Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 319 of 362
Found at i:106352459 original size:40 final size:40
Alignment explanation
Indices: 106352368--106352463 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
106352358 ATAATACCTC
* * * * *
106352368 AAAGTGGATAGGATTTGTTCTTGATTCACTATGGTAATTT
1 AAAGTGGATAGGATTTATTCCTGATTCACTACGGAAACTT
* *
106352408 AAAGTGAATAGGATTTATTCCTGATTCACTGCGGAAACTT
1 AAAGTGGATAGGATTTATTCCTGATTCACTACGGAAACTT
*
106352448 AAGGTGGATAGGATTT
1 AAAGTGGATAGGATTT
106352464 GACCTGAAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.36
Consensus pattern (40 bp):
AAAGTGGATAGGATTTATTCCTGATTCACTACGGAAACTT
Found at i:106352620 original size:36 final size:36
Alignment explanation
Indices: 106352573--106352645 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
106352563 TTCACTACAG
*
106352573 TTACATGAGATGTGACTCGAGAGAGTGCTTGATGAT
1 TTACATAAGATGTGACTCGAGAGAGTGCTTGATGAT
106352609 TTACATAAGATGTGACTCGAGAGAGTGCTTGATGAT
1 TTACATAAGATGTGACTCGAGAGAGTGCTTGATGAT
106352645 T
1 T
106352646 AAACATCCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.29, C:0.11, G:0.29, T:0.32
Consensus pattern (36 bp):
TTACATAAGATGTGACTCGAGAGAGTGCTTGATGAT
Found at i:106370068 original size:68 final size:68
Alignment explanation
Indices: 106369992--106370127 Score: 254
Period size: 68 Copynumber: 2.0 Consensus size: 68
106369982 GGGGAAGAAA
*
106369992 TCCCGGTTGAATAAAAGGAAATTTCGATGGATCTCTGAAAAGAAATTGACGGTAAAAAGGATCTA
1 TCCCGGTTGAATAAAAGGAAATTTCGATGGATCTCTAAAAAGAAATTGACGGTAAAAAGGATCTA
106370057 GCC
66 GCC
*
106370060 TCCCGGTTGAATAAAAGGAAATTTCGATGGATCTCTAAAAAGGAATTGACGGTAAAAAGGATCTA
1 TCCCGGTTGAATAAAAGGAAATTTCGATGGATCTCTAAAAAGAAATTGACGGTAAAAAGGATCTA
106370125 GCC
66 GCC
106370128 CAGACGGGTG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (68 bp):
TCCCGGTTGAATAAAAGGAAATTTCGATGGATCTCTAAAAAGAAATTGACGGTAAAAAGGATCTA
GCC
Found at i:106370439 original size:46 final size:46
Alignment explanation
Indices: 106370384--106370691 Score: 438
Period size: 46 Copynumber: 6.7 Consensus size: 46
106370374 GGAGTGCTCT
*
106370384 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
106370430 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
106370476 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
106370522 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * *
106370568 ATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
106370614 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
106370660 ATGACA-GAAAATGAGTAAGACCATAGTTGAAA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAA
106370692 ACACTATGGC
Statistics
Matches: 243, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 242 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:106373456 original size:29 final size:29
Alignment explanation
Indices: 106373424--106373512 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 29
106373414 TGATTTAAAT
106373424 AAAAAACTTTCGAATAGTTTAATAATTCA
1 AAAAAACTTTCGAATAGTTTAATAATTCA
* * * * *
106373453 AAAAAA-TTTAGCA-A-CTTAATGATTTAAA
1 AAAAAACTTTCGAATAGTTTAAT-AATT-CA
*
106373481 TAAAAAACTTCCGAATAGTTTAATAATTCA
1 -AAAAAACTTTCGAATAGTTTAATAATTCA
106373511 AA
1 AA
106373513 TGAAATCTTT
Statistics
Matches: 43, Mismatches: 11, Indels: 12
0.65 0.17 0.18
Matches are distributed among these distances:
26 5 0.12
27 4 0.09
28 6 0.14
29 14 0.33
30 5 0.12
31 4 0.09
32 5 0.12
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.33
Consensus pattern (29 bp):
AAAAAACTTTCGAATAGTTTAATAATTCA
Found at i:106373496 original size:58 final size:58
Alignment explanation
Indices: 106373397--106373512 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
106373387 AATTTTTAAG
*
106373397 AAAACTTAGCAACTTAATGATTTAAATAAAAAACTTTCGAATAGTTTAATAATTCAAA
1 AAAACTTAGCAACTTAATGATTTAAATAAAAAACTTCCGAATAGTTTAATAATTCAAA
*
106373455 AAAATTTAGCAACTTAATGATTTAAATAAAAAACTTCCGAATAGTTTAATAATTCAAA
1 AAAACTTAGCAACTTAATGATTTAAATAAAAAACTTCCGAATAGTTTAATAATTCAAA
106373513 TGAAATCTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (58 bp):
AAAACTTAGCAACTTAATGATTTAAATAAAAAACTTCCGAATAGTTTAATAATTCAAA
Found at i:106388765 original size:19 final size:20
Alignment explanation
Indices: 106388719--106388765 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
106388709 ATTGAGTGGT
*
106388719 TAATTAGGCTTTAATTAAGTG
1 TAATTA-GCTTTAATTAAGAG
106388740 -AATTTAGC-TTAATTAAGAG
1 TAA-TTAGCTTTAATTAAGAG
106388759 TAATTAG
1 TAATTAG
106388766 GAAAAATGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 14 0.61
20 6 0.26
21 3 0.13
ACGTcount: A:0.38, C:0.04, G:0.17, T:0.40
Consensus pattern (20 bp):
TAATTAGCTTTAATTAAGAG
Found at i:106389135 original size:28 final size:30
Alignment explanation
Indices: 106389071--106389138 Score: 97
Period size: 28 Copynumber: 2.3 Consensus size: 30
106389061 GGGATATATT
106389071 TATTTAATTACTTTTTATTTAAGTAAATAGA
1 TATTT-ATTACTTTTTATTTAAGTAAATAGA
106389102 TATTTATTA-TTTATTA-TTAAGTAAA-AGA
1 TATTTATTACTTT-TTATTTAAGTAAATAGA
106389130 TATTTATTA
1 TATTTATTA
106389139 ATTAAATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
28 12 0.33
29 12 0.33
30 7 0.19
31 5 0.14
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (30 bp):
TATTTATTACTTTTTATTTAAGTAAATAGA
Found at i:106390587 original size:18 final size:18
Alignment explanation
Indices: 106390560--106390598 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
106390550 ATAAAAGTAT
* *
106390560 TGAATGACTGACTGTTAC
1 TGAATAACTGACTGCTAC
*
106390578 TGAATAACTGATTGCTAC
1 TGAATAACTGACTGCTAC
106390596 TGA
1 TGA
106390599 GCAAATGTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (18 bp):
TGAATAACTGACTGCTAC
Found at i:106392177 original size:14 final size:14
Alignment explanation
Indices: 106392158--106392195 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
106392148 TGTTTAACTC
106392158 AAAATGACTTCTGA
1 AAAATGACTTCTGA
* *
106392172 AAAATGATTTCTGG
1 AAAATGACTTCTGA
106392186 AAAATGACTT
1 AAAATGACTT
106392196 ACGCTGCTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (14 bp):
AAAATGACTTCTGA
Found at i:106394593 original size:18 final size:18
Alignment explanation
Indices: 106394566--106394843 Score: 168
Period size: 18 Copynumber: 15.1 Consensus size: 18
106394556 TCATTAACAC
* *
106394566 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAGTTAT
*
106394583 TCAGTAACAATCAATTAT
1 TCAGTAACAATCAGTTAT
* * *
106394601 TCAATAATAACCAGTTAT
1 TCAGTAACAATCAGTTAT
*
106394619 TCAGTATCGATCAATTGATCGGTTAT
1 TCAGTA---A-C-A---ATCAGTTAT
* *
106394645 CCAGTAACAATCAATTAT
1 TCAGTAACAATCAGTTAT
*
106394663 TCAGTAA-AATCAGATAT
1 TCAGTAACAATCAGTTAT
*
106394680 TCAGTAACAATTAAGTTAT
1 TCAGTAACAA-TCAGTTAT
*
106394699 TCAGTAACAGTCA-TTCAT
1 TCAGTAACAATCAGTT-AT
*
106394717 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCAGTTAT
** *
106394735 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAGTTAT
* *
106394753 TCAGTAATATTCAGTTAT
1 TCAGTAACAATCAGTTAT
* *
106394771 TCAGTAACAGTCTA-ATAT
1 TCAGTAACAATC-AGTTAT
* * *
106394789 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
* * * *
106394807 CCGGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
* *
106394825 TCAGAAATAATCAGTTAT
1 TCAGTAACAATCAGTTAT
106394843 T
1 T
106394844 TTATACTTTT
Statistics
Matches: 205, Mismatches: 41, Indels: 29
0.75 0.15 0.11
Matches are distributed among these distances:
17 22 0.11
18 148 0.72
19 18 0.09
21 2 0.01
22 1 0.00
23 2 0.01
26 12 0.06
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (18 bp):
TCAGTAACAATCAGTTAT
Found at i:106394769 original size:72 final size:71
Alignment explanation
Indices: 106394642--106394843 Score: 228
Period size: 72 Copynumber: 2.8 Consensus size: 71
106394632 ATTGATCGGT
* *
106394642 TATCCAGTAACAATCAATTATTCAGTAAAATCAGA-TATTCAGTAACAATTAAGTTATTCAGTAA
1 TATCCAGTAACAATCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTCAGTAA
*
106394706 CAGTC-AT
64 CAGTCTAA
* * * *
106394713 TCATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTAA
1 T-ATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAGTAA
106394778 CAGTCTAA
64 CAGTCTAA
* * * * * *
106394786 TATCCAGTAACAGTCAATTATCCGGTAACAGTCAATTATTCAGAAATAATCAGTTATT
1 TATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATT
106394844 TTATACTTTT
Statistics
Matches: 109, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
71 1 0.01
72 92 0.84
73 16 0.15
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (71 bp):
TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAGTAACA
GTCTAA
Found at i:106395077 original size:6 final size:6
Alignment explanation
Indices: 106395062--106395095 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
106395052 TGCCAAATCG
*
106395062 GTAACA GTAACG GTAACA GTAACCA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAA-CA GTAACA GTA
106395096 TTCGGCACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:106395077 original size:12 final size:13
Alignment explanation
Indices: 106395060--106395095 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
106395050 AGTGCCAAAT
106395060 CGGTAACAGTAA-
