844 GGCTGCTCAC
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
27 4 0.06
28 61 0.90
29 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.43
Consensus pattern (27 bp):
TTTCTCACACTAGTTGTGATATTTGAA
Found at i:27533834 original size:56 final size:56
Alignment explanation
Indices: 27533733--27533843 Score: 152
Period size: 56 Copynumber: 2.0 Consensus size: 56
27533723 CACGAGACTG
* * *
27533733 ATTTTCTCACACAAGCTGTAATTTTTGAATTTGCTTACACTAGTTGTGATATTTGA
1 ATTTTCTCACACAAGCTGTAATATTTGAATTTGCTCACACAAGTTGTGATATTTGA
** *
27533789 ATTTTCTCACATGAGCTGTGATATTTGAACTTT-CTCACACAAGTTGTGATATTTG
1 ATTTTCTCACACAAGCTGTAATATTTGAA-TTTGCTCACACAAGTTGTGATATTTG
27533844 GGCTGCTCAC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
56 45 0.94
57 3 0.06
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (56 bp):
ATTTTCTCACACAAGCTGTAATATTTGAATTTGCTCACACAAGTTGTGATATTTGA
Found at i:27552079 original size:27 final size:27
Alignment explanation
Indices: 27551808--27552077 Score: 283
Period size: 27 Copynumber: 10.0 Consensus size: 27
27551798 CACTTTACCA
27551808 TCGGGGGTATTTCGATAATTTTACCCT
1 TCGGGGGTATTTCGATAATTTTACCCT
* * * * * * *
27551835 TCAGGGGCATTTAGGTAGTTTTAACTT
1 TCGGGGGTATTTCGATAATTTTACCCT
*
27551862 TCGAGGGTATTTCGATAATTTTACCCT
1 TCGGGGGTATTTCGATAATTTTACCCT
**
27551889 TCAAGGGTATTTCGATAATTTTACCCT
1 TCGGGGGTATTTCGATAATTTTACCCT
* * *
27551916 TCGGGGGTATTTCGGTACTTTTACCTT
1 TCGGGGGTATTTCGATAATTTTACCCT
* * *
27551943 TCAGGGGTATTTTGGTAATTTTACCCT
1 TCGGGGGTATTTCGATAATTTTACCCT
* * *
27551970 TTGAGGGTATTT-TAGTAATTTTACCCT
1 TCGGGGGTATTTCGA-TAATTTTACCCT
* *
27551997 TCGAGGGTATTTTGATAATTTTACCCT
1 TCGGGGGTATTTCGATAATTTTACCCT
* * *
27552024 TCGGGGGTATTTCGGTCATTCTACCCT
1 TCGGGGGTATTTCGATAATTTTACCCT
*
27552051 AT-GGGGGTATTTCGATCATTTTACCCT
1 -TCGGGGGTATTTCGATAATTTTACCCT
27552078 ATAAAATTAT
Statistics
Matches: 201, Mismatches: 39, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
27 199 0.99
28 2 0.01
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.42
Consensus pattern (27 bp):
TCGGGGGTATTTCGATAATTTTACCCT
Found at i:27554959 original size:18 final size:18
Alignment explanation
Indices: 27554936--27554983 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
27554926 TAAGTGCATT
27554936 TTAATTATTTTTTAAAAA
1 TTAATTATTTTTTAAAAA
*
27554954 TTAATTATTTTGTAAAAA
1 TTAATTATTTTTTAAAAA
*
27554972 TTTATTATTTTT
1 TTAATTATTTTT
27554984 CGACAAGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TTAATTATTTTTTAAAAA
Found at i:27555574 original size:17 final size:17
Alignment explanation
Indices: 27555554--27555607 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
27555544 GGTTAATGTA
27555554 TATGTATGAGGTTATAC
1 TATGTATGAGGTTATAC
* *
27555571 TATGTTTGA--TATGTA-
1 TATGTATGAGGT-TATAC
27555586 TATGTATGAGGTTATAC
1 TATGTATGAGGTTATAC
*
27555603 AATGT
1 TATGT
27555608 TAGAGTATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 8
0.68 0.12 0.20
Matches are distributed among these distances:
15 9 0.32
16 6 0.21
17 13 0.46
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (17 bp):
TATGTATGAGGTTATAC
Found at i:27555590 original size:32 final size:33
Alignment explanation
Indices: 27555549--27555617 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 33
27555539 AGTATGGTTA
* *
27555549 ATGTATATGTATGAGGTTATACTATGTTTGA-T
1 ATGTATATGTATGAGGTTATACAATGTTAGAGT
27555581 ATGTATATGTATGAGGTTATACAATGTTAGAGT
1 ATGTATATGTATGAGGTTATACAATGTTAGAGT
27555614 ATGT
1 ATGT
27555618 TCAATTGAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 29 0.85
33 5 0.15
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.43
Consensus pattern (33 bp):
ATGTATATGTATGAGGTTATACAATGTTAGAGT
Found at i:27556061 original size:13 final size:13
Alignment explanation
Indices: 27556043--27556118 Score: 80
Period size: 14 Copynumber: 5.5 Consensus size: 13
27556033 CCGTGTGAAC
27556043 CACACGGCCTGGG
1 CACACGGCCTGGG
* *
27556056 CACACGGGCGTGTGT
1 CACAC-GGCCTG-GG
27556071 CACACGGCCTGGG
1 CACACGGCCTGGG
* *
27556084 CACACGGGCGTGTGT
1 CACAC-GGCCTG-GG
27556099 CACACGGCCTGGG
1 CACACGGCCTGGG
27556112 CACACGG
1 CACACGG
27556119 GCGTGTGTCT
