Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 115 of 362
Found at i:37780313 original size:153 final size:153
Alignment explanation
Indices: 37780035--37780343 Score: 591
Period size: 153 Copynumber: 2.0 Consensus size: 153
37780025 GTAAGCTCGT
* *
37780035 ATGCAATAAACTTAATATAATCATCAATACACAATTCAACATATTTAATGTATCATCATGTAACT
1 ATGCAATAAACTTAATATAATCATCAATACACAATTCAACAAATTTAATATATCATCATGTAACT
37780100 CATATTAACTAACAAACCTTTCACTTATTAAATCAGAAGATTATATGTGATCTTCACAAATCACT
66 CATATTAACTAACAAACCTTTCACTTATTAAATCAGAAGATTATATGTGATCTTCACAAATCACT
37780165 TCAATTTAAAGCTTATACAGTTC
131 TCAATTTAAAGCTTATACAGTTC
37780188 ATGCAATAAACTTAATATAATCATCAATACACAATTCAACAAATTTAATATATCATCATGTAACT
1 ATGCAATAAACTTAATATAATCATCAATACACAATTCAACAAATTTAATATATCATCATGTAACT
*
37780253 CATATTAACTAACAAACCTTTCACTTATTCAATCAGAAGATTATATGTGATCTTCACAAATCACT
66 CATATTAACTAACAAACCTTTCACTTATTAAATCAGAAGATTATATGTGATCTTCACAAATCACT
37780318 TCAATTTAAAGCTTATACAGTTC
131 TCAATTTAAAGCTTATACAGTTC
37780341 ATG
1 ATG
37780344 TACATACTGG
Statistics
Matches: 153, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
153 153 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.34
Consensus pattern (153 bp):
ATGCAATAAACTTAATATAATCATCAATACACAATTCAACAAATTTAATATATCATCATGTAACT
CATATTAACTAACAAACCTTTCACTTATTAAATCAGAAGATTATATGTGATCTTCACAAATCACT
TCAATTTAAAGCTTATACAGTTC
Found at i:37781707 original size:18 final size:18
Alignment explanation
Indices: 37781684--37781719 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
37781674 AACTTTCACA
37781684 CCAACATACTATCATACT
1 CCAACATACTATCATACT
37781702 CCAACATACTATCATACT
1 CCAACATACTATCATACT
37781720 GTAAGCATTA
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:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (18 bp):
CCAACATACTATCATACT
Found at i:37785910 original size:29 final size:29
Alignment explanation
Indices: 37785867--37785944 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
37785857 GCTGCACTAG
**
37785867 GACATATTAAAAACATGT-TTTAATTTGAA
1 GACATATTAAAAACATGTATTTAAGCT-AA
*
37785896 GACATATTAATAACATGTATTTAAGCTAA
1 GACATATTAAAAACATGTATTTAAGCTAA
* *
37785925 GACATATTAAAGACTTGTAT
1 GACATATTAAAAACATGTAT
37785945 AAAATATGAC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 36 0.86
30 6 0.14
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.36
Consensus pattern (29 bp):
GACATATTAAAAACATGTATTTAAGCTAA
Found at i:37795008 original size:42 final size:42
Alignment explanation
Indices: 37794930--37795009 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
37794920 GTGCAGGATT
* **
37794930 CACACGGCTAAGACACATACCCGTGTTCTTGGCCATGTGTCA
1 CACACGGCTAAGACACACACCCGTGTTCTTACCCATGTGTCA
* *
37794972 CACACGGCTGAGACACACGCCCGTG-TCTCTACCCATGT
1 CACACGGCTAAGACACACACCCGTGTTCT-TACCCATGT
37795010 CCCTAATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 3 0.09
42 29 0.91
ACGTcount: A:0.23, C:0.35, G:0.21, T:0.21
Consensus pattern (42 bp):
CACACGGCTAAGACACACACCCGTGTTCTTACCCATGTGTCA
Found at i:37818134 original size:11 final size:11
Alignment explanation
Indices: 37818118--37818156 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
37818108 ACTTGATTTG
37818118 ACATGATATGC
1 ACATGATATGC
37818129 ACATGATATG-
1 ACATGATATGC
*
37818139 -TATGATATGC
1 ACATGATATGC
37818149 ACATGATA
1 ACATGATA
37818157 AATTCATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (11 bp):
ACATGATATGC
Found at i:37818239 original size:26 final size:26
Alignment explanation
Indices: 37818204--37818299 Score: 126
Period size: 25 Copynumber: 3.8 Consensus size: 26
37818194 GAGGAAGTGC
37818204 AAAAGGGCTTTG-CCTCAGTTTACCGA
1 AAAAGGGCTTTGCCCT-AGTTTACCGA
37818230 AAAAGGGCTTTGCCCTAGTTTACCG-
1 AAAAGGGCTTTGCCCTAGTTTACCGA
* *
37818255 AAAAGGGTTTTGCCCTAGTTTATC-A
1 AAAAGGGCTTTGCCCTAGTTTACCGA
* *
37818280 AAAAGGGCTTTACCCCAGTT
1 AAAAGGGCTTTGCCCTAGTT
37818300 ATTAAAAGAG
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
25 39 0.62
26 21 0.33
27 3 0.05
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTTGCCCTAGTTTACCGA
Found at i:37818553 original size:30 final size:31
Alignment explanation
Indices: 37818519--37818592 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 31
37818509 CGTTTGCAGT
* *
37818519 AAAGGCTTCGGCCTAATGATATG-ATAATGA
1 AAAGGCTTCGGCCCAATGACATGAATAATGA
* *
37818549 AAAGGCTTCGGCCCAGTGACATGAATAATGC
1 AAAGGCTTCGGCCCAATGACATGAATAATGA
37818580 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
37818593 AAGTATATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 20 0.51
31 19 0.49
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGACATGAATAATGA
Found at i:37826049 original size:11 final size:10
Alignment explanation
Indices: 37826017--37826071 Score: 60
Period size: 11 Copynumber: 5.5 Consensus size: 10
37826007 CATGAGATTT
37826017 TGATAT-ACA
1 TGATATGACA
*
37826026 TGATTTGACA
1 TGATATGACA
37826036 TGATATGCACA
1 TGATATG-ACA
*
37826047 TGATATG-TA
1 TGATATGACA
37826056 TGATATGCACA
1 TGATATG-ACA
37826067 TGATA
1 TGATA
37826072 AATTCATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
9 13 0.34
10 9 0.24
11 16 0.42
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:37826175 original size:25 final size:25
Alignment explanation
Indices: 37826119--37826175 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
37826109 GAGGAAGTGC
* *
37826119 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGGTTATCA
*
37826144 AAAAGGGCTTTGCCCC-GGTTATTA
1 AAAAGGGCTTTGCCCCAGGTTATCA
37826168 AAAGAGGG
1 AAA-AGGG
37826176 TAGGTCTCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 8 0.29
25 20 0.71
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGGTTATCA
Found at i:37826415 original size:30 final size:31
Alignment explanation
Indices: 37826379--37826461 Score: 107
Period size: 30 Copynumber: 2.7 Consensus size: 31
37826369 CGTTTACAGT
*
37826379 AAAGGCTTCAGCCCAGTGATATG-ATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* * *
37826409 AAAGGCTTCGGCCCAGTGACATGAATAGTGC
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
37826440 AAAGGCTTCGGCCAAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
37826462 TTGAGATTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 25 0.54
31 21 0.46
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:37827622 original size:20 final size:18
Alignment explanation
Indices: 37827575--37827623 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
37827565 CAAAATAAAC
37827575 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
37827592 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
37827612 ATTAAATTAATA
1 ATTAAATTAATA
37827624 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:37830348 original size:46 final size:46
Alignment explanation
Indices: 37830205--37830348 Score: 134
Period size: 46 Copynumber: 3.1 Consensus size: 46
37830195 CTCGCCCATA
* *
37830205 AGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--TACATC-CT
* * * *
37830254 --CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC-T
* * *
37830297 AAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCCAAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
37830344 AGTGA
1 AGTGA
37830349 CATGTCACTT
Statistics
Matches: 76, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
45 2 0.03
46 33 0.43
47 28 0.37
48 6 0.08
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
Found at i:37833988 original size:20 final size:20
Alignment explanation
Indices: 37833946--37833992 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
37833936 TGGGAAATTG
* *
37833946 AATCAATTTGATTAAAATCA
1 AATCAAATTGATTAAAATAA
*
37833966 AATCAAATTGATTAGAATAA
1 AATCAAATTGATTAAAATAA
37833986 AAT-AAAT
1 AATCAAAT
37833993 CAGAATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (20 bp):
AATCAAATTGATTAAAATAA
Found at i:37836054 original size:22 final size:22
Alignment explanation
Indices: 37836029--37836112 Score: 84
Period size: 22 Copynumber: 4.0 Consensus size: 22
37836019 CAATTGATTT
37836029 ATTTAGTCTCCTTCTAAAATTA
1 ATTTAGTCTCCTTCTAAAATTA
* * ** * *
37836051 ATTTAATGTCAGT-T--GATTT
1 ATTTAGTCTCCTTCTAAAATTA
37836070 ATTTAGTCTCCTTCTAAAATTA
1 ATTTAGTCTCCTTCTAAAATTA
*
37836092 ATTTAGTCTACTTCTAAAATT
1 ATTTAGTCTCCTTCTAAAATT
37836113 TGAAAGTTTA
Statistics
Matches: 46, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
19 12 0.26
20 1 0.02
21 1 0.02
22 32 0.70
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (22 bp):
ATTTAGTCTCCTTCTAAAATTA
Found at i:37836073 original size:41 final size:41
Alignment explanation
Indices: 37836016--37836096 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
37836006 CTCTTGATAG
37836016 TGTCAATTGATTTATTTAGTCTCCTTCTAAAATTAATTTAA
1 TGTCAATTGATTTATTTAGTCTCCTTCTAAAATTAATTTAA
*
37836057 TGTCAGTTGATTTATTTAGTCTCCTTCTAAAATTAATTTA
1 TGTCAATTGATTTATTTAGTCTCCTTCTAAAATTAATTTA
37836097 GTCTACTTCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (41 bp):
TGTCAATTGATTTATTTAGTCTCCTTCTAAAATTAATTTAA
Found at i:37839122 original size:42 final size:42
Alignment explanation
Indices: 37839060--37839298 Score: 232
Period size: 42 Copynumber: 5.7 Consensus size: 42
37839050 TCGTAAGCTG
* * * *
37839060 AACAGAAGCTCGTTAGAGCTAAACAGAAACTCTTAAGAGTTG
1 AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGAGTTA
** * *
37839102 ATTAGAAGCTCATAAGAGCTAAACAAAAACTCATAAGAGTTT
1 AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGAGTTA
* * * *
37839144 AACATAAGCTCA-ATAGAGCTGAACGGAAACTCATATGAGTTA
1 AACAGAAGCTCATA-AGAGCTAAACAGAAACTCATAAGAGTTA
* * * * * *
37839186 AACAGAAGCTCGTAAGAGCTGAACAAAAACTCGTGAGAGTTG
1 AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGAGTTA
* *
37839228 AACAGAAGCTCA-ATAGAGCTGAAC-GAAAACTCATATGAGTTA
1 AACAGAAGCTCATA-AGAGCTAAACAG-AAACTCATAAGAGTTA
* *
37839270 AATAGAAGCTCGTAAGAGCTAAACAGAAA
1 AACAGAAGCTCATAAGAGCTAAACAGAAA
37839299 GTAAAACATG
Statistics
Matches: 159, Mismatches: 32, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
41 2 0.01
42 154 0.97
43 3 0.02
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGAGTTA
Found at i:37839211 original size:84 final size:84
Alignment explanation
Indices: 37839058--37839294 Score: 330
Period size: 84 Copynumber: 2.8 Consensus size: 84
37839048 GCTCGTAAGC
** * * * * * * *
37839058 TGAACAGAAGCTCGTTAGAGCTAAACAGAAACTCTTAAGAGTTGATTAGAAGCTCATAAGAGCTA
1 TGAACAGAAGCTCAATAGAGCTGAACGGAAACTCATATGAGTTAAATAGAAGCTCGTAAGAGCTA
37839123 AACAAAAACTCATAAGAGT
66 AACAAAAACTCATAAGAGT
* * * *
37839142 TTAACATAAGCTCAATAGAGCTGAACGGAAACTCATATGAGTTAAACAGAAGCTCGTAAGAGCTG
1 TGAACAGAAGCTCAATAGAGCTGAACGGAAACTCATATGAGTTAAATAGAAGCTCGTAAGAGCTA
* *
37839207 AACAAAAACTCGTGAGAGT
66 AACAAAAACTCATAAGAGT
*
37839226 TGAACAGAAGCTCAATAGAGCTGAACGAAAACTCATATGAGTTAAATAGAAGCTCGTAAGAGCTA
1 TGAACAGAAGCTCAATAGAGCTGAACGGAAACTCATATGAGTTAAATAGAAGCTCGTAAGAGCTA
37839291 AACA
66 AACA
37839295 GAAAGTAAAA
Statistics
Matches: 133, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
84 133 1.00
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.20
Consensus pattern (84 bp):
TGAACAGAAGCTCAATAGAGCTGAACGGAAACTCATATGAGTTAAATAGAAGCTCGTAAGAGCTA
AACAAAAACTCATAAGAGT
Found at i:37839297 original size:21 final size:21
Alignment explanation
Indices: 37839044--37839297 Score: 140
Period size: 21 Copynumber: 12.2 Consensus size: 21
37839034 CATTGTTAAT
37839044 AGAAGCTCGT-A-AGCTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
* *
37839063 AGAAGCTCGTTAGAGCTAAAC
1 AGAAGCTCGTAAGAGCTGAAC
* * * **
37839084 AGAAACTCTTAAGAGTTGATT
1 AGAAGCTCGTAAGAGCTGAAC
* *
37839105 AGAAGCTCATAAGAGCTAAAC
1 AGAAGCTCGTAAGAGCTGAAC
* * * * *
37839126 AAAAACTCATAAGAGTTTAAC
1 AGAAGCTCGTAAGAGCTGAAC
* *
37839147 ATAAGCTC-AATAGAGCTGAAC
1 AGAAGCTCGTA-AGAGCTGAAC
* * * * * *
37839168 GGAAACTCATATGAGTTAAAC
1 AGAAGCTCGTAAGAGCTGAAC
37839189 AGAAGCTCGTAAGAGCTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
* * * *
37839210 AAAAACTCGTGAGAGTTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
*
37839231 AGAAGCTC-AATAGAGCTGAAC
1 AGAAGCTCGTA-AGAGCTGAAC
* * * * * *
37839252 -GAAAACTCATATGAGTTAAAT
1 AG-AAGCTCGTAAGAGCTGAAC
*
37839273 AGAAGCTCGTAAGAGCTAAAC
1 AGAAGCTCGTAAGAGCTGAAC
37839294 AGAA
1 AGAA
37839298 AGTAAAACAT
Statistics
Matches: 171, Mismatches: 56, Indels: 14
0.71 0.23 0.06
Matches are distributed among these distances:
19 10 0.06
20 3 0.02
21 155 0.91
22 3 0.02
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGCTGAAC
Found at i:37842508 original size:15 final size:15
Alignment explanation
Indices: 37842482--37842519 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
37842472 AGAGAGCAGG
*
37842482 GGAAAGAAAGAAGGAA
1 GGAAA-AAAGAAAGAA
37842498 GGAAAAAAGAAAGAA
1 GGAAAAAAGAAAGAA
37842513 GGAAAAA
1 GGAAAAA
37842520 GGGAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (15 bp):
GGAAAAAAGAAAGAA
Found at i:37844085 original size:12 final size:12
Alignment explanation
Indices: 37844068--37844092 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37844058 GCTGACTACT
37844068 GTTACTGTTACC
1 GTTACTGTTACC
37844080 GTTACTGTTACC
1 GTTACTGTTACC
37844092 G
1 G
37844093 ATTCAGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:37844452 original size:36 final size:36
Alignment explanation
Indices: 37844396--37844476 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
37844386 AACCGATCAG
* * * *
37844396 TTGATTGATACTGAACAACTGATTATTATTGAATAA
1 TTGATTGTTACCGAACAACTGACTATTACTGAATAA
* *
37844432 TTGATTGTTACCGAATAACTGACTGTTACTGAATAA
1 TTGATTGTTACCGAACAACTGACTATTACTGAATAA
* *
37844468 ATAATTGTT
1 TTGATTGTT
37844477 CTGATTGTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.40
Consensus pattern (36 bp):
TTGATTGTTACCGAACAACTGACTATTACTGAATAA
Found at i:37844476 original size:18 final size:18
Alignment explanation
Indices: 37844397--37844480 Score: 71
Period size: 18 Copynumber: 4.7 Consensus size: 18
37844387 ACCGATCAGT
* * *
37844397 TGATTGATACTGAACAAC
1 TGATTGTTACTGAATAAA
* * *
37844415 TGATTATTATTGAATAAT
1 TGATTGTTACTGAATAAA
* *
37844433 TGATTGTTACCGAATAAC
1 TGATTGTTACTGAATAAA
*
37844451 TGACTGTTACTGAATAAA
1 TGATTGTTACTGAATAAA
*
37844469 TAATTGTT-CTGA
1 TGATTGTTACTGA
37844481 TTGTTAATGA
Statistics
Matches: 52, Mismatches: 14, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
17 4 0.08
18 48 0.92
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (18 bp):
TGATTGTTACTGAATAAA
Found at i:37846514 original size:29 final size:29
Alignment explanation
Indices: 37846456--37846517 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
37846446 GTCCTTTAAC
* *
37846456 TTTTGATATTTACATTTTAACCCCTCAAA
1 TTTTGATATTTACATTTTAACCACTAAAA
37846485 TTTTGAGTATTTAC-TTTTAAGCCAC-AAAA
1 TTTTGA-TATTTACATTTTAA-CCACTAAAA
37846514 TTTT
1 TTTT
37846518 TCTCACTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.31, C:0.16, G:0.06, T:0.47
Consensus pattern (29 bp):
TTTTGATATTTACATTTTAACCACTAAAA
Found at i:37852194 original size:32 final size:32
Alignment explanation
Indices: 37852148--37852216 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
37852138 TTTAGGATTT
37852148 CCTATTAATGAAACGTTGAGTTTTACTATCAG
1 CCTATTAATGAAACGTTGAGTTTTACTATCAG
* *
37852180 TCTATTAATTAAACGTTGAGTTTTACTATCAG
1 CCTATTAATGAAACGTTGAGTTTTACTATCAG
37852212 CCTAT
1 CCTAT
37852217 GTAAACGTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (32 bp):
CCTATTAATGAAACGTTGAGTTTTACTATCAG
Found at i:37856419 original size:21 final size:21
Alignment explanation
Indices: 37856393--37856432 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
37856383 AAGAATGAGG
37856393 TTACATATGATGTTCTGTTGA
1 TTACATATGATGTTCTGTTGA
*
37856414 TTACATATGATGTTTTGTT
1 TTACATATGATGTTCTGTT
37856433 TTGGACAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.07, G:0.17, T:0.53
Consensus pattern (21 bp):
TTACATATGATGTTCTGTTGA
Found at i:37863696 original size:46 final size:45
Alignment explanation
Indices: 37863638--37863810 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 45
37863628 GGATTATTGT
* *
37863638 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCATTACGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCA-GACGA
* * * *
37863684 GAGCCAGTGTAAGAACATGTCTCGGACATGGCATCGGCATTGAGATGA
1 GAGCCAGTGTAAG-ACATGTCTGGGACAT-GCATCGGC-CTCAGACGA
* **
37863732 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAACCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-AGACG-A
* *
37863779 -AGCCAGAGTAAGACATGTCTAGGACATGCATC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC
37863811 AACTATGAGT
Statistics
Matches: 106, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
45 1 0.01
46 51 0.48
47 29 0.27
48 23 0.22
49 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.21
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAGACGA
Found at i:37865321 original size:16 final size:16
Alignment explanation
Indices: 37865302--37865332 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37865292 CTTTTTAACT
37865302 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
37865318 TACTTACTTACTTAA
1 TACTCACTTACTTAA
37865333 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:37865338 original size:20 final size:20
Alignment explanation
Indices: 37865299--37865338 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
37865289 AAACTTTTTA
* *
37865299 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
37865319 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
37865339 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:37865459 original size:5 final size:5
Alignment explanation
Indices: 37865449--37865476 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
37865439 TATAACTCGT
37865449 CTTAC CTTAC CTTAC CTTAC CTTAC CTT
1 CTTAC CTTAC CTTAC CTTAC CTTAC CTT
37865477 GATATTCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.39, G:0.00, T:0.43
Consensus pattern (5 bp):
CTTAC
Found at i:37865724 original size:55 final size:53
Alignment explanation
Indices: 37865594--37865789 Score: 175
Period size: 55 Copynumber: 3.6 Consensus size: 53
37865584 CTTACCATTT
* *
37865594 CCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGAGATCCTTGCCTTATGAACTCACCAATG
* * * *
37865647 CCATG-CGTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATG
1 CCATGTC-TTGACATGGTCTTACATGAGATCC-TTGCCTTAT-G-AACTCACCAATG
* * * *
37865702 CCATGTCTTAACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTTACCGATTG
1 CCATGTCTTGACATGGTCTTACATGAGATCCTTGCCTTATG-AA-CTCACC-AATG
* * *
37865757 TCATGCCTTGGCATGGTCTTACATG-GTATCCTT
1 CCATGTCTTGACATGGTCTTACATGAG-ATCCTT
37865790 AAACCCTAGT
Statistics
Matches: 116, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
52 3 0.03
53 34 0.29
54 6 0.05
55 70 0.60
56 3 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGAGATCCTTGCCTTATGAACTCACCAATG
Found at i:37876189 original size:22 final size:22
Alignment explanation
Indices: 37876161--37876204 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
37876151 GGTAAAGTGT
37876161 TGCCATATAATTATTTATATGC
1 TGCCATATAATTATTTATATGC
37876183 TGCCATATAATTATTTATATGC
1 TGCCATATAATTATTTATATGC
37876205 AATTTACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (22 bp):
TGCCATATAATTATTTATATGC
Found at i:37880893 original size:46 final size:45
Alignment explanation
Indices: 37880835--37881053 Score: 200
Period size: 46 Copynumber: 4.7 Consensus size: 45
37880825 GGATTATTGT
37880835 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTACGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTACGA
*
37880881 GAGCCAGTGTAAGACTATGTCTGGGACATGGCATCGG--CATTGAGACGA
1 GAGCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCCATT---ACGA
* * * **
37880929 GAGCTAGTGTAAGGCATGTCTGGGACGTGCATCAGCCTCAAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTACG-A
*
37880976 -AGCTAGAGTAAGACATGTCTGGGACATGCATCGG--C--TACGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTACGA
*
37881016 GTTGAGCTAGTGTAAGACCATGTCCGGGACATGGCATC
1 ---GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
37881054 AGCATCCTAC
Statistics
Matches: 144, Mismatches: 14, Indels: 30
0.77 0.07 0.16
Matches are distributed among these distances:
40 1 0.01
41 3 0.02
43 1 0.01