1 CGGTAACAGTAAC
106395072 CGGTAACAGTAAC
1 CGGTAACAGTAAC
*
106395085 CAGTAACAGTA
1 CGGTAACAGTA
106395096 TTCGGCACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (13 bp):
CGGTAACAGTAAC
Found at i:106396776 original size:24 final size:24
Alignment explanation
Indices: 106396749--106396799 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
106396739 AACATAAAAA
106396749 TTAAGTAAAAAGGGCTAAATTGAC
1 TTAAGTAAAAAGGGCTAAATTGAC
106396773 TTAAGTAAAAAGGGCTAAATTGAC
1 TTAAGTAAAAAGGGCTAAATTGAC
106396797 TTA
1 TTA
106396800 CCTATTTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.45, C:0.08, G:0.20, T:0.27
Consensus pattern (24 bp):
TTAAGTAAAAAGGGCTAAATTGAC
Found at i:106396867 original size:20 final size:18
Alignment explanation
Indices: 106396831--106396875 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
106396821 AAACCTTCAA
106396831 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
106396849 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
106396869 -TTTCCCT
1 TTTTCCCT
106396876 GCTTTTCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:106405415 original size:20 final size:20
Alignment explanation
Indices: 106405390--106405427 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
106405380 GAATCTGCCT
*
106405390 ATGTCCCAGGCCACACGGCC
1 ATGTCCCAGGACACACGGCC
*
106405410 ATGTCCTAGGACACACGG
1 ATGTCCCAGGACACACGG
106405428 GCGTGTGCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.37, G:0.26, T:0.13
Consensus pattern (20 bp):
ATGTCCCAGGACACACGGCC
Found at i:106406201 original size:30 final size:30
Alignment explanation
Indices: 106406165--106406221 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
106406155 TTAGTTAGGC
*
106406165 AATTTTTCAATTCAATCTTGATTCTAAGGT
1 AATTTTTCAATTCAATCTCGATTCTAAGGT
106406195 AATTTTTCAATTCAATCTCGATTCTAA
1 AATTTTTCAATTCAATCTCGATTCTAA
106406222 CCCTTTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.16, G:0.07, T:0.46
Consensus pattern (30 bp):
AATTTTTCAATTCAATCTCGATTCTAAGGT
Found at i:106409339 original size:13 final size:13
Alignment explanation
Indices: 106409323--106409355 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
106409313 TTTGATTAAA
*
106409323 TTAGTTAATTAGT
1 TTAGATAATTAGT
106409336 TTAGATAATTAGT
1 TTAGATAATTAGT
106409349 TTA-ATAA
1 TTAGATAA
106409356 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:106412087 original size:13 final size:13
Alignment explanation
Indices: 106412069--106412104 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
106412059 AGACGAATCG
106412069 CGAGAACACAAAC
1 CGAGAACACAAAC
106412082 CGAGAACACAAAC
1 CGAGAACACAAAC
106412095 CGAGAACACA
1 CGAGAACACA
106412105 TGATAAACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.53, C:0.31, G:0.17, T:0.00
Consensus pattern (13 bp):
CGAGAACACAAAC
Found at i:106414777 original size:6 final size:6
Alignment explanation
Indices: 106414766--106414825 Score: 68
Period size: 6 Copynumber: 9.7 Consensus size: 6
106414756 AATCCTCCTA
* *
106414766 TTTTAT TTTTAT TTTTAT TTTATTT TATTTAT TTTT-T TCTTATT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTT-TAT T-TTTAT TTTTAT TTTTA-T TTTTAT
106414816 TTTTAT TTTT
1 TTTTAT TTTT
106414826 CAATTTTCTT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 4 0.09
6 29 0.63
7 11 0.24
8 2 0.04
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:106414780 original size:11 final size:11
Alignment explanation
Indices: 106414764--106414824 Score: 63
Period size: 11 Copynumber: 5.5 Consensus size: 11
106414754 TGAATCCTCC
106414764 TATTTTATTTT
1 TATTTTATTTT
106414775 TATTTT-TATTT
1 TATTTTAT-TTT
106414786 TATTTTATTTAT
1 TATTTTATTT-T
* * *
106414798 TTTTTTCTTAT
1 TATTTTATTTT
106414809 T-TTTTATTTT
1 TATTTTATTTT
106414819 TATTTT
1 TATTTT
106414825 TCAATTTTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
10 9 0.22
11 23 0.56
12 9 0.22
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:106414792 original size:22 final size:23
Alignment explanation
Indices: 106414764--106414825 Score: 85
Period size: 22 Copynumber: 2.8 Consensus size: 23
106414754 TGAATCCTCC
106414764 TATTTTATTTTTATTTTTATT-T
1 TATTTTATTTTTATTTTTATTAT
*
106414786 TATTTTATTTATT-TTTTTCTTAT
1 TATTTTATTT-TTATTTTTATTAT
106414809 T-TTTTATTTTTATTTTT
1 TATTTTATTTTTATTTTT
106414826 CAATTTTCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
21 2 0.06
22 30 0.83
23 4 0.11
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (23 bp):
TATTTTATTTTTATTTTTATTAT
Found at i:106414826 original size:22 final size:22
Alignment explanation
Indices: 106414766--106414840 Score: 84
Period size: 22 Copynumber: 3.4 Consensus size: 22
106414756 AATCCTCCTA
*
106414766 TTTTATTTTTATTTTTATT-TT
1 TTTTATTTTTATTTTTCTTATT
106414787 ATTTTATTTATT-TTTTTCTTATT
1 -TTTTATTT-TTATTTTTCTTATT
*
106414810 TTTTATTTTTATTTTTC-AATT
1 TTTTATTTTTATTTTTCTTATT
106414831 TTCTTATTTT
1 TT-TTATTTT
106414841 GAAAGACATA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
21 7 0.15
22 36 0.77
23 4 0.09
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTATTTTTATTTTTCTTATT
Found at i:106415775 original size:17 final size:18
Alignment explanation
Indices: 106415743--106415776 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
106415733 CGTTGAGCCT
*
106415743 ATTAACCCTTTTTCATTG
1 ATTAACCCTTTGTCATTG
106415761 ATTAA-CCTTTGTCATT
1 ATTAACCCTTTGTCATT
106415777 AACCCATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.24, C:0.21, G:0.06, T:0.50
Consensus pattern (18 bp):
ATTAACCCTTTGTCATTG
Found at i:106417723 original size:13 final size:13
Alignment explanation
Indices: 106417707--106417739 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
106417697 TTTGATTAAA
*
106417707 TTAGTTAATTAGT
1 TTAGATAATTAGT
106417720 TTAGATAATTAGT
1 TTAGATAATTAGT
106417733 TTA-ATAA
1 TTAGATAA
106417740 ACAAACCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:106421656 original size:31 final size:31
Alignment explanation
Indices: 106421621--106421683 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
106421611 TCGAAGTGAT
106421621 TTTTTGCTATTGCCGTGTAGTTTTCTATGCA
1 TTTTTGCTATTGCCGTGTAGTTTTCTATGCA
* *
106421652 TTTTTGCTATTGTCGTGTGGTTTTCTATGCA
1 TTTTTGCTATTGCCGTGTAGTTTTCTATGCA
106421683 T
1 T
106421684 GACCACACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.11, C:0.14, G:0.21, T:0.54
Consensus pattern (31 bp):
TTTTTGCTATTGCCGTGTAGTTTTCTATGCA
Found at i:106434108 original size:35 final size:35
Alignment explanation
Indices: 106434062--106434154 Score: 132
Period size: 35 Copynumber: 2.7 Consensus size: 35
106434052 AAGAAAATAT
* *
106434062 ATTTTGTTTAACTTGATTTGTAAATAATCTCTTAG
1 ATTTTGTTTAACTTGACTTGTAAATAATCTCTTAA
* * * *
106434097 ATTTTGTTTAACTTAACTTGCAAGTAATTTCTTAA
1 ATTTTGTTTAACTTGACTTGTAAATAATCTCTTAA
106434132 ATTTTGTTTAACTTGACTTGTAA
1 ATTTTGTTTAACTTGACTTGTAA
106434155 GCAATATATT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.29, C:0.10, G:0.11, T:0.51
Consensus pattern (35 bp):
ATTTTGTTTAACTTGACTTGTAAATAATCTCTTAA
Found at i:106444357 original size:15 final size:16
Alignment explanation
Indices: 106444335--106444368 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
106444325 TTTTTCTAAT
*
106444335 ATTTTTTTATAATTTA
1 ATTTTTTAATAATTTA
106444351 ATTTTTTAATAATTTA
1 ATTTTTTAATAATTTA
106444367 AT
1 AT
106444369 AAATTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTTTTAATAATTTA
Found at i:106454439 original size:39 final size:39
Alignment explanation
Indices: 106454385--106454462 Score: 138
Period size: 40 Copynumber: 2.0 Consensus size: 39
106454375 TTATAATAGG
106454385 AGATTGTGTACTTTTTTTCCTTCATTAGTTTTTTTATCCC
1 AGATTGTGTACTTTTTTTCCTTCATTAG-TTTTTTATCCC
*
106454425 AGATTGTGTATTTTTTTTCCTTCATTAGTTTTTTATCC
1 AGATTGTGTACTTTTTTTCCTTCATTAGTTTTTTATCC
106454463 AACAAGATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 10 0.27
40 27 0.73
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.59
Consensus pattern (39 bp):
AGATTGTGTACTTTTTTTCCTTCATTAGTTTTTTATCCC
Found at i:106456598 original size:22 final size:21
Alignment explanation
Indices: 106456546--106456598 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
106456536 TTTTAAACCA
* *
106456546 ATATATTTTATATATGTAATT
1 ATATATTTTATAAATATAATT
* *
106456567 ATTATTTTTTATAAATATTATAT
1 A-TATATTTTATAAATATAAT-T
106456590 ATATATTTT
1 ATATATTTT
106456599 GTATATTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 1 0.04
22 22 0.88
23 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
ATATATTTTATAAATATAATT
Found at i:106463015 original size:18 final size:17
Alignment explanation
Indices: 106462991--106463038 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 17
106462981 TTCTATTTCA
106462991 AAAAAAAAAAGAAAAAG
1 AAAAAAAAAAGAAAAAG
*
106463008 AGAAAAAAATATATAAAAAG
1 A-AAAAAAA-A-AGAAAAAG
106463028 AAAAAATAAAA
1 AAAAAA-AAAA
106463039 ATAGAGAGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 1 0.04
18 8 0.31
19 7 0.27
20 10 0.38
ACGTcount: A:0.83, C:0.00, G:0.08, T:0.08
Consensus pattern (17 bp):
AAAAAAAAAAGAAAAAG
Found at i:106463031 original size:15 final size:13
