Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold67
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: 428520
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 4
Found at i:2817 original size:21 final size:22
Alignment explanation
Indices: 2769--2821 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 22
2759 AATTTTTACA
*
2769 TAAGGGGGAGAAGATAACTGTT
1 TAAGAGGGAGAAGATAACTGTT
2791 T-A-AGGG-GAAGATAA-TCGTT
1 TAAGAGGGAGAAGATAACT-GTT
2810 TAAGAGGGAGAA
1 TAAGAGGGAGAA
2822 TTTTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
18 1 0.04
19 12 0.46
20 4 0.15
21 5 0.19
22 4 0.15
ACGTcount: A:0.40, C:0.04, G:0.36, T:0.21
Consensus pattern (22 bp):
TAAGAGGGAGAAGATAACTGTT
Found at i:3411 original size:19 final size:19
Alignment explanation
Indices: 3386--3443 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
3376 TTGTATTGAT
*
3386 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
3405 TCATTGTAACGATACATGG
1 ACATTGTATCGATACATGG
3424 ACAAATTGTATCGATACATG
1 AC--ATTGTATCGATACATG
3444 AAACTAGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 17 0.53
21 15 0.47
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:4494 original size:50 final size:51
Alignment explanation
Indices: 4429--4626 Score: 170
Period size: 50 Copynumber: 3.9 Consensus size: 51
4419 CTTAATCTTC
* * *
4429 CTATCAGGTGCTAGCTAATATGGACTTTGACTTTATAGGGCTTAACCTCCT
1 CTATAAGGTGTTAGCTAATATGGACTTTGACTCTATAGGGCTTAACCTCCT
* * * * *
4480 -TATAAGGTGTTAGCTAATGTGGACGTTGACTCTATAAGACTTAACCT-TT
1 CTATAAGGTGTTAGCTAATATGGACTTTGACTCTATAGGGCTTAACCTCCT
* * * *
4529 CTATTATGTGTTAGCTAGTATAGG-CTTTGACTCTATAGGGCTTCACCTCC-
1 CTATAAGGTGTTAGCTAATAT-GGACTTTGACTCTATAGGGCTTAACCTCCT
* * ** ** * * *
4579 CTATCATGTGCAAAATAGTATGGACTTTGACTCTATAAGACTTAACCT
1 CTATAAGGTGTTAGCTAATATGGACTTTGACTCTATAGGGCTTAACCT
4627 TCCTACTAAG
Statistics
Matches: 118, Mismatches: 25, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
49 3 0.03
50 113 0.96
51 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (51 bp):
CTATAAGGTGTTAGCTAATATGGACTTTGACTCTATAGGGCTTAACCTCCT
Found at i:4760 original size:53 final size:53
Alignment explanation
Indices: 4702--4824 Score: 138
Period size: 53 Copynumber: 2.3 Consensus size: 53
4692 GGCTTGTGCT
* * * *
4702 AATTAGCCAAAATTAACATACCAGCATCATTGGGCTTACTCTTGGTATATGCC
1 AATTAGCCAAAACTAACATACCAACATCATTAGGCTTACTCTTGGTACATGCC
* * * * * *
4755 AATTAGCTAAAACTAGCTTACCAATATCATTAGGCTTATTCTTGGTACATGGC
1 AATTAGCCAAAACTAACATACCAACATCATTAGGCTTACTCTTGGTACATGCC
* *
4808 AATTAGCCCATACTAAC
1 AATTAGCCAAAACTAAC
4825 CTATCGACAT
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (53 bp):
AATTAGCCAAAACTAACATACCAACATCATTAGGCTTACTCTTGGTACATGCC
Found at i:5899 original size:13 final size:13
Alignment explanation
Indices: 5880--5917 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
5870 AACTCACTCA
5880 GTATCGATACAGTT
1 GTATCGATACA-TT
*
5894 -TATCGATATATT
1 GTATCGATACATT
5906 GTATCGATACAT
1 GTATCGATACAT
5918 GGTGAAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 2 0.10
13 19 0.90
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:7534 original size:12 final size:12
Alignment explanation
Indices: 7519--7543 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7509 TCAATCATCA
7519 ATGATGATGAAG
1 ATGATGATGAAG
7531 ATGATGATGAAG
1 ATGATGATGAAG
7543 A
1 A
7544 AGTTGACTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (12 bp):
ATGATGATGAAG
Found at i:13728 original size:19 final size:18
Alignment explanation
Indices: 13698--13743 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
13688 CTTGTTCATG
*
13698 AATTTCTTTGATAAATGA
1 AATTTGTTTGATAAATGA
*
13716 AATTATGTTTGATGAATGA
1 AATT-TGTTTGATAAATGA
13735 AATTTGTTT
1 AATTTGTTT
13744 ATCATGCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (18 bp):
AATTTGTTTGATAAATGA
Found at i:13949 original size:20 final size:20
Alignment explanation
Indices: 13917--13976 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
13907 AGGGATAACA
*
13917 AAAAGGG-GGAGTAGTTA-TT
1 AAAAGGGAGAAGTA-TTAGTT
*
13936 AAAATGGAGAAGTATTAGTTT
1 AAAAGGGAGAAGTATTAG-TT
*
13957 AAAAGGGAGAAGTATGAGTT
1 AAAAGGGAGAAGTATTAGTT
13977 TTTTTTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
19 9 0.26
20 7 0.21
21 18 0.53
ACGTcount: A:0.42, C:0.00, G:0.32, T:0.27
Consensus pattern (20 bp):
AAAAGGGAGAAGTATTAGTT
Found at i:13959 original size:21 final size:21
Alignment explanation
Indices: 13934--13977 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
13924 GGAGTAGTTA
* *
13934 TTAAAATGGAGAAGTATTAGT
1 TTAAAAGGGAGAAGTATGAGT
13955 TTAAAAGGGAGAAGTATGAGT
1 TTAAAAGGGAGAAGTATGAGT
13976 TT
1 TT
13978 TTTTTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (21 bp):
TTAAAAGGGAGAAGTATGAGT
Found at i:15065 original size:10 final size:10
Alignment explanation
Indices: 15037--15079 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
15027 ATGAGTTTCC
*
15037 AACAACTAAAA
1 AACAAC-AAGA
15048 AACAACAAGA
1 AACAACAAGA
*
15058 ACCAACAAGA
1 AACAACAAGA
*
15068 AACATCAAGA
1 AACAACAAGA
15078 AA
1 AA
15080 TCCAAGCATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 22 0.79
11 6 0.21
ACGTcount: A:0.67, C:0.21, G:0.07, T:0.05
Consensus pattern (10 bp):
AACAACAAGA
Found at i:19112 original size:13 final size:13
Alignment explanation
Indices: 19094--19121 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19084 ATACAAAGAT
19094 CAATGTATCGATA
1 CAATGTATCGATA
19107 CAATGTATCGATA
1 CAATGTATCGATA
19120 CA
1 CA
19122 TTGAATAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:19118 original size:33 final size:33
Alignment explanation
Indices: 19076--19141 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
19066 AAATTCCCAG
19076 ATGTATCGATACAAAG-ATCAATGTATCGATACA
1 ATGTATCGATACAAAGAAT-AATGTATCGATACA
**
19109 ATGTATCGATACATTGAATAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
19142 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATACA
Found at i:19197 original size:19 final size:19
Alignment explanation
Indices: 19173--19222 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
19163 AGTGATACAT
19173 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
19192 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
19211 TGTATCGATACA
1 TGTATCGATACA
19223 GTTACTGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:22529 original size:154 final size:153
Alignment explanation
Indices: 22146--22630 Score: 553
Period size: 154 Copynumber: 3.1 Consensus size: 153
22136 ATTTCTTATT
* * * *
22146 ATTTTAGAGTCCTTTAAGATTACCATGATACTTTTATGTCAAAGGTATACCTCAAAGGCATTTTG
1 ATTTTCGAGTCCTTTAAGGTTACCAAGATACTTTTATGTCGAAGGTATACCTCAAAGGCATTTTG
* ** * *
22211 GTAATTTTTTTATAATCGAGTCCAATATAGTCA-TCAGGATGATTTTATGCCAAAGGTGTGCTTT
66 GTAATTTTTTTAGAATCGAGTCTGATATAGTCACT-AGGATGCTTTTATGCCAAAGGTGTGCATT
* *
22275 TAAGATAGGTTTACCTTTTAATGATC
130 TAGGATA-GTTCACCTTTT-ATGATC
* * * * * *
22301 ATTTTCGAGTCTTTTAGGGTTACCAAGATATTTTTACGTCGAAGGTTTACCCCAAAGGCATTTTG
1 ATTTTCGAGTCCTTTAAGGTTACCAAGATACTTTTATGTCGAAGGTATACCTCAAAGGCATTTTG
* * * * * *
22366 GT-AGTTTTTTAGAACCAAGTTTGATATAGTCACTGGGATTCTTTTATGCCAAAGGTGTGCATTT
66 GTAATTTTTTTAGAATCGAGTCTGATATAGTCACTAGGATGCTTTTATGCCAAAGGTGTGCATTT
22430 AGGATACGTTCA-CTCTTTATGATC
131 AGGATA-GTTCACCT-TTTATGATC
** * * * * * *
22454 ATTTTCGAGTCCTTTAAGGTTACCGGGATACTTTTATGTTGAAGGTATACCTTAAGGGAATCTTA
1 ATTTTCGAGTCCTTTAAGGTTACCAAGATACTTTTATGTCGAAGGTATACCTCAAAGGCATTTTG
** *
22519 GTAATTTTTTTAGAATCGAGTCTGATATAGTCACTAGGATGCTTTTATGCCAAAAATGTGCGTTT
66 GTAATTTTTTTAGAATCGAGTCTGATATAGTCACTAGGATGCTTTTATGCCAAAGGTGTGCATTT
22584 AGGATAGCTTCACCCTTTTATGATC
131 AGGATAG-TTCA-CCTTTTATGATC
* * *
22609 ATTTTCAAATCCTTTAGGGTTA
1 ATTTTCGAGTCCTTTAAGGTTA
22631 TCTGGATAGT
Statistics
Matches: 274, Mismatches: 50, Indels: 12
0.82 0.15 0.04
Matches are distributed among these distances:
153 62 0.23
154 124 0.45
155 86 0.31
156 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.40
Consensus pattern (153 bp):
ATTTTCGAGTCCTTTAAGGTTACCAAGATACTTTTATGTCGAAGGTATACCTCAAAGGCATTTTG
GTAATTTTTTTAGAATCGAGTCTGATATAGTCACTAGGATGCTTTTATGCCAAAGGTGTGCATTT
AGGATAGTTCACCTTTTATGATC
Found at i:25626 original size:13 final size:13
Alignment explanation
Indices: 25608--25632 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25598 ATTTTGCTTA
25608 GTATCGATACATT
1 GTATCGATACATT
25621 GTATCGATACAT
1 GTATCGATACAT
25633 AAAACTGGCA
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):
GTATCGATACATT
Found at i:26165 original size:36 final size:32
Alignment explanation
Indices: 26116--26208 Score: 102
Period size: 36 Copynumber: 2.8 Consensus size: 32
26106 CCAAGTGATT
26116 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATA
1 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATA
*
26148 GGGAGTGAGGTTCTATCTTAG-CTCGTG-AAAAGATA
1 --GA--GAGGTTCTATCTTAGCCT-TTGAAAAAGATA
26183 GAGAGGTTTCTATCTTAGCC-TTGAAA
1 GAGAGG-TTCTATCTTAGCCTTTGAAA
26209 GATGGTGTTG
Statistics
Matches: 51, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
31 6 0.12
32 13 0.25
33 3 0.06
34 2 0.04
35 10 0.20
36 17 0.33
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (32 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAAGATA
Found at i:27348 original size:21 final size:21
Alignment explanation
Indices: 27322--27377 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
27312 TCAAGATGAT
27322 GATGATGAAGATGATCAAGAG
1 GATGATGAAGATGATCAAGAG
27343 GATGATGAAGATGATCAAGAG
1 GATGATGAAGATGATCAAGAG
* *
27364 GTTGATGAAAATGA
1 GATGATGAAGATGA
27378 AGAAATGGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.43, C:0.04, G:0.32, T:0.21
Consensus pattern (21 bp):
GATGATGAAGATGATCAAGAG
Found at i:27825 original size:21 final size:21
Alignment explanation
Indices: 27801--27858 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
27791 GAACTAGAGG
*
27801 AGAAAATGAATGAGTTGGAA-A
1 AGAAAAT-AATGAGTTGCAAGA
27822 AGAAAATTAATGAGTTGCAAGA
1 AGAAAA-TAATGAGTTGCAAGA
*
27844 TGAAAATAATGAGTT
1 AGAAAATAATGAGTT
27859 AACTAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 26 0.79
22 7 0.21
ACGTcount: A:0.50, C:0.02, G:0.24, T:0.24
Consensus pattern (21 bp):
AGAAAATAATGAGTTGCAAGA
Found at i:29340 original size:18 final size:20
Alignment explanation
Indices: 29317--29358 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
29307 AATCTTTCAA
*
29317 CAATTGGTATC-ATTTG-AT
1 CAATTGGTAACAATTTGTAT
29335 CAATTGGTAACAATTTGTAT
1 CAATTGGTAACAATTTGTAT
29355 CAAT
1 CAAT
29359 CACCTTTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 5 0.24
20 6 0.29
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (20 bp):
CAATTGGTAACAATTTGTAT
Found at i:31532 original size:32 final size:29
Alignment explanation
Indices: 31487--31546 Score: 84
Period size: 32 Copynumber: 2.0 Consensus size: 29
31477 GATAGGGAGA
31487 GAGGTTCTATCTTAGCTCATGAAAAGATAGG
1 GAGGTTCTATCTTAGC-CATG-AAAGATAGG
*
31518 GAGGTTTCTATCTTAGCCTTGAAAGATAG
1 GAGG-TTCTATCTTAGCCATGAAAGATAG
31547 TGTTGTAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 8 0.30
31 7 0.26
32 12 0.44
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (29 bp):
GAGGTTCTATCTTAGCCATGAAAGATAGG
Found at i:33899 original size:8 final size:8
Alignment explanation
Indices: 33876--33927 Score: 63
Period size: 8 Copynumber: 6.8 Consensus size: 8
33866 AAAGTAGTGT
33876 AAAAAA-A
1 AAAAAACA
*
33883 ACAAAACA
1 AAAAAACA
*
33891 AAAATACA
1 AAAAAACA
*
33899 AAAAAATA
1 AAAAAACA
33907 AAAAAAC-
1 AAAAAACA
33914 AAAAAACA
1 AAAAAACA
33922 AAAAAA
1 AAAAAA
33928 TCGAATGATA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
7 12 0.32
8 25 0.68
ACGTcount: A:0.87, C:0.10, G:0.00, T:0.04
Consensus pattern (8 bp):
AAAAAACA
Found at i:33909 original size:7 final size:7
Alignment explanation
Indices: 33876--33926 Score: 50
Period size: 7 Copynumber: 6.9 Consensus size: 7
33866 AAAGTAGTGT
33876 AAAAAA-
1 AAAAAAC
33882 AACAAAAC
1 AA-AAAAC
33890 AAAAATAC
1 AAAAA-AC
*
33898 AAAAAAATA
1 -AAAAAA-C
33907 AAAAAAC
1 AAAAAAC
33914 AAAAAAC
1 AAAAAAC
33921 AAAAAA
1 AAAAAA
33927 ATCGAATGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
6 2 0.05
7 20 0.53
8 11 0.29
9 5 0.13
ACGTcount: A:0.86, C:0.10, G:0.00, T:0.04
Consensus pattern (7 bp):
AAAAAAC
Found at i:33909 original size:16 final size:16
Alignment explanation
Indices: 33876--33927 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 16
33866 AAAGTAGTGT
*
33876 AAAAAA-AACAAAACA
1 AAAAAACAAAAAAACA
* *
33891 AAAATACAAAAAAATA
1 AAAAAACAAAAAAACA
33907 AAAAAAC-AAAAAACA
1 AAAAAACAAAAAAACA
33922 AAAAAA
1 AAAAAA
33928 TCGAATGATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
15 18 0.58
16 13 0.42
ACGTcount: A:0.87, C:0.10, G:0.00, T:0.04
Consensus pattern (16 bp):
AAAAAACAAAAAAACA
Found at i:33911 original size:23 final size:23
Alignment explanation
Indices: 33876--33928 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
33866 AAAGTAGTGT
*
33876 AAAAAA-AACAAAACAAAAATACA
1 AAAAAATAAAAAAACAAAAA-ACA
33899 AAAAAATAAAAAAACAAAAAACA
1 AAAAAATAAAAAAACAAAAAACA
33922 AAAAAAT
1 AAAAAAT
33929 CGAATGATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 16 0.57
24 12 0.43
ACGTcount: A:0.85, C:0.09, G:0.00, T:0.06
Consensus pattern (23 bp):
AAAAAATAAAAAAACAAAAAACA
Found at i:35967 original size:19 final size:19
Alignment explanation
Indices: 35922--35983 Score: 90
Period size: 19 Copynumber: 3.2 Consensus size: 19
35912 ACTGCCAGTT
35922 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAA-TGA
35941 TGCATGTATCGATACAATGA
1 T-CATGTATCGATACAATGA
35961 TCATGTATCGATACAATGTA
1 TCATGTATCGATACAATG-A
35981 TCA
