Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 49 of 343
Found at i:16223867 original size:7 final size:7
Alignment explanation
Indices: 16223855--16223884 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
16223845 TAACAAATTT
16223855 ATATTAA
1 ATATTAA
16223862 ATATTAA
1 ATATTAA
16223869 ATATTAA
1 ATATTAA
*
16223876 ATATCAA
1 ATATTAA
16223883 AT
1 AT
16223885 TTTATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (7 bp):
ATATTAA
Found at i:16232453 original size:13 final size:13
Alignment explanation
Indices: 16232435--16232463 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
16232425 TTTAAATTTT
16232435 TATAAAATAAAAA
1 TATAAAATAAAAA
16232448 TATAAAATAAAAA
1 TATAAAATAAAAA
16232461 TAT
1 TAT
16232464 TAATGTGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
TATAAAATAAAAA
Found at i:16244247 original size:3 final size:3
Alignment explanation
Indices: 16244239--16244272 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
16244229 ACCAAAGAAA
16244239 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16244273 GTAAGGAAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16244728 original size:15 final size:15
Alignment explanation
Indices: 16244710--16244740 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16244700 AATAAAAAAT
*
16244710 TTTAAAATATATAAA
1 TTTAAAAAATATAAA
16244725 TTTAAAAAATATAAA
1 TTTAAAAAATATAAA
16244740 T
1 T
16244741 ATATATATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TTTAAAAAATATAAA
Found at i:16252248 original size:16 final size:17
Alignment explanation
Indices: 16252227--16252261 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
16252217 ACATTTGTAA
16252227 TAAAT-ATATTGATTAT
1 TAAATAATATTGATTAT
16252243 TAAATAGATATTGATTAT
1 TAAATA-ATATTGATTAT
16252261 T
1 T
16252262 GTTATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
18 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (17 bp):
TAAATAATATTGATTAT
Found at i:16257192 original size:48 final size:48
Alignment explanation
Indices: 16257121--16257219 Score: 189
Period size: 48 Copynumber: 2.1 Consensus size: 48
16257111 ATAAGTGTGC
16257121 TACCCCCATAGGATATTATTAATCTCTTTGGGATAAATTTGTTAACCT
1 TACCCCCATAGGATATTATTAATCTCTTTGGGATAAATTTGTTAACCT
*
16257169 TACCCCCATAGGATATTCTTAATCTCTTTGGGATAAATTTGTTAACCT
1 TACCCCCATAGGATATTATTAATCTCTTTGGGATAAATTTGTTAACCT
16257217 TAC
1 TAC
16257220 ATCTTCCTTC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.39
Consensus pattern (48 bp):
TACCCCCATAGGATATTATTAATCTCTTTGGGATAAATTTGTTAACCT
Found at i:16260442 original size:28 final size:29
Alignment explanation
Indices: 16260381--16260449 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 29
16260371 TTCGGGCAAG
* * *
16260381 ATGGGTCATATAAATGTGATTTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGGGCCTA
16260410 ATGGGCCATATGAATGAGA-TTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGGGCCTA
*
16260438 GTGGGCCATATG
1 ATGGGCCATATG
16260450 CATGTATGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 20 0.56
29 16 0.44
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.29
Consensus pattern (29 bp):
ATGGGCCATATGAATGAGATTTGGGCCTA
Found at i:16272008 original size:23 final size:23
Alignment explanation
Indices: 16271974--16272030 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
16271964 GATGCCTATA
16271974 TGGCATGA-TCTACAAAGCCTT-AG
1 TGGCAT-ATTCTACAAAG-CTTGAG
* *
16271997 TGGCATATTCTATAAAGCTTGTG
1 TGGCATATTCTACAAAGCTTGAG
16272020 TGGCATATTCT
1 TGGCATATTCT
16272031 GTATCGCCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 4 0.13
23 26 0.87
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (23 bp):
TGGCATATTCTACAAAGCTTGAG
Found at i:16273648 original size:13 final size:13
Alignment explanation
Indices: 16273630--16273655 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16273620 AAGCTACCTT
16273630 ACACGGGCGTGTC
1 ACACGGGCGTGTC
16273643 ACACGGGCGTGTC
1 ACACGGGCGTGTC
16273656 CCTGTCGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:16277130 original size:4 final size:4
Alignment explanation
Indices: 16277121--16277162 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
16277111 TATAAGATAA
16277121 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
16277163 TTCCTTAACC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:16278227 original size:26 final size:27
Alignment explanation
Indices: 16278182--16278232 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
16278172 CAAATACCAC
* *
16278182 AAAAATTTCAAGAGATCCTATAATGCT
1 AAAAATTTCAAGAGAACCTAAAATGCT
*
16278209 AAAAGTTTCAAGA-AACCTAAAATG
1 AAAAATTTCAAGAGAACCTAAAATG
16278233 AAGAAAGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 9 0.43
27 12 0.57
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (27 bp):
AAAAATTTCAAGAGAACCTAAAATGCT
Found at i:16281016 original size:23 final size:25
Alignment explanation
Indices: 16280985--16281031 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
16280975 TTATATGAAA
16280985 ATATACTCAATAAGATT-TAATTCC
1 ATATACTCAATAAGATTCTAATTCC
* *
16281009 ATAT-CTCACTCAGATTCTAATTC
1 ATATACTCAATAAGATTCTAATTC
16281032 AATTTCTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.38
Consensus pattern (25 bp):
ATATACTCAATAAGATTCTAATTCC
Found at i:16285625 original size:22 final size:21
Alignment explanation
Indices: 16285561--16285627 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 21
16285551 CAGAAAATAA
*
16285561 ATATTGCTGCTATTTTTTATT
1 ATATTGCTACTATTTTTTATT
* **
16285582 ATTTTGCTA-TCATTTCACTATT
1 ATATTGCTACT-ATTT-TTTATT
16285604 ATATTGCTACTATTTTGTTATT
1 ATATTGCTACTATTTT-TTATT
16285626 AT
1 AT
16285628 TATCTGGATA
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
20 1 0.03
21 11 0.31
22 22 0.63
23 1 0.03
ACGTcount: A:0.22, C:0.12, G:0.07, T:0.58
Consensus pattern (21 bp):
ATATTGCTACTATTTTTTATT
Found at i:16289002 original size:33 final size:33
Alignment explanation
Indices: 16288960--16289026 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
16288950 TACTTTTATC
16288960 AAATTCATCGGCACTTGGCCTACTAGGTATAAA
1 AAATTCATCGGCACTTGGCCTACTAGGTATAAA
16288993 AAATTCATCGGCACTTGGCCTACTAGGTATAAA
1 AAATTCATCGGCACTTGGCCTACTAGGTATAAA
16289026 A
1 A
16289027 CCCGAAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (33 bp):
AAATTCATCGGCACTTGGCCTACTAGGTATAAA
Found at i:16289124 original size:39 final size:39
Alignment explanation
Indices: 16289043--16289214 Score: 215
Period size: 39 Copynumber: 4.4 Consensus size: 39
16289033 ATTATATTAT
* * *
16289043 CAGCACAAAGCCTGCGGGACTTTAACCCAG-TACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
16289081 CAGCACGAATCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
16289120 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * * * *
16289159 CAGCACGAAGCCTGC-GGACCCTAAGTCCGGATATAATTC
1 CAGCACGAAGCCTGCGGGA-CTTTAGCCCGGATACATTTC
16289198 CAGCAC-ATAGCCTGCGG
1 CAGCACGA-AGCCTGCGG
16289215 ACCCTAAGTC
Statistics
Matches: 118, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
38 29 0.25
39 88 0.75
40 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.20
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:16289215 original size:39 final size:39
Alignment explanation
Indices: 16289073--16289232 Score: 182
Period size: 39 Copynumber: 4.1 Consensus size: 39
16289063 TTTAACCCAG
* * ** *
16289073 TACATTTCCAGCACGAATCCTGCGGGA-CTTTGGCCCGGA
1 TACATTTCCAGCACGAAGCCTGC-GGACCCTAAGTCCGGA
* * *
16289112 TACATTTCCAGCACGAAGCCTGCGGGA-CTTTAGCCCGGA
1 TACATTTCCAGCACGAAGCCTGC-GGACCCTAAGTCCGGA
16289151 TACATTTCCAGCACGAAGCCTGCGGACCCTAAGTCCGGA
1 TACATTTCCAGCACGAAGCCTGCGGACCCTAAGTCCGGA
* *
16289190 TATAATTCCAGCAC-ATAGCCTGCGGACCCTAAGTCCGGA
1 TACATTTCCAGCACGA-AGCCTGCGGACCCTAAGTCCGGA
16289229 TACA
1 TACA
16289233 CATCAAATAT
Statistics
Matches: 111, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
38 4 0.04
39 107 0.96
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.21
Consensus pattern (39 bp):
TACATTTCCAGCACGAAGCCTGCGGACCCTAAGTCCGGA
Found at i:16292070 original size:41 final size:43
Alignment explanation
Indices: 16291994--16292086 Score: 127
Period size: 41 Copynumber: 2.2 Consensus size: 43
16291984 GTACCTAATA
*
16291994 CCTCATCGGATTTAATCCAAAGCAATAATACGACAC-ATAGTG
1 CCTCATCGGAATTAATCCAAAGCAATAATACGACACAATAGTG
* * *
16292036 CCTCATCGGAATT-ATCCGAAGCAATATTATGACACATATAGTG
1 CCTCATCGGAATTAATCCAAAGCAATAATACGACACA-ATAGTG
16292079 CCTCATCG
1 CCTCATCG
16292087 ACTCGAGGTC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
41 19 0.42
42 12 0.27
43 14 0.31
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (43 bp):
CCTCATCGGAATTAATCCAAAGCAATAATACGACACAATAGTG
Found at i:16293034 original size:16 final size:17
Alignment explanation
Indices: 16293006--16293039 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
16292996 TTTCCTTCTC
16293006 TGTTTCAATTTCTATTA
1 TGTTTCAATTTCTATTA
*
16293023 TGTTTC-ATTTCTTTTA
1 TGTTTCAATTTCTATTA
16293039 T
1 T
16293040 TTGTTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TGTTTCAATTTCTATTA
Found at i:16296630 original size:2 final size:2
Alignment explanation
Indices: 16296623--16296654 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
16296613 TATTCCATGC
16296623 AT AT AT AT AT AT AT AT -T AT AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16296655 GCACATGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:16297028 original size:22 final size:22
Alignment explanation
Indices: 16296994--16297044 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
16296984 AAATTTAATA
16296994 TAAAATTA--TAA-TTAACTCG
1 TAAAATTATTTAATTTAACTCG
16297013 TAAATATTATTTAATTTAACTCG
1 TAAA-ATTATTTAATTTAACTCG
16297036 TAAAATTAT
1 TAAAATTAT
16297045 GGAAACGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.14
20 4 0.14
22 8 0.29
23 12 0.43