Alignment explanation
Indices: 106462990--106463039 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
106462980 CTTCTATTTC
106462990 AAAAAA-AAAAAG
1 AAAAAATAAAAAG
*
106463002 AAAAAGAGAAAAA-
1 AAAAA-ATAAAAAG
* *
106463015 AATATATAAAAAG
1 AAAAAATAAAAAG
106463028 AAAAAATAAAAA
1 AAAAAATAAAAA
106463040 TAGAGAGACC
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
12 11 0.37
13 14 0.47
14 5 0.17
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (13 bp):
AAAAAATAAAAAG
Found at i:106464359 original size:205 final size:205
Alignment explanation
Indices: 106463982--106465550 Score: 2406
Period size: 205 Copynumber: 7.6 Consensus size: 205
106463972 GCAGATCTGG
*
106463982 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
* *
106464047 GATTTGGTTTTCACGTGCTTAC-ACTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
65 GATTTGGCTTTCACGTGTTTACGA-TGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
* * ** *
106464111 GAGAAAAAATCGAAGTTTGGCATCTCCATTTTGACGAAGAGCAGATACATAGCAGATCTAACCTT
129 GAGAACAAATCGAAGTCTGGCATCTCCATTTCAACGGAGAGCAGATACATAGCAGATCTAACCTT
106464176 CAGATGTTTATA
194 CAGATGTTTATA
*
106464188 CTGAAGCAGATCCAAGATGGTTTGGCATCATTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
*
106464253 ATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * *
106464318 GAACAAATTGAAGTCTGGCATCTCTATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
131 GAACAAATCGAAGTCTGGCATCTCCATTTCAACGGAGAGCAGATACATAGCAGATCTAACCTTCA
106464383 GATGTTTATA
196 GATGTTTATA
106464393 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * * * *
106464458 ATTTGGATTTCATGTGTTTACGCTGAAACAAATCTAAGATGATTTGGCATCTTTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* *
106464523 GAACAAATCAAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
131 GAACAAATCGAAGTCTGGCATCTCCATTTCAACGGAGAGCAGATACATAGCAGATCTAACCTTCA
106464588 GATGTTTATA
196 GATGTTTATA
* *
106464598 CTGAAGCAGATCCAATATGGTTTGGCATCCTTATGCTTACAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
*
106464663 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * ** * * *
106464728 GAACAAATTGAAGTCTGGCATCTCTATTTCAAAAGAGAGCAGATACACAGCAGATCTCACCTTTA
131 GAACAAATCGAAGTCTGGCATCTCCATTTCAACGGAGAGCAGATACATAGCAGATCTAACCTTCA
*
106464793 GATGTTTATG
196 GATGTTTATA
*
106464803 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* *
106464868 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATTTAAGATGATTTGTCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * * * *
106464933 GAGCAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACACAGCAGATCTCACCTTAA
131 GAACAAATCGAAGTCTGGCATCTCCATTTCAACGGAGAGCAGATACATAGCAGATCTAACCTTCA
*
106464998 GATGTTTATG
196 GATGTTTATA
* * * *
106465008 CGGAAGCAGATCCAAGATGGTTTGGTATCCTTGTACTTACAAGGAACAAATTGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* *
106465073 ATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * * *
106465138 GAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACACAGTAGATCTCACCTTCA
131 GAACAAATCGAAGTCTGGCATCTCCATTTCAACGGAGAGCAGATACATAGCAGATCTAACCTTCA
*
106465203 GATGTTTATG
196 GATGTTTATA
* *
106465213 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * * *
106465278 ATTTGGCTTCCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTATATTGGCCGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * * * * *
106465343 GAGCAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAAACACATAGTAGAT-TCAAACTTC
131 GAACAAATCGAAGTCTGGCATCTCCATTTCAACGGAGAGCAGATACATAGCAGATCT-AACCTTC
106465407 AGATGTTTATA
195 AGATGTTTATA
* * *
106465418 CTGAAGTAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCGAATCGAAGACATAG-TC
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT-
* * * * * *
106465482 GATTTCGCTTTCACGTGCTTACAATGAAGCAAATCTAAGATGATGTGTCATTTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
106465547 AGAA
130 AGAA
106465551 TGAATTGAAG
Statistics
Matches: 1269, Mismatches: 91, Indels: 7
0.93 0.07 0.01
Matches are distributed among these distances:
204 2 0.00
205 1260 0.99
206 7 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (205 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATCTCCATTTCAACGGAGAGCAGATACATAGCAGATCTAACCTTCA
GATGTTTATA
Found at i:106467002 original size:11 final size:11
Alignment explanation
Indices: 106466986--106467043 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
106466976 TTTTAAACCA
106466986 ATATATTTTAT
1 ATATATTTTAT
*
106466997 ATATATAATTAT
1 ATATAT-TTTAT
106467009 -TATTATTTTAT
1 ATA-TATTTTAT
* *
106467020 AAATATTATAT
1 ATATATTTTAT
*
106467031 ATATATTGTAT
1 ATATATTTTAT
106467042 AT
1 AT
106467044 TAAATACTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
11 30 0.79
12 8 0.21
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (11 bp):
ATATATTTTAT
Found at i:106467174 original size:24 final size:23
Alignment explanation
Indices: 106467121--106467176 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
106467111 CAATTATTCA
106467121 CTTTATATTATATTTTTATATAT
1 CTTTATATTATATTTTTATATAT
* * * *
106467144 ATATATATTAATTTTTTTATGTAT
1 CTTTATATT-ATATTTTTATATAT
106467168 CTTTATATT
1 CTTTATATT
106467177 GTATGTATCA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (23 bp):
CTTTATATTATATTTTTATATAT
Found at i:106469848 original size:20 final size:20
Alignment explanation
Indices: 106469811--106469848 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
106469801 ATATATAGGC
* *
106469811 TTGTCATTTCAAAAAAAAGT
1 TTGTAATTTAAAAAAAAAGT
106469831 TTGTAATTTAAAAAAAAA
1 TTGTAATTTAAAAAAAAA
106469849 ACAAAAAGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (20 bp):
TTGTAATTTAAAAAAAAAGT
Found at i:106470305 original size:31 final size:31
Alignment explanation
Indices: 106470261--106470321 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
106470251 CAGCCTAGTG
106470261 ACTTAAATAAAAACTTTTGAATAGTTCAGTA
1 ACTTAAATAAAAACTTTTGAATAGTTCAGTA
* *
106470292 ACTTCAATGAAAACTTTTGAATAGTTCAGT
1 ACTTAAATAAAAACTTTTGAATAGTTCAGT
106470322 GATCAAATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.36
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTTGAATAGTTCAGTA
Found at i:106475827 original size:50 final size:49
Alignment explanation
Indices: 106475742--106475879 Score: 161
Period size: 50 Copynumber: 2.8 Consensus size: 49
106475732 TGGACCATGG
* * * *
106475742 CAATACGTGTGATCCCATGTAAGACTATATTTGGGATTTGACATTAGCAT
1 CAATA-GTGTGATCTCATGTAAGACCATATTTGGGATATGACATCAGCAT
* * * *
106475792 CAATATGTGTGATCTCGTATAAGACCATATCTGGGATATGGCATCAGCAT
1 CAATA-GTGTGATCTCATGTAAGACCATATTTGGGATATGACATCAGCAT
* *
106475842 CGATA-TGTGATATCATGTAAGACCATATTTGGGATATG
1 CAATAGTGTGATCTCATGTAAGACCATATTTGGGATATG
106475880 GCGTTGATAT
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
48 29 0.39
50 45 0.61
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (49 bp):
CAATAGTGTGATCTCATGTAAGACCATATTTGGGATATGACATCAGCAT
Found at i:106476089 original size:37 final size:36
Alignment explanation
Indices: 106476045--106476143 Score: 126
Period size: 37 Copynumber: 2.7 Consensus size: 36
106476035 AGACATCGTA
*
106476045 TAAGACCATAGCTGGACTATGGCATCGTGACGACATG
1 TAAGACCATAGCTGGACTATGGCATCGTGA-GACAAG
* * * * *
106476082 TAAGACCATATCTGGGCTATGGCATTGTGATATAAG
1 TAAGACCATAGCTGGACTATGGCATCGTGAGACAAG
*
106476118 TAAGACCATAGTTGGACTATGGCATC
1 TAAGACCATAGCTGGACTATGGCATC
106476144 AAGTAAACAA
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
36 25 0.48
37 27 0.52
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (36 bp):
TAAGACCATAGCTGGACTATGGCATCGTGAGACAAG
Found at i:106485865 original size:13 final size:13
Alignment explanation
Indices: 106485847--106485873 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
106485837 GAAATAAACG
106485847 CACACGGGCGTGT
1 CACACGGGCGTGT
106485860 CACACGGGCGTGT
1 CACACGGGCGTGT
106485873 C
1 C
106485874 CCTGCTGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:106495643 original size:36 final size:36
Alignment explanation
Indices: 106495596--106495669 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
106495586 CTGCAAAGTA
106495596 GGTTGCAACATATTGTTAGGTTTAGTAGAATGGTGT
1 GGTTGCAACATATTGTTAGGTTTAGTAGAATGGTGT
106495632 GGTTGCAACATATTGTTAGGTTTAGTAGAATGGTGT
1 GGTTGCAACATATTGTTAGGTTTAGTAGAATGGTGT
106495668 GG
1 GG
106495670 ACCATTACCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.24, C:0.05, G:0.32, T:0.38
Consensus pattern (36 bp):
GGTTGCAACATATTGTTAGGTTTAGTAGAATGGTGT
Found at i:106506465 original size:159 final size:159
Alignment explanation
Indices: 106506176--106506495 Score: 640
Period size: 159 Copynumber: 2.0 Consensus size: 159
106506166 TACAAACCTA
106506176 TATGCATATTTCTCTAATCATATATTATCTCAAACTATACATTATTATACTCATAAATTATTCAT
1 TATGCATATTTCTCTAATCATATATTATCTCAAACTATACATTATTATACTCATAAATTATTCAT
106506241 TACTCAACCACACTAAACACTACAAACATATTAAGCCATACATACATATATCCAACTCAAGCCAT
66 TACTCAACCACACTAAACACTACAAACATATTAAGCCATACATACATATATCCAACTCAAGCCAT
106506306 TCCAATGGCTATTTACATCAAAATATTTT
131 TCCAATGGCTATTTACATCAAAATATTTT
106506335 TATGCATATTTCTCTAATCATATATTATCTCAAACTATACATTATTATACTCATAAATTATTCAT
