Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 373 of 427
Found at i:108486208 original size:84 final size:84
Alignment explanation
Indices: 108486065--108486231 Score: 289
Period size: 84 Copynumber: 2.0 Consensus size: 84
108486055 ATTTTGAGTG
* *
108486065 ACTGGGCCATGTGAGACACATGGCTAGCACCCAAGCGTGAGATGCTATTTCGAAGGGGCACATGG
1 ACTGGGCCATGTGAGACACATGGCTAGCACACAAGCGTGAGAGGCTATTTCGAAGGGGCACATGG
108486130 TCTAGCACACGGGCGTGTA
66 TCTAGCACACGGGCGTGTA
* *
108486149 ACTGGGCCATGTGAGACACATGGCTAGCACACAAGTGTGAGAGGCTATTTCGAATGGGCACATGG
1 ACTGGGCCATGTGAGACACATGGCTAGCACACAAGCGTGAGAGGCTATTTCGAAGGGGCACATGG
*
108486214 TCTAGTACACGGGCGTGT
66 TCTAGCACACGGGCGTGT
108486232 GGTTCAGCCA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 78 1.00
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.20
Consensus pattern (84 bp):
ACTGGGCCATGTGAGACACATGGCTAGCACACAAGCGTGAGAGGCTATTTCGAAGGGGCACATGG
TCTAGCACACGGGCGTGTA
Found at i:108488146 original size:26 final size:27
Alignment explanation
Indices: 108488117--108488175 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
108488107 CTTATTTCAT
*
108488117 TAAATAAAAAAAT-TTTAAAAATATAA
1 TAAATAAAAAAATATTTAAAAACATAA
* *
108488143 TAAAT-CAAATATATTTAAAAACATAA
1 TAAATAAAAAAATATTTAAAAACATAA
108488169 -AAATAAA
1 TAAATAAA
108488176 TATTAAAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
25 9 0.33
26 18 0.67
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (27 bp):
TAAATAAAAAAATATTTAAAAACATAA
Found at i:108488190 original size:22 final size:22
Alignment explanation
Indices: 108488149--108488207 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
108488139 ATAATAAATC
* *
108488149 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
108488169 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
108488191 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
108488208 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:108488284 original size:15 final size:16
Alignment explanation
Indices: 108488254--108488286 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
108488244 AAATAGTTAT
108488254 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
108488271 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
108488286 A
1 A
108488287 AAAATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:108489504 original size:14 final size:15
Alignment explanation
Indices: 108489480--108489508 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
108489470 ACGAGATGAA
108489480 TAATAAAATTTAACT
1 TAATAAAATTTAACT
108489495 TAAT-AAATTTAACT
1 TAATAAAATTTAACT
108489509 GCTAAATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAAAATTTAACT
Found at i:108490357 original size:13 final size:13
Alignment explanation
Indices: 108490341--108490374 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
108490331 TATAATTATT
108490341 AAAAGTAAAAAAAA
1 AAAAG-AAAAAAAA
108490355 AAAAG-AAAAAAA
1 AAAAGAAAAAAAA
108490367 AAAAGAAA
1 AAAAGAAA
108490375 GGCAAAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.63
13 2 0.11
14 5 0.26
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (13 bp):
AAAAGAAAAAAAA
Found at i:108490363 original size:12 final size:12
Alignment explanation
Indices: 108490348--108490374 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
108490338 ATTAAAAGTA
108490348 AAAAAAAAAAAG
1 AAAAAAAAAAAG
108490360 AAAAAAAAAAAG
1 AAAAAAAAAAAG
108490372 AAA
1 AAA
108490375 GGCAAAAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:108490364 original size:14 final size:14
Alignment explanation
Indices: 108490341--108490370 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
108490331 TATAATTATT
*
108490341 AAAAGTAAAAAAAA
1 AAAAGAAAAAAAAA
108490355 AAAAGAAAAAAAAA
1 AAAAGAAAAAAAAA
108490369 AA
1 AA
108490371 GAAAGGCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.90, C:0.00, G:0.07, T:0.03
Consensus pattern (14 bp):
AAAAGAAAAAAAAA
Found at i:108501362 original size:3 final size:3
Alignment explanation
Indices: 108501354--108501384 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
108501344 GAGAGCTTGC
108501354 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT T
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT T
108501385 TTAAGGTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TGT
Found at i:108507361 original size:16 final size:15
Alignment explanation
Indices: 108507340--108507373 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
108507330 TAAAAATATA
*
108507340 TTTTGTTTCTTATGTT
1 TTTTGTTTATTAT-TT
108507356 TTTTGTTTATTATTT
1 TTTTGTTTATTATTT
108507371 TTT
1 TTT
108507374 GTTGCGGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.09, C:0.03, G:0.09, T:0.79
Consensus pattern (15 bp):
TTTTGTTTATTATTT
Found at i:108513462 original size:29 final size:28
Alignment explanation
Indices: 108513429--108513491 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 28
108513419 CAAGTGGTAA
* *
108513429 ACTTTGATCCATATGCATCTCTATATCTT
1 ACTTTGATCCATACGCATCTCTAAATC-T
**
108513458 ACTTTTTTTCCATACGCATCTCTAAATCT
1 AC-TTTGATCCATACGCATCTCTAAATCT
108513487 ACTTT
1 ACTTT
108513492 TTTACTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 3 0.10
29 5 0.17
30 21 0.72
ACGTcount: A:0.24, C:0.25, G:0.05, T:0.46
Consensus pattern (28 bp):
ACTTTGATCCATACGCATCTCTAAATCT
Found at i:108513471 original size:30 final size:29
Alignment explanation
Indices: 108513436--108513494 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
108513426 TAAACTTTGA
* *
108513436 TCCATATGCATCTCTATATCTTACTTTTTT
1 TCCATACGCATCTCTAAATC-TACTTTTTT
108513466 TCCATACGCATCTCTAAATCTACTTTTTT
1 TCCATACGCATCTCTAAATCTACTTTTTT
108513495 ACTATCTGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.22, C:0.25, G:0.03, T:0.49
Consensus pattern (29 bp):
TCCATACGCATCTCTAAATCTACTTTTTT
Found at i:108516868 original size:16 final size:18
Alignment explanation
Indices: 108516847--108516885 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
108516837 TAAAATTAAA
108516847 ATTATAAATT-AT-ATTT
1 ATTATAAATTAATAATTT
108516863 ATTAT--ATTAATAATTT
1 ATTATAAATTAATAATTT
108516879 ATTATAA
1 ATTATAA
108516886 GACTAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
14 3 0.16
15 2 0.11
16 14 0.74
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTATAAATTAATAATTT
Found at i:108531486 original size:92 final size:92
Alignment explanation
Indices: 108531328--108531510 Score: 330
Period size: 92 Copynumber: 2.0 Consensus size: 92
108531318 CTCTTTCATA
*
108531328 GCTGTGCTAGTCATCTCCATCTCATCCATCATGAGCAACAGAATAAAAGCATCATACAGATACAT
1 GCTGTGCTAGTCATCTCCATCTCATCCATCATGAACAACAGAATAAAAGCATCATACAGATACAT
108531393 AGATGCAGCTAAATTCATCTAATAATG
66 AGATGCAGCTAAATTCATCTAATAATG
* * *
108531420 GCTGTGCTAGTCATCTCCATGTCATCCATCATGAACAACAGAATAAAAGCATCATATAGATGCAT
1 GCTGTGCTAGTCATCTCCATCTCATCCATCATGAACAACAGAATAAAAGCATCATACAGATACAT
108531485 AGATGCAGCTAAATTCATCTAATAAT
66 AGATGCAGCTAAATTCATCTAATAAT
108531511 ATAAACAACT
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 87 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (92 bp):
GCTGTGCTAGTCATCTCCATCTCATCCATCATGAACAACAGAATAAAAGCATCATACAGATACAT
AGATGCAGCTAAATTCATCTAATAATG
Found at i:108536786 original size:22 final size:22
Alignment explanation
Indices: 108536729--108536787 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
108536719 TGCTTGTTGC
**
108536729 CATTTTGATGTTATTTTGCTAT
1 CATTTTGATGTTATACTGCTAT
* *
108536751 CATTTTGCTATTATACTGCTA-
1 CATTTTGATGTTATACTGCTAT
*
108536772 CTATTTTGTTGTTATA
1 C-ATTTTGATGTTATA
108536788 TATTATTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 1 0.03
22 29 0.97
ACGTcount: A:0.20, C:0.12, G:0.12, T:0.56
Consensus pattern (22 bp):
CATTTTGATGTTATACTGCTAT
Found at i:108538074 original size:21 final size:21
Alignment explanation
Indices: 108538050--108538091 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
108538040 CTCTTTATAG
108538050 GTTG-AACAACATTATTCTAAT
1 GTTGAAAC-ACATTATTCTAAT
*
108538071 GTTGAAACACTTTATTCTAAT
1 GTTGAAACACATTATTCTAAT
108538092 CAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (21 bp):
GTTGAAACACATTATTCTAAT
Found at i:108538888 original size:17 final size:18
Alignment explanation
Indices: 108538850--108538917 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
108538840 ATTTACTTAC
108538850 TATATAAGTAAATAATAA
1 TATATAAGTAAATAATAA
* *
108538868 TATA-AAGTAAATTATAT
1 TATATAAGTAAATAATAA
* *
108538885 TATATTA-TATAATTATAA
1 TATATAAGTA-AATAATAA
108538903 TATATTAA-TAAATAA
1 TATA-TAAGTAAATAA
108538918 AGAATGAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
17 17 0.41
18 20 0.49
19 4 0.10
