Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 9 of 211
Found at i:2847268 original size:15 final size:15
Alignment explanation
Indices: 2847248--2847298 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
2847238 TTTATGGAAC
2847248 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
2847263 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
2847277 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
2847293 ATCAAA
1 ATCAAA
2847299 TATTGGAAAG
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
14 4 0.15
15 18 0.69
16 4 0.15
ACGTcount: A:0.49, C:0.08, G:0.20, T:0.24
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:2847285 original size:30 final size:30
Alignment explanation
Indices: 2847249--2847323 Score: 123
Period size: 30 Copynumber: 2.5 Consensus size: 30
2847239 TTATGGAACA
2847249 TCAAAGATATGGGTATCAAATAATAGAAAG
1 TCAAAGATATGGGTATCAAATAATAGAAAG
* *
2847279 TCAAAGATATGGGTATCAAATATTGGAAAG
1 TCAAAGATATGGGTATCAAATAATAGAAAG
*
2847309 TCAAATATATGGGTA
1 TCAAAGATATGGGTA
2847324 CCGAGATATT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.27
Consensus pattern (30 bp):
TCAAAGATATGGGTATCAAATAATAGAAAG
Found at i:2851936 original size:15 final size:15
Alignment explanation
Indices: 2851916--2851966 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
2851906 TTTATGGAAA
2851916 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
2851931 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
2851945 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
2851961 ATCAAA
1 ATCAAA
2851967 TATTAGAAAG
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
14 4 0.15
15 18 0.69
16 4 0.15
ACGTcount: A:0.49, C:0.08, G:0.20, T:0.24
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:2851953 original size:30 final size:30
Alignment explanation
Indices: 2851912--2851991 Score: 133
Period size: 30 Copynumber: 2.7 Consensus size: 30
2851902 CATATTTATG
*
2851912 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
*
2851942 GAAAGTCAAAGATATGGGTATCAAATATTA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
*
2851972 GAAAGTCAAATATATGGGTA
1 GAAAGTCAAAGATATGGGTA
2851992 CCGAGATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.49, C:0.06, G:0.20, T:0.25
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:2855341 original size:63 final size:63
Alignment explanation
Indices: 2855264--2855419 Score: 303
Period size: 63 Copynumber: 2.5 Consensus size: 63
2855254 GATAAGTTAA
2855264 TGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTCATGTCCTTTATGTT
1 TGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTCATGTCCTTTATGTT
2855327 TGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTCATGTCCTTTATGTT
1 TGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTCATGTCCTTTATGTT
*
2855390 TGTAAAAGCAAATTCCTCCTTATCTGCTTA
1 TGTAAAAGCAGATTCCTCCTTATCTGCTTA
2855420 CTTCTACTTT
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 92 1.00
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.43
Consensus pattern (63 bp):
TGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTCATGTCCTTTATGTT
Found at i:2862675 original size:28 final size:30
Alignment explanation
Indices: 2862613--2862676 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 30
2862603 TTTCAAAAAT
**
2862613 ATTTTTAAAATACTTTTTTTTAATTTTTTTT
1 ATTTTTAAAATAC-TTTTTTTAATTTTTTAA
2862644 ATTTTTAAAATAC-TTTTTT-ATTTTTTAA
1 ATTTTTAAAATACTTTTTTTAATTTTTTAA
2862672 ATTTT
1 ATTTT
2862677 CTTTTTGGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 12 0.39
29 6 0.19
31 13 0.42
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (30 bp):
ATTTTTAAAATACTTTTTTTAATTTTTTAA
Found at i:2862681 original size:19 final size:18
Alignment explanation
Indices: 2862627--2862681 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
2862617 TTAAAATACT
*
2862627 TTTTTTTAATTTTTTTTA
1 TTTTTTAAATTTTTTTTA
* *
2862645 TTTTTAAAATACTTTTTTA
1 TTTTTTAAAT-TTTTTTTA
2862664 TTTTTTAAATTTTCTTTT
1 TTTTTTAAATTTT-TTTT
2862682 TGGTGTTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 10 0.33
19 20 0.67
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTTAAATTTTTTTTA
Found at i:2863913 original size:19 final size:21
Alignment explanation
Indices: 2863876--2863924 Score: 75
Period size: 19 Copynumber: 2.4 Consensus size: 21
2863866 AACACGACAA
*
2863876 TTTTGAAACACGCGAATTTTT
1 TTTTGAAACACCCGAATTTTT
2863897 TTTTGAAA-ACCCG-ATTTTT
1 TTTTGAAACACCCGAATTTTT
2863916 TTTTGAAAC
1 TTTTGAAAC
2863925 GCGAAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 14 0.54
20 4 0.15
21 8 0.31
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (21 bp):
TTTTGAAACACCCGAATTTTT
Found at i:2863978 original size:35 final size:34
Alignment explanation
Indices: 2863838--2864059 Score: 173
Period size: 35 Copynumber: 6.2 Consensus size: 34
2863828 AGAGACACAA
* *
2863838 AAATTATTAAAACACGAAAATTTTTGAAAACACG
1 AAATTTTTGAAACACGAAAATTTTTGAAAACACG
** *
2863872 ACAA-TTTTGAAACACGCGAATTTTTTTTTGAAAACCCG
1 A-AATTTTTGAAACA--CGAA--AATTTTTGAAAACACG
** * *
2863910 ATTTTTTTTTGAAACGCGAAAATTTGTG-AAACACG
1 A--AATTTTTGAAACACGAAAATTTTTGAAAACACG
* * *
2863945 AGATTGTTGAAAACACGCAAATTTTTGAAAACACG
1 AAATTTTTG-AAACACGAAAATTTTTGAAAACACG
2863980 AAAATTTTTGAAACACGAAAATTTTTGAAAACACG
1 -AAATTTTTGAAACACGAAAATTTTTGAAAACACG
2864015 AGAATTTTTTGAAA-ACGTGAAAATTTTTG-AAACACCG
1 A-AA-TTTTTGAAACAC--GAAAATTTTTGAAAACA-CG
*
2864052 AATTTTTT
1 AAATTTTT
2864060 TTAAACACAA
Statistics
Matches: 150, Mismatches: 23, Indels: 29
0.74 0.11 0.14
Matches are distributed among these distances:
33 5 0.03
34 24 0.16
35 49 0.33
36 31 0.21
37 14 0.09
38 18 0.12
40 9 0.06
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (34 bp):
AAATTTTTGAAACACGAAAATTTTTGAAAACACG
Found at i:2864059 original size:17 final size:19
Alignment explanation
Indices: 2863852--2864067 Score: 113
Period size: 18 Copynumber: 11.9 Consensus size: 19
2863842 TATTAAAACA
*
2863852 CGAAAATTTTTGAAA-ACA
1 CGAAAATTTTTGAAACACG
*
2863870 CGACAA-TTTTGAAACACG
1 CGAAAATTTTTGAAACACG
** *
2863888 CGAATTTTTTTTTGAAA-ACC
1 CGAA--AATTTTTGAAACACG
***
2863908 CGATTTTTTTTTG-AA-ACG
1 CGA-AAATTTTTGAAACACG
*
2863926 CGAAAATTTGTGAAACA--
1 CGAAAATTTTTGAAACACG
* *
2863943 CG-AGATTGTTGAAAACACG
1 CGAAAATTTTTG-AAACACG
*
2863962 C--AAATTTTTGAAA-ACA
1 CGAAAATTTTTGAAACACG
2863978 CGAAAATTTTTGAAACA--
1 CGAAAATTTTTGAAACACG
*
2863995 CGAAAATTTTTGAAA-ACA
1 CGAAAATTTTTGAAACACG
*
2864013 CGAGAATTTTTTGAAA-ACG
1 CGA-AAATTTTTGAAACACG
*
2864032 TGAAAATTTTTGAAACAC-
1 CGAAAATTTTTGAAACACG
** *
2864050 CGAATTTTTTTTAAACAC
1 CGAAAATTTTTGAAACAC
2864068 AATTTTTTTG
Statistics
Matches: 155, Mismatches: 26, Indels: 34
0.72 0.12 0.16
Matches are distributed among these distances:
16 10 0.06
17 38 0.25
18 66 0.43
19 28 0.18
20 5 0.03
21 8 0.05
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.32
Consensus pattern (19 bp):
CGAAAATTTTTGAAACACG
Found at i:2864060 original size:18 final size:18
Alignment explanation
Indices: 2863803--2864046 Score: 189
Period size: 17 Copynumber: 13.7 Consensus size: 18
2863793 AAAAACTTGA
2863803 AAAATTTTT-AAAACACG
1 AAAATTTTTGAAAACACG
* * * * *
2863820 AGAACTTTAG-AGACACA
1 AAAATTTTTGAAAACACG
*
2863837 AAAATTATT-AAAACACG
1 AAAATTTTTGAAAACACG
2863854 AAAATTTTTGAAAACACG
1 AAAATTTTTGAAAACACG
* *
2863872 ACAA-TTTTGAAACACGCG
1 AAAATTTTTGAAA-ACACG
** *
2863890 AATTTTTTTTTGAAAACCCG
1 AA--AATTTTTGAAAACACG
*** *
2863910 ATTTTTTTTTG-AAACGCG
1 A-AAATTTTTGAAAACACG
*
2863928 AAAATTTGTG-AAACACG
1 AAAATTTTTGAAAACACG
* *
2863945 -AGATTGTTGAAAACACG
1 AAAATTTTTGAAAACACG
*
2863962 CAAATTTTTGAAAACACG
1 AAAATTTTTGAAAACACG
2863980 AAAATTTTTG-AAACACG
1 AAAATTTTTGAAAACACG
2863997 AAAATTTTTGAAAACACG
1 AAAATTTTTGAAAACACG
* **
2864015 AGAATTTTTTGAAAACGTG
1 A-AAATTTTTGAAAACACG
2864034 AAAATTTTTGAAA
1 AAAATTTTTGAAA
2864047 CACCGAATTT
Statistics
Matches: 180, Mismatches: 35, Indels: 23
0.76 0.15 0.10
Matches are distributed among these distances:
16 6 0.03
17 72 0.40
18 66 0.37
19 23 0.13
20 5 0.03
21 8 0.04
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (18 bp):
AAAATTTTTGAAAACACG
Found at i:2864065 original size:18 final size:16
Alignment explanation
Indices: 2864038--2864078 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
2864028 AACGTGAAAA
2864038 TTTTTGAAACACCGAATT
1 TTTTTGAAACA-C-AATT
*
2864056 TTTTTTAAACACAATT
1 TTTTTGAAACACAATT
2864072 TTTTTGA
1 TTTTTGA
2864079 TTTTTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 10 0.48
17 1 0.05
18 10 0.48
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (16 bp):
TTTTTGAAACACAATT
Found at i:2864208 original size:20 final size:20
Alignment explanation
Indices: 2864183--2864230 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
2864173 GCCTTATTAT
*
2864183 TATTTTTTTGAAA-ACGCGAA
1 TATTTTTTT-AAACACGAGAA
2864203 TATTTTTTTAAACACGAGAA
1 TATTTTTTTAAACACGAGAA
2864223 T-TTTTTTT
1 TATTTTTTT
2864231 TTGAAGACAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.50
Consensus pattern (20 bp):
TATTTTTTTAAACACGAGAA
Found at i:2864215 original size:18 final size:20
Alignment explanation
Indices: 2864183--2864229 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
2864173 GCCTTATTAT
*
2864183 TATTTTTTTGAAAACGCGA-A
1 TATTTTTTT-AAAACACGAGA
2864203 TATTTTTTT-AAACACGAGA
1 TATTTTTTTAAAACACGAGA
2864222 -ATTTTTTT
1 TATTTTTTT
2864230 TTTGAAGACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 15 0.60
19 1 0.04
20 9 0.36
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.49
Consensus pattern (20 bp):
TATTTTTTTAAAACACGAGA
Found at i:2864446 original size:5 final size:5
Alignment explanation
Indices: 2864413--2864483 Score: 79
Period size: 5 Copynumber: 13.6 Consensus size: 5
2864403 AAAATATTAA
* * * *
2864413 AAATA AAATC AAATT GAATTT AAATTT AAATT AAATT AAATT GAATT AAAATT
1 AAATT AAATT AAATT -AAATT AAA-TT AAATT AAATT AAATT AAATT -AAATT
2864466 AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAA
2864484 AAAATATAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
5 44 0.77
6 13 0.23
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (5 bp):
AAATT
Found at i:2864451 original size:16 final size:16
Alignment explanation
Indices: 2864418--2864480 Score: 74
Period size: 16 Copynumber: 3.9 Consensus size: 16
2864408 ATTAAAAATA
* *
2864418 AAATCAAATTGAATTT
1 AAATTAAATTAAATTT
2864434 AAATTTAAATTAAA-TT
1 AAA-TTAAATTAAATTT
* *
2864450 AAATTGAATTAAAATT
1 AAATTAAATTAAATTT
2864466 AAATTAAATTAAATT
1 AAATTAAATTAAATT
2864481 AAAAAAATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
15 9 0.22
16 23 0.57
17 8 0.20
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.40
Consensus pattern (16 bp):
AAATTAAATTAAATTT
Found at i:2864464 original size:21 final size:21
Alignment explanation
Indices: 2864416--2864484 Score: 93
Period size: 21 Copynumber: 3.2 Consensus size: 21
2864406 ATATTAAAAA
* *
2864416 TAAAATCAAATTGAATTTAAAT
1 TAAAATTAAATT-AAATTAAAT
* *
2864438 TTAAATTAAATTAAATTGAAT
1 TAAAATTAAATTAAATTAAAT
2864459 TAAAATTAAATTAAATTAAAT
1 TAAAATTAAATTAAATTAAAT
2864480 TAAAA
1 TAAAA
2864485 AAATATAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
21 31 0.76
22 10 0.24
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (21 bp):
TAAAATTAAATTAAATTAAAT
Found at i:2864493 original size:15 final size:15
Alignment explanation
Indices: 2864461--2864508 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
2864451 AATTGAATTA
*
2864461 AAATTAAATTAAAT-T
1 AAATTAAA-AAAATAT
2864476 AAATTAAAAAAATAT
1 AAATTAAAAAAATAT
2864491 AAA-TACAAAAAATAT
1 AAATTA-AAAAAATAT
2864506 AAA
1 AAA
2864509 AATGCATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 6 0.20
15 24 0.80
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATTAAAAAAATAT
Found at i:2864951 original size:37 final size:37
Alignment explanation
Indices: 2864889--2865007 Score: 134
Period size: 46 Copynumber: 3.0 Consensus size: 37
2864879 TACGTATGAT
2864889 CACTTATCAC-TTGT-TCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
2864924 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AGC
*
2864967 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 ---CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
2865007 C
1 C
2865008 GAAGCTATCA
Statistics
Matches: 72, Mismatches: 1, Indels: 20
0.77 0.01 0.22
Matches are distributed among these distances:
35 10 0.14
36 4 0.06
37 15 0.21
39 2 0.03
40 4 0.06
41 1 0.01
42 1 0.01
43 3 0.04
44 2 0.03
46 30 0.42
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:2864976 original size:46 final size:46
Alignment explanation
