Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 71 of 136
Found at i:23305903 original size:39 final size:41
Alignment explanation
Indices: 23305831--23305916 Score: 115
Period size: 39 Copynumber: 2.2 Consensus size: 41
23305821 AAAAATATCA
*
23305831 CTAAAAATCGAGCATTAGCGGCGTTTCTAGG-AAAGCGCCG
1 CTAAAAATCGAGCATTAGCGGCGTTTCTAGGAAAAACGCCG
* * *
23305871 CTAAAAAT-TAGCATTAGCGGCGTTTTTTGGAAAAACGCCG
1 CTAAAAATCGAGCATTAGCGGCGTTTCTAGGAAAAACGCCG
23305911 C-AAAAA
1 CTAAAAA
23305917 GTCTAAGTCC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
39 24 0.59
40 17 0.41
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (41 bp):
CTAAAAATCGAGCATTAGCGGCGTTTCTAGGAAAAACGCCG
Found at i:23306031 original size:41 final size:41
Alignment explanation
Indices: 23305948--23306216 Score: 403
Period size: 41 Copynumber: 6.5 Consensus size: 41
23305938 TTTGTACCTT
*
23305948 TCAGATCTTTAGCGGCGTTTTTAAAAAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTT-GAAAAAGCGCCGCTAATGC
* * *
23305990 TTAGATCTTTAGCAGCGTTTTTGAGAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
23306031 TCAGATCTTTTGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
23306072 TCAAATCTTTAGCGGCGTTTTTGATAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
23306113 TTAGATCTTTAGCGGCGTTTTTAAAAAAGCGCCACTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
23306154 TCAGATCTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
**
23306195 TCAGGGCTTTAGCGGCGTTTTT
1 TCAGATCTTTAGCGGCGTTTTT
23306217 AAACATATTT
Statistics
Matches: 205, Mismatches: 22, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
41 185 0.90
42 20 0.10
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (41 bp):
TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:23306689 original size:82 final size:82
Alignment explanation
Indices: 23306603--23306764 Score: 254
Period size: 82 Copynumber: 2.0 Consensus size: 82
23306593 ATTTAGTGTT
* * * *
23306603 AGGTTAGGGTTTATGGTTTAGATTAATTAGTGTGTTTTAATTTATATATTACATAATGTTTAGGG
1 AGGTTAGGGTTTATGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGAG
23306668 GTTAG-GGATTTGGGGCC
66 GTTAGTGG-TTTGGGGCC
* *
23306685 AGGTTAGGGTTTATGATTTAGATTAATTAGTGTTTTTTAATTTCTATATTAAATAAGGTTTAGAG
1 AGGTTAGGGTTTATGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGAG
23306750 GTTAGTGGTTTGGGG
66 GTTAGTGGTTTGGGG
23306765 TTTGGGGTTA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
82 71 0.97
83 2 0.03
ACGTcount: A:0.25, C:0.02, G:0.27, T:0.45
Consensus pattern (82 bp):
AGGTTAGGGTTTATGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGAG
GTTAGTGGTTTGGGGCC
Found at i:23307884 original size:41 final size:41
Alignment explanation
Indices: 23307827--23307913 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 41
23307817 AAGTTCTACG
* *
23307827 ATTTTGGGCCGACTTTGTTATACGGGCATGTCCATATAAAA
1 ATTTTGGGCCGACTTTGTTATACAGGCATATCCATATAAAA
*
23307868 ATTTTGGGCCGACTTTGTTATACAGGCTTATCCATATAAAA
1 ATTTTGGGCCGACTTTGTTATACAGGCATATCCATATAAAA
23307909 ATTTT
1 ATTTT
23307914 ATCCATATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (41 bp):
ATTTTGGGCCGACTTTGTTATACAGGCATATCCATATAAAA
Found at i:23311830 original size:43 final size:43
Alignment explanation
Indices: 23311751--23311916 Score: 264
Period size: 43 Copynumber: 3.9 Consensus size: 43
23311741 CGTTTTTGCA
* *
23311751 AAAAGCGTCGCTAAAGG--ATTGTTCTTTAGCGGCGTTTGTGAT
1 AAAAGCGCCGCTAAAGGTCA-TGTTCTTTAGCGGCGTTTGTGAC
* *
23311793 AAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGACGTTTGTGAC
1 AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAC
23311836 AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAC
1 AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAC
*
23311879 AGAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTT
1 AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTT
23311917 TTTCACATAA
Statistics
Matches: 117, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
42 17 0.15
43 99 0.85
44 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAC
Found at i:23324812 original size:3 final size:3
Alignment explanation
Indices: 23324804--23324852 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
23324794 AGCCGAGTTG
23324804 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23324851 TA
1 TA
23324853 GCTTATTTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:23349237 original size:25 final size:24
Alignment explanation
Indices: 23349192--23349244 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
23349182 GTCATTAGGG
* *
23349192 TTACTGATTCCAGCTCTTATGAGC
1 TTACTGATACCAGCTCGTATGAGC
23349216 TTACTGATACTCAGCTCGTATGAGC
1 TTACTGATAC-CAGCTCGTATGAGC
23349241 TTAC
1 TTAC
23349245 CGTTATTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 9 0.35
25 17 0.65
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (24 bp):
TTACTGATACCAGCTCGTATGAGC
Found at i:23349258 original size:25 final size:25
Alignment explanation
Indices: 23349209--23349273 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
23349199 TTCCAGCTCT
* * *
23349209 TATGAGCTTACTGATACTCAGCTCG
1 TATGAGCTTACCGTTACTCAACTCG
*
23349234 TATGAGCTTACCGTTATTCAACTCG
1 TATGAGCTTACCGTTACTCAACTCG
* * *
23349259 GAGGAGCTTATCGTT
1 TATGAGCTTACCGTT
23349274 TATCGTTCGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (25 bp):
TATGAGCTTACCGTTACTCAACTCG
Found at i:23352385 original size:16 final size:16
Alignment explanation
Indices: 23352364--23352398 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
23352354 CACAAAATAA
23352364 CTAATATTTAGACACT
1 CTAATATTTAGACACT
23352380 CTAATATTTAGACACT
1 CTAATATTTAGACACT
23352396 CTA
1 CTA
23352399 GGTACATGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (16 bp):
CTAATATTTAGACACT
Found at i:23352895 original size:22 final size:23
Alignment explanation
Indices: 23352870--23352926 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
23352860 TGCACTAATG
*
23352870 AACAAAGAGCACTA-AAGTGCTA
1 AACAGAGAGCACTATAAGTGCTA
*
23352892 AACAGAGAGCAC-ATATGTGCTA
1 AACAGAGAGCACTATAAGTGCTA
*
23352914 AACGGAGAGCACT
1 AACAGAGAGCACT
23352927 GTGGTGCTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.03
22 29 0.97
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (23 bp):
AACAGAGAGCACTATAAGTGCTA
Found at i:23353909 original size:5 final size:5
Alignment explanation
Indices: 23353899--23353941 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
23353889 GTTTGTTTTC
23353899 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
23353942 TACTTAAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:23353984 original size:10 final size:10
Alignment explanation
Indices: 23353899--23353984 Score: 55
Period size: 10 Copynumber: 8.0 Consensus size: 10
23353889 GTTTGTTTTC
*
23353899 ATAATATAAT
1 ATAATATATT
*
23353909 ATAATATAAT
1 ATAATATATT
*
23353919 ATAATATAAT
1 ATAATATATT
23353929 ATAATATAATAT
1 ATAATAT-AT-T
* *
23353941 ATACTTAAATT
1 ATA-ATATATT
*
23353952 TTAAGTAATATT
1 ATAA-T-ATATT
*
23353964 ATTACTATATT
1 A-TAATATATT
23353975 ATAATATATT
1 ATAATATATT
23353985 TTAACTTTAG
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
10 35 0.57
11 11 0.18
12 11 0.18
13 4 0.07
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.45
Consensus pattern (10 bp):
ATAATATATT
Found at i:23356884 original size:2 final size:2
Alignment explanation
Indices: 23356877--23356902 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23356867 TCATCCCATC
23356877 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
23356903 CTCATCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23359951 original size:15 final size:15
Alignment explanation
Indices: 23359931--23359972 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
23359921 TTTTTTTATG
*
23359931 TTTTTAATTACTTTA
1 TTTTTAATTAATTTA
*
23359946 TTTTT-ATAAATTTA
1 TTTTTAATTAATTTA
23359960 TATTTTAATTAAT
1 T-TTTTAATTAAT
23359973 AAAATTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 8 0.36
15 9 0.41
16 5 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTTTAATTAATTTA
Found at i:23370317 original size:28 final size:30
Alignment explanation
Indices: 23370258--23370320 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 30
23370248 AAAAAAAATG
* *
23370258 CATTTTGACCCCTGTACTTTTTGAAATTTA
1 CATTTTGACCCCTGTACTTTTTCAAAATTA
23370288 CATTTTGA-CCCTGTAC-TTTTCAAAATTA
1 CATTTTGACCCCTGTACTTTTTCAAAATTA
23370316 CATTT
1 CATTT
23370321 CAACCCTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 15 0.48
29 8 0.26
30 8 0.26
ACGTcount: A:0.25, C:0.21, G:0.08, T:0.46
Consensus pattern (30 bp):
CATTTTGACCCCTGTACTTTTTCAAAATTA
Found at i:23370326 original size:28 final size:28
Alignment explanation
Indices: 23370267--23370344 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 28
23370257 GCATTTTGAC
* * **
23370267 CCCTGTACTTTTTGAAATTTACATTTTGA
1 CCCTGTAC-TTTTCAAAATTACATTTCAA
23370296 CCCTGTACTTTTCAAAATTACATTTCAA
1 CCCTGTACTTTTCAAAATTACATTTCAA
23370324 CCCT-TAAACTTTCTCAAAATT
1 CCCTGT--ACTTT-TCAAAATT
23370345 TTACTTTAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 1 0.02
28 20 0.48
29 13 0.31
30 8 0.19
ACGTcount: A:0.29, C:0.23, G:0.05, T:0.42
Consensus pattern (28 bp):
