Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 10 of 185
Found at i:2821460 original size:21 final size:21
Alignment explanation
Indices: 2821419--2821489 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 21
2821409 AATATTTAAT
*
2821419 TATTTTATATTATTAAAAAAATA
1 TATTTAATATT-TT-AAAAAATA
2821442 TATTTAATATTTTAAAAAATAA
1 TATTTAATATTTTAAAAAAT-A
* *
2821464 TATTCAAAATTTT-AAAAATA
1 TATTTAATATTTTAAAAAATA
2821484 -ATTTAA
1 TATTTAA
2821490 AAATATTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
19 5 0.12
20 1 0.02
21 13 0.30
22 14 0.33
23 10 0.23
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (21 bp):
TATTTAATATTTTAAAAAATA
Found at i:2821489 original size:33 final size:33
Alignment explanation
Indices: 2821447--2821516 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
2821437 AAATATATTT
*
2821447 AATATTTTAAAAAATAATATTCAAAA-TTTTAAA
1 AATAATTT-AAAAATAATATTCAAAATTTTTAAA
* * *
2821480 AATAATTTAAAAATATTTTTTAAAATTTTTAAA
1 AATAATTTAAAAATAATATTCAAAATTTTTAAA
2821513 AATA
1 AATA
2821517 TATATTATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (33 bp):
AATAATTTAAAAATAATATTCAAAATTTTTAAA
Found at i:2821497 original size:22 final size:22
Alignment explanation
Indices: 2821447--2821517 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
2821437 AAATATATTT
*
2821447 AATATTTTAAAAAATAATATT-CA
1 AATATTTT-AAAAATAAT-TTAAA
2821470 AA-ATTTTAAAAATAATTTAAA
1 AATATTTTAAAAATAATTTAAA
* *
2821491 AATATTTTTTAAAAT-TTTTAAA
1 AATA-TTTTAAAAATAATTTAAA
2821513 AATAT
1 AATAT
2821518 ATATTATAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
20 2 0.05
21 13 0.31
22 16 0.38
23 11 0.26
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (22 bp):
AATATTTTAAAAATAATTTAAA
Found at i:2821503 original size:13 final size:11
Alignment explanation
Indices: 2821472--2821517 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
2821462 AATATTCAAA
2821472 ATTTTAAAAAT
1 ATTTTAAAAAT
*
2821483 AATTTAAAAAT
1 ATTTTAAAAAT
*
2821494 ATTTTTTAAAAT
1 A-TTTTAAAAAT
2821506 -TTTTAAAAAT
1 ATTTTAAAAAT
2821516 AT
1 AT
2821518 ATATTATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 9 0.31
11 12 0.41
12 8 0.28
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTTTAAAAAT
Found at i:2821561 original size:23 final size:23
Alignment explanation
Indices: 2821497--2821561 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 23
2821487 TAAAAATATT
* *
2821497 TTTTAAAATTTTTAAAAATATATA
1 TTTT-AAATTTTTTAAAATATACA
* *** *
2821521 TTATAAAACATTTCAAATATACA
1 TTTTAAATTTTTTAAAATATACA
2821544 TTTTAAATTTTTTAAAAT
1 TTTTAAATTTTTTAAAAT
2821562 TAATTTCAAA
Statistics
Matches: 29, Mismatches: 12, Indels: 1
0.69 0.29 0.02
Matches are distributed among these distances:
23 26 0.90
24 3 0.10
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (23 bp):
TTTTAAATTTTTTAAAATATACA
Found at i:2821585 original size:9 final size:9
Alignment explanation
Indices: 2821571--2821596 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
2821561 TTAATTTCAA
2821571 AAAATAAAT
1 AAAATAAAT
2821580 AAAATAAAT
1 AAAATAAAT
2821589 AAAATAAA
1 AAAATAAA
2821597 ATAAGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAATAAAT
Found at i:2821606 original size:14 final size:14
Alignment explanation
Indices: 2821572--2821600 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2821562 TAATTTCAAA
2821572 AAAT-AAATAAAAT
1 AAATAAAATAAAAT
2821585 AAATAAAATAAAAT
1 AAATAAAATAAAAT
2821599 AA
1 AA
2821601 GAAAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:2821649 original size:8 final size:8
Alignment explanation
Indices: 2821569--2821652 Score: 51
Period size: 8 Copynumber: 9.8 Consensus size: 8
2821559 AATTAATTTC
2821569 AAAAAATA
1 AAAAAATA
2821577 AATAAAATA
1 AA-AAAATA
2821586 AATAAAATA
1 AA-AAAATA
* *
2821595 AAATAAGA
1 AAAAAATA
* *
2821603 AAAAATTT
1 AAAAAATA
* *
2821611 AAAAATTT
1 AAAAAATA
*
2821619 AAAAAAGA
1 AAAAAATA
2821627 AAAAAATTTAAA
1 AAAAAA--T--A
2821639 AAAAAATA
1 AAAAAATA
2821647 AAAAAA
1 AAAAAA
2821653 ATCAGAAGGG
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
8 36 0.59
9 17 0.28
10 1 0.02
12 7 0.11
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (8 bp):
AAAAAATA
Found at i:2821653 original size:9 final size:9
Alignment explanation
Indices: 2821570--2821654 Score: 55
Period size: 10 Copynumber: 9.0 Consensus size: 9
2821560 ATTAATTTCA
2821570 AAAAATAAAT
1 AAAAA-AAAT
*
2821580 AAAATAAAT
1 AAAAAAAAT
2821589 AAAATAAAAT
1 AAAA-AAAAT
2821599 AAGAAAAAATT
1 AA-AAAAAA-T
* **
2821610 TAAAAATTT
1 AAAAAAAAT
*
2821619 AAAAAAGA-
1 AAAAAAAAT
**
2821627 AAAAAATTT
1 AAAAAAAAT
2821636 AAAAAAAAAT
1 -AAAAAAAAT
2821646 AAAAAAAAT
1 AAAAAAAAT
2821655 CAGAAGGGTG
Statistics
Matches: 58, Mismatches: 12, Indels: 11
0.72 0.15 0.14
Matches are distributed among these distances:
8 6 0.10
9 23 0.40
10 25 0.43
11 4 0.07
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:2822065 original size:20 final size:20
Alignment explanation
Indices: 2822020--2822067 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
2822010 GCCATATCAG
* *
2822020 TATTCTTATCCTGAATTTTAG
1 TATT-TTATCCTGAATTTCAA
*
2822041 GATTTTATCCTGAATTTCAA
1 TATTTTATCCTGAATTTCAA
2822061 TATTTTA
1 TATTTTA
2822068 ATTTAGATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.52
Consensus pattern (20 bp):
TATTTTATCCTGAATTTCAA
Found at i:2827956 original size:70 final size:70
Alignment explanation
Indices: 2827869--2828002 Score: 198
Period size: 70 Copynumber: 1.9 Consensus size: 70
2827859 GTATAGAAAC
* * ** *
2827869 TAAAATTGACTAAATTAAAATATTAAGACTACAATTTTAAAACTTCAAATTACAA-GAATTAAAT
1 TAAAATCGACCAAATTAAAATACCAAAACTACAATTTTAAAACTTCAAATTA-AAGGAATTAAAT
2827933 AAGAAT
65 AAGAAT
*
2827939 TAAAATCGACCAAATTAAAATACCAAAATTACAATTTTAAAACTTCAAATTAAAGGAATTAAAT
1 TAAAATCGACCAAATTAAAATACCAAAACTACAATTTTAAAACTTCAAATTAAAGGAATTAAAT
2828003 TGAACCAATT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
69 2 0.04
70 55 0.96
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.30
Consensus pattern (70 bp):
TAAAATCGACCAAATTAAAATACCAAAACTACAATTTTAAAACTTCAAATTAAAGGAATTAAATA
AGAAT
Found at i:2828003 original size:35 final size:34
Alignment explanation
Indices: 2827880--2828003 Score: 85
Period size: 35 Copynumber: 3.5 Consensus size: 34
2827870 AAAATTGACT
*
2827880 AAATTAAA-ATATTAAGACTACAATTTTAAAACTTC
1 AAATTAAAGA-ATTAA-ATTACAATTTTAAAACTTC
* * **
2827915 AAATTACAAGAATTAAATAAGAA--TTAAAATCGACC
1 AAATTA-AAGAATTAAATTACAATTTTAAAA-C-TTC
**
2827950 AAATTAAA-ATACCAAAATTACAATTTTAAAACTTC
1 AAATTAAAGA-A-TTAAATTACAATTTTAAAACTTC
2827985 AAATTAAAGGAATTAAATT
1 AAATTAAA-GAATTAAATT
2828004 GAACCAATTC
Statistics
Matches: 66, Mismatches: 13, Indels: 20
0.67 0.13 0.20
Matches are distributed among these distances:
33 7 0.11
34 4 0.06
35 38 0.58
36 9 0.14
37 8 0.12
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.30
Consensus pattern (34 bp):
AAATTAAAGAATTAAATTACAATTTTAAAACTTC
Found at i:2830201 original size:22 final size:21
Alignment explanation
Indices: 2830171--2830225 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
2830161 ACACATTATG
*
2830171 TATATACATTTAAATACTATAT
1 TATATACATTT-AATACCATAT
*
2830193 TATACACATATTAATACCATAT
1 TATATACAT-TTAATACCATAT
2830215 TATATACATTT
1 TATATACATTT
2830226 TTTTTCATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 25 0.86
23 2 0.07
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.44
Consensus pattern (21 bp):
TATATACATTTAATACCATAT
Found at i:2835735 original size:41 final size:39
Alignment explanation
Indices: 2835689--2835818 Score: 102
Period size: 41 Copynumber: 3.2 Consensus size: 39
2835679 TGTGGCGCTT
2835689 AGGAAAAAAAGCCGCAAAAGTTGTACATTAGTGGCACTAA
1 AGGAAAAAAAGCCGCAAAAGTT-TACATTAGTGGCACTAA
* * * * ** *
2835729 CAGG-AAAACA-CCGTAAAAGTTTAAAGCTATAGCGGCGTTTA
1 -AGGAAAAAAAGCCGCAAAAGTTTACA--T-TAGTGGCACTAA
*
2835770 TGGTAAAAAAAGCCGCAAAAGTTATACATTAGTGGCACTAA
1 AGG-AAAAAAAGCCGCAAAAGTT-TACATTAGTGGCACTAA
2835811 TAGGAAAA
1 -AGGAAAA
2835819 CACCGTAAAA
Statistics
Matches: 65, Mismatches: 16, Indels: 16
0.67 0.16 0.16
Matches are distributed among these distances:
38 3 0.05
39 10 0.15
40 8 0.12
41 23 0.35
42 8 0.12
43 10 0.15
44 3 0.05
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.20
Consensus pattern (39 bp):
AGGAAAAAAAGCCGCAAAAGTTTACATTAGTGGCACTAA
Found at i:2835747 original size:39 final size:37
Alignment explanation
Indices: 2835704--2835833 Score: 98
Period size: 39 Copynumber: 3.2 Consensus size: 37
2835694 AAAAAGCCGC
2835704 AAAAGTTGTACATTAGTGGCACTAACAGGAAAACACCGT
1 AAAAGTT-TACATTAGTGGCACTAA-AGGAAAACACCGT
* * ** * * * *
2835743 AAAAGTTTAAAGCTATAGCGGCGTTTATGGTAAAAAAAGCCGC
1 AAAAGTTTACA--T-TAGTGGCACTAAAGG--AAAACA-CCGT
2835786 AAAAGTTATACATTAGTGGCACTAATAGGAAAACACCGT
1 AAAAGTT-TACATTAGTGGCACTAA-AGGAAAACACCGT
2835825 AAAAGTTTA
1 AAAAGTTTA
2835834 AAGCTATAGC
Statistics
Matches: 67, Mismatches: 16, Indels: 17
0.67 0.16 0.17
Matches are distributed among these distances:
38 5 0.07
39 17 0.25
40 8 0.12
41 16 0.24
42 8 0.12
43 10 0.15
44 3 0.04
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (37 bp):
AAAAGTTTACATTAGTGGCACTAAAGGAAAACACCGT
Found at i:2835780 original size:82 final size:82
Alignment explanation
Indices: 2835692--2835871 Score: 326
Period size: 82 Copynumber: 2.2 Consensus size: 82
2835682 GGCGCTTAGG
*
2835692 AAAAAAAGCCGCAAAAGTTGTACATTAGTGGCACTAACAGGAAAACACCGTAAAAGTTTAAAGCT
1 AAAAAAAGCCGCAAAAGTTATACATTAGTGGCACTAACAGGAAAACACCGTAAAAGTTTAAAGCT
2835757 ATAGCGGCGTTTATGGT
66 ATAGCGGCGTTTATGGT
*
2835774 AAAAAAAGCCGCAAAAGTTATACATTAGTGGCACTAATAGGAAAACACCGTAAAAGTTTAAAGCT
1 AAAAAAAGCCGCAAAAGTTATACATTAGTGGCACTAACAGGAAAACACCGTAAAAGTTTAAAGCT
2835839 ATAGCGGCGTTTATGGT
66 ATAGCGGCGTTTATGGT
*
