Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 47 of 433
Found at i:12808712 original size:33 final size:34
Alignment explanation
Indices: 12808675--12808746 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
12808665 AAAAATAATG
12808675 AACTTTG-AAATTTAAATGAGATGTATTGGAACA
1 AACTTTGTAAATTTAAATGAGATGTATTGGAACA
* *
12808708 AACTTTGTAATTTTAAATGAGATGTGTTGGAACA
1 AACTTTGTAAATTTAAATGAGATGTATTGGAACA
12808742 AACTT
1 AACTT
12808747 GGAACAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 7 0.19
34 29 0.81
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (34 bp):
AACTTTGTAAATTTAAATGAGATGTATTGGAACA
Found at i:12808764 original size:45 final size:45
Alignment explanation
Indices: 12808700--12808788 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
12808690 ATGAGATGTA
* *
12808700 TTGGAACAAACTTTGTAATTTTAAATGAGATGTGTTGGAACAAAC
1 TTGGAACAAAATTTGTAATTTTAAATGAGATATGTTGGAACAAAC
*
12808745 TTGGAACAAAATTTTTAATTTTAAATGAGATATGTTGGAACAAA
1 TTGGAACAAAATTTGTAATTTTAAATGAGATATGTTGGAACAAA
12808789 ATTTAAACAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (45 bp):
TTGGAACAAAATTTGTAATTTTAAATGAGATATGTTGGAACAAAC
Found at i:12808798 original size:45 final size:45
Alignment explanation
Indices: 12808699--12808808 Score: 139
Period size: 45 Copynumber: 2.4 Consensus size: 45
12808689 AATGAGATGT
* * *
12808699 ATTGGAACAAACTTTGTAATTTTAAATGAGATGTGTTGGAACAAA
1 ATTGAAACAAAATTTGTAATTTTAAATGAGATATGTTGGAACAAA
* * *
12808744 CTTGGAACAAAATTTTTAATTTTAAATGAGATATGTTGGAACAAA
1 ATTGAAACAAAATTTGTAATTTTAAATGAGATATGTTGGAACAAA
* * *
12808789 ATTTAAACAAACTATGTAAT
1 ATTGAAACAAAATTTGTAAT
12808809 ATATATATAT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (45 bp):
ATTGAAACAAAATTTGTAATTTTAAATGAGATATGTTGGAACAAA
Found at i:12808814 original size:2 final size:2
Alignment explanation
Indices: 12808807--12808832 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12808797 AAACTATGTA
12808807 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
12808833 CCAAAACCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12812892 original size:20 final size:20
Alignment explanation
Indices: 12812869--12812915 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
12812859 TAGAAACATT
*
12812869 AAAAAAT-TATTAAATATCC
1 AAAAAATATTTTAAATATCC
12812888 AAAAAATATTTTAAATATCC
1 AAAAAATATTTTAAATATCC
*
12812908 CAAAAATA
1 AAAAAATA
12812916 GTAAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAAATATTTTAAATATCC
Found at i:12812923 original size:20 final size:20
Alignment explanation
Indices: 12812880--12812923 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
12812870 AAAAATTATT
* **
12812880 AAATATCCAAAAAATATTTT
1 AAATATCCAAAAAATAGTAA
*
12812900 AAATATCCCAAAAATAGTAA
1 AAATATCCAAAAAATAGTAA
12812920 AAAT
1 AAAT
12812924 TAGAAAATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.27
Consensus pattern (20 bp):
AAATATCCAAAAAATAGTAA
Found at i:12819567 original size:32 final size:32
Alignment explanation
Indices: 12819529--12819592 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
12819519 AAATTATTCT
*
12819529 TTATGCAAGAAAATAAAATATACTTAAAACAA
1 TTATGCAAGAAAATAAAACATACTTAAAACAA
12819561 TTATGCAAGAAAATAAAACATACTTAAAACAA
1 TTATGCAAGAAAATAAAACATACTTAAAACAA
12819593 CATAAAAATG
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:0.59, C:0.11, G:0.06, T:0.23
Consensus pattern (32 bp):
TTATGCAAGAAAATAAAACATACTTAAAACAA
Found at i:12821512 original size:40 final size:38
Alignment explanation
Indices: 12821441--12821568 Score: 150
Period size: 40 Copynumber: 3.2 Consensus size: 38
12821431 TCTTCGGAAT
*
12821441 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAA-CACTAGCACAA-TGCCTTCGGGTC
*
12821480 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAAC-ACTAGCAC-AATGCCTTCGGGTC
* * *
12821520 TTAGCCCGGATAGAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CACTAGCA-CAATGCCTTCGGGTC
12821560 TTAGCCCGG
1 TTAGCCCGG
12821569 GTATCATTCA
Statistics
Matches: 78, Mismatches: 6, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
39 5 0.06
40 70 0.90
41 3 0.04
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (38 bp):
TTAGCCCGGATATAACACTAGCACAATGCCTTCGGGTC
Found at i:12829765 original size:40 final size:40
Alignment explanation
Indices: 12829694--12829861 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
12829684 TCTTCAGAAT
* ** * * *
12829694 TTAG-CCGGATATAACCACAAGTACAATTGCCTTTGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *** *
12829733 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
12829773 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * * * *
12829813 TTAGCCCGGATAGAATC-ACTAGCATAAATACCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
12829853 TTAGCCCGG
1 TTAGCCCGG
12829862 GTATCATTCA
Statistics
Matches: 103, Mismatches: 24, Indels: 3
0.79 0.18 0.02
Matches are distributed among these distances:
39 3 0.03
40 99 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:12830857 original size:20 final size:20
Alignment explanation
Indices: 12830834--12830881 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
12830824 AGACATAAAT
12830834 GTGCAATCAAAGGAACCAAA
1 GTGCAATCAAAGGAACCAAA
* * *
12830854 GTGCAAACAGAGGCACCAAA
1 GTGCAATCAAAGGAACCAAA
12830874 GTGCAATC
1 GTGCAATC
12830882 CCGTACAAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.10
Consensus pattern (20 bp):
GTGCAATCAAAGGAACCAAA
Found at i:12842943 original size:15 final size:14
Alignment explanation
Indices: 12842925--12842969 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
12842915 GTATGATAAA
12842925 TAATTGACTTGTTCT
1 TAATT-ACTTGTTCT
12842940 TAATTA-TGTGTTCT
1 TAATTACT-TGTTCT
12842954 TAATT-CTTGTT-T
1 TAATTACTTGTTCT
12842966 TAAT
1 TAAT
12842970 ATTCCAGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.18
13 5 0.18
14 13 0.46
15 5 0.18
ACGTcount: A:0.22, C:0.09, G:0.11, T:0.58
Consensus pattern (14 bp):
TAATTACTTGTTCT
Found at i:12857708 original size:30 final size:30
Alignment explanation
Indices: 12857652--12857712 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 30
12857642 CCATACAAGT
*
12857652 CCTTAAATTTCATTTATTTCATATTTTAGTC
1 CCTTAAATTTCATTTATTGCATATTTT-GTC
*
12857683 CCTTAAATTATTATTT-TTGCA-ATTTTGTC
1 CCTTAAATT-TCATTTATTGCATATTTTGTC
12857712 C
1 C
12857713 TAATTACTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 4 0.15
30 5 0.19
31 13 0.48
32 5 0.19
ACGTcount: A:0.25, C:0.16, G:0.05, T:0.54
Consensus pattern (30 bp):
CCTTAAATTTCATTTATTGCATATTTTGTC
Found at i:12859876 original size:21 final size:21
Alignment explanation
Indices: 12859824--12859877 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
12859814 GGGGGTCCAA
*
12859824 ACGCCCGTGTGAAGGGTAGCAC
1 ACGCCCGTGTGAAGAG-AGCAC
* *
12859846 ACGGCTGTGTGACAGAG-GCAC
1 ACGCCCGTGTGA-AGAGAGCAC
12859867 ACGCCCGTGTG
1 ACGCCCGTGTG
12859878 GTGCAAAGGC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 13 0.50
22 10 0.38
23 3 0.12
ACGTcount: A:0.20, C:0.28, G:0.37, T:0.15
Consensus pattern (21 bp):
ACGCCCGTGTGAAGAGAGCAC
Found at i:12862669 original size:16 final size:17
Alignment explanation
Indices: 12862644--12862676 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
12862634 TTCATCACAC
*
12862644 TTAGGTTAA-TTTGCAT
1 TTAGGATAATTTTGCAT
12862660 TTAGGATAATTTTGCAT
1 TTAGGATAATTTTGCAT
12862677 CTAGTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.27, C:0.06, G:0.18, T:0.48
Consensus pattern (17 bp):
TTAGGATAATTTTGCAT
Found at i:12866076 original size:26 final size:26
Alignment explanation
Indices: 12866045--12866152 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
12866035 TGAAATTCCC
*
12866045 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
12866071 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
12866097 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
12866123 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
12866149 ATCA
1 ATCA
12866153 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:12867457 original size:19 final size:19
Alignment explanation
Indices: 12867433--12867470 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
12867423 GAAGAGGGGG
12867433 ATTCTATATAAGAACCCAT
1 ATTCTATATAAGAACCCAT
12867452 ATTCTATATAAGAACCCAT
1 ATTCTATATAAGAACCCAT
12867471 TATATCATTA
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:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (19 bp):
ATTCTATATAAGAACCCAT
Found at i:12872675 original size:42 final size:42
Alignment explanation
Indices: 12872550--12872675 Score: 135
Period size: 42 Copynumber: 3.0 Consensus size: 42
12872540 ACGCAGAATC
* * * ** *
12872550 ATACCAATGCCATAGCCTAGATATGGTCTTACATGGGATCTC
1 ATACCGATGCCATAGCCCAGATATGGTCTTACACGAAATCTA
* * *
12872592 ATATCGATGCCAATAGCCCAGCTATGGTCTTACACAAAATCTA
1 ATACCGATGCC-ATAGCCCAGATATGGTCTTACACGAAATCTA
* * *
12872635 ATACCGATTCCATATCCCAGATATGGTCTTACACGTAATCT
1 ATACCGATGCCATAGCCCAGATATGGTCTTACACGAAATCT
12872676 CAACTAACCC
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
42 35 0.51
43 33 0.49
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (42 bp):
ATACCGATGCCATAGCCCAGATATGGTCTTACACGAAATCTA
Found at i:12881598 original size:23 final size:23
Alignment explanation
Indices: 12881568--12881612 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
12881558 AAATCCCCTT
12881568 AGTTTAAAATTTCATAGCTAATG
1 AGTTTAAAATTTCATAGCTAATG
12881591 AGTTTAAAATTTCATAGCTAAT
1 AGTTTAAAATTTCATAGCTAAT
12881613 TGATACTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (23 bp):
AGTTTAAAATTTCATAGCTAATG
Found at i:12885910 original size:17 final size:18
Alignment explanation
Indices: 12885871--12885910 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
12885861 AATGCTTAAA
**
12885871 AAAAGCACTTTTGGCTTG
1 AAAAGCACTTTTGGCAAG
12885889 AAAAGCACTTTTGG-AAG
1 AAAAGCACTTTTGGCAAG
12885906 AAAAG
1 AAAAG
12885911 TTGTGCTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (18 bp):
AAAAGCACTTTTGGCAAG
Found at i:12886428 original size:13 final size:13
Alignment explanation
Indices: 12886412--12886446 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
12886402 CTTCTCAAAA
12886412 GCACTTTTTTACG
1 GCACTTTTTTACG
12886425 GCACTTTTTTACG
1 GCACTTTTTTACG
*
12886438 ACACTTTTT
1 GCACTTTTT
12886447 AAAAACACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.17, C:0.23, G:0.11, T:0.49
Consensus pattern (13 bp):