CCCTGTACTTTTCAAAATTACATTTCAA
Found at i:23370356 original size:30 final size:29
Alignment explanation
Indices: 23370302--23370380 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 29
23370292 TTGACCCTGT
*
23370302 ACTTTTCAAAATTACATTTCAACCCTTAA
1 ACTTTTCAAAATTACATTTCAACCCCTAA
23370331 ACTTTCTCAAAATTTTAC-TTT-AACCCCTAA
1 ACTTT-TCAAAA--TTACATTTCAACCCCTAA
* *
23370361 AATTTTAAGAAATTACATTT
1 ACTTTTCA-AAATTACATTT
23370381 TGGCCCATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
28 4 0.10
29 10 0.24
30 21 0.50
31 3 0.07
32 4 0.10
ACGTcount: A:0.38, C:0.20, G:0.01, T:0.41
Consensus pattern (29 bp):
ACTTTTCAAAATTACATTTCAACCCCTAA
Found at i:23370655 original size:20 final size:20
Alignment explanation
Indices: 23370631--23370669 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
23370621 CGGCAGCAAA
*
23370631 AAAAACAAAAAAACAGCAGAG
1 AAAATCAAAAAAA-AGCAGAG
*
23370652 AAAATTAAAAAAAAGCAG
1 AAAATCAAAAAAAAGCAG
23370670 CAAGCAAAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.72, C:0.10, G:0.13, T:0.05
Consensus pattern (20 bp):
AAAATCAAAAAAAAGCAGAG
Found at i:23370960 original size:11 final size:11
Alignment explanation
Indices: 23370940--23371015 Score: 70
Period size: 11 Copynumber: 7.0 Consensus size: 11
23370930 CCCGAAGAAG
*
23370940 AAGAAGGAAAA
1 AAGAAAGAAAA
23370951 AAGAAAG-AAA
1 AAGAAAGAAAA
23370961 AAG-AAGAAGAAA
1 AAGAAAG-A-AAA
*
23370973 AAGAGAGAAAA
1 AAGAAAGAAAA
23370984 AAGAAAGAGAAA
1 AAGAAAGA-AAA
*
23370996 AA-AAGGAAAA
1 AAGAAAGAAAA
23371006 AA-AAAGAAAA
1 AAGAAAGAAAA
23371016 GAAAAATCAA
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
9 3 0.05
10 18 0.33
11 20 0.36
12 12 0.22
13 2 0.04
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (11 bp):
AAGAAAGAAAA
Found at i:23370969 original size:24 final size:22
Alignment explanation
Indices: 23370937--23371021 Score: 82
Period size: 23 Copynumber: 3.6 Consensus size: 22
23370927 TGACCCGAAG
23370937 AAGAAGAAGGAAAAAAGAAAGAAA
1 AAGAA-AA-GAAAAAAGAAAGAAA
*
23370961 AAGAAGAAG-AAAAAGAGAGAAAA
1 AAGAA-AAGAAAAAAGAAAG-AAA
*
23370984 AAGAAAGAGAAAAAAAGGAAAAAAA
1 AAGAAA-AG-AAAAAA-GAAAGAAA
23371009 AAGAAAAGAAAAA
1 AAGAAAAGAAAAA
23371022 TCAACAGTCG
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
22 10 0.19
23 16 0.30
24 10 0.19
25 14 0.26
26 3 0.06
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (22 bp):
AAGAAAAGAAAAAAGAAAGAAA
Found at i:23370983 original size:33 final size:34
Alignment explanation
Indices: 23370933--23370996 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
23370923 GGTGTGACCC
*
23370933 GAAGAAGAAGAAGGAAAAAAGAAAGA-AAAAGAA
1 GAAGAAAAAGAAGGAAAAAAGAAAGAGAAAAGAA
23370966 GAAGAAAAAG-AGAGAAAAAAGAAAGAGAAAA
1 GAAGAAAAAGAAG-GAAAAAAGAAAGAGAAAA
23370997 AAAGGAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 2 0.07
33 22 0.79
34 4 0.14
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (34 bp):
GAAGAAAAAGAAGGAAAAAAGAAAGAGAAAAGAA
Found at i:23370994 original size:26 final size:24
Alignment explanation
Indices: 23370941--23371021 Score: 80
Period size: 24 Copynumber: 3.4 Consensus size: 24
23370931 CCGAAGAAGA
* *
23370941 AGAAGGAAAAA-AGAAAGAAAAAG
1 AGAAGAAAAAAGAGAAAAAAAAAG
23370964 AAGAAGAAAAAGAGAGAAAAAAGAAAG
1 -AGAAGAAAAA-AGAGAAAAAA-AAAG
23370991 AG-A-AAAAAAG-GAAAAAAAAAG
1 AGAAGAAAAAAGAGAAAAAAAAAG
*
23371012 AAAAGAAAAA
1 AGAAGAAAAA
23371022 TCAACAGTCG
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
21 5 0.10
22 8 0.16
23 7 0.14
24 14 0.29
25 2 0.04
26 9 0.18
27 4 0.08
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (24 bp):
AGAAGAAAAAAGAGAAAAAAAAAG
Found at i:23371007 original size:33 final size:32
Alignment explanation
Indices: 23370946--23371015 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 32
23370936 GAAGAAGAAG
* *
23370946 GAAAAAAGAAAGAAAAAGAAGAAGAAAAAGAGA
1 GAAAAAAGAAAGAAAAAAAAGAAGAAAAA-AAA
*
23370979 GAAAAAAGAAAGAGAAAAAAAGGA-AAAAAAAA
1 GAAAAAAGAAAGA-AAAAAAAGAAGAAAAAAAA
23371011 GAAAA
1 GAAAA
23371016 GAAAAATCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 7 0.21
33 18 0.55
34 8 0.24
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (32 bp):
GAAAAAAGAAAGAAAAAAAAGAAGAAAAAAAA
Found at i:23371020 original size:10 final size:10
Alignment explanation
Indices: 23370949--23371020 Score: 51
Period size: 10 Copynumber: 6.9 Consensus size: 10
23370939 GAAGAAGGAA
23370949 AAAAG-AAAG
1 AAAAGAAAAG
23370958 AAAAAGAAGAAG
1 -AAAAGAA-AAG
23370970 AAAAAGAGAGAA-
1 -AAAAGA-A-AAG
23370982 AAAAGAAAGAG
1 AAAAGAAA-AG
*
23370993 AAAA-AAAGG
1 AAAAGAAAAG
*
23371002 AAAAAAAAAG
1 AAAAGAAAAG
23371012 AAAAGAAAA
1 AAAAGAAAA
23371021 ATCAACAGTC
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
9 6 0.11
10 22 0.42
11 11 0.21
12 10 0.19
13 4 0.08
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAG
Found at i:23371055 original size:13 final size:13
Alignment explanation
Indices: 23371037--23371062 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23371027 AGTCGGGTCA
23371037 ACCCGACCCGACC
1 ACCCGACCCGACC
23371050 ACCCGACCCGACC
1 ACCCGACCCGACC
23371063 CGGATCCGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.62, G:0.15, T:0.00
Consensus pattern (13 bp):
ACCCGACCCGACC
Found at i:23371935 original size:18 final size:17
Alignment explanation
Indices: 23371914--23372043 Score: 100
Period size: 18 Copynumber: 7.3 Consensus size: 17
23371904 GAGTTTTCAA
*
23371914 AAAAATTTCTCGCGTTTC
1 AAAAATTT-TCGTGTTTC
*
23371932 AAAAATTTTCGTTTTTTC
1 AAAAATTTTCG-TGTTTC
23371950 AAAAAATTCTT-GTGTTTC
1 -AAAAATT-TTCGTGTTTC
*
23371968 AAAAATTTTCGCGTTTTC
1 AAAAATTTTCGTG-TTTC
* *
23371986 AAAATTTTTCGTGTTTTAA
1 AAAAATTTTCGTG-TTT-C
* * *
23372005 AAAAAATTTCATATTTC
1 AAAAATTTTCGTGTTTC
* *
23372022 AAAAATATTCGTGTTTT
1 AAAAATTTTCGTGTTTC
23372039 AAAAA
1 AAAAA
23372044 AATAAAAAAA
Statistics
Matches: 89, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
16 2 0.02
17 29 0.33
18 39 0.44
19 17 0.19
20 2 0.02
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTC
Found at i:23371954 original size:36 final size:36
Alignment explanation
Indices: 23371914--23372007 Score: 118
Period size: 36 Copynumber: 2.6 Consensus size: 36
23371904 GAGTTTTCAA
* **
23371914 AAAAATTTCTCGCGTTTCAAAAATTTTCGTTTTTTC
1 AAAAATTTCTCGTGTTTCAAAAATTTTCGCGTTTTC
* *
23371950 AAAAAATTCTTGTGTTTCAAAAATTTTCGCGTTTTC
1 AAAAATTTCTCGTGTTTCAAAAATTTTCGCGTTTTC
* *
23371986 -AAAATTTTTCGTGTTTTAAAAA
1 AAAAATTTCTCGTGTTTCAAAAA
23372008 AAATTTCATA
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 18 0.37
36 31 0.63
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.46
Consensus pattern (36 bp):
AAAAATTTCTCGTGTTTCAAAAATTTTCGCGTTTTC
Found at i:23372022 original size:54 final size:54
Alignment explanation
Indices: 23371914--23372044 Score: 149
Period size: 54 Copynumber: 2.4 Consensus size: 54
23371904 GAGTTTTCAA
** ** *
23371914 AAAAATTTCTCGCG-TTTCAAAAATTTTCGTTTTTTCAAAAAATTCTTGTGTTTC
1 AAAAATTT-TCGCGTTTTCAAAAATTTTCGTTTTTAAAAAAAATTCTCATATTTC
*
23371968 AAAAATTTTCGCGTTTTCAAAATTTTTCGTGTTTTAAAAAAAATT-TCATATTTC
1 AAAAATTTTCGCGTTTTCAAAAATTTTCGT-TTTTAAAAAAAATTCTCATATTTC
* * *
23372022 AAAAATATTCGTGTTTTAAAAAA
1 AAAAATTTTCGCGTTTTCAAAAA
23372045 ATAAAAAAAG
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
53 5 0.08
54 48 0.74
55 12 0.18
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.44
Consensus pattern (54 bp):
AAAAATTTTCGCGTTTTCAAAAATTTTCGTTTTTAAAAAAAATTCTCATATTTC
Found at i:23372046 original size:19 final size:20
Alignment explanation
Indices: 23371986--23372047 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 20
23371976 TCGCGTTTTC
*
23371986 AAAATTTTTCGTGTTTTAAA
1 AAAATATTTCGTGTTTTAAA
* * *
23372006 AAAA-ATTTCAT-ATTT-CA
1 AAAATATTTCGTGTTTTAAA
23372023 AAAATA-TTCGTGTTTTAAA
1 AAAATATTTCGTGTTTTAAA
23372042 AAAATA
1 AAAATA
23372048 AAAAAAGAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
17 9 0.28
18 7 0.22
19 12 0.38
20 4 0.12
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (20 bp):
AAAATATTTCGTGTTTTAAA
Found at i:23372082 original size:18 final size:17
Alignment explanation
Indices: 23372062--23372122 Score: 77
Period size: 17 Copynumber: 3.5 Consensus size: 17
23372052 AAGAATCCAT
23372062 TTTTCAAAATTCCCGTG
1 TTTTCAAAATTCCCGTG
*
23372079 TTTTCAAAAATTCCAGTG
1 TTTTC-AAAATTCCCGTG
* * *
23372097 TTTTAAAAATTTCCGTA
1 TTTTCAAAATTCCCGTG
23372114 TTTTCAAAA
1 TTTTCAAAA
23372123 ATTTCCTNNN
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
17 22 0.59
18 15 0.41
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.43
Consensus pattern (17 bp):
TTTTCAAAATTCCCGTG
Found at i:23372123 original size:18 final size:18
Alignment explanation
Indices: 23372062--23372128 Score: 86
Period size: 18 Copynumber: 3.8 Consensus size: 18
23372052 AAGAATCCAT
*
23372062 TTTTC-AAAATTCCCGTG
1 TTTTCAAAAATTTCCGTG
23372079 TTTTCAAAAA-TTCCAGTG
1 TTTTCAAAAATTTCC-GTG
*
23372097 TTTT-AAAAATTTCCGTA
1 TTTTCAAAAATTTCCGTG
23372114 TTTTCAAAAATTTCC
1 TTTTCAAAAATTTCC
23372129 TNNNNNNNNN
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
17 19 0.43
18 25 0.57
ACGTcount: A:0.31, C:0.18, G:0.07, T:0.43
Consensus pattern (18 bp):
TTTTCAAAAATTTCCGTG