2835856 -AAAAATGCCGCAAAAG
1 AAAAAAAGCCGCAAAAG
2835872 GGCAAGCATT
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
81 15 0.16
82 80 0.84
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (82 bp):
AAAAAAAGCCGCAAAAGTTATACATTAGTGGCACTAACAGGAAAACACCGTAAAAGTTTAAAGCT
ATAGCGGCGTTTATGGT
Found at i:2835958 original size:21 final size:21
Alignment explanation
Indices: 2835934--2836015 Score: 58
Period size: 21 Copynumber: 3.9 Consensus size: 21
2835924 TATTTTAGGG
2835934 TTTAGAATTTAAGATTTAATA
1 TTTAGAATTTAAGATTTAATA
* * * *
2835955 TTTA-AGGTTTAAGGTCTAAGA
1 TTTAGA-ATTTAAGATTTAATA
** * *
2835976 TTTTAGGGTTTATGGTTTAATA
1 -TTTAGAATTTAAGATTTAATA
*
2835998 TTTAGAATTTTAGATTTA
1 TTTAGAATTTAAGATTTA
2836016 GGGTTTAGTG
Statistics
Matches: 45, Mismatches: 13, Indels: 6
0.70 0.20 0.09
Matches are distributed among these distances:
20 1 0.02
21 28 0.62
22 16 0.36
ACGTcount: A:0.33, C:0.01, G:0.17, T:0.49
Consensus pattern (21 bp):
TTTAGAATTTAAGATTTAATA
Found at i:2836000 original size:22 final size:22
Alignment explanation
Indices: 2835941--2836000 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
2835931 GGGTTTAGAA
*
2835941 TTTAAGATTTAATA-TTTAAGG
1 TTTAAGGTTTAATATTTTAAGG
* * *
2835962 TTTAAGGTCTAAGATTTTAGGG
1 TTTAAGGTTTAATATTTTAAGG
*
2835984 TTTATGGTTTAATATTT
1 TTTAAGGTTTAATATTT
2836001 AGAATTTTAG
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 11 0.35
22 20 0.65
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.50
Consensus pattern (22 bp):
TTTAAGGTTTAATATTTTAAGG
Found at i:2836029 original size:21 final size:21
Alignment explanation
Indices: 2836005--2836065 Score: 54
Period size: 22 Copynumber: 2.9 Consensus size: 21
2835995 ATATTTAGAA
2836005 TTTTAGATTTAGGGTTTA-GTG
1 TTTTAGATTTAGGGTTTATG-G
* *
2836026 TTTTAAGATCTATGGTTTATGG
1 TTTT-AGATTTAGGGTTTATGG
*
2836048 TTTGT-GATTTGGGGTTTA
1 TTT-TAGATTTAGGGTTTA
2836066 ATGTGTTGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 14 0.44
22 16 0.50
23 2 0.06
ACGTcount: A:0.18, C:0.02, G:0.28, T:0.52
Consensus pattern (21 bp):
TTTTAGATTTAGGGTTTATGG
Found at i:2836304 original size:30 final size:30
Alignment explanation
Indices: 2836264--2836321 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
2836254 GGGCTAAGAT
* * *
2836264 ATATATTTTAGGGTTTAAGATTTAGGGTAC
1 ATATAATTTAGAGTTTAAGATCTAGGGTAC
*
2836294 ATATAATTTAGAGTTTAGGATCTAGGGT
1 ATATAATTTAGAGTTTAAGATCTAGGGT
2836322 TTAGGCTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.03, G:0.24, T:0.41
Consensus pattern (30 bp):
ATATAATTTAGAGTTTAAGATCTAGGGTAC
Found at i:2837055 original size:107 final size:108
Alignment explanation
Indices: 2836921--2837135 Score: 351
Period size: 107 Copynumber: 2.0 Consensus size: 108
2836911 CAGTAGTGGC
* *
2836921 GCTTTGTAGAAAACGCCGCAATCGATCGACCATTAGTGGCGCTTTTGAAAAAACGCCGC-AAAAG
1 GCTTTGTAGAAAACGCCGCAATCGATCGACCATTAGTGGCACTTTTGAAAAAACGCCACAAAAAG
*
2836985 TATTTTACTTTAATTGAAACGTCGCCATTTTTGGTAGGGCATT
66 TATTTTACTTTAATTGAAACATCGCCATTTTTGGTAGGGCATT
* *
2837028 GCTTTGTTGAAAACGCCGCAATGGATCGACCATTAGTGGCACTTTTGAAAAAACGCCACAAAAAG
1 GCTTTGTAGAAAACGCCGCAATCGATCGACCATTAGTGGCACTTTTGAAAAAACGCCACAAAAAG
* * *
2837093 TATTTTACTTTAATTGAGACATCGTCGTTTTTGGTAGGGCATT
66 TATTTTACTTTAATTGAAACATCGCCATTTTTGGTAGGGCATT
2837136 AGCGGCGATT
Statistics
Matches: 99, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
107 55 0.56
108 44 0.44
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (108 bp):
GCTTTGTAGAAAACGCCGCAATCGATCGACCATTAGTGGCACTTTTGAAAAAACGCCACAAAAAG
TATTTTACTTTAATTGAAACATCGCCATTTTTGGTAGGGCATT
Found at i:2839155 original size:23 final size:23
Alignment explanation
Indices: 2839129--2839173 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2839119 TATATACTAA
*
2839129 ATATATATTTTTTATTTTTAATC
1 ATATATATATTTTATTTTTAATC
*
2839152 ATATTTATATTTTATTTTTAAT
1 ATATATATATTTTATTTTTAAT
2839174 TTTAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
ATATATATATTTTATTTTTAATC
Found at i:2839170 original size:29 final size:27
Alignment explanation
Indices: 2839137--2839191 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
2839127 AAATATATAT
* *
2839137 TTTTTATTTTTAATCATATTTATATTTTA
1 TTTTTAATTTTAAT-ATAATTA-ATTTTA
2839166 TTTTTAATTTTAATATAATTAATTTT
1 TTTTTAATTTTAATATAATTAATTTT
2839192 TATTATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.21
28 6 0.25
29 13 0.54
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTTAATTTTAATATAATTAATTTTA
Found at i:2839269 original size:39 final size:40
Alignment explanation
Indices: 2839189--2839273 Score: 100
Period size: 39 Copynumber: 2.1 Consensus size: 40
2839179 TATAATTAAT
*
2839189 TTTTATTATATTTTCAATTTGTGTATTGTTTAAAAAATTG
1 TTTTAATATATTTTCAATTTGTGTATTGTTTAAAAAATTG
* * * * * *
2839229 TTTTAATATATTTT-TATTTGTTTTTTGTTTTAATATTTG
1 TTTTAATATATTTTCAATTTGTGTATTGTTTAAAAAATTG
2839268 TTTTAA
1 TTTTAA
2839274 ATGTATTTGA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 25 0.66
40 13 0.34
ACGTcount: A:0.26, C:0.01, G:0.08, T:0.65
Consensus pattern (40 bp):
TTTTAATATATTTTCAATTTGTGTATTGTTTAAAAAATTG
Found at i:2839796 original size:9 final size:9
Alignment explanation
Indices: 2839784--2840002 Score: 160
Period size: 9 Copynumber: 24.6 Consensus size: 9
2839774 TATATCATAT
2839784 CATAACTTA
1 CATAACTTA
* *
2839793 CATACCTCA
1 CATAACTTA
*
2839802 CATAACATA
1 CATAACTTA
2839811 CATAACTTA
1 CATAACTTA
2839820 CATAACTTA
1 CATAACTTA
* *
2839829 TATAA-ATA
1 CATAACTTA
* * *
2839837 TATATCATA
1 CATAACTTA
2839846 TCATAACTTA
1 -CATAACTTA
2839856 CATAACTTA
1 CATAACTTA
2839865 CATAA--TA
1 CATAACTTA
*
2839872 CATAA-ATA
1 CATAACTTA
* * *
2839880 TATATCATA
1 CATAACTTA
*
2839889 TCATAAATGT-
1 -CATAACT-TA
2839899 CATAACTTA
1 CATAACTTA
2839908 CATAACTTA
1 CATAACTTA
*
2839917 CATAATTTA
1 CATAACTTA
*
2839926 CACAACTTA
1 CATAACTTA
*
2839935 CATAATTTA
1 CATAACTTA
* *
2839944 CAGAATTTA
1 CATAACTTA
2839953 CATAACTTA
1 CATAACTTA
* * *
2839962 CATCATTTT
1 CATAACTTA
2839971 CATAACTTA
1 CATAACTTA
**
2839980 CATATTTTA
1 CATAACTTA
*
2839989 CATAACTGA
1 CATAACTTA
2839998 CATAA
1 CATAA
2840003 ATAAATATCA
Statistics
Matches: 165, Mismatches: 38, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
7 7 0.04
8 12 0.07
9 136 0.82
10 9 0.05
11 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:2839805 original size:23 final size:23
Alignment explanation
Indices: 2839760--2839810 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
2839750 CTTTAAAATT
*
2839760 ACATAACTTACATATATATCATA
1 ACATAACTTACATACATATCATA
* *
2839783 TCATAACTTACATACCTCA-CATA
1 ACATAACTTACATACAT-ATCATA
2839806 ACATA
1 ACATA
2839811 CATAACTTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (23 bp):
ACATAACTTACATACATATCATA
Found at i:2839962 original size:27 final size:27
Alignment explanation
Indices: 2839758--2840002 Score: 140
Period size: 27 Copynumber: 9.0 Consensus size: 27
2839748 TTCTTTAAAA
*
2839758 TTACATAACTTACATATATATCATATCATAAC
1 TTACATAACTTACATA-AT-T--TA-CATAAT
* * ** *
2839790 TTACATACCTCACATAACATACATAAC
1 TTACATAACTTACATAATTTACATAAT
* * * *
2839817 TTACATAACTTATATAAATATATATCAT
1 TTACATAACTTACAT-AATTTACATAAT
* *
2839845 AT-CATAACTTACATAACTTACATAA-
1 TTACATAACTTACATAATTTACATAAT
* * * *
2839870 -TACATAAATATATATCATAT-CATAAAT
1 TTACATAACT-TACATAATTTACAT-AAT
* *
2839897 GT-CATAACTTACATAACTTACATAAT
1 TTACATAACTTACATAATTTACATAAT
* *
2839923 TTACACAACTTACATAATTTACAGAAT
1 TTACATAACTTACATAATTTACATAAT
* * *
2839950 TTACATAACTTACATCATTTTCATAAC
1 TTACATAACTTACATAATTTACATAAT
** * *
2839977 TTACATATTTTACATAACTGACATAA
1 TTACATAACTTACATAATTTACATAA
2840003 ATAAATATCA
Statistics
Matches: 163, Mismatches: 42, Indels: 21
0.72 0.19 0.09
Matches are distributed among these distances:
24 1 0.01
25 9 0.06
26 25 0.15
27 101 0.62
28 12 0.07
31 1 0.01
32 14 0.09
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.36
Consensus pattern (27 bp):
TTACATAACTTACATAATTTACATAAT
Found at i:2839975 original size:106 final size:106
Alignment explanation
Indices: 2839771--2839964 Score: 248
Period size: 106 Copynumber: 1.8 Consensus size: 106
2839761 CATAACTTAC
* * * *
2839771 ATATATATCATATCATAACTTACATACCTCACATAACATACATAACTTACATAACTTATATAAAT
1 ATATATATCATATCATAAATTACATAACTCACATAACATACATAACTTACACAACTTACATAAAT
* **
2839836 ATATATCATATCATAACTTACATAACTTACATAATACATAA
66 ATACAGAATATCATAACTTACATAACTTACATAATACATAA
* * *
2839877 ATATATATCATATCATAAATGT-CATAACTTACATAACTTACATAATTTACACAACTTACAT-AA
1 ATATATATCATATCATAAAT-TACATAACTCACATAACATACATAACTTACACAACTTACATAAA
* *
2839940 TTTACAGAATTTACATAACTTACAT
65 TATACAGAATAT-CATAACTTACAT
2839965 CATTTTCATA
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
105 9 0.12
106 64 0.86
107 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.35
Consensus pattern (106 bp):
ATATATATCATATCATAAATTACATAACTCACATAACATACATAACTTACACAACTTACATAAAT
ATACAGAATATCATAACTTACATAACTTACATAATACATAA
Found at i:2841680 original size:12 final size:12
Alignment explanation
Indices: 2841663--2841688 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2841653 AAGATTAAGG
2841663 GATGAATCTGAT
1 GATGAATCTGAT
2841675 GATGAATCTGAT
1 GATGAATCTGAT
2841687 GA
1 GA
2841689 AGAGGATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:2843202 original size:18 final size:18
Alignment explanation
Indices: 2843179--2843213 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2843169 TGGCCTATTA
2843179 CAGTAACAGCAAACAGTG
1 CAGTAACAGCAAACAGTG
*
2843197 CAGTAACAGTAAACAGT
1 CAGTAACAGCAAACAGT
2843214 ATGCAAGTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.14
Consensus pattern (18 bp):
CAGTAACAGCAAACAGTG
Found at i:2843596 original size:27 final size:27
Alignment explanation
Indices: 2843566--2843630 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