GCACTTTTTTACG
Found at i:12888084 original size:40 final size:40
Alignment explanation
Indices: 12887841--12888085 Score: 222
Period size: 40 Copynumber: 6.1 Consensus size: 40
12887831 TAATTAATGT
* *
12887841 CTGAATGCACATTCATGCCCCTGTTTGTACTTTGGTACCC
1 CTGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTACCC
* ** * * * **
12887881 TTGAATAAATATTTGTGCCCCTGTTTGTACTTTGGTACTG
1 CTGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTACCC
* * * * *
12887921 TTGAATGCACATTCATGCCCCTGTTTGTAATTCAGCACCC
1 CTGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTACCC
* * * * *
12887961 CTAAATGGACATTCGTGCCCATCTTTGTACTACGGTACCC
1 CTGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTACCC
* * * *
12888001 CTAAATGCACATTCGTTCCCTTGTTTGTACTTTGGGT-CCC
1 CTGAATGCACATTCGTGCCCCTGTTTGTAC-TTCGGTACCC
* * * *
12888041 CTGAATGCACATTCGTGTCCTTGTTAGTACTTCGGTACTC
1 CTGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTACCC
12888081 CTGAA
1 CTGAA
12888086 GGCATATACA
Statistics
Matches: 162, Mismatches: 41, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
39 5 0.03
40 153 0.94
41 4 0.02
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (40 bp):
CTGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTACCC
Found at i:12888607 original size:2 final size:2
Alignment explanation
Indices: 12888600--12888631 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
12888590 TAAATGTTTA
12888600 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12888632 GTGTGTGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12889418 original size:25 final size:25
Alignment explanation
Indices: 12889384--12889437 Score: 90
Period size: 25 Copynumber: 2.1 Consensus size: 25
12889374 TTTTGTTCAA
*
12889384 GTTCATTTTTCAGGTTTTGTCTACTT
1 GTTCATTTTTCAAG-TTTGTCTACTT
12889410 GTTCATTTTTCAAGTTTGTCTACTT
1 GTTCATTTTTCAAGTTTGTCTACTT
12889435 GTT
1 GTT
12889438 TAAACCCTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 14 0.52
26 13 0.48
ACGTcount: A:0.13, C:0.15, G:0.15, T:0.57
Consensus pattern (25 bp):
GTTCATTTTTCAAGTTTGTCTACTT
Found at i:12894764 original size:22 final size:22
Alignment explanation
Indices: 12894736--12894780 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
12894726 TTAATAAAAA
12894736 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
12894758 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
12894780 A
1 A
12894781 CATTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:12899350 original size:22 final size:22
Alignment explanation
Indices: 12899325--12899369 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
12899315 TTTAATAAAA
12899325 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* * *
12899347 AAAATATTTAGAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
12899369 A
1 A
12899370 CAAAAACATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:12903447 original size:3 final size:3
Alignment explanation
Indices: 12903439--12903468 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
12903429 TTGATACTTT
*
12903439 TGA TGA TGA TGA TGA TGA TAA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
12903469 ATGGAGACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:12905462 original size:18 final size:18
Alignment explanation
Indices: 12905439--12905477 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
12905429 TTAAACCATT
*
12905439 TATAAATATTTT-TAATAA
1 TATAAA-ATTTTAAAATAA
12905457 TATAAAATTTTAAAATAA
1 TATAAAATTTTAAAATAA
12905475 TAT
1 TAT
12905478 GTTAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TATAAAATTTTAAAATAA
Found at i:12907072 original size:21 final size:21
Alignment explanation
Indices: 12907046--12907086 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
12907036 ATGATGATTC
12907046 GTTGTTCTCCATATATAATTA
1 GTTGTTCTCCATATATAATTA
12907067 GTTGTTCTCCATATATAATT
1 GTTGTTCTCCATATATAATT
12907087 CGAATGATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.49
Consensus pattern (21 bp):
GTTGTTCTCCATATATAATTA
Found at i:12916059 original size:67 final size:68
Alignment explanation
Indices: 12915918--12916069 Score: 195
Period size: 67 Copynumber: 2.2 Consensus size: 68
12915908 TATCATGTGT
* * * *
12915918 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGTATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGTATGCGTGATACCATGAGGACACCATG
12915983 TAG
66 TAG
* *
12915986 ACAAGAGAGCTACG-GA-A-TAT-ATGTAGCTAGGTCGTATGCGTGGTTCCAGGTGAAGGACACC
1 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGTATGCGTGATACCA--TG-AGGACACC
12916047 ATGTAG
63 ATGTAG
12916053 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
12916070 TAAACTGGCT
Statistics
Matches: 74, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
64 24 0.32
65 3 0.04
66 3 0.04
67 28 0.38
68 16 0.22
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGTATGCGTGATACCATGAGGACACCATG
TAG
Found at i:12923674 original size:33 final size:33
Alignment explanation
Indices: 12923637--12923700 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
12923627 AAAAAGAAAC
12923637 AAGTGTATGGTAAAAATATGCTACATGTGTATT
1 AAGTGTATGGTAAAAATATGCTACATGTGTATT
12923670 AAGTGTATGGTAAAAATATGCTACATGTGTA
1 AAGTGTATGGTAAAAATATGCTACATGTGTA
12923701 ATACACATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (33 bp):
AAGTGTATGGTAAAAATATGCTACATGTGTATT
Found at i:12923812 original size:17 final size:18
Alignment explanation
Indices: 12923782--12923815 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
12923772 TAAATATAAT
*
12923782 ATAATAATATAATAAAAC
1 ATAATAATAAAATAAAAC
12923800 ATAA-AATAAAATAAAA
1 ATAATAATAAAATAAAA
12923816 GAAATAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (18 bp):
ATAATAATAAAATAAAAC
Found at i:12931186 original size:13 final size:14
Alignment explanation
Indices: 12931165--12931194 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
12931155 ATAAAGCATA
12931165 AAATAAAAGAAAAG
1 AAATAAAAGAAAAG
12931179 AAAT-AAAGAAAAG
1 AAATAAAAGAAAAG
12931192 AAA
1 AAA
12931195 ATAGAATAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (14 bp):
AAATAAAAGAAAAG
Found at i:12931196 original size:14 final size:14
Alignment explanation
Indices: 12931164--12931197 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
12931154 AATAAAGCAT
12931164 AAAATAAAAGAAAAG
1 AAAAT-AAAGAAAAG
12931179 -AAATAAAGAAAAG
1 AAAATAAAGAAAAG
12931192 AAAATA
1 AAAATA
12931198 GAATAGAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (14 bp):
AAAATAAAGAAAAG
Found at i:12931231 original size:18 final size:18
Alignment explanation
Indices: 12931170--12931230 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
12931160 GCATAAAATA
* *
12931170 AAAGAAAAGA-AATAAAG
1 AAAGAAAATAGAATAGAG
12931187 AAAAGAAAATAGAATAGAG
1 -AAAGAAAATAGAATAGAG
* *
12931206 AATGAAAATGGAATAG-G
1 AAAGAAAATAGAATAGAG
12931223 AAAGAAAA
1 AAAGAAAA
12931231 AAAAAGGGGA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
17 8 0.22
18 23 0.62
19 6 0.16
ACGTcount: A:0.69, C:0.00, G:0.21, T:0.10
Consensus pattern (18 bp):
AAAGAAAATAGAATAGAG
Found at i:12932095 original size:6 final size:6
Alignment explanation
Indices: 12932075--12932118 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
12932065 ATGAGGTACT
* *
12932075 CTGTGTA CTGCTA CTGTTA CTATTA CTGTTA CTGTTA CTGTTA C
1 CTGT-TA CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA C
12932119 AGTGTACTCC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
6 30 0.91
7 3 0.09
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (6 bp):
CTGTTA
Found at i:12935003 original size:26 final size:26
Alignment explanation
Indices: 12934974--12935029 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
12934964 TGATAAAAAT
*
12934974 TGATAATTGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12935000 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12935026 TGAT
1 TGAT
12935030 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:12936545 original size:26 final size:26
Alignment explanation
Indices: 12936516--12936568 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
12936506 TTTACAGTTT
12936516 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
12936542 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
12936568 T
1 T
12936569 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:12938185 original size:12 final size:12
Alignment explanation
Indices: 12938168--12938198 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
12938158 ACTCGGGGAA
*
12938168 GAGGCCGTGTTC
1 GAGGCCGTGGTC
12938180 GAGGCCGTGGTC
1 GAGGCCGTGGTC
12938192 GAGGCCG
1 GAGGCCG
12938199 AGGTAGTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.26, G:0.48, T:0.16
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:12943078 original size:26 final size:26
Alignment explanation
Indices: 12943049--12943100 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
12943039 TGATAAAAAT
*
12943049 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12943075 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12943101 CGATGGGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:12944609 original size:25 final size:26
Alignment explanation
Indices: 12944581--12944632 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
12944571 ATTTACATTT
12944581 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
12944606 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
12944632 T
1 T
12944633 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:12953229 original size:92 final size:91
Alignment explanation
Indices: 12953023--12953282 Score: 454
Period size: 92 Copynumber: 2.9 Consensus size: 91
12953013 AGGATGTTTG
*
12953023 GGCAT-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
12953087 TTGAGTCCGAGTTCGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGATGTAACTA
12953113 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
12953177 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTC--GAGATGTAACTA
* *
12953205 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
12953269 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
12953283 ACTTATGGGG
Statistics
Matches: 163, Mismatches: 3, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
90 38 0.23
91 38 0.23
92 85 0.52
93 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (91 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGATGTAACTA
Found at i:12953261 original size:45 final size:45
Alignment explanation
Indices: 12953032--12953290 Score: 267
Period size: 45 Copynumber: 5.7 Consensus size: 45
12953022 GGGCATCGAA
* *
12953032 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GCCCGAG
* * * * *
12953078 CTCGTTGAGTTGAGTCCGAGTTCGA--GATGTA-ACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAAGC--CCGAG
* *
12953123 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AATGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GCCCGAG
*** * * * *
12953168 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAAGC--CCGAG
12953215 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGCCCGAG
12953260 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
12953291 GGGTTACATG
Statistics
Matches: 173, Mismatches: 28, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
45 96 0.55
46 39 0.23
47 34 0.20
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGCCCGAG
Found at i:12956252 original size:15 final size:15
Alignment explanation
Indices: 12956213--12956253 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
12956203 GTATCTTGGG
*
12956213 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
12956228 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
12956243 TTTCTTTATTC
1 TTTCTTTATTC
12956254 GGTTTTATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.12, C:0.20, G:0.10, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:12958696 original size:46 final size:46
Alignment explanation
Indices: 12958646--12958867 Score: 279
Period size: 46 Copynumber: 4.8 Consensus size: 46
12958636 TGTTTGGGCA
12958646 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
12958692 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* * *
12958739 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
12958785 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
12958831 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
12958868 GCGGGTTACA
Statistics
Matches: 149, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
43 1 0.01
44 2 0.01
45 1 0.01
46 109 0.73
47 31 0.21
48 1 0.01
49 3 0.02
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:12958801 original size:93 final size:93
Alignment explanation
Indices: 12958642--12958813 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
12958632 AGGATGTTTG
*
12958642 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
12958707 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
12958735 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
12958800 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
12958814 ACTTATGGAC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:12962452 original size:27 final size:27
Alignment explanation
Indices: 12961814--12962451 Score: 790
Period size: 27 Copynumber: 23.7 Consensus size: 27
12961804 CCAAAGTACT
*
12961814 CTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
** *
12961841 CTC-AGTTTACAGAATTACTATTTTACA
1 CTCGA-TTTACAGAATTACCGTTTTACC
*
12961868 CTAGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
**
12961895 CTC-AGTTTACAGAATTATTGTTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
* *
12961922 CTTGATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
12961949 CTTGATTTATAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
12961976 CTCGACTTGTA-A-AATTACCGTTTTACC
1 CTCGA-TT-TACAGAATTACCGTTTTACC
12962003 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
**
12962030 CTC-AGTTTACAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
*
12962057 CTAGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
**
12962084 CTC-AGTTTACAGAATTATTGTTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
* *
12962111 CTTGATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
12962138 CTTGATTTATAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
** *
12962165 CTCGATTTGTAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
12962192 CTCGATTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* **
12962219 CTC-AGTTTACAAAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
12962246 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* * *
12962273 C-CAATTTATATAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
12962299 C-CTGATTTACATAATTATCGTTTTACC
1 CTC-GATTTACAGAATTACCGTTTTACC
*
12962326 CTCAATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
12962353 CTCGATTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
12962380 CTCGATTTATAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
12962407 CTTGATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
12962434 CTCGATTTACAAAATTAC
1 CTCGATTTACAGAATTAC
12962452 TAAAATACCC
Statistics
Matches: 537, Mismatches: 58, Indels: 32
0.86 0.09 0.05
Matches are distributed among these distances:
25 2 0.00
26 32 0.06
27 492 0.92
28 9 0.02
29 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CTCGATTTACAGAATTACCGTTTTACC
Found at i:12963801 original size:11 final size:11
Alignment explanation
Indices: 12963776--12963854 Score: 75
Period size: 9 Copynumber: 7.9 Consensus size: 11
12963766 TTTGATAAAC
12963776 ATGATATG--T
1 ATGATATGCAT
*
12963785 ATGATATGCAC
1 ATGATATGCAT
12963796 ATGATATG--T
1 ATGATATGCAT
12963805 ATGATATGCAT
1 ATGATATGCAT
*
12963816 ATGACATG--T
1 ATGATATGCAT
*
12963825 ATGATATGCAC
1 ATGATATGCAT
12963836 ATGATATG--T
1 ATGATATGCAT
12963845 ATGATATGCA
1 ATGATATGCA
12963855 CACGAGATGT
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
9 32 0.57
11 24 0.43
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.35
Consensus pattern (11 bp):
ATGATATGCAT
Found at i:12963827 original size:15 final size:16
Alignment explanation
Indices: 12963805--12963847 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
12963795 CATGATATGT
12963805 ATGATATGCATATG-AC
1 ATGATATG-ATATGCAC
12963821 ATG-TATGATATGCAC
1 ATGATATGATATGCAC
12963836 ATGATATG-TATG
1 ATGATATGATATG
12963848 ATATGCACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.20
15 13 0.52
16 7 0.28
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGATATGATATGCAC
Found at i:12963864 original size:20 final size:20
Alignment explanation
Indices: 12963774--12963856 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
12963764 ATTTTGATAA
12963774 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
12963794 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
12963814 ATATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
12963834 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
12963854 ACA
1 ACA
12963857 CGAGATGTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:12963942 original size:23 final size:23
Alignment explanation
Indices: 12963912--12964078 Score: 244
Period size: 23 Copynumber: 7.1 Consensus size: 23
12963902 AGGAAGTGAA
12963912 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
12963935 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
12963958 AAAGGGCTTATGCCCCAATTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
* *
12963982 AAAGGGCTTATGCCCTAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
12964006 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
12964029 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
12964053 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
12964076 AAA
1 AAA
12964079 AGAGGCTAGG
Statistics
Matches: 131, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
23 68 0.52
24 63 0.48
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:12963990 original size:24 final size:23
Alignment explanation
Indices: 12963911--12964085 Score: 242
Period size: 24 Copynumber: 7.4 Consensus size: 23
12963901 GAGGAAGTGA
12963911 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
12963934 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
12963957 TAAAGGGCTTATGCCCCAATTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
12963980 CAAAAGGGCTTATGCCCTAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
12964004 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
12964028 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
12964051 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
12964076 AAAAGAGGCT
1 AAAAG-GGCT
12964086 AGGCCTTCAG
Statistics
Matches: 137, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
23 65 0.47
24 67 0.49
25 5 0.04
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:12964002 original size:47 final size:47
Alignment explanation
Indices: 12963910--12964085 Score: 246
Period size: 47 Copynumber: 3.7 Consensus size: 47
12963900 GGAGGAAGTG
*
12963910 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
* * *
12963957 -TAAAGGGCTTATGCCCCAATTATCAAAAGGGCTTATGCCCTAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTAT
* * *
12964004 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
*
12964051 AAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCT
1 AAAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCT
12964086 AGGCCTTCAG
Statistics
Matches: 112, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
46 21 0.19
47 62 0.55
48 25 0.22
49 4 0.04
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
Found at i:12964336 original size:31 final size:31
Alignment explanation
Indices: 12964293--12964356 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
12964283 CGTTTACCGT
*
12964293 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGACTTCGGCCCAGTAATATGAAATATGA
** *
12964324 AAAGACTTCGGCCCAGTGTTATGAATTATGA
1 AAAGACTTCGGCCCAGTAATATGAAATATGA
12964355 AA
1 AA
12964357 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGACTTCGGCCCAGTAATATGAAATATGA
Found at i:12970747 original size:43 final size:43
Alignment explanation
Indices: 12970654--12970781 Score: 152
Period size: 43 Copynumber: 3.0 Consensus size: 43
12970644 TATCGAAATG
** *
12970654 TGATATACGGGCTTCGGGCCTAGCAGGCTATAATGCCAATGAGA
1 TGATAT-CGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
12970698 TAATATCGGGCCTCGGGCCTAGCAGGCTATAATGCTGGTGAAA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
* *
12970741 TGATATCGGGCTTCAAGG-CTAGCAGGCGA-AATGCCGGTGAA
1 TGATATCGGGCTTC-GGGCCTAGCAGGCTATAATGCCGGTGAA
12970782 TGAATTCAGA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
42 11 0.15
43 54 0.75
44 7 0.10
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (43 bp):
TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:12970804 original size:41 final size:41
Alignment explanation
Indices: 12970715--12970861 Score: 129
Period size: 40 Copynumber: 3.6 Consensus size: 41
12970705 GGGCCTCGGG
* * * *
12970715 CCTAGCAGGCTATAATGCTGGTGAAATG-ATATCGGGCTTCAAG
1 CCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGAGCTTAAAA
* * *
12970758 GCTAGCAGGCGAAATGCCGGTGAATGAATTC-AGACTTAAAG
1 CCTAGCAGGCTAAATGCCGGTGAATGAATTCGAG-CTTAAAA
* *** *
12970799 TCTAGCAGGCTTCGTGCCGGTG-ATGAATTCGAGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGAATGAATTCGAGCTTAAAA
12970839 CCTAGCAGGCTAAATGCCGGTGA
1 CCTAGCAGGCTAAATGCCGGTGA
12970862 TTTGATAAAA
Statistics
Matches: 84, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
40 32 0.38
41 31 0.37
42 11 0.13
43 10 0.12
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (41 bp):
CCTAGCAGGCTAAATGCCGGTGAATGAATTCGAGCTTAAAA
Found at i:12978607 original size:931 final size:929
Alignment explanation
Indices: 12976653--12979447 Score: 4214
Period size: 931 Copynumber: 3.0 Consensus size: 929
12976643 TTTCTCTAAG
* * ***
12976653 TAACACCCTAGGGTTGCATTAACTCAATCTAT-GAATCCCCTTATTAGGTTTCACCCTAATCTAA
1 TAACTCCCTAGGGTTGCATTAACTCGATCTATAG-ATCCCCTTATTAGGTTTCACCCTAATCCGG
* * *
12976717 CAAAATCTTGTCACCCTATCTCTAGGCGCGCAATCAACTCCGCTTAATTATTACAATTGTACTCT
65 CAAAATCTTGTCACCCTATCTCTAGGCGCGCAATCAACTTCGCTTAATTATGACAAATGTACTCT
* * *
12976782 TAGACA-AGGTCTATTCCTCCTCTGAATAAGAGTTTAACTTGAATCAATATCTTGGAATATCAAA
130 TAGACAGA-GTCTATTCCTCCTCTGAATAAGAGCTTAACTTGAATCAATATCCTAGAATATCAAA
* * * * *
12976846 ACAAGAATTAAGAACACACAATTAAGAATAAGCCAAATATTTATCATACAATTCAAAAAATAATA
194 ACAAGAATTAAGAACACATAATTAAGAACAAGTCAAATATTTATCATACAATTCATATAATAATA
12976911 ACAAGAT-TCGTCTTAGGTTTCATTCCCCTTAGGTATTTA-GGGGATTTAGTTCATAACTAAAAA
259 ACAAGATCT-GTCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGGATTTAGTTCATAACTAAAAA
* * * * *
12976974 GGAAAACATTTTGGAAGAATAATGAATACAAAACATAAAG--AAACCCCAAAACTCCTTAAGGGA
323 GGTAAACATCTCGGAAGAATAATGAATACAAAACATAAAGAAAAAACCCAAAACTCCTGAAGGGA
* * * *
12977037 AATTGAGGGGAGATCTTCAGTCATGATGATGAATCCGACTTCTGAGATAGATCAATTGGCTTCCC
388 AATTGAGGGGAGATTTTCAGTCTTGATGATGAATCCG-CTTCTGAGATGGATCAATCGGCTTCCC
* * * *
12977102 TTGTGCAGTTCCCTGCCTCCTTCTCTGTATCATTTCCTCCTCCTATAGGGTGTATTTATAGGCTT
452 TTGAGCAGTTCCCTGCCTCCTTCTTTGTATCCTTTCCTCCTCCTCTAGGGTGTATTTATAGGCTT
* * * * *
12977167 TGGAATACCTAAGAGCCCTCAAAATTGGCCTTTTTCGAATTGGACTAAACTTGGGTTTGACAGGG
517 TGGAATACCTAAGAACCCTCAAAATTGGCTTTTTTCGAATTGGAATAAACTTGGGCTCGACAGGG
* * *
12977232 ACACGCCCGTGTGGCACCCCGTGTGCGATTACTTCAGGCCGTGGTCGAGCTTGTTAAAGAGGCAT
582 ACACGCCCGTGTGGCACCCCGTGTGCGATTACTTTAGGCCGTGGTCGAGCCTGTTAAAGAGGCAC
* * * *
12977297 GGGTGTGTGGTCTACCCGTGTGAGTCGTGCTTTGATTCTGCCAAAATGACAT-AGCCGTGTGGTC
647 GGGCGTGTGGTCTACCCGTGTGAGTCGTGCTTAGATTCTGCCAAATTGAC-TCGGCCGTGTGGTC
* * * *
12977361 TGCCCGTGTGAGGAGGTACAGGCCGTGTTGATTTCGTACGTTGG-CCTTTTTCTCTATTTTTGGC
711 TGCCCGTATGAGGAGGTCCAGGCCGTGTTGATTTCGTACGTTGGCCCATTTTCTCCATTTTTGGC
* * *
12977425 CCGTTTCTCGTTCCTTTTTCACTCCTATGCTTGTCTAAGTATAAAACATGAAATTAAGGCATTAG
776 CCGTTTCTCGTTCCTTTTTCTCTCCTATGCTCGCCTAAGTATAAAACATGAAATTAAGGCATTAG
*
12977490 GAGCATCGAATTCACTAATTTCAAGGAAAAAATCACCCATAAAATGCGTTAAGCATGGTGTAAAA
841 GAGCATCGAATTCAC-AATTTCAAGGAAAAAATCATCCATAAAATGC-TTAAGCATGGTGTAAAA
12977555 ATATGTATAAATTACGGTTTATCAAT
904 ATATGTATAAATTACGGTTTATCAAT
* * * *
12977581 TAACTCCCTAGGGTTGCATTAACTTGATTTATAGATCCCTTTATTAGGTTTCACCCTAATGCGGC
1 TAACTCCCTAGGGTTGCATTAACTCGATCTATAGATCCCCTTATTAGGTTTCACCCTAATCCGGC
*
12977646 AAAATCTTGTCACCCTATCTCTAGGCGCGCAATCTACTTCGCTTAATTATGACAAATGTACTCTT
66 AAAATCTTGTCACCCTATCTCTAGGCGCGCAATCAACTTCGCTTAATTATGACAAATGTACTCTT
*
12977711 AGATAGAGTCTATTCCTCCTCTGAATAAGAGCTTAACTTGAATCAATATCCTAGAATATCAAAAC
131 AGACAGAGTCTATTCCTCCTCTGAATAAGAGCTTAACTTGAATCAATATCCTAGAATATCAAAAC
* *
12977776 AAGAATTAAGAACACATAATTAAGAACAAGTCAACTATTTAACATACAATTCATATAATAATAAC
196 AAGAATTAAGAACACATAATTAAGAACAAGTCAAATATTTATCATACAATTCATATAATAATAAC
* * *
12977841 AAGATCTATCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGGTTTTAGTTCATAACTAAAATGGT
261 AAGATCTGTCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGGATTTAGTTCATAACTAAAAAGGT
12977906 AAACATCTCGGAAGAATAATGAATACAAAACATAAAGAAAAAACCCAAAACTCCTGAAGGGAAAT
326 AAACATCTCGGAAGAATAATGAATACAAAACATAAAGAAAAAACCCAAAACTCCTGAAGGGAAAT
* *
12977971 TGAGGGAAGATTTTCAGTCTTGATGATGAATCCTGCTTCTGAGATGGATTAATCGGCTTCCCTTG
391 TGAGGGGAGATTTTCAGTCTTGATGATGAATCC-GCTTCTGAGATGGATCAATCGGCTTCCCTTG
* *
12978036 AGCAGTTCCCTGCCTCCTTCTTTGTCTCCTTTCCTCCTCCTCTAGGATGTATTTATAGGCTTTGG
455 AGCAGTTCCCTGCCTCCTTCTTTGTATCCTTTCCTCCTCCTCTAGGGTGTATTTATAGGCTTTGG
*
12978101 AATGCCTAAGAACCCTCAAAATTGGCTTTTTTCGAATTGGAATAAACTTGGGCTCGACAGGGACA
520 AATACCTAAGAACCCTCAAAATTGGCTTTTTTCGAATTGGAATAAACTTGGGCTCGACAGGGACA
* * *
12978166 CGCCCGTGTGGCACCTCTGTGTGCAATTACTTTAGGCCGTGGTCGAGCCTGTTAAAGAGGCACAG
585 CGCCCGTGTGGCACC-CCGTGTGCGATTACTTTAGGCCGTGGTCGAGCCTGTTAAAGAGGCACGG
* * * *
12978231 GCGTGTGGTTTACCCGTGTGAGTCGTGCTAAGATTCTACCAAATTGACTCGGCCATGTGGTCTGC
649 GCGTGTGGTCTACCCGTGTGAGTCGTGCTTAGATTCTGCCAAATTGACTCGGCCGTGTGGTCTGC
*
12978296 TCGTATGAGGAGGTCCAGGCCGTGTTGATTTCGTACGTTGGCCCATTTTCTCCATTTTTGGCCCG
714 CCGTATGAGGAGGTCCAGGCCGTGTTGATTTCGTACGTTGGCCCATTTTCTCCATTTTTGGCCCG
*
12978361 TTTCTCGTTCCTTTTTCTCTCCTATGCTCGCCTAAGTATAAAACATGAAATTAAGGGATTAGGAG
779 TTTCTCGTTCCTTTTTCTCTCCTATGCTCGCCTAAGTATAAAACATGAAATTAAGGCATTAGGAG
12978426 CATCGAATTCACAGATTTCAAGGAAAAAATCATCCATAAAATGCATTAAGCATGGTGTAAAAATA
844 CATCGAATTCACA-ATTTCAAGGAAAAAATCATCCATAAAATGC-TTAAGCATGGTGTAAAAATA
* *
12978491 TGTATAAACTACAGTTTATCAAT
907 TGTATAAATTACGGTTTATCAAT
*
12978514 TAACTCCTTAGGGTTG-ATTAACTCGATCTATAGATCCCCTTATTAGGTTTCACCCTAATCCGGC
1 TAACTCCCTAGGGTTGCATTAACTCGATCTATAGATCCCCTTATTAGGTTTCACCCTAATCCGGC
12978578 AAAATCTTGTCACCCTATCTCTA-GCGCGCAATCAACTTCGCTTAATTATGACAAATGTACTCTT
66 AAAATCTTGTCACCCTATCTCTAGGCGCGCAATCAACTTCGCTTAATTATGACAAATGTACTCTT
*
12978642 AGACAGAGTCTAGTCCTCCTCTGAATAAGAGCTTAACTTGAATCAATATCCTAGAATATCAAAAC
131 AGACAGAGTCTATTCCTCCTCTGAATAAGAGCTTAACTTGAATCAATATCCTAGAATATCAAAAC
*
12978707 ATGAATTAAGAACACATAATTAAGAACAAGTCAAATATTTATCATACAATTCATATAATAATAAC
196 AAGAATTAAGAACACATAATTAAGAACAAGTCAAATATTTATCATACAATTCATATAATAATAAC
* *
12978772 AAGATCTGTCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGGCTTTAGTTCATCACTAAAAAGGT
261 AAGATCTGTCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGGATTTAGTTCATAACTAAAAAGGT
**
12978837 AAACATCTCAAAAGAATAATGAATACAAAACATAAAGAAAAAACCCAAAACTCCTGAAGGGAAAT
326 AAACATCTCGGAAGAATAATGAATACAAAACATAAAGAAAAAACCCAAAACTCCTGAAGGGAAAT
* *
12978902 TGAGGGGAGATTTTCAGTCTTGATGATGAATCCAGCTTCTGAGATGGATCAATCGACTTTCCTTG
391 TGAGGGGAGATTTTCAGTCTTGATGATGAATCC-GCTTCTGAGATGGATCAATCGGCTTCCCTTG
*** *
12978967 AGCAGTTCCCTATTTCCCTCTCCATTTGTGTCCTTTTCCTCCTCCTCTAGGGTGTATTTATAGGC
455 AGCAGTTCCCTGCCT-CCT-T-C-TTTGTATCC-TTTCCTCCTCCTCTAGGGTGTATTTATAGGC
* * * *
12979032 TTTAGAATACCTAAAAACCCTCAAAATTGGCTTTTTTCGAATTGGATTAAACTTGGGCTCGGCAG
515 TTTGGAATACCTAAGAACCCTCAAAATTGGCTTTTTTCGAATTGGAATAAACTTGGGCTCGACAG
* * * * * * *
12979097 GAACACGCCCGCGTGACACGCCCGTGTGCGATTACTTTAGGCAGTGGCCAAGCCTGTTAAATAGG
580 GGACACGCCCGTGTGGCAC-CCCGTGTGCGATTACTTTAGGCCGTGGTCGAGCCTGTTAAAGAGG
* * *
12979162 CACGGGCGTGTGGTCTACCCGTGTGAGTCATGCTTCGATTCTGCCAAATTGACACGGCCGTGTGG
644 CACGGGCGTGTGGTCTACCCGTGTGAGTCGTGCTTAGATTCTGCCAAATTGACTCGGCCGTGTGG
* * * **
12979227 TCTGCCCATATGAGGAAGTCCAAGCCGTGTTGATTTCGTACGTTGGCCCATTTTCTCTGTTTTTT
709 TCTGCCCGTATGAGGAGGTCCAGGCCGTGTTGATTTCGTACGTTGGCCCATTTTCTC-CATTTTT
* * *
12979292 GGCCCGTTTCTCGTT-CTTTTCACTCTCCTATGCTCACCTAAGTATAAAACATGAAATTAAAGCA
773 GGCCCGTTTCTCGTTCCTTTT-TCTCTCCTATGCTCGCCTAAGTATAAAACATGAAATTAAGGCA
** * * * * *
12979356 TTAGGAGCATTAAATTCACCAATTTTAAAG-AAAAATCATCCAGAAAATG-TCTAAGAATAGG-A
837 TTAGGAGCATCGAATTCA-CAATTTCAAGGAAAAAATCATCCATAAAATGCT-TAAGCAT-GGTG
*
12979418 TAAAAATATGTATGAATTACGGTTTATCAA
899 TAAAAATATGTATAAATTACGGTTTATCAA
12979448 ATACCCCCAC
Statistics
Matches: 1699, Mismatches: 146, Indels: 37
0.90 0.08 0.02
Matches are distributed among these distances:
928 266 0.16
929 62 0.04
931 576 0.34
932 208 0.12
933 180 0.11
934 2 0.00
935 41 0.02
936 279 0.16
937 83 0.05
938 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (929 bp):
TAACTCCCTAGGGTTGCATTAACTCGATCTATAGATCCCCTTATTAGGTTTCACCCTAATCCGGC
AAAATCTTGTCACCCTATCTCTAGGCGCGCAATCAACTTCGCTTAATTATGACAAATGTACTCTT
AGACAGAGTCTATTCCTCCTCTGAATAAGAGCTTAACTTGAATCAATATCCTAGAATATCAAAAC
AAGAATTAAGAACACATAATTAAGAACAAGTCAAATATTTATCATACAATTCATATAATAATAAC
AAGATCTGTCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGGATTTAGTTCATAACTAAAAAGGT
AAACATCTCGGAAGAATAATGAATACAAAACATAAAGAAAAAACCCAAAACTCCTGAAGGGAAAT
TGAGGGGAGATTTTCAGTCTTGATGATGAATCCGCTTCTGAGATGGATCAATCGGCTTCCCTTGA
GCAGTTCCCTGCCTCCTTCTTTGTATCCTTTCCTCCTCCTCTAGGGTGTATTTATAGGCTTTGGA
ATACCTAAGAACCCTCAAAATTGGCTTTTTTCGAATTGGAATAAACTTGGGCTCGACAGGGACAC
GCCCGTGTGGCACCCCGTGTGCGATTACTTTAGGCCGTGGTCGAGCCTGTTAAAGAGGCACGGGC
GTGTGGTCTACCCGTGTGAGTCGTGCTTAGATTCTGCCAAATTGACTCGGCCGTGTGGTCTGCCC
GTATGAGGAGGTCCAGGCCGTGTTGATTTCGTACGTTGGCCCATTTTCTCCATTTTTGGCCCGTT
TCTCGTTCCTTTTTCTCTCCTATGCTCGCCTAAGTATAAAACATGAAATTAAGGCATTAGGAGCA
TCGAATTCACAATTTCAAGGAAAAAATCATCCATAAAATGCTTAAGCATGGTGTAAAAATATGTA
TAAATTACGGTTTATCAAT
Found at i:12978727 original size:14 final size:15
Alignment explanation
Indices: 12978705--12978734 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
12978695 GAATATCAAA
12978705 ACATGAATTAAGAAC
1 ACATGAATTAAGAAC
12978720 ACAT-AATTAAGAAC
1 ACATGAATTAAGAAC
12978734 A
1 A
12978735 AGTCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.57, C:0.13, G:0.10, T:0.20
Consensus pattern (15 bp):
ACATGAATTAAGAAC
Found at i:12998376 original size:66 final size:68
Alignment explanation
Indices: 12998300--12998486 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
12998290 TAGTACCACT
*
12998300 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
12998362 CACG
65 CACG
12998366 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
12998431 ATCACG
63 ATCACG
12998437 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
12998487 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:12998411 original size:71 final size:71
Alignment explanation
Indices: 12998323--12998486 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
12998313 CGATTTGTCT
12998323 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