44 12 0.08
45 17 0.12
46 58 0.40
47 26 0.18
48 24 0.17
49 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTACGA
Found at i:37883484 original size:40 final size:40
Alignment explanation
Indices: 37883400--37883487 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 40
37883390 TCTCGCACGC
* * * * * *
37883400 TAAGTGCCATGTATAGCCGAAGTTATTTCGATACGCACAC
1 TAAGTGCCATGTATAGCCGAAGCTATCTCAAAACACACAA
*
37883440 TAAGTGCTATGTATAGCCGAAGCTATCTCAAAACACACAA
1 TAAGTGCCATGTATAGCCGAAGCTATCTCAAAACACACAA
37883480 TAAGTGCC
1 TAAGTGCC
37883488 GCACATAGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (40 bp):
TAAGTGCCATGTATAGCCGAAGCTATCTCAAAACACACAA
Found at i:37890937 original size:41 final size:41
Alignment explanation
Indices: 37890863--37891003 Score: 110
Period size: 40 Copynumber: 3.5 Consensus size: 41
37890853 AAGTTATTAT
* * * *
37890863 AATCTCCCACACTAAGTGCC-TTTCACAGTCAAAGCTATCTC
1 AATCTCGCACACTAAGTGCCATGT-ATAGCCAAAGCTATCTC
** *
37890904 GGTCTCGCACACTAAGTGCCATGTATAGCCAAAGTTAT-TCC
1 AATCTCGCACACTAAGTGCCATGTATAGCCAAAGCTATCT-C
* * * *
37890945 AATAT-GCATACTAAGTGCTATGTATAGCCGAAGCTATCTC
1 AATCTCGCACACTAAGTGCCATGTATAGCCAAAGCTATCTC
** *
37890985 AA-GACGCACAATAAGTGCC
1 AATCTCGCACACTAAGTGCC
37891004 GCACATAGTT
Statistics
Matches: 77, Mismatches: 19, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
40 43 0.56
41 32 0.42
42 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (41 bp):
AATCTCGCACACTAAGTGCCATGTATAGCCAAAGCTATCTC
Found at i:37891000 original size:40 final size:40
Alignment explanation
Indices: 37890909--37891003 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
37890899 ATCTCGGTCT
* *
37890909 CGCACACTAAGTGCCATGTATAGCCAAAGTTATTCCAATA
1 CGCACACTAAGTGCCATGTATAGCCAAAGCTATTCCAAGA
* * * *
37890949 TGCATACTAAGTGCTATGTATAGCCGAAGCTA-TCTCAAGA
1 CGCACACTAAGTGCCATGTATAGCCAAAGCTATTC-CAAGA
*
37890989 CGCACAATAAGTGCC
1 CGCACACTAAGTGCC
37891004 GCACATAGTT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
39 2 0.05
40 42 0.95
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (40 bp):
CGCACACTAAGTGCCATGTATAGCCAAAGCTATTCCAAGA
Found at i:37891657 original size:16 final size:17
Alignment explanation
Indices: 37891627--37891659 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
37891617 TGATGCAACG
37891627 ATCACAAAAACATAGAA
1 ATCACAAAAACATAGAA
*
37891644 ATCATAAAAA-ATAGAA
1 ATCACAAAAACATAGAA
37891660 CAAAAATCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.67, C:0.12, G:0.06, T:0.15
Consensus pattern (17 bp):
ATCACAAAAACATAGAA
Found at i:37892563 original size:20 final size:20
Alignment explanation
Indices: 37892538--37892579 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
37892528 AATTTAGGCT
37892538 GTACCAGAACAGGAGCCTGA
1 GTACCAGAACAGGAGCCTGA
37892558 GTACCAGAACAGGAGCCTGA
1 GTACCAGAACAGGAGCCTGA
37892578 GT
1 GT
37892580 CAGAATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.24, G:0.31, T:0.12
Consensus pattern (20 bp):
GTACCAGAACAGGAGCCTGA
Found at i:37900117 original size:68 final size:67
Alignment explanation
Indices: 37900045--37900196 Score: 184
Period size: 67 Copynumber: 2.3 Consensus size: 67
37900035 CATCATGTGT
* * * *
37900045 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACGAGA-A-TAT-ATGTAGCTAGGTCGCATGCGTGATACAAGTGAAGGACACCA
37900108 TGTAG
63 TGTAG
* *
37900113 ACAAGAGAGCTACGAG-ATATATGTAGCTAGGTCGCATGCGTGGTTCAAGGTGAAGGACACCATG
1 ACAAGAGAGCTACGAGAATATATGTAGCTAGGTCGCATGCGTGATACAA-GTGAAGGACACCATG
37900177 TAG
65 TAG
*
37900180 ACTAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
37900197 TAAACTGGCT
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
64 24 0.33
65 3 0.04
66 3 0.04
67 27 0.37
68 16 0.22
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGAATATATGTAGCTAGGTCGCATGCGTGATACAAGTGAAGGACACCATGT
AG
Found at i:37908850 original size:48 final size:49
Alignment explanation
Indices: 37908798--37908927 Score: 149
Period size: 49 Copynumber: 2.7 Consensus size: 49
37908788 TTAAGACGAG
* *
37908798 AGCTAGTGTAAGACATGCCTGGGACAT-ACATCGGCCTCGAGATATGCA
1 AGCTAGTGTAAGACCTGCCTGGGACATGACATCGGCCTCGAGATATGAA
* * *
37908846 AGCTAGTGTAAGACCTGTCC-GAGACATGGCATCGGCCTCGATATATGAA
1 AGCTAGTGTAAGACCTG-CCTGGGACATGACATCGGCCTCGAGATATGAA
* * *
37908895 AG-TCAATGTAAGACCTGTCTGGGACATGGCATC
1 AGCT-AGTGTAAGACCTGCCTGGGACATGACATC
37908928 AACATCGTAC
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
48 24 0.34
49 46 0.66
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.22
Consensus pattern (49 bp):
AGCTAGTGTAAGACCTGCCTGGGACATGACATCGGCCTCGAGATATGAA
Found at i:37918481 original size:20 final size:20
Alignment explanation
Indices: 37918456--37918526 Score: 133
Period size: 20 Copynumber: 3.5 Consensus size: 20
37918446 GGGTGAGGGG
*
37918456 CACGGGCGTGTTCCCAAGCA
1 CACGGGCGTGTCCCCAAGCA
37918476 CACGGGCGTGTCCCCAAGCA
1 CACGGGCGTGTCCCCAAGCA
37918496 CACGGGCGTGTCCCCAAGCA
1 CACGGGCGTGTCCCCAAGCA
37918516 CACGGGCGTGT
1 CACGGGCGTGT
37918527 GCTTTTCCTC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.18, C:0.37, G:0.32, T:0.13
Consensus pattern (20 bp):
CACGGGCGTGTCCCCAAGCA
Found at i:37921456 original size:40 final size:40
Alignment explanation
Indices: 37921361--37921536 Score: 259
Period size: 40 Copynumber: 4.5 Consensus size: 40
37921351 CGGATGAAAA
* * *
37921361 CCGGGCTAAGACACGAAGACATTTGTGTGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
37921401 -CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
37921440 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * *
37921480 TCGGGCTAGGACCCGAAGGCATTTGTGTGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
37921520 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
37921537 ATACTTGGGT
Statistics
Matches: 125, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
38 1 0.01
39 48 0.38
40 76 0.61
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:37921526 original size:79 final size:79
Alignment explanation
Indices: 37921361--37921537 Score: 268
Period size: 79 Copynumber: 2.2 Consensus size: 79
37921351 CGGATGAAAA
* *
37921361 CCGGGCTAAGACACGAAGACATTTGTGTGAGTTGCTATATCGGGCTAAGACCCGAAGGCATTTGT
1 CCGGGCTAAGACCCGAAGACATTTGTGCGAGTTGCTATATCGGGCTAAGACCCGAAGGCATTTGT
37921426 GCGAGTTGCTATAT
66 GCGAGTTGCTATAT
* *
37921440 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATTCGGGCTAGGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGACATTTGTGCGAGTTGCTATA-TCGGGCTAAGACCCGAAGGCATTTG
* *
37921505 TGTGAGTTGTTATAT
65 TGCGAGTTGCTATAT
37921520 CC-GGCTAA-ATCCCGAAGA
1 CCGGGCTAAGA-CCCGAAGA
37921538 TACTTGGGTT
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
78 1 0.01
79 49 0.55
80 39 0.44
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGACCCGAAGACATTTGTGCGAGTTGCTATATCGGGCTAAGACCCGAAGGCATTTGT
GCGAGTTGCTATAT
Found at i:37921805 original size:22 final size:22
Alignment explanation
Indices: 37921763--37921806 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
37921753 AAAATGTGCA
* *
37921763 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
37921785 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
37921807 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:37929599 original size:40 final size:40
Alignment explanation
Indices: 37929544--37929680 Score: 206
Period size: 40 Copynumber: 3.5 Consensus size: 40
37929534 CAGATGATAA
*
37929544 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
37929584 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTGTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * *
37929624 CTGGGCTAGGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
37929664 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
37929681 ATACTTGGGT
Statistics
Matches: 88, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 75 0.85
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:37929948 original size:22 final size:22
Alignment explanation
Indices: 37929906--37929949 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
37929896 AAAATGTGCA
* *
37929906 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
37929928 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
37929950 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:37932324 original size:28 final size:29
Alignment explanation
Indices: 37932292--37932352 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
37932282 AAAAAATTAA
* *
37932292 TTTTTG-AGCCTAGGGGTAAAATGGTTAT
1 TTTTTGAAGCCTAGGGGCAAAATGGTCAT
*
37932320 TTTTTGAAAGTCTAGGGGCAAAATGGTCAT
1 TTTTTG-AAGCCTAGGGGCAAAATGGTCAT
37932350 TTT
1 TTT
37932353 GCCAAAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 6 0.21
30 22 0.79
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.39
Consensus pattern (29 bp):
TTTTTGAAGCCTAGGGGCAAAATGGTCAT
Found at i:37938031 original size:46 final size:46
Alignment explanation
Indices: 37937971--37938064 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
37937961 CAAGAGTAAG
37937971 GTTTTGAAGCTTAAAACTTTCAGACATTCATCTCCCTCTCAAGAAA
1 GTTTTGAAGCTTAAAACTTTCAGACATTCATCTCCCTCTCAAGAAA
* *
37938017 GTTTTGAAGCTTAAAACTTTCAGCCATTCATCTCCCTCTCAAGTAA
1 GTTTTGAAGCTTAAAACTTTCAGACATTCATCTCCCTCTCAAGAAA
37938063 GT
1 GT
37938065 GATTAAGATG
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:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (46 bp):
GTTTTGAAGCTTAAAACTTTCAGACATTCATCTCCCTCTCAAGAAA
Found at i:37944352 original size:82 final size:81
Alignment explanation
Indices: 37944236--37944391 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
37944226 AAATTGTACA
* * * *
37944236 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
37944300 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
37944317 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
37944382 TGCGAGTTGA
65 TGCGAATTGA
37944392 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:37944359 original size:55 final size:52
Alignment explanation
Indices: 37944235--37944388 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
37944225 TAAATTGTAC
* *
37944235 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