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
TATATAAGTAAATAATAA
Found at i:108543611 original size:6 final size:6
Alignment explanation
Indices: 108543600--108543681 Score: 103
Period size: 6 Copynumber: 13.8 Consensus size: 6
108543590 ACGATTTAAT
* * * *
108543600 AAATTA AAATTA AAACTA AAACTA AAACTA AAACTA AAATTA AAATTA
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA
* *
108543648 AAATTA AAATTA AAATTA AAA-AA AAATCA AAATT
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAATT
108543682 TGTGTAGCCG
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
5 4 0.06
6 66 0.94
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (6 bp):
AAATTA
Found at i:108543962 original size:9 final size:9
Alignment explanation
Indices: 108543948--108543976 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
108543938 TTACTCTTGC
108543948 AAAAAAACA
1 AAAAAAACA
108543957 AAAAAAACA
1 AAAAAAACA
108543966 AAAAAAA-A
1 AAAAAAACA
108543974 AAA
1 AAA
108543977 GCTTCAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.20
9 16 0.80
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAACA
Found at i:108554624 original size:15 final size:15
Alignment explanation
Indices: 108554604--108554654 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
108554594 ACCTGCCTGC
108554604 TTCACCTGGTTCTGT
1 TTCACCTGGTTCTGT
* *
108554619 TTCACCTCAG-CCTGT
1 TTCACCT-GGTTCTGT
* *
108554634 TTCTCCTGCTTCTGT
1 TTCACCTGGTTCTGT
108554649 TTCACC
1 TTCACC
108554655 CTATCATGGT
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.08, C:0.35, G:0.14, T:0.43
Consensus pattern (15 bp):
TTCACCTGGTTCTGT
Found at i:108554632 original size:30 final size:30
Alignment explanation
Indices: 108554598--108554654 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
108554588 CAGAATACCT
*
108554598 GCCTGCTTCACCTGGTTCTGTTTCACCTCA
1 GCCTGCTTCACCTGCTTCTGTTTCACCTCA
* *
108554628 GCCTGTTTCTCCTGCTTCTGTTTCACC
1 GCCTGCTTCACCTGCTTCTGTTTCACC
108554655 CTATCATGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.07, C:0.37, G:0.16, T:0.40
Consensus pattern (30 bp):
GCCTGCTTCACCTGCTTCTGTTTCACCTCA
Found at i:108561009 original size:23 final size:23
Alignment explanation
Indices: 108560979--108561025 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
108560969 ATTTTTTTGA
108560979 AGTCAATTATAACCAAGAGTCCC
1 AGTCAATTATAACCAAGAGTCCC
108561002 AGTCAATTATAACCAAGAGTCCC
1 AGTCAATTATAACCAAGAGTCCC
108561025 A
1 A
108561026 CAGCGGGCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.26, G:0.13, T:0.21
Consensus pattern (23 bp):
AGTCAATTATAACCAAGAGTCCC
Found at i:108569341 original size:53 final size:53
Alignment explanation
Indices: 108569260--108569410 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
108569250 CTTACACGGT
* *
108569260 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
108569315 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
108569368 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
108569411 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:108572125 original size:21 final size:21
Alignment explanation
Indices: 108572099--108572154 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
108572089 CACCATTGTT
*
108572099 TCTAATCTCATCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
108572120 TCTAATATCACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
108572141 ACTAATCTCACCGC
1 TCTAATCTCACCGC
108572155 CACCGCTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.29
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:108572524 original size:21 final size:21
Alignment explanation
Indices: 108572489--108572558 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
108572479 AAGTTTAAAT
108572489 TTTATTATGATAAAAAATATAA
1 TTTATTAT-ATAAAAAATATAA
108572511 TTTATTATATAAAAAGATA-AA
1 TTTATTATATAAAAA-ATATAA
** *
108572532 AATATCTTTAT-AAAAATATAA
1 TTTAT-TATATAAAAAATATAA
108572553 TTTATT
1 TTTATT
108572559 TGTATTTAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
20 4 0.10
21 21 0.52
22 15 0.38
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (21 bp):
TTTATTATATAAAAAATATAA
Found at i:108574277 original size:31 final size:30
Alignment explanation
Indices: 108574237--108574295 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
108574227 AGAAAATGGT
108574237 CATTAAACTATTTAAAAATTTTCATTTAAAC
1 CATTAAACTATTTAAAAATTTT-ATTTAAAC
* *
108574268 CATTGAACTATTTAAAAGTTTTATTTAA
1 CATTAAACTATTTAAAAATTTTATTTAA
108574296 GTTATTAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 6 0.23
31 20 0.77
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.44
Consensus pattern (30 bp):
CATTAAACTATTTAAAAATTTTATTTAAAC
Found at i:108590605 original size:10 final size:10
Alignment explanation
Indices: 108590592--108590618 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
108590582 TATCCTTAGT
108590592 TCTTCTTTCC
1 TCTTCTTTCC
108590602 TCTTCTTTCC
1 TCTTCTTTCC
108590612 TCTTCTT
1 TCTTCTT
108590619 GCTGCTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (10 bp):
TCTTCTTTCC
Found at i:108592779 original size:28 final size:28
Alignment explanation
Indices: 108592732--108592839 Score: 71
Period size: 29 Copynumber: 3.8 Consensus size: 28
108592722 TGACAAATTC
*
108592732 AGGTACCAAA-TAAGATAAAACAAAGATT
1 AGGTACCAAATTAAGACAAAA-AAAGATT
* *
108592760 AGGTACCAAATTAGGA-AAAATAGTCAAGTTT
1 AGGTACCAAATTAAGACAAAA-A---AAGATT
* *
108592791 AGGTACCAAGTT-GGACCTAAAAAAAGATT
1 AGGTACCAAATTAAGA-C-AAAAAAAGATT
*
108592820 AAGTACCAAATTAAGA-AAAA
1 AGGTACCAAATTAAGACAAAA
108592840 GTGTTGAGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
27 4 0.06
28 15 0.23
29 19 0.30
30 5 0.08
31 16 0.25
32 1 0.02
33 4 0.06
ACGTcount: A:0.52, C:0.11, G:0.17, T:0.20
Consensus pattern (28 bp):
AGGTACCAAATTAAGACAAAAAAAGATT
Found at i:108597093 original size:30 final size:30
Alignment explanation
Indices: 108597057--108597118 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
108597047 ATGGGGAGCA
108597057 TTACCAGCGACAGAGAATGTAGAGGTAGAC
1 TTACCAGCGACAGAGAATGTAGAGGTAGAC
108597087 TTACCAGCGACAGAGAATGTAGAGGTAGAC
1 TTACCAGCGACAGAGAATGTAGAGGTAGAC
108597117 TT
1 TT
108597119 CCAAGTCGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.19
Consensus pattern (30 bp):
TTACCAGCGACAGAGAATGTAGAGGTAGAC
Found at i:108603247 original size:69 final size:69
Alignment explanation
Indices: 108603134--108603275 Score: 239
Period size: 69 Copynumber: 2.1 Consensus size: 69
108603124 TAATGGCAAC
**
108603134 TTCAACTGCATCCATGGTTGGTGAATCCTCATCCAACACCACTAGAGAATCCTTCATAGTACTTC
1 TTCAACTGCATCCATGGTTGGTGAATCCTCATCCAACACCACTAGAGAATCAGTCATAGTACTTC
108603199 TACT
66 TACT
* * *
108603203 TTCAACTGCGTCCATGGTTGGTGAATCCTCATCCAACACTACTAGAGAATCAGTCATAGTACTTG
1 TTCAACTGCATCCATGGTTGGTGAATCCTCATCCAACACCACTAGAGAATCAGTCATAGTACTTC
108603268 TACT
66 TACT
108603272 TTCA
1 TTCA
108603276 TCTAGAACAG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (69 bp):
TTCAACTGCATCCATGGTTGGTGAATCCTCATCCAACACCACTAGAGAATCAGTCATAGTACTTC
TACT
Found at i:108612879 original size:3 final size:3
Alignment explanation
Indices: 108612871--108612910 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
108612861 CATCTTTCTT
* *
108612871 ATC ATC ATC ATC ATC ATC ATC ATC ATC TTC ATG ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
108612911 CAAACTTCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:108613991 original size:23 final size:23
Alignment explanation
Indices: 108613947--108613991 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
108613937 CCATGGATTA
* * *
108613947 ATTATGAGTTTTTGAGTTGAATC
1 ATTATGAATTTTGGAGTCGAATC
*
108613970 ATTATGAATTTTGGGGTCGAAT
1 ATTATGAATTTTGGAGTCGAAT
108613992 TTAAGTCACG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.04, G:0.24, T:0.44
Consensus pattern (23 bp):
ATTATGAATTTTGGAGTCGAATC
Found at i:108616892 original size:16 final size:16
Alignment explanation
Indices: 108616871--108616901 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
108616861 TGAGTGAAAA
108616871 ATATAAATTTTATAAT
1 ATATAAATTTTATAAT
*
108616887 ATATAAGTTTTATAA
1 ATATAAATTTTATAA
108616902 AAAAAAAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
ATATAAATTTTATAAT
Found at i:108616914 original size:33 final size:34
Alignment explanation
Indices: 108616877--108616941 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
108616867 AAAAATATAA
*
108616877 ATTTTATAATA-T-ATAAGTTTTATAAAAAAAAAG
1 ATTTTATAA-AGTGATAACTTTTATAAAAAAAAAG
*
108616910 ATTTTATAAAGTGCTAACTTTTATAAAAAAAA
1 ATTTTATAAAGTGATAACTTTTATAAAAAAAA
108616942 TTACATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 1 0.04
