Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 55 of 295
Found at i:15878436 original size:14 final size:14
Alignment explanation
Indices: 15878409--15878449 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
15878399 ATAATTATAT
*
15878409 ATTTATATATTAAA
1 ATTTATATTTTAAA
15878423 ATTT-TA-TTTATAA
1 ATTTATATTTTA-AA
15878436 ATTTATATTTTAAA
1 ATTTATATTTTAAA
15878450 TATAAAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
12 3 0.13
13 8 0.35
14 8 0.35
15 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTTATATTTTAAA
Found at i:15878636 original size:45 final size:40
Alignment explanation
Indices: 15878610--15878703 Score: 108
Period size: 35 Copynumber: 2.5 Consensus size: 40
15878600 TATTGTTAAC
* *
15878610 ATTATTAATTTATTCAACTACTATTGCAATTAATATAATAA
1 ATTATCAATTTATTCAA-TACTATTGCAAGTAATATAATAA
*
15878651 ATTATCAATTTATTCAATACTATT--AA-TAATCTAAT--
1 ATTATCAATTTATTCAATACTATTGCAAGTAATATAATAA
*
15878686 ATTATAAATTTATTCAAT
1 ATTATCAATTTATTCAAT
15878704 TAGCATTATA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
35 17 0.34
37 8 0.16
38 2 0.04
40 7 0.14
41 16 0.32
ACGTcount: A:0.44, C:0.10, G:0.01, T:0.46
Consensus pattern (40 bp):
ATTATCAATTTATTCAATACTATTGCAAGTAATATAATAA
Found at i:15879862 original size:13 final size:13
Alignment explanation
Indices: 15879844--15879896 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
15879834 AAGTGAGATA
15879844 AAATAATTAAAAT
1 AAATAATTAAAAT
*
15879857 AAATAACTAAAAT
1 AAATAATTAAAAT
15879870 AAAATAA-T-AAAT
1 -AAATAATTAAAAT
* *
15879882 AAAAAATTAGAAT
1 AAATAATTAAAAT
15879895 AA
1 AA
15879897 TAAGGAAACA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
11 5 0.15
12 5 0.15
13 18 0.53
14 6 0.18
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (13 bp):
AAATAATTAAAAT
Found at i:15879886 original size:18 final size:18
Alignment explanation
Indices: 15879851--15879885 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
15879841 ATAAAATAAT
*
15879851 TAAAATAAATAACTAAAA
1 TAAAATAAATAAATAAAA
15879869 TAAAAT-AATAAATAAAA
1 TAAAATAAATAAATAAAA
15879886 AATTAGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
TAAAATAAATAAATAAAA
Found at i:15882313 original size:27 final size:26
Alignment explanation
Indices: 15882291--15882343 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 26
15882281 GTTTTTGGAT
15882291 ATTTCATCTTCTTAAAACATTTTATCC
1 ATTTCATCTTCTTAAAACATTTTAT-C
15882318 ATTTCATCTTCTTAAAACATTTTATC
1 ATTTCATCTTCTTAAAACATTTTATC
15882344 TTATAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.49
Consensus pattern (26 bp):
ATTTCATCTTCTTAAAACATTTTATC
Found at i:15890190 original size:43 final size:43
Alignment explanation
Indices: 15890129--15890211 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
15890119 GAAGTCAAGA
15890129 GACTCTAAAATACTGTCAGACACAACACGTTCAACTCTAAAGG
1 GACTCTAAAATACTGTCAGACACAACACGTTCAACTCTAAAGG
**
15890172 GACTCTAAAATACTGTCAGACACAAGGCGTTCAACTCTAA
1 GACTCTAAAATACTGTCAGACACAACACGTTCAACTCTAA
15890212 CTTTTGAGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.22
Consensus pattern (43 bp):
GACTCTAAAATACTGTCAGACACAACACGTTCAACTCTAAAGG
Found at i:15897158 original size:15 final size:15
Alignment explanation
Indices: 15897138--15897175 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
15897128 GAAATGAGAA
15897138 AAATTAA-AAGATAAT
1 AAATTAATAAG-TAAT
15897153 AAATTAATAAGTAAT
1 AAATTAATAAGTAAT
15897168 AAA-TAATA
1 AAATTAATA
15897176 TCATTTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.23
15 14 0.64
16 3 0.14
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAATTAATAAGTAAT
Found at i:15917507 original size:24 final size:23
Alignment explanation
Indices: 15917453--15917512 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
15917443 TGGTAAAATT
*
15917453 AAAATATTTTAT-TA-TTGTATA
1 AAAATATTTTATAAATTTGTATA
*
15917474 AAAATCTTTTATAAATTTGTATA
1 AAAATATTTTATAAATTTGTATA
*
15917497 AAAATAATTTTTTAAA
1 AAAAT-ATTTTATAAA
15917513 CTCAAATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 11 0.34
22 1 0.03
23 12 0.38
24 8 0.25
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (23 bp):
AAAATATTTTATAAATTTGTATA
Found at i:15918967 original size:18 final size:18
Alignment explanation
Indices: 15918940--15918979 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15918930 AAAATTACTT
* *
15918940 TTTTTTAAAATATAATTA
1 TTTTTCAAAAAATAATTA
*
15918958 TTTTTCAAAAAATGATTA
1 TTTTTCAAAAAATAATTA
15918976 TTTT
1 TTTT
15918980 GTTTCAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTTTCAAAAAATAATTA
Found at i:15919016 original size:14 final size:15
Alignment explanation
Indices: 15918992--15919030 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
15918982 TTCAATTTAT
15918992 ATATATATTTTAA-AA
1 ATAT-TATTTTAAGAA
15919007 ATATTATTTTAAGAA
1 ATATTATTTTAAGAA
15919022 A-ATTATTTT
1 ATATTATTTT
15919031 CCACTCATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 16 0.70
15 7 0.30
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (15 bp):
ATATTATTTTAAGAA
Found at i:15922069 original size:7 final size:7
Alignment explanation
Indices: 15922057--15922087 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
15922047 AAAATTAATT
15922057 AAAAACA
1 AAAAACA
15922064 AAAAACA
1 AAAAACA
*
15922071 AAAAAAA
1 AAAAACA
15922078 AAAAACA
1 AAAAACA
15922085 AAA
1 AAA
15922088 GCTACAGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAACA
Found at i:15929507 original size:48 final size:47
Alignment explanation
Indices: 15929314--15929528 Score: 162
Period size: 48 Copynumber: 4.6 Consensus size: 47
15929304 TTATTTGTGT
* * * * *
15929314 GCTAGTGTAAGA-TATGTTTGGGACAT-GCACCGGCCACATTATCAGA
1 GCTAGTGTAAGACTATGTCTGGGACATGGCATCGGACACAAT-TGAGA
*
15929360 GCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGG-CTACAA--GATGT
1 GCTAGTGTAAGACTATGTCTGGGACATGGCATCGGAC-ACAATTGA-GA
* ** * *
15929404 GTTAGTGTAAGACTATGTCCAGGACATGGCATC-GACACGTATAGAG-
1 GCTAGTGTAAGACTATGTCTGGGACATGGCATCGGACAC-AATTGAGA
* *
15929450 GTGTCAGTGTAAGACTATGTCTGGGACATGGCATCTG-CACGAATGTGAGA
1 G-CT-AGTGTAAGACTATGTCTGGGACATGGCATCGGACAC-AAT-TGAGA
*
15929500 GCTAGTGTAAGACCATGTCTGGGACATGG
1 GCTAGTGTAAGACTATGTCTGGGACATGG
15929529 TGTTGGCCTC
Statistics
Matches: 139, Mismatches: 16, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
43 1 0.01
44 13 0.09
45 15 0.11
46 41 0.29
47 2 0.01
48 61 0.44
49 5 0.04
50 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACTATGTCTGGGACATGGCATCGGACACAATTGAGA
Found at i:15946388 original size:34 final size:35
Alignment explanation
Indices: 15946271--15946389 Score: 115
Period size: 34 Copynumber: 3.5 Consensus size: 35
15946261 CTAATACTCG
*
15946271 ATAAGCATGA-ATTTTGCTA-TCGTATTGATATGTT
1 ATAAGCATGACATATTGCTACT-GTATTGATATGTT
* * *
15946305 ATAAGCAT-ATC-TACTGCTACTGTACTGATCTGTT
1 ATAAGCATGA-CATATTGCTACTGTATTGATATGTT
* **
15946339 ATTAGCATG-TTTATTGCTACTGTATTGATATG-T
1 ATAAGCATGACATATTGCTACTGTATTGATATGTT
15946372 ATAAGCATGACATATTGC
1 ATAAGCATGACATATTGC
15946390 ACTACATGGG
Statistics
Matches: 67, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
33 10 0.15
34 56 0.84
35 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (35 bp):
ATAAGCATGACATATTGCTACTGTATTGATATGTT
Found at i:15946513 original size:45 final size:45
Alignment explanation
Indices: 15946448--15946617 Score: 234
Period size: 45 Copynumber: 3.8 Consensus size: 45
15946438 TTGTAGCTTG
*
15946448 TCTGCACCGATTAGTGGTTTATCCATATCGTATTAGCATCTTTTA
1 TCTGCACCGATTAGTGGTTTATCCATACCGTATTAGCATCTTTTA
* * * *
15946493 TCTGCACCGATTACTAGTTTATCCACACCGTATTAGCAACTTTTA
1 TCTGCACCGATTAGTGGTTTATCCATACCGTATTAGCATCTTTTA
** *
15946538 TCTGCATTGATTAGTGGTTTATCCATATCGTATTAGCAGT-TTTTA
1 TCTGCACCGATTAGTGGTTTATCCATACCGTATTAGCA-TCTTTTA
* *
15946583 TTTGCACCGATTAGTGGTTTATCCCTACCGTATTA
1 TCTGCACCGATTAGTGGTTTATCCATACCGTATTA
15946618 TGGAGGTTAC
Statistics
Matches: 107, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 107 1.00
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (45 bp):
TCTGCACCGATTAGTGGTTTATCCATACCGTATTAGCATCTTTTA
Found at i:15946538 original size:24 final size:24
Alignment explanation
Indices: 15946465--15946539 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
15946455 CGATTAGTGG
* * *
15946465 TTTATCCATATCGTATTAGCATCT
1 TTTATCCACACCGTATTAGCAACT
** * *
15946489 TTTATCTGCACCG-ATTA-CTA-G
1 TTTATCCACACCGTATTAGCAACT
15946510 TTTATCCACACCGTATTAGCAACT
1 TTTATCCACACCGTATTAGCAACT
15946534 TTTATC
1 TTTATC
15946540 TGCATTGATT
Statistics
Matches: 37, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
21 11 0.30
22 5 0.14
23 6 0.16
24 15 0.41
ACGTcount: A:0.25, C:0.24, G:0.09, T:0.41
Consensus pattern (24 bp):
TTTATCCACACCGTATTAGCAACT
Found at i:15952285 original size:17 final size:17
Alignment explanation
Indices: 15952244--15952285 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
15952234 AATAAACAAT
*
15952244 GTAAGCTATAAAGCTTA
1 GTAAGCTCTAAAGCTTA
15952261 GTAAGCTCTAAAGCTTA
1 GTAAGCTCTAAAGCTTA
15952278 GTAAGCTC
1 GTAAGCTC
15952286 GTATGAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (17 bp):
GTAAGCTCTAAAGCTTA
Found at i:15990602 original size:18 final size:18
Alignment explanation
Indices: 15990579--15990620 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
15990569 TAACAATGTG
15990579 GAGTTAATAATAATCTTA
1 GAGTTAATAATAATCTTA
15990597 GAGTTAATAATAATCTTA
1 GAGTTAATAATAATCTTA
15990615 GA-TTAA
1 GAGTTAA
15990621 GTCCACGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (18 bp):
GAGTTAATAATAATCTTA
Found at i:15993558 original size:51 final size:51
Alignment explanation
Indices: 15993498--15993703 Score: 342
Period size: 51 Copynumber: 4.0 Consensus size: 51
15993488 TTCCGGTTAA
* *
15993498 ACTTTGTGAATATAATAGCTTT-GAGCACAAGCGTGGTACTATGTGAAGGCC
1 ACTTTGTGAATAAAATAGCTTTGGA-CACAAGTGTGGTACTATGTGAAGGCC
*
15993549 ACTTTGTGAATAGAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCC
1 ACTTTGTGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCC
*
15993600 ACTTTGTGAATAAAATAGCTTTGGACACAAGTGTGGTCCTATGTGAAGGCC
1 ACTTTGTGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCC
* *
15993651 ACTTTGTGAATAAAATAGCTTTGGATACAAGGGTGGTACTATGTGAAGGCC
1 ACTTTGTGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCC
15993702 AC
1 AC
15993704 CGTGTATCAG
Statistics
Matches: 147, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
51 145 0.99
52 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (51 bp):
ACTTTGTGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCC
Found at i:15995344 original size:15 final size:15
Alignment explanation
Indices: 15995324--15995353 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15995314 ATTATGAAAG
15995324 ATATGTTTTGGATTA
1 ATATGTTTTGGATTA
*
