Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 194 of 226
Found at i:61734545 original size:102 final size:102
Alignment explanation
Indices: 61734450--61734635 Score: 318
Period size: 102 Copynumber: 1.8 Consensus size: 102
61734440 TGCTATGTGT
* ** *
61734450 TGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTGCACCGTATCTTAAATGTGAAGGGGGT
1 TGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGT
61734515 TGCTAAGTGCTGAATCCCCCGAGGGCTTGCTAAGTAC
66 TGCTAAGTGCTGAATCCCCCGAGGGCTTGCTAAGTAC
*
61734552 TGATTCCCCGAATCATTGGTGGTTGCTAAGTGTTGATCCCACCGTATCTTAAATGTGAAAGGGGT
1 TGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGT
*
61734617 TGCTAAGTGCTGATTCCCC
66 TGCTAAGTGCTGAATCCCC
61734636 GACTCATTGG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 78 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (102 bp):
TGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGT
TGCTAAGTGCTGAATCCCCCGAGGGCTTGCTAAGTAC
Found at i:61734633 original size:177 final size:177
Alignment explanation
Indices: 61734330--61734662 Score: 560
Period size: 177 Copynumber: 1.9 Consensus size: 177
61734320 ATTGAATATA
* * *
61734330 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTCTTGATTCCCCGATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGAATCCCCCAAGGGCTTGCTAAGTCTTGATTCCCCGAATCATTGGT
* * *
61734395 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGGGGTTGCTATGTGTTGATTCCCCG
66 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
* *
61734460 ATTCATTGGTGGTTGCTAAGTGCTGATTGCACCGTATCTTAAATGTG
131 ACTCATTGGCGGTTGCTAAGTGCTGATTGCACCGTATCTTAAATGTG
*
61734507 AAGGGGGTTGCTAAGTGCTGAATCCCCCGAGGGCTTGCTAAGTAC-TGATTCCCCGAATCATTGG
1 AAGGGGGTTGCTAAGTGCTGAATCCCCCAAGGGCTTGCTAAGT-CTTGATTCCCCGAATCATTGG
*
61734571 TGGTTGCTAAGTGTTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
65 TGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
61734636 GACTCATTGGCGGTTGCTAAGTGCTGA
130 GACTCATTGGCGGTTGCTAAGTGCTGA
61734663 ATCCACCGAT
Statistics
Matches: 145, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
177 144 0.99
178 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (177 bp):
AAGGGGGTTGCTAAGTGCTGAATCCCCCAAGGGCTTGCTAAGTCTTGATTCCCCGAATCATTGGT
GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
ACTCATTGGCGGTTGCTAAGTGCTGATTGCACCGTATCTTAAATGTG
Found at i:61741733 original size:12 final size:12
Alignment explanation
Indices: 61741718--61741751 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
61741708 TTATTTTTCT
61741718 TTACTTTATTTA
1 TTACTTTATTTA
61741730 TTACTTTATTTTA
1 TTACTTTA-TTTA
61741743 TTA-TTTATT
1 TTACTTTATT
61741752 ACTTATTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 2 0.10
12 12 0.57
13 7 0.33
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (12 bp):
TTACTTTATTTA
Found at i:61741742 original size:17 final size:15
Alignment explanation
Indices: 61741701--61741744 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
61741691 CAACCCAATT
61741701 TTTATTATTATTTTTC
1 TTTATT-TTATTTTTC
*
61741717 TTTACTTTATTTATTAC
1 TTTATTTTATTT-TT-C
61741734 TTTATTTTATT
1 TTTATTTTATT
61741745 ATTTATTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.25
16 7 0.29
17 11 0.46
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTATTTTATTTTTC
Found at i:61742777 original size:14 final size:13
Alignment explanation
Indices: 61742757--61742800 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 13
61742747 CCTAAAGCAT
61742757 AAAAAAAACAAAA
1 AAAAAAAACAAAA
61742770 ACAAAAAAACAAAA
1 A-AAAAAAACAAAA
*
61742784 AAAAAGAAAGAAAA
1 AAAAA-AAACAAAA
61742798 AAA
1 AAA
61742801 TAATTTGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 5 0.18
14 23 0.82
ACGTcount: A:0.89, C:0.07, G:0.05, T:0.00
Consensus pattern (13 bp):
AAAAAAAACAAAA
Found at i:61742787 original size:23 final size:22
Alignment explanation
Indices: 61742757--61742800 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
61742747 CCTAAAGCAT
61742757 AAAAAAAACAAAAACAAAAAAAC
1 AAAAAAAA-AAAAACAAAAAAAC
* *
61742780 AAAAAAAAAGAAAGAAAAAAA
1 AAAAAAAAAAAAACAAAAAAA
61742801 TAATTTGGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.89, C:0.07, G:0.05, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAAAACAAAAAAAC
Found at i:61748574 original size:30 final size:30
Alignment explanation
Indices: 61748517--61748574 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
61748507 AGCTTAGGGA
**
61748517 CAAAAGTGTAAATATTCAAAAGTTTGGGGG
1 CAAAAGTGTAAATATTCAAAAAATTGGGGG
* * *
61748547 CAAAATTGTAATTCTTCAAAAAATTGGG
1 CAAAAGTGTAAATATTCAAAAAATTGGG
61748575 TGGAGGACTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (30 bp):
CAAAAGTGTAAATATTCAAAAAATTGGGGG
Found at i:61748969 original size:33 final size:33
Alignment explanation
Indices: 61748932--61749050 Score: 105
Period size: 33 Copynumber: 3.3 Consensus size: 33
61748922 TCCCCCAAGG
61748932 GGTTGCTAAGTCTTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTCTTGATTCCCCGATTCATTGGT
* *
61748965 GGTTGCTAAGTGC-TGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGT-CTTGATTCC-CCG-A--TT-CAT-TG---GT
* *
61749007 GGTTGCTATGTGTTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTCTTGATTCCCCGATTCATTGGT
61749040 GGTTGCTAAGT
1 GGTTGCTAAGT
61749051 GCTGATTGCA
Statistics
Matches: 68, Mismatches: 7, Indels: 22
0.70 0.07 0.23
Matches are distributed among these distances:
33 29 0.43
34 4 0.06
35 1 0.01
36 2 0.03
37 4 0.06
38 4 0.06
39 2 0.03
40 1 0.01
41 3 0.04
42 18 0.26
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (33 bp):
GGTTGCTAAGTCTTGATTCCCCGATTCATTGGT
Found at i:61749024 original size:42 final size:41
Alignment explanation
Indices: 61748965--61749097 Score: 147
Period size: 42 Copynumber: 3.4 Consensus size: 41
61748955 ATTCATTGGT
61748965 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG-AAGG
* * * *
61749007 GGTTGCTATGTGTTGATTCC-CCG-A--TT-CAT-TG--GT
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGG
*
61749040 GGTTGCTAAGTGCTGATTGCACCGTATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAA-GG
61749082 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
61749098 ATCCCCCGAG
Statistics
Matches: 73, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
33 18 0.25
34 3 0.04
35 1 0.01
36 2 0.03
37 4 0.05
38 4 0.05
39 2 0.03
40 1 0.01
41 3 0.04
42 35 0.48
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGG
Found at i:61749051 original size:75 final size:75
Alignment explanation
Indices: 61748928--61749103 Score: 298
Period size: 75 Copynumber: 2.3 Consensus size: 75
61748918 TGATTCCCCC
*
61748928 AAGGGGTTGCTAAGTCTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
61748993 TTAAATGTGA
66 TTAAATGTGA
* *
61749003 AAGGGGTTGCTATGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTGCACCGTATC
1 AAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
61749068 TTAAATGTGA
66 TTAAATGTGA
* * *
61749078 AGGGGGTTGCTAAGTGCTGAATCCCC
1 AAGGGGTTGCTAAGTGTTGATTCCCC
61749104 CGAGGGCTTG
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 94 1.00
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTAAATGTGA
Found at i:61749115 original size:102 final size:102
Alignment explanation
Indices: 61749020--61749205 Score: 318
Period size: 102 Copynumber: 1.8 Consensus size: 102
61749010 TGCTATGTGT
* ** *
61749020 TGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTGCACCGTATCTTAAATGTGAAGGGGGT
1 TGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGT
61749085 TGCTAAGTGCTGAATCCCCCGAGGGCTTGCTAAGTAC
66 TGCTAAGTGCTGAATCCCCCGAGGGCTTGCTAAGTAC
*
61749122 TGATTCCCCGAATCATTGGTGGTTGCTAAGTGTTGATCCCACCGTATCTTAAATGTGAAAGGGGT
1 TGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGT
*
61749187 TGCTAAGTGCTGATTCCCC
66 TGCTAAGTGCTGAATCCCC
61749206 GACTCATTGG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 78 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (102 bp):
TGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGT
TGCTAAGTGCTGAATCCCCCGAGGGCTTGCTAAGTAC
Found at i:61749203 original size:177 final size:177
Alignment explanation
Indices: 61748900--61749232 Score: 542
Period size: 177 Copynumber: 1.9 Consensus size: 177
61748890 ATTGAATATA
* * *
61748900 AAGGGGGTTGCTAAGTACTGATTCCCCCAAGGGGTTGCTAAGTCTTGATTCCCCGATTCATTGGT
1 AAGGGGGTTGCTAAGTACTGAATCCCCCAAGGGCTTGCTAAGTCTTGATTCCCCGAATCATTGGT
* * *
61748965 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGGGGTTGCTATGTGTTGATTCCCCG
66 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
* *
61749030 ATTCATTGGTGGTTGCTAAGTGCTGATTGCACCGTATCTTAAATGTG
131 ACTCATTGGCGGTTGCTAAGTGCTGATTGCACCGTATCTTAAATGTG
* *
61749077 AAGGGGGTTGCTAAGTGCTGAATCCCCCGAGGGCTTGCTAAGTAC-TGATTCCCCGAATCATTGG
1 AAGGGGGTTGCTAAGTACTGAATCCCCCAAGGGCTTGCTAAGT-CTTGATTCCCCGAATCATTGG
*
61749141 TGGTTGCTAAGTGTTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
65 TGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