Indices: 2864924--2865192 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
2864914 TAAGTGTAGC
* *
2864924 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* * *
2864970 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
2865016 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
*
2865068 CACTTATCACTTTCCACTTGTCATTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* * *
2865120 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAACTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
*
2865166 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
2865193 AGTACTCAAA
Statistics
Matches: 204, Mismatches: 12, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
46 110 0.54
49 1 0.00
50 1 0.00
51 3 0.01
52 89 0.44
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
Found at i:2865043 original size:52 final size:52
Alignment explanation
Indices: 2864967--2865186 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
2864957 TAGCTAAAGC
* *
2864967 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* *
2865020 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * * *
2865072 TATCACTTTCCACTTGTCATTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
2865124 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAACTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
2865170 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
2865187 ATCAGAAGTA
Statistics
Matches: 149, Mismatches: 11, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
46 41 0.28
50 1 0.01
52 92 0.62
53 15 0.10
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:2865067 original size:98 final size:97
Alignment explanation
Indices: 2864924--2865192 Score: 325
Period size: 98 Copynumber: 2.7 Consensus size: 97
2864914 TAAGTGTAGC
* *
2864924 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTT-TCAC-TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCTCT
2864989 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
64 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
2865023 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTCCACTTG
1 CAC-TTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCAC--T----TTG
* *
2865088 TCAT-TTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
59 TC-TCTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * * * *
2865127 CAC--T---TTGTCACTTGATCAGATAAGTATAGCCGAAACTATCACTTATCACTTTATCACTTG
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCTCTTG
2865187 ATCAGA
66 ATCAGA
2865193 AGTACTCAAA
Statistics
Matches: 152, Mismatches: 9, Indels: 25
0.82 0.05 0.13
Matches are distributed among these distances:
92 13 0.09
96 1 0.01
98 85 0.56
99 7 0.05
100 3 0.02
101 1 0.01
104 41 0.27
105 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (97 bp):
CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCTCTTG
ATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:2865561 original size:16 final size:16
Alignment explanation
Indices: 2865540--2865574 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
2865530 CATAATTTCA
2865540 ATATTCACTAACATGT
1 ATATTCACTAACATGT
2865556 ATATTCACTAACATGT
1 ATATTCACTAACATGT
2865572 ATA
1 ATA
2865575 ATGTAAACGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (16 bp):
ATATTCACTAACATGT
Found at i:2866172 original size:37 final size:37
Alignment explanation
Indices: 2866115--2866266 Score: 173
Period size: 37 Copynumber: 3.9 Consensus size: 37
2866105 TATGATCACT
*
2866115 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
2866150 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
2866187 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC-----C-A-C-C
*
2866232 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
2866267 GAAGCTATCA
Statistics
Matches: 100, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
35 6 0.06
36 4 0.04
37 54 0.54
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 32 0.32
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:2866302 original size:52 final size:52
Alignment explanation
Indices: 2866226--2866647 Score: 634
Period size: 52 Copynumber: 8.3 Consensus size: 52
2866216 TAGCTAAAGC
* *
2866226 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
2866279 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
2866331 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
2866383 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* *
2866429 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
2866481 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
2866533 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
2866579 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
2866631 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
2866648 ATCAGAAGTA
Statistics
Matches: 338, Mismatches: 18, Indels: 26
0.88 0.05 0.07
Matches are distributed among these distances:
46 82 0.24
47 4 0.01
48 2 0.01
50 2 0.01
51 6 0.02
52 224 0.66
53 18 0.05
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:2866400 original size:150 final size:150
Alignment explanation
Indices: 2866183--2866647 Score: 804
Period size: 150 Copynumber: 3.1 Consensus size: 150
2866173 TAAGTGTAGC
* * * ** * *
2866183 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACT
* *
2866248 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGT
65 TGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
2866313 GTAGCCGAAGCTATCACTTAT
130 GTAGCCGAAGCTATCACTTAT
2866334 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTT
2866399 GATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTG
66 GATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTG
2866464 TAGCCGAAGCTATCACTTAT
131 TAGCCGAAGCTATCACTTAT
2866484 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTT
2866549 GATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTG
66 GATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTG
** *
2866614 TAGCTAAAGCTACCACTTAT
131 TAGCCGAAGCTATCACTTAT
2866634 CACTTTATCACTTG
1 CACTTT-TCACTTG
2866648 ATCAGAAGTA
Statistics
Matches: 301, Mismatches: 12, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
150 285 0.95
151 16 0.05
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (150 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTT
GATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTG
TAGCCGAAGCTATCACTTAT
Found at i:2866648 original size:98 final size:98
Alignment explanation
Indices: 2866183--2866653 Score: 648
Period size: 98 Copynumber: 4.7 Consensus size: 98
2866173 TAAGTGTAGC
* * ** * *
2866183 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTATCACT
2866248 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
2866282 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTCACTTG
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC-TTT-A----
2866347 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
60 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
2866386 CAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTG
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT--A----
*
2866445 TCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
60 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
2866484 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTATCACTT
*
2866549 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* ** *
2866582 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTATCACTT
2866647 GATCAGA
66 GATCAGA
2866654 AGTACTCAAA
Statistics
Matches: 342, Mismatches: 17, Indels: 27
0.89 0.04 0.07
Matches are distributed among these distances:
97 3 0.01
98 233 0.68
99 15 0.04
100 1 0.00
102 2 0.01
103 3 0.01
104 85 0.25
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTATCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:2867588 original size:14 final size:14
Alignment explanation
Indices: 2867569--2867597 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2867559 CTGTTGGGCT
2867569 GCCTGCTGGATTGG
1 GCCTGCTGGATTGG
2867583 GCCTGCTGGATTGG
1 GCCTGCTGGATTGG
2867597 G
1 G
2867598 TCAGGCCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.21, G:0.45, T:0.28
Consensus pattern (14 bp):
GCCTGCTGGATTGG
Found at i:2867778 original size:15 final size:15
Alignment explanation
Indices: 2867760--2867789 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2867750 TTTTTATTTT
*
2867760 TTTCTCTTTTTCTTC
1 TTTCTCTTCTTCTTC
2867775 TTTCTCTTCTTCTTC
1 TTTCTCTTCTTCTTC
2867790 CCCTCCCTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTCTCTTCTTCTTC
Found at i:2868333 original size:30 final size:29
Alignment explanation
Indices: 2868290--2868424 Score: 135
Period size: 30 Copynumber: 4.6 Consensus size: 29
2868280 AATTTTTGGT
** *
2868290 GTCAAAACATAATTTTAAGAAAGTTTAAGG
1 GTCAAAATGTAATTTTAA-AAAGTTTAGGG
* * **
2868320 GTCAAGATGTAATTTCAAAATCTTTAGGG
1 GTCAAAATGTAATTTTAAAAAGTTTAGGG
** *
2868349 GTTGAAATGTAATTTTGAAAAAATTTAGGG
1 GTCAAAATGTAATTTT-AAAAAGTTTAGGG
* *
2868379 GTTAAAATATAATTTTATAAAAGTTTAGGG
1 GTCAAAATGTAATTTTA-AAAAGTTTAGGG
2868409 GTCAAAATGTAATTTT
1 GTCAAAATGTAATTTT
2868425 TTTAAACACA
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
29 21 0.25
30 64 0.75
ACGTcount: A:0.41, C:0.04, G:0.19, T:0.36
Consensus pattern (29 bp):
GTCAAAATGTAATTTTAAAAAGTTTAGGG
Found at i:2868854 original size:74 final size:75
Alignment explanation
Indices: 2868603--2869506 Score: 599
Period size: 74 Copynumber: 11.5 Consensus size: 75
2868593 GCGAGTCAAA
2868603 GCTCAACTCA-C-CTCG-AATTATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAGAATACCTC
1 GCTCAACTCACCTCTCGCAA-TATGAGTTGA-TTTTTGAAAAACAGAAATTG-AAA-AATACCTC
* * * *
2868665 GGCATGCGACTCGAG
62 AGCGTG-TACCCGAG
* *
2868680 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATTTTTGAAAAATAGAAATTTAAAAGAAAT
1 GCTCAACTCACCTCTCGCAATATGA---G---TTGATTTTTGAAAAACAGAAA-TT-GAA-AAAT
* * *
2868745 ATCTCGGCGTGTGCCCGAG
57 ACCTCAGCGTGTACCCGAG
*
2868764 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTGAAAAATACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCG
2868829 TG-ACCCGAG
66 TGTACCCGAG
*
2868838 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAGAAATTGAAAAATACCT-AGAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAG-C
*
2868902 GTGTGCCCGAG
65 GTGTACCCGAG
***** *** * **
2868913 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG-ATTTTTGTTTTTTGAAAAACAGAATTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG-AAATTG-AAAA-A-TA-CCT
* ** ** *
2868976 AAAAGAAATACCTCGGTGTG
61 CAGCG-TGTACC-C---GAG
* * * * *
2868996 TGCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTAATTTTTGAAAAGCAAAAATTGAAAAATA
1 -GCTC-A-ACTCA---C-C-TCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATA
2869061 CCTCAGCGTG-ACCCGAG
58 CCTCAGCGTGTACCCGAG
* * *
2869078 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAAAAATTGAAAAATACCTCGGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCG
*
2869143 TGTGCCCGAG
66 TGTACCCGAG
***** *** **
2869153 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG-ATTTTTGTTTTTTGAAAAGCATAAATTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG-AAATTGAAAA--AT--ACCT
* ** **
2869216 AAAAGAAATACCTCGGCATG
61 CAGCG-TGTACC-C-G-A-G
* *
2869236 TGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATA
1 -GCTC-A-ACTCA-----CCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATA
2869301 CCTCAGCGTG-ACCCGAG
58 CCTCAGCGTGTACCCGAG
* * * * * *
2869318 GCTCAACTCACCTCTCACAATATGAGTTGATTCTTT-TAAAATAGAAATTAAAAAATACATCGGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTGAAAAACAGAAATTGAAAAATACCTCAGC
* *
2869382 GTGTGCTCGAG
65 GTGTACCCGAG
* * *
2869393 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATGTACAAGAAATACCTCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAAT-T-GAA-AAATACCTCA
* *
2869458 GCATGTGACCTGAG
63 GCGTGT-ACCCGAG
*
2869472 GCTCAACTCACCTCTCACAATATGAGTTGATTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
2869507 TTTTTTGAAA
Statistics
Matches: 647, Mismatches: 117, Indels: 124
0.73 0.13 0.14
Matches are distributed among these distances:
73 5 0.01
74 187 0.29
75 138 0.21
76 7 0.01
77 15 0.02
78 41 0.06
79 62 0.10
80 6 0.01
81 8 0.01
82 5 0.01
83 4 0.01
84 53 0.08
85 24 0.04
86 15 0.02
88 7 0.01
89 2 0.00
90 4 0.01
91 41 0.06
92 20 0.03
93 3 0.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (75 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCG
TGTACCCGAG
Found at i:2869014 original size:240 final size:240
Alignment explanation
Indices: 2868603--2869506 Score: 1316
Period size: 240 Copynumber: 3.8 Consensus size: 240
2868593 GCGAGTCAAA