2843556 AGGGGCATTT
* * *
2843566 CAGTCATTTTACCATATAAGGGTAAAA
1 CAGTCATTTTAACACATAAGGGCAAAA
*
2843593 CAGTTATTTTAACACATAAGGGCAAAA
1 CAGTCATTTTAACACATAAGGGCAAAA
*
2843620 TAGTCATTTTA
1 CAGTCATTTTA
2843631 TCGATTAAGG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (27 bp):
CAGTCATTTTAACACATAAGGGCAAAA
Found at i:2847146 original size:20 final size:21
Alignment explanation
Indices: 2847099--2847151 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
2847089 CGCAAGTCCA
2847099 TAAA-ATCACATTTCATAATC
1 TAAATATCACATTTCATAATC
* *
2847119 TCAATATCGCATTTCATAA-C
1 TAAATATCACATTTCATAATC
2847139 TAAATATCACATT
1 TAAATATCACATT
2847152 CACTTCAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.42, C:0.21, G:0.02, T:0.36
Consensus pattern (21 bp):
TAAATATCACATTTCATAATC
Found at i:2847205 original size:17 final size:17
Alignment explanation
Indices: 2847149--2847205 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
2847139 TAAATATCAC
2847149 ATTCACTTCAATTATCT
1 ATTCACTTCAATTATCT
2847166 AATAATCAAC-TCAA-TATCAT
1 -AT--TC-ACTTCAATTATC-T
2847186 ATTCACTTCAATTATCT
1 ATTCACTTCAATTATCT
2847203 ATT
1 ATT
2847206 AACCATTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
16 2 0.06
17 10 0.30
18 6 0.18
19 6 0.18
20 7 0.21
21 2 0.06
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTCACTTCAATTATCT
Found at i:2850796 original size:18 final size:17
Alignment explanation
Indices: 2850765--2850818 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 17
2850755 ATTTTTAAAG
*
2850765 TTTTTTTTTAAATTTAA
1 TTTTTTTATAAATTTAA
2850782 TTTTTTTATAGAATTTATAA
1 TTTTTTTATA-AA-TT-TAA
*
2850802 TTTTTATGATAAATTTA
1 TTTTT-TTATAAATTTA
2850819 GTAATATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
17 9 0.29
18 4 0.13
19 4 0.13
20 10 0.32
21 4 0.13
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (17 bp):
TTTTTTTATAAATTTAA
Found at i:2850816 original size:20 final size:22
Alignment explanation
Indices: 2850779--2850844 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 22
2850769 TTTTTAAATT
*
2850779 TAATTTTT-TTATAGAATTTA-
1 TAATTTTTATGATAGAATTTAG
2850799 TAATTTTTATGATA-AATTTAG
1 TAATTTTTATGATAGAATTTAG
* * **
2850820 TAATATTTATAATTTAATTTAG
1 TAATTTTTATGATAGAATTTAG
2850842 TAA
1 TAA
2850845 ACTAATACAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 14 0.36
21 15 0.38
22 10 0.26
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (22 bp):
TAATTTTTATGATAGAATTTAG
Found at i:2850823 original size:21 final size:21
Alignment explanation
Indices: 2850779--2850844 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 21
2850769 TTTTTAAATT
*
2850779 TAATTTTT-TTATAGAATTTA-
1 TAATTTTTATAATA-AATTTAG
*
2850799 TAATTTTTATGATAAATTTAG
1 TAATTTTTATAATAAATTTAG
* *
2850820 TAATATTTATAATTTAATTTAG
1 TAATTTTTATAA-TAAATTTAG
2850842 TAA
1 TAA
2850845 ACTAATACAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 14 0.36
21 14 0.36
22 11 0.28
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (21 bp):
TAATTTTTATAATAAATTTAG
Found at i:2854867 original size:6 final size:6
Alignment explanation
Indices: 2854852--2854885 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
2854842 GATTTGCTGT
*
2854852 AAAAAA AAAAAG AAAAA- AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
2854886 CTCACTCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:2854869 original size:11 final size:11
Alignment explanation
Indices: 2854853--2854885 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
2854843 ATTTGCTGTA
2854853 AAAAAAAAAAG
1 AAAAAAAAAAG
2854864 AAAAAAAAAAG
1 AAAAAAAAAAG
2854875 AAAAAGAAAAA
1 AAAAA-AAAAA
2854886 CTCACTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:2854878 original size:17 final size:16
Alignment explanation
Indices: 2854852--2854885 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
2854842 GATTTGCTGT
2854852 AAAAAAAAAAAGAAAA
1 AAAAAAAAAAAGAAAA
2854868 AAAAAAGAAAAAGAAAA
1 AAAAAA-AAAAAGAAAA
2854885 A
1 A
2854886 CTCACTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAGAAAA
Found at i:2858218 original size:19 final size:19
Alignment explanation
Indices: 2858194--2858338 Score: 221
Period size: 19 Copynumber: 7.9 Consensus size: 19
2858184 ATAATCTTCA
*
2858194 ATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
2858213 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
2858232 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
2858249 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
2858267 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
2858286 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
2858303 ATGAT-TGCAAACTTAGAT
1 ATGATATGCAATCTTAGAT
*
2858321 ATAATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
2858339 AGATATGATT
Statistics
Matches: 116, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
17 32 0.28
18 30 0.26
19 54 0.47
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:2858232 original size:14 final size:15
Alignment explanation
Indices: 2858215--2858306 Score: 78
Period size: 17 Copynumber: 5.5 Consensus size: 15
2858205 TCTTAGATAT
2858215 GATATG-CAATCTTA
1 GATATGACAATCTTA
2858229 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
2858246 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
2858264 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
2858283 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
2858300 GATATGA
1 GATATGA
2858307 TTGCAAACTT
Statistics
Matches: 70, Mismatches: 0, Indels: 15
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.09
15 2 0.03
17 28 0.40
18 14 0.20
19 19 0.27
20 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:2858262 original size:54 final size:54
Alignment explanation
Indices: 2858194--2858338 Score: 254
Period size: 54 Copynumber: 2.7 Consensus size: 54
2858184 ATAATCTTCA
*
2858194 ATGATATGTAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGAT
2858249 ATGATTGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGAT
* *
2858303 ATGATTGCAAACTTAGATATAATATGCAATCTTAGA
1 ATGATTGCAATCTTAGATATGATATGCAATCTTAGA
2858339 AGATATGATT
Statistics
Matches: 87, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
54 82 0.94
55 5 0.06
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (54 bp):
ATGATTGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGAT
Found at i:2858265 original size:35 final size:36
Alignment explanation
Indices: 2858203--2858338 Score: 197
Period size: 35 Copynumber: 3.8 Consensus size: 36
2858193 AATGATATGT
2858203 AATCTTAGATATGATATGCAATCTTAGATATGATAC
1 AATCTTAGATATGATATGCAATCTTAGATATGATAC
2858239 AATCTTAGATATGAT-TGCAATCTTAGATATGATATGC
1 AATCTTAGATATGATATGCAATCTTAGATATGATA--C
*
2858276 AATCTTAGATATGATA--CAATCTTAGATATGATTGC
1 AATCTTAGATATGATATGCAATCTTAGATATGA-TAC
* *
2858311 AAACTTAGATATAATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
2858339 AGATATGATT
Statistics
Matches: 91, Mismatches: 3, Indels: 11
0.87 0.03 0.10
Matches are distributed among these distances:
35 34 0.37
36 30 0.33
37 27 0.30
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (36 bp):
AATCTTAGATATGATATGCAATCTTAGATATGATAC
Found at i:2858331 original size:73 final size:71
Alignment explanation
Indices: 2858193--2858345 Score: 220
Period size: 73 Copynumber: 2.1 Consensus size: 71
2858183 TATAATCTTC
* * *
2858193 AATGATATGTAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCA
1 AATGATATGCAATCTTAGATATGATA-GCAATCTTAGATATGATACAAACTTAGATATAATTGCA
2858258 ATCTTAG
65 ATCTTAG
*
2858265 ATATGATATGCAATCTTAGATATGATA-CAATCTTAGATATGATTGCAAACTTAGATATAATATG
1 A-ATGATATGCAATCTTAGATATGATAGCAATCTTAGATATGA-TACAAACTTAGATATAAT-TG
2858329 CAATCTTAG
63 CAATCTTAG
2858338 AA-GATATG
1 AATGATATG
2858346 ATTTTGTAAT
Statistics
Matches: 74, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
71 21 0.28
72 17 0.23
73 36 0.49
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (71 bp):
AATGATATGCAATCTTAGATATGATAGCAATCTTAGATATGATACAAACTTAGATATAATTGCAA
TCTTAG
Found at i:2862348 original size:18 final size:19
Alignment explanation
Indices: 2862312--2862349 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
2862302 AAGACATGTG
2862312 TTTAGAGGAATCTCAGGAT
1 TTTAGAGGAATCTCAGGAT
2862331 TTTAGA-GATATC-CAGGAT
1 TTTAGAGGA-ATCTCAGGAT
2862349 T
1 T
2862350 GTGATGTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.34
Consensus pattern (19 bp):
TTTAGAGGAATCTCAGGAT
Found at i:2866748 original size:220 final size:220
Alignment explanation
Indices: 2866303--2866892 Score: 993
Period size: 220 Copynumber: 2.7 Consensus size: 220
2866293 CGGGCTAAAG
* * * * * ** *
2866303 CATAGCAGATTTGACCTTCAGGTGTTTACGCTGAAGCAGATCCAAGATGGTTTAACATCTTTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
* *
2866368 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGACCGAAG
66 CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
2866433 ACA-AGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCATT
131 ACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCATT
2866497 GCATTTACAAGGAGCAGATCGAAGA
196 GCATTTACAAGGAGCAGATCGAAGA
* * * *
2866522 CATAGCAGATTTGGCTTTCACGTGTTTACACTGAAGAAAATTTAAGATGATTTGGCATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
*
2866587 CTGTCAGAGAACAAATCAAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
66 CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
* *
2866652 ACATCGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCATT
*
2866717 GCGTTTACAAGGAGCAGATCGAAGA
196 GCATTTACAAGGAGCAGATCGAAGA
*
2866742 CATAGCAGATTTGGCTTTCATGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
*
2866807 CTGTCAGAGAACAAAGCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
66 CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