33 10 0.36
34 17 0.61
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.38
Consensus pattern (34 bp):
ATTTTATAAAGTGATAACTTTTATAAAAAAAAAG
Found at i:108617005 original size:22 final size:22
Alignment explanation
Indices: 108616972--108617030 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
108616962 TAAGTTATAG
*
108616972 TAAA-AAATTATAACATTTTTTA
1 TAAATAAA-TATAACATTTGTTA
**
108616994 TAAATAAATATATTATTTGTTA
1 TAAATAAATATAACATTTGTTA
108617016 TAATATATAATATAA
1 TAA-ATA-AATATAA
108617031 ACACATAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 18 0.60
23 6 0.20
24 6 0.20
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
TAAATAAATATAACATTTGTTA
Found at i:108618950 original size:18 final size:18
Alignment explanation
Indices: 108618927--108618962 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
108618917 TCAAATGCAA
108618927 AACATTAACAAGAACGAT
1 AACATTAACAAGAACGAT
*
108618945 AACATTAAGAAGAACGAT
1 AACATTAACAAGAACGAT
108618963 CTACAGCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.14, G:0.14, T:0.17
Consensus pattern (18 bp):
AACATTAACAAGAACGAT
Found at i:108629190 original size:16 final size:15
Alignment explanation
Indices: 108629169--108629230 Score: 70
Period size: 16 Copynumber: 3.8 Consensus size: 15
108629159 GATGTGAATA
108629169 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
108629185 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
108629200 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
108629216 AATAATAATAATTAA
1 -ATAA-AAT-ATTAA
108629231 TATTGACAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
15 8 0.20
16 23 0.57
17 5 0.12
18 4 0.10
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:108629192 original size:24 final size:24
Alignment explanation
Indices: 108629165--108629225 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
108629155 TAATGATGTG
*
108629165 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
108629189 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
108629213 AATAATAATAATA
1 AATAATAA-AATA
108629226 ATTAATATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
23 6 0.19
24 21 0.68
25 4 0.13
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:108629199 original size:8 final size:8
Alignment explanation
Indices: 108629165--108629230 Score: 62
Period size: 8 Copynumber: 8.0 Consensus size: 8
108629155 TAATGATGTG
*
108629165 AATAATAA
1 AATATTAA
108629173 AATATATAA
1 AATAT-TAA
108629182 AATA-TAA
1 AATATTAA
108629189 AATATTAA
1 AATATTAA
*
108629197 AATATCAA
1 AATATTAA
*
108629205 AATATTAG
1 AATATTAA
*
108629213 AATAATAA
1 AATATTAA
108629221 TAATAATTAA
1 -AAT-ATTAA
108629231 TATTGACAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
7 7 0.15
8 26 0.55
9 10 0.21
10 4 0.09
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (8 bp):
AATATTAA
Found at i:108629489 original size:56 final size:55
Alignment explanation
Indices: 108629411--108629570 Score: 174
Period size: 54 Copynumber: 3.0 Consensus size: 55
108629401 AAATACATAC
*
108629411 ATAATATAG--TT-AAGATATATACATAAGATATGTAAAAAAATATATATATATAA
1 ATAATATAGAATTAAAGATATATACATAAAATATGT-AAAAAATATATATATATAA
* *
108629464 ATAATATA-ATATTAAAGATATATACATAAAATA-GTATAAAATATATATATATAC
1 ATAATATAGA-ATTAAAGATATATACATAAAATATGTAAAAAATATATATATATAA
* * * *
108629518 GTAATATAGAATTTAA-A-ATATACCTAATATAT-TAAAAAATATATATAATATAA
1 ATAATATAGAATTAAAGATATATACATAAAATATGTAAAAAATATATAT-ATATAA
108629571 TATTAAGAAA
Statistics
Matches: 91, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
52 25 0.27
53 14 0.15
54 29 0.32
55 5 0.05
56 18 0.20
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (55 bp):
ATAATATAGAATTAAAGATATATACATAAAATATGTAAAAAATATATATATATAA
Found at i:108629492 original size:25 final size:25
Alignment explanation
Indices: 108629366--108629584 Score: 91
Period size: 25 Copynumber: 8.7 Consensus size: 25
108629356 TAAATACGTG
*
108629366 ATAATATTAAAAATATGTACATAAT
1 ATAATATTAAAAATATATACATAAT
* * *
108629391 ATAGTGTTAAAAATACATACATAAT
1 ATAATATTAAAAATATATACATAAT
* *
108629416 AT-A-GTT-AAGATATATACATAAGAT
1 ATAATATTAAAAATATATACAT-A-AT
** *
108629440 ATGTAA-AAAAATATATATATATAAATAAT
1 A--TAATATTAA-A-A-ATATATACATAAT
* *
108629469 ATAATATTAAAGATATATACATAAA
1 ATAATATTAAAAATATATACATAAT
* * *
108629494 ATAGTATAAAATATATATATATACGTAAT
1 ATAATAT-TAA-A-A-ATATATACATAAT
* *
108629523 ATAGA-ATT-TAAA-ATATACCT-A-
1 ATA-ATATTAAAAATATATACATAAT
*
108629544 AT-ATATTAAAAA-ATATATATAAT
1 ATAATATTAAAAATATATACATAAT
108629567 ATAATATTAAGAAATATA
1 ATAATATTAA-AAATATA
108629585 ATAATAACAA
Statistics
Matches: 143, Mismatches: 29, Indels: 43
0.67 0.13 0.20
Matches are distributed among these distances:
19 1 0.01
20 3 0.02
21 11 0.08
22 13 0.09
23 13 0.09
24 11 0.08
25 44 0.31
26 7 0.05
27 6 0.04
28 4 0.03
29 20 0.14
30 1 0.01
31 9 0.06
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (25 bp):
ATAATATTAAAAATATATACATAAT
Found at i:108629513 original size:29 final size:28
Alignment explanation
Indices: 108629425--108629526 Score: 84
Period size: 29 Copynumber: 3.6 Consensus size: 28
108629415 TATAGTTAAG
*
108629425 ATATATACATAAGATATGTA-AAAA-AAT
1 ATATATACATAAAATA-GTATAAAATAAT
* * * *
108629452 ATATATATAT-AAATAATATAATATTAAAG
1 ATATATACATAAAATAGTATAA-AAT-AAT
108629481 ATATATACATAAAATAGTATAAAATATAT
1 ATATATACATAAAATAGTATAAAATA-AT
* *
108629510 ATATATACGTAATATAG
1 ATATATACATAAAATAG
108629527 AATTTAAAAT
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
25 2 0.03
26 6 0.10
27 10 0.17
28 1 0.02
29 29 0.50
30 10 0.17
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (28 bp):
ATATATACATAAAATAGTATAAAATAAT
Found at i:108629581 original size:24 final size:23
Alignment explanation
Indices: 108629546--108629590 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
108629536 TATACCTAAT
108629546 ATATTAAAAAATATATATAATATA
1 ATATTAAAAAATATA-ATAATATA
*
108629570 ATATTAAGAAATATAATAATA
1 ATATTAAAAAATATAATAATA
108629591 ACAAAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATTAAAAAATATAATAATATA
Found at i:108630116 original size:30 final size:30
Alignment explanation
Indices: 108630080--108630224 Score: 245
Period size: 30 Copynumber: 4.8 Consensus size: 30
108630070 TAGGTACAAG
* *
108630080 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
108630110 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
108630140 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
108630170 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
108630200 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
108630225 TGAGAAAAGT
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 107 1.00
ACGTcount: A:0.23, C:0.03, G:0.49, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:108630173 original size:60 final size:60
Alignment explanation
Indices: 108630080--108630224 Score: 272
Period size: 60 Copynumber: 2.4 Consensus size: 60
108630070 TAGGTACAAG
*
108630080 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
108630140 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
*
108630200 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
108630225 TGAGAAAAGT
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 83 1.00
ACGTcount: A:0.23, C:0.03, G:0.49, T:0.25
Consensus pattern (60 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:108631205 original size:75 final size:77
Alignment explanation
Indices: 108631108--108631378 Score: 406
Period size: 77 Copynumber: 3.6 Consensus size: 77
108631098 GTGTGGCCCG
*
108631108 AGACTCAACTCACCTCTCGCAATATGAGTTGA-T-TTTTGAAAAGCAGAAATTGAAAA-CGCCTC
1 AGACTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAG-CTC
* **
108631170 AGCGTGTGACCCG
65 AGCATGTGACCAA
* *
108631183 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTCA
1 AGACTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTCA
*
108631248 GCATGTGAGCAA
66 GCATGTGACCAA
* *
108631260 AGGCTCAACTCACCTCTCACAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTCA
1 AGACTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTCA
* *
108631325 GCACGTGAGCAA
66 GCATGTGACCAA
108631337 AGACTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTGAAA
1 AGACTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAA
108631379 CTTAACTTGA
Statistics
Matches: 181, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
75 30 0.17
76 9 0.05
77 141 0.78
78 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (77 bp):
AGACTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTCA
GCATGTGACCAA
Found at i:108631520 original size:73 final size:73
Alignment explanation
Indices: 108631429--108631990 Score: 366
