Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1991
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: 80601
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:1065 original size:33 final size:33
Alignment explanation
Indices: 1023--1097 Score: 141
Period size: 33 Copynumber: 2.3 Consensus size: 33
1013 AAAACCCAGA
*
1023 TGTATCGATACAACATTCCTTGTATCAATACAT
1 TGTATCGATACAACATTCCTTATATCAATACAT
1056 TGTATCGATACAACATTCCTTATATCAATACAT
1 TGTATCGATACAACATTCCTTATATCAATACAT
1089 TGTATCGAT
1 TGTATCGAT
1098 TACATGGGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.37
Consensus pattern (33 bp):
TGTATCGATACAACATTCCTTATATCAATACAT
Found at i:3010 original size:24 final size:24
Alignment explanation
Indices: 2948--3013 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 24
2938 TTGCTATAAC
2948 AAAAGGGGGAGAAATATTGCTTTG
1 AAAAGGGGGAGAAATATTGCTTTG
***** * *
2972 AAAAATAAAATAAATTTTGCTTTG
1 AAAAGGGGGAGAAATATTGCTTTG
2996 AAAAGGGGGAGAAATATT
1 AAAAGGGGGAGAAATATT
3014 TTTATCTAGG
Statistics
Matches: 28, Mismatches: 14, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.45, C:0.03, G:0.24, T:0.27
Consensus pattern (24 bp):
AAAAGGGGGAGAAATATTGCTTTG
Found at i:3646 original size:20 final size:19
Alignment explanation
Indices: 3623--3696 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
3613 CACACCCAGA
* *
3623 TGTATCGATACATTATGCTT
1 TGTATCGATACATGAT-CAT
3643 TGTATCGATACATGATCAT
1 TGTATCGATACATGATCAT
*
3662 TGTATTGATACATGGA-CAAT
1 TGTATCGATACAT-GATC-AT
3682 TGTATCGATACATGA
1 TGTATCGATACATGA
3697 AACTGGCAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
19 17 0.35
20 31 0.65
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGATCAT
Found at i:3758 original size:13 final size:13
Alignment explanation
Indices: 3740--3792 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
3730 CGATACATGG
3740 TACATTGTATCGA
1 TACATTGTATCGA
*
3753 TACATTATATCGA
1 TACATTGTATCGA
3766 TACA-TG-AT-G-
1 TACATTGTATCGA
3775 -A-ATTGTATCGA
1 TACATTGTATCGA
3786 TACATTG
1 TACATTG
3793 CTTGTAACGG
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 2 0.06
13 20 0.62
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:3769 original size:33 final size:33
Alignment explanation
Indices: 3727--3791 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
3717 CCACTGTTTG
*
3727 TATCGATACATGGT-ACATTGTATCGATACATTA
1 TATCGATACATGATGA-ATTGTATCGATACATTA
3760 TATCGATACATGATGAATTGTATCGATACATT
1 TATCGATACATGATGAATTGTATCGATACATT
3792 GCTTGTAACG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (33 bp):
TATCGATACATGATGAATTGTATCGATACATTA
Found at i:3877 original size:72 final size:72
Alignment explanation
Indices: 3760--3934 Score: 332
Period size: 72 Copynumber: 2.4 Consensus size: 72
3750 CGATACATTA
* *
3760 TATCGATACATGATGAATTGTATCGATACATTGCTTGTAACGGCTATAAATGGCTATAATTTCAA
1 TATCGATACATTATGAATTGTATCGATACATTACTTGTAACGGCTATAAATGGCTATAATTTCAA
3825 ATCAATG
66 ATCAATG
3832 TATCGATACATTATGAATTGTATCGATACATTACTTGTAACGGCTATAAATGGCTATAATTTCAA
1 TATCGATACATTATGAATTGTATCGATACATTACTTGTAACGGCTATAAATGGCTATAATTTCAA
3897 ATCAATG
66 ATCAATG
3904 TATCGATACATTATGAATTGTATCGATACAT
1 TATCGATACATTATGAATTGTATCGATACAT
3935 GGCTATGGGA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 101 1.00
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (72 bp):
TATCGATACATTATGAATTGTATCGATACATTACTTGTAACGGCTATAAATGGCTATAATTTCAA
ATCAATG
Found at i:9594 original size:22 final size:22
Alignment explanation
Indices: 9569--9614 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
9559 AAGCAAGCAT
9569 ATGGTAAGATTACTTTCATAAG
1 ATGGTAAGATTACTTTCATAAG
9591 ATGGTAAGATTACTTTCATAAG
1 ATGGTAAGATTACTTTCATAAG
9613 AT
1 AT
9615 TGATTGGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (22 bp):
ATGGTAAGATTACTTTCATAAG
Found at i:13184 original size:16 final size:16
Alignment explanation
Indices: 13165--13237 Score: 51
Period size: 16 Copynumber: 4.6 Consensus size: 16
13155 TTCAAATTCG
13165 AGTCATTTTAGGTTTA
1 AGTCATTTTAGGTTTA
* **
13181 AGTCATTTCATTTTTA
1 AGTCATTTTAGGTTTA
* * *
13197 GGTCATTTCAAGG-TTG
1 AGTCATTT-TAGGTTTA
13213 AGTCATTTT-GGTTATA
1 AGTCATTTTAGGTT-TA
*
13229 GGTCATTTT
1 AGTCATTTT
13238 GTGTTTGGGT
Statistics
Matches: 42, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
14 2 0.05
15 1 0.02
16 38 0.90
17 1 0.02
ACGTcount: A:0.22, C:0.10, G:0.19, T:0.49
Consensus pattern (16 bp):
AGTCATTTTAGGTTTA
Found at i:15552 original size:13 final size:13
Alignment explanation
Indices: 15534--15558 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15524 CATTTTATGG
15534 TGTATCGATACAA
1 TGTATCGATACAA
15547 TGTATCGATACA
1 TGTATCGATACA
15559 TACTATGTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:15574 original size:32 final size:33
Alignment explanation
Indices: 15511--15578 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
15501 CGTTACAAGC
**
15511 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
15544 CAATGTATCGATACATACTAT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
15576 CAA
1 CAA
15579 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 14 0.42
33 19 0.58
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:15674 original size:20 final size:20
Alignment explanation
Indices: 15632--15681 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
15622 TCTTTTTCAA
*
15632 GTATCGATACAATGCAACAT
1 GTATCGATACAATGAAACAT
* **
15652 GTATCGATACAATTAAATGT
1 GTATCGATACAATGAAACAT
15672 GTATCGATAC
1 GTATCGATAC
15682 TTTTCAGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (20 bp):
GTATCGATACAATGAAACAT
Found at i:17955 original size:20 final size:21
Alignment explanation
Indices: 17926--17966 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
17916 TGTTTTTGAA
17926 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
17945 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
17967 AAGAATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:18116 original size:13 final size:13
Alignment explanation
Indices: 18100--18136 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
18090 AATCCCCCTA
*
18100 TATTGATACAGTG
1 TATTGATACAATG
18113 TATTGATACAATG
1 TATTGATACAATG
*
18126 TATCGATACAA
1 TATTGATACAA
18137 AGAATGATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (13 bp):
TATTGATACAATG
Found at i:24333 original size:19 final size:20
Alignment explanation
Indices: 24290--24340 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
24280 TACAAGCCAA
**
24290 TGTATCGATACATTTTATGG
1 TGTATCGATACATACTATGG
24310 TGTATCGATACATACTAT-G
1 TGTATCGATACATACTATGG
24329 TGTATCGATACA
1 TGTATCGATACA
24341 AGTTTGTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATACTATGG
Found at i:37546 original size:20 final size:20
Alignment explanation
Indices: 37523--37589 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
37513 GAATGTATTG
37523 ATACAATAAATAATGTATCA
1 ATACAATAAATAATGTATCA
* * *
37543 ATACAATTGTAAGT-ATTTATCG
1 ATACAA---TAAATAATGTATCA
* *
37565 ATACATTTAATAATGTATCA
1 ATACAATAAATAATGTATCA
37585 ATACA
1 ATACA
37590 TTTCTTTGGT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
19 3 0.09
20 17 0.49
