Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 39 of 230
Found at i:10406313 original size:23 final size:23
Alignment explanation
Indices: 10406287--10406410 Score: 103
Period size: 23 Copynumber: 5.4 Consensus size: 23
10406277 TTAGTCACAT
*
10406287 ATCTACTGGCAGTTCATTTGCAA
1 ATCTACTGGCAGTTCATCTGCAA
* *
10406310 ATCTATCGTTG--GTTTA-CTCGCAA
1 ATCTA-C-TGGCAGTTCATCT-GCAA
10406333 ATCTACTGGCAGTTCATCTGCAA
1 ATCTACTGGCAGTTCATCTGCAA
* * * *
10406356 ATCTATTGTC-GATTTATCCGCAA
1 ATCTACTGGCAG-TTCATCTGCAA
* *
10406379 ATCTACTAGCAGTTCATATGCAA
1 ATCTACTGGCAGTTCATCTGCAA
10406402 ATCTACTGG
1 ATCTACTGG
10406411 TGGTTTGTCC
Statistics
Matches: 77, Mismatches: 16, Indels: 16
0.71 0.15 0.15
Matches are distributed among these distances:
21 2 0.03
22 3 0.04
23 66 0.86
24 4 0.05
25 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.35
Consensus pattern (23 bp):
ATCTACTGGCAGTTCATCTGCAA
Found at i:10406342 original size:46 final size:46
Alignment explanation
Indices: 10406287--10406406 Score: 170
Period size: 46 Copynumber: 2.6 Consensus size: 46
10406277 TTAGTCACAT
* * *
10406287 ATCTACTGGCAGTTCATTTGCAAATCTATCGTTGGTTTA-CTCGCAA
1 ATCTACTGGCAGTTCATATGCAAATCTATCGTCGATTTATC-CGCAA
* *
10406333 ATCTACTGGCAGTTCATCTGCAAATCTATTGTCGATTTATCCGCAA
1 ATCTACTGGCAGTTCATATGCAAATCTATCGTCGATTTATCCGCAA
*
10406379 ATCTACTAGCAGTTCATATGCAAATCTA
1 ATCTACTGGCAGTTCATATGCAAATCTA
10406407 CTGGTGGTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 66 0.99
47 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (46 bp):
ATCTACTGGCAGTTCATATGCAAATCTATCGTCGATTTATCCGCAA
Found at i:10406422 original size:46 final size:44
Alignment explanation
Indices: 10406287--10406433 Score: 159
Period size: 46 Copynumber: 3.2 Consensus size: 44
10406277 TTAGTCACAT
* * *
10406287 ATCTACTGGCAGTTCATTTGCAAATCTATCGTTGGTTTACTCGCAA
1 ATCTACTGGCAGTTCATATGCAAATCTAT-GGTGGTTTTC-CGCAA
* * *
10406333 ATCTACTGGCAGTTCATCTGCAAATCTATTGTCGATTTATCCGCAA
1 ATCTACTGGCAGTTCATATGCAAATCTATGGT-GGTTT-TCCGCAA
* *
10406379 ATCTACTAGCAGTTCATATGCAAATCTACTGGTGGTTTGTCCGCAT
1 ATCTACTGGCAGTTCATATGCAAATCTA-TGGTGGTTT-TCCGCAA
*
10406425 ATTTACTGG
1 ATCTACTGG
10406434 AGGTATATCC
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
45 1 0.01
46 80 0.94
47 4 0.05
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (44 bp):
ATCTACTGGCAGTTCATATGCAAATCTATGGTGGTTTTCCGCAA
Found at i:10408879 original size:6 final size:6
Alignment explanation
Indices: 10408868--10408932 Score: 116
Period size: 6 Copynumber: 11.2 Consensus size: 6
10408858 TATTTACAAC
10408868 TAAAAA TAAAAA T-AAAA TAAAAA T-AAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
10408914 TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA T
10408933 TATTTATTTA
Statistics
Matches: 57, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.18
6 47 0.82
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:10408890 original size:12 final size:11
Alignment explanation
Indices: 10408870--10408930 Score: 104
Period size: 11 Copynumber: 5.4 Consensus size: 11
10408860 TTTACAACTA
10408870 AAAATAAAAAT
1 AAAATAAAAAT
10408881 AAAATAAAAAT
1 AAAATAAAAAT
10408892 AAAATAAAAAT
1 AAAATAAAAAT
10408903 AAAAATAAAAAT
1 -AAAATAAAAAT
10408915 AAAAATAAAAAT
1 -AAAATAAAAAT
10408927 AAAA
1 AAAA
10408931 ATTATTTATT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
11 26 0.53
12 23 0.47
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:10413583 original size:16 final size:16
Alignment explanation
Indices: 10413547--10413629 Score: 50
Period size: 16 Copynumber: 5.2 Consensus size: 16
10413537 CATAAACCCT
10413547 AAAA-AATCATAAAAA
1 AAAATAATCATAAAAA
10413562 ATAAATAATC-TAAAATA
1 A-AAATAATCATAAAA-A
**
10413579 AAAATAAAAATAAAAA
1 AAAATAATCATAAAAA
*
10413595 TAAA-AAT-A-AAAATA
1 AAAATAATCATAAAA-A
**
10413609 AAAATAAAAATAAAAA
1 AAAATAATCATAAAAA
10413625 TAAAA
1 -AAAA
10413630 ATAAAAATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
13 4 0.08
14 5 0.09
15 5 0.09
16 20 0.38
17 19 0.36
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAATAATCATAAAAA
Found at i:10413584 original size:6 final size:6
Alignment explanation
Indices: 10413558--10413640 Score: 139
Period size: 6 Copynumber: 13.5 Consensus size: 6
10413548 AAAAATCATA
*
10413558 AAAAAT AAATAAT CTAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAA-AAT -AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
10413608 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
10413641 CCAAATTGAA
Statistics
Matches: 73, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
6 65 0.89
7 6 0.08
8 2 0.03
ACGTcount: A:0.81, C:0.01, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:10419557 original size:51 final size:51
Alignment explanation
Indices: 10419426--10419610 Score: 162
Period size: 51 Copynumber: 3.6 Consensus size: 51
10419416 AAAGTGATGG
* * * * * * *
10419426 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAGGATACTATGCGTACCGGATAGTAAT-GA
* *
10419476 TCGCATGTGTAGTACTATGTGCA-GACTACTATGCGTACCGGATAGT-TTCGA
1 TCACATGTGTAGTACTATGTGCAGGA-TACTATGCGTACCGGATAGTAAT-GA
* * * * * * *
10419527 TCACGTGTGTAGTACTATGTGTAGGATACTACGTGTATCGGATGGTAATGG
1 TCACATGTGTAGTACTATGTGCAGGATACTATGCGTACCGGATAGTAATGA
*
10419578 TCACATGTGTAGTACTATGTGCAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGATACTATG
10419611 TGAACCGAAC
Statistics
Matches: 108, Mismatches: 22, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
49 1 0.01
50 34 0.31
51 69 0.64
52 4 0.04
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGATACTATGCGTACCGGATAGTAATGA
Found at i:10419557 original size:101 final size:102
Alignment explanation
Indices: 10419426--10419610 Score: 286
Period size: 101 Copynumber: 1.8 Consensus size: 102
10419416 AAAGTGATGG
* *
10419426 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-CTGGAATGAT-A-GGTCGCATGTGTAG
1 TCACGTGTGTAGTACTATGTGCAGGATACTACGTGTATC-GG-ATGATAATGGTCACATGTGTAG
10419488 TACTATGTGCAGACTACTATGCGTACCGGATAGTTTCGA
64 TACTATGTGCAGACTACTATGCGTACCGGATAGTTTCGA
* *
10419527 TCACGTGTGTAGTACTATGTGTAGGATACTACGTGTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGATACTACGTGTATCGGATGATAATGGTCACATGTGTAGTA
*
10419592 CTATGTGCAGGCTACTATG
66 CTATGTGCAGACTACTATG
10419611 TGAACCGAAC
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
100 4 0.05
101 38 0.50
102 34 0.45
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGATACTACGTGTATCGGATGATAATGGTCACATGTGTAGTA
CTATGTGCAGACTACTATGCGTACCGGATAGTTTCGA
Found at i:10419670 original size:45 final size:45
Alignment explanation
Indices: 10419614--10419706 Score: 159
Period size: 45 Copynumber: 2.1 Consensus size: 45
10419604 TACTATGTGA
* *
10419614 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
10419659 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
10419704 ACC
1 ACC
10419707 AAGTATCTGC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:10419853 original size:8 final size:8
Alignment explanation
Indices: 10419840--10419864 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
10419830 ATTGTGATTG
10419840 AAAGTGAA
1 AAAGTGAA
10419848 AAAGTGAA
1 AAAGTGAA
10419856 AAAGTGAA
1 AAAGTGAA
10419864 A
1 A
10419865 TTGTGAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.12
Consensus pattern (8 bp):
AAAGTGAA
Found at i:10419982 original size:23 final size:22
Alignment explanation
Indices: 10419944--10419988 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
10419934 AAAAATGGTG
10419944 AATATTGAATTAGAAGCTGAAT
1 AATATTGAATTAGAAGCTGAAT
10419966 AATATATGAAATT-GAAGCTGAAT
1 AATAT-TG-AATTAGAAGCTGAAT
10419989 GAGTCTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.24
23 12 0.57
24 4 0.19
ACGTcount: A:0.47, C:0.04, G:0.18, T:0.31
Consensus pattern (22 bp):
AATATTGAATTAGAAGCTGAAT
Found at i:10421784 original size:23 final size:23
Alignment explanation
Indices: 10421758--10421808 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
10421748 TTAGTCGCAT
10421758 ATCTACTAACAGTTCATCTGCAA
1 ATCTACTAACAGTTCATCTGCAA
* ** *
10421781 ATCTATTGGCAGTTCATTTGCAA
1 ATCTACTAACAGTTCATCTGCAA
10421804 ATCTA
1 ATCTA
10421809 TTGGTGGTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (23 bp):
ATCTACTAACAGTTCATCTGCAA
Found at i:10421818 original size:23 final size:23
Alignment explanation
Indices: 10421767--10421812 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
10421757 TATCTACTAA
10421767 CAGTTCATCTGCAAATCTATTGG
1 CAGTTCATCTGCAAATCTATTGG
*
10421790 CAGTTCATTTGCAAATCTATTGG
1 CAGTTCATCTGCAAATCTATTGG
10421813 TGGTTCGTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (23 bp):
CAGTTCATCTGCAAATCTATTGG
Found at i:10425444 original size:16 final size:16
Alignment explanation
Indices: 10425425--10425483 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
10425415 GTTTTCATTA
*
10425425 TCTAGAGTTTTCACAG
1 TCTATAGTTTTCACAG
* *
10425441 TCTATAGTTGTCTCAG
1 TCTATAGTTTTCACAG
* *
10425457 CCTATAGTTTTTAACAG
1 TCTATAG-TTTTCACAG
10425474 TCTATAGTTT
1 TCTATAGTTT
10425484 CAAATCTAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
16 22 0.65
17 12 0.35
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (16 bp):
TCTATAGTTTTCACAG
Found at i:10430822 original size:20 final size:20
Alignment explanation
Indices: 10430765--10430822 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
10430755 TAAGTTTATG
*
10430765 CTAAGTAAATGGAATGGAAA
1 CTAAGTAAATGGAATGGTAA
*
10430785 GTAAGTAAATGGAATGGTAA
1 CTAAGTAAATGGAATGGTAA
10430805 CTAAGTAAATGGAATGGT
1 CTAAGTAAATGGAATGGT
10430823 TCTTAGTCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.45, C:0.03, G:0.28, T:0.24
Consensus pattern (20 bp):
CTAAGTAAATGGAATGGTAA
Found at i:10431557 original size:20 final size:19
Alignment explanation
Indices: 10431532--10431576 Score: 74
Period size: 20 Copynumber: 2.4 Consensus size: 19
10431522 ATCTGTAAGT
10431532 TAAGTTATATTGGCATGGTG
1 TAAGTTATATTGGCAT-GTG
10431552 TAAGTTATATTGGCATGTG
1 TAAGTTATATTGGCATGTG
10431571 T-AGTTA
1 TAAGTTA
10431577 AGTTGAATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 5 0.20
19 4 0.16
20 16 0.64