15995339 ATATGTTTTGTATTA
1 ATATGTTTTGGATTA
15995354 GAATTTTTGA
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:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (15 bp):
ATATGTTTTGGATTA
Found at i:15995961 original size:56 final size:56
Alignment explanation
Indices: 15995897--15996089 Score: 242
Period size: 56 Copynumber: 3.4 Consensus size: 56
15995887 GACCATGGCA
* * * *
15995897 TCGATATATGTGTGCGAGTAAGACCACATTGAATACGTTAGCATCGATATGTGATT
1 TCGATATACGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
* * * * *
15995953 CCGATATATGTGTGCGAGTAAGACCATGTTTAATATGTTGGCATCGATATATGATT
1 TCGATATACGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
* * * *
15996009 TCAATATACGTGTGTGAGTAAGACCACGTTTAATGCATTGGCATCGATATGTGATT
1 TCGATATACGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
* * *
15996065 TTGATTTACGAGTGCGAGTAAGACC
1 TCGATATACGTGTGCGAGTAAGACC
15996090 CTGTCTGGGG
Statistics
Matches: 116, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 116 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (56 bp):
TCGATATACGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
Found at i:16002291 original size:110 final size:110
Alignment explanation
Indices: 16002098--16002322 Score: 432
Period size: 110 Copynumber: 2.0 Consensus size: 110
16002088 TGAACAAATA
16002098 CATGGATGTTTTATTATAATACATATTATTTTACATTTTACTAATTTAACCTTTATAATATAATT
1 CATGGATGTTTTATTATAATACATATTATTTTACATTTTACTAATTTAACCTTTATAATATAATT
* *
16002163 AGAAAATCATATAATGGTTGTTTTTTACTGTTCATCATATTATAT
66 AGAAAATCATATAATGGTTGTTTTTTACTATCCATCATATTATAT
16002208 CATGGATGTTTTATTATAATACATATTATTTTACATTTTACTAATTTAACCTTTATAATATAATT
1 CATGGATGTTTTATTATAATACATATTATTTTACATTTTACTAATTTAACCTTTATAATATAATT
16002273 AGAAAATCATATAATGGTTGTTTTTTACTATCCATCATATTATAT
66 AGAAAATCATATAATGGTTGTTTTTTACTATCCATCATATTATAT
16002318 CATGG
1 CATGG
16002323 GCAAGTTTCA
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 113 1.00
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.48
Consensus pattern (110 bp):
CATGGATGTTTTATTATAATACATATTATTTTACATTTTACTAATTTAACCTTTATAATATAATT
AGAAAATCATATAATGGTTGTTTTTTACTATCCATCATATTATAT
Found at i:16003237 original size:17 final size:17
Alignment explanation
Indices: 16003215--16003248 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
16003205 AGACTTAACC
*
16003215 CTTTATCACCATTTCAA
1 CTTTATCACCAGTTCAA
16003232 CTTTATCACCAGTTCAA
1 CTTTATCACCAGTTCAA
16003249 GCATGTATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.38
Consensus pattern (17 bp):
CTTTATCACCAGTTCAA
Found at i:16004548 original size:74 final size:74
Alignment explanation
Indices: 16004393--16004537 Score: 209
Period size: 74 Copynumber: 2.0 Consensus size: 74
16004383 TGTTACACAG
* * *
16004393 GTCGTGTGCGATGCGTAGGGGTGAAGGTGCAAGGGCCACACGGCCATGTGACTAGCCCCTGTGTA
1 GTCGTGTGCGATGCGTAAGGGTGAAGGTGCAAGGGCCACACAGCCATGTGACAAGCCCCTGTGTA
16004458 AAGCCCTAA
66 AAGCCCTAA
* * * * * *
16004467 GTCGTGTGTGATGTGTAAGGTTGAAGGTGCAAGGGCCACACAGTCGTGTGACAAGCCCGTGTGTA
1 GTCGTGTGCGATGCGTAAGGGTGAAGGTGCAAGGGCCACACAGCCATGTGACAAGCCCCTGTGTA
16004532 AAGCCC
66 AAGCCC
16004538 CTGGCTGTGT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
74 62 1.00
ACGTcount: A:0.22, C:0.22, G:0.35, T:0.21
Consensus pattern (74 bp):
GTCGTGTGCGATGCGTAAGGGTGAAGGTGCAAGGGCCACACAGCCATGTGACAAGCCCCTGTGTA
AAGCCCTAA
Found at i:16008772 original size:18 final size:17
Alignment explanation
Indices: 16008729--16008773 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
16008719 GAATTTTTTT
16008729 AAATTAAAATTTTCAAA
1 AAATTAAAATTTTCAAA
* *
16008746 ATATCTAAAATTTATTAAA
1 AAAT-TAAAATTT-TCAAA
16008765 AAATTAAAA
1 AAATTAAAA
16008774 AGGTTACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 3 0.13
18 13 0.57
19 7 0.30
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATTAAAATTTTCAAA
Found at i:16011470 original size:29 final size:29
Alignment explanation
Indices: 16011438--16011496 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
16011428 TATGAAAATT
16011438 TTTGTGACTAACATGTTTGATTGAATGCA
1 TTTGTGACTAACATGTTTGATTGAATGCA
16011467 TTTGTGACTAACATGTTTGATTGAATGCA
1 TTTGTGACTAACATGTTTGATTGAATGCA
16011496 T
1 T
16011497 GTGTTTCGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.42
Consensus pattern (29 bp):
TTTGTGACTAACATGTTTGATTGAATGCA
Found at i:16014653 original size:49 final size:49
Alignment explanation
Indices: 16014344--16014703 Score: 182
Period size: 46 Copynumber: 7.6 Consensus size: 49
16014334 TATGTGTTCT
* * * * *
16014344 AGTGTAAAACATGTCTGGGACAT-GCATCGGC-C-ACAT-TATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACTA-ATAGATGAAAGCC
* * * * * *
16014390 AATGTAAGACATGTCTGGGACAT-GCATCGGCA-T--TGAGACGAGAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACTAAT-AGATGAAAGCC
* * * * *
16014436 AGTGTAAGACATGTCTGGGATAT-GCATCGGC-CTTA-AGATATACAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACTAATAGAT-GA-AAGCC
* * * ***
16014484 AGTGTAAGACCTGTCTGGGACATGGC-GCCA-ACT--T-GTTGTGTGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACTAATAGATGAAAGCC
* * *
16014528 AGTGTAAGACCTGTCTGGGACATGGCATCAACACTGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACTAATAGATGAAAGCC
* ** * * * *
16014577 AATGTAAGACCTACCTGGGACACGGCATCGGC-CTCAATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACT-AATAGATGAAAGCC
* * ** * **
16014626 AGTGTAAGACCTGTCTAGAACATGGCATCGACTTTGAT-G-TGCTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACTAATAGATGAAAGCC
16014673 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACC-TGTCTGGGACATGGCATCG
16014704 GCATCTTATC
Statistics
Matches: 243, Mismatches: 51, Indels: 38
0.73 0.15 0.11
Matches are distributed among these distances:
44 30 0.12
45 2 0.01
46 74 0.30
47 17 0.07
48 47 0.19
49 72 0.30
50 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACACTAATAGATGAAAGCC
Found at i:16020121 original size:18 final size:18
Alignment explanation
Indices: 16020107--16020142 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
16020097 GTACCAAATG
16020107 ACCAAATTTTACCAAAAA
1 ACCAAATTTTACCAAAAA
16020125 ACCAAATTTTACCAAAAA
1 ACCAAATTTTACCAAAAA
16020143 TAGTGTTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (18 bp):
ACCAAATTTTACCAAAAA
Found at i:16022757 original size:15 final size:15
Alignment explanation
Indices: 16022737--16022766 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16022727 CAACACTTGT
16022737 GCCGAAACCACAAAA
1 GCCGAAACCACAAAA
*
16022752 GCCGAAACCTCAAAA
1 GCCGAAACCACAAAA
16022767 AATACATTAG
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:0.50, C:0.33, G:0.13, T:0.03
Consensus pattern (15 bp):
GCCGAAACCACAAAA
Found at i:16037813 original size:48 final size:48
Alignment explanation
Indices: 16037746--16037973 Score: 252
Period size: 48 Copynumber: 4.9 Consensus size: 48
16037736 AACATAGTAG
* * *
16037746 GATGCCAATCCCATATCCCAGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * *
16037794 GATGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGATCATAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * *
16037842 GATACCAATGCCATGTCCCAGACATGGTCTTACATGGCATCTCATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * * ** *
16037890 GATGCCGAT---A-G-CCTAG-CTATGGTCTTACACGAAATTACATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
* *
16037933 GATGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
16037974 GTTCATAACC
Statistics
Matches: 147, Mismatches: 26, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
42 1 0.01
43 31 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 110 0.75
49 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:16050334 original size:19 final size:17
Alignment explanation
Indices: 16050310--16050354 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
16050300 TGAAGAATTA
16050310 ATTATAAATATAACAGTTT
1 ATTATAAA-ATAA-AGTTT
*
16050329 ATTATAAAATAAATTTT
1 ATTATAAAATAAAGTTT
*
16050346 AATATAAAA
1 ATTATAAAA
16050355 AAGAAGTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 12 0.50
18 4 0.17
19 8 0.33
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
ATTATAAAATAAAGTTT
Found at i:16054566 original size:50 final size:50
Alignment explanation
Indices: 16054491--16054590 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
16054481 ACAAGTGGAT
*
16054491 GGGACCTGGCTATATGGAAAATATACACAGATCTTACTTCTTGCGGTTGC
1 GGGACCTGGCTATATGGAAAATATACACAGATCTTACTTCTTACGGTTGC
*
16054541 GGGACCTGGCTATATGGAAAATATACACAGATTTTACTTCTTACGGTTGC
1 GGGACCTGGCTATATGGAAAATATACACAGATCTTACTTCTTACGGTTGC
16054591 TCAAGACGGC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (50 bp):
GGGACCTGGCTATATGGAAAATATACACAGATCTTACTTCTTACGGTTGC
Found at i:16056330 original size:33 final size:33
Alignment explanation
Indices: 16056288--16056368 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 33
16056278 GGGAATGGAG
* * *
16056288 TACTACGGTGGATACGGGCCGGGGGTAGTGCTA
1 TACTGCGGTGGATACGGGCCGGGAGAAGTGCTA
* * *
16056321 TACTGCGGTGGATATGGGCCGGGAGAAGTGTTG
1 TACTGCGGTGGATACGGGCCGGGAGAAGTGCTA
*
16056354 TGCTGCGGTGGATAC
1 TACTGCGGTGGATAC
16056369 AACCCAAAGA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.17, C:0.16, G:0.43, T:0.23
Consensus pattern (33 bp):
TACTGCGGTGGATACGGGCCGGGAGAAGTGCTA
Found at i:16058815 original size:138 final size:143
Alignment explanation
Indices: 16058542--16059293 Score: 892
Period size: 138 Copynumber: 5.2 Consensus size: 143
16058532 TATTTTTAAA
* * * *
16058542 ATTTTTAAAATTTTCAGATCTTATTTTTTAAAATATATTATTTTCTTATTTTA-TTTTTATATTA
1 ATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
16058606 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCC
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTA--G----TTATATT-ATTTA-TAAATAACCC
16058671 TGATTTTGGCCCTTTGTTTGT
123 TGATTTTGGCCCTTTGTTTGT
* *
16058692 ATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTCCGTATTTTATTTTTTATCTTA
1 ATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
* * *
16058757 TTTTATTAAATAATGTTTCAAATGTA-TATTTTAG-TAT-TT-TTT-TAAATAACCCTAATTTTG
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTATATTATTTATAAATAACCCTGATTTTG
* *
16058817 GCTCTTCGTTTGT
131 GCCCTTTGTTTGT
** *
16058830 ATATTTT-AAATTTTAAGATTTTATTTTTAAAAATATACTATTTTCG-----TATTTTTTATATT
1 AT-TTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATT
*
16058889 AATTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAATAACCC
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAG-----TTATATT-ATTTA-TAAATAACCC
*
16058954 TGATTTTGGCCATTTGTTTGT
123 TGATTTTGGCCCTTTGTTTGT
* * *
16058975 ATTTTTAAAATTTTCAGATTTTATTTTTTAAAATATACTATTTTCTTATTTTATTTTTTTATCTT
1 ATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATT
* *
16059040 ATTTTAGTACATAATGTTTCAAATATATTATTTTAG---TGTT-TTT-TAAATAACCCTGATTTT