22 11 0.31
23 4 0.11
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.36
Consensus pattern (20 bp):
ATACAATAAATAATGTATCA
Found at i:37590 original size:20 final size:20
Alignment explanation
Indices: 37531--37592 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
37521 TGATACAATA
37531 AATAATGTATCAATACAATTGT
1 AATAATGTATCAATAC-ATT-T
* *
37553 AAGT-ATTTATCGATACATTT
1 AA-TAATGTATCAATACATTT
37573 AATAATGTATCAATACATTT
1 AATAATGTATCAATACATTT
37593 CTTTGGTAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 1 0.03
20 17 0.50
21 3 0.09
22 12 0.35
23 1 0.03
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (20 bp):
AATAATGTATCAATACATTT
Found at i:40183 original size:6 final size:6
Alignment explanation
Indices: 40164--40212 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
40154 GTTTTATATT
* * *
40164 TTTTTC -TTTT- TTTTTC TTTTTC TTTTTC TTCTTC -CTTTC TTCTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
40209 TTTT
1 TTTT
40213 CCCTTCTTCC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
5 11 0.32
6 23 0.68
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:40189 original size:23 final size:24
Alignment explanation
Indices: 40163--40223 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 24
40153 GGTTTTATAT
** *
40163 TTTTTTCTT-TTTTTTTCTTTTTC
1 TTTTTTCTTCTTCCTTTCTTCTTC
40186 TT-TTTCTTCTTCCTTTCTTCTTC
1 TTTTTTCTTCTTCCTTTCTTCTTC
**
40209 TTTTCCCTTCTTCCT
1 TTTTTTCTTCTTCCT
40224 CACCCATAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 6 0.19
23 15 0.48
24 10 0.32
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (24 bp):
TTTTTTCTTCTTCCTTTCTTCTTC
Found at i:40202 original size:17 final size:16
Alignment explanation
Indices: 40182--40221 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
40172 TTTTTTTCTT
*
40182 TTTCTTTTTCTTCTTCC
1 TTTCTTCTTCTT-TTCC
40199 TTTCTTCTTCTTTTCC
1 TTTCTTCTTCTTTTCC
*
40215 CTTCTTC
1 TTTCTTC
40222 CTCACCCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTCTTCTTCTTTTCC
Found at i:40223 original size:24 final size:23
Alignment explanation
Indices: 40176--40223 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
40166 TTTCTTTTTT
* *
40176 TTTCTTTTTCTTTTTCTTCTTCC
1 TTTCTTCTTCTTTTCCTTCTTCC
40199 TTTCTTCTTCTTTTCCCTTCTTCC
1 TTTCTTCTTCTTTT-CCTTCTTCC
40223 T
1 T
40224 CACCCATAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTCTTCTTCTTTTCCTTCTTCC
Found at i:43767 original size:52 final size:52
Alignment explanation
Indices: 43697--43817 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
43687 GAAAATTTAT
*
43697 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
43749 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
43801 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
43818 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:43830 original size:52 final size:51
Alignment explanation
Indices: 43697--43837 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
43687 GAAAATTTAT
43697 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
43749 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
43801 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
43838 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:43844 original size:13 final size:13
Alignment explanation
Indices: 43826--43850 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43816 CAAAGATCAG
43826 TGTATCGATACAA
1 TGTATCGATACAA
43839 TGTATCGATACA
1 TGTATCGATACA
43851 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:43933 original size:13 final size:13
Alignment explanation
Indices: 43915--43939 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43905 CAAAAAAATA
43915 TGTATCGATACAT
1 TGTATCGATACAT
43928 TGTATCGATACA
1 TGTATCGATACA
43940 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:44839 original size:67 final size:68
Alignment explanation
Indices: 44717--44843 Score: 166
Period size: 67 Copynumber: 1.9 Consensus size: 68
44707 ATTGGGTTTT
* * * * *
44717 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATAAGCTGATTCAAGGCCAACAATATTGGACCTAAAGATGAAGATG
44782 AGA
66 AGA
* * * *
44785 AAAG-TGATAAAGATGCCAATAAGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGA
1 AAAGATGATAAAGATGCCAATAAGCTGATTCAAGGCCAACAATATTGGACCTAAAGATGA
44844 GAAAAAGGAT
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
67 46 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.23
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATAAGCTGATTCAAGGCCAACAATATTGGACCTAAAGATGAAGATG
AGA
Found at i:44894 original size:55 final size:55
Alignment explanation
Indices: 44809--45117 Score: 240
Period size: 55 Copynumber: 5.6 Consensus size: 55
44799 GCCAATAAGT
* * * * * **
44809 TGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCAACGTGC
1 TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAAAAAGGATGTCAATATGC
* * *
44864 TGATTCAAGGCCAGCTACATTGAACTTAAAGAT--G---AA-GATGCCAATATGC
1 TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAAAAAGGATGTCAATATGC
*
44913 TGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAAAGTGATAAAGATGCCAATAT
1 TGATTCAAGGCCAGCTATATTGGACTT--AAA-GATGA-GA-AAAAG-GAT---G-T--CAATAT
*
44978 GT
54 GC
* * * * * **
44980 TGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAAGATGTCAACGTGC
1 TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAAAAAGGATGTCAATATGC
* * * *
45035 TGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-AAAATG-TGCCAATATGC
1 TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAAAAAGGATGTCAATATGC
45087 TGATTCAAGGCCAGCTATATTGGACTTAAAG
1 TGATTCAAGGCCAGCTATATTGGACTTAAAG
45118 GTGCCAATGT
Statistics
Matches: 202, Mismatches: 34, Indels: 39
0.73 0.12 0.14
Matches are distributed among these distances:
49 34 0.17
50 2 0.01
51 3 0.01
52 40 0.20
53 6 0.03
54 1 0.00
55 60 0.30
57 1 0.00
58 1 0.00
59 2 0.01
61 6 0.03
62 4 0.02
63 2 0.01
64 6 0.03
65 3 0.01
67 31 0.15
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.25
Consensus pattern (55 bp):
TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAAAAAGGATGTCAATATGC
Found at i:44917 original size:171 final size:171
Alignment explanation
Indices: 44723--45117 Score: 682
Period size: 171 Copynumber: 2.3 Consensus size: 171
44713 TTTTAAAGAT
*
44723 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
*
44788 GTGATAAAGATGCCAATAAGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATAAGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAAGA
44853 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* * *
44894 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
* *
44959 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAAGA
66 GTGATAAAGATGCCAATAAGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAAGA
45024 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
45065 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
45118 GTGCCAATGT
Statistics
Matches: 211, Mismatches: 10, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
171 167 0.79
172 4 0.02
174 40 0.19
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (171 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
GTGATAAAGATGCCAATAAGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAAGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:45136 original size:43 final size:43
Alignment explanation
Indices: 45075--45953 Score: 539
Period size: 49 Copynumber: 19.0 Consensus size: 43
45065 GATGGAAAAT
* *
45075 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
45118 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----T---AAAG
* * *
45170 GTGCCGATATGCTGATTCAAGGCCAGCTAGATTGGACTTAAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
*
45213 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAATGGTGGG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA-----AG
45261 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----TAAAG
*
45310 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A-G
* * *
45356 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAG
1 --G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----TAAAG
*
45408 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
* *** * * * * ** * *
45451 ATGATGATGAGAAAAGTGA-TAAAGATGCCA-ATATGTT-GA-TT-CAC
1 GTGCCAATGTG----CTGATTCAAG--GCCAGCTACATTGGACTTAAAG
* * * * * *
45495 G-GCCAA--CGAT-ATT--AGGCTTA--AAGA-TGATGA--AAAAG
1 GTGCCAATGTGCTGATTCAAGGC-CAGCTACATTG--GACTTAAAG
* *
45530 GATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGG
1 G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A--G
* *
45578 AAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 -----GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
45626 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A-G
* * *
45672 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 --G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
*
45718 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A-G
* * *
45764 AAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
1 --G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
*
45810 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----T---AAAG
* * *
45862 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----A--AAG
*
45911 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
45954 ATGGAAAAGG
Statistics
Matches: 664, Mismatches: 83, Indels: 178
0.72 0.09 0.19
Matches are distributed among these distances:
32 1 0.00
33 3 0.00
34 1 0.00
35 6 0.01
36 1 0.00
37 6 0.01
39 2 0.00
40 3 0.00
41 2 0.00
42 5 0.01
43 199 0.30
44 13 0.02
45 8 0.01
46 14 0.02
47 9 0.01
48 53 0.08
49 213 0.32
50 3 0.00
51 4 0.01
52 110 0.17
53 2 0.00
54 5 0.01
55 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (43 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
Found at i:45194 original size:95 final size:95
Alignment explanation
Indices: 45031--45453 Score: 581
Period size: 95 Copynumber: 4.4 Consensus size: 95
45021 AGATGTCAAC
* *
45031 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGG--AAGGTGCCAATATGCTGATTCAAG
45096 GCCAGCTATATTGGAC-T-TAAAGGTGCCAAT
64 GCCAGCTATATTGGACTTATAAAGGTGCCAAT
*
45126 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCGATATGCTGATTCAAG
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGG--AAGGTGCCAATATGCTGATTCAAG
*
45191 GCCAGCTAGATTGGAC-T-TAAAGGTGCCAAT
64 GCCAGCTATATTGGACTTATAAAGGTGCCAAT
* * *
45221 GTGCTGATTCAAGGCCAGCTACATTGGACTTAATGGTGG--GGTGCCAATGTGCTGATTCAAGGC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAGGTGCCAATATGCTGATTCAAGGC
*
45284 CAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
66 CAGCTATATTGGACTT----ATAAAGGTGCCAAT
* *
45318 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGATGCCAATATGCTGATTCAAGGC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAGGTGCCAATATGCTGATTCAAGGC
*
45382 CAGCGATATTGGACTTAAAGATAAAGGTGCCAAT
66 CAGCTATATTGGACTT----ATAAAGGTGCCAAT
*
45416 GTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
45454 ATGATGAGAA
Statistics
Matches: 301, Mismatches: 18, Indels: 14
0.90 0.05 0.04
Matches are distributed among these distances:
91 35 0.12
92 1 0.00
95 128 0.43
96 1 0.00
97 47 0.16
98 89 0.30
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (95 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAGGTGCCAATATGCTGATTCAAGGC
CAGCTATATTGGACTTATAAAGGTGCCAAT
Found at i:45332 original size:49 final size:49
Alignment explanation
Indices: 45031--45452 Score: 537
Period size: 49 Copynumber: 8.8 Consensus size: 49
45021 AGATGTCAAC
* *
45031 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
* *
45083 ATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
*
45126 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCGAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
* *
45178 ATGCTGATTCAAGGCCAGCTAGATTGGAC-T-----TAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * **
45221 GTGCTGATTCAAGGCCAGCTACATTGGACTTAATGGT-GGGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
45269 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * *
45318 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * *
45367 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
*
45416 GTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
45453 GATGATGAGA
Statistics
Matches: 325, Mismatches: 29, Indels: 35
0.84 0.07 0.09
Matches are distributed among these distances:
43 76 0.23
44 2 0.01
46 2 0.01
48 44 0.14
49 135 0.42
51 2 0.01
52 64 0.20
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
Found at i:45581 original size:116 final size:114
Alignment explanation
Indices: 45356--45672 Score: 307
Period size: 116 Copynumber: 2.9 Consensus size: 114
45346 CTTAAAGATG
*
45356 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATAAAGGTGCCAATGTGCT
*
45421 GATTCAAGGCCAGCGACATTGGACTTAAAGATGATGATGAGAAAAGTGATA
66 GATTCAAGGCCAGCGACATTGAACTT-AAGA-GATGATGAGAAAAGTGATA
* * *
45472 AAGATGCCAATATGTTGATTCACGGCCAACGATATTAGG-CTTAAAGATGATGAAAAAGGATGTC
1 AAGATGCCAATATGCTGATTCAAGGCCAACGATATT-GGACTT-AA-A-GAT---AAAGG-TGCC
*
45536 AATGTGCTGATTCAAGGCCAGCTACATTGAACTT-A-A-A-GATG-G-AAA---AT-
58 AATGTGCTGATTCAAGGCCAGCGACATTGAACTTAAGAGATGATGAGAAAAGTGATA
* *
45583 --G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATAAAGGTGCCAATGTGCT
* *
45639 GATTCAAGGCCAGCTACATTGGACTTAA-AGATGA
66 GATTCAAGGCCAGCGACATTGAACTTAAGAGATGA
45673 AGATGCCAAT
Statistics
Matches: 177, Mismatches: 12, Indels: 42
0.77 0.05 0.18
Matches are distributed among these distances:
95 36 0.20
96 7 0.04
97 1 0.01
98 2 0.01
99 1 0.01
107 3 0.02
108 29 0.16
109 1 0.01
112 2 0.01
115 3 0.02
116 37 0.21
117 8 0.05
118 2 0.01
119 3 0.02
120 1 0.01
121 1 0.01
122 5 0.03
123 35 0.20
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (114 bp):
AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATAAAGGTGCCAATGTGCT
GATTCAAGGCCAGCGACATTGAACTTAAGAGATGATGAGAAAAGTGATA
Found at i:45682 original size:49 final size:49
Alignment explanation
Indices: 45530--46002 Score: 532
Period size: 49 Copynumber: 9.8 Consensus size: 49
45520 GATGAAAAAG
* * *
45530 GATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAA
* *
45580 AATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--
1 GA--TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
*
45626 G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* *