*
61749206 GACTCATTGGCGGTTGTTAAGTGCTGA
130 GACTCATTGGCGGTTGCTAAGTGCTGA
61749233 ATCCACCGAT
Statistics
Matches: 143, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
177 142 0.99
178 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (177 bp):
AAGGGGGTTGCTAAGTACTGAATCCCCCAAGGGCTTGCTAAGTCTTGATTCCCCGAATCATTGGT
GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
ACTCATTGGCGGTTGCTAAGTGCTGATTGCACCGTATCTTAAATGTG
Found at i:61754184 original size:65 final size:64
Alignment explanation
Indices: 61754114--61754273 Score: 216
Period size: 63 Copynumber: 2.5 Consensus size: 64
61754104 AATATATATA
* *
61754114 TATATATATACATGTGGTTCGAATGTATGTTTC-AATTTCTTTGAGTTGAATTTAATGTTATGAA
1 TATATATATA-ATGTGGTTCGAATGTATGTTTCAAATTT-TTTGAGCTGAACTTAATGTTATGAA
61754178 T
64 T
* * *
61754179 TATATATAT-ATGAGGTTCGAATGTATGTTACAAATTTTTTTAGCTGAACTTAATGTTATGAAT
1 TATATATATAATGTGGTTCGAATGTATGTTTCAAATTTTTTGAGCTGAACTTAATGTTATGAAT
* *
61754242 TATATATATATATGTGGTTAGAATGTGTGTTT
1 TATATATATA-ATGTGGTTCGAATGTATGTTT
61754274 GCTATGAAGA
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
63 52 0.63
64 5 0.06
65 26 0.31
ACGTcount: A:0.31, C:0.05, G:0.17, T:0.47
Consensus pattern (64 bp):
TATATATATAATGTGGTTCGAATGTATGTTTCAAATTTTTTGAGCTGAACTTAATGTTATGAAT
Found at i:61759564 original size:54 final size:54
Alignment explanation
Indices: 61759501--61759724 Score: 290
Period size: 54 Copynumber: 4.1 Consensus size: 54
61759491 TCTAACAGTC
*
61759501 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATG-GTGTTATTTTGGTT
1 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAG-GGTATTTTGGTT
* * **
61759555 ATTTTACCCTATGGGGTTATTTCGATCATTTTACCCTATGAGGTTATTTCAGTT
1 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTTGGTT
* * * * * *
61759609 ATTTTACCTTATGGGAGTATTTCGGTCATTTTACCTTAT-AGGGGTACTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGA-GGGTATTTTGGTT
** *
61759663 ATTTTACCCTATATGGGTATTTCAATCATTTTACCCTATGAGGGTATTTTGGTT
1 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTTGGTT
61759717 ATTTTACC
1 ATTTTACC
61759725 TATTTTGGGG
Statistics
Matches: 145, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 142 0.98
55 2 0.01
ACGTcount: A:0.20, C:0.16, G:0.18, T:0.46
Consensus pattern (54 bp):
ATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTTGGTT
Found at i:61759640 original size:81 final size:80
Alignment explanation
Indices: 61759499--61759724 Score: 271
Period size: 81 Copynumber: 2.8 Consensus size: 80
61759489 GGTCTAACAG
* *
61759499 TCATTTTACCCTATGGGGGTATTTC-GATCATTTTACCCTATGGTGTTATTTTGGTTATTTTACC
1 TCATTTTACCCTATGAGGGTATTTCAG-TCATTTTACCCTATGG-GGTATTTTGGTTATTTTACC
61759563 CTAT-GGGGTTA-TTTCGA
64 CTATAGGGG-TACTTT-GA
* * * * * *
61759580 TCATTTTACCCTATGAGGTTATTTCAGTTATTTTACCTTATGGGAGTATTTCGGTCATTTTACCT
1 TCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCCTATGGG-GTATTTTGGTTATTTTACCC
*
61759645 TATAGGGGTACTTTGG
65 TATAGGGGTACTTTGA
*
61759661 TCATTTTACCCTAT-ATGGGTATTTCAATCATTTTACCCTATGAGGGTATTTTGGTTATTTTACC
1 TCATTTTACCCTATGA-GGGTATTTCAGTCATTTTACCCTATG-GGGTATTTTGGTTATTTTACC
61759725 TATTTTGGGG
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
80 2 0.02
81 112 0.90
82 10 0.08
ACGTcount: A:0.19, C:0.16, G:0.18, T:0.46
Consensus pattern (80 bp):
TCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCCTATGGGGTATTTTGGTTATTTTACCCT
ATAGGGGTACTTTGA
Found at i:61759710 original size:27 final size:27
Alignment explanation
Indices: 61759498--61759724 Score: 223
Period size: 27 Copynumber: 8.4 Consensus size: 27
61759488 GGGTCTAACA
*
61759498 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
61759525 ATCATTTTACCCTATG-GTGTTATTTTG
1 GTCATTTTACCCTATGAG-GGTATTTCG
*
61759552 GTTATTTTACCCTATG-GGGTTATTTCG
1 GTCATTTTACCCTATGAGGG-TATTTCG
* * *
61759579 ATCATTTTACCCTATGAGGTTATTTCA
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
61759606 GTTATTTTACCTTATG-GGAGTATTTCG
1 GTCATTTTACCCTATGAGG-GTATTTCG
*
61759633 GTCATTTTACCTTAT-AGGGGTACTTT-G
1 GTCATTTTACCCTATGA-GGGTA-TTTCG
*
61759660 GTCATTTTACCCTAT-ATGGGTATTTCA
1 GTCATTTTACCCTATGA-GGGTATTTCG
* *
61759687 ATCATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
*
61759714 GTTATTTTACC
1 GTCATTTTACC
61759725 TATTTTGGGG
Statistics
Matches: 166, Mismatches: 25, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
26 7 0.04
27 151 0.91
28 8 0.05
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.46
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:61774355 original size:66 final size:66
Alignment explanation
Indices: 61774249--61774378 Score: 251
Period size: 66 Copynumber: 2.0 Consensus size: 66
61774239 AACAACAGAT
61774249 TGAAAGCGAAAAGCTATTTTGTAAATGTATGACGGGTGAATGCGAATTTGGTGATATGGTCTTAA
1 TGAAAGCGAAAAGCTATTTTGTAAATGTATGACGGGTGAATGCGAATTTGGTGATATGGTCTTAA
61774314 A
66 A
*
61774315 TGAAAGCGAAAAGCTATTTTGTAAATGTATGACTGGTGAATGCGAATTTGGTGATATGGTCTTA
1 TGAAAGCGAAAAGCTATTTTGTAAATGTATGACGGGTGAATGCGAATTTGGTGATATGGTCTTA
61774379 GATTTGGGGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.33
Consensus pattern (66 bp):
TGAAAGCGAAAAGCTATTTTGTAAATGTATGACGGGTGAATGCGAATTTGGTGATATGGTCTTAA
A
Found at i:61774792 original size:10 final size:9
Alignment explanation
Indices: 61774778--61774820 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 9
61774768 AATCTTAACT
61774778 TTTTTTATA
1 TTTTTTATA
*
61774787 TTTTTTAGAA
1 TTTTTTA-TA
61774797 TTTTTTA-A
1 TTTTTTATA
61774805 TTTTTTATAA
1 TTTTTTAT-A
61774815 TTTTTT
1 TTTTTT
61774821 TAAAAATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
8 8 0.27
9 7 0.23
10 15 0.50
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTTTTATA
Found at i:61774807 original size:18 final size:19
Alignment explanation
Indices: 61774778--61774820 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
61774768 AATCTTAACT
61774778 TTTTTTATATTTTTTAGAA
1 TTTTTTATATTTTTTAGAA
*
61774797 TTTTTTA-ATTTTTTATAA
1 TTTTTTATATTTTTTAGAA
61774815 TTTTTT
1 TTTTTT
61774821 TAAAAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTTTATATTTTTTAGAA
Found at i:61774821 original size:19 final size:19
Alignment explanation
Indices: 61774777--61774823 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
61774767 AAATCTTAAC
61774777 TTTTTTTATATTTTTTAGAA
1 TTTTTTTA-ATTTTTTAGAA
*
61774797 -TTTTTTAATTTTTTATAA
1 TTTTTTTAATTTTTTAGAA
61774815 TTTTTTTAA
1 TTTTTTTAA
61774824 AAATATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTTTTTAATTTTTTAGAA
Found at i:61776008 original size:117 final size:117
Alignment explanation
Indices: 61775800--61776029 Score: 408
Period size: 117 Copynumber: 2.0 Consensus size: 117
61775790 ACCTTGATGC
* *
61775800 TTTGATTCTTTCATGATAGATTGATTTCGAGGCAATATGAAGAGCAACTTAATTATGGCACCAGA
1 TTTGATTCTTTCATGATAGATTGATTTCAAGGCAATATGAACAGCAACTTAATTATGGCACCAGA
61775865 ATTTTGCTAGTGATGTATGCTCCAATCCAATTTCAATTAACAGATGTTGAAG
66 ATTTTGCTAGTGATGTATGCTCCAATCCAATTTCAATTAACAGATGTTGAAG
*
61775917 TTTGATTCTTTCATGATAGATTGATTTCAAGGCAATATGAACAGCAACTTAATTATGGTACCA-A
1 TTTGATTCTTTCATGATAGATTGATTTCAAGGCAATATGAACAGCAACTTAATTATGGCACCAGA
*
61775981 AGTTTTGCTAGTGATGTATGCTTCAATCCAATTTCAATTAACAGATGTT
66 A-TTTTGCTAGTGATGTATGCTCCAATCCAATTTCAATTAACAGATGTT
61776030 ATATCCACAT
Statistics
Matches: 108, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
116 2 0.02
117 106 0.98
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (117 bp):
TTTGATTCTTTCATGATAGATTGATTTCAAGGCAATATGAACAGCAACTTAATTATGGCACCAGA
ATTTTGCTAGTGATGTATGCTCCAATCCAATTTCAATTAACAGATGTTGAAG
Found at i:61787562 original size:58 final size:58
Alignment explanation
Indices: 61787472--61787589 Score: 218
Period size: 58 Copynumber: 2.0 Consensus size: 58
61787462 TCGTTTTGTA
*
61787472 TTTTAACAATTGGGATGAAAAAATATATATTTATCAGCCAAAGCAAATCAATGCAAAT
1 TTTTAACAACTGGGATGAAAAAATATATATTTATCAGCCAAAGCAAATCAATGCAAAT
*
61787530 TTTTAACAACTGGGATGAAAATATATATATTTATCAGCCAAAGCAAATCAATGCAAAT
1 TTTTAACAACTGGGATGAAAAAATATATATTTATCAGCCAAAGCAAATCAATGCAAAT
61787588 TT
1 TT
61787590 AGGAACATGA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.31
Consensus pattern (58 bp):
TTTTAACAACTGGGATGAAAAAATATATATTTATCAGCCAAAGCAAATCAATGCAAAT
Found at i:61790823 original size:9 final size:9
Alignment explanation
Indices: 61790806--61790842 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
61790796 TAAATTTTCA
61790806 AATTCGAAT
1 AATTCGAAT
*
61790815 AACTCGAAT
1 AATTCGAAT
*
61790824 AATTTGAAT
1 AATTCGAAT
61790833 AATTCGAAT
1 AATTCGAAT
61790842 A
1 A
61790843 TCAAATTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:61791382 original size:9 final size:9
Alignment explanation
Indices: 61791368--61791396 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
61791358 AATTTCACAT
61791368 TTTATATTA
1 TTTATATTA
61791377 TTTATATTA
1 TTTATATTA
61791386 TTTATATTA
1 TTTATATTA
61791395 TT
1 TT
61791397 GAATTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTATATTA
Found at i:61793705 original size:21 final size:21
Alignment explanation
Indices: 61793680--61793750 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
61793670 AAGATAGGCT
* * *
61793680 ACACGGTCGTGTGCATGGGTC
1 ACACGGCCTTGTGGATGGGTC
*
61793701 ACACGGCCTTGCGGATGGGTC
1 ACACGGCCTTGTGGATGGGTC
* *
61793722 ACACAGCCTTGTGGATAGGTC
1 ACACGGCCTTGTGGATGGGTC
61793743 ACACGGCC
1 ACACGGCC
61793751 ATGGGTGCAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.18, C:0.28, G:0.34, T:0.20
Consensus pattern (21 bp):
ACACGGCCTTGTGGATGGGTC
Found at i:61795196 original size:13 final size:14
Alignment explanation
Indices: 61795180--61795208 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
61795170 TCATCTCTTC
61795180 TTTTCTCTC-TCAT
1 TTTTCTCTCTTCAT
61795193 TTTTCTCTCTTCAT
1 TTTTCTCTCTTCAT
61795207 TT
1 TT
61795209 CCCTTCGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.07, C:0.28, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTCTCTCTTCAT
Found at i:61805836 original size:30 final size:29
Alignment explanation
Indices: 61805802--61805858 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
61805792 NNNTGGGATG
*
61805802 GGAAGAGAATAAAAGTTTTAGGGGAAAAGT
1 GGAAGAGAATAAAAATTTT-GGGGAAAAGT
* *
61805832 GGAAGGGAGTAAAAATTTTGGGGAAAA
1 GGAAGAGAATAAAAATTTTGGGGAAAA
61805859 ATAAAAGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.46, C:0.00, G:0.35, T:0.19
Consensus pattern (29 bp):
GGAAGAGAATAAAAATTTTGGGGAAAAGT
Found at i:61806087 original size:9 final size:9
Alignment explanation
Indices: 61806073--61806109 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
61806063 TATAGTTTGA
61806073 TATTCGAAT
1 TATTCGAAT
61806082 TATTCGAAT
1 TATTCGAAT
*
61806091 TATTCGAGT
1 TATTCGAAT
61806100 TATTCGAAT
1 TATTCGAAT
61806109 T
1 T
61806110 CGAAAGCTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:61806179 original size:9 final size:9
Alignment explanation
Indices: 61806162--61806192 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
61806152 TCGAGTTGAT
61806162 TCGAATAAC
1 TCGAATAAC
*
61806171 TCGATTAAC
1 TCGAATAAC
61806180 TCGAATAAC
1 TCGAATAAC
61806189 TCGA
1 TCGA
61806193 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:61809091 original size:26 final size:26
Alignment explanation
Indices: 61809056--61809182 Score: 123
Period size: 26 Copynumber: 4.9 Consensus size: 26
61809046 ATGTGACTGA
61809056 TAGCAGGCTTTGAGCTGGTGATTAGT
1 TAGCAGGCTTTGAGCTGGTGATTAGT
* * *
61809082 TAGCAAGCTTTGAGCTAGTGACT-GAT
1 TAGCAGGCTTTGAGCTGGTGATTAG-T
* *
61809108 TAGTAGGCTTTGAG-TCAGTGATTAGT
1 TAGCAGGCTTTGAGCT-GGTGATTAGT
* * *
61809134 TAGCCGGCTTTGAGCCGATGATTAGT
1 TAGCAGGCTTTGAGCTGGTGATTAGT
* * *
61809160 TAGTAGGCTTTGAGTTGATGATT
1 TAGCAGGCTTTGAGCTGGTGATT
61809183 TATATAACAG
Statistics
Matches: 82, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
25 2 0.02
26 79 0.96
27 1 0.01
ACGTcount: A:0.22, C:0.12, G:0.31, T:0.35
Consensus pattern (26 bp):
TAGCAGGCTTTGAGCTGGTGATTAGT
Found at i:61809129 original size:52 final size:52
Alignment explanation
Indices: 61809048--61809174 Score: 145
Period size: 52 Copynumber: 2.5 Consensus size: 52
61809038 TAGTGAGTAT
* *
61809048 GTGACTGA-TAGCAGGCTTTGAG-CTGGTGATTAGTTAGCAAGCTTTGAGCTA
1 GTGACTGATTAGTAGGCTTTGAGTCTAGTGATTAGTTAGCAAGCTTTGAGC-A
** *
61809099 GTGACTGATTAGTAGGCTTTGAGTC-AGTGATTAGTTAGCCGGCTTTGAGCC
1 GTGACTGATTAGTAGGCTTTGAGTCTAGTGATTAGTTAGCAAGCTTTGAGCA
*
61809150 GATGA-TTAGTTAGTAGGCTTTGAGT
1 G-TGACTGA-TTAGTAGGCTTTGAGT
61809175 TGATGATTTA
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
51 11 0.17
52 54 0.82
53 1 0.02
ACGTcount: A:0.22, C:0.13, G:0.31, T:0.34
Consensus pattern (52 bp):
GTGACTGATTAGTAGGCTTTGAGTCTAGTGATTAGTTAGCAAGCTTTGAGCA
Found at i:61821673 original size:24 final size:23
Alignment explanation
Indices: 61821646--61821700 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
61821636 CTCTCTAGAC
*
61821646 CTTCCTAATATTGGCTCGCATGAG
1 CTTCCTAATA-TGGATCGCATGAG
* **
61821670 CTTCTCGAATATGGATCTTATGAG
1 CTTC-CTAATATGGATCGCATGAG
61821694 CTTCCTA
1 CTTCCTA
61821701 TTACATGGCT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 2 0.08
24 18 0.72
25 5 0.20
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (23 bp):
CTTCCTAATATGGATCGCATGAG
Found at i:61821710 original size:49 final size:49
Alignment explanation
Indices: 61821615--61821711 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 49
61821605 AAGGCTCTTT
* * *
61821615 CATGAGCTTCTCGATTAATGGCTCTCTAGACCTTCCTAATATTGGCTCG
1 CATGAGCTTCTCGAATAATGGATCTCTAGACCTTCCTAATAATGGCTCG
* *
61821664 CATGAGCTTCTCGAAT-ATGGATCT-TATGAGCTTCCTATTACATGGCTC
1 CATGAGCTTCTCGAATAATGGATCTCTA-GACCTTCCTAATA-ATGGCTC
61821712 ACTTGTACTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
47 2 0.05
48 18 0.44
49 21 0.51
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.35
Consensus pattern (49 bp):
CATGAGCTTCTCGAATAATGGATCTCTAGACCTTCCTAATAATGGCTCG
Found at i:61830851 original size:25 final size:25
Alignment explanation
Indices: 61830823--61830892 Score: 68
Period size: 27 Copynumber: 2.7 Consensus size: 25
61830813 CCCGATATAT
**
61830823 GGCTCTCCAGAGCTTCTTGATTAAA
1 GGCTCTCCAGAGCTTCCCGATTAAA
* * *
61830848 GGCTCTTTCATGAGTTTCCCGATTAAT
1 GGCTC-TCCA-GAGCTTCCCGATTAAA
*
61830875 GGCTCTCTAGAGCTTCCC
1 GGCTCTCCAGAGCTTCCC
61830893 AATATGGGCT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
25 13 0.37
26 5 0.14
27 17 0.49
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.34
Consensus pattern (25 bp):
GGCTCTCCAGAGCTTCCCGATTAAA
Found at i:61830911 original size:24 final size:24
Alignment explanation
Indices: 61830856--61830939 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
61830846 AAGGCTCTTT
* * *
61830856 CATGAGTTTCCCGATTAATGGCTCT
1 CATGAGCTTCCCGAAT-ATGGCTCG
61830881 C-TAGAGCTTCCC-AATATGGGCTCG
1 CAT-GAGCTTCCCGAATAT-GGCTCG
*
61830905 CATGAGCTTCCCGAATATGGCTCT
1 CATGAGCTTCCCGAATATGGCTCG
*
61830929 TATGAGCTTCC
1 CATGAGCTTCC
61830940 TGTTACATAG
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
23 2 0.04
24 33 0.66
25 15 0.30
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.31
Consensus pattern (24 bp):
CATGAGCTTCCCGAATATGGCTCG
Found at i:61835312 original size:6 final size:6
Alignment explanation
Indices: 61835301--61835332 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
61835291 TAAGTCAACT
61835301 AACTCA AACTCA AACTCA AACTCA AACTCA AA
1 AACTCA AACTCA AACTCA AACTCA AACTCA AA
61835333 TCCTAATTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (6 bp):
AACTCA
Found at i:61842423 original size:13 final size:13
Alignment explanation
Indices: 61842405--61842429 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61842395 TTAAGAGGAA
61842405 AAAAATAAATAAC
1 AAAAATAAATAAC
61842418 AAAAATAAATAA
1 AAAAATAAATAA
61842430 ATGAACTAAA
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:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAATAAATAAC
Found at i:61846066 original size:19 final size:20
Alignment explanation
Indices: 61846028--61846067 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
61846018 AGCATTCCAT
*
61846028 AACTCAAGATAACATAAAAA
1 AACTCAAGATAAAATAAAAA
*
61846048 AACTC-AGATAAAATCAAAA
1 AACTCAAGATAAAATAAAAA
61846067 A
1 A
61846068 TCATGTTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.65, C:0.15, G:0.05, T:0.15
Consensus pattern (20 bp):
AACTCAAGATAAAATAAAAA
Found at i:61846066 original size:20 final size:20
Alignment explanation
Indices: 61846028--61846067 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
61846018 AGCATTCCAT
*
61846028 AACTCAAGATAACATAAAAA
1 AACTCAAGATAAAATAAAAA
61846048 AACTC-AGATAAAATCAAAAA
1 AACTCAAGATAAAAT-AAAAA
61846068 TCATGTTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.65, C:0.15, G:0.05, T:0.15
Consensus pattern (20 bp):
AACTCAAGATAAAATAAAAA
Found at i:61858123 original size:45 final size:45
Alignment explanation
Indices: 61858073--61858160 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
61858063 AACAAATACT
* *
61858073 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGGC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGGC
61858118 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATG
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATG
61858161 TTTGTTTCAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGGC
Found at i:61858230 original size:51 final size:50
Alignment explanation
Indices: 61858172--61858358 Score: 241
Period size: 51 Copynumber: 3.7 Consensus size: 50
61858162 TTGTTTCACA
*
61858172 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCGATACACG
* * * * * *
61858223 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCCGAAACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCCGATACACG
* * * *
61858274 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCCGATACACG
61858324 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