ACGTcount: A:0.27, C:0.04, G:0.27, T:0.42
Consensus pattern (19 bp):
TAAGTTATATTGGCATGTG
Found at i:10433177 original size:3 final size:3
Alignment explanation
Indices: 10433169--10433221 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
10433159 GACATCTGAT
** * *
10433169 TCA TCA TCA TCA TTG TCG TCG TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
10433217 TCA TC
1 TCA TC
10433222 TATTGAAGCC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.26, C:0.32, G:0.06, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:10448360 original size:28 final size:28
Alignment explanation
Indices: 10448297--10448422 Score: 191
Period size: 28 Copynumber: 4.5 Consensus size: 28
10448287 ATATTAAGTC
*
10448297 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
10448324 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
10448352 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
10448380 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
10448409 CGCACACTTAGTGC
1 CGCACACTTAGTGC
10448423 CAATCTCATG
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.24
28 51 0.55
29 19 0.21
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:10448885 original size:12 final size:12
Alignment explanation
Indices: 10448868--10448894 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10448858 TGGGCATACT
10448868 TATGTATATATA
1 TATGTATATATA
10448880 TATGTATATATA
1 TATGTATATATA
10448892 TAT
1 TAT
10448895 ACTTCGGAAT
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:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:10467198 original size:38 final size:37
Alignment explanation
Indices: 10467131--10467243 Score: 145
Period size: 38 Copynumber: 3.0 Consensus size: 37
10467121 TTCATCCTTT
*
10467131 TGAATACATGTTAAAGCATGTTTACTGCTAGTGTTGAA
1 TGAATACATGTT-AAGCATGTTTACTGCTAGTGATGAA
* * *
10467169 CTGAATACACGTTAAGCATGTTAATTGCTAGTGATGAA
1 -TGAATACATGTTAAGCATGTTTACTGCTAGTGATGAA
* *
10467207 TCAAATACATGTTAATCATGTTTACTGCTAGTGATGA
1 T-GAATACATGTTAAGCATGTTTACTGCTAGTGATGA
10467244 TTCGTTCTAT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
37 1 0.02
38 52 0.81
39 11 0.17
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (37 bp):
TGAATACATGTTAAGCATGTTTACTGCTAGTGATGAA
Found at i:10467410 original size:21 final size:21
Alignment explanation
Indices: 10467386--10467437 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
10467376 ATATGTTGTG
*
10467386 TATCCACAATAAGTGGTAGTT
1 TATCCACAATAAGTAGTAGTT
* * *
10467407 TATCTACAAATCAGTAGTGGTT
1 TATCCAC-AATAAGTAGTAGTT
10467429 TATCCACAA
1 TATCCACAA
10467438 CCCAAAGTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (21 bp):
TATCCACAATAAGTAGTAGTT
Found at i:10468851 original size:36 final size:36
Alignment explanation
Indices: 10468800--10468871 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
10468790 TCAAGCTTTG
* *
10468800 ATTCTAGTATGTTCATGTCCTTATAGGTGGTTACCT
1 ATTCTAGTATATTCATGTCCTCATAGGTGGTTACCT
*
10468836 ATTCTAGTATATTCATGTCCTCATCGGTGGTTACCT
1 ATTCTAGTATATTCATGTCCTCATAGGTGGTTACCT
10468872 TCTTACAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.43
Consensus pattern (36 bp):
ATTCTAGTATATTCATGTCCTCATAGGTGGTTACCT
Found at i:10468951 original size:3 final size:3
Alignment explanation
Indices: 10468943--10469005 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
10468933 AAAATGGGTC
10468943 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
10468991 CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT
10469006 TGTTGAGTAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:10470880 original size:26 final size:26
Alignment explanation
Indices: 10470851--10470903 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
10470841 ATTAAATTAA
* * *
10470851 AATTATCATAAATATAATTATTATTT
1 AATTATAATAAAGATAAATATTATTT
10470877 AATTATAATAAAGATAAATATTATTT
1 AATTATAATAAAGATAAATATTATTT
10470903 A
1 A
10470904 TGTTAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
AATTATAATAAAGATAAATATTATTT
Found at i:10472746 original size:9 final size:9
Alignment explanation
Indices: 10472732--10472762 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
10472722 GTTAAACGAA
10472732 TCGAGTTAT
1 TCGAGTTAT
*
10472741 TCGAGTTAA
1 TCGAGTTAT
10472750 TCGAGTTAT
1 TCGAGTTAT
10472759 TCGA
1 TCGA
10472763 ATCAAATCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:10472834 original size:9 final size:9
Alignment explanation
Indices: 10472817--10472853 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
10472807 TGAATTTTCG
10472817 AATTCGAAT
1 AATTCGAAT
*
10472826 AACTCGAAT
1 AATTCGAAT
*
10472835 AATTCAAAT
1 AATTCGAAT
10472844 AATTCGAAT
1 AATTCGAAT
10472853 A
1 A
10472854 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:10473888 original size:5 final size:5
Alignment explanation
Indices: 10473878--10473903 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
10473868 CTCAAAAATT
10473878 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
10473904 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:10474761 original size:125 final size:125
Alignment explanation
Indices: 10474460--10474806 Score: 493
Period size: 125 Copynumber: 2.8 Consensus size: 125
10474450 CGAGTTGATG
** * *
10474460 TTTCTGATAAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAAAATTTTTGAAATCG
1 TTTCTGAGCAAATAGTAT-AAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
*
10474525 CGGCCTCGTGGACGTGCTTTTGCTACAGTAGGGCACAGAAGAAACAATTATTTTTTTGACA
65 CGGCCTCGTGGACGCGCTTTTGCTACAGTAGGGCACAGAAGAAACAATTATTTTTTTGACA
*
10474586 TTTCTGAGCAAATAGTATAATATCGCTTCTAGCAGGATGATATTTGAGAAGAATTTGTGAAATCG
1 TTTCTGAGCAAATAGTATAA-ATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
* * * * * * *
10474651 CAGACTCGTGGACGCGCTTTTGCTACAGTAGGTCA-TGTAAGAAA-TATT-TTTTGTTTTACT
65 CGGCCTCGTGGACGCGCTTTTGCTACAGTAGGGCACAG-AAGAAACAATTATTTT-TTTGACA
*
10474711 TTTCTGAGCAAATAGTATATAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATTG
1 TTTCTGAGCAAATAGTATA-AATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
*
10474776 CGGCCTCCTGGACGCGCTTTTGCTACAGTAG
65 CGGCCTCGTGGACGCGCTTTTGCTACAGTAG
10474807 CATGTTTAGG
Statistics
Matches: 199, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
124 4 0.02
125 100 0.50
126 95 0.48
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (125 bp):
TTTCTGAGCAAATAGTATAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGC
GGCCTCGTGGACGCGCTTTTGCTACAGTAGGGCACAGAAGAAACAATTATTTTTTTGACA
Found at i:10476823 original size:29 final size:29
Alignment explanation
Indices: 10476781--10477687 Score: 1109
Period size: 29 Copynumber: 30.1 Consensus size: 29
10476771 AATATCCATC
* *
10476781 TAATTAAATTAGGTTAAGGTTAGGGTTTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
10476810 TAATCAAATTAGGTTA-GGTTAGGGTTTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
* * *
10476838 TAATTAAATTACGTTTAATTAAATTAGGTTAGGGTTAGGGTTTT
1 TAATCAAATTA-G----GTT--A--GGGTTAGGGTT------TT
10476882 TAATCAAATTAGGTTA-GGTTAGGGTTTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
*
10476910 TAATTAAATTAGGTTAGGGTTAGGGTTTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
10476939 TAATCAAATTAGGTTA-GGTTAGGGTTTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
*
10476967 TAATTAAATTAGGTTAGGGTTAGGGTTTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
10476996 TAATCAAATTAGGTTAGGGTTAGGGTTTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
10477025 TAATCAAATTAGGTTA-GGTTAGGGTTTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
* *
10477053 TAATTAAATTAGGTTTAATCAAATTAGGTTAGGGTTAGGGTTTT
1 TAATCAAATTAGG--T--T---A--GGGTTA--G----GGTTTT
*
10477097 TAATCAAATTAGGTTAGGGTTAGAGTTTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
10477126 TAATCAAATTAGGTTA-GGTTAGGG-TTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
*
10477153 TAATTAAATTAGGTTAGGGTTAGGGTTTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
*
10477182 TAATCAAATTAGGTTAGGGTTAAGGTTTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
* *
10477211 TAACCAAATTAGGTTA-GTTTAGGGTTTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
* *
10477239 TAATTAAATTAGATTAGGGTTAGGGTTTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
10477268 TAATCAAATTAGGTTA-GGTTAGGGTTTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
*
10477296 TAATTAAATTAGGTTAGGGTTAGGGTTTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
10477325 TAATCAAATTAGGTTAGGGTTAGGGTTTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
10477354 TAATCAAATTAGGTTA-GGTTAGGGTTTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
* *
10477382 TAATTAAATTAGGTTTAATCAAATTAGGTTAGGGTTAGGGTTTT
1 TAATCAAATTAGG--T--T---A--GGGTTA--G----GGTTTT
10477426 TAATCAAATTAGGTTAGGGTTAGGGTTTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
10477455 TAATCAAATTAGGTTA-GGTTAGGG-TTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
*
10477482 TAATTAAATTAGGTTAGGGTTAGGGTTTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
*
10477511 TAATTAAATTAGGTTAGGGTTAGGGTTTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
*
10477540 TAATCAAATTAGGTTAGGGTTAAGGTTTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
*
10477569 TAACCAAATTAGGTTAGGGTTAGGGTTTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
10477598 TAATCAAATTAGGTTAGGGTTAGGGTTTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
10477627 TAATCAAATTAGGTTA-GGTTAGGGTTTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
*
10477655 TAATCAAATTAGGTTAGGGGTAGGGTTTT
1 TAATCAAATTAGGTTAGGGTTAGGGTTTT
10477684 TAAT
1 TAAT
10477688 TACATCAAAT
Statistics
Matches: 783, Mismatches: 38, Indels: 114
0.84 0.04 0.12
Matches are distributed among these distances:
27 36 0.05
28 223 0.28
29 413 0.53
30 2 0.00
32 2 0.00
33 4 0.01
34 10 0.01
35 13 0.02
37 3 0.00
38 20 0.03
39 2 0.00
40 4 0.01
42 2 0.00
43 1 0.00
44 48 0.06
ACGTcount: A:0.29, C:0.03, G:0.25, T:0.43
Consensus pattern (29 bp):
TAATCAAATTAGGTTAGGGTTAGGGTTTT
Found at i:10476856 original size:43 final size:44
Alignment explanation
Indices: 10476808--10476892 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