37944288 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
37944343 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
37944389 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:37944393 original size:27 final size:27
Alignment explanation
Indices: 37944236--37944391 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
37944226 AAATTGTACA
*
37944236 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
37944263 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
37944290 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
37944317 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
37944345 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
37944372 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
37944392 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:37944402 original size:27 final size:27
Alignment explanation
Indices: 37944228--37944412 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
37944218 GCGGGATTAA
*
37944228 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
37944255 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
37944282 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
37944309 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
37944337 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
37944364 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
37944391 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
37944413 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:37944403 original size:82 final size:81
Alignment explanation
Indices: 37944228--37944412 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
37944218 GCGGGATTAA
* * * *
37944228 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
37944293 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
37944309 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
37944373 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
37944391 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
37944413 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:37951748 original size:27 final size:27
Alignment explanation
Indices: 37951717--37951769 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
37951707 GTTATGTGAT
* *
37951717 ATTGAATGGCAAATTATTGTTACATGA
1 ATTGAATGGCAAATTACTATTACATGA
**
37951744 ATTGAATGTTAAATTACTATTACATG
1 ATTGAATGGCAAATTACTATTACATG
37951770 TGTAATAGCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.40
Consensus pattern (27 bp):
ATTGAATGGCAAATTACTATTACATGA
Found at i:37952620 original size:30 final size:30
Alignment explanation
Indices: 37952586--37952643 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
37952576 CCGAGCCTAG
37952586 GGGCAAAAGTGTAAATATGCAAAAGTTTAA
1 GGGCAAAAGTGTAAATATGCAAAAGTTTAA
* * * *
37952616 GGGCAAAATTGTAATTTTTCAAAAGTTT
1 GGGCAAAAGTGTAAATATGCAAAAGTTT
37952644 GAGTTAAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATGCAAAAGTTTAA
Found at i:37955763 original size:50 final size:49
Alignment explanation
Indices: 37955588--37955832 Score: 301
Period size: 49 Copynumber: 4.9 Consensus size: 49
37955578 TCTATTGTGA
* * *
37955588 GGTCACGCGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
37955637 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * **
37955687 CGATCACGTGAGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
37955737 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
37955787 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
37955833 GCCTTGTCTA
Statistics
Matches: 165, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
49 81 0.49
50 47 0.28
51 37 0.22
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:37955862 original size:150 final size:150
Alignment explanation
Indices: 37955587--37955865 Score: 409
Period size: 150 Copynumber: 1.9 Consensus size: 150
37955577 ATCTATTGTG
*
37955587 AGGTCACGCGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGCGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGT
* ** ** *
37955652 ACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGAGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACAAGAGTAAAAATAAGTGCAGGCT
37955717 ACTACGTGTATCAGATGGTT
131 ACTACGTGTATCAGATGGTT
* * *
37955737 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCGCATGTGTAGT
1 AGGTCACGCGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGT
* * *
37955802 ACTAAGTGCAGGCTACTATGCGTACCAGATAGCCTT-G-TCTACAAGTGTAAAAATATGTGCAGG
66 ACTAAGTGCAGGCTACTATGCGTACCAGATA-ACTTCGATC-ACAAGAGTAAAAATAAGTGCAGG
37955865 C
129 C
37955866 AACTGAGTAT
Statistics
Matches: 114, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
149 2 0.02
150 109 0.96
151 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (150 bp):
AGGTCACGCGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACAAGAGTAAAAATAAGTGCAGGCT
ACTACGTGTATCAGATGGTT
Found at i:37959359 original size:27 final size:27
Alignment explanation
Indices: 37959329--37959439 Score: 134
Period size: 27 Copynumber: 4.1 Consensus size: 27
37959319 CCTTAATCGA
** *
37959329 TAAAATGACTGCTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATATGG
*
37959356 TAAAATGACTATTTTTCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATATGG
* *
37959383 TAAAATGATTATTTTTCCCTTATGA-GG
1 TAAAATGACTATTTTGCCCTTAT-ATGG
* *
37959410 TAAAATAACTGTTTTGCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATATGG
37959437 TAA
1 TAA
37959440 CCCTTATGAG
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
26 1 0.01
27 71 0.97
28 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.41
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATATGG
Found at i:37959387 original size:54 final size:54
Alignment explanation
Indices: 37959329--37959439 Score: 150
Period size: 54 Copynumber: 2.1 Consensus size: 54
37959319 CCTTAATCGA
* * * *
37959329 TAAAATGACTGCTTTGCCCTTATGTGGTAAAATGACTATTTTTCCCTTATATGG
1 TAAAATGACTACTTTGCCCTTATGAGGTAAAATAACTATTTTGCCCTTATATGG
* * * *
37959383 TAAAATGATTATTTTTCCCTTATGAGGTAAAATAACTGTTTTGCCCTTATATGG
1 TAAAATGACTACTTTGCCCTTATGAGGTAAAATAACTATTTTGCCCTTATATGG
37959437 TAA
1 TAA
37959440 CCCTTATGAG
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.41
Consensus pattern (54 bp):
TAAAATGACTACTTTGCCCTTATGAGGTAAAATAACTATTTTGCCCTTATATGG
Found at i:37959456 original size:41 final size:41
Alignment explanation
Indices: 37959399--37959480 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
37959389 GATTATTTTT
**
37959399 CCCTTATGAGGTAAAATAACTGTTTTGCCCTTATATGGTAA
1 CCCTTATGAGGTAAAATAACTGTTTCACCCTTATATGGTAA
* *
37959440 CCCTTATGAGGTAAAATGACTGTTTCACCCTTTTATGGTAA
1 CCCTTATGAGGTAAAATAACTGTTTCACCCTTATATGGTAA
37959481 AACGACTGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (41 bp):
CCCTTATGAGGTAAAATAACTGTTTCACCCTTATATGGTAA
Found at i:37959479 original size:27 final size:27
Alignment explanation
Indices: 37959449--37959523 Score: 123
Period size: 27 Copynumber: 2.8 Consensus size: 27
37959439 ACCCTTATGA
37959449 GGTAAAATGACTGTTTCACCCTTTTAT
1 GGTAAAATGACTGTTTCACCCTTTTAT
* *
37959476 GGTAAAACGACTGTTTCGCCCTTTTAT
1 GGTAAAATGACTGTTTCACCCTTTTAT
*
37959503 GGTAAAATGACTGTTTTACCC
1 GGTAAAATGACTGTTTCACCC
37959524 CTATGTGATG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.37
Consensus pattern (27 bp):
GGTAAAATGACTGTTTCACCCTTTTAT
Found at i:37959508 original size:95 final size:95
Alignment explanation
Indices: 37959345--37959519 Score: 226
Period size: 95 Copynumber: 1.8 Consensus size: 95
37959335 GACTGCTTTG
* ** * * **
37959345 CCCTTATGTGGTAAAATGACTATTTTTCCCTTATATGGTAAAATGATTATTTTTCCCTTATGAGG
1 CCCTTATGAGGTAAAATGACTATTTCACCCTTATATGGTAAAACGACTATTTCGCCCTTATGAGG
37959410 TAAAATAACTGTTTTGCCCTTATATGGTAA
66 TAAAATAACTGTTTTGCCCTTATATGGTAA
* * * *
37959440 CCCTTATGAGGTAAAATGACTGTTTCACCCTTTTATGGTAAAACGACTGTTTCGCCCTT-TTATG
1 CCCTTATGAGGTAAAATGACTATTTCACCCTTATATGGTAAAACGACTATTTCGCCCTTATGA-G
*
37959504 GTAAAATGACTGTTTT
65 GTAAAATAACTGTTTT
37959520 ACCCCTATGT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
94 2 0.03
95 65 0.97
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.41
Consensus pattern (95 bp):
CCCTTATGAGGTAAAATGACTATTTCACCCTTATATGGTAAAACGACTATTTCGCCCTTATGAGG
TAAAATAACTGTTTTGCCCTTATATGGTAA
Found at i:37963635 original size:15 final size:15
Alignment explanation
Indices: 37963612--37963641 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37963602 TCCTACTGCT
*
37963612 AACAGATATAAATCC
1 AACAAATATAAATCC
37963627 AACAAATATAAATCC
1 AACAAATATAAATCC
37963642 CCAAATTAAA
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:0.57, C:0.20, G:0.03, T:0.20
Consensus pattern (15 bp):
AACAAATATAAATCC
Found at i:37963966 original size:34 final size:33
Alignment explanation
Indices: 37963909--37963986 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 33
37963899 CAGAAACAGT
*
37963909 ACAGTATCAGTTAGGCATTAGCCCAATACAATA
1 ACAGTATCAGTTAGGCATGAGCCCAATACAATA
* * * * *
37963942 ATAGTAGCAGTCTAGGCCTGAGCCCATTACAGTA
1 ACAGTATCAGT-TAGGCATGAGCCCAATACAATA
37963976 ACAGTATCAGT
1 ACAGTATCAGT
37963987 GGGGCCCAAG
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
33 9 0.25
34 27 0.75
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (33 bp):
ACAGTATCAGTTAGGCATGAGCCCAATACAATA
Found at i:37971170 original size:34 final size:33
Alignment explanation
Indices: 37971120--37971190 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 33
37971110 AGTCCAATAT
* *
37971120 CAGTTAGGCCTTAGCCCAATACAATAAGAGTAG
1 CAGTTAGGCCTGAGCCCAATACAATAACAGTAG
* * *
37971153 CAGTCTAGGCCTGAGCCCATTACAGTAACAGTAT
1 CAGT-TAGGCCTGAGCCCAATACAATAACAGTAG
37971187 CAGT
1 CAGT
37971191 GGGGCCTAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 4 0.12
34 28 0.88
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (33 bp):
CAGTTAGGCCTGAGCCCAATACAATAACAGTAG
Found at i:37971697 original size:18 final size:18
Alignment explanation
Indices: 37971660--37971700 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
37971650 CCATAATGAG
*
37971660 GCCCATGTGGGCCCATAA
1 GCCCATGTGGGCCCAAAA
37971678 GCCCATGT-GGCCCAGAAA