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (22 bp):
TAAAATTATTTAATTTAACTCG
Found at i:16308982 original size:24 final size:24
Alignment explanation
Indices: 16308953--16308998 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
16308943 TTTTAAAATA
*
16308953 TTTTATATAACGCTCAATATTATT
1 TTTTATACAACGCTCAATATTATT
*
16308977 TTTTATACAACGTTCAATATTA
1 TTTTATACAACGCTCAATATTA
16308999 ATTATTTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.35, C:0.13, G:0.04, T:0.48
Consensus pattern (24 bp):
TTTTATACAACGCTCAATATTATT
Found at i:16309407 original size:21 final size:22
Alignment explanation
Indices: 16309383--16309449 Score: 57
Period size: 21 Copynumber: 3.0 Consensus size: 22
16309373 AAATTAATTT
16309383 TTAATTAAACATTAT-TTATTA
1 TTAATTAAACATTATCTTATTA
* **
16309404 TTAAGTTAAAACATGATGATATTA
1 TTAA-TT-AAACATTATCTTATTA
* *
16309428 TT-ATAAAATATTATCTTATTA
1 TTAATTAAACATTATCTTATTA
16309449 T
1 T
16309450 AAAATAAATT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
21 17 0.47
22 3 0.08
23 9 0.25
24 7 0.19
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (22 bp):
TTAATTAAACATTATCTTATTA
Found at i:16309698 original size:125 final size:125
Alignment explanation
Indices: 16309472--16309698 Score: 346
Period size: 125 Copynumber: 1.8 Consensus size: 125
16309462 GTCTGTCTAG
* * **
16309472 AGAAAATGCTATTATAAATTTATAATGTTTTGTAGCAAATATATTTATATTTAGACTTATCCATG
1 AGAAAATGCTATTATAAATTTATAATATTTTGTAGCAAATATATTTATATTTAAACTTATCCACA
* * *
16309537 GATTAAGTAACCAACCCAGCTCGACTTGATGAGATTGGATAATAAATTTTATCTGTTCAA
66 GATTAAATAACCAACCCAGCTCGACTCGACGAGATTGGATAATAAATTTTATCTGTTCAA
* *
16309597 AGAAAATGTTATTATAAATTTATAATATTTTGTAGCAAATATATTTATATTTAAATTTATCCACA
1 AGAAAATGCTATTATAAATTTATAATATTTTGTAGCAAATATATTTATATTTAAACTTATCCACA
* * *
16309662 GATTAAATGACCAGCCCAGCTCGACTCGACGGGATTG
66 GATTAAATAACCAACCCAGCTCGACTCGACGAGATTG
16309699 TGTAAAAAGC
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
125 90 1.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (125 bp):
AGAAAATGCTATTATAAATTTATAATATTTTGTAGCAAATATATTTATATTTAAACTTATCCACA
GATTAAATAACCAACCCAGCTCGACTCGACGAGATTGGATAATAAATTTTATCTGTTCAA
Found at i:16314867 original size:85 final size:88
Alignment explanation
Indices: 16314698--16314859 Score: 210
Period size: 86 Copynumber: 1.9 Consensus size: 88
16314688 GTTGGTATTG
* * *
16314698 ATCTAAATTATTGTGTAAGACCGTGTCTGGGACGCAGGCAACGAATTGAAATTTACGTGTAAGAC
1 ATCTAAATTATTGTATAAGACCGTGTCTGGGACGCAGGCAACGAACTGAAATTTACATGTAAGAC
*
16314763 CATGTCCGGGACATCGGCATCGT
66 CACGTCCGGGACATCGGCATCGT
*
16314786 ATCT-AATT-TTGTATAAGACTC-TGTCTGGGACAG-AGGCATCGATACTG-AA-TTACATGTAA
1 ATCTAAATTATTGTATAAGAC-CGTGTCTGGGAC-GCAGGCAACGA-ACTGAAATTTACATGTAA
16314845 GACCACGTCCGGGAC
63 GACCACGTCCGGGAC
16314860 GTTGGCATTA
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
85 23 0.35
86 30 0.45
87 9 0.14
88 4 0.06
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (88 bp):
ATCTAAATTATTGTATAAGACCGTGTCTGGGACGCAGGCAACGAACTGAAATTTACATGTAAGAC
CACGTCCGGGACATCGGCATCGT
Found at i:16327400 original size:46 final size:45
Alignment explanation
Indices: 16327349--16327615 Score: 233
Period size: 46 Copynumber: 5.8 Consensus size: 45
16327339 TATTTGGGCA
*
16327349 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACG
* *
16327395 TCCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGGAAC---G
16327440 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACG
* * * * *
16327488 TCCGAACTCATTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAC---G
**
16327533 CATATGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACG
* * * *
16327581 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
16327616 AGGCGGGTTA
Statistics
Matches: 178, Mismatches: 23, Indels: 40
0.74 0.10 0.17
Matches are distributed among these distances:
42 10 0.06
43 8 0.04
45 5 0.03
46 81 0.46
47 51 0.29
48 5 0.03
50 8 0.04
51 10 0.06
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACG
Found at i:16327504 original size:93 final size:93
Alignment explanation
Indices: 16327345--16327610 Score: 451
Period size: 93 Copynumber: 2.9 Consensus size: 93
16327335 TGGATATTTG
* *
16327345 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
*
16327410 TTGAGTCCGAGTTTGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
16327438 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
*
16327503 TTGAGTCTGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
** * * *
16327531 GGCATATGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
16327596 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
16327611 CTTATAGGCG
Statistics
Matches: 163, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 163 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:16327563 original size:47 final size:47
Alignment explanation
Indices: 16327395--16327563 Score: 195
Period size: 47 Copynumber: 3.6 Consensus size: 47
16327385 GATGCGAACG
*
16327395 TCCGAACTCGTTGAGTTGAGTCCGAGTTTGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
* * *
16327442 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCA
* *
16327488 TCCGAACTCATTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
**
16327535 TATGAACTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
16327564 ACTTATGGAT
Statistics
Matches: 100, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 27 0.27
47 53 0.53
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.30
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:16329673 original size:19 final size:19
Alignment explanation
Indices: 16329649--16329696 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
16329639 TGTGTCACGC
16329649 CCGTGTGCAAGTGCTCAAG
1 CCGTGTGCAAGTGCTCAAG
16329668 CCGTGTGCAAGTGCTCAAG
1 CCGTGTGCAAGTGCTCAAG
*
16329687 CTGTGTGCAA
1 CCGTGTGCAA
16329697 TTCTAACTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.31, T:0.23
Consensus pattern (19 bp):
CCGTGTGCAAGTGCTCAAG
Found at i:16337501 original size:273 final size:273
Alignment explanation
Indices: 16336756--16337575 Score: 1489
Period size: 273 Copynumber: 3.0 Consensus size: 273
16336746 CGCCTTACCT
*
16336756 CTCCAAGCCTGTCGATCTTCATATAAATGACAAGAGAGAGGAATACTCATGACTTTTGTTGCCTC
1 CTCCAAGCCTGTCGATCTTCATATAAATGACAAGAGAGAAGAATACTCATGACTTTTGTTGCCTC
* *
16336821 TTCAGTAGACATAAACTAGTAATTACATCCTCGTTCCACTTCCTCGAATTTTGATTTATAAGTTC
66 TTCAATAGACATAAACTAGTAATTACATCCTCGTTCCACTTCCTCGAATTTTGATATATAAGTTC
*
16336886 AAAAACCAATCTTAGATTTTGACCCATTACATTTCTTTGAAGCTCATAGTTCTCCAAGTTTGGCA
131 AGAAACCAATCTTAGATTTTGACCCATTACATTTCTTTGAAGCTCATAGTTCTCCAAGTTTGGCA
* * *
16336951 CCCAGGCCTCATTCCATATCAATATTCTAGTTCCCATTCCCATCCTCCAACACATACCTAATTGG
196 CCCAGGCATCATTTCATATCAATATTCTAGTTCCCATTCCCATCCTCCAACACATGCCTAATTGG
16337016 AGCAATCCTTTCG
261 AGCAATCCTTTCG
16337029 CTCCAAGCCTGTCGATCTTCATATAAATGACAAGAGAGAAGAATACTCAT-ACTTTTGTTGCCTC
1 CTCCAAGCCTGTCGATCTTCATATAAATGACAAGAGAGAAGAATACTCATGACTTTTGTTGCCTC
16337093 TTCAATAGACATAAACTAGTAATTACATCCTCGTTCCACTTCCTCGAATTTTGATATATAAGTTC
66 TTCAATAGACATAAACTAGTAATTACATCCTCGTTCCACTTCCTCGAATTTTGATATATAAGTTC
*
16337158 AGAAACTAATCTTAGATTTTGACCCATTACATTTCTTTGAAGCTCATAGTTCTCCAAGTTTGGCA
131 AGAAACCAATCTTAGATTTTGACCCATTACATTTCTTTGAAGCTCATAGTTCTCCAAGTTTGGCA
*
16337223 CCCAGGCGTCATTTCATATCAATATTCTAGTTCCCATTCCCATCCTCCAACACATGCCTAATTGG
196 CCCAGGCATCATTTCATATCAATATTCTAGTTCCCATTCCCATCCTCCAACACATGCCTAATTGG
16337288 AGCAATCCTTTCG
261 AGCAATCCTTTCG
*
16337301 CTCCAAGCCTGTCGATCTTCATATAAATGACAAGAGAGAAGACTACTCATGACTTTTGTTGCCTC
1 CTCCAAGCCTGTCGATCTTCATATAAATGACAAGAGAGAAGAATACTCATGACTTTTGTTGCCTC
*
16337366 TTCAATAGACATAAACTAGTAATTACATCCTCATTCCACTTCCTCGAATTTTGATATATAAGTTC
66 TTCAATAGACATAAACTAGTAATTACATCCTCGTTCCACTTCCTCGAATTTTGATATATAAGTTC
* *
16337431 AGAAACCAATCTTAGATTTTAACCCGTTACATTTCTTTGAAGCTCATAGTTCTCCAAGTTTGGCA
131 AGAAACCAATCTTAGATTTTGACCCATTACATTTCTTTGAAGCTCATAGTTCTCCAAGTTTGGCA
* * *
16337496 CCCAGGCATCATTTCATATCGATATTCTAGTTCTCATTCCCACCCTCCAACACATGCCTAATTGG
196 CCCAGGCATCATTTCATATCAATATTCTAGTTCCCATTCCCATCCTCCAACACATGCCTAATTGG
16337561 AGCAATCCTTTCG
261 AGCAATCCTTTCG
16337574 CT
1 CT
16337576 GCCTAAATGC
Statistics
Matches: 529, Mismatches: 17, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
272 264 0.50
273 265 0.50
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (273 bp):
CTCCAAGCCTGTCGATCTTCATATAAATGACAAGAGAGAAGAATACTCATGACTTTTGTTGCCTC
TTCAATAGACATAAACTAGTAATTACATCCTCGTTCCACTTCCTCGAATTTTGATATATAAGTTC
AGAAACCAATCTTAGATTTTGACCCATTACATTTCTTTGAAGCTCATAGTTCTCCAAGTTTGGCA
CCCAGGCATCATTTCATATCAATATTCTAGTTCCCATTCCCATCCTCCAACACATGCCTAATTGG
AGCAATCCTTTCG
Found at i:16342556 original size:20 final size:20
Alignment explanation
Indices: 16342531--16342571 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
16342521 AATTCTTTAT
16342531 TAAATTTAAATCTATTATAA
1 TAAATTTAAATCTATTATAA
16342551 TAAATTTAAATCTATTATAA
1 TAAATTTAAATCTATTATAA
16342571 T
1 T
16342572 GTTTTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
TAAATTTAAATCTATTATAA
Found at i:16350618 original size:23 final size:23
Alignment explanation
Indices: 16350592--16350639 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
16350582 ATCGGCTTTC
*
16350592 CTTGAGTAATCCCTTGCCTCCTA
1 CTTGAGTAATCCATTGCCTCCTA
*
16350615 CTTGAGTAATTCATTGCCTCCTA
1 CTTGAGTAATCCATTGCCTCCTA
16350638 CT
1 CT
16350640 CTCTGTATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.19, C:0.31, G:0.12, T:0.38
Consensus pattern (23 bp):
CTTGAGTAATCCATTGCCTCCTA
Found at i:16364574 original size:46 final size:45
Alignment explanation
Indices: 16364491--16364662 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 45
16364481 CTAGTAGCTG
* * **
16364491 ATGCATGTCCCAAACATGTCTTACACTGGCT-TACATCTTGAGGCTG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATC-TGAGGCCA
* * **
16364537 ATGCATGTCCCAGACATGTCTTACACTAACTCTCATCTCACTACCA