Period size: 73 Copynumber: 7.5 Consensus size: 73
108631419 GACTGAAGGT
*
108631429 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGTGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
108631494 CTTGAGGC
66 CTTGAGGC
* *
108631502 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACTTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
108631567 CTTGAGGC
66 CTTGAGGC
* * * * * **
108631575 TCAACTCACCACTCGCAATATGAGTTGATTTTTTTTTTTTTACGAATAGAAATTGAAA--AACAG
1 TCAACTCACCTCTCGCAATATGAGTTGA-------TTTTTGACAAACAGAAATTGAAATTACCTC
*** **** *
108631638 AAATTGAAAAGA-CC
59 AGCGTGTCTTGAGGC
* * *** * * * *** * * * * ****
108631652 TCAGCATGTGAGCCGAGGCTCAACTCTCGCAATATGAGTTGATTTTTGACAAATAGAAATTGAAA
1 TCA--A-CTCA-CC-TCTCGCAA-TAT-G-AGT-TGA-TT--TTTGACAAACAGAAATTGA--AA
108631717 TTACCTCAGCGTGTCTTGAGGC
52 TTACCTCAGCGTGTCTTGAGGC
108631739 TCAACTCACCTCTAC-CAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTG
1 TCAACTCACCTCT-CGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTG
108631803 TCTTGAGGC
65 TCTTGAGGC
* *
108631812 TCAACTCACCTCTCGCAATATGGGTTGA-TTTT-A-AAATCAGAAATTGAAAATACCTCAGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAA-CAGAAATTGAAATTACCTCAGCGTG
** *
108631874 TGAGC-CAAGTC
65 T---CTTGAGGC
* * * ** * * **
108631885 TCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
*
108631950 CCTGAGGC
66 CTTGAGGC
108631958 TCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTT
108631991 TTGAAAATCA
Statistics
Matches: 368, Mismatches: 88, Indels: 66
0.70 0.17 0.13
Matches are distributed among these distances:
70 3 0.01
71 26 0.07
72 6 0.02
73 206 0.56
74 5 0.01
75 31 0.08
76 2 0.01
77 6 0.02
78 9 0.02
79 3 0.01
80 24 0.07
81 4 0.01
82 16 0.04
83 5 0.01
84 5 0.01
85 3 0.01
86 10 0.03
87 4 0.01
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (73 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
CTTGAGGC
Found at i:108631893 original size:146 final size:145
Alignment explanation
Indices: 108631670--108631989 Score: 421
Period size: 146 Copynumber: 2.2 Consensus size: 145
108631660 TGAGCCGAGG
* * **
108631670 CTCAACTCTCGCAATATGAGTTGATTTTTGACAAATAGAAATTGAAATTACCTCAGCGTGTCTTG
1 CTCACCTCTCGCAATATGAGTTGA-TTTTGACAAATAGAAATTGAAAATACCTCAGCGTGTCTCA
* * * **
108631735 AGGCTCAACTCACCTCTACCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGC
65 AGGCTCAACTCACCTCTACCAATATGAGCTAATTTTTGACAAACAGAAATTAAAACCACCTCAGC
*
108631800 GTGTCTTGAGGCTCAA
130 GTGTCCTGAGGCTCAA
*
108631816 CTCACCTCTCGCAATATGGGTTGATTTT-A-AAATCAGAAATTGAAAATACCTCAGCGTGTGAGC
1 CTCACCTCTCGCAATATGAGTTGATTTTGACAAAT-AGAAATTGAAAATACCTCAGCGTGT---C
* ** ** *
108631879 -CAAGTCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCACCTC
62 TCAAGGCTCAACTCACCTCTACCAATATGAGCTAATTTTTGACAAACAGAAATTAAAACCACCTC
108631943 AGCGTGTCCTGAGGCTCAA
127 AGCGTGTCCTGAGGCTCAA
108631962 CTCACCTCTCGCAATATGAGTTGATTTT
1 CTCACCTCTCGCAATATGAGTTGATTTT
108631990 TTTGAAAATC
Statistics
Matches: 152, Mismatches: 18, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
143 4 0.03
144 25 0.16
145 4 0.03
146 118 0.78
147 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (145 bp):
CTCACCTCTCGCAATATGAGTTGATTTTGACAAATAGAAATTGAAAATACCTCAGCGTGTCTCAA
GGCTCAACTCACCTCTACCAATATGAGCTAATTTTTGACAAACAGAAATTAAAACCACCTCAGCG
TGTCCTGAGGCTCAA
Found at i:108640287 original size:12 final size:12
Alignment explanation
Indices: 108640255--108640289 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
108640245 TGGGATATGC
108640255 AATGTATGAATG
1 AATGTATGAATG
**
108640267 AATACATGAATG
1 AATGTATGAATG
108640279 AATGTATGAAT
1 AATGTATGAAT
108640290 TTCAAATGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.46, C:0.03, G:0.20, T:0.31
Consensus pattern (12 bp):
AATGTATGAATG
Found at i:108641880 original size:16 final size:15
Alignment explanation
Indices: 108641859--108641906 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
108641849 GATGTGAATA
108641859 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
108641875 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
108641890 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
108641906 A
1 A
108641907 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:108641882 original size:24 final size:24
Alignment explanation
Indices: 108641855--108641910 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
108641845 TAATGATGTG
*
108641855 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
108641879 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
108641903 AATAATAA
1 AATAATAA
108641911 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:108641889 original size:8 final size:8
Alignment explanation
Indices: 108641855--108641906 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
108641845 TAATGATGTG
*
108641855 AATAATAA
1 AATATTAA
108641863 AATATATAA
1 AATAT-TAA
108641872 AATA-TAA
1 AATATTAA
108641879 AATATTAA
1 AATATTAA
*
108641887 AATATCAA
1 AATATTAA
*
108641895 AATATTAG
1 AATATTAA
108641903 AATA
1 AATA
108641907 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:108642086 original size:25 final size:24
Alignment explanation
Indices: 108642058--108642195 Score: 102
Period size: 25 Copynumber: 5.5 Consensus size: 24
108642048 CGTGATAATA
*
108642058 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATA-TG
*
108642083 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATATG
* *
108642106 TT-AAGATATATACATAAGATATG
1 TTAAAAATATATACATAATATATG
* * *
108642129 TAAAAAATATATATATAAATAATATAATA
1 T--TAAA-A-ATATATACATAATAT-ATG
* *
108642158 TTAAAGATATATACATAAAATA-G
1 TTAAAAATATATACATAATATATG
108642181 TATAAAATATATATA
1 T-TAAAA-ATATATA
108642196 TATATACGTA
Statistics
Matches: 88, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
22 16 0.18
23 6 0.07
24 5 0.06
25 40 0.45
26 2 0.02
27 3 0.03
28 13 0.15
29 3 0.03
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATATG
Found at i:108642147 original size:15 final size:15
Alignment explanation
Indices: 108642124--108642177 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
108642114 TATACATAAG
*
108642124 ATATGTAAAAAATAT
1 ATATATAAAAAATAT
*
108642139 ATATATAAATAATAT
1 ATATATAAAAAATAT
* *
108642154 A-ATATTAAAGATAT
1 ATATATAAAAAATAT
*
108642168 ATACATAAAA
1 ATATATAAAA
108642178 TAGTATAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
14 11 0.35
15 20 0.65
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (15 bp):
ATATATAAAAAATAT
Found at i:108642224 original size:56 final size:52
Alignment explanation
Indices: 108642106--108642259 Score: 147
Period size: 53 Copynumber: 2.9 Consensus size: 52
108642096 CATAATATAG
* *
108642106 TTAAGATATATACATAAGATATGTAAAAAATATATATATAAATAATATAATA
1 TTAAAATATATACATAAAATATGTAAAAAATATATATATAAATAATATAATA
*
108642158 TTAAAGATATATACATAAAATA-GTATAAAATATATATATATATACGTAATATAGA-A
1 TTAAA-ATATATACATAAAATATGTA-AAAA-ATATATATATA-A-ATAATATA-ATA
* * * *
108642214 TTTAAA-ATATACCTAATATAT-TAAAAGAATATATATA-ATATAATAT
1 TTAAAATATATACATAAAATATGTAAAA-AATATATATATAAATAATAT
108642260 TAAGAAATAT
Statistics
Matches: 86, Mismatches: 8, Indels: 18
0.77 0.07 0.16
Matches are distributed among these distances:
50 6 0.07
52 8 0.09
53 31 0.36
54 26 0.30
55 2 0.02
56 12 0.14
57 1 0.01
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (52 bp):
TTAAAATATATACATAAAATATGTAAAAAATATATATATAAATAATATAATA
Found at i:108642274 original size:23 final size:25
Alignment explanation
Indices: 108642231--108642276 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
108642221 TATACCTAAT
108642231 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
108642256 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
108642277 ACAAAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:108642813 original size:29 final size:30
Alignment explanation
Indices: 108642761--108642874 Score: 185
Period size: 30 Copynumber: 3.8 Consensus size: 30
108642751 TAGGTACAAG
* *
108642761 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
108642791 TGGTGGT-GAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
108642820 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
108642850 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
108642875 TGAGAAAAGT
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
29 26 0.34
30 51 0.66
ACGTcount: A:0.22, C:0.04, G:0.49, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:108642853 original size:59 final size:60
Alignment explanation
Indices: 108642761--108642874 Score: 203
Period size: 59 Copynumber: 1.9 Consensus size: 60
108642751 TAGGTACAAG
*
108642761 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGT-GAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