61858359 CACTTTCACT
Statistics
Matches: 114, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
49 2 0.02
50 39 0.34
51 71 0.62
52 2 0.02
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCGATACACG
Found at i:61858347 original size:101 final size:101
Alignment explanation
Indices: 61858170--61858354 Score: 318
Period size: 101 Copynumber: 1.8 Consensus size: 101
61858160 GTTTGTTTCA
*
61858170 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCA
61858235 CATAGTACTACACACGTGATCGAAACTATCCGAAACG
65 CATAGTACTACACACGTGATCGAAACTATCCGAAACG
* *
61858272 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTGCA
61858336 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
61858355 CCATCACTTT
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
100 4 0.05
101 41 0.52
102 34 0.43
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCGAAACG
Found at i:61859718 original size:5 final size:6
Alignment explanation
Indices: 61859709--61859795 Score: 51
Period size: 5 Copynumber: 14.7 Consensus size: 6
61859699 AATAGTATTT
* * *
61859709 TATTAA -ATTAA TATTAA TATGATA CATTAA -ATTTAA T-TTAA TATTTACC
1 TATTAA TATTAA TATTAA TATTA-A TATTAA TA-TTAA TATTAA TA-TTA-A
*
61859758 TATATAA TATT-T TATTAA T-TTAA TATTAA T-TTAA TATT
1 TAT-TAA TATTAA TATTAA TATTAA TATTAA TATTAA TATT
61859796 TACCTATATA
Statistics
Matches: 63, Mismatches: 7, Indels: 22
0.68 0.08 0.24
Matches are distributed among these distances:
5 25 0.40
6 23 0.37
7 11 0.17
8 4 0.06
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (6 bp):
TATTAA
Found at i:61859725 original size:61 final size:61
Alignment explanation
Indices: 61859658--61859787 Score: 206
Period size: 61 Copynumber: 2.1 Consensus size: 61
61859648 ATTTATTTAG
* * *
61859658 ATATTAATATGAGATATTAAATTTAATTTAATATTTATCTAAATAGTATTTTATTAAATTA
1 ATATTAATATGAGACATTAAATTTAATTTAATATTTACCTAAATAATATTTTATTAAATTA
* * *
61859719 ATATTAATATGATACATTAAATTTAATTTAATATTTACCTATATAATATTTTATTAATTTA
1 ATATTAATATGAGACATTAAATTTAATTTAATATTTACCTAAATAATATTTTATTAAATTA
61859780 ATATTAAT
1 ATATTAAT
61859788 TTAATATTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (61 bp):
ATATTAATATGAGACATTAAATTTAATTTAATATTTACCTAAATAATATTTTATTAAATTA
Found at i:61859779 original size:31 final size:30
Alignment explanation
Indices: 61859680--61859784 Score: 97
Period size: 31 Copynumber: 3.4 Consensus size: 30
61859670 GATATTAAAT
* *
61859680 TTAATTTAATATTTATCTAAATAGTATTTTA
1 TTAATTTAATATTTA-CTATATAATATTTTA
* * * **
61859711 TTAAATTAATA-TTAATATGAT-ACATTAAA
1 TTAATTTAATATTTACTAT-ATAATATTTTA
61859740 TTTAATTTAATATTTACCTATATAATATTTTA
1 -TTAATTTAATATTTA-CTATATAATATTTTA
61859772 TTAATTTAATATT
1 TTAATTTAATATT
61859785 AATTTAATAT
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
29 6 0.11
30 15 0.26
31 28 0.49
32 8 0.14
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (30 bp):
TTAATTTAATATTTACTATATAATATTTTA
Found at i:61859784 original size:11 final size:11
Alignment explanation
Indices: 61859770--61859795 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
61859760 TATAATATTT
61859770 TATTAATTTAA
1 TATTAATTTAA
61859781 TATTAATTTAA
1 TATTAATTTAA
61859792 TATT
1 TATT
61859796 TACCTATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TATTAATTTAA
Found at i:61861992 original size:20 final size:20
Alignment explanation
Indices: 61861941--61861992 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 20
61861931 AAATCATTGC
61861941 AATATATGTAAAAATAATTT
1 AATATATGTAAAAATAATTT
* *
61861961 AA-A-ATATAAAAAT-TTATT
1 AATATATGTAAAAATAAT-TT
61861979 AATATATGTAAAAA
1 AATATATGTAAAAA
61861993 CAACTTATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 1 0.04
18 13 0.50
19 2 0.08
20 10 0.38
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (20 bp):
AATATATGTAAAAATAATTT
Found at i:61862095 original size:34 final size:35
Alignment explanation
Indices: 61862037--61862103 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
61862027 CAAACAGTAG
*
61862037 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
*
61862072 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
61862104 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:61863789 original size:21 final size:21
Alignment explanation
Indices: 61863750--61863790 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
61863740 ATTTTTAGGA
61863750 TTTTAAATATAAAATATTTAT
1 TTTTAAATATAAAATATTTAT
*
61863771 TTTTATATCATAAAA-ATTTA
1 TTTTAAAT-ATAAAATATTTA
61863791 AATTAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTTAAATATAAAATATTTAT
Found at i:61865036 original size:17 final size:17
Alignment explanation
Indices: 61865014--61865053 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
61865004 CAATTATTCT
*
61865014 TTTTTTTCTTATTTTTG
1 TTTTTTTCTTATTTTTA
* *
61865031 TTTTTTTTTTGTTTTTA
1 TTTTTTTCTTATTTTTA
61865048 TTTTTT
1 TTTTTT
61865054 ATTTATTTCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.05, C:0.03, G:0.05, T:0.88
Consensus pattern (17 bp):
TTTTTTTCTTATTTTTA
Found at i:61865039 original size:11 final size:12
Alignment explanation
Indices: 61865013--61865061 Score: 59
Period size: 11 Copynumber: 4.2 Consensus size: 12
61865003 TCAATTATTC
61865013 TTTTT-TTTCTTA
1 TTTTTGTTT-TTA
61865025 TTTTTGTTTTT-
1 TTTTTGTTTTTA
61865036 TTTTTGTTTTTA
1 TTTTTGTTTTTA
*
61865048 TTTTT-TATTTA
1 TTTTTGTTTTTA
61865059 TTT
1 TTT
61865062 CGCTTAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
11 19 0.56
12 12 0.35
13 3 0.09
ACGTcount: A:0.08, C:0.02, G:0.04, T:0.86
Consensus pattern (12 bp):
TTTTTGTTTTTA
Found at i:61865638 original size:3 final size:3
Alignment explanation
Indices: 61865630--61865703 Score: 89
Period size: 3 Copynumber: 24.7 Consensus size: 3
61865620 TTTTATTTAT
* * *
61865630 TTA TTA TTA TCA -TA TTA -TA CTA TTA CTTGT TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TT-A TTA TTA TTA TTA TTA
61865675 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
61865704 NNNNNNNNNN
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
2 3 0.05
3 55 0.89
4 4 0.06
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:61865815 original size:2 final size:2
Alignment explanation
Indices: 61865808--61865836 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
61865798 NNNNNNTTTC
61865808 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
61865837 CCCTTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:61867354 original size:27 final size:27
Alignment explanation
Indices: 61867316--61867368 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
61867306 GCTAATTAAG
61867316 TTTACTTTGATACATATATTTTCTTTA
1 TTTACTTTGATACATATATTTTCTTTA
* ** *
61867343 TTTATTTTGATATTTGTATTTTCTTT
1 TTTACTTTGATACATATATTTTCTTT
61867369 TTGTTTCGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.21, C:0.08, G:0.06, T:0.66
Consensus pattern (27 bp):
TTTACTTTGATACATATATTTTCTTTA
Found at i:61868167 original size:12 final size:10
Alignment explanation
Indices: 61868126--61868168 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
61868116 AATCATTGTA
61868126 TTTTA-AATT
1 TTTTATAATT
61868135 TTTTATAATT
1 TTTTATAATT
*
61868145 TTTTATGATT
1 TTTTATAATT
61868155 TATTTAATAATT
1 T-TTT-ATAATT
61868167 TT
1 TT
61868169 AAAAAACTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 5 0.17
10 14 0.48
11 4 0.14
12 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTTATAATT
Found at i:61868597 original size:3 final size:3
Alignment explanation
Indices: 61868589--61868623 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
61868579 CAACTAAATC
61868589 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
61868624 GTCTGATTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:61874737 original size:23 final size:23
Alignment explanation
Indices: 61874667--61874752 Score: 110
Period size: 21 Copynumber: 4.0 Consensus size: 23
61874657 CCTGATTAGT
61874667 ATACGACACAT-AAGTGCCTGA-
1 ATACGACACATAAAGTGCCTGAG
* * *
61874688 A-ATGACACACAAGGTGCCT--G
1 ATACGACACATAAAGTGCCTGAG
61874708 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCTGAG
61874731 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
61874753 TCAGTAAAGC
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
20 8 0.15
21 23 0.43
23 23 0.43
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAG
Found at i:61874753 original size:44 final size:41
Alignment explanation
Indices: 61874667--61874753 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 41
61874657 CCTGATTAGT
* *
61874667 ATACGACACATAAGTGCCTGAAATGACACACAAGGTGCCTG
1 ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
*
61874708 ATACGACACATAAAGTGCCTGAGATACGACACATAAAGTGCCTG
1 ATACGACACAT-AAGTGCCTGA-A-ACGACACACAAAGTGCCTG
61874752 AT
1 AT
61874754 CAGTAAAGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
41 11 0.28
42 10 0.25
43 1 0.03
44 18 0.45