10476798 GGTTAGGGTT
*
10476808 TTTAATCAAATTAGGTTA-GGTTAGGGTTTTTAATTAAATTACG
1 TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTACG
*
10476851 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTA
1 TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTA
10476893 GGTTAGGTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 17 0.44
44 22 0.56
ACGTcount: A:0.33, C:0.04, G:0.19, T:0.45
Consensus pattern (44 bp):
TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTACG
Found at i:10476898 original size:72 final size:72
Alignment explanation
Indices: 10476781--10476920 Score: 271
Period size: 72 Copynumber: 1.9 Consensus size: 72
10476771 AATATCCATC
10476781 TAATTAAATTAGGTTAAGGTTAGGGTTTTTAATCAAATTAGGTTAGGTTAGGGTTTTTAATTAAA
1 TAATTAAATTAGGTTAAGGTTAGGGTTTTTAATCAAATTAGGTTAGGTTAGGGTTTTTAATTAAA
10476846 TTACGTT
66 TTACGTT
*
10476853 TAATTAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGTTAGGGTTTTTAATTAAA
1 TAATTAAATTAGGTTAAGGTTAGGGTTTTTAATCAAATTAGGTTAGGTTAGGGTTTTTAATTAAA
10476918 TTA
66 TTA
10476921 GGTTAGGGTT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.44
Consensus pattern (72 bp):
TAATTAAATTAGGTTAAGGTTAGGGTTTTTAATCAAATTAGGTTAGGTTAGGGTTTTTAATTAAA
TTACGTT
Found at i:10476915 original size:57 final size:58
Alignment explanation
Indices: 10476851--10477687 Score: 1165
Period size: 57 Copynumber: 14.1 Consensus size: 58
10476841 TTAAATTACG
*
10476851 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTA-GGTTAGGGTT
1 TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAGGGTT
*
10476908 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTA-GGTTAGGGTT
1 TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAGGGTT
*
10476965 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAGGGTT
1 TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAGGGTT
*
10477023 TTTAATCAAATTAGGTTA-GGTTAGGGTTTTTAATTAAATTAGGTTTAATCAAATTAGGTTAGGG
1 TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGG----------TT-----AGGG
10477087 TTAGGGTT
51 TTAGGGTT
*
10477095 TTTAATCAAATTAGGTTAGGGTTAGAGTTTTTAATCAAATTAGGTTA-GGTTAGGG-T
1 TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAGGGTT
* *
10477151 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAAGGTT
1 TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAGGGTT
* * * *
10477209 TTTAACCAAATTAGGTTA-GTTTAGGGTTTTTAATTAAATTAGATTAGGGTTAGGGTT
1 TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAGGGTT
*
10477266 TTTAATCAAATTAGGTTA-GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTT
1 TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAGGGTT
10477323 TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTA-GGTTAGGGTT
1 TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAGGGTT
*
10477380 TTTAATTAAATTAGGTTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGG
1 TTTAATCAAATTAGG----------TT-----AGGGTTAGGGTTTTTAATCAAATTAGGTTAGGG
10477445 TTAGGGTT
51 TTAGGGTT
*
10477453 TTTAATCAAATTAGGTTA-GGTTAGGG-TTTTAATTAAATTAGGTTAGGGTTAGGGTT
1 TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAGGGTT
* *
10477509 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAAGGTT
1 TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAGGGTT
*
10477567 TTTAACCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAGGGTT
1 TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAGGGTT
*
10477625 TTTAATCAAATTAGGTTA-GGTTAGGGTTTTTAATCAAATTAGGTTAGGGGTAGGGTT
1 TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAGGGTT
10477682 TTTAAT
1 TTTAAT
10477688 TACATCAAAT
Statistics
Matches: 714, Mismatches: 28, Indels: 76
0.87 0.03 0.09
Matches are distributed among these distances:
56 92 0.13
57 334 0.47
58 173 0.24
63 4 0.01
67 4 0.01
72 60 0.08
73 47 0.07
ACGTcount: A:0.29, C:0.03, G:0.26, T:0.43
Consensus pattern (58 bp):
TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAGGGTT
Found at i:10477070 original size:43 final size:44
Alignment explanation
Indices: 10477023--10477111 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
10477013 GGTTAGGGTT
*
10477023 TTTAATCAAATTAGGTTA-GGTTAGGGTTTTTAATTAAATTAGG
1 TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGG
10477066 TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGG
1 TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGG
10477110 TT
1 TT
10477112 AGGGTTAGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 18 0.41
44 26 0.59
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.44
Consensus pattern (44 bp):
TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGG
Found at i:10477071 original size:15 final size:15
Alignment explanation
Indices: 10477051--10477082 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10477041 GGTTAGGGTT
*
10477051 TTTAATTAAATTAGG
1 TTTAATCAAATTAGG
10477066 TTTAATCAAATTAGG
1 TTTAATCAAATTAGG
10477081 TT
1 TT
10477083 AGGGTTAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (15 bp):
TTTAATCAAATTAGG
Found at i:10477371 original size:329 final size:329
Alignment explanation
Indices: 10476851--10477687 Score: 1550
Period size: 329 Copynumber: 2.5 Consensus size: 329
10476841 TTAAATTACG
10476851 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGTTAGGGTTTTTAATTA
1 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGTTAGGGTTTTTAATTA
10476916 AATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGT
66 AATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGT
10476981 TAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGTTA
131 TAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGTTA
10477046 GGGTTTTTAATTAAATTAGGTTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGT
196 GGGTTTTTAATTAAATTAGGTTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGT
10477111 TAGGGTTAGAGTTTTTAATCAAATTAGGTTAGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAG
261 TAGGGTTAGAGTTTTTAATCAAATTAGGTTAGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAG
10477176 GGTT
326 GGTT
* * * *
10477180 TTTAATCAAATTAGGTTAGGGTTAAGGTTTTTAACCAAATTAGGTTAGTTTAGGGTTTTTAATTA
1 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGTTAGGGTTTTTAATTA
*
10477245 AATTAGATTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGT
66 AATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGT
10477310 TAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGTTA
131 TAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGTTA
10477375 GGGTTTTTAATTAAATTAGGTTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGT
196 GGGTTTTTAATTAAATTAGGTTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGT
*
10477440 TAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAG
261 TAGGGTTAGAGTTTTTAATCAAATTAGGTTAGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAG
10477505 GGTT
326 GGTT
* **
10477509 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAAGGTTTTTAACC
1 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTA-GGTTAGGGTTTTTAATT
*
10477574 AAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAG
65 AAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTA-GGTTAGGGTTTTTAATTAAATTAG
*
10477639 GTTA-GGTTAGGGTTTTTAATCAAATTAGGTTAGGGGTAGGGTTTTTAAT
129 GTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAAT
10477688 TACATCAAAT
Statistics
Matches: 490, Mismatches: 16, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
329 367 0.75
330 96 0.20
331 27 0.06
ACGTcount: A:0.29, C:0.03, G:0.26, T:0.43
Consensus pattern (329 bp):
TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGTTAGGGTTTTTAATTA
AATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGT
TAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGTTA
GGGTTTTTAATTAAATTAGGTTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGT
TAGGGTTAGAGTTTTTAATCAAATTAGGTTAGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAG
GGTT
Found at i:10477399 original size:43 final size:44
Alignment explanation
Indices: 10477352--10477440 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
10477342 GGTTAGGGTT
*
10477352 TTTAATCAAATTAGGTTA-GGTTAGGGTTTTTAATTAAATTAGG
1 TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGG
10477395 TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGG
1 TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGG
10477439 TT
1 TT
10477441 AGGGTTAGGG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 18 0.41
44 26 0.59
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.44
Consensus pattern (44 bp):
TTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGG
Found at i:10477400 original size:15 final size:15
Alignment explanation
Indices: 10477380--10477411 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10477370 GGTTAGGGTT
*
10477380 TTTAATTAAATTAGG
1 TTTAATCAAATTAGG
10477395 TTTAATCAAATTAGG
1 TTTAATCAAATTAGG
10477410 TT
1 TT
10477412 AGGGTTAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (15 bp):
TTTAATCAAATTAGG
Found at i:10478247 original size:18 final size:18
Alignment explanation
Indices: 10478224--10478258 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10478214 TAGAAAATGA
*
10478224 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
10478242 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
10478259 AAATACACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:10480124 original size:22 final size:22
Alignment explanation
Indices: 10480099--10480154 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
10480089 AAATATGGAT
10480099 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
10480121 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
10480143 TTGAGAGGAATT
1 TTGAGA-GAATT
10480155 GAGAGGAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 28 0.85
23 5 0.15
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:10480171 original size:12 final size:11
Alignment explanation
Indices: 10480115--10480171 Score: 57
Period size: 10 Copynumber: 5.2 Consensus size: 11
10480105 GAATTTTGGA
10480115 AGGAAATTGAG
1 AGGAAATTGAG
*
10480126 A-GAATTTTG-G
1 AGGAA-ATTGAG
10480136 AAGGAAATTGAG
1 -AGGAAATTGAG
10480148 AGG-AATTGAG
1 AGGAAATTGAG