*
108642820 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGT
108642875 TGAGAAAAGT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
59 36 0.69
60 16 0.31
ACGTcount: A:0.22, C:0.04, G:0.49, T:0.25
Consensus pattern (60 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:108643624 original size:2 final size:2
Alignment explanation
Indices: 108643612--108643643 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
108643602 TAGCGGAGGG
108643612 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
108643644 AACCATCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:108644348 original size:16 final size:15
Alignment explanation
Indices: 108644305--108644348 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
108644295 TACATATGTG
*
108644305 ATAATATATTTGCAAA
1 ATAATATATTT-AAAA
108644321 ATAATATA-TTAAAA
1 ATAATATATTTAAAA
108644335 ATAATATAATTTAA
1 ATAATAT-ATTTAA
108644349 CAATTACAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 10 0.40
15 3 0.12
16 12 0.48
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (15 bp):
ATAATATATTTAAAA
Found at i:108644385 original size:15 final size:15
Alignment explanation
Indices: 108644365--108644398 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
108644355 CAATTTAATC
108644365 AAAACTAAAAATTCA-
1 AAAACT-AAAATTCAT
108644380 AAAACTAAAATTCAT
1 AAAACTAAAATTCAT
108644395 AAAA
1 AAAA
108644399 TTCAAATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAACTAAAATTCAT
Found at i:108650539 original size:9 final size:9
Alignment explanation
Indices: 108650525--108650564 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
108650515 GAAAAATAAT
108650525 AATATTTGA
1 AATATTTGA
*
108650534 AATATTTTA
1 AATATTTGA
*
108650543 AATATTTTA
1 AATATTTGA
*
108650552 CATATTTGA
1 AATATTTGA
108650561 AATA
1 AATA
108650565 ATAATGATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (9 bp):
AATATTTGA
Found at i:108650849 original size:14 final size:14
Alignment explanation
Indices: 108650832--108650862 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
108650822 TAAAAAATAC
108650832 ATATTAAAATGCTT
1 ATATTAAAATGCTT
108650846 ATATTAAAATGCTT
1 ATATTAAAATGCTT
108650860 ATA
1 ATA
108650863 AGAGGAAGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (14 bp):
ATATTAAAATGCTT
Found at i:108652069 original size:21 final size:21
Alignment explanation
Indices: 108652045--108652098 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
108652035 AGAATTTACT
* * *
108652045 AAAAATACATATAAATTTTAA
1 AAAAATAAATAAAAATTTCAA
108652066 AAAAATAAATAAAAATTTCAA
1 AAAAATAAATAAAAATTTCAA
108652087 AAATAGATAAAT
1 AAA-A-ATAAAT
108652099 TGAGAGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 21 0.75
22 1 0.04
23 6 0.21
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (21 bp):
AAAAATAAATAAAAATTTCAA
Found at i:108655167 original size:24 final size:24
Alignment explanation
Indices: 108655120--108655168 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
108655110 TTAGTGATGA
108655120 TCCAAATCCATATGATAGTGGGCG
1 TCCAAATCCATATGATAGTGGGCG
108655144 TCCAAATCCATATGATAGTGGGCG
1 TCCAAATCCATATGATAGTGGGCG
108655168 T
1 T
108655169 GACTTTGGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (24 bp):
TCCAAATCCATATGATAGTGGGCG
Found at i:108663641 original size:23 final size:23
Alignment explanation
Indices: 108663614--108663682 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 23
108663604 GGGGAAGTAT
108663614 GAATAATCATTTGAAAACATTTG
1 GAATAATCATTTGAAAACATTTG
*
108663637 GAATAAT-A---G--AACATAT-
1 GAATAATCATTTGAAAACATTTG
108663653 GAATAATCATTTGAAAACATTTG
1 GAATAATCATTTGAAAACATTTG
108663676 GAATAAT
1 GAATAAT
108663683 AGAACATCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
16 7 0.19
17 7 0.19
19 1 0.03
20 1 0.03
22 7 0.19
23 14 0.38
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.32
Consensus pattern (23 bp):
GAATAATCATTTGAAAACATTTG
Found at i:108663665 original size:39 final size:39
Alignment explanation
Indices: 108663611--108663689 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
108663601 AAAGGGGAAG
108663611 TATGAATAATCATTTGAAAACATTTGGAATAATAGAACA
1 TATGAATAATCATTTGAAAACATTTGGAATAATAGAACA
108663650 TATGAATAATCATTTGAAAACATTTGGAATAATAGAACA
1 TATGAATAATCATTTGAAAACATTTGGAATAATAGAACA
108663689 T
1 T
108663690 CTCCACAGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.48, C:0.08, G:0.13, T:0.32
Consensus pattern (39 bp):
TATGAATAATCATTTGAAAACATTTGGAATAATAGAACA
Found at i:108667877 original size:27 final size:27
Alignment explanation
Indices: 108667837--108667919 Score: 69
Period size: 27 Copynumber: 2.9 Consensus size: 27
108667827 TTTTTCCGAC
108667837 ATTTGATTAAATTTATGTAAAATATTTTGA
1 ATTT-ATT-AATTTAT-TAAAATATTTTGA
* * *
108667867 A-TTATTAATTTGTTAAATTTTTTTGA
1 ATTTATTAATTTATTAAAATATTTTGA
*
108667893 ATTTATTTATTTCAATTAAAAATATTT
1 ATTTATTAATTT--ATT-AAAATATTT
108667920 ATTTTGATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
26 12 0.29
27 15 0.36
28 3 0.07
29 4 0.10
30 8 0.19
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.55
Consensus pattern (27 bp):
ATTTATTAATTTATTAAAATATTTTGA
Found at i:108673285 original size:23 final size:24
Alignment explanation
Indices: 108673259--108673305 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
108673249 TTGATATTAA
108673259 GAATATATTTACA-AATTTTTATT
1 GAATATATTTACATAATTTTTATT
* *
108673282 GAATATTTTTATATAATTTTTATT
1 GAATATATTTACATAATTTTTATT
108673306 ACTATCCATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (24 bp):
GAATATATTTACATAATTTTTATT
Found at i:108673935 original size:2 final size:2
Alignment explanation
Indices: 108673928--108673965 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
108673918 TCAACCACAT
108673928 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
108673966 AATTAATATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:108676347 original size:16 final size:15
Alignment explanation
Indices: 108676310--108676349 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
108676300 ACTTGTCAAA
*
108676310 TAAAAAATTTTATTT
1 TAAAAAATATTATTT
108676325 TAAAAAATATTATTT
1 TAAAAAATATTATTT
108676340 TAATAAAATA
1 TAA-AAAATA
108676350 CTTAAATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.74
16 6 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAAAAATATTATTT
Found at i:108676499 original size:24 final size:24
Alignment explanation
Indices: 108676470--108676517 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
108676460 TTATAAATTG
*
108676470 ATTAATTGAATTTAATAACCCATA
1 ATTAATTAAATTTAATAACCCATA
*
108676494 ATTAATTAAATTTAATAACTCATA
1 ATTAATTAAATTTAATAACCCATA
108676518 TTGTTTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.40
Consensus pattern (24 bp):
ATTAATTAAATTTAATAACCCATA
Found at i:108699481 original size:8 final size:8
Alignment explanation
Indices: 108699468--108699496 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
108699458 CTCTGCTTCT
108699468 TTTTTTTC
1 TTTTTTTC
108699476 TTTTTTTC
1 TTTTTTTC
108699484 TTTTTTTC
1 TTTTTTTC
108699492 TTTTT
1 TTTTT
108699497 GCTTCTTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTC
Found at i:108701155 original size:38 final size:37
Alignment explanation
Indices: 108701103--108701175 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 37
108701093 TCCTTTAAAT
* *
108701103 ATAATTGTTGGTATACTTAAAAAGGTAATCTTAAAAAA
1 ATAATGGTTAGTATACTTAAAAA-GTAATCTTAAAAAA
108701141 ATAATGGTTAGTATACTTAAAAAGTAATCTTAAAA
1 ATAATGGTTAGTATACTTAAAAAGTAATCTTAAAA
108701176 TTTTGTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
37 12 0.36
38 21 0.64
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.34
Consensus pattern (37 bp):
ATAATGGTTAGTATACTTAAAAAGTAATCTTAAAAAA
Found at i:108710949 original size:13 final size:13
Alignment explanation
Indices: 108710919--108710949 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
108710909 AAGTGTGATG
108710919 AAAAAGTACTTTT
1 AAAAAGTACTTTT
*
108710932 GAAAAGTACTTTT
1 AAAAAGTACTTTT
108710945 AAAAA
1 AAAAA
108710950 TTTTGATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (13 bp):
AAAAAGTACTTTT
Found at i:108711345 original size:89 final size:90
Alignment explanation
Indices: 108711184--108711356 Score: 213
Period size: 89 Copynumber: 1.9 Consensus size: 90
108711174 TTTTCTTTAT
* *
108711184 CTTTTTTTTTGCACTCAATTGATCACTTGAACTTTCAAAATGCATCAAAAAGGCCCTCACACTTC
1 CTTTTTTTTTGCACTCAATTGATCACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAACTTC
*
108711249 TTCAAAAAATCAATTAAGCCCCTGC
66 TTCAAAAAAGCAATTAAGCCCCTGC
* * * * * * * * *