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:61875081 original size:16 final size:17
Alignment explanation
Indices: 61875060--61875091 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
61875050 TAATAATAAT
61875060 ACTTACCTTA-TATTTC
1 ACTTACCTTATTATTTC
61875076 ACTTACCTTATTATTT
1 ACTTACCTTATTATTT
61875092 GTTTACCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (17 bp):
ACTTACCTTATTATTTC
Found at i:61875367 original size:3 final size:3
Alignment explanation
Indices: 61875359--61875402 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
61875349 ATGTATTAGT
*
61875359 TAA TAA TAA TAA CAA TATA TAA TAA TAA TAA TAA T-A TAA TAA TA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TA
61875403 TTTAATTCAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:61875383 original size:19 final size:20
Alignment explanation
Indices: 61875359--61875402 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
61875349 ATGTATTAGT
61875359 TAATAATAATAACAATAT-A
1 TAATAATAATAACAATATAA
*
61875378 TAATAATAATAATAATATAA
1 TAATAATAATAACAATATAA
61875398 TAATA
1 TAATA
61875403 TTTAATTCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
TAATAATAATAACAATATAA
Found at i:61875581 original size:28 final size:28
Alignment explanation
Indices: 61875535--61875596 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 28
61875525 TTTCCTATAA
*
61875535 TATAATATCTTAACTTTAATTAATATAATT
1 TATAATATCTTAAC-TTAAATAATAT-ATT
* *
61875565 TATAATATTTTAA-TTAAATAATATTTT
1 TATAATATCTTAACTTAAATAATATATT
61875592 TATAA
1 TATAA
61875597 CATAAATCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 7 0.24
28 10 0.34
30 12 0.41
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (28 bp):
TATAATATCTTAACTTAAATAATATATT
Found at i:61876310 original size:43 final size:44
Alignment explanation
Indices: 61876236--61876325 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 44
61876226 AACTTTGTTT
* * *
61876236 TTAGTTTACCACTTAAACTTTGATTAGTGTAGATTCTTTTAA-A
1 TTAGTTTACCACTTAAAATTTGATTAATGTAGATTATTTTAATA
* *
61876279 TTAGTTTCCCACTTAAAATCTT-ATTAATGTAGTTTATTTTAATA
1 TTAGTTTACCACTTAAAAT-TTGATTAATGTAGATTATTTTAATA
61876323 TTA
1 TTA
61876326 TTTGGCCTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
43 34 0.85
44 6 0.15
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (44 bp):
TTAGTTTACCACTTAAAATTTGATTAATGTAGATTATTTTAATA
Found at i:61881252 original size:2 final size:2
Alignment explanation
Indices: 61881245--61881297 Score: 54
Period size: 2 Copynumber: 26.5 Consensus size: 2
61881235 AGATTCTATT
* ** *
61881245 TA TA TA TA TA TA TA TA TA TT TA GCC GA -A TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
61881287 TA TA TA TA TA T
1 TA TA TA TA TA T
61881298 GTTGAATTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:61881913 original size:41 final size:42
Alignment explanation
Indices: 61881819--61881917 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
61881809 NNNNNNNNNN
*
61881819 GGCTACGTGCCGGTGATCTGAATCAGGTTATAAACCTTAGCA
1 GGCTACGTGCCGGTGATCTGAATCAGGCTATAAACCTTAGCA
*
61881861 GGCTACGTGCCGGTGATCTGAATCAGGCTATAAGCC-TAGCA
1 GGCTACGTGCCGGTGATCTGAATCAGGCTATAAACCTTAGCA
*
61881902 GGCTAAGTGCCGGTGA
1 GGCTACGTGCCGGTGA
61881918 ATATGTTAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 20 0.37
42 34 0.63
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.23
Consensus pattern (42 bp):
GGCTACGTGCCGGTGATCTGAATCAGGCTATAAACCTTAGCA
Found at i:61888675 original size:26 final size:26
Alignment explanation
Indices: 61888614--61888680 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
61888604 CAAAAGGGAA
*
61888614 AAAATTTTTGAGGGGTTTGGCGGAAGT
1 AAAATTTTTG-GGGGTTTGGAGGAAGT
*
61888641 AAAAGTTTTGGGGGTTTGGAGGAAGT
1 AAAATTTTTGGGGGTTTGGAGGAAGT
* *
61888667 AAATTTTTTTGGGG
1 AAAATTTTTGGGGG
61888681 AAAAGTAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
26 26 0.74
27 9 0.26
ACGTcount: A:0.25, C:0.01, G:0.37, T:0.36
Consensus pattern (26 bp):
AAAATTTTTGGGGGTTTGGAGGAAGT
Found at i:61888911 original size:14 final size:14
Alignment explanation
Indices: 61888889--61888919 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
61888879 ATTTGTATAG
*
61888889 AAAATTTTATATTA
1 AAAAATTTATATTA
61888903 AAAAATTTATATTA
1 AAAAATTTATATTA
61888917 AAA
1 AAA
61888920 GTATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAAATTTATATTA
Found at i:61897599 original size:15 final size:15
Alignment explanation
Indices: 61897579--61897608 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
61897569 TTCACTGTTA
*
61897579 TGTCTTTTGTATTTT
1 TGTCTTTTATATTTT
61897594 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
61897609 GCATGCATAG
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:0.10, C:0.07, G:0.10, T:0.73
Consensus pattern (15 bp):
TGTCTTTTATATTTT
Found at i:61898709 original size:13 final size:13
Alignment explanation
Indices: 61898691--61898723 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
61898681 GTTCAACTAG
61898691 AGAATTTGATTAA
1 AGAATTTGATTAA
61898704 AGAATTTGATTAA
1 AGAATTTGATTAA
61898717 AGAATTT
1 AGAATTT
61898724 TCTTGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.39
Consensus pattern (13 bp):
AGAATTTGATTAA
Found at i:61905915 original size:40 final size:40
Alignment explanation
Indices: 61905861--61906068 Score: 258
Period size: 40 Copynumber: 5.2 Consensus size: 40
61905851 TGTTATACTC
* * *
61905861 TCTGTCT-GCTTGTTTCGGTTGTATTAGCTCTTATGAGCT
1 TCTGTCTGGCGTGTTTCGATTGGATTAGCTCTTATGAGCT
* *
61905900 TCTGTCTGGCTTGTTTCGATTAGG-TTAGCTCTCATGAGCT
1 TCTGTCTGGCGTGTTTCGATT-GGATTAGCTCTTATGAGCT
* * * * *
61905940 TCTGTCTAGCATGTTTCGGTTGGATTAACTCTTATGAGAT
1 TCTGTCTGGCGTGTTTCGATTGGATTAGCTCTTATGAGCT
* *
61905980 TCTGTCTGGCGTGTTTCAATTGGATTAGCTCTTATGAGCG
1 TCTGTCTGGCGTGTTTCGATTGGATTAGCTCTTATGAGCT
* *
61906020 TCTGTCTGGCGTGTTTCGATTGGATTAACTCGTATGAGCT
1 TCTGTCTGGCGTGTTTCGATTGGATTAGCTCTTATGAGCT
*
61906060 TTTGTCTGG
1 TCTGTCTGG
61906069 TATGTTCAAT
Statistics
Matches: 145, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 9 0.06
40 135 0.93
41 1 0.01
ACGTcount: A:0.14, C:0.17, G:0.25, T:0.43
Consensus pattern (40 bp):
TCTGTCTGGCGTGTTTCGATTGGATTAGCTCTTATGAGCT
Found at i:61911415 original size:21 final size:22
Alignment explanation
Indices: 61911389--61911440 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
61911379 TGGGAGATTG
61911389 AAGTGAAGAAAGTT-AAGA-AGA
1 AAGTGAAGAAA-TTAAAGAGAGA
*
61911410 AAGTGAAGAGATTAAAGAGAGA
1 AAGTGAAGAAATTAAAGAGAGA
61911432 AAGT-AAGAA
1 AAGTGAAGAA
61911441 TTCAAGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 2 0.07
21 18 0.67
22 7 0.26
ACGTcount: A:0.58, C:0.00, G:0.29, T:0.13
Consensus pattern (22 bp):
AAGTGAAGAAATTAAAGAGAGA
Found at i:61913896 original size:5 final size:6
Alignment explanation
Indices: 61913880--61913904 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
61913870 TCTAAAAGTA
61913880 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
61913905 AAAAATTAAT
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:61920175 original size:11 final size:11
Alignment explanation
Indices: 61920161--61920195 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
61920151 GCCCGGCCCT
61920161 TATTAAATATA
1 TATTAAATATA
61920172 TATTAAATATA
1 TATTAAATATA
61920183 TA-T-AATATA
1 TATTAAATATA
61920192 TATT
1 TATT
61920196 TGATTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.35
10 2 0.09
11 13 0.57
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TATTAAATATA
Found at i:61922225 original size:9 final size:10
Alignment explanation
Indices: 61922202--61922226 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
61922192 CCGTAATTAT
61922202 TTTTTAACAA
1 TTTTTAACAA
61922212 TTTTTAACAA
1 TTTTTAACAA
61922222 TTTTT
1 TTTTT
61922227 CAAAGTCAGA
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:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTTTAACAA
Found at i:61922677 original size:23 final size:23
Alignment explanation
Indices: 61922651--61922749 Score: 119
Period size: 23 Copynumber: 4.3 Consensus size: 23
61922641 ATAACTGAAA
*
61922651 CTACCACTGATAA-GTAGCCGTAG
1 CTACCACTGA-AATGTAGCCGAAG
*
61922674 CTACCACTGAAATGTAGTCGAAG
1 CTACCACTGAAATGTAGCCGAAG
* * * *
61922697 TTACCACTGATATGTAGTCGTAG
1 CTACCACTGAAATGTAGCCGAAG
*
61922720 CTACCACTGAAATGTAGCCAAAG
1 CTACCACTGAAATGTAGCCGAAG
61922743 CTACCAC
1 CTACCAC
61922750 AGATCAATAA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
22 2 0.03
23 63 0.97
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (23 bp):
CTACCACTGAAATGTAGCCGAAG
Found at i:61922682 original size:46 final size:46
Alignment explanation
Indices: 61922632--61922732 Score: 123
Period size: 46 Copynumber: 2.2 Consensus size: 46
61922622 ATAAGCGCCA
*
61922632 CACTGATATATAACT-GAAACTACCACTGATAAGTAGCCGTAGCTAC
1 CACTGAAATAT-ACTCGAAACTACCACTGATAAGTAGCCGTAGCTAC
* * ** * *