1 GCCCATGTGGGCCCA-AAA
37971696 GCCCA
1 GCCCA
37971701 AAAATGGCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.24, C:0.37, G:0.27, T:0.12
Consensus pattern (18 bp):
GCCCATGTGGGCCCAAAA
Found at i:37974888 original size:43 final size:44
Alignment explanation
Indices: 37974820--37974948 Score: 156
Period size: 46 Copynumber: 2.9 Consensus size: 44
37974810 TTTTTATTCA
* * *
37974820 TTCACCGGCATT-TCGCCTGCTAGGCTCG-AGGCCTGATATCAT-
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGA-ATAATG
37974862 TTCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCGAATAATG
1 TTCACCGGCATTATAGCCTGCTAGGCTCG-AAGGCCCGAATAATG
* * *
37974907 TCTCACCGGCATAATAGTCTGCTAGGCTCAAAGGCCCGAATA
1 T-TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
37974949 TAATACCAGC
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
42 12 0.16
43 15 0.20
44 4 0.05
45 20 0.26
46 25 0.33
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (44 bp):
TTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAATG
Found at i:37974997 original size:38 final size:38
Alignment explanation
Indices: 37974946--37975063 Score: 200
Period size: 38 Copynumber: 3.1 Consensus size: 38
37974936 AAAGGCCCGA
* *
37974946 ATATAATACCAGCACTAGGCCTGCGGGATTTAACCTGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCTGG
*
37974984 ATATAATACCAGCACGAAGCATGCGGGATTTAACCTGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCTGG
*
37975022 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCTGG
37975060 ATAT
1 ATAT
37975064 CATATTTCGA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 75 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCTGG
Found at i:37982568 original size:81 final size:81
Alignment explanation
Indices: 37982478--37982957 Score: 587
Period size: 81 Copynumber: 6.0 Consensus size: 81
37982468 AGTACTCTCG
** *
37982478 ATTTACAGAATTACCATTTTACCCTCAGTTTATAGAATTACCGTTTTACCCTTTATTTACAGAAT
1 ATTTACAGAATTACCATTTTACCCTCAGTTTATAGAATTACCGTTTTACCCTCGATTTACAAAAT
37982543 TACCGTTTTACCCTCA
66 TACCGTTTTACCCTCA
* * * * *
37982559 ATTTACAGAATTACCATTTTACCCTCAATTTTTAAAATTACCATTTTACCCTCGATTTACAGAAT
1 ATTTACAGAATTACCATTTTACCCTCAGTTTATAGAATTACCGTTTTACCCTCGATTTACAAAAT
37982624 TACCGTTTTACCCTCA
66 TACCGTTTTACCCTCA
* * * **
37982640 GTTTACAGAATTACTATTTTACCCTC-GATTTATATAATTACCGTTTTACCCTCGATTTGTAAAA
1 ATTTACAGAATTACCATTTTACCCTCAG-TTTATAGAATTACCGTTTTACCCTCGATTTACAAAA
*
37982704 TTACCATTTTACCCTCA
65 TTACCGTTTTACCCTCA
* * ** *
37982721 ATTTACAGAATTATCGTTTTACCCTCAGTTTATAGAATTACTATTTTACCCTCGATTTACAGAAT
1 ATTTACAGAATTACCATTTTACCCTCAGTTTATAGAATTACCGTTTTACCCTCGATTTACAAAAT
* *
37982786 TACCATTTTACCTTCA
66 TACCGTTTTACCCTCA
* * * * **
37982802 GTTTACAGAATTACTACTTTACCCTC-GATTTACAGAATTACCGTTTTACCCTCGATTTGTAAAA
1 ATTTACAGAATTACCATTTTACCCTCAG-TTTATAGAATTACCGTTTTACCCTCGATTTACAAAA
**
37982866 TTACCGTTTTACCCTTG
65 TTACCGTTTTACCCTCA
* * * *
37982883 ATTTATAGAATTA-C-TGTTTA--CT-AGTTTACAAAATTATCGTTTTACCCTCGATTTACAAAA
1 ATTTACAGAATTACCAT-TTTACCCTCAGTTTATAGAATTACCGTTTTACCCTCGATTTACAAAA
37982943 TTACCGTTTTACCCT
65 TTACCGTTTTACCCT
37982958 TGATTGTGCA
Statistics
Matches: 344, Mismatches: 50, Indels: 14
0.84 0.12 0.03
Matches are distributed among these distances:
77 47 0.14
78 3 0.01
80 5 0.01
81 288 0.84
82 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (81 bp):
ATTTACAGAATTACCATTTTACCCTCAGTTTATAGAATTACCGTTTTACCCTCGATTTACAAAAT
TACCGTTTTACCCTCA
Found at i:37982962 original size:27 final size:27
Alignment explanation
Indices: 37982474--37982962 Score: 526
Period size: 27 Copynumber: 18.3 Consensus size: 27
37982464 CCAAAGTACT
*
37982474 CTCGATTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
37982501 CTC-AGTTTATAGAATTACCGTTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
**
37982528 CTTTATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
37982555 CTCAATTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* ** * *
37982582 CTCAATTTTTAAAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
37982609 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
**
37982636 CTC-AGTTTACAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
* *
37982663 CTCGATTTATATAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
** * *
37982690 CTCGATTTGTAAAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
37982717 CTCAATTTACAGAATTATCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* **
37982744 CTC-AGTTTATAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
*
37982771 CTCGATTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* ***
37982798 TTC-AGTTTACAGAATTACTACTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
37982825 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
** *
37982852 CTCGATTTGTAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* * *
37982879 CTTGATTTATAGAATTACTG-TTTA--
1 CTCGATTTACAGAATTACCGTTTTACC
* * *
37982903 CTAG-TTTACAAAATTATCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
37982929 CTCGATTTACAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
37982956 CTTGATT
1 CTCGATT
37982963 GTGCAATTAC
Statistics
Matches: 392, Mismatches: 58, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
23 11 0.03
24 7 0.02
26 11 0.03
27 359 0.92
28 4 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
CTCGATTTACAGAATTACCGTTTTACC
Found at i:37982997 original size:27 final size:27
Alignment explanation
Indices: 37982967--37983161 Score: 198
Period size: 27 Copynumber: 7.2 Consensus size: 27
37982957 TTGATTGTGC
37982967 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
37982994 AATT-TTCGAAATACCCCTATAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * *
37983021 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
37983048 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
37983075 AATTA-TCGAAATACCCTTATAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * *
37983102 AAATACCGAAATACCACTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
37983129 AATTA-TCGAGATACCCTTGTGGGGTAA
1 AATTACT-GAAATACCCCTGTAGGGTAG
37983156 AATTAC
1 AATTAC
37983162 CATTTTGCCC
Statistics
Matches: 136, Mismatches: 26, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
26 1 0.01
27 134 0.99
28 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:37983030 original size:54 final size:54
Alignment explanation
Indices: 37982974--37983162 Score: 245
Period size: 54 Copynumber: 3.5 Consensus size: 54
37982964 TGCAATTACT
* * ** *
37982974 GAAATACCCCTGTAGGGTAGAATTTTCGAAATACCCCTATAGGGTAGAATTA-C
1 GAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATC
* *
37983027 TGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAGAATTATC
1 -GAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATC
* *
37983082 GAAATACCCTTATAGGGTAGAAATACCGAAATACCACTGTAGGGTAGAATTATC
1 GAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATC
* * * *
37983136 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCTTATAGGGTAGAATTACC
37983163 ATTTTGCCCC
Statistics
Matches: 118, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
54 117 0.99
55 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (54 bp):
GAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATC
Found at i:37983067 original size:81 final size:81
Alignment explanation
Indices: 37982975--37983160 Score: 248
Period size: 81 Copynumber: 2.3 Consensus size: 81
37982965 GCAATTACTG
* * *
37982975 AAATACCCCTGTAGGGTAGAATTTTCGAAATACCCCTATAGGGTAGAATTACTGAAATACC-CTT
1 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAATACCAC-T
37983039 ATAGGATAGAATTACCA
65 ATAGGATAGAATTACCA
* *
37983056 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTATAGGGTAGAAATACCGAAATACCACTG
1 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAATACCACTA
* * *
37983121 TAGGGTAGAATTATCG
66 TAGGATAGAATTACCA
* * * *
37983137 AGATACCCTTGTGGGGTAAAATTA
1 AAATACCCCTGTAGGGTAGAATTA
37983161 CCATTTTGCC
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
81 91 0.99
82 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (81 bp):
AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAATACCACTA
TAGGATAGAATTACCA
Found at i:37983399 original size:27 final size:26
Alignment explanation
Indices: 37983361--37983415 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 26
37983351 CGGAGGAAGC
37983361 GTTCTGATGGCTATGCCACAAATATCT
1 GTTCTGATGGCTATGCCAC-AATATCT
* *
37983388 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGATGGCTATGCCACAATATCT
37983414 GT
1 GT
37983416 ATTTGGAGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.35
Consensus pattern (26 bp):
GTTCTGATGGCTATGCCACAATATCT
Found at i:37983428 original size:27 final size:26
Alignment explanation
Indices: 37983374--37983443 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 26
37983364 CTGATGGCTA
* *
37983374 TGCCACAAATATCTGTTCTGGTGGCTC
1 TGCCAC-AATATCTGTTCTGGAGACTC
*
37983401 TGCCACAATATCTGTATTTGGAGACTC
1 TGCCACAATATCTGT-TCTGGAGACTC
*
37983428 TGTCACAATATCTGTT
1 TGCCACAATATCTGTT
37983444 GACCGATCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 10 0.26
27 28 0.74
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.36
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGAGACTC
Found at i:37983563 original size:22 final size:22
Alignment explanation
Indices: 37983531--37983589 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
37983521 CCCATTATTA
*
37983531 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
37983553 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
37983575 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
37983590 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:37983776 original size:27 final size:27
Alignment explanation
Indices: 37983754--37983827 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
37983744 TAGGTGGGTT
*
37983754 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
37983781 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
37983808 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
37983828 CAGCCATATT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:37983977 original size:6 final size:6