108711274 CTTTTTTTTTTCACTTAATTGGT-ACTTGATCTTTCAAAATGCATCAAAAATATCCTTAAATTTT
1 CTTTTTTTTTGCACTCAATTGATCACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAACTTC
* *
108711338 TTTAAAAAAGCAGTTAAGC
66 TTCAAAAAAGCAATTAAGC
108711357 ACATGCTCTT
Statistics
Matches: 69, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
89 49 0.71
90 20 0.29
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.38
Consensus pattern (90 bp):
CTTTTTTTTTGCACTCAATTGATCACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAACTTC
TTCAAAAAAGCAATTAAGCCCCTGC
Found at i:108711414 original size:19 final size:19
Alignment explanation
Indices: 108711384--108711428 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
108711374 ATTAGAAAAA
108711384 AAATTTATA-AAAAATGA-T
1 AAATTT-TAGAAAAATGATT
*
108711402 AAATTTTAGAAAAATTATT
1 AAATTTTAGAAAAATGATT
108711421 AAATTTTA
1 AAATTTTA
108711429 ATAAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 2 0.08
18 13 0.54
19 9 0.38
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (19 bp):
AAATTTTAGAAAAATGATT
Found at i:108711434 original size:19 final size:17
Alignment explanation
Indices: 108711384--108711434 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
108711374 ATTAGAAAAA
108711384 AAATTTATAAAAAATGAT
1 AAATTT-TAAAAAATGAT
*
108711402 AAATTTTAGAAAAATTATT
1 AAATTTTA-AAAAATGA-T
108711421 AAATTTTAATAAAA
1 AAATTTTAA-AAAA
108711435 ATTTTAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 2 0.07
18 14 0.48
19 13 0.45
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (17 bp):
AAATTTTAAAAAATGAT
Found at i:108711453 original size:18 final size:20
Alignment explanation
Indices: 108711411--108711456 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
108711401 TAAATTTTAG
*
108711411 AAAAATTATTAAATTTTAAT
1 AAAAATTATTAAATATTAAT
*
108711431 AAAAATT-TTAAA-ATTATT
1 AAAAATTATTAAATATTAAT
108711449 AAAAATTA
1 AAAAATTA
108711457 GAATTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 11 0.48
19 5 0.22
20 7 0.30
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAAATTATTAAATATTAAT
Found at i:108711510 original size:19 final size:19
Alignment explanation
Indices: 108711382--108711511 Score: 86
Period size: 19 Copynumber: 6.8 Consensus size: 19
108711372 AAATTAGAAA
* *
108711382 AAAAATTTATAAAAAATG-
1 AAAATTTTATAAAAATTGT
* *
108711400 ATAAATTTTAGAAAAATTAT
1 A-AAATTTTATAAAAATTGT
* *
108711420 TAAATTTTAATAAAAATTTT
1 AAAATTTT-ATAAAAATTGT
*
108711440 AAAATTAT-TAAAAATTAG-
1 AAAATTTTATAAAAATT-GT
**
108711458 AATTTTTTATAAAAATTGT
1 AAAATTTTATAAAAATTGT
* ** *
108711477 AAAAAATAAAAAAAAATTGT
1 -AAAATTTTATAAAAATTGT
108711497 AAAATTTTATAAAAA
1 AAAATTTTATAAAAA
108711512 ACATAAAAAA
Statistics
Matches: 82, Mismatches: 23, Indels: 13
0.69 0.19 0.11
Matches are distributed among these distances:
18 15 0.18
19 39 0.48
20 28 0.34
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (19 bp):
AAAATTTTATAAAAATTGT
Found at i:108711751 original size:9 final size:9
Alignment explanation
Indices: 108711739--108711806 Score: 52
Period size: 9 Copynumber: 7.6 Consensus size: 9
108711729 TCTTTATATA
108711739 TTTTATAAT
1 TTTTATAAT
* *
108711748 TTTTTTACGCT
1 TTTTATA--AT
108711759 TTTTATAAT
1 TTTTATAAT
108711768 TTTTATAA-
1 TTTTATAAT
108711776 TTTT-TAAT
1 TTTTATAAT
*
108711784 ATTT-TAAT
1 TTTTATAAT
*
108711792 ATTTCATAAT
1 -TTTTATAAT
108711802 TTTTA
1 TTTTA
108711807 ATAAAAGCAC
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
7 3 0.07
8 11 0.24
9 21 0.46
10 4 0.09
11 7 0.15
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:108711779 original size:18 final size:18
Alignment explanation
Indices: 108711739--108711806 Score: 52
Period size: 20 Copynumber: 3.8 Consensus size: 18
108711729 TCTTTATATA
* *
108711739 TTTTATAATTTTTTTACGCT
1 TTTTATAATTTTTATA--AT
108711759 TTTTATAATTTTTATAA-
1 TTTTATAATTTTTATAAT
*
108711776 TTTT-TAATATTT-TAAT
1 TTTTATAATTTTTATAAT
*
108711792 ATTTCATAATTTTTA
1 -TTTTATAATTTTTA
108711807 ATAAAAGCAC
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
15 3 0.08
16 7 0.18
17 7 0.18
18 7 0.18
20 15 0.38
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TTTTATAATTTTTATAAT
Found at i:108713172 original size:3 final size:3
Alignment explanation
Indices: 108713158--108713593 Score: 127
Period size: 3 Copynumber: 144.3 Consensus size: 3
108713148 AATAGGATGG
* * *
108713158 ATA ATA AAA ATA ATA GTA ATA ATA ATA A-A TATA ATG ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * * * * * *
108713203 TTA A-A AGA ATA A-A TATA ATG ATG ATA ATA GTG TTA A-A ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
108713246 ATA ATA ATA A-A CA-A ACGA CATA TTA ATG ATA ATA GAAA ATA A-A GATA
1 ATA ATA ATA ATA -ATA A-TA -ATA ATA ATA ATA ATA -ATA ATA ATA -ATA
* * * * *
108713293 ATA ATA ATG AGA GTA ATGA A-A ATA ATA ATA ATA GA-A ACA ATA GTA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* * *
108713338 ATA A-A AGTA ATA ATA A-A ATA GAAA ATA ACA ATG ATA CATTA ATA ATA
1 ATA ATA A-TA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -A-TA ATA ATA
* * * * *
108713385 ATA AT- ATA CGTG CTA ATA ATA ATA ACA AT- ATA A-A AAA ATA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
108713428 CT- ATA TTA ATA AAA ATA ATA ATA GTA GATAA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA
* * * * * * *
108713474 AAA AGGTA A-A A-A ATA ATA ATG A-A ATA ATA AAA ACA CTA TTA CGTTA
1 ATA A--TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA
* * * * * * *
108713520 CTA CTA CTA ATA ATA ATA AAA ACA GTA ATA GT- ATA TATA TATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -ATA ATA
108713566 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
108713594 CAACACTCTC
Statistics
Matches: 321, Mismatches: 74, Indels: 76
0.68 0.16 0.16
Matches are distributed among these distances:
2 29 0.09
3 256 0.80
4 27 0.08
5 9 0.03
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:108713227 original size:32 final size:29
Alignment explanation
Indices: 108713166--108713246 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 29
108713156 GGATAATAAA
*
108713166 AATAATAGTAATAATAATAAATATAATGAT
1 AATAATATTAA-AATAATAAATATAATGAT
*
108713196 AATAATATTAAAAGAATAAATATAATGAT
1 AATAATATTAAAATAATAAATATAATGAT
*
108713225 GATAATAGTGTTAAAATAATAA
1 AATAATA---TTAAAATAATAA
108713247 TAATAATAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
29 23 0.52
30 10 0.23
32 11 0.25
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (29 bp):
AATAATATTAAAATAATAAATATAATGAT
Found at i:108713253 original size:32 final size:32
Alignment explanation
Indices: 108713175--108713255 Score: 94
Period size: 32 Copynumber: 2.5 Consensus size: 32
108713165 AAATAATAGT
108713175 AATAATAATAA-ATATAATGATAATAATATTAA
1 AATAATAATAATA-ATAATGATAATAATATTAA
* * * *
108713207 AAGAATAA-ATATAATGATGATAATAGTGTTAA
1 AATAATAATA-ATAATAATGATAATAATATTAA
108713239 AATAATAATAATAATAA
1 AATAATAATAATAATAA
108713256 ACAAACGACA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
31 1 0.03
32 37 0.93
33 2 0.05
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.32
Consensus pattern (32 bp):
AATAATAATAATAATAATGATAATAATATTAA
Found at i:108713324 original size:15 final size:14
Alignment explanation
Indices: 108713306--108713476 Score: 58
Period size: 14 Copynumber: 11.6 Consensus size: 14
108713296 ATAATGAGAG
108713306 TAATGAAAATAATAA
1 TAAT-AAAATAATAA
* *
108713321 TAATAGAAACAATAG
1 TAATA-AAATAATAA
108713336 TAATAAAAGTAATAA
1 TAATAAAA-TAATAA
*
108713351 TAAAATAGAAAATAACAA
1 T--AAT--AAAATAATAA
* * *
108713369 TGATACATTAATAA
1 TAATAAAATAATAA
* * **
108713383 TAATAATATACGTGC
1 TAATAAAATA-ATAA
*
108713398 TAATAATAATAACAA
1 TAATAA-AATAATAA
*
108713413 T-ATAAAAAAATAA
1 TAATAAAATAATAA
* * *
108713426 TACTATATTAATAA
1 TAATAAAATAATAA
* *
108713440 AAATAATAATAGTAGA
1 TAATAA-AATAATA-A
* *
108713456 TAA-ATAATAATAG
1 TAATAAAATAATAA
108713469 TAATAAAA
1 TAATAAAA
108713477 AGGTAAAAAA
Statistics
Matches: 107, Mismatches: 37, Indels: 25
0.63 0.22 0.15
Matches are distributed among these distances:
13 10 0.09
14 41 0.38
15 35 0.33
16 8 0.07
17 3 0.03
18 6 0.06
19 4 0.04
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.27
Consensus pattern (14 bp):
TAATAAAATAATAA
Found at i:108713447 original size:23 final size:23
Alignment explanation
Indices: 108713414--108713473 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
108713404 TAATAACAAT
* *
108713414 ATAAAAA-AATAATACTATATTA
1 ATAAAAATAATAATACTAGATAA
*
108713436 ATAAAAATAATAATAGTAGATAA
1 ATAAAAATAATAATACTAGATAA
* *
108713459 ATAATAATAGTAATA
1 ATAAAAATAATAATA
108713474 AAAAGGTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 7 0.22