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
13 19 0.37
14 20 0.39
15 12 0.24
ACGTcount: A:0.16, C:0.34, G:0.38, T:0.12
Consensus pattern (13 bp):
CACACGGCCTGGG
Found at i:27556076 original size:28 final size:28
Alignment explanation
Indices: 27556043--27556127 Score: 170
Period size: 28 Copynumber: 3.0 Consensus size: 28
27556033 CCGTGTGAAC
27556043 CACACGGCCTGGGCACACGGGCGTGTGT
1 CACACGGCCTGGGCACACGGGCGTGTGT
27556071 CACACGGCCTGGGCACACGGGCGTGTGT
1 CACACGGCCTGGGCACACGGGCGTGTGT
27556099 CACACGGCCTGGGCACACGGGCGTGTGT
1 CACACGGCCTGGGCACACGGGCGTGTGT
27556127 C
1 C
27556128 TCCTGCATCT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.14, C:0.33, G:0.39, T:0.14
Consensus pattern (28 bp):
CACACGGCCTGGGCACACGGGCGTGTGT
Found at i:27557545 original size:47 final size:47
Alignment explanation
Indices: 27557467--27558022 Score: 943
Period size: 47 Copynumber: 11.7 Consensus size: 47
27557457 CCCTTCGGGA
* * * * * *
27557467 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27557514 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27557561 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27557608 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27557655 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27557702 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27557749 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27557796 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27557843 CTTATCACATATATATACAGTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27557892 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27557941 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27557988 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
27558023 AGAATCCTAA
Statistics
Matches: 489, Mismatches: 17, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
46 1 0.00
47 394 0.81
49 94 0.19
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27561679 original size:25 final size:25
Alignment explanation
Indices: 27561642--27561693 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
27561632 AAGGAATTCG
27561642 CACACACACAGTGC-CTCTAATCATT
1 CACACACACAGTGCTCT-TAATCATT
* *
27561667 CACACACATAGTGCTCTTATTCATT
1 CACACACACAGTGCTCTTAATCATT
27561692 CA
1 CA
27561694 TTATTACACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.29
Consensus pattern (25 bp):
CACACACACAGTGCTCTTAATCATT
Found at i:27561901 original size:40 final size:40
Alignment explanation
Indices: 27561869--27562263 Score: 569
Period size: 40 Copynumber: 9.8 Consensus size: 40
27561859 CCAGCATGAT
* * * * *
27561869 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* *** * *
27561909 CGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* * *
27561949 TGCTCTTATTGGAGACTTTGCCCAGATACATCACTAGCACGAA
1 TGCTC-T-TCGGA-ACTTAGCCCGGATACATCACTAGCACGAA
27561992 TGCTCTTC-GAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGA-ACTTAGCCCGGATACATCACTAGCACGAA
* *
27562032 TGCTCTTCGAAACTTAGCCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
27562072 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
27562112 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
27562152 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
27562192 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
27562232 TGCTCTTC-GAGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGA-ACTTAGCCCGGATACATCACT
27562264 CTCAATTCTC
Statistics
Matches: 323, Mismatches: 27, Indels: 10
0.90 0.08 0.03
Matches are distributed among these distances:
39 2 0.01
40 286 0.89
41 3 0.01
42 4 0.01
43 28 0.09
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:27563860 original size:49 final size:47
Alignment explanation
Indices: 27563638--27564005 Score: 549
Period size: 47 Copynumber: 7.7 Consensus size: 47
27563628 CCCTTCGGGA
* * * * * *
27563638 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27563685 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27563732 CTTATCACATATATACACTTTCACATTCATCACATCGGACATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27563779 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27563826 CTTATCACATCTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