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTGA-GGCCA
* ** * *
16364583 ATGCCATGTCCCTGACATGTTCTTACACTAGCTCTTGTAATGTGGCCA
1 ATG-CATGTCCCAGACATG-TCTTACACTAGCTCTCAT-CTGAGGCCA
16364631 ATGCATGTCCCAGACATGTCTTACACTAGCTC
1 ATGCATGTCCCAGACATGTCTTACACTAGCTC
16364663 ACAATAGTCC
Statistics
Matches: 103, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
45 2 0.02
46 50 0.49
47 29 0.28
48 21 0.20
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTGAGGCCA
Found at i:16367678 original size:29 final size:31
Alignment explanation
Indices: 16367600--16367680 Score: 75
Period size: 30 Copynumber: 2.7 Consensus size: 31
16367590 TAGGCCCCTG
*
16367600 TATTATTTATAAA-TTTAAAATTTAATTTTTA
1 TATT-TTTATAAATTTTAAAATTAAATTTTTA
*
16367631 TATTTTTGT---TTTTAAAAAATTAAATTTTT-
1 TATTTTTATAAATTTT--AAAATTAAATTTTTA
16367660 TATTTTT-TAAATTTTAAAATT
1 TATTTTTATAAATTTTAAAATT
16367681 TTGGTTCAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
28 4 0.10
29 13 0.31
30 17 0.40
31 8 0.19
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (31 bp):
TATTTTTATAAATTTTAAAATTAAATTTTTA
Found at i:16368019 original size:22 final size:22
Alignment explanation
Indices: 16367994--16368043 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
16367984 TGTATTTATA
* *
16367994 TATTTTTTTATAATTTTCTATT
1 TATTTTTTTAGAATTTTCAATT
*
16368016 TATTCTTTTAGAATTTTCAATT
1 TATTTTTTTAGAATTTTCAATT
16368038 TCATTT
1 T-ATTT
16368044 AAAAGAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.66
Consensus pattern (22 bp):
TATTTTTTTAGAATTTTCAATT
Found at i:16368066 original size:20 final size:21
Alignment explanation
Indices: 16368025--16368074 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
16368015 TTATTCTTTT
16368025 AGAATTTTCAATTTCATTTAAA
1 AGAATTTTCAATTT-ATTTAAA
*
16368047 AGAATTTTGAATTT-TTTAAA
1 AGAATTTTCAATTTATTTAAA
*
16368067 ATAATTTT
1 AGAATTTT
16368075 TATATAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 13 0.50
22 13 0.50
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (21 bp):
AGAATTTTCAATTTATTTAAA
Found at i:16374284 original size:17 final size:17
Alignment explanation
Indices: 16374258--16374290 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16374248 TAAAGAAAAT
*
16374258 TTAAAGCAACTTATAAA
1 TTAAAACAACTTATAAA
16374275 TTAAAACAACTTATAA
1 TTAAAACAACTTATAA
16374291 TTGGGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.30
Consensus pattern (17 bp):
TTAAAACAACTTATAAA
Found at i:16378160 original size:2 final size:2
Alignment explanation
Indices: 16378153--16378182 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
16378143 ATAGAATTAA
*
16378153 AG AG AG AG AG AG AG AG AG AG AG GG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16378183 TAACTGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16381629 original size:175 final size:174
Alignment explanation
Indices: 16381332--16381806 Score: 665
Period size: 174 Copynumber: 2.7 Consensus size: 174
16381322 AATTTGCATA
* * * * *
16381332 TTTGTTGCTGTGATGATTATATTAAAATTTATGAAAATTTTGTGAATCATCGGCAACTATGTCGA
1 TTTGTTGCTGTGATGATTATATTAGAATTTATGAAAAATTTATGAAACATCGACAACTATGTCGA
* * *
16381397 TCTGAGCGGTTACCTGAGCAACAAAATTTGTTCAAATTCTA-TCTCTTTGTAGATTTATCATATT
66 TCTGAGCGGTTACCTGAGCAACAAAATTTGTTCAAATTC-AGTTTCTTTGTTGATTTAT--TA-C
16381461 G-T-TTTAATCGTCTTACAATTA-ATCTTATTGTATGTGAATATGCAG-T
127 GCTCTTTAATCGTCTTACAA-TACATCTTATTGTATGTGAATATG-AGAT
16381507 TTTGTTGCTGTGATGATTATATTAGAATTTATGAAAAATTTATGAAACATCGACAACTATGTCGA
1 TTTGTTGCTGTGATGATTATATTAGAATTTATGAAAAATTTATGAAACATCGACAACTATGTCGA
*
16381572 TCTGAGCGGTTACCTGAGCAACAAAATTTGTTCAAATTCAGTTTCCTTGTTGATTTATTACGCTC
66 TCTGAGCGGTTACCTGAGCAACAAAATTTGTTCAAATTCAGTTTCTTTGTTGATTTATTACGCTC
* * ** * * *
16381637 TTTAGTTGTCTTATGATACATTTTATTGTATGTGAATCTGTGAT
131 TTTAATCGTCTTACAATACATCTTATTGTATGTGAATATGAGAT
* *
16381681 TTTGTTGCTGTGATGATTATATTAGAATTTATG-AAAATTTAATGAAACATTGACAACCATGTCG
1 TTTGTTGCTGTGATGATTATATTAGAATTTATGAAAAATTT-ATGAAACATCGACAACTATGTCG
* *
16381745 ATCTGAGCGGTTACATGAGCAACAAAATTTGTTCAAATTCAGTTTCTTTCTTGATTTATTAC
65 ATCTGAGCGGTTACCTGAGCAACAAAATTTGTTCAAATTCAGTTTCTTTGTTGATTTATTAC
16381807 TTTGGTTTAG
Statistics
Matches: 273, Mismatches: 21, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
172 1 0.00
173 13 0.05
174 146 0.53
175 113 0.41
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.41
Consensus pattern (174 bp):
TTTGTTGCTGTGATGATTATATTAGAATTTATGAAAAATTTATGAAACATCGACAACTATGTCGA
TCTGAGCGGTTACCTGAGCAACAAAATTTGTTCAAATTCAGTTTCTTTGTTGATTTATTACGCTC
TTTAATCGTCTTACAATACATCTTATTGTATGTGAATATGAGAT
Found at i:16384722 original size:16 final size:15
Alignment explanation
Indices: 16384696--16384730 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
16384686 TGATGTGAAT
16384696 AATATAAAATATTAA
1 AATATAAAATATTAA
*
16384711 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
16384727 AATA
1 AATA
16384731 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:16384902 original size:20 final size:20
Alignment explanation
Indices: 16384845--16384904 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
16384835 AATACTACAT
16384845 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
16384864 AAATAAATACTTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
16384887 AAATATGTACATAATATA
1 AAATATGTACATAATATA
16384905 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:16384923 original size:26 final size:25
Alignment explanation
Indices: 16384885--16384947 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
16384875 TGATAATATT
** *
16384885 AAAAATATGTACATAATATAGTGTAA
1 AAAAATACATACATAATATAAT-TAA
16384911 AAAAATACATACATAATATAATTAA
1 AAAAATACATACATAATATAATTAA
*
16384936 AATATATACATA
1 AA-AAATACATA
16384948 AGATAACATG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 5 0.16
26 27 0.84
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.30
Consensus pattern (25 bp):
AAAAATACATACATAATATAATTAA
Found at i:16384937 original size:22 final size:22
Alignment explanation
Indices: 16384912--16384953 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
16384902 ATAGTGTAAA
*
16384912 AAAATACATACATAATATAATT
1 AAAATACATACATAAGATAATT
*
16384934 AAAATATATACATAAGATAA
1 AAAATACATACATAAGATAA
16384954 CATGTAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAATACATACATAAGATAATT
Found at i:16384990 original size:15 final size:14
Alignment explanation
Indices: 16384958--16385019 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 14
16384948 AGATAACATG
16384958 TAAATATATATATA
1 TAAATATATATATA
16384972 TAAATA-ATATAGTA
1 TAAATATATATA-TA
* *
16384986 TTAAAGATATATACA
1 -TAAATATATATATA
16385001 TAAAATAGTATAATATA
1 T-AAATA-TAT-ATATA
16385018 TA
1 TA
16385020 TACGTAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
13 5 0.13
14 9 0.24
15 10 0.26
16 9 0.24
17 5 0.13
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (14 bp):
TAAATATATATATA
Found at i:16384995 original size:25 final size:24
Alignment explanation
Indices: 16384967--16385098 Score: 110
Period size: 23 Copynumber: 5.6 Consensus size: 24
16384957 GTAAATATAT
*
16384967 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATT-AAG
* *
16384992 ATATATACATAAAATAGTA-TAAT
1 ATATATACATAATATAGTATTAAG
* * *
16385015 ATATATACGTAATATAGAATTTAG
1 ATATATACATAATATAGTATTAAG
* * *
16385039 A-ATATACCTAATATATTA-AAAG
1 ATATATACATAATATAGTATTAAG
* *
16385061 AATATATATATAATATAATATTAAG
1 -ATATATACATAATATAGTATTAAG
*
16385086 AAATATA-ATAATA
1 ATATATACATAATA
16385099 ACAAAAAAAA
Statistics
Matches: 85, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
22 2 0.02
23 39 0.46
24 24 0.28
25 20 0.24
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (24 bp):
ATATATACATAATATAGTATTAAG
Found at i:16385074 original size:24 final size:23
Alignment explanation
Indices: 16385047--16385098 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
16385037 AGAATATACC
*
16385047 TAATATATTA-AAAGAATATATATA
1 TAATATAATATAAAGAA-ATATA-A
*
16385071 TAATATAATATTAAGAAATATAA
1 TAATATAATATAAAGAAATATAA
16385094 TAATA
1 TAATA
16385099 ACAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
TAATATAATATAAAGAAATATAA
Found at i:16388235 original size:32 final size:32
Alignment explanation
Indices: 16388194--16388256 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
16388184 TAATATACAT
* *
16388194 ATATGGTAAGGTATTGAAACAAAATAGGAAAG
1 ATATGGTAAGGAATTGAAACAAAACAGGAAAG
16388226 ATATGGTAAGGAATTGAAACAAAACAGGAAA
1 ATATGGTAAGGAATTGAAACAAAACAGGAAA
16388257 CATAGGTGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.52, C:0.05, G:0.24, T:0.19
Consensus pattern (32 bp):
ATATGGTAAGGAATTGAAACAAAACAGGAAAG
Found at i:16389091 original size:24 final size:24
Alignment explanation
Indices: 16389064--16389115 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
16389054 TTAGTAAGTC
*
16389064 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
16389088 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
16389112 AAAT
1 AAAT
16389116 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:16391060 original size:24 final size:24
Alignment explanation
Indices: 16391033--16391084 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
16391023 TTAGTAAGTC
*
16391033 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
16391057 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
16391081 AAAT
1 AAAT
16391085 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:16391813 original size:23 final size:23
Alignment explanation
Indices: 16391787--16391830 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
16391777 TTTGGGCTTC
16391787 GGTGCTCCTATTACTT-GCACTTT
1 GGTGCTCCTATT-CTTGGCACTTT
*
16391810 GGTGCTTCTATTCTTGGCACT
1 GGTGCTCCTATTCTTGGCACT
16391831 ATCGTGTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.11, C:0.25, G:0.20, T:0.43