2868603 GCTCAACTCA-C-CTCG-AATTATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAGAATACCTC
1 GCTCAACTCACCTCTCGCAA-TATGAGTTGATTTTTT-AAAAACAGAAATTG-AAA-AATACCTC
* * *
2868665 GGCATGCGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA-------TTTTTGA
62 GGCGTGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATTTTTGTTTTTTGA
* *
2868723 AAAATAGAAATTTAAAAGAAATATCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTCGCAATATG
126 AAAACAGAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTCGCAATATG
*
2868788 AGTTGATTTTTGAAAAATAGAAATTGAAAAATACCTCAGCGTGACCCGAG
191 AGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGACCCGAG
* *
2868838 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAGAAATTGAAAAATACCTAGACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAGAAATTGAAAAATACCTCGGCG
2868903 TGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATTTTTGTTTTTTGAAAAAC
66 TGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATTTTTGTTTTTTGAAAAAC
* * * *
2868968 AGAATTTTAAAAGAAATACCTCGGTGTGTGCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTA
131 AGAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
2869033 ATTTTTGAAAAGCAAAAATTGAAAAATACCTCAGCGTGACCCGAG
196 ATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGACCCGAG
*
2869078 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAAAAATTGAAAAATACCTCGGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAGAAATTGAAAAATACCTCGGCG
*
2869143 TGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATTTTTGTTTTTTGAAAAGC
66 TGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATTTTTGTTTTTTGAAAAAC
* *
2869208 ATAAATTTAAAAGAAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
131 AGAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
2869273 ATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGACCCGAG
196 ATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGACCCGAG
* * * *
2869318 GCTCAACTCACCTCTCACAATATGAGTTGATTCTTTT-AAAATAGAAATTAAAAAATACATCGGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTAAAAACAGAAATTGAAAAATACCTCGGC
*
2869382 GTGTGCTCGAGGCTCAACTCACCTCTCGCAATATGA---G---TTGA-------TTTTTGAAAAA
65 GTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATTTTTGTTTTTTGAAAAA
* * * * * *
2869434 CATAAATGTACAAGAAATACCTCGGCATGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGT
130 CAGAAATTTAAAAGAAATACCTCGGCGTGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGT
2869499 TGATTTTT
194 TGATTTTT
2869507 TTTTTTGAAA
Statistics
Matches: 620, Mismatches: 37, Indels: 31
0.90 0.05 0.05
Matches are distributed among these distances:
227 39 0.06
228 39 0.06
233 41 0.07
234 16 0.03
235 13 0.02
236 15 0.02
237 21 0.03
238 2 0.00
240 430 0.69
241 4 0.01
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (240 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAGAAATTGAAAAATACCTCGGCG
TGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATTTTTGTTTTTTGAAAAAC
AGAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGACCCGAG
Found at i:2869159 original size:149 final size:148
Alignment explanation
Indices: 2868603--2869506 Score: 812
Period size: 149 Copynumber: 5.7 Consensus size: 148
2868593 GCGAGTCAAA
*
2868603 GCTCAACTCA-C-CTCG-AATTATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAGAATACCTC
1 GCTCAACTCACCTCTCGCAA-TATGAGTTGA-TTTTTGAAAAACAAAAATTG-AAA-AATACCTC
* * * * **
2868665 GGCATGCGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATTTTTGAAAAATAG
62 GGCGTGTG-CCCGAGGCTCAACTCACCTCTCACAATATGAGTT-A-----ATTTTTGAAAAGCA-
* *
2868730 AAATTTAAAAGAAATATCTCGGCGTGTGCCCGAG
119 AAAATT-AAA-AAATACCTCGGC--GTGCCCGAG
* * *
2868764 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTGAAAAATACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTGAAAAATACCTCGGCG
* * * * * * *
2868829 TG-ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAGAAATTGAAAAA
66 TGTGCCCGAGGCTCAACTCACCTCTCACAATATGAGTTAATTTTTGAAAAGCAAAAATTAAAAAA
* *
2868893 TACCTAGACGTGTGCCCGAG
131 TACCTCG--GCGTGCCCGAG
** *
2868913 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATTTTTGTTTTTTGAAAAACAGAATTTTAA
1 GCTCAACTCACCTCTCGCAATATGA---G---TTGA-------TTTTTGAAAAACA-AAAATT-G
* * *
2868978 AAGAAATACCTCGGTGTGTGCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTAATTTTTGAAA
51 AA-AAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTCACAATATGAGTTAATTTTTGAAA
* *
2869043 AGCAAAAATTGAAAAATACCTCAGCGTGACCCGAG
115 AGCAAAAATTAAAAAATACCTCGGCGTG-CCCGAG
*
2869078 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAAAAATTGAAAAATACCTCGGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTGAAAAATACCTCGGCG
*
2869143 TGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATTTTTGTTTTTTGAAAAGC
66 TGTGCCCGAGGCTCAACTCACCTCTCACAATATGAGTT-A-----A-------TTTTTGAAAAGC
*
2869208 ATAAATTTAAAAGAAATACCTCGGCATGTGCCCGAG
118 A-AAAATT-AAA-AAATACCTCGGC--GTGCCCGAG
* *
2869244 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTGAAAAATACCTCGGCG
* * * * *
2869309 TG-ACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTCTTTTAAAA-TAGAAATTAAAAA
66 TGTGCCCGAGGCTCAACTCACCTCTCACAATATGAGTTAATT-TTTGAAAAGCAAAAATTAAAAA
* *
2869372 ATACATCGGCGTGTGCTCGAG
130 ATACCTCGGC--GTGCCCGAG
* *
2869393 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATGTACAAGAAATACCTCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAAT-T-GAA-AAATACCTCG
* * *
2869458 GCATGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
63 GCGTGTG-CCCGAGGCTCAACTCACCTCTCACAATATGAGTTAATTTTT
2869507 TTTTTTGAAA
Statistics
Matches: 638, Mismatches: 58, Indels: 102
0.80 0.07 0.13
Matches are distributed among these distances:
149 158 0.25
150 9 0.01
151 15 0.02
152 41 0.06
153 10 0.02
154 37 0.06
155 5 0.01
158 33 0.05
159 5 0.01
160 12 0.02
161 13 0.02
162 46 0.07
163 22 0.03
164 10 0.02
165 88 0.14
166 131 0.21
167 3 0.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (148 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTGAAAAATACCTCGGCG
TGTGCCCGAGGCTCAACTCACCTCTCACAATATGAGTTAATTTTTGAAAAGCAAAAATTAAAAAA
TACCTCGGCGTGCCCGAG
Found at i:2870404 original size:14 final size:13
Alignment explanation
Indices: 2870379--2870427 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
2870369 TTCATCTTTA
*
2870379 TTTTTCTTTTTCT
1 TTTTTTTTTTTCT
2870392 TTTCTTTTTTTTCT
1 TTT-TTTTTTTTCT
2870406 TTTTTTTGTTTT-T
1 TTTTTTT-TTTTCT
2870419 TGTTTTTTT
1 T-TTTTTTT
2870428 AGGCATAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 10 0.31
14 22 0.69
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTTTCT
Found at i:2870427 original size:9 final size:9
Alignment explanation
Indices: 2870373--2870419 Score: 58
Period size: 9 Copynumber: 4.9 Consensus size: 9
2870363 CAGGTTTTCA
2870373 TCTTTATTTT
1 TCTTT-TTTT
2870383 TCTTTTTCTTT
1 TC-TTTT-TTT
2870394 TCTTTTTTT
1 TCTTTTTTT
2870403 TCTTTTTTT
1 TCTTTTTTT
*
2870412 TGTTTTTT
1 TCTTTTTT
2870420 GTTTTTTTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
9 19 0.56
10 7 0.21
11 8 0.24
ACGTcount: A:0.02, C:0.11, G:0.02, T:0.85
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:2874370 original size:4 final size:4
Alignment explanation
Indices: 2874356--2874396 Score: 64
Period size: 4 Copynumber: 10.2 Consensus size: 4
2874346 ATGTATATGC
* *
2874356 AATG CATG AATG AATG AATG AATG AATG AATG GATG AATG A
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG A
2874397 CAAGTGAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.46, C:0.02, G:0.27, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:2876526 original size:106 final size:106
Alignment explanation
Indices: 2876340--2876657 Score: 438
Period size: 106 Copynumber: 3.0 Consensus size: 106
2876330 AGGAAACCAT
* * * * * * *
2876340 ACTTTGAAGTTTGAAGAGGGTATTTAGCTATTTAGTCGAACGAGAAATCAAAACCCAGCACGTTA
1 ACTTTGAAATTTAAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTA
* * *
2876405 GGGCATGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTC
66 GGGCACGTTTCCTCGATTTTCCAAACGCAAAATATTGCCTC
* * * * * *
2876446 ACTTTGAAATTTTAAAAGGATATTTGGCTATTTGGTCAAACAAGGAGTCGAAACCCAACACGTTA
1 ACTTTGAAATTTAAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTA
* *
2876511 GGGCACGTTTCCTCGATTTTCCAAATGCAAAATATTGCCTT
66 GGGCACGTTTCCTCGATTTTCCAAACGCAAAATATTGCCTC
* *
2876552 ATTTTAAAAGTTTAAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTT
1 ACTTTGAAA-TTTAAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTT
*
2876617 AGGGCACGTTTCCTCGATTTTCCAAACGCGAAATATTGCCT
65 AGGGCACGTTTCCTCGATTTTCCAAACGCAAAATATTGCCT
2876658 TATTTAAAAA
Statistics
Matches: 184, Mismatches: 27, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
106 96 0.52
107 88 0.48
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (106 bp):
ACTTTGAAATTTAAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTA
GGGCACGTTTCCTCGATTTTCCAAACGCAAAATATTGCCTC
Found at i:2876621 original size:107 final size:107
Alignment explanation
Indices: 2876346--2876667 Score: 448
Period size: 107 Copynumber: 3.0 Consensus size: 107
2876336 CCATACTTTG
* * * * * * *
2876346 AAGTTTGAAGAGGGTATTTAGCTATTTAGTCGAACGAGAAATCAAAACCCAGCACGTTAGGGCAT
1 AAGTTTAAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCAC
* * * * *
2876411 GTTTTCTCGAATTTCCAAACGCAAAATATTGCCTCACTTTGA
66 GTTTCCTCGATTTTCCAAACGCAAAATATTGCCTTATTTTAA
* * * * * *
2876453 AA-TTTTAAAAGGATATTTGGCTATTTGGTCAAACAAGGAGTCGAAACCCAACACGTTAGGGCAC
1 AAGTTTAAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCAC
*
2876517 GTTTCCTCGATTTTCCAAATGCAAAATATTGCCTTATTTTAA
66 GTTTCCTCGATTTTCCAAACGCAAAATATTGCCTTATTTTAA
2876559 AAGTTTAAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCAC
1 AAGTTTAAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCAC
* *
2876624 GTTTCCTCGATTTTCCAAACGCGAAATATTGCCTTATTTAAA
66 GTTTCCTCGATTTTCCAAACGCAAAATATTGCCTTATTTTAA
2876666 AA
1 AA
2876668 AAACCTTCCT
Statistics
Matches: 187, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
106 88 0.47
107 99 0.53
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (107 bp):
AAGTTTAAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCAC
GTTTCCTCGATTTTCCAAACGCAAAATATTGCCTTATTTTAA
Found at i:2877006 original size:19 final size:18
Alignment explanation
Indices: 2876965--2877015 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
2876955 ATATAAATCG
* *
2876965 TAAAGTATAAAAATGTATA
1 TAAA-TATAAATATATATA
2876984 TAAATATAAATATATATA
1 TAAATATAAATATATATA
*
2877002 TTAAATAAAAATAT
1 -TAAATATAAATAT
2877016 GTAAGTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (18 bp):
TAAATATAAATATATATA
Found at i:2879118 original size:14 final size:14
Alignment explanation
Indices: 2879080--2879132 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
2879070 AATAATTAAT
*
2879080 TAAACATAAAAGAAA
1 TAAA-ATAAAGGAAA
2879095 TAAAATAAAGGAAA
1 TAAAATAAAGGAAA
* * *
2879109 TAAAGTAAAGTAAGT
1 TAAAATAAAGGAA-A
2879124 TAAAATAAA
1 TAAAATAAA
2879133 AAGGAAAAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 20 0.62
15 12 0.38
ACGTcount: A:0.68, C:0.02, G:0.11, T:0.19
Consensus pattern (14 bp):
TAAAATAAAGGAAA
Found at i:2879859 original size:3 final size:3
Alignment explanation
Indices: 2879851--2879877 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2879841 GTGAGGTAAG
2879851 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
2879878 GAGTGTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2880046 original size:23 final size:24
Alignment explanation
Indices: 2880030--2880075 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2880020 TGGATTAATT
2880030 ATTG-ATTGAAAGATGGAGAAATG
1 ATTGAATTGAAAGATGGAGAAATG
2880053 ATTGAATTGAAA-ATGTGAGAAAT
1 ATTGAATTGAAAGATG-GAGAAAT
2880076 TGTGATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.28
Consensus pattern (24 bp):
ATTGAATTGAAAGATGGAGAAATG
Found at i:2880256 original size:34 final size:34
Alignment explanation
Indices: 2880213--2880280 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
2880203 TGGGTGTCAC
2880213 TATATTTCTTCGGATAGATTCGATGAGGTACTGG
1 TATATTTCTTCGGATAGATTCGATGAGGTACTGG
2880247 TATATTTCTTCGGATAGATTCGATGAGGTACTGG
1 TATATTTCTTCGGATAGATTCGATGAGGTACTGG
2880281 GTACCAACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (34 bp):
TATATTTCTTCGGATAGATTCGATGAGGTACTGG
Found at i:2881754 original size:17 final size:18
Alignment explanation
Indices: 2881714--2882005 Score: 194
Period size: 18 Copynumber: 16.2 Consensus size: 18
2881704 AATTATTTTC
2881714 TTTGAAAAACACGAAAATT
1 TTTG-AAAACACGAAAATT
*
2881733 TTTGAAAACACGACAA-T
1 TTTGAAAACACGAAAATT
2881750 TTTG-AAACACGCAAAATTTT
1 TTTGAAAACACG-AAAA--TT
* ***
2881770 TTTGAAAACCCGATTTTTT