10480158 AGGAAATATGAG
1 AGGAAAT-TGAG
10480170 AG
1 AG
10480172 AGGATTTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 14 0.37
11 14 0.37
12 10 0.26
ACGTcount: A:0.44, C:0.00, G:0.35, T:0.21
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:10480924 original size:17 final size:18
Alignment explanation
Indices: 10480904--10480940 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
10480894 TTTATTTTAA
10480904 TTAATATTATTATAT-TT
1 TTAATATTATTATATATT
10480921 TTAATATTATTATATATT
1 TTAATATTATTATATATT
10480939 TT
1 TT
10480941 TAAATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTAATATTATTATATATT
Found at i:10480932 original size:26 final size:26
Alignment explanation
Indices: 10480880--10480949 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
10480870 ATGGGAAGAA
* *
10480880 AATATTATTATGTTTTTATTTTAATT
1 AATATTATTATATTTTTATATTAATT
10480906 AATATTATTATATTTTTAATATT-ATT
1 AATATTATTATATTTTT-ATATTAATT
* *
10480932 ATATATTTTTAAATTTTT
1 A-ATATTATTATATTTTT
10480950 TATGTTTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 20 0.53
27 18 0.47
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (26 bp):
AATATTATTATATTTTTATATTAATT
Found at i:10480952 original size:19 final size:19
Alignment explanation
Indices: 10480904--10480943 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
10480894 TTTATTTTAA
10480904 TTAATATTA-T-TATATTT
1 TTAATATTATTATATATTT
10480921 TTAATATTATTATATATTT
1 TTAATATTATTATATATTT
10480940 TTAA
1 TTAA
10480944 ATTTTTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.43
18 1 0.05
19 11 0.52
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTAATATTATTATATATTT
Found at i:10482876 original size:30 final size:30
Alignment explanation
Indices: 10482803--10482877 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
10482793 GAACAACATG
* **
10482803 AAGATGAAGATAACGCTAGAGGTGAAGATG
1 AAGATGAAGATAATGCTAGAGGTGAAGACA
* * *
10482833 GAGATGAAGATAATGTTGGAGGTGAAGACA
1 AAGATGAAGATAATGCTAGAGGTGAAGACA
10482863 AAGATGAAGATAATG
1 AAGATGAAGATAATG
10482878 ATAATGATGA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.44, C:0.04, G:0.33, T:0.19
Consensus pattern (30 bp):
AAGATGAAGATAATGCTAGAGGTGAAGACA
Found at i:10484092 original size:13 final size:13
Alignment explanation
Indices: 10484074--10484098 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10484064 ATTTTTAATA
10484074 TTATTTTGTGTGT
1 TTATTTTGTGTGT
10484087 TTATTTTGTGTG
1 TTATTTTGTGTG
10484099 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:10485890 original size:41 final size:41
Alignment explanation
Indices: 10485845--10485936 Score: 116
Period size: 41 Copynumber: 2.2 Consensus size: 41
10485835 GGTTATATAC
* *
10485845 CTAGCAGGTTTAATGCCAGTGAAGTA-A-TTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCAGTG-A-TACATTTCAGACTATACGT
* *
10485886 CTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGT
1 CTAGCAGGCTTAATGCCAGTGATACATTTCAGACTATACGT
10485927 CTAGCAGGCT
1 CTAGCAGGCT
10485937 AAGTGCCGGT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
39 2 0.04
40 2 0.04
41 41 0.91
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCAGTGATACATTTCAGACTATACGT
Found at i:10486698 original size:17 final size:17
Alignment explanation
Indices: 10486665--10486699 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10486655 GATTAAAAGG
10486665 TTATAATATTTATATAT
1 TTATAATATTTATATAT
10486682 TTATATATATTTA-ATAT
1 TTATA-ATATTTATATAT
10486699 T
1 T
10486700 GCGGTAGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATAATATTTATATAT
Found at i:10490472 original size:288 final size:290
Alignment explanation
Indices: 10489937--10490496 Score: 849
Period size: 288 Copynumber: 1.9 Consensus size: 290
10489927 GTAAAATATC
* * * *
10489937 ATTTTGGATTGTGGTTTGGGGTTTTTGGATTTGGGTTTTATGCATGTATTATTGAAACACATTGA
1 ATTTTGGACTGTGGTATGGGGTTTTTGGATTTGGGTTTTATGCATGCATTATTCAAACACATTGA
* *
10490002 TTATATATTTTAACCAGAAAATGCATGTTACTCGACCTAATTAAAATCTGACATGAATAGTATTT
66 TTATATATGTTAACCAGAAAATGCATGTTACACGACCTAATTAAAATCTGACATGAATAGTATTT
* * * * * **
10490067 TTCTCTTACTTTGAAAGATAACGAAATTTTGTAAAACTAAGTGACAAACAACGGGTTTCTAAAAA
131 TTCACTTACTTTGAAAGAAAACAAAATTTTGCAAAACAAAGCAACAAACAACGGGTTTCTAAAAA
* *
10490132 CCTCACTATCAATAATAAAAATGAGGCTTAAGAATAGATGGCTCAATAAATGAATATTTTTCAAA
196 CATCACTATCAATAATAAAAATGAGACTTAAGAATAGATGGCTCAATAAATGAATATTTTTCAAA
10490197 CTAACTCAAGTGCAACTGTAGTTTTCCAAA
261 CTAACTCAAGTGCAACTGTAGTTTTCCAAA
* ***
10490227 ATTTTGGACTGTGGTAT-GGGTTTTTGGATTTGGGTTTTATGCATGCATTATTCTAACTTTTTGA
1 ATTTTGGACTGTGGTATGGGGTTTTTGGATTTGGGTTTTATGCATGCATTATTCAAACACATTGA
* *
10490291 TTATTTATGTTAATC-GAAAATGCATGTTACACGACCTAATTAAAATCTGACATGAATAGTATTT
66 TTATATATGTTAACCAGAAAATGCATGTTACACGACCTAATTAAAATCTGACATGAATAGTATTT
* *
10490355 TTGCAC-TA-TTTAGAAAGAAAACAAAATTTTGCAAAACAAAGCAACAAACAACGGGTTTTTATA
131 TT-CACTTACTTT-GAAAGAAAACAAAATTTTGCAAAACAAAGCAACAAACAACGGGTTTCTAAA
* *
10490418 AACATCACTATCAATAATAAAAATGAGACTTCAGAATAGATGGTTCAATAAATGAATATTTTTCA
194 AACATCACTATCAATAATAAAAATGAGACTTAAGAATAGATGGCTCAATAAATGAATATTTTTCA
10490483 AACTAACTCAAGTG
259 AACTAACTCAAGTG
10490497 TGACCACAGT
Statistics
Matches: 243, Mismatches: 25, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
287 3 0.01
288 170 0.70
289 55 0.23
290 15 0.06
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (290 bp):
ATTTTGGACTGTGGTATGGGGTTTTTGGATTTGGGTTTTATGCATGCATTATTCAAACACATTGA
TTATATATGTTAACCAGAAAATGCATGTTACACGACCTAATTAAAATCTGACATGAATAGTATTT
TTCACTTACTTTGAAAGAAAACAAAATTTTGCAAAACAAAGCAACAAACAACGGGTTTCTAAAAA
CATCACTATCAATAATAAAAATGAGACTTAAGAATAGATGGCTCAATAAATGAATATTTTTCAAA
CTAACTCAAGTGCAACTGTAGTTTTCCAAA
Found at i:10494695 original size:101 final size:102
Alignment explanation
Indices: 10494566--10494749 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 102
10494556 AAAGTGATGG
* * *
10494566 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGA-A-TGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGATAGTGAT-GGTCACATGTGTAGT
10494629 ACTATGTGCAGCCTACTATACGTACCGGATAGCTTCAA
65 ACTATGTGCAGCCTACTATACGTACCGGATAGCTTCAA
* * * *
10494667 TCACGTGTGTCGTACTATGTGCAAGCTACTATGTGTATCGGATAGTGATTGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGATAGTGATGGTCACATGTGTAGTA
*
10494732 CTATGTGCAGGCTACTAT
66 CTATGTGCAGCCTACTAT
10494750 GTGAACCGGT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
101 37 0.51
102 32 0.44
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGATAGTGATGGTCACATGTGTAGTA
CTATGTGCAGCCTACTATACGTACCGGATAGCTTCAA
Found at i:10494709 original size:51 final size:50
Alignment explanation
Indices: 10494566--10494758 Score: 169
Period size: 51 Copynumber: 3.8 Consensus size: 50
10494556 AAAGTGATGG
* * * * *
10494566 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAAGCTACTATGTGTACCGGATAGT-ATA-A
* **
10494616 TCGCATGTGTAGTACTATGTGC-AGCCTACTATACGTACCGGATAGCT-TCAA
1 TCACATGTGTAGTACTATGTGCAAG-CTACTATGTGTACCGGATAG-TAT-AA
* * * **
10494667 TCACGTGTGTCGTACTATGTGCAAGCTACTATGTGTATCGGATAGTGATTG
1 TCACATGTGTAGTACTATGTGCAAGCTACTATGTGTACCGGATAGT-ATAA
* *
10494718 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCGG
1 TCACATGTGTAGTACTATGTGCAAGCTACTATGTGTACCGG
10494759 TATCATTAAT
Statistics
Matches: 114, Mismatches: 21, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
49 1 0.01
50 34 0.30
51 74 0.65
52 4 0.04
53 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAAGCTACTATGTGTACCGGATAGTATAA
Found at i:10494845 original size:46 final size:43
Alignment explanation
Indices: 10494754--10494838 Score: 107
Period size: 46 Copynumber: 1.9 Consensus size: 43
10494744 TACTATGTGA
*
10494754 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTGATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGATCCC
* * *
10494797 ACCGGATATCATTGATTACAAAGGGTGGTTGTTGTGTGCTGA
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGA
10494839 ATCCACCATG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
43 5 0.14
44 11 0.31
45 2 0.06
46 17 0.49
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGATCCC
Found at i:10495014 original size:16 final size:16
Alignment explanation
Indices: 10494976--10495007 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10494966 TGATTGAAAG
*
10494976 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
10494992 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
10495008 GCAAAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:10498362 original size:16 final size:16
Alignment explanation
Indices: 10498319--10498369 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
10498309 TATTTGAATG
*
10498319 TTTATGATATGATTGA
1 TTTATGATATAATTGA
**
10498335 -TTATTTTAATAATTGA
1 TTTATGAT-ATAATTGA
10498351 TTTATGATATAATTGA
1 TTTATGATATAATTGA
10498367 TTT
1 TTT
10498370 GTAATTTTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 5 0.18
16 18 0.64
17 5 0.18
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (16 bp):
TTTATGATATAATTGA
Found at i:10500028 original size:27 final size:26
Alignment explanation
Indices: 10499989--10500321 Score: 294
Period size: 27 Copynumber: 12.3 Consensus size: 26
10499979 GTAATGAGCT
*
10499989 TAAAATGATCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTC-AAGGG
* *
10500016 TAAAATAACCGAAATACCCTCAAAAGG
1 TAAAATGACCGAAATACCCTC-AAGGG
* * * *
10500043 TAAAATTATCGAAATACCCCCAAATGG
1 TAAAATGACCGAAATACCCTC-AAGGG
*
10500070 TAAAATGACCGAAATACCCTTGAAGGG
1 TAAAATGACCGAAATACCC-TCAAGGG
* *
10500097 TAAAATGACTGAAATACCCTCGAAGGA
1 TAAAATGACCGAAATACCCTC-AAGGG
10500124 TAAAATGACCGAAATACCCTCAAAGGG
1 TAAAATGACCGAAATACCCTC-AAGGG
* *
10500151 TAAAATGACCGAAATACCCCCATAAGG
1 TAAAATGACCGAAATACCCTCA-AGGG
*** *
10500178 TAAAATGATTAAAATATCCCT-ATAGAG
1 TAAAATGACCGAAATA-CCCTCA-AGGG
* *
10500205 TAAAATAACTGAAATACCCTCATAGGG
1 TAAAATGACCGAAATACCCTCA-AGGG
*
10500232 TAAAATGACC-AAATTACCCCCATAGGG
1 TAAAATGACCGAAA-TACCCTCA-AGGG
10500259 TAAAATGACCGAAATACTCC-CATAGGG
1 TAAAATGACCGAAATAC-CCTCA-AGGG
* * * * *
10500286 TAAAATAATCAAAATACCCCCATAAGG
1 TAAAATGACCGAAATACCCTCA-AGGG
10500313 TAAAATGAC
1 TAAAATGAC
10500322 TATTATACCC
Statistics
