Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 111 of 193
Found at i:35675010 original size:55 final size:56
Alignment explanation
Indices: 35674897--35675044 Score: 208
Period size: 55 Copynumber: 2.7 Consensus size: 56
35674887 AAGACTTAAG
* * *
35674897 AGAGCGTTATTCTGTAATATGGCTCGAAAGAGCGTTATTTTGTATTTTGGCTCGAA
1 AGAGCGTTATTCTGTAATATGGCTCGAAAGAGCGTTATTCTGTATTCTGGCTCAAA
*
35674953 AGAGCGTTATTCTGTAATATGGCTCG-AAGAGTGTTATTCTGTATTCTGGCTCAAA
1 AGAGCGTTATTCTGTAATATGGCTCGAAAGAGCGTTATTCTGTATTCTGGCTCAAA
* * * * *
35675008 AGAGTGCTACTCTGTATTCTGGCTCGAAAGAGCGTTA
1 AGAGCGTTATTCTGTAATATGGCTCGAAAGAGCGTTA
35675045 CTCTAAATCT
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
55 46 0.57
56 35 0.43
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (56 bp):
AGAGCGTTATTCTGTAATATGGCTCGAAAGAGCGTTATTCTGTATTCTGGCTCAAA
Found at i:35675065 original size:55 final size:55
Alignment explanation
Indices: 35674897--35675067 Score: 146
Period size: 55 Copynumber: 3.1 Consensus size: 55
35674887 AAGACTTAAG
* * * * * * * *
35674897 AGAGCGTTATTCTGTAATATGGCTCGAAAGAGCGTTATTTTGTATTTTGGCTCGAA
1 AGAGCGCTACTCTGTAATATGGCTCG-AAGAGCGTTACTCTGAAATCTAGCTCGAA
* * * * * * * *
35674953 AGAGCGTTATTCTGTAATATGGCTCGAAGAGTGTTATTCTGTATTCTGGCTCAAA
1 AGAGCGCTACTCTGTAATATGGCTCGAAGAGCGTTACTCTGAAATCTAGCTCGAA
* * *
35675008 AGAGTGCTACTCTGTATTCTGGCTCGAAAGAGCGTTACTCT-AAATCTAGCTCGAA
1 AGAGCGCTACTCTGTAATATGGCTCG-AAGAGCGTTACTCTGAAATCTAGCTCGAA
35675063 AGAGC
1 AGAGC
35675068 ATTATTTTGG
Statistics
Matches: 98, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
55 60 0.61
56 38 0.39
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (55 bp):
AGAGCGCTACTCTGTAATATGGCTCGAAGAGCGTTACTCTGAAATCTAGCTCGAA
Found at i:35675066 original size:83 final size:83
Alignment explanation
Indices: 35674897--35675073 Score: 212
Period size: 83 Copynumber: 2.1 Consensus size: 83
35674887 AAGACTTAAG
* * * * *
35674897 AGAGCGTTATTCTGTAATATGGCTCGAAAGAGCGTTATTTTGTATTTTGGCTCGAAAGAGCGTTA
1 AGAGCGTTATTCTGTAATATGGCTCAAAAGAGCGCTACTCTGTATTCTGGCTCGAAAGAGCGTTA
* * *
35674962 TTCTGTAATATGGCTCGA
66 CTCTGAAATATAGCTCGA
* * * *
35674980 AGAGTGTTATTCTGTATTCTGGCTCAAAAGAGTGCTACTCTGTATTCTGGCTCGAAAGAGCGTTA
1 AGAGCGTTATTCTGTAATATGGCTCAAAAGAGCGCTACTCTGTATTCTGGCTCGAAAGAGCGTTA
*
35675045 CTCT-AAATCTAGCTCGAA
66 CTCTGAAATATAGCTCG-A
*
35675063 AGAGCATTATT
1 AGAGCGTTATT
35675074 TTGGGTTGGT
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
82 9 0.12
83 69 0.88
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (83 bp):
AGAGCGTTATTCTGTAATATGGCTCAAAAGAGCGCTACTCTGTATTCTGGCTCGAAAGAGCGTTA
CTCTGAAATATAGCTCGA
Found at i:35689096 original size:39 final size:40
Alignment explanation
Indices: 35689053--35689151 Score: 155
Period size: 40 Copynumber: 2.5 Consensus size: 40
35689043 AGGAAATTGA
*
35689053 GATGAAAACTCGCAAAGGGCATCT-AAAAAAAAGGTTCAG
1 GATGAAAACCCGCAAAGGGCATCTCAAAAAAAAGGTTCAG
**
35689092 GATGAAAACCCGCAAAGGGTGTCTCAAAAAAAAGGTTCAG
1 GATGAAAACCCGCAAAGGGCATCTCAAAAAAAAGGTTCAG
*
35689132 GATGAAAACCCGTAAAGGGC
1 GATGAAAACCCGCAAAGGGC
35689152 GTCCTAGAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 21 0.39
40 33 0.61
ACGTcount: A:0.43, C:0.17, G:0.25, T:0.14
Consensus pattern (40 bp):
GATGAAAACCCGCAAAGGGCATCTCAAAAAAAAGGTTCAG
Found at i:35690537 original size:205 final size:205
Alignment explanation
Indices: 35690184--35690980 Score: 1355
Period size: 205 Copynumber: 3.9 Consensus size: 205
35690174 TATACCAACT
35690184 CAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGGTTA
1 CAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAAT-AAATGGTTA
* *
35690249 GCTTCCTGATGAGATACTGAGAAGTGGATCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGAGAA
65 GCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAA
35690314 TTAAAACAAGTGATGCGGTCATCTTCCTGATGAGACACTAAGAAGAAGACCAAATCAAACCCAGG