2866872 ACATAGCAGATCTAACCTTCA
131 ACATAGCAGATCTAACCTTCA
2866893 TTGAAGCAGA
Statistics
Matches: 344, Mismatches: 26, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
219 118 0.34
220 226 0.66
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (220 bp):
CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
ACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCATT
GCATTTACAAGGAGCAGATCGAAGA
Found at i:2866768 original size:89 final size:87
Alignment explanation
Indices: 2866639--2866800 Score: 209
Period size: 89 Copynumber: 1.8 Consensus size: 87
2866629 ATTCGACGGA
* * *
2866639 GAGCAGATCGAAGACATCGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCAGATGTTTACAC-T-GAAGCAGATCCAAGATG
2866704 ATTTGGCATCCTTGCGTTTACAAG
64 ATTTGGCATCCTTGCGTTTACAAG
* ** * * *
2866728 GAGCAGATCGAAGACATAGCAGATTTGGCTTTCATG-TGTTTACGCTGAAGCAGATCTAAGATGA
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCA-GATGTTTACACTGAAGCAGATCCAAGATGA
2866792 TTTGGCATC
65 TTTGGCATC
2866801 TCTGTACTGT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
87 25 0.40
88 1 0.02
89 36 0.57
90 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (87 bp):
GAGCAGATCGAAGACATAGCAGATCTAACCTTCAGATGTTTACACTGAAGCAGATCCAAGATGAT
TTGGCATCCTTGCGTTTACAAG
Found at i:2866947 original size:78 final size:78
Alignment explanation
Indices: 2866833--2867127 Score: 441
Period size: 78 Copynumber: 3.8 Consensus size: 78
2866823 CGAAGAAACA
** *
2866833 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCATTGAA
2866898 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * * * *
2866911 GATTTGGCATCTCTGTATTAGACGAAGAGCAAATCGAAGACACAACAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCATTGAA
2866976 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
2866989 GATTTGGCATCTCTGTATTAGATGGGGAGCAGATCAAAGACAT-GACAGAT-TAGACCTTCATTG
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAG-CAGATCTA-ACCTTCATTG
2867052 AAGCAGATCCAAGAT
64 AAGCAGATCCAAGAT
* *
2867067 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCAT
2867128 GTGTTTACAT
Statistics
Matches: 194, Mismatches: 19, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
77 1 0.01
78 191 0.98
79 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCATTGAA
GCAGATCCAAGAT
Found at i:2867348 original size:18 final size:19
Alignment explanation
Indices: 2867325--2867362 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2867315 GGCTGTCACA
2867325 ATATGAT-TGCAATCTTAG
1 ATATGATATGCAATCTTAG
2867343 ATATGATATGCAATCTTAG
1 ATATGATATGCAATCTTAG
2867362 A
1 A
2867363 AGATATGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (19 bp):
ATATGATATGCAATCTTAG
Found at i:2867388 original size:22 final size:22
Alignment explanation
Indices: 2867325--2867385 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 22
2867315 GGCTGTCACA
2867325 ATATGAT-TGCAATCTT---AG
1 ATATGATATGCAATCTTAGAAG
2867343 ATATGATATGCAATCTTAGAAG
1 ATATGATATGCAATCTTAGAAG
* *
2867365 ATATGATTTTGTAATCTTAGA
1 ATATGA-TATGCAATCTTAGA
2867386 GATTTAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
18 7 0.19
19 9 0.25
22 8 0.22
23 12 0.33
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.39
Consensus pattern (22 bp):
ATATGATATGCAATCTTAGAAG
Found at i:2871375 original size:93 final size:93
Alignment explanation
Indices: 2871264--2871620 Score: 660
Period size: 93 Copynumber: 3.8 Consensus size: 93
2871254 GCCCCTAAGT
* * * * * *
2871264 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
2871329 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
2871357 GAACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
2871422 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
2871450 GAACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
2871515 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
2871543 GAACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
2871608 CGAGTTCGGATGC
66 CGAGTTCGGATGC
2871621 TCAACCATCC
Statistics
Matches: 258, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 258 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (93 bp):
GAACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:2871617 original size:46 final size:46
Alignment explanation
Indices: 2871259--2871617 Score: 367
Period size: 46 Copynumber: 7.7 Consensus size: 46
2871249 AACCCGCCCC
* * * *
2871259 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
2871305 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
2871353 TCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* *
2871398 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
2871446 TCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* *
2871491 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
2871539 TCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
2871584 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
2871618 TGCTCAACCA
Statistics
Matches: 257, Mismatches: 35, Indels: 42
0.77 0.10 0.13
Matches are distributed among these distances:
43 18 0.07
44 6 0.02
45 6 0.02
46 115 0.45
47 84 0.33
48 6 0.02
49 6 0.02
50 16 0.06
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:2882739 original size:93 final size:93
Alignment explanation
Indices: 2882628--2882798 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
2882618 GCCCCTAAGT
* *
2882628 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
2882693 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
2882721 GAACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
2882786 CGAGTTCGGATGC
66 CGAGTTCGGATGC
2882799 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:2882795 original size:46 final size:46
Alignment explanation
Indices: 2882623--2882795 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
2882613 AACCCGCCCC
* * * *
2882623 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
2882669 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
2882717 TCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
2882762 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
2882796 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.56
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:2889055 original size:5 final size:5
Alignment explanation
Indices: 2889045--2889128 Score: 63
Period size: 5 Copynumber: 16.8 Consensus size: 5
2889035 TATGTCTTTC
*
2889045 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AGAAAT AAAA- AAAGA-
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT A-AAAT AAAAT AAA-AT
2889090 AAAAT -AAAT AAAAT AAAAT -AAAT AAAAAT AAGAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AA-AAT AAAA
2889129 AGATAGGAGG
Statistics
Matches: 66, Mismatches: 2, Indels: 22
0.73 0.02 0.24
Matches are distributed among these distances:
3 3 0.05
4 12 0.18
5 29 0.44
6 22 0.33
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:2889079 original size:12 final size:12
Alignment explanation
Indices: 2889045--2889129 Score: 58
Period size: 12 Copynumber: 7.3 Consensus size: 12
2889035 TATGTCTTTC
2889045 AAAATA-AAATAA
1 AAAATAGAAAT-A
* *
2889057 TAAAATTGAAATG
1 -AAAATAGAAATA
2889070 AAAATAGAAATA
1 AAAATAGAAATA
*
2889082 AAAAAAGAAA-A
1 AAAATAGAAATA
2889093 ATAAATA-AAAT-
1 A-AAATAGAAATA
2889104 AAAAT--AAATA
1 AAAATAGAAATA
2889114 AAAATA-AGAATA
1 AAAATAGA-AATA
2889126 AAAA
1 AAAA
2889130 GATAGGAGGA
Statistics
Matches: 60, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
9 4 0.07
10 9 0.15
11 7 0.12
12 31 0.52
13 5 0.08
14 4 0.07
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (12 bp):
AAAATAGAAATA
Found at i:2889087 original size:14 final size:13
Alignment explanation
Indices: 2889045--2889129 Score: 62
Period size: 14 Copynumber: 5.8 Consensus size: 13
2889035 TATGTCTTTC
*
2889045 AAAATAAAATAAT
1 AAAATAAAAAAAT
2889058 AAAATTGAAATGAAAAT
1 AAAA-T-AAA--AAAAT
*
2889075 AGAAATAAAAAAAGA
1 A-AAATAAAAAAA-T
2889090 AAAATAAATAAAAT
1 AAAATAAA-AAAAT
2889104 AAAATAAATAAAAAT
1 AAAAT-AA-AAAAAT
2889119 AAGAATAAAAA
1 AA-AATAAAAA
2889130 GATAGGAGGA
Statistics
Matches: 59, Mismatches: 3, Indels: 19
0.73 0.04 0.23
Matches are distributed among these distances:
13 4 0.07
14 20 0.34
15 19 0.32
16 7 0.12
17 6 0.10
18 3 0.05
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:2889116 original size:24 final size:24
Alignment explanation
Indices: 2889071--2889120 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
2889061 ATTGAAATGA
2889071 AAATAGAAATAAAAAAAGAAAAAT
1 AAATAGAAATAAAAAAAGAAAAAT
*
2889095 AAATA-AAATAAAATAAATAAAAAT
1 AAATAGAAATAAAA-AAAGAAAAAT
2889119 AA
1 AA
2889121 GAATAAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (24 bp):
AAATAGAAATAAAAAAAGAAAAAT
Found at i:2889118 original size:44 final size:45
Alignment explanation
Indices: 2889045--2889129 Score: 113
Period size: 44 Copynumber: 1.9 Consensus size: 45
2889035 TATGTCTTTC
* *
2889045 AAAATAAAATAATAAAATTGAAATGAAAAT-AGAAATAAAAAAAGA
1 AAAATAAAAAAATAAAATTGAAATAAAAATAAG-AATAAAAAAAGA
2889090 AAAATAAATAAAATAAAA-T-AAATAAAAATAAGAATAAAAA
1 AAAATAAA-AAAATAAAATTGAAATAAAAATAAGAATAAAAA
2889130 GATAGGAGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
44 17 0.47
45 11 0.31
46 8 0.22
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (45 bp):
AAAATAAAAAAATAAAATTGAAATAAAAATAAGAATAAAAAAAGA
Found at i:2913075 original size:46 final size:47
Alignment explanation
Indices: 2913025--2913146 Score: 151
Period size: 46 Copynumber: 2.7 Consensus size: 47
2913015 CAAAGTGTCT
* * * *
2913025 TTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGTTATCA
1 TTCAACCATGGTCTTACTCATTTTCATATCACGTTGCCATGGTATCA
** *
2913071 TTCAACCATGGTCTTGTTCA-TTTCATATCACGTTGCCATGGTATCT
1 TTCAACCATGGTCTTACTCATTTTCATATCACGTTGCCATGGTATCA
*