Alignment explanation
Indices: 37983968--37984128 Score: 156
Period size: 6 Copynumber: 26.8 Consensus size: 6
37983958 CTGTCACCTA
* * *
37983968 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
*
37984016 ATTCTG -TTACTG A-TCTG ATTCTG ATTCTG -TCACCT- AGTTCTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG A-TTCTG ATTCTG
* *
37984064 ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG
37984112 ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCT
37984129 CATTTTGGTT
Statistics
Matches: 129, Mismatches: 12, Indels: 28
0.76 0.07 0.17
Matches are distributed among these distances:
5 13 0.10
6 108 0.84
7 7 0.05
8 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:37984062 original size:25 final size:23
Alignment explanation
Indices: 37984000--37984069 Score: 86
Period size: 23 Copynumber: 2.9 Consensus size: 23
37983990 TGTTACTAAT
* *
37984000 ACTGATTCTGATTTTGATTCTGTT
1 ACTG-TTCTGATTCTGATTCTGTC
*
37984024 ACTGATCTGATTCTGATTCTGTC
1 ACTGTTCTGATTCTGATTCTGTC
37984047 ACCTAGTTCTGATTCTGATTCTG
1 A-CT-GTTCTGATTCTGATTCTG
37984070 ATTCTGTTAC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
23 17 0.43
24 6 0.15
25 17 0.43
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (23 bp):
ACTGTTCTGATTCTGATTCTGTC
Found at i:37984086 original size:84 final size:85
Alignment explanation
Indices: 37983943--37984128 Score: 338
Period size: 84 Copynumber: 2.2 Consensus size: 85
37983933 TTGCATTCAC
*
37983943 ATTCTGATTCTAATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
*
37984008 TGATTTTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
*
37984028 A-TCTGATTCTGATTCTGTCACCTAGTTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
37984092 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
37984112 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
37984129 CATTTTGGTT
Statistics
Matches: 97, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
84 81 0.84
85 16 0.16
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
TGATTCTGATTCTGTTACTG
Found at i:37984149 original size:30 final size:30
Alignment explanation
Indices: 37983943--37984128 Score: 233
Period size: 30 Copynumber: 6.4 Consensus size: 30
37983933 TTGCATTCAC
* *
37983943 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
*
37983974 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
*
37984004 ATTCTGATTTTGATTCTG-T--T-A--CTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
* *
37984028 A-TCTGATTCTGATTCTGTCACCTAGTTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
*
37984058 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
*
37984088 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
37984118 ATTCTGATTCT
1 ATTCTGATTCT
37984129 CATTTTGGTT
Statistics
Matches: 135, Mismatches: 12, Indels: 17
0.82 0.07 0.10
Matches are distributed among these distances:
23 15 0.11
24 4 0.03
26 1 0.01
27 2 0.01
29 1 0.01
30 75 0.56
31 37 0.27
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:37985503 original size:117 final size:116
Alignment explanation
Indices: 37985247--37985503 Score: 292
Period size: 117 Copynumber: 2.2 Consensus size: 116
37985237 AACAAAAGTA
* *
37985247 AAAAAGTATCAATA-CTTTTC--AAAATATATTGATACCTATTGAATTTTATTGATATCATCTTT
1 AAAAAGTATCGATACCTTTTCAAAAAACATATTGATACCTATTGAATTTTATTGATATCATCTTT
* * ** *
37985309 TTAAATCGATACCACTTTTGCATTCTAACTTCGAGACTTTTGACCAATGAC
66 TTAAATCGAAACCACTTTTGCATTCTAACTTCGAGACTTTTAAAAAATCAC
* * * *
37985360 AAAAAGTATAGATACTTTTTAAAAAAAACATATTGATACCTATTGTATTTTATCT-ATA-CTATC
1 AAAAAGTATCGATACCTTTT-CAAAAAACATATTGATACCTATTGAATTTTAT-TGATATC-ATC
* * *
37985423 TTTTTATATCGAAACCACTTTTGCATTCTGACTT-GATGATTTTTCAAAAAATCAC
63 TTTTTAAATCGAAACCACTTTTGCATTCTAACTTCGA-GACTTTT-AAAAAATCAC
*
37985478 AAAAAGTATCGATACCTATTCAAAAA
1 AAAAAGTATCGATACCTTTTCAAAAA
37985504 TATCGAGACA
Statistics
Matches: 118, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
113 12 0.10
114 4 0.03
116 3 0.03
117 75 0.64
118 24 0.20
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.39
Consensus pattern (116 bp):
AAAAAGTATCGATACCTTTTCAAAAAACATATTGATACCTATTGAATTTTATTGATATCATCTTT
TTAAATCGAAACCACTTTTGCATTCTAACTTCGAGACTTTTAAAAAATCAC
Found at i:37986890 original size:13 final size:13
Alignment explanation
Indices: 37986872--37986896 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37986862 TAATTAAGAT
37986872 TCAATCCAAATTA
1 TCAATCCAAATTA
37986885 TCAATCCAAATT
1 TCAATCCAAATT
37986897 TAACACATGT
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:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (13 bp):
TCAATCCAAATTA
Found at i:37987606 original size:17 final size:17
Alignment explanation
Indices: 37987584--37987630 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
37987574 AATAAACTCT
37987584 GTACAATCACATACCTC
1 GTACAATCACATACCTC
*
37987601 GTACAATCACATACTTC
1 GTACAATCACATACCTC
*
37987618 GTACCATCACATA
1 GTACAATCACATA
37987631 TAACCTGTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.36, C:0.32, G:0.06, T:0.26
Consensus pattern (17 bp):
GTACAATCACATACCTC
Found at i:37992917 original size:6 final size:6
Alignment explanation
Indices: 37992906--37992955 Score: 64
Period size: 6 Copynumber: 7.7 Consensus size: 6
37992896 TGCACTTCCC
37992906 AAAAAT AAAAAT AAAAAT CCAAAATAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT ---AAA-AAT AAAAAT AAAAAT AAAAAT AAAA
37992956 CTAATAATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 31 0.77
7 3 0.08
9 3 0.08
10 3 0.08
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:37992962 original size:21 final size:22
Alignment explanation
Indices: 37992909--37992953 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
37992899 ACTTCCCAAA
*
37992909 AATAAAAATAAAAATCCAAAAT
1 AATAAAAATAAAAATCAAAAAT
37992931 AATAAAAATAAAAAT-AAAAAT
1 AATAAAAATAAAAATCAAAAAT
37992952 AA
1 AA
37992954 AACTAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (22 bp):
AATAAAAATAAAAATCAAAAAT
Found at i:37993602 original size:63 final size:63
Alignment explanation
Indices: 37993526--37993648 Score: 201
Period size: 63 Copynumber: 2.0 Consensus size: 63
37993516 TCCCGATGAC
* * * *
37993526 GCTTCTTACAGTGCTCATCAAACTGAATGCTCGTACCACTACTGGCACCCTCTGAAAAACGAT
1 GCTTCTTACAGTGCTCATAAAACAGAACGCTCGTACCACTACTGGCACCCTCCGAAAAACGAT
*
37993589 GCTTCTTATAGTGCTCATAAAACAGAACGCTCGTACCACTACTGGCACCCTCCGAAAAAC
1 GCTTCTTACAGTGCTCATAAAACAGAACGCTCGTACCACTACTGGCACCCTCCGAAAAAC
37993649 TACTATTGCC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.30, C:0.31, G:0.15, T:0.24
Consensus pattern (63 bp):
GCTTCTTACAGTGCTCATAAAACAGAACGCTCGTACCACTACTGGCACCCTCCGAAAAACGAT
Found at i:37994935 original size:43 final size:44
Alignment explanation
Indices: 37994868--37994993 Score: 159
Period size: 46 Copynumber: 2.9 Consensus size: 44
37994858 CCTAAATTCA
*
37994868 TTCACCGGCATT-TCGCCTGCTAGGCTCGAA-GCCCGATA-TCAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGATAGT-AT
* *
37994910 TTCACTGGCATTATAGCCTGCTAGGCTCGACAGGCCCAAATAGTAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCGA-AGGCCC-GATAGTAT
* *
37994956 CTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGA
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGA
37994994 ATAATACTGT
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
42 11 0.15
43 16 0.22
44 2 0.03
45 10 0.14
46 32 0.44
47 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (44 bp):
TTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGATAGTAT
Found at i:37995857 original size:47 final size:47
Alignment explanation
Indices: 37995805--37995902 Score: 187
Period size: 47 Copynumber: 2.1 Consensus size: 47
37995795 AAAATTTTCT
*
37995805 TTAACTAAGTAACTTATCTGGAAATATTAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCTGAAAATATTAAGGGCAAATTTAACAAGC
37995852 TTAACTAAGTAACTTATCTGAAAATATTAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCTGAAAATATTAAGGGCAAATTTAACAAGC
37995899 TTAA
1 TTAA
37995903 ATTCAACTTA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCTGAAAATATTAAGGGCAAATTTAACAAGC
Found at i:37997510 original size:14 final size:13
Alignment explanation
Indices: 37997480--37997506 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37997470 TTTGTCTAAG
37997480 TAAAGACGAGTTT
1 TAAAGACGAGTTT
37997493 TAAAGACGAGTTT
1 TAAAGACGAGTTT
37997506 T
1 T
37997507 TAAAACAATT
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:0.37, C:0.07, G:0.22, T:0.33
Consensus pattern (13 bp):
TAAAGACGAGTTT
Found at i:38000664 original size:17 final size:18
Alignment explanation
Indices: 38000632--38000665 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38000622 ATTGGGCCAA
*
38000632 AATGGGCTGGGTGGGCCT
1 AATGGGCTGCGTGGGCCT
38000650 AATGGGCT-CGTGGGCC
1 AATGGGCTGCGTGGGCC
38000666 CTGCACAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.12, C:0.21, G:0.47, T:0.21
Consensus pattern (18 bp):
AATGGGCTGCGTGGGCCT
Found at i:38011437 original size:26 final size:27
Alignment explanation
Indices: 38011403--38011601 Score: 258
Period size: 27 Copynumber: 7.4 Consensus size: 27
38011393 ACCCCAAAAT
* *
38011403 AGGTAAAATAACCGTAATGCCCCTATA
1 AGGTAAAATGACCGTAATGCCCCTGTA
* *
38011430 AGAT-AAATGACCGTTATGCCCCTGTA
1 AGGTAAAATGACCGTAATGCCCCTGTA
*
38011456 AGGTAAAATGATCGTAATGCCCCTGTA
1 AGGTAAAATGACCGTAATGCCCCTGTA
*
38011483 AGGTAAAATGACCATAATG-CCCTGTA
1 AGGTAAAATGACCGTAATGCCCCTGTA
*
38011509 GGGTAAAATGACCGTAATGCCCCTGTA
1 AGGTAAAATGACCGTAATGCCCCTGTA
* * *
38011536 GGGTAAAATGATCGTAATACCCCTGTA
1 AGGTAAAATGACCGTAATGCCCCTGTA
* * *
38011563 GGGTAAAATGACCGTAATTCCACTGTA
1 AGGTAAAATGACCGTAATGCCCCTGTA
*
38011590 TGGTAAAATGAC
1 AGGTAAAATGAC
38011602 GATTACGCCA
Statistics
Matches: 153, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 46 0.30
27 107 0.70
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (27 bp):
AGGTAAAATGACCGTAATGCCCCTGTA
Found at i:38011506 original size:53 final size:53
Alignment explanation
Indices: 38011403--38011601 Score: 247
Period size: 53 Copynumber: 3.7 Consensus size: 53
38011393 ACCCCAAAAT