Consensus pattern (23 bp):
GGTGCTCCTATTCTTGGCACTTT
Found at i:16394990 original size:21 final size:21
Alignment explanation
Indices: 16394949--16394990 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
16394939 AATTAGTATC
* *
16394949 TAATTAATCTTAACTTTAACT
1 TAATTAATATTAACTTAAACT
16394970 TAATTAATTATTAA-TTAAACT
1 TAATTAA-TATTAACTTAAACT
16394991 AAAGACAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (21 bp):
TAATTAATATTAACTTAAACT
Found at i:16397944 original size:34 final size:35
Alignment explanation
Indices: 16397906--16397975 Score: 90
Period size: 34 Copynumber: 2.0 Consensus size: 35
16397896 AGTCCCTTCT
* *
16397906 AACATGCAATACAACTAA-TACAAACAGATA-ATCA
1 AACATGAAATACAA-AAACTACAAACAGATATATCA
*
16397940 AACATGAAATACAAAAACTGCAAACAGATATATCA
1 AACATGAAATACAAAAACTACAAACAGATATATCA
16397975 A
1 A
16397976 TTCCTTCCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 2 0.06
34 24 0.77
35 5 0.16
ACGTcount: A:0.57, C:0.19, G:0.07, T:0.17
Consensus pattern (35 bp):
AACATGAAATACAAAAACTACAAACAGATATATCA
Found at i:16399430 original size:12 final size:13
Alignment explanation
Indices: 16399413--16399442 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
16399403 TAACCAATGT
16399413 AAAATAATTAA-A
1 AAAATAATTAACA
16399425 AAAATAATTAACA
1 AAAATAATTAACA
16399438 AAAAT
1 AAAAT
16399443 CGCTCTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAATAATTAACA
Found at i:16399966 original size:32 final size:32
Alignment explanation
Indices: 16399930--16399994 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 32
16399920 ATTAATATAC
16399930 ATATATGGTAA-GATATTGAAACAAAATAGGAA
1 ATATATGGTAAGGA-ATTGAAACAAAATAGGAA
16399962 ATATATGGTAAGGAATTGAAACAAAATAGGAA
1 ATATATGGTAAGGAATTGAAACAAAATAGGAA
16399994 A
1 A
16399995 CATAGGTGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 30 0.94
33 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.20, T:0.23
Consensus pattern (32 bp):
ATATATGGTAAGGAATTGAAACAAAATAGGAA
Found at i:16400427 original size:23 final size:21
Alignment explanation
Indices: 16400384--16400430 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
16400374 TAAAAAAAAT
* *
16400384 AAAAAATATATAAATATTTTC
1 AAAAAATATATAAAAAATTTC
16400405 AAAAGAATATAATAAAAAATTTC
1 AAAA-AATAT-ATAAAAAATTTC
16400428 AAA
1 AAA
16400431 TTCTATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 5 0.23
23 13 0.59
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (21 bp):
AAAAAATATATAAAAAATTTC
Found at i:16401255 original size:22 final size:23
Alignment explanation
Indices: 16401213--16401257 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
16401203 TTTAGATAAA
16401213 ATAAAAAATTATTAATAATTTTC
1 ATAAAAAATTATTAATAATTTTC
* *
16401236 ATAAAATATTATT-ATTATTTTC
1 ATAAAAAATTATTAATAATTTTC
16401258 TTAATTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
ATAAAAAATTATTAATAATTTTC
Found at i:16403784 original size:112 final size:112
Alignment explanation
Indices: 16403596--16403817 Score: 365
Period size: 112 Copynumber: 2.0 Consensus size: 112
16403586 GACACATGGT
* *
16403596 CGTGTCTCTACCCGTGTGTTTACTACCTTGCATACTGACTTGTAAAATTTATGTGCATGGGACAC
1 CGTGTCTCTACCCGTGTGTTTACTACCTTGCATACTGACTTGTAAAATTTACGTGCAGGGGACAC
16403661 ACAGCCGGACAACATGCCCATAGGGCTGGCCATGTGTCACACACGAC
66 ACAGCCGGACAACATGCCCATAGGGCTGGCCATGTGTCACACACGAC
*
16403708 CGTGTCTCTACCCGTGTGTTTACTACCATT-CATATTGACTTGTAAAATTTACGTGCAGGGGACA
1 CGTGTCTCTACCCGTGTGTTTACTACC-TTGCATACTGACTTGTAAAATTTACGTGCAGGGGACA
* ** *
16403772 CACGGCCGGACAACATGCTTATGGGGCTGGCCATGTGTCACACACG
65 CACAGCCGGACAACATGCCCATAGGGCTGGCCATGTGTCACACACG
16403818 GCCTAGGCAT
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
112 100 0.98
113 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (112 bp):
CGTGTCTCTACCCGTGTGTTTACTACCTTGCATACTGACTTGTAAAATTTACGTGCAGGGGACAC
ACAGCCGGACAACATGCCCATAGGGCTGGCCATGTGTCACACACGAC
Found at i:16411118 original size:21 final size:21
Alignment explanation
Indices: 16411064--16411119 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
16411054 CTTTGAAATA
* *
16411064 GGGC-ACACGCCCATGTGGAT
1 GGGCAACACGCCCGTATGGAT
* * *
16411084 AGGAAACACTCCCGTATGGAT
1 GGGCAACACGCCCGTATGGAT
16411105 GGGCAACACGCCCGT
1 GGGCAACACGCCCGT
16411120 GCGAAACTTG
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.25, C:0.30, G:0.30, T:0.14
Consensus pattern (21 bp):
GGGCAACACGCCCGTATGGAT
Found at i:16416435 original size:45 final size:45
Alignment explanation
Indices: 16416368--16416531 Score: 238
Period size: 45 Copynumber: 3.6 Consensus size: 45
16416358 GAACCATAAG
* *
16416368 ATCGAGATATGTGTTTTCGTGTAAGACCACGTCAGGGACGTTGGC
1 ATCGATATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGC
* *
16416413 ATCGATATATGTGTTTTTGTGTAAGACCACGCCTGGGACGTTGGC
1 ATCGATATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGC
* * *
16416458 ATCGATATATGTGTTTTCGTGTAAGACCACCTCTGGAACATTGGC
1 ATCGATATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGC
* * *
16416503 ATCGATCTATGTGGTTACGTGTAAGACCA
1 ATCGATATATGTGTTTTCGTGTAAGACCA
16416532 TTTTTGGGAC
Statistics
Matches: 107, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 107 1.00
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (45 bp):
ATCGATATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGC
Found at i:16416550 original size:45 final size:45
Alignment explanation
Indices: 16416368--16416551 Score: 127
Period size: 45 Copynumber: 4.1 Consensus size: 45
16416358 GAACCATAAG
* * * * * * * **
16416368 ATCGAGATATGTGTTTTCGTGTAAGACCACGTCAGGGACGTTGGC
1 ATCGATATATGTGGTTACGTGTAAGACCACCTCTGGAACATCAGC
* ** * * **
16416413 ATCGATATATGTGTTTTTGTGTAAGACCACGC-CTGGGACGTTGGC
1 ATCGATATATGTGGTTACGTGTAAGACCAC-CTCTGGAACATCAGC
* * **
16416458 ATCGATATATGTGTTTTCGTGTAAGACCACCTCTGGAACATTGGC
1 ATCGATATATGTGGTTACGTGTAAGACCACCTCTGGAACATCAGC
* ** * *
16416503 ATCGATCTATGTGGTTACGTGTAAGACCATTTTTGGGACATCAGC
1 ATCGATATATGTGGTTACGTGTAAGACCACCTCTGGAACATCAGC
16416548 ATCG
1 ATCG
16416552 TATTTGATTC
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
44 1 0.01
45 120 0.99
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (45 bp):
ATCGATATATGTGGTTACGTGTAAGACCACCTCTGGAACATCAGC
Found at i:16416550 original size:90 final size:90
Alignment explanation
Indices: 16416368--16416551 Score: 224
Period size: 90 Copynumber: 2.0 Consensus size: 90
16416358 GAACCATAAG
* * * * **
16416368 ATCGAGATATGTGTTTTCGTGTAAGACCACGTCAGGGACGTTGGCATCGATATATGTGTTTTTGT
1 ATCGAGATATGTGTTTTCGTGTAAGACCACCTCAGGAACATTGGCATCGATATATGTGGTTACGT
* **
16416433 GTAAGACCACGCCTGGGACGTTGGC
66 GTAAGACCACGCCTGGGACATCAGC
* * *
16416458 ATCGATATATGTGTTTTCGTGTAAGACCACCTCTGGAACATTGGCATCGATCTATGTGGTTACGT
1 ATCGAGATATGTGTTTTCGTGTAAGACCACCTCAGGAACATTGGCATCGATATATGTGGTTACGT
****
16416523 GTAAGACCATTTTTGGGACATCAGC
66 GTAAGACCACGCCTGGGACATCAGC
16416548 ATCG
1 ATCG
16416552 TATTTGATTC
Statistics
Matches: 78, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
90 78 1.00
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (90 bp):
ATCGAGATATGTGTTTTCGTGTAAGACCACCTCAGGAACATTGGCATCGATATATGTGGTTACGT
GTAAGACCACGCCTGGGACATCAGC
Found at i:16421587 original size:46 final size:44
Alignment explanation
Indices: 16421515--16421820 Score: 172
Period size: 48 Copynumber: 6.5 Consensus size: 44
16421505 TATGTGTGGT
16421515 AGTGTAAGACATGTCTGGGACATGCATCAGCCAT-AGCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCATGAG-ATGA-AGCC
* *
16421561 AGTGTAAGACATGTCTGGGACCTGCATCGGCC-TCGAGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCAT-GAG--A-TGAAGCC
* * * *
16421609 AGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGACGATAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGCCA-TGAGATGA-AGCC
* * * * *
16421655 AGTGTAAGACATGTCTGGGACATGTATCGGCCCAACGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATC-G-CC-ATGAGAT-GAAGCC
* * * * * * * * *
16421703 AGTGTAAGACCTATCTGGGACATGGCGTTAG-CTTGTGGTG-TGTC
1 AGTGTAAGACATGTCTGGGACAT-GC-ATCGCCATGAGATGAAGCC
* *
16421747 AGTGTAAGACCTGTCTGGGACATGGCATCAGCC-TCGCTACATGAAAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATC-GCCAT-G--AGATG-AAGCC
16421796 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
16421821 GCATTAGCAT
Statistics
Matches: 199, Mismatches: 40, Indels: 39
0.72 0.14 0.14
Matches are distributed among these distances:
43 1 0.01
44 28 0.14
45 4 0.02
46 62 0.31
47 8 0.04
48 63 0.32
49 19 0.10
50 14 0.07
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCATGAGATGAAGCC
Found at i:16421635 original size:48 final size:47
Alignment explanation
Indices: 16421515--16421726 Score: 193
Period size: 48 Copynumber: 4.5 Consensus size: 47
16421505 TATGTGTGGT
* * *
16421515 AGTGTAAGACATGTCTGGGACATGCATCAGCCAT--AG-CATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGAGATATTA-AGCC
*
16421561 AGTGTAAGACATGTCTGGGACCTGCATCGGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATA-TTAAGCC
* * * * *
16421609 AGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGACGA-T-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA-TATTAAGCC
* * * *
16421655 AGTGTAAGACATGTCTGGGACATGTATCGGCC-CAACGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATAT-TAAGCC
* *
16421703 AGTGTAAGACCTATCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
16421727 GCGTTAGCTT
Statistics
Matches: 138, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
45 3 0.02
46 64 0.46
47 3 0.02
48 65 0.47
49 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATTAAGCC
Found at i:16421664 original size:94 final size:94
Alignment explanation
Indices: 16421515--16421726 Score: 259
Period size: 94 Copynumber: 2.3 Consensus size: 94
16421505 TATGTGTGGT
*
16421515 AGTGTAAGACATGTCTGGGACATGCATCAGCCATAGCATGAGAGCCAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATAGCACGAGAGCCAGTGTAAGACATGTCTGGG