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTATATTATTTATAAATAACCCTGATTTT
*
16059100 GGCCATTTGTTTGT
130 GGCCCTTTGTTTGT
* * *
16059114 AATTTTAAAATTTTTGGATTTTATTTTTTAAAATATATTATTTT-GTATTTTATTTTTTATATTA
1 ATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
*
16059178 TTTTAGTACATAATGTTTTCAAATGTATTGTTTTAGTGTTTTTTTATATTAATTTAGTAAATAAC
66 TTTTAGTACATAATG-TTTCAAATGTATTATTTTA--G-----TTATATT-ATTTA-TAAATAAC
16059243 CCTGATTTTGGCCCTTTGTTTGT
121 CCTGATTTTGGCCCTTTGTTTGT
*
16059266 ATTTTTAAAATTTTTGGATTTTATTTTT
1 ATTTTTAAAATTTTCGGATTTTATTTTT
16059294 ATATTATTTT
Statistics
Matches: 525, Mismatches: 41, Indels: 70
0.83 0.06 0.11
Matches are distributed among these distances:
133 36 0.07
134 8 0.02
137 26 0.05
138 89 0.17
139 75 0.14
140 7 0.01
141 5 0.01
142 2 0.00
143 9 0.02
144 4 0.01
145 65 0.12
148 4 0.01
150 60 0.11
151 78 0.15
152 57 0.11
ACGTcount: A:0.28, C:0.07, G:0.08, T:0.57
Consensus pattern (143 bp):
ATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTATATTATTTATAAATAACCCTGATTTTG
GCCCTTTGTTTGT
Found at i:16058978 original size:283 final size:284
Alignment explanation
Indices: 16058544--16059293 Score: 1141
Period size: 284 Copynumber: 2.6 Consensus size: 284
16058534 TTTTTAAAAT
* * *
16058544 TTTTAAAATTTTCAGATCTTATTTTTTAAAATATATTATTTTCTTATTTTATTTTTATATTATTT
1 TTTTAAAATTTTAAGATTTTATTTTTTAAAATATATTATTTTCGTA---T-TTTTTATATTATTT
16058609 TAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCCTGA
62 TAGTACATAATGTTTCAAATGTATTATTTTAGT-TTTTTTATATTAATTTAGTAAATAACCCTGA
16058674 TTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTCCGT
126 TTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTCCGT
* * *
16058739 ATTTTA-TTTTTTATCTTATTTTATTAAATAATGTTTCAAATGTA-TATTTTAGTATTTTTTTAA
191 ATTTTATTTTTTTATCTTATTTTAGTAAATAATGTTTCAAATATATTATTTTAGT-GTTTTTTAA
16058802 ATAACCCTAATTTTGGCTC-TTCGTTTGTATA
255 ATAACCCTAATTTTGGC-CATTCGTTTGTA-A
* * *
16058833 TTTT-AAATTTTAAGATTTTATTTTTAAAAATATACTATTTTCGTATTTTTTATATTAATTTAGT
1 TTTTAAAATTTTAAGATTTTATTTTTTAAAATATATTATTTTCGTATTTTTTATATTATTTTAGT
16058897 ACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAATAACCCTGATTTTG
66 ACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAATAACCCTGATTTTG
* * * *
16058962 GCCATTTGTTTGTATTTTTAAAATTTTCAGATTTTATTTTTTAAAATATACTATTTTCTTATTTT
131 GCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTCCGTATTTT
*
16059027 ATTTTTTTATCTTATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTAAATAACC
196 ATTTTTTTATCTTATTTTAGTAAATAATGTTTCAAATATATTATTTTAGTGTTTTTTAAATAACC
* *
16059092 CTGATTTTGGCCATTTGTTTGTAA
261 CTAATTTTGGCCATTCGTTTGTAA
**
16059116 TTTTAAAATTTTTGGATTTTATTTTTTAAAATATATTATTTT-GTATTTTATTTTTTATATTATT
1 TTTTAAAATTTTAAGATTTTATTTTTTAAAATATATTATTTTCG-----TATTTTTTATATTATT
*
16059180 TTAGTACATAATGTTTTCAAATGTATTGTTTTAGTGTTTTTTTATATTAATTTAGTAAATAACCC
61 TTAGTACATAATG-TTTCAAATGTATTATTTTA--GTTTTTTTATATTAATTTAGTAAATAACCC
*
16059245 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTT
123 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTT
16059294 ATATTATTTT
Statistics
Matches: 424, Mismatches: 25, Indels: 22
0.90 0.05 0.05
Matches are distributed among these distances:
283 105 0.25
284 147 0.35
285 10 0.02
288 64 0.15
289 22 0.05
291 76 0.18
ACGTcount: A:0.28, C:0.07, G:0.08, T:0.57
Consensus pattern (284 bp):
TTTTAAAATTTTAAGATTTTATTTTTTAAAATATATTATTTTCGTATTTTTTATATTATTTTAGT
ACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAATAACCCTGATTTTG
GCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTCCGTATTTT
ATTTTTTTATCTTATTTTAGTAAATAATGTTTCAAATATATTATTTTAGTGTTTTTTAAATAACC
CTAATTTTGGCCATTCGTTTGTAA
Found at i:16059168 original size:12 final size:12
Alignment explanation
Indices: 16059147--16059181 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
16059137 TTTTTTAAAA
16059147 TATATTATTTTG
1 TATATTATTTTG
* *
16059159 TATTTTATTTTT
1 TATATTATTTTG
16059171 TATATTATTTT
1 TATATTATTTT
16059182 AGTACATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (12 bp):
TATATTATTTTG
Found at i:16059378 original size:120 final size:122
Alignment explanation
Indices: 16059153--16059413 Score: 418
Period size: 120 Copynumber: 2.1 Consensus size: 122
16059143 AAAATATATT
* * * *
16059153 ATTTTGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTTCAAATGTATTGTTTTAGTGTT
1 ATTTTGGATTTTA-TTTTTATATTATTTTAGTACAAAATGTTTTCAAATATATTATTTTAGTGTT
* *
16059218 TTTTTATATTAATTTAGTAAATAACCCTGATTTTGGCCCTTTGTTTGTATTTTTAAAA
65 TTTTTATATTAATTTAGTAAATAACCCTAATTTTGGCCCTTTGTTTGTACTTTTAAAA
*
16059276 TTTTTGGATTTTATTTTTATATTATTTTAGTACAAAATG-TTTCAAATATATTATTTTAGTG-TT
1 ATTTTGGATTTTATTTTTATATTATTTTAGTACAAAATGTTTTCAAATATATTATTTTAGTGTTT
*
16059339 TTTTATATTAATTTAGTAAATAACCCTAATTTTGTCCCTTTGTTTGTACTTTTAAAA
66 TTTTATATTAATTTAGTAAATAACCCTAATTTTGGCCCTTTGTTTGTACTTTTAAAA
*
16059396 ATTTTAGATTTTATTTTT
1 ATTTTGGATTTTATTTTT
16059414 TAAAATATAC
Statistics
Matches: 128, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
120 72 0.56
121 20 0.16
122 25 0.20
123 11 0.09
ACGTcount: A:0.27, C:0.07, G:0.09, T:0.57
Consensus pattern (122 bp):
ATTTTGGATTTTATTTTTATATTATTTTAGTACAAAATGTTTTCAAATATATTATTTTAGTGTTT
TTTTATATTAATTTAGTAAATAACCCTAATTTTGGCCCTTTGTTTGTACTTTTAAAA
Found at i:16059521 original size:17 final size:16
Alignment explanation
Indices: 16059486--16059561 Score: 82
Period size: 16 Copynumber: 4.7 Consensus size: 16
16059476 TTCCCCAAAA
16059486 ATTTTATTTTTTTCAT
1 ATTTTATTTTTTTCAT
*
16059502 ATTTTATTTCTTTTCGT
1 ATTTTATTT-TTTTCAT
16059519 ATTTTA-TTTTTTCATT
1 ATTTTATTTTTTTCA-T
*** *
16059535 AAGATATTTTTTTAAT
1 ATTTTATTTTTTTCAT
16059551 ATTTTATTTTT
1 ATTTTATTTTT
16059562 ATACTATTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
15 5 0.10
16 24 0.50
17 19 0.40
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (16 bp):
ATTTTATTTTTTTCAT
Found at i:16060065 original size:19 final size:16
Alignment explanation
Indices: 16060041--16060115 Score: 64
Period size: 17 Copynumber: 4.4 Consensus size: 16
16060031 CTGCTTCTCC
16060041 TTCTTCTCCTTCTCTACTT
1 TTCTTCT-CTTCT-T-CTT
16060060 TTCTTCTTCTTCTT-TT
1 TTCTTC-TCTTCTTCTT
16060076 CTTCTTCTCTTCTTTCTT
1 -TTCTTCTCTTC-TTCTT
*
16060094 TTCTTCTTCTCCTTC-T
1 TTCTTC-TCTTCTTCTT
16060110 TTCTTC
1 TTCTTC
16060116 CCAAAATGAG
Statistics
Matches: 50, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
16 14 0.28
17 17 0.34
18 7 0.14
19 11 0.22
20 1 0.02
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.65
Consensus pattern (16 bp):
TTCTTCTCTTCTTCTT
Found at i:16060066 original size:3 final size:3
Alignment explanation
Indices: 16060034--16060115 Score: 75
Period size: 3 Copynumber: 28.3 Consensus size: 3
16060024 ATGCTGCCTG
* * *
16060034 CTT CTC CTT CTT CTC CTT C-T CTA CTT -TT CTT CTT CTT CTT -TT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
*
16060079 CTT C-T CTT CTTT CTT -TT CTT CTT CTC CTT CTTT CTT C
1 CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT C-TT CTT C
16060116 CCAAAATGAG
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
2 10 0.16
3 48 0.75
4 6 0.09
ACGTcount: A:0.01, C:0.35, G:0.00, T:0.63
Consensus pattern (3 bp):
CTT
Found at i:16060068 original size:22 final size:22
Alignment explanation
Indices: 16060034--16060110 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 22
16060024 ATGCTGCCTG
16060034 CTTCTCCTTCTTCTCCTTCTCTA
1 CTTCT-CTTCTTCTCCTTCTCTA
* * * *
16060057 CTTTTCTTCTTCTTCTTTTCTT
1 CTTCTCTTCTTCTCCTTCTCTA
* *
16060079 CTTCTCTTCTT-T-CTTTTCTT
1 CTTCTCTTCTTCTCCTTCTCTA
16060099 CTTCTCCTTCTT
1 CTTCT-CTTCTT
16060111 TCTTCCCAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 13 0.27
21 7 0.15
22 24 0.50
23 4 0.08
ACGTcount: A:0.01, C:0.35, G:0.00, T:0.64
Consensus pattern (22 bp):
CTTCTCTTCTTCTCCTTCTCTA
Found at i:16060079 original size:8 final size:8
Alignment explanation
Indices: 16060057--16060115 Score: 50
Period size: 8 Copynumber: 7.1 Consensus size: 8
16060047 TCCTTCTCTA
16060057 CTTTTCTT
1 CTTTTCTT
16060065 CTTCTTCTT
1 CTT-TTCTT
16060074 -TTCTTCTT
1 CTT-TTCTT
*
16060082 CTCTTCTTT
1 CTTTTC-TT
16060091 CTTTTCTT
1 CTTTTCTT
*
16060099 CTTCTCCTT
1 CTT-TTCTT
16060108 C-TTTCTT
1 CTTTTCTT
16060115 C
1 C
16060116 CCAAAATGAG
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
7 5 0.12
8 20 0.47
9 18 0.42
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (8 bp):
CTTTTCTT
Found at i:16060092 original size:20 final size:20
Alignment explanation
Indices: 16060064--16060114 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 20
16060054 CTACTTTTCT
16060064 TCTTC-TTCTTTTCTTCTTC
1 TCTTCTTTCTTTTCTTCTTC
16060083 TCTTCTTTCTTTTCTTCTTC
1 TCTTCTTTCTTTTCTTCTTC
16060103 TCCTTCTTTCTT
1 T-CTTCTTTCTT
16060115 CCCAAAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 5 0.17
20 15 0.50
21 10 0.33
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (20 bp):
TCTTCTTTCTTTTCTTCTTC
Found at i:16062651 original size:21 final size:21
Alignment explanation
Indices: 16062626--16062717 Score: 61
Period size: 21 Copynumber: 4.4 Consensus size: 21
16062616 AAAGATATAT
*
16062626 AAATGTATATATAAATAATAA
1 AAATGTATATAAAAATAATAA
16062647 AAATG-AT-T-AAAATAA-AA
1 AAATGTATATAAAAATAATAA
*
16062664 AGAAAGTATA-AAAAATCAAATATA
1 A-AATGTATATAAAAAT--AATA-A
* *
16062688 AAATATATATACAAAATAAT-T
1 AAATGTATATA-AAAATAATAA
16062709 AAATGTATA
1 AAATGTATA
16062718 AAATTTAGAA
Statistics
Matches: 55, Mismatches: 6, Indels: 20
0.68 0.07 0.25
Matches are distributed among these distances:
17 3 0.05
18 9 0.16
19 3 0.05
20 7 0.13
21 13 0.24
22 2 0.04
23 10 0.18
24 3 0.05
25 5 0.09
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.28
Consensus pattern (21 bp):
AAATGTATATAAAAATAATAA
Found at i:16062992 original size:18 final size:17
Alignment explanation
Indices: 16062964--16062997 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
16062954 TATATTTTTC
16062964 TAATTTTTTTATATATT
1 TAATTTTTTTATATATT
16062981 TAATTATTTTTATATAT
1 TAATT-TTTTTATATAT
16062998 GTTTTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TAATTTTTTTATATATT
Found at i:16063003 original size:21 final size:20
Alignment explanation
Indices: 16062949--16063015 Score: 72
Period size: 21 Copynumber: 3.5 Consensus size: 20
16062939 GTAATTTAGA
16062949 TTTTATATATTTTTCTAATT-T
1 TTTTATATA-TTTT-TAATTAT
16062970 TTTTATATA--TTTAATTAT
1 TTTTATATATTTTTAATTAT
16062988 TTTTATATATGTTTTAA--AT
1 TTTTATATAT-TTTTAATTAT
16063007 TTTTATATA
1 TTTTATATA
16063016 CGATTTTGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
17 5 0.12
18 12 0.29
19 11 0.26
21 14 0.33
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (20 bp):
TTTTATATATTTTTAATTAT
Found at i:16063008 original size:19 final size:18
Alignment explanation