45674 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* *
45718 G-TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* *
45766 GATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT-AA-A-G--
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* *
45810 G-TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAA
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AA
* * *
45861 GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGATGAA
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* * *
45910 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAA
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AA
* * *
45962 GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
46003 GAGGGGTTGC
Statistics
Matches: 362, Mismatches: 35, Indels: 50
0.81 0.08 0.11
Matches are distributed among these distances:
43 104 0.29
44 8 0.02
45 3 0.01
46 4 0.01
47 3 0.01
48 7 0.02
49 113 0.31
50 3 0.01
51 4 0.01
52 113 0.31
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
Found at i:45717 original size:92 final size:93
Alignment explanation
Indices: 45526--46002 Score: 724
Period size: 92 Copynumber: 5.0 Consensus size: 93
45516 AGATGATGAA
* * * *
45526 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAAT
1 AAAGG-TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAGA--TGCCAAT
45591 ATGCTGATTCAAGGCCAGCTATATTGGACTT
63 ATGCTGATTCAAGGCCAGCTATATTGGACTT
*
45622 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGATGCCAATATG
1 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAGATGCCAATATG
*
45686 CTGATTCAAGGCCAGCGATATTGGACTT
66 CTGATTCAAGGCCAGCTATATTGGACTT
45714 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGATGCCAATATG
1 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAGATGCCAATATG
*
45778 CTGATTCAAGGCCAGCAATATTGGACTT
66 CTGATTCAAGGCCAGCTATATTGGACTT
*
45806 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATA
1 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGG--AAGATGCCAATA
*
45871 TGCTGATTCAAGGCCAGCTATATTGGGCTT
64 TGCTGATTCAAGGCCAGCTATATTGGACTT
*
45901 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTG
1 ----A--AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGG--AAGATG
*
45966 CCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT
58 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
46002 A
1 A
46003 GAGGGGTTGC
Statistics
Matches: 363, Mismatches: 9, Indels: 17
0.93 0.02 0.04
Matches are distributed among these distances:
92 176 0.48
93 1 0.00
94 4 0.01
95 81 0.22
96 5 0.01
97 1 0.00
99 1 0.00
101 94 0.26
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (93 bp):
AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAGATGCCAATATG
CTGATTCAAGGCCAGCTATATTGGACTT
Found at i:45997 original size:52 final size:52
Alignment explanation
Indices: 45806--46002 Score: 301
Period size: 52 Copynumber: 3.8 Consensus size: 52
45796 TATTGGACTT
*
45806 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
1 AAAGGTGCCAATATGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
* * *
45858 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
*
45908 -AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
1 AAAGGTGCCAATATGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
* * *
45959 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 AAAGGTGCCAATATGCTGAGTCAAGGCCAGCTACATTGGACTTA
46003 GAGGGGTTGC
Statistics
Matches: 130, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
49 44 0.34
50 1 0.01
51 1 0.01
52 84 0.65
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.24
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
Found at i:46103 original size:32 final size:33
Alignment explanation
Indices: 46007--46099 Score: 163
Period size: 33 Copynumber: 2.8 Consensus size: 33
45997 GGCTTAGAGG
46007 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
46040 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG-A
1 GGTTGCCACCGACTTGTGTGGGCTTT-GGAAGAA
46073 -GTTGCCACCGACTTGTGTGGGCTTTGG
1 GGTTGCCACCGACTTGTGTGGGCTTTGG
46100 GAAGGAAAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
31 2 0.03
32 25 0.42
33 27 0.46
34 5 0.08
ACGTcount: A:0.15, C:0.19, G:0.37, T:0.29
Consensus pattern (33 bp):
GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
Found at i:46177 original size:34 final size:34
Alignment explanation
Indices: 46088--46530 Score: 395
Period size: 34 Copynumber: 13.5 Consensus size: 34
46078 CACCGACTTG
*
46088 TGTGGGCTTTGGGAAGGAAAAA-AGATGCCACGGAGT
1 TGTGGGCTTT--GAAAGAAAAAGAG-TGCCACGGAGT
* *
46124 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTGAAA--GAAAAAGAGTGCCACGGAGT
46159 TGTGGGCTTTGAAAGAAAAA-AGTGCCACGGAGT
1 TGTGGGCTTTGAAAGAAAAAGAGTGCCACGGAGT
*
46192 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAAT
1 TGTGGGCTTTG-AAA--GAAAAAGAGTGCCACGGAGT
* *
46229 TGTGGGCTTT------AAAAGGGTGCCACGGCGT
1 TGTGGGCTTTGAAAGAAAAAGAGTGCCACGGAGT
*
46257 TGTGGGCTTTGAAAAGAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTTG-AAAGAAAAAGAGTGCCACGGAGT
46291 TGTGGGCTTT-----AAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTGAAAGAAAAAGAGTGCCACGGAGT
*
46320 TGTGGGCTTTGAAAAGAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTTG-AAAGAAAAAGAGTGCCACGGAGT
* *
46354 TGTGGGCTTTAAAAAGAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-GAAAGAAAAAGAGTGCCACGGAGT
46388 TGTGGGCTTT-------AAAGAGTGCCACGGAGT
1 TGTGGGCTTTGAAAGAAAAAGAGTGCCACGGAGT
* * *
46415 CGTGGGCTTTGAAAAGAAGAAG-GTGCCACGGAGC
1 TGTGGGCTTTG-AAAGAAAAAGAGTGCCACGGAGT
* *
46449 TGTGGGCTTTAAAAAGAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-GAAAGAAAAAGAGTGCCACGGAGT
*
46483 TGTGGGCTTTG-AAGAAAAA-A-TGCCACTGAGT
1 TGTGGGCTTTGAAAGAAAAAGAGTGCCACGGAGT
* *
46514 CGTGGACTTTGAGAAGA
1 TGTGGGCTTTGA-AAGA
46531 GATTGCCACT
Statistics
Matches: 345, Mismatches: 26, Indels: 75
0.77 0.06 0.17
Matches are distributed among these distances:
26 3 0.01
27 21 0.06
28 30 0.09
29 22 0.06
31 19 0.06
32 7 0.02
33 30 0.09
34 135 0.39
35 37 0.11
36 19 0.06
37 22 0.06
ACGTcount: A:0.30, C:0.13, G:0.36, T:0.21
Consensus pattern (34 bp):
TGTGGGCTTTGAAAGAAAAAGAGTGCCACGGAGT
Found at i:46328 original size:63 final size:64
Alignment explanation
Indices: 46105--46559 Score: 449
Period size: 63 Copynumber: 7.1 Consensus size: 64
46095 TTTGGGAAGG
* *
46105 AAAAAAGA-TGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCT
1 AAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA--GAAGAAG-GTGCCACGGAGTTGTGGGCT
46167 TT
63 TT
* * *
46169 GAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAATTGTGG
1 --AA-AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA--GAAGAAG-GTGCCACGGAGTTGTGG
46234 GCTTT
60 GCTTT
* *
46239 --AAAAGGGTGCCACGGCGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT
46301 -AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT
*
46364 AAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT----A-AAG-A-GTGCCACGGAGTCGTGGGC
1 -AAAA-AAG-A-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGC
46422 TTT
62 TTT
* *
46425 GAAAAGAAGAAGGTGCCACGGAGCTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGC
1 -AAAA-AAG-A-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGC
46490 TTT
62 TTT
* * * * * * * * *
46493 GAAGAAAA-AATGCCACTGAGTCGTGGACTTTGAGAAG-AG-A-TTGCCACTGAGTCGTGGACTT
1 -AA-AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTT
46554 T
64 T
46555 AAAAA
1 AAAAA
46560 GGTATTTGAA
Statistics
Matches: 346, Mismatches: 25, Indels: 42
0.84 0.06 0.10
Matches are distributed among these distances:
60 3 0.01
61 55 0.16
62 40 0.12
63 70 0.20
64 3 0.01
65 55 0.16
66 9 0.03
67 7 0.02
68 65 0.19
69 4 0.01
70 35 0.10
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (64 bp):
AAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT
Found at i:46437 original size:61 final size:61
Alignment explanation
Indices: 46342--46461 Score: 213
Period size: 61 Copynumber: 2.0 Consensus size: 61
46332 AAAGAAGAAG
* *
46342 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGA
1 GTGCCACGGAGTCGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGCTGTGGGCTTTAAAGA
*
46403 GTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGCTGTGGGCTTTAAA
1 GTGCCACGGAGTCGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGCTGTGGGCTTTAAA
46462 AAGAAGAAGG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.27, C:0.15, G:0.37, T:0.22
Consensus pattern (61 bp):
GTGCCACGGAGTCGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGCTGTGGGCTTTAAAGA
Found at i:46447 original size:95 final size:95
Alignment explanation
Indices: 46212--46497 Score: 458
Period size: 95 Copynumber: 3.1 Consensus size: 95
46202 GAAAAGGGAA
* * *
46212 AAAGAGTGCCACGGAATTGTGGGCTTT---AA-AAG--GGTGCCACGGCGTTGTGGGCTTTGAAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAA
46271 AGAAGAAGGTGCCACGGAGTTGTGGGCTTT
66 AGAAGAAGGTGCCACGGAGTTGTGGGCTTT
46301 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAA
1 --AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAA
46366 AAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT
64 AAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT
* *
46398 AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGCTGTGGGCTTTAAAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAA
46463 AGAAGAAGGTGCCACGGAGTTGTGGGCTTT
66 AGAAGAAGGTGCCACGGAGTTGTGGGCTTT
*
46493 GAAGA
1 AAAGA
46498 AAAAATGCCA
Statistics
Matches: 183, Mismatches: 6, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
91 26 0.14
94 2 0.01
95 100 0.55
97 55 0.30
ACGTcount: A:0.28, C:0.14, G:0.37, T:0.21
Consensus pattern (95 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAA
AGAAGAAGGTGCCACGGAGTTGTGGGCTTT
Found at i:46538 original size:31 final size:31
Alignment explanation
Indices: 46472--46554 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 31
46462 AAGAAGAAGG
* * *
46472 TGCCACGGAGTTGTGGGCTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
* *
46503 TGCCACTGAGTCGTGGACTTTG-AGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAAGAA-AAAA
46534 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
46555 AAAAAGGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 4 0.09
31 42 0.91
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
Found at i:47505 original size:1 final size:1
Alignment explanation
Indices: 47499--47525 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
47489 TGAAAAGGGG
47499 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
47526 GTGAAGATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:54879 original size:52 final size:52
Alignment explanation
Indices: 54809--54929 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
54799 GAAAATTTAT
*
54809 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
54861 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
54913 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
54930 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:54942 original size:52 final size:51
Alignment explanation
Indices: 54809--54949 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
54799 GAAAATTTAT
54809 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
54861 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
54913 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
54950 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:54956 original size:13 final size:13
Alignment explanation
Indices: 54938--54962 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54928 CAAAGATCAG
54938 TGTATCGATACAA
1 TGTATCGATACAA
54951 TGTATCGATACA
1 TGTATCGATACA
54963 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:55045 original size:13 final size:13
Alignment explanation
Indices: 55027--55051 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55017 CAAAAAAATA
55027 TGTATCGATACAT
1 TGTATCGATACAT
55040 TGTATCGATACA
1 TGTATCGATACA
55052 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:56932 original size:104 final size:103
Alignment explanation
Indices: 56640--57146 Score: 576
Period size: 104 Copynumber: 4.9 Consensus size: 103
56630 TGATAGAGGT
* ** *
56640 GCCAATATGCTGATTCAAGGCCAGCGATATTGAGTTTAAAGATGACAAAA-GTGCCAATGTGCTG
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGA-CTT-AAGAAAAAAAAAGGTGCCAATGTGCTG
* * *
56704 ATTTAAGACCAACGACATTGGA-TTCGAAA-ATGAG-AAAGGC
64 ATTCAAGGCCAACGACATTGGACTT--AAAGATG-GCCAAGGC
* * *
56744 ACTAATATACTGATTCAAGGCCAGCGATATTGGACTTAAG-AAAAAAAAGGTGCCAATGTGCTGA
1 GCCAATATGCTGATTCAAGGCCAGCGATATT-GACTTAAGAAAAAAAAAGGTGCCAATGTGCTGA
** * *
56808 TTCAAGGCTGGA-GGCATTGGACTTAAAGATGGCCAAGGT
65 TTCAAGGC-CAACGACATTGGACTTAAAGATGGCCAAGGC
* *
56847 GCCAATATGCTAATTCAAGGCTAGCGATATTAGACTTAAGAAAAAAAAAGGTGCCAATGTGCTGA
1 GCCAATATGCTGATTCAAGGCCAGCGATATT-GACTTAAGAAAAAAAAAGGTGCCAATGTGCTGA
* * *
56912 TTCAAGGCCAGCAACATTGGACTCAAAGATGGCCAAGGC
65 TTCAAGGCCAACGACATTGGACTTAAAGATGGCCAAGGC
* * ** * * *
56951 ACCAATATGCTGATTCAAGGCTAGTAATTTTGGACTTAAGAAAGAAAAAGGTGCCAATGTTCTGA
1 GCCAATATGCTGATTCAAGGCCAGCGATATT-GACTTAAGAAAAAAAAAGGTGCCAATGTGCTGA
* * * *
57016 TTTAAGGCCAATGACATTGAACTCAAAGATGGCCAAGGC
65 TTCAAGGCCAACGACATTGGACTTAAAGATGGCCAAGGC
* * *
57055 GCCAATATGTTGATTCAAGGCCAGCAATATTGAACTTAAGAAAAAAAAAGGTGCCAATGTGCTAA
1 GCCAATATGCTGATTCAAGGCCAGCGATATTG-ACTTAAGAAAAAAAAAGGTGCCAATGTGCTGA
*
57120 TTCAAGGCCAACGACATTAGACTTAAA
65 TTCAAGGCCAACGACATTGGACTTAAA
57147 AAGAAATGGA
Statistics
Matches: 341, Mismatches: 53, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
102 9 0.03
103 74 0.22
104 256 0.75
105 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (103 bp):
GCCAATATGCTGATTCAAGGCCAGCGATATTGACTTAAGAAAAAAAAAGGTGCCAATGTGCTGAT
TCAAGGCCAACGACATTGGACTTAAAGATGGCCAAGGC
Found at i:56991 original size:207 final size:207
Alignment explanation
Indices: 56636--57142 Score: 637
Period size: 208 Copynumber: 2.4 Consensus size: 207
56626 AAAATGATAG
* ** *
56636 AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGAGTTTAAAGATGACAAAA-GTGCCAATGT
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGA-CTT-AAGAAAAAAAAAGGTGCCAATGT
* * * * *
56700 GCTGATTTAAGACCAACGACATTGGATTCGAAAATGAGAAAGGCACTAATATACTGATTCAAGGC
64 GCTGATTCAAGGCCAACAACATTGGACTCGAAAATGAGAAAGGCACCAATATACTGATTCAAGGC
* ** * *
56765 CAGCGATATTGGACTTAAGAAA-AAAAAGGTGCCAATGTGCTGATTCAAGGCTGGA-GGCATTGG