2913117 TTCAACCATGGTCTTACACA-TTTCATATCA
1 TTCAACCATGGTCTTACTCATTTTCATATCA
2913147 GAGAGCACAC
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
45 4 0.06
46 61 0.94
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (47 bp):
TTCAACCATGGTCTTACTCATTTTCATATCACGTTGCCATGGTATCA
Found at i:2913290 original size:46 final size:46
Alignment explanation
Indices: 2913222--2913399 Score: 286
Period size: 46 Copynumber: 3.9 Consensus size: 46
2913212 ATATAAACTC
** * *
2913222 TTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCT
1 TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCT
*
2913268 TTCAACCATGGTCTTACACATTTCATATTATGTTGCCATGGTATCT
1 TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCT
2913314 TTCAACCATGGTC-TAGCACATTTCATATCATGTTGCCATGGTATCT
1 TTCAACCATGGTCTTA-CACATTTCATATCATGTTGCCATGGTATCT
*
2913360 TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
2913400 NNNNNNNNNN
Statistics
Matches: 123, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
45 2 0.02
46 119 0.97
47 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCT
Found at i:2922293 original size:5 final size:5
Alignment explanation
Indices: 2922283--2922307 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2922273 AATCAGTAAT
2922283 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
2922308 TAATTAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:2922761 original size:11 final size:11
Alignment explanation
Indices: 2922758--2922789 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
2922748 TATTTATTAC
2922758 TTATTACTTAT
1 TTATTACTTAT
2922769 TTATTACTTAT
1 TTATTACTTAT
*
2922780 GTATTACTTA
1 TTATTACTTA
2922790 CCAAAGTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.28, C:0.09, G:0.03, T:0.59
Consensus pattern (11 bp):
TTATTACTTAT
Found at i:2922768 original size:18 final size:18
Alignment explanation
Indices: 2922745--2922779 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2922735 AAAAATTTAA
2922745 ACTTATTTATTACTTATT
1 ACTTATTTATTACTTATT
2922763 ACTTATTTATTACTTAT
1 ACTTATTTATTACTTAT
2922780 GTATTACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (18 bp):
ACTTATTTATTACTTATT
Found at i:2924752 original size:15 final size:15
Alignment explanation
Indices: 2924709--2924755 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 15
2924699 CCCGGGGCCC
*
2924709 AAAACCAAAAACA-T
1 AAAACCAAAAAAATT
*
2924723 -AACCCAAAAACAATT
1 AAAACCAAAAA-AATT
2924738 AAAACCAAAAAAATT
1 AAAACCAAAAAAATT
2924753 AAA
1 AAA
2924756 CAGTCCACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 9 0.33
14 1 0.04
15 8 0.30
16 9 0.33
ACGTcount: A:0.70, C:0.19, G:0.00, T:0.11
Consensus pattern (15 bp):
AAAACCAAAAAAATT
Found at i:2927184 original size:19 final size:19
Alignment explanation
Indices: 2927148--2927184 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2927138 TAACTAGGCT
* *
2927148 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
2927167 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
2927185 AAAAAATGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:2927388 original size:15 final size:16
Alignment explanation
Indices: 2927360--2927389 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2927350 TTACGGTTTA
2927360 TATATTAGTTATTAAT
1 TATATTAGTTATTAAT
2927376 TATATTA-TTATTAA
1 TATATTAGTTATTAA
2927390 ATAAATTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TATATTAGTTATTAAT
Found at i:2927686 original size:31 final size:32
Alignment explanation
Indices: 2927637--2927700 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
2927627 ATATTAAACA
*
2927637 AGATATTTATTAATTAAATA-ATTATATTATG
1 AGATATTTATTAATTAAATATATTAAATTATG
*
2927668 AGATTTTTATGTAA-TAAATATATTAAATTATG
1 AGATATTTAT-TAATTAAATATATTAAATTATG
2927700 A
1 A
2927701 CAAATGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
AGATATTTATTAATTAAATATATTAAATTATG
Found at i:2927782 original size:141 final size:141
Alignment explanation
Indices: 2927495--2927809 Score: 309
Period size: 141 Copynumber: 2.2 Consensus size: 141
2927485 TTTAGAACAA
* * * *
2927495 AAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTGTTTAATAAAAAAATTAAATAATGA
1 AAGATATTTATTAATTAAATAATTATATTATGAGATTTTTATGTAATAAAAAAATTAAATAATGA
* * * * * * * * * *
2927560 CAATTGTAATAAATTTATTGGTACAAATGTGAAATATAAGTGTGTACAATTGTAATATTAGTATT
66 CAAATGTAATAAATTTAGTGGTACAAATGTAAAATAAAAATGTATACAAATGTAAAATAAATATT
*
2927625 TGATATTAAAC
131 TAATATTAAAC
* * *
2927636 AAGATATTTATTAATTAAATAATTATATTATGAGATTTTTATGTAATAAATATATTAAATTATGA
1 AAGATATTTATTAATTAAATAATTATATTATGAGATTTTTATGTAATAAAAAAATTAAATAATGA
* **
2927701 CAAATGTATGGTAAAATTT-GT-G-ACATGTGTAATAATAAAAATGTATACAAATGTAAAATAAA
66 CAAATGTA--AT-AAATTTAGTGGTACAAATGTAA-AATAAAAATGTATACAAATGTAAAATAAA
2927763 TA-TTAATTATTAAA-
127 TATTTAA-TATTAAAC
* *
2927777 TAGATATTTTATTAACTT-ATTATATTATATTAT
1 AAGATA-TTTATTAA-TTAAATA-ATTATATTAT
2927810 ATATATATAG
Statistics
Matches: 143, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
141 80 0.56
142 43 0.30
143 14 0.10
144 6 0.04
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.42
Consensus pattern (141 bp):
AAGATATTTATTAATTAAATAATTATATTATGAGATTTTTATGTAATAAAAAAATTAAATAATGA
CAAATGTAATAAATTTAGTGGTACAAATGTAAAATAAAAATGTATACAAATGTAAAATAAATATT
TAATATTAAAC
Found at i:2928646 original size:19 final size:15
Alignment explanation
Indices: 2928600--2928641 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
2928590 CGATGAATTT
2928600 ATTGAATTTATATTG
1 ATTGAATTTATATTG
2928615 ATTGAATTTATATTG
1 ATTGAATTTATATTG
2928630 ATTGAA-TTATAT
1 ATTGAATTTATAT
2928642 AATATATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 6 0.22
15 21 0.78
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:2929165 original size:23 final size:24
Alignment explanation
Indices: 2929126--2929170 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
2929116 GGATTTATAT
2929126 TATTCTGGGTGTATTTGGGTTGGA
1 TATTCTGGGTGTATTTGGGTTGGA
*
2929150 TATTCT-GGTGTGTTTGGGTTG
1 TATTCTGGGTGTATTTGGGTTG
2929171 AATCCGCGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.09, C:0.04, G:0.38, T:0.49
Consensus pattern (24 bp):
TATTCTGGGTGTATTTGGGTTGGA
Found at i:2930786 original size:52 final size:49
Alignment explanation
Indices: 2930711--2930918 Score: 190
Period size: 52 Copynumber: 4.2 Consensus size: 49
2930701 TGATGTAAAA
** *
2930711 GATGTGATATGTGCGCCCATATAAGACCATAGCTGGGCTATGGCATCGGT
1 GATGTGATATGTG-TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGT
* * * *
2930761 GCAATGTGATACGTGTTCCAGTATAAGACCATAGCTGGGTTATGACGTCGGTGT
1 G--ATGTGATATGTGTTCC-GTATAAGACCATAGCTGGGCTATGGCATC-G-GT
** *
2930815 GATGTGATAATGTGATTCCGTATAAGACCATATTTGGGATATGGCATCGGT
1 GATGTGAT-ATGTG-TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGT
* * * *
2930866 -A--TGATATGTGATCCGTATAAGACCATGGCAGGGCTATGGCTTCGGT
1 GATGTGATATGTGTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGT
2930912 G-TGTGAT
1 GATGTGAT
2930919 GTATGACAAT
Statistics
Matches: 128, Mismatches: 20, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
46 29 0.23
47 5 0.04
48 8 0.06
50 2 0.02
51 4 0.03
52 44 0.34
53 29 0.23
54 7 0.05
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.30
Consensus pattern (49 bp):
GATGTGATATGTGTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGT
Found at i:2930904 original size:46 final size:48
Alignment explanation
Indices: 2930730--2930911 Score: 120
Period size: 46 Copynumber: 3.6 Consensus size: 48
2930720 TGTGCGCCCA
* * *
2930730 TATAAGACCATAGCTGGGCTATGGCATCGGTGCAATG-TGATACGTG-TTCCAG
1 TATAAGACCATAGCAGGGATATGGCATCGGT---ATGAT-A-ATGTGATTCC-G
* * * *
2930782 TATAAGACCATAGCTGGGTTATGACGTCGGTGTGATGTGATAATGTGATTCCG
1 TATAAGACCATAGCAGGGATATGGCATC-G-GT-A--TGATAATGTGATTCCG
***
2930835 TATAAGACCATATTTGGGATATGGCATCGGTATGAT-ATGTGA-TCCG
1 TATAAGACCATAGCAGGGATATGGCATCGGTATGATAATGTGATTCCG
* * *
2930881 TATAAGACCATGGCAGGGCTATGGCTTCGGT
1 TATAAGACCATAGCAGGGATATGGCATCGGT
2930912 GTGTGATGTA
Statistics
Matches: 108, Mismatches: 16, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
46 29 0.27
47 6 0.06
48 4 0.04
50 1 0.01
51 2 0.02
52 27 0.25
53 29 0.27
54 9 0.08
55 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (48 bp):
TATAAGACCATAGCAGGGATATGGCATCGGTATGATAATGTGATTCCG
Found at i:2938175 original size:52 final size:53
Alignment explanation
Indices: 2938119--2938251 Score: 162
Period size: 52 Copynumber: 2.5 Consensus size: 53
2938109 TGTGCGCCCA
*
2938119 TATAAGACCATAGCTGGGCTATGGCATCGGTGCAACGTGAT-ACGTG-TTCCTG
1 TATAAGACCATAGCTGGGATATGGCATCGGTGCAACGTGATAACGTGATTCC-G
* * ** * *
2938171 TATAAGGCCATAGCTGGGTTATGGCATCGGTGTGATGTGATAATGTGATTCCG
1 TATAAGACCATAGCTGGGATATGGCATCGGTGCAACGTGATAACGTGATTCCG
**
2938224 TATAAGACCATATTTGGGATATGGCATC
1 TATAAGACCATAGCTGGGATATGGCATC
2938252 AGTATGATAT
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
52 36 0.52
53 29 0.42
54 4 0.06
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (53 bp):
TATAAGACCATAGCTGGGATATGGCATCGGTGCAACGTGATAACGTGATTCCG
Found at i:2940876 original size:60 final size:59
Alignment explanation
Indices: 2940810--2941079 Score: 344
Period size: 60 Copynumber: 4.4 Consensus size: 59
2940800 ATAATAAATA
*
2940810 AATAAATAAATAAATAGACAAAACAAATAATATTAAATTTAAGTATTTAAAATGTAAAAG
1 AATAAATAAATAAATAGATAAAACAAATAATATTAAATTTAAGTATTTAAAA-GTAAAAG
*
2940870 AATAAATAAATAAATAGATAAAACAAGTAATATTAAATTTAAGTATTTAAAAAGTAAAAG
1 AATAAATAAATAAATAGATAAAACAAATAATATTAAATTTAAGTATTT-AAAAGTAAAAG
* * *
2940930 AATGAATAAATAAATAGATAACACAAGTAATATTAAATTTAAGTATTTAAAAGTAAAAG
1 AATAAATAAATAAATAGATAAAACAAATAATATTAAATTTAAGTATTTAAAAGTAAAAG
* *
2940989 AATAAATAAATAAATAGATAAGACAAAAATATAAATAATATCAAATTTAAATATTTAAAAAAAGT
1 AATAAATAAATAAATAGAT-A-A-AACAA-AT-AAT-AT-T-AAATTTAAGTATTT---AAAAGT