23 25 0.78
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (23 bp):
ATAAAAATAATAATACTAGATAA
Found at i:108713464 original size:20 final size:18
Alignment explanation
Indices: 108713398--108713467 Score: 58
Period size: 20 Copynumber: 3.8 Consensus size: 18
108713388 ATATACGTGC
*
108713398 TAAT-AATAATAACAATA
1 TAATAAATAATAATAATA
108713415 TAA-AAA-AATAATACTATA
1 TAATAAATAATAATA--ATA
108713433 TTAATAAA-AATAATAATA
1 -TAATAAATAATAATAATA
108713451 GTAGATAAATAATAATA
1 -TA-ATAAATAATAATA
108713468 GTAATAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
16 6 0.14
17 5 0.11
18 8 0.18
19 8 0.18
20 17 0.39
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (18 bp):
TAATAAATAATAATAATA
Found at i:108715692 original size:25 final size:25
Alignment explanation
Indices: 108715663--108715730 Score: 64
Period size: 27 Copynumber: 2.6 Consensus size: 25
108715653 GATATAGGGT
108715663 AGCTCTAGAGAGCCATTAATCAAGA
1 AGCTCTAGAGAGCCATTAATCAAGA
* * **
108715688 AGCTCATGAAAGAGCCTTTAATTGAGA
1 AGCTC-T-AGAGAGCCATTAATCAAGA
* *
108715715 AGCTCCAGAGATCCAT
1 AGCTCTAGAGAGCCAT
108715731 ATATCGGGAC
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
25 12 0.36
26 1 0.03
27 20 0.61
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (25 bp):
AGCTCTAGAGAGCCATTAATCAAGA
Found at i:108715849 original size:25 final size:24
Alignment explanation
Indices: 108715820--108715867 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
108715810 ATTAATGGGA
*
108715820 AGCTCATGAGAGCCATATACCGAGT
1 AGCTCAAGAGAGCCA-ATACCGAGT
* *
108715845 AGCTCAAGTGAGCCAATATCGAG
1 AGCTCAAGAGAGCCAATACCGAG
108715868 ATGCTCGTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (24 bp):
AGCTCAAGAGAGCCAATACCGAGT
Found at i:108717680 original size:37 final size:37
Alignment explanation
Indices: 108717630--108717704 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
108717620 GAATTTTTGT
**
108717630 AGAGAATCGTTATTGTTCATCTTTGTCTTTTCTTTAC
1 AGAGAATCGTTATTGTTCATCTTCATCTTTTCTTTAC
* *
108717667 AGAGAATCTTTATTGTTCATCTTCATTTTTTCTTTAC
1 AGAGAATCGTTATTGTTCATCTTCATCTTTTCTTTAC
108717704 A
1 A
108717705 AAGTATGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.21, C:0.16, G:0.11, T:0.52
Consensus pattern (37 bp):
AGAGAATCGTTATTGTTCATCTTCATCTTTTCTTTAC
Found at i:108719778 original size:46 final size:45
Alignment explanation
Indices: 108719718--108719983 Score: 339
Period size: 46 Copynumber: 6.0 Consensus size: 45
108719708 TTTGACATGA
* * * * * *
108719718 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** *
108719764 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
108719810 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
108719856 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
108719902 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
108719940 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
108719984 AGAGCACACT
Statistics
Matches: 197, Mismatches: 13, Indels: 20
0.86 0.06 0.09
Matches are distributed among these distances:
38 34 0.17
40 3 0.02
43 1 0.01
44 3 0.02
45 4 0.02
46 149 0.76
47 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:108719947 original size:38 final size:38
Alignment explanation
Indices: 108719896--108719971 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
108719886 ACATTTTATA
108719896 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
108719934 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
108719972 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:108722136 original size:11 final size:11
Alignment explanation
Indices: 108722120--108722171 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
108722110 TATACTAAAT
108722120 AAATAATAATA
1 AAATAATAATA
*
108722131 AAATAAT-ATT
1 AAATAATAATA
* *
108722141 AAATATCTCATA
1 AAATA-ATAATA
*
108722153 AAATATTAATA
1 AAATAATAATA
108722164 AAATAATA
1 AAATAATA
108722172 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:108744866 original size:40 final size:40
Alignment explanation
Indices: 108744818--108744897 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
108744808 AAATATTATA
108744818 ACTGACCTGTATGCTTACAGTAAAACCACACCTTAAATTT
1 ACTGACCTGTATGCTTACAGTAAAACCACACCTTAAATTT
* *
108744858 ACTGACCTGTATGCTTATAGTAAAACCGCACCTTAAATTT
1 ACTGACCTGTATGCTTACAGTAAAACCACACCTTAAATTT
108744898 GGTTTATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (40 bp):
ACTGACCTGTATGCTTACAGTAAAACCACACCTTAAATTT
Found at i:108754227 original size:20 final size:21
Alignment explanation
Indices: 108754185--108754227 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
108754175 TTTCTTGTTT
* * *
108754185 TTTTTCACTATTTTGTTACTA
1 TTTTTCACTATTATATTAATA
108754206 TTTTT-ACTATTATATTAATA
1 TTTTTCACTATTATATTAATA
108754226 TT
1 TT
108754228 ATTTTGTTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTTCACTATTATATTAATA
Found at i:108756820 original size:28 final size:28
Alignment explanation
Indices: 108756756--108756820 Score: 64
Period size: 28 Copynumber: 2.3 Consensus size: 28
108756746 GCAGCAGGAG
*
108756756 AGAAGGAAAGAAAGAATGAAAATAAAGA
1 AGAAGAAAAGAAAGAATGAAAATAAAGA
*
108756784 A-AACTAAAAGATAAGAGA-GAAAA-AAAGA
1 AGAA-GAAAAGA-AAGA-ATGAAAATAAAGA
108756812 AGAAGAAAA
1 AGAAGAAAA
108756821 TATTTTTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
27 2 0.07
28 16 0.53
29 11 0.37
30 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.22, T:0.06
Consensus pattern (28 bp):
AGAAGAAAAGAAAGAATGAAAATAAAGA
Found at i:108761192 original size:32 final size:30
Alignment explanation
Indices: 108761155--108761220 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 30
108761145 AACTAATTTT
108761155 ACACTCTCTCTCCTATCTCCCCACACACACAC
1 ACACTCTCTCT-CTATCT-CCCACACACACAC
* *
108761187 ACACTCTCTCTCTCTCTCTCACACACACAC
1 ACACTCTCTCTCTATCTCCCACACACACAC
108761217 ACAC
1 ACAC
108761221 CATAGCTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 16 0.50
31 5 0.16
32 11 0.34
ACGTcount: A:0.26, C:0.52, G:0.00, T:0.23
Consensus pattern (30 bp):
ACACTCTCTCTCTATCTCCCACACACACAC
Found at i:108762071 original size:19 final size:19
Alignment explanation
Indices: 108762047--108762088 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
108762037 CATCCAACAT
108762047 GCGGACAGTTGCATTTGTA
1 GCGGACAGTTGCATTTGTA
108762066 GCGGACAGTTGCATTTGTA
1 GCGGACAGTTGCATTTGTA
108762085 GCGG
1 GCGG
108762089 TCAATAGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.19, C:0.17, G:0.36, T:0.29
Consensus pattern (19 bp):
GCGGACAGTTGCATTTGTA
Found at i:108766836 original size:22 final size:22
Alignment explanation
Indices: 108766784--108766838 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
108766774 CTTATAGTAC
*
108766784 AAATTAT-AATTATATAATTTA
1 AAATTATAAAATATATAATTTA
*
108766805 AAATTTTAAAATATAT-ATTTA
1 AAATTATAAAATATATAATTTA
*
108766826 ATTATTATAAAAT
1 A-AATTATAAAAT
108766839 TGTTGATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 12 0.43
22 16 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATTATAAAATATATAATTTA
Found at i:108780126 original size:30 final size:32
Alignment explanation
Indices: 108780059--108780124 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
108780049 GTTAAATGAT
* * *
108780059 AAAATATATTATAAAATATTATTTCTATCAAA
1 AAAATATATTATAAAACACTAATTCTATCAAA
*
108780091 AAAATATATTATAAAACACTAATTCT-TTAAA
1 AAAATATATTATAAAACACTAATTCTATCAAA
108780122 AAA
1 AAA
108780125 TAAAATTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 7 0.23
32 23 0.77
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (32 bp):
AAAATATATTATAAAACACTAATTCTATCAAA
Found at i:108786345 original size:20 final size:20
Alignment explanation
Indices: 108786300--108786347 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
108786290 ACCACATTAT
108786300 TATTCTTATCTTGAATTTCAA
1 TATT-TTATCTTGAATTTCAA
* * *
108786321 AATTTTATCTTGAATTTTAG
1 TATTTTATCTTGAATTTCAA
108786341 TATTTTA
1 TATTTTA
108786348 ATTTAGATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.56
Consensus pattern (20 bp):
TATTTTATCTTGAATTTCAA
Found at i:108788940 original size:29 final size:27
Alignment explanation
Indices: 108788865--108788941 Score: 73
Period size: 29 Copynumber: 2.7 Consensus size: 27
108788855 TCACTGTACT
* *
108788865 TTTTCTAATTTTAATATTTAGTCCTTAT
1 TTTTC-AATTTTAAAATTTAGTCCTTAC
**
108788893 TTTTTTATTTCTAAGAATTTAGTCTCTTTAC
1 TTTTCAATTT-TAA-AATTTAGTC-C-TTAC
108788924 TTTTCAATTTTAAAATTT
1 TTTTCAATTTTAAAATTT
108788942 TACCAATTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
27 4 0.10
28 7 0.18
29 13 0.33
30 4 0.10
31 11 0.28
ACGTcount: A:0.26, C:0.10, G:0.04, T:0.60