Matches: 257, Mismatches: 40, Indels: 18
0.82 0.13 0.06
Matches are distributed among these distances:
26 11 0.04
27 238 0.93
28 8 0.03
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.19
Consensus pattern (26 bp):
TAAAATGACCGAAATACCCTCAAGGG
Found at i:10500332 original size:81 final size:82
Alignment explanation
Indices: 10499989--10500321 Score: 328
Period size: 81 Copynumber: 4.1 Consensus size: 82
10499979 GTAATGAGCT
* * * * * *
10499989 TAAAATGATCGAAATACCCTCGA-AGGGTAAAATAACCGAAATACCCTC-AAAAGGTAAAATTAT
1 TAAAATGACCGAAATACCC-CCATAGGGTAAAATGACCGAAATACCCTCGATAGGGTAAAATAAT
*
10500052 CGAAATACCCCCAAATGG
65 CGAAATACCCCCAAAGGG
** * * * *
10500070 TAAAATGACCGAAATACCCTTGA-AGGGTAAAATGACTGAAATACCCTCGA-AGGATAAAATGAC
1 TAAAATGACCGAAATACCC-CCATAGGGTAAAATGACCGAAATACCCTCGATAGGGTAAAATAAT
*
10500133 CGAAATACCCTCAAAGGG
65 CGAAATACCCCCAAAGGG
* *** *
10500151 TAAAATGACCGAAATACCCCCATAAGGTAAAATGATTAAAATATCCCT--ATAGAGTAAAATAA-
1 TAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATA-CCCTCGATAGGGTAAAATAAT
* *
10500213 CTGAAATACCCTCATAGGG
65 C-GAAATACCCCCAAAGGG
10500232 TAAAATGACC-AAATTACCCCCATAGGGTAAAATGACCGAAATACTCC-C-ATAGGGTAAAATAA
1 TAAAATGACCGAAA-TACCCCCATAGGGTAAAATGACCGAAATAC-CCTCGATAGGGTAAAATAA
*
10500294 TCAAAATACCCCCATAA-GG
64 TCGAAATACCCCCA-AAGGG
10500313 TAAAATGAC
1 TAAAATGAC
10500322 TATTATACCC
Statistics
Matches: 215, Mismatches: 27, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
80 7 0.03
81 201 0.93
82 7 0.03
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.19
Consensus pattern (82 bp):
TAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCTCGATAGGGTAAAATAATC
GAAATACCCCCAAAGGG
Found at i:10500691 original size:28 final size:28
Alignment explanation
Indices: 10500651--10500727 Score: 136
Period size: 28 Copynumber: 2.8 Consensus size: 28
10500641 GTACCGATAT
*
10500651 TGTATTAGGCTAAGGTCCACATTGTTAC
1 TGTATTAGGCTAAGGCCCACATTGTTAC
10500679 TGTATTAGGCTAAGGCCCACATTGTTAC
1 TGTATTAGGCTAAGGCCCACATTGTTAC
*
10500707 TGTATTGGGCTAAGGCCCACA
1 TGTATTAGGCTAAGGCCCACA
10500728 CTATACTGTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (28 bp):
TGTATTAGGCTAAGGCCCACATTGTTAC
Found at i:10501951 original size:18 final size:20
Alignment explanation
Indices: 10501920--10501956 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10501910 TTGGGGGGTC
10501920 AAATTATGATTTC-ACTTTT
1 AAATTATGATTTCAACTTTT
10501939 AAATTAT-ATTTCAACTTT
1 AAATTATGATTTCAACTTT
10501957 GGATTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.35, C:0.11, G:0.03, T:0.51
Consensus pattern (20 bp):
AAATTATGATTTCAACTTTT
Found at i:10502501 original size:15 final size:15
Alignment explanation
Indices: 10502481--10502514 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10502471 TACCAAAAGG
10502481 GTATTTACAACAATT
1 GTATTTACAACAATT
* *
10502496 GTATTTACACCATTT
1 GTATTTACAACAATT
10502511 GTAT
1 GTAT
10502515 ATTCAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (15 bp):
GTATTTACAACAATT
Found at i:10504272 original size:17 final size:17
Alignment explanation
Indices: 10504245--10504287 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
10504235 AAAATGAAAA
10504245 CAAAAACCAAT-TTTGATT
1 CAAAAA-CAATATTT-ATT
10504263 CAAAAACAATATTTATT
1 CAAAAACAATATTTATT
*
10504280 TAAAAACA
1 CAAAAACA
10504288 TTTCATATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.30
Consensus pattern (17 bp):
CAAAAACAATATTTATT
Found at i:10511624 original size:34 final size:34
Alignment explanation
Indices: 10511581--10511649 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
10511571 TCAACGTATC
10511581 AAAGATAGTCTCATATTTACATGTCATGATACAT
1 AAAGATAGTCTCATATTTACATGTCATGATACAT
10511615 AAAGATAGTCTCATATTTACATGTCATGATACAT
1 AAAGATAGTCTCATATTTACATGTCATGATACAT
10511649 A
1 A
10511650 TCATTTTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (34 bp):
AAAGATAGTCTCATATTTACATGTCATGATACAT
Found at i:10517310 original size:42 final size:42
Alignment explanation
Indices: 10517271--10517351 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
10517261 TGAGTTTCAG
* *
10517271 TTCAGCTCTTATGAGCTTTTGTTTAACCCTTATGGGTTTCCA
1 TTCAGCTCCTACGAGCTTTTGTTTAACCCTTATGGGTTTCCA
* * *
10517313 TTCAGCTCCTACGTGCTTTTGTTCAGCCCTTATGGGTTT
1 TTCAGCTCCTACGAGCTTTTGTTTAACCCTTATGGGTTT
10517352 TTGTTTAGCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (42 bp):
TTCAGCTCCTACGAGCTTTTGTTTAACCCTTATGGGTTTCCA
Found at i:10517353 original size:21 final size:21
Alignment explanation
Indices: 10517270--10517366 Score: 63
Period size: 21 Copynumber: 4.6 Consensus size: 21
10517260 ATGAGTTTCA
* *
10517270 GTTCAGCTCTTATGAGCTTTT
1 GTTCAGCCCTTATGGGCTTTT
* * *
10517291 GTTTAACCCTTATGGG-TTTCC
1 GTTCAGCCCTTATGGGCTTT-T
* * *
10517312 ATTCAGCTCC-TACGTGCTTTT
1 GTTCAGC-CCTTATGGGCTTTT
*
10517333 GTTCAGCCCTTATGGGTTTTT
1 GTTCAGCCCTTATGGGCTTTT
* *
10517354 GTTTAGCACTTAT
1 GTTCAGCCCTTAT
10517367 TACTTTTGTG
Statistics
Matches: 55, Mismatches: 17, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
20 5 0.09
21 45 0.82
22 5 0.09
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (21 bp):
GTTCAGCCCTTATGGGCTTTT
Found at i:10540193 original size:18 final size:19
Alignment explanation
Indices: 10540170--10540206 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
10540160 TCATGAAACT
10540170 AAGTTTAACATTT-TAATC
1 AAGTTTAACATTTATAATC
*
10540188 AAGTTTAATATTTATAATC
1 AAGTTTAACATTTATAATC
10540207 TATATAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (19 bp):
AAGTTTAACATTTATAATC
Found at i:10544115 original size:2 final size:2
Alignment explanation
Indices: 10544108--10544142 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10544098 ACTATGCTTA
10544108 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10544143 AACATTGGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10558330 original size:19 final size:19
Alignment explanation
Indices: 10558308--10558351 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
10558298 CAACCCATAT
10558308 TTTTCA-TC-ATTTCACATTA
1 TTTTCATTCTATTTCAC--TA
10558327 TTTTCATTCTATTTCACTA
1 TTTTCATTCTATTTCACTA
10558346 TTTTCA
1 TTTTCA
10558352 CAAATAGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 14 0.61
20 2 0.09
21 7 0.30
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTCATTCTATTTCACTA
Found at i:10579192 original size:22 final size:22
Alignment explanation
Indices: 10579167--10579217 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
10579157 GACAAGCCAC
* *
10579167 CACTGATTTGCAGATAAATTGT
1 CACTGATTTACAGATAAACTGT
10579189 CACTGATTTACAGATAAACTGT
1 CACTGATTTACAGATAAACTGT
*
10579211 CATTGAT
1 CACTGAT
10579218 AACACAGATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (22 bp):
CACTGATTTACAGATAAACTGT
Found at i:10586581 original size:27 final size:27
Alignment explanation
Indices: 10586560--10586717 Score: 219
Period size: 27 Copynumber: 5.9 Consensus size: 27
10586550 AAAATGACTA
10586560 AAATACCCCCATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
*
10586587 AAATACCCCCATAGGGTAAAATTATCG
1 AAATACCCCCATAGGGTAAAATGATCG
*
10586614 AAATACCCCCATATGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
* * *
10586641 AAATACTCTCC-TAGGGTAAAATAACCG
1 AAATAC-CCCCATAGGGTAAAATGATCG
* *
10586668 AAATACCCTCATAGGGTAAAATGATTG
1 AAATACCCCCATAGGGTAAAATGATCG
**
10586695 AAATACCCTTATAGGGTAAAATG
1 AAATACCCCCATAGGGTAAAATG
10586718 TCTGTTATGG
Statistics
Matches: 116, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.02
27 111 0.96
28 3 0.03
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGATCG
Found at i:10587154 original size:28 final size:28
Alignment explanation
Indices: 10587122--10587330 Score: 307
Period size: 28 Copynumber: 7.5 Consensus size: 28
10587112 CTATATTGAG
*
10587122 TAAGGCCCACACTGATTCTGTATGGGGC
1 TAAGGCCCACACTGATTCTGTATTGGGC
* *
10587150 TAAGGCCCACACTG-TCACTGTATTGGAC
1 TAAGGCCCACACTGAT-TCTGTATTGGGC
10587178 TAAGGCCCACACTGATTCTGTATTGGGC
1 TAAGGCCCACACTGATTCTGTATTGGGC
* *
10587206 TAAGGCCTACACTAATTCTGTATTGGGC
1 TAAGGCCCACACTGATTCTGTATTGGGC
10587234 TAAGGCCCACACTGATTCTGTATTGGGC
1 TAAGGCCCACACTGATTCTGTATTGGGC
*
10587262 TAAAGCCCACACTG-TTACTGTATTGGGC
1 TAAGGCCCACACTGATT-CTGTATTGGGC
*
10587290 TAAGGACCACACTG-TTACTGTATTGGGC
1 TAAGGCCCACACTGATT-CTGTATTGGGC
10587318 TAAGGCCCACACT
1 TAAGGCCCACACT
10587331 ATACTGTCAC
Statistics
Matches: 165, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
27 3 0.02
28 161 0.98
29 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.27
Consensus pattern (28 bp):
TAAGGCCCACACTGATTCTGTATTGGGC
Found at i:10587244 original size:84 final size:82
Alignment explanation
Indices: 10587104--10587337 Score: 305
Period size: 84 Copynumber: 2.8 Consensus size: 82
10587094 TATTGCACTG
* * *
10587104 CACTGTTACTATATTGAG-TAAGGCCCACACTGATTCTGTATGGGGCTAAGGCCCACACTG-TCA
1 CACTGTTACTGTATTGGGCTAAGG-CCACACT-ATTCTGTATTGGGCTAAGGCCCACACTGAT-A
*
10587167 CTGTATTGGACTAAGGCCCA
63 CTGTATTGGACTAAAGCCCA
*
10587187 CACTGATT-CTGTATTGGGCTAAGGCCTACACTAATTCTGTATTGGGCTAAGGCCCACACTGATT
1 CACTG-TTACTGTATTGGGCTAAGGCC-ACACT-ATTCTGTATTGGGCTAAGGCCCACACTGATA
*
10587251 CTGTATTGGGCTAAAGCCCA
63 CTGTATTGGACTAAAGCCCA
*
10587271 CACTGTTACTGTATTGGGCTAAGGACCACACTGTTACTGTATTGGGCTAAGGCCCACACT-ATAC
1 CACTGTTACTGTATTGGGCTAAGG-CCACACTATT-CTGTATTGGGCTAAGGCCCACACTGATAC
10587335 TGT
64 TGT
10587338 CACTAAATAG
Statistics
Matches: 135, Mismatches: 9, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
83 25 0.19
84 107 0.79
85 3 0.02
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (82 bp):
CACTGTTACTGTATTGGGCTAAGGCCACACTATTCTGTATTGGGCTAAGGCCCACACTGATACTG
TATTGGACTAAAGCCCA
Found at i:10616568 original size:14 final size:15
Alignment explanation
Indices: 10616545--10616577 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
10616535 AATTAAAGTA
10616545 TAAATAAAACTAA-T
1 TAAATAAAACTAACT
*
10616559 TAAATTAAACTAACT
1 TAAATAAAACTAACT
10616574 TAAA
1 TAAA
10616578 CTAACTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAATAAAACTAACT
Found at i:10617193 original size:27 final size:28
Alignment explanation