1 TCA
35984 ATACAAAGCA
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
19 20 0.50
20 20 0.50
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:36005 original size:33 final size:32
Alignment explanation
Indices: 35944--36008 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
35934 ACAATTGTGC
* * *
35944 ATGTATCGATACAATGATCATGTATCGATACA
1 ATGTATCAATACAAAGATAATGTATCGATACA
35976 ATGTATCAATACAAAGCATAATGTATCGATACA
1 ATGTATCAATACAAAG-ATAATGTATCGATACA
36009 TCTGGATGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (32 bp):
ATGTATCAATACAAAGATAATGTATCGATACA
Found at i:36512 original size:65 final size:65
Alignment explanation
Indices: 36425--36573 Score: 160
Period size: 65 Copynumber: 2.3 Consensus size: 65
36415 TTTTCATAAG
* * * ** *
36425 CCTTTATCAACTTAGTTTTCATCCTAATCAGCAT-TAGTAGACTATTCTAGTTTTGCCCT-GATT
1 CCTTTTTCGACTTAGGTTTCATCCTAATCA-CATATAGTAGACTATTCTAGTTTCACCCTAG-TC
36488 AA
64 AA
* * * *
36490 CCCTTTTT-GACTTAGGTTTCATCCTAGTCACTTATAGTTGACTATTCTGGTTTCACCCTAGTCA
1 -CCTTTTTCGACTTAGGTTTCATCCTAATCACATATAGTAGACTATTCTAGTTTCACCCTAGTCA
36554 A
65 A
36555 CCTTTTTCGACTTAGGTTT
1 CCTTTTTCGACTTAGGTTT
36574 TGTCTAAGTC
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
64 9 0.13
65 54 0.77
66 7 0.10
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.43
Consensus pattern (65 bp):
CCTTTTTCGACTTAGGTTTCATCCTAATCACATATAGTAGACTATTCTAGTTTCACCCTAGTCAA
Found at i:36864 original size:66 final size:65
Alignment explanation
Indices: 36732--37278 Score: 351
Period size: 66 Copynumber: 8.3 Consensus size: 65
36722 CCAATTCCTT
* * * * * *
36732 TTAGGTTCTACCTTGGTCACTCTTTATTAGTTC-TATGGTTTCATCTTGGCCAACGTT-TTTTTG
1 TTAGGTTTTGCCTTAGTCAC-CTTTATTGGTTCGTATGGTTTCATCCTAGCCAAC-TTCTTTTTG
36795 AC
64 AC
* * * ** *
36797 TTAGGTTTTGCCTTGGTCACCCTTTTTTGGTTCATATGGTTTTGTCCTAGCCAACTTCTTTTAGA
1 TTAGGTTTTGCCTTAGTCA-CCTTTATTGGTTCGTATGGTTTCATCCTAGCCAACTTCTTTTTGA
36862 C
65 C
**** * * * * * *
36863 TTAGGTTTCAATTTAGTCACCCTTTGTTGGTTCATATGGTTTTATTCTGGCCAA-GTCTTTTTCG
1 TTAGGTTTTGCCTTAGTCA-CCTTTATTGGTTCGTATGGTTTCATCCTAGCCAACTTCTTTTT-G
36927 AC
64 AC
* * * * *
36929 ATAGG--TT-CCACTAGATTACCTTTTGTTGGTTCGTATGGTTTTAT-CTCAGCCAACTT-TTTT
1 TTAGGTTTTGCC-TTAG-TCACC-TTTATTGGTTCGTATGGTTTCATCCT-AGCCAACTTCTTTT
*
36989 CGAC
62 TGAC
* * * * * * * *
36993 TTAGGTTTTGCCCTAGTCACCTTTTGTTGATTCGTATGATTTCATCCTTGCAAACTCCTTTTTGT
1 TTAGGTTTTGCCTTAGTCACC-TTTATTGGTTCGTATGGTTTCATCCTAGCCAACTTCTTTTTGA
37058 C
65 C
* * * * * ** * *
37059 TTAAGTTTTACCCTAGTCACCCTTTATTGGTTTGTATGATTTTGTCTTAGTCAACTTCTTTTT-A
1 TTAGGTTTTGCCTTAGTCA-CCTTTATTGGTTCGTATGGTTTCATCCTAGCCAACTTCTTTTTGA
*
37123 A
65 C
* ** * * *
37124 TTAGGTTTCGCCTTAGTCAAGTTTAATTGGTTCATATGGTTTCATCCTGGCCAACTCCTTTTTTG
1 TTAGGTTTTGCCTTAGTCACCTTT-ATTGGTTCGTATGGTTTCATCCTAGCCAACTTC-TTTTTG
37189 AC
64 AC
** * * *
37191 TTAGGTTCAGACC-TGGTCACCTTTAGATGGTTTGTATGGTTTCATCCTAGCCAACTTCTTTTTG
1 TTAGGTTTTG-CCTTAGTCACCTTTA-TTGGTTCGTATGGTTTCATCCTAGCCAACTTCTTTTTG
37255 AC
64 AC
*
37257 TTAGGTTCCT-CCTTAGTCACCT
1 TTAGGTT-TTGCCTTAGTCACCT
37279 CAACTTAGGT
Statistics
Matches: 378, Mismatches: 82, Indels: 43
0.75 0.16 0.09
Matches are distributed among these distances:
64 18 0.05
65 140 0.37
66 169 0.45
67 49 0.13
68 2 0.01
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.46
Consensus pattern (65 bp):
TTAGGTTTTGCCTTAGTCACCTTTATTGGTTCGTATGGTTTCATCCTAGCCAACTTCTTTTTGAC
Found at i:36924 original size:131 final size:131
Alignment explanation
Indices: 36742--37277 Score: 428
Period size: 131 Copynumber: 4.1 Consensus size: 131
36732 TTAGGTTCTA
* * * * *
36742 CCTTGGTCACTCTTTATTAGTTC-TATGGTTTCATCTTGGCCAACGT-TTTTTTGACTTAGGTTT
1 CCTTAGTCACCCTTTATTGGTTCATATGGTTTCATCCTGGCCAAC-TCCTTTTTGACTTAGGTTT
* *
36805 TGCCTTGGTCACCCTTTTTTGGTTCATATGGTTTTGTCCTAGCCAACTTCTTTTAGACTTAGGTT
65 TGCCTTGGTCA-CCTTTTTTGGTTCGTATGGTTTTATCCTAGCCAACTTCTTTTAGACTTAGGTT
*
36870 TCA
129 TCG
** * * * * *
36873 ATTTAGTCACCCTTTGTTGGTTCATATGGTTTTATTCTGGCCAAGT-CTTTTTCGACATAGG--T
1 CCTTAGTCACCCTTTATTGGTTCATATGGTTTCATCCTGGCCAACTCCTTTTT-GACTTAGGTTT
* * * * *
36935 TCCACTAGATTACCTTTTGTTGGTTCGTATGGTTTTAT-CTCAGCCAACTT-TTTTCGACTTAGG
65 TGC-CTTGGTCACCTTTT-TTGGTTCGTATGGTTTTATCCT-AGCCAACTTCTTTTAGACTTAGG
*
36998 TTTTG
127 TTTCG
* * * * * * * * * *
37003 CCCTAGTCACCTTTTGTTGATTCGTATGATTTCATCCTTGCAAACTCCTTTTTGTCTTAAGTTTT
1 CCTTAGTCACCCTTTATTGGTTCATATGGTTTCATCCTGGCCAACTCCTTTTTGACTTAGGTTTT
* * * * * * * * *
37068 ACCCTAGTCACCCTTTATTGGTTTGTATGATTTTGTCTTAGTCAACTTCTTTTTA-A-TTAGGTT
66 GCCTTGGTCA-CCTTTTTTGGTTCGTATGGTTTTATCCTAGCCAACTTC-TTTTAGACTTAGGTT
37131 TCG
129 TCG
**
37134 CCTTAGTCA-AGTTTAATTGGTTCATATGGTTTCATCCTGGCCAACTCCTTTTTTGACTTAGGTT
1 CCTTAGTCACCCTTT-ATTGGTTCATATGGTTTCATCCTGGCCAACTCC-TTTTTGACTTAGGTT
** ** * * *
37198 CAGACC-TGGTCACCTTTAGATGGTTTGTATGGTTTCATCCTAGCCAACTTCTTTTTGACTTAGG
64 TTG-CCTTGGTCACCTTT-TTTGGTTCGTATGGTTTTATCCTAGCCAACTTCTTTTAGACTTAGG
* *
37262 TTCCT
127 TTTCG
37267 CCTTAGTCACC
1 CCTTAGTCACC
37278 TCAACTTAGG
Statistics
Matches: 310, Mismatches: 76, Indels: 35
0.74 0.18 0.08
Matches are distributed among these distances:
130 68 0.22
131 140 0.45
132 79 0.25
133 23 0.07
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.46
Consensus pattern (131 bp):
CCTTAGTCACCCTTTATTGGTTCATATGGTTTCATCCTGGCCAACTCCTTTTTGACTTAGGTTTT
GCCTTGGTCACCTTTTTTGGTTCGTATGGTTTTATCCTAGCCAACTTCTTTTAGACTTAGGTTTC
G
Found at i:37897 original size:66 final size:66
Alignment explanation
Indices: 37281--38145 Score: 382
Period size: 66 Copynumber: 13.1 Consensus size: 66
37271 AGTCACCTCA
* ** * * * * *
37281 ACTTAGGTTCTGCCCTAATCACCCCTTGTTAGTTCGTATGGTTTCATTCTAGCCAACTCCTTTTC
1 ACTTAGGTTCTGCCTTGGTCACCCTTTGTTGGTTCGTATGGTTTTATCCTGGCCAACTCCTTTTC
*
37346 A
66 G
* * * * * * * * * * *
37347 ACTCAAGTTTTTCCTTAGTCACCCTTTGTTGGTTCATATAGTTTCATCTTGGCTAACTCCTTTTT
1 ACTTAGGTTCTGCCTTGGTCACCCTTTGTTGGTTCGTATGGTTTTATCCTGGCCAACTCCTTTTC
37412 G
66 G
* * * * * *
37413 AGTTAGGTTTTG-CTCTGATCAACCTTTGTTGGTTTGTAT-GTTTTCATTCCT-ACCAACTCCTT
1 ACTTAGGTTCTGCCT-TGGTCACCCTTTGTTGGTTCGTATGGTTTT-A-TCCTGGCCAACTCCTT
**
37475 TTTA
63 TTCG
* * * * * * * * * ** *
37479 ATTTAAGTTCTGCCTTGATTATCTTTTGTTGGTTTGTATAGTGTTATTCC-AACCAACTCTTTTT
1 ACTTAGGTTCTGCCTTGGTCACCCTTTGTTGGTTCGTATGGTTTTA-TCCTGGCCAACTCCTTTT
37543 CG
65 CG
* * * * * * * * *
37545 ACTTAGGTT-TCACCTTGGTCACACTTTGTTGGTTTGTATGGCTTTGTCTTAGCTAA-TTCTATT
1 ACTTAGGTTCT-GCCTTGGTCACCCTTTGTTGGTTCGTATGGTTTTATCCTGGCCAACTCCT-TT
37608 TCG
64 TCG
* * * * ** * * *
37611 ATTTAGATTTTTCCTTGGTCACTTTTTTGTTGGCTCGTATGGTTTCATCCTAGCCAACTCCTTTT
1 ACTTAGGTTCTGCCTTGGTCAC-CCTTTGTTGGTTCGTATGGTTTTATCCTGGCCAACTCCTTTT
37676 CG
65 CG
* * * * * * * * * * * *
37678 ACTTAAGTTTTGCCTTGATCATCTTTTATTAGATCGTATAGTTTCT-TTCTGGCCAATTTCTTTT
1 ACTTAGGTTCTGCCTTGGTCACCCTTTGTTGGTTCGTATGGTTT-TATCCTGGCCAACTCCTTTT
*
37742 TG
65 CG
* * ** * ** * * * * ** * * *
37744 ACATATGTTCTGTGTTGATCACTTTTTTTTGTTTTGTATGGTTTTGTCCTATCAAACTCTTTTTT
1 ACTTAGGTTCTGCCTTGGTCACCCTTTGTTGGTTCGTATGGTTTTATCCTGGCCAACTCCTTTTC
37809 G
66 G
* * * * * * *
37810 ACTTAAGTTTTGTCATAGTCACCCTTAGTTGGTTTGTATGGTTTTATCCTGGCCAACTCCTTTTC
1 ACTTAGGTTCTGCCTTGGTCACCCTTTGTTGGTTCGTATGGTTTTATCCTGGCCAACTCCTTTTC
37875 G
66 G
* * * * * * * * * *
37876 ACCTAGGTTCTGCCTTGGTCACCTTTTGTTGGCTCATATGATTTCATCCCGACCAACT-TTTTTT
1 ACTTAGGTTCTGCCTTGGTCACCCTTTGTTGGTTCGTATGGTTTTATCCTGGCCAACTCCTTTTC
37940 G
66 G
* * * * * * * * * * * *
37941 GCCTAGGTTTTACCCTAGTCATCCTTTGTTGGTTCGTATGGTTTTGTCCCGACTAACTCCATTTC
1 ACTTAGGTTCTGCCTTGGTCACCCTTTGTTGGTTCGTATGGTTTTATCCTGGCCAACTCCTTTTC
38006 G
66 G
* * * * * * * * * *
38007 ACTTAGGTTCCGCTTTAGTCACTCATTGTTGATTCGTATGGTTTCATCTTGGCTAACTCCTTTTT
1 ACTTAGGTTCTGCCTTGGTCACCCTTTGTTGGTTCGTATGGTTTTATCCTGGCCAACTCCTTTTC
38072 G
66 G
* * * * * * * *
38073 ACTTAGGTTCTGCCTTGCTTACCTTTTGTTGGTTCGTATAGTTTTGT-C-GGCTAACTCTTTTTT
1 ACTTAGGTTCTGCCTTGGTCACCCTTTGTTGGTTCGTATGGTTTTATCCTGGCCAACTCCTTTTC
38136 G
66 G
38137 ACTTAGGTT
1 ACTTAGGTT
38146 TTCCTGAGTT
Statistics
Matches: 594, Mismatches: 190, Indels: 32
0.73 0.23 0.04
Matches are distributed among these distances:
64 24 0.04
65 62 0.10
66 449 0.76
67 56 0.09
68 3 0.01
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.47
Consensus pattern (66 bp):
ACTTAGGTTCTGCCTTGGTCACCCTTTGTTGGTTCGTATGGTTTTATCCTGGCCAACTCCTTTTC
G
Found at i:38997 original size:66 final size:66
Alignment explanation
Indices: 38873--39327 Score: 277
Period size: 66 Copynumber: 7.0 Consensus size: 66
38863 TTAGTCATCT
* * * ** *
38873 TTTG-TTGTTTCATATAGTTTCGTCCTA-CTAACTCCTTTTTGACTCAAATTCTGTCTTGGTCAC
1 TTTGTTTG-TTCATATAGTTTCATCCTAGCTAACTTCTTTTTGACTTAGGTTCTGCCTTGGTCAC
38936 CC
65 CC
* * *
38938 TTTGTTTGTTCATATAGTTTCACCCCAGCTAGCTTCTTTTTGACTTAGGTTCTGCCTTGGTCA--
1 TTTGTTTGTTCATATAGTTTCATCCTAGCTAACTTCTTTTTGACTTAGGTTCTGCCTTGGTCACC
39001 C
66 C
* * ** * * ** * * * * *
39002 ATTGTTGGTTTGTATAGTTTTACCCCGGCAAAC-TCTTTATAGACTTAGGTTTTGTGC-TAGTCA
1 TTTGTTTGTTCATATAGTTTCATCCTAGCTAACTTCTTT-TTGACTTAGGTTCTG-CCTTGGTCA
39065 CCC
64 CCC
* * * * * * **
39068 TTTGTTTGTT-TTATGGTTTAAT-CTTGACCAA-TTCTTTTTCAACTTAGGTTCCACCTTGGTCA
1 TTTGTTTGTTCATATAGTTTCATCCTAG-CTAACTTCTTTTT-GACTTAGGTTCTGCCTTGGTCA
39130 CCC
64 CCC
* * * * * * *
39133 TTTGTTGGTTCATATAGTTTCATCCTGGCCAACTTTTTTTTGATTTAGGTTCTGCCCTAGTCACC
1 TTTGTTTGTTCATATAGTTTCATCCTAGCTAACTTCTTTTTGACTTAGGTTCTGCCTTGGTCACC
39198 C
66 C
* ** * * * * * * *
39199 TTTATTCCTTCGTATGGTTTCATCCTAGCTAAC-TCCTTTTGGCTTAGGTTTTACCTTAGT-ACC
1 TTTGTTTGTTCATATAGTTTCATCCTAGCTAACTTCTTTTTGACTTAGGTTCTGCCTTGGTCA-C
39262 CC
65 CC
* * * * * * *
39264 TTAGTTAGTTCATATGGTTTCATCCCAACTAACATT-TTTTTGACTTAGGTTCTACCCTGGTCAC
1 TTTGTTTGTTCATATAGTTTCATCCTAGCTAAC-TTCTTTTTGACTTAGGTTCTGCCTTGGTCAC
39328 TTTTTGTAGG
Statistics
Matches: 298, Mismatches: 75, Indels: 33
0.73 0.18 0.08
Matches are distributed among these distances:
63 5 0.02
64 49 0.16
65 112 0.38
66 120 0.40
67 12 0.04
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.45
Consensus pattern (66 bp):
TTTGTTTGTTCATATAGTTTCATCCTAGCTAACTTCTTTTTGACTTAGGTTCTGCCTTGGTCACC
C
Found at i:39700 original size:65 final size:65
Alignment explanation
Indices: 39535--39717 Score: 177
Period size: 65 Copynumber: 2.8 Consensus size: 65
39525 GTTCTGGTAA
** * ** ** *
39535 ACCTTTTATTGGTTCGTACAGTTTTATCCTGGCTAACTTTTTTTTGACTTAGGTTTTACCCTAGT
1 ACCTTTTATTGGTTCGTATGGTTTTATCCTAGCTAAC-TTTTTTCAACTTAACTTTGACCCTAGT
39600 C
65 C
* * *** *
39601 ACCCTTTATTGGTTTGTATGGTTTCGCCCTAGCTAACTTTTTTCAACTTAACTTTGACCCTGGTC
1 ACCTTTTATTGGTTCGTATGGTTTTATCCTAGCTAACTTTTTTCAACTTAACTTTGACCCTAGTC
* * * * *
39666 ACCTTTTGTTGGTTCATATGGTTTTATCCAAGCTATCTCCTTTTCAACTTAA
1 ACCTTTTATTGGTTCGTATGGTTTTATCCTAGCTAACT-TTTTTCAACTTAA
39718 GTTCCGTTTT
Statistics
Matches: 92, Mismatches: 24, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
65 51 0.55
66 41 0.45
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.46
Consensus pattern (65 bp):
ACCTTTTATTGGTTCGTATGGTTTTATCCTAGCTAACTTTTTTCAACTTAACTTTGACCCTAGTC
Found at i:40186 original size:66 final size:65
Alignment explanation
Indices: 40036--40537 Score: 303
Period size: 66 Copynumber: 7.6 Consensus size: 65
40026 AGATAACTAT
* * * * * * **
40036 TTTTTGACTTAGGTTCT-CCTCTACTTACTTTTTGTTTG-TTTGTGTGGTTTTATCCCAGCCAAC
1 TTTTTGACTTAGGTTCTGCC-CTAGTCACCTTTTG-TTGATTCGTATGGTTTCAT-CTTGCCAAC
40099 TCCC
63 T-CC
* * * * *
40103 TTTTTGACTTAAGTTCTGCCCTAGTCACCCTTAGTTGATTTGTATGGTTTCATCTTGGGCAACTC
1 TTTTTGACTTAGGTTCTGCCCTAGTCACCTTTTGTTGATTCGTATGGTTTCATCTT-GCCAACTC
40168 C
65 C
* * * * * ** * * *
40169 TTTTTGACTTAGGTTCTGCCTTGGTTATCTTTTGTTCATTTTTATGGTTTTATCTTAGCTAAGTC
1 TTTTTGACTTAGGTTCTGCCCTAGTCACCTTTTGTTGATTCGTATGGTTTCATCTT-GCCAACTC
40234 C
65 C
* * * * * * *
40235 TTTTTAACATAGGTTCTGCCCTGGTCACCCTTTGTTGGTTCCTATGGTTTCATCTTGACTAACTC
1 TTTTTGACTTAGGTTCTGCCCTAGTCACCTTTTGTTGATTCGTATGGTTTCATCTTG-CCAACTC
40300 C
65 C
**** * * * **
40301 TTCCCAACTTAGGTTCTACCCTAGTCACCATTTTTGTTGGTTCATATGGTTTCATCCCGTCCAAC
1 TTTTTGACTTAGGTTCTGCCCTAGTCACC--TTTTGTTGATTCGTATGGTTTCATCTTG-CCAAC
*
40366 ACC
63 TCC
* * * * * * * * *
40369 TTTTTGACTTAGGTTCTACTCTGGCCACCTTTTATTTATTCGTTTGGTTTCATCCTAGCCAACTT
1 TTTTTGACTTAGGTTCTGCCCTAGTCACCTTTTGTTGATTCGTATGGTTTCAT-CTTGCCAACTC
40434 C
65 C
* * * * * *
40435 TTTTT-AGCTTAGGTTTTGCCCTAGTCACCATTTGTT-AGCTCCTATGGATTT-AACTCGGCCAA
1 TTTTTGA-CTTAGGTTCTGCCCTAGTCACCTTTTGTTGA-TTCGTATGG-TTTCATCT-TGCCAA
40497 CTCC
62 CTCC
* * * *
40501 TTTTTGACTAAGGTTCTACCTTGGTCACCTTTTGTTG
1 TTTTTGACTTAGGTTCTGCCCTAGTCACCTTTTGTTG
40538 GTCATACTGT
Statistics
Matches: 337, Mismatches: 85, Indels: 26
0.75 0.19 0.06
Matches are distributed among these distances:
65 5 0.01
66 228 0.68
67 50 0.15
68 54 0.16
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.45
Consensus pattern (65 bp):
TTTTTGACTTAGGTTCTGCCCTAGTCACCTTTTGTTGATTCGTATGGTTTCATCTTGCCAACTCC
Found at i:41289 original size:65 final size:66
Alignment explanation
Indices: 41217--41365 Score: 178
Period size: 66 Copynumber: 2.3 Consensus size: 66
41207 TACCTCTTCA
* *
41217 ACTTAGGTTTTACCTTGGTTAC-TTATTATTGATTCAT-TGGTTTCATCTTGGCCAACTCCTTTG
1 ACTTAGGTTTTACCTTGGTCACATT-TTATTGATTCATATGGTTTCATCTTAGCCAACTCCTTTG
41280 TG
65 TG
* * * * * *
41282 ACTTAGGTTTCACGC-TGGTCACATTTTGTTTATTTATATGGTTTTATCTTAGCCAACTCCTTTT
1 ACTTAGGTTTTAC-CTTGGTCACATTTTATTGATTCATATGGTTTCATCTTAGCCAACTCCTTTG
41346 TG
65 TG
*
41348 ACTTAGGTTCTACCTTGG
1 ACTTAGGTTTTACCTTGG
41366 CACCTTATGT
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
65 28 0.40
66 42 0.60
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (66 bp):
ACTTAGGTTTTACCTTGGTCACATTTTATTGATTCATATGGTTTCATCTTAGCCAACTCCTTTGT
G
Found at i:41471 original size:66 final size:65
Alignment explanation