1 TATGCATATTTCTCTAATCATATATTATCTCAAACTATACATTATTATACTCATAAATTATTCAT
106506400 TACTCAACCACACTAAACACTACAAACATATTAAGCCATACATACATATATCCAACTCAAGCCAT
66 TACTCAACCACACTAAACACTACAAACATATTAAGCCATACATACATATATCCAACTCAAGCCAT
106506465 TCCAATGGCTATTTACATCAAAATATTTT
131 TCCAATGGCTATTTACATCAAAATATTTT
106506494 TA
1 TA
106506496 AACCAACATT
Statistics
Matches: 161, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
159 161 1.00
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.35
Consensus pattern (159 bp):
TATGCATATTTCTCTAATCATATATTATCTCAAACTATACATTATTATACTCATAAATTATTCAT
TACTCAACCACACTAAACACTACAAACATATTAAGCCATACATACATATATCCAACTCAAGCCAT
TCCAATGGCTATTTACATCAAAATATTTT
Found at i:106507093 original size:25 final size:26
Alignment explanation
Indices: 106507065--106507121 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 26
106507055 CTAATACTAG
*
106507065 CCAATATTG-AGAAGGTTCAAGCGAA
1 CCAATATTGAAAAAGGTTCAAGCGAA
106507090 CCAATA-TGAAAAAGGTTCAAGCGAA
1 CCAATATTGAAAAAGGTTCAAGCGAA
106507115 CCAATAT
1 CCAATAT
106507122 CGGGAATGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 2 0.07
25 27 0.93
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.19
Consensus pattern (26 bp):
CCAATATTGAAAAAGGTTCAAGCGAA
Found at i:106507308 original size:24 final size:25
Alignment explanation
Indices: 106507254--106507310 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 25
106507244 CCATATAATG
* *
106507254 GGAA-GCTCGTGAGAGCCAAATATC
1 GGAATGCTCATGAGAGCCAAATAAC
* *
106507278 GGGATGCTCATGAGAG-CTAATAAC
1 GGAATGCTCATGAGAGCCAAATAAC
106507302 GGAATGCTC
1 GGAATGCTC
106507311 TTTTGAGCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 17 0.63
25 10 0.37
ACGTcount: A:0.32, C:0.19, G:0.30, T:0.19
Consensus pattern (25 bp):
GGAATGCTCATGAGAGCCAAATAAC
Found at i:106514170 original size:20 final size:19
Alignment explanation
Indices: 106514145--106514204 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 19
106514135 TAATTTTGGG
106514145 ATTTATTTTCATTTATCTTT
1 ATTTATTTT-ATTTATCTTT
* *
106514165 ATTTATCTTAAATTATCTTT
1 ATTTAT-TTTATTTATCTTT
106514185 ATTTATTTGTATTTATCTTT
1 ATTTATTT-TATTTATCTTT
106514205 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTATTTTATTTATCTTT
Found at i:106514201 original size:30 final size:30
Alignment explanation
Indices: 106514147--106514203 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
106514137 ATTTTGGGAT
106514147 TTATTTTCATTTATCTTTATTTATCTTAAA
1 TTATTTTCATTTATCTTTATTTATCTTAAA
106514177 TTATCTTT-ATTTAT-TTGTATTTATCTT
1 TTAT-TTTCATTTATCTT-TATTTATCTT
106514204 TTAGAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
29 2 0.08
30 20 0.80
31 3 0.12
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.67
Consensus pattern (30 bp):
TTATTTTCATTTATCTTTATTTATCTTAAA
Found at i:106514952 original size:17 final size:18
Alignment explanation
Indices: 106514924--106514957 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
106514914 TAGTCCTCAT
*
106514924 TTTAATTTTTTCCATTTA
1 TTTAATTTTTTCAATTTA
106514942 TTTAA-TTTTTCAATTT
1 TTTAATTTTTTCAATTT
106514958 CAATTCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTAATTTTTTCAATTTA
Found at i:106520576 original size:13 final size:12
Alignment explanation
Indices: 106520558--106520599 Score: 66
Period size: 13 Copynumber: 3.3 Consensus size: 12
106520548 CAATTTTTAT
106520558 TTTTATTTATTTA
1 TTTTATTTA-TTA
106520571 TTTTATCTTATTA
1 TTTTAT-TTATTA
106520584 TTTTATTTATTA
1 TTTTATTTATTA
106520596 TTTT
1 TTTT
106520600 CATATATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.36
13 15 0.54
14 3 0.11
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTATTTATTA
Found at i:106522208 original size:20 final size:20
Alignment explanation
Indices: 106522183--106522222 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
106522173 TAATTTTAGG
106522183 ATTTATTT-TCATTTATCTTT
1 ATTTATTTGT-ATTTATCTTT
106522203 ATTTATTTGTATTTATCTTT
1 ATTTATTTGTATTTATCTTT
106522223 TAGAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (20 bp):
ATTTATTTGTATTTATCTTT
Found at i:106528251 original size:46 final size:44
Alignment explanation
Indices: 106528171--106528275 Score: 133
Period size: 46 Copynumber: 2.3 Consensus size: 44
106528161 CCGGACATGG
*
106528171 TCTTACACTGGCACATCTCGTAACTGATGCATGTCCTAGACATA
1 TCTTACACTGGCACATCTCGTAACTGATGCATGTCCCAGACATA
*
106528215 TCTTACACTGGCTTACAT-TC-TAATGCTGATGCATGTCCCAGACATG
1 TCTTACACTGGC--ACATCTCGTAA--CTGATGCATGTCCCAGACATA
*
106528261 TCTTACACTAGCACA
1 TCTTACACTGGCACA
106528276 CAAATGACTC
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
44 18 0.33
45 2 0.04
46 34 0.63
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (44 bp):
TCTTACACTGGCACATCTCGTAACTGATGCATGTCCCAGACATA
Found at i:106533832 original size:17 final size:17
Alignment explanation
Indices: 106533809--106533842 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
106533799 CAATATTGTT
*
106533809 TTTTTTCTTCTTTTTTTG
1 TTTTTCCTT-TTTTTTTG
106533827 TTTTTCCTTTTTTTTT
1 TTTTTCCTTTTTTTTT
106533843 CTAGAACAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (17 bp):
TTTTTCCTTTTTTTTTG
Found at i:106534826 original size:5 final size:5
Alignment explanation
Indices: 106534818--106534884 Score: 55
Period size: 5 Copynumber: 12.6 Consensus size: 5
106534808 TAAGTCTATG
* *
106534818 AAAAT AAAAAT AAAAC AACTAAA AAAAT AAAGAT AAAAT AAAAT AAAAT
1 AAAAT -AAAAT AAAAT AA--AAT AAAAT AAA-AT AAAAT AAAAT AAAAT
*
106534867 AACAT GAAAAT -AAAT AAA
1 AAAAT -AAAAT AAAAT AAA
106534885 CTCAAAGATA
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
4 4 0.08
5 29 0.57
6 14 0.27
7 4 0.08
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:106534855 original size:11 final size:10
Alignment explanation
Indices: 106534818--106534884 Score: 55
Period size: 11 Copynumber: 6.3 Consensus size: 10
106534808 TAAGTCTATG
106534818 AAAATAAAAAT
1 AAAAT-AAAAT
* *
106534829 AAAACAACTAAA
1 AAAATAA--AAT
106534841 AAAATAAAGAT
1 AAAATAAA-AT
106534852 AAAATAAAAT
1 AAAATAAAAT
*
106534862 AAAATAACAT
1 AAAATAAAAT
106534872 GAAAAT-AAAT
1 -AAAATAAAAT
106534882 AAA
1 AAA
106534885 CTCAAAGATA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
9 3 0.07
10 17 0.37
11 18 0.39
12 8 0.17
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.16
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:106534860 original size:16 final size:16
Alignment explanation
Indices: 106534841--106534884 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
106534831 AACAACTAAA
106534841 AAAATAAAGATAAAAT-
1 AAAATAAA-ATAAAATG
*
106534857 AAAATAAAATAACATG
1 AAAATAAAATAAAATG
106534873 AAAAT-AAATAAA
1 AAAATAAAATAAA
106534885 CTCAAAGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (16 bp):
AAAATAAAATAAAATG
Found at i:106535006 original size:20 final size:20
Alignment explanation
Indices: 106534977--106535058 Score: 65
Period size: 20 Copynumber: 4.0 Consensus size: 20
106534967 TAAGCATAAG
*
106534977 AAATATAAAAAATAAGAAAA
1 AAATAAAAAAAATAAGAAAA
* *
106534997 AAATAAAAAAATAAAATAAAA
1 AAATAAAAAAA-ATAAGAAAA
* * * *
106535018 AAACAAATAATATAACAAAA
1 AAATAAAAAAAATAAGAAAA
**
106535038 AAATAAGTAAAATAAAGAAAA
1 AAATAAAAAAAAT-AAGAAAA
106535059 GGGTAAAAGG
Statistics
Matches: 48, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
20 27 0.56
21 21 0.44
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (20 bp):
AAATAAAAAAAATAAGAAAA
Found at i:106535012 original size:13 final size:13
Alignment explanation
Indices: 106534996--106535020 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106534986 AAATAAGAAA
106534996 AAAATAAAAAAAT
1 AAAATAAAAAAAT
106535009 AAAATAAAAAAA
1 AAAATAAAAAAA
106535021 CAAATAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:106535017 original size:12 final size:12
Alignment explanation
Indices: 106534981--106535053 Score: 53
Period size: 11 Copynumber: 6.0 Consensus size: 12
106534971 CATAAGAAAT
*
106534981 ATAAAAAATAAG
1 ATAAAAAATAAA
106534993 A-AAAAAATAAA
1 ATAAAAAATAAA
*
106535004 AAAATAAAATAAA
1 ATAA-AAAATAAA
*
106535017 A-AAACAAATAAT
1 ATAAA-AAATAAA
*
106535029 ATAACAAA-AAA
1 ATAAAAAATAAA
106535040 ATAAGTAAAATAAA
1 ATAA--AAAATAAA
106535054 GAAAAGGGTA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
11 17 0.35
12 15 0.31
13 14 0.29
14 3 0.06
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (12 bp):
ATAAAAAATAAA
Found at i:106535027 original size:17 final size:17
Alignment explanation
Indices: 106534983--106535058 Score: 71
Period size: 17 Copynumber: 4.1 Consensus size: 17
106534973 TAAGAAATAT
*
106534983 AAAAAATAAGAAAAAAATA
1 AAAAAATAA-AATAAAA-A
106535002 AAAAAATAAAATAAAAA
1 AAAAAATAAAATAAAAA
* *
106535019 AACAAATAATATAACAAA
1 AAAAAATAAAATAA-AAA
106535037 AAAATAAGTAAAATAAAGAA
1 AAAA-AA-TAAAATAAA-AA
106535057 AA
1 AA
106535059 GGGTAAAAGG
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
17 13 0.27
18 12 0.25
19 12 0.25
20 11 0.23
ACGTcount: A:0.80, C:0.03, G:0.04, T:0.13
Consensus pattern (17 bp):
AAAAAATAAAATAAAAA
Found at i:106536793 original size:35 final size:35