2941054 AAAAG
55 AAAAG
*
2941059 AAT-AATAAATAAATAAATAAA
1 AATAAATAAATAAATAGATAAA
2941080 TAAATAGATA
Statistics
Matches: 188, Mismatches: 10, Indels: 18
0.87 0.05 0.08
Matches are distributed among these distances:
59 29 0.15
60 100 0.53
61 5 0.03
62 3 0.02
63 1 0.01
64 3 0.02
65 2 0.01
66 2 0.01
67 14 0.07
68 1 0.01
69 14 0.07
70 14 0.07
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (59 bp):
AATAAATAAATAAATAGATAAAACAAATAATATTAAATTTAAGTATTTAAAAGTAAAAG
Found at i:2940998 original size:4 final size:4
Alignment explanation
Indices: 2940989--2941091 Score: 59
Period size: 4 Copynumber: 24.5 Consensus size: 4
2940979 AAAGTAAAAG
* *
2940989 AATA AATA AATA AATA GATA AGACA AA-A ATATA AATA ATATCA AATTTA
1 AATA AATA AATA AATA AATA A-ATA AATA A-ATA AATA A-AT-A AA--TA
** *
2941038 AATA TTTA AAAA AAGTA AA-A GAAT- AATA AATA AATA AATA AATA AATA
1 AATA AATA AATA AA-TA AATA -AATA AATA AATA AATA AATA AATA AATA
*
2941086 GATA AA
1 AATA AA
2941092 ACTACTCATA
Statistics
Matches: 77, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
3 6 0.08
4 54 0.70
5 11 0.14
6 5 0.06
7 1 0.01
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:2946318 original size:44 final size:44
Alignment explanation
Indices: 2946267--2946805 Score: 198
Period size: 44 Copynumber: 11.6 Consensus size: 44
2946257 TCATTCTAAC
* * * *
2946267 CCACTGCAATTTTAGAGATATAAGATTTATCGCTTCAATTTGCT
1 CCACTGCAACTTTAGAGAGATAAGATTTATAGCTTCAATCTGCT
* * *
2946311 CCACTGCAACTTTAGGGAGATGAGATTTATAGCTTTAATCTGCT
1 CCACTGCAACTTTAGAGAGATAAGATTTATAGCTTCAATCTGCT
* * * * ** *
2946355 CCACTGCAACTTCAGGGAGATAAGACTTGTAATTTCAGTCTGCT
1 CCACTGCAACTTTAGAGAGATAAGATTTATAGCTTCAATCTGCT
* * * * * *
2946399 CCACTGCAACTTCAGGGAGATAAGGTTTGTAGCTTGTAACTTTAGTCTATT
1 CCACTGCAACTTTAGAGAGATAAGATTTATAGCTT-CAA-TCT-G-C---T
* * * * *
2946450 CCACTGCAACTTTAGGGAAATAAGACTTGTTATGGTAGATTTAATCTGAT
1 CCACTGCAACTTTAGAGAGATAAGA--T-TTA---TAGCTTCAATCTGCT
* * * * * *
2946500 CCACTGCAACTTCAGAG-GTATAGGATTTGTCGCTTCAATTTACT
1 CCACTGCAACTTTAGAGAG-ATAAGATTTATAGCTTCAATCTGCT
* * * * * * *
2946544 CCGCTGTAAGTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
1 CCACTGCAACTTTAGAGAGATAAGATTTATAGCTTCAATCTGCT
* *** * * *
2946588 CCACTACAACCCCAGGGAGATAAGATTTGTAGCTTCAATCTTTAATCTGTT
1 CCACTGCAACTTTAGAGAGATAAGATTTATAGC-T---TC---AATCTGCT
* * * * * *
2946639 CCATTCCAACTTTAGGGAAATAAGATTTGTAACTTGTAGCTTTAATCTGTT
1 CCACTGCAACTTTAGAGAGATAAGA-TT-T-A----TAGCTTCAATCTGCT
* * * ** * * * *
2946690 CCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTTAAACTACT
1 CCACTGCAACTTTAGAGAGATAAGATT-TATAGCTTCAATCTGCT
* * * * * * *
2946735 CCATTGTAACTTTAGGGAGATAAGATTTGTAACTTTAATTTGCT
1 CCACTGCAACTTTAGAGAGATAAGATTTATAGCTTCAATCTGCT
*
2946779 CCACTGCAACTTTAGGGAGATAAGATT
1 CCACTGCAACTTTAGAGAGATAAGATT
2946806 CGCCACGATG
Statistics
Matches: 379, Mismatches: 87, Indels: 58
0.72 0.17 0.11
Matches are distributed among these distances:
44 208 0.55
45 37 0.10
46 2 0.01
47 3 0.01
48 4 0.01
50 23 0.06
51 79 0.21
52 2 0.01
53 2 0.01
54 4 0.01
55 2 0.01
56 3 0.01
57 6 0.02
58 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (44 bp):
CCACTGCAACTTTAGAGAGATAAGATTTATAGCTTCAATCTGCT
Found at i:2946456 original size:51 final size:49
Alignment explanation
Indices: 2946380--2946805 Score: 200
Period size: 51 Copynumber: 8.9 Consensus size: 49
2946370 GGAGATAAGA
* *
2946380 CTTGTAATTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAG
1 CTTGTAATTT-AATCTG-TCCACTGCAACTTCAGGGAGATAAGATTTGTAG
* * * * *
2946431 CTTGTAACTTTAGTCTATTCCACTGCAACTTTAGGGAAATAAGACTTGTTA-
1 CTTGTAA-TTTAATCT-GTCCACTGCAACTTCAGGGAGATAAGATTTG-TAG
* * * *
2946482 -TGGTAGATTTAATCTGATCCACTGCAACTTCAGAGG-TATAGGATTTGTCG
1 CTTGTA-ATTTAATCTG-TCCACTGCAACTTCAG-GGAGATAAGATTTGTAG
* * * *
2946532 CTT-CAATTT-A-C--TCCGCTGTAAGTTCAGGGAGATAAGATTTGTA-
1 CTTGTAATTTAATCTGTCCACTGCAACTTCAGGGAGATAAGATTTGTAG
* * * **
2946575 -----ACTTCAATCTGCTCCACTACAACCCCAGGGAGATAAGATTTGTAG
1 CTTGTAATTTAATCTG-TCCACTGCAACTTCAGGGAGATAAGATTTGTAG
* * * * * *
2946620 CTT-CAATCTTTAATCTGTTCCATTCCAACTTTAGGGAAATAAGATTTGTAA
1 CTTGTAA--TTTAATCTG-TCCACTGCAACTTCAGGGAGATAAGATTTGTAG
* * * *
2946671 CTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTAT
1 CTTGTA-ATTTAATCTG-TCCACTGCAACTTCAGGGAGATAAGATTTG-TAG
** * * * *
2946723 CTT-TAAACT-A-C--TCCATTGTAACTTTAGGGAGATAAGATTTGTAA
1 CTTGTAATTTAATCTGTCCACTGCAACTTCAGGGAGATAAGATTTGTAG
* *
2946767 CTT-TAATTT--GC--TCCACTGCAACTTTAGGGAGATAAGATT
1 CTTGTAATTTAATCTGTCCACTGCAACTTCAGGGAGATAAGATT
2946806 CGCCACGATG
Statistics
Matches: 291, Mismatches: 59, Indels: 57
0.71 0.14 0.14
Matches are distributed among these distances:
39 3 0.01
40 1 0.00
41 1 0.00
43 2 0.01
44 85 0.29
45 25 0.09
47 1 0.00
48 2 0.01
49 7 0.02
50 36 0.12
51 117 0.40
52 11 0.04
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (49 bp):
CTTGTAATTTAATCTGTCCACTGCAACTTCAGGGAGATAAGATTTGTAG
Found at i:2946651 original size:189 final size:191
Alignment explanation
Indices: 2946310--2946805 Score: 570
Period size: 189 Copynumber: 2.6 Consensus size: 191
2946300 TTCAATTTGC
* * * ** * * * *
2946310 TCCACTGCAACTTTAGGGAGATGAGATT-TATAGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCTAGCTTCAAACTACTCCACTGTAACTTCAGGGAG
* * * * *
2946374 ATAAGACTTGTAATTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAGCTTGTAAC
66 ATAAGATTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTGCAAC
* * *
2946439 TTTAGTCTATTCCACTGCAACTTTAGGGAAATAAGACTTGTTA-TGGTAGATTTAATCTGA
131 TTTAATCTATTCCACTCCAACTTTAGGGAAATAAGACTTGTAACTGGTAGATTTAATCTGA
* * * * ** * *
2946499 TCCACTGCAACTTCAGAGG-TATAGGATTTG-TCGCTTCAATTTACTCCGCTGTAAGTTCAGGGA
1 TCCACTGCAACTTCAG-GGAAATAAGATTCGCTAGCTTCAAACTACTCCACTGTAACTTCAGGGA
* **
2946562 GATAAGATTTGTAACTTCAATCTGCTCCACTACAACCCCAGGGAGATAAGATTTGTAGCTT-CAA
65 GATAAGATTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTGCAA
* * * * * *
2946626 TCTTTAATCTGTTCCATTCCAACTTTAGGGAAATAAGATTTGTAACTTGTAGCTTTAATCTGT
130 -CTTTAATCTATTCCACTCCAACTTTAGGGAAATAAGACTTGTAACTGGTAGATTTAATCTGA
* * * *
2946689 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTTAAACTACTCCATTGTAACTTTAGGGAG
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCTAGCTTCAAACTACTCCACTGTAACTTCAGGGAG
* * *
2946754 ATAAGATTTGTAACTTTAATTTGCTCCACTGCAACTTTAGGGAGATAAGATT
66 ATAAGATTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
2946806 CGCCACGATG
Statistics
Matches: 254, Mismatches: 47, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
188 2 0.01
189 141 0.56
190 40 0.16
191 71 0.28
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (191 bp):
TCCACTGCAACTTCAGGGAAATAAGATTCGCTAGCTTCAAACTACTCCACTGTAACTTCAGGGAG
ATAAGATTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTGCAAC
TTTAATCTATTCCACTCCAACTTTAGGGAAATAAGACTTGTAACTGGTAGATTTAATCTGA
Found at i:2950923 original size:16 final size:16
Alignment explanation
Indices: 2950910--2950940 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2950900 TCTTTTAACC
*
2950910 TTTTTAAGTTTTAAAA
1 TTTTTAAATTTTAAAA
2950926 TTTTTAAATTTTAAA
1 TTTTTAAATTTTAAA
2950941 TTTAATATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TTTTTAAATTTTAAAA
Found at i:2951156 original size:14 final size:14
Alignment explanation
Indices: 2951137--2951164 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2951127 AATAAAGTTA
2951137 AATAATTATAATAT
1 AATAATTATAATAT
2951151 AATAATTATAATAT
1 AATAATTATAATAT
2951165 CCAAAATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATAATTATAATAT
Found at i:2954185 original size:26 final size:26
Alignment explanation
Indices: 2954155--2954262 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
2954145 TGATACAAAT
2954155 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
2954181 CGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
2954207 TAATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
2954233 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2954259 TGAT
1 TGAT
2954263 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:2958448 original size:14 final size:14
Alignment explanation
Indices: 2958429--2958457 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2958419 TTTTTCCGTT
2958429 GTGTCTCATTAGAG
1 GTGTCTCATTAGAG
2958443 GTGTCTCATTAGAG
1 GTGTCTCATTAGAG
2958457 G
1 G
2958458 GGATAATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.31, T:0.34
Consensus pattern (14 bp):
GTGTCTCATTAGAG
Found at i:2962051 original size:22 final size:22
Alignment explanation
Indices: 2962025--2962068 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2962015 TAAGAATGTA
2962025 GTAAATAATACTTTTATAATAT
1 GTAAATAATACTTTTATAATAT
* **
2962047 GTAAATTATTTTTTTATAATAT
1 GTAAATAATACTTTTATAATAT
2962069 TATTTTTTGT
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:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (22 bp):
GTAAATAATACTTTTATAATAT
Found at i:2965829 original size:20 final size:20
Alignment explanation
Indices: 2965806--2965851 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
2965796 TAAACTGCAA
* *
2965806 TTCATTCATATAACCAGTAG
1 TTCATCCATATAAACAGTAG
*
2965826 TTCATCCGTATAAACAGTAG
1 TTCATCCATATAAACAGTAG
2965846 TTCATC
1 TTCATC
2965852 AGTAATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.35
Consensus pattern (20 bp):
TTCATCCATATAAACAGTAG
Found at i:2965864 original size:20 final size:20
Alignment explanation
Indices: 2965814--2965855 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
2965804 AATTCATTCA
* *
2965814 TATAACCAGTAGTTCATCCG
1 TATAAACAGTAGTTCATCAG
2965834 TATAAACAGTAGTTCATCAG
1 TATAAACAGTAGTTCATCAG
2965854 TA
1 TA
2965856 ATAATAGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (20 bp):
TATAAACAGTAGTTCATCAG
Found at i:2966099 original size:23 final size:23