Indices: 41254--41477 Score: 211
Period size: 66 Copynumber: 3.4 Consensus size: 65
41244 ATTGATTCAT
* * * * ** *
41254 TGGTTTCATCTTGGCCAACTCCTTTGTGACTTAGGTTTCACGCTGGTCACAT-TTTGTTTATTTA
1 TGGTTTTATCTCGGCCAACTCCTTTTTGACTTAGGTTTTAC-CTGGTCAC-TCTTTGTTGGTTTG
41318 TA
64 TA
** * *
41320 TGGTTTTATCTTAGCCAACTCCTTTTTGACTTAGGTTCTACCTTGG-CAC-CTTATGTTGGTTGG
1 TGGTTTTATCTCGGCCAACTCCTTTTTGACTTAGGTTTTACC-TGGTCACTCTT-TGTTGGTTTG
*
41383 CA
64 TA
* * * * * *
41385 TCGTTTTATTTCGGCTAACTCTTTTTTGACTTAGGTTTTACTCGGGTCTCTCTTTGTTGGTTTGT
1 TGGTTTTATCTCGGCCAACTCCTTTTTGACTTAGGTTTTAC-CTGGTCACTCTTTGTTGGTTTGT
41450 A
65 A
*
41451 TGGTTTTGTCTCGGCCAACTCCTTTTT
1 TGGTTTTATCTCGGCCAACTCCTTTTT
41478 TATTTAGCTT
Statistics
Matches: 126, Mismatches: 26, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
64 2 0.02
65 47 0.37
66 74 0.59
67 3 0.02
ACGTcount: A:0.13, C:0.20, G:0.19, T:0.47
Consensus pattern (65 bp):
TGGTTTTATCTCGGCCAACTCCTTTTTGACTTAGGTTTTACCTGGTCACTCTTTGTTGGTTTGTA
Found at i:41707 original size:66 final size:66
Alignment explanation
Indices: 41634--41779 Score: 170
Period size: 65 Copynumber: 2.2 Consensus size: 66
41624 TTGTTGGTTT
* * * * * *
41634 ATATGGTTTTCTCCTAGC-AATATATTTTTCGATTTAGGTTCTGCCCTGGTCACCCTTAGTTGAT
1 ATATGGTTTTATCCTAGCTAA-ATATTTCTCGACTTAGGCTCTACCCTAGTCACCCTTAGTTGAT
41698 TC
65 TC
* * * *
41700 GTATGGTTTTAT-CTAGCTAACTCTTTCTCGACTTAGGCTCTACCCTAGTCACCCTTAGTTGGTT
1 ATATGGTTTTATCCTAGCTAAATATTTCTCGACTTAGGCTCTACCCTAGTCACCCTTAGTTGATT
41764 C
66 C
*
41765 ATATGGTTTTGTCCT
1 ATATGGTTTTATCCT
41780 CACCAACTTC
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
65 52 0.79
66 14 0.21
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (66 bp):
ATATGGTTTTATCCTAGCTAAATATTTCTCGACTTAGGCTCTACCCTAGTCACCCTTAGTTGATT
C
Found at i:42259 original size:65 final size:65
Alignment explanation
Indices: 42116--42283 Score: 162
Period size: 65 Copynumber: 2.6 Consensus size: 65
42106 AACTAATTCT
* ** *
42116 TTTTTTGACTTAGGTTCTGTCCTAGTCACCCTTAGTTGGTTCGTATGGTTTCATCCCAAAATACG
1 TTTTTCGACTTAGGTTCTCCCCTAGTCACCCTTAGTTGGTTCGTATGGTCTCATCCCAAAATACG
* ** * *
42181 TTTTTCAACTTAGGTTC-CCCCTAGTCACCCTTTA-TTGGTTTTTATGGTCTCGTCTCAAACA-A
1 TTTTTCGACTTAGGTTCTCCCCTAGTCACCC-TTAGTTGGTTCGTATGGTCTCATCCCAAA-ATA
*
42243 CT
64 CG
* * * *
42245 TCTTTTCGACTTAGGTTCTACCTTAGTCACTCTTTGTTG
1 T-TTTTCGACTTAGGTTCTCCCCTAGTCACCCTTAGTTG
42284 CATTGTACAG
Statistics
Matches: 83, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
64 34 0.41
65 36 0.43
66 13 0.16
ACGTcount: A:0.17, C:0.24, G:0.15, T:0.43
Consensus pattern (65 bp):
TTTTTCGACTTAGGTTCTCCCCTAGTCACCCTTAGTTGGTTCGTATGGTCTCATCCCAAAATACG
Found at i:42473 original size:66 final size:66
Alignment explanation
Indices: 42313--42757 Score: 335
Period size: 66 Copynumber: 6.7 Consensus size: 66
42303 AGCAAATTCT
* * * * * ** ** * *
42313 TTTTTGACTTAGGTTTTGCCTTAGTCATTCTTTTATTGGTTCATTTGATTTCATCTCAGCCAACA
1 TTTTTGACTTAGGTTTTGCCTTAGTCA-CCTTTTGTTAGTTCATATGGTTTTGTCTTGGCTAACT
**
42378 AT
65 CC
** ** * *
42380 TTTTTGACTTAGGTTTCACCCAAGTCACCTTTTGTTAGCTCATATGGTTTTGTCTTGGCTAATTC
1 TTTTTGACTTAGGTTTTGCCTTAGTCACCTTTTGTTAGTTCATATGGTTTTGTCTTGGCTAACTC
42445 C
66 C
* * *
42446 TTTCTGACTTAGGTTTTGCCTTGGTCACCTTTTGTTAGTTCATATGGTTTTGTTTTGGCTAACT-
1 TTTTTGACTTAGGTTTTGCCTTAGTCACCTTTTGTTAGTTCATATGGTTTTGTCTTGGCTAACTC
42510 C
66 C
** * * * *
42511 TTTTTGGGTTAGGTTTTG-CTCTAGTTACTTTTTGTTGGTTCATATGGTTTTGTCTTAGCTAACT
1 TTTTTGACTTAGGTTTTGCCT-TAGTCACCTTTTGTTAGTTCATATGGTTTTGTCTTGGCTAACT
42575 CC
65 CC
* * * * * ** *
42577 TTTTCGACTTA-TTTTTCGCTTTAGTCACCCTTTATTAGTTCATATGGTTTCATCTTGGCCAACT
1 TTTTTGACTTAGGTTTT-GCCTTAGTCACCTTTTGTTAGTTCATATGGTTTTGTCTTGGCTAACT
42641 CC
65 CC
* * ** ** * * * *
42643 TTTTTGACTTAGGTTTCAT-CC-TAGTCACCCTTTGTTGGTTTGTATGGTTTCATTTTGACCAAT
1 TTTTTGACTTAGGTTT--TGCCTTAGTCACCTTTTGTTAGTTCATATGGTTTTGTCTTGGCTAAC
*
42706 TCT
64 TCC
* * * *
42709 TTTTTGATTTAGGTTTCGCCTAAGTC-CTCTTTTGTTGGTTCATATGGTT
1 TTTTTGACTTAGGTTTTGCCTTAGTCAC-CTTTTGTTAGTTCATATGGTT
42758 GTATCCTAGC
Statistics
Matches: 300, Mismatches: 68, Indels: 21
0.77 0.17 0.05
Matches are distributed among these distances:
64 2 0.01
65 60 0.20
66 209 0.70
67 28 0.09
69 1 0.00
ACGTcount: A:0.15, C:0.18, G:0.17, T:0.50
Consensus pattern (66 bp):
TTTTTGACTTAGGTTTTGCCTTAGTCACCTTTTGTTAGTTCATATGGTTTTGTCTTGGCTAACTC
C
Found at i:42554 original size:131 final size:132
Alignment explanation
Indices: 42313--42658 Score: 340
Period size: 131 Copynumber: 2.6 Consensus size: 132
42303 AGCAAATTCT
* * * * * * **
42313 TTTTTGACTTAGGTTTT-GCCTTAGTCATTCTTTTATTGGTTCATTTGATTTCATCTCAGCCAAC
1 TTTTCGACTTA-GTTTTCGCCTTAGTCA-CCCTTTATTAGTTCATATGGTTTCATCTTGGCCAAC
*** ** * * * * *
42377 AATTTTTTGACTTAGGTTTCACCCAAGTCACCTTTTGTTAGCTCATATGGTTTTGTCTTGGCTAA
64 TCCTTTTTGACTTAGGTTTTGCTCTAGTTACTTTTTGTTAGCTCATATGGTTTTGTCTTAGCTAA
*
42442 TTCC
129 CTCC
* * * ** * *
42446 -TTTCTGACTTAGGTTTT-GCCTTGGTCACCTTTTGTTAGTTCATATGGTTTTGTTTTGGCTAAC
1 TTTTC-GACTTA-GTTTTCGCCTTAGTCACCCTTTATTAGTTCATATGGTTTCATCTTGGCCAAC
** * *
42509 T-CTTTTTGGGTTAGGTTTTGCTCTAGTTACTTTTTGTTGGTTCATATGGTTTTGTCTTAGCTAA
64 TCCTTTTTGACTTAGGTTTTGCTCTAGTTACTTTTTGTTAGCTCATATGGTTTTGTCTTAGCTAA
42573 CTCC
129 CTCC
* *
42577 TTTTCGACTTATTTTTCGCTTTAGTCACCCTTTATTAGTTCATATGGTTTCATCTTGGCCAACTC
1 TTTTCGACTTAGTTTTCGCCTTAGTCACCCTTTATTAGTTCATATGGTTTCATCTTGGCCAACTC
42642 CTTTTTGACTTAGGTTT
66 CTTTTTGACTTAGGTTT
42659 CATCCTAGTC
Statistics
Matches: 171, Mismatches: 38, Indels: 9
0.78 0.17 0.04
Matches are distributed among these distances:
130 4 0.02
131 99 0.58
132 47 0.27
133 21 0.12
ACGTcount: A:0.15, C:0.18, G:0.17, T:0.50
Consensus pattern (132 bp):
TTTTCGACTTAGTTTTCGCCTTAGTCACCCTTTATTAGTTCATATGGTTTCATCTTGGCCAACTC
CTTTTTGACTTAGGTTTTGCTCTAGTTACTTTTTGTTAGCTCATATGGTTTTGTCTTAGCTAACT
CC
Found at i:42691 original size:197 final size:198
Alignment explanation
Indices: 42402--42757 Score: 443
Period size: 197 Copynumber: 1.8 Consensus size: 198
42392 GTTTCACCCA
* * ** * *
42402 AGTCACCTTTTGTTAGCTCATATGGTTTTGTCTTGGCTAATTCCTTTCTGACTTAGGTTTTGCCT
1 AGTCACCCTTTATTAGCTCATATGGTTTCATCTTGGCCAACTCCTTTCTGACTTAGGTTTTGCCT
* * ** * * * *
42467 TGGTCACCTTTTGTTAGTTCATATGGTTTTGTTTTGGCTAACTC-TTTTTGGGTTAGGTTTTGCT
66 TAGTCACCCTTTGTTAGTTCATATGGTTTCATTTTGACCAACTCTTTTTTGAGTTAGGTTTCGC-
42531 CT-AGTTACT-TTTTGTTGGTTCATATGGTTTTGTCTTAGCTAACTCCTTTTCGACTTATTTTTC
130 CTAAG-TACTCTTTTGTTGGTTCATATGGTTTTGTCTTAGCTAACTCCTTTTCGACTTATTTTTC
42594 GCTTT
194 GCTTT
* *
42599 AGTCACCCTTTATTAGTTCATATGGTTTCATCTTGGCCAACTCCTTTTTGACTTAGGTTTCAT-C
1 AGTCACCCTTTATTAGCTCATATGGTTTCATCTTGGCCAACTCCTTTCTGACTTAGGTTT--TGC
* ** * *
42663 C-TAGTCACCCTTTGTTGGTTTGTATGGTTTCATTTTGACCAATTCTTTTTTGATTTAGGTTTCG
64 CTTAGTCACCCTTTGTTAGTTCATATGGTTTCATTTTGACCAACTCTTTTTTGAGTTAGGTTTCG
*
42727 CCTAAGTCCTCTTTTGTTGGTTCATATGGTT
129 CCTAAGTACTCTTTTGTTGGTTCATATGGTT
42758 GTATCCTAGC
Statistics
Matches: 132, Mismatches: 22, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
197 91 0.69
198 40 0.30
199 1 0.01
ACGTcount: A:0.14, C:0.18, G:0.18, T:0.50
Consensus pattern (198 bp):
AGTCACCCTTTATTAGCTCATATGGTTTCATCTTGGCCAACTCCTTTCTGACTTAGGTTTTGCCT
TAGTCACCCTTTGTTAGTTCATATGGTTTCATTTTGACCAACTCTTTTTTGAGTTAGGTTTCGCC
TAAGTACTCTTTTGTTGGTTCATATGGTTTTGTCTTAGCTAACTCCTTTTCGACTTATTTTTCGC
TTT
Found at i:48852 original size:144 final size:144
Alignment explanation
Indices: 48500--48956 Score: 576
Period size: 144 Copynumber: 3.1 Consensus size: 144
48490 AAAAGCATCA
* * *
48500 TGCTTTTTGAGGACTGAAAAAGATAAATGATGCCACTAGCTTATGTGGGCTTTGAAGAAAAAGAA
1 TGCTCTTTGAGGACTG-AAAAGATAAATGATGCCAC-AACTTGTGTGGGCTTTGAAGAAAAAGAA
* * * *
48565 AAGGTATCCTACTCTTTTAGGATTAAAAAAGATAAATGATGCCACCAGCTTGTGCAGGGTTTGAA
64 AAGGTGTCCTACTCTTTAAAGATTGAAAAAGATAAATGATGCCACCAGCTTGTG-AGGGTTTGAA
48630 GAAAAAAAAAGG-TGTCT
128 GAAAAAAAAAGGCT-TCT
* *
48647 TGTTCTTTGAGGATTGAAAAGATAAATGATGCCACCAACTTGTGTGGGCTTTGAAGAAAAAGAAA
1 TGCTCTTTGAGGACTGAAAAGATAAATGATGCCA-CAACTTGTGTGGGCTTTGAAGAAAAAGAAA
** * * **
48712 ATATGTCCTACTCTTTAAAGACTGAAAAAGATAGATGATGCCACCAGCTTGTG-GGCCTTGAAGA
65 AGGTGTCCTACTCTTTAAAGATTGAAAAAGATAAATGATGCCACCAGCTTGTGAGGGTTTGAAGA
48776 AAAAAAAAGGCTTCT
130 AAAAAAAAGGCTTCT
* *
48791 TACTCTTTGAGGACTGAAAAGATAAATGATGCCATCAATTTGTGTGGGCTTTGAAGAAAAAGAAA
1 TGCTCTTTGAGGACTGAAAAGATAAATGATGCCA-CAACTTGTGTGGGCTTTGAAGAAAAAGAAA
* * * * * * *
48856 AGGCGTCTTGCACTTTGAAGATTGAAAAAGATAAATGATGCCACTAGCTTGTGTGAGGTTTGAAG
65 AGGTGTCCTACTCTTTAAAGATTGAAAAAGATAAATGATGCCACCAGCTTGTGAG-GGTTTGAAG
* *
48921 AAAAAAATAAAGGCATCG
129 -AAAAAA-AAAGGCTTCT
*
48939 TGCTCTTTGAGGGCTGAA
1 TGCTCTTTGAGGACTGAA
48957 GTAGATAATG
Statistics
Matches: 268, Mismatches: 36, Indels: 11
0.85 0.11 0.03
Matches are distributed among these distances:
144 125 0.47
145 2 0.01
146 97 0.36
147 20 0.07
148 24 0.09
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.27
Consensus pattern (144 bp):
TGCTCTTTGAGGACTGAAAAGATAAATGATGCCACAACTTGTGTGGGCTTTGAAGAAAAAGAAAA
GGTGTCCTACTCTTTAAAGATTGAAAAAGATAAATGATGCCACCAGCTTGTGAGGGTTTGAAGAA
AAAAAAAGGCTTCT
Found at i:48967 original size:74 final size:74
Alignment explanation
Indices: 48489--48956 Score: 481
Period size: 74 Copynumber: 6.4 Consensus size: 74
48479 TTGAGGTAGG
* * * *
48489 AAAAA-GCATCATGCTTTTTGAGGACTGAAAAAGATAAATGATGCCACTAGCTTATGTGGGCTTT
1 AAAAAGGCATCTTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTT
48553 GAAGAAAAA
66 GAAGAAAAA
* * * * * * * *
48562 GAAAAGGTATCCTACTCTTTTAGGATTAAAAAAGATAAATGATGCCACCAGCTTGTGCAGGG-TT
1 AAAAAGGCATCTTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTG-TGGGCTT
48626 TGAAG-AAAA
65 TGAAGAAAAA
** * * *
48635 AAAAAGGTGTCTTGTTCTTTGAGGATTG-AAAAGATAAATGATGCCACCAACTTGTGTGGGCTTT
1 AAAAAGGCATCTTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTT
48699 GAAGAAAAA
66 GAAGAAAAA
* * * * * * *
48708 GAAAATATG--TCCTACTCTTTAAAGACTGAAAAAGATAGATGATGCCACCAGC-T-TGTGGGCC
1 -AAAA-AGGCATCTTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCT
48769 TTGAAG-AAAA
64 TTGAAGAAAAA
* * * **
48779 AAAAAGGCTTCTTACTCTTTGAGGACTG-AAAAGATAAATGATGCCATCAATTTGTGTGGGCTTT
1 AAAAAGGCATCTTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTT
48843 GAAGAAAAA
66 GAAGAAAAA
* * * * * *
48852 GAAAAGGCGTCTTGCACTTTGAAGATTGAAAAAGATAAATGATGCCACTAGCTTGTGTGAGG-TT
1 AAAAAGGCATCTTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTG-GGCTT
48916 TGAAGAAAAA
65 TGAAGAAAAA
* *
48926 AATAAAGGCATCGTGCTCTTTGAGGGCTGAA
1 AA-AAAGGCATCTTGCTCTTTGAGGACTGAA
48957 GTAGATAATG
Statistics
Matches: 324, Mismatches: 56, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
69 2 0.01
70 23 0.07
71 24 0.07
72 60 0.19
73 73 0.23
74 113 0.35
75 29 0.09
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.26
Consensus pattern (74 bp):
AAAAAGGCATCTTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTT
GAAGAAAAA
Found at i:51104 original size:20 final size:20
Alignment explanation
Indices: 51079--51144 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
51069 TTTCAACGAT
51079 TTGTATCGATACATAAAATG
1 TTGTATCGATACATAAAATG
51099 TTGTATCGATAC----AA--
1 TTGTATCGATACATAAAATG
51113 -TGTATCGATACATAAAATG
1 TTGTATCGATACATAAAATG
51132 TTGTATCGATACA
1 TTGTATCGATACA
51145 ATGTATCGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
16 2 0.05
17 2 0.05
20 24 0.62
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATAAAATG
Found at i:51117 original size:33 final size:33
Alignment explanation
Indices: 51080--51179 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
51070 TTCAACGATT
51080 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
51113 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
51146 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
51179 T
1 T
51180 TTAAGCTACT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:51118 original size:13 final size:13
Alignment explanation
Indices: 51100--51157 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
51090 CATAAAATGT
51100 TGTATCGATACAA
1 TGTATCGATACAA
51113 TGTATCGATACATAAAA
1 TGTATCGATAC----AA
51130 TGTTGTATCGATACAA
1 ---TGTATCGATACAA
51146 TGTATCGATACA
1 TGTATCGATACA
51158 TATTTTTTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 23 0.61
16 2 0.05
17 2 0.05
20 11 0.29
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:51238 original size:13 final size:13
Alignment explanation
Indices: 51220--51244 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51210 ATTACTCAAA
51220 TGTATCGATACAT
1 TGTATCGATACAT
51233 TGTATCGATACA
1 TGTATCGATACA
51245 CTGATCTTTG
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:51346 original size:52 final size:52
Alignment explanation
Indices: 51253--51380 Score: 206
Period size: 52 Copynumber: 2.5 Consensus size: 52
51243 CACTGATCTT
* *
51253 TGTATCGATACATGCA-GGCAATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGGAAATTTGCCCAGATGTATCGATACACTATT-AAA
51304 TGTATCGATACATGCAGGGAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGGAAATTTGCCCAGATGTATCGATACACTATTAAA
*
51356 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGGAAATTT
51381 TCATATTTCG
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
51 16 0.22
52 53 0.74
53 3 0.04
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGGAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:58552 original size:79 final size:77
Alignment explanation
Indices: 58346--58729 Score: 295
Period size: 79 Copynumber: 4.9 Consensus size: 77
58336 TAGAGATAAC
* * * * * * * ** *
58346 AACGGGGCTGGAGTATCCTCGATTATGAAAAATTGGTGTTCTGGAAATAAAATCAAGGTTAGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGGAAAATCGATGTT-TAGAAATAAAACCGGGGTTGGAGT
*
58411 ATCCCCTCAGAAAT
65 ATCCCCTGA-AAAT
* * * * * * *