Alignment explanation
Indices: 106536747--106536817 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
106536737 CCGAGCAAGC
*
106536747 TGCATTTAACTCAACAGTTGATGAATCATCTAACT
1 TGCATTTAACTCAACAGTTGATGAATCATATAACT
*
106536782 TGCATTTAACTCAACAGTTGATGATTCATATAACT
1 TGCATTTAACTCAACAGTTGATGAATCATATAACT
106536817 T
1 T
106536818 TCTTTTGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (35 bp):
TGCATTTAACTCAACAGTTGATGAATCATATAACT
Found at i:106537376 original size:19 final size:19
Alignment explanation
Indices: 106537352--106537394 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
106537342 TACTATAAGG
106537352 GTTATTTTGAAGCCTAGAA
1 GTTATTTTGAAGCCTAGAA
106537371 GTTATTTTGAAGCCTAGAA
1 GTTATTTTGAAGCCTAGAA
106537390 -TTATT
1 GTTATT
106537395 ACCCATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (19 bp):
GTTATTTTGAAGCCTAGAA
Found at i:106540454 original size:13 final size:13
Alignment explanation
Indices: 106540436--106540466 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
106540426 GGGGTTGTTT
106540436 ACTAAACTAATTA
1 ACTAAACTAATTA
106540449 ACTAAACTAATTA
1 ACTAAACTAATTA
106540462 ACTAA
1 ACTAA
106540467 TTAAACTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (13 bp):
ACTAAACTAATTA
Found at i:106546985 original size:13 final size:13
Alignment explanation
Indices: 106546967--106546995 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
106546957 GGTTGTTTAT
106546967 TAAACTAATTAAC
1 TAAACTAATTAAC
106546980 TAAACTAATTAAC
1 TAAACTAATTAAC
106546993 TAA
1 TAA
106546996 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:106549476 original size:16 final size:16
Alignment explanation
Indices: 106549442--106549484 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
106549432 AATTGAAATG
*
106549442 AATAT-ATATATGTGTA
1 AATATGATA-ATGTGCA
*
106549458 AATGTGATAATGTGCA
1 AATATGATAATGTGCA
106549474 AATATGATAAT
1 AATATGATAAT
106549485 TAGATATTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.44, C:0.02, G:0.16, T:0.37
Consensus pattern (16 bp):
AATATGATAATGTGCA
Found at i:106553342 original size:19 final size:19
Alignment explanation
Indices: 106553318--106553356 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
106553308 TTTGTTAGGT
106553318 AAGTTCATATAGTATAACC
1 AAGTTCATATAGTATAACC
106553337 AAGTTCATATAGTATAACC
1 AAGTTCATATAGTATAACC
106553356 A
1 A
106553357 GGTAAAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (19 bp):
AAGTTCATATAGTATAACC
Found at i:106556443 original size:30 final size:30
Alignment explanation
Indices: 106556373--106556448 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
106556363 AAATATTATT
* * *
106556373 TTATTATTTTAATAATTTTAAATGATAAAA
1 TTATAATTTTATTATTTTTAAATGATAAAA
*
106556403 TTA-AATTTTTATTATTTTTAAGA-GATTAAA
1 TTATAA-TTTTATTATTTTTAA-ATGATAAAA
106556433 TTATAATTTTATTATT
1 TTATAATTTTATTATT
106556449 AATTTAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 1 0.03
30 35 0.90
31 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (30 bp):
TTATAATTTTATTATTTTTAAATGATAAAA
Found at i:106556449 original size:19 final size:19
Alignment explanation
Indices: 106556427--106556463 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
106556417 TTTTTAAGAG
*
106556427 ATTAAATTATAATTTTATT
1 ATTAAATTAAAATTTTATT
*
106556446 ATTAATTTAAAATTTTAT
1 ATTAAATTAAAATTTTAT
106556464 AAAATATAAA
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:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTAAATTAAAATTTTATT
Found at i:106559041 original size:3 final size:3
Alignment explanation
Indices: 106559033--106559060 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
106559023 TTAAGTAAAA
106559033 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
106559061 GGAATCTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:106563831 original size:20 final size:20
Alignment explanation
Indices: 106563793--106563852 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 20
106563783 TTTTAAAAAC
*
106563793 ATATAAAAATTC-TAATAAA
1 ATATAAAAATTCAAAATAAA
*
106563812 ATATAAAATTTCAAAATAAA
1 ATATAAAAATTCAAAATAAA
* *
106563832 ATATATAACTT-AAAATAAA
1 ATATAAAAATTCAAAATAAA
106563851 AT
1 AT
106563853 CAACCTCAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
19 21 0.58
20 15 0.42
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
ATATAAAAATTCAAAATAAA
Found at i:106566600 original size:20 final size:20
Alignment explanation
Indices: 106566575--106566612 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
106566565 CAAATTTTAT
106566575 ATTTTAAAAAAATTATAATA
1 ATTTTAAAAAAATTATAATA
106566595 ATTTTAAAAAAATTATAA
1 ATTTTAAAAAAATTATAA
106566613 AGAATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTTTAAAAAAATTATAATA
Found at i:106570739 original size:127 final size:128
Alignment explanation
Indices: 106570506--106570766 Score: 515
Period size: 127 Copynumber: 2.0 Consensus size: 128
106570496 AAACGAAAAC
106570506 CCAGAAATATTAATCCTTACATCAAGCTGTTTCTGAATATTCTTTGGCCTTTTCTTGGGCCTTCT
1 CCAGAAATATTAATCCTTACATCAAGCTGTTTCTGAATATTCTTTGGCCTTTTCTTGGGCCTTCT
106570571 TGCAGGTCTTGATCCTGTTATAACAAAGATGTCTTCCTCAATCTCTTCCTTTGATAAAGCTAT
66 TGCAGGTCTTGATCCTGTTATAACAAAGATGTCTTCCTCAATCTCTTCCTTTGATAAAGCTAT
106570634 CCAGAAATATTAATCCTTACATCAAGCTGTTTCTGAATATTCTTTGGCCTTTT-TTGGGCCTTCT
1 CCAGAAATATTAATCCTTACATCAAGCTGTTTCTGAATATTCTTTGGCCTTTTCTTGGGCCTTCT
106570698 TGCAGGTCTTGATCCTGTTATAACAAAGATGTCTTCCTCAATCTCTTCCTTTGATAAAGCTAT
66 TGCAGGTCTTGATCCTGTTATAACAAAGATGTCTTCCTCAATCTCTTCCTTTGATAAAGCTAT
106570761 CCAGAA
1 CCAGAA
106570767 CTTCCTTTTT
Statistics
Matches: 133, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
127 80 0.60
128 53 0.40
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (128 bp):
CCAGAAATATTAATCCTTACATCAAGCTGTTTCTGAATATTCTTTGGCCTTTTCTTGGGCCTTCT
TGCAGGTCTTGATCCTGTTATAACAAAGATGTCTTCCTCAATCTCTTCCTTTGATAAAGCTAT
Found at i:106572331 original size:19 final size:18
Alignment explanation
Indices: 106572304--106572339 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
106572294 AGTTTATTCA
*
106572304 TTGATTTATTTTAATATAT
1 TTGAATTATTTT-ATATAT
106572323 TTGAATTATTTTATATA
1 TTGAATTATTTTATATA
106572340 AAAAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (18 bp):
TTGAATTATTTTATATAT
Found at i:106573306 original size:29 final size:29
Alignment explanation
Indices: 106573269--106573325 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
106573259 ACATAAACAA
*
106573269 AAATGTAAATTAC-TTTTCTAAATAATTTG
1 AAATGTAAATTACATATT-TAAATAATTTG
* *
106573298 AAATTTAAATTTCATATTTAAATAATTT
1 AAATGTAAATTACATATTTAAATAATTT
106573326 CTAAATAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (29 bp):
AAATGTAAATTACATATTTAAATAATTTG
Found at i:106576102 original size:9 final size:9
Alignment explanation
Indices: 106576088--106576128 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
106576078 GCCATTAAAT
106576088 TTTTTATGA
1 TTTTTATGA
106576097 TTTTTATGA
1 TTTTTATGA
106576106 TTTTTATGAA
1 TTTTTATG-A
*
106576116 ATTTTAT-A
1 TTTTTATGA
106576124 TTTTT
1 TTTTT
106576129 TTATTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 5 0.17
9 17 0.59
10 7 0.24
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.68
Consensus pattern (9 bp):
TTTTTATGA
Found at i:106576129 original size:9 final size:10
Alignment explanation
Indices: 106576086--106576147 Score: 53
Period size: 9 Copynumber: 6.6 Consensus size: 10
106576076 GGGCCATTAA
106576086 ATTTTTTATG
1 ATTTTTTATG
106576096 A-TTTTTATG
1 ATTTTTTATG
106576105 A-TTTTTATG
1 ATTTTTTATG
**
106576114 AAATTTTAT-
1 ATTTTTTATG
106576123 ATTTTTT-T-
1 ATTTTTTATG
*
106576131 ATTTTTTTACG
1 A-TTTTTTATG
106576142 ATTTTT
1 ATTTTT
106576148 ATAAAAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
8 2 0.05
9 29 0.66
10 12 0.27
11 1 0.02
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (10 bp):
ATTTTTTATG
Found at i:106576421 original size:86 final size:88
Alignment explanation
Indices: 106576246--106576413 Score: 205
Period size: 86 Copynumber: 1.9 Consensus size: 88
106576236 AATTTTTAAT
* * *
106576246 AAGAGCAGGGGCTTAAATGCTTTTTTAAAAAATTTTGAGAGTATTTTTTATGCATTTTGAAAGTT
1 AAGAGCAAGGGCTTAAATGCTTTTTTAAAAAATTTTGAGAGCATTTTTGATGCATTTTGAAAGTT
* *
106576311 CAATACCCTATTGAGTAAAAAAA
66 CAATACCCAATTAAGTAAAAAAA
** * * * *
106576334 AAGAGCAAGGGCTT-AATTTTTTTTTAAGAAA-TTTGAGGGCCTTTTTGATGCATTTTGAAATTT
1 AAGAGCAAGGGCTTAAATGCTTTTTTAAAAAATTTTGAGAGCATTTTTGATGCATTTTGAAAGTT
*
106576397 CAAATACTCAATTAAGT
66 C-AATACCCAATTAAGT
106576414 TCAAAAAATA
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
86 28 0.42
87 26 0.39
88 13 0.19
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (88 bp):
AAGAGCAAGGGCTTAAATGCTTTTTTAAAAAATTTTGAGAGCATTTTTGATGCATTTTGAAAGTT
CAATACCCAATTAAGTAAAAAAA
Found at i:106579472 original size:15 final size:16
Alignment explanation
Indices: 106579444--106579476 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
106579434 TTATATTCCC
106579444 TTTTATTTGATTTTATT
1 TTTTATTT-ATTTTATT
106579461 TTTTATTT-TTTTATT
1 TTTTATTTATTTTATT
106579476 T
1 T