Found at i:23379034 original size:74 final size:74
Alignment explanation
Indices: 23378933--23379276 Score: 645
Period size: 74 Copynumber: 4.7 Consensus size: 74
23378923 TTGTTCTTCA
*
23378933 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTTGG
1 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCGG
23378998 TCTTTTTTT
66 TCTTTTTTT
*
23379007 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACACTGAGGTATTTTTAATTTCGG
1 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCGG
23379072 T-TTTTTTT
66 TCTTTTTTT
* *
23379080 TAAATCAACTCATAATACAGAAGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCGG
1 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCGG
23379145 TCTTTTTTT
66 TCTTTTTTT
23379154 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCGG
1 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCGG
23379219 TCTTTTTTT
66 TCTTTTTTT
23379228 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAG
1 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAG
23379277 TTANNNNNNN
Statistics
Matches: 262, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
73 70 0.27
74 192 0.73
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (74 bp):
AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCGG
TCTTTTTTT
Found at i:23379106 original size:147 final size:148
Alignment explanation
Indices: 23378933--23379276 Score: 645
Period size: 147 Copynumber: 2.3 Consensus size: 148
23378923 TTGTTCTTCA
*
23378933 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTTGG
1 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCGG
23378998 TCTTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACACTGAGGTATTTT
66 TCTTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACACTGAGGTATTTT
23379063 TAATTTCGGT-TTTTTTT
131 TAATTTCGGTCTTTTTTT
* *
23379080 TAAATCAACTCATAATACAGAAGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCGG
1 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCGG
*
23379145 TCTTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTT
66 TCTTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACACTGAGGTATTTT
23379210 TAATTTCGGTCTTTTTTT
131 TAATTTCGGTCTTTTTTT
23379228 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAG
1 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAG
23379277 TTANNNNNNN
Statistics
Matches: 190, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
147 136 0.72
148 54 0.28
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (148 bp):
AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCGG
TCTTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACACTGAGGTATTTT
TAATTTCGGTCTTTTTTT
Found at i:23380834 original size:80 final size:80
Alignment explanation
Indices: 23380483--23382637 Score: 3870
Period size: 80 Copynumber: 27.1 Consensus size: 80
23380473 NNNNNNNNAA
* * * * *
23380483 AAATCAACTCATATTGCGAGAGGTGAGTTGAGGCTCGGGTCGCACGCTGA-GG---TATTTTAAA
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
* * *
23380544 TTTCTATTTTTAAAA
66 TTTCTGTTTTTCAAC
* * * * *
23380559 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTTAGGTATTTCTTTTAAA
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
*
23380624 TTTCTGTTTTTCAAA
66 TTTCTGTTTTTCAAC
* * ** * *
23380639 AATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTGCACGTTGAGGTATTTCTTTTAA
1 AA-ATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAA
*
23380704 ATTTCT-ATTTTCAA-
65 ATTTCTGTTTTTCAAC
* * *
23380718 AAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
23380783 TTTCTGTTTTTCAAC
66 TTTCTGTTTTTCAAC
23380798 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
23380863 TTTCTGTTTTTCAAC
66 TTTCTGTTTTTCAAC
23380878 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
23380943 TTTCTGTTTTTCAAC
66 TTTCTGTTTTTCAAC
23380958 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
23381023 TTTCTGTTTTTCAAC
66 TTTCTGTTTTTCAAC
23381038 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
23381103 TTTCTGTTTTTCAAC
66 TTTCTGTTTTTCAAC
23381118 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
23381183 TTTCTGTTTTTCAAC
66 TTTCTGTTTTTCAAC
23381198 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
23381263 TTTCTGTTTTTCAAC
66 TTTCTGTTTTTCAAC
23381278 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
23381343 TTTCTGTTTTTCAAC
66 TTTCTGTTTTTCAAC
23381358 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
23381423 TTTCTGTTTTTCAAC
66 TTTCTGTTTTTCAAC
23381438 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
23381503 TTTCTGTTTTTCAAC
66 TTTCTGTTTTTCAAC
23381518 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
23381583 TTTCTGTTTTTCAAC
66 TTTCTGTTTTTCAAC
23381598 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
23381663 TTTCTGTTTTTCAAC
66 TTTCTGTTTTTCAAC
23381678 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
23381743 TTTCTGTTTTTCAAC
66 TTTCTGTTTTTCAAC
23381758 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
23381823 TTTCTGTTTTTCAAC
66 TTTCTGTTTTTCAAC
23381838 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
23381903 TTTCTGTTTTTCAAC
66 TTTCTGTTTTTCAAC
23381918 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
23381983 TTTCTGTTTTTCAAC
66 TTTCTGTTTTTCAAC
23381998 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
23382063 TTTCTGTTTTTCAAC
66 TTTCTGTTTTTCAAC
23382078 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
23382143 TTTCTGTTTTTCAAC
66 TTTCTGTTTTTCAAC
23382158 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
23382223 TTTCTGTTTTTCAAC
66 TTTCTGTTTTTCAAC
23382238 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
23382303 TTTCTGTTTTTCAAC
66 TTTCTGTTTTTCAAC
23382318 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
23382383 TTTCTGTTTTTCAAC
66 TTTCTGTTTTTCAAC
23382398 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
23382463 TTTCTGTTTTTCAAC
66 TTTCTGTTTTTCAAC
* **
23382478 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGG--TCACGCTGAGGGATTT-TTATTTT
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTT-TTAA
* *
23382540 ATGTCT-TTTTTTAA-
65 ATTTCTGTTTTTCAAC
* * * * * *
23382554 AAATCAACTCATAATGCGAGAGGTGAGTTGAGGCTCGGGTCGCACGCTGA-GG-TAT-TTTTAAA
1 AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
*
23382616 TTTCTGTTTTTCAAA
66 TTTCTGTTTTTCAAC
23382631 AAATCAA
1 AAATCAA
23382638 CTCACACGCT
Statistics
Matches: 2033, Mismatches: 34, Indels: 23
0.97 0.02 0.01
Matches are distributed among these distances:
75 7 0.00
76 94 0.05
77 19 0.01
78 93 0.05
79 9 0.00
80 1746 0.86
81 65 0.03
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (80 bp):
AAATCAAATCATATTGCGAGAAGTGAGTTGAGCCTCGGGACGCACGCTGAGGGATTTCTTTTAAA
TTTCTGTTTTTCAAC
Found at i:23382663 original size:46 final size:46
Alignment explanation
Indices: 23382596--23382687 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
23382586 GCTCGGGTCG
*
23382596 CACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAAATCAACTCA
1 CACGCTAAGGTATTTTTAAATTTCTGTTTTTCAAAAAATCAACTCA
*
23382642 CACGCTAAGGTATTTTTAAATTTTTGTTTTTCAAAAAATCAACTCA
1 CACGCTAAGGTATTTTTAAATTTCTGTTTTTCAAAAAATCAACTCA
23382688 TATTGCGAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (46 bp):
CACGCTAAGGTATTTTTAAATTTCTGTTTTTCAAAAAATCAACTCA
Found at i:23382776 original size:79 final size:79
Alignment explanation
Indices: 23382655--23383608 Score: 1373
Period size: 79 Copynumber: 12.3 Consensus size: 79
23382645 GCTAAGGTAT
*
23382655 TTTTAAATTTTTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGC
1 TTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGC
23382720 ACGCTGAGGTATTTC
65 ACGCTGAGGTATTTC
23382735 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCA
23382800 CGCTGAGGTATTTC
66 CGCTGAGGTATTTC
23382814 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCA
23382879 CGCTGAGGTATTTC
66 CGCTGAGGTATTTC
23382893 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCA
*
23382958 CGCTGAGTTATTTC
66 CGCTGAGGTATTTC
23382972 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCA
23383037 CGCTGAGGTATTTC
66 CGCTGAGGTATTTC
*
23383051 TTTTAAATTTCTG-TTTTCAAAAAATCAACTCATATTGCGAGAGTTGAGTTGAGCCTCGGGTCGC
1 TTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGC
23383115 ACGCTGAGGTATTTC
65 ACGCTGAGGTATTTC
* * * *
23383130 TTTTAAATTTCTGTTTTTCAAAAAAGCAACTCATATTGCGAGAGGTAAGTTGAACCTTGGGTCGC
1 TTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGC
*
23383195 ACGCTGAGGTGTTTC
65 ACGCTGAGGTATTTC
* * * * *
23383210 TTTTAAATTTCCG-TTTTCAAAAATAAACTCATATTGTGAGAGGTGAGTTAAGCCTCGAGT--CA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCA
23383272 CG-TCGAGGTA--T-
66 CGCT-GAGGTATTTC
* * *
23383283 TTTTCAATTTCTGTTTTTCGAAAATCAACTCATATTGCGAGTGGTGAGTTGAGCCTCGGGTCGCA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCA
*
23383348 CACTGAGGTATTT-
66 CGCTGAGGTATTTC
* *
23383361 TTTTAAAATTTCTATTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGT
1 TTTT-AAATTTC---TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
23383426 --CACGCTGAGGTA----
62 CGCACGCTGAGGTATTTC
* * * *
23383438 TTTTAAATTGT-T-TTTTT---AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AGACCC
1 TTTTAAATT-TCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGC
* **