58425 AACAGGGTTGGAGCATCCCTGATTATAGAAAATCGGTGTTTTGAAAATAAAATCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGGAAAATCGATGTTTAG-AAATAAAACCGGGGTTGGAGT
58490 ATCCCCTTGAAAAT
65 ATCCCC-TGAAAAT
* ** *
58504 AACGGGGTTGGAGTATCCCCGATTATGGAAAATCGAAGCTTTAGAAATAAGGCTGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGGAAAATCGATG-TTTAGAAATAAAACCGGGGTTGGAGT
58569 AT-CCCTGCCAAAAT
65 ATCCCCTG--AAAAT
* * * * * * * *
58583 AATGGGGTTGAAGTATCCCCAATTAT-GAGAATCAATATTTTAGAAATAAAGCCGGTGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGGAAAATCGAT-GTTTAGAAATAAAACCGGGGTTGGAGT
*
58647 GTCCCCTCGAAAAT
65 ATCCCCT-GAAAAT
* * * * ** * * * *
58661 CACGGGATTTGAGTGTCCCTTATTATGAAAAATTGATGTTTTGGAAATAAAACCAGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGGAAAATCGATG-TTTAGAAATAAAACCGGGGTTGGAGT
58726 ATCC
65 ATCC
58730 TCGAGATGAA
Statistics
Matches: 242, Mismatches: 53, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
77 2 0.01
78 59 0.24
79 174 0.72
80 7 0.03
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (77 bp):
AACGGGGTTGGAGTATCCCCGATTATGGAAAATCGATGTTTAGAAATAAAACCGGGGTTGGAGTA
TCCCCTGAAAAT
Found at i:60609 original size:21 final size:22
Alignment explanation
Indices: 60583--60630 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
60573 TTTTCTAAGG
*
60583 GTTTTTT-CTGCTGAAAATTTT
1 GTTTTTTGCTACTGAAAATTTT
*
60604 GTTTTTTGCTACTGGAAATTTT
1 GTTTTTTGCTACTGAAAATTTT
60626 GTTTT
1 GTTTT
60631 CTGCCCAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.17, C:0.08, G:0.17, T:0.58
Consensus pattern (22 bp):
GTTTTTTGCTACTGAAAATTTT
Found at i:67240 original size:13 final size:13
Alignment explanation
Indices: 67222--67248 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
67212 ACATGCTGCT
67222 TTGTATCGATACA
1 TTGTATCGATACA
67235 TTGTATCGATACA
1 TTGTATCGATACA
67248 T
1 T
67249 GGCCAAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:67336 original size:13 final size:13
Alignment explanation
Indices: 67315--67345 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
67305 TGATACATGG
*
67315 TACAATGTATCGA
1 TACATTGTATCGA
67328 TACATTGTATCGA
1 TACATTGTATCGA
67341 TACAT
1 TACAT
67346 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:67343 original size:33 final size:32
Alignment explanation
Indices: 67299--67365 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 32
67289 CTATCACTAT
*
67299 TTGTATTGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
67332 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
67365 T
1 T
67366 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:75435 original size:36 final size:36
Alignment explanation
Indices: 75390--75464 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
75380 AAGGGGGAGA
* *
75390 AGATAATCGTTTAAGGGGGAGAATTTTTTTTAGAGG
1 AGATAATCGTTTAAGGGGGAGAATATTTTTAAGAGG
*
75426 AGATAATCGTTTAAGGGGGAGAATATTTTTAAGGGG
1 AGATAATCGTTTAAGGGGGAGAATATTTTTAAGAGG
75462 AGA
1 AGA
75465 AAAACGACGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.03, G:0.32, T:0.32
Consensus pattern (36 bp):
AGATAATCGTTTAAGGGGGAGAATATTTTTAAGAGG
Found at i:75463 original size:17 final size:18
Alignment explanation
Indices: 75399--75465 Score: 59
Period size: 17 Copynumber: 3.8 Consensus size: 18
75389 AAGATAATCG
*
75399 TTTAAGGGGGAGAATTTT
1 TTTAAGGGGGAGAATATT
* * *
75417 TTTTA-GAGGAG-ATAATCG
1 TTTAAGGGGGAGAAT-AT-T
75435 TTTAAGGGGGAGAATATT
1 TTTAAGGGGGAGAATATT
75453 TTTAA-GGGGAGAA
1 TTTAAGGGGGAGAA
75466 AAACGACGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
16 2 0.05
17 14 0.37
18 13 0.34
19 7 0.18
20 2 0.05
ACGTcount: A:0.33, C:0.01, G:0.33, T:0.33
Consensus pattern (18 bp):
TTTAAGGGGGAGAATATT
Found at i:76026 original size:13 final size:13
Alignment explanation
Indices: 76008--76034 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
75998 ACATGCTGCT
76008 TTGTATCGATACA
1 TTGTATCGATACA
76021 TTGTATCGATACA
1 TTGTATCGATACA
76034 T
1 T
76035 GGCCAAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:76122 original size:13 final size:13
Alignment explanation
Indices: 76101--76131 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
76091 TGATACATGG
*
76101 TACAATGTATCGA
1 TACATTGTATCGA
76114 TACATTGTATCGA
1 TACATTGTATCGA
76127 TACAT
1 TACAT
76132 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:76129 original size:33 final size:32
Alignment explanation
Indices: 76085--76151 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 32
76075 CTATCACTAT
*
76085 TTGTATTGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
76118 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
76151 T
1 T
76152 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:83910 original size:20 final size:20
Alignment explanation
Indices: 83885--83922 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
83875 CGTTGGCTAA
* *
83885 ATGTATTGATAGAATTCACC
1 ATGTATCGATACAATTCACC
83905 ATGTATCGATACAATTCA
1 ATGTATCGATACAATTCA
83923 ATCATGAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATTCACC
Found at i:91383 original size:70 final size:70
Alignment explanation
Indices: 91301--91453 Score: 297
Period size: 70 Copynumber: 2.2 Consensus size: 70
91291 TTTTCCAAAA
*
91301 TGTATCGATACATGTCCTTAATGTATCGATACAAGGTCCCAACAGTCAAAAATTCAAAATTTTCA
1 TGTATCGATACATGCCCTTAATGTATCGATACAAGGTCCCAACAGTCAAAAATTCAAAATTTTCA
91366 CAATT
66 CAATT
91371 TGTATCGATACATGCCCTTAATGTATCGATACAAGGTCCCAACAGTCAAAAATTCAAAATTTTCA
1 TGTATCGATACATGCCCTTAATGTATCGATACAAGGTCCCAACAGTCAAAAATTCAAAATTTTCA
91436 CAATT
66 CAATT
91441 TGTATCGATACAT
1 TGTATCGATACAT
91454 TGTTCATTGT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 82 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (70 bp):
TGTATCGATACATGCCCTTAATGTATCGATACAAGGTCCCAACAGTCAAAAATTCAAAATTTTCA
CAATT
Found at i:94049 original size:80 final size:77
Alignment explanation
Indices: 93828--94049 Score: 268
Period size: 79 Copynumber: 2.8 Consensus size: 77
93818 TTTCATCTCA
* *
93828 GGGATACTCCAACCCCGGTTTTATTTCCAAAACA-TCAATTATTCATAATCGGGGATACTCCAAT
1 GGGATACTCCAA-CCCGGTTTTATTTCCAAAACACT-AATTTTTCAAAATC-GGGATACTCCAAT
93892 CCCGTTATTTTCGAG
63 CCCGTTATTTTCGAG
* * * *
93907 GGGATACTCCAATCCCGATTTTATTTCCAAAACACCAATTTTTCACAATCAGGGATAATCCAATC
1 GGGATACTCCAA-CCCGGTTTTATTTCCAAAACACTAATTTTTCAAAATC-GGGATACTCCAATC
*
93972 CTGTTA-TTTCTGAG
64 CCGTTATTTTC-GAG
* *
93986 GGGATACTCTAACCTCGGTTTTTATTTCTAAAACACTAATTTTTCAAAATCGGAGATACTCCAA
1 GGGATACTCCAACC-CGG-TTTTATTTCCAAAACACTAATTTTTCAAAATCGG-GATACTCCAA
94050 CCTCGATTTT
Statistics
Matches: 124, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
78 6 0.05
79 80 0.65
80 38 0.31
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (77 bp):
GGGATACTCCAACCCGGTTTTATTTCCAAAACACTAATTTTTCAAAATCGGGATACTCCAATCCC
GTTATTTTCGAG
Found at i:94057 original size:131 final size:129
Alignment explanation
Indices: 93908--94182 Score: 376
Period size: 131 Copynumber: 2.1 Consensus size: 129
93898 ATTTTCGAGG
*
93908 GGATACTCCAATCCCGATTTTATTTCCAAAACACCAATTTTTCACAATCAGGGATAATCCAATCC
1 GGATACTCCAA-CCCGATTTTATTTCCAAAACACCAAATTTTCACAATCAGGGATAATCCAATCC
* * *
93973 TGTTA-TTTCTGAGGGGATACTCTAA-CCTCGGTTTTTATTTCTAAAACACTAATTTTTCAAAAT
65 CGTTATTTTC-GAGGGGATACTCCAACCCT-GG-TTTTATTTCTAAAACACCAATTTTTCAAAAT
94036 CG-
127 CGA
* * * * *
94038 GAGATACTCCAACCTCGATTTTATTTCCAAAATAGCAAATTTTCACAATCGGGGATACTCTAATC
1 G-GATACTCCAACC-CGATTTTATTTCCAAAACACCAAATTTTCACAATCAGGGATAATCCAATC
*
94103 CCGTTATTTTCGAGGGGATACTCCAACCCTGGTTTTATTTCTAAAACACCAATTTTTCACAATCG
64 CCGTTATTTTCGAGGGGATACTCCAACCCTGGTTTTATTTCTAAAACACCAATTTTTCAAAATCG
94168 A
129 A
*
94169 GGATACTCTAACCC
1 GGATACTCCAACCC
94183 CGTTATTTTA
Statistics
Matches: 129, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
129 1 0.01
130 45 0.35
131 76 0.59
132 7 0.05
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (129 bp):
GGATACTCCAACCCGATTTTATTTCCAAAACACCAAATTTTCACAATCAGGGATAATCCAATCCC
GTTATTTTCGAGGGGATACTCCAACCCTGGTTTTATTTCTAAAACACCAATTTTTCAAAATCGA
Found at i:94082 original size:51 final size:52
Alignment explanation
Indices: 93988--94097 Score: 134
Period size: 51 Copynumber: 2.1 Consensus size: 52
93978 TTTCTGAGGG
* * * *
93988 GATACTCTAACCTCGGTTTTTATTTCTAAAACACTAATTTTTCAAAATCGGA
1 GATACTCCAACCTCGGATTTTATTTCCAAAACACTAAATTTTCAAAATCGGA
* * *
94040 GATACTCCAACCTC-GATTTTATTTCCAAAATAGC-AAATTTTCACAATCGGG
1 GATACTCCAACCTCGGATTTTATTTCCAAAACA-CTAAATTTTCAAAATCGGA
94091 GATACTC
1 GATACTC
94098 TAATCCCGTT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
51 36 0.72
52 14 0.28
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.35
Consensus pattern (52 bp):
GATACTCCAACCTCGGATTTTATTTCCAAAACACTAAATTTTCAAAATCGGA
Found at i:94130 original size:79 final size:79
Alignment explanation
Indices: 94040--94191 Score: 225
Period size: 79 Copynumber: 1.9 Consensus size: 79
94030 CAAAATCGGA
* * * *
94040 GATACTCCAA-CCTCGATTTTATTTCCAAAATAGCAAATTTTCACAATCGGGGATACTCTAATCC
1 GATACTCCAACCCT-GATTTTATTTCCAAAACACCAAATTTTCACAATCGAGGATACTCTAACCC
94104 CGTTATTTTCGAGGG
65 CGTTATTTTCGAGGG
* * *
94119 GATACTCCAACCCTGGTTTTATTTCTAAAACACCAATTTTTCACAATCGAGGATACTCTAACCCC
1 GATACTCCAACCCTGATTTTATTTCCAAAACACCAAATTTTCACAATCGAGGATACTCTAACCCC
94184 GTTATTTT
66 GTTATTTT
94192 ATCGAGATAC
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
79 62 0.95
80 3 0.05
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (79 bp):
GATACTCCAACCCTGATTTTATTTCCAAAACACCAAATTTTCACAATCGAGGATACTCTAACCCC
GTTATTTTCGAGGG
Found at i:94203 original size:27 final size:28
Alignment explanation
Indices: 94164--94239 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
94154 ATTTTTCACA
* *
94164 ATCGAGGATACTCTAACCCCGTTATTTT
1 ATCGAGGATACTCCAACCCCATTATTTT
*
94192 ATCGA-GATACTCCAACTCCATTA-TTT
1 ATCGAGGATACTCCAACCCCATTATTTT
94218 -TCGAGGGGATACTCCAACCCCA
1 ATCGA--GGATACTCCAACCCCA
94240 ACTTTATTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 4 0.10
26 3 0.07
27 15 0.37
28 19 0.46
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCATTATTTT
Found at i:94307 original size:106 final size:108
Alignment explanation
Indices: 94087--94313 Score: 266
Period size: 106 Copynumber: 2.1 Consensus size: 108
94077 TTTTCACAAT
* * **** *
94087 CGGGGATACTCTAA-TCCCGTTATTTTCGAGGGGATACTCCAACCCTGGTTTTATTTCTAAAACA
1 CGGGGATACTCCAACTCCCATTATTTTCGAGGGGATACTCCAACCCCAACTTTATTTCAAAAACA
* * *
94151 CCAATTTTTCACAATCGAGGATACTCTAACCCCGTTATTTTAT
66 CCAATTTCTCACAATCGAGGATACTCTAACCCCATTATTTTAG
* *
94194 C-GAGATACTCCAACT-CCATTATTTTCGAGGGGATACTCCAACCCCAACTTTATTTCAAAAATA
1 CGGGGATACTCCAACTCCCATTATTTTCGAGGGGATACTCCAACCCCAACTTTATTTCAAAAACA
*** *
94257 TTGATTTCTCACAATCGGGGATACTC-AACCCCATTACTTTT-G
66 CCAATTTCTCACAATCGAGGATACTCTAACCCCATTA-TTTTAG
94299 CGGGGATACTCCAAC
1 CGGGGATACTCCAAC
94314 CCCGACCTTA
Statistics
Matches: 100, Mismatches: 17, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
105 10 0.10
106 88 0.88
107 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (108 bp):
CGGGGATACTCCAACTCCCATTATTTTCGAGGGGATACTCCAACCCCAACTTTATTTCAAAAACA
CCAATTTCTCACAATCGAGGATACTCTAACCCCATTATTTTAG
Found at i:94341 original size:78 final size:77
Alignment explanation
Indices: 94197--94519 Score: 328
Period size: 78 Copynumber: 4.1 Consensus size: 77
94187 ATTTTATCGA
* * * * *
94197 GATACTCCAACTCCATTATTTTCGAGGGGATACTCCAACCCCAACTTTATTTCAAAAATATTGAT
1 GATACTCCAACCCCATTATTTT-GAGGGGATACTCCAACCCCGACTTTATTTCTAAAACATCGAT
* *
94262 TTCTCACAATCGGG
65 TT-TCATAATCAGG
* * *
94276 GATACT-CAACCCCATTACTTTTGCGGGGATACTCCAACCCCGACCTTATTTCTAAAGCATCGAT
1 GATACTCCAACCCCATTA-TTTTGAGGGGATACTCCAACCCCGACTTTATTTCTAAAACATCGAT
*
94340 TTTCCATAATAAGG
65 TTT-CATAATCAGG
* * * * *
94354 GATA-TCCAACCGCGTTATTTTTGAGGGGATACTCCAACCCCGA-TTTTTTTTTAAAACATTGAT
1 GATACTCCAACCCCATTA-TTTTGAGGGGATACTCCAACCCCGACTTTATTTCTAAAACATCGA-
94417 TTTTCATAATCAGG
64 TTTTCATAATCAGG
** * * * *
94431 GATACTCCAACCCTGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAGAAGATCGAT
1 GATACTCCAACCCCATTATTT-TGAGGGGATACTCCAACCCCGACTTTATTTCTAAAACATCGAT
* *
94496 TTTCCATAGTCGGGG
65 TTT-CATAATC-AGG
94511 GATACTCCA
1 GATACTCCA
94520 GCCCTGTTGT
Statistics
Matches: 204, Mismatches: 31, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
77 32 0.16
78 132 0.65
79 29 0.14
80 11 0.05
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (77 bp):
GATACTCCAACCCCATTATTTTGAGGGGATACTCCAACCCCGACTTTATTTCTAAAACATCGATT
TTCATAATCAGG
Found at i:94442 original size:156 final size:156
Alignment explanation
Indices: 94212--94503 Score: 401
Period size: 156 Copynumber: 1.9 Consensus size: 156
94202 TCCAACTCCA
* *
94212 TTATTTTCGAGGGGATACTCCAACCCCAACTTTATTTCAAAAATATTGATTTCTCACAATCGGGG
1 TTATTTTCGAGGGGATACTCCAACCCCAACTTTATTTCAAAAACATTGATTTCTCACAATCAGGG
* *
94277 ATACTCAACCCCATTACTTT-TGCGGGGATACTCCAACCCCGACCTTATTTCTA-AAGCATCGAT
66 ATACTCAACCCCATTA-TTTCTGAGGGGATACTCCAACCCCGACCTTATTTCCAGAAG-ATCGAT
94340 TTTCCATAATAAGGGATATCCAACCGCG
129 TTTCCATAATAAGGGATATCCAACCGCG
* * * ** * *
94368 TTATTTTTGAGGGGATACTCCAACCCCGA-TTTTTTTTTAAAACATTGATTTTTCATAATCAGGG
1 TTATTTTCGAGGGGATACTCCAACCCCAACTTTATTTCAAAAACATTGATTTCTCACAATCAGGG
** **
94432 ATACTCCAACCCTGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAGAAGATCGATT
66 ATACT-CAACCCCATTATTTCTGAGGGGATACTCCAACCCCGACCTTATTTCCAGAAGATCGATT
94497 TTCCATA
130 TTCCATA
94504 GTCGGGGGAT
Statistics
Matches: 118, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
155 36 0.31
156 79 0.67
157 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.34
Consensus pattern (156 bp):
TTATTTTCGAGGGGATACTCCAACCCCAACTTTATTTCAAAAACATTGATTTCTCACAATCAGGG
ATACTCAACCCCATTATTTCTGAGGGGATACTCCAACCCCGACCTTATTTCCAGAAGATCGATTT