61922678 CACTGAAATGTAGTCGAAGTTACCACTGATATGTAGTCGTAGCTAC
1 CACTGAAATATACTCGAAACTACCACTGATAAGTAGCCGTAGCTAC
61922724 CACTGAAAT
1 CACTGAAAT
61922733 GTAGCCAAAG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 2 0.04
46 45 0.96
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.26
Consensus pattern (46 bp):
CACTGAAATATACTCGAAACTACCACTGATAAGTAGCCGTAGCTAC
Found at i:61922748 original size:46 final size:46
Alignment explanation
Indices: 61922651--61922749 Score: 153
Period size: 46 Copynumber: 2.2 Consensus size: 46
61922641 ATAACTGAAA
* *
61922651 CTACCACTGATAAGTAGCCGTAGCTACCACTGAAATGTAGTCGAAG
1 CTACCACTGATAAGTAGCCGTAGCTACCACTGAAATGTAGCCAAAG
* * *
61922697 TTACCACTGATATGTAGTCGTAGCTACCACTGAAATGTAGCCAAAG
1 CTACCACTGATAAGTAGCCGTAGCTACCACTGAAATGTAGCCAAAG
61922743 CTACCAC
1 CTACCAC
61922750 AGATCAATAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (46 bp):
CTACCACTGATAAGTAGCCGTAGCTACCACTGAAATGTAGCCAAAG
Found at i:61924758 original size:3 final size:3
Alignment explanation
Indices: 61924743--61924802 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
61924733 TATTTATTGA
* *
61924743 TAT TAT TAA TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
61924791 TAT TAT TAT TAT
1 TAT TAT TAT TAT
61924803 ATGTAATATA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:61924977 original size:12 final size:12
Alignment explanation
Indices: 61924956--61924989 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
61924946 ATTTTTGTAA
* *
61924956 ATATATATATTC
1 ATATACATATGC
61924968 ATATACATATGC
1 ATATACATATGC
61924980 ATATACATAT
1 ATATACATAT
61924990 ACATTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (12 bp):
ATATACATATGC
Found at i:61931261 original size:24 final size:24
Alignment explanation
Indices: 61931216--61931262 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
61931206 TTTATGTGAA
*
61931216 AATATACTCATTCAGCTTTAATTT
1 AATATACTCATTCAGCTCTAATTT
*
61931240 AATATA-TTATTCAGCCTCTAATT
1 AATATACTCATTCAG-CTCTAATT
61931263 CAATCTCCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.34, C:0.17, G:0.04, T:0.45
Consensus pattern (24 bp):
AATATACTCATTCAGCTCTAATTT
Found at i:61931562 original size:45 final size:45
Alignment explanation
Indices: 61931498--61931586 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
61931488 AACAGATACT
* *
61931498 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTA
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTA
61931543 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
61931587 TCAGTTCACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.25
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTA
Found at i:61931655 original size:51 final size:50
Alignment explanation
Indices: 61931597--61931783 Score: 196
Period size: 51 Copynumber: 3.7 Consensus size: 50
61931587 TCAGTTCACA
* * **
61931597 TAGTAGCCTACACATAGTACTACACATGTGACCATTACCATCTAATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCTGGTACACG
** * * * * *
61931648 TAGTAGCCTGCACATAGTACTACACACGTGATTGAAACTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCTGGTACACG
* * * *
61931699 TAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTTCGGTAAACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCT-GGTACACG
*
61931749 TAGTAGCCTGCACATAGTACTACACACATGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
61931784 CACTTTCACT
Statistics
Matches: 109, Mismatches: 24, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
49 3 0.03
50 36 0.33
51 69 0.63
52 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCTGGTACACG
Found at i:61931803 original size:101 final size:99
Alignment explanation
Indices: 61931594--61931779 Score: 248
Period size: 101 Copynumber: 1.8 Consensus size: 99
61931584 TGTTCAGTTC
*
61931594 ACATAGTAGCCTACACATAGTACTACACATGTGACCATTACCATCTAATACACGTAGTAGCCTGC
1 ACATAGTAGCCTACACATAGTACTACACATGTGACCA-TACCATCTAATAAACGTAGTAGCCTGC
* **
61931659 ACATAGTACTACACACGTGATTGAAACTATCCGGT
65 ACATAGTACTACACACATGATCCAAACTATCCGGT
* * * **
61931694 ACGCATAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTTCGGTAAACGTAGTAGCCT
1 A--CATAGTAGCCTACACATAGTACTACACATGTGACCATACCATCT-AATAAACGTAGTAGCCT
61931758 GCACATAGTACTACACACATGA
63 GCACATAGTACTACACACATGA
61931780 CCATCACTTT
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
100 7 0.09
101 35 0.46
102 34 0.45
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (99 bp):
ACATAGTAGCCTACACATAGTACTACACATGTGACCATACCATCTAATAAACGTAGTAGCCTGCA
CATAGTACTACACACATGATCCAAACTATCCGGT
Found at i:61933901 original size:41 final size:40
Alignment explanation
Indices: 61933844--61933943 Score: 137
Period size: 41 Copynumber: 2.5 Consensus size: 40
61933834 AAAATAATTC
* *
61933844 GCGGCATTTATGGGAAAAACGTTGCTATTGCTTTACCTTTT
1 GCGGCGTTTAT-GGAAAAACGCTGCTATTGCTTTACCTTTT
*
61933885 GCGGCGTTTATAGGAAAAACGCTGCTATTGCTTTATCTTTT
1 GCGGCGTTTAT-GGAAAAACGCTGCTATTGCTTTACCTTTT
* *
61933926 GTGACGTTTATGGAAAAA
1 GCGGCGTTTATGGAAAAA
61933944 ACGCCACTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 7 0.13
41 46 0.87
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (40 bp):
GCGGCGTTTATGGAAAAACGCTGCTATTGCTTTACCTTTT
Found at i:61936820 original size:93 final size:93
Alignment explanation
Indices: 61936661--61936846 Score: 372
Period size: 93 Copynumber: 2.0 Consensus size: 93
61936651 AACCTATACA
61936661 AAATAAAGTAAAATAGTAGATTGAATCACTAATCTACTCATTAAGATGCTTGCTAAAAGGAGGAT
1 AAATAAAGTAAAATAGTAGATTGAATCACTAATCTACTCATTAAGATGCTTGCTAAAAGGAGGAT
61936726 AAATAAATACCATGGGCAACGATGATGG
66 AAATAAATACCATGGGCAACGATGATGG
61936754 AAATAAAGTAAAATAGTAGATTGAATCACTAATCTACTCATTAAGATGCTTGCTAAAAGGAGGAT
1 AAATAAAGTAAAATAGTAGATTGAATCACTAATCTACTCATTAAGATGCTTGCTAAAAGGAGGAT
61936819 AAATAAATACCATGGGCAACGATGATGG
66 AAATAAATACCATGGGCAACGATGATGG
61936847 TTGAAAGGCT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (93 bp):
AAATAAAGTAAAATAGTAGATTGAATCACTAATCTACTCATTAAGATGCTTGCTAAAAGGAGGAT
AAATAAATACCATGGGCAACGATGATGG
Found at i:61939520 original size:22 final size:21
Alignment explanation
Indices: 61939486--61939526 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
61939476 CCTTCATACA
*
61939486 TATTTTTTAAATTTTAAAATG
1 TATTTTTTAAATTTAAAAATG
*
61939507 TATTTTTATTAATTTAAAAA
1 TATTTTT-TAAATTTAAAAA
61939527 AAGTAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TATTTTTTAAATTTAAAAATG
Found at i:61939923 original size:19 final size:20
Alignment explanation
Indices: 61939880--61939926 Score: 71
Period size: 19 Copynumber: 2.4 Consensus size: 20
61939870 TTTTTTATAT
61939880 TTTTGTAATATAATTTTTCTA
1 TTTT-TAATATAATTTTTCTA
61939901 -TTTTAATATAATTTTT-TA
1 TTTTTAATATAATTTTTCTA
61939919 TTTTTAAT
1 TTTTTAAT
61939927 TTAGTTTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.08
19 20 0.80
20 3 0.12
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTTAATATAATTTTTCTA
Found at i:61943782 original size:24 final size:24
Alignment explanation
Indices: 61943712--61943785 Score: 69
Period size: 26 Copynumber: 2.9 Consensus size: 24
61943702 ATGGTAATGG
* *
61943712 TTAATTTTAATTTT-TGAATATTAT
1 TTAATTTTAATTTTAT-AATTTTAA
*
61943736 TTAATTTTTTTATTTTATGTAATTTTAA
1 TTAA--TTTTAATTTTA--TAATTTTAA
61943764 TTAATTTTAATTTTATAATTTT
1 TTAATTTTAATTTTATAATTTT
61943786 TTATAACAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
24 11 0.27
26 19 0.46
28 10 0.24
29 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (24 bp):
TTAATTTTAATTTTATAATTTTAA
Found at i:61947112 original size:42 final size:41
Alignment explanation
Indices: 61947019--61947118 Score: 119
Period size: 41 Copynumber: 2.4 Consensus size: 41
61947009 TTTTAAAATT
* * * *
61947019 CCTAAAACCCTAAAACTTAAATTATTTTTACAAAACCCTACC
1 CCTAAAACCCT-AAACCTAAATTATTTTAACAAAACACTAAC
* *
61947061 CCTACAACCCTAACCCTAAATTATTTTAACAAAACACTAAC
1 CCTAAAACCCTAAACCTAAATTATTTTAACAAAACACTAAC
*
61947102 CTTAAAAACCCTAAACC
1 CCT-AAAACCCTAAACC
61947119 AAAAAACCTT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
41 27 0.56
42 21 0.44
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (41 bp):
CCTAAAACCCTAAACCTAAATTATTTTAACAAAACACTAAC
Found at i:61947817 original size:5 final size:5
Alignment explanation
Indices: 61947798--61947830 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
61947788 TAAAATAAGG
61947798 AAATA CAAA-A AAATA AAATA AAATA AAATA AAA
1 AAATA -AAATA AAATA AAATA AAATA AAATA AAA
61947831 ATAGATTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 3 0.12
5 20 0.77
6 3 0.12
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (5 bp):
AAATA
Found at i:61947870 original size:20 final size:18
Alignment explanation
Indices: 61947822--61947875 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 18
61947812 AAAATAAAAT
*
61947822 AAAATAAAAATAGATTTG
1 AAAATAAAAATAAATTTG
61947840 AAAATGCAAAAATAAATTTAAG
1 AAAAT--AAAAATAAATTT--G
61947862 AAAAT-AAAATAAAT
1 AAAATAAAAATAAAT