23383497 ATGCCAAGGTATTTC
65 ACGCTGAGGTATTTC
* * *
23383512 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCCACA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCA
*
23383577 CGCCGAGGTA----
66 CGCTGAGGTATTTC
*
23383587 TTTTCAATTTCTGTTTTTCAAA
1 TTTTAAATTTCTGTTTTTCAAA
23383609 TAAAAAGAAA
Statistics
Matches: 798, Mismatches: 50, Indels: 57
0.88 0.06 0.06
Matches are distributed among these distances:
68 1 0.00
69 34 0.04
70 9 0.01
72 5 0.01
73 13 0.02
74 52 0.07
75 27 0.03
76 23 0.03
77 6 0.01
78 78 0.10
79 403 0.51
80 101 0.13
82 46 0.06
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (79 bp):
TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCA
CGCTGAGGTATTTC
Found at i:23383802 original size:29 final size:28
Alignment explanation
Indices: 23383768--23383852 Score: 100
Period size: 29 Copynumber: 3.0 Consensus size: 28
23383758 ACAAAAATAA
23383768 AAAATTACATTTTGACCCCTAAAATTTTT
1 AAAATTACATTTTGACCCCT-AAATTTTT
* * * * *
23383797 GAAATTTCACTTTAACCCCTCAACTTTTT
1 AAAATTACATTTTGACCCCT-AAATTTTT
23383826 AAAATTACATTTTGA-CCCTAAATTTTT
1 AAAATTACATTTTGACCCCTAAATTTTT
23383853 CTCAAAATTA
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
27 7 0.16
28 4 0.09
29 34 0.76
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.42
Consensus pattern (28 bp):
AAAATTACATTTTGACCCCTAAATTTTT
Found at i:23384239 original size:22 final size:21
Alignment explanation
Indices: 23384203--23384266 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
23384193 AGCAAAGATA
*
23384203 CAAA-AAAGTAAAAAAAAATAG
1 CAAACAAAG-AAAAAAAAAGAG
23384224 CAAACAAAGAAGAAAAAAAGAG
1 CAAACAAAGAA-AAAAAAAGAG
*
23384246 CAAAGAAAGAAAAGAAAAAGA
1 CAAACAAAGAAAA-AAAAAGA
23384267 AGAAAATAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
21 8 0.21
22 30 0.79
ACGTcount: A:0.75, C:0.06, G:0.16, T:0.03
Consensus pattern (21 bp):
CAAACAAAGAAAAAAAAAGAG
Found at i:23384265 original size:15 final size:16
Alignment explanation
Indices: 23384233--23384272 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
23384223 GCAAACAAAG
*
23384233 AAGAAA-AAAAGAGCA
1 AAGAAAGAAAAGAGAA
23384248 AAGAAAGAAAAGA-AA
1 AAGAAAGAAAAGAGAA
23384263 AAG-AAGAAAA
1 AAGAAAGAAAA
23384273 TAGGGGAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 7 0.30
15 10 0.43
16 6 0.26
ACGTcount: A:0.78, C:0.03, G:0.20, T:0.00
Consensus pattern (16 bp):
AAGAAAGAAAAGAGAA
Found at i:23384358 original size:4 final size:4
Alignment explanation
Indices: 23384349--23384403 Score: 53
Period size: 4 Copynumber: 14.0 Consensus size: 4
23384339 GGCTGATCGG
* *
23384349 GAAA GAAA GAAA GGAAG GAAA G-AA G-AA GAAA GAAA GAAGA AAAA GAAA
1 GAAA GAAA GAAA -GAAA GAAA GAAA GAAA GAAA GAAA GAA-A GAAA GAAA
23384397 G-AA GAAA
1 GAAA GAAA
23384404 ATGGGAAGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
3 9 0.21
4 28 0.65
5 6 0.14
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:23384398 original size:21 final size:22
Alignment explanation
Indices: 23384349--23384445 Score: 75
Period size: 24 Copynumber: 4.5 Consensus size: 22
23384339 GGCTGATCGG
23384349 GAAAGAAAGAAAGGAAGGAAAGAA
1 GAAAGAAAGAAAGGAA-GAAA-AA
23384373 G-AAGAAAGAAA-GAAGAAAAA
1 GAAAGAAAGAAAGGAAGAAAAA
*
23384393 GAAAG-AAGAAAATGGGAAGAAGAA
1 GAAAGAAAG-AAA--GGAAGAAAAA
*
23384417 GGAAG-AA-AAA--AAGAAAAA
1 GAAAGAAAGAAAGGAAGAAAAA
23384435 GAAA-AAAGAAA
1 GAAAGAAAGAAA
23384446 ATAATTTTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 19
0.73 0.05 0.22
Matches are distributed among these distances:
18 12 0.19
19 3 0.05
20 6 0.10
21 10 0.16
22 6 0.10
23 10 0.16
24 15 0.24
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.01
Consensus pattern (22 bp):
GAAAGAAAGAAAGGAAGAAAAA
Found at i:23384446 original size:21 final size:21
Alignment explanation
Indices: 23384366--23384446 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 21
23384356 AGAAAGGAAG
* *
23384366 GAAAGAAGAAGAAAG-AAAGAA
1 GAAA-AAGAAAAAAGAAAAAAA
* ***
23384387 GAAAAAGAAAGAAGAAAATGG
1 GAAAAAGAAAAAAGAAAAAAA
* **
23384408 GAAGAAGAAGGAAGAAAAAAA
1 GAAAAAGAAAAAAGAAAAAAA
23384429 GAAAAAGAAAAAAGAAAA
1 GAAAAAGAAAAAAGAAAA
23384447 TAATTTTTTT
Statistics
Matches: 46, Mismatches: 13, Indels: 2
0.75 0.21 0.03
Matches are distributed among these distances:
20 8 0.17
21 38 0.83
ACGTcount: A:0.73, C:0.00, G:0.26, T:0.01
Consensus pattern (21 bp):
GAAAAAGAAAAAAGAAAAAAA
Found at i:23385134 original size:15 final size:15
Alignment explanation
Indices: 23385110--23385158 Score: 64
Period size: 14 Copynumber: 3.3 Consensus size: 15
23385100 CAGTCCAACC
*
23385110 AGAAAAAAAAAAAGA
1 AGAAAGAAAAAAAGA
23385125 AGAAAGAAAAAAAAGA
1 AGAAAG-AAAAAAAGA
*
23385141 A-AAGGAAAAAAAGA
1 AGAAAGAAAAAAAGA
23385155 AGAA
1 AGAA
23385159 GAAGAGGAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 10 0.33
15 10 0.33
16 10 0.33
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AGAAAGAAAAAAAGA
Found at i:23385166 original size:20 final size:18
Alignment explanation
Indices: 23385111--23385166 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 18
23385101 AGTCCAACCA
23385111 GAAAAAAAAAAAGAAGA-
1 GAAAAAAAAAAAGAAGAG
* *
23385128 -AAGAAAAAAAAGAAAAG
1 GAAAAAAAAAAAGAAGAG
23385145 GAAAAAAAGAAGAAGAAGAG
1 GAAAAAAA-AA-AAGAAGAG
23385165 GA
1 GA
23385167 GCTCGAGTCG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
16 14 0.45
18 6 0.19
19 2 0.06
20 9 0.29
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (18 bp):
GAAAAAAAAAAAGAAGAG
Found at i:23385711 original size:18 final size:18
Alignment explanation
Indices: 23385649--23385732 Score: 84
Period size: 18 Copynumber: 4.8 Consensus size: 18
23385639 CGTCATTCAG
**
23385649 AAAAATTTTTATGTTTTC
1 AAAAATTTTCGTGTTTTC
*
23385667 AACAA--TTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
**
23385682 AAAAAAAATTCGTGTTTTC
1 -AAAAATTTTCGTGTTTTC
*
23385701 ACAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
23385719 AAAAATTTTCGTGT
1 AAAAATTTTCGTGT
23385733 AAAAAAAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
15 4 0.07
16 8 0.15
18 38 0.70
19 4 0.07
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTTC
Found at i:23387878 original size:42 final size:42
Alignment explanation
Indices: 23387825--23388022 Score: 270
Period size: 42 Copynumber: 4.7 Consensus size: 42
23387815 TTATACAAAG
* * *
23387825 CGCCGTTAAAGAACATGTTCTTTAGCGGCGCTTATAGAAAAA
1 CGCCGCTAAAGAACATGTTCTTCAGCGGCGCTTAGAGAAAAA
* *
23387867 CGCTGCTAAAGAACATGTTCTTCAGCGGCGCTTAAAGAAAAA
1 CGCCGCTAAAGAACATGTTCTTCAGCGGCGCTTAGAGAAAAA
* *
23387909 CGCCGCTTAAGAACATGTTCTTCAGCGGCGCTTAGAAAAAAA
1 CGCCGCTAAAGAACATGTTCTTCAGCGGCGCTTAGAGAAAAA
* * * *
23387951 CGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGATAAAAA
1 CGCCGCTAAAGAACATGTTCTTCAGCGGCGCTTAGAGAAAAA
* * *
23387993 CACCGCTAAAGACCATGTTCTTCAGTGGCG
1 CGCCGCTAAAGAACATGTTCTTCAGCGGCG
23388023 TTTTTTTCTA
Statistics
Matches: 139, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 139 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGTTCTTCAGCGGCGCTTAGAGAAAAA
Found at i:23387936 original size:84 final size:84
Alignment explanation
Indices: 23387825--23388064 Score: 275
Period size: 84 Copynumber: 2.9 Consensus size: 84
23387815 TTATACAAAG
* *
23387825 CGCCG-TTAAAGAACATGTTCTTTAGCGGCGCTTATAGAAAAACGCTGCTAAAGAACATGTTCTT
1 CGCCGCTT-AAGAACATGTTCTTCAGCGGCGCTTATAAAAAAACGCTGCTAAAGAACATGTTCTT
*
23387889 CAGCGGCGCTTAAAGAAAAA
65 TAGCGGCGCTTAAAGAAAAA
* ** *
23387909 CGCCGCTTAAGAACATGTTCTTCAGCGGCGCTTAGAAAAAAACGCCACTAAAGACCATGTTCTTT
1 CGCCGCTTAAGAACATGTTCTTCAGCGGCGCTTATAAAAAAACGCTGCTAAAGAACATGTTCTTT
* *
23387974 AGCGGCGCTTAGATAAAAA
66 AGCGGCGCTTAAAGAAAAA
* * * * * * **** * *
23387993 CACCGCTAAAGACCATGTTCTTCAGTGGCGTTTTTTTCTAAGCGCTGCTAAAGAACATGATCTTT
1 CGCCGCTTAAGAACATGTTCTTCAGCGGCGCTTATAAAAAAACGCTGCTAAAGAACATGTTCTTT
23388058 AGCGGCG
66 AGCGGCG
23388065 TTTTTGGTTG
Statistics
Matches: 130, Mismatches: 25, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
84 128 0.98
85 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (84 bp):
CGCCGCTTAAGAACATGTTCTTCAGCGGCGCTTATAAAAAAACGCTGCTAAAGAACATGTTCTTT
AGCGGCGCTTAAAGAAAAA
Found at i:23390908 original size:36 final size:36
Alignment explanation
Indices: 23390825--23390925 Score: 112
Period size: 36 Copynumber: 2.8 Consensus size: 36
23390815 TAAGCCATCT
* * * * * *
23390825 ATTGACAATATAAAATGCAAGAGGTGTGCAAATTGTTT
1 ATTGACGATATAAAATGTAA-A-ATGTGCAAACTATTC
*
23390863 ATTGACGATATGAAATGTAAAATGTGCAAACTATTC
1 ATTGACGATATAAAATGTAAAATGTGCAAACTATTC
*
23390899 ATTGGCGATATAAAATGTAAAATGTGC
1 ATTGACGATATAAAATGTAAAATGTGC
23390926 TATCGTTGGC
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
36 36 0.67
37 1 0.02
38 17 0.31
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.31
Consensus pattern (36 bp):
ATTGACGATATAAAATGTAAAATGTGCAAACTATTC
Found at i:23390938 original size:31 final size:33
Alignment explanation
Indices: 23390863--23390954 Score: 107
Period size: 31 Copynumber: 2.8 Consensus size: 33
23390853 CAAATTGTTT
* *
23390863 ATTGACGATATGAAATGTAAAATGTGCAAACTATTC
1 ATTGGCGATATAAAATGTAAAATGTG---ACTATTC
23390899 ATTGGCGATATAAAATGTAAAATGTG-CTA-TC
1 ATTGGCGATATAAAATGTAAAATGTGACTATTC
* *
23390930 GTTGGCGATGTAAAATGTAAAATGT