Indices: 10617159--10617215 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
10617149 CAGTAACAGT
*
10617159 ACAGTGCGGGCCTTAGCCCAA-AAAGTA
1 ACAGTGCGGGCCCTAGCCCAATAAAGTA
*
10617186 ACAGTGCGGGCCCTAGCCCAATATAGTA
1 ACAGTGCGGGCCCTAGCCCAATAAAGTA
10617214 AC
1 AC
10617216 CAGTACAGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.32, C:0.28, G:0.25, T:0.16
Consensus pattern (28 bp):
ACAGTGCGGGCCCTAGCCCAATAAAGTA
Found at i:10617558 original size:27 final size:27
Alignment explanation
Indices: 10617528--10617771 Score: 188
Period size: 27 Copynumber: 9.0 Consensus size: 27
10617518 ATATATATCA
* *
10617528 TACCCTTCGGGGGTATTTCATTCATCT
1 TACCCTTCGGGGGTATTTCAGTCATTT
* *
10617555 TACCC-TCTAGGGGTGTTT-AGGTCATTT
1 TACCCTTC-GGGGGTATTTCA-GTCATTT
*
10617582 TACCCTTCGGGGGTATTTCGGTCATTT
1 TACCCTTCGGGGGTATTTCAGTCATTT
* * *
10617609 TACCCTTAGAGGGTATTTCTGTCATTT
1 TACCCTTCGGGGGTATTTCAGTCATTT
* * **
10617636 TACCCTTTGAGGGTATTTTGGTCATTT
1 TACCCTTCGGGGGTATTTCAGTCATTT
** *
10617663 TACCCTTCAAGGATATTTC-GATCATTT
1 TACCCTTCGGGGGTATTTCAG-TCATTT
** * **
10617690 TACATTTCGAGGGTATTTTGGTCATTT
1 TACCCTTCGGGGGTATTTCAGTCATTT
* ** * *
10617717 TGCCCTTCAAGGGAATTTCGGTCATTT
1 TACCCTTCGGGGGTATTTCAGTCATTT
* * *
10617744 TACCTTTTGAGGGTATTTCAGTCATTT
1 TACCCTTCGGGGGTATTTCAGTCATTT
10617771 T
1 T
10617772 CCCACAAACT
Statistics
Matches: 177, Mismatches: 34, Indels: 12
0.79 0.15 0.05
Matches are distributed among these distances:
26 4 0.02
27 170 0.96
28 3 0.02
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.43
Consensus pattern (27 bp):
TACCCTTCGGGGGTATTTCAGTCATTT
Found at i:10617612 original size:54 final size:54
Alignment explanation
Indices: 10617528--10617771 Score: 267
Period size: 54 Copynumber: 4.5 Consensus size: 54
10617518 ATATATATCA
* ** * * * *
10617528 TACCCTTCGGGGGTATTTCATTCATCTTACCC-TCTAGGGGTGTTTAGGTCATTT
1 TACCCTTCGAGGGTATTTCGGTCATTTTACCCTTC-AAGGGTATTTCGGTCATTT
* *
10617582 TACCCTTCGGGGGTATTTCGGTCATTTTACCCTT-AGAGGGTATTTCTGTCATTT
1 TACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCA-AGGGTATTTCGGTCATTT
* * * *
10617636 TACCCTTTGAGGGTATTTTGGTCATTTTACCCTTCAAGGATATTTCGATCATTT
1 TACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCGGTCATTT
** * * *
10617690 TACATTTCGAGGGTATTTTGGTCATTTTGCCCTTCAAGGGAATTTCGGTCATTT
1 TACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCGGTCATTT
* * *
10617744 TACCTTTTGAGGGTATTTCAGTCATTTT
1 TACCCTTCGAGGGTATTTCGGTCATTTT
10617772 CCCACAAACT
Statistics
Matches: 163, Mismatches: 24, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 160 0.98
55 2 0.01
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.43
Consensus pattern (54 bp):
TACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCGGTCATTT
Found at i:10617639 original size:81 final size:80
Alignment explanation
Indices: 10617528--10617771 Score: 258
Period size: 81 Copynumber: 3.0 Consensus size: 80
10617518 ATATATATCA
* * * *
10617528 TACCCTTCGGGGGTATTTCAT-TCATCTTACCCTCTAGGGGTGTTTAGGTCATTTTACCCTTCGG
1 TACCCTTCGAGGGTATTTC-TGTCATTTTACCCT-TAGGGGTATTTAGGTCATTTTACCCTTCGA
10617592 GGGTATTTCGGTCATTT
64 GGGTATTTCGGTCATTT
* * * *
10617609 TACCCTTAGAGGGTATTTCTGTCATTTTACCCTTTGAGGGTATTTTGGTCATTTTACCCTTCAAG
1 TACCCTTCGAGGGTATTTCTGTCATTTTACCCTTAG-GGGTATTTAGGTCATTTTACCCTTCGAG
* *
10617674 GATATTTCGATCATTT
65 GGTATTTCGGTCATTT
** * * * * * *
10617690 TACATTTCGAGGGTATTT-TGGTCATTTTGCCCTTCAAGGGAATTTCGGTCATTTTACCTTTTGA
1 TACCCTTCGAGGGTATTTCT-GTCATTTTACCCTT-AGGGGTATTTAGGTCATTTTACCCTTCGA
*
10617754 GGGTATTTCAGTCATTT
64 GGGTATTTCGGTCATTT
10617771 T
1 T
10617772 CCCACAAACT
Statistics
Matches: 135, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
80 4 0.03
81 131 0.97
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.43
Consensus pattern (80 bp):
TACCCTTCGAGGGTATTTCTGTCATTTTACCCTTAGGGGTATTTAGGTCATTTTACCCTTCGAGG
GTATTTCGGTCATTT
Found at i:10623113 original size:26 final size:26
Alignment explanation
Indices: 10623083--10623139 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
10623073 TCCTTTAAAA
10623083 ATCACTTAAATGATGTCCATCTTTGT
1 ATCACTTAAATGATGTCCATCTTTGT
* *
10623109 ATCACTTAAATGGTGTTCATCTTTGT
1 ATCACTTAAATGATGTCCATCTTTGT
10623135 -TCACT
1 ATCACT
10623140 AAGTATATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 5 0.17
26 24 0.83
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (26 bp):
ATCACTTAAATGATGTCCATCTTTGT
Found at i:10634726 original size:84 final size:84
Alignment explanation
Indices: 10634632--10634800 Score: 329
Period size: 84 Copynumber: 2.0 Consensus size: 84
10634622 ACAACTCTAT
10634632 TCTCGGCTTTTATTTAAAACATGTGTTTTAACAGTTAAAAAATTAGTTTCAAAGGCCTAATAACA
1 TCTCGGCTTTTATTTAAAACATGTGTTTTAACAGTTAAAAAATTAGTTTCAAAGGCCTAATAACA
*
10634697 TTAAAAAGTAATAAGAAAG
66 TTAAAAACTAATAAGAAAG
10634716 TCTCGGCTTTTATTTAAAACATGTGTTTTAACAGTTAAAAAATTAGTTTCAAAGGCCTAATAACA
1 TCTCGGCTTTTATTTAAAACATGTGTTTTAACAGTTAAAAAATTAGTTTCAAAGGCCTAATAACA
10634781 TTAAAAACTAATAAGAAAG
66 TTAAAAACTAATAAGAAAG
10634800 T
1 T
10634801 GAATGGTTAC
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (84 bp):
TCTCGGCTTTTATTTAAAACATGTGTTTTAACAGTTAAAAAATTAGTTTCAAAGGCCTAATAACA
TTAAAAACTAATAAGAAAG
Found at i:10637677 original size:40 final size:40
Alignment explanation
Indices: 10637622--10637729 Score: 148
Period size: 40 Copynumber: 2.7 Consensus size: 40
10637612 TTATTGAATG
*
10637622 AATGCACAGACATGCCCCTGTTTGTACTTC-GATACCCCTA
1 AATGCACATACATGCCCCTGTTTGTACTTCAG-TACCCCTA
*
10637662 AATGCACATACATGCCCCTGTTTGTACTTCAGTACCCCTG
1 AATGCACATACATGCCCCTGTTTGTACTTCAGTACCCCTA
* *
10637702 AATGCACATA-AGTGCCCCTATTTATACT
1 AATGCACATACA-TGCCCCTGTTTGTACT
10637730 CCGGTAACTC
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
39 1 0.02
40 60 0.97
41 1 0.02
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.30
Consensus pattern (40 bp):
AATGCACATACATGCCCCTGTTTGTACTTCAGTACCCCTA
Found at i:10637719 original size:20 final size:20
Alignment explanation
Indices: 10637656--10637720 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
10637646 TACTTCGATA
*
10637656 CCCCTAAATGCACATACA-TG
1 CCCCTGAATGCACATA-AGTG
** * * * *
10637676 CCCCTGTTTGTACTTCAGTA
1 CCCCTGAATGCACATAAGTG
10637696 CCCCTGAATGCACATAAGTG
1 CCCCTGAATGCACATAAGTG
10637716 CCCCT
1 CCCCT
10637721 ATTTATACTC
Statistics
Matches: 31, Mismatches: 13, Indels: 2
0.67 0.28 0.04
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.25, C:0.35, G:0.14, T:0.26
Consensus pattern (20 bp):
CCCCTGAATGCACATAAGTG
Found at i:10637743 original size:40 final size:40
Alignment explanation
Indices: 10637620--10637744 Score: 110
Period size: 40 Copynumber: 3.1 Consensus size: 40
10637610 AATTATTGAA
* * * * *
10637620 TGAATGCACAGACATGCCCCTGTTTGTACTTC-GATACCCC
1 TGAATGCACATACATGCCCCTATTTATACTCCAG-TAACCC
* * * * *
10637660 TAAATGCACATACATGCCCCTGTTTGTACTTCAGTACCCC
1 TGAATGCACATACATGCCCCTATTTATACTCCAGTAACCC
* *
10637700 TGAATGCACATA-AGTGCCCCTATTTATACTCCGGTAACTC
1 TGAATGCACATACA-TGCCCCTATTTATACTCCAGTAACCC
10637740 TGAAT
1 TGAAT
10637745 TAAATAGTAT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 72 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (40 bp):
TGAATGCACATACATGCCCCTATTTATACTCCAGTAACCC
Found at i:10653041 original size:41 final size:41
Alignment explanation
Indices: 10652984--10653253 Score: 274
Period size: 41 Copynumber: 6.6 Consensus size: 41
10652974 TTATCCCATA
* * *
10652984 AATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCTTG
1 AATTGCACATACGTGCCCCTGATTGTACTTCGGTACCCCTG
* * *
10653025 AATTGCACATACGTGCCCTTGTTTGTACGTT-GGTACCCCTA
1 AATTGCACATACGTGCCCCTGATTGTAC-TTCGGTACCCCTG
* *
10653066 AATTGCACATACGTGCCCCTGATTATACTTCAGTACCCCTG
1 AATTGCACATACGTGCCCCTGATTGTACTTCGGTACCCCTG
* * * * *
10653107 ACGTT-CACATATGTTCCCCTGATTATACTTCGGTACCTCTG
1 A-ATTGCACATACGTGCCCCTGATTGTACTTCGGTACCCCTG
* * * *
10653148 CATTGCACATACGTGCCCCTAATTGTAATTCGGTACCCCTA
1 AATTGCACATACGTGCCCCTGATTGTACTTCGGTACCCCTG
* * * * ** *
10653189 AATTCCATATACGTGCCCTTGTTTGTACTTCACTACTCCTG
1 AATTGCACATACGTGCCCCTGATTGTACTTCGGTACCCCTG
* *
10653230 AATTGCACATGCGTGACCCTGATT
1 AATTGCACATACGTGCCCCTGATT
10653254 ACACTCTGGT
Statistics
Matches: 185, Mismatches: 40, Indels: 8
0.79 0.17 0.03
Matches are distributed among these distances:
40 4 0.02
41 177 0.96
42 4 0.02
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTGATTGTACTTCGGTACCCCTG
Found at i:10653239 original size:123 final size:123
Alignment explanation
Indices: 10652984--10653254 Score: 323
Period size: 123 Copynumber: 2.2 Consensus size: 123
10652974 TTATCCCATA
* * * **
10652984 AATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCTTGAATTGCACATACGTGCCCTTGTTT
1 AATTGCACATATGTGCCCCTGATTATACTTCGGTACCCTTGAATTGCACATACGTGCCCCTAATT
* * *
10653049 GTACGTTGGTACCCCTAAATTGCACATACGTGCCCCTGATTATACTTCAGTACCCCTG
66 GTACATTGGTACCCCTAAATTCCACATACGTGCCCCTGATTATACTTCACTACCCCTG
* * *
10653107 ACGTT-CACATATGTTCCCCTGATTATACTTCGGTA-CCTCTGCATTGCACATACGTGCCCCTAA
1 A-ATTGCACATATGTGCCCCTGATTATACTTCGGTACCCT-TGAATTGCACATACGTGCCCCTAA
* * * * *
10653170 TTGTA-ATTCGGTACCCCTAAATTCCATATACGTGCCCTTGTTTGTACTTCACTACTCCTG
64 TTGTACATT-GGTACCCCTAAATTCCACATACGTGCCCCTGATTATACTTCACTACCCCTG
** *
10653230 AATTGCACATGCGTGACCCTGATTA
1 AATTGCACATATGTGCCCCTGATTA
10653255 CACTCTGGTA
Statistics
Matches: 123, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
122 7 0.06
123 114 0.93
124 2 0.02
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (123 bp):
AATTGCACATATGTGCCCCTGATTATACTTCGGTACCCTTGAATTGCACATACGTGCCCCTAATT
GTACATTGGTACCCCTAAATTCCACATACGTGCCCCTGATTATACTTCACTACCCCTG
Found at i:10654259 original size:21 final size:21
Alignment explanation
Indices: 10654212--10654253 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
10654202 GCAATTTTGT
*
10654212 AATTAAAGTGAAATTAAAACA
1 AATTAAACTGAAATTAAAACA
10654233 AATTAAACTGAAATTAAAACA
1 AATTAAACTGAAATTAAAACA
10654254 CTTTAATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (21 bp):
AATTAAACTGAAATTAAAACA
Found at i:10655209 original size:21 final size:21
Alignment explanation
Indices: 10655183--10655269 Score: 84