* * **
16421580 ACCTGCATCGGCCTCGA-GATATTTAAGCC
66 ACATGCATCGGCC-CAACGATATACAAGCC
* * * *
16421609 AGTGTAAGACATGTCTAGGACATGCATC-GGCATTGAG-ACGATAGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCA-T-AGCACGAGAGCCAGTGTAAGACATGTCTG
* *
16421672 GGACATGTATCGGCCCAACGATATACAAGCT
64 GGACATGCATCGGCCCAACGATATACAAGCC
* *
16421703 AGTGTAAGACCTATCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
16421727 GCGTTAGCTT
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
93 5 0.05
94 94 0.93
95 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATAGCACGAGAGCCAGTGTAAGACATGTCTGGG
ACATGCATCGGCCCAACGATATACAAGCC
Found at i:16427860 original size:6 final size:6
Alignment explanation
Indices: 16427849--16427881 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
16427839 AAAGAAAGAT
*
16427849 AAAATA AAAATA AAGATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
16427882 TAGATGGACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:16427863 original size:17 final size:18
Alignment explanation
Indices: 16427834--16427880 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
16427824 CTTCGAAAAT
*
16427834 AAAT-AAAAGAAAGAT-A
1 AAATAAAAATAAAGATAA
16427850 AAATAAAAATAAAGATAA
1 AAATAAAAATAAAGATAA
16427868 AAATAAAAATAAA
1 AAATAAAAATAAA
16427881 ATAGATGGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
16 4 0.14
17 10 0.36
18 14 0.50
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (18 bp):
AAATAAAAATAAAGATAA
Found at i:16427869 original size:12 final size:11
Alignment explanation
Indices: 16427834--16427881 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
16427824 CTTCGAAAAT
*
16427834 AAATAAAAGAA
1 AAATAAAATAA
*
16427845 AGATAAAATAA
1 AAATAAAATAA
16427856 AAATAAAGATAA
1 AAATAAA-ATAA
16427868 AAATAAAAATAA
1 AAAT-AAAATAA
16427880 AA
1 AA
16427882 TAGATGGACT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
11 15 0.47
12 14 0.44
13 3 0.09
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:16440637 original size:211 final size:212
Alignment explanation
Indices: 16440273--16440697 Score: 730
Period size: 211 Copynumber: 2.0 Consensus size: 212
16440263 TTTTATAAGG
*
16440273 TACATTTATCCAAATTGCAATGGGAAAATCATATGCTTAAATGATCAAATTTGTCCTTTTAGTCT
1 TACATTTATCCAAATTGCAATGGGAAAATCATATGCTTAAATGATCAAATTTGTCCTTTTAATCT
* * * *
16440338 TATGTTTATTGTCACTGCATTATTTATTAAGCTAAATTAAATTAGGCTTAAACAACAAATATTGG
66 TATCTTTATTGTCACTGCATTATTTACTAAGCTAAATTAAATTAGGCATAAACAAAAAATATTGG
* * *
16440403 TCATTACTTCCAAGCATAATGTTAAATTACAT-AAAAAAACAACCAATA-TTGCTCAATGAACAT
131 TCATTACTACCAAGCATAATGTTAAATTACATAAAAAAAACAACAAATATTTG-TCAATCAACAT
16440466 TTGCAACTGCTAGCTGCA
195 TTGCAACTGCTAGCTGCA
16440484 TACATTTATCCAAATTGCAATAGGG-AAATCATATGCTTAAATGATCAAATTTGTCCTTTTAATC
1 TACATTTATCCAAATTGCAAT-GGGAAAATCATATGCTTAAATGATCAAATTTGTCCTTTTAATC
16440548 TTATCTTTATTGTCACTGCATTATTTACTAAGCTAAATTAAATTAGGCATAAACAAAAAATATTG
65 TTATCTTTATTGTCACTGCATTATTTACTAAGCTAAATTAAATTAGGCATAAACAAAAAATATTG
*
16440613 GTCATTACTACCAAGCATAATGTTAAATTACATAAAAAAAACAATAAATATTTGTCAATCAACAT
130 GTCATTACTACCAAGCATAATGTTAAATTACATAAAAAAAACAACAAATATTTGTCAATCAACAT
16440678 TTGCAACTGCTAGCTGCA
195 TTGCAACTGCTAGCTGCA
16440696 TA
1 TA
16440698 TGCCTCTTAC
Statistics
Matches: 202, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
211 152 0.75
212 47 0.23
213 3 0.01
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.35
Consensus pattern (212 bp):
TACATTTATCCAAATTGCAATGGGAAAATCATATGCTTAAATGATCAAATTTGTCCTTTTAATCT
TATCTTTATTGTCACTGCATTATTTACTAAGCTAAATTAAATTAGGCATAAACAAAAAATATTGG
TCATTACTACCAAGCATAATGTTAAATTACATAAAAAAAACAACAAATATTTGTCAATCAACATT
TGCAACTGCTAGCTGCA
Found at i:16441861 original size:17 final size:16
Alignment explanation
Indices: 16441821--16441868 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
16441811 GAATGCTAAT
*
16441821 GATTTAGGGATTTCAA
1 GATTTAGGGATTTAAA
16441837 GATTTAGGGATTTAAA
1 GATTTAGGGATTTAAA
*
16441853 GATTTTAGGTATTTAA
1 GA-TTTAGGGATTTAA
16441869 TGAAGATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 17 0.59
17 12 0.41
ACGTcount: A:0.33, C:0.02, G:0.23, T:0.42
Consensus pattern (16 bp):
GATTTAGGGATTTAAA
Found at i:16451025 original size:39 final size:39
Alignment explanation
Indices: 16450971--16451049 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
16450961 TTCTTTTATA
16450971 GGATTATAGACTTGTTTAGATTAACTACTGATGTAGGTT
1 GGATTATAGACTTGTTTAGATTAACTACTGATGTAGGTT
*
16451010 GGATTATGGACTTGTTTAGATTAACTACTGATGTAGGTT
1 GGATTATAGACTTGTTTAGATTAACTACTGATGTAGGTT
16451049 G
1 G
16451050 TCTTTCTCGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.41
Consensus pattern (39 bp):
GGATTATAGACTTGTTTAGATTAACTACTGATGTAGGTT
Found at i:16451930 original size:6 final size:6
Alignment explanation
Indices: 16451919--16451947 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
16451909 AACATTCAAG
16451919 GCCTGA GCCTGA GCCTGA GCCTGA GCCTG
1 GCCTGA GCCTGA GCCTGA GCCTGA GCCTG
16451948 GCCCGACCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.34, G:0.34, T:0.17
Consensus pattern (6 bp):
GCCTGA
Found at i:16453811 original size:33 final size:33
Alignment explanation
Indices: 16453772--16453863 Score: 107
Period size: 33 Copynumber: 2.8 Consensus size: 33
16453762 GAGGTGTATA
16453772 TTCCTTTCCAAGTGGTACACACAAAGTATACCT
1 TTCCTTTCCAAGTGGTACACACAAAGTATACCT
* *
16453805 TTCCTTTTCATA-TGGTATACACAAAGTATACCT
1 TTCCTTTCCA-AGTGGTACACACAAAGTATACCT
** * *
16453838 AACCTTTCCAAGT-ATAGACACAAAGT
1 TTCCTTTCCAAGTGGTACACACAAAGT
16453864 GTACATAACA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
32 12 0.24
33 37 0.74
34 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (33 bp):
TTCCTTTCCAAGTGGTACACACAAAGTATACCT
Found at i:16454631 original size:47 final size:47
Alignment explanation
Indices: 16454577--16454677 Score: 118
Period size: 46 Copynumber: 2.2 Consensus size: 47
16454567 ATAATCTTTC
*
16454577 ATTTTCTATCAAAAACT-TTCAATTTACAGTATATTCATCCATGGGAA
1 ATTTTCTAT-AAAAACTGTTCAATTTACAGCATATTCATCCATGGGAA
*** *
16454624 ATTTTC--TAAACTTTGGTTCAATTTACAGCATATTCATCCATGGGTA
1 ATTTTCTATAAAAACT-GTTCAATTTACAGCATATTCATCCATGGGAA
16454670 ATTTTCTA
1 ATTTTCTA
16454678 AACTTTGGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
44 4 0.09
45 1 0.02
46 34 0.76
47 6 0.13
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.42
Consensus pattern (47 bp):
ATTTTCTATAAAAACTGTTCAATTTACAGCATATTCATCCATGGGAA
Found at i:16454647 original size:46 final size:46
Alignment explanation
Indices: 16454594--16454687 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
16454584 ATCAAAAACT
*
16454594 TTCAATTTACAGTATATTCATCCATGGGAAATTTTCTAAACTTTGG
1 TTCAATTTACAGCATATTCATCCATGGGAAATTTTCTAAACTTTGG
*
16454640 TTCAATTTACAGCATATTCATCCATGGGTAATTTTCTAAACTTTGG
1 TTCAATTTACAGCATATTCATCCATGGGAAATTTTCTAAACTTTGG
16454686 TT
1 TT
16454688 TTCTTTTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.43
Consensus pattern (46 bp):
TTCAATTTACAGCATATTCATCCATGGGAAATTTTCTAAACTTTGG
Found at i:16474602 original size:40 final size:40
Alignment explanation
Indices: 16474541--16475119 Score: 806
Period size: 40 Copynumber: 14.4 Consensus size: 40
16474531 TCGGGTGAAG
* *
16474541 AATAGATATATAAAATGGTTATATGAATTGATTATATGGA
1 AATAGATATATGAAATGGTTATATGAATCGATTATATGGA
* * *
16474581 AATAGATAAATGAAATAGTTATATGAATCGATTATATGAAA
1 AATAGATATATGAAATGGTTATATGAATCGATTATATG-GA
* * *
16474622 AATAAATATACGAAATGGTTATATGAATCGATTATATGAAA
1 AATAGATATATGAAATGGTTATATGAATCGATTATATG-GA
*
16474663 AATAAATATATGAAATGGTTATATGAATCGATTATATGGA
1 AATAGATATATGAAATGGTTATATGAATCGATTATATGGA
* * *
16474703 AATAGATAAATGAAATTGTTATATGAATCAATTATATGGA
1 AATAGATATATGAAATGGTTATATGAATCGATTATATGGA
* * *
16474743 AATAGATAAATGAAATGGTTATATGAACCGGTTATATGGA
1 AATAGATATATGAAATGGTTATATGAATCGATTATATGGA
* * * * *
16474783 AGTAGATACATAAAATGGTTATACGAATCGTTTATATGGA
1 AATAGATATATGAAATGGTTATATGAATCGATTATATGGA
*
16474823 AATAGATAAATGAAATGGTTATATGAATC-AGTTATATGGA
1 AATAGATATATGAAATGGTTATATGAATCGA-TTATATGGA
* * *
16474863 AGTAGATATATGAAATGATTATATGAATC-AGTTATATGAA
1 AATAGATATATGAAATGGTTATATGAATCGA-TTATATGGA
*
16474903 AATAGATAAATGAAATGGTTATATGAATCGATTATAT-GA
1 AATAGATATATGAAATGGTTATATGAATCGATTATATGGA
*
16474942 AAGTAGATATATGAAATGGTTATATGAATCGGTTATATGGA
1 AA-TAGATATATGAAATGGTTATATGAATCGATTATATGGA
* *
16474983 AGTAGATATATGAAATGGTTATATGAATCGGTTATATGGA
1 AATAGATATATGAAATGGTTATATGAATCGATTATATGGA
* *
16475023 AATAGATATATGAAATGGTTGTATGAATCAATTATATGGA
1 AATAGATATATGAAATGGTTATATGAATCGATTATATGGA
16475063 AATAGATATATGAAATGGTTATATGAATC-AGTTATATGGA
1 AATAGATATATGAAATGGTTATATGAATCGA-TTATATGGA
16475103 AATAGATATATGAAATG
1 AATAGATATATGAAATG
16475120 AAACATTGGA
Statistics
Matches: 487, Mismatches: 46, Indels: 12
0.89 0.08 0.02
Matches are distributed among these distances:
39 4 0.01
40 404 0.83
41 79 0.16
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.34
Consensus pattern (40 bp):
AATAGATATATGAAATGGTTATATGAATCGATTATATGGA
Found at i:16475129 original size:27 final size:27
Alignment explanation
Indices: 16475099--16475150 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
16475089 ATCAGTTATA
*
16475099 TGGAAATAGATATATGAAATGAAACAT
1 TGGAAATAGATATATGAAATAAAACAT
* *
16475126 TGGATATAGATATTTGAAATAAAAC
1 TGGAAATAGATATATGAAATAAAAC
16475151 GTGAGTTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.50, C:0.04, G:0.17, T:0.29
Consensus pattern (27 bp):
TGGAAATAGATATATGAAATAAAACAT
Found at i:16478656 original size:36 final size:36
Alignment explanation
Indices: 16478606--16478698 Score: 123
Period size: 36 Copynumber: 2.6 Consensus size: 36
16478596 GTAAATCGAC
* * *
16478606 AATCCAACCAAAACACACCATATGCTCATAAGAGCT
1 AATCCATCCAAAACACACCAAATGCTCATAAAAGCT
* *
16478642 AATCCATCCTAAACATACCAAATGCTCATAAAAGCT
1 AATCCATCCAAAACACACCAAATGCTCATAAAAGCT
* *
16478678 AATCTATCCGAAACACACCAA
1 AATCCATCCAAAACACACCAA