129 CAGCAATATTGGACTTAAGAAAGAAAAAGGTGCCAATGTGCTGATTCAAGGC-CAATGACATTGA
*
56828 ACTTAAAGATGGCCA
193 ACTCAAAGATGGCCA
* *
56843 AGGTGCCAATATGCTAATTCAAGGCTAGCGATATTAGACTTAAGAAAAAAAAAGGTGCCAATGTG
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGATATT-GACTTAAGAAAAAAAAAGGTGCCAATGTG
* * *
56908 CTGATTCAAGGCCAGCAACATTGGACTC-AAAGATG-GCCAAGGCACCAATATGCTGATTCAAGG
65 CTGATTCAAGGCCAACAACATTGGACTCGAAA-ATGAG-AAAGGCACCAATATACTGATTCAAGG
* * * * *
56971 CTAGTAATTTTGGACTTAAGAAAGAAAAAGGTGCCAATGTTCTGATTTAAGGCCAATGACATTGA
128 CCAGCAATATTGGACTTAAGAAAGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAATGACATTGA
57036 ACTCAAAGATGGCCA
193 ACTCAAAGATGGCCA
* * *
57051 AGGCGCCAATATGTTGATTCAAGGCCAGCAATATTGAACTTAAGAAAAAAAAAGGTGCCAATGTG
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG-ACTTAAGAAAAAAAAAGGTGCCAATGTG
* * *
57116 CTAATTCAAGGCCAACGACATTAGACT
65 CTGATTCAAGGCCAACAACATTGGACT
57143 TAAAAAGAAA
Statistics
Matches: 259, Mismatches: 34, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
206 13 0.05
207 116 0.45
208 130 0.50
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (207 bp):
AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGACTTAAGAAAAAAAAAGGTGCCAATGTGC
TGATTCAAGGCCAACAACATTGGACTCGAAAATGAGAAAGGCACCAATATACTGATTCAAGGCCA
GCAATATTGGACTTAAGAAAGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAATGACATTGAACT
CAAAGATGGCCA
Found at i:57111 original size:52 final size:52
Alignment explanation
Indices: 56636--57152 Score: 291
Period size: 52 Copynumber: 10.0 Consensus size: 52
56626 AAAATGATAG
* * * *
56636 AGGTGCCAATATGCTGATTCAAGGCCAGCGATATT-GAGTTTAA-AGATGACAAA
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCAATATTGGA-CTTAAGA-AAGA-AAA
* * * * * * *
56689 A-GTGCCAATGTGCTGATTTAAGACCAACGACATTGGA-TTCGAA-AATGAGAA
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCAATATTGGACTT--AAGAAAGAAAA
** * * * *
56740 AGGCACTAATATACTGATTCAAGGCCAGCGATATTGGACTTAAGAAA-AAAA
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCAATATTGGACTTAAGAAAGAAAA
* * ** * ***
56791 AGGTGCCAATGTGCTGATTCAAGG-CTGGAGGCATTGGACTTAA-AGATGGCCA
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCA-ATATTGGACTTAAGA-AAGAAAA
* * * * * *
56843 AGGTGCCAATATGCTAATTCAAGGCTAGCGATATTAGACTTAAGAAAAAAAA
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCAATATTGGACTTAAGAAAGAAAA
* * * ***
56895 AGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTCAA-AGATGGCCA
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCAATATTGGACTTAAGA-AAGAAAA
** * * * *
56947 AGGCACCAATATGCTGATTCAAGGCTAGTAATTTTGGACTTAAGAAAGAAAA
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCAATATTGGACTTAAGAAAGAAAA
* * *** * * * * ***
56999 AGGTGCCAATGTTCTGATTTAAGGCCAATGACATTGAACTCAA-AGATGGCCA
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCAATATTGGACTTAAGA-AAGAAAA
* * * * *
57051 AGGCGCCAATATGTTGATTCAAGGCCAGCAATATTGAACTTAAGAAAAAAAA
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCAATATTGGACTTAAGAAAGAAAA
* * * * *
57103 AGGTGCCAATGTGCTAATTCAAGGCCAACGACATTAGACTTAA-AAAGAAA
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCAATATTGGACTTAAGAAAGAAA
57153 TGGATTGACA
Statistics
Matches: 339, Mismatches: 110, Indels: 32
0.70 0.23 0.07
Matches are distributed among these distances:
50 3 0.01
51 49 0.14
52 275 0.81
53 12 0.04
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (52 bp):
AGGTGCCAATGTGCTGATTCAAGGCCAGCAATATTGGACTTAAGAAAGAAAA
Found at i:57345 original size:33 final size:34
Alignment explanation
Indices: 57302--58428 Score: 346
Period size: 34 Copynumber: 34.8 Consensus size: 34
57292 TTGTGGACTT
* *
57302 AAAAAGGTGCCACGG-GTTGTAGACTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTATGGACTTTGAAAAG
* *
57335 AAAAATGTGCCACAGAGTTATGGAC-TT-AAAAGG
1 AAAAAGGTGCCACGGAGTTATGGACTTTGAAAA-G
* * *
57368 AAAAAAGGTGACACGGAGTCATGGGCTTTGAAAAG
1 -AAAAAGGTGCCACGGAGTTATGGACTTTGAAAAG
* *
57403 AAAAATGTGCCACGGAGTTGTGGAC-TT------
1 AAAAAGGTGCCACGGAGTTATGGACTTTGAAAAG
* *
57430 -AAAAGGTGTCATGGAGTTATGGAC-TT-AAAAGG
1 AAAAAGGTGCCACGGAGTTATGGACTTTGAAAA-G
** * *
57462 AAAAAAGGTGCCACACAGTTGTGGGCTTTGAAAAG
1 -AAAAAGGTGCCACGGAGTTATGGACTTTGAAAAG
**
57497 AAAAAAATGCCACGGAGTTATGGAC-TT-AAAACG
1 AAAAAGGTGCCACGGAGTTATGGACTTTGAAAA-G
* * * * *
57530 AAAAAGGGTGTCACAGTGTCATGGGCTTTGAAAAG
1 AAAAA-GGTGCCACGGAGTTATGGACTTTGAAAAG
** * *
57565 AAAAAGGTGTTACAGAGTTATAGAC-TT-AAAAG
1 AAAAAGGTGCCACGGAGTTATGGACTTTGAAAAG
* * **
57597 -----GGTGCCAC-GAATTCGTCAACTTTGAAAAG
1 AAAAAGGTGCCACGGAGTT-ATGGACTTTGAAAAG
*
57626 AAAAAGGTGCCACAGAGTTATGGAC-TT-AAAAGG
1 AAAAAGGTGCCACGGAGTTATGGACTTTGAAAA-G
** * *
57659 AAAAAAGGATGCCACAAAGTTGTGGGC-TT-AAAAGG
1 -AAAAAGG-TGCCACGGAGTTATGGACTTTGAAAA-G
* * ** *
57694 AAAAAAGGTGTCACAGAGTCGTGGGCTTTGAAAAG
1 -AAAAAGGTGCCACGGAGTTATGGACTTTGAAAAG
* * * **
57729 AAAAAGAGTACCACGGAGTCATGGGCTTTGAAGGG
1 AAAAAG-GTGCCACGGAGTTATGGACTTTGAAAAG
* * * *
57764 AAAAAATGTGCTATGGAGTTGTGGAC-TT-AAAAGG
1 -AAAAAGGTGCCACGGAGTTATGGACTTTGAAAA-G
* * * * *
57798 AAAAATGATGCCATGAAGTTGTGGGCTTTGAAAAG
1 AAAAA-GGTGCCACGGAGTTATGGACTTTGAAAAG
* * *
57833 AAAAAGGTGCTA-GTGAGTTGTGGAC-TT-AAATG
1 AAAAAGGTGCCACG-GAGTTATGGACTTTGAAAAG
** * *
57865 ----A-GTGCTGCGCAGTTGTAGG-C-TT-AAAAGG
1 AAAAAGGTGCCACGGAGTTAT-GGACTTTGAAAA-G
* *
57893 AAAAAGGGTGCCATGGAGTTGTGGAC-TT-AAAAGG
1 AAAAA-GGTGCCACGGAGTTATGGACTTTGAAAA-G
* *
57927 AAAAAGGATGTCACGGAGTTGT-GAGCTTTGAAAAG
1 AAAAAGG-TGCCACGGAGTTATGGA-CTTTGAAAAG
* *
57962 AAAAAAAGTGTCACGGAGTTGA-GGAC-TT-AAAAG
1 -AAAAAGGTGCCACGGAGTT-ATGGACTTTGAAAAG
* *** * *
57995 -----GGTGTCATAAAGTTGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTATGGACTTTGAAAAG
* * *
58024 AAAAAGGTGCCACGAAATTGTGGAC-TT-AAAAG
1 AAAAAGGTGCCACGGAGTTATGGACTTTGAAAAG
** *
58056 -----GGTGCCATAGAGTTGTGGAC-TT-AAAAGG
1 AAAAAGGTGCCACGGAGTTATGGACTTTGAAAA-G
* * *
58084 AAAAAAGGTGTCATGGAGTTATGGAC-TTAAAAAG
1 -AAAAAGGTGCCACGGAGTTATGGACTTTGAAAAG
** ** *
58118 AAAAAGGGTGCCATAGAGTTGCGGAC-TTAAAAAG
1 AAAAA-GGTGCCACGGAGTTATGGACTTTGAAAAG
* * * *
58152 -AAAAGTTACCACAGAGTTGTGGAC-TT-AAAAG
1 AAAAAGGTGCCACGGAGTTATGGACTTTGAAAAG
* * *
58183 ----A-GTGTCACGGAGTTGTAGAC-TT-AAAAG
1 AAAAAGGTGCCACGGAGTTATGGACTTTGAAAAG
* *
58210 -----GGTGCCACAGAATTATGGAC-TT-AAAAGG
1 AAAAAGGTGCCACGGAGTTATGGACTTTGAAAA-G
* *
58238 AAAAAGGGTGCCACAGAGTTATGAACTTTG--AAG
1 AAAAA-GGTGCCACGGAGTTATGGACTTTGAAAAG
* * * *
58271 -----GGTTCCACAGAGTTGTGGAC--TAAAAAGG
1 AAAAAGGTGCCACGGAGTTATGGACTTTGAAAA-G
*
58299 AAAAAAAGGTGCCACGGAGTTATGGGCTTTGAAAAG
1 --AAAAAGGTGCCACGGAGTTATGGACTTTGAAAAG
* *
58335 AAAAAGGTGCCACGGAATTTTGGAC-TTGAAAAG
1 AAAAAGGTGCCACGGAGTTATGGACTTTGAAAAG
* * *
58368 AAAAAGGTTGCCACGGAATTATGGGCTTTGAGAA-
1 AAAAAGG-TGCCACGGAGTTATGGACTTTGAAAAG
58402 AAAAAGGTGCCACGGAGTTATGGACTT
1 AAAAAGGTGCCACGGAGTTATGGACTT
58429 AAAAGGGTGC
Statistics
Matches: 847, Mismatches: 149, Indels: 196
0.71 0.12 0.16
Matches are distributed among these distances:
25 1 0.00
26 26 0.03
27 121 0.14
28 13 0.02
29 10 0.01
31 5 0.01
32 45 0.05
33 97 0.11
34 347 0.41
35 139 0.16
36 38 0.04
37 5 0.01
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.22
Consensus pattern (34 bp):
AAAAAGGTGCCACGGAGTTATGGACTTTGAAAAG
Found at i:57347 original size:60 final size:61
Alignment explanation