TCCATAATAAGGGATATCCAACCGCG
Found at i:100914 original size:61 final size:61
Alignment explanation
Indices: 100691--101219 Score: 607
Period size: 61 Copynumber: 8.6 Consensus size: 61
100681 CCTTTTTAAC
* * ** * **
100691 CCTTTAGTCTTCAAAGAGTAGGACGTTTTTTTCTTTTCAAAGCCCACATGAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
100752 CCATTTAGTCCTCAAAGAGCATGACGTCTTTTTTCTTTTCAAAGCCCACACGAGTTGGTAGCA
1 CC-TTTAGTCCTCAAAGAGCAGGACG-CCTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA
* *
100815 CTCTTTTAGTCTTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 C-C-TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA
* *
100878 CCTTTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTT-AAAGCTCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * *
100938 CCTTTTAGACCTCAAAGAGCAGGACACTTTTTTCTTTTCAAAGCCCACACGAGTTAGTGGCA
1 CC-TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
101000 CCCTTCAGTCCTCAAAGAGAAAGATGCCTTTTCC-TTTCAAAGCCCACACAAGTTGGTGGCA
1 -CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA
** *
101061 TTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTGGGTGGCA
1 -CCTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
101123 TCTTCTAGTTCTCAAAAAGTAGGACGCCTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
101184 CTTTTTAGTCCTTAAAGAGCAGGATGCCTTTTCCTT
1 C-CTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTT
101220 CTCTCCTTTG
Statistics
Matches: 404, Mismatches: 53, Indels: 21
0.85 0.11 0.04
Matches are distributed among these distances:
60 29 0.07
61 164 0.41
62 116 0.29
63 73 0.18
64 22 0.05
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (61 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:101094 original size:123 final size:121
Alignment explanation
Indices: 100693--101216 Score: 609
Period size: 123 Copynumber: 4.2 Consensus size: 121
100683 TTTTTAACCC
* * ** ** *
100693 TTTAGTCTTCAAAGAGTAGGACGTTTTTTTCTTTTCAAAGCCCACATGAGTTGGTGGCACCATTT
1 TTTAGTCCTCAAAGAGCAGGACG-CCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC-TTC
* * * * *
100758 AGTCCTCAAAGAGCATGACGTCTTTTTTCTTTTCAAAGCCCACACGAGTTGGTAGCACTCT
64 AGTCCTCAAAGAGCAGGACG-C-CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCAC-CT
* *
100819 TTTAGTCTTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTA
1 TTTAGTCCTCAAAGAGCAGGACGCC-TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCA
* * *
100884 GTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCTCACACAAGTTGGTGGCACCT
65 GTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
* * * * *
100941 TTTAGACCTCAAAGAGCAGGACACTTTTTTCTTTTCAAAGCCCACACGAGTTAGTGGCACCCTTC
1 TTTAGTCCTCAAAGAGCAGGACGC-CTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTC
* * * **
101006 AGTCCTCAAAGAGAAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTT
64 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
* *
101064 TTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTGGGTGGCATCTTC
1 TT-TAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
* * * * * *
101128 TAGTTCTCAAAAAGTAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTT
64 -AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
* *
101187 TTTAGTCCTTAAAGAGCAGGATGCCTTTTC
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTC
101217 CTTCTCTCCT
Statistics
Matches: 347, Mismatches: 45, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
121 1 0.00
122 83 0.24
123 161 0.46
124 26 0.07
125 21 0.06
126 55 0.16
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (121 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAG
TCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
Found at i:101482 original size:61 final size:61
Alignment explanation
Indices: 101274--101476 Score: 259
Period size: 61 Copynumber: 3.3 Consensus size: 61
101264 TTTCCCTTTT
* * * * *
101274 GTCCTCAAAAAGCAAGATGCTTTCTCCTTTT-AAAGACCACACAAGTTGGTGGCACCTTTCA
1 GTCCTCAAAGAGCAGGACGCTTTCT-CTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
* * *
101335 GTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCA-TCTTCCA
1 GTCCTCAAAGAGCAGGACGCTTTCTCTTTTCAAAGCCCACACAAGTTGGTGGCACT-TTTCA
* * *
101396 GTCCTCAAAGAGTAGGACGCCTTT-TCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTA
1 GTCCTCAAAGAGCAGGACG-CTTTCTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
101457 GTCCTCAAAGAGCAGGACGC
1 GTCCTCAAAGAGCAGGACGC
101477 CTTTTCCTTC
Statistics
Matches: 125, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
60 5 0.04
61 115 0.92
62 5 0.04
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (61 bp):
GTCCTCAAAGAGCAGGACGCTTTCTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
Found at i:101482 original size:266 final size:267
Alignment explanation
Indices: 101007--101553 Score: 895
Period size: 266 Copynumber: 2.1 Consensus size: 267
100997 GCACCCTTCA
* * **
101007 GTCCTCAAAGAGAAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCTAGTC
1 GTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGACCACACAAGTTGGTGGCACCTTTCTAGTC
* * *
101072 CTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTGGGTGGCATCTTCTAGTTCTCA
66 CTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTGGGTGGCATCTTCCAGTCCTCA
*
101137 AAAAGTAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTTAAAGA
131 AAAAGTAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGA
*
101202 GCAGGATGCCTTTTCCTTCTCTCCTTTGTCCTCAAAGAGTAGGACACATTTCATTTCCTTCTTTT
196 GCAGGACGCCTTTTCCTTCTCTCCTTTGTCCTCAAAGAGTAGGACACATTTCATTTCCTTCTTTT
101267 CCCTTTT
261 CCCTTTT
* *
101274 GTCCTCAAAAAGCAAGATG-CTTTCTCCTTTTAAAGACCACACAAGTTGGTGGCACCTTTC-AGT
1 GTCCTCAAAGAGCAAGATGCCTTT-TCCTTTCAAAGACCACACAAGTTGGTGGCACCTTTCTAGT
* *
101337 CCTCAAAGAGCAGGATG-C-TTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCATCTTCCAGTCC
65 CCTCAAAGAGCAGGACGCCTTTTC-CTTT-CAAAGCCCACACAAGTGGGTGGCATCTTCCAGTCC
*
101400 TCAAAGAGTAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAA
128 TCAAAAAGTAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAA
* *
101465 AGAGCAGGACGCCTTTTCCTTCTCTCCTTTGTCCTCAAAGAGTATGACATATTTCATTTCCTTCT
193 AGAGCAGGACGCCTTTTCCTTCTCTCCTTTGTCCTCAAAGAGTAGGACACATTTCATTTCCTTCT
101530 TTTCCCTTTT
258 TTTCCCTTTT
101540 GTCCTCAAAGAGCA
1 GTCCTCAAAGAGCA
101554 GGATACCCTT
Statistics
Matches: 260, Mismatches: 17, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
264 4 0.02
265 5 0.02
266 202 0.78
267 49 0.19
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.32
Consensus pattern (267 bp):
GTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGACCACACAAGTTGGTGGCACCTTTCTAGTC
CTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTGGGTGGCATCTTCCAGTCCTCA
AAAAGTAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGA
GCAGGACGCCTTTTCCTTCTCTCCTTTGTCCTCAAAGAGTAGGACACATTTCATTTCCTTCTTTT
CCCTTTT
Found at i:101592 original size:41 final size:41
Alignment explanation
Indices: 101537--101768 Score: 173
Period size: 41 Copynumber: 5.5 Consensus size: 41
101527 TCTTTTCCCT
*
101537 TTTGTCCTCAAAGAGCAGGATACCCTTTTTTCTTTTTTTCC
1 TTTGTCCTCAAAGAGCAGGATACACTTTTTTCTTTTTTTCC
** * * *
101578 TTTGTCCTCAAAGAGCAGGACGCACTTCATGTCCTTCTTTTCCC
1 TTTGTCCTCAAAGAGCAGGATACACTT--TTTTCTT-TTTTTCC
* * * *
101622 TTCTAGTTCTCAAAGAGTAGGATGCA-TTTTATTCTCCTTTTTCC
1 TT-T-GTCCTCAAAGAGCAGGATACACTTTT-TTCT-TTTTTTCC
* * *
101666 TTTGTCCTCAAAAAGCAGGACACACTTAATTTC-TTTTTTCC
1 TTTGTCCTCAAAGAGCAGGATACACTT-TTTTCTTTTTTTCC
* * * *
101707 TTTGTCTTCAAAGGGCAGGATGCATTTTCTTTCCTTTTTTT-C
1 TTTGTCCTCAAAGAGCAGGATACACTTT-TTT-CTTTTTTTCC
* * *
101749 TTAGTCCCCAATGAGCAGGA
1 TTTGTCCTCAAAGAGCAGGA
101769 CCCATTTCAT
Statistics
Matches: 147, Mismatches: 32, Indels: 23
0.73 0.16 0.11
Matches are distributed among these distances:
41 55 0.37
42 33 0.22
43 18 0.12
44 20 0.14
45 3 0.02
46 18 0.12
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (41 bp):
TTTGTCCTCAAAGAGCAGGATACACTTTTTTCTTTTTTTCC
Found at i:101703 original size:129 final size:124
Alignment explanation
Indices: 101457--101735 Score: 302
Period size: 129 Copynumber: 2.2 Consensus size: 124
101447 GCACTTTTTA
*
101457 GTCCTCAAAGAGCAGGACGCCTTTTCCTTCTCTCCTTTGTCCTCAAAGAGTATGACATATTTCAT
1 GTCCTCAAAGAGCAGGACGCCTTTTCCTTCTCTCCTTTGTCCTCAAAGAGTAGGACATATTTCAT
* * * *
101522 TTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGATACCCTTTTTTCTTTTTTTCCTTT
66 TTCCTTCTTTTCCCTTTTGTCCTCAAAAAGCAGGACACACTTATTTCTTTTTTTCCTTT
* *
101581 GTCCTCAAAGAGCAGGACGCACTTCATGTCCTTCTTTTCCCTTCTAGTTCTCAAAGAGTAGGATG
1 GTCCTCAAAGAGCAGGACGC-CTT--T-TCCTTC-TCT-CCTT-T-GTCCTCAAAGAGTAGGA--
101646 CAT-TTT-ATTCTCC-T-TTTT-CC-TTTGTCCTCAAAAAGCAGGACACACTTAATTTC-TTTTT
56 CATATTTCATT-TCCTTCTTTTCCCTTTTGTCCTCAAAAAGCAGGACACACTT-ATTTCTTTTTT
101704 TCCTTT
119 TCCTTT
* * * *
101710 GTCTTCAAAGGGCAGGATGCATTTTC
1 GTCCTCAAAGAGCAGGACGCCTTTTC
101736 TTTCCTTTTT
Statistics
Matches: 132, Mismatches: 11, Indels: 23
0.80 0.07 0.14
Matches are distributed among these distances:
124 20 0.15
125 5 0.04
126 1 0.01
127 1 0.01
128 8 0.06
129 54 0.41
130 10 0.08
131 5 0.04
132 19 0.14
133 6 0.05
134 3 0.02
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.40
Consensus pattern (124 bp):
GTCCTCAAAGAGCAGGACGCCTTTTCCTTCTCTCCTTTGTCCTCAAAGAGTAGGACATATTTCAT
TTCCTTCTTTTCCCTTTTGTCCTCAAAAAGCAGGACACACTTATTTCTTTTTTTCCTTT
Found at i:101788 original size:83 final size:84
Alignment explanation
Indices: 101453--101812 Score: 297
Period size: 83 Copynumber: 4.3 Consensus size: 84
101443 GGTGGCACTT
* * * * * * * *
101453 TTTAGTCCTCAAAGAGCAGGACGC---CTTTTCCTTCTCTCCTTTGTCCTCAAAGAGTATGACAT
1 TTTAGTCCTCAAAGAGCAGGATGCATTTTTTTCCTTTTTTTCTTTGTCCTCAAAGAGCAGGACAC
* *
101515 ATTTCATTTCCTTCTTTTCCC
66 ACTTCA-TT-CTCCTTTTCCC
* * ** *
101536 TTTTGTCCTCAAAGAGCAGGATACCCTTTTTT-CTTTTTTTCCTTTGTCCTCAAAGAGCAGGACG
1 TTTAGTCCTCAAAGAGCAGGATGCATTTTTTTCCTTTTTTT-CTTTGTCCTCAAAGAGCAGGACA
*
101600 CACTTCATGTCCTTCTTTTCCC
65 CACTTCAT-T-CTCCTTTTCCC
* * * *
101622 TTCTAGTTCTCAAAGAGTAGGATGCATTTTATTCTCC-TTTTTCCTTTGTCCTCAAAAAGCAGGA
1 TT-TAGTCCTCAAAGAGCAGGATGCATTTT-TT-TCCTTTTTTTCTTTGTCCTCAAAGAGCAGGA
* * *
101686 CACACTTAATT-TCTTTTTTCC
63 CACACTTCATTCTCCTTTTCCC
* * * * * *
101707 TTT-GTCTTCAAAGGGCAGGATGCATTTTCTTTCCTTTTTTTCTTAGTCCCCAATGAGCAGGACC
1 TTTAGTCCTCAAAGAGCAGGATGCATTTT-TTTCCTTTTTTTCTTTGTCCTCAAAGAGCAGGACA
*
101771 CATTTCATTCTCCTTTT--C
65 CACTTCATTCTCCTTTTCCC
*
101789 TTTAATCCTCAAAGAGCAGGATGC
1 TTTAGTCCTCAAAGAGCAGGATGC
101813 CCCCTTCCTT
Statistics
Matches: 223, Mismatches: 42, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
82 7 0.03
83 91 0.41
84 7 0.03
85 15 0.07
86 44 0.20
87 22 0.10
88 30 0.13
89 6 0.03
90 1 0.00
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.40
Consensus pattern (84 bp):
TTTAGTCCTCAAAGAGCAGGATGCATTTTTTTCCTTTTTTTCTTTGTCCTCAAAGAGCAGGACAC
ACTTCATTCTCCTTTTCCC
Found at i:102448 original size:20 final size:20
Alignment explanation
Indices: 102423--102476 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
102413 TACCCAGATG
102423 TATCGATACATTGTCCATTA
1 TATCGATACATTGTCCATTA
* * * *
102443 TATCGATACCTTATTCATTG
1 TATCGATACATTGTCCATTA
*
102463 TATTGATACATTGT
1 TATCGATACATTGT
102477 ATCGATACAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (20 bp):
TATCGATACATTGTCCATTA
Found at i:102474 original size:13 final size:13
Alignment explanation
Indices: 102458--102487 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
102448 ATACCTTATT
*
102458 CATTGTATTGATA
1 CATTGTATCGATA
102471 CATTGTATCGATA
1 CATTGTATCGATA
102484 CATT
1 CATT
102488 TTGGGATTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:104961 original size:79 final size:79
Alignment explanation
Indices: 104829--105045 Score: 285
Period size: 79 Copynumber: 2.7 Consensus size: 79
104819 TCATCTCGGG
* * * *
104829 GATACTCCAACCCTAGTTTTATTTCCAAAACATCAATTTGTCATAATCGGGGATACTCCAATCCC
1 GATACTCCAACCCGAGTTTTATTTCCAAAACAACAATTTTTCATAATCAGGGATACTCCAATCCC
*
104894 GTTATTTTCGAGGA
66 GTTATTTCCGAGGA
*
104908 GATACTCCAATCCCGA-TTTTATTTCCAAAACAACAATTTTTCACAATCAGGGATACTCCAATCC
1 GATACTCCAA-CCCGAGTTTTATTTCCAAAACAACAATTTTTCATAATCAGGGATACTCCAATCC
* *
104972 TGTTATTTCCGAGGG
65 CGTTATTTCCGAGGA
* * * *
104987 GATACTCCAACCCCGATTTTTATTTCTAAAAC-ACTAATTTTCCATAATCAGAGATACTC
1 GATACTCCAA-CCCGAGTTTTATTTCCAAAACAAC-AATTTTTCATAATCAGGGATACTC
105046 TAACCTCGAT
Statistics
Matches: 122, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
79 83 0.68
80 39 0.32
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.33
Consensus pattern (79 bp):
GATACTCCAACCCGAGTTTTATTTCCAAAACAACAATTTTTCATAATCAGGGATACTCCAATCCC
GTTATTTCCGAGGA
Found at i:105198 original size:130 final size:130
Alignment explanation
Indices: 104906--105241 Score: 442
Period size: 130 Copynumber: 2.6 Consensus size: 130
104896 TATTTTCGAG
* * *
104906 GAGATACTCCAATCCCGATTTTATTTCCAAAACAACAATTTTTCACAATCAGGGATACTCCAATC
1 GAGATACTCTAA-CCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCAATC
* * * * *
104971 CTGTTATTTCCGAGGGGATACTCCAACCCCGATTTTTATTTCTAAAACACTAATTTTCCATAATC
65 CCGTTATTTCCGAAGGGATACTCCAACCCCGAGTTTTATTTATAAAACACCAATTTTCCATAATC
105036 A
130 A
* * * *
105037 GAGATACTCTAACCTCGATTTTATTTTCAAAATACCAATTTTTCGCAATCGGGGGTACTCCAATC
1 GAGATACTCTAACC-CGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCAATC
* * * *
105102 CCGTTATATT-TGAAGGGATACTCCAATCTCG-GTTTTATTTATAAAACACCAATTTTTCATAAT
65 CCGTTAT-TTCCGAAGGGATACTCCAACCCCGAGTTTTATTTATAAAACACCAATTTTCCATAAT
105165 CA
129 CA
* * * *
105167 GAGATAGTCTAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGAGGATACTCTAACC
1 GAGATACTCTAAC-CCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCAATC
105232 CCGTTATTTC
65 CCGTTATTTC
105242 ATCGAGATAC
Statistics