Indices: 16062949--16063015 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 18
16062939 GTAATTTAGA
*
16062949 TTTTATATATTTTTCTAAT
1 TTTTATATATTTTT-AAAT
* *
16062968 TTTTTTATATATTTAATTAT
1 TTTTATATATTTTTAA--AT
16062988 TTTTATATATGTTTTAAAT
1 TTTTATATAT-TTTTAAAT
16063007 TTTTATATA
1 TTTTATATA
16063016 CGATTTTGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 1 0.03
19 23 0.57
20 11 0.28
21 5 0.12
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (18 bp):
TTTTATATATTTTTAAAT
Found at i:16070274 original size:40 final size:40
Alignment explanation
Indices: 16070218--16070362 Score: 146
Period size: 40 Copynumber: 3.6 Consensus size: 40
16070208 TTACATACTA
* **
16070218 AAATGTATGTGCTTTCGAGCCATACATTCTAAATCTATTG
1 AAATGTATGTGCTTTCGAGCCATACATACTAAATCTACCG
* * * *
16070258 AAATGTATGCGTTTTCGAGCCATACCTACTGAATCTACCG
1 AAATGTATGTGCTTTCGAGCCATACATACTAAATCTACCG
* * * * * *
16070298 AAATGTATATGCTTTCGAGCCATTCCTATTGAATCTACCA
1 AAATGTATGTGCTTTCGAGCCATACATACTAAATCTACCG
* * *
16070338 AAAAGCATGTGCTTTCAAGCCATAC
1 AAATGTATGTGCTTTCGAGCCATAC
16070363 CTATTGAATC
Statistics
Matches: 87, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 87 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.32
Consensus pattern (40 bp):
AAATGTATGTGCTTTCGAGCCATACATACTAAATCTACCG
Found at i:16070366 original size:40 final size:40
Alignment explanation
Indices: 16070270--16070375 Score: 149
Period size: 40 Copynumber: 2.6 Consensus size: 40
16070260 ATGTATGCGT
* * * *
16070270 TTTCGAGCCATACCTACTGAATCTACCGAAATGTATATGC
1 TTTCGAGCCATACCTATTGAATCTACCAAAAAGCATATGC
* *
16070310 TTTCGAGCCATTCCTATTGAATCTACCAAAAAGCATGTGC
1 TTTCGAGCCATACCTATTGAATCTACCAAAAAGCATATGC
*
16070350 TTTCAAGCCATACCTATTGAATCTAC
1 TTTCGAGCCATACCTATTGAATCTAC
16070376 TAAAGTATAT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.31
Consensus pattern (40 bp):
TTTCGAGCCATACCTATTGAATCTACCAAAAAGCATATGC
Found at i:16070398 original size:40 final size:39
Alignment explanation
Indices: 16070270--16070409 Score: 147
Period size: 40 Copynumber: 3.5 Consensus size: 39
16070260 ATGTATGCGT
* *
16070270 TTTCGAGCCATACCTACTGAATCTACCGAAATGTATATGC
1 TTTCAAGCCATACCTACTGAATCTACCTAAA-GTATATGC
* * * * * *
16070310 TTTCGAGCCATTCCTATTGAATCTACCAAAAAGCATGTGC
1 TTTCAAGCCATACCTACTGAATCTACC-TAAAGTATATGC
*
16070350 TTTCAAGCCATACCTATTGAATCTA-CTAAAGTATATGC
1 TTTCAAGCCATACCTACTGAATCTACCTAAAGTATATGC
*
16070388 GATTTTAAGCCATACCTACTGA
1 --TTTCAAGCCATACCTACTGA
16070410 TTTTACTGAA
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
38 9 0.11
39 1 0.01
40 72 0.85
41 3 0.04
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (39 bp):
TTTCAAGCCATACCTACTGAATCTACCTAAAGTATATGC
Found at i:16074866 original size:16 final size:16
Alignment explanation
Indices: 16074845--16074876 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16074835 ATTGTTTCAA
16074845 TATAAATTAACCTATG
1 TATAAATTAACCTATG
*
16074861 TATAAATTAATCTATG
1 TATAAATTAACCTATG
16074877 CTATGATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (16 bp):
TATAAATTAACCTATG
Found at i:16078117 original size:14 final size:14
Alignment explanation
Indices: 16078100--16078126 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16078090 CGACCTAAAC
16078100 ATTATGACCAAATA
1 ATTATGACCAAATA
16078114 ATTATGACCAAAT
1 ATTATGACCAAAT
16078127 CTAGAGAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (14 bp):
ATTATGACCAAATA
Found at i:16081182 original size:16 final size:16
Alignment explanation
Indices: 16081161--16081192 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16081151 TTCACCCGTT
16081161 TGGGCCCACACGTCCA
1 TGGGCCCACACGTCCA
*
16081177 TGGGCCCACTCGTCCA
1 TGGGCCCACACGTCCA
16081193 CGAATCGCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.44, G:0.25, T:0.16
Consensus pattern (16 bp):
TGGGCCCACACGTCCA
Found at i:16103168 original size:40 final size:40
Alignment explanation
Indices: 16103016--16103239 Score: 263
Period size: 40 Copynumber: 5.6 Consensus size: 40
16103006 TATTCGAATG
* *
16103016 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCT-GTTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* * * * * *
16103056 ATAACCAGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
*
16103096 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
16103136 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* ** * *
16103176 ATATCCGGGCTAAGTCTTGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
16103216 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
16103240 CTTGCGCAAG
Statistics
Matches: 153, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 2 0.01
40 147 0.96
41 4 0.03
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:16105165 original size:28 final size:28
Alignment explanation
Indices: 16105100--16105250 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
16105090 GAGATTGGCG
* * * *
16105100 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
16105129 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
16105157 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
16105185 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
16105213 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
16105240 CTGAGTGTGCG
1 CTAAGTGTGCG
16105251 GACTTAATAT
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 24 0.21
28 76 0.66
29 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:16113398 original size:28 final size:28
Alignment explanation
Indices: 16113333--16113483 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
16113323 GAGATTGGCG
* * * *
16113333 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
16113362 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
16113390 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
16113418 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
16113446 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
16113473 CTGAGTGTGCG
1 CTAAGTGTGCG
16113484 GACTTAATAT
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 24 0.21
28 76 0.66
29 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:16122946 original size:40 final size:40
Alignment explanation
Indices: 16122852--16123076 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
16122842 TATTCGAATG
* *
16122852 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * * *
16122893 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* *
16122933 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
16122973 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
16123013 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
16123053 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
16123077 CTTGCGCAAG
Statistics
Matches: 159, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 129 0.81
41 29 0.18
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:16123032 original size:80 final size:80
Alignment explanation
Indices: 16122852--16123112 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 80
16122842 TATTCGAATG
* * * *
16122852 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
16122917 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
16122933 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
16122998 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * *
16123013 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * * *
16123078 TT-GCGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
16123092 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
16123113 ATTTCTTAAG
Statistics
Matches: 154, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
78 14 0.09
79 13 0.08
80 95 0.62
81 32 0.21
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:16128938 original size:11 final size:11
Alignment explanation
Indices: 16128918--16128948 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
16128908 TACATTGGGT
16128918 TTTC-TTTTTA
1 TTTCTTTTTTA
16128928 TTTCTTTTTTA
1 TTTCTTTTTTA
16128939 TTTCTTTTTT
1 TTTCTTTTTT
16128949 GAAAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTCTTTTTTA
Found at i:16133897 original size:8 final size:8
Alignment explanation
Indices: 16133871--16133927 Score: 62
Period size: 8 Copynumber: 7.1 Consensus size: 8
16133861 TTATTTCTTT
16133871 TATTATTA
1 TATTATTA
**
16133879 TAACA-TA
1 TATTATTA
16133886 TATTATTA
1 TATTATTA
16133894 TATTATTA
1 TATTATTA
*
16133902 AATTATTA
1 TATTATTA
*
16133910 AATTATTA
1 TATTATTA
16133918 TAATTATTA
1 T-ATTATTA
16133927 T
1 T
16133928 TTCTTAAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
7 5 0.12
8 28 0.68
9 8 0.20
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (8 bp):
TATTATTA
Found at i:16141216 original size:46 final size:45
Alignment explanation
Indices: 16141162--16141337 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
16141152 TGTTTGGGAA
16141162 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
16141208 TCCAAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
16141255 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
16141301 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16141338 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:16141320 original size:93 final size:93
Alignment explanation
Indices: 16141161--16141329 Score: 284
Period size: 93 Copynumber: 1.8 Consensus size: 93
16141151 ATGTTTGGGA
* * *
16141161 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCATTGAGTTG
16141226 AGTCCGAGTTCGAGAGATGTAACTAGGC
66 AGTCCGAGTTCGAGAGATGTAACTAGGC
* * *
16141254 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCATTGAGTTG
16141319 AGTCCGAGTTC
66 AGTCCGAGTTC
16141330 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCATTGAGTTG
AGTCCGAGTTCGAGAGATGTAACTAGGC
Found at i:16142948 original size:6 final size:6
Alignment explanation
Indices: 16142937--16142968 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
16142927 ACACCGTAGG
*
16142937 GTAACA GTAACA GTAACA GTAACA GTAGCA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GT
16142969 CATAGTCAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:16143835 original size:17 final size:19
Alignment explanation
Indices: 16143813--16143857 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
16143803 CAAATTTTCC
16143813 CTTTCCCTTTT-CTT-TTT
1 CTTTCCCTTTTCCTTCTTT
16143830 CTTTCCCTTTTTCCTTCTTT
1 CTTTCCC-TTTTCCTTCTTT
16143850 CTTTCCCT
1 CTTTCCCT
16143858 ACTAGTCGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.28
18 4 0.16
19 4 0.16
20 10 0.40
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (19 bp):
CTTTCCCTTTTCCTTCTTT
Found at i:16143849 original size:16 final size:17
Alignment explanation
Indices: 16143813--16143850 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
16143803 CAAATTTTCC
**
16143813 CTTTCCCTTTTCTTTTT
1 CTTTCCCTTTTCTCCTT