12998388 CTTTCA
66 CTTTCA
12998394 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
12998459 CTTTCA
66 CTTTCA
12998465 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
12998487 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:12998524 original size:71 final size:70
Alignment explanation
Indices: 12998323--12998520 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
12998313 CGATTTGTCT
* * *
12998323 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
12998388 CTTTCA
65 CTTTCA
* * *
12998394 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
12998459 CTTTCA
65 CTTTCA
* *
12998465 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
12998521 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:13001006 original size:27 final size:27
Alignment explanation
Indices: 13000925--13001019 Score: 84
Period size: 27 Copynumber: 3.5 Consensus size: 27
13000915 AATACTTCAG
* *
13000925 TTTACTAAAATTACCGAAATACCCTTAG-
1 TTTA-TAAAATTACTGAAATA-CCTTCGA
* * * *
13000953 TTTGTAAAAATACTGAAACACCCTCGA
1 TTTATAAAATTACTGAAATACCTTCGA
*
13000980 TTTATAAAATTACTGAAATACTTTCGA
1 TTTATAAAATTACTGAAATACCTTCGA
* *
13001007 CTTGTAAAATTAC
1 TTTATAAAATTAC
13001020 CAAAGTACCC
Statistics
Matches: 53, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
26 4 0.08
27 46 0.87
28 3 0.06
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (27 bp):
TTTATAAAATTACTGAAATACCTTCGA
Found at i:13001044 original size:27 final size:27
Alignment explanation
Indices: 13001014--13001074 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
13001004 CGACTTGTAA
13001014 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
**** * *
13001041 AATTACCGTTTTACCCCCGATTTATAT
1 AATTACCAAAGTACCCCCGATTTACAG
13001068 AATTACC
1 AATTACC
13001075 GTTTTACCCC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:13001236 original size:27 final size:27
Alignment explanation
Indices: 13001025--13001235 Score: 280
Period size: 27 Copynumber: 7.8 Consensus size: 27
13001015 ATTACCAAAG
*
13001025 TACCCCCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
13001052 TACCCCCGATTTATATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
13001079 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
*
13001106 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
13001133 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
13001160 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
13001187 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
13001214 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
13001236 TAAAATACCC
Statistics
Matches: 164, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 162 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:13001244 original size:27 final size:27
Alignment explanation
Indices: 13001160--13001437 Score: 93
Period size: 27 Copynumber: 10.2 Consensus size: 27
13001150 ATTACCGTTT
* * ***
13001160 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ****
13001187 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
13001214 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** * *
13001241 TACCCT-TAGTTTGTAAAAGTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* ** *
13001268 TACCC-CTAGTTTTTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* * *** **
13001295 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
** ** *
13001322 TACCCTTAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
13001349 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
13001376 TACCCTCGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
13001405 TACCAT-TAGTTTACAAAATTATTGAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
13001432 TACCCT
1 TACCCT
13001438 TAGTTTGTAG
Statistics
Matches: 202, Mismatches: 37, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
26 2 0.01
27 174 0.86
28 9 0.04
29 17 0.08
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:13001245 original size:81 final size:81
Alignment explanation
Indices: 13000972--13001246 Score: 239
Period size: 81 Copynumber: 3.4 Consensus size: 81
13000962 ATACTGAAAC
* * ** * * * *** *
13000972 ACCCTCGATTTATAAAATTACTGAAATACTTTCGACTTGTAAAATTACCAAAGTACCCCCGATTT
1 ACCCTCGATTTACAAAATTACCGAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGATTT
13001037 ACAGAATTACCGTTTT
66 ACAGAATTACCGTTTT
* * * *** * * * *
13001053 ACCCCCGATTTATATAATTACCGTTTTACCC-CTGATTTACATAATTA-TCGTTTTACCCTCGAC
1 ACCCTCGATTTACAAAATTACCGAAATACCCTC-GATTTATAAAATTACT-ATTTTACCCTCGAT
13001116 TTACAGAATTACCGTTTT
64 TTACAGAATTACCGTTTT
* * *** * *
13001134 ACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTT
1 ACCCTCGATTTACAAAATTACCGAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGATTT
*
13001199 ACAGAATTACTGTTTT
66 ACAGAATTACCGTTTT
**
13001215 ACCCTCGATTTACAAAATTACTAAAATACCCT
1 ACCCTCGATTTACAAAATTACCGAAATACCCT
13001247 TAGTTTGTAA
Statistics
Matches: 154, Mismatches: 36, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
80 1 0.01
81 151 0.98
82 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (81 bp):
ACCCTCGATTTACAAAATTACCGAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGATTT
ACAGAATTACCGTTTT
Found at i:13001288 original size:81 final size:81
Alignment explanation
Indices: 13001214--13001384 Score: 204
Period size: 81 Copynumber: 2.1 Consensus size: 81
13001204 ATTACTGTTT
* *
13001214 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAAGTACCAAAATACCCCTAGTT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTTAATTTGTAAAAGTACCAAAATACCCCTAGTT
13001279 TTTAAAATTACCAAAA
66 TTTAAAATTACCAAAA
* * *** * * *
13001295 TACCCTTGGTTTGTGAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCT-G-A
1 TACCCTCGATTTACAAAATTACCAAAATACCCTTAATTTGTAAAAGTACCAAAATACCCCTAGTT
13001358 TTTACAAAGTTA-CAGAAA
66 TTTA-AAA-TTACCA-AAA
13001376 TACCCTCGA
1 TACCCTCGA
13001385 CTTTCTAAAA
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
79 4 0.05
80 6 0.08
81 65 0.87
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCAAAATACCCTTAATTTGTAAAAGTACCAAAATACCCCTAGTT
TTTAAAATTACCAAAA
Found at i:13001440 original size:27 final size:27
Alignment explanation
Indices: 13001223--13001443 Score: 144
Period size: 27 Copynumber: 8.1 Consensus size: 27
13001213 TTACCCTCGA
*
13001223 TTTACAAAATTACTAAAATACCCTTAG
1 TTTACAAAATTACCAAAATACCCTTAG
** * *
13001250 TTTGTAAAAGTACCAAAATACCCCTAG
1 TTTACAAAATTACCAAAATACCCTTAG
** *
13001277 TTTTTAAAATTACCAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTTAG
*** * *
13001304 TTTGTGAAATTACCGAAATACCCTTAA
1 TTTACAAAATTACCAAAATACCCTTAG
** *
13001331 TTTGTAAAATTACCAAAATACCCCT-G
1 TTTACAAAATTACCAAAATACCCTTAG
* * *
13001357 ATTTACAAAGTTA-CAGAAATACCCTCGAC
1 -TTTACAAAATTACCA-AAATACCCT-TAG
* *
13001386 TTT-CTAAAAATTA-TAGAAATACCATTAG
1 TTTAC--AAAATTACCA-AAATACCCTTAG
***
13001414 TTTACAAAATTATTGAAATACCCTTAG
1 TTTACAAAATTACCAAAATACCCTTAG
13001441 TTT
1 TTT
13001444 GTAGATTTAC
Statistics
Matches: 155, Mismatches: 31, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
26 2 0.01
27 128 0.83
28 8 0.05
29 17 0.11
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTTAG
Found at i:13001561 original size:27 final size:27
Alignment explanation
Indices: 13001484--13001561 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
13001474 AAATGACTAA
* *
13001484 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
13001511 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
13001538 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
13001562 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:13002082 original size:31 final size:31
Alignment explanation
Indices: 13002047--13002110 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
13002037 CGTTTACCGT
*
13002047 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
13002078 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
13002109 AA
1 AA
13002111 TATGAGAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:13009286 original size:27 final size:26
Alignment explanation
Indices: 13009192--13009338 Score: 169
Period size: 27 Copynumber: 5.7 Consensus size: 26
13009182 TTTGGTTTAC
*
13009192 AAAATTACCAAATA-CCCT-GCTTTGT
1 AAAATTACAAAATACCCCTAG-TTTGT
*
13009217 AAAATTACTAAAATA--CC-ATTTTGT
1 AAAATTAC-AAAATACCCCTAGTTTGT
13009241 AAAATTACAAAATACCCCTAGTTTGT
1 AAAATTACAAAATACCCCTAGTTTGT
13009267 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTA-CAAAATACCCCTAGTTTGT
*
13009294 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTA-CAAAATACCCCTAGTTTGT
* *
13009321 GAAATTACTGAAATACCC
1 AAAATTAC-AAAATACCC
13009339 TCGACCTGTA
Statistics
Matches: 108, Mismatches: 7, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
23 6 0.06
24 13 0.12
25 12 0.11
26 19 0.18
27 58 0.54
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (26 bp):
AAAATTACAAAATACCCCTAGTTTGT
Found at i:13009349 original size:54 final size:53
Alignment explanation
Indices: 13009238--13009354 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 53
13009228 AATACCATTT
* * **
13009238 TGTAAAATTACAAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCTAGTT
1 TGTAAAATTACAAAATACCCCTAATTTGTAAAATTATCAAAATACCCCGAGCC
* *
13009291 TGTAAAATTACCAAAATACCCCTAATTTGTGAAATTA-CTGAAATACCCTCGA-CC
1 TGTAAAATTA-CAAAATACCCCTAATTTGTAAAATTATC-AAAATACCC-CGAGCC
13009345 TGTAAAATTA
1 TGTAAAATTA
13009355 TTGAAATACC
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
53 11 0.20
54 42 0.76
55 2 0.04
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (53 bp):
TGTAAAATTACAAAATACCCCTAATTTGTAAAATTATCAAAATACCCCGAGCC
Found at i:13009352 original size:27 final size:27
Alignment explanation
Indices: 13009322--13009396 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
13009312 CTAATTTGTG
13009322 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* *
13009349 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
*
13009376 AAATTAC-CAAAGTACCCTCGA
1 AAATTACTGAAA-TACCCTCGA
13009397 TTTATAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 3 0.07
27 40 0.93
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.27
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:13009408 original size:54 final size:54
Alignment explanation
Indices: 13009357--13009463 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 54
13009347 TAAAATTATT
13009357 GAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACC
1 GAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACC
*** * ****
13009411 GTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTATAGAATTAC
1 GAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTAC
13009464 GTTTTACCCT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (54 bp):
GAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACC
Found at i:13009733 original size:27 final size:27
Alignment explanation
Indices: 13009388--13009732 Score: 419
Period size: 27 Copynumber: 12.8 Consensus size: 27
13009378 ATTACCAAAG
*
13009388 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
13009415 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
13009442 TACCCTCGATTTATAGAATTA-CGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
13009468 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
13009495 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
13009522 TACCC-CTAATTTACATAATTACCATTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* *
13009549 TACCC-CAGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
13009576 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
13009603 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
13009630 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
13009657 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
13009684 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
13009711 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
13009733 TAAAATACCC
Statistics
Matches: 285, Mismatches: 28, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
25 1 0.00
26 24 0.08
27 258 0.91
28 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:13009769 original size:81 final size:81
Alignment explanation
Indices: 13009415--13009776 Score: 214
Period size: 81 Copynumber: 4.5 Consensus size: 81
13009405 ATTACCGTTT
* ** *** * * *
13009415 TACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTATAGAATTA-CGTTTTACCCTC-AGT
1 TACCCTTGATTTACAAAATTACCGCAATACCCTCGATTTACAAAATTACCATTTTACCCTCGA-T
* ***
13009478 TTACAGAATTACTATTT
65 TTACAAAATTACTAAAA
* * * *** * *
13009495 TACCCTCGATTTATAGAATTACCGTTTTACCC-CTAATTTACATAATTACCATTTTACCC-CAGA
1 TACCCTTGATTTACAAAATTACCGCAATACCCTC-GATTTACAAAATTACCATTTTACCCTC-GA
* **
13009558 TTTACATAATTATCGT--TT
64 TTTACAAAATTA-C-TAAAA
* * *** *
13009576 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTTGATTTACAAAATTACCGCAATACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
* * ***
13009641 TATAGAATTACTATTT
66 TACAAAATTACTAAAA
* *** * **
13009657 TACCCTTGATTTACAAAATTACTGTTTTACCCTTGATTTACAAAATTACTGTTTTACCCTCGATT
1 TACCCTTGATTTACAAAATTACCGCAATACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
13009722 TACAAAATTACTAAAA
66 TACAAAATTACTAAAA
* *** *
13009738 TACCCTTGGTTTGTGAAATTACCGCAATACCCTCAATTT
1 TACCCTTGATTTACAAAATTACCGCAATACCCTCGATTT
13009777 GTAAAACTAC
Statistics
Matches: 238, Mismatches: 34, Indels: 19
0.82 0.12 0.07
Matches are distributed among these distances:
79 2 0.01
80 43 0.18
81 188 0.79
82 4 0.02
83 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTTGATTTACAAAATTACCGCAATACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
TACAAAATTACTAAAA
Found at i:13010994 original size:25 final size:25
Alignment explanation
Indices: 13010965--13011012 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
13010955 TTATAATATG
* * *
13010965 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
13010990 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
13011013 GTTTATAGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:13011077 original size:19 final size:19
Alignment explanation
Indices: 13011053--13011113 Score: 113
Period size: 19 Copynumber: 3.2 Consensus size: 19
13011043 TAAACATGGT
13011053 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
13011072 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
13011091 TATGTATGATATGCACATGA
1 -ATGTATGATATGCACATGA
13011111 ATG
1 ATG
13011114 GTAATCATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 22 0.54
20 19 0.46
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (19 bp):
ATGTATGATATGCACATGA
Found at i:13011090 original size:11 final size:11
Alignment explanation
Indices: 13011057--13011110 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
13011047 CATGGTATGT
13011057 ATGATATGCAC
1 ATGATATGCAC
*
13011068 ATGA-ATG--T
1 ATGATATGCAC
13011076 ATGATATGCAC
1 ATGATATGCAC
*
13011087 ATGATATG--T
1 ATGATATGCAC
13011096 ATGATATGCAC
1 ATGATATGCAC
13011107 ATGA
1 ATGA
13011111 ATGGTAATCA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
8 4 0.12
9 11 0.32
10 3 0.09
11 16 0.47
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:13011097 original size:20 final size:20
Alignment explanation
Indices: 13011046--13011110 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
13011036 ATTTTGATAA
*
13011046 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
13011066 ACATGA-ATGTATGATATGC
1 ACATGATATGTATGATATGC
13011085 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
13011105 ACATGA
1 ACATGA
13011111 ATGGTAATCA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
19 19 0.44
20 24 0.56
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:13011219 original size:24 final size:24
Alignment explanation
Indices: 13011163--13011232 Score: 133
Period size: 23 Copynumber: 3.0 Consensus size: 24
13011153 GAGGAAGTGA
13011163 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
13011187 -AAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
13011210 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
13011233 NGCAACATTC
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
23 23 0.51
24 22 0.49
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:13019016 original size:40 final size:40
Alignment explanation
Indices: 13018950--13019100 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
13018940 AAATTGAATG
* * *
13018950 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
13018989 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
13019029 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
13019069 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
13019101 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:13024657 original size:14 final size:14
Alignment explanation
Indices: 13024638--13024664 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13024628 ATATTTGACT
13024638 TGTTCTTAATTATG
1 TGTTCTTAATTATG
13024652 TGTTCTTAATTAT
1 TGTTCTTAATTAT
13024665 TGTCTTGATA
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:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:13029595 original size:40 final size:40
Alignment explanation
Indices: 13029525--13029768 Score: 388
Period size: 40 Copynumber: 6.2 Consensus size: 40
13029515 TGGATGATAA
* *
13029525 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
13029565 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
13029605 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
13029645 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
13029685 CGAAGGCA-TTGTGCGAGCTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
13029724 CGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCC
13029763 CGAAGG
1 CGAAGG
13029769 TACTTGGTTT
Statistics
Matches: 195, Mismatches: 6, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
39 54 0.28
40 140 0.72
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:13037913 original size:40 final size:40
Alignment explanation
Indices: 13037843--13038087 Score: 388
Period size: 40 Copynumber: 6.2 Consensus size: 40
13037833 TGGATGATAA
* *
13037843 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
13037883 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
13037923 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
13037963 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* *
13038003 CGAAGGCATTGGTGCGAGCTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
13038043 CGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCC
13038082 CGAAGG
1 CGAAGG
13038088 TACTTGGTTT
Statistics
Matches: 195, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
39 16 0.08
40 178 0.91
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:13041233 original size:15 final size:15
Alignment explanation
Indices: 13041181--13041233 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
13041171 TATTAAATTA
13041181 TTTTTTAATCATTT-TT
1 TTTTTTAA-C-TTTATT
*
13041197 TATTTTTAACTTTATG
1 T-TTTTTAACTTTATT
*
13041213 TGTTTTAACTTTATT
1 TTTTTTAACTTTATT
13041228 TTTTTT
1 TTTTTT
13041234 TCCATTTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
15 20 0.65
16 4 0.13
17 7 0.23
ACGTcount: A:0.19, C:0.06, G:0.04, T:0.72
Consensus pattern (15 bp):
TTTTTTAACTTTATT
Found at i:13045187 original size:9 final size:9
Alignment explanation
Indices: 13045172--13045211 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
13045162 TTGCAAGAAT
13045172 GATGAGGAC
1 GATGAGGAC
*
13045181 TATGAGGAC
1 GATGAGGAC
13045190 GATGAGGAC
1 GATGAGGAC
*
13045199 GATGAGGAT
1 GATGAGGAC
13045208 GATG
1 GATG
13045212 TTTCTTCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.33, C:0.07, G:0.42, T:0.17
Consensus pattern (9 bp):
GATGAGGAC
Found at i:13045391 original size:23 final size:24
Alignment explanation
Indices: 13045360--13045405 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
13045350 CAGTTTTTTG
*
13045360 TGCTATTTTGGTG-TTTTTGGTGA
1 TGCTATTTTGGTGCTGTTTGGTGA
* *
13045383 TGCTCTTTTTGTGCTGTTTGGTG
1 TGCTATTTTGGTGCTGTTTGGTG
13045406 CTATTTTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.04, C:0.09, G:0.30, T:0.57
Consensus pattern (24 bp):
TGCTATTTTGGTGCTGTTTGGTGA
Found at i:13045413 original size:56 final size:56
Alignment explanation
Indices: 13045353--13045470 Score: 168
Period size: 56 Copynumber: 2.1 Consensus size: 56
13045343 TATTTTGCAG
* *
13045353 TTTTTTGTGCTATTTTGGTGTTTTTGGTGATGCTCT-TTTTGTGCTG-TTTGGTGCTA
1 TTTTTTGTGCTATTTTGGTGTTTCTGGTGATG-T-TGTTTAGTGCTGTTTTGGTGCTA
*
13045409 TTTTTTGTGCTATTTTGGTGTTTCTGGTGATGTTGTTTAGTGCTGTTTTTTGTGCTA
1 TTTTTTGTGCTATTTTGGTGTTTCTGGTGATGTTGTTTAGTGCTG-TTTTGGTGCTA
13045466 TTTTT
1 TTTTT
13045471 ATGCTGTTTG
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
54 1 0.02
55 10 0.18
56 31 0.55
57 14 0.25
ACGTcount: A:0.06, C:0.08, G:0.25, T:0.61
Consensus pattern (56 bp):