Matches: 177, Mismatches: 24, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
129 2 0.01
130 94 0.53
131 79 0.45
132 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (130 bp):
GAGATACTCTAACCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCAATCC
CGTTATTTCCGAAGGGATACTCCAACCCCGAGTTTTATTTATAAAACACCAATTTTCCATAATCA
Found at i:105199 original size:51 final size:51
Alignment explanation
Indices: 105117--105230 Score: 142
Period size: 51 Copynumber: 2.2 Consensus size: 51
105107 ATATTTGAAG
* * * *
105117 GGATACTCCAA-TCTCGGTTTTATTTATAAAACACCAATTTTTCATAATC-A
1 GGATACTCTAACTC-CGATTTTATTTACAAAACACCAATTTTTCACAATCGA
* *
105167 GAGATAGTCTAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGA
1 G-GATACTCTAACTCCGATTTTATTTACAAAACACCAATTTTTCACAATCGA
105219 GGATACTCTAAC
1 GGATACTCTAAC
105231 CCCGTTATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
50 1 0.02
51 49 0.91
52 4 0.07
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (51 bp):
GGATACTCTAACTCCGATTTTATTTACAAAACACCAATTTTTCACAATCGA
Found at i:105253 original size:27 final size:28
Alignment explanation
Indices: 105214--105268 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
105204 ATTTTTCACA
*
105214 ATCGAGGATACTCTAACCCCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
* *
105242 ATCGA-GATACTCCAACTCTGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
105269 CGAAGGGATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:105454 original size:79 final size:79
Alignment explanation
Indices: 105247--105571 Score: 320
Period size: 79 Copynumber: 4.1 Consensus size: 79
105237 ATTTCATCGA
* * * * * * * *
105247 GATACTCCAACTCTGTTATTTCCGAAGGGATCCTCCAA-CCTCGACTTTATTTCAAAAATATTGA
1 GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCT-GACTTTATTTCTAAAACACTGA
105311 -TTTCTCACAATCGGG
65 TTTTC-CACAATCGGG
* * * * * * *
105326 GATACT-CAACCCCATTACTTTCGCGGGGATACTCCAACCC-CAGCCTTATTTCTAAAGCATTGA
1 GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCTGA-CTTTATTTCTAAAACACTGA
105389 TTTTCCACAATCGGG
65 TTTTCCACAATCGGG
*
105404 GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCTGATTTTATTT-TCAAAACACTGA
1 GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCTGACTTTATTTCT-AAAACACTGA
* *
105468 TTTTCCATAATCAGG
65 TTTTCCACAATCGGG
* * * * * *
105483 GATACTCCAACCCTGTTA-TTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAGAACACCGA
1 GATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCCTGACTTTATTTCTAAAACACTGA
* *
105547 TTTTCCATAGTCGGG
65 TTTTCCACAATCGGG
105562 GAATACTCCA
1 G-ATACTCCA
105572 GCCCTATTGT
Statistics
Matches: 207, Mismatches: 30, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
77 1 0.00
78 60 0.29
79 137 0.66
80 9 0.04
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (79 bp):
GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCTGACTTTATTTCTAAAACACTGAT
TTTCCACAATCGGG
Found at i:107938 original size:10 final size:10
Alignment explanation
Indices: 107923--107952 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
107913 ATTGCTTGGC
107923 TTTCTTGTTG
1 TTTCTTGTTG
*
107933 TTTCTTGTTT
1 TTTCTTGTTG
107943 TTTCTTGTTG
1 TTTCTTGTTG
107953 ATCTTCAGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.10, G:0.17, T:0.73
Consensus pattern (10 bp):
TTTCTTGTTG
Found at i:108349 original size:10 final size:10
Alignment explanation
Indices: 108334--108363 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
108324 ATTGCTTGGC
108334 TTTCTTGTTG
1 TTTCTTGTTG
*
108344 TTTCTTGTTT
1 TTTCTTGTTG
108354 TTTCTTGTTG
1 TTTCTTGTTG
108364 ATCTTCAGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.10, G:0.17, T:0.73
Consensus pattern (10 bp):
TTTCTTGTTG
Found at i:108516 original size:411 final size:411
Alignment explanation
Indices: 107754--108582 Score: 1622
Period size: 411 Copynumber: 2.0 Consensus size: 411
107744 ACACAACCTT
107754 ATACAATACAAATGGAATTTACAAACTCAAAATACCTCTAAATAGGCAAGTGTTTGTGGAAGTGT
1 ATACAATACAAATGGAATTTACAAACTCAAAATACCTCTAAATAGGCAAGTGTTTGTGGAAGTGT
107819 AAGTACAAAATACAAAAGAGCTTGACAAAGAATGACAATGAAAGAATAAAAGCTCTTTGAACTCG
66 AAGTACAAAATACAAAAGAGCTTGACAAAGAATGACAATGAAAGAATAAAAGCTCTTTGAACTCG
107884 ATTTTAAGATGTAAAATGATAAAACTTGAATTGCTTGGCTTTCTTGTTGTTTCTTGTTTTTTCTT
131 ATTTTAAGATGTAAAATGATAAAACTTGAATTGCTTGGCTTTCTTGTTGTTTCTTGTTTTTTCTT
107949 GTTGATCTTCAGCTGATGGAAGCTCATATTTATAAGCTAGAATGTTGATATATCCGTTGCTACAA
196 GTTGATCTTCAGCTGATGGAAGCTCATATTTATAAGCTAGAATGTTGATATATCCGTTGCTACAA
108014 TGATTGTGTTATTAGCTGTTATTAACTTGTTGGGAGCTTGTTTTTACACATTCACACTCCTATGT
261 TGATTGTGTTATTAGCTGTTATTAACTTGTTGGGAGCTTGTTTTTACACATTCACACTCCTATGT
*
108079 ATTGATACAATTCATAATGTATCGATATAATGCATTTGAAATTCTAGTCGCTGGCTCAATGTATC
326 ATTGATACAATTCATAATGTATCGATACAATGCATTTGAAATTCTAGTCGCTGGCTCAATGTATC
108144 GATACAATTAACAATGTATCG
391 GATACAATTAACAATGTATCG
108165 ATACAATACAAATGGAATTTACAAACTCAAAATACCTCTAAATAGGCAAGTGTTTGTGGAAGTGT
1 ATACAATACAAATGGAATTTACAAACTCAAAATACCTCTAAATAGGCAAGTGTTTGTGGAAGTGT
108230 AAGTACAAAATACAAAAGAGCTTGACAAAGAATGACAATGAAAGAATAAAAGCTCTTTGAACTCG
66 AAGTACAAAATACAAAAGAGCTTGACAAAGAATGACAATGAAAGAATAAAAGCTCTTTGAACTCG
108295 ATTTTAAGATGTAAAATGATAAAACTTGAATTGCTTGGCTTTCTTGTTGTTTCTTGTTTTTTCTT
131 ATTTTAAGATGTAAAATGATAAAACTTGAATTGCTTGGCTTTCTTGTTGTTTCTTGTTTTTTCTT
*
108360 GTTGATCTTCAGCTGATGGAAGCTCATATTTATAAGCTAGAATGTTGATATATCTGTTGCTACAA
196 GTTGATCTTCAGCTGATGGAAGCTCATATTTATAAGCTAGAATGTTGATATATCCGTTGCTACAA
108425 TGATTGTGTTATTAGCTGTTATTAACTTGTTGGGAGCTTGTTTTTACACATTCACACTCCTATGT
261 TGATTGTGTTATTAGCTGTTATTAACTTGTTGGGAGCTTGTTTTTACACATTCACACTCCTATGT
108490 ATTGATACAATTCATAATGTATCGATACAATGCATTTGAAATTCTAGTCGCTGGCTCAATGTATC
326 ATTGATACAATTCATAATGTATCGATACAATGCATTTGAAATTCTAGTCGCTGGCTCAATGTATC
* *
108555 GATACAATTCACCATGTATCG
391 GATACAATTAACAATGTATCG
108576 ATACAAT
1 ATACAAT
108583 TCAATCATGA
Statistics
Matches: 414, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
411 414 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (411 bp):
ATACAATACAAATGGAATTTACAAACTCAAAATACCTCTAAATAGGCAAGTGTTTGTGGAAGTGT
AAGTACAAAATACAAAAGAGCTTGACAAAGAATGACAATGAAAGAATAAAAGCTCTTTGAACTCG
ATTTTAAGATGTAAAATGATAAAACTTGAATTGCTTGGCTTTCTTGTTGTTTCTTGTTTTTTCTT
GTTGATCTTCAGCTGATGGAAGCTCATATTTATAAGCTAGAATGTTGATATATCCGTTGCTACAA
TGATTGTGTTATTAGCTGTTATTAACTTGTTGGGAGCTTGTTTTTACACATTCACACTCCTATGT
ATTGATACAATTCATAATGTATCGATACAATGCATTTGAAATTCTAGTCGCTGGCTCAATGTATC
GATACAATTAACAATGTATCG
Found at i:108573 original size:20 final size:20
Alignment explanation
Indices: 108548--108585 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
108538 CGCTGGCTCA
108548 ATGTATCGATACAATTCACC
1 ATGTATCGATACAATTCACC
108568 ATGTATCGATACAATTCA
1 ATGTATCGATACAATTCA
108586 ATCATGAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAATTCACC
Found at i:108684 original size:32 final size:33
Alignment explanation
Indices: 108643--108704 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
108633 CATTTTATGG
108643 TGTATCAATACAAAG-AACATGTATCGATATAA
1 TGTATCAATACAAAGTAACATGTATCGATATAA
* *
108675 TGTATCAATACCAAGTAATATGTATCGATA
1 TGTATCAATACAAAGTAACATGTATCGATA
108705 CATCTGGGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.31
Consensus pattern (33 bp):
TGTATCAATACAAAGTAACATGTATCGATATAA
Found at i:110572 original size:13 final size:13
Alignment explanation
Indices: 110554--110619 Score: 132
Period size: 13 Copynumber: 5.1 Consensus size: 13
110544 ACATTAGCCT
110554 TTGTATCGATACA
1 TTGTATCGATACA
110567 TTGTATCGATACA
1 TTGTATCGATACA
110580 TTGTATCGATACA
1 TTGTATCGATACA
110593 TTGTATCGATACA
1 TTGTATCGATACA
110606 TTGTATCGATACA
1 TTGTATCGATACA
110619 T
1 T
110620 GGACAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 53 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:110703 original size:13 final size:13
Alignment explanation
Indices: 110685--110715 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
110675 CGATACATGG
110685 TACATTGTATCGA
1 TACATTGTATCGA
110698 TACATTGTATCGA
1 TACATTGTATCGA
110711 TACAT
1 TACAT
110716 GATGAATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:110709 original size:33 final size:33
Alignment explanation
Indices: 110669--110736 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
110659 CTACCATTGT
*
110669 TTGTATCGATACATGGT-ACATTGTATCGATACA
1 TTGTATCGATACATGATGA-ATTGTATCGATACA
110702 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAATTGTATCGATACA
110735 TT
1 TT
110737 ACTTCTAACG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTGTATCGATACA
Found at i:112330 original size:9 final size:9
Alignment explanation
Indices: 112313--112346 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
112303 GTCAACTATC
112313 AATGATGAT
1 AATGATGAT
112322 GAA-GATGAT
1 -AATGATGAT
112331 AATGATGAT
1 AATGATGAT
112340 AATGATG
1 AATGATG
112347 GTGACTCGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.09
9 19 0.83
10 2 0.09
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.29
Consensus pattern (9 bp):
AATGATGAT
Found at i:119201 original size:20 final size:20
Alignment explanation
Indices: 119158--119211 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
119148 ACATTATGCT
***
119158 TTGTATCGATACAT-GTTTA
1 TTGTATCGATACATGGACAA
119177 TTGTATCGATACATGGACAA
1 TTGTATCGATACATGGACAA
119197 TTGTATCGATACATG
1 TTGTATCGATACATG
119212 TAACTGGCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGGACAA
Found at i:119274 original size:13 final size:13
Alignment explanation
Indices: 119256--119286 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
119246 TGATACATGG
*
119256 TACATTGTATTGA
1 TACATTGTATCGA
119269 TACATTGTATCGA
1 TACATTGTATCGA
119282 TACAT
1 TACAT
119287 GATGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:119296 original size:33 final size:33
Alignment explanation
Indices: 119242--119308 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
119232 ACCACTGTTC
* * *
119242 GTATTGATACATGGTACATTGTATTGATACATT
1 GTATCGATACATGATACATTGTATCGATACATT
*
119275 GTATCGATACATGATGA-ATTGTATCGATATATT
1 GTATCGATACATGAT-ACATTGTATCGATACATT
119308 G
1 G
119309 CTTCTAACGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (33 bp):
GTATCGATACATGATACATTGTATCGATACATT
Found at i:120232 original size:20 final size:20
Alignment explanation
Indices: 120199--120237 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
120189 TGACCTAATA
* *
120199 TAGTGTATGTATCGATACAT
1 TAGTGAATGCATCGATACAT
120219 TAGTGAATGCATCGATACA
1 TAGTGAATGCATCGATACA
120238 ATCTGGAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (20 bp):
TAGTGAATGCATCGATACAT
Found at i:120258 original size:47 final size:48
Alignment explanation
Indices: 120205--120314 Score: 123
Period size: 47 Copynumber: 2.3 Consensus size: 48
120195 AATATAGTGT
* *
120205 ATGTATCGATACATTAGTGAATGCATCGATACAATCT-GGAAACCCAG
1 ATGTATCGATACATTAGTCAATGCATCGATACAATCTAGAAAACCCAG
* * * * * * *
120252 ATGTATCGATGCATTATTCATTGTATTGATACATTCTAGAAAACCTAG
1 ATGTATCGATACATTAGTCAATGCATCGATACAATCTAGAAAACCCAG
*
120300 ATGTATTGATACATT
1 ATGTATCGATACATT
120315 TTGCATTGTA
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
47 30 0.59
48 21 0.41
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (48 bp):
ATGTATCGATACATTAGTCAATGCATCGATACAATCTAGAAAACCCAG
Found at i:120467 original size:190 final size:192
Alignment explanation
Indices: 120144--120526 Score: 515
Period size: 190 Copynumber: 2.0 Consensus size: 192
120134 TGTGGTAAAA
* **
120144 AGTTTGAAGAAGATGAGTGAAAAAGGAGTGACTATTATGCAAAATTGACCTAATATAGTGTATGT
1 AGTTTGAAGAAGATGAGTGAAAAAGGAGTGACTATTACGCAAAACCGACCTAATATAGTGTATGT
* * * *
120209 ATCGATACATTAGTGAATGCATCGATACAATCTGGAAACCCAGATGTATCGATGCATTATTCA-T
66 ATCAATACATTAGTGAATGCATCGATACAATCTAGAAACCCAGATGTATCAATACATTATTCATT
**
120273 -TGTATTGATACATTCTAG-AAAACCTAGATGTATTGATACATTTTGCATTGTATCAATACAG
131 ATGTATTGATACATTC-AGAAAAACCTAGATGTATCAATACATTTTGCATTGTATCAATACAG
*
120334 AGTTTGAGGAAGATGAGTGAAAAAGGAGTGACTA-T-CGCACGAAACCGACCTAATATAGTGTAT
1 AGTTTGAAGAAGATGAGTGAAAAAGGAGTGACTATTACGCA--AAACCGACCTAATATAGTGTAT
* * * * **
120397 GTATCAATACATTAGTGAATGTATTGATTCAATCTAGAAACCTAGATGTATCAATATGTTATTCA
64 GTATCAATACATTAGTGAATGCATCGATACAATCTAGAAACCCAGATGTATCAATACATTATTCA
* * *
120462 TTGTATGTATTGATATATTCCGAAAAACCTAGATGTATCAATACATTTTGCATTGTATCATTACA
129 -T-TATGTATTGATACATTCAGAAAAACCTAGATGTATCAATACATTTTGCATTGTATCAATACA
120527 TTCTAGAAAA
Statistics
Matches: 167, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
188 3 0.02
189 1 0.01
190 108 0.65
193 2 0.01
194 53 0.32
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (192 bp):
AGTTTGAAGAAGATGAGTGAAAAAGGAGTGACTATTACGCAAAACCGACCTAATATAGTGTATGT
ATCAATACATTAGTGAATGCATCGATACAATCTAGAAACCCAGATGTATCAATACATTATTCATT
ATGTATTGATACATTCAGAAAAACCTAGATGTATCAATACATTTTGCATTGTATCAATACAG
Found at i:121801 original size:166 final size:165
Alignment explanation
Indices: 121589--122192 Score: 801
Period size: 166 Copynumber: 3.6 Consensus size: 165
121579 AAGAAATTGA
* * * * *
121589 AGTTTTCTAATTCGTAAATTTTTTTGGGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCA
1 AGTTTTCTACTCCATAAATGTTTTCGGGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCA
121654 AATATTATTATTTATTTCATAATAAATATGTTTTCAAAAATTCATTCATTTTCATTCATTTTTCA
66 AATATTATTATTTATTTCATAATAAATATGTTTTCAAAAATTCATTCATTTTCATTCATTTTTCA
121719 TTTTTTCCTTGAATTCTCCATATTTTGAAAATACAG
131 TTTTTTCCTTGAATTCTCCATATTTTGAAAATAC-G
121755 AGTTTTCTACTCCATAAATGTTTTCGGGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCA
1 AGTTTTCTACTCCATAAATGTTTTCGGGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCA
121820 AATATTATTATTTATTTCATAATAAATATGTTTTCAAAAATTCATTCATTTTCATTCATTTTTCA