Alignment explanation
Indices: 2966068--2966139 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
2966058 CTGAGTTGAT
* *
2966068 AAACAGTAAGCTCTAACGAGTTG
1 AAACGGTAAGCTCTAACGAGCTG
*
2966091 AAACGGTAAGCTCTAATGAGCTG
1 AAACGGTAAGCTCTAACGAGCTG
* *
2966114 AAACGGTAAGCTCTAATGACCTG
1 AAACGGTAAGCTCTAACGAGCTG
2966137 AAA
1 AAA
2966140 ATAGTAAACT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.21
Consensus pattern (23 bp):
AAACGGTAAGCTCTAACGAGCTG
Found at i:2972121 original size:12 final size:12
Alignment explanation
Indices: 2972104--2972128 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2972094 GGAAAACCAT
2972104 AACAAGAACAAA
1 AACAAGAACAAA
2972116 AACAAGAACAAA
1 AACAAGAACAAA
2972128 A
1 A
2972129 TTAAAATCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.16, G:0.08, T:0.00
Consensus pattern (12 bp):
AACAAGAACAAA
Found at i:2977130 original size:21 final size:21
Alignment explanation
Indices: 2977086--2977125 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
2977076 TAATAGTCTT
2977086 AATAATTTTA-AATTTTTTAA
1 AATAATTTTATAATTTTTTAA
2977106 AATAACTTTTATAATTTTTT
1 AATAA-TTTTATAATTTTTT
2977126 GAATATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 5 0.28
22 8 0.44
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
AATAATTTTATAATTTTTTAA
Found at i:2977605 original size:14 final size:14
Alignment explanation
Indices: 2977569--2977611 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
2977559 TTATTTTTTA
*
2977569 TTTATTTTATCTCTC
1 TTTATTTT-TCTTTC
2977584 TTTATTTTTCTTTC
1 TTTATTTTTCTTTC
* *
2977598 TTTTTTTTTTTTTC
1 TTTATTTTTCTTTC
2977612 AAGCTCAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTATTTTTCTTTC
Found at i:2978518 original size:24 final size:23
Alignment explanation
Indices: 2978477--2978529 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
2978467 GTATACTTTG
2978477 TATTTTTTCAATTAAACTCTG-T
1 TATTTTTTCAATTAAACTCTGAT
*
2978499 TATTATTTCTCAATTGAACTCTGAT
1 TATT-TTT-TCAATTAAACTCTGAT
2978524 TATTTT
1 TATTTT
2978530 AAAAATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 4 0.15
23 3 0.11
24 15 0.56
25 5 0.19
ACGTcount: A:0.26, C:0.13, G:0.06, T:0.55
Consensus pattern (23 bp):
TATTTTTTCAATTAAACTCTGAT
Found at i:2979636 original size:16 final size:15
Alignment explanation
Indices: 2979615--2979645 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
2979605 ACATATTTAA
2979615 TTTTTTTATTCTTATT
1 TTTTTTTATT-TTATT
2979631 TTTTTTTATTTTATT
1 TTTTTTTATTTTATT
2979646 CGTTATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTTATTTTATT
Found at i:2981550 original size:31 final size:32
Alignment explanation
Indices: 2981509--2981574 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 32
2981499 TTTAAATTAA
*
2981509 TTAATTAGATA-AATATTATTTTATTAATATT
1 TTAATGAGATATAATATTATTTTATTAATATT
* *
2981540 TTAATGAGATATTTATTATTATTTTATTATTATT
1 TTAATGAGATA--TAATATTATTTTATTAATATT
2981574 T
1 T
2981575 ATTTAGTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 10 0.34
34 19 0.66
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (32 bp):
TTAATGAGATATAATATTATTTTATTAATATT
Found at i:2983749 original size:46 final size:46
Alignment explanation
Indices: 2983691--2984102 Score: 628
Period size: 46 Copynumber: 9.0 Consensus size: 46
2983681 AGTGTGCTCT
* *
2983691 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCGTGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
2983737 ATGATATGAAATGTGAAAGACCATGGTTGGAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
2983783 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
2983829 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
2983875 ATGATATGGAATGTGCAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
2983921 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
2983967 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
2984013 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
2984059 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
2984103 TCATGTCAAA
Statistics
Matches: 336, Mismatches: 29, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
45 1 0.00
46 335 1.00
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:2988307 original size:6 final size:6
Alignment explanation
Indices: 2988298--2988330 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
2988288 AATAAAATTG
*
2988298 AAATGA AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAA
2988331 GATAAGAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:2989869 original size:19 final size:19
Alignment explanation
Indices: 2989845--2989887 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 19
2989835 GCTGCTGTAG
2989845 GGTGGC-GCACGGGCGTGTT
1 GGTGGCAGCACGGGCGTG-T
2989864 GGTGGCGAGCACGGGCGTGT
1 GGTGGC-AGCACGGGCGTGT
2989884 GGTG
1 GGTG
2989888 CCGGTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.27
20 5 0.23
21 11 0.50
ACGTcount: A:0.07, C:0.19, G:0.56, T:0.19
Consensus pattern (19 bp):
GGTGGCAGCACGGGCGTGT
Found at i:2992604 original size:5 final size:5
Alignment explanation
Indices: 2992594--2992654 Score: 113
Period size: 5 Copynumber: 12.0 Consensus size: 5
2992584 AATAATTAAG
2992594 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
2992644 TATTAT TATAT
1 TA-TAT TATAT
2992655 ATAAAAGAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 50 0.91
6 5 0.09
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:2993784 original size:6 final size:6
Alignment explanation
Indices: 2993773--2993797 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2993763 CTGTGTACCG
2993773 TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT T
2993798 CTGGCTTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:2994553 original size:3 final size:3
Alignment explanation
Indices: 2994526--2994584 Score: 88
Period size: 3 Copynumber: 20.3 Consensus size: 3
2994516 ATAAAAAAGA
2994526 AAT AA- AAT AA- AAT AA- AAT AAAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
2994569 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
2994585 TTGGAATACT
Statistics
Matches: 52, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
2 6 0.12
3 43 0.83
4 3 0.06
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:2996103 original size:15 final size:15
Alignment explanation
Indices: 2996083--2996112 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2996073 AATCCAAAGA
2996083 CTTATCCCTCATCTG
1 CTTATCCCTCATCTG
*
2996098 CTTATCCCTGATCTG
1 CTTATCCCTCATCTG
2996113 ATCGATCTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.37, G:0.10, T:0.40
Consensus pattern (15 bp):
CTTATCCCTCATCTG
Found at i:3021529 original size:21 final size:22
Alignment explanation
Indices: 3021492--3021534 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
3021482 TAAATTGGAC
*
3021492 TAAATTGAGTATGAA-TTACTT
1 TAAATTGAGTATAAATTTACTT
3021513 TAAATTGATGT-TAAATTTACTT
1 TAAATTGA-GTATAAATTTACTT
3021535 GTACAGATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.47
Consensus pattern (22 bp):
TAAATTGAGTATAAATTTACTT
Found at i:3024900 original size:10 final size:10
Alignment explanation
Indices: 3024885--3024909 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
3024875 GTTGATTGGC
3024885 TGATTGACTG
1 TGATTGACTG
3024895 TGATTGACTG
1 TGATTGACTG
3024905 TGATT
1 TGATT
3024910 CCTTTGCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.08, G:0.28, T:0.44
Consensus pattern (10 bp):
TGATTGACTG
Found at i:3025432 original size:25 final size:25
Alignment explanation
Indices: 3025404--3025465 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
3025394 GCTGAAGCTC
*
3025404 TAGTTGCATTTCAAGAGGTATTCTA
1 TAGTTGCAATTCAAGAGGTATTCTA
*
3025429 TAGTTGCAATTCAAGAGGTATTTTA
1 TAGTTGCAATTCAAGAGGTATTCTA
*
3025454 TAGTTGTAATTC
1 TAGTTGCAATTC
3025466 CAGTAAATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (25 bp):
TAGTTGCAATTCAAGAGGTATTCTA
Found at i:3025709 original size:32 final size:32
Alignment explanation
Indices: 3025668--3025730 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
3025658 TCTTGCACTA
3025668 GTGTATATTCATATACAACGCATTAATTAAAT
1 GTGTATATTCATATACAACGCATTAATTAAAT
3025700 GTGTATATTCATATACAACGCATTAATTAAA
1 GTGTATATTCATATACAACGCATTAATTAAA
3025731 AATATTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.37
Consensus pattern (32 bp):
GTGTATATTCATATACAACGCATTAATTAAAT
Found at i:3025748 original size:24 final size:26
Alignment explanation
Indices: 3025724--3025773 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
3025714 ACAACGCATT
3025724 AATTAAAAATATT-TTTAAATAATTAA
1 AATTAAAAATATTATTTAAATAATT-A
*
3025750 AATTAAAAATATTATTTTAATAAT
1 AATTAAAAATATTATTTAAATAAT
3025774 ATTACATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
AATTAAAAATATTATTTAAATAATTA
Found at i:3026012 original size:56 final size:56
Alignment explanation
Indices: 3025947--3026061 Score: 212
Period size: 56 Copynumber: 2.1 Consensus size: 56
3025937 AACTTGATTA
* *
3025947 AAAAACAAATATTCATTGTTATTATGATTGAAAGTGCTTGTAAAAATTGTTTAAAG
1 AAAAACAAATATTCATTGTTATTATGATTGAAAGTGCTTCTAAAAATTCTTTAAAG
3026003 AAAAACAAATATTCATTGTTATTATGATTGAAAGTGCTTCTAAAAATTCTTTAAAG
1 AAAAACAAATATTCATTGTTATTATGATTGAAAGTGCTTCTAAAAATTCTTTAAAG
3026059 AAA
1 AAA
3026062 TATGTAATTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (56 bp):
AAAAACAAATATTCATTGTTATTATGATTGAAAGTGCTTCTAAAAATTCTTTAAAG
Found at i:3026224 original size:49 final size:49
Alignment explanation
Indices: 3026169--3026272 Score: 154
Period size: 49 Copynumber: 2.1 Consensus size: 49
3026159 TCATGTGCTA
* * ** *
3026169 TAATTTTATACAGTGTTGAGTTTTTGATTCATGATATTGAACTCAATTT
1 TAATTTTATAAAGTGTTCACATTTTGATTCATGATATTAAACTCAATTT
*
3026218 TAATTTTATAAAGTGTTCACATTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACATTTTGATTCATGATATTAAACTCAATTT