TTTTTTGTGCTATTTTGGTGTTTCTGGTGATGTTGTTTAGTGCTGTTTTGGTGCTA
Found at i:13045491 original size:11 final size:11
Alignment explanation
Indices: 13045383--13045568 Score: 101
Period size: 11 Copynumber: 16.8 Consensus size: 11
13045373 TTTTTGGTGA
* *
13045383 TGCTCTTTTTG
1 TGCTGTTTTGG
13045394 TGCTG-TTTGG
1 TGCTGTTTTGG
* *
13045404 TGCTATTTTTTG
1 TGCT-GTTTTGG
*
13045416 TGCTATTTTGG
1 TGCTGTTTTGG
*
13045427 TG-T-TTCTGG
1 TGCTGTTTTGG
* *
13045436 TGATGTTGTTTAG
1 TGCTG-T-TTTGG
*
13045449 TGCTGTTTTTTG
1 TGCTG-TTTTGG
* **
13045461 TGCTATTTTTA
1 TGCTGTTTTGG
13045472 TGCTG-TTTGG
1 TGCTGTTTTGG
*
13045482 TGCTGTTTTGT
1 TGCTGTTTTGG
*
13045493 TGCTGTATTGG
1 TGCTGTTTTGG
* *
13045504 TGTTGTTTTGT
1 TGCTGTTTTGG
*
13045515 TGCTGTATTGG
1 TGCTGTTTTGG
*
13045526 TGCTGTTGTTTG
1 TGCTGTT-TTGG
* **
13045538 TGCTATTTTTA
1 TGCTGTTTTGG
*
13045549 TGTTGTTTTGG
1 TGCTGTTTTGG
13045560 TGCTGTTTT
1 TGCTGTTTT
13045569 TATACTTAGG
Statistics
Matches: 133, Mismatches: 34, Indels: 16
0.73 0.19 0.09
Matches are distributed among these distances:
9 7 0.05
10 18 0.14
11 73 0.55
12 26 0.20
13 9 0.07
ACGTcount: A:0.05, C:0.08, G:0.27, T:0.59
Consensus pattern (11 bp):
TGCTGTTTTGG
Found at i:13056048 original size:19 final size:20
Alignment explanation
Indices: 13056024--13056061 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
13056014 GGTACCACCA
13056024 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
13056043 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
13056062 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:13056502 original size:46 final size:46
Alignment explanation
Indices: 13056290--13056503 Score: 238
Period size: 46 Copynumber: 4.6 Consensus size: 46
13056280 CGCCCCTAAG
* * *
13056290 TGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCACCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAA
* * *
13056336 TGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTC-G--GGC-A-TTCGCATCCATAAA
* * * * *
13056383 CGAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAA
* *
13056429 TGAACTCGAACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAA
13056475 TGAACTCGGACTCAACTCAACGAGTTCGG
1 TGAACTCGGACTCAACTCAACGAGTTCGG
13056504 ATGCTCAACC
Statistics
Matches: 139, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 3 0.02
45 1 0.01
46 94 0.68
47 26 0.19
48 1 0.01
49 3 0.02
50 3 0.02
51 2 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAA
Found at i:13056961 original size:30 final size:30
Alignment explanation
Indices: 13056927--13056986 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
13056917 ATTTAATACG
13056927 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
* * *
13056957 AACTTTTACATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
13056987 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:13079204 original size:3 final size:3
Alignment explanation
Indices: 13079196--13079246 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
13079186 TATGTTACCT
13079196 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13079244 TTA
1 TTA
13079247 AGCTATTTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13089987 original size:43 final size:43
Alignment explanation
Indices: 13089919--13090091 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 43
13089909 AGCTCGTACA
* * * * *
13089919 ATGCC-ATATCCCAGATATGGCCTTACATGTTATCACATATTG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * ** * *
13089961 ATGCCACTGCCCCAGACATGGTCTTACATAAAATCAAATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* *
13090004 ATGCCAATGTCCTAGACATGGTCTTACATGTAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT-CG
* * * *
13090047 ATGCCAATGTCCTATACATGATCTTACATGTAATCACATCTCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
13090090 AT
1 AT
13090092 AACCTAATGT
Statistics
Matches: 105, Mismatches: 23, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
42 6 0.06
43 98 0.93
44 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:13090808 original size:8 final size:9
Alignment explanation
Indices: 13090786--13090810 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13090776 GCAACAATCA
13090786 CAAAAACAT
1 CAAAAACAT
13090795 CAAAAACAT
1 CAAAAACAT
13090804 CAAAAAC
1 CAAAAAC
13090811 TGAGCAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (9 bp):
CAAAAACAT
Found at i:13091235 original size:17 final size:17
Alignment explanation
Indices: 13091213--13091246 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
13091203 ATGATGTAAA
13091213 CACAAAAAAAATAATTT
1 CACAAAAAAAATAATTT
13091230 CACAAAAAAAATAATTT
1 CACAAAAAAAATAATTT
13091247 TAAAATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.24
Consensus pattern (17 bp):
CACAAAAAAAATAATTT
Found at i:13092800 original size:21 final size:21
Alignment explanation
Indices: 13092763--13092802 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13092753 TAATGATCAG
**
13092763 CACATTTTGGTGGTATATCCA
1 CACATTTTGGTAATATATCCA
13092784 CACATTTTGGTAATATATC
1 CACATTTTGGTAATATATC
13092803 TGTAATTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
CACATTTTGGTAATATATCCA
Found at i:13095203 original size:94 final size:92
Alignment explanation
Indices: 13095042--13095361 Score: 280
Period size: 94 Copynumber: 3.4 Consensus size: 92
13095032 AATTTCTTGT
* * *
13095042 GTGCCAATGTAAGATATGTCTGGGACATGCATCGGCCACATTATGAGT-GCCAGTATAAGACCAT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCA-TATGA-TAGCCAGTATAAGACCAT
13095106 GTCTGGAACATGGCATCAACGTAGAGATG
64 GTCTGGAACATGGCATCAACGTAGAGATG
* *
13095135 AGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATAGCCAGTGTAAGA-CG
1 -GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-AT-ATGATAGCCAGTATAAGACCA
* * *
13095199 TGTCTGGGACA---CA-CATAGGCTA-AGAGTT
63 TGTCTGGAACATGGCATCA-ACG-TAGAGA-TG
* * * *
13095227 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACAT-ATATACGAGAGCTAGTATAAGACC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-C-TCATAT--GATAGCCAGTATAAGACC
* * *
13095291 ATGTCT-GAGACATGGCATCAGCCTCGATGATG
62 ATGTCTGGA-ACATGGCATCAACGTAGA-GATG
*
13095323 CTAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
13095362 AACTTATCCC
Statistics
Matches: 182, Mismatches: 23, Indels: 37
0.75 0.10 0.15
Matches are distributed among these distances:
90 4 0.02
91 43 0.24
92 18 0.10
93 10 0.05
94 49 0.27
95 17 0.09
96 5 0.03
97 15 0.08
98 14 0.08
99 7 0.04
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (92 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCATATGATAGCCAGTATAAGACCATGT
CTGGAACATGGCATCAACGTAGAGATG
Found at i:13095337 original size:49 final size:48
Alignment explanation
Indices: 13095044--13095358 Score: 242
Period size: 47 Copynumber: 6.7 Consensus size: 48
13095034 TTTCTTGTGT
* * * * *
13095044 GCCAATGTAAGATATGTCTGGGACAT-GCATCGGCC-ACATTATGAGT-
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCAGCCTAGATGATGA-TA
* * * *
13095090 GCCAGTATAAGACCATGTCTGGAACATGGCATCAACGTAGA-GATGAGT-
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCAGCCTAGATGATGA-TA
* *
13095138 GCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGATGATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCAGCCTAGATGATGATA
* ** * *
13095185 GCCAGTGTAAGACGTGTCTGGGACA-CACAT-AGGCTAAGA-GTTG-T-
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCAGCCT-AGATGATGATA
* * * *
13095229 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCACATATAT-ACGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCAGC-C-TAGATGATGATA
* * * * *
13095277 GCTAGTATAAGACCATGTCTGAGACATGGCATCAGCCTCGATGATGCTA
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCAGCCTAGATGATGATA
13095326 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATC
13095359 GGCAACTTAT
Statistics
Matches: 213, Mismatches: 39, Indels: 31
0.75 0.14 0.11
Matches are distributed among these distances:
44 26 0.12
45 3 0.01
46 30 0.14
47 60 0.28
48 37 0.17
49 49 0.23
50 8 0.04
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (48 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCAGCCTAGATGATGATA
Found at i:13108515 original size:55 final size:58
Alignment explanation
Indices: 13108456--13108565 Score: 154
Period size: 55 Copynumber: 1.9 Consensus size: 58
13108446 AGTGATTATC
* *
13108456 TTAATATTAAAGTTAATTTAATGTTTATCTT-AT-AGA-TATATTAATTTAATAATAT
1 TTAATATTAAAGTTAATCTAATATTTATCTTGATAAGATTATATTAATTTAATAATAT
* *
13108511 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAAGTTAATCTAATATTTATCTTGAT-AAGATTATATTAATTTAATA
13108566 CTAAAGTGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
55 28 0.60
56 2 0.04
58 2 0.04
59 15 0.32
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.51
Consensus pattern (58 bp):
TTAATATTAAAGTTAATCTAATATTTATCTTGATAAGATTATATTAATTTAATAATAT
Found at i:13108535 original size:38 final size:38
Alignment explanation
Indices: 13108493--13108569 Score: 88
Period size: 38 Copynumber: 2.0 Consensus size: 38
13108483 TCTTATAGAT
13108493 ATATTAAT-TTAAT-AATATTTAATATTAAATTTAAT-CTA
1 ATATTAATCTTAATAAATA-TT-ATATT-AATTTAATACTA
* *
13108531 ATATTTATCTTGATAAATATTATATTAATTTAATACTA
1 ATATTAATCTTAATAAATATTATATTAATTTAATACTA
13108569 A
1 A
13108570 AGTGATTAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
37 8 0.24
38 16 0.47
39 6 0.18
40 4 0.12
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.49
Consensus pattern (38 bp):
ATATTAATCTTAATAAATATTATATTAATTTAATACTA
Found at i:13112008 original size:52 final size:52
Alignment explanation
Indices: 13111946--13112244 Score: 201
Period size: 52 Copynumber: 5.6 Consensus size: 52
13111936 TTAAAATTAA
* *
13111946 AAAAAAAATGGATGCTGGGACACTGATGGTCGACACTCTTGCACCAGATTTT
1 AAAAAAAATGGATGCTGGGACACTGATGGTCGACACCCTAGCACCAGATTTT
* * * *
13111998 AAAAAAAATGGATGTTGAGACACTGATGGTTGACACCCTAGTACCAGATTTT
1 AAAAAAAATGGATGCTGGGACACTGATGGTCGACACCCTAGCACCAGATTTT
* * * * ** * *
13112050 AAAAAAAATTAGGGTGCTGGGACACTTATGG-CTGGCGCTCC-AATACCAAATTTAAAA
1 AAAAAAAA-T-GGATGCTGGGACACTGATGGTC-GACAC-CCTAGCACCAGATTT---T
* ** * *
13112107 AAAAAAAATTGGGTGCTGGGACACTGATGAACGACACCCTAGTACCAGAATTT
1 AAAAAAAA-TGGATGCTGGGACACTGATGGTCGACACCCTAGCACCAGATTTT
* * * * * * *
13112160 AAAAAATAAGGGA-GTTGGAACACTAATGGTCGACACCTTAGTACTAGA-TTT
1 AAAAAA-AATGGATGCTGGGACACTGATGGTCGACACCCTAGCACCAGATTTT
* * * *
13112211 AAAAAAGATTGGGGTGTTGGAACACTGATGGTCG
1 AAAAAA-AAT-GGATGCTGGGACACTGATGGTCG
13112245 GTACCCCAGT
Statistics