* * * *
38011403 AGGTAAAATAACCGTAATGCCCCTATAAGAT-AAATGACCGTTATGCCCCTGTA
1 AGGTAAAATGACCGTAATGCCCCTGTAAGGTAAAATGACCGTAATG-CCCTGTA
* *
38011456 AGGTAAAATGATCGTAATGCCCCTGTAAGGTAAAATGACCATAATGCCCTGTA
1 AGGTAAAATGACCGTAATGCCCCTGTAAGGTAAAATGACCGTAATGCCCTGTA
* * * *
38011509 GGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGATCGTAATACCCCTGTA
1 AGGTAAAATGACCGTAATGCCCCTGTAAGGTAAAATGACCGTAAT-GCCCTGTA
* * * *
38011563 GGGTAAAATGACCGTAATTCCACTGTATGGTAAAATGAC
1 AGGTAAAATGACCGTAATGCCCCTGTAAGGTAAAATGAC
38011602 GATTACGCCA
Statistics
Matches: 128, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
53 74 0.58
54 54 0.42
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (53 bp):
AGGTAAAATGACCGTAATGCCCCTGTAAGGTAAAATGACCGTAATGCCCTGTA
Found at i:38011541 original size:80 final size:80
Alignment explanation
Indices: 38011403--38011601 Score: 274
Period size: 80 Copynumber: 2.5 Consensus size: 80
38011393 ACCCCAAAAT
* * * *
38011403 AGGTAAAATAACCGTAATGCCCCTATAAGAT-AAATGACCGTTATGCCCCTGTAAGGTAAAATGA
1 AGGTAAAATGACCGTAATG-CCCTGTAAGGTAAAATGACCGTAATGCCCCTGTAAGGTAAAATGA
*
38011467 TCGTAATGCCCCTGTA
65 TCGTAATACCCCTGTA
* * *
38011483 AGGTAAAATGACCATAATGCCCTGTAGGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGAT
1 AGGTAAAATGACCGTAATGCCCTGTAAGGTAAAATGACCGTAATGCCCCTGTAAGGTAAAATGAT
38011548 CGTAATACCCCTGTA
66 CGTAATACCCCTGTA
* * *
38011563 GGGTAAAATGACCGTAATTCCACTGTATGGTAAAATGAC
1 AGGTAAAATGACCGTAATGCC-CTGTAAGGTAAAATGAC
38011602 GATTACGCCA
Statistics
Matches: 105, Mismatches: 12, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
79 8 0.08
80 81 0.77
81 16 0.15
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (80 bp):
AGGTAAAATGACCGTAATGCCCTGTAAGGTAAAATGACCGTAATGCCCCTGTAAGGTAAAATGAT
CGTAATACCCCTGTA
Found at i:38011995 original size:33 final size:33
Alignment explanation
Indices: 38011953--38012018 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
38011943 TTAGGCCCAC
* *
38011953 ACTATTACTGTATAAGGCTAAGCCCCAGACTGT
1 ACTAATACTGAATAAGGCTAAGCCCCAGACTGT
* * *
38011986 ACTAATACTGAATAGGGCTCAGGCCCAGACTGT
1 ACTAATACTGAATAAGGCTAAGCCCCAGACTGT
38012019 TACTGCATGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (33 bp):
ACTAATACTGAATAAGGCTAAGCCCCAGACTGT
Found at i:38018588 original size:54 final size:54
Alignment explanation
Indices: 38018518--38018637 Score: 159
Period size: 54 Copynumber: 2.2 Consensus size: 54
38018508 AAATAACTAC
* * * *
38018518 TTTGCCCTTATGAGGTAAAATGATTTTTTTGCCGTTATGTGGTAAAATGACTGT
1 TTTGCCCTTATGAGGTAAAATGACTGTTTTGCCCTTATATGGTAAAATGACTGT
* * *
38018572 TTTGCCCTTATGAGGTAAAATGACTGTTTTGCCCTTTTATGGTAAGATGATTGT
1 TTTGCCCTTATGAGGTAAAATGACTGTTTTGCCCTTATATGGTAAAATGACTGT
* *
38018626 TTTACCCCTATG
1 TTTGCCCTTATG
38018638 TGATGTATGT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (54 bp):
TTTGCCCTTATGAGGTAAAATGACTGTTTTGCCCTTATATGGTAAAATGACTGT
Found at i:38018616 original size:27 final size:27
Alignment explanation
Indices: 38018518--38018607 Score: 144
Period size: 27 Copynumber: 3.3 Consensus size: 27
38018508 AAATAACTAC
* *
38018518 TTTGCCCTTATGAGGTAAAATGATTTT
1 TTTGCCCTTATGAGGTAAAATGACTGT
* *
38018545 TTTGCCGTTATGTGGTAAAATGACTGT
1 TTTGCCCTTATGAGGTAAAATGACTGT
38018572 TTTGCCCTTATGAGGTAAAATGACTGT
1 TTTGCCCTTATGAGGTAAAATGACTGT
38018599 TTTGCCCTT
1 TTTGCCCTT
38018608 TTATGGTAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.22, C:0.14, G:0.21, T:0.42
Consensus pattern (27 bp):
TTTGCCCTTATGAGGTAAAATGACTGT
Found at i:38018621 original size:27 final size:28
Alignment explanation
Indices: 38018518--38018637 Score: 140
Period size: 27 Copynumber: 4.4 Consensus size: 28
38018508 AAATAACTAC
* *
38018518 TTTGCCCTTATGA-GGTAAAATGATTTT
1 TTTGCCCTTATGATGGTAAAATGACTGT
*
38018545 TTTGCCGTTATG-TGGTAAAATGACTGT
1 TTTGCCCTTATGATGGTAAAATGACTGT
38018572 TTTGCCCTTATGA-GGTAAAATGACTGT
1 TTTGCCCTTATGATGGTAAAATGACTGT
* * *
38018599 TTTGCCCTT-TTATGGTAAGATGATTGT
1 TTTGCCCTTATGATGGTAAAATGACTGT
* *
38018626 TTTACCCCTATG
1 TTTGCCCTTATG
38018638 TGATGTATGT
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
26 2 0.03
27 76 0.96
28 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (28 bp):
TTTGCCCTTATGATGGTAAAATGACTGT
Found at i:38021415 original size:34 final size:32
Alignment explanation
Indices: 38021371--38021448 Score: 93
Period size: 34 Copynumber: 2.4 Consensus size: 32
38021361 GTATCAGTTA
* *
38021371 GGCCTTAGCCCAATACAATAACAGTAGCAGTCTG
1 GGCCTAAGCCCAATACAATAACAGTAGCAG--GG
* * *
38021405 GGCCTAAGCCCATTACAGTAACAGTATCAGGG
1 GGCCTAAGCCCAATACAATAACAGTAGCAGGG
38021437 GGCCTAAGCCCA
1 GGCCTAAGCCCA
38021449 CAATAGAATC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
32 13 0.33
34 26 0.67
ACGTcount: A:0.31, C:0.28, G:0.23, T:0.18
Consensus pattern (32 bp):
GGCCTAAGCCCAATACAATAACAGTAGCAGGG
Found at i:38021944 original size:18 final size:18
Alignment explanation
Indices: 38021908--38021945 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
38021898 TAATGTGGCT
*
38021908 CATGTGGGCCCACATGCC
1 CATGTGGGCCCACAAGCC
38021926 CATGT-GGCCCACAAAGCC
1 CATGTGGGCCCAC-AAGCC
38021944 CA
1 CA
38021946 AAAATGGCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.24, C:0.39, G:0.24, T:0.13
Consensus pattern (18 bp):
CATGTGGGCCCACAAGCC
Found at i:38026688 original size:17 final size:18
Alignment explanation
Indices: 38026655--38026688 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
38026645 CCATAATACG
38026655 GCCCATGTGGACCCACAT
1 GCCCATGTGGACCCACAT
38026673 GCCCATGTGG-CCCACA
1 GCCCATGTGGACCCACA
38026689 AAGCCCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.21, C:0.41, G:0.24, T:0.15
Consensus pattern (18 bp):
GCCCATGTGGACCCACAT
Found at i:38026694 original size:18 final size:18
Alignment explanation
Indices: 38026655--38026695 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
38026645 CCATAATACG
*
38026655 GCCCATGTGGACCCACAT
1 GCCCATGTGGACCCACAA
38026673 GCCCATGTGG-CCCACAAA
1 GCCCATGTGGACCCAC-AA
38026691 GCCCA
1 GCCCA
38026696 AAAATAGCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.24, C:0.41, G:0.22, T:0.12
Consensus pattern (18 bp):
GCCCATGTGGACCCACAA
Found at i:38035368 original size:28 final size:27
Alignment explanation
Indices: 38035333--38035389 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
38035323 TGCACTTCCC
38035333 AAAAATAAAAATAAAAATGCAAAA-TAAT
1 AAAAATAAAAATAAAAA--CAAAACTAAT
*
38035361 AAAAATAACAATAAAAACAAAACTAAT
1 AAAAATAAAAATAAAAACAAAACTAAT
38035388 AA
1 AA
38035390 TTATATTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 5 0.19
27 6 0.22
28 16 0.59
ACGTcount: A:0.75, C:0.07, G:0.02, T:0.16
Consensus pattern (27 bp):
AAAAATAAAAATAAAAACAAAACTAAT
Found at i:38038727 original size:33 final size:33
Alignment explanation
Indices: 38038678--38038745 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
38038668 AACCAAACAT
**
38038678 TAGCACACCATACATTGAAGTTATCCATGCATG
1 TAGCACACCATACATTGAAGCCATCCATGCATG
* * *
38038711 TAGCTCACCATGCATTGAAGCCGTCCATGCATG
1 TAGCACACCATACATTGAAGCCATCCATGCATG
38038744 TA
1 TA
38038746 CCTTTCCATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (33 bp):
TAGCACACCATACATTGAAGCCATCCATGCATG
Found at i:38048994 original size:12 final size:11
Alignment explanation
Indices: 38048971--38049011 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 11
38048961 AGAAGTGAGC
38048971 AAAAAAAG-AA
1 AAAAAAAGAAA
38048981 AAAAAAAGTAAA
1 AAAAAAAG-AAA
38048993 AAAAAAAGAACA
1 AAAAAAAGAA-A
38049005 AAAAAAA
1 AAAAAAA
38049012 AAGTGAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.29
11 2 0.07
12 18 0.64
ACGTcount: A:0.88, C:0.02, G:0.07, T:0.02
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:38050121 original size:14 final size:13
Alignment explanation
Indices: 38050102--38050139 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
38050092 AAAAGTGAGA
38050102 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
38050114 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
38050129 GAAAAAGAAAA
1 GAAAAAGAAAA
38050140 AGCAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:38050132 original size:27 final size:27
Alignment explanation
Indices: 38050102--38050163 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
38050092 AAAAGTGAGA
* *
38050102 GAAAAAGAAAATG-AAGAAAAGAAAATT
1 GAAAAAGAAAAAGCAAAAAAAG-AAATT
*
38050129 GAAAAAGAAAAAGCAAAAAAAGAATTT
1 GAAAAAGAAAAAGCAAAAAAAGAAATT
38050156 GAAAAAGA
1 GAAAAAGA
38050164 GAAGAGTGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 24 0.77
28 7 0.23
ACGTcount: A:0.71, C:0.02, G:0.18, T:0.10
Consensus pattern (27 bp):
GAAAAAGAAAAAGCAAAAAAAGAAATT
Found at i:38050136 original size:13 final size:12
Alignment explanation
Indices: 38050020--38050139 Score: 63
Period size: 12 Copynumber: 10.0 Consensus size: 12
38050010 AGAAAGAGAT
*
38050020 TGAAAAAGAAAT
1 TGAAAAAGAAAA
38050032 TG--AAAGAAAA
1 TGAAAAAGAAAA
*
38050042 -CAAAAAGAAAA
1 TGAAAAAGAAAA
*
38050053 CGAAAAAGAAAA
1 TGAAAAAGAAAA
* **
38050065 AGAAATTGCAAAA
1 TGAAAAAG-AAAA
38050078 -GAAAAAG-AAA
1 TGAAAAAGAAAA
* * *
38050088 TCAAAAAAGTGAGA
1 T-GAAAAAG-AAAA
38050102 -GAAAAAGAAAA
1 TGAAAAAGAAAA
38050113 TGAAGAAAAGAAAA
1 TG-A-AAAAGAAAA
38050127 TTGAAAAAGAAAA
1 -TGAAAAAGAAAA
38050140 AGCAAAAAAA
Statistics
Matches: 83, Mismatches: 13, Indels: 23
0.70 0.11 0.19
Matches are distributed among these distances:
10 10 0.12
11 10 0.12
12 35 0.42
13 14 0.17
14 12 0.14
15 2 0.02
ACGTcount: A:0.71, C:0.03, G:0.17, T:0.08
Consensus pattern (12 bp):
TGAAAAAGAAAA
Found at i:38050146 original size:7 final size:6
Alignment explanation
Indices: 38050034--38050147 Score: 70
Period size: 6 Copynumber: 18.5 Consensus size: 6
38050024 AAAGAAATTG
* * ** *
38050034 AAAG-A AAACAA AAAGAA AACGAA AAAGAA AAAGAA ATTGCA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
* ** * * *
38050081 AAAGAA ATCA-AA AAAGTG AGAGAA AAAGAA AATGAAGA AAAGAA AATTGAA
1 AAAGAA A-AAGAA AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA
38050132 AAAGAA AAAGCAA AAA
1 AAAGAA AAAG-AA AAA
38050148 AAGAATTTGA
Statistics