3026267 TAATTT
1 TAATTT
3026273 GATTTTTTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACATTTTGATTCATGATATTAAACTCAATTT
Found at i:3027781 original size:26 final size:26
Alignment explanation
Indices: 3027739--3027790 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3027729 TTCATATAAG
3027739 AATAAGAATTTTATTAAATTATATTT
1 AATAAGAATTTTATTAAATTATATTT
3027765 AATAAGAATTATT-TTAAATTATATTT
1 AATAAGAATT-TTATTAAATTATATTT
3027791 TATAGTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (26 bp):
AATAAGAATTTTATTAAATTATATTT
Found at i:3029064 original size:24 final size:24
Alignment explanation
Indices: 3029031--3029134 Score: 65
Period size: 24 Copynumber: 4.4 Consensus size: 24
3029021 AAAAAATATA
*
3029031 TTTAATTTTAAATCTAATATTATT
1 TTTAAATTTAAATCTAATATTATT
** * *
3029055 TTTATGTTT-AAGCTTAACATTATT
1 TTTAAATTTAAATC-TAATATTATT
*
3029079 TTTAAATTTATCATC-AATATTA-T
1 TTTAAATTTA-AATCTAATATTATT
* * *
3029102 TTT-AATTTGTAATATATTATTA-T
1 TTTAAATTT-AAATCTAATATTATT
3029125 TTTAAATTTA
1 TTTAAATTTA
3029135 TCATTAACAT
Statistics
Matches: 60, Mismatches: 14, Indels: 13
0.69 0.16 0.15
Matches are distributed among these distances:
22 7 0.12
23 17 0.28
24 34 0.57
26 2 0.03
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.57
Consensus pattern (24 bp):
TTTAAATTTAAATCTAATATTATT
Found at i:3029136 original size:46 final size:46
Alignment explanation
Indices: 3029073--3029219 Score: 152
Period size: 46 Copynumber: 3.1 Consensus size: 46
3029063 TAAGCTTAAC
* * *
3029073 ATTATTTTTAAATTTATCATCAATATTATTTTAATTTGTAATATATT
1 ATTA-TTTTAAATTTATCATTAATATTATTTTAATTTATAATGTATT
* * *
3029120 ATTATTTTAAATTTATCATTAACATTATTTAAATTTATCATGTATTT
1 ATTATTTTAAATTTATCATTAATATTATTTTAATTTATAATGTA-TT
* * * * *
3029167 GTTA-TTTAAATTCATCATGTATTATTATTTTAAGTTTTTTATGTATT
1 ATTATTTTAAATTTATCAT-TAATATTATTTTAA-TTTATAATGTATT
3029214 ATTATT
1 ATTATT
3029220 CTAAGTTTTT
Statistics
Matches: 82, Mismatches: 14, Indels: 7
0.80 0.14 0.07
Matches are distributed among these distances:
46 47 0.57
47 25 0.30
48 10 0.12
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (46 bp):
ATTATTTTAAATTTATCATTAATATTATTTTAATTTATAATGTATT
Found at i:3029153 original size:22 final size:23
Alignment explanation
Indices: 3029068--3029160 Score: 100
Period size: 22 Copynumber: 4.0 Consensus size: 23
3029058 ATGTTTAAGC
3029068 TTAACATTATTTTTAAATTTATCA
1 TTAACATTA-TTTTAAATTTATCA
* * * *
3029092 TCAATATTATTTT-AATTTGTAA
1 TTAACATTATTTTAAATTTATCA
**
3029114 TATATTATTATTTTAAATTTATCA
1 T-TAACATTATTTTAAATTTATCA
3029138 TTAACATTA-TTTAAATTTATCA
1 TTAACATTATTTTAAATTTATCA
3029160 T
1 T
3029161 GTATTTGTTA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
22 22 0.39
23 20 0.35
24 15 0.26
ACGTcount: A:0.38, C:0.06, G:0.01, T:0.55
Consensus pattern (23 bp):
TTAACATTATTTTAAATTTATCA
Found at i:3029172 original size:70 final size:69
Alignment explanation
Indices: 3029068--3029199 Score: 158
Period size: 70 Copynumber: 1.9 Consensus size: 69
3029058 ATGTTTAAGC
* **
3029068 TTAACATTATTTTTAAATTTATCATCAATATTATTTTAATTTGTAATATATTATTATTTTAAATT
1 TTAACATTA-TTTTAAATTTATCATCAATATTATTTAAATTCATAATATATTATTATTTTAAATT
3029133 TATCA
65 TATCA
* * * * *
3029138 TTAACATTA-TTTAAATTTATCATGTATTTGTTATTTAAATTCATCATGTATTATTATTTTAA
1 TTAACATTATTTTAAATTTATCAT-CA-ATATTATTTAAATTCATAATATATTATTATTTTAA
3029200 GTTTTTTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
68 14 0.27
69 1 0.02
70 37 0.71
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (69 bp):
TTAACATTATTTTAAATTTATCATCAATATTATTTAAATTCATAATATATTATTATTTTAAATTT
ATCA
Found at i:3029198 original size:24 final size:24
Alignment explanation
Indices: 3029073--3029278 Score: 143
Period size: 24 Copynumber: 8.4 Consensus size: 24
3029063 TAAGCTTAAC
* *
3029073 ATTATTTTTAAATTTATCAT-CAAT
1 ATTA-TTTTAAATTTATCATGTATT
* * *
3029097 ATTATTTT-AATTTGTAATATATT
1 ATTATTTTAAATTTATCATGTATT
**
3029120 ATTATTTTAAATTTATCAT-TAAC
1 ATTATTTTAAATTTATCATGTATT
3029143 ATTA-TTTAAATTTATCATGTATTT
1 ATTATTTTAAATTTATCATGTA-TT
* *
3029167 GTTA-TTTAAATTCATCATGTATT
1 ATTATTTTAAATTTATCATGTATT
* * *
3029190 ATTATTTTAAGTTTTTTATGTATT
1 ATTATTTTAAATTTATCATGTATT
* * *
3029214 ATTATTCTAAGTTTTTCATGTATAATT
1 ATTATTTTAAATTTATCATG--T-ATT
* *
3029241 ACTTTTTTTTTAAAATTTATCATATATT
1 A---TTATTTT-AAATTTATCATGTATT
3029269 ATTATTTTAA
1 ATTATTTTAA
3029279 TTTCCATCTA
Statistics
Matches: 145, Mismatches: 25, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
22 22 0.15
23 27 0.19
24 66 0.46
25 6 0.04
26 1 0.01
27 4 0.03
28 4 0.03
29 1 0.01
30 5 0.03
31 9 0.06
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (24 bp):
ATTATTTTAAATTTATCATGTATT
Found at i:3029704 original size:25 final size:25
Alignment explanation
Indices: 3029653--3029704 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
3029643 TTTTCATTCC
* *
3029653 ATATTTATTATTTATTTAGATTAAT
1 ATATATATTATTTATGTAGATTAAT
*
3029678 ATATATATTATTT-TGTATATTACAT
1 ATATATATTATTTATGTAGATTA-AT
3029703 AT
1 AT
3029705 TTTGATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (25 bp):
ATATATATTATTTATGTAGATTAAT
Found at i:3031229 original size:23 final size:22
Alignment explanation
Indices: 3031202--3031247 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
3031192 AAACATAAGG
*
3031202 TCAATAGT-TATAATAATACAAAA
1 TCAATAATATATAA-AATA-AAAA
3031225 TCAATAATATATAAAATAAAAA
1 TCAATAATATATAAAATAAAAA
3031247 T
1 T
3031248 AGTTTAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 11 0.52
24 5 0.24
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (22 bp):
TCAATAATATATAAAATAAAAA
Found at i:3031532 original size:26 final size:26
Alignment explanation
Indices: 3031502--3031554 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
3031492 TCAAGTGAAG
3031502 TTGATGGAAAATAGGTTAGAAAATTC
1 TTGATGGAAAATAGGTTAGAAAATTC
3031528 TTGATGGAAAATAGGTTAGAAAATTC
1 TTGATGGAAAATAGGTTAGAAAATTC
3031554 T
1 T
3031555 ACTTGTCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.04, G:0.23, T:0.32
Consensus pattern (26 bp):
TTGATGGAAAATAGGTTAGAAAATTC
Found at i:3035397 original size:343 final size:343
Alignment explanation
Indices: 3034771--3035456 Score: 1372
Period size: 343 Copynumber: 2.0 Consensus size: 343
3034761 CGACCCTACC
3034771 CCAAAGACCTGTCAATGTTGTTAAAATTGAAATATTTATCTTGTTGGGGAAGACCACCGGTAGAA
1 CCAAAGACCTGTCAATGTTGTTAAAATTGAAATATTTATCTTGTTGGGGAAGACCACCGGTAGAA
3034836 AAGTAAGTTAATGCTAAAGTGATATGTAACTCCAAAAACCAAATTTAATGTCTATTTTGTTCATT
66 AAGTAAGTTAATGCTAAAGTGATATGTAACTCCAAAAACCAAATTTAATGTCTATTTTGTTCATT
3034901 TGAGTTTTCAACACACAAAAAGCAAGATCCTAGAAGGAGCGTAAGAGAAGTGGTGGAGAGAACTC
131 TGAGTTTTCAACACACAAAAAGCAAGATCCTAGAAGGAGCGTAAGAGAAGTGGTGGAGAGAACTC
3034966 GTCAAAGCTAACAATCTCTAAAAAGATCTTTCTCAACAATTTTTTTAATTTCTTAATTGATGAAA
196 GTCAAAGCTAACAATCTCTAAAAAGATCTTTCTCAACAATTTTTTTAATTTCTTAATTGATGAAA
3035031 ACAAATTTAGGTATTTCCCAATTTGTAAAAACATGATTTTTTTTTCATTTTTGTATTTTTAGGTT
261 ACAAATTTAGGTATTTCCCAATTTGTAAAAACATGATTTTTTTTTCATTTTTGTATTTTTAGGTT
3035096 TTTCTTAGCTTTTTTTAA
326 TTTCTTAGCTTTTTTTAA
3035114 CCAAAGACCTGTCAATGTTGTTAAAATTGAAATATTTATCTTGTTGGGGAAGACCACCGGTAGAA
1 CCAAAGACCTGTCAATGTTGTTAAAATTGAAATATTTATCTTGTTGGGGAAGACCACCGGTAGAA
3035179 AAGTAAGTTAATGCTAAAGTGATATGTAACTCCAAAAACCAAATTTAATGTCTATTTTGTTCATT
66 AAGTAAGTTAATGCTAAAGTGATATGTAACTCCAAAAACCAAATTTAATGTCTATTTTGTTCATT
3035244 TGAGTTTTCAACACACAAAAAGCAAGATCCTAGAAGGAGCGTAAGAGAAGTGGTGGAGAGAACTC
131 TGAGTTTTCAACACACAAAAAGCAAGATCCTAGAAGGAGCGTAAGAGAAGTGGTGGAGAGAACTC
3035309 GTCAAAGCTAACAATCTCTAAAAAGATCTTTCTCAACAATTTTTTTAATTTCTTAATTGATGAAA
196 GTCAAAGCTAACAATCTCTAAAAAGATCTTTCTCAACAATTTTTTTAATTTCTTAATTGATGAAA
3035374 ACAAATTTAGGTATTTCCCAATTTGTAAAAACATGATTTTTTTTTCATTTTTGTATTTTTAGGTT
261 ACAAATTTAGGTATTTCCCAATTTGTAAAAACATGATTTTTTTTTCATTTTTGTATTTTTAGGTT
3035439 TTTCTTAGCTTTTTTTAA
326 TTTCTTAGCTTTTTTTAA
3035457 AATATTATTT
Statistics
Matches: 343, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
343 343 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.36
Consensus pattern (343 bp):
CCAAAGACCTGTCAATGTTGTTAAAATTGAAATATTTATCTTGTTGGGGAAGACCACCGGTAGAA
AAGTAAGTTAATGCTAAAGTGATATGTAACTCCAAAAACCAAATTTAATGTCTATTTTGTTCATT
TGAGTTTTCAACACACAAAAAGCAAGATCCTAGAAGGAGCGTAAGAGAAGTGGTGGAGAGAACTC
GTCAAAGCTAACAATCTCTAAAAAGATCTTTCTCAACAATTTTTTTAATTTCTTAATTGATGAAA
ACAAATTTAGGTATTTCCCAATTTGTAAAAACATGATTTTTTTTTCATTTTTGTATTTTTAGGTT
TTTCTTAGCTTTTTTTAA
Found at i:3040931 original size:17 final size:19
Alignment explanation
Indices: 3040903--3040940 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
3040893 CTAAAAAGTT
3040903 TTTAGTTTTGGGCT-AGGG
1 TTTAGTTTTGGGCTGAGGG
3040921 TTTAG-TTTGGGCTGAGGG
1 TTTAGTTTTGGGCTGAGGG
3040939 TT
1 TT
3040941 AATTTTGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.11, C:0.05, G:0.39, T:0.45
Consensus pattern (19 bp):
TTTAGTTTTGGGCTGAGGG
Found at i:3040947 original size:18 final size:17
Alignment explanation
Indices: 3040908--3040947 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
3040898 AAGTTTTTAG
*
3040908 TTTTGGGCTAGGGTTTA
1 TTTTGGGCTAGGGTTAA
*
3040925 GTTTGGGCTGAGGGTTAA
1 TTTTGGGCT-AGGGTTAA
3040943 TTTTG
1 TTTTG
3040948 CATTTGGGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.12, C:0.05, G:0.38, T:0.45
Consensus pattern (17 bp):
TTTTGGGCTAGGGTTAA
Found at i:3043972 original size:17 final size:17
Alignment explanation
Indices: 3043950--3043983 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
3043940 TTATCACATT
3043950 ATAGTACGATAATGTGG
1 ATAGTACGATAATGTGG
3043967 ATAGTACGATAATGTGG
1 ATAGTACGATAATGTGG
3043984 CATGCCACAT
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:0.35, C:0.06, G:0.29, T:0.29
Consensus pattern (17 bp):
ATAGTACGATAATGTGG
Done.