Consensus pattern (27 bp):
TTTTCAATTTTAAAATTTAGTCCTTAC
Found at i:108789702 original size:14 final size:13
Alignment explanation
Indices: 108789685--108789721 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
108789675 GAAAAGTTGT
108789685 TATAGAAAATAAAA
1 TATA-AAAATAAAA
108789699 TATAAAATATAAAA
1 TATAAAA-ATAAAA
108789713 TATAAAAAT
1 TATAAAAAT
108789722 TCAATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (13 bp):
TATAAAAATAAAA
Found at i:108789705 original size:7 final size:7
Alignment explanation
Indices: 108789693--108789719 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
108789683 GTTATAGAAA
108789693 ATAAAAT
1 ATAAAAT
108789700 ATAAAAT
1 ATAAAAT
108789707 ATAAAAT
1 ATAAAAT
108789714 ATAAAA
1 ATAAAA
108789720 ATTCAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
ATAAAAT
Found at i:108795246 original size:16 final size:16
Alignment explanation
Indices: 108795217--108795260 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
108795207 TTTTTAATTT
*
108795217 TATAATGTTTTATATTA
1 TATAAT-TTATATATTA
*
108795234 TATTATTTATATATTA
1 TATAATTTATATATTA
108795250 TATAATTTATA
1 TATAATTTATA
108795261 ATACATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
TATAATTTATATATTA
Found at i:108795378 original size:25 final size:26
Alignment explanation
Indices: 108795331--108795380 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
108795321 TTTTAATGTG
108795331 AATATATAAAACTTTTAATAAATAAA
1 AATATATAAAACTTTTAATAAATAAA
*
108795357 AATATATAAAATTTTTAA-AAATAA
1 AATATATAAAACTTTTAATAAATAA
108795381 TATAAAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (26 bp):
AATATATAAAACTTTTAATAAATAAA
Found at i:108801522 original size:2 final size:2
Alignment explanation
Indices: 108801515--108801539 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
108801505 TGAGAAACTA
108801515 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
108801540 CCTGAAACGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:108804822 original size:16 final size:17
Alignment explanation
Indices: 108804791--108804823 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
108804781 TTCATAAGTA
108804791 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
108804808 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
108804824 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:108805179 original size:46 final size:47
Alignment explanation
Indices: 108805109--108805270 Score: 217
Period size: 46 Copynumber: 3.5 Consensus size: 47
108805099 TTTGACATGA
* * * *
108805109 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATAGTATCTTTCAACCATGGTCTTATTCATTTTCATGTCACGT
*
108805155 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATAGTATCTTTCAACCATGGTCTTATTCATTTTCATGTCACGT
*
108805201 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGCT
1 TGCCATAGTATCTTTCAACCATGGTCTTATTCATTTTCATGTCACG-T
*
108805248 T-CTATAGTATC-TTCAACCATGGT
1 TGCCATAGTATCTTTCAACCATGGT
108805271 TTTTGTAACG
Statistics
Matches: 106, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
45 17 0.16
46 87 0.82
47 2 0.02
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (47 bp):
TGCCATAGTATCTTTCAACCATGGTCTTATTCATTTTCATGTCACGT
Found at i:108808099 original size:46 final size:46
Alignment explanation
Indices: 108808041--108808131 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
108808031 TCATTTCCCG
108808041 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
108808087 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
108808132 TTCAGAAAGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (46 bp):
TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
Found at i:108809963 original size:11 final size:11
Alignment explanation
Indices: 108809947--108809994 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
108809937 CTTTATATAC
108809947 TAATAAAATAA
1 TAATAAAATAA
*
108809958 TAATAAAATATCT
1 TAATAAAATA--A
* *
108809971 TATTAAAATAT
1 TAATAAAATAA
108809982 TAATAAAATAA
1 TAATAAAATAA
108809993 TA
1 TA
108809995 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:108812816 original size:12 final size:12
Alignment explanation
Indices: 108812799--108812831 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
108812789 TGCTAAATTT
108812799 GTAACAGTAACG
1 GTAACAGTAACG
108812811 GTAACAGTAACG
1 GTAACAGTAACG
108812823 GTAACAGTA
1 GTAACAGTA
108812832 TTTGACACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.18
Consensus pattern (12 bp):
GTAACAGTAACG
Found at i:108814914 original size:23 final size:23
Alignment explanation
Indices: 108814888--108814931 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
108814878 GTTTAGCTCC
*
108814888 TTAAAAAATAATGAAATTATAAA
1 TTAAAAAATAATAAAATTATAAA
* *
108814911 TTAATACATAATAAAATTATA
1 TTAAAAAATAATAAAATTATA
108814932 TTTTGGTCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (23 bp):
TTAAAAAATAATAAAATTATAAA
Found at i:108817043 original size:20 final size:20
Alignment explanation
Indices: 108816991--108817043 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
108816981 AGATAGGGGC
* * *
108816991 ACACGCCCGTGTAGCTTGGG
1 ACACGCCCGTGTGGCCTGGA
108817011 ACACGCCCGTGTGGCCTGGA
1 ACACGCCCGTGTGGCCTGGA
*
108817031 ACATGCCCGTGTG
1 ACACGCCCGTGTG
108817044 CTGCAGCCGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.15, C:0.32, G:0.34, T:0.19
Consensus pattern (20 bp):
ACACGCCCGTGTGGCCTGGA
Found at i:108817299 original size:17 final size:21
Alignment explanation
Indices: 108817277--108817319 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
108817267 ACCTAAAAAT
108817277 TTTCAA-CC-AAACAA-T-TA
1 TTTCAAGCCAAAACAAGTATA
108817294 TTTCAAGCCAAAACAAGTATA
1 TTTCAAGCCAAAACAAGTATA
108817315 TTTCA
1 TTTCA
108817320 TTTTTCAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.27
18 2 0.09
19 6 0.27
20 1 0.05
21 7 0.32
ACGTcount: A:0.44, C:0.21, G:0.05, T:0.30
Consensus pattern (21 bp):
TTTCAAGCCAAAACAAGTATA
Found at i:108817933 original size:53 final size:51
Alignment explanation
Indices: 108817858--108818017 Score: 176
Period size: 52 Copynumber: 3.1 Consensus size: 51
108817848 CGGATTACAT
* *
108817858 ATCATACCGATGCCATATCCCAGATATGGTCTTATACGGAATCACATTATCAC
1 ATCATACCGATGCCATAGCCCAGATATGGTCTTATACGGAA-CACA-AATCAC
* * * * *
108817911 ATCACACCGATGCCATAGCCCAGTTATAGTCTTATACGGGAACGCAAATCAT
1 ATCATACCGATGCCATAGCCCAGATATGGTCTTATAC-GGAACACAAATCAC
** * * *
108817963 ATTGTACCGATGCCATAGCTCGGATATGGTCTTATACGGAAACATAAATCAC
1 ATCATACCGATGCCATAGCCCAGATATGGTCTTATACGG-AACACAAATCAC
108818015 ATC
1 ATC
108818018 TTTTCTGTCA
Statistics
Matches: 87, Mismatches: 18, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
51 2 0.02
52 45 0.52
53 36 0.41
54 4 0.05
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (51 bp):
ATCATACCGATGCCATAGCCCAGATATGGTCTTATACGGAACACAAATCAC
Found at i:108824655 original size:17 final size:21
Alignment explanation
Indices: 108824633--108824675 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
108824623 ACCTAAAAAT
108824633 TTTCAA-CC-AAACAA-T-TA
1 TTTCAAGCCAAAACAAGTATA
108824650 TTTCAAGCCAAAACAAGTATA
1 TTTCAAGCCAAAACAAGTATA
108824671 TTTCA
1 TTTCA
108824676 TTTTCCAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.27
18 2 0.09
19 6 0.27
20 1 0.05
21 7 0.32
ACGTcount: A:0.44, C:0.21, G:0.05, T:0.30
Consensus pattern (21 bp):
TTTCAAGCCAAAACAAGTATA
Found at i:108825251 original size:46 final size:49
Alignment explanation
Indices: 108825177--108825304 Score: 127
Period size: 53 Copynumber: 2.6 Consensus size: 49
108825167 ACACACTGAA
* ** * *
108825177 GCCATAGCCCTGCCATGGTCTTACACGGATTACA-TAT-CAT-ACCGAT
1 GCCATAGCCCAGATATGGTCTTATACGGATCACATTATACATCACCGAT
* *
108825223 GCCATATCCCAGATATGGTATTATACGGAATCACATTATCACATCACACCGAT
1 GCCATAGCCCAGATATGGTCTTATACGG-ATCACATTAT-ACAT--CACCGAT
*
108825276 GCCATAGCCCAGCTATGGTCTTATACGGA
1 GCCATAGCCCAGATATGGTCTTATACGGA
108825305 ATTGCGAATC
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
46 22 0.34
47 5 0.08
48 3 0.05
50 3 0.05
52 1 0.02
53 31 0.48
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (49 bp):
GCCATAGCCCAGATATGGTCTTATACGGATCACATTATACATCACCGAT
Found at i:108834041 original size:23 final size:24
Alignment explanation
Indices: 108834009--108834054 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
108833999 TGGGAAATAG
108834009 AATTTTATTTAA-TT-ATTTTTTA
1 AATTTTATTTAATTTCATTTTTTA
108834031 AATTTTAATTTAATTTCATTTTTT
1 AATTTT-ATTTAATTTCATTTTTT
108834055 GTCAACACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.29
23 6 0.29
24 2 0.10
25 7 0.33
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (24 bp):
AATTTTATTTAATTTCATTTTTTA
Done.