27563875 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27563924 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
27563971 CATATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
27564006 AGAATCCTAA
Statistics
Matches: 296, Mismatches: 20, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 203 0.69
49 91 0.31
51 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27563984 original size:192 final size:188
Alignment explanation
Indices: 27563638--27564005 Score: 567
Period size: 192 Copynumber: 1.9 Consensus size: 188
27563628 CCCTTCGGGA
* * * *
27563638 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
27563703 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
* *
27563768 GGACATTAGGCCTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGAC
131 GGACATTAGGCCATATCACATATATACA-TGTTCACATCCATCACATCGGCCATTAGAC
* * *
27563826 CTTATCACATCTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACAT-T-TATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCAC--ATATAT
27563891 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
62 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
* * *
27563956 CATCGGCCATTAGGCCATATCTCATATATGCATGTTCACATCCATCACAT
127 CATCGGACATTAGGCCATATCACATATATACATGTTCACATCCATCACAT
27564006 AGAATCCTAA
Statistics
Matches: 162, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
188 10 0.06
189 1 0.01
190 37 0.23
191 1 0.01
192 113 0.70
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (188 bp):
CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGACATTAGGCCATATCACATATATACATGTTCACATCCATCACATCGGCCATTAGAC
Found at i:27566884 original size:35 final size:30
Alignment explanation
Indices: 27566819--27566878 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
27566809 CACAATATCG
*
27566819 TTTAATTTAATCAACATTATACAGAATTCA
1 TTTAATTTAATCAACATTATAAAGAATTCA
27566849 TTTAATTTAATCAACATTATAAAGAATTCA
1 TTTAATTTAATCAACATTATAAAGAATTCA
27566879 GTTCATACGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (30 bp):
TTTAATTTAATCAACATTATAAAGAATTCA
Found at i:27581621 original size:27 final size:27
Alignment explanation
Indices: 27581560--27581621 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
27581550 AGTGTTCCAA
* *
27581560 CGGACTATCCCGTGTTTATTATCTCAT
1 CGGACTATCCCGTGCTTATTATCCCAT
* *
27581587 CAGG-CTATCCCGTGCTTATTGTCCCGT
1 C-GGACTATCCCGTGCTTATTATCCCAT
27581614 CGGACTAT
1 CGGACTAT
27581622 TTATGATGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.07
27 25 0.86
28 2 0.07
ACGTcount: A:0.16, C:0.29, G:0.19, T:0.35
Consensus pattern (27 bp):
CGGACTATCCCGTGCTTATTATCCCAT
Found at i:27585834 original size:25 final size:26
Alignment explanation
Indices: 27585797--27585854 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
27585787 TTAATTAGTA
* *
27585797 TAAAATATT-AATAATTCAAT-AAAT
1 TAAAATTTTAAATAATTAAATAAAAT
*
27585821 TGAAATTTTAAATAATTAAATAAAAT
1 TAAAATTTTAAATAATTAAATAAAAT
27585847 TAAAATTT
1 TAAAATTT
27585855 AGTAGAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 7 0.25
25 10 0.36
26 11 0.39
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (26 bp):
TAAAATTTTAAATAATTAAATAAAAT
Found at i:27585855 original size:25 final size:24
Alignment explanation
Indices: 27585797--27585855 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
27585787 TTAATTAGTA
*
27585797 TAAAATATT-AATAATTCAATAAAT
1 TAAAAT-TTAAATAATTAAATAAAT
*
27585821 TGAAATTTTAAATAATTAAATAAAAT
1 T-AAAATTTAAATAATTAAAT-AAAT
27585847 TAAAATTTA
1 TAAAATTTA
27585856 GTAGAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 3 0.10
25 21 0.72
26 5 0.17
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
TAAAATTTAAATAATTAAATAAAT
Found at i:27586605 original size:30 final size:30
Alignment explanation
Indices: 27586550--27586606 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
27586540 CTTTTGAAAA
* *
27586550 TATTTACAAAAAGAGACATCTAATTTTTAG
1 TATTTACAAAAAGAGACACCAAATTTTTAG
27586580 TATTTACAAAAAGAG-CAACCAAATTTT
1 TATTTACAAAAAGAGAC-ACCAAATTTT
27586607 GAAAATAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (30 bp):
TATTTACAAAAAGAGACACCAAATTTTTAG
Done.