Period size: 21 Copynumber: 4.1 Consensus size: 21
10655173 GATTTGGGTG
* *
10655183 GTTCAGCTCTTACGAGCTTTT
1 GTTCAGCTCTCACGAGCTTCT
10655204 GTTCAGCTCTCACGAGCTTCT
1 GTTCAGCTCTCACGAGCTTCT
* * * *
10655225 GTTCGGCTATCATGAGCTTTT
1 GTTCAGCTCTCACGAGCTTCT
* * * *
10655246 ATTTAGCTCTTATGAGCTTCT
1 GTTCAGCTCTCACGAGCTTCT
10655267 GTT
1 GTT
10655270 GACGTGTTCT
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (21 bp):
GTTCAGCTCTCACGAGCTTCT
Found at i:10674707 original size:19 final size:17
Alignment explanation
Indices: 10674675--10674710 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
10674665 TATATTGCGA
10674675 TAAAAAATAAAATAAAT
1 TAAAAAATAAAATAAAT
10674692 TAAAGAAATAAAAATAAAT
1 TAAA-AAAT-AAAATAAAT
10674711 AAATAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 4 0.24
19 9 0.53
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (17 bp):
TAAAAAATAAAATAAAT
Found at i:10674710 original size:23 final size:24
Alignment explanation
Indices: 10674677--10674728 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
10674667 TATTGCGATA
*
10674677 AAAAATAAAATAAATTAA-AGAAAT
1 AAAAATAAAATAAA-TAAGAAAAAT
10674701 AAAAAT-AAATAAATAAGAAAAAT
1 AAAAATAAAATAAATAAGAAAAAT
10674724 AAAAA
1 AAAAA
10674729 AATGATTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 3 0.12
23 17 0.65
24 6 0.23
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (24 bp):
AAAAATAAAATAAATAAGAAAAAT
Found at i:10674713 original size:18 final size:17
Alignment explanation
Indices: 10674674--10674730 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
10674664 CTATATTGCG
10674674 ATAAAAAAT-AAAATAA
1 ATAAAAAATAAAAATAA
10674690 ATTAAAGAAATAAAAATAA
1 A-TAAA-AAATAAAAATAA
* *
10674709 ATAAATAAGAAAAATAA
1 ATAAAAAATAAAAATAA
10674726 A-AAAA
1 ATAAAA
10674731 TGATTGAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
16 4 0.11
17 15 0.43
18 8 0.23
19 8 0.23
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.18
Consensus pattern (17 bp):
ATAAAAAATAAAAATAA
Found at i:10675243 original size:22 final size:20
Alignment explanation
Indices: 10675218--10675266 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
10675208 ATAGAGTAGT
* *
10675218 AAATATCTTGATTGGAATAAA
1 AAATATATTGATTGCAA-AAA
*
10675239 GAAATAAATTGATTGCAAAAA
1 -AAATATATTGATTGCAAAAA
10675260 AAATATA
1 AAATATA
10675267 AACTGGATGC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.26
21 3 0.13
22 14 0.61
ACGTcount: A:0.55, C:0.04, G:0.12, T:0.29
Consensus pattern (20 bp):
AAATATATTGATTGCAAAAA
Found at i:10675267 original size:22 final size:22
Alignment explanation
Indices: 10675225--10675268 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10675215 AGTAAATATC
* *
10675225 TTGATTGGAATAAAGAAATAAA
1 TTGATTGCAATAAAAAAATAAA
10675247 TTGATTGCAA-AAAAAATATAAA
1 TTGATTGCAATAAAAAA-ATAAA
10675269 CTGGATGCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.57, C:0.02, G:0.14, T:0.27
Consensus pattern (22 bp):
TTGATTGCAATAAAAAAATAAA
Found at i:10677650 original size:16 final size:17
Alignment explanation
Indices: 10677619--10677656 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
10677609 GGTAATTGAA
*
10677619 TAAATTCAATTAAAACC
1 TAAATTCAAATAAAACC
10677636 TAAATT-AAATAAAACC
1 TAAATTCAAATAAAACC
*
10677652 AAAAT
1 TAAAT
10677657 GGCTTCATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAATTCAAATAAAACC
Found at i:10688473 original size:18 final size:19
Alignment explanation
Indices: 10688450--10688489 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
10688440 TGGTAGGCCG
*
10688450 TGTGATCGA-ACATGGGCA
1 TGTGATCGACACACGGGCA
10688468 TGTGATCGACACACGGGCA
1 TGTGATCGACACACGGGCA
10688487 TGT
1 TGT
10688490 AAACGCGTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.23
Consensus pattern (19 bp):
TGTGATCGACACACGGGCA
Found at i:10692156 original size:36 final size:36
Alignment explanation
Indices: 10692107--10692177 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
10692097 TTTGTATTTA
*
10692107 TTTTGAAGGTGGATTAAACGACGAGATCAAGCTATG
1 TTTTGAAGATGGATTAAACGACGAGATCAAGCTATG
* *
10692143 TTTTGAAGATGGATTAAATGATGAGATCAAGCTAT
1 TTTTGAAGATGGATTAAACGACGAGATCAAGCTAT
10692178 TGGTTGGTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.35, C:0.08, G:0.25, T:0.31
Consensus pattern (36 bp):
TTTTGAAGATGGATTAAACGACGAGATCAAGCTATG
Found at i:10703221 original size:19 final size:19
Alignment explanation
Indices: 10703194--10703230 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10703184 CCATTTTCAT
*
10703194 TTAACTAAAAAATGAAAAA
1 TTAAATAAAAAATGAAAAA
*
10703213 TTAAATAAAAAATTAAAA
1 TTAAATAAAAAATGAAAA
10703231 TGATTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (19 bp):
TTAAATAAAAAATGAAAAA
Found at i:10704333 original size:4 final size:4
Alignment explanation
Indices: 10704324--10704381 Score: 116
Period size: 4 Copynumber: 14.5 Consensus size: 4
10704314 CATCGTCAAC
10704324 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
10704372 TATG TATG TA
1 TATG TATG TA
10704382 CCCTTTGGCT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 54 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:10707186 original size:18 final size:19
Alignment explanation
Indices: 10707159--10707195 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
10707149 AGCTAGCTAG
*
10707159 GCTTTTGCTTTTG-TTTTC
1 GCTTTCGCTTTTGCTTTTC
10707177 GCTTTCGCTTTTGCTTTTC
1 GCTTTCGCTTTTGCTTTTC
10707196 CAAGGTCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.00, C:0.22, G:0.16, T:0.62
Consensus pattern (19 bp):
GCTTTCGCTTTTGCTTTTC
Found at i:10716422 original size:4 final size:4
Alignment explanation
Indices: 10716413--10716437 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
10716403 AACTTGAGCT
10716413 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
10716438 GTACAAGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:10729047 original size:19 final size:16
Alignment explanation
Indices: 10729002--10729035 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
10728992 ACATACCCCT
10729002 GAAGATGGTTGTAGAG
1 GAAGATGGTTGTAGAG
10729018 GAAGATGGTTGTAGAG
1 GAAGATGGTTGTAGAG
10729034 GA
1 GA
10729036 GCATATTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.44, T:0.24
Consensus pattern (16 bp):
GAAGATGGTTGTAGAG
Found at i:10731469 original size:6 final size:6
Alignment explanation
Indices: 10731445--10731485 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
10731435 GCAGATGTAT
* *
10731445 CATTTC TCATTTT CATTTC CATTTC CGTTTC CATTTC CATT
1 CATTTC -CATTTC CATTTC CATTTC CATTTC CATTTC CATT
10731486 ATGAGAAACC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.15, C:0.29, G:0.02, T:0.54
Consensus pattern (6 bp):
CATTTC
Found at i:10733983 original size:45 final size:45
Alignment explanation
Indices: 10733919--10734012 Score: 161
Period size: 45 Copynumber: 2.1 Consensus size: 45
10733909 AACAGATACT
* *
10733919 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
10733964 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
10734009 CGGT
1 CGGT
10734013 TCACATAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:10736956 original size:42 final size:42
Alignment explanation
Indices: 10736876--10736957 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 42
10736866 CATTTTCTCT
* **
10736876 ATGCCATAGTTCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGTCCAACTATGGTCTTACACATATGCACATATTG
*
10736918 ATGCCATAG-CCAAGCTATGGTTTTACACA-ATAGCACATAT
1 ATGCCATAGTCCAA-CTATGGTCTTACACATAT-GCACATAT
10736958 CACACCGATG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
41 5 0.15
42 29 0.85
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (42 bp):
ATGCCATAGTCCAACTATGGTCTTACACATATGCACATATTG
Found at i:10741587 original size:31 final size:30
Alignment explanation
Indices: 10741552--10741611 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
10741542 GGAGGTGGGA
*
10741552 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
10741583 TGGGAGGGAGTAAAAATTTTTGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
10741612 TGAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.37, T:0.22
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:10741907 original size:9 final size:9
Alignment explanation
Indices: 10741890--10741920 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
10741880 TCGAGTTGAT
10741890 TCGAATAAC
1 TCGAATAAC
*
10741899 TCGATTAAC
1 TCGAATAAC
10741908 TCGAATAAC
1 TCGAATAAC
10741917 TCGA
1 TCGA
10741921 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:10742666 original size:5 final size:5
Alignment explanation
Indices: 10742649--10742679 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
10742639 CATTTCCTTC
10742649 TGATA TG-TA TGATA TGATA TGATA TGATA TG
1 TGATA TGATA TGATA TGATA TGATA TGATA TG
10742680 TGGTAATGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (5 bp):
TGATA
Found at i:10752832 original size:7 final size:7
Alignment explanation
Indices: 10752820--10752861 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
10752810 TAGATACGAT
10752820 ATTTTTA
1 ATTTTTA
10752827 ATTTTTA
1 ATTTTTA
10752834 ATTATTTA
1 ATT-TTTA
*
10752842 ATTATTA
1 ATTTTTA
*
10752849 TTTTTTA
1 ATTTTTA
10752856 ATTTTT
1 ATTTTT
10752862 TAGGTTGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 23 0.77
8 7 0.23
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
ATTTTTA
Found at i:10754323 original size:16 final size:16
Alignment explanation
Indices: 10754302--10754333 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10754292 GTAAACTTAA
10754302 GTTAACTCTCTACACT
1 GTTAACTCTCTACACT
10754318 GTTAACTCTCTACACT
1 GTTAACTCTCTACACT
10754334 AATAGGGCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.06, T:0.38
Consensus pattern (16 bp):
GTTAACTCTCTACACT
Found at i:10760047 original size:19 final size:20
Alignment explanation
Indices: 10760005--10760053 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
10759995 TCATGCTTTC
*
10760005 TATTCACAATTTCATATTCA
1 TATTCACAATTTCAAATTCA
*
10760025 -ATTCACATTTTCAAATT-A
1 TATTCACAATTTCAAATTCA
10760043 TATTCCACAAT
1 TATT-CACAAT