16143830 CTTTCCCTTTT-TCCTT
1 CTTTCCCTTTTCTCCTT
16143846 CTTTC
1 CTTTC
16143851 TTTCCCTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (17 bp):
CTTTCCCTTTTCTCCTT
Found at i:16143947 original size:16 final size:17
Alignment explanation
Indices: 16143926--16143957 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
16143916 TAACATATAT
16143926 ATTATTAT-ATTATTAA
1 ATTATTATAATTATTAA
16143942 ATTATTATAATTATTA
1 ATTATTATAATTATTA
16143958 TTTCTTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATTATAATTATTAA
Found at i:16144593 original size:25 final size:25
Alignment explanation
Indices: 16144531--16144596 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
16144521 CTTCCGAGTC
16144531 ATATAACGGGAAGCTCATGTAAGCG
1 ATATAACGGGAAGCTCATGTAAGCG
* *
16144556 A-AGTAACGAGAAGCTCATGTGAA-CT
1 ATA-TAACGGGAAGCTCATGT-AAGCG
*
16144581 ATATATCGGGAAGCTC
1 ATATAACGGGAAGCTC
16144597 TTACGAGCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
24 1 0.03
25 30 0.88
26 3 0.09
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (25 bp):
ATATAACGGGAAGCTCATGTAAGCG
Found at i:16145941 original size:32 final size:32
Alignment explanation
Indices: 16145904--16145966 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
16145894 TAATAAATTT
*
16145904 ATTAA-TAGATTACTTGAATTTAATAACTCATG
1 ATTAATTA-ATTAATTGAATTTAATAACTCATG
* *
16145936 ATTAATTAATTAATTTAATTTGATAACTCAT
1 ATTAATTAATTAATTGAATTTAATAACTCAT
16145967 ACTAATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 25 0.93
33 2 0.07
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.44
Consensus pattern (32 bp):
ATTAATTAATTAATTGAATTTAATAACTCATG
Found at i:16150571 original size:44 final size:43
Alignment explanation
Indices: 16150438--16150596 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
16150428 AGCTTGTACA
* * *
16150438 ATGCCAACATCCCAGACGTGGTCTTAGATGT-AATCAAATATCG
1 ATGCCAACATCCCAGACATGGTCTTACACGTAAATCAAA-ATCG
* * * * *
16150481 ATGCC-ACTATCCCCGGCAGGGTCTTTCACG-AAATCATATAT-G
1 ATGCCAAC-ATCCCAGACATGGTCTTACACGTAAATCA-AAATCG
**
16150523 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAAATCG
1 ATGCCAACATCCCAGACATGGTCTTACACGTAAATCA-AAATCG
* *
16150567 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACATCCCAGACATGGTCTTACACG
16150597 ATAACACATA
Statistics
Matches: 92, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
42 25 0.27
43 37 0.40
44 30 0.33
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAACATCCCAGACATGGTCTTACACGTAAATCAAAATCG
Found at i:16162242 original size:40 final size:40
Alignment explanation
Indices: 16162197--16162468 Score: 334
Period size: 40 Copynumber: 6.8 Consensus size: 40
16162187 ATAACCACAA
* * * *
16162197 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
16162237 GCACAAATGCCTTCGGGTCTTAGCTCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
16162277 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
16162317 GCATAAATGCCTTCGGGACTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
16162357 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
16162397 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
16162437 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
16162469 CATTCAAATG
Statistics
Matches: 209, Mismatches: 20, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 5 0.02
40 196 0.94
41 8 0.04
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:16162281 original size:80 final size:80
Alignment explanation
Indices: 16162168--16162467 Score: 390
Period size: 80 Copynumber: 3.8 Consensus size: 80
16162158 ACCCAAGTTT
* * * * * * * * * *
16162168 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGGGACTTAGCCCGGATATATCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAT
* *
16162231 CAACTCGCACAAATGC
66 C-ACTAGCATAAATGC
* * *
16162247 CTTCGGGTCTTAGCTCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAT
1 CTTCGGGACTTAGCCCGGATATATCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAT
16162312 CACTAGCATAAATGC
66 CACTAGCATAAATGC
*
16162327 CTTCGGGACTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAT
1 CTTCGGGACTTAGCCCGGATATATCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAT
16162392 CACTAGCATAAATGC
66 CACTAGCATAAATGC
* * *
16162407 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGAT-ATATCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
16162468 TCATTCAAAT
Statistics
Matches: 196, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
79 10 0.05
80 179 0.91
81 7 0.04
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATATCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAT
CACTAGCATAAATGC
Found at i:16162405 original size:120 final size:120
Alignment explanation
Indices: 16162168--16162468 Score: 435
Period size: 120 Copynumber: 2.5 Consensus size: 120
16162158 ACCCAAGTTT
* * * * * * * * * *
16162168 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGC
* * *
16162232 AACTCGCACAAATGCCTTCGGGTCTTAGCTCGGATATATCAACTTGCACAAATGC
66 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATCAACTAGCACAAATGC
* *
16162287 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATATC
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGC
*
16162352 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCATAAATGC
66 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGAT-AAATCAACTAGCACAAATGC
16162407 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAT
16162469 CATTCAAATG
Statistics
Matches: 163, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
119 10 0.06
120 149 0.91
121 4 0.02
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (120 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGC
AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATCAACTAGCACAAATGC
Found at i:16165628 original size:14 final size:14
Alignment explanation
Indices: 16165609--16165647 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
16165599 ATATTTAACT
16165609 TGTTCTTAATTATG
1 TGTTCTTAATTATG
16165623 TGTTCTTAATTATG
1 TGTTCTTAATTATG
16165637 TGTTCTTAATT
1 TGTTCTTAATT
16165648 CTTGTTTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:16169243 original size:42 final size:42
Alignment explanation
Indices: 16169130--16169260 Score: 120
Period size: 43 Copynumber: 3.0 Consensus size: 42
16169120 ACATAAGCTC
* * *** *
16169130 ATACAATGCCAATGTTCCAGACGTGGTCTTAGATGTAATCAA
1 ATACAATGCCAATGTCCCAGACGTGGTCTTACACAAAATCAT
* *
16169172 ATATCAATGCCATTGTCCCAGATAG-GGTCTTACACAAAATCAT
1 ATA-CAATGCCAATGTCCCAGA-CGTGGTCTTACACAAAATCAT
* * *
16169215 ATACGATGCCAACGTCCCAGACGTGGTCTTGCACGAAAATACAT
1 ATACAATGCCAATGTCCCAGACGTGGTCTTACAC-AAAAT-CAT
16169259 AT
1 AT
16169261 CAGAATCCTA
Statistics
Matches: 71, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
41 1 0.01
42 27 0.38
43 37 0.52
44 6 0.08
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.26
Consensus pattern (42 bp):
ATACAATGCCAATGTCCCAGACGTGGTCTTACACAAAATCAT
Found at i:16180414 original size:47 final size:47
Alignment explanation
Indices: 16180338--16180467 Score: 122
Period size: 47 Copynumber: 2.8 Consensus size: 47
16180328 AGGGTAAGGT
* * * *
16180338 GTCGATGCCATATCCTAGACACGGGCTTACACTGGCTCAT-ATCTC-AA
1 GTCGATG-CATATCCCAGACATGGTCTTACAATGGCT-ATCATCTCGAA
* * * *
16180385 GTCGATGTCATGTCCCAGACATGGTCTTACATTGACTATCATCTCGTA
1 GTCGATG-CATATCCCAGACATGGTCTTACAATGGCTATCATCTCGAA
* *
16180433 GCCGATGCATATCCCAAACAT-GTCTTACAATGGCT
1 GTCGATGCATATCCCAGACATGGTCTTACAATGGCT
16180468 TACGTCTCGA
Statistics
Matches: 68, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
46 14 0.21
47 47 0.69
48 7 0.10
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (47 bp):
GTCGATGCATATCCCAGACATGGTCTTACAATGGCTATCATCTCGAA
Found at i:16185395 original size:126 final size:127
Alignment explanation
Indices: 16185255--16185501 Score: 379
Period size: 126 Copynumber: 2.0 Consensus size: 127
16185245 AAAACGCCGC
* ** * *
16185255 AAAAAAATCATTTTACTTTGTACAAAATGGTGCCATTTTGTATTGCACTTTTAGTGGCGTTAGC-
1 AAAAAAATCATTTTACTTTATACAAAACAGTGCCATTTTGTATGGCACTTTTACTGGCGTTAGCG
* * * *
16185319 GCGCTACTTTAAAAATGCCGCAATAGGTCGATCTTTAGTGGCGCTATGTGAAAAACATCGCA
66 GCGCTACTTTAAAAATGCCGCAATAGGTCAATCTTTAGCGGCACTAGGTGAAAAACATCGCA
* * *
16185381 AAAAAAATCGTTTTACTTTATACAAAACAGTGTCGTTTTGTATGGCACTTTTACTGGCGTTAGCG
1 AAAAAAATCATTTTACTTTATACAAAACAGTGCCATTTTGTATGGCACTTTTACTGGCGTTAGCG
16185446 GCGCTACTTTAAAAATGCCGCAATAGGTCAATCTTTAGCGGCACTAGGTGAAAAAC
66 GCGCTACTTTAAAAATGCCGCAATAGGTCAATCTTTAGCGGCACTAGGTGAAAAAC
16185502 GCCTTAAAAA
Statistics
Matches: 108, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
126 56 0.52
127 52 0.48
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (127 bp):
AAAAAAATCATTTTACTTTATACAAAACAGTGCCATTTTGTATGGCACTTTTACTGGCGTTAGCG
GCGCTACTTTAAAAATGCCGCAATAGGTCAATCTTTAGCGGCACTAGGTGAAAAACATCGCA
Found at i:16185808 original size:34 final size:35
Alignment explanation
Indices: 16185759--16185825 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
16185749 CCCTAACATT
**
16185759 TCCCCAAATATTTTTTTTCCAAATCAGTTCCCCCC
1 TCCCCAAATATTTTTTCCCCAAATCAGTTCCCCCC
*
16185794 TCCCGAAATA-TTTTTCCCCAAATCAGTTCCCC
1 TCCCCAAATATTTTTTCCCCAAATCAGTTCCCC
16185826 AAATCACCGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 20 0.69
35 9 0.31
ACGTcount: A:0.24, C:0.37, G:0.04, T:0.34
Consensus pattern (35 bp):
TCCCCAAATATTTTTTCCCCAAATCAGTTCCCCCC
Found at i:16185825 original size:13 final size:13
Alignment explanation
Indices: 16185807--16185831 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16185797 CGAAATATTT
16185807 TTCCCCAAATCAG
1 TTCCCCAAATCAG
16185820 TTCCCCAAATCA
1 TTCCCCAAATCA
16185832 CCGTCGACAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.40, G:0.04, T:0.24
Consensus pattern (13 bp):
TTCCCCAAATCAG
Found at i:16188948 original size:44 final size:42
Alignment explanation
Indices: 16188810--16188953 Score: 171
Period size: 43 Copynumber: 3.3 Consensus size: 42
16188800 TTGTATAAAT
* * *
16188810 GCTGCTAAAAGTCATGTTCTTTAGCGGCGTTTATGGTAAAAGC
1 GCTGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGG-AAAAGC
*
16188853 GCTGCTAAAGGTCATGTTCTATAGCGGCGTTTGTAGGAAAAGT
1 GCTGCTAAAGGTCATGTTCTATAGCGGCGTTTGT-GGAAAAGC
* * *
16188896 GCTACTAAAAGGTCATGTTCTATAGTGGCATTTGTGGAAAAAGC
1 GCTGCT-AAAGGTCATGTTCTATAGCGGCGTTTGTGG-AAAAGC
* *
16188940 ACCGCTAAAGGTCA
1 GCTGCTAAAGGTCA
16188954 CATTAAATGT
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
43 51 0.59
44 36 0.41
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (42 bp):
GCTGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGGAAAAGC
Found at i:16202949 original size:554 final size:554
Alignment explanation
Indices: 16201900--16203565 Score: 3332
Period size: 554 Copynumber: 3.0 Consensus size: 554
16201890 TATGACAAGA