Matches: 197, Mismatches: 38, Indels: 23
0.76 0.15 0.09
Matches are distributed among these distances:
51 10 0.05
52 84 0.43
53 27 0.14
54 31 0.16
55 4 0.02
56 30 0.15
57 11 0.06
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.24
Consensus pattern (52 bp):
AAAAAAAATGGATGCTGGGACACTGATGGTCGACACCCTAGCACCAGATTTT
Found at i:13112163 original size:162 final size:160
Alignment explanation
Indices: 13111944--13112241 Score: 393
Period size: 162 Copynumber: 1.9 Consensus size: 160
13111934 TTTTAAAATT
** * * * *
13111944 AAAAAAAAAATGGATGCTGGGACACTGATGGTCGACACTCTTGCACCAGATTTTAAAAAA-AATG
1 AAAAAAAAAATGGATGCTGGGACACTGATGAACGACACCCTAGCACCAGAATTTAAAAAATAAGG
* * *
13112008 GATGTT-GAGACACTGATGGTTGACACCCTAGTACCAGATTTTAAAAAAAATTAGGGTGCTGGGA
66 GA-GTTGGA-ACACTAATGGTCGACACCCTAGTACCAGA-TTTAAAAAAAATTAGGGTGCTGGAA
*
13112072 CACTTATGGCTGGCGCTCCAATACCAAATTTAA
128 CACTGATGGCTGGCGCTCCAATACCAAATTTAA
* *
13112105 AAAAAAAAAATTGGGTGCTGGGACACTGATGAACGACACCCTAGTACCAGAATTTAAAAAATAAG
1 AAAAAAAAAA-TGGATGCTGGGACACTGATGAACGACACCCTAGCACCAGAATTTAAAAAATAAG
* * * * *
13112170 GGAGTTGGAACACTAATGGTCGACACCTTAGTACTAGATTTAAAAAAGATTGGGGTGTTGGAACA
65 GGAGTTGGAACACTAATGGTCGACACCCTAGTACCAGATTTAAAAAAAATTAGGGTGCTGGAACA
13112235 CTGATGG
130 CTGATGG
13112242 TCGGTACCCC
Statistics
Matches: 117, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
161 39 0.33
162 71 0.61
163 7 0.06
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (160 bp):
AAAAAAAAAATGGATGCTGGGACACTGATGAACGACACCCTAGCACCAGAATTTAAAAAATAAGG
GAGTTGGAACACTAATGGTCGACACCCTAGTACCAGATTTAAAAAAAATTAGGGTGCTGGAACAC
TGATGGCTGGCGCTCCAATACCAAATTTAA
Found at i:13125273 original size:34 final size:34
Alignment explanation
Indices: 13125234--13125299 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
13125224 GTTTGTATTT
* * *
13125234 TTTTTTTC-AAGATTTATCAGTTTTTAATTTTTAA
1 TTTTTTTCTAA-ATTTATAACTTTGTAATTTTTAA
13125268 TTTTTTTCTAAATTTATAACTTTGTAATTTTT
1 TTTTTTTCTAAATTTATAACTTTGTAATTTTT
13125300 TAAAATATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.26, C:0.06, G:0.05, T:0.64
Consensus pattern (34 bp):
TTTTTTTCTAAATTTATAACTTTGTAATTTTTAA
Found at i:13129079 original size:18 final size:18
Alignment explanation
Indices: 13129056--13129090 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13129046 TCATAAATAT
*
13129056 ATATAATCTAGAAAAAGA
1 ATATAAACTAGAAAAAGA
*
13129074 ATATAAACTATAAAAAG
1 ATATAAACTAGAAAAAG
13129091 TTTATAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.06, G:0.09, T:0.23
Consensus pattern (18 bp):
ATATAAACTAGAAAAAGA
Found at i:13129183 original size:21 final size:21
Alignment explanation
Indices: 13129159--13129202 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
13129149 ATATTATTAC
13129159 AAAAATGTA-AAAAAAAGTTGT
1 AAAAAT-TATAAAAAAAGTTGT
*
13129180 AAAAATTATAAAAAAATTTGT
1 AAAAATTATAAAAAAAGTTGT
13129201 AA
1 AA
13129203 TTTTTTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (21 bp):
AAAAATTATAAAAAAAGTTGT
Found at i:13129245 original size:23 final size:22
Alignment explanation
Indices: 13129219--13129277 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
13129209 TTGAAGTTTA
*
13129219 AAAATATTTTTTTATAAAATTCT
1 AAAA-ATTTATTTATAAAATTCT
* * *
13129242 AAAACATATAATTCTAAAATTCT
1 AAAA-ATTTATTTATAAAATTCT
13129265 AAAAATTTATTTA
1 AAAAATTTATTTA
13129278 ATTTTGATTT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
22 6 0.21
23 22 0.79
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (22 bp):
AAAAATTTATTTATAAAATTCT
Found at i:13129375 original size:7 final size:7
Alignment explanation
Indices: 13129365--13129408 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
13129355 ATTTTGATTT
*
13129365 TTTAAAA
1 TTTATAA
*
13129372 TTTAAAA
1 TTTATAA
13129379 TTATATAA
1 TT-TATAA
13129387 TTTATAA
1 TTTATAA
13129394 TTTATAA
1 TTTATAA
13129401 TTTTATAA
1 -TTTATAA
13129409 AAAATTATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
7 21 0.62
8 13 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
TTTATAA
Found at i:13129390 original size:15 final size:14
Alignment explanation
Indices: 13129365--13129403 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
13129355 ATTTTGATTT
*
13129365 TTTAAAATTTAAAA
1 TTTATAATTTAAAA
*
13129379 TTATATAATTTATAA
1 TT-TATAATTTAAAA
13129394 TTTATAATTT
1 TTTATAATTT
13129404 TATAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTATAATTTAAAA
Found at i:13129395 original size:22 final size:22
Alignment explanation
Indices: 13129365--13129408 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13129355 ATTTTGATTT
13129365 TTTAAAATTTAAAATTATATAA
1 TTTAAAATTTAAAATTATATAA
* * *
13129387 TTTATAATTTATAATTTTATAA
1 TTTAAAATTTAAAATTATATAA
13129409 AAAATTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTAAAATTTAAAATTATATAA
Found at i:13129405 original size:15 final size:15
Alignment explanation
Indices: 13129370--13129408 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
13129360 GATTTTTTAA
*
13129370 AATTTAAAATTATAT
1 AATTTATAATTATAT
13129385 AATTTATAATT-TAT
1 AATTTATAATTATAT
13129399 AATTTTATAA
1 AA-TTTATAA
13129409 AAAATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
AATTTATAATTATAT
Found at i:13129713 original size:22 final size:23
Alignment explanation
Indices: 13129686--13129740 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
13129676 TAAAATTGTA
*
13129686 AAAATTTTAAAA-ATAT-TTTTAT
1 AAAATTTTAAAATATATAATTT-T
*
13129708 AAAATTATAAAATATATAATTTT
1 AAAATTTTAAAATATATAATTTT
13129731 -AAATTTTAAA
1 AAAATTTTAAA
13129741 TTTTAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 20 0.71
23 5 0.18
24 3 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AAAATTTTAAAATATATAATTTT
Found at i:13129873 original size:15 final size:15
Alignment explanation
Indices: 13129827--13129876 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
13129817 TCAGTTATAG
*
13129827 TTTT-TTTTTGTAAA
1 TTTTATTTTTATAAA
*
13129841 TTTTATTTCTATAAA
1 TTTTATTTTTATAAA
* *
13129856 TTTTATTTTTCTAGA
1 TTTTATTTTTATAAA
13129871 TTTTAT
1 TTTTAT
13129877 ATATATTTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 4 0.13
15 26 0.87
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.68
Consensus pattern (15 bp):
TTTTATTTTTATAAA
Found at i:13130027 original size:32 final size:32
Alignment explanation
Indices: 13129991--13130090 Score: 91
Period size: 32 Copynumber: 3.2 Consensus size: 32
13129981 TGAATATAAT
13129991 ATTATTCAATGTCTATAAAAAATGAACTAAAA
1 ATTATTCAATGTCTATAAAAAATGAACTAAAA
* * * * *
13130023 ATTA-T-AATGAAGCT-TTATAATTGAA-TATAAT
1 ATTATTCAATG--TCTATAAAAAATGAACTA-AAA
13130054 ATTATTCAATGTCTATAAAAAATGAACTAAAA
1 ATTATTCAATGTCTATAAAAAATGAACTAAAA
*
13130086 TTTAT
1 ATTAT
13130091 AATGAAGACA
Statistics
Matches: 50, Mismatches: 11, Indels: 14
0.67 0.15 0.19
Matches are distributed among these distances:
30 6 0.12
31 17 0.34
32 21 0.42
33 6 0.12
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (32 bp):
ATTATTCAATGTCTATAAAAAATGAACTAAAA
Found at i:13130046 original size:63 final size:63
Alignment explanation
Indices: 13129971--13130097 Score: 245
Period size: 63 Copynumber: 2.0 Consensus size: 63
13129961 TTACATAAAG
13129971 GCTTTATAATTGAATATAATATTATTCAATGTCTATAAAAAATGAACTAAAAATTATAATGAA
1 GCTTTATAATTGAATATAATATTATTCAATGTCTATAAAAAATGAACTAAAAATTATAATGAA
*
13130034 GCTTTATAATTGAATATAATATTATTCAATGTCTATAAAAAATGAACTAAAATTTATAATGAA
1 GCTTTATAATTGAATATAATATTATTCAATGTCTATAAAAAATGAACTAAAAATTATAATGAA
13130097 G
1 G
13130098 ACATACTTTA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (63 bp):
GCTTTATAATTGAATATAATATTATTCAATGTCTATAAAAAATGAACTAAAAATTATAATGAA
Found at i:13132101 original size:13 final size:13
Alignment explanation
Indices: 13132083--13132108 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13132073 CAAGCCTCAA
13132083 TATATATATATAT
1 TATATATATATAT
13132096 TATATATATATAT
1 TATATATATATAT
13132109 AGCTGAGGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATATATAT
Found at i:13140407 original size:22 final size:21
Alignment explanation
Indices: 13140382--13140428 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
13140372 TAGAAAGAAT
13140382 AAAATAATGAAAAAAAAAAAGG
1 AAAAT-ATGAAAAAAAAAAAGG
** *
13140404 AAAATATGATGAAAACAAAGG
1 AAAATATGAAAAAAAAAAAGG
13140425 AAAA
1 AAAA
13140429 AAAAAGTGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.72, C:0.02, G:0.15, T:0.11
Consensus pattern (21 bp):
AAAATATGAAAAAAAAAAAGG
Found at i:13140903 original size:27 final size:28
Alignment explanation
Indices: 13140847--13140916 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
13140837 AAATTTGTAC
13140847 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
13140875 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
13140902 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
13140917 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:13145500 original size:42 final size:42
Alignment explanation
Indices: 13145441--13145589 Score: 154
Period size: 42 Copynumber: 3.5 Consensus size: 42
13145431 TGTAGGTTTA
* * *
13145441 TACTTCGGTTTAGCCAATGATGCACTTATATGCTAGTATATT
1 TACTTCAGTTTATCCAATGATGCACTTATATGCCAGTATATT
* * *
13145483 TACTTCAGTTTATCCAATGATGCACTTATATACCAATATAAT
1 TACTTCAGTTTATCCAATGATGCACTTATATGCCAGTATATT
* * ** * * ** *
13145525 TGCTTCCGGATATCCGATGATACACTTACGTGCCAGTATATG
1 TACTTCAGTTTATCCAATGATGCACTTATATGCCAGTATATT
*
13145567 TGCTTCAGTTTATCCAATGATGC
1 TACTTCAGTTTATCCAATGATGC
13145590 GCTATGCTTG
Statistics
Matches: 84, Mismatches: 23, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 84 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (42 bp):
TACTTCAGTTTATCCAATGATGCACTTATATGCCAGTATATT
Found at i:13145685 original size:43 final size:43
Alignment explanation
Indices: 13145583--13145685 Score: 102
Period size: 43 Copynumber: 2.4 Consensus size: 43
13145573 AGTTTATCCA
* * * * * **
13145583 ATGATGCGCTATGCT-TGTCAATATAATTGCTTCAGTTTGTTTG
1 ATGATGCACTATG-TGTGACAATAGAATTACTTCAGCTTGCCTG
*
13145626 ATGATGCACCT-CGTGTGACAATAGAATTACTTCAGCTTGCCTG
1 ATGATGCA-CTATGTGTGACAATAGAATTACTTCAGCTTGCCTG
13145669 ATGATGCACTATGTGTG
1 ATGATGCACTATGTGTG
13145686 TAAGTATTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
42 3 0.06
43 43 0.90
44 2 0.04
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.37
Consensus pattern (43 bp):
ATGATGCACTATGTGTGACAATAGAATTACTTCAGCTTGCCTG
Done.