10760054 CACGTTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 1 0.04
19 18 0.75
20 5 0.21
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (20 bp):
TATTCACAATTTCAAATTCA
Found at i:10763009 original size:25 final size:25
Alignment explanation
Indices: 10762978--10763042 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
10762968 ATAAATGTTT
*
10762978 TAATAATCAGATAGCACTAGCGTGC
1 TAATAATCAGATAGCACTAACGTGC
* * *
10763003 TATTAATTAGAGAGCACTAACGTGC
1 TAATAATCAGATAGCACTAACGTGC
10763028 TAATAATCAGATAGC
1 TAATAATCAGATAGC
10763043 GCGCTTAGGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.26
Consensus pattern (25 bp):
TAATAATCAGATAGCACTAACGTGC
Found at i:10765191 original size:18 final size:19
Alignment explanation
Indices: 10765151--10765192 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
10765141 AGTACTTGAT
* * *
10765151 CAGTAATCAGTATCGGTAG
1 CAGTAATCAGTAACAGTAA
10765170 CAGTAA-CAGTAACAGTAA
1 CAGTAATCAGTAACAGTAA
10765188 CAGTA
1 CAGTA
10765193 TTCAACACAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.21
Consensus pattern (19 bp):
CAGTAATCAGTAACAGTAA
Found at i:10765223 original size:45 final size:45
Alignment explanation
Indices: 10765172--10765272 Score: 143
Period size: 45 Copynumber: 2.3 Consensus size: 45
10765162 ATCGGTAGCA
*
10765172 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTT-GAATCT
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGT-TTCGAATCG
* * *
10765217 GTAACAGTAACGGTAATAGTATTCGACACACAAAGTTTCGAATCG
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTTTCGAATCG
10765262 GT-ACAGTAACA
1 GTAACAGTAACA
10765273 TTACTCGACA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
44 10 0.20
45 40 0.80
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAAGTTTCGAATCG
Found at i:10782599 original size:116 final size:116
Alignment explanation
Indices: 10782423--10782663 Score: 383
Period size: 116 Copynumber: 2.1 Consensus size: 116
10782413 CCAGAGTGCC
* * *
10782423 AGGCCGTGTGCTAGGCCGTGTAACTTTCGAATTGCAACCCCAAAAACCTACAGGGGACACACAAC
1 AGGCCGTGTCCTAGGCCATGTAACTTTCAAATTGCAACCCCAAAAACCTACAGGGGACACACAAC
* *
10782488 CATGTCGCATGGCCATGTGTCACACACAGCTGAGACACACGCTCATTTCTT
66 CATGTCGCATGGCCATGTGTCACACACAGCTGAGACACACGCCCATGTCTT
**
10782539 AGGCCGTGTCCTAGGCCATGTAACTTTCAAATTGCAACCCCAAAAACCTACAGGGGACACACAGT
1 AGGCCGTGTCCTAGGCCATGTAACTTTCAAATTGCAACCCCAAAAACCTACAGGGGACACACAAC
* * * *
10782604 CATGTCGCATGGCCATGTGTCACTCACGGCTGAGACACATGCCCGTGTCTT
66 CATGTCGCATGGCCATGTGTCACACACAGCTGAGACACACGCCCATGTCTT
10782655 AGGCCGTGT
1 AGGCCGTGT
10782664 GGACAAGAAA
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
116 114 1.00
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (116 bp):
AGGCCGTGTCCTAGGCCATGTAACTTTCAAATTGCAACCCCAAAAACCTACAGGGGACACACAAC
CATGTCGCATGGCCATGTGTCACACACAGCTGAGACACACGCCCATGTCTT
Found at i:10786540 original size:147 final size:148
Alignment explanation
Indices: 10786291--10786561 Score: 375
Period size: 147 Copynumber: 1.8 Consensus size: 148
10786281 ATTTCGCCTC
* * *
10786291 CTTTAACCACCGACAATTCATTTCACAAATCATAACAATTAATTATTTGTAGAACCATATAACCA
1 CTTTAACCACCGACAATTCATTTCACAAACCATAACAATTAATTATTTGTAGAACCACAAAACCA
***
10786356 TGCAACCACTTTAGTTTGTGCTTAGCGTTCTCACTTTGTAGTGAGGTTGAGAGTGGTGGATCAGA
66 TGCAACCACTTTAGTTTGTGCTTAGCGTTCTCACTTTGTAACAAGGTTGAGAGTGGTGGATCAGA
10786421 ACTTGCTTTTTCAATCTG
131 ACTTGCTTTTTCAATCTG
* * ** * * *
10786439 CTTTAACCACCGATAATT-TTTTCGTAAACCATAACTATTAATTGTTTGTAGGACCACAAAACCA
1 CTTTAACCACCGACAATTCATTTCACAAACCATAACAATTAATTATTTGTAGAACCACAAAACCA
* **
10786503 TGCAACCACTTTAGTTTGT-CATTAGTGTTCTTGCTTTGTAACAAGGTTGAGAGTGGTGG
66 TGCAACCACTTTAGTTTGTGC-TTAGCGTTCTCACTTTGTAACAAGGTTGAGAGTGGTGG
10786562 TTCATACTTA
Statistics
Matches: 106, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
146 1 0.01
147 88 0.83
148 17 0.16
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (148 bp):
CTTTAACCACCGACAATTCATTTCACAAACCATAACAATTAATTATTTGTAGAACCACAAAACCA
TGCAACCACTTTAGTTTGTGCTTAGCGTTCTCACTTTGTAACAAGGTTGAGAGTGGTGGATCAGA
ACTTGCTTTTTCAATCTG
Found at i:10789794 original size:45 final size:45
Alignment explanation
Indices: 10789588--10789810 Score: 230
Period size: 45 Copynumber: 5.0 Consensus size: 45
10789578 ACTATGCGCC
* * * * ** *
10789588 AAAAATGAGTAAGACCATAACTAAAAGATGCTATGGCATTGTCAT
1 AAAAGTGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGAT
* * * * * **
10789633 AAGAGTGTGTAAGACCAAAGTTGAAAAATGCTATGGGATCATGAT
1 AAAAGTGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGAT
* * * *
10789678 AAAAGTGAGTAAGAACATAGTTGAAAGATGTTATGGCATCATGAT
1 AAAAGTGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGAT
* *
10789723 AAAAGTGAGTAAAACCATAGCTGAAAGATGCTATGACATCATGAC
1 AAAAGTGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGAT
* * * *
10789768 AAAACTAAGTAAGACCATAGCTGAAAGACGCTATCACATCATG
1 AAAAGTGAGTAAGACCATAGCTGAAAGATGCTATGACATCATG
10789811 TGAAAGCACG
Statistics
Matches: 148, Mismatches: 30, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 148 1.00
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (45 bp):
AAAAGTGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGAT
Found at i:10793322 original size:20 final size:21
Alignment explanation
Indices: 10793297--10793338 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10793287 AATCAAATTT
* *
10793297 TTTTCAA-TATTTTTTATAAA
1 TTTTCAATTAATTTTTAAAAA
10793317 TTTTCAATTAATTTTTAAAAA
1 TTTTCAATTAATTTTTAAAAA
10793338 T
1 T
10793339 AATGAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTCAATTAATTTTTAAAAA
Found at i:10801287 original size:42 final size:42
Alignment explanation
Indices: 10801212--10801423 Score: 178
Period size: 42 Copynumber: 4.9 Consensus size: 42
10801202 GCTCTTTGTT
* * * **
10801212 GTGTAGGTTAACTCGAACGAGTAACTAGACACTATATTTCTC
1 GTGTAGGTTAACCCGAAAGGGTAAAAAGACACTATATTTCTC
* *
10801254 ATGTAGGTTAACCCGAAAGGGTAAAAACG-CACTATATTTCTT
1 GTGTAGGTTAACCCGAAAGGGTAAAAA-GACACTATATTTCTC
** * *
10801296 GTGTAGGTTAACCTAAAAGGGTAATAAGACACTAAATTTCTC
1 GTGTAGGTTAACCCGAAAGGGTAAAAAGACACTATATTTCTC
* * * *
10801338 GTGTAGGTTAACTCGAAAGGGTAACCATGCACTATTGATATTTCTC
1 GTGTAGGTTAACCCGAAAGGGTAA-AAAG-AC-ACT-ATATTTCTC
* *
10801384 GTGTAGGTTTAACCC-AAATGAGTAACCAAG-CACTATATTT
1 GTGTAGG-TTAACCCGAAA-GGGTAA-AAAGACACTATATTT
10801424 TCACCGTGTA
Statistics
Matches: 138, Mismatches: 24, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
41 1 0.01
42 88 0.64
43 9 0.07
44 4 0.03
45 3 0.02
46 18 0.13
47 15 0.11
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (42 bp):
GTGTAGGTTAACCCGAAAGGGTAAAAAGACACTATATTTCTC
Found at i:10801417 original size:47 final size:46
Alignment explanation
Indices: 10801331--10801419 Score: 126
Period size: 47 Copynumber: 1.9 Consensus size: 46
10801321 AAGACACTAA
* * *
10801331 ATTTCTCGTGTAGGTTAACTCGAAAGGGTAACCATGCACTATTGAT
1 ATTTCTCGTGTAGGTTAACTCCAAAGAGTAACCAAGCACTATTGAT
10801377 ATTTCTCGTGTAGGTTTAAC-CCAAATGAGTAACCAAGCACTAT
1 ATTTCTCGTGTAGG-TTAACTCCAAA-GAGTAACCAAGCACTAT
10801420 ATTTTCACCG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
46 18 0.47
47 20 0.53
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Consensus pattern (46 bp):
ATTTCTCGTGTAGGTTAACTCCAAAGAGTAACCAAGCACTATTGAT
Found at i:10802317 original size:30 final size:29
Alignment explanation
Indices: 10802267--10802336 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 29
10802257 TGGATACATG
*
10802267 GTAAATGGCAC-AGCTGTGTCACACACTA
1 GTAAATGGCACAACCTGTGTCACACACTA
10802295 GTAAATGGCACAACCGTGTGTCACACACTA
1 GTAAATGGCACAACC-TGTGTCACACACTA
10802325 GTAAATGGCACA
1 GTAAATGGCACA
10802337 GTTGTGTGCT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 11 0.28
29 2 0.05
30 26 0.67
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.20
Consensus pattern (29 bp):
GTAAATGGCACAACCTGTGTCACACACTA
Found at i:10802389 original size:72 final size:72
Alignment explanation
Indices: 10802303--10802438 Score: 263
Period size: 72 Copynumber: 1.9 Consensus size: 72
10802293 TAGTAAATGG
*
10802303 CACAACCGTGTGTCACACACTAGTAAATGGCACAGTTGTGTGCTTTGTTTGTTTAGGTTGGTGTT
1 CACAACCGTGTGTCACACACTAGTAAATGGCACAGCTGTGTGCTTTGTTTGTTTAGGTTGGTGTT
10802368 AAATCCA
66 AAATCCA
10802375 CACAACCGTGTGTCACACACTAGTAAATGGCACAGCTGTGTGCTTTGTTTGTTTAGGTTGGTGT
1 CACAACCGTGTGTCACACACTAGTAAATGGCACAGCTGTGTGCTTTGTTTGTTTAGGTTGGTGT
10802439 GATCTATCAT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (72 bp):
CACAACCGTGTGTCACACACTAGTAAATGGCACAGCTGTGTGCTTTGTTTGTTTAGGTTGGTGTT
AAATCCA
Found at i:10807330 original size:56 final size:58
Alignment explanation
Indices: 10807230--10807357 Score: 136
Period size: 57 Copynumber: 2.2 Consensus size: 58
10807220 TTTCCTTTTT
* ** *
10807230 CATTTTTCATTTTCATTTTGGAGAAAACCACATTCATTTTCAAATAATTTC-ATTTCTC
1 CATTTCTCATTTTCATTTTGGAGAAAACCACAACCATTTCCAAAT-ATTTCAATTTCTC
* ** *
10807288 CA-TTCTCATTTTCATTTT-GAGAAAATCTTAACCATTTCCAAATGTTTCATATTTCTC
1 CATTTCTCATTTTCATTTTGGAGAAAACCACAACCATTTCCAAATATTTCA-ATTTCTC
10807345 CATTTCTCCATTT
1 CATTTCT-CATTT
10807358 CACCATTTCT
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
55 4 0.07
56 19 0.33
57 24 0.41
58 6 0.10
59 5 0.09
ACGTcount: A:0.27, C:0.21, G:0.05, T:0.47
Consensus pattern (58 bp):
CATTTCTCATTTTCATTTTGGAGAAAACCACAACCATTTCCAAATATTTCAATTTCTC
Found at i:10807351 original size:8 final size:8
Alignment explanation
Indices: 10807338--10807367 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
10807328 AATGTTTCAT
10807338 ATTTCTCC
1 ATTTCTCC
10807346 ATTTCTCC
1 ATTTCTCC
*
10807354 ATTTCACC
1 ATTTCTCC
10807362 ATTTCT
1 ATTTCT
10807368 GTTAATTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (8 bp):
ATTTCTCC
Found at i:10813881 original size:22 final size:22
Alignment explanation
Indices: 10813856--10813910 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
10813846 CTAGTTGCTA
*
10813856 TGTCACGACATAGGTCCTAGTG
1 TGTCACAACATAGGTCCTAGTG
* *
10813878 TGTCGCAACATAGGTCCTGGTG
1 TGTCACAACATAGGTCCTAGTG
*
10813900 TGTCGCAACAT
1 TGTCACAACAT
10813911 CAACTCTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (22 bp):
TGTCACAACATAGGTCCTAGTG
Done.