16201900 TTTTCCGAACAACATTTGAGACTGCTCCTGAGGAACAGCTTCTGAAGACTTATGCATGTTACTTG
1 TTTTCCGAACAACATTTGAGACTGCTCCTGAGGAACAGCTTCTGAAGACTTATGCATGTTACTTG
16201965 TCCACCTCGGCTGGTCCTGTCTTACCAAGTTGGTGCTCAGACTCAATGGAGCTACTATAAGGTAT
66 TCCACCTCGGCTGGTCCTGTCTTACCAAGTTGGTGCTCAGACTCAATGGAGCTACTATAAGGTAT
16202030 AAGAGCTTATGTTATGCGTTTCAGTTGGTCAAGTCATTGCATCTGTGTCTAATTGGTTAGGGTTG
131 AAGAGCTTATGTTATGCGTTTCAGTTGGTCAAGTCATTGCATCTGTGTCTAATTGGTTAGGGTTG
16202095 AGTGTAGACTGATTTTTTTAGATTTTACATTCCCAGGCAGTTCCATATATCACTAAAAGGACATG
196 AGTGTAGACTGATTTTTTTAGATTTTACATTCCCAGGCAGTTCCATATATCACTAAAAGGACATG
16202160 AATTATGGATTTTTTTCCCTTTATTGATTACATGTTTTGAAATTAGCATATCGTGGGCTCAATGC
261 AATTATGGATTTTTTTCCCTTTATTGATTACATGTTTTGAAATTAGCATATCGTGGGCTCAATGC
16202225 TTGATGATTCTATTTCTATCATCTATGTGGTTCCACCAAAAGTTGCCGATCCCGGATGCTTTGTT
326 TTGATGATTCTATTTCTATCATCTATGTGGTTCCACCAAAAGTTGCCGATCCCGGATGCTTTGTT
16202290 AGATTAAACCTTTGCTTTTAAATAAGCATCTGCAGTTATGACTTATGACCTGTTCGAGTTATTTG
391 AGATTAAACCTTTGCTTTTAAATAAGCATCTGCAGTTATGACTTATGACCTGTTCGAGTTATTTG
16202355 CTAAAGTTTTGTAGTCCCCTTGTTTCATAAGGTCTTCATCATCTTTGATTTGTTCTTTTTCCTGC
456 CTAAAGTTTTGTAGTCCCCTTGTTTCATAAGGTCTTCATCATCTTTGATTTGTTCTTTTTCCTGC
16202420 TTGGTTACCGTAGTGCTAGTTTTTGAGTTAGTGC
521 TTGGTTACCGTAGTGCTAGTTTTTGAGTTAGTGC
16202454 TTTTCCGAACAACATTTGAGACTGCTCCTGAGGAACAGCTTCTGAAGACTTATGCATGTTACTTG
1 TTTTCCGAACAACATTTGAGACTGCTCCTGAGGAACAGCTTCTGAAGACTTATGCATGTTACTTG
16202519 TCCACCTCGGCTGGTCCTGTCTTACCAAGTTGGTGCTCAGACTCAATGGAGCTACTATAAGGTAT
66 TCCACCTCGGCTGGTCCTGTCTTACCAAGTTGGTGCTCAGACTCAATGGAGCTACTATAAGGTAT
16202584 AAGAGCTTATGTTATGCGTTTCAGTTGGTCAAGTCATTGCATCTGTGTCTAATTGGTTAGGGTTG
131 AAGAGCTTATGTTATGCGTTTCAGTTGGTCAAGTCATTGCATCTGTGTCTAATTGGTTAGGGTTG
16202649 AGTGTAGACTGATTTTTTTAGATTTTACATTCCCAGGCAGTTCCATATATCACTAAAAGGACATG
196 AGTGTAGACTGATTTTTTTAGATTTTACATTCCCAGGCAGTTCCATATATCACTAAAAGGACATG
16202714 AATTATGGATTTTTTTCCCTTTATTGATTACATGTTTTGAAATTAGCATATCGTGGGCTCAATGC
261 AATTATGGATTTTTTTCCCTTTATTGATTACATGTTTTGAAATTAGCATATCGTGGGCTCAATGC
16202779 TTGATGATTCTATTTCTATCATCTATGTGGTTCCACCAAAAGTTGCCGATCCCGGATGCTTTGTT
326 TTGATGATTCTATTTCTATCATCTATGTGGTTCCACCAAAAGTTGCCGATCCCGGATGCTTTGTT
16202844 AGATTAAACCTTTGCTTTTAAATAAGCATCTGCAGTTATGACTTATGACCTGTTCGAGTTATTTG
391 AGATTAAACCTTTGCTTTTAAATAAGCATCTGCAGTTATGACTTATGACCTGTTCGAGTTATTTG
16202909 CTAAAGTTTTGTAGTCCCCTTGTTTCATAAGGTCTTCATCATCTTTGATTTGTTCTTTTTCCTGC
456 CTAAAGTTTTGTAGTCCCCTTGTTTCATAAGGTCTTCATCATCTTTGATTTGTTCTTTTTCCTGC
16202974 TTGGTTACCGTAGTGCTAGTTTTTGAGTTAGTGC
521 TTGGTTACCGTAGTGCTAGTTTTTGAGTTAGTGC
16203008 TTTTCCGAACAACATTTGAGACTGCTCCTGAGGAACAGCTTCTGAAGACTTATGCATGTTACTTG
1 TTTTCCGAACAACATTTGAGACTGCTCCTGAGGAACAGCTTCTGAAGACTTATGCATGTTACTTG
16203073 TCCACCTCGGCTGGTCCTGTCTTACCAAGTTGGTGCTCAGACTCAATGGAGCTACTATAAGGTAT
66 TCCACCTCGGCTGGTCCTGTCTTACCAAGTTGGTGCTCAGACTCAATGGAGCTACTATAAGGTAT
16203138 AAGAGCTTATGTTATGCGTTTCAGTTGGTCAAGTCATTGCATCTGTGTCTAATTGGTTAGGGTTG
131 AAGAGCTTATGTTATGCGTTTCAGTTGGTCAAGTCATTGCATCTGTGTCTAATTGGTTAGGGTTG
16203203 AGTGTAGACTGATTTTTTTAGATTTTACATTCCCAGGCAGTTCCATATATCACTAAAAGGACATG
196 AGTGTAGACTGATTTTTTTAGATTTTACATTCCCAGGCAGTTCCATATATCACTAAAAGGACATG
16203268 AATTATGGATTTTTTTCCCTTTATTGATTACATGTTTTGAAATTAGCATATCGTGGGCTCAATGC
261 AATTATGGATTTTTTTCCCTTTATTGATTACATGTTTTGAAATTAGCATATCGTGGGCTCAATGC
16203333 TTGATGATTCTATTTCTATCATCTATGTGGTTCCACCAAAAGTTGCCGATCCCGGATGCTTTGTT
326 TTGATGATTCTATTTCTATCATCTATGTGGTTCCACCAAAAGTTGCCGATCCCGGATGCTTTGTT
16203398 AGATTAAACCTTTGCTTTTAAATAAGCATCTGCAGTTATGACTTATGACCTGTTCGAGTTATTTG
391 AGATTAAACCTTTGCTTTTAAATAAGCATCTGCAGTTATGACTTATGACCTGTTCGAGTTATTTG
16203463 CTAAAGTTTTGTAGTCCCCTTGTTTCATAAGGTCTTCATCATCTTTGATTTGTTCTTTTTCCTGC
456 CTAAAGTTTTGTAGTCCCCTTGTTTCATAAGGTCTTCATCATCTTTGATTTGTTCTTTTTCCTGC
16203528 TTGGTTACCGTAGTGCTAGTTTTTGAGTTAGTGC
521 TTGGTTACCGTAGTGCTAGTTTTTGAGTTAGTGC
16203562 TTTT
1 TTTT
16203566 GTAGTTAAAG
Statistics
Matches: 1112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
554 1112 1.00
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (554 bp):
TTTTCCGAACAACATTTGAGACTGCTCCTGAGGAACAGCTTCTGAAGACTTATGCATGTTACTTG
TCCACCTCGGCTGGTCCTGTCTTACCAAGTTGGTGCTCAGACTCAATGGAGCTACTATAAGGTAT
AAGAGCTTATGTTATGCGTTTCAGTTGGTCAAGTCATTGCATCTGTGTCTAATTGGTTAGGGTTG
AGTGTAGACTGATTTTTTTAGATTTTACATTCCCAGGCAGTTCCATATATCACTAAAAGGACATG
AATTATGGATTTTTTTCCCTTTATTGATTACATGTTTTGAAATTAGCATATCGTGGGCTCAATGC
TTGATGATTCTATTTCTATCATCTATGTGGTTCCACCAAAAGTTGCCGATCCCGGATGCTTTGTT
AGATTAAACCTTTGCTTTTAAATAAGCATCTGCAGTTATGACTTATGACCTGTTCGAGTTATTTG
CTAAAGTTTTGTAGTCCCCTTGTTTCATAAGGTCTTCATCATCTTTGATTTGTTCTTTTTCCTGC
TTGGTTACCGTAGTGCTAGTTTTTGAGTTAGTGC
Found at i:16208005 original size:49 final size:49
Alignment explanation
Indices: 16207940--16208039 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
16207930 ACTAATGAGG
16207940 AACAAACAAGACGGGGTATGGCTCATATCCCTTTTTGTGAACTATGTGA
1 AACAAACAAGACGGGGTATGGCTCATATCCCTTTTTGTGAACTATGTGA
* *
16207989 AACAAACAAGATGGGGTATGGCTCATATCCCTTTTTGTGACCTATGTGA
1 AACAAACAAGACGGGGTATGGCTCATATCCCTTTTTGTGAACTATGTGA
16208038 AA
1 AA
16208040 GTGTGGAGTC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (49 bp):
AACAAACAAGACGGGGTATGGCTCATATCCCTTTTTGTGAACTATGTGA
Found at i:16209565 original size:46 final size:46
Alignment explanation
Indices: 16209504--16209683 Score: 136
Period size: 47 Copynumber: 3.9 Consensus size: 46
16209494 TGTATATGTG
16209504 CTGATGCATGTCCCAGACAT-GTCTTACACTGGCACTCACCTCTAC
1 CTGATGCATGTCCCAGACATGGTCTTACACTGGCACTCACCTCTAC
* * * * *
16209549 CCGATGCCATGTCCCAGACGTGGTCTTACACGGGCTA-TCA--TGATGC
1 CTGATG-CATGTCCCAGACATGGTCTTACACTGGC-ACTCACCT-CTAC
* * * * * * *
16209595 GGCTGATGCATGTCCCAAACAT-GTCTTACATTAGCCCTCATCTCAATG
1 --CTGATGCATGTCCCAGACATGGTCTTACACTGGCACTCACCTCTA-C
* *
16209643 CTGATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCAC
1 CTGATG-CATGTCCCAGACATGGTCTTACACTGGCACTCAC
16209684 ATAACCCAAT
Statistics
Matches: 101, Mismatches: 22, Indels: 21
0.70 0.15 0.15
Matches are distributed among these distances:
45 6 0.06
46 34 0.34
47 40 0.40
48 21 0.21
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.27
Consensus pattern (46 bp):
CTGATGCATGTCCCAGACATGGTCTTACACTGGCACTCACCTCTAC
Found at i:16215259 original size:47 final size:47
Alignment explanation
Indices: 16215152--16215585 Score: 636
Period size: 47 Copynumber: 9.1 Consensus size: 47
16215142 GAAATGATAG
16215152 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
16215201 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
16215248 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
16215295 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
16215344 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
16215391 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * *
16215440 CAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
16215487 TAAGGCCTAATGGCCGATGTGATGAATGTGGAACTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGT-GAA-AGTGTATATATGTGA
* * * * * * *
16215536 -AGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
16215582 TAAG
1 TAAG
16215586 TCCCGAAGGG
Statistics
Matches: 350, Mismatches: 28, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
46 12 0.03
47 178 0.51
48 25 0.07
49 135 0.39
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:16215337 original size:96 final size:96
Alignment explanation
Indices: 16215155--16215585 Score: 688
Period size: 96 Copynumber: 4.5 Consensus size: 96
16215145 ATGATAGTAA
16215155 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATG
*
16215220 TGATGAATGTGAAAGTG--TATATATGTGATAA
64 TGATGAATGTGAAAGTGTATATATATGTGATAG
16215251 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
16215316 ATGAATGTGAAAGTGTATATATATGTGATAG
66 ATGAATGTGAAAGTGTATATATATGTGATAG
16215347 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
16215412 ATGAATGTGGAAGTGTATATATATGTGACAG
66 ATGAATGTGAAAGTGTATATATATGTGATAG
* * * *
16215443 GGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
16215508 ATGAATGTGGAACTGTATATATATGTGA-AG
66 ATGAATGTGAAAGTGTATATATATGTGATAG
* * * * * *
16215538 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
16215586 TCCCGAAGGG
Statistics
Matches: 323, Mismatches: 10, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
94 47 0.15
95 48 0.15
96 228 0.71
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (96 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGAAAGTGTATATATATGTGATAG
Found at i:16215410 original size:143 final size:143
Alignment explanation
Indices: 16215152--16215585 Score: 658
Period size: 143 Copynumber: 3.0 Consensus size: 143
16215142 GAAATGATAG
16215152 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
16215217 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
16215282 TGTATATATGTGA
131 TGTATATATGTGA
*
16215295 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
16215360 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
16215425 TGTATATATATGTGA
131 TG--TATATATGTGA
* * * * * *
16215440 CAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * * * * * * *
16215503 ATGTGATGAATGTGGAACTGTATATATATGTGA-AGGGCCGAGTGGCCAACGTGATGGATGTGAA
66 ATGTGATGAATGT-GAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
16215567 AGTGTATAAATGTGA
129 AGTGTATATATGTGA
16215582 TAAG
1 TAAG
16215586 TCCCGAAGGG
Statistics
Matches: 266, Mismatches: 21, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
142 12 0.05
143 169 0.64
144 31 0.12
145 54 0.20
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (143 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGA
Found at i:16219056 original size:30 final size:30
Alignment explanation
Indices: 16219020--16219080 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
16219010 GGAATTTTAA
*
16219020 TGTTATTTCATTAAGGGCATAATACTAAAC
1 TGTTATTTCATTAAGGGAATAATACTAAAC
* *
16219050 TGTTATTTCATTTAGGGAATAATAGTAAAC
1 TGTTATTTCATTAAGGGAATAATACTAAAC
16219080 T
1 T
16219081 ATGTATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (30 bp):
TGTTATTTCATTAAGGGAATAATACTAAAC
Found at i:16220105 original size:43 final size:43
Alignment explanation
Indices: 16219971--16220123 Score: 163
Period size: 43 Copynumber: 3.6 Consensus size: 43
16219961 TGTGTTTTTG
16219971 TGTAAGACCATGTCTGGGAC-GTTGGCATCGAT-TTGTGATTTACA
1 TGTAAGACCATGTCTGGGACAGTT-GCATCGATATT-TGA-TTACA
* * * *
16220015 TGTAAGACCATGTCTGGGACA-TCAGTATC-ATATTTGATTTCG
1 TGTAAGACCATGTCTGGGACAGT-TGCATCGATATTTGATTACA
* * *
16220057 TGTAAGACCCTGTCTTGGACAGTTGCATCGATATTTGATCACA
1 TGTAAGACCATGTCTGGGACAGTTGCATCGATATTTGATTACA
*
16220100 TGTAAGACCACGTCTGGGAC-GTTG
1 TGTAAGACCATGTCTGGGACAGTTG
16220124 GCATTGTACG
Statistics
Matches: 90, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
42 30 0.33
43 33 0.37
44 27 0.30
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTTGCATCGATATTTGATTACA
Found at i:16224747 original size:47 final size:47
Alignment explanation
Indices: 16224684--16225119 Score: 737
Period size: 47 Copynumber: 9.3 Consensus size: 47
16224674 CCCTTCGGGA
* *
16224684 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
16224731 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
16224778 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
16224825 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
16224872 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
16224919 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
16224966 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
16225013 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
16225060 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
16225107 CTTATCACATATA
1 CTTATCACATATA
16225120 CATATCTTGT
Statistics
Matches: 364, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 364 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:16225021 original size:22 final size:22
Alignment explanation
Indices: 16224994--16225069 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
16224984 TTTCACATTC
16224994 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
16225016 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
16225040 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
16225063 ATCACAT
1 ATCACAT
16225070 ATATACACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:16228219 original size:28 final size:28
Alignment explanation
Indices: 16228179--16228276 Score: 83
Period size: 28 Copynumber: 3.5 Consensus size: 28
16228169 AAATGAAATC
16228179 CGCACACACAGTGCCCACTGACCGATCT
1 CGCACACACAGTGCCCACTGACCGATCT
* * ** * **
16228207 CGCACACATAGTGCTCGGTTAAAGAAT-T
1 CGCACACACAGTGCCCACTGACCG-ATCT
*
16228235 CAG-ACACACAGTGTCCACTGACCGATCT
1 C-GCACACACAGTGCCCACTGACCGATCT
*
16228263 CGCACACATAGTGC
1 CGCACACACAGTGC
16228277 TCGGTTAAAG
Statistics
Matches: 49, Mismatches: 17, Indels: 8
0.66 0.23 0.11
Matches are distributed among these distances:
27 3 0.06
28 43 0.88
29 3 0.06
ACGTcount: A:0.29, C:0.34, G:0.19, T:0.18
Consensus pattern (28 bp):
CGCACACACAGTGCCCACTGACCGATCT
Found at i:16228293 original size:28 final size:28
Alignment explanation
Indices: 16228206--16228303 Score: 85
Period size: 28 Copynumber: 3.5 Consensus size: 28
16228196 CTGACCGATC
*
16228206 TCGCACACATAGTGCTCGGTTAAAGAAT
1 TCGCACACACAGTGCTCGGTTAAAGAAT
** * **
16228234 TCAG-ACACACAGTG-TCCACTGACCG-AT
1 TC-GCACACACAGTGCT-CGGTTAAAGAAT
*
16228261 CTCGCACACATAGTGCTCGGTTAAAGAAT
1 -TCGCACACACAGTGCTCGGTTAAAGAAT
16228290 TCGCACACACAGTG
1 TCGCACACACAGTG
16228304 TCTCAATTCA
Statistics
Matches: 51, Mismatches: 13, Indels: 12
0.67 0.17 0.16
Matches are distributed among these distances:
27 4 0.08
28 43 0.84
29 4 0.08
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (28 bp):
TCGCACACACAGTGCTCGGTTAAAGAAT
Found at i:16228304 original size:56 final size:56
Alignment explanation
Indices: 16228179--16228305 Score: 229
Period size: 56 Copynumber: 2.3 Consensus size: 56
16228169 AAATGAAATC
*
16228179 CGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
16228235 CAG-ACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 C-GCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
16228291 CGCACACACAGTGTC
1 CGCACACACAGTGTC
16228306 TCAATTCATT
Statistics
Matches: 68, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
55 1 0.01
56 66 0.97
57 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (56 bp):
CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
Found at i:16228322 original size:25 final size:25
Alignment explanation
Indices: 16228288--16228342 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
16228278 CGGTTAAAGA
*
16228288 ATTCGCACACACAGTGTCTCA-ATTC
1 ATTCGCACACACAGTGCCT-ATATTC
*
16228313 ATTCGCACACATAGTGCCTATATTC
1 ATTCGCACACACAGTGCCTATATTC
16228338 ATTCG
1 ATTCG
16228343 TTATTACACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (25 bp):
ATTCGCACACACAGTGCCTATATTC
Found at i:16228567 original size:40 final size:40
Alignment explanation
Indices: 16228511--16228653 Score: 234
Period size: 40 Copynumber: 3.6 Consensus size: 40
16228501 CACATCATCG
* *
16228511 GCACGAATGCCCTTCAGGACTTAGCCCAGATGTAACACCA
1 GCACGAATGCTCTTCAGGACTTAGCCCGGATGTAACACCA
*
16228551 ACACGAATGCTCTTCAGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCAGGACTTAGCCCGGATGTAACACCA
*
16228591 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCAGGACTTAGCCCGGATGTAACACCA
16228631 GCACGAATGCTCTTC-GAGACTTA
1 GCACGAATGCTCTTCAG-GACTTA
16228654 ACCTGGATCA
Statistics
Matches: 97, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
39 1 0.01
40 96 0.99
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (40 bp):
GCACGAATGCTCTTCAGGACTTAGCCCGGATGTAACACCA
Found at i:16228766 original size:38 final size:38
Alignment explanation
Indices: 16228719--16228831 Score: 127
Period size: 38 Copynumber: 3.0 Consensus size: 38
16228709 GAATTTTAAT
*
16228719 CCGGACATAATCTCTGCACATAGCCATCGGATCTTTAC
1 CCGGACATAATCTCTACACATAGCCATCGGATCTTTAC
* * * * *
16228757 CCGGGCATAATCTCCACATATAGTCATCGGGTCTTTAC
1 CCGGACATAATCTCTACACATAGCCATCGGATCTTTAC
* ** * *
16228795 CCGGACACAATCTCTACTTATAGTCATCGGGTCTTTA
1 CCGGACATAATCTCTACACATAGCCATCGGATCTTTA
16228832 AGCCCGGATT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (38 bp):
CCGGACATAATCTCTACACATAGCCATCGGATCTTTAC
Found at i:16230839 original size:47 final size:47
Alignment explanation
Indices: 16230776--16231211 Score: 719
Period size: 47 Copynumber: 9.3 Consensus size: 47
16230766 CCCTTCGGGA
* *
16230776 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
16230823 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
16230870 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
16230917 CTTATCACATATAGACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
16230964 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
16231011 CTTTTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
16231058 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
16231105 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
16231152 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
16231199 CTTATCACATATA
1 CTTATCACATATA
16231212 CATATCTTGT
Statistics
Matches: 362, Mismatches: 27, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 362 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:16231113 original size:22 final size:22
Alignment explanation
Indices: 16231086--16231161 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
16231076 TTTCACATTC
16231086 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
16231108 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
16231132 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
16231155 ATCACAT
1 ATCACAT
16231162 ATATACACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:16234075 original size:40 final size:41
Alignment explanation
Indices: 16233962--16234139 Score: 125
Period size: 40 Copynumber: 4.3 Consensus size: 41
16233952 AGAATGATTC
* *
16233962 CGCACACTTAGTGCCATCTTAATTAACCGAAGCTATCTCGATAT
1 CGCACACTTAGTGCTAT-TT-A-TAGCCGAAGCTATCTCGATAT
* * * *
16234006 CGCACACTTAGGGCCTCA--TACAGCTGAAGCTATAC-C-ATTT
1 CGCACACTTAGTG-CT-ATTTATAGCCGAAGCTAT-CTCGATAT
* *
16234046 CGCACACTTAGTGCTATTTATAGCCGAAGCTATTTTGA-AT
1 CGCACACTTAGTGCTATTTATAGCCGAAGCTATCTCGATAT
* * * * * *
16234086 CGCACACTTAGTGTTGTTTATAGCCAAAACTATTTTGA-AT
1 CGCACACTTAGTGCTATTTATAGCCGAAGCTATCTCGATAT
*
16234126 TGCACACTTAGTGC
1 CGCACACTTAGTGC
16234140 CAAATGTAGT
Statistics
Matches: 109, Mismatches: 18, Indels: 18
0.75 0.12 0.12
Matches are distributed among these distances:
38 1 0.01
39 2 0.02
40 77 0.71
41 12 0.11
42 2 0.02
43 1 0.01
44 12 0.11
45 1 0.01
46 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (41 bp):
CGCACACTTAGTGCTATTTATAGCCGAAGCTATCTCGATAT
Found at i:16258739 original size:42 final size:41
Alignment explanation
Indices: 16258642--16258790 Score: 167
Period size: 42 Copynumber: 3.5 Consensus size: 41
16258632 TAAGCTATCA
* *
16258642 TGTAAGACCACGTCTGGGACGTCGGCATCGATTTGAGATTGACG
1 TGTAAGACCATGTCTGGGACATCGGCATCGATTT--GATT-ACG
*
16258686 TGTAAGACCATGTCTGGGACATCGACATCGTATTTGACTT-CG
1 TGTAAGACCATGTCTGGGACATCGGCATCG-ATTTGA-TTACG
* *
16258728 TGTAAGACCATGTCTGGGATAGT-GGCATCGACATTTGATTACA
1 TGTAAGACCATGTCTGGGACA-TCGGCATCG--ATTTGATTACG
16258771 TGTAAGACCATGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
16258791 GTTGGCATTG
Statistics
Matches: 92, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
42 30 0.33
43 29 0.32
44 29 0.32
45 4 0.04
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATCGGCATCGATTTGATTACG
Found at i:16258797 original size:43 final size:41
Alignment explanation
Indices: 16258640--16258798 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 41
16258630 TATAAGCTAT
*
16258640 CATGTAAGACCACGTCTGGGACGTCGGCATCGATTTGAGATTGA
1 CATGTAAGACCATGTCTGGGACGTCGGCATCGATTT--GATT-A
* * *
16258684 CGTGTAAGACCATGTCTGGGACATCGACATCGTATTTGACTT-
1 CATGTAAGACCATGTCTGGGACGTCGGCATCG-ATTTGA-TTA
* *
16258726 CGTGTAAGACCATGTCTGGGATAGT-GGCATCGACATTTGATTA
1 CATGTAAGACCATGTCTGGGA-CGTCGGCATCG--ATTTGATTA
*
16258769 CATGTAAGACCATGTCTGGGACGTTGGCAT
1 CATGTAAGACCATGTCTGGGACGTCGGCAT
16258799 TGTGTGAGCT
Statistics
Matches: 99, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
42 31 0.31
43 34 0.34
44 30 0.30
45 4 0.04
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (41 bp):
CATGTAAGACCATGTCTGGGACGTCGGCATCGATTTGATTA
Found at i:16259901 original size:28 final size:28
Alignment explanation
Indices: 16259797--16259906 Score: 109
Period size: 27 Copynumber: 4.0 Consensus size: 28
16259787 TGGCTGCCAG
* * * *
16259797 AACAGATA-TTGTGACAGAGTCACCAGA
1 AACAGATATTTGTGGCATAGCCACTAGA
* * *
16259824 TACAGATA-TTGTGGTAGAGCCACTAG-
1 AACAGATATTTGTGGCATAGCCACTAGA
*
16259850 AACAGATATTTGTGGCGTAGCCACTAGA
1 AACAGATATTTGTGGCATAGCCACTAGA
* *
16259878 AACAGATATTTGTGGCATATCCACCAGA
1 AACAGATATTTGTGGCATAGCCACTAGA
16259906 A
1 A
16259907 TGCTTCCTCC
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
26 7 0.10
27 36 0.52
28 26 0.38
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (28 bp):
AACAGATATTTGTGGCATAGCCACTAGA
Found at i:16260047 original size:26 final size:26
Alignment explanation
Indices: 16260011--16260071 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
16260001 AAATTAACCC
* *
16260011 TAGGGGTATAATGGTCACTTTGCACT
1 TAGGGGTATAATGGTAACTTTACACT
* *
16260037 TAGGGGTATAATGGTAATTTTATACT
1 TAGGGGTATAATGGTAACTTTACACT
16260063 TAGGGGTAT
1 TAGGGGTAT
16260072 TTTAGTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.26, C:0.08, G:0.28, T:0.38
Consensus pattern (26 bp):