1 TTTGAAAACACGA-AAATT
*
2881789 TTTG-AAACGCGAAAATT
1 TTTGAAAACACGAAAATT
* *
2881806 TGTG-AAACACGAGAATT
1 TTTGAAAACACGAAAATT
*
2881823 GTTGAAAACAC-ACAAATT
1 TTTGAAAACACGA-AAATT
2881841 TTTGAAAACACGAAAATT
1 TTTGAAAACACGAAAATT
*
2881859 TTTG-AAACACGAAAGTT
1 TTTGAAAACACGAAAATT
* * **
2881876 TTTAGGAAACATGAAAAAAAAAA
1 TTT-GAAAACACG----AAAATT
*
2881899 TTTG--ATCATCG-AAATT
1 TTTGAAAACA-CGAAAATT
*
2881915 TTTTAAAACACGAAAATT
1 TTTGAAAACACGAAAATT
*
2881933 TTTG-AAACACGGAAATT
1 TTTGAAAACACGAAAATT
*
2881950 TTTGAAAACACGGAAATTT
1 TTTGAAAACAC-GAAAATT
**
2881969 TTTGAAAACGTGAAAATT
1 TTTGAAAACACGAAAATT
*
2881987 TTTG-AAACAC-CAAATT
1 TTTGAAAACACGAAAATT
2882003 TTT
1 TTT
2882006 TTTAAACACA
Statistics
Matches: 214, Mismatches: 38, Indels: 45
0.72 0.13 0.15
Matches are distributed among these distances:
16 21 0.10
17 64 0.30
18 75 0.35
19 31 0.14
20 9 0.04
21 7 0.03
22 1 0.00
23 6 0.03
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (18 bp):
TTTGAAAACACGAAAATT
Found at i:2881855 original size:53 final size:53
Alignment explanation
Indices: 2881719--2881969 Score: 167
Period size: 53 Copynumber: 4.6 Consensus size: 53
2881709 TTTTCTTTGA
* *
2881719 AAAACACGAAAATTTTTGAAAACACGACAATTTTGAAACACGCAAAATTTTTTTG
1 AAAACACGAAAATTTTTGAAAACACGAAAATTTTGAAACACG-AAAA-TTTGTTG
* *** * *
2881774 AAAACCCGATTTTTTTTTG-AAACGCGAAAATTTGTGAAACACGAGAA-TTGTTG
1 AAAACACGA-AAATTTTTGAAAACACGAAAATTT-TGAAACACGAAAATTTGTTG
*
2881827 AAAACAC-ACAAATTTTTGAAAACACGAAAATTTTTGAAACACGAAAGTTT-TTAG
1 AAAACACGA-AAATTTTTGAAAACACGAAAA-TTTTGAAACACGAAAATTTGTT-G
* * ** * * *
2881881 GAAACATGAAAAAAAAAATTTG--ATCATCGAAATTTTTTAAAACACGAAAATTT-TTG
1 AAAACACG----AAAATTTTTGAAAACA-CGAAA-ATTTTGAAACACGAAAATTTGTTG
* *
2881937 -AAACACGGAAATTTTTGAAAACACGGAAATTTT
1 AAAACACGAAAATTTTTGAAAACACGAAAATTTT
2881970 TTGAAAACGT
Statistics
Matches: 150, Mismatches: 31, Indels: 34
0.70 0.14 0.16
Matches are distributed among these distances:
51 11 0.07
52 11 0.07
53 37 0.25
54 11 0.07
55 29 0.19
56 19 0.13
57 24 0.16
58 7 0.05
59 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.29
Consensus pattern (53 bp):
AAAACACGAAAATTTTTGAAAACACGAAAATTTTGAAACACGAAAATTTGTTG
Found at i:2882006 original size:17 final size:18
Alignment explanation
Indices: 2881909--2882006 Score: 114
Period size: 17 Copynumber: 5.6 Consensus size: 18
2881899 TTTGATCATC
*
2881909 GAAATTTTTTAAAACAC-
1 GAAATTTTTTGAAACACG
*
2881926 GAAAATTTTTGAAACACG
1 GAAATTTTTTGAAACACG
2881944 GAAA-TTTTTGAAAACACG
1 GAAATTTTTTG-AAACACG
2881962 GAAATTTTTTGAAA-ACG
1 GAAATTTTTTGAAACACG
*
2881979 TGAAAATTTTTGAAACAC-
1 -GAAATTTTTTGAAACACG
*
2881997 CAAATTTTTT
1 GAAATTTTTT
2882007 TTAAACACAA
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
17 32 0.45
18 31 0.44
19 8 0.11
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (18 bp):
GAAATTTTTTGAAACACG
Found at i:2882017 original size:17 final size:18
Alignment explanation
Indices: 2881985--2882022 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2881975 AACGTGAAAA
2881985 TTTTTGAAACACCAAATT
1 TTTTTGAAACACCAAATT
*
2882003 TTTTTTAAACA-CAAATT
1 TTTTTGAAACACCAAATT
2882020 TTT
1 TTT
2882023 CGATTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (18 bp):
TTTTTGAAACACCAAATT
Found at i:2882155 original size:20 final size:20
Alignment explanation
Indices: 2882130--2882195 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
2882120 GCCTTATTAT
2882130 TATTTTTTTGAAAACGCGAA
1 TATTTTTTTGAAAACGCGAA
*
2882150 TA-TTTTTTGAAACACGAGAA
1 TATTTTTTTGAAA-ACGCGAA
* * *
2882170 TTTTTTTTTGAAGACACGAA
1 TATTTTTTTGAAAACGCGAA
*
2882190 AATTTT
1 TATTTT
2882196 GAAGCACGAG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 10 0.27
20 18 0.49
21 9 0.24
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (20 bp):
TATTTTTTTGAAAACGCGAA
Found at i:2882162 original size:18 final size:19
Alignment explanation
Indices: 2882133--2882175 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
2882123 TTATTATTAT
*
2882133 TTTTTTGAAAACGCGA-ATA
1 TTTTTTGAAAACACGAGA-A
2882152 TTTTTTG-AAACACGAGAA
1 TTTTTTGAAAACACGAGAA
2882170 TTTTTT
1 TTTTTT
2882176 TTTGAAGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (19 bp):
TTTTTTGAAAACACGAGAA
Found at i:2882211 original size:16 final size:17
Alignment explanation
Indices: 2882174--2882211 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
2882164 CGAGAATTTT
2882174 TTTTTGAAGACACGAAA
1 TTTTTGAAGACACGAAA
* *
2882191 ATTTTGAAG-CACGAGA
1 TTTTTGAAGACACGAAA
2882207 TTTTT
1 TTTTT
2882212 TTTTTGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (17 bp):
TTTTTGAAGACACGAAA
Found at i:2882234 original size:38 final size:38
Alignment explanation
Indices: 2882132--2882236 Score: 129
Period size: 38 Copynumber: 2.7 Consensus size: 38
2882122 CTTATTATTA
*
2882132 TTTTTTTGAAAACGCGAATATTTTTTGAAACACGAGAATT
1 TTTTTTTGAAAACACG-A-ATTTTTTGAAACACGAGAATT
* ** * *
2882172 TTTTTTTGAAGACACGAAAATTTTGAAGCACGAGATTT
1 TTTTTTTGAAAACACGAATTTTTTGAAACACGAGAATT
*
2882210 TTTTTTTGAAAACATGAATTTTTTGAA
1 TTTTTTTGAAAACACGAATTTTTTGAA
2882237 TATTTACAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
38 40 0.73
39 1 0.02
40 14 0.25
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (38 bp):
TTTTTTTGAAAACACGAATTTTTTGAAACACGAGAATT
Found at i:2882384 original size:21 final size:21
Alignment explanation
Indices: 2882360--2882405 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
2882350 AAAAATATTA
* *
2882360 AAAATAAAATTAATTTGAATT
1 AAAATAAAATTAAATTAAATT
*
2882381 AAAATTAAATTAAATTAAATT
1 AAAATAAAATTAAATTAAATT
2882402 AAAA
1 AAAA
2882406 ATATAAATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
AAAATAAAATTAAATTAAATT
Found at i:2882385 original size:16 final size:16
Alignment explanation
Indices: 2882364--2882404 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
2882354 ATATTAAAAA
* *
2882364 TAAAATTAATTTGAAT
1 TAAAATTAAATTAAAT
2882380 TAAAATTAAATTAAAT
1 TAAAATTAAATTAAAT
2882396 T-AAATTAAA
1 TAAAATTAAA
2882405 AATATAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (16 bp):
TAAAATTAAATTAAAT
Found at i:2882392 original size:5 final size:5
Alignment explanation
Indices: 2882361--2882404 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
2882351 AAAATATTAA
* * *
2882361 AAATA AAATT AATTT GAATT AAAATT AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAATT -AAATT AAATT AAATT AAATT AAA
2882405 AATATAAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
5 29 0.88
6 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (5 bp):
AAATT
Found at i:2882564 original size:9 final size:8
Alignment explanation
Indices: 2882544--2882609 Score: 62
Period size: 8 Copynumber: 7.9 Consensus size: 8
2882534 AAATTGAACA
2882544 TTTTTTTC
1 TTTTTTTC
*
2882552 TTTTTTCC
1 TTTTTTTC
2882560 TTTTTTTCC
1 TTTTTTT-C
2882569 TTTTCTTTC
1 TTTT-TTTC
2882578 TTTTTTT-
1 TTTTTTTC
2882585 TTTCTTTCTC
1 TTT-TTT-TC
* *
2882595 TCTCTTTC
1 TTTTTTTC
2882603 TTTTTTT
1 TTTTTTT
2882610 TTGTTCGGTC
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
7 3 0.06
8 26 0.55
9 13 0.28
10 5 0.11
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTTC
Found at i:2882581 original size:25 final size:24
Alignment explanation
Indices: 2882544--2882611 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 24
2882534 AAATTGAACA
*
2882544 TTTT-TTTCTTTTTTCCTTTTTTTCC
1 TTTTCTTTCTTTTTT--TTTTCTTCC
*
2882569 TTTTCTTTCTTTTTTTTTTCTTTC
1 TTTTCTTTCTTTTTTTTTTCTTCC
*
2882593 TCTCTCTTTCTTTTTTTTT
1 T-TTTCTTTCTTTTTTTTT
2882612 GTTCGGTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 8 0.21
25 20 0.53
26 10 0.26
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (24 bp):
TTTTCTTTCTTTTTTTTTTCTTCC
Found at i:2882586 original size:21 final size:21
Alignment explanation
Indices: 2882547--2882609 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
2882537 TTGAACATTT
2882547 TTTTCTTT-TTTCCTTTTTTTCC
1 TTTTCTTTCTTT-CTTTTTTT-C
2882569 TTTTCTTTCTTT-TTTTTTTC
1 TTTTCTTTCTTTCTTTTTTTC
*
2882589 TTTCTCTCTCTTTCTTTTTTT
1 TTT-TCTTTCTTTCTTTTTTT
2882610 TTGTTCGGTC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
20 4 0.11
21 15 0.41
22 15 0.41
23 3 0.08
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTCTTTCTTTCTTTTTTTC
Found at i:2882592 original size:19 final size:19
Alignment explanation
Indices: 2882544--2882609 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 19
2882534 AAATTGAACA
*
2882544 TTTTTTTCTTT-TTTC-CT
1 TTTTTTTCTTTCTTTCTTT
*
2882561 TTTTTTCCTTTTCTTTCTTT
1 TTTTTTTC-TTTCTTTCTTT
2882581 TTTTTTTCTTTCTCTCTCTTT
1 TTTTTTTCTTTCT-T-TCTTT
2882602 CTTTTTTT
1 -TTTTTTT
2882610 TTGTTCGGTC
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 7 0.17
18 3 0.08
19 9 0.22
20 9 0.22
21 5 0.12
22 7 0.17
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTTTCTTTCTTTCTTT
Found at i:2882892 original size:15 final size:14
Alignment explanation
Indices: 2882871--2882916 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 14
2882861 TTTTTGATTT
2882871 TTTTTCTCTTTTTC
1 TTTTTCTCTTTTTC
2882885 TCTTTTCTCTTTTTC
1 T-TTTTCTCTTTTTC
*
2882900 TTCTTTCTCTTCTTC
1 TT-TTTCTCTTTTTC
2882915 TT
1 TT
2882917 CCCCTCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 2 0.07
15 27 0.93
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTCTCTTTTTC
Found at i:2882910 original size:9 final size:8
Alignment explanation
Indices: 2882871--2882915 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
2882861 TTTTTGATTT
2882871 TTTTTCTC
1 TTTTTCTC
2882879 TTTTTCTC
1 TTTTTCTC
2882887 -TTTTCTC
1 TTTTTCTC
2882894 TTTTTCT-
1 TTTTTCTC
*
2882901 TCTTTCTC
1 TTTTTCTC
*
2882909 TTCTTCT
1 TTTTTCT
2882916 TCCCCTCCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
7 13 0.41
8 19 0.59
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (8 bp):
TTTTTCTC
Found at i:2882936 original size:10 final size:10
Alignment explanation
Indices: 2882897--2882954 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
2882887 TTTTCTCTTT
*
2882897 TTCTTCTTTC
1 TTCTTCTTCC
2882907 -TCTTCTT-C
1 TTCTTCTTCC
** *
2882915 TTCCCCTCCC
1 TTCTTCTTCC
2882925 TTCTTCTTCC
1 TTCTTCTTCC
2882935 TTCTTCCTT-C
1 TTCTT-CTTCC
2882945 TTCTTCTTCC
1 TTCTTCTTCC
2882955 AGTTCTCCTA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
8 1 0.03
9 14 0.37
10 20 0.53
11 3 0.08
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:2883499 original size:59 final size:59
Alignment explanation
Indices: 2883393--2883561 Score: 167
Period size: 59 Copynumber: 2.8 Consensus size: 59
2883383 TGGCTGTCAG
* ** * * * * **
2883393 AGGGACCAAAATGTAATGGCAGCAAAACTTTTGGGGTTGAAACGTAATTTTGAGAAAGTTT
1 AGGGATCAAAATGTAATTTCA--AAAAATTTAGGGGTTGAAATGTAATTTTGAAAAAAATT
* * **
2883454 AGGGGTTAAAATGTAATTTCAAAATGTTTAGGGGTTGAAATGTAATTTTGAAAAAAATT
1 AGGGATCAAAATGTAATTTCAAAAAATTTAGGGGTTGAAATGTAATTTTGAAAAAAATT
* ** *
2883513 AGGGATCAAAATGTAATTTTAAAAAATTTAGGGGTCAAAATATAATTTT
1 AGGGATCAAAATGTAATTTCAAAAAATTTAGGGGTTGAAATGTAATTTT
2883562 TTTAAACACA
Statistics
Matches: 88, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
59 72 0.82
61 16 0.18
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.33
Consensus pattern (59 bp):
AGGGATCAAAATGTAATTTCAAAAAATTTAGGGGTTGAAATGTAATTTTGAAAAAAATT
Found at i:2883550 original size:29 final size:30
Alignment explanation
Indices: 2883436--2883561 Score: 139
Period size: 29 Copynumber: 4.3 Consensus size: 30
2883426 GGGTTGAAAC
* * *
2883436 GTAATTTTGAGAAAGTTTAGGGGTTAAAAT
1 GTAATTTTGAAAAAATTTAGGGGTCAAAAT
* ** **
2883466 GTAA-TTTCAAAATGTTTAGGGGTTGAAAT
1 GTAATTTTGAAAAAATTTAGGGGTCAAAAT
* *
2883495 GTAATTTTGAAAAAAATTAGGGATCAAAAT
1 GTAATTTTGAAAAAATTTAGGGGTCAAAAT
2883525 GTAATTTT-AAAAAATTTAGGGGTCAAAAT
1 GTAATTTTGAAAAAATTTAGGGGTCAAAAT
*
2883554 ATAATTTT
1 GTAATTTT
2883562 TTTAAACACA
Statistics
Matches: 81, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
29 51 0.63
30 30 0.37
ACGTcount: A:0.41, C:0.02, G:0.20, T:0.37
Consensus pattern (30 bp):
GTAATTTTGAAAAAATTTAGGGGTCAAAAT
Found at i:2883910 original size:43 final size:43
Alignment explanation
Indices: 2883826--2883911 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
2883816 CAATCATGTG
* * **
2883826 AGCTAAATTTAAGAATATTAATACTTGAATTATTTTTCTTGCA
1 AGCTAAATTTAAGAAAATTAATACTTGAATTATGTAGCTTGCA
* *
2883869 AGCTGAATTTGAGAAAATTAATACTTGAATTGA-GTAGCTTGCA
1 AGCTAAATTTAAGAAAATTAATACTTGAATT-ATGTAGCTTGCA
2883912 GTTTAACTCG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
43 35 0.97
44 1 0.03
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.38
Consensus pattern (43 bp):
AGCTAAATTTAAGAAAATTAATACTTGAATTATGTAGCTTGCA