106579477 CAAAATTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (16 bp):
TTTTATTTATTTTATT
Found at i:106580637 original size:55 final size:55
Alignment explanation
Indices: 106580571--106580680 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
106580561 AAAAATAAGG
*
106580571 CACTAATCTTCAATTATACCTCTTGTCAAACTAAATGCACTTGTCAGTATCAATC
1 CACTAATCTTCAATTATACCTCTTGTCAAACTAAATGCACTTGTCAATATCAATC
*
106580626 CACTAATCTTCAATTATACCTCTTGTGAAACTAAATGCACTTGTCAATATCAATC
1 CACTAATCTTCAATTATACCTCTTGTCAAACTAAATGCACTTGTCAATATCAATC
106580681 TACTTCTTAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.34, C:0.25, G:0.07, T:0.35
Consensus pattern (55 bp):
CACTAATCTTCAATTATACCTCTTGTCAAACTAAATGCACTTGTCAATATCAATC
Found at i:106581652 original size:18 final size:17
Alignment explanation
Indices: 106581626--106581678 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
106581616 GAAACATTTA
*
106581626 TTTTAATGTTTTTATTAT-
1 TTTT-ATGTTTTT-TAATG
106581644 TTTTGATGTATTTTTAATG
1 TTTT-ATGT-TTTTTAATG
106581663 TTTTATGTTTTTTAAT
1 TTTTATGTTTTTTAAT
106581679 TAAAATTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 8 0.26
18 15 0.48
19 8 0.26
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (17 bp):
TTTTATGTTTTTTAATG
Found at i:106582289 original size:24 final size:25
Alignment explanation
Indices: 106582256--106582303 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
106582246 ACATTCTGTC
*
106582256 AAATATATGTACCACATT-GAAAAA
1 AAATACATGTACCACATTAGAAAAA
*
106582280 AAATACATGTATCACATTAGAAAA
1 AAATACATGTACCACATTAGAAAA
106582304 TAATGTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.54, C:0.12, G:0.08, T:0.25
Consensus pattern (25 bp):
AAATACATGTACCACATTAGAAAAA
Found at i:106583680 original size:3 final size:3
Alignment explanation
Indices: 106583672--106583698 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
106583662 AATAAAGTAC
106583672 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
106583699 GAGAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:106585479 original size:44 final size:44
Alignment explanation
Indices: 106585404--106585659 Score: 155
Period size: 44 Copynumber: 5.8 Consensus size: 44
106585394 TCGTAGCTTT
* * * *
106585404 AATCTGTTCCACTACAACTCCAGGGAA-ATAAGAATCGCATCTTC
1 AATCTGCTCCACTGCAACTTCA-GGAAGATAAGATTCGCATCTTC
* * * *
106585448 AATCTGCTCCACTGCAACTTCAAGAAGATAAGATTTGTAAC-TC
1 AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCATCTTC
* * *** * *
106585491 TAA-CTTGCTCCACTGCAACTTTAGGGAA-ATAAGGTTTATAGCTTT
1 -AATC-TGCTCCACTGCAACTTCA-GGAAGATAAGATTCGCATCTTC
* * *
106585536 AATCTGCTCTACTGCAACTTTA-GAGAGATAAGATTCGCTATCTTT
1 AATCTGCTCCACTGCAACTTCAGGA-AGATAAGATTCGC-ATCTTC
* * *** *
106585581 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGAAGATAAGA-TTCGCATCTTC
* * * *
106585625 AATCTACTCCATTGTAACTTCAGGGAGATAAGATT
1 AATCTGCTCCACTGCAACTTCAGGAAGATAAGATT
106585660 TGCCATAATA
Statistics
Matches: 170, Mismatches: 31, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
42 2 0.01
43 9 0.05
44 118 0.69
45 38 0.22
46 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCATCTTC
Found at i:106585624 original size:89 final size:89
Alignment explanation
Indices: 106585400--106585842 Score: 301
Period size: 89 Copynumber: 4.9 Consensus size: 89
106585390 TAACTCGTAG
* * * * * * *** *
106585400 CTTTAATCTGTTCCACTACAACTCCAGGGAAATAAGAATCGCATCTTCAATCTGCTCCACTGCAA
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTTAATCTGCTCCACTGCAA
*
106585465 CTTCA-AGAAGATAAGATTTG-TAA
66 CTTCAGAG-AGATAAGATTTGCTAT
* * * ** * * *
106585488 CTCTAA-CTTGCTCCACTGCAACTTTAGGGAAATAAGGTTTATAGCTTTAATCTGCTCTACTGCA
1 CTTTAATC-TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTTAATCTGCTCCACTGCA
* *
106585552 ACTTTAGAGAGATAAGATTCGCTAT
65 ACTTCAGAGAGATAAGATTTGCTAT
* * * *
106585577 CTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTTAATCTACTCCATTGTAA
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTTAATCTGCTCCACTGCAA
*
106585642 CTTCAGGGAGATAAGATTTGCCATAAT
66 CTTCAGAGAGATAAGATTTG-C-T-AT
* * * * *
106585669 AACTTCAAT-T-CATCCCACTGCAACTTCATGGGTA-A-GAGACTTGTGACTTCAATCTACTCCA
1 --CTTTAATCTGC-T-CCACTGCAACTTCA-GGG-AGATAAGACTTGTGGCTTTAATCTGCTCCA
* * *
106585730 CTACAACTTCAG-GTAGATAAAATTTGGTAT
60 CTGCAACTTCAGAG-AGATAAGATTTGCTAT
* * * * * * * * *
106585760 TTTTAACCTACTCTACTGCAGCTTCAGGAAGATAGGATTTGTGG-TTTCAATTTGCTCCACTGCA
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTT-AATCTGCTCCACTGCA
* *
106585824 ACTTTAGAGATATAAGATT
65 ACTTCAGAGAGATAAGATT
106585843 CACCATGATG
Statistics
Matches: 277, Mismatches: 58, Indels: 39
0.74 0.16 0.10
Matches are distributed among these distances:
87 2 0.01
88 70 0.25
89 122 0.44
90 5 0.02
91 4 0.01
92 4 0.01
93 3 0.01
94 62 0.22
95 4 0.01
96 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.32
Consensus pattern (89 bp):
CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTTAATCTGCTCCACTGCAA
CTTCAGAGAGATAAGATTTGCTAT
Found at i:106585635 original size:133 final size:132
Alignment explanation
Indices: 106585397--106585656 Score: 306
Period size: 133 Copynumber: 2.0 Consensus size: 132
106585387 TTTTAACTCG
* *
106585397 TAGCTTTAATCTGTTCCACTACAACTCCAGGGAAATAAGAATCGCATCTTCAATCTGCTCCACTG
1 TAGCTTTAATCTGCTCCACTACAACTCCAGAGAAATAAGAATCGCATCTTCAATCTGCTCCACTG
* * *
106585462 CAACTTCAAGAAGATAAGATTTGTAACTCTAACTTGCTCCACTGCAACTTTAGGGAAATAAGGTT
66 CAACTTCAAGAAGATAAGACTTGTAACTCTAACTTACTCCACTGCAACTTCAGGGAAATAAGGTT
106585527 TA
131 TA
* * ** * * * *
106585529 TAGCTTTAATCTGCTCTACTGCAACTTTAGAGAGATAAGATTCGCTATCTTTAGTCTGCTCCACT
1 TAGCTTTAATCTGCTCCACTACAACTCCAGAGAAATAAGAATCGC-ATCTTCAATCTGCTCCACT
* * ** * * * *
106585594 GCAACTTCAGGGAGATAAGACTTGTGGCTTTAA-TCTACTCCATTGTAACTTCAGGGAGATAAG
65 GCAACTTCAAGAAGATAAGACTTGTAACTCTAACT-TACTCCACTGCAACTTCAGGGAAATAAG
106585657 ATTTGCCATA
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
132 38 0.36
133 67 0.64
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (132 bp):
TAGCTTTAATCTGCTCCACTACAACTCCAGAGAAATAAGAATCGCATCTTCAATCTGCTCCACTG
CAACTTCAAGAAGATAAGACTTGTAACTCTAACTTACTCCACTGCAACTTCAGGGAAATAAGGTT
TA
Found at i:106586384 original size:44 final size:44
Alignment explanation
Indices: 106586283--106586396 Score: 124
Period size: 44 Copynumber: 2.6 Consensus size: 44
106586273 TTTAATTTGT
* *
106586283 TCCACTACAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGC
1 TCCACTACAACTTCAGGGAAATAAGATT-ACTAACTTCAGTCTAC
** * *
106586328 TCCACTGTAACTTTAGGGAAATAAGACTT-GTAACTTCA-TCCTAC
1 TCCACTACAACTTCAGGGAAATAAGA-TTACTAACTTCAGT-CTAC
*
106586372 TCCACTACAACTTCAGGGAGATAAG
1 TCCACTACAACTTCAGGGAAATAAG
106586397 GTTTGTGGCT
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
43 1 0.02
44 31 0.54
45 23 0.40
46 2 0.04
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (44 bp):
TCCACTACAACTTCAGGGAAATAAGATTACTAACTTCAGTCTAC
Found at i:106586516 original size:94 final size:94
Alignment explanation
Indices: 106586413--106586596 Score: 226
Period size: 94 Copynumber: 2.0 Consensus size: 94
106586403 GGCTTTAATT
* * * *
106586413 TGCTCCACTGCAACTTTAGGAAGATAAGATTCACCATGATAACTTTAATCCGTCCCACTGCCAT-
1 TGCTCCACTGCAACTTCAGGAAGATAAGATTCACCATAATAACTTTAATCCATCCCACT-ACATC
* *
106586477 TTTAGGGGTGTAGGATTAGTGGTTTCAATA
65 TTTAGAGGTATAGGATTAGTGGTTTCAATA
* ** * * *
106586507 TGCTCCACTGCATCTTCAGGGGGATAAGATTCGCCATAATGATTTTAATCCATCCCACTACATCT
1 TGCTCCACTGCAACTTCAGGAAGATAAGATTCACCATAATAACTTTAATCCATCCCACTACATCT
**
106586572 TTAGAGGTATAGGATTTTTGGTTTC
66 TTAGAGGTATAGGATTAGTGGTTTC
106586597 TCTGATCTTT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
93 3 0.04
94 72 0.96
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.34
Consensus pattern (94 bp):
TGCTCCACTGCAACTTCAGGAAGATAAGATTCACCATAATAACTTTAATCCATCCCACTACATCT
TTAGAGGTATAGGATTAGTGGTTTCAATA
Found at i:106587345 original size:15 final size:15
Alignment explanation
Indices: 106587296--106587347 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
106587286 TTTGGCCTCC
* *
106587296 TTTTTCTTTTTCTTCT
1 TTTTTGTTTTTGTT-T
106587312 TTTTTGTTTTTGTTT
1 TTTTTGTTTTTGTTT
106587327 TTTTTGTTTTT-TTT
1 TTTTTGTTTTTGTTT
*
106587341 ATTTTGT
1 TTTTTGT
106587348 AGTGAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
14 9 0.27
15 12 0.36
16 12 0.36
ACGTcount: A:0.02, C:0.06, G:0.08, T:0.85
Consensus pattern (15 bp):
TTTTTGTTTTTGTTT
Found at i:106591037 original size:47 final size:47
Alignment explanation
Indices: 106590975--106591100 Score: 157
Period size: 47 Copynumber: 2.7 Consensus size: 47
106590965 CTTTACATAA
* * * *
106590975 TGATGCCATAGCCCAGCTATGGT-TT-TACACGTAATCACATATCTCAC
1 TGATGCCATATCCCAGATATGGTCTTATACA-GT-AGCACATATCACAC
* *
106591022 TGATGTCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCACATATCACAC
*
106591069 CGATGCCATATCCCAGATATGGTCTTATACAG
1 TGATGCCATATCCCAGATATGGTCTTATACAG
106591101 AAATCACTTG
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
47 61 0.88
48 4 0.06
49 4 0.06
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (47 bp):
TGATGCCATATCCCAGATATGGTCTTATACAGTAGCACATATCACAC