66 AATATTATTATTTATTTCATAATAAATATGTTTTCAAAAATTCATTCATTTTCATTCATTTTTCA
121885 TTTTTTCCTTGAATTCTCCATATTTTGAAAATACGG
131 TTTTTTCCTTGAATTCTCCATATTTTGAAAATAC-G
121921 AGTTTTCTACTCCATAAATGTTTTCGGGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCA
1 AGTTTTCTACTCCATAAATGTTTTCGGGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCA
* * * * * * * *
121986 AATATAATCATTTAATTCATATTAAATCAT-TTTTGAAAAATTCATTTATTTTCA-TGAGTTTTG
66 AATATTATTATTTATTTCATAATAAAT-ATGTTTTCAAAAATTCATTCATTTTCATTCA-TTTTT
* * * *
122049 AATTTTTTTCTTTGAAGTC-CCCT-TTTTCGAGAAAT-CG
129 CA-TTTTTTCCTTGAATTCTCCATATTTT-GA-AAATACG
* * * * * * **
122086 AGTTTTCTTCTCCGTAAATCTTTTGGGGGGGATTTTTCTCGATTTAAAATTTTTAAAATTCATCT
1 AGTTTTCTACTCCATAAATGTTTTCGGGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATC-
* * *
122151 AAA-ATTGTTATTAAATTTC-TATTAAAT-TAGTTTTGCAAAAAT
65 AAATATTATTATT-TATTTCATAATAAATAT-GTTTT-CAAAAAT
122193 CAATTTATTT
Statistics
Matches: 396, Mismatches: 32, Indels: 20
0.88 0.07 0.04
Matches are distributed among these distances:
163 1 0.00
165 81 0.20
166 294 0.74
167 20 0.05
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.50
Consensus pattern (165 bp):
AGTTTTCTACTCCATAAATGTTTTCGGGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCA
AATATTATTATTTATTTCATAATAAATATGTTTTCAAAAATTCATTCATTTTCATTCATTTTTCA
TTTTTTCCTTGAATTCTCCATATTTTGAAAATACG
Found at i:123748 original size:111 final size:112
Alignment explanation
Indices: 123531--123752 Score: 365
Period size: 111 Copynumber: 2.0 Consensus size: 112
123521 TGGCATTTAC
* *
123531 TGAAAAAAATTACATGGTGAGAGTTCATTGGCTGCAATGGTTGCCAAGCATTAACTCCAGTCACC
1 TGAAAAAAATTACATGGTGAGAGTTCATTGGCTGCAATGGCTGCCAAGCATTAACTCCAGCCACC
*
123596 GTACCTTTTTCCTAAGCTCTGCCAGTCACCATAAGCAATAATATTAA
66 GTACCTTTTTCCTAAGCTCTGCCAGCCACCATAAGCAATAATATTAA
* * *
123643 TGAAAAAAATTACATGGTGAGAGTTCATTGGCTGCCATGGCTGCGAAGCATTAA-TCTAGCCACC
1 TGAAAAAAATTACATGGTGAGAGTTCATTGGCTGCAATGGCTGCCAAGCATTAACTCCAGCCACC
* *
123707 TTACCTTTTTCCTAAGCTCTGCCCGCCACCATAAGCAATAATATTA
66 GTACCTTTTTCCTAAGCTCTGCCAGCCACCATAAGCAATAATATTA
123753 GCCACCTCAG
Statistics
Matches: 102, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
111 51 0.50
112 51 0.50
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (112 bp):
TGAAAAAAATTACATGGTGAGAGTTCATTGGCTGCAATGGCTGCCAAGCATTAACTCCAGCCACC
GTACCTTTTTCCTAAGCTCTGCCAGCCACCATAAGCAATAATATTAA
Found at i:130030 original size:11 final size:10
Alignment explanation
Indices: 130011--130059 Score: 53
Period size: 11 Copynumber: 4.6 Consensus size: 10
130001 AAAAAAGAGT
130011 GAAAAAAAAA
1 GAAAAAAAAA
130021 GAAAAGAAAAAA
1 G-AAA-AAAAAA
*
130033 GAAAGGAAAAA
1 GAAA-AAAAAA
*
130044 GAAAAAAATA
1 GAAAAAAAAA
130054 GAAAAA
1 GAAAAA
130060 TAGTAGGATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 11 0.32
11 16 0.47
12 7 0.21
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:130030 original size:12 final size:12
Alignment explanation
Indices: 129989--130048 Score: 54
Period size: 12 Copynumber: 5.0 Consensus size: 12
129979 GAAAGTGAAG
129989 GAAAAATAGAAAA
1 GAAAAA-AGAAAA
*
130002 -AAAAAGAGTGAAA
1 GAAAAA-AG-AAAA
130015 -AAAAAAGAAAA
1 GAAAAAAGAAAA
130026 GAAAAAAG-AAA
1 GAAAAAAGAAAA
*
130037 GGAAAAAGAAAA
1 GAAAAAAGAAAA
130049 AAATAGAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
11 13 0.32
12 19 0.47
13 8 0.20
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.03
Consensus pattern (12 bp):
GAAAAAAGAAAA
Found at i:130045 original size:18 final size:15
Alignment explanation
Indices: 129996--130058 Score: 65
Period size: 15 Copynumber: 4.1 Consensus size: 15
129986 AAGGAAAAAT
*
129996 AGAAAAAAAAAG-AG
1 AGAAAAAAAAAGAAA
*
130010 TGAAAAAAAAAGAAA
1 AGAAAAAAAAAGAAA
130025 AGAAAAAAGAAAGGAAAA
1 AGAAAAAA-AAA-G-AAA
*
130043 AGAAAAAAATAGAAA
1 AGAAAAAAAAAGAAA
130058 A
1 A
130059 ATAGTAGGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
14 11 0.27
15 12 0.29
16 4 0.10
17 3 0.07
18 11 0.27
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.03
Consensus pattern (15 bp):
AGAAAAAAAAAGAAA
Found at i:130067 original size:28 final size:27
Alignment explanation
Indices: 129996--130059 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
129986 AAGGAAAAAT
*
129996 AGAAAAAAAAAGAGTGAAAAAAAAAGAAA
1 AGAAAAAAGAA-AG-GAAAAAAAAAGAAA
130025 AGAAAAAAGAAAGGAAAAAGAAAA-AAA
1 AGAAAAAAGAAAGGAAAAA-AAAAGAAA
130052 TAGAAAAA
1 -AGAAAAA
130060 TAGTAGGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
27 9 0.28
28 13 0.41
29 10 0.31
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (27 bp):
AGAAAAAAGAAAGGAAAAAAAAAGAAA
Found at i:130113 original size:11 final size:11
Alignment explanation
Indices: 130097--130121 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
130087 AATCAAGATA
130097 TTTAGTAAATT
1 TTTAGTAAATT
130108 TTTAGTAAATT
1 TTTAGTAAATT
130119 TTT
1 TTT
130122 CATGCTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (11 bp):
TTTAGTAAATT
Found at i:132783 original size:44 final size:42
Alignment explanation
Indices: 132635--132783 Score: 106
Period size: 44 Copynumber: 3.4 Consensus size: 42
132625 GATAACATTC
* * * * *
132635 GCATTTGCATTGTTTCATGTGCATTTGCTATTTTATTGATCCCT
1 GCATTTGCATCGTTTCAT-AGCATTTGCCA-TTTATTGATGCTT
*
132679 GCATTTGCATCGTTTCACCTA-CATTTG-CATTT-TAGATGGCATT
1 GCATTTGCATCGTTTCA--TAGCATTTGCCATTTATTGAT-GC-TT
* ** *
132722 GGTATTTGTGTCATTTCATAAGCATTTGCCACTTTATTGATGCTT
1 -GCATTTGCATCGTTTCAT-AGCATTTGCCA-TTTATTGATGCTT
132767 GCATTTGCATCGTTTCA
1 GCATTTGCATCGTTTCA
132784 CGCATATCTA
Statistics
Matches: 80, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
41 4 0.05
42 5 0.06
43 3 0.04
44 54 0.68
45 4 0.05
46 6 0.08
47 4 0.05
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.46
Consensus pattern (42 bp):
GCATTTGCATCGTTTCATAGCATTTGCCATTTATTGATGCTT
Found at i:133278 original size:88 final size:90
Alignment explanation
Indices: 133126--133382 Score: 330
Period size: 88 Copynumber: 2.9 Consensus size: 90
133116 ATTATGGAGT
* *
133126 CCACACACTCT-CAATCATATCCCTCTTT--TTCAACCACTAAATGGTATTGATGCATCACAAAG
1 CCACACATTCTCCAATCATAT--CTCTTTCATCCAACCACT-AATGGTATTGATGCATCACAAAG
*
133188 CCTGATTTCCTTGGGGGCAAGGTACAAC
63 CCTGATTTCCTTAGGGGCAAGGTACAAC
*
133216 CCACACATTCTCCAATCATATCTCTTTCATCCAACCACT-A-GGTATCGATGCATCACAAAGCCT
1 CCACACATTCTCCAATCATATCTCTTTCATCCAACCACTAATGGTATTGATGCATCACAAAGCCT
* ** *
133279 GATTTCCTTAGGGGTAAGGTGTAGC
66 GATTTCCTTAGGGGCAAGGTACAAC
*
133304 CCACACATTCCCCAATCATATCT-TCTTCATCCAACCACTAGATGGTATTGATGCATCACAAAGC
1 CCACACATTCTCCAATCATATCTCT-TTCATCCAACCACTA-ATGGTATTGATGCATCACAAAGC
133368 CTGATTATCC-TAGGG
64 CTGATT-TCCTTAGGG
133383 CAAAGATATC
Statistics
Matches: 149, Mismatches: 10, Indels: 15
0.86 0.06 0.09
Matches are distributed among these distances:
87 1 0.01
88 78 0.52
89 7 0.05
90 11 0.07
91 49 0.33
92 3 0.02
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.28
Consensus pattern (90 bp):
CCACACATTCTCCAATCATATCTCTTTCATCCAACCACTAATGGTATTGATGCATCACAAAGCCT
GATTTCCTTAGGGGCAAGGTACAAC
Found at i:133442 original size:88 final size:89
Alignment explanation
Indices: 133126--133447 Score: 327
Period size: 88 Copynumber: 3.6 Consensus size: 89
133116 ATTATGGAGT
* * ** * *
133126 CCACACACTCTCAATCATATCCCTCTTTTTCAACCACTAAATGGTATTGATGCATCACAAAGCCT
1 CCACACATTCCCAATCATATCCCTCTCATCCAACCACTAGATGGTATTGATGCATCACAAAGCCT
* *
133191 GATTTCCTTGGGGGCAAGGTACAAC
66 GATTTCCTT-AGGGCAAGGTATAAC
* * *
133216 CCACACATTCTCCAATCATATCTCTTTCATCCAACCACT--A-GGTATCGATGCATCACAAAGCC
1 CCACACATTC-CCAATCATATCCCTCTCATCCAACCACTAGATGGTATTGATGCATCACAAAGCC
* * *
133278 TGATTTCCTTAGGGGTAAGGTGTAGC
65 TGATTTCCTTA-GGGCAAGGTATAAC
*
133304 CCACACATTCCCCAATCATAT-CTTCTTCATCCAACCACTAGATGGTATTGATGCATCACAAAGC
1 CCACACATT-CCCAATCATATCCCTC-TCATCCAACCACTAGATGGTATTGATGCATCACAAAGC
* *
133368 CTGATTATCC-TAGGGCAAAG-ATATC
64 CTGATT-TCCTTAGGGCAAGGTATAAC
** * *
133393 CCGAC-CATTCCCAATCATATCCCTCTC-TTTAAGCTACTAGATGATATTGATGCAT
1 CC-ACACATTCCCAATCATATCCCTCTCATCCAA-CCACTAGATGGTATTGATGCAT
133448 TATATGACCA
Statistics
Matches: 195, Mismatches: 26, Indels: 24
0.80 0.11 0.10
Matches are distributed among these distances:
87 4 0.02
88 106 0.54
89 14 0.07
90 18 0.09
91 50 0.26
92 3 0.02
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (89 bp):
CCACACATTCCCAATCATATCCCTCTCATCCAACCACTAGATGGTATTGATGCATCACAAAGCCT
GATTTCCTTAGGGCAAGGTATAAC
Found at i:133668 original size:35 final size:35
Alignment explanation
Indices: 133622--133818 Score: 218
Period size: 35 Copynumber: 5.7 Consensus size: 35
133612 AAATTTTCTC
* * *
133622 TCAAACTCTTTCCATTATCATTTAATTATATCCT-G
1 TCAAACTCTTTCCATCATCATTTAACTGTAT-CTGG
* ** *
133657 TCAAACTCTTTCCATCATTATTTGGCTGTATCTGA
1 TCAAACTCTTTCCATCATCATTTAACTGTATCTGG
* **
133692 TCAAACTCTTTCCATCATCGTTTGGCTGTATCTGG
1 TCAAACTCTTTCCATCATCATTTAACTGTATCTGG
* * ** *
133727 TCAAACACTTTCTATCATTGTTTAATTGTATCTGG
1 TCAAACTCTTTCCATCATCATTTAACTGTATCTGG
* *
133762 TCAAGCTCTTTCCATCATCATTTAACTATATCTGG
1 TCAAACTCTTTCCATCATCATTTAACTGTATCTGG
133797 TCAAAC-CTTTCCATCATCATTT
1 TCAAACTCTTTCCATCATCATTT
133819 GACTATACTT
Statistics
Matches: 137, Mismatches: 24, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
34 18 0.13
35 119 0.87
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.43
Consensus pattern (35 bp):
TCAAACTCTTTCCATCATCATTTAACTGTATCTGG
Found at i:133738 original size:70 final size:69
Alignment explanation
Indices: 133622--133822 Score: 242
Period size: 70 Copynumber: 2.9 Consensus size: 69
133612 AAATTTTCTC
* * *
133622 TCAAACTCTTTCCATTATCATTTAATTATATCCT-GTCAAACTCTTTCCATCATTATTTGGCTGT
1 TCAAACTCTTTCCATCATCATTTAACTATAT-CTGGTCAAAC-CTTTCCATCATTATTTGACTGT
133686 ATCTGA
64 ATCTGA
* ** * * * * *
133692 TCAAACTCTTTCCATCATCGTTTGGCTGTATCTGGTCAAACACTTTCTATCATTGTTTAATTGTA
1 TCAAACTCTTTCCATCATCATTTAACTATATCTGGTCAAAC-CTTTCCATCATTATTTGACTGTA
*
133757 TCTGG
65 TCTGA
* *
133762 TCAAGCTCTTTCCATCATCATTTAACTATATCTGGTCAAACCTTTCCATCATCATTTGACT
1 TCAAACTCTTTCCATCATCATTTAACTATATCTGGTCAAACCTTTCCATCATTATTTGACT
133823 ATACTTAATC
Statistics
Matches: 107, Mismatches: 23, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
69 17 0.16
70 90 0.84
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.42
Consensus pattern (69 bp):
TCAAACTCTTTCCATCATCATTTAACTATATCTGGTCAAACCTTTCCATCATTATTTGACTGTAT
CTGA
Found at i:133955 original size:60 final size:58
Alignment explanation
Indices: 133813--134434 Score: 288
Period size: 60 Copynumber: 10.3 Consensus size: 58
133803 CTTTCCATCA
** * * * *
133813 TCATTTGACTATACTTAATCAAATCTTACCCCTCTTGATTGTATTCGGTCAAGTCTTTCC
1 TCATTTGACTATA-TTGGTCAAATCTTACCCCTCTTGACTATATTC-GTCAAGACTATCC
* * * * * * * * *
133873 TTACTAGA-TGGTACTCGATCAAATCTTACCCCTCTTGACTGTATTCAGCCAAGACTAACC
1 TCATTTGACT-ATA-TTGGTCAAATCTTACCCCTCTTGACTATATTC-GTCAAGACTATCC
* * ** *
133933 TCATTTGACTATATTCGGTCAAAT-TTCACCCCTGCTTAACTGTATTCGATCAAGTTTTTCC
1 TCATTTGACTATATT-GGTCAAATCTT-ACCCCT-CTTGACTATATTCG-TCAAGACTATCC
* * * * * *
133994 TCATTTGACTATACTTGGTCAAATCTCACCTCTCTTGATTTTATTCGATCAAAACTGTCC
1 TCATTTGACTATA-TTGGTCAAATCTTACCCCTCTTGACTATATTCG-TCAAGACTATCC
* * * * *
134054 TCATTTGACAATATTAGATCAAAT-TTAAACCCCACTTGACTATATTCGGTCAAGTCTTTCC
1 TCATTTGACTATATT-GGTCAAATCTT--ACCCCTCTTGACTATATTC-GTCAAGACTATCC
* * * * *
134115 TCATTTAACTGTACTGGATCAAATCTCACCCTTCTTGACTATATTCGGTCAAGACTATCC
1 TCATTTGACTATATTGG-TCAAATCTTACCCCTCTTGACTATATTC-GTCAAGACTATCC
* * ** * * * * * *
134175 TCATTTGATTGTATTTGGTCAAAT-TTCATGCTTGCTTGACTGTATTTGGTCAAGTCTTTCT
1 TCATTTGACTATA-TTGGTCAAATCTT-ACCCCT-CTTGACTATA-TTCGTCAAGACTATCC
* ** * * * * * *
134236 TCATTTGACTGTACTCAGTCAAATCTCACTCTTCTTAATTATATTCGATCAAGAATATCC
1 TCATTTGACTATA-TTGGTCAAATCTTACCCCTCTTGACTATATTCG-TCAAGACTATCC
* * * * ** *
134296 -CTATTTGACTGA-ATTCAGTAAAAT-TTCACCCCTGCTTGACTATATTTAGTTAAGTTTTTCC
1 TC-ATTTGACT-ATATT-GGTCAAATCTT-ACCCCT-CTTGACTATA-TTCGTCAAGACTATCC
** * * * *
134357 TCATTTGACTATACTTCATCAAATCTTACCTCTCTTGACTGTATTTAGTCAAGGCCT-TCC
1 TCATTTGACTATA-TTGGTCAAATCTTACCCCTCTTGACTATA-TTCGTCAA-GACTATCC
134417 TCATTTGACTATATTGGT
1 TCATTTGACTATATTGGT
134435 GTTAGGGCCT
Statistics
Matches: 429, Mismatches: 102, Indels: 63
0.72 0.17 0.11
Matches are distributed among these distances:
59 17 0.04
60 226 0.53
61 170 0.40
62 16 0.04
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (58 bp):
TCATTTGACTATATTGGTCAAATCTTACCCCTCTTGACTATATTCGTCAAGACTATCC
Found at i:134029 original size:121 final size:120
Alignment explanation
Indices: 133813--134431 Score: 488
Period size: 121 Copynumber: 5.1 Consensus size: 120
133803 CTTTCCATCA
** * * * *
133813 TCATTTGACTATACTT-AATCAAATCTT-ACCCCT-CTTGATTGTATTCGGTCAAGTCTTTCCTT
1 TCATTTGACTATA-TTCGGTCAAAT-TTCACCCCTGCTTGACTATATTCGATCAAGTCTTTCCTC
* * * * * * * * * *
133875 ACTAGA-TGGTACTCGATCAAATCTTACCCCTCTTGACTGTATTCAGCCAAGACTAACC
64 ATTTGACT-ATACTTGGTCAAATCTCACCTCTCTTGACTATATTC-GTCAAGACTATCC
* * *
133933 TCATTTGACTATATTCGGTCAAATTTCACCCCTGCTTAACTGTATTCGATCAAGTTTTTCCTCAT
1 TCATTTGACTATATTCGGTCAAATTTCACCCCTGCTTGACTATATTCGATCAAGTCTTTCCTCAT
* * * *
133998 TTGACTATACTTGGTCAAATCTCACCTCTCTTGATTTTATTCGATCAAAACTGTCC
66 TTGACTATACTTGGTCAAATCTCACCTCTCTTGACTATATTCG-TCAAGACTATCC
* * * * * *
134054 TCATTTGACAATATTAGATCAAATTTAAACCCC-ACTTGACTATATTCGGTCAAGTCTTTCCTCA
1 TCATTTGACTATATTCGGTCAAATTT-CACCCCTGCTTGACTATATTCGATCAAGTCTTTCCTCA
* *
134118 TTTAACTGTAC-TGGATCAAATCTCACC-CTTCTTGACTATATTCGGTCAAGACTATCC
65 TTTGACTATACTTGG-TCAAATCTCACCTC-TCTTGACTATATTC-GTCAAGACTATCC
* * * ** * * * * *
134175 TCATTTGATTGTATTTGGTCAAATTTCATGCTTGCTTGACTGTATTTGGTCAAGTCTTTCTTCAT
1 TCATTTGACTATATTCGGTCAAATTTCACCCCTGCTTGACTATATTCGATCAAGTCTTTCCTCAT
* ** * * *
134240 TTGACTGTACTCAGTCAAATCTCA-CTCTTCTTAATTATATTCGATCAAGAATATCC