Found at i:2885021 original size:7 final size:7
Alignment explanation
Indices: 2885009--2885034 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2884999 ATCCATGATA
2885009 AAACCCT
1 AAACCCT
2885016 AAACCCT
1 AAACCCT
2885023 AAACCCT
1 AAACCCT
2885030 AAACC
1 AAACC
2885035 AAATAATCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.42, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCCT
Found at i:2897220 original size:16 final size:16
Alignment explanation
Indices: 2897201--2897234 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
2897191 GGTTAATTTC
2897201 TTTTT-AATCTTTAAAA
1 TTTTTGAAT-TTTAAAA
2897217 TTTTTGAATTTTAAAA
1 TTTTTGAATTTTAAAA
2897233 TT
1 TT
2897235 CAATCCTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (16 bp):
TTTTTGAATTTTAAAA
Found at i:2903771 original size:31 final size:29
Alignment explanation
Indices: 2903699--2903752 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 29
2903689 ATTCAGAAAT
*
2903699 GTATTTTAAAAATA---AAAAATAAAAAA
1 GTATTTTAAAAATACTTTAAAATAAAAAA
2903725 GTATTTTAAAAATACTTTAAAATAAAAA
1 GTATTTTAAAAATACTTTAAAATAAAAA
2903753 TATATATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 14 0.58
29 10 0.42
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (29 bp):
GTATTTTAAAAATACTTTAAAATAAAAAA
Found at i:2905947 original size:21 final size:20
Alignment explanation
Indices: 2905919--2905957 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
2905909 TTTTTTTTTG
* *
2905919 AATTGAGTCGAGTGAAATGA
1 AATTGAGTCAAGTCAAATGA
2905939 AATTCGAGTCAAGTCAAAT
1 AATT-GAGTCAAGTCAAAT
2905958 CGAATCGAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (20 bp):
AATTGAGTCAAGTCAAATGA
Found at i:2906191 original size:20 final size:19
Alignment explanation
Indices: 2906166--2906277 Score: 77
Period size: 19 Copynumber: 5.7 Consensus size: 19
2906156 ATATTAACTC
2906166 TTTTTATATATTTTTTAGAA
1 TTTTTATA-ATTTTTTAGAA
*
2906186 TTTTTATAATTTTTTAAAA
1 TTTTTATAATTTTTTAGAA
** * *
2906205 AATATATAATTTTTGA-AA
1 TTTTTATAATTTTTTAGAA
*
2906223 TTTTTATAAATATTTT-GAA
1 TTTTTAT-AATTTTTTAGAA
* *
2906242 TTTTAAAAATTATTTT-GAA
1 TTTTTATAATT-TTTTAGAA
2906261 TTCTATTTATAATTTTT
1 -T-T-TTTATAATTTTT
2906278 GTTGAGGGAG
Statistics
Matches: 71, Mismatches: 15, Indels: 11
0.73 0.15 0.11
Matches are distributed among these distances:
18 9 0.13
19 42 0.59
20 9 0.13
21 4 0.06
22 7 0.10
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.59
Consensus pattern (19 bp):
TTTTTATAATTTTTTAGAA
Found at i:2930738 original size:22 final size:22
Alignment explanation
Indices: 2930699--2930741 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2930689 CTACTAATTT
*
2930699 TTGTTATTTTAATGCTATTTTC
1 TTGTTATTTTAATCCTATTTTC
**
2930721 TTGTTATTTTCTTCCTATTTT
1 TTGTTATTTTAATCCTATTTT
2930742 GCTACCATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.12, G:0.07, T:0.67
Consensus pattern (22 bp):
TTGTTATTTTAATCCTATTTTC
Found at i:2931462 original size:28 final size:27
Alignment explanation
Indices: 2931398--2931452 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
2931388 TAACTCTTTT
*
2931398 TATAT-ATTTTTAGAATTTTTTAAAAA
1 TATATAATTTTTAGAAGTTTTTAAAAA
*
2931424 TATATAATTTTT-GAAGTTTTTATAAA
1 TATATAATTTTTAGAAGTTTTTAAAAA
2931450 TAT
1 TAT
2931453 TTTGAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 20 0.77
27 6 0.23
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (27 bp):
TATATAATTTTTAGAAGTTTTTAAAAA
Found at i:2933120 original size:9 final size:9
Alignment explanation
Indices: 2933099--2933131 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
2933089 TTTTATTTTT
2933099 ATATTTAAAA
1 ATATTT-AAA
2933109 ATATTTAAA
1 ATATTTAAA
2933118 ATATTTAAA
1 ATATTTAAA
2933127 ATATT
1 ATATT
2933132 AATATAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 17 0.74
10 6 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
ATATTTAAA
Found at i:2933219 original size:9 final size:9
Alignment explanation
Indices: 2933193--2933225 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
2933183 ATATTTAGTC
2933193 ATATAATTA
1 ATATAATTA
2933202 AT-T-ATTA
1 ATATAATTA
2933209 ATATAATTA
1 ATATAATTA
2933218 ATATAATT
1 ATATAATT
2933226 TATTATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 6 0.27
8 2 0.09
9 14 0.64
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
ATATAATTA
Found at i:2933255 original size:19 final size:19
Alignment explanation
Indices: 2933233--2933270 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
2933223 ATTTATTATT
2933233 TTTAATAAATTA-TTTAATA
1 TTTAA-AAATTATTTTAATA
*
2933252 TTTAAAATTTATTTTAATA
1 TTTAAAAATTATTTTAATA
2933271 GAAAGTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTAAAAATTATTTTAATA
Found at i:2933770 original size:21 final size:19
Alignment explanation
Indices: 2933744--2933782 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
2933734 CCGGCCCAGT
2933744 TTTTAATAAACACAAAAAATC
1 TTTTAA-AAACA-AAAAAATC
*
2933765 TTTTAAAAATAAAAAAAT
1 TTTTAAAAACAAAAAAAT
2933783 AAAAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 4 0.24
21 6 0.35
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (19 bp):
TTTTAAAAACAAAAAAATC
Found at i:2935823 original size:28 final size:28
Alignment explanation
Indices: 2935792--2935845 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
2935782 TAACTCTTTT
* *
2935792 TATAT-ATTTTTTATAATTTTTTTAAAAA
1 TATATAATTTTTGA-AATTTTTATAAAAA
2935820 TATATAATTTTTGAAATTTTTATAAA
1 TATATAATTTTTGAAATTTTTATAAA
2935846 TATTTTGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (28 bp):
TATATAATTTTTGAAATTTTTATAAAAA
Found at i:2935858 original size:19 final size:20
Alignment explanation
Indices: 2935828--2935877 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
2935818 AATATATAAT
*
2935828 TTTTGAAATTTTTATAAA-TA
1 TTTTG-AATTTTTAAAAACTA
2935848 TTTTGAA-TTTTAAAAACTA
1 TTTTGAATTTTTAAAAACTA
2935867 TTTTGAATTTT
1 TTTTGAATTTT
2935878 ATTTGTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 8 0.30
19 11 0.41
20 8 0.30
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTTGAATTTTTAAAAACTA
Found at i:2935859 original size:18 final size:19
Alignment explanation
Indices: 2935837--2935879 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
2935827 TTTTTGAAAT
2935837 TTTTATAAA-TATTTTGAA
1 TTTTATAAACTATTTTGAA
*
2935855 TTTTAAAAACTATTTTGAA
1 TTTTATAAACTATTTTGAA
2935874 TTTTAT
1 TTTTAT
2935880 TTGTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (19 bp):
TTTTATAAACTATTTTGAA
Found at i:2936517 original size:5 final size:5
Alignment explanation
Indices: 2936507--2936531 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2936497 AAAACTTTCA
2936507 CTCCC CTCCC CTCCC CTCCC CTCCC
1 CTCCC CTCCC CTCCC CTCCC CTCCC
2936532 AACCCCCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.80, G:0.00, T:0.20
Consensus pattern (5 bp):
CTCCC
Found at i:2936665 original size:30 final size:31
Alignment explanation
Indices: 2936631--2936690 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
2936621 AAACATTTTA
*
2936631 TTTT-CCCTCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCT-AAAACTTTTACTCCCTTCCCAC
*
2936661 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
2936691 TCCCACCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:2939617 original size:27 final size:27
Alignment explanation
Indices: 2939566--2939633 Score: 65
Period size: 27 Copynumber: 2.6 Consensus size: 27
2939556 AAGAAATGAT
2939566 AAATCAATAA-AAT-ATAAAGAAACAAGCA
1 AAAT-AATAATAATAATAAAG-AACAA-CA
*
2939594 AAATAATAATAATAATAAAG-ACAATA
1 AAATAATAATAATAATAAAGAACAACA
2939620 AAA-AAT-ATAATAAT
1 AAATAATAATAATAAT
2939634 CTATTTTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
24 8 0.22
25 3 0.08
26 4 0.11
27 9 0.24
28 7 0.19
29 6 0.16
ACGTcount: A:0.69, C:0.06, G:0.04, T:0.21
Consensus pattern (27 bp):
AAATAATAATAATAATAAAGAACAACA
Found at i:2940717 original size:20 final size:19
Alignment explanation
Indices: 2940682--2940736 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
2940672 TTTGTTTTGT
2940682 TTTCTTTTGTTTGCTTCTG
1 TTTCTTTTGTTTGCTTCTG
2940701 TTTC-TTTGTTTTCGCTTCTG
1 TTTCTTTTG-TTT-GCTTCTG
*
2940721 TTGTCTTCT-TTTGCTT
1 TT-TCTTTTGTTTGCTT
2940737 GCGTGTTGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 4 0.13
19 11 0.35
20 12 0.39
21 2 0.06
22 2 0.06
ACGTcount: A:0.00, C:0.18, G:0.15, T:0.67
Consensus pattern (19 bp):
TTTCTTTTGTTTGCTTCTG
Found at i:2941233 original size:46 final size:44
Alignment explanation
Indices: 2941180--2941265 Score: 111
Period size: 46 Copynumber: 1.9 Consensus size: 44
2941170 GAAGTGTCGC
*
2941180 TTCAATCTGCTTCC-CTACAACTTCAAGGAGAAATAAGACTTGTAGT
1 TTCAATCTAC-TCCACTACAACTTC-AGG-GAAATAAGACTTGTAGT
* *
2941226 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTG
1 TTCAATCTACTCCACTACAACTTCAGGGAAATAAGACTTG
2941266 GCTTTGGTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 12 0.33
45 6 0.17
46 18 0.50
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.29
Consensus pattern (44 bp):
TTCAATCTACTCCACTACAACTTCAGGGAAATAAGACTTGTAGT
Found at i:2941397 original size:44 final size:44
Alignment explanation
Indices: 2941290--2941402 Score: 129
Period size: 44 Copynumber: 2.6 Consensus size: 44
2941280 GATCCGACCT
* ** * *
2941290 ACTGCAACTTC-AAAGGTATAGGATTTGTGGTTTTAATCTGCTCC
1 ACTGCAACTTCAAAAAG-ATAGGATCGGTGGCTTCAATCTGCTCC
* **
2941334 ACTACAACTTCAAGGAGATAGGATCGGTGGCTTCAATCTGCTCC
1 ACTGCAACTTCAAAAAGATAGGATCGGTGGCTTCAATCTGCTCC
*
2941378 ACTGCAACTTCAAAAAGATAAGATC
1 ACTGCAACTTCAAAAAGATAGGATC
2941403 TGCCATAATT
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 54 0.96
45 2 0.04
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (44 bp):
ACTGCAACTTCAAAAAGATAGGATCGGTGGCTTCAATCTGCTCC
Found at i:2941498 original size:45 final size:44
Alignment explanation
Indices: 2941423--2941540 Score: 119
Period size: 44 Copynumber: 2.7 Consensus size: 44
2941413 TGTATCTTTT
* ** * * *
2941423 ATCTGTTCCACTGCAACACCAGGGAAATAAGATTCGATGTCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-GATGGCTTCA
* * *
2941468 GTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTGATGGCTTCA
* * *
2941512 ATATACTCCACTGCAACTTCAGGAAGATA
1 ATCTGCTCCACTGCAACTTCAGGGAGATA
2941541 GGATCTGCCA
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
44 33 0.55
45 27 0.45
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTGATGGCTTCA
Found at i:2941507 original size:143 final size:142
Alignment explanation
Indices: 2941338--2941954 Score: 842
Period size: 143 Copynumber: 4.3 Consensus size: 142
2941328 TGCTCCACTA
* * *
2941338 CAACTTCAAGGAGAT-AGGATCGGTGGCTTCAATCTGCTCCACTGCAACTTCAAAAAGATAAGAT
1 CAACTTCAGGGAGATAAGGCT-GGTGGCTTCAATCTGCTCCACTGCAACTTCAGAAAGATAAGAT
* * *
2941402 CTGCCATAATTTGTATCTTTTATCTGTTCCACTGCAACACCAGGGAAATAAGATTCGATGTCTTC
65 CTGCCATAATTTGTAGCTTTAATCTATTCCACTGCAACACCAGGGAAATAAGATTCG-TGTCTTC
**
2941467 AGTCTGCTCCACTG
129 AGTCTGCTCTGCTG
* * * *
2941481 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATATACTCCACTGCAACTTCAGGAAGATAGGATC
1 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGAAAGATAAGATC
* * * *
2941546 TGCCATAATTTGTAGCTTTAACCCATT-CACTGCAACGCCAGGGAAATAAGATTTGGTGTCTTCA
66 TGCCATAATTTGTAGCTTTAATCTATTCCACTGCAACACCAGGGAAATAAGA-TTCGTGTCTTCA
*
2941610 GTTTGCTCTGCTG
130 GTCTGCTCTGCTG
* * * * *
2941623 CAACTTCAGAGAGATAAGGCCGGTGACTTCAATCTGCTCCACTACAACTTCAGGAAGATAAGATC
1 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGAAAGATAAGATC
* *
2941688 CGCCATAATTTGTAGCTTTAATCTATTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCA
66 TGCCATAATTTGTAGCTTTAATCTATTCCACTGCAACACCAGGGAAATAAGATTCG-TGTCTTCA
* *
2941753 GTCTGTTCTGTTG
130 GTCTGCTCTGCTG
* *
2941766 CAACTTCAGGGAGATAAGGCTGGTGACTTCAATCTACTCCACTGCAACTTCAGAAAGATAAGATC
1 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGAAAGATAAGATC
* * * * *
2941831 TGCCATAATTTGTAGCTTTAATTTGTTCCATTGTAACACCAGGGAAATAAGATTTGTGGTCTTCA
66 TGCCATAATTTGTAGCTTTAATCTATTCCACTGCAACACCAGGGAAATAAGATTCGT-GTCTTCA
2941896 GTCTGCTCTGCTG
130 GTCTGCTCTGCTG
* * * *
2941909 CAACTTCAGGAAGATAAGGCTGCTGGCTTAAATCTGCCCCACTGCA
1 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCA
2941955 GTGCCAGGGA
Statistics
Matches: 418, Mismatches: 51, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
142 127 0.30
143 287 0.69
144 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (142 bp):
CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGAAAGATAAGATC
TGCCATAATTTGTAGCTTTAATCTATTCCACTGCAACACCAGGGAAATAAGATTCGTGTCTTCAG
TCTGCTCTGCTG
Found at i:2941848 original size:285 final size:286
Alignment explanation