61947876 GGATAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 5 0.16
19 9 0.29
20 11 0.35
22 6 0.19
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (18 bp):
AAAATAAAAATAAATTTG
Found at i:61948744 original size:13 final size:13
Alignment explanation
Indices: 61948728--61948769 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
61948718 AGATTTTTTA
61948728 TAAATATTATCAC
1 TAAATATTATCAC
61948741 TAAATA--ATC-C
1 TAAATATTATCAC
*
61948751 TAAATATTATTAC
1 TAAATATTATCAC
61948764 TAAATA
1 TAAATA
61948770 ATTGTAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
10 7 0.28
11 3 0.12
12 2 0.08
13 13 0.52
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAATATTATCAC
Found at i:61948795 original size:23 final size:23
Alignment explanation
Indices: 61948728--61948801 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
61948718 AGATTTTTTA
*
61948728 TAAATATTATCACTAAATAATCC
1 TAAATATTATCACTAAATAATTC
* *
61948751 TAAATATTATTACTAAATAATTG
1 TAAATATTATCACTAAATAATTC
*
61948774 TAAATATTATCATTAAATAATTC
1 TAAATATTATCACTAAATAATTC
*
61948797 AAAAT
1 TAAAT
61948802 TTAAAAATCA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.50, C:0.09, G:0.01, T:0.39
Consensus pattern (23 bp):
TAAATATTATCACTAAATAATTC
Found at i:61948823 original size:18 final size:18
Alignment explanation
Indices: 61948802--61948837 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
61948792 AATTCAAAAT
61948802 TTAAAAATCAAATTTAAA
1 TTAAAAATCAAATTTAAA
* *
61948820 TTAAAGATTAAATTTAAA
1 TTAAAAATCAAATTTAAA
61948838 CTAATTAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (18 bp):
TTAAAAATCAAATTTAAA
Found at i:61950077 original size:12 final size:13
Alignment explanation
Indices: 61950045--61950082 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
61950035 CAAAGAAAGG
*
61950045 ATAGAAAAAGAGA
1 ATAGAAACAGAGA
61950058 ATAGAAACAGAGA
1 ATAGAAACAGAGA
61950071 A-AGAAACAGAGA
1 ATAGAAACAGAGA
61950083 GCAAAACGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.66, C:0.05, G:0.24, T:0.05
Consensus pattern (13 bp):
ATAGAAACAGAGA
Found at i:61951348 original size:24 final size:24
Alignment explanation
Indices: 61951216--61951347 Score: 171
Period size: 25 Copynumber: 5.5 Consensus size: 24
61951206 ACTTTAGCGC
61951216 GCTCTCTGATATTAGCACGTTGGT
1 GCTCTCTGATATTAGCACGTTGGT
*
61951240 GCTTTCTGATATTAGCACGTTGGT
1 GCTCTCTGATATTAGCACGTTGGT
61951264 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGA-TATTAGCACGTTGGT
***
61951289 GCTCTCTGATATTTAGCACGGCAGT
1 GCTCTCTGATA-TTAGCACGTTGGT
* *
61951314 GCTCTCT-AT-TTAGCACATTTGT
1 GCTCTCTGATATTAGCACGTTGGT
61951336 GCTCTCTG-TATT
1 GCTCTCTGATATT
61951348 TGTTCCGTAT
Statistics
Matches: 95, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
22 17 0.18
23 2 0.02
24 35 0.37
25 41 0.43
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.40
Consensus pattern (24 bp):
GCTCTCTGATATTAGCACGTTGGT
Found at i:61952213 original size:17 final size:17
Alignment explanation
Indices: 61952170--61952216 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
61952160 GGCATGTACT
*
61952170 TAAGTAATGTACATACC
1 TAAGTAATGTATATACC
*
61952187 TAGGTAATGTATATACC
1 TAAGTAATGTATATACC
*
61952204 TAAGTGATGTATA
1 TAAGTAATGTATA
61952217 GGGGTTAGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (17 bp):
TAAGTAATGTATATACC
Found at i:61957589 original size:32 final size:32
Alignment explanation
Indices: 61957553--61957615 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
61957543 AGAGATTTAG
*
61957553 TACAAATCCTTGAAGAAATTAAGATTGATTAA
1 TACAAACCCTTGAAGAAATTAAGATTGATTAA
**
61957585 TACAAACCCTTGAAGAAATTGGGATTGATTA
1 TACAAACCCTTGAAGAAATTAAGATTGATTA
61957616 GAAATTTAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (32 bp):
TACAAACCCTTGAAGAAATTAAGATTGATTAA
Found at i:61959325 original size:23 final size:22
Alignment explanation
Indices: 61959294--61959461 Score: 120
Period size: 23 Copynumber: 7.2 Consensus size: 22
61959284 TAAAGCTATC
*
61959294 ACCCACCAAACACAACCAATCAT
1 ACCCTCCAAACACAACCAAT-AT
* *
61959317 AGCCTCCAAACACAACCAATTT
1 ACCCTCCAAACACAACCAATAT
*
61959339 ACCCTCCAAACACAACCATATGT
1 ACCCTCCAAACACAACCA-ATAT
* ***
61959362 ATCCTTTGAACACAACCAAATAT
1 ACCCTCCAAACACAACC-AATAT
*
61959385 ACCTTCCAAACACAACCATATATATAT
1 ACCCTCCAAACACAACC----A-ATAT
* * *
61959412 AACCTTCGAACACAACCAAGTAT
1 ACCCTCCAAACACAACCAA-TAT
* * *
61959435 ACCTTCCAACCATAACCAATAT
1 ACCCTCCAAACACAACCAATAT
61959457 ACCCT
1 ACCCT
61959462 TCAACATATC
Statistics
Matches: 111, Mismatches: 27, Indels: 15
0.73 0.18 0.10
Matches are distributed among these distances:
22 26 0.23
23 66 0.59
24 1 0.01
26 1 0.01
27 17 0.15
ACGTcount: A:0.42, C:0.35, G:0.03, T:0.20
Consensus pattern (22 bp):
ACCCTCCAAACACAACCAATAT
Found at i:61959349 original size:45 final size:46
Alignment explanation
Indices: 61959294--61959408 Score: 135
Period size: 45 Copynumber: 2.5 Consensus size: 46
61959284 TAAAGCTATC
* *
61959294 ACCCACCAAACACAACCA-ATCATAGCCTCCAAACACAACC-AATTT
1 ACCCTCCAAACACAACCATAT-ATAGCCTCCAAACACAACCAAATAT
* * ***
61959339 ACCCTCCAAACACAACCATATGTATCCTTTGAACACAACCAAATAT
1 ACCCTCCAAACACAACCATATATAGCCTCCAAACACAACCAAATAT
*
61959385 ACCTTCCAAACACAACCATATATA
1 ACCCTCCAAACACAACCATATATA
61959409 TATAACCTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
45 31 0.53
46 28 0.47
ACGTcount: A:0.43, C:0.36, G:0.03, T:0.18
Consensus pattern (46 bp):
ACCCTCCAAACACAACCATATATAGCCTCCAAACACAACCAAATAT
Found at i:61959436 original size:50 final size:46
Alignment explanation
Indices: 61959299--61959457 Score: 169
Period size: 50 Copynumber: 3.4 Consensus size: 46
61959289 CTATCACCCA
* * * * * *
61959299 CCAAACACAACCAAT-CATAGCCTCCAAACACAACCAATTTACCCT
1 CCAAACACAACCAATATATATCCTTCGAACACAACCAATATACCTT
* *
61959344 CCAAACACAACC-ATATGTATCCTTTGAACACAACCAAATATACCTT
1 CCAAACACAACCAATATATATCCTTCGAACACAACC-AATATACCTT
61959390 CCAAACACAACCATATATATATAACCTTCGAACACAACCAAGTATACCTT
1 CCAAACACAACCA-ATATATAT--CCTTCGAACACAACCAA-TATACCTT
* *
61959440 CCAACCATAACCAATATA
1 CCAAACACAACCAATATA
61959458 CCCTTCAACA
Statistics
Matches: 95, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
44 2 0.02
45 26 0.27
46 20 0.21
48 7 0.07
49 7 0.07
50 33 0.35
ACGTcount: A:0.43, C:0.33, G:0.03, T:0.20
Consensus pattern (46 bp):
CCAAACACAACCAATATATATCCTTCGAACACAACCAATATACCTT
Found at i:61974622 original size:20 final size:19
Alignment explanation
Indices: 61974583--61974623 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
61974573 ACCTAAAAAT
* *
61974583 AATATTAAAAATTATTTTA
1 AATATTAAAAAATATATTA
61974602 AATATTAAAAAATACTATTA
1 AATATTAAAAAATA-TATTA
61974622 AA
1 AA
61974624 AACCTATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
AATATTAAAAAATATATTA
Found at i:61989138 original size:20 final size:20
Alignment explanation
Indices: 61989113--61989213 Score: 82
Period size: 20 Copynumber: 5.0 Consensus size: 20
61989103 ATAAATGCGT
61989113 AACAGAGGCACTGAAGTGCA
1 AACAGAGGCACTGAAGTGCA
61989133 AACAGAGGCAC-GATTA-TGCA
1 AACAGAGGCACTGA--AGTGCA
* * **
61989153 ACCAGAGGCACCT-TAGTGTG
1 AACAGAGGCA-CTGAAGTGCA
* * *
61989173 AATAGAGACACTGAAGTGTA
1 AACAGAGGCACTGAAGTGCA
*
61989193 AACAGAGGCACCGAAGTGCA
1 AACAGAGGCACTGAAGTGCA
61989213 A
1 A
61989214 TCCCGTACAA
Statistics
Matches: 62, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
19 5 0.08
20 55 0.89
21 2 0.03
ACGTcount: A:0.39, C:0.20, G:0.28, T:0.14
Consensus pattern (20 bp):
AACAGAGGCACTGAAGTGCA
Found at i:61992324 original size:29 final size:31
Alignment explanation
Indices: 61992292--61992356 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
61992282 TTTGATAAAT
*
61992292 AATTAATATTT-AT-TACTTAAAATATTTA-A
1 AATTAATATTTCATATA-TTAAAATATTAACA
*
61992321 AATTTATATTTCATATATTAAAATATTAACA
1 AATTAATATTTCATATATTAAAATATTAACA
61992352 AATTA
1 AATTA
61992357 TAATAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 13 0.43
31 7 0.23
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (31 bp):
AATTAATATTTCATATATTAAAATATTAACA
Found at i:61992410 original size:19 final size:20
Alignment explanation
Indices: 61992378--61992415 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
61992368 TTATATTCTT
61992378 ACTAAATTATAATAATATTA
1 ACTAAATTATAATAATATTA
* *
61992398 ACTAATTTA-AATATTATT
1 ACTAAATTATAATAATATT
61992416 TAAATATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
ACTAAATTATAATAATATTA
Found at i:61993034 original size:4 final size:4
Alignment explanation
Indices: 61993025--61993057 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
61993015 ACAAAGTTAG
61993025 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
61993058 CGTCTATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.48
Consensus pattern (4 bp):
GTAT
Found at i:61995733 original size:20 final size:23
Alignment explanation
Indices: 61995708--61995758 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 23
61995698 TATTTAATTA