1 ATTGGCGATATAAAATGTAAAATGT
23390955 AAAATGTGTG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
31 25 0.48
32 3 0.06
36 24 0.46
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.32
Consensus pattern (33 bp):
ATTGGCGATATAAAATGTAAAATGTGACTATTC
Found at i:23390949 original size:7 final size:7
Alignment explanation
Indices: 23390937--23390961 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
23390927 ATCGTTGGCG
23390937 ATGTAAA
1 ATGTAAA
23390944 ATGTAAA
1 ATGTAAA
23390951 ATGTAAA
1 ATGTAAA
23390958 ATGT
1 ATGT
23390962 GTGATCATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (7 bp):
ATGTAAA
Found at i:23390960 original size:38 final size:38
Alignment explanation
Indices: 23390909--23390989 Score: 128
Period size: 38 Copynumber: 2.1 Consensus size: 38
23390899 ATTGGCGATA
*
23390909 TAAAATGTAAAATGTGCT-ATCGTTGGCGATGTAAAATG
1 TAAAATGTAAAATGTG-TGATCATTGGCGATGTAAAATG
*
23390947 TAAAATGTAAAATGTGTGATCATTGGTGATGTAAAATG
1 TAAAATGTAAAATGTGTGATCATTGGCGATGTAAAATG
23390985 TAAAA
1 TAAAA
23390990 GGTGCAAACT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
37 1 0.03
38 39 0.98
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (38 bp):
TAAAATGTAAAATGTGTGATCATTGGCGATGTAAAATG
Found at i:23391320 original size:60 final size:59
Alignment explanation
Indices: 23391208--23391322 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 59
23391198 TCACTTTCGT
* * * **
23391208 GGAGAGCCACAAAGAGTTCACGGAGGAGCCCGAATATTGAATATATGCCTCACCTCCAC
1 GGAGAGCCACAAAAAGTTCACGGAGGAGCCCGAATACTGAAGATACACCTCACCTCCAC
* * * *
23391267 GGAGAGCCATAAAAAGGTTCACGGAGGGGCCTGAATACTGAAGATACATCTCACCT
1 GGAGAGCCACAAAAA-GTTCACGGAGGAGCCCGAATACTGAAGATACACCTCACCT
23391323 ATGTGGAGAG
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
59 13 0.28
60 33 0.72
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.17
Consensus pattern (59 bp):
GGAGAGCCACAAAAAGTTCACGGAGGAGCCCGAATACTGAAGATACACCTCACCTCCAC
Found at i:23392930 original size:35 final size:34
Alignment explanation
Indices: 23392843--23392930 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
23392833 AGTAACAAAT
*
23392843 GTCCTACTCCCACATATGGGGGTAGGCTTACGAG
1 GTCCTACTCCCACACATGGGGGTAGGCTTACGAG
* *
23392877 GTTCTTGCTCCCACACATGGGGG-AGGCTTACGGGAG
1 G-TCCTACTCCCACACATGGGGGTAGGCTTAC--GAG
* *
23392913 GTCCTACTCTCATACATG
1 GTCCTACTCCCACACATG
23392931 AAGAGTAACG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
34 9 0.20
35 31 0.70
36 4 0.09
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (34 bp):
GTCCTACTCCCACACATGGGGGTAGGCTTACGAG
Found at i:23395327 original size:18 final size:18
Alignment explanation
Indices: 23395304--23395339 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23395294 GTTTTATTCA
23395304 AAGATTTCTAGGTTTTCT
1 AAGATTTCTAGGTTTTCT
* *
23395322 AAGATTTTTGGGTTTTCT
1 AAGATTTCTAGGTTTTCT
23395340 CATTCAGATT
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:0.19, C:0.08, G:0.19, T:0.53
Consensus pattern (18 bp):
AAGATTTCTAGGTTTTCT
Found at i:23395618 original size:20 final size:18
Alignment explanation
Indices: 23395586--23395629 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
23395576 TAATTATTTC
*
23395586 TTATATATATTTTAGAGT
1 TTATATATATTTTAGAAT
*
23395604 TTATATATAATTTTTATAAT
1 TTATATAT-A-TTTTAGAAT
23395624 TTATAT
1 TTATAT
23395630 TTAGATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 1 0.05
20 13 0.59
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
TTATATATATTTTAGAAT
Found at i:23396342 original size:21 final size:22
Alignment explanation
Indices: 23396302--23396356 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
23396292 TAGTGAGATG
23396302 ACAACAAAACAATGGAAAAATA
1 ACAACAAAACAATGGAAAAATA
* * *
23396324 GCAGCAAAATAAT-GAAAAATA
1 ACAACAAAACAATGGAAAAATA
23396345 ACAACAAAACAA
1 ACAACAAAACAA
23396357 CAAGTTTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.67, C:0.15, G:0.09, T:0.09
Consensus pattern (22 bp):
ACAACAAAACAATGGAAAAATA
Found at i:23397217 original size:19 final size:18
Alignment explanation
Indices: 23397172--23397217 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
23397162 TTTTTTATTA
*
23397172 TATTTTTTTCTATTTTCT
1 TATTTTTTTCCATTTTCT
*
23397190 AATTATTTTTCCATTTTCCT
1 TATT-TTTTTCCATTTT-CT
23397210 TATTTTTT
1 TATTTTTT
23397218 GAATTTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 3 0.13
19 15 0.65
20 5 0.22
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (18 bp):
TATTTTTTTCCATTTTCT
Found at i:23398096 original size:2 final size:2
Alignment explanation
Indices: 23398089--23398117 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23398079 AAACTTTCTT
23398089 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
23398118 TGCAGCCCTA
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:23402557 original size:14 final size:14
Alignment explanation
Indices: 23402538--23402574 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
23402528 CAGCAAAAAG
23402538 AAACAGAAGTTGCA
1 AAACAGAAGTTGCA
*
23402552 AAACAGAATTTGCA
1 AAACAGAAGTTGCA
*
23402566 AAACTGAAG
1 AAACAGAAG
23402575 CAAGAAGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.51, C:0.14, G:0.19, T:0.16
Consensus pattern (14 bp):
AAACAGAAGTTGCA
Found at i:23425711 original size:21 final size:21
Alignment explanation
Indices: 23425687--23425731 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
23425677 TAGCAATAAC
23425687 AAAGGGGAGTCAAATACCATG
1 AAAGGGGAGTCAAATACCATG
** *
23425708 AAAGTTGCGTCAAATACCATG
1 AAAGGGGAGTCAAATACCATG
23425729 AAA
1 AAA
23425732 CCTGCAAGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (21 bp):
AAAGGGGAGTCAAATACCATG
Found at i:23432717 original size:15 final size:15
Alignment explanation
Indices: 23432697--23432726 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
23432687 GGGCAGAAAA
23432697 ATGAAAACAGTGCAT
1 ATGAAAACAGTGCAT
23432712 ATGAAAACAGTGCAT
1 ATGAAAACAGTGCAT
23432727 TCTAGATGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (15 bp):
ATGAAAACAGTGCAT
Found at i:23434554 original size:11 final size:11
Alignment explanation
Indices: 23434538--23434563 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23434528 ACTGAACTGG
23434538 TTTAATGATTT
1 TTTAATGATTT
23434549 TTTAATGATTT
1 TTTAATGATTT
23434560 TTTA
1 TTTA
23434564 TCGGAGCGGT
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:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (11 bp):
TTTAATGATTT
Found at i:23434816 original size:161 final size:162
Alignment explanation
Indices: 23434501--23434823 Score: 603
Period size: 161 Copynumber: 2.0 Consensus size: 162
23434491 TAAAACCATG
* *
23434501 GTTTTCAGAACTAGACCAGATGGTTGGACTGAACTGGTTTAATGATTTTTTAATGATTTTTTATC
1 GTTTTCAGAACTAGACCAGATGATTGGACTGAACTGGTTTAATGAGTTTTTAATGATTTTTTATC
* *
23434566 GGAGCGGTGAGCTGGAGGTCTGACCGGTTCGACCACCGGTCCAGTTCTGAAAACCTTGGTTAAAA
66 GGAGCGGTGAGCTGGAGGTCTGACCAGTTCAACCACCGGTCCAGTTCTGAAAACCTTGGTTAAAA
23434631 CATTAGATGTAAGGAAATGGTTTTTAAAAATC
131 CATTAGATGTAAGGAAATGGTTTTTAAAAATC
23434663 GTTTTCAGAACTAGACCAGATGATTGGACTGAACTGGTTTAATGAGTTTTTAATGATTTTTTATC
1 GTTTTCAGAACTAGACCAGATGATTGGACTGAACTGGTTTAATGAGTTTTTAATGATTTTTTATC
23434728 GGAGCGGTGA-CTGGAGGTCTGACCAGTTCAACCACCGGTCCAGTTCTGAAAACCTTGGTTAAAA
66 GGAGCGGTGAGCTGGAGGTCTGACCAGTTCAACCACCGGTCCAGTTCTGAAAACCTTGGTTAAAA
23434792 CATTAGATGTAAGGAAATGGTTTTTAAAAATC
131 CATTAGATGTAAGGAAATGGTTTTTAAAAATC
23434824 TTCACTGCCT
Statistics
Matches: 157, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
161 84 0.54
162 73 0.46
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.33
Consensus pattern (162 bp):
GTTTTCAGAACTAGACCAGATGATTGGACTGAACTGGTTTAATGAGTTTTTAATGATTTTTTATC
GGAGCGGTGAGCTGGAGGTCTGACCAGTTCAACCACCGGTCCAGTTCTGAAAACCTTGGTTAAAA
CATTAGATGTAAGGAAATGGTTTTTAAAAATC
Found at i:23436607 original size:23 final size:23
Alignment explanation
Indices: 23436562--23436607 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
23436552 CTTGTTTCCT
* * *
23436562 TTTGCCTTCTCTTTTGCTGGAAA
1 TTTGCCTTCTCGTTTGATAGAAA
*
23436585 TTTGTCTTCTCGTTTGATAGAAA
1 TTTGCCTTCTCGTTTGATAGAAA
23436608 ATGCCTCTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (23 bp):
TTTGCCTTCTCGTTTGATAGAAA
Found at i:23455247 original size:21 final size:20
Alignment explanation
Indices: 23455199--23455248 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
23455189 TATATATTAT
23455199 TTCAAAAAATAATTTAAAAA
1 TTCAAAAAATAATTTAAAAA
23455219 TT-ATAAAAAT-ATTCATAAAAA
1 TTCA-AAAAATAATT--TAAAAA
23455240 TTCAAAAAA
1 TTCAAAAAA
23455249 AAAGCATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 4 0.15
20 8 0.31
21 13 0.50
22 1 0.04
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (20 bp):
TTCAAAAAATAATTTAAAAA
Found at i:23461035 original size:31 final size:32
Alignment explanation
Indices: 23460965--23461035 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 32
23460955 AAAAACTTAT
* *
23460965 GTACCAAACTAAACATTAAAATCAAACTCAAA
1 GTACCAAATTAAACATTAAAACCAAACTCAAA
* *
23460997 -TATCAAATTAGACATTAAAACCAAA-T-ATAA
1 GTACCAAATTAAACATTAAAACCAAACTCA-AA
23461027 GTACCAAAT
1 GTACCAAAT
23461036 AACGTATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