Indices: 2941311--2941951 Score: 880
Period size: 285 Copynumber: 2.2 Consensus size: 286
2941301 AAAGGTATAG
* * ** * *
2941311 GATTTGTGGT-TTTAATCTGCTCCACTACAACTTCAAGG-AGAT-AGGATCGGTGGCTTCAATCT
1 GATTTGTGGTCTTCAGTCTGCTCTGCTGCAACTTC-AGGAAGATAAGG-CCGGTGGCTTCAATCT
* * * * *
2941373 GCTCCACTGCAACTTCAAAAAGATAAGATCTGCCATAATTTGTATCTTTTATCTGTTCCACTGCA
64 GCTCCACTACAACTTCAAAAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTATTCCACTGCA
2941438 ACACCAGGGAAATAAGATTCGATGTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTG
129 ACACCAGGGAAATAAGATTCGATGTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTG
* * *
2941503 GTGGCTTCAATATACTCCACTGCAACTTCAGGAAGATAGGATCTGCCATAATTTGTAGCTTTAAC
194 GTGACTTCAATATACTCCACTGCAACTTCAGAAAGATAAGATCTGCCATAATTTGTAGCTTTAAC
*
2941568 CCATT-CACTGCAACGCCAGGGAAATAA
259 CCATTCCACTGCAACACCAGGGAAATAA
* *
2941595 GATTTG-GTGTCTTCAGTTTGCTCTGCTGCAACTTCA-GAGAGATAAGGCCGGTGACTTCAATCT
1 GATTTGTG-GTCTTCAGTCTGCTCTGCTGCAACTTCAGGA-AGATAAGGCCGGTGGCTTCAATCT
**
2941658 GCTCCACTACAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTATTCCACTGCA
64 GCTCCACTACAACTTCAAAAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTATTCCACTGCA
* * * ***
2941723 ACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGTTCTGTTGCAACTTCAGGGAGATAAGGCTG
129 ACACCAGGGAAATAAGATTCGATGTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTG
* *
2941788 GTGACTTCAATCTACTCCACTGCAACTTCAGAAAGATAAGATCTGCCATAATTTGTAGCTTTAAT
194 GTGACTTCAATATACTCCACTGCAACTTCAGAAAGATAAGATCTGCCATAATTTGTAGCTTTAAC
*** * *
2941853 TTGTTCCATTGTAACACCAGGGAAATAA
259 CCATTCCACTGCAACACCAGGGAAATAA
* * *
2941881 GATTTGTGGTCTTCAGTCTGCTCTGCTGCAACTTCAGGAAGATAAGGCTGCTGGCTTAAATCTGC
1 GATTTGTGGTCTTCAGTCTGCTCTGCTGCAACTTCAGGAAGATAAGGCCGGTGGCTTCAATCTGC
*
2941946 CCCACT
66 TCCACT
2941952 GCAGTGCCAG
Statistics
Matches: 311, Mismatches: 38, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
283 2 0.01
284 9 0.03
285 215 0.69
286 82 0.26
287 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (286 bp):
GATTTGTGGTCTTCAGTCTGCTCTGCTGCAACTTCAGGAAGATAAGGCCGGTGGCTTCAATCTGC
TCCACTACAACTTCAAAAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTATTCCACTGCAAC
ACCAGGGAAATAAGATTCGATGTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGT
GACTTCAATATACTCCACTGCAACTTCAGAAAGATAAGATCTGCCATAATTTGTAGCTTTAACCC
ATTCCACTGCAACACCAGGGAAATAA
Found at i:2941954 original size:44 final size:44
Alignment explanation
Indices: 2941906--2942059 Score: 98
Period size: 44 Copynumber: 3.5 Consensus size: 44
2941896 GTCTGCTCTG
2941906 CTGCAACTTCAGGAAGATAAGGCTGCTGGCTTAAATCTGCCCCA
1 CTGCAACTTCAGGAAGATAAGGCTGCTGGCTTAAATCTGCCCCA
* * *** * * * * *
2941950 CTGC-AGTGCCAGGGAA-ATAAAATTTGCTGTCTTTAGTCTGCTCCG
1 CTGCAACT-TCA-GGAAGAT-AAGGCTGCTGGCTTAAATCTGCCCCA
* * * *
2941995 CTGCAACTTTAAGG-AGATAAGGCTGGTGGCTTGAATATGCCCCA
1 CTGCAAC-TTCAGGAAGATAAGGCTGCTGGCTTAAATCTGCCCCA
* * *
2942039 CTACAAATTCAAGAAGATAAG
1 CTGCAACTTCAGGAAGATAAG
2942060 ATCCACCATA
Statistics
Matches: 76, Mismatches: 27, Indels: 14
0.65 0.23 0.12
Matches are distributed among these distances:
43 6 0.08
44 37 0.49
45 30 0.39
46 2 0.03
47 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.25
Consensus pattern (44 bp):
CTGCAACTTCAGGAAGATAAGGCTGCTGGCTTAAATCTGCCCCA
Found at i:2941963 original size:232 final size:232
Alignment explanation
Indices: 2941715--2942188 Score: 603
Period size: 232 Copynumber: 2.0 Consensus size: 232
2941705 TTAATCTATT
* * * * *
2941715 CCACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGTTCTGTTGCAACTTCAGGGAGA
1 CCACTGCAACGCCAGGGAAATAAAATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAAGGAGA
* * * * **
2941780 TAAGGCTGGTGACTTCAATCTACTCCACTGCAACTTC-AGAAAGATAAGATCTGCCATAATTTGT
66 TAAGGCTGGTGACTTCAATATACCCCACTACAAATTCAAG-AAGATAAGATCCACCATAATTTGT
* * * * *
2941844 AGCTTTAATTTGTTCCATTGTAACACCAGGGAAATAAGATTTG-TGGTCTTCAGTCTGCTCTGCT
130 AGCTTTAATCTGTTCCACTGCAACACCAGGGAAATAAAATTCGCT-GTCTTCAGTCTGCTCTGCT
2941908 GCAACTTCA-GGAAGATAAGGCTGCTGGCTTAAATCTGCC
194 GCAACTTCAGGGAA-ATAAGGCTGCTGGCTTAAATCTGCC
** * * *
2941947 CCACTGCAGTGCCAGGGAAATAAAATTTGCTGTCTTTAGTCTGCTCCGCTGCAACTTTAAGGAGA
1 CCACTGCAACGCCAGGGAAATAAAATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAAGGAGA
* * *
2942012 TAAGGCTGGTGGCTTGAATATGCCCCACTACAAATTCAAGAAGATAAGATCCACCATAATTTGTA
66 TAAGGCTGGTGACTTCAATATACCCCACTACAAATTCAAGAAGATAAGATCCACCATAATTTGTA
** * * *
2942077 GCTTTAATCTGTTCCACTGCAATGCTAGGGAAATAAAATTCGCTGTCTTTAGTCTGCTCTGTTGC
131 GCTTTAATCTGTTCCACTGCAACACCAGGGAAATAAAATTCGCTGTCTTCAGTCTGCTCTGCTGC
* * * *
2942142 AACTTTAGGGAAATAAGGCTGGTGGCTTCAATCTGCT
196 AACTTCAGGGAAATAAGGCTGCTGGCTTAAATCTGCC
2942179 CCACTGCAAC
1 CCACTGCAAC
2942189 TTCAGGAAGA
Statistics
Matches: 204, Mismatches: 35, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
232 197 0.97
233 7 0.03
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (232 bp):
CCACTGCAACGCCAGGGAAATAAAATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAAGGAGA
TAAGGCTGGTGACTTCAATATACCCCACTACAAATTCAAGAAGATAAGATCCACCATAATTTGTA
GCTTTAATCTGTTCCACTGCAACACCAGGGAAATAAAATTCGCTGTCTTCAGTCTGCTCTGCTGC
AACTTCAGGGAAATAAGGCTGCTGGCTTAAATCTGCC
Found at i:2942025 original size:89 final size:89
Alignment explanation
Indices: 2941869--2942040 Score: 249
Period size: 89 Copynumber: 1.9 Consensus size: 89
2941859 CATTGTAACA
* * *
2941869 CCAGGGAAATAAGATTTGTGGTCTTCAGTCTGCTCTGCTGCAACTTCAGGAAGATAAGGCTGCTG
1 CCAGGGAAATAAAATTTGTGGTCTTCAGTCTGCTCCGCTGCAACTTAAGGAAGATAAGGCTGCTG
*
2941934 GCTTAAATCTGCCCCACTGCAGTG
66 GCTTAAATATGCCCCACTGCAGTG
* *
2941958 CCAGGGAAATAAAATTTGCT-GTCTTTAGTCTGCTCCGCTGCAACTTTAAGG-AGATAAGGCTGG
1 CCAGGGAAATAAAATTTG-TGGTCTTCAGTCTGCTCCGCTGCAAC-TTAAGGAAGATAAGGCTGC
*
2942021 TGGCTTGAATATGCCCCACT
64 TGGCTTAAATATGCCCCACT
2942041 ACAAATTCAA
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
89 68 0.92
90 6 0.08
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (89 bp):
CCAGGGAAATAAAATTTGTGGTCTTCAGTCTGCTCCGCTGCAACTTAAGGAAGATAAGGCTGCTG
GCTTAAATATGCCCCACTGCAGTG
Found at i:2942079 original size:375 final size:375
Alignment explanation
Indices: 2941573--2942331 Score: 1099
Period size: 375 Copynumber: 2.0 Consensus size: 375
2941563 TTAACCCATT
* * * * *
2941573 CACTGCAACGCCAGGGAAATAAGATTTGGTGTCTTCAGTTTGCTCTGCTGCAACTTCAGAGAGAT
1 CACTGCAACGCCAGGGAAATAAAATTTGCTGTCTTCAGTCTGCTCCGCTGCAACTTAAGAGAGAT
* * * * *
2941638 AAGGCCGGTGACTTCAATCTGCTCCACTACAACTTCAGGAAGATAAGATCCGCCATAATTTGTAG
66 AAGGCCGGTGACTTCAATATGCCCCACTACAAATTCAAGAAGATAAGATCCACCATAATTTGTAG
* *
2941703 CTTTAATCTATTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGTTCTGTTGCA
131 CTTTAATCTATTCCACTGCAACGCCAGGGAAATAAAATTCGCTGTCTTCAGTCTGCTCTGTTGCA
* *
2941768 ACTTCAGGGAGATAAGGCTGGTGACTTCAATCTACTCCACTGCAACTTCAGAAAGATAAGATCTG
196 ACTTCAGGGAAATAAGGCTGGTGACTTCAATCTACTCCACTGCAACTTCAGAAAGATAAGATCCG
* ** * *
2941833 CCATAATTTGTAGCTTTAATTTGTTCCATTGTAACACCAGGGAAATAAGATTTG-TGGTCTTCAG
261 CCATAATTTGTAGCTTTAATCTGTTCCACCGCAACACCAGGGAAATAAGATTCGCT-GTCTTCAG
** *
2941897 TCTGCTCTGCTGCAACTTCAGGAAGATAAGGCTGCTGGCTTAAATCTGCCC
325 TCTGCTCCACTGCAACTTCAGGAAGATAAGGCTGCTGGCTTAAATCTACCC
** *
2941948 CACTGCAGTGCCAGGGAAATAAAATTTGCTGTCTTTAGTCTGCTCCGCTGCAACTTTAAG-GAGA
1 CACTGCAACGCCAGGGAAATAAAATTTGCTGTCTTCAGTCTGCTCCGCTGCAAC-TTAAGAGAGA
* * *
2942012 TAAGGCTGGTGGCTTGAATATGCCCCACTACAAATTCAAGAAGATAAGATCCACCATAATTTGTA
65 TAAGGCCGGTGACTTCAATATGCCCCACTACAAATTCAAGAAGATAAGATCCACCATAATTTGTA
* * * *
2942077 GCTTTAATCTGTTCCACTGCAATGCTAGGGAAATAAAATTCGCTGTCTTTAGTCTGCTCTGTTGC
130 GCTTTAATCTATTCCACTGCAACGCCAGGGAAATAAAATTCGCTGTCTTCAGTCTGCTCTGTTGC
* * * *
2942142 AACTTTAGGGAAATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCC
195 AACTTCAGGGAAATAAGGCTGGTGACTTCAATCTACTCCACTGCAACTTCAGAAAGATAAGATCC
* *
2942207 GCCATAATTTGTAGCTTTAATCTGTTCCACCGCAACGCTAGGGAAATAAGATTCGCTGTCTTCAG
260 GCCATAATTTGTAGCTTTAATCTGTTCCACCGCAACACCAGGGAAATAAGATTCGCTGTCTTCAG
* * * * *
2942272 TCTGTTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTC
325 TCTGCTCCACTGCAACTTCAGGAAGATAAGGCTGCTGGCTTAAATCTACCC
2942323 CACTGCAAC
1 CACTGCAAC
2942332 TTCAGGAAGA
Statistics
Matches: 337, Mismatches: 45, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
375 332 0.99
376 5 0.01
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (375 bp):
CACTGCAACGCCAGGGAAATAAAATTTGCTGTCTTCAGTCTGCTCCGCTGCAACTTAAGAGAGAT
AAGGCCGGTGACTTCAATATGCCCCACTACAAATTCAAGAAGATAAGATCCACCATAATTTGTAG
CTTTAATCTATTCCACTGCAACGCCAGGGAAATAAAATTCGCTGTCTTCAGTCTGCTCTGTTGCA
ACTTCAGGGAAATAAGGCTGGTGACTTCAATCTACTCCACTGCAACTTCAGAAAGATAAGATCCG
CCATAATTTGTAGCTTTAATCTGTTCCACCGCAACACCAGGGAAATAAGATTCGCTGTCTTCAGT
CTGCTCCACTGCAACTTCAGGAAGATAAGGCTGCTGGCTTAAATCTACCC
Found at i:2942188 original size:44 final size:44
Alignment explanation
Indices: 2942139--2942345 Score: 132
Period size: 44 Copynumber: 4.5 Consensus size: 44
2942129 TCTGCTCTGT
*
2942139 TGCAACTTTAGGGAAATAAGGCTGGTGGCTTCAATCTGCTCCAC
1 TGCAACTTCAGGGAAATAAGGCTGGTGGCTTCAATCTGCTCCAC
* * * *
2942183 TGCAACTTCA-GGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCAC
1 TGCAACTTCAGGGAA-ATAAG----G-C-----TGGTGGCTTCAATCTGCTCCAC
* * ** * * * *
2942237 CGCAAC-GCTAGGGAAATAAGATTCGCTGTCTTCAGTCTGTTCCAC
1 TGCAACTTC-AGGGAAATAAGGCT-GGTGGCTTCAATCTGCTCCAC
* *
2942282 TGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCAC
1 TGCAACTTCAGGGAAATAAGGCTGGTGGCTTCAATCTGCTCCAC
2942326 TGCAACTTCA-GGAAGATAAG
1 TGCAACTTCAGGGAA-ATAAG
2942346 ATCCGCCATA
Statistics
Matches: 121, Mismatches: 26, Indels: 32
0.68 0.15 0.18
Matches are distributed among these distances:
43 7 0.06
44 46 0.38
45 31 0.26
46 1 0.01
48 1 0.01
49 1 0.01
53 1 0.01
54 29 0.24
55 4 0.03
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (44 bp):
TGCAACTTCAGGGAAATAAGGCTGGTGGCTTCAATCTGCTCCAC
Found at i:2942198 original size:143 final size:143
Alignment explanation
Indices: 2941947--2942357 Score: 624
Period size: 143 Copynumber: 2.9 Consensus size: 143
2941937 TAAATCTGCC
* * * *
2941947 CCACTGCAGTGCCAGGGAAATAAAATTTGCTGTCTTTAGTCTGCTCCGCTGCAACTTTAAGGAGA
1 CCACTGCAATGCTAGGGAAATAAAATTCGCTGTCTTTAGTCTGCTCCGCTGCAACTTTAGGGAGA
* * * * * * *
2942012 TAAGGCTGGTGGCTTGAATATGCCCCACTACAAATTCAAGAAGATAAGATCCACCATAATTTGTA
66 TAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTA
2942077 GCTTTAATCTGTT
131 GCTTTAATCTGTT
* * *
2942090 CCACTGCAATGCTAGGGAAATAAAATTCGCTGTCTTTAGTCTGCTCTGTTGCAACTTTAGGGAAA
1 CCACTGCAATGCTAGGGAAATAAAATTCGCTGTCTTTAGTCTGCTCCGCTGCAACTTTAGGGAGA
2942155 TAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTA
66 TAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTA
2942220 GCTTTAATCTGTT
131 GCTTTAATCTGTT
* * * * * * *
2942233 CCACCGCAACGCTAGGGAAATAAGATTCGCTGTCTTCAGTCTGTTCCACTGCAACTTCAGGGAGA
1 CCACTGCAATGCTAGGGAAATAAAATTCGCTGTCTTTAGTCTGCTCCGCTGCAACTTTAGGGAGA
*
2942298 TAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAAT
66 TAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAAT
2942358 GACTTCAATC
Statistics
Matches: 243, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
143 243 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (143 bp):
CCACTGCAATGCTAGGGAAATAAAATTCGCTGTCTTTAGTCTGCTCCGCTGCAACTTTAGGGAGA
TAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTA
GCTTTAATCTGTT
Found at i:2943246 original size:10 final size:9
Alignment explanation
Indices: 2943229--2943261 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
2943219 GGCCTCTCCC
2943229 TTTTTTCTT
1 TTTTTTCTT
2943238 TTCTTTTC-T
1 TT-TTTTCTT
2943247 TTTTTTCTT
1 TTTTTTCTT
2943256 TTTTTT
1 TTTTTT
2943262 AAGTGAAGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 5 0.23
9 12 0.55
10 5 0.23
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:2953217 original size:16 final size:17
Alignment explanation
Indices: 2953180--2953221 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
2953170 CTAAGCTAGG
2953180 TACA-ATAT-ATATGTA
1 TACATATATAATATGTA
2953195 TACATATATAATATGT-
1 TACATATATAATATGTA
*
2953211 TATATATATAA
1 TACATATATAA
2953222 GTAAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 14 0.58
17 6 0.25
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (17 bp):
TACATATATAATATGTA
Found at i:2955506 original size:14 final size:15
Alignment explanation
Indices: 2955489--2955525 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
2955479 GTTTAGTCAC
*
2955489 TAGGGTTTTT-GGTT
1 TAGGGTTTTTAGGGT
2955503 TAGGGTTTTTAGGGT
1 TAGGGTTTTTAGGGT
2955518 TA-GGTTTT
1 TAGGGTTTT
2955526 GTTAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.11, C:0.00, G:0.35, T:0.54
Consensus pattern (15 bp):
TAGGGTTTTTAGGGT
Found at i:2955693 original size:34 final size:32