Indices: 57281--57485 Score: 202
Period size: 60 Copynumber: 3.3 Consensus size: 61
57271 AAGGGAGAAG
* * *
57281 GTGCCACAGAGTTGTGGACTTAAAAAGGTGCCACGG-GTTGTAGACTTTGAAAAGAAAAAT
1 GTGCCACAGAGTTGTGGACTTAAAAAGGTGACACGGAGTTATGGACTTTGAAAAGAAAAAT
* * *
57341 GTGCCACAGAGTTATGGACTTAAAAGGAAAAAAGGTGACACGGAGTCATGGGCTTTGAAAAGAAA
1 GTGCCACAGAGTTGTGGACTT-------AAAAAGGTGACACGGAGTTATGGACTTTGAAAAGAAA
57406 AAT
59 AAT
* * * *
57409 GTGCCACGGAGTTGTGGACTT-AAAAGGTGTCATGGAGTTATGGAC-TT-AAAAGGAAAAAAG
1 GTGCCACAGAGTTGTGGACTTAAAAAGGTGACACGGAGTTATGGACTTTGAAAA-G-AAAAAT
*
57469 GTGCCACACAGTTGTGG
1 GTGCCACAGAGTTGTGG
57486 GCTTTGAAAA
Statistics
Matches: 120, Mismatches: 15, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
58 4 0.03
59 3 0.03
60 60 0.50
67 14 0.12
68 39 0.32
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.22
Consensus pattern (61 bp):
GTGCCACAGAGTTGTGGACTTAAAAAGGTGACACGGAGTTATGGACTTTGAAAAGAAAAAT
Found at i:57450 original size:94 final size:94
Alignment explanation
Indices: 57349--57527 Score: 286
Period size: 94 Copynumber: 1.9 Consensus size: 94
57339 ATGTGCCACA
** **
57349 GAGTTATGGACTTAAAAGGAAAAAAGGTGACACGGAGTCATGGGCTTTGAAAAGAAAAATGTGCC
1 GAGTTATGGACTTAAAAGGAAAAAAGGTGACACACAGTCATGGGCTTTGAAAAGAAAAAAATGCC
*
57414 ACGGAGTTGTGGACTTAAAAGGTGTCATG
66 ACGGAGTTATGGACTTAAAAGGTGTCATG
* **
57443 GAGTTATGGACTTAAAAGGAAAAAAGGTGCCACACAGTTGTGGGCTTTGAAAAGAAAAAAATGCC
1 GAGTTATGGACTTAAAAGGAAAAAAGGTGACACACAGTCATGGGCTTTGAAAAGAAAAAAATGCC
57508 ACGGAGTTATGGACTTAAAA
66 ACGGAGTTATGGACTTAAAA
57528 CGAAAAAGGG
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 77 1.00
ACGTcount: A:0.39, C:0.11, G:0.28, T:0.22
Consensus pattern (94 bp):
GAGTTATGGACTTAAAAGGAAAAAAGGTGACACACAGTCATGGGCTTTGAAAAGAAAAAAATGCC
ACGGAGTTATGGACTTAAAAGGTGTCATG
Found at i:57500 original size:162 final size:162
Alignment explanation
Indices: 57302--57862 Score: 515
Period size: 162 Copynumber: 3.4 Consensus size: 162
57292 TTGTGGACTT
* * *
57302 AAAAAGGTGCCAC-GGGTTGTAGACTTTGAAAAGAAAAATGTGCCACAGAGTTATGGACTTAAAA
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGACTTAAAA
* * * *
57366 GGAAAAAAGGTGACACGGAGTCATGGGCTTTGAAAAGAAAAATGTGCCACGGAGTTGTGGACTTA
66 GGAAAAAAGGTGTCACAGAGTCATGGGCTTTGAAAAGAAAAAAGTGCCACGGAGTTATGGACTTA
*
57431 AAAGGTGTCATGGAGTTATGGACTTAAAAGGA
131 AAAGGTGTCATGGAGTTGTGGACTTAAAAGGA
* * ** *
57463 AAAAAGGTGCCACACAGTTGTGGGCTTTGAAAAGAAAAAAATGCCACGGAGTTATGGACTTAAAA
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGACTTAAAA
* * * * ** * *
57528 CGAAAAAGGGTGTCACAGTGTCATGGGCTTTGAAAAGAAAAAGGTGTTACAGAGTTATAGACTTA
66 GGAAAAAAGGTGTCACAGAGTCATGGGCTTTGAAAAGAAAAAAGTGCCACGGAGTTATGGACTTA
* * * **
57593 AAAGGGTGCCA-CGAATTCGTCAACTTTGAAAA-G-
131 AAA-GGTGTCATGGAGTT-GTGGAC-TT-AAAAGGA
* * * *
57626 AAAAAGGTGCCACAGAGTTATGGAC-TT-AAAAGGAAAAAAGGATGCCACAAAGTTGTGGGCTTA
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAA-G-AAAAAGG-TGCCACAGAGTTATGGACTTA
* * * *
57689 AAAGGAAAAAAGGTGTCACAGAGTCGTGGGCTTTGAAAAGAAAAAGAGTACCACGGAGTCATGGG
63 AAAGGAAAAAAGGTGTCACAGAGTCATGGGCTTTGAAAAGAAAAA-AGTGCCACGGAGTTATGGA
**
57754 CTTTGAAGGGAAAAAATGTGCTATGGAGTTGTGGACTTAAAAGGA
127 C-TT------AAAAGGTGT-C-ATGGAGTTGTGGACTTAAAAGGA
* * * * * ** *
57799 AAAATGATGCCA-TGAAGTTGTGGGCTTTGAAAAGAAAAAGGTGCTAGTGAGTTGTGGACTTAAA
1 AAAAAGGTGCCACAG-AGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGACTTAAA
57863 TGAGTGCTGC
Statistics
Matches: 314, Mismatches: 62, Indels: 37
0.76 0.15 0.09
Matches are distributed among these distances:
161 17 0.05
162 108 0.34
163 36 0.11
164 61 0.19
165 16 0.05
166 2 0.01
171 6 0.02
172 27 0.09
173 30 0.10
174 7 0.02
175 4 0.01
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.22
Consensus pattern (162 bp):
AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGACTTAAAA
GGAAAAAAGGTGTCACAGAGTCATGGGCTTTGAAAAGAAAAAAGTGCCACGGAGTTATGGACTTA
AAAGGTGTCATGGAGTTGTGGACTTAAAAGGA
Found at i:58052 original size:130 final size:128
Alignment explanation
Indices: 57782--58056 Score: 308
Period size: 130 Copynumber: 2.1 Consensus size: 128
57772 TGCTATGGAG
* * * *
57782 TTGTGGACTTAAAAGGAAAAATGATGCCATGAAGTTGTGGGCTTTGAAAAGAAAAAGGTGCTAGT
1 TTGTGGACTTAAAAGGAAAAAGGATGCCACGAAGTTGTGAGCTTTGAAAAGAAAAAAGTGCTAGT
* * ** * * *
57847 GAGTTGTGGACTTAAATGAGTGCTGCGCAGTTGTAGGCTTAAAAGGAAAAAGGGTGCCATGGAG
66 GAGTTGAGGACTTAAAAGAGTGCT-CAAAGTTGTAGGCTTAAAAGGAAAAAGGGTGCCACGAAA
* *
57911 TTGTGGACTTAAAAGGAAAAAGGATGTCACGGAGTTGTGAGCTTTGAAAAGAAAAAAAGTG-TCA
1 TTGTGGACTTAAAAGGAAAAAGGATGCCACGAAGTTGTGAGCTTTGAAAAG-AAAAAAGTGCT-A
* *
57975 CG-GAGTTGAGGACTTAAAAGGGTG-TCATAAAGTTGTGGGCTTTGAAAA-GAAAAA-GGTGCCA
64 -GTGAGTTGAGGACTTAAAAGAGTGCTC--AAAGTTGTAGGC-TT-AAAAGGAAAAAGGGTGCCA
58036 CGAAA
124 CGAAA
58041 TTGTGGACTTAAAAGG
1 TTGTGGACTTAAAAGG
58057 GTGCCATAGA
Statistics
Matches: 124, Mismatches: 15, Indels: 13
0.82 0.10 0.09
Matches are distributed among these distances:
128 1 0.01
129 48 0.39
130 62 0.50
131 9 0.07
132 4 0.03
ACGTcount: A:0.36, C:0.09, G:0.31, T:0.24
Consensus pattern (128 bp):
TTGTGGACTTAAAAGGAAAAAGGATGCCACGAAGTTGTGAGCTTTGAAAAGAAAAAAGTGCTAGT
GAGTTGAGGACTTAAAAGAGTGCTCAAAGTTGTAGGCTTAAAAGGAAAAAGGGTGCCACGAAA
Found at i:58062 original size:27 final size:27
Alignment explanation
Indices: 58024--58083 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
58014 CTTTGAAAAG
*
58024 AAAAAGGTGCCACGA-AATTGTGGACTT
1 AAAAGGGTGCCA-GAGAATTGTGGACTT
* *
58051 AAAAGGGTGCCATAGAGTTGTGGACTT
1 AAAAGGGTGCCAGAGAATTGTGGACTT
58078 AAAAGG
1 AAAAGG
58084 AAAAAAGGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.22
Consensus pattern (27 bp):
AAAAGGGTGCCAGAGAATTGTGGACTT
Found at i:58091 original size:61 final size:60
Alignment explanation
Indices: 57957--58209 Score: 197
Period size: 61 Copynumber: 4.1 Consensus size: 60
57947 GTGAGCTTTG
* * * * * * *
57957 AAAAGAAAAAAAGTGTCACGGAGTTGAGGACTTAAAAGGGTGTCATAAAGTTGTGGGCTTT
1 AAAAGAAAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCATAGAGTTGTGGAC-TT
*
58018 GAAAAG-AAAAAGGTGCCACGAAATTGTGGACTTAAAAGGGTGCCATAGAGTTGTGGACTT
1 -AAAAGAAAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCATAGAGTTGTGGACTT
* * * * *
58078 AAAAGGAAAAAAGGTGTCATGGAGTTATGGACTTAAAAAGAAAAAGGGTGCCATAGAGTTGCGGA
1 AAAA-GAAAAAAGGTGCCACGAAGTTGTGGACTT-------AAAAGGGTGCCATAGAGTTGTGGA
58143 CTT
58 CTT
* * * * * ** *
58146 AAAA-AGAAAAGTTACCAC-AGAGTTGTGGACTTAAAAGAGTGTCACGGAGTTGTAGACTT
1 AAAAGAAAAAAGGTGCCACGA-AGTTGTGGACTTAAAAGGGTGCCATAGAGTTGTGGACTT
58205 AAAAG
1 AAAAG
58210 GGTGCCACAG
Statistics
Matches: 153, Mismatches: 27, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
59 29 0.19
60 3 0.02
61 66 0.43
62 5 0.03
66 20 0.13
68 30 0.20
ACGTcount: A:0.40, C:0.10, G:0.28, T:0.22
Consensus pattern (60 bp):
AAAAGAAAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCATAGAGTTGTGGACTT
Found at i:58196 original size:27 final size:27
Alignment explanation
Indices: 58119--58236 Score: 101
Period size: 27 Copynumber: 4.2 Consensus size: 27
58109 CTTAAAAAGA
* * *
58119 AAAAGGGTGCCATAGAGTTGCGGACTT
1 AAAAGAGTGCCACAGAGTTGTGGACTT
*
58146 AAAAAGAAAAGTTACCACAGAGTTGTGGACTT
1 -AAAAG---AG-TGCCACAGAGTTGTGGACTT
* * *
58178 AAAAGAGTGTCACGGAGTTGTAGACTT