29 1 0.03
30 3 0.09
31 28 0.88
ACGTcount: A:0.55, C:0.18, G:0.04, T:0.23
Consensus pattern (32 bp):
GTACCAAATTAAACATTAAAACCAAACTCAAA
Found at i:23465717 original size:17 final size:16
Alignment explanation
Indices: 23465695--23465738 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
23465685 AGAGAGAATG
*
23465695 AAAAGAAAAAGATAGTA
1 AAAAGAAAAAGAAAG-A
*
23465712 AAAAGAAGTAAGAAAGA
1 AAAAGAA-AAAGAAAGA
23465729 AAAAGAAAAA
1 AAAAGAAAAA
23465739 AGGAGATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 2 0.09
17 15 0.65
18 6 0.26
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (16 bp):
AAAAGAAAAAGAAAGA
Found at i:23472459 original size:21 final size:21
Alignment explanation
Indices: 23472435--23472481 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
23472425 TCCCTAGATT
23472435 TATTATGGATTTAAATTTATA
1 TATTATGGATTTAAATTTATA
23472456 TATTATGGATTTAAATTTATA
1 TATTATGGATTTAAATTTATA
23472477 T-TTAT
1 TATTAT
23472482 AAATTATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (21 bp):
TATTATGGATTTAAATTTATA
Found at i:23472717 original size:5 final size:5
Alignment explanation
Indices: 23472707--23472738 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
23472697 CCATGAACTA
23472707 TGTCG TGTCG TGTCG TGTCG TGTCG TGTCG TG
1 TGTCG TGTCG TGTCG TGTCG TGTCG TGTCG TG
23472739 AAAGTATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.19, G:0.41, T:0.41
Consensus pattern (5 bp):
TGTCG
Found at i:23479906 original size:15 final size:15
Alignment explanation
Indices: 23479877--23479905 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23479867 TACCATAAAG
23479877 CTCTGTTTCTTTTTT
1 CTCTGTTTCTTTTTT
23479892 CTCTGTTT-TTTTTT
1 CTCTGTTTCTTTTTT
23479906 TTTTTTGGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.00, C:0.17, G:0.07, T:0.76
Consensus pattern (15 bp):
CTCTGTTTCTTTTTT
Found at i:23487546 original size:22 final size:22
Alignment explanation
Indices: 23487521--23487562 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
23487511 GGGGTCAAAA
23487521 TATAAATTTAT-TATTATTAATT
1 TATAAATTTATATATT-TTAATT
*
23487543 TATAATTTTATATATTTTAA
1 TATAAATTTATATATTTTAA
23487563 AAATAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATAAATTTATATATTTTAATT
Found at i:23489117 original size:17 final size:17
Alignment explanation
Indices: 23489095--23489129 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
23489085 AGAAGAACAT
*
23489095 ACTTTAGATCTAAATTA
1 ACTTTAGATCCAAATTA
23489112 ACTTTAGATCCAAATTA
1 ACTTTAGATCCAAATTA
23489129 A
1 A
23489130 TCTGACGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (17 bp):
ACTTTAGATCCAAATTA
Found at i:23498349 original size:21 final size:22
Alignment explanation
Indices: 23498309--23498349 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
23498299 TTATTTTTAT
*
23498309 TTTTATGATGTAAAAATAAATA
1 TTTTATGATCTAAAAATAAATA
*
23498331 TTTTAT-ATCTAAAATTAAA
1 TTTTATGATCTAAAAATAAA
23498350 AATAACTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (22 bp):
TTTTATGATCTAAAAATAAATA
Found at i:23507693 original size:24 final size:24
Alignment explanation
Indices: 23507661--23507711 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
23507651 TAAACATTTT
*
23507661 TATATATTTAGGATTTTTTAAAAA
1 TATAAATTTAGGATTTTTTAAAAA
* *
23507685 TATAAATTTTGGATTTTTTATAAA
1 TATAAATTTAGGATTTTTTAAAAA
23507709 TAT
1 TAT
23507712 TTGAATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (24 bp):
TATAAATTTAGGATTTTTTAAAAA
Found at i:23507708 original size:18 final size:19
Alignment explanation
Indices: 23507685--23507722 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
23507675 TTTTTAAAAA
*
23507685 TATAAAT-TTTGGATTTTT
1 TATAAATATTTGAATTTTT
23507703 TATAAATATTTGAATTTTT
1 TATAAATATTTGAATTTTT
23507722 T
1 T
23507723 TGAGACTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (19 bp):
TATAAATATTTGAATTTTT
Found at i:23510335 original size:6 final size:7
Alignment explanation
Indices: 23510316--23510345 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
23510306 TTAGGGCATT
23510316 ATAAAAA
1 ATAAAAA
23510323 ATAAAAA
1 ATAAAAA
23510330 ATAAAAA
1 ATAAAAA
23510337 ATAAAAA
1 ATAAAAA
23510344 AT
1 AT
23510346 TATTTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (7 bp):
ATAAAAA
Found at i:23513838 original size:3 final size:3
Alignment explanation
Indices: 23513832--23513868 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
23513822 GGTGGCCTTT
23513832 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
23513869 CTTTTTCATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:23529128 original size:22 final size:20
Alignment explanation
Indices: 23529091--23529158 Score: 86
Period size: 22 Copynumber: 3.4 Consensus size: 20
23529081 TTATCAAGTG
23529091 TATATAAAAATTGAAAAATA
1 TATATAAAAATTGAAAAATA
23529111 TATATAAAAATATGGAAATAA-A
1 TATATAAAAAT-T-GAAA-AATA
*
23529133 TATATAAAAATT-CAAAATA
1 TATATAAAAATTGAAAAATA
23529152 TATATAA
1 TATATAA
23529159 TCAAGAAAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
18 2 0.05
19 10 0.23
20 11 0.26
21 2 0.05
22 16 0.37
23 2 0.05
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (20 bp):
TATATAAAAATTGAAAAATA
Found at i:23531394 original size:14 final size:13
Alignment explanation
Indices: 23531357--23531395 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
23531347 TTAACATATA
23531357 TAATTAATATAAT
1 TAATTAATATAAT
**
23531370 TAATTTTTATAACT
1 TAATTAATATAA-T
23531384 TAATTAATATAA
1 TAATTAATATAA
23531396 ATATGTATAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (13 bp):
TAATTAATATAAT
Found at i:23541182 original size:27 final size:27
Alignment explanation
Indices: 23541097--23541182 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 27
23541087 AAGGGGGTGG
* *
23541097 GGTGCCCATTTGATAGGCGGCACCAGT
1 GGTGCCTATTTGATAGGCGGCACTAGT
*** *
23541124 GACCCCTATTTGATAGGCGGCACTGGT
1 GGTGCCTATTTGATAGGCGGCACTAGT
* *
23541151 TGTGCCTATCTGATAGGCGGCACTAGT
1 GGTGCCTATTTGATAGGCGGCACTAGT
23541178 GGTGC
1 GGTGC
23541183 AATTATTCTT
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.17, C:0.24, G:0.33, T:0.26
Consensus pattern (27 bp):
GGTGCCTATTTGATAGGCGGCACTAGT
Found at i:23561861 original size:19 final size:19
Alignment explanation
Indices: 23561833--23561869 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23561823 CTCCTTCTCC
*
23561833 TTTTCTTCTTCTTCTCTTA
1 TTTTCATCTTCTTCTCTTA
*
23561852 TTTTCATCTTTTTCTCTT
1 TTTTCATCTTCTTCTCTT
23561870 TCTTCCCCTT
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:0.05, C:0.24, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTCATCTTCTTCTCTTA
Found at i:23566987 original size:11 final size:12
Alignment explanation
Indices: 23566971--23566999 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23566961 ATGTTAATGG
23566971 TGAATG-ATATT
1 TGAATGAATATT
23566982 TGAATGAATATT
1 TGAATGAATATT
23566994 TGAATG
1 TGAATG
23567000 TTCTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (12 bp):
TGAATGAATATT
Found at i:23571246 original size:16 final size:16
Alignment explanation
Indices: 23571225--23571257 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
23571215 AAAAGATAAA
*
23571225 TGTAAATTTATTTAAT
1 TGTAAATTTAATTAAT
23571241 TGTAAATTTAATTAAT
1 TGTAAATTTAATTAAT
23571257 T
1 T
23571258 AATTAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (16 bp):
TGTAAATTTAATTAAT
Found at i:23573286 original size:13 final size:13
Alignment explanation
Indices: 23573270--23573311 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
23573260 TAAAAACATT
23573270 ATTATAAAATATA
1 ATTATAAAATATA
*
23573283 ATTATCGAAAT-T-
1 ATTAT-AAAATATA
23573295 ATTATAAAATATA
1 ATTATAAAATATA
23573308 ATTA
1 ATTA
23573312 ATTAATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
11 4 0.17
12 6 0.25
13 10 0.42
14 4 0.17
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (13 bp):
ATTATAAAATATA
Found at i:23578811 original size:19 final size:20
Alignment explanation
Indices: 23578769--23578815 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
23578759 TCCAAACTTT
* * *
23578769 AATTAATATTTTTAAAATTG
1 AATTAATATTTATAAAAATA
23578789 AATTAATA-TTATAAAAATA
1 AATTAATATTTATAAAAATA
23578808 AATTAATA
1 AATTAATA
23578816 AAAAATAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
AATTAATATTTATAAAAATA
Found at i:23579564 original size:19 final size:19
Alignment explanation
Indices: 23579536--23579573 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
23579526 TGAATTAAAA
*
23579536 TTTTAGTAATTTATATAAT
1 TTTTAATAATTTATATAAT
*
23579555 TTTTAATAATTTATTTAAT
1 TTTTAATAATTTATATAAT
23579574 CAAATTAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTAATAATTTATATAAT
Found at i:23582660 original size:19 final size:18
Alignment explanation
Indices: 23582635--23582684 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
23582625 CATTATTTTT
*
23582635 AATTAATTTTTTTTATAAT
1 AATTAATTTTTTTTA-AAG
* *
23582654 CATTAATTTTTTATAAAG
1 AATTAATTTTTTTTAAAG
23582672 AATTAATTTTTTT
1 AATTAATTTTTTT
23582685 AATGAAAATG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (18 bp):
AATTAATTTTTTTTAAAG
Found at i:23582685 original size:19 final size:20