Alignment explanation
Indices: 2955576--2955701 Score: 119
Period size: 34 Copynumber: 3.7 Consensus size: 32
2955566 GAATAAATCA
2955576 AGGTTTAGAGTTTTTTTAAAAAAATT-ATTAAATT
1 AGGTTTAGAG--TTTTT-AAAAAATTAATTAAATT
*
2955610 AGGTTTTAGAGGTTTTAAATAAATTAATTAAATT
1 AGG-TTTAGAGTTTTTAAA-AAATTAATTAAATT
* *
2955644 AGGGCTTAGAGTTTTTAAGAAAATTAACTAAATT
1 A-GGTTTAGAGTTTTTAA-AAAATTAATTAAATT
** *
2955678 ATGGTTTAGTTTTTTTAAATAATT
1 A-GGTTTAGAGTTTTTAAAAAATT
2955702 TTGTCTTTAG
Statistics
Matches: 78, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
32 3 0.04
33 14 0.18
34 51 0.65
35 10 0.13
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.45
Consensus pattern (32 bp):
AGGTTTAGAGTTTTTAAAAAATTAATTAAATT
Found at i:2959919 original size:21 final size:19
Alignment explanation
Indices: 2959870--2959925 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 19
2959860 AATTTTCGAG
2959870 GATATACAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
2959889 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
2959908 GATATATACAATCTTAGA
1 G--ATATACAATCTTAGA
2959926 AGATACGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 19 0.58
21 14 0.42
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:2962654 original size:140 final size:140
Alignment explanation
Indices: 2962402--2962682 Score: 562
Period size: 140 Copynumber: 2.0 Consensus size: 140
2962392 TTTATTGTTT
2962402 AATTTTTGTAATCGATCCAGCTAAACAAGATGTTTTGGATTGGAGAAAACGCTTCAACATTATTA
1 AATTTTTGTAATCGATCCAGCTAAACAAGATGTTTTGGATTGGAGAAAACGCTTCAACATTATTA
2962467 AAGGGATTAAGCAAGGATTGCTTTATCTTCATAGAGATTCAAGACTAAGGATTATACATAGAGAT
66 AAGGGATTAAGCAAGGATTGCTTTATCTTCATAGAGATTCAAGACTAAGGATTATACATAGAGAT
2962532 TTAAAAGTAA
131 TTAAAAGTAA
2962542 AATTTTTGTAATCGATCCAGCTAAACAAGATGTTTTGGATTGGAGAAAACGCTTCAACATTATTA
1 AATTTTTGTAATCGATCCAGCTAAACAAGATGTTTTGGATTGGAGAAAACGCTTCAACATTATTA
2962607 AAGGGATTAAGCAAGGATTGCTTTATCTTCATAGAGATTCAAGACTAAGGATTATACATAGAGAT
66 AAGGGATTAAGCAAGGATTGCTTTATCTTCATAGAGATTCAAGACTAAGGATTATACATAGAGAT
2962672 TTAAAAGTAA
131 TTAAAAGTAA
2962682 A
1 A
2962683 TAATATTTTA
Statistics
Matches: 141, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
140 141 1.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (140 bp):
AATTTTTGTAATCGATCCAGCTAAACAAGATGTTTTGGATTGGAGAAAACGCTTCAACATTATTA
AAGGGATTAAGCAAGGATTGCTTTATCTTCATAGAGATTCAAGACTAAGGATTATACATAGAGAT
TTAAAAGTAA
Found at i:2966488 original size:16 final size:17
Alignment explanation
Indices: 2966467--2966499 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
2966457 AAGTTCAATA
2966467 TTCACTAA-ATGTATAT
1 TTCACTAACATGTATAT
2966483 TTCACTAACATGTATAT
1 TTCACTAACATGTATAT
2966500 CCAAATCACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.42
Consensus pattern (17 bp):
TTCACTAACATGTATAT
Found at i:2967371 original size:37 final size:37
Alignment explanation
Indices: 2967280--2967428 Score: 178
Period size: 46 Copynumber: 3.9 Consensus size: 37
2967270 TACGTATGAT
*
2967280 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
2967315 CAC-TATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
2967351 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AGC
2967394 TATCACTTATCACTTTGTCTCTTGATCAGATAAGT
1 ---CACTTATCACTTTGTCTCTTGATCAGATAAGT
2967429 AAGCCGAAGC
Statistics
Matches: 99, Mismatches: 3, Indels: 15
0.85 0.03 0.13
Matches are distributed among these distances:
34 6 0.06
35 7 0.07
36 22 0.22
37 25 0.25
39 2 0.02
40 1 0.01
41 1 0.01
43 3 0.03
44 2 0.02
46 30 0.30
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:2967451 original size:52 final size:50
Alignment explanation
Indices: 2967394--2967806 Score: 549
Period size: 52 Copynumber: 8.2 Consensus size: 50
2967384 TAGCTAAAGC
*
2967394 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTAAGCCGAAGCTATCACT
1 TATCACTT-TCAC-TTGTCACTTGATCAGATAAGTAAGCCGAAGCTATCACT
*
2967446 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCAC-TTTCACTTGTCACTTGATCAGATAAGT-AAGCCGAAGCTATCACT
2967498 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCAC-TTTCACTTGTCACTTGATCAGATAAGTA-AGCCGAAGCTATCACT
*
2967550 TATCACTTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTCACTTGTCACTTGATCAGATAAGTA-AGCCGAAGCTATCACT
*
2967596 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTT-CACTTGTCACTTGATCAGATAAGT-AAGCCGAAGCTATCACT
2967648 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCAC-TTTCACTTGTCACTTGATCAGATAAGTA-AGCCGAAGCTATCACT
*
2967700 TATCACTTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTCACTTGTCACTTGATCAGATAAGTA-AGCCGAAGCTATCACT
* ** *
2967746 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTT-CACTTGTCACTTGATCAGATAAGT-AAGCCGAAGCTATCACT
2967798 TATCACTTT
1 TATCACTTT
2967807 ATCACTTGAT
Statistics
Matches: 329, Mismatches: 13, Indels: 38
0.87 0.03 0.10
Matches are distributed among these distances:
46 88 0.27
48 2 0.01
50 2 0.01
51 26 0.08
52 206 0.63
53 5 0.02
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (50 bp):
TATCACTTTCACTTGTCACTTGATCAGATAAGTAAGCCGAAGCTATCACT
Found at i:2967626 original size:150 final size:150
Alignment explanation
Indices: 2967351--2967814 Score: 795
Period size: 150 Copynumber: 3.1 Consensus size: 150
2967341 TAAGTGTAGC
* * * ** * *
2967351 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACT
* *
2967416 TGATCAGATAAGTA-AGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGT
65 TGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
2967480 GTAGCCGAAGCTATCACTTAT
130 GTAGCCGAAGCTATCACTTAT
2967501 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTT
2967566 GATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTG
66 GATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTG
2967631 TAGCCGAAGCTATCACTTAT
131 TAGCCGAAGCTATCACTTAT
2967651 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTT
2967716 GATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTG
66 GATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTG
** *
2967781 TAGCTAAAGCTACCACTTAT
131 TAGCCGAAGCTATCACTTAT
2967801 CACTTTATCACTTG
1 CACTTT-TCACTTG
2967815 ATCAGAAGTA
Statistics
Matches: 300, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
149 62 0.21
150 231 0.77
151 7 0.02
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (150 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTT
GATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTG
TAGCCGAAGCTATCACTTAT
Found at i:2967815 original size:98 final size:98
Alignment explanation
Indices: 2967351--2967820 Score: 639
Period size: 98 Copynumber: 4.7 Consensus size: 98
2967341 TAAGTGTAGC
* * ** * *
2967351 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTATCACT
2967416 TGATCAGATAAGTA-AGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
2967449 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTCACTTG
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC-TTT-A----
2967514 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
60 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
2967553 CAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTG
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT--A----
*
2967612 TCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
60 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
2967651 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTATCACTT
*
2967716 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* ** *
2967749 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTATCACTT
2967814 GATCAGA
66 GATCAGA
2967821 AGTACTCAAA
Statistics
Matches: 341, Mismatches: 17, Indels: 28
0.88 0.04 0.07
Matches are distributed among these distances:
97 45 0.13
98 203 0.60
99 3 0.01
100 1 0.00
102 2 0.01
103 21 0.06
104 66 0.19
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTATCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:2968644 original size:17 final size:16
Alignment explanation
Indices: 2968622--2968684 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 16
2968612 CGACTAACCT
2968622 TTTTTCTTTTTTTCCTC
1 TTTTTCTTTTTTT-CTC
2968639 TTTTTCTTTTTCTT-TC
1 TTTTTCTTTTT-TTCTC
*
2968655 TTTTT-TTTCTTTCATTC
1 TTTTTCTTTTTTTC--TC
*
2968672 TCTTTCTTTTTTT
1 TTTTTCTTTTTTT
2968685 GGTGGGGGCG
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
14 2 0.05
15 4 0.11
16 7 0.18
17 17 0.45
18 8 0.21
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTCTTTTTTTCTC
Found at i:2968753 original size:14 final size:14
Alignment explanation
Indices: 2968734--2968762 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2968724 CTGTTGGGCT
2968734 GCCTGCTGGATTGG
1 GCCTGCTGGATTGG
2968748 GCCTGCTGGATTGG
1 GCCTGCTGGATTGG
2968762 G
1 G
2968763 TCAGGCCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.21, G:0.45, T:0.28
Consensus pattern (14 bp):
GCCTGCTGGATTGG
Found at i:2968937 original size:15 final size:15
Alignment explanation
Indices: 2968917--2968946 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2968907 TTATTTTTTT
*
2968917 TTTCTCTTTTTCTTC
1 TTTCTCTTCTTCTTC
2968932 TTTCTCTTCTTCTTC
1 TTTCTCTTCTTCTTC
2968947 CCCTCCCTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTCTCTTCTTCTTC
Found at i:2969487 original size:30 final size:28
Alignment explanation
Indices: 2969453--2969577 Score: 124
Period size: 29 Copynumber: 4.2 Consensus size: 28
2969443 TGTCAAAACA
*
2969453 TAATTTTAAGAAAGTTTAAGGGTCAAGATG
1 TAATTTTAA-AAAGTTTAGGGGTCAA-ATG
* ** *
2969483 TAATTTCAAAATCTTTAGGGGTTGAAATG
1 TAATTTTAAAAAGTTTAGGGG-TCAAATG
* * *
2969512 TAATTTTGAAAAAATTTAGGGGTTAAATA
1 TAATTTT-AAAAAGTTTAGGGGTCAAATG
2969541 TAATTTTATAAAAGTTTAGGGGTCAAAATG
1 TAATTTTA-AAAAGTTTAGGGGTC-AAATG
2969571 TAATTTT
1 TAATTTT
2969578 TTTAAACACA
Statistics
Matches: 78, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
28 1 0.01
29 43 0.55
30 34 0.44
ACGTcount: A:0.39, C:0.03, G:0.19, T:0.38
Consensus pattern (28 bp):
TAATTTTAAAAAGTTTAGGGGTCAAATG
Found at i:2969512 original size:29 final size:28
Alignment explanation
Indices: 2969453--2969576 Score: 95
Period size: 30 Copynumber: 4.2 Consensus size: 28
2969443 TGTCAAAACA
* * * *
2969453 TAATTTTAAGAAAGTTTAAGGGTCAAGATG
1 TAATTTCAA-AAAATTTAGGGGTTAA-ATG
**
2969483 TAATTTCAAAATCTTTAGGGGTTGAAATG
1 TAATTTCAAAAAATTTAGGGGTT-AAATG
* *
2969512 TAATTTTGAAAAAATTTAGGGGTTAAATA
1 TAA-TTTCAAAAAATTTAGGGGTTAAATG
* * *
2969541 TAATTTTATAAAAGTTTAGGGGTCAAAATG
1 TAATTTCA-AAAAATTTAGGGGT-TAAATG
2969571 TAATTT
1 TAATTT
2969577 TTTTAAACAC
Statistics
Matches: 77, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
28 4 0.05
29 36 0.47
30 37 0.48
ACGTcount: A:0.40, C:0.03, G:0.19, T:0.38
Consensus pattern (28 bp):
TAATTTCAAAAAATTTAGGGGTTAAATG
Found at i:2969518 original size:59 final size:59
Alignment explanation
Indices: 2969444--2969577 Score: 137
Period size: 59 Copynumber: 2.3 Consensus size: 59
2969434 AATTTTTGGT
** * * *
2969444 GTCAAAACATAATTTT-AAGAAAGTTTAAGGGTCAAGATGTAATTTCA-AAATCTTTAGGG
1 GTCAAAATGTAATTTTGAA-AAAATTTAAGGGTCAA-ATATAATTTCATAAAACTTTAGGG
** * * * *
2969503 GTTGAAATGTAATTTTGAAAAAATTTAGGGGTTAAATATAATTTTATAAAAGTTTAGGG
1 GTCAAAATGTAATTTTGAAAAAATTTAAGGGTCAAATATAATTTCATAAAACTTTAGGG
2969562 GTCAAAATGTAATTTT
1 GTCAAAATGTAATTTT
2969578 TTTAAACACA
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
58 9 0.15
59 49 0.82
60 2 0.03
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.37
Consensus pattern (59 bp):
GTCAAAATGTAATTTTGAAAAAATTTAAGGGTCAAATATAATTTCATAAAACTTTAGGG
Found at i:2969890 original size:91 final size:93
Alignment explanation
Indices: 2969778--2969956 Score: 283
Period size: 92 Copynumber: 1.9 Consensus size: 93
2969768 GAATTATGAG
* * *
2969778 TTGATTTTTTGAAAAACAGAAA-TTGAAAAG-AATACCTCGGCATGCGACTCGAGGCTCAACTCA
1 TTGATTTTTTGAAAAACAGAAATTTAAAAAGAAATACCTAGGCATGCG-CCCGAGGCTCAACTCA
2969841 CCTCTCGCAATATGAGTTGATTTTGATTT
65 CCTCTCGCAATATGAGTTGATTTTGATTT
* *
2969870 TTGA-TTTTTGAAAAACAGAAATTTAAAAAGAAATATCTAGGCATGTGCCCGAGGCTCAACTCAC
1 TTGATTTTTTGAAAAACAGAAATTTAAAAAGAAATACCTAGGCATGCGCCCGAGGCTCAACTCAC
2969934 CTCTCGCAATATGAGTTGATTTT
66 CTCTCGCAATATGAGTTGATTTT
2969957 TGAAAAATAG
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
91 17 0.21
92 50 0.62
93 13 0.16
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (93 bp):
TTGATTTTTTGAAAAACAGAAATTTAAAAAGAAATACCTAGGCATGCGCCCGAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTTGATTT
Found at i:2970015 original size:166 final size:155
Alignment explanation
Indices: 2969873--2970676 Score: 829
Period size: 166 Copynumber: 5.1 Consensus size: 155
2969863 TTGATTTTTG
*
2969873 ATTTTTGAAAAACAGAAATTTAAAAAGAAATATCTAGGCATGTGCCCGAGGCTCAACTCACCTCT