66 TTGACTATACTTGGTCAAATCTCACCTC-TCTTGACTATATTCG-TCAAGACTATCC
* * * * *
134296 -CTATTTGACTGA-ATTCAGTAAAATTTCACCCCTGCTTGACTATATT-TAGTTAAGTTTTTCCT
1 TC-ATTTGACT-ATATTCGGTCAAATTTCACCCCTGCTTGACTATATTCGA-TCAAGTCTTTCCT
** * * * *
134358 CATTTGACTATACTTCATCAAATCTTACCTCTCTTGACTGTATTTAGTCAAGGCCT-TCC
63 CATTTGACTATACTTGGTCAAATCTCACCTCTCTTGACTATA-TTCGTCAA-GACTATCC
134417 TCATTTGACTATATT
1 TCATTTGACTATATT
134432 GGTGTTAGGG
Statistics
Matches: 399, Mismatches: 79, Indels: 41
0.77 0.15 0.08
Matches are distributed among these distances:
119 4 0.01
120 36 0.09
121 342 0.86
122 17 0.04
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (120 bp):
TCATTTGACTATATTCGGTCAAATTTCACCCCTGCTTGACTATATTCGATCAAGTCTTTCCTCAT
TTGACTATACTTGGTCAAATCTCACCTCTCTTGACTATATTCGTCAAGACTATCC
Found at i:134246 original size:30 final size:30
Alignment explanation
Indices: 134089--134248 Score: 80
Period size: 30 Copynumber: 5.3 Consensus size: 30
134079 TAAACCCCAC
* * *
134089 TTGACTATATTCGGTCAAGTCTTTCCTCAT
1 TTGACTGTATTTGGTCAAGTCTTTCTTCAT
* * * **
134119 TTAACTGTA-CTGGATCAAATCTCACCCTTC--
1 TTGACTGTATTTGG-TCAAGTCT--TTCTTCAT
* * * * *
134149 TTGACTATATTCGGTCAAGACTATCCTCAT
1 TTGACTGTATTTGGTCAAGTCTTTCTTCAT
* *
134179 TTGATTGTATTTGGTCAAAT-TTCATGCTTGC--
1 TTGACTGTATTTGGTCAAGTCTT--T-CTT-CAT
134210 TTGACTGTATTTGGTCAAGTCTTTCTTCAT
1 TTGACTGTATTTGGTCAAGTCTTTCTTCAT
134240 TTGACTGTA
1 TTGACTGTA
134249 CTCAGTCAAA
Statistics
Matches: 91, Mismatches: 26, Indels: 26
0.64 0.18 0.18
Matches are distributed among these distances:
28 4 0.04
29 6 0.07
30 52 0.57
31 21 0.23
32 7 0.08
33 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.42
Consensus pattern (30 bp):
TTGACTGTATTTGGTCAAGTCTTTCTTCAT
Found at i:134283 original size:242 final size:240
Alignment explanation
Indices: 133813--134431 Score: 648
Period size: 242 Copynumber: 2.6 Consensus size: 240
133803 CTTTCCATCA
* * * * *
133813 TCATTTGACTATACTTA-ATCAAATCTTACCCCTCTTGATTGTATTCGGTCAAGTCTTTCCTTA-
1 TCATTTGACAATA-TTAGATCAAAT-TTACCCCACTTGACTATATTCGGTCAAGTCTTTCCTCAT
* * * *
133876 CTAGA-TGGTACTCGATCAAATCTTACCCCTCTTGACTGTATTCAGCCAAGACTAACCTCATTTG
64 TTA-ACT-GTACTCGATCAAATCTTACCCTTCTTGACTGTATTCAGTCAAGACTATCCTCATTTG
*
133940 ACTATATTCGGTCAAATTTCACCCCTGCTTAACTGTATTCGATCAAGTTTTTCCTCATTTGACTA
127 ACTATATTCGGTCAAATTTCACCCCTGCTTAACTGTATTCGATCAAGTCTTTCCTCATTTGACTA
** * * *
134005 TACTTGGTCAAATCTCACCTCTCTTGATTTTATTCGATCAA-AACTGTCC
192 TACTCAGTCAAATCTCACCTCTCTTAATTATATTCGATCAAGAA-TATCC
134054 TCATTTGACAATATTAGATCAAATTTAAACCCCACTTGACTATATTCGGTCAAGTCTTTCCTCAT
1 TCATTTGACAATATTAGATCAAATTT--ACCCCACTTGACTATATTCGGTCAAGTCTTTCCTCAT
* * * * *
134119 TTAACTGTACTGGATCAAATCTCACCCTTCTTGACTATATTCGGTCAAGACTATCCTCATTTGAT
64 TTAACTGTACTCGATCAAATCTTACCCTTCTTGACTGTATTCAGTCAAGACTATCCTCATTTGAC
* * ** * * * * * *
134184 TGTATTTGGTCAAATTTCATGCTTGCTTGACTGTATTTGGTCAAGTCTTTCTTCATTTGACTGTA
129 TATATTCGGTCAAATTTCACCCCTGCTTAACTGTATTCGATCAAGTCTTTCCTCATTTGACTATA
134249 CTCAGTCAAATCTCA-CTCTTCTTAATTATATTCGATCAAGAATATCC
194 CTCAGTCAAATCTCACCTC-TCTTAATTATATTCGATCAAGAATATCC
* * * ** * *
134296 -CTATTTGACTGAAT-TCAG-TAAAATTTCACCCCTGCTTGACTATATTTAGTTAAGTTTTTCCT
1 TC-ATTTGAC--AATATTAGATCAAATTT-ACCCC-ACTTGACTATATTCGGTCAAGTCTTTCCT
* * * *
134358 CATTTGACTATACTTC-ATCAAATCTTA-CCTCTCTTGACTGTATTTAGTCAAGGCCT-TCCTCA
61 CATTTAACTGTAC-TCGATCAAATCTTACCCT-TCTTGACTGTATTCAGTCAA-GACTATCCTCA
134420 TTTGACTATATT
123 TTTGACTATATT
134432 GGTGTTAGGG
Statistics
Matches: 316, Mismatches: 48, Indels: 27
0.81 0.12 0.07
Matches are distributed among these distances:
240 5 0.02
241 31 0.10
242 265 0.84
243 12 0.04
244 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (240 bp):
TCATTTGACAATATTAGATCAAATTTACCCCACTTGACTATATTCGGTCAAGTCTTTCCTCATTT
AACTGTACTCGATCAAATCTTACCCTTCTTGACTGTATTCAGTCAAGACTATCCTCATTTGACTA
TATTCGGTCAAATTTCACCCCTGCTTAACTGTATTCGATCAAGTCTTTCCTCATTTGACTATACT
CAGTCAAATCTCACCTCTCTTAATTATATTCGATCAAGAATATCC
Found at i:134366 original size:30 final size:30
Alignment explanation
Indices: 134331--134431 Score: 98
Period size: 30 Copynumber: 3.4 Consensus size: 30
134321 TCACCCCTGC
* *
134331 TTGACTATATTTAGTTAAGTTTTTCCTCAT
1 TTGACTATATTTAGTCAAGTCTTTCCTCAT
* * *
134361 TTGACTATACTTCA-TCAAATCTTACCTC-T
1 TTGACTATA-TTTAGTCAAGTCTTTCCTCAT
* * *
134390 CTTGACTGTATTTAGTCAAGGCCTTCCTCAT
1 -TTGACTATATTTAGTCAAGTCTTTCCTCAT
134421 TTGACTATATT
1 TTGACTATATT
134432 GGTGTTAGGG
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
29 4 0.07
30 47 0.85
31 4 0.07
ACGTcount: A:0.24, C:0.21, G:0.10, T:0.46
Consensus pattern (30 bp):
TTGACTATATTTAGTCAAGTCTTTCCTCAT
Found at i:134499 original size:48 final size:48
Alignment explanation
Indices: 134415--134552 Score: 188
Period size: 48 Copynumber: 2.9 Consensus size: 48
134405 TCAAGGCCTT
* *
134415 CCTCATTTGACTATATTGGTGTTAGGGCCTAGTCAAACTCTTTTCATC
1 CCTCACTTGACTATATTGGTGTTAAGGCCTAGTCAAACTCTTTTCATC
** * *
134463 CCTTGCTTGATTGTATTGGTGTTAAGGCCTAGTCAAACTCTTTTCATC
1 CCTCACTTGACTATATTGGTGTTAAGGCCTAGTCAAACTCTTTTCATC
* *
134511 CCTCATTTGACTATATTGGTGTT-AGGACCTGGTCAAACTCTT
1 CCTCACTTGACTATATTGGTGTTAAGG-CCTAGTCAAACTCTT
134553 CTCAATTCGT
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
47 3 0.04
48 74 0.96
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (48 bp):
CCTCACTTGACTATATTGGTGTTAAGGCCTAGTCAAACTCTTTTCATC
Found at i:134633 original size:44 final size:44
Alignment explanation
Indices: 134564--134981 Score: 304
Period size: 44 Copynumber: 9.5 Consensus size: 44
134554 TCAATTCGTC
* ** *
134564 TTGACATATGGTTGGCACCCTAGTCAGATTCTTTTCATTCCAAT
1 TTGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCCGAT
* * ** * * *
134608 TTGATGTATGGTTACCACCCTAGTCA-AATCTACCTCCTTTCAAT
1 TTGACGTATGGTTACCACCCTAGTCAGATTCT-TTTCATTCCGAT
* * * * ** * * *
134652 CTGACATATGGTTACCACCCTGGTCA-AATCTACCTCCTTTCAAT
1 TTGACGTATGGTTACCACCCTAGTCAGATTCT-TTTCATTCCGAT
* * *
134696 CTGACATATGGTTACCACCCTAGTTAGATTCTTTTCATTCCGAT
1 TTGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCCGAT
* * * * ** * *
134740 TTGACATATGGTTACCACCTTGGTCA-AATCTACCTCATTTCTAT
1 TTGACGTATGGTTACCACCCTAGTCAGATTCT-TTTCATTCCGAT
134784 TTGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCCGAT
1 TTGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCCGAT
* * * * * *
134828 TTGACATATGGTTACCACCTTGGTCGGATTCCTTTCATTTCGAT
1 TTGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCCGAT
* * * ** * *
134872 TTGACGTATGGTTACTAACCTAGTCA-AATCTGGCTCCTTCCTAT
1 TTGACGTATGGTTACCACCCTAGTCAGATTCT-TTTCATTCCGAT
* * * * **
134916 CTGATGTATGGTTACCACCCTGGTCAGATTCTTTTTATTATGAT
1 TTGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCCGAT
* *
134960 TTAATGTATGGTTACCACCCTA
1 TTGACGTATGGTTACCACCCTA
134982 ATTCTACCTC
Statistics
Matches: 295, Mismatches: 73, Indels: 12
0.78 0.19 0.03
Matches are distributed among these distances:
43 11 0.04
44 272 0.92
45 12 0.04
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (44 bp):
TTGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCCGAT
Found at i:134663 original size:88 final size:88
Alignment explanation
Indices: 134549--134981 Score: 376
Period size: 88 Copynumber: 4.9 Consensus size: 88
134539 CTGGTCAAAC
** * *
134549 TCTTCTCAATT-CG-TCTTGACATATGGTTGGCACCCTAGTCAGATTCTTTTCATTCCAATTTGA
1 TCTTCTC-ATTCCGATC-TGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTTCAATTTGA
*
134612 TGTATGGTTACCACCCTAGTCA-AA
64 CGTATGGTTACCACCCTAGTCAGAA
* * * * * ** * *
134636 TCTACCTCCTTTCAATCTGACATATGGTTACCACCCTGGTCA-AATCTACCTCCTTTCAATCTGA
1 TCT-TCTCATTCCGATCTGACATATGGTTACCACCCTGGTCAGATTCT-TTTCATTTCAATTTGA
* * *
134700 CATATGGTTACCACCCTAGTTAGAT
64 CGTATGGTTACCACCCTAGTCAGAA
* * * * ** *
134725 TCTTTTCATTCCGATTTGACATATGGTTACCACCTTGGTCA-AATCTACCTCATTTCTATTTGAC
1 TCTTCTCATTCCGATCTGACATATGGTTACCACCCTGGTCAGATTCT-TTTCATTTCAATTTGAC
*
134789 GTATGGTTACCACCCTAGTCAGAT
65 GTATGGTTACCACCCTAGTCAGAA
* * * * * *
134813 TCTTTTCATTCCGATTTGACATATGGTTACCACCTTGGTCGGATTCCTTTCATTTCGATTTGACG
1 TCTTCTCATTCCGATCTGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTTCAATTTGACG
* *
134878 TATGGTTACTAACCTAGTCA-AA
66 TATGGTTACCACCCTAGTCAGAA
* * * ** * * *
134900 TCTGGCTCCTTCCTATCTGATGTATGGTTACCACCCTGGTCAGATTCTTTTTATTAT-GATTTAA
1 TCT-TCTCATTCCGATCTGACATATGGTTACCACCCTGGTCAGATTCTTTTCATT-TCAATTTGA
*
134964 TGTATGGTTACCACCCTA
64 CGTATGGTTACCACCCTA
134982 ATTCTACCTC
Statistics
Matches: 286, Mismatches: 52, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
87 13 0.05
88 263 0.92
89 10 0.03
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.38
Consensus pattern (88 bp):
TCTTCTCATTCCGATCTGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTTCAATTTGACG
TATGGTTACCACCCTAGTCAGAA
Found at i:134944 original size:132 final size:131
Alignment explanation
Indices: 134564--134981 Score: 469
Period size: 132 Copynumber: 3.2 Consensus size: 131
134554 TCAATTCGTC
** * * *
134564 TTGACATATGGTTGGCACCCTAGTCAGATTCTTTTCATTCCAATTTGATGTATGGTTACCACCCT
1 TTGACATATGGTTACCACCCTAGTCAGATTCTTTTCATTCCGATTTGACGTATGGTTA-CAACCT
* * * ** * *
134629 AGTCAAATCTACCTCCTTTCAATCTGACATATGGTTACCACCCTGGTCA-AATCTACCTCCTTTC
65 AGTCAAATCTACCTCCTTTCTATCTGACGTATGGTTACCACCCTGGTCAGATTCT-TTTCATTAC
*
134693 AAT
129 GAT
* * * *
134696 CTGACATATGGTTACCACCCTAGTTAGATTCTTTTCATTCCGATTTGACATATGGTTACCACCTT
1 TTGACATATGGTTACCACCCTAGTCAGATTCTTTTCATTCCGATTTGACGTATGGTTACAACC-T
* * * * *
134761 GGTCAAATCTACCTCATTTCTATTTGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCCG
65 AGTCAAATCTACCTCCTTTCTATCTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTACG
134826 AT
130 AT
* * * * *
134828 TTGACATATGGTTACCACCTTGGTCGGATTCCTTTCATTTCGATTTGACGTATGGTTACTAACCT
1 TTGACATATGGTTACCACCCTAGTCAGATTCTTTTCATTCCGATTTGACGTATGGTTAC-AACCT
** * * * *
134893 AGTCAAATCTGGCTCCTTCCTATCTGATGTATGGTTACCACCCTGGTCAGATTCTTTTTATTATG
65 AGTCAAATCTACCTCCTTTCTATCTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTACG
134958 AT
130 AT
* **
134960 TTAATGTATGGTTACCACCCTA
1 TTGACATATGGTTACCACCCTA
134982 ATTCTACCTC
Statistics
Matches: 237, Mismatches: 46, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
131 3 0.01
132 227 0.96
133 7 0.03
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (131 bp):
TTGACATATGGTTACCACCCTAGTCAGATTCTTTTCATTCCGATTTGACGTATGGTTACAACCTA
GTCAAATCTACCTCCTTTCTATCTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTACGA
T
Found at i:135164 original size:87 final size:87
Alignment explanation
Indices: 135000--135167 Score: 210
Period size: 87 Copynumber: 1.9 Consensus size: 87
134990 TCCTTTCGCT
* * * * * * *
135000 TGGTCAGATTCTTTCCATTCCGATTTGACGTATGGTTACCAACCTGGTTAAATTTGCCTCCTTCT
1 TGGTCAGATTCTTTCCATTCCGATTTGAAGTATGGCTACCAACCTGGTCAAATCTACCTCATTCC
135065 TGTCTGACGTATGGTTACCCCC
66 TGTCTGACGTATGGTTACCCCC
* ** * *
135087 TGGTTAGATTCTTTTGATTCCGATTTGAAGTATGGCTACCACCCTGGTCAAATCTACCTTATTCC
1 TGGTCAGATTCTTTCCATTCCGATTTGAAGTATGGCTACCAACCTGGTCAAATCTACCTCATTCC
* *
135152 TGTTTGATGTATGGTT
66 TGTCTGACGTATGGTT
135168 CAACCCTAGT
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
87 67 1.00
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.40
Consensus pattern (87 bp):
TGGTCAGATTCTTTCCATTCCGATTTGAAGTATGGCTACCAACCTGGTCAAATCTACCTCATTCC
TGTCTGACGTATGGTTACCCCC
Found at i:135394 original size:42 final size:42
Alignment explanation
Indices: 135319--135685 Score: 257
Period size: 42 Copynumber: 8.8 Consensus size: 42
135309 TCTACTTGTC
* * *
135319 GGCTCAGACCCAAGAGACTTTCTTTTTCTTTTGTCTGCCCATT
1 GGCTCAGACCCGAGAGAC-TTCTTTATCTTTTGTCTACCCATT
* * * * *
135362 GACTTAGACCCGAGAGACTTCTTTATCTTTTGTCTTCTCGTT
1 GGCTCAGACCCGAGAGACTTCTTTATCTTTTGTCTACCCATT
* * *
135404 GGCTTAGACCC-AGGAGACTTTCTTTATCTTTTGTCT-GCCATC
1 GGCTCAGACCCGA-GAGAC-TTCTTTATCTTTTGTCTACCCATT
** * * *
135446 AACTCAGA-CCTAGGAGACTTCTTTATCTTTTATCTACCCATC
1 GGCTCAGACCCGA-GAGACTTCTTTATCTTTTGTCTACCCATT
* * * * * * *
135488 AGCTCACAACCGGGAGACTTCTTTATCTTTTTTCTACCCGTC
1 GGCTCAGACCCGAGAGACTTCTTTATCTTTTGTCTACCCATT
* * * * * *
135530 GGCTTA-A----ATGAGACTTTTTTATTTTTTGTCTGCCCCTC
1 GGCTCAGACCCGA-GAGACTTCTTTATCTTTTGTCTACCCATT
* * *
135568 GGCTCAGATCTGGGAGACTTCTTTATCTTTTGTCTACCCATT
1 GGCTCAGACCCGAGAGACTTCTTTATCTTTTGTCTACCCATT
* * * * *
135610 GGCTCA-AACCTAGGAGACTTCTTTATCTTTTTTTTTACCCGTT
1 GGCTCAGACCCGA-GAGACTTCTTTATC-TTTTGTCTACCCATT
* *
135653 GGCTCAGACCCGAGAGACTTTTTTATCCTTTGT
1 GGCTCAGACCCGAGAGACTTCTTTATCTTTTGT
135686 GTGCCCGTCG
Statistics
Matches: 260, Mismatches: 50, Indels: 29
0.77 0.15 0.09
Matches are distributed among these distances:
38 29 0.11
39 1 0.00
41 22 0.08
42 139 0.53
43 65 0.25
44 4 0.02
ACGTcount: A:0.18, C:0.26, G:0.16, T:0.40
Consensus pattern (42 bp):
GGCTCAGACCCGAGAGACTTCTTTATCTTTTGTCTACCCATT
Found at i:135573 original size:80 final size:80
Alignment explanation
Indices: 135459--135640 Score: 211
Period size: 80 Copynumber: 2.2 Consensus size: 80
135449 TCAGACCTAG
*
135459 GAGACTTCTTTATCTTTTATCTACCCATCAGCTCACAACCGGGAGACTTCTTTATCTTTTTTCTA
1 GAGACTTCTTTATCTTTTATCTACCCATCAGCTCACAACCGGGAGACTTCTTTATCTTTTGTCTA
135524 CCCGTCGGCTTAAAT
66 CCCGTCGGCTTAAAT
* * * * * * * * *
135539 GAGACTTTTTTATTTTTTGTCTGCCCCTCGGCTCAGATCTGGGAGACTTCTTTATCTTTTGTCTA
1 GAGACTTCTTTATCTTTTATCTACCCATCAGCTCACAACCGGGAGACTTCTTTATCTTTTGTCTA
* * *
135604 CCCATTGGCTCAAACCT
66 CCCGTCGGCTTAAA--T
135621 AGGAGACTTCTTTATCTTTT
1 --GAGACTTCTTTATCTTTT
135641 TTTTTACCCG
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
80 66 0.80
82 1 0.01
84 16 0.19
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.41
Consensus pattern (80 bp):
GAGACTTCTTTATCTTTTATCTACCCATCAGCTCACAACCGGGAGACTTCTTTATCTTTTGTCTA
CCCGTCGGCTTAAAT
Done.