16478699 TGGCTCCGAA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.45, C:0.30, G:0.06, T:0.18
Consensus pattern (36 bp):
AATCCATCCAAAACACACCAAATGCTCATAAAAGCT
Found at i:16491070 original size:34 final size:37
Alignment explanation
Indices: 16491027--16491095 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 37
16491017 GGACAATATG
* *
16491027 ATTGAATGTG-AATG-ATTTTTATTTGAA-AATGAAA
1 ATTGAATGTGAAATGTATGTTTATTTAAATAATGAAA
16491061 ATTGAATGTGAAATGTATGTTTATTTAAATAATGA
1 ATTGAATGTGAAATGTATGTTTATTTAAATAATGA
16491096 GTCTGGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
34 10 0.33
35 4 0.13
36 11 0.37
37 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.42
Consensus pattern (37 bp):
ATTGAATGTGAAATGTATGTTTATTTAAATAATGAAA
Found at i:16491974 original size:18 final size:18
Alignment explanation
Indices: 16491947--16491989 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
16491937 CGCATAAAAA
* *
16491947 GAAAGCAAATAAATAAAC
1 GAAAGAAAATAAACAAAC
*
16491965 GAAAGAAAATAAACAAAT
1 GAAAGAAAATAAACAAAC
16491983 GAAAGAA
1 GAAAGAA
16491990 GGGGGAAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.70, C:0.07, G:0.14, T:0.09
Consensus pattern (18 bp):
GAAAGAAAATAAACAAAC
Found at i:16500703 original size:27 final size:26
Alignment explanation
Indices: 16500668--16500779 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
16500658 AGCATGGCTG
*
16500668 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCA
*
16500694 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGACAGAGCCA
* *
16500722 CCAGAACAGAAACATATGACAGAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCA
* * *
16500749 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGACAGAGCCA
16500776 CCAG
1 CCAG
16500780 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.08
27 49 0.68
28 17 0.24
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.14
Consensus pattern (26 bp):
CCAGAACAGATAATGTGACAGAGCCA
Found at i:16500760 original size:54 final size:54
Alignment explanation
Indices: 16500668--16500779 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
16500658 AGCATGGCTG
* * *
16500668 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATATGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* *
16500722 CCAGAACAGAAACATATGACAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATATGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
16500776 CCAG
1 CCAG
16500780 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.14
Consensus pattern (54 bp):
CCAGAACAGAAAATATGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:16503392 original size:16 final size:16
Alignment explanation
Indices: 16503371--16503402 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16503361 TTTCTCTCTC
*
16503371 TAGGGTTAGGTTTTTT
1 TAGGGTTAGATTTTTT
16503387 TAGGGTTAGATTTTTT
1 TAGGGTTAGATTTTTT
16503403 ATTTTATTAA
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:0.00, G:0.28, T:0.56
Consensus pattern (16 bp):
TAGGGTTAGATTTTTT
Found at i:16503402 original size:15 final size:16
Alignment explanation
Indices: 16503371--16503403 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
16503361 TTTCTCTCTC
*
16503371 TAGGGTTAGGTTTTTT
1 TAGGGTTAGGATTTTT
16503387 TAGGGTTA-GATTTTT
1 TAGGGTTAGGATTTTT
16503402 TA
1 TA
16503404 TTTTATTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (16 bp):
TAGGGTTAGGATTTTT
Found at i:16511875 original size:46 final size:44
Alignment explanation
Indices: 16511771--16511878 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
16511761 TGTCTTTGAC
** * * *
16511771 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
16511815 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
16511861 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
16511879 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:16515110 original size:18 final size:18
Alignment explanation
Indices: 16515087--16515139 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
16515077 AATGACAAAG
16515087 ATGAGAAATGAATATGAA
1 ATGAGAAATGAATATGAA
*
16515105 ATGAGAAATAAAATATGAA
1 ATGAGAAAT-GAATATGAA
16515124 ATGATGAAATG-ATATG
1 ATGA-GAAATGAATATG
16515140 TGAAACTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 14 0.45
19 12 0.39
20 5 0.16
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.25
Consensus pattern (18 bp):
ATGAGAAATGAATATGAA
Found at i:16515121 original size:19 final size:18
Alignment explanation
Indices: 16515087--16515133 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 18
16515077 AATGACAAAG
*
16515087 ATGAGAAATGAATATGAA
1 ATGAGAAATAAATATGAA
16515105 ATGAGAAATAAAATATGAA
1 ATGAGAAAT-AAATATGAA
16515124 ATGATGAAAT
1 ATGA-GAAAT
16515134 GATATGTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 9 0.35
19 12 0.46
20 5 0.19
ACGTcount: A:0.57, C:0.00, G:0.19, T:0.23
Consensus pattern (18 bp):
ATGAGAAATAAATATGAA
Found at i:16520292 original size:24 final size:24
Alignment explanation
Indices: 16520255--16520306 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
16520245 TTCCCCGGTA
*
16520255 GAAGTCAAAACCGAAAAAGGGTCT
1 GAAGTCAAAACCGAAAAAAGGTCT
* *
16520279 GAAGTCGAATCCGAAAAAAGGTCT
1 GAAGTCAAAACCGAAAAAAGGTCT
16520303 GAAG
1 GAAG
16520307 AACACGTCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.44, C:0.15, G:0.27, T:0.13
Consensus pattern (24 bp):
GAAGTCAAAACCGAAAAAAGGTCT
Found at i:16520416 original size:48 final size:48
Alignment explanation
Indices: 16520349--16520532 Score: 280
Period size: 48 Copynumber: 3.8 Consensus size: 48
16520339 GCCATGGCCG
* * * * *
16520349 ATGAATCGAAAGCAATAAGTTCTGTTCCAAAATCTGTAGAGAAAGCCG
1 ATGAACCGAAAGCAGTAAGTTCTGTTCCGAAATCTGCAGAGAAAGCCA
16520397 ATGAACCGAAAGCAGTAAGTTCTGTTCCGAAATCTGCAGA-AGAAGCCA
1 ATGAACCGAAAGCAGTAAGTTCTGTTCCGAAATCTGCAGAGA-AAGCCA
* *
16520445 ATGAATCGAAAGCAGTAAGTTCTGTTCCGAAATCTGCAGAGGAAGCCA
1 ATGAACCGAAAGCAGTAAGTTCTGTTCCGAAATCTGCAGAGAAAGCCA
*
16520493 ATGAACCAAAAGCAGTAAGTTCTGTTCCGAAATCTGCAGA
1 ATGAACCGAAAGCAGTAAGTTCTGTTCCGAAATCTGCAGA
16520533 AGAAGGAAGC
Statistics
Matches: 125, Mismatches: 9, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
47 1 0.01
48 124 0.99
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (48 bp):
ATGAACCGAAAGCAGTAAGTTCTGTTCCGAAATCTGCAGAGAAAGCCA
Found at i:16520513 original size:96 final size:96
Alignment explanation
Indices: 16520349--16520537 Score: 324
Period size: 96 Copynumber: 2.0 Consensus size: 96
16520339 GCCATGGCCG
* * *
16520349 ATGAATCGAAAGCAATAAGTTCTGTTCCAAAATCTGTAGAGAAAGCCGATGAACCGAAAGCAGTA
1 ATGAATCGAAAGCAATAAGTTCTGTTCCAAAATCTGCAGAGAAAGCCAATGAACCAAAAGCAGTA
16520414 AGTTCTGTTCCGAAATCTGCAGAAGAAGCCA
66 AGTTCTGTTCCGAAATCTGCAGAAGAAGCCA
* * *
16520445 ATGAATCGAAAGCAGTAAGTTCTGTTCCGAAATCTGCAGAGGAAGCCAATGAACCAAAAGCAGTA
1 ATGAATCGAAAGCAATAAGTTCTGTTCCAAAATCTGCAGAGAAAGCCAATGAACCAAAAGCAGTA
16520510 AGTTCTGTTCCGAAATCTGCAGAAGAAG
66 AGTTCTGTTCCGAAATCTGCAGAAGAAG
16520538 GAAGCGTTAG
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 87 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (96 bp):
ATGAATCGAAAGCAATAAGTTCTGTTCCAAAATCTGCAGAGAAAGCCAATGAACCAAAAGCAGTA
AGTTCTGTTCCGAAATCTGCAGAAGAAGCCA
Found at i:16534244 original size:16 final size:18
Alignment explanation
Indices: 16534218--16534263 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 18
16534208 TTCTCTTTTA
16534218 TTTATTTATTATTTAA-TC
1 TTTA-TTATTATTTAATTC
16534236 -TTATTATTA-TTAATTC
1 TTTATTATTATTTAATTC
16534252 TTTATT-TTATTT
1 TTTATTATTATTT
16534264 TACTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 4 0.16
16 11 0.44
17 10 0.40
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTATTATTATTTAATTC
Found at i:16534245 original size:23 final size:23
Alignment explanation
Indices: 16534211--16534255 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
16534201 TTTCCTATTC
*
16534211 TCTTTTATTTATTTATTATTTAA
1 TCTTTTATTTATTAATTATTTAA
*
16534234 TCTTATTA-TTATTAATTCTTTA
1 TCTT-TTATTTATTAATTATTTA
16534256 TTTTATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (23 bp):
TCTTTTATTTATTAATTATTTAA
Found at i:16546507 original size:16 final size:16
Alignment explanation
Indices: 16546486--16546517 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
16546476 TATGGACCAA
16546486 TTATACATATGCTCAT
1 TTATACATATGCTCAT
16546502 TTATACATATGCTCAT
1 TTATACATATGCTCAT
16546518 CATACAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (16 bp):
TTATACATATGCTCAT
Found at i:16549140 original size:21 final size:19
Alignment explanation
Indices: 16549091--16549140 Score: 68
Period size: 18 Copynumber: 2.6 Consensus size: 19
16549081 TCTTCTATTT
16549091 CTTTC-TCTTCTTCAGCAA
1 CTTTCTTCTTCTTCAGCAA
16549109 CTTTCTT-TTCTTCAGCAA
1 CTTTCTTCTTCTTCAGCAA
16549127 CAATTTCTTCTTCT
1 C--TTTCTTCTTCT
16549141 GCAGTAGCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 17 0.61
19 1 0.04
20 6 0.21
21 4 0.14
ACGTcount: A:0.16, C:0.30, G:0.04, T:0.50
Consensus pattern (19 bp):
CTTTCTTCTTCTTCAGCAA
Found at i:16549505 original size:21 final size:19
Alignment explanation
Indices: 16549456--16549505 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
16549446 TCTTCTATTT
16549456 CTTTCC-CTTCTTCAGCAA
1 CTTTCCTCTTCTTCAGCAA
*
16549474 C-TTCCTTTTCTTCAGCAA
1 CTTTCCTCTTCTTCAGCAA
16549492 CAATTTCCTCTTCT
1 C--TTTCCTCTTCT
16549506 GCAGTAGCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 4 0.15
18 13 0.50
21 9 0.35
ACGTcount: A:0.16, C:0.36, G:0.04, T:0.44
Consensus pattern (19 bp):
CTTTCCTCTTCTTCAGCAA
Found at i:16549696 original size:365 final size:365
Alignment explanation
Indices: 16549026--16550113 Score: 2005
Period size: 365 Copynumber: 3.0 Consensus size: 365
16549016 CTAGATTTTT
16549026 AATATTTACACCCACAGATTCTAGTGTGGTGACAATATTCACATCAGAATCTTTCTCTTCTATTT
1 AATATTTACACCCACAGATTCTAGTGTGGTGACAATATTCACATCAGAATCTTTCTCTTCTATTT