Matches: 80, Mismatches: 22, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
5 4 0.05
6 59 0.74
7 13 0.16
8 4 0.05
ACGTcount: A:0.73, C:0.04, G:0.17, T:0.06
Consensus pattern (6 bp):
AAAGAA
Found at i:38060275 original size:48 final size:48
Alignment explanation
Indices: 38060223--38060586 Score: 539
Period size: 48 Copynumber: 7.6 Consensus size: 48
38060213 TGTCAGTGCT
* * * *
38060223 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATAAACGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCC
*
38060271 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCC
* * *
38060319 AATGCCATGTCCCAGACATAGTCTTACACTGGCTCACATATCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCC
* * * *
38060367 AATGCCATGTCCCATACATGGTCTTACACTGGCTCATATATCAACACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCC
* *
38060415 GATGCCATGTCCAAGACATGGTCTTACACTGGCTCACATATCAACACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCC
38060463 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCC
* * * ** *
38060511 AATGCTATGTCTCAGACATGGTCTTACACTGGCTCACATATCAATACT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCC
*
38060559 GATGCCATGTCCTAGACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
38060587 TGGGATCTCA
Statistics
Matches: 288, Mismatches: 28, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 288 1.00
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCC
Found at i:38061912 original size:48 final size:48
Alignment explanation
Indices: 38061841--38062156 Score: 418
Period size: 48 Copynumber: 6.6 Consensus size: 48
38061831 CCACATATCG
* * * * *
38061841 ATGCCACGTCCCAGACTTGGTCTTACACTAGCACATATATCAACACCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACACCA
* ** **
38061889 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACACCA
* * * * *
38061937 ATTCCATGTCCCAAACATGGCCTTACACTGGCTCATATATCAACACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACACCA
* *
38061985 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACACCA
38062033 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACACCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACACCA
* *
38062081 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATATCAAC-GCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACACCA
* * *
38062128 GATGTCATGTCCTAGACAAGGTCTTACAC
1 -ATGCCATGTCCCAGACATGGTCTTACAC
38062157 GGGATCTCAT
Statistics
Matches: 240, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
47 2 0.01
48 238 0.99
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACACCA
Found at i:38061989 original size:96 final size:96
Alignment explanation
Indices: 38061801--38062156 Score: 492
Period size: 96 Copynumber: 3.8 Consensus size: 96
38061791 CATAATTTAA
* * *
38061801 GCCATGTCCCAGACATGGTCTTACA-TGGATCCACATAT------CGATGCCACGTCCCAGACTT
1 GCCATGTCCCAGACATGGTCTTACACTGGCT-CACATATCAACGCCGATGCCATGTCCCAGACAT
* *
38061859 GGTCTTACACTAGCACATATATCAACACCAAT
65 GGTCTTACACTGGCTCATATATCAACACCAAT
* * * * *
38061891 GCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGCTGATTCCATGTCCCAAACATG
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCCGATGCCATGTCCCAGACATG
* *
38061956 GCCTTACACTGGCTCATATATCAACACCGAT
66 GTCTTACACTGGCTCATATATCAACACCAAT
38061987 GCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCCGATGCCATGTCCCAGACATG
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCCGATGCCATGTCCCAGACATG
*
38062052 GTCTTACACTGGCTCACATATCAACACCAAT
66 GTCTTACACTGGCTCATATATCAACACCAAT
* * * * *
38062083 GCCATGTCCTAGACATGGTCTTACACTGGCTCACATATCAACGCAGATGTCATGTCCTAGACAAG
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCCGATGCCATGTCCCAGACATG
38062148 GTCTTACAC
66 GTCTTACAC
38062157 GGGATCTCAT
Statistics
Matches: 235, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
90 32 0.14
91 3 0.01
96 200 0.85
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (96 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCCGATGCCATGTCCCAGACATG
GTCTTACACTGGCTCATATATCAACACCAAT
Found at i:38066596 original size:23 final size:23
Alignment explanation
Indices: 38066559--38066658 Score: 98
Period size: 23 Copynumber: 4.2 Consensus size: 23
38066549 AAGCTTTATT
*
38066559 GAGCTG-AACAGTAAGCTCATAC
1 GAGCTGAAACAATAAGCTCATAC
38066581 GAGCTGAAACAATAAGCTC-TAC
1 GAGCTGAAACAATAAGCTCATAC
* *
38066603 TAAGCTGAAA-ATAGTAAGCTCTTAC
1 -GAGCTGAAACA-A-TAAGCTCATAC
38066628 GAGCTGATATATCAATAAGCTCATAC
1 GAGCTGA-A-A-CAATAAGCTCATAC
38066654 GAGCT
1 GAGCT
38066659 ATGGTGAGTC
Statistics
Matches: 65, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
22 10 0.15
23 20 0.31
24 13 0.20
25 4 0.06
26 16 0.25
27 1 0.02
28 1 0.02
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (23 bp):
GAGCTGAAACAATAAGCTCATAC
Found at i:38077771 original size:13 final size:12
Alignment explanation
Indices: 38077753--38077785 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
38077743 TTGGAGTAAC
38077753 AAAAAAAATCAA
1 AAAAAAAATCAA
*
38077765 AAAAAAAATCGA
1 AAAAAAAATCAA
38077777 AAAAAAAAT
1 AAAAAAAAT
38077786 TTGATGGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.82, C:0.06, G:0.03, T:0.09
Consensus pattern (12 bp):
AAAAAAAATCAA
Found at i:38078867 original size:12 final size:12
Alignment explanation
Indices: 38078850--38078919 Score: 50
Period size: 12 Copynumber: 5.7 Consensus size: 12
38078840 CGAGAAAAGG
*
38078850 AAAAGAGATTGA
1 AAAAGAAATTGA
38078862 AAAAGAAATTGAA
1 AAAAGAAATTG-A
* **
38078875 AGAAAAAAAAAGA
1 A-AAAGAAATTGA
* **
38078888 AAACGAAAAAGA
1 AAAAGAAATTGA
*
38078900 AAAAGAAATTGT
1 AAAAGAAATTGA
38078912 AAAAGAAA
1 AAAAGAAA
38078920 AAGAAATCGA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
12 35 0.76
13 4 0.09
14 7 0.15
ACGTcount: A:0.71, C:0.01, G:0.17, T:0.10
Consensus pattern (12 bp):
AAAAGAAATTGA
Found at i:38078869 original size:6 final size:6
Alignment explanation
Indices: 38078860--38078979 Score: 69
Period size: 6 Copynumber: 19.2 Consensus size: 6
38078850 AAAAGAGATT
** * * **
38078860 GAAAAA GAAATT GAAAGAA AAAAAAA GAAAAC GAAAAA GAAAAA GAAATT
1 GAAAAA GAAAAA GAAA-AA GAA-AAA GAAAAA GAAAAA GAAAAA GAAAAA
* ** ** * *
38078910 GTAAAA GAAAAA GAAATC GAAAAA GTGAGA GAAAAA GAAAAT GAAGAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA G-A-AAAA
*
38078960 GAAAATT GAAAAA GAAAAA G
1 GAAAA-A GAAAAA GAAAAA G
38078980 CGAAAAAAGA
Statistics
Matches: 81, Mismatches: 28, Indels: 10
0.68 0.24 0.08
Matches are distributed among these distances:
6 63 0.78
7 13 0.16
8 5 0.06
ACGTcount: A:0.71, C:0.02, G:0.19, T:0.08
Consensus pattern (6 bp):
GAAAAA
Found at i:38078886 original size:38 final size:39
Alignment explanation
Indices: 38078860--38078997 Score: 111
Period size: 42 Copynumber: 3.4 Consensus size: 39
38078850 AAAAGAGATT
38078860 GAAAAAGAAATTG-AAAGAAAAAAAAAGAAAACGAAAAA
1 GAAAAAGAAATTGAAAAGAAAAAAAAAGAAAACGAAAAA
* * ** *
38078898 GAAAAAGAAATTGTAAAAGAAAAAGAAATCGAAAAAGTGAGA
1 GAAAAAGAAATTG-AAAAGAAAAA-AAA-AGAAAACGAAAAA
* * *
38078940 GAAAAAGAAAATG--AAGAAAAGAAAATTGAAAAAGAAAAA
1 GAAAAAGAAATTGAAAAGAAAA-AAAA-AGAAAACGAAAAA
38078979 GCGAAAAAAGAAATTGAAA
1 --G-AAAAAGAAATTGAAA
38078998 GAGAGCTTGA
Statistics
Matches: 79, Mismatches: 11, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
38 13 0.16
39 20 0.25
40 10 0.13
41 4 0.05
42 31 0.39
44 1 0.01
ACGTcount: A:0.70, C:0.02, G:0.19, T:0.09
Consensus pattern (39 bp):
GAAAAAGAAATTGAAAAGAAAAAAAAAGAAAACGAAAAA
Found at i:38078897 original size:7 final size:6
Alignment explanation
Indices: 38078873--38078979 Score: 74
Period size: 6 Copynumber: 17.7 Consensus size: 6
38078863 AAAGAAATTG
* ** *
38078873 AAAG-A AAA-AA AAAGAA AACGAA AAAGAA AAAGAA ATTGTA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
** ** * * *
38078919 AAAGAA ATCGAA AAAGTG AGAGAA AAAGAA AATGAAGA AAAGAA AATTGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA
38078970 AAAGAA AAAG
1 AAAGAA AAAG
38078980 CGAAAAAAGA
Statistics
Matches: 75, Mismatches: 22, Indels: 9
0.71 0.21 0.08
Matches are distributed among these distances:
5 7 0.09
6 57 0.76
7 7 0.09
8 4 0.05
ACGTcount: A:0.72, C:0.02, G:0.19, T:0.07
Consensus pattern (6 bp):
AAAGAA
Found at i:38078934 original size:18 final size:18
Alignment explanation
Indices: 38078860--38078934 Score: 87
Period size: 18 Copynumber: 4.1 Consensus size: 18
38078850 AAAAGAGATT
*
38078860 GAAAAAGAAATTGAAAGAAA
1 GAAAAAGAAATCG-AA-AAA
* *
38078880 AAAAAAGAAAACGAAAAA
1 GAAAAAGAAATCGAAAAA
* *
38078898 GAAAAAGAAATTGTAAAA
1 GAAAAAGAAATCGAAAAA
38078916 GAAAAAGAAATCGAAAAA
1 GAAAAAGAAATCGAAAAA
38078934 G
1 G
38078935 TGAGAGAAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
18 34 0.74
19 2 0.04
20 10 0.22
ACGTcount: A:0.72, C:0.03, G:0.17, T:0.08
Consensus pattern (18 bp):
GAAAAAGAAATCGAAAAA
Found at i:38078961 original size:14 final size:13
Alignment explanation
Indices: 38078940--38078977 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
38078930 AAAAGTGAGA
38078940 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
38078952 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
38078967 GAAAAAGAAAA
1 GAAAAAGAAAA
38078978 AGCGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:38078976 original size:18 final size:18
Alignment explanation
Indices: 38078843--38078977 Score: 63
Period size: 18 Copynumber: 7.6 Consensus size: 18
38078833 CATTGAGCGA
* *
38078843 GAAAAGGAAAAG-AGATT
1 GAAAAAGAAAAGAAAATT
*
38078860 GAAAAAGAAATTG-AAA--
1 GAAAAAGAAA-AGAAAATT
*
38078876 GAAAAA-AAAAGAAAA-C
1 GAAAAAGAAAAGAAAATT
38078892 GAAAAAGAAAA-AGAAATT
1 GAAAAAGAAAAGA-AAATT
* *
38078910 GTAAAAGAAAA-AGAAATC
1 GAAAAAGAAAAGA-AAATT
* * *
38078928 GAAAAAGTGAGAGAAAA-A
1 GAAAAAG-AAAAGAAAATT
38078946 GAAAATGAAGAAAAGAAAATT
1 G-AAA--AAGAAAAGAAAATT
38078967 GAAAAAGAAAA
1 GAAAAAGAAAA
38078978 AGCGAAAAAA
Statistics
Matches: 92, Mismatches: 14, Indels: 23
0.71 0.11 0.18
Matches are distributed among these distances:
14 1 0.01
15 6 0.07
16 13 0.14
17 16 0.17
18 33 0.36
19 8 0.09
20 11 0.12
21 4 0.04
ACGTcount: A:0.70, C:0.01, G:0.20, T:0.09
Consensus pattern (18 bp):
GAAAAAGAAAAGAAAATT
Done.