Found at i:106591159 original size:31 final size:31
Alignment explanation
Indices: 106591124--106591330 Score: 288
Period size: 31 Copynumber: 6.7 Consensus size: 31
106591114 CTTGTCACTT
* *
106591124 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* ** * *
106591155 GTAGCTGGTGCTACCATTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
106591186 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
106591217 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
106591248 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
106591279 GTAGCTGAAACTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
106591310 GTAGCTGAAGCTACCACTTTT
1 GTAGCCGAAGCTACCACTTTT
106591331 TAGTTGTCAT
Statistics
Matches: 156, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 156 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:106591435 original size:57 final size:50
Alignment explanation
Indices: 106591310--106591486 Score: 230
Period size: 50 Copynumber: 3.5 Consensus size: 50
106591300 CACTGATCAG
* * * * * *
106591310 GTAGCTGAAGCTACCACTTTTTAGTTGTCATTTG-CCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTAATCAGATAAGT
*
106591361 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTAATCAGATAAGT
* * *
106591411 GTAGCCGAAGTTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTAATCAGATAAGT
*
106591461 GTAGCCGAAGCTATCATTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
106591487 GTTTCCATGG
Statistics
Matches: 111, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
50 88 0.79
51 23 0.21
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTAATCAGATAAGT
Found at i:106595821 original size:47 final size:47
Alignment explanation
Indices: 106595759--106595884 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 47
106595749 CTTTACATAA
* * * *
106595759 TGATGCCATAGCCCAGCTATGGTCTTACAC-GTAATCACATATCTCAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGT-AGCACATATCACAC
* * *
106595806 TGATGTCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGTAGCACATATCACAC
* *
106595853 CGATGCCATATCCCAGATATGGTCTTATACAG
1 TGATGCCATATCCCAGATATGGTCTTACACAG
106595885 AAATCACTTG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
47 67 0.97
48 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (47 bp):
TGATGCCATATCCCAGATATGGTCTTACACAGTAGCACATATCACAC
Found at i:106597295 original size:46 final size:46
Alignment explanation
Indices: 106597245--106597420 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
106597235 TGGTTGAGCA
106597245 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
106597291 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
106597336 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
106597384 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
106597421 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:106597401 original size:93 final size:93
Alignment explanation
Indices: 106597242--106597413 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
106597232 GGATGGTTGA
* * *
106597242 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
106597307 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
106597335 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
106597400 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
106597414 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:106598770 original size:31 final size:31
Alignment explanation
Indices: 106598727--106598895 Score: 266
Period size: 31 Copynumber: 5.5 Consensus size: 31
106598717 CGTTACAGGT
* *
106598727 GCTACCATTTTTCACTGATCAGGTAGCCGGA
1 GCTACCACTTTTCACTGATCAGGTAGCCGAA
106598758 GCTACCACTTTTCACTGATCAGGTAGCCGAA
1 GCTACCACTTTTCACTGATCAGGTAGCCGAA
* *
106598789 GCTACCACTTTTCACTGATTAGGTAGCAGAA
1 GCTACCACTTTTCACTGATCAGGTAGCCGAA
* *
106598820 GCTACCACTTTTCACTGATCAGGCAGCTGAA
1 GCTACCACTTTTCACTGATCAGGTAGCCGAA
* *
106598851 ACTACCACTTTTCACTGATCAGGTAGCTGAA
1 GCTACCACTTTTCACTGATCAGGTAGCCGAA
106598882 GCTACCACTTTTCA
1 GCTACCACTTTTCA
106598896 GTTGTCATTT
Statistics
Matches: 128, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 128 1.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.28
Consensus pattern (31 bp):
GCTACCACTTTTCACTGATCAGGTAGCCGAA
Found at i:106598979 original size:50 final size:50
Alignment explanation
Indices: 106598873--106599049 Score: 248
Period size: 50 Copynumber: 3.5 Consensus size: 50
106598863 CACTGATCAG
* * * *
106598873 GTAGCTGAAGCTACCACTTTTCAGTTGTCATTTG-CCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTGATCAGATAAGT
* * *
106598924 TTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
106598974 GTAGCCGAAGTTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
106599024 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
106599050 GTTTCTATGG
Statistics
Matches: 111, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
50 88 0.79
51 23 0.21
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:106602122 original size:5 final size:5
Alignment explanation
Indices: 106602112--106602140 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
106602102 GCAATTACAG
106602112 ACAAA ACAAA ACAAA ACAAA ACAAA ACAA
1 ACAAA ACAAA ACAAA ACAAA ACAAA ACAA
106602141 GTCAGTATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (5 bp):
ACAAA
Found at i:106603673 original size:3 final size:3
Alignment explanation
Indices: 106603665--106603725 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
106603655 AATAAAGTAC
106603665 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
106603713 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
106603726 AACGAAATAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:106603783 original size:18 final size:21
Alignment explanation
Indices: 106603751--106603801 Score: 67
Period size: 19 Copynumber: 2.7 Consensus size: 21
106603741 CAAATGCCCG
106603751 AAAGAAA-AA-AAAC-AAAAT
1 AAAGAAATAATAAACAAAAAT
106603769 AAA-AAAT-ATAAACAAAAAT
1 AAAGAAATAATAAACAAAAAT
106603788 AAAGAAATAATAAA
1 AAAGAAATAATAAA
106603802 TAAGCAACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 4 0.14
18 7 0.25
19 8 0.29
20 4 0.14
21 5 0.18
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.12
Consensus pattern (21 bp):
AAAGAAATAATAAACAAAAAT
Found at i:106604040 original size:17 final size:19
Alignment explanation
Indices: 106604018--106604056 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
106604008 TCGAAGAACC
*
106604018 AAATTAAA-AGTGAAA-TA
1 AAATTAAAGAGTCAAATTA
106604035 AAATTAAAGAGTCAAATTA
1 AAATTAAAGAGTCAAATTA
106604054 AAA
1 AAA
106604057 AAAAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 6 0.32
19 5 0.26
ACGTcount: A:0.64, C:0.03, G:0.10, T:0.23
Consensus pattern (19 bp):
AAATTAAAGAGTCAAATTA
Found at i:106605344 original size:18 final size:18
Alignment explanation
Indices: 106605321--106605363 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
106605311 GAATAGGTTT
106605321 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
106605339 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
106605357 TTAATTA
1 TTAATTA
106605364 CACCTTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:106605624 original size:30 final size:30
Alignment explanation
Indices: 106605588--106605675 Score: 131
Period size: 30 Copynumber: 2.9 Consensus size: 30
106605578 TAATATGAGA
* *
106605588 CAAACAAAAATGACCATTTTTGTAATTTGG
1 CAAACAAAAATGACTATTTTTATAATTTGG
* *
106605618 TAAACAAAAATGACTATTTTTATAATCTGG
1 CAAACAAAAATGACTATTTTTATAATTTGG
*
106605648 CAAACTAAAATGACTATTTTTATAATTT
1 CAAACAAAAATGACTATTTTTATAATTT
106605676 ATATTAATTT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (30 bp):
CAAACAAAAATGACTATTTTTATAATTTGG
Found at i:106612532 original size:33 final size:33
Alignment explanation
Indices: 106612494--106612560 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
106612484 ACAATTGCAA
*
106612494 GTTTAACACATATATATAAATGCGTAGAATCAG
1 GTTTAACACATATATATAAATGCATAGAATCAG
106612527 GTTTAACACATATATATAAATGCATAGAATCAG
1 GTTTAACACATATATATAAATGCATAGAATCAG
106612560 G
1 G
106612561 ATCTATCAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (33 bp):
GTTTAACACATATATATAAATGCATAGAATCAG
Found at i:106614223 original size:22 final size:23
Alignment explanation
Indices: 106614198--106614243 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
106614188 CAACCAATCC
* *
106614198 AATTCA-ACATATTTTTAAGATA
1 AATTCATACATATTTATAAAATA
*
106614220 AATTCATGCATATTTATAAAATA
1 AATTCATACATATTTATAAAATA
106614243 A
1 A
106614244 CGTCATCACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (23 bp):
AATTCATACATATTTATAAAATA
Found at i:106614249 original size:23 final size:23
Alignment explanation
Indices: 106614205--106614249 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
106614195 TCCAATTCAA
* * *
106614205 CATATTTTTAAGATAAATTCATG
1 CATATTTATAAAATAAAGTCATG
*
106614228 CATATTTATAAAATAACGTCAT
1 CATATTTATAAAATAAAGTCAT
106614250 CACATACCCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (23 bp):
CATATTTATAAAATAAAGTCATG
Found at i:106617210 original size:21 final size:21
Alignment explanation