1 ATTTTTGAAAAACAGAAATTTAAAAA-AAATACCTAGGCATGTGCCCGAGGCTCAACTCACCTCT
* *
2969938 CGCAATATGAGTTGATTTTTGAAAAATAGAAATTGAAAAATACCTCAGCGTGACCCGAGGCTCAA
65 CGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCGGCGTGACCCGAGGCTCAA
2970003 CTCACCTCTCGCAATATGAGTTGA-T
130 CTCACCTCTCGCAATATGAGTTGATT
* * *
2970028 -TTTTT-AAAAACAGAAA-TT--GAAAAATACCTAGACGTGTGCCCGAGGCTCAACTCACCTCTC
1 ATTTTTGAAAAACAGAAATTTAAAAAAAATACCTAGGCATGTGCCCGAGGCTCAACTCACCTCTC
* * *
2970088 GCAATATGAGTTGATTTTGATTTTTGTTTTTTGAAAAACAGAATTTTAAAAGAAATACCTCGGTG
66 GCAATATGA---G---TTGA-------TTTTTGAAAAACAGAA-ATT-GAA-AAATACCTCGGCG
* *
2970153 TGTGCCCGAGGCTCAACTCACTTCTCGCAATATGAGTT-A--
115 TG-ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* * *
2970192 ATTTTTGAAAAGCA-AAAATT--GAAAAATACCTCA-GC--GTGACCCGAGGCTCAACTCACCTC
1 ATTTTTGAAAAACAGAAATTTAAAAAAAATACCT-AGGCATGTG-CCCGAGGCTCAACTCACCTC
* * *
2970251 TCGCAATATGAGTTGATTTTTTAAAAACAAAAATTGAAAAATACCTCGGCGTGTGCCCGAGGCTC
64 TCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCGGCGTG-ACCCGAGGCTC
2970316 AACTCACCTCTCGCAATATGAGTTGATTTT
128 AACTCACCTCTCGCAATATGAGTTGA--TT
* * * *
2970346 GATTTTTGTTTTTTGAAAAGCATAAATTTAAAAGAAATACCTCGGCATGTGCCCGAGGCTCAACT
1 -A-------TTTTTGAAAAACAGAAATTTAAAAAAAATACCTAGGCATGTGCCCGAGGCTCAACT
*
2970411 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGACCCGA
58 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCGGCGTGACCCGA
*
2970476 GGCTCAACTCACCTCTCACAATATGAGTTGATT
123 GGCTCAACTCACCTCTCGCAATATGAGTTGATT
* * * * * *
2970509 CTTTTT--AAAATAGAAA-TT--AAAAAATACATCGGCGTGTGCTCGAGGCTCAACTCACCTCTC
1 ATTTTTGAAAAACAGAAATTTAAAAAAAATACCTAGGCATGTGCCCGAGGCTCAACTCACCTCTC
* * *
2970569 GCAATATGAGTTGATTTTTGAAAAACATAAATGTACAAGAAATACCTCGGCATGTGACCTGAGGC
66 GCAATATGAGTTGATTTTTGAAAAACAGAAAT-T-GAA-AAATACCTCGGC--GTGACCCGAGGC
*
2970634 TCAACTCACCTCTCACAATATGAGTTGATTT
126 TCAACTCACCTCTCGCAATATGAGTTGA-TT
*
2970665 TTTTTTGAAAAA
1 ATTTTTGAAAAA
2970677 AATAGAAATT
Statistics
Matches: 559, Mismatches: 41, Indels: 95
0.80 0.06 0.14
Matches are distributed among these distances:
149 94 0.17
150 74 0.13
151 3 0.01
152 21 0.04
153 29 0.05
154 5 0.01
155 49 0.09
156 7 0.01
158 4 0.01
159 4 0.01
162 29 0.05
163 9 0.02
164 5 0.01
165 99 0.18
166 123 0.22
167 4 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (155 bp):
ATTTTTGAAAAACAGAAATTTAAAAAAAATACCTAGGCATGTGCCCGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCGGCGTGACCCGAGGCTCAAC
TCACCTCTCGCAATATGAGTTGATT
Found at i:2970017 original size:74 final size:75
Alignment explanation
Indices: 2969870--2970666 Score: 489
Period size: 74 Copynumber: 10.1 Consensus size: 75
2969860 ATTTTGATTT
* * * * *
2969870 TTGATTTTTGAAAAACAGAAATTTAAAAAGAAATATCTAGGCATGTGCCCGAGGCTCAACTCACC
1 TTGATTTTTGAAAAACAGAAA-TT--GAA-AAATACCTAGACGTGTACCCGAGGCTCAACTCACC
2969935 TCTCGCAATATGAG
62 TCTCGCAATATGAG
*
2969949 TTGATTTTTGAAAAATAGAAATTGAAAAATACCTCAG-CGTG-ACCCGAGGCTCAACTCACCTCT
1 TTGATTTTTGAAAAACAGAAATTGAAAAATACCT-AGACGTGTACCCGAGGCTCAACTCACCTCT
2970012 CGCAATATGAG
65 CGCAATATGAG
* *
2970023 TTGATTTTTTAAAAACAGAAATTGAAAAATACCTAGACGTGTGCCCGAGGCTCAACTCACCTCTC
1 TTGATTTTTGAAAAACAGAAATTGAAAAATACCTAGACGTGTACCCGAGGCTCAACTCACCTCTC
2970088 GCAATATGAG
66 GCAATATGAG
***** *** * ** * * ** * *
2970098 TTGA-TTTTG-ATTTTTGTTTTTTGAAAAACAGAATTTTAAAAGAAATACCTCGGTGTGTGCCCG
1 TTGATTTTTGAAAAACAG-AAATTG-AAAA-A-TA-CCTAGACG-TGTACC-C---GAG-GCTC-
*
2970161 AGGCTCAACTCACTTCTCGCAATATGAG
54 A-ACTCA---C-C-TCTCGCAATATGAG
* * *
2970189 TTAATTTTTGAAAAGCAAAAATTGAAAAATACCTCAG-CGTG-ACCCGAGGCTCAACTCACCTCT
1 TTGATTTTTGAAAAACAGAAATTGAAAAATACCT-AGACGTGTACCCGAGGCTCAACTCACCTCT
2970252 CGCAATATGAG
65 CGCAATATGAG
* * * * *
2970263 TTGATTTTTTAAAAACAAAAATTGAAAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTC
1 TTGATTTTTGAAAAACAGAAATTGAAAAATACCTAGACGTGTACCCGAGGCTCAACTCACCTCTC
2970328 GCAATATGAG
66 GCAATATGAG
***** *** ** * * ** *
2970338 TTGA-TTTTG-ATTTTTGTTTTTTGAAAAGCATAAATTTAAAAGAAATACCTCGGCATGTGCCCG
1 TTGATTTTTGAAAAACAG-AAATTGAAAA--AT--ACCTAGACG-TGTACC-C-G-A-G-GCTC-
*
2970401 AGGCTCAACTCACCTCTCGCAATATGAG
54 A-ACTCA-----CCTCTCGCAATATGAG
2970429 TTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAG-CGTG-ACCCGAGGCTCAACTCACCTCT
1 TTGATTTTTGAAAAACAGAAATTGAAAAATACCT-AGACGTGTACCCGAGGCTCAACTCACCTCT
*
2970492 CACAATATGAG
65 CGCAATATGAG
** * * * * * * *
2970503 TTGATTCTTTTTAAAATAGAAATTAAAAAATACATCGGCGTGTGCTCGAGGCTCAACTCACCTCT
1 TTGATT-TTTGAAAAACAGAAATTGAAAAATACCTAGACGTGTACCCGAGGCTCAACTCACCTCT
2970568 CGCAATATGAG
65 CGCAATATGAG
* * * * * *
2970579 TTGATTTTTGAAAAACATAAATGTACAAGAAATACCTCGGCATGTGACCTGAGGCTCAACTCACC
1 TTGATTTTTGAAAAACAGAAAT-T-GAA-AAATACCTAGACGTGT-ACCCGAGGCTCAACTCACC
*
2970644 TCTCACAATATGAG
62 TCTCGCAATATGAG
2970658 TTGATTTTT
1 TTGATTTTT
2970667 TTTTGAAAAA
Statistics
Matches: 553, Mismatches: 111, Indels: 108
0.72 0.14 0.14
Matches are distributed among these distances:
73 6 0.01
74 157 0.28
75 126 0.23
76 45 0.08
77 3 0.01
78 23 0.04
79 72 0.13
80 4 0.01
81 7 0.01
82 4 0.01
83 4 0.01
84 7 0.01
85 4 0.01
86 14 0.03
88 5 0.01
89 4 0.01
90 4 0.01
91 41 0.07
92 20 0.04
93 3 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (75 bp):
TTGATTTTTGAAAAACAGAAATTGAAAAATACCTAGACGTGTACCCGAGGCTCAACTCACCTCTC
GCAATATGAG
Found at i:2970138 original size:241 final size:240
Alignment explanation
Indices: 2969754--2970666 Score: 1372
Period size: 240 Copynumber: 3.8 Consensus size: 240
2969744 GCGAGTCAAA
2969754 GCTCAACTCA-C-CTCG-AATTATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAGAATACCTC
1 GCTCAACTCACCTCTCGCAA-TATGAGTTGATTTTTT-AAAAACAGAAATTG-AAA-AATACCTC
* * * *
2969816 GGCATGCGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATTTTTGATTTTTGA
62 GGCGTGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATTTTTGTTTTTTGA
* *
2969881 AAAACAGAAATTTAAAAAGAAATATCTAGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATAT
126 AAAACAGAAATTT-AAAAGAAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATAT
*
2969946 GAGTTGATTTTTGAAAAATAGAAATTGAAAAATACCTCAGCGTGACCCGAG
190 GAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGACCCGAG
* *
2969997 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAGAAATTGAAAAATACCTAGACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAGAAATTGAAAAATACCTCGGCG
2970062 TGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATTTTTGTTTTTTGAAAAAC
66 TGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATTTTTGTTTTTTGAAAAAC
* ** * *
2970127 AGAATTTTAAAAGAAATACCTCGGTGTGTGCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTA
131 AGAAATTTAAAAGAAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
2970192 ATTTTTGAAAAGCAAAAATTGAAAAATACCTCAGCGTGACCCGAG
196 ATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGACCCGAG
*
2970237 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAAAAATTGAAAAATACCTCGGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAGAAATTGAAAAATACCTCGGCG
*
2970302 TGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATTTTTGTTTTTTGAAAAGC
66 TGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATTTTTGTTTTTTGAAAAAC
*
2970367 ATAAATTTAAAAGAAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
131 AGAAATTTAAAAGAAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
2970432 ATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGACCCGAG
196 ATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGACCCGAG
* * * * *
2970477 GCTCAACTCACCTCTCACAATATGAGTTGATTCTTTTTAAAATAGAAATTAAAAAATACATCGGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTAAAAACAGAAATTGAAAAATACCTCGGC
*
2970542 GTGTGCTCGAGGCTCAACTCACCTCTCGCAATATGA---G---TTGA-------TTTTTGAAAAA
65 GTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATTTTTGTTTTTTGAAAAA
* * * * *
2970594 CATAAATGTACAAGAAATACCTCGGCATGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGT
130 CAGAAATTTAAAAGAAATACCTCGGCATGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGT
2970659 TGATTTTT
194 TGATTTTT
2970667 TTTTGAAAAA
Statistics
Matches: 625, Mismatches: 40, Indels: 24
0.91 0.06 0.03
Matches are distributed among these distances:
228 39 0.06
229 39 0.06
235 4 0.01
238 1 0.00
240 352 0.56
241 128 0.20
242 12 0.02
243 13 0.02
244 15 0.02
245 20 0.03
246 2 0.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (240 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAGAAATTGAAAAATACCTCGGCG
TGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATTTTTGTTTTTTGAAAAAC
AGAAATTTAAAAGAAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGACCCGAG
Found at i:2970567 original size:150 final size:154
Alignment explanation
Indices: 2970380--2970669 Score: 471
Period size: 150 Copynumber: 1.9 Consensus size: 154
2970370 AATTTAAAAG
*
2970380 AAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
1 AAATACATCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
*
2970445 AGAAAT-T-GAA-AAATACCTCAGC-GTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTG
66 AGAAATGTACAAGAAATACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTG
2970506 ATTCTTTTTAAAATAGAAATTAAA
131 ATTCTTTTTAAAATAGAAATTAAA
* *
2970530 AAATACATCGGCGTGTGCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
1 AAATACATCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
* * *
2970595 ATAAATGTACAAGAAATACCTCGGCATGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTT
66 AGAAATGTACAAGAAATACCTCAGCA-GTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTT
*
2970660 GATTTTTTTT
130 GATTCTTTTT
2970670 TGAAAAAAAT
Statistics
Matches: 127, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
150 67 0.53
151 1 0.01
152 2 0.02
153 11 0.09
155 46 0.36
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.28
Consensus pattern (154 bp):
AAATACATCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
AGAAATGTACAAGAAATACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTG
ATTCTTTTTAAAATAGAAATTAAA
Found at i:2971544 original size:1 final size:1
Alignment explanation
Indices: 2971534--2971593 Score: 57
Period size: 1 Copynumber: 60.0 Consensus size: 1
2971524 TTCATCTTTA
* * * * * * *
2971534 TTTTTCTTTTTCTTTTCTTTTTTTTCTTTTTTTTTGTTTTTTTTGTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2971594 AGGCATAATA
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.07, G:0.05, T:0.88
Consensus pattern (1 bp):
T
Found at i:2971551 original size:11 final size:10
Alignment explanation
Indices: 2971528--2971577 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
2971518 CAGGTTTTCA
*
2971528 TCTTTATTTT
1 TCTTTTTTTT
2971538 TCTTTTTCTTT
1 TCTTTTT-TTT
2971549 TC-TTTTTTT
1 TCTTTTTTTT
2971558 TCTTTTTTTT
1 TCTTTTTTTT
*
2971568 TGTTTTTTTT
1 TCTTTTTTTT
2971578 GTTTTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
9 5 0.14
10 26 0.72
11 5 0.14
ACGTcount: A:0.02, C:0.10, G:0.02, T:0.86
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:2971556 original size:19 final size:18
Alignment explanation
Indices: 2971534--2971593 Score: 77
Period size: 17 Copynumber: 3.3 Consensus size: 18
2971524 TTCATCTTTA
*
2971534 TTTTTCTTTTTCTTTTCTTT
1 TTTTTCTTTTT-TTTT-GTT
2971554 TTTTTCTTTTTTTTTGTT
1 TTTTTCTTTTTTTTTGTT
*
2971572 TTTTT-TGTTTTTTTGTT
1 TTTTTCTTTTTTTTTGTT
2971589 TTTTT
1 TTTTT
2971594 AGGCATAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
17 16 0.42
18 7 0.18
19 4 0.11
20 11 0.29
ACGTcount: A:0.00, C:0.07, G:0.05, T:0.88
Consensus pattern (18 bp):
TTTTTCTTTTTTTTTGTT
Found at i:2971560 original size:9 final size:9
Alignment explanation
Indices: 2971528--2971593 Score: 64
Period size: 9 Copynumber: 7.0 Consensus size: 9
2971518 CAGGTTTTCA
2971528 TCTTTATTTT
1 TCTTT-TTTT
2971538 TCTTTTTCTTT
1 TC-TTTT-TTT
2971549 TCTTTTTTT
1 TCTTTTTTT
2971558 TCTTTTTTT
1 TCTTTTTTT
2971567 T-TGTTTTTT
1 TCT-TTTTTT
2971576 T-TGTTTTTT
1 TCT-TTTTTT
*
2971585 TGTTTTTTT
1 TCTTTTTTT
2971594 AGGCATAATA
Statistics
Matches: 52, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.02
9 35 0.67
10 8 0.15
11 8 0.15
ACGTcount: A:0.02, C:0.08, G:0.05, T:0.86
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:2971584 original size:20 final size:19
Alignment explanation
Indices: 2971534--2971593 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
2971524 TTCATCTTTA
*
2971534 TTTTTCTTTTTCTTTTCTTT
1 TTTTTCTTTTT-TTTTTTTT
*
2971554 TTTTTCTTTTTTTTTGTTT
1 TTTTTCTTTTTTTTTTTTT
* *
2971573 TTTTTGTTTTTTTGTTTTT
1 TTTTTCTTTTTTTTTTTTT
2971592 TT
1 TT
2971594 AGGCATAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 25 0.69
20 11 0.31
ACGTcount: A:0.00, C:0.07, G:0.05, T:0.88
Consensus pattern (19 bp):
TTTTTCTTTTTTTTTTTTT
Done.