Alignment explanation
Indices: 23582635--23582685 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
23582625 CATTATTTTT
*
23582635 AATTAATTTTTTT-TATAAT
1 AATTAATTTTTTTATATAAG
*
23582654 CATTAA-TTTTTTATA-AAG
1 AATTAATTTTTTTATATAAG
23582672 AATTAATTTTTTTA
1 AATTAATTTTTTTA
23582686 ATGAAAATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
AATTAATTTTTTTATATAAG
Found at i:23590472 original size:19 final size:17
Alignment explanation
Indices: 23590445--23590488 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
23590435 AATTTTGTAT
*
23590445 TCATATTAAATTACACTTA
1 TCATTTTAAATTA-AC-TA
23590464 TCATTTTAAATTAACTA
1 TCATTTTAAATTAACTA
*
23590481 TCACTTTA
1 TCATTTTA
23590489 TTATTATTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 9 0.39
18 2 0.09
19 12 0.52
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (17 bp):
TCATTTTAAATTAACTA
Found at i:23590488 original size:17 final size:19
Alignment explanation
Indices: 23590450--23590488 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
23590440 TGTATTCATA
*
23590450 TTAAATTACACTTATCATT
1 TTAAATTACACTTATCACT
23590469 TTAAATTA-AC-TATCACT
1 TTAAATTACACTTATCACT
23590486 TTA
1 TTA
23590489 TTATTATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 2 0.11
19 8 0.42
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAAATTACACTTATCACT
Found at i:23599061 original size:2 final size:2
Alignment explanation
Indices: 23599054--23599088 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
23599044 GTCTGCAATA
23599054 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23599089 AACTTACACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23600524 original size:29 final size:29
Alignment explanation
Indices: 23600460--23600540 Score: 90
Period size: 31 Copynumber: 2.7 Consensus size: 29
23600450 AATATCAAAA
* *
23600460 TTATACATGAACTTTGATCTAATGTGTAATG
1 TTATACATGAACTTTGAT-T-TTGTGGAATG
*
23600491 TTATACATGAACTTTGATTTTGTGGAATT
1 TTATACATGAACTTTGATTTTGTGGAATG
* *
23600520 TTATATATGAAATTTTGATTT
1 TTATACATG-AACTTTGATTT
23600541 GATTCAATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
29 15 0.34
30 11 0.25
31 18 0.41
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (29 bp):
TTATACATGAACTTTGATTTTGTGGAATG
Found at i:23604960 original size:21 final size:21
Alignment explanation
Indices: 23604919--23604960 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
23604909 TATATTGTAA
*
23604919 TTGGTAACTGTTTTCGGTTGT
1 TTGGTAACTGTTTTCGATTGT
*
23604940 TTGG-AACTGATTTTTGATTGT
1 TTGGTAACTG-TTTTCGATTGT
23604961 CATTTGGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.14, C:0.07, G:0.26, T:0.52
Consensus pattern (21 bp):
TTGGTAACTGTTTTCGATTGT
Found at i:23612057 original size:22 final size:23
Alignment explanation
Indices: 23612004--23612059 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
23611994 TTTAATTAAA
* * *
23612004 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
23612027 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
23612049 ATTAAAATTAA
1 ATTAAAATTAA
23612060 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:23612072 original size:16 final size:16
Alignment explanation
Indices: 23612035--23612074 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
23612025 TTAATAAAAT
* *
23612035 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
23612051 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
23612067 TAAAATTA
1 TAAAATTA
23612075 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:23612153 original size:59 final size:59
Alignment explanation
Indices: 23612085--23612292 Score: 308
Period size: 59 Copynumber: 3.4 Consensus size: 59
23612075 TCAAATTATT
*
23612085 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATC-----A
*
23612149 TTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAAATTATCA
1 --AA-T-TATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
*
23612212 AATTATTAATTTTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
23612271 AATTATTAATTGTATTAATTGT
1 AATTATTAATTGTATTAATTGT
23612293 ATTAATTGTT
Statistics
Matches: 135, Mismatches: 5, Indels: 11
0.89 0.03 0.07
Matches are distributed among these distances:
59 75 0.56
60 1 0.01
61 2 0.01
63 1 0.01
66 2 0.01
67 1 0.01
68 53 0.39
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:23612180 original size:9 final size:9
Alignment explanation
Indices: 23612147--23612174 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
23612137 TTTATCAAAT
23612147 TATTAATTG
1 TATTAATTG
23612156 TATTAATTG
1 TATTAATTG
23612165 TATTAATTG
1 TATTAATTG
23612174 T
1 T
23612175 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:23612184 original size:68 final size:67
Alignment explanation
Indices: 23612063--23612306 Score: 389
Period size: 68 Copynumber: 3.7 Consensus size: 67
23612053 AAATTAATTG
23612063 TTAGTAAAATTATCAAATTATTAATTG-TTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
1 TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
23612127 GA
66 GA
*
23612129 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAATTG-ATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
23612194 TGA
65 TGA
23612197 TTAGTAAAATTATCAAATTATT-A---A-T--TT-TATTAATTGTTGTAATAAAATCTAACATTT
1 TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
23612254 GA
66 GA
*
23612256 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAA
1 TTAGTAAAATTATCAAATTATTAATTG-ATTAATTGTATTAATTGTTGTAA
23612307 NNNNNNNNNN
Statistics
Matches: 164, Mismatches: 3, Indels: 20
0.88 0.02 0.11
Matches are distributed among these distances:
59 53 0.32
60 3 0.02
62 1 0.01
63 1 0.01
64 1 0.01
65 1 0.01
66 26 0.16
67 3 0.02
68 75 0.46
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (67 bp):
TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
GA
Found at i:23612235 original size:127 final size:126
Alignment explanation
Indices: 23612077--23612306 Score: 424
Period size: 127 Copynumber: 1.8 Consensus size: 126
23612067 TAAAATTATC
* *
23612077 AAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTAT
1 AAATTATAAATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTAT
23612142 CAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTA
66 CAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTA
*
23612203 AAATTATCAAATTATTAATTTTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTA
1 AAATTAT-AAATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTA
23612268 TCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAA
65 TCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAA
23612307 NNNNNNNNNN
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
126 7 0.07
127 93 0.93
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (126 bp):
AAATTATAAATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTAT
CAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTA
Found at i:23612286 original size:9 final size:9
Alignment explanation
Indices: 23612274--23612301 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
23612264 TTTATCAAAT
23612274 TATTAATTG
1 TATTAATTG
23612283 TATTAATTG
1 TATTAATTG
23612292 TATTAATTG
1 TATTAATTG
23612301 T
1 T
23612302 TGTAANNNNN
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:23615503 original size:22 final size:23
Alignment explanation
Indices: 23615450--23615505 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
23615440 TTTAATTAAA
* * *
23615450 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
23615473 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
23615495 ATTAAAATTAA
1 ATTAAAATTAA
23615506 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:23615518 original size:16 final size:16
Alignment explanation
Indices: 23615481--23615520 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
23615471 TTAATAAAAT
* *
23615481 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
23615497 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
23615513 TAAAATTA
1 TAAAATTA
23615521 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:23615590 original size:66 final size:59
Alignment explanation
Indices: 23615523--23615642 Score: 197
Period size: 59 Copynumber: 2.1 Consensus size: 59
23615513 TAAAATTATC
* * *
23615523 AAATTAT-TAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
*
23615581 AATTTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
23615640 AAA
1 AAA
23615643 CAAACTTGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 6 0.11
59 50 0.89
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (59 bp):
AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
Found at i:23615739 original size:25 final size:27
Alignment explanation
Indices: 23615708--23615758 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 27
23615698 AAATAAACTT
*
23615708 AAAATAAAAAAACTA-TT-ATATTTTA
1 AAAATAAAAAAAATATTTAATATTTTA
23615733 AAAATAAAAAAAATATTTAATATTTT
1 AAAATAAAAAAAATATTTAATATTTT
23615759 TCGGGCCCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.61
26 2 0.09
27 7 0.30
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (27 bp):
AAAATAAAAAAAATATTTAATATTTTA
Found at i:23620365 original size:29 final size:29
Alignment explanation