TAGGGGTATAATGGTAACTTTACACT
Found at i:16260079 original size:26 final size:26
Alignment explanation
Indices: 16260011--16260084 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 26
16260001 AAATTAACCC
* * * **
16260011 TAGGGGTATAATGGTCACTTTGCACT
1 TAGGGGTATAATAGTAAATTTATACT
* *
16260037 TAGGGGTATAATGGTAATTTTATACT
1 TAGGGGTATAATAGTAAATTTATACT
**
16260063 TAGGGGTATTTTAGTAAATTTA
1 TAGGGGTATAATAGTAAATTTA
16260085 CTATTTTAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (26 bp):
TAGGGGTATAATAGTAAATTTATACT
Found at i:16264748 original size:23 final size:23
Alignment explanation
Indices: 16264715--16264788 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
16264705 TTCACAAACA
*
16264715 ACACTGGTGCTCCCCACGGAGAC
1 ACACTAGTGCTCCCCACGGAGAC
* *
16264738 ACACTATTGCTCCCTACGGAGAC
1 ACACTAGTGCTCCCCACGGAGAC
* *
16264761 ACACTGGTGCTCCCCACGAAGAC
1 ACACTAGTGCTCCCCACGGAGAC
16264784 ACACT
1 ACACT
16264789 CGGCCAAATA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.26, C:0.38, G:0.20, T:0.16
Consensus pattern (23 bp):
ACACTAGTGCTCCCCACGGAGAC
Found at i:16268058 original size:27 final size:27
Alignment explanation
Indices: 16268041--16268095 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
16268031 GTCACTAGAT
16268041 ACAAATA-TTGTGGTAGAGCCACCAGA
1 ACAAATATTTGTGGTAGAGCCACCAGA
* *
16268067 ACAGATATTTGTGG-CGTAGCCACCAGA
1 ACAAATATTTGTGGTAG-AGCCACCAGA
16268094 AC
1 AC
16268096 GCTTCCTCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (27 bp):
ACAAATATTTGTGGTAGAGCCACCAGA
Found at i:16277705 original size:43 final size:42
Alignment explanation
Indices: 16277548--16277706 Score: 146
Period size: 44 Copynumber: 3.7 Consensus size: 42
16277538 TATGAGCTAT
* *
16277548 CGTGTAAGACCATGTCTAGGACGTCGGCATCAATTTGAGTTTTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCAATTTGA--TTTA
* * *
16277592 CGTGTAAGACCATGTCTGGGACATTGACATCGTATTTGACTTT-
1 CGTGTAAGACCATGTCTGGGACGTTGGCATC-AATTTGA-TTTA
* *
16277635 -GTGCAAGACCCTGTCTGGGACAG-TGGCATCAACATTTGA-TTA
1 CGTGTAAGACCATGTCTGGGAC-GTTGGCATC-A-ATTTGATTTA
* *
16277677 CATGTAAGACCATGTCTGGGATGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACGTTGGCAT
16277707 TGTATGAGCT
Statistics
Matches: 93, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
41 2 0.02
42 26 0.28
43 29 0.31
44 30 0.32
45 6 0.06
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACGTTGGCATCAATTTGATTTA
Found at i:16281789 original size:16 final size:16
Alignment explanation
Indices: 16281768--16281816 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
16281758 TTAGAATTGG
16281768 ATTGAAAATTTATTTA
1 ATTGAAAATTTATTTA
* *
16281784 ATTGAAAAATTAATTA
1 ATTGAAAATTTATTTA
* *
16281800 ATT-TAAATTAATTTA
1 ATTGAAAATTTATTTA
16281815 AT
1 AT
16281817 AAATAATGTC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 10 0.37
16 17 0.63
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (16 bp):
ATTGAAAATTTATTTA
Found at i:16285321 original size:10 final size:10
Alignment explanation
Indices: 16285306--16285336 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
16285296 ACATTGAATC
16285306 AAATGAATAG
1 AAATGAATAG
16285316 AAATGAATAG
1 AAATGAATAG
16285326 AAATGATATAG
1 AAATGA-ATAG
16285337 TTAGAGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 16 0.80
11 4 0.20
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.23
Consensus pattern (10 bp):
AAATGAATAG
Found at i:16287120 original size:57 final size:58
Alignment explanation
Indices: 16287050--16287190 Score: 155
Period size: 57 Copynumber: 2.4 Consensus size: 58
16287040 CGTATTACAA
*
16287050 GATTACCAATCCAGGCTAAATCCTTTTTGTAACATATACTC-AGAAGAGT-TCA-ATCAG
1 GATTACCAATCCAGGCTAAATCCTTTTTGTAACATACACTCGAG-AG-GTATCATATCAG
* * ** *
16287107 GATTACCAGTCCAGGCTAAACCCTAATTGTAACATACACTCGAGAGGTATTATATCAG
1 GATTACCAATCCAGGCTAAATCCTTTTTGTAACATACACTCGAGAGGTATCATATCAG
* *
16287165 GATTACTCATTCGA-GCTAAATCCTTT
1 GATTAC-CAATCCAGGCTAAATCCTTT
16287191 CCATAATGAG
Statistics
Matches: 69, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
56 2 0.03
57 40 0.58
58 22 0.32
59 5 0.07
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (58 bp):
GATTACCAATCCAGGCTAAATCCTTTTTGTAACATACACTCGAGAGGTATCATATCAG
Found at i:16298216 original size:13 final size:13
Alignment explanation
Indices: 16298198--16298231 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
16298188 TTATTTAAAT
16298198 AATTAATTATATA
1 AATTAATTATATA
16298211 AATTAATTATATA
1 AATTAATTATATA
16298224 AAGTTAAT
1 AA-TTAAT
16298232 ATTAATCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (13 bp):
AATTAATTATATA
Found at i:16308620 original size:22 final size:22
Alignment explanation
Indices: 16308589--16308646 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
16308579 AATACGATTG
*
16308589 GCACAAAGCCATAATCAAGATA
1 GCACAGAGCCATAATCAAGATA
* * * *
16308611 GCACAGAGCCATATTTAAGCTG
1 GCACAGAGCCATAATCAAGATA
16308633 GCACAGAGCCATAA
1 GCACAGAGCCATAA
16308647 ACAGATTAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.16
Consensus pattern (22 bp):
GCACAGAGCCATAATCAAGATA
Found at i:16311825 original size:15 final size:15
Alignment explanation
Indices: 16311805--16311836 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
16311795 TGTTGATCTA
16311805 AATATATTCAAAATT
1 AATATATTCAAAATT
16311820 AATATATTCAAAATT
1 AATATATTCAAAATT
16311835 AA
1 AA
16311837 CTCATTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (15 bp):
AATATATTCAAAATT
Found at i:16316076 original size:43 final size:43
Alignment explanation
Indices: 16316007--16316112 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 43
16315997 TCCTAGATAT
* * * * * *
16316007 GGTCTTACATGTTATCACATATCGATGTCACTGTCTCAGACAG
1 GGTCTTACACGTAATCACATAACGATGCCAATGTCCCAGACAG
* *
16316050 GGTCTTACAGGTAATCA-ATTAACGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAATCACA-TAACGATGCCAATGTCCCAGACAG
16316093 GGTCTTACACGTAATCACAT
1 GGTCTTACACGTAATCACAT
16316113 CTCGATAACC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 1 0.02
43 51 0.96
44 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (43 bp):
GGTCTTACACGTAATCACATAACGATGCCAATGTCCCAGACAG
Found at i:16329060 original size:20 final size:21
Alignment explanation
Indices: 16329037--16329079 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
16329027 TACATGTGTG
*
16329037 TTTTG-ATGTTTGATGATAGA
1 TTTTGAATGCTTGATGATAGA
*
16329057 TTTTGAATGCTTGTTGATAGA
1 TTTTGAATGCTTGATGATAGA
16329078 TT
1 TT
16329080 ACAAGTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.23, C:0.02, G:0.23, T:0.51
Consensus pattern (21 bp):
TTTTGAATGCTTGATGATAGA
Found at i:16332026 original size:15 final size:15
Alignment explanation
Indices: 16332006--16332037 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
16331996 TTTGGAACCG
16332006 ATCAATCTATTATTT
1 ATCAATCTATTATTT
16332021 ATCAATCTATTATTT
1 ATCAATCTATTATTT
16332036 AT
1 AT
16332038 TCTAACTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.53
Consensus pattern (15 bp):
ATCAATCTATTATTT
Found at i:16344316 original size:40 final size:40
Alignment explanation
Indices: 16344269--16344355 Score: 147
Period size: 40 Copynumber: 2.2 Consensus size: 40
16344259 AAACACGGGC
* *
16344269 GTGTGATCGATGAGCCAGGCCGTGCGCTCATGACACGACT
1 GTGTGATCGACGAGCCAGCCCGTGCGCTCATGACACGACT
*
16344309 GTGTGATCGACGAGCCAGCCCGTGCGCTCGTGACACGACT
1 GTGTGATCGACGAGCCAGCCCGTGCGCTCATGACACGACT
16344349 GTGTGAT
1 GTGTGAT
16344356 GGCCAGGCAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.18, C:0.28, G:0.33, T:0.21
Consensus pattern (40 bp):
GTGTGATCGACGAGCCAGCCCGTGCGCTCATGACACGACT
Found at i:16346015 original size:64 final size:64
Alignment explanation
Indices: 16345914--16346057 Score: 234
Period size: 64 Copynumber: 2.2 Consensus size: 64
16345904 TGGAACCACA
* * * *
16345914 CATGCAACCTAGCTACATTTATCTCGTAGCTCTCTTGTCTACATGGTGTACAAATAGTATCACC
1 CATGCGACCTAGCTACATATATCCCATAGCTCTCTTGTCTACATGGTGTACAAATAGTATCACC
* *
16345978 CATGCGACCTAGCTACATATATCCCATAGTTCTCTTGTCTACATGGTGTACACATAGTATCACC
1 CATGCGACCTAGCTACATATATCCCATAGCTCTCTTGTCTACATGGTGTACAAATAGTATCACC
16346042 CATGCGACCTAGCTAC
1 CATGCGACCTAGCTAC
16346058 CTCATAATGT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
64 74 1.00
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (64 bp):
CATGCGACCTAGCTACATATATCCCATAGCTCTCTTGTCTACATGGTGTACAAATAGTATCACC
Found at i:16352031 original size:46 final size:46
Alignment explanation
Indices: 16351972--16352083 Score: 179
Period size: 46 Copynumber: 2.4 Consensus size: 46
16351962 TAGGATGGTT
* *
16351972 GAACATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
16352018 GAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
16352064 GAAAGCCCGAGCTCGTTGAG
1 GAACGTCCGAACTCGTTGAG
16352084 GGTAGCCTGA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 61 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (46 bp):
GAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:16352096 original size:46 final size:46
Alignment explanation
Indices: 16351981--16352102 Score: 167
Period size: 46 Copynumber: 2.7 Consensus size: 46
16351971 TGAACATCCA
* * *
16351981 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
1 AACTCGTTGAGGTGAGTCCGAGTTCACTTATGGATGCGAAAGCCCG
*
16352027 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGCCCG
1 AACTCGTTGAGGTGAGTCCGAGTTCACTTATGGATGCGAAAGCCCG
*
16352073 AGCTCGTTGAGG-GTAG-CCTGAGTTCACTTA
1 AACTCGTTGAGGTG-AGTCC-GAGTTCACTTA
16352103 GGGGCGGGTT
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
45 3 0.04
46 67 0.96
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
AACTCGTTGAGGTGAGTCCGAGTTCACTTATGGATGCGAAAGCCCG
Found at i:16358069 original size:43 final size:43
Alignment explanation
Indices: 16358022--16358116 Score: 172
Period size: 43 Copynumber: 2.2 Consensus size: 43
16358012 CGGCTAGAGT
16358022 ACACGCCCAGGTGGGTAGGCCGTGTCTCTCACACGGCCAAGAC
1 ACACGCCCAGGTGGGTAGGCCGTGTCTCTCACACGGCCAAGAC
* *
16358065 ACACGCCCATGTGGGTAGGCCGTGTCTCTCACACGGCCAAGAT
1 ACACGCCCAGGTGGGTAGGCCGTGTCTCTCACACGGCCAAGAC
16358108 ACACGCCCA
1 ACACGCCCA
16358117 CGTCTAAGCC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.22, C:0.36, G:0.27, T:0.15
Consensus pattern (43 bp):
ACACGCCCAGGTGGGTAGGCCGTGTCTCTCACACGGCCAAGAC
Found at i:16365728 original size:12 final size:12
Alignment explanation
Indices: 16365711--16365753 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
16365701 TAATCAACAC
16365711 TAAAAAATATGT
1 TAAAAAATATGT
*
16365723 T-AAAAATACTTAT
1 TAAAAAATA--TGT
16365736 TAAAAAATATGT
1 TAAAAAATATGT
16365748 TAAAAA
1 TAAAAA
16365754 TACTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 7 0.27
12 9 0.35
13 3 0.12
14 7 0.27
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (12 bp):
TAAAAAATATGT
Done.