* *
16549091 CTTTCTCTTCTTCAGCAACTTTCTTTTCTTCAGCAACAATTTCTTCTTCTGCAGTAGCAGCTTCC
66 CTTTCTCTTCTTCAGCAACTTCCTTTTCTTCAGCAACAATTTCCTCTTCTGCAGTAGCAGCTTCC
16549156 TTGTCAACAATAGTGCCCTATTGATCAGCAAAAATATCATTTCGAACAAGCTATCAATCTTGTGT
131 TTGTCAACAATAGTGCCCTATTGATCAGCAAAAATATCATTTCGAACAAGCTATCAATCTTGTGT
16549221 AGACATTCCTCAAAGCCTATGGATTCTTCATCTTTGTCATTATCAGAGACTTGCACGATAGGAGG
196 AGACATTCCTCAAAGCCTATGGATTCTTCATCTTTGTCATTATCAGAGACTTGCACGATAGGAGG
* *
16549286 AGATGCCACCAATCGGTCTCAATCTCTGAAGTCGTCATTTGTAAATGAATGCTTATAGTTTCAAA
261 AGATGCCACCGATCGGTCTCAATCTTTGAAGTCGTCATTTGTAAATGAATGCTTATAGTTTCAAA
*
16549351 TGATTGGTGGAAATACTGGGAAGTTCAGTATTATAGTTTC
326 TGATTGGTGGAAATACTGGGAAGTTCGGTATTATAGTTTC
* *
16549391 AATATTTACACCCATAGATTCTAGTGTGGTGACAATATTCACATCAGAATTTTTCTCTTCTATTT
1 AATATTTACACCCACAGATTCTAGTGTGGTGACAATATTCACATCAGAATCTTTCTCTTCTATTT
*
16549456 CTTTCCCTTCTTCAGCAACTTCCTTTTCTTCAGCAACAATTTCCTCTTCTGCAGTAGCAGCTTCC
66 CTTTCTCTTCTTCAGCAACTTCCTTTTCTTCAGCAACAATTTCCTCTTCTGCAGTAGCAGCTTCC
16549521 TTGTCAACAATAGTGCCCTATTGATCAGCAAAAATATCATTTCGAACAAGCTATCAATCTTGTGT
131 TTGTCAACAATAGTGCCCTATTGATCAGCAAAAATATCATTTCGAACAAGCTATCAATCTTGTGT
*
16549586 AGACATTCCTCAAAGCCTATGGATTCTTCATCTTTGTCATTATCAGAGACTTGCACGATAGGAGA
196 AGACATTCCTCAAAGCCTATGGATTCTTCATCTTTGTCATTATCAGAGACTTGCACGATAGGAGG
*
16549651 AGATGCCACCGATCGGTCTCAATCTTTGAAGTCATCATTTGTAAATGAATGCTTATAGTTTCAAA
261 AGATGCCACCGATCGGTCTCAATCTTTGAAGTCGTCATTTGTAAATGAATGCTTATAGTTTCAAA
16549716 TGATTGGTGGAAATACTGGGAAGTTCGGTATTATAGTTTC
326 TGATTGGTGGAAATACTGGGAAGTTCGGTATTATAGTTTC
*
16549756 AATATTTACACCCACAGATTCTAGTGTGGTGATAATATTCACATCAGAATCTTTCTCTTCTATTT
1 AATATTTACACCCACAGATTCTAGTGTGGTGACAATATTCACATCAGAATCTTTCTCTTCTATTT
* * *
16549821 CTTTCTCTTCTTCAGCAACTTCCTTTTCTTCAGCAACAATTTCCTCTTTTGCAATAGTAGCTTCC
66 CTTTCTCTTCTTCAGCAACTTCCTTTTCTTCAGCAACAATTTCCTCTTCTGCAGTAGCAGCTTCC
*
16549886 TTGTCAACAATAGTGCCCTATTGATCAGCAAAAATACCATTTCGAACAAGCTATCAATCTTGTGT
131 TTGTCAACAATAGTGCCCTATTGATCAGCAAAAATATCATTTCGAACAAGCTATCAATCTTGTGT
* * *
16549951 AGACATTCTTCAAAGCCTATGGATTCTTCATTTTTGTCATTATCAGAGACTTGCACGATGGGAGG
196 AGACATTCCTCAAAGCCTATGGATTCTTCATCTTTGTCATTATCAGAGACTTGCACGATAGGAGG
*
16550016 AGATGCCACCGATTGGTCTCAATCTTTGAAGTCGTCATTTGTAAATGAATGCTTATAGTTTCAAA
261 AGATGCCACCGATCGGTCTCAATCTTTGAAGTCGTCATTTGTAAATGAATGCTTATAGTTTCAAA
16550081 TGATTGGTGGAAATACTGGGAAGTTCGGTATTA
326 TGATTGGTGGAAATACTGGGAAGTTCGGTATTA
16550114 GAGACGAGCT
Statistics
Matches: 699, Mismatches: 24, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
365 699 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.36
Consensus pattern (365 bp):
AATATTTACACCCACAGATTCTAGTGTGGTGACAATATTCACATCAGAATCTTTCTCTTCTATTT
CTTTCTCTTCTTCAGCAACTTCCTTTTCTTCAGCAACAATTTCCTCTTCTGCAGTAGCAGCTTCC
TTGTCAACAATAGTGCCCTATTGATCAGCAAAAATATCATTTCGAACAAGCTATCAATCTTGTGT
AGACATTCCTCAAAGCCTATGGATTCTTCATCTTTGTCATTATCAGAGACTTGCACGATAGGAGG
AGATGCCACCGATCGGTCTCAATCTTTGAAGTCGTCATTTGTAAATGAATGCTTATAGTTTCAAA
TGATTGGTGGAAATACTGGGAAGTTCGGTATTATAGTTTC
Found at i:16558781 original size:3 final size:3
Alignment explanation
Indices: 16558738--16558765 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
16558728 TCACTTTTAC
16558738 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
16558766 GTGTTGTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:16559071 original size:14 final size:15
Alignment explanation
Indices: 16559048--16559088 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
16559038 TTAATACTAC
16559048 GTTATGTATATATAT
1 GTTATGTATATATAT
*
16559063 -TTATATATAT-TAT
1 GTTATGTATATATAT
16559076 GTTATGTATATAT
1 GTTATGTATATAT
16559089 TTTGAACACC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 3 0.14
14 18 0.82
15 1 0.05
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (15 bp):
GTTATGTATATATAT
Found at i:16559469 original size:35 final size:31
Alignment explanation
Indices: 16559404--16559495 Score: 94
Period size: 35 Copynumber: 2.8 Consensus size: 31
16559394 CTAGATTTCA
* *
16559404 TATTCTTATATGTATATTATTACATTTATTT
1 TATTCTTATATATATATTATTACATGTATTT
16559435 TATTCTTATCATATATATTATCAATACATGTATTT
1 TATTCTTAT-ATATATATTAT---TACATGTATTT
* *
16559470 TATTATATGTATATATATTATGTACA
1 TATTCT-TATATATATATTAT-TACA
16559496 CATATTAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
31 9 0.18
32 10 0.20
33 4 0.08
35 26 0.51
36 2 0.04
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (31 bp):
TATTCTTATATATATATTATTACATGTATTT
Found at i:16559977 original size:18 final size:18
Alignment explanation
Indices: 16559954--16559991 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
16559944 AAGGCAACAC
*
16559954 TTGTTTATGAGATACCAA
1 TTGTTTATGAGAGACCAA
16559972 TTGTTTATGAGAGACCAA
1 TTGTTTATGAGAGACCAA
16559990 TT
1 TT
16559992 TTTGGGCGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (18 bp):
TTGTTTATGAGAGACCAA
Found at i:16567682 original size:13 final size:13
Alignment explanation
Indices: 16567664--16567690 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16567654 ATGAGGCCCG
16567664 AAATAAAAGAGGA
1 AAATAAAAGAGGA
16567677 AAATAAAAGAGGA
1 AAATAAAAGAGGA
16567690 A
1 A
16567691 GTCAAGAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.22, T:0.07
Consensus pattern (13 bp):
AAATAAAAGAGGA
Found at i:16571883 original size:144 final size:144
Alignment explanation
Indices: 16571593--16571895 Score: 412
Period size: 144 Copynumber: 2.1 Consensus size: 144
16571583 TTTGGGTACT
*
16571593 CTGAGGTATCTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
1 CTGAGGTATTTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
* * * * * **
16571658 GGTCACACGCTGGGGTATTTTTAGTTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTC
66 AG-CACACGCTGAGGTAATTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTC
* *
16571723 AAGCCTTAGGTCACG
130 AAGCCTCAGGGCACG
* * **
16571738 CTGAGGTATTTTTAATTCCTGTTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCT
1 CTGAGGTATTTTTAATTCATG-T-TTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
* *
16571803 CAAG-ACACGTTGAGGTAATTTCAATTTATG-TTCCAAAATCAACTCATATTGCGAGAGGTGAGT
64 CAAGCACACGCTGAGGTAATTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
*
16571866 CAAGCCTCGGGGCACG
129 CAAGCCTCAGGGCACG
16571882 CTGAGGTATTTTTA
1 CTGAGGTATTTTTA
16571896 GTTTATATTT
Statistics
Matches: 139, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
144 57 0.41
145 40 0.29
146 1 0.01
147 41 0.29
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.33
Consensus pattern (144 bp):
CTGAGGTATTTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
AGCACACGCTGAGGTAATTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTCA
AGCCTCAGGGCACG
Found at i:16571887 original size:70 final size:71
Alignment explanation
Indices: 16571593--16571943 Score: 346
Period size: 74 Copynumber: 4.9 Consensus size: 71
16571583 TTTGGGTACT
* * ** **
16571593 CTGAGGTATCTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
1 CTGAGGTATTTTTAATTTATG-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCTCA
16571658 GGTCACACG
65 GG--ACACG
* * ** *
16571667 CTGGGGTATTTTTAGTTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTTAG
1 CTGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCTCAG
*
16571732 GTCACG
66 GACACG
* * **
16571738 CTGAGGTATTTTTAATTCCTGTTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCT
1 CTGAGGTATTTTTAATT--T-ATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCT
*
16571803 CAAGACACG
63 CAGGACACG
* * * * *
16571812 TTGAGGTAATTTCAATTTATG-TTCCAAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCTCGG
1 CTGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCTCAG
*
16571876 GGCACG
66 GACACG
* * ** * * * *
16571882 CTGAGGTATTTTTAGTTTATATTT-AGAAAATTGACTCATCTTGCGAAAGGTCAGTTAAGCCT
1 CTGAGGTATTTTTAATTTATGTTTCA-AAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCT
16571944 TTTAATTTCT
Statistics
Matches: 226, Mismatches: 46, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
70 58 0.26
71 53 0.23
72 1 0.00
73 39 0.17
74 75 0.33
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (71 bp):
CTGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCTCAG
GACACG
Found at i:16572112 original size:88 final size:88
Alignment explanation
Indices: 16571963--16572130 Score: 248
Period size: 88 Copynumber: 1.9 Consensus size: 88
16571953 TGTTTTTTCA
* * * *
16571963 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTT
1 AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTTCAAATT
*
16572028 CTATTTTTCAAATTCCGTTCGTC
66 CTATTATTCAAATTCCGTTCGTC
* *
16572051 AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTCAAAT
1 AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGCTCACATGCT-GAGCTATTTTCAAAT
*
16572115 TCTGTTATTCAAATTC
65 TCTATTATTCAAATTC
16572131 TGTTTTTAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
87 1 0.01
88 70 0.99
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (88 bp):
AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTTCAAATT
CTATTATTCAAATTCCGTTCGTC
Found at i:16572127 original size:14 final size:14
Alignment explanation
Indices: 16572108--16572134 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16572098 TCGAGGTATT
16572108 TTCAAATTCTGTTA
1 TTCAAATTCTGTTA
16572122 TTCAAATTCTGTT
1 TTCAAATTCTGTT
16572135 TTTAATTTTT
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:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (14 bp):
TTCAAATTCTGTTA
Found at i:16572225 original size:14 final size:14
Alignment explanation
Indices: 16572206--16572240 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
16572196 CGCTGAGGTA
* *
16572206 TTTTCAATTTCTGC
1 TTTTCAATTCCTAC
16572220 TTTTCAATTCCTAC
1 TTTTCAATTCCTAC
16572234 TTTTCAA
1 TTTTCAA
16572241 AAAAATCAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.20, C:0.23, G:0.03, T:0.54