*
61995708 ATTATTTTA-ATGTTATT-ATC-
1 ATTATTATATATGTTATTAATCT
61995728 ATTATTATATATGTTATTAATCT
1 ATTATTATATATGTTATTAATCT
61995751 ATTATTAT
1 ATTATTAT
61995759 TCATGCACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 8 0.30
21 8 0.30
22 3 0.11
23 8 0.30
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (23 bp):
ATTATTATATATGTTATTAATCT
Found at i:61996108 original size:2 final size:2
Alignment explanation
Indices: 61996046--61996089 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
61996036 GTTATGTACT
*
61996046 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
61996088 TA
1 TA
61996090 CCTATTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:62000499 original size:8 final size:8
Alignment explanation
Indices: 62000484--62000563 Score: 67
Period size: 8 Copynumber: 9.8 Consensus size: 8
62000474 AAGAATGTTA
*
62000484 AAAAAAAA
1 AAAAAAAG
62000492 ACAAAAAAG
1 A-AAAAAAG
62000501 AAAAAAAG
1 AAAAAAAG
62000509 -AAAAAA-
1 AAAAAAAG
*
62000515 TAAAAAAG
1 AAAAAAAG
*
62000523 AAAAGAA-
1 AAAAAAAG
62000530 AAAAAAAG
1 AAAAAAAG
62000538 AAGAAAAATG
1 AA-AAAAA-G
62000548 AAAGAAAAAG
1 -AA-AAAAAG
62000558 AAAAAA
1 AAAAAA
62000564 GAGAGGCCAA
Statistics
Matches: 61, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
7 18 0.30
8 19 0.31
9 14 0.23
10 2 0.03
11 8 0.13
ACGTcount: A:0.85, C:0.01, G:0.11, T:0.03
Consensus pattern (8 bp):
AAAAAAAG
Found at i:62000533 original size:29 final size:29
Alignment explanation
Indices: 62000483--62000563 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 29
62000473 AAAGAATGTT
*
62000483 AAAAAAAAAACAAAA-AAGAAAAAAAGAA-
1 AAAAAAAAAAGAAAAGAA-AAAAAAAGAAG
62000511 AAAATAAAAAAGAAAAGAAAAAAAAAGAAG
1 AAAA-AAAAAAGAAAAGAAAAAAAAAGAAG
**
62000541 AAAAATGAAAGAAAAAGAAAAAA
1 AAAAAAAAAAG-AAAAGAAAAAA
62000564 GAGAGGCCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
28 4 0.09
29 25 0.54
30 17 0.37
ACGTcount: A:0.85, C:0.01, G:0.11, T:0.02
Consensus pattern (29 bp):
AAAAAAAAAAGAAAAGAAAAAAAAAGAAG
Found at i:62000556 original size:1 final size:1
Alignment explanation
Indices: 62000483--62000536 Score: 54
Period size: 1 Copynumber: 54.0 Consensus size: 1
62000473 AAAGAATGTT
* * * * * *
62000483 AAAAAAAAAACAAAAAAGAAAAAAAGAAAAAATAAAAAAGAAAAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
62000537 GAAGAAAAAT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.89, C:0.02, G:0.07, T:0.02
Consensus pattern (1 bp):
A
Found at i:62000562 original size:7 final size:7
Alignment explanation
Indices: 62000483--62000565 Score: 73
Period size: 7 Copynumber: 11.9 Consensus size: 7
62000473 AAAGAATGTT
62000483 AAAA-AA
1 AAAAGAA
*
62000489 AAAACAA
1 AAAAGAA
62000496 AAAAGAAA
1 AAAAG-AA
62000504 AAAAGAA
1 AAAAGAA
*
62000511 AAAATAA
1 AAAAGAA
62000518 AAAAGAA
1 AAAAGAA
*
62000525 AAGAAAAA
1 AA-AAGAA
62000533 AAAAGAA
1 AAAAGAA
*
62000540 GAAAA-AT
1 -AAAAGAA
*
62000547 GAAAG-A
1 AAAAGAA
62000553 AAAAGAA
1 AAAAGAA
62000560 AAAAGA
1 AAAAGA
62000566 GAGGCCAAGG
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
6 11 0.18
7 34 0.55
8 17 0.27
ACGTcount: A:0.84, C:0.01, G:0.12, T:0.02
Consensus pattern (7 bp):
AAAAGAA
Found at i:62000998 original size:97 final size:97
Alignment explanation
Indices: 62000832--62001053 Score: 356
Period size: 97 Copynumber: 2.3 Consensus size: 97
62000822 TGTTTTCATA
* * *
62000832 TTAGCAAAATTTTCTATCTTAATTAATTTATTCATTTCGAGCTGTGCTCTCAATAAAATTTCATC
1 TTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCAAGCTGTGCTCTCAATAAAATTTCATC
62000897 TTATCCATTGTGATAATATTTTTCATCTTATC
66 TTATCCATTGTGATAATATTTTTCATCTTATC
* * *
62000929 TTAGCAAAATATGATATCTTGATTAATTTATTTATTTCAAGCTGTGCTCTCAATAAAATTTCATC
1 TTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCAAGCTGTGCTCTCAATAAAATTTCATC
*
62000994 TTATCCATTGTGATAATCTTTTTCATCTTATC
66 TTATCCATTGTGATAATATTTTTCATCTTATC
*
62001026 CTAG-AAAAGTTTGCTATCTTGATTAATT
1 TTAGCAAAA-TTTGCTATCTTGATTAATT
62001054 GAGCTTTGTT
Statistics
Matches: 114, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
96 4 0.04
97 110 0.96
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (97 bp):
TTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCAAGCTGTGCTCTCAATAAAATTTCATC
TTATCCATTGTGATAATATTTTTCATCTTATC
Found at i:62002052 original size:89 final size:89
Alignment explanation
Indices: 62001899--62002110 Score: 223
Period size: 89 Copynumber: 2.4 Consensus size: 89
62001889 TGGATTAAAG
* * * *
62001899 AAGATAGCAGATCTTGTCTTCCTGTACTGGTAGCAATGTAGATCAAAGACATCGGCCTGACCTCC
1 AAGATAGCAGATCTTGTCTTCCTGCACTGGCAGCAATGTAGATCAAAGACACCAGCCTGACCTCC
62001964 CTGAGTTTGCAGCGGAGCAGACTA
66 CTGAGTTTGCAGCGGAGCAGACTA
* * * *
62001988 AAGATAGCAGATCTTGTCATT-CTGCATTGGCAGTGAA-GTAGATCGAAGACGCCAGCCTTG-CC
1 AAGATAGCAGATCTTGTC-TTCCTGCACTGGCAG-CAATGTAGATCAAAGACACCAGCC-TGACC
* * *
62002050 TCCCTGAGTTTGCAGCGGAGTAGTCTG
63 TCCCTGAGTTTGCAGCGGAGCAGACTA
* * ** *
62002077 AAGATAACATATCTCATCTTCCTGTACTAGGCAG
1 AAGATAGCAGATCTTGTCTTCCTGCACT-GGCAG
62002111 TGAAACAGAT
Statistics
Matches: 101, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
88 2 0.02
89 88 0.87
90 11 0.11
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (89 bp):
AAGATAGCAGATCTTGTCTTCCTGCACTGGCAGCAATGTAGATCAAAGACACCAGCCTGACCTCC
CTGAGTTTGCAGCGGAGCAGACTA
Found at i:62002256 original size:84 final size:87
Alignment explanation
Indices: 62002093--62002260 Score: 234
Period size: 84 Copynumber: 2.0 Consensus size: 87
62002083 ACATATCTCA
*
62002093 TCTTCCTGTACTAGGCAGTGAAACAGATAAAAAAATTGGTCCTATCTCCCTGAGCAGTAGTGGAG
1 TCTTCCTGTACTAGGCAGTGAAACAGATAAAAAAATTGGTCC-ATCTCCCTGAGCAGCAGTGGAG
* *
62002158 TAGGTTGAAGATTGTAGATTTTG
65 TAGGTTAAAAATTGTAGATTTTG
* ** * *
62002181 TCTTCCTGTACT-GGCAGTGAAGCAGATTGAAAACTT-GTCC-TCTTCCTGAGCAGCAGTGGAGT
1 TCTTCCTGTACTAGGCAGTGAAACAGATAAAAAAATTGGTCCATCTCCCTGAGCAGCAGTGGAGT
62002243 AGGTTAAAAATTGTAGAT
66 AGGTTAAAAATTGTAGAT
62002261 CCTGTCTCCC
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
84 36 0.50
86 4 0.06
87 20 0.28
88 12 0.17
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (87 bp):
TCTTCCTGTACTAGGCAGTGAAACAGATAAAAAAATTGGTCCATCTCCCTGAGCAGCAGTGGAGT
AGGTTAAAAATTGTAGATTTTG
Found at i:62003047 original size:40 final size:39
Alignment explanation
Indices: 62002938--62003036 Score: 126
Period size: 40 Copynumber: 2.5 Consensus size: 39
62002928 TAAATTATAT
* *
62002938 ATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCATATCA
1 ATCTTATCTCTCTGAAGTT-CAGTAGAGCAGATCAAACCA
* * *
62002978 AACTTAATCTCTCTGAAGTTCAGTAGAGCAGGTTAAACCA
1 ATCTT-ATCTCTCTGAAGTTCAGTAGAGCAGATCAAACCA
*
62003018 ATCTTATCTCCCTGAAGTT
1 ATCTTATCTCTCTGAAGTT
62003037 GTAGTGGAGC
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 13 0.25
40 24 0.47
41 14 0.27
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.32
Consensus pattern (39 bp):
ATCTTATCTCTCTGAAGTTCAGTAGAGCAGATCAAACCA
Found at i:62004649 original size:20 final size:23
Alignment explanation
Indices: 62004624--62004672 Score: 68
Period size: 20 Copynumber: 2.3 Consensus size: 23
62004614 ATTTTATTTA
*
62004624 ATTATTTTA-ATGTTATT-ATC-
1 ATTATTATATATGTTATTAATCT
62004644 ATTATTATATATGTTATTAATCT
1 ATTATTATATATGTTATTAATCT
62004667 ATTATT
1 ATTATT
62004673 GTTCATGCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 8 0.32
21 8 0.32
22 3 0.12
23 6 0.24
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (23 bp):
ATTATTATATATGTTATTAATCT
Found at i:62004951 original size:2 final size:2
Alignment explanation
Indices: 62004864--62004932 Score: 52
Period size: 2 Copynumber: 34.5 Consensus size: 2
62004854 CACATGTCGA
* * * * *
62004864 AT AT AT AT AT AT AT AT AT AT AC AT ACT -T AT GT TT AT GCT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT -AT AT AT
*
62004907 A- AT AT AT AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
62004933 CCTAATTTTT
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
1 2 0.04
2 49 0.92
3 2 0.04
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:62007042 original size:30 final size:29
Alignment explanation
Indices: 62007001--62007057 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
62006991 TATAATTAAG
* *
62007001 AAAATTAAAAGGGCTAGAAATTGAATAACA
1 AAAAATAAAAGGGCT-GAAATTAAATAACA
*
62007031 AAAAATAAAAGGGGTGAAATTAAATAA
1 AAAAATAAAAGGGCTGAAATTAAATAA
62007058 GTAAAGGACT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.60, C:0.04, G:0.18, T:0.19
Consensus pattern (29 bp):
AAAAATAAAAGGGCTGAAATTAAATAACA
Found at i:62008258 original size:15 final size:16
Alignment explanation
Indices: 62008240--62008274 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
62008230 TATTTTTAAA
62008240 TTTTGGGCTTTTA-GG
1 TTTTGGGCTTTTAGGG
62008255 TTTTGGGCTTTTAGGG
1 TTTTGGGCTTTTAGGG
62008271 TTTT
1 TTTT
62008275 TGTATTTGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.06, C:0.06, G:0.31, T:0.57
Consensus pattern (16 bp):
TTTTGGGCTTTTAGGG
Done.