Indices: 23620314--23620372 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
23620304 TGTATATGAG
*
23620314 TGCATCTAAATTAAAGCTTATGTATTAAAT
1 TGCATCTAAATCAAAGCTTATGTA-TAAAT
23620344 TGCAT-TAAATCAAAG-TTCATGTATAAAT
1 TGCATCTAAATCAAAGCTT-ATGTATAAAT
23620372 T
1 T
23620373 TTAAAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 8 0.30
29 14 0.52
30 5 0.19
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (29 bp):
TGCATCTAAATCAAAGCTTATGTATAAAT
Found at i:23622054 original size:114 final size:112
Alignment explanation
Indices: 23621840--23622054 Score: 322
Period size: 114 Copynumber: 1.9 Consensus size: 112
23621830 ACAAAGGCTG
* * * *
23621840 TATTGCTTTGGGTTCTTTGAATATATTTACCTTAGTTTTCTTCCGGCCATTGCACCTTGTCTCGC
1 TATTGCTTTGGGTTATTTGAATACATTTACCTTAGTTCTCTTCCGGCCATTGCACCTTGTATCGC
* ***
23621905 AAGCAATTTCATCTAAACAATGTTCTTTTGTGAGCTTTTGCTTCGGT
66 AAACAATTTCATCTAAACAATGTTCTTTCACGAGCTTTTGCTTCGGT
*
23621952 TATTGCATTTAGGGTTATTTGAATACATTTACCTTAGTTCTCTTCTGGCCATTGCACCTTGTATC
1 TATTGC-TTT-GGGTTATTTGAATACATTTACCTTAGTTCTCTTCCGGCCATTGCACCTTGTATC
*
23622017 GTAAACAATTTCATCTAAACAATGTTCTTTCACGAGCT
64 GCAAACAATTTCATCTAAACAATGTTCTTTCACGAGCT
23622055 ACGCATGAAC
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
112 6 0.07
113 3 0.03
114 82 0.90
ACGTcount: A:0.21, C:0.20, G:0.15, T:0.43
Consensus pattern (112 bp):
TATTGCTTTGGGTTATTTGAATACATTTACCTTAGTTCTCTTCCGGCCATTGCACCTTGTATCGC
AAACAATTTCATCTAAACAATGTTCTTTCACGAGCTTTTGCTTCGGT
Found at i:23623703 original size:20 final size:21
Alignment explanation
Indices: 23623666--23623705 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
23623656 TAATATTAAA
23623666 TAATTAAAAACCAATTAATTTT
1 TAATTAAAAA-CAATTAATTTT
23623688 TAATTAAAAA-AATTAATT
1 TAATTAAAAACAATTAATT
23623706 ATGTTCTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
22 10 0.56
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
TAATTAAAAACAATTAATTTT
Found at i:23624805 original size:30 final size:30
Alignment explanation
Indices: 23624750--23624850 Score: 83
Period size: 30 Copynumber: 3.6 Consensus size: 30
23624740 AAGTTTAGTA
*
23624750 CAAGTTTAGTACCAAATTAAGAAAAAGTGT
1 CAAGTTCAGTACCAAATTAAGAAAAAGTGT
*
23624780 CAAGTTCAGGTACTAAATTAA-AAAAA--GT
1 CAAGTTCA-GTACCAAATTAAGAAAAAGTGT
* * *
23624808 ----TTAAGTACCAAATT-AGGAAAAGGGT
1 CAAGTTCAGTACCAAATTAAGAAAAAGTGT
23624833 CAAGTTCAGGTACCAAAT
1 CAAGTTCA-GTACCAAAT
23624851 GTTATATTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
22 1 0.02
23 13 0.23
24 3 0.05
25 2 0.04
28 2 0.04
29 3 0.05
30 21 0.38
31 11 0.20
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.25
Consensus pattern (30 bp):
CAAGTTCAGTACCAAATTAAGAAAAAGTGT
Found at i:23633319 original size:21 final size:20
Alignment explanation
Indices: 23633295--23633341 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
23633285 TAGTAAGTTT
23633295 TAATTTTAAA-AAGTTATAAAA
1 TAATTTTAAATAA--TATAAAA
23633316 TAATTATTAAATAATATAAAA
1 TAATT-TTAAATAATATAAAA
23633337 -AATTT
1 TAATTT
23633342 ATTTAAGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 12 0.50
22 5 0.21
23 2 0.08
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TAATTTTAAATAATATAAAA
Found at i:23634464 original size:3 final size:3
Alignment explanation
Indices: 23634456--23634509 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
23634446 GTTCAAAAAT
23634456 ATA ATA ATA ATA ATA A-A 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
23634503 ATA ATA A
1 ATA ATA A
23634510 AATTCAAGTC
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 48 0.96
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:23637111 original size:2 final size:2
Alignment explanation
Indices: 23637104--23637128 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23637094 TTTCAGTTAC
23637104 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 T
23637129 GGGTTGGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23638549 original size:29 final size:29
Alignment explanation
Indices: 23638515--23638570 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
23638505 ATAAAAACTT
*
23638515 GATCAAATTAGTCTCTCTATTATTAAATG
1 GATCAAATTAGTCTCTATATTATTAAATG
*
23638544 GATCAATTTAGTCTCTATATTATTAAA
1 GATCAAATTAGTCTCTATATTATTAAA
23638571 AAGAATCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.43
Consensus pattern (29 bp):
GATCAAATTAGTCTCTATATTATTAAATG
Found at i:23638587 original size:30 final size:29
Alignment explanation
Indices: 23638516--23638587 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
23638506 TAAAAACTTG
* * *
23638516 ATCAAATTAGTCTCTCTATTATTAAATGG
1 ATCAAATTAGTCTCTATATTATTAAAAGA
*
23638545 ATCAATTTAGTCTCTATATTATTAAAAAGA
1 ATCAAATTAGTCTCTATATTATT-AAAAGA
*
23638575 ATCAAATAAGTCT
1 ATCAAATTAGTCT
23638588 AAATTGTAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 21 0.58
30 15 0.42
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.39
Consensus pattern (29 bp):
ATCAAATTAGTCTCTATATTATTAAAAGA
Found at i:23638800 original size:29 final size:29
Alignment explanation
Indices: 23638766--23638821 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
23638756 TTTGATTCTT
*
23638766 TTTAATAATATAGAGACTAAATTGATCCA
1 TTTAATAATAGAGAGACTAAATTGATCCA
* *
23638795 TTTAATAATAGAGGGACTAATTTGATC
1 TTTAATAATAGAGAGACTAAATTGATC
23638822 AGGTTACTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (29 bp):
TTTAATAATAGAGAGACTAAATTGATCCA
Found at i:23653410 original size:6 final size:6
Alignment explanation
Indices: 23653396--23653460 Score: 121
Period size: 6 Copynumber: 10.8 Consensus size: 6
23653386 TCTGGTTTTA
*
23653396 CATCTT CATCCT CATCCT CATCCT CATCCT CATCCT CATCCT CATCCT
1 CATCCT CATCCT CATCCT CATCCT CATCCT CATCCT CATCCT CATCCT
23653444 CATCCT CATCCT CATCC
1 CATCCT CATCCT CATCC
23653461 GTGCTTGTAC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 58 1.00
ACGTcount: A:0.17, C:0.49, G:0.00, T:0.34
Consensus pattern (6 bp):
CATCCT
Found at i:23655277 original size:3 final size:3
Alignment explanation
Indices: 23655202--23655266 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
23655192 TTAATTATAT
23655202 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
23655250 ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
23655267 TAGTATAATA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:23658595 original size:45 final size:44
Alignment explanation
Indices: 23658513--23658603 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 44
23658503 AAACTCCTAC
23658513 GTGTGAAAAGAATACATACAGTGTTCAATTAGAGTTGTTCATGG
1 GTGTGAAAAGAATACATACAGTGTTCAATTAGAGTTGTTCATGG
*
23658557 GTGTGAAAAGAATACATACCAGTGTTCAGTTAGAGTTGTTCATGG
1 GTGTGAAAAGAATACATA-CAGTGTTCAATTAGAGTTGTTCATGG
23658602 GT
1 GT
23658604 CGGGTTGGTT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (44 bp):
GTGTGAAAAGAATACATACAGTGTTCAATTAGAGTTGTTCATGG
Found at i:23658994 original size:21 final size:20
Alignment explanation
Indices: 23658970--23659027 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
23658960 AAATGGTAGC
*
23658970 AAAACAGTGGCAAAAAGTGGA
1 AAAACAGTAGCAAAAA-TGGA
*
23658991 AAAACTA-CAGCAAAACATGGA
1 AAAAC-AGTAGCAAAA-ATGGA
23659012 AAAACAGTAGCAAAAA
1 AAAACAGTAGCAAAAA
23659028 CAATAGATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.59, C:0.14, G:0.19, T:0.09
Consensus pattern (20 bp):
AAAACAGTAGCAAAAATGGA
Found at i:23663231 original size:4 final size:4
Alignment explanation
Indices: 23663222--23663255 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
23663212 TAAGGTTGCA
*
23663222 TATG TATG TATG TATG CATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TA
23663256 ATAGGTGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.26, C:0.03, G:0.24, T:0.47
Consensus pattern (4 bp):
TATG
Found at i:23674030 original size:184 final size:184
Alignment explanation
Indices: 23673721--23674089 Score: 639
Period size: 184 Copynumber: 2.0 Consensus size: 184
23673711 CCTAATAGCC
23673721 ATTCAAAATTGTCTAGAATTGACCAAGCAAAGTAGCCAGTAACATTAGCTCCATCATCCATAGCT
1 ATTCAAAATTGTCTAGAATTGACCAAGCAAAGTAGCCAGTAACATTAGCTCCATCATCCATAGCT
* *
23673786 CTTTTCAATTCCTTCAAGTAGCTTCTATAAAAGCTTACTCTATTAATGTCATATAACGATTCAGG
66 CTTTTCAATTCCTTCAAGTAGCTTCTATAAAAGCTTACTCTATTAATATCATAAAACGATTCAGG
** ** *
23673851 AAATGTGAGATTGCCGGGATCATCCATTCCTGTCATTAATTAACAACACAAAAT
131 AAATGTGAGATTGCCAAGATCATCCATTCCTACCATTAATTAACAAAACAAAAT
23673905 ATTCAAAATTGTCTAGAATTGACCAAGCAAAGTAGCCAGTAACATTAGCTCCATCATCCATAGCT
1 ATTCAAAATTGTCTAGAATTGACCAAGCAAAGTAGCCAGTAACATTAGCTCCATCATCCATAGCT
* * *
23673970 CTTTTCAATTCCTTTAAGTAGCTTCTATAAAAGTTTACTCTATTAATATCATAAAACGATTTAGG
66 CTTTTCAATTCCTTCAAGTAGCTTCTATAAAAGCTTACTCTATTAATATCATAAAACGATTCAGG
*
23674035 AAATTTGAGATTGCCAAGATCATCCATTCCTACCATTAATTAACAAAACAAAAT
131 AAATGTGAGATTGCCAAGATCATCCATTCCTACCATTAATTAACAAAACAAAAT
23674089 A
1 A
23674090 ATAATTAGAT
Statistics
Matches: 174, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
184 174 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (184 bp):
ATTCAAAATTGTCTAGAATTGACCAAGCAAAGTAGCCAGTAACATTAGCTCCATCATCCATAGCT
CTTTTCAATTCCTTCAAGTAGCTTCTATAAAAGCTTACTCTATTAATATCATAAAACGATTCAGG
AAATGTGAGATTGCCAAGATCATCCATTCCTACCATTAATTAACAAAACAAAAT
Done.