1 AAAAGAGTGCCACAGAGTTGTGGACTT
* * *
58205 AAAAGGGTGCCACAGAATTATGGACTT
1 AAAAGAGTGCCACAGAGTTGTGGACTT
58232 AAAAG
1 AAAAG
58237 GAAAAAGGGT
Statistics
Matches: 72, Mismatches: 14, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
27 42 0.58
28 7 0.10
31 6 0.08
32 17 0.24
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.22
Consensus pattern (27 bp):
AAAAGAGTGCCACAGAGTTGTGGACTT
Found at i:58257 original size:61 final size:62
Alignment explanation
Indices: 58178--58322 Score: 168
Period size: 61 Copynumber: 2.4 Consensus size: 62
58168 TTGTGGACTT
* * * *
58178 AAAAGAGTGTCACGGAGTTGT-AGACTTAAAAGGGTGCCACAGAATTATGGACTTAAAAGG-A
1 AAAAGGGTGCCACGGAGTTATGA-ACTTAAAAGGGTGCCACAGAATTATGGACTAAAAAGGAA
* ** * * *
58239 AAAAGGGTGCCACAGAGTTATGAACTTTGAAGGGTTCCACAGAGTTGTGGACTAAAAAGGAA
1 AAAAGGGTGCCACGGAGTTATGAACTTAAAAGGGTGCCACAGAATTATGGACTAAAAAGGAA
*
58301 AAAAAGGTGCCACGGAGTTATG
1 AAAAGGGTGCCACGGAGTTATG
58323 GGCTTTGAAA
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
61 48 0.69
62 22 0.31
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (62 bp):
AAAAGGGTGCCACGGAGTTATGAACTTAAAAGGGTGCCACAGAATTATGGACTAAAAAGGAA
Found at i:58298 original size:27 final size:27
Alignment explanation
Indices: 58238--58298 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
58228 ACTTAAAAGG
58238 AAAAAGGGTGCCACAGAGTTATGAACT
1 AAAAAGGGTGCCACAGAGTTATGAACT
*** * * *
58265 TTGAAGGGTTCCACAGAGTTGTGGACT
1 AAAAAGGGTGCCACAGAGTTATGAACT
58292 AAAAAGG
1 AAAAAGG
58299 AAAAAAAGGT
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (27 bp):
AAAAAGGGTGCCACAGAGTTATGAACT
Found at i:58416 original size:67 final size:66
Alignment explanation
Indices: 58301--58433 Score: 205
Period size: 67 Copynumber: 2.0 Consensus size: 66
58291 TAAAAAGGAA
* *
58301 AAAAAGGTGCCACGGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAATTTTGGACTTGAAA
1 AAAAAGGTGCCACGGAATTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAATTATGGACTT-AAA
58366 AG
65 AG
* *
58368 AAAAAGGTTGCCACGGAATTATGGGCTTTGAGAA-AAAAAGGTGCCACGGAGTTATGGACTTAAA
1 AAAAAGG-TGCCACGGAATTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAATTATGGACTTAAA
58432 AG
65 AG
58434 GGTGCCACAG
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
66 5 0.08
67 32 0.52
68 24 0.39
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (66 bp):
AAAAAGGTGCCACGGAATTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAATTATGGACTTAAAA
G
Found at i:58440 original size:27 final size:27
Alignment explanation
Indices: 58402--58474 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
58392 GCTTTGAGAA
*
58402 AAAAAGGTGCCACGGAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTATGGACTT
* *
58429 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTATGGACTT
* *
58456 AAAAGGGTACTACGGAGTT
1 AAAAGGGTGCCACGGAGTT
58475 GTGAGCTTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.22
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTATGGACTT
Found at i:59837 original size:8 final size:8
Alignment explanation
Indices: 59824--59888 Score: 53
Period size: 8 Copynumber: 7.9 Consensus size: 8
59814 CTTTGCACTT
59824 TTTTTTTG
1 TTTTTTTG
59832 TTTTTTTG
1 TTTTTTTG
59840 TTATGTTTT-
1 TT-T-TTTTG
*
59849 TGTTTTT-
1 TTTTTTTG
59856 TTTTTTTG
1 TTTTTTTG
**
59864 CTTTTTTCA
1 -TTTTTTTG
59873 TTTTTTATG
1 TTTTTT-TG
59882 TTTTTTT
1 TTTTTTT
59889 TGGTGTTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
7 10 0.22
8 18 0.39
9 14 0.30
10 4 0.09
ACGTcount: A:0.05, C:0.03, G:0.09, T:0.83
Consensus pattern (8 bp):
TTTTTTTG
Found at i:59855 original size:29 final size:30
Alignment explanation
Indices: 59822--59902 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 30
59812 GCCTTTGCAC
59822 TTTTTTTTTGTTTTTTTGTT-ATGTTTT-TG
1 TTTTTTTTTGTTTTTTT-TTCATGTTTTATG
*
59851 TTTTTTTTT-TTTGCTTTTTTCATTTTTTATG
1 TTTTTTTTTGTTT--TTTTTTCATGTTTTATG
59882 TTTTTTTTGGTGTTTTTTTTT
1 TTTTTTTT--TGTTTTTTTTT
59903 TGTGCTTTTG
Statistics
Matches: 44, Mismatches: 1, Indels: 11
0.79 0.02 0.20
Matches are distributed among these distances:
28 3 0.07
29 11 0.25
30 10 0.23
31 10 0.23
32 6 0.14
33 1 0.02
34 3 0.07
ACGTcount: A:0.04, C:0.02, G:0.11, T:0.83
Consensus pattern (30 bp):
TTTTTTTTTGTTTTTTTTTCATGTTTTATG
Found at i:59858 original size:30 final size:30
Alignment explanation
Indices: 59822--59901 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 30
59812 GCCTTTGCAC
*
59822 TTTTTTTTTGTTTTTTTGTTATGTTTT-TGT
1 TTTTTTTTTGTTTTTTT-TCATGTTTTATGT
*
59852 TTTTTTTTT-TTGCTTTTTTCATTTTTTATGT
1 TTTTTTTTTGTT--TTTTTTCATGTTTTATGT
*
59883 TTTTTTTGGTGTTTTTTTT
1 TTTTTTT-TTGTTTTTTTT
59902 TTGTGCTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
29 2 0.05
30 16 0.38
31 21 0.50
32 1 0.02
33 2 0.05
ACGTcount: A:0.04, C:0.03, G:0.11, T:0.82
Consensus pattern (30 bp):
TTTTTTTTTGTTTTTTTTCATGTTTTATGT
Found at i:59926 original size:49 final size:50
Alignment explanation
Indices: 59808--59927 Score: 127
Period size: 49 Copynumber: 2.4 Consensus size: 50
59798 TCCCTTTTAA
* * * **
59808 TTTTGCCTTTGCACTTTTTTTTTGTTTTTTTGTTATGTTTTTGTTTTTTTT
1 TTTTGCTTTTG-ACTTTTTTTATGTTTTTTTGTGATGTTTTTGTTTTTTGC
** * *
59859 TTTTGCTTTTTTCATTTTTTATGTTTTTTT-TGGTGTTTTT-TTTTTGTGC
1 TTTTGCTTTTGACTTTTTTTATGTTTTTTTGTGATGTTTTTGTTTTT-TGC
59908 TTTTGCTTTTGACTTTTTTT
1 TTTTGCTTTTGACTTTTTTT
59928 TTATGTCATT
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
48 5 0.09
49 26 0.46
50 16 0.29
51 9 0.16
ACGTcount: A:0.04, C:0.07, G:0.12, T:0.76
Consensus pattern (50 bp):
TTTTGCTTTTGACTTTTTTTATGTTTTTTTGTGATGTTTTTGTTTTTTGC
Found at i:63455 original size:37 final size:37
Alignment explanation
Indices: 63406--63476 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
63396 CTCCGAATCC
*
63406 TTTGTTTTTACGATATAGTAAATTAAATAATTTACCT
1 TTTGTTTCTACGATATAGTAAATTAAATAATTTACCT
*
63443 TTTGTTTCTACGATATAGTAAATTGAATAATTTA
1 TTTGTTTCTACGATATAGTAAATTAAATAATTTA
63477 TCACTTTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.48
Consensus pattern (37 bp):
TTTGTTTCTACGATATAGTAAATTAAATAATTTACCT
Found at i:69722 original size:147 final size:147
Alignment explanation
Indices: 69471--69744 Score: 521
Period size: 147 Copynumber: 1.9 Consensus size: 147
69461 GTGTGGGGAG
*
69471 TGTCATGCTTTGATTTCATCATGAACGGATCCAGAATAGATGGATGCCTATACTAGGGTGATTTT
1 TGTCATGCTTTGATTTCATCACGAACGGATCCAGAATAGATGGATGCCTATACTAGGGTGATTTT
69536 GGATATGGCATGAATCATACGAAGGTAGATGAGTAATTTAAAGAGAATTCACCACTCCAAATTCA
66 GGATATGGCATGAATCATACGAAGGTAGATGAGTAATTTAAAGAGAATTCACCACTCCAAATTCA
69601 TCATGCATTGGTTAACT
131 TCATGCATTGGTTAACT
69618 TGTCATGCTTTGATTTCATCACGAACGGATCCAGAATAGATGGATGCCTATACTAGGGTGATTTT
1 TGTCATGCTTTGATTTCATCACGAACGGATCCAGAATAGATGGATGCCTATACTAGGGTGATTTT
* *
69683 GGATATGGCATGAATCATACGAAGGTGGATGAGTGATTTAAAGAGAATTCACCACTCCAAAT
66 GGATATGGCATGAATCATACGAAGGTAGATGAGTAATTTAAAGAGAATTCACCACTCCAAAT
69745 GACATCAAAG
Statistics
Matches: 124, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
147 124 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (147 bp):
TGTCATGCTTTGATTTCATCACGAACGGATCCAGAATAGATGGATGCCTATACTAGGGTGATTTT
GGATATGGCATGAATCATACGAAGGTAGATGAGTAATTTAAAGAGAATTCACCACTCCAAATTCA
TCATGCATTGGTTAACT
Done.