Indices: 106617159--106617250 Score: 71
Period size: 21 Copynumber: 4.4 Consensus size: 21
106617149 AGGCTGCACT
* * *
106617159 GAAGCACATAAGTGTTAAATG
1 GAAGCTCATAAGGGTTAAACG
* *
106617180 GAAACCCATAAGGGTTAAACG
1 GAAGCTCATAAGGGTTAAACG
*
106617201 GAAGCTCAT-AGGAGTTGAACG
1 GAAGCTCATAAGG-GTTAAACG
* * *
106617222 GAAAGC-CATAAGGGCTAATCT
1 G-AAGCTCATAAGGGTTAAACG
106617243 GAAGCTCA
1 GAAGCTCA
106617251 AAAGAGCTAA
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
20 7 0.12
21 42 0.75
22 7 0.12
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.18
Consensus pattern (21 bp):
GAAGCTCATAAGGGTTAAACG
Found at i:106617259 original size:21 final size:21
Alignment explanation
Indices: 106617235--106617289 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
106617225 AGCCATAAGG
* * *
106617235 GCTAATCTGAAGCTCAAAAGA
1 GCTAAACTGAAACCCAAAAGA
*
106617256 GCTAAACTGAAACCCAAAAGG
1 GCTAAACTGAAACCCAAAAGA
* *
106617277 GTTGAACTGAAAC
1 GCTAAACTGAAAC
106617290 TTATATGAGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.44, C:0.20, G:0.20, T:0.16
Consensus pattern (21 bp):
GCTAAACTGAAACCCAAAAGA
Found at i:106617287 original size:42 final size:41
Alignment explanation
Indices: 106617156--106617287 Score: 111
Period size: 42 Copynumber: 3.1 Consensus size: 41
106617146 TGAAGGCTGC
* * * * *
106617156 ACTGAAGCACATAAGTGTTAAATGGAAACCCATAAGGGTTAA
1 ACTGAAGCTCAAAAGAGCTAAACGGAAACCCATAAGGGTT-A
* * * * * * *
106617198 ACGGAAGCTCATAGGAGTTGAACGGAAAGCCATAAGGGCTA
1 ACTGAAGCTCAAAAGAGCTAAACGGAAACCCATAAGGGTTA
* *
106617239 ATCTGAAGCTCAAAAGAGCTAAACTGAAACCCAAAAGGGTTGA
1 A-CTGAAGCTCAAAAGAGCTAAACGGAAACCCATAAGGGTT-A
106617282 ACTGAA
1 ACTGAA
106617288 ACTTATATGA
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
41 2 0.03
42 67 0.94
43 2 0.03
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.17
Consensus pattern (41 bp):
ACTGAAGCTCAAAAGAGCTAAACGGAAACCCATAAGGGTTA
Found at i:106620005 original size:47 final size:47
Alignment explanation
Indices: 106619874--106620006 Score: 149
Period size: 47 Copynumber: 2.8 Consensus size: 47
106619864 CGTTGGCAGT
* * * * *
106619874 TCATCTATTCGACCAATGGTTTATCCACAATGGATTTCAGTCGGCAA
1 TCATCTGTTCGACCAATGGTTTATCCACAATGTATTTTAATCGCCAA
* * * * * *
106619921 TCATCTGCTCGACCAATTGTTCATCCACAACGTATTTTAATTGCCAG
1 TCATCTGTTCGACCAATGGTTTATCCACAATGTATTTTAATCGCCAA
* *
106619968 TCATCTGTTCGGCCAGTGGTTTATCCACAATGTATTTTA
1 TCATCTGTTCGACCAATGGTTTATCCACAATGTATTTTA
106620007 GTTGATCTGC
Statistics
Matches: 69, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (47 bp):
TCATCTGTTCGACCAATGGTTTATCCACAATGTATTTTAATCGCCAA
Found at i:106625801 original size:14 final size:14
Alignment explanation
Indices: 106625782--106625820 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
106625772 AACCTAATTG
* *
106625782 TGCAAGTTGTTATT
1 TGCAAGTTGTGATA
106625796 TGCAAGTTGTGATA
1 TGCAAGTTGTGATA
106625810 TGCAAGTTGTG
1 TGCAAGTTGTG
106625821 CAAGTTGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.23, C:0.08, G:0.28, T:0.41
Consensus pattern (14 bp):
TGCAAGTTGTGATA
Found at i:106629188 original size:14 final size:14
Alignment explanation
Indices: 106629167--106629207 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
106629157 CTTACCTAAT
106629167 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
*
106629181 TTTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
106629195 TGTGCAAGTTGTG
1 TGTGCAAGTTGTG
106629208 CAAGTTGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.20, C:0.07, G:0.34, T:0.39
Consensus pattern (14 bp):
TGTGCAAGTTGTGA
Found at i:106640528 original size:23 final size:23
Alignment explanation
Indices: 106640498--106640544 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
106640488 AGTAGTAGCA
*
106640498 TCAACAATTACTGAATCTCAAAG
1 TCAACAATTACTAAATCTCAAAG
106640521 TCAACAATTACTAAATCTCAAAG
1 TCAACAATTACTAAATCTCAAAG
106640544 T
1 T
106640545 TGAACAGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.21, G:0.06, T:0.28
Consensus pattern (23 bp):
TCAACAATTACTAAATCTCAAAG
Found at i:106641618 original size:10 final size:10
Alignment explanation
Indices: 106641603--106641651 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
106641593 TATTTTAGCT
106641603 TTTATCTTTA
1 TTTATCTTTA
*
106641613 TTTATCCTTA
1 TTTATCTTTA
*
106641623 ATTATCTTTA
1 TTTATCTTTA
* * *
106641633 ATTATATGTA
1 TTTATCTTTA
106641643 TTTATCTTT
1 TTTATCTTT
106641652 TAGAATTTAA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:106642563 original size:40 final size:41
Alignment explanation
Indices: 106642519--106642609 Score: 98
Period size: 41 Copynumber: 2.2 Consensus size: 41
106642509 ATTATTTTAA
106642519 TTTTAATTTTCA-AAATTTC-AATCAAAACTTTTAATTCTGT
1 TTTTAATTTT-ATAAATTTCAAATCAAAACTTTTAATTCTGT
*** *
106642559 TTTT-ATTTTATTTTTTTCTAAATCAAAACTTTTAATTCTTT
1 TTTTAATTTTATAAATTTC-AAATCAAAACTTTTAATTCTGT
*
106642600 TTTTATTTTT
1 TTTTAATTTT
106642610 TTCCCAGGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
38 1 0.02
39 9 0.21
40 4 0.10
41 24 0.57
42 4 0.10
ACGTcount: A:0.29, C:0.10, G:0.01, T:0.60
Consensus pattern (41 bp):
TTTTAATTTTATAAATTTCAAATCAAAACTTTTAATTCTGT
Found at i:106642608 original size:36 final size:38
Alignment explanation
Indices: 106642538--106642612 Score: 109
Period size: 41 Copynumber: 1.9 Consensus size: 38
106642528 TCAAAATTTC
106642538 AATCAAAACTTTTAATTCTGTTTTTATTTTATTTTTTTCTA
1 AATCAAAACTTTTAATTC---TTTTATTTTATTTTTTTCTA
106642579 AATCAAAACTTTTAATTC-TTT-TTTTATTTTTTTC
1 AATCAAAACTTTTAATTCTTTTATTTTATTTTTTTC
106642613 CCAGGTACGC
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
36 13 0.38
37 3 0.09
41 18 0.53
ACGTcount: A:0.27, C:0.11, G:0.01, T:0.61
Consensus pattern (38 bp):
AATCAAAACTTTTAATTCTTTTATTTTATTTTTTTCTA
Found at i:106645489 original size:15 final size:15
Alignment explanation
Indices: 106645469--106645553 Score: 50
Period size: 15 Copynumber: 5.4 Consensus size: 15
106645459 AGGCAACCCA
106645469 ATTTTTATTTTCTTT
1 ATTTTTATTTTCTTT
*
106645484 ATTTTTATTATATTATATT
1 ATTTTTA-T-T-TTCT-TT
*
106645503 ATTATTTATTGTC-TT
1 ATT-TTTATTTTCTTT
*
106645518 A-TTTTATTTTATTTT
1 ATTTTTATTTT-CTTT
*
106645533 ATTATTTA-TTACTTT
1 ATT-TTTATTTTCTTT
106645548 ATTTTT
1 ATTTTT
106645554 GGATATTGAT
Statistics
Matches: 54, Mismatches: 7, Indels: 19
0.68 0.09 0.24
Matches are distributed among these distances:
13 7 0.13
14 4 0.07
15 19 0.35
16 4 0.07
17 6 0.11
18 4 0.07
19 6 0.11
20 4 0.07
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.73
Consensus pattern (15 bp):
ATTTTTATTTTCTTT
Found at i:106645550 original size:30 final size:30
Alignment explanation
Indices: 106645491--106645552 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
106645481 TTTATTTTTA
*
106645491 TTATATTATATTATTATTTATTGTCTTATT
1 TTATATTATATTATTATTTATTCTCTTATT
* *
106645521 TTATTTTATTTTATTATTTATTACT-TTATT
1 TTATATTATATTATTATTTATT-CTCTTATT
106645551 TT
1 TT
106645553 TGGATATTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (30 bp):
TTATATTATATTATTATTTATTCTCTTATT
Found at i:106645551 original size:20 final size:19
Alignment explanation
Indices: 106645481--106645552 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 19
106645471 TTTTATTTTC
*
106645481 TTTATT-TTTATTATATTA
1 TTTATTATTTATTTTATTA
* *
106645499 TATTATTATTTATTGTCTTA
1 T-TTATTATTTATTTTATTA
106645519 -TT-TTATTTTATTTTATTA
1 TTTATTA-TTTATTTTATTA
106645537 TTTATTACTTTATTTT
1 TTTATTA-TTTATTTT
106645553 TGGATATTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
17 3 0.07
18 13 0.30
19 7 0.16
20 21 0.48
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (19 bp):
TTTATTATTTATTTTATTA
Found at i:106647493 original size:23 final size:23
Alignment explanation
Indices: 106647463--106647513 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
106647453 GCCAAAAATA
106647463 CAAAATGTGAAAGATTTTGGGAG
1 CAAAATGTGAAAGATTTTGGGAG
* *
106647486 CAAAATGTGGAAGATTTTGGGTG
1 CAAAATGTGAAAGATTTTGGGAG
106647509 CAAAA
1 CAAAA
106647514 ATGCAAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.39, C:0.06, G:0.29, T:0.25
Consensus pattern (23 bp):
CAAAATGTGAAAGATTTTGGGAG
Found at i:106647523 original size:24 final size:23
Alignment explanation
Indices: 106647463--106647523 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
106647453 GCCAAAAATA
**
106647463 CAAAATGTGAAAGATTTTGGGAG
1 CAAAATGCAAAAGATTTTGGGAG
*** *
106647486 CAAAATGTGGAAGATTTTGGGTG
1 CAAAATGCAAAAGATTTTGGGAG
106647509 CAAAAATGCAAAAGA
1 C-AAAATGCAAAAGA
106647524 AGAGATTTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 22 0.69
24 10 0.31
ACGTcount: A:0.43, C:0.07, G:0.28, T:0.23
Consensus pattern (23 bp):
CAAAATGCAAAAGATTTTGGGAG
Found at i:106649880 original size:15 final size:16
Alignment explanation
Indices: 106649852--106649890 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
106649842 TCACATTGAA
*
106649852 GTGTTTTTCGAAAACC
1 GTGTTTTTCAAAAACC
106649868 GTGTTTTTCAAAAACC
1 GTGTTTTTCAAAAACC
*
106649884 ATGTTTT
1 GTGTTTT
106649891 CATTGAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (16 bp):
GTGTTTTTCAAAAACC
Done.