Consensus pattern (14 bp):
TTTTCAATTCCTAC
Found at i:16572270 original size:89 final size:85
Alignment explanation
Indices: 16572153--16572352 Score: 267
Period size: 89 Copynumber: 2.3 Consensus size: 85
16572143 TTACTTTCCT
* * * *
16572153 AAAACCAACCCATATTGCGAGAGGTGAGTCAAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGGCACACTGAGGTATTTTCAATTTCT
16572218 GCTTTTCAATTCCTAC-TTTTCAAA
66 G-TTTTCAA-T-CTACTTTTTC--A
* ** *
16572242 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGGCACACTGAGGTATTTTCAATTTCT
16572307 GTTTTCAATCTACTTTTTCA
66 GTTTTCAATCTACTTTTTCA
*
16572327 AGAATCAACTCATATTGCGAGAGGTG
1 AAAATCAACTCATATTGCGAGAGGTG
16572353 GGTTGAACCT
Statistics
Matches: 100, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
85 25 0.25
86 4 0.04
87 6 0.06
88 7 0.07
89 58 0.58
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (85 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGGCACACTGAGGTATTTTCAATTTCT
GTTTTCAATCTACTTTTTCA
Found at i:16572566 original size:75 final size:72
Alignment explanation
Indices: 16572381--16572566 Score: 178
Period size: 72 Copynumber: 2.5 Consensus size: 72
16572371 CTACTTCTTC
* * * * * *
16572381 AAAAT-AAGCTCATATTGCTAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTT
1 AAAATCAA-CTCATATTGCGAAAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
***
16572445 TGTGTTTT
65 TGTGTAAA
** * ** *
16572453 AATTTCAACTTATACGGCG-AGAGATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAATCAACTCATATTGCGAAAAG-TGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
16572517 TGTTGTAAAAA
65 TG-TGT--AAA
16572528 AAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAG
1 AAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAG
16572567 TTCACATGCT
Statistics
Matches: 87, Mismatches: 21, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
71 1 0.01
72 49 0.56
73 5 0.06
75 29 0.33
76 3 0.03
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (72 bp):
AAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTGTAAA
Found at i:16573751 original size:11 final size:10
Alignment explanation
Indices: 16573727--16573765 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
16573717 AAATAAACAT
*
16573727 AAAGAAATAA
1 AAAGAAAAAA
16573737 AAAGCAAAAAA
1 AAAG-AAAAAA
16573748 AAAGAAAAAA
1 AAAGAAAAAA
*
16573758 ATAGAAAA
1 AAAGAAAA
16573766 TTACCTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.82, C:0.03, G:0.10, T:0.05
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:16574381 original size:3 final size:3
Alignment explanation
Indices: 16574338--16574365 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
16574328 TCACTTTTAC
16574338 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
16574366 GTGTTGTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:16575068 original size:35 final size:31
Alignment explanation
Indices: 16575003--16575094 Score: 94
Period size: 35 Copynumber: 2.8 Consensus size: 31
16574993 CTAGATTTTA
* *
16575003 TATTCTTATATGTATATTATTACATTTATTT
1 TATTCTTATATATATATTATTACATGTATTT
16575034 TATTCTTATCATATATATTATCAATACATGTATTT
1 TATTCTTAT-ATATATATTAT---TACATGTATTT
* *
16575069 TATTATATGTATATATATTATGTACA
1 TATTCT-TATATATATATTAT-TACA
16575095 CATATTAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
31 9 0.18
32 10 0.20
33 4 0.08
35 26 0.51
36 2 0.04
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (31 bp):
TATTCTTATATATATATTATTACATGTATTT
Found at i:16581951 original size:30 final size:30
Alignment explanation
Indices: 16581908--16582043 Score: 148
Period size: 30 Copynumber: 4.5 Consensus size: 30
16581898 CTGACACATA
* *
16581908 GGCGTGTAG-CCAGCCCATGTGATTCACATG
1 GGCGTGT-GCCCAGCCCATGTGGTTCACACG
* *
16581938 GGCATGTGCCCAGCCCGTGTGGTTCACACG
1 GGCGTGTGCCCAGCCCATGTGGTTCACACG
* *
16581968 GGCGTATGCCCAGCCTATGTGGTTCACACG
1 GGCGTGTGCCCAGCCCATGTGGTTCACACG
* *** * *
16581998 GCCGTGTGCCCAGCTTGTGAGGTTTACACG
1 GGCGTGTGCCCAGCCCATGTGGTTCACACG
16582028 GGCGTGTGCCCAGCCC
1 GGCGTGTGCCCAGCCC
16582044 CTATGGAAAT
Statistics
Matches: 88, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
29 1 0.01
30 87 0.99
ACGTcount: A:0.15, C:0.31, G:0.32, T:0.22
Consensus pattern (30 bp):
GGCGTGTGCCCAGCCCATGTGGTTCACACG
Found at i:16582006 original size:60 final size:60
Alignment explanation
Indices: 16581917--16582043 Score: 164
Period size: 60 Copynumber: 2.1 Consensus size: 60
16581907 AGGCGTGTAG
* * *
16581917 CCAGCCCATGTGATTCACATGGGCATGTGCCCAGCCCGTGTGGTTCACACGGGCGTATGC
1 CCAGCCCATGTGATTCACACGGCCATGTGCCCAGCCCGTGAGGTTCACACGGGCGTATGC
* * * ** * *
16581977 CCAGCCTATGTGGTTCACACGGCCGTGTGCCCAGCTTGTGAGGTTTACACGGGCGTGTGC
1 CCAGCCCATGTGATTCACACGGCCATGTGCCCAGCCCGTGAGGTTCACACGGGCGTATGC
16582037 CCAGCCC
1 CCAGCCC
16582044 CTATGGAAAT
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.15, C:0.32, G:0.31, T:0.22
Consensus pattern (60 bp):
CCAGCCCATGTGATTCACACGGCCATGTGCCCAGCCCGTGAGGTTCACACGGGCGTATGC
Found at i:16590081 original size:59 final size:59
Alignment explanation
Indices: 16589989--16590111 Score: 228
Period size: 59 Copynumber: 2.1 Consensus size: 59
16589979 TAAGCAAATT
*
16589989 ACTTAAACACAAGGCATAAGTCAGGGATTTTCAAATAATCATATAAATAACCTCCCCAC
1 ACTTAAACACAAGGCATAAGTCAGGAATTTTCAAATAATCATATAAATAACCTCCCCAC
*
16590048 ACTTAAACATAAGGCATAAGTCAGGAATTTTCAAATAATCATATAAATAACCTCCCCAC
1 ACTTAAACACAAGGCATAAGTCAGGAATTTTCAAATAATCATATAAATAACCTCCCCAC
16590107 ACTTA
1 ACTTA
16590112 CGATGTACAT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.43, C:0.23, G:0.09, T:0.25
Consensus pattern (59 bp):
ACTTAAACACAAGGCATAAGTCAGGAATTTTCAAATAATCATATAAATAACCTCCCCAC
Found at i:16590386 original size:6 final size:6
Alignment explanation
Indices: 16590361--16590464 Score: 70
Period size: 6 Copynumber: 17.5 Consensus size: 6
16590351 AATAAATTTC
* * **
16590361 AAAATAT AAAAA- CAAAAT AAACAT AAAAAT AAAAAT AAACCT -AAAA-
1 AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* * * ** *
16590407 AAACAT AAAGAG AAAAATT AAAAAT AACGAT AAAAAT AAAAAT AAACAT
1 AAAAAT AAAAAT AAAAA-T AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
*
16590456 AAAGAT AAA
1 AAAAAT AAA
16590465 TGGACTCAAT
Statistics
Matches: 74, Mismatches: 19, Indels: 9
0.73 0.19 0.09
Matches are distributed among these distances:
5 9 0.12
6 56 0.76
7 9 0.12
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:16590395 original size:18 final size:18
Alignment explanation
Indices: 16590374--16590464 Score: 98
Period size: 18 Copynumber: 5.1 Consensus size: 18
16590364 ATATAAAAAC
16590374 AAAATAAACATAAAAATA
1 AAAATAAACATAAAAATA
*
16590392 AAAATAAACCT-AAAA-A
1 AAAATAAACATAAAAATA
* * *
16590408 AACATAAAGAGAAAAATTA
1 AAAATAAACATAAAAA-TA
16590427 AAAAT-AACGATAAAAATA
1 AAAATAAAC-ATAAAAATA
*
16590445 AAAATAAACATAAAGATA
1 AAAATAAACATAAAAATA
16590463 AA
1 AA
16590465 TGGACTCAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
16 8 0.14
17 8 0.14
18 29 0.49
19 14 0.24
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (18 bp):
AAAATAAACATAAAAATA
Found at i:16590429 original size:35 final size:35
Alignment explanation
Indices: 16590367--16590464 Score: 92
Period size: 35 Copynumber: 2.8 Consensus size: 35
16590357 TTTCAAAATA
*
16590367 TAAAAACAAAATAAACATAAAAATAAAAATAAACC
1 TAAAAACAAAATAAACAGAAAAATAAAAATAAACC
* * *
16590402 TAAAAA-AACATAAAGAGAAAAATTAAAAAT-AACGA
1 TAAAAACAAAATAAACAGAAAAA-TAAAAATAAAC-C
* * *
16590437 TAAAAATAAAAATAAACATAAAGATAAA
1 TAAAAA-CAAAATAAACAGAAAAATAAA
16590465 TGGACTCAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
34 16 0.31
35 19 0.37
36 4 0.08
37 12 0.24
ACGTcount: A:0.73, C:0.07, G:0.04, T:0.15
Consensus pattern (35 bp):
TAAAAACAAAATAAACAGAAAAATAAAAATAAACC
Found at i:16592037 original size:3 final size:3
Alignment explanation
Indices: 16592029--16592058 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
16592019 AAAACAAGGG
16592029 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16592059 ATCTAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:16592338 original size:18 final size:16
Alignment explanation
Indices: 16592315--16592357 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
16592305 CCGTGTGGGT
16592315 AAGAGGACAAGTGGGAGA
1 AAGAGGA-AAG-GGGAGA
*
16592333 AAGAGGAGAGGGGAGA
1 AAGAGGAAAGGGGAGA
16592349 AAG-GGAAAG
1 AAGAGGAAAG
16592358 AAAGGGGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 5 0.22
16 9 0.39
17 2 0.09
18 7 0.30
ACGTcount: A:0.47, C:0.02, G:0.49, T:0.02
Consensus pattern (16 bp):
AAGAGGAAAGGGGAGA
Found at i:16602069 original size:22 final size:22
Alignment explanation
Indices: 16602031--16602080 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
16602021 TAATATATTT
16602031 GAACAT-AAAAATAGACACTTG
1 GAACATAAAAAATAGACACTTG
*
16602052 GAACATAAAAAATGGACACTTG
1 GAACATAAAAAATAGACACTTG
16602074 GAACATA
1 GAACATA
16602081 CTTAATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.52, C:0.14, G:0.16, T:0.18
Consensus pattern (22 bp):
GAACATAAAAAATAGACACTTG
Found at i:16602425 original size:13 final size:13
Alignment explanation
Indices: 16602407--16602438 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
16602397 TTTTAATTTA
16602407 TATATCTTCTTAC
1 TATATCTTCTTAC
16602420 TATATCTTCTTAC
1 TATATCTTCTTAC
16602433 TATATC
1 TATATC
16602439 AATATTCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (13 bp):
TATATCTTCTTAC
Found at i:16602484 original size:13 final size:15
Alignment explanation
Indices: 16602454--16602485 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
16602444 TCAATTCATG
16602454 CATTTCATCAATAAT
1 CATTTCATCAATAAT
16602469 CATTTCAT-AA-AAT
1 CATTTCATCAATAAT
16602482 CATT
1 CATT
16602486 ATTTCACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 2 0.12
15 8 0.47
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (15 bp):
CATTTCATCAATAAT
Done.