130 TTAAAACAAGTGATGCGGTCATCTTCCTGATGAGACACTAAGAAGAAGACCAAATCAAACCCAGG
35690379 CTCAATGCGAG
195 CTCAATGCGAG
* *
35690390 CAAATCTTCGAACCCCAACTTCATGATGAGACACTGAGAAGCAGGTCGAAGCAATAAATGGTTAG
1 CAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAATGGTTAG
* * *
35690455 CTTCCTGATGAGATACTAAGAAGTGGATCAAATTCGTCTTCCTGAGGAGATCCAGAAAAGCGAAT
66 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAAT
* * * *
35690520 TAAAACAAGTGATGCGGTCATCTTCCTGATGAGACATTGAGAAAAAGACCAAGTCAAACCCAGGC
131 TAAAACAAGTGATGCGGTCATCTTCCTGATGAGACACTAAGAAGAAGACCAAATCAAACCCAGGC
35690585 TCAATGCGAG
196 TCAATGCGAG
* *
35690595 CAAATCTTCGAACCCCAGCTTCCTGATAAGACACTGAGAAGCAGCTCGAAGCAATAAATGGTTAG
1 CAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAATGGTTAG
*
35690660 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGA-CCTAGAGAAGCGAA
66 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCC-AGAGAAGCGAA
35690724 TTAAAACAAGTGATGCGGTCATCTTCCTGATGAGACACTAAGAAGAAGACCAAATCAAACCCAGG
130 TTAAAACAAGTGATGCGGTCATCTTCCTGATGAGACACTAAGAAGAAGACCAAATCAAACCCAGG
*
35690789 CTTAATGCGAG
195 CTCAATGCGAG
35690800 CAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAATGGTTAG
1 CAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAATGGTTAG
* *
35690865 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGTGGAGATCTAGAGAAGCGAAT
66 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAAT
* * * * * *
35690930 TAAAACAAG-GACGTGGTCATCTTCCTGATGAAATACTGAGAAGAAGGCCAA
131 TAAAACAAGTGATGCGGTCATCTTCCTGATGAGACACTAAGAAGAAGACCAA
35690981 GTTAATGAAA
Statistics
Matches: 556, Mismatches: 33, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
204 38 0.07
205 464 0.83
206 54 0.10
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (205 bp):
CAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAATGGTTAG
CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAAT
TAAAACAAGTGATGCGGTCATCTTCCTGATGAGACACTAAGAAGAAGACCAAATCAAACCCAGGC
TCAATGCGAG
Found at i:35691356 original size:17 final size:17
Alignment explanation
Indices: 35691336--35691378 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
35691326 TTATTATAAA
35691336 TTTAAATTTAAAAATGT
1 TTTAAATTTAAAAATGT
**
35691353 TTTAAATTTAAATTTGT
1 TTTAAATTTAAAAATGT
*
35691370 TTTGAATTT
1 TTTAAATTT
35691379 GGAATAATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (17 bp):
TTTAAATTTAAAAATGT
Found at i:35692154 original size:30 final size:30
Alignment explanation
Indices: 35692120--35692402 Score: 233
Period size: 29 Copynumber: 9.6 Consensus size: 30
35692110 TAACTTCTTC
* *
35692120 AAAATTATATTTTTGACCCCGAAACTTTTA
1 AAAATTACATTTTTGACCCCGAAACTTTCA
* *
35692150 AAAATTATATTTTTG-CCTCGAAACTTTC-
1 AAAATTACATTTTTGACCCCGAAACTTTCA
* * *
35692178 AAAATTTCATTTTTAACCCTGAAACTTTCA
1 AAAATTACATTTTTGACCCCGAAACTTTCA
* **
35692208 AAAATTACATTTTTGCCCCCG-AACTACCA
1 AAAATTACATTTTTGACCCCGAAACTTTCA
* * * *
35692237 AAAATTCCATTTTTAACCTCGAAACTTCCA
1 AAAATTACATTTTTGACCCCGAAACTTTCA
* *
35692267 AAAATTACATTTTT-A-CCCTAAACTTTTA
1 AAAATTACATTTTTGACCCCGAAACTTTCA
* * *
35692295 AAATTTCCATTTTT-ACCCCCTAAAACTTTCAA
1 AAAATTACATTTTTGA-CCCC-GAAACTTTC-A
* * *
35692327 AAAATTATA-TTTTG-CCCCCAAACTTCCA
1 AAAATTACATTTTTGACCCCGAAACTTTCA
* * * *
35692355 AAAATTTCATTTTTCACCTCG-AACTTCCA
1 AAAATTACATTTTTGACCCCGAAACTTTCA
*
35692384 AAAATTCCATTTTTGACCC
1 AAAATTACATTTTTGACCC
35692403 TAAAACTCCC
Statistics
Matches: 203, Mismatches: 40, Indels: 21
0.77 0.15 0.08
Matches are distributed among these distances:
28 42 0.21
29 81 0.40
30 62 0.31
31 11 0.05
32 7 0.03
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (30 bp):
AAAATTACATTTTTGACCCCGAAACTTTCA
Found at i:35692190 original size:58 final size:58
Alignment explanation
Indices: 35692117--35692398 Score: 268
Period size: 58 Copynumber: 4.8 Consensus size: 58
35692107 TAGTAACTTC
* * * *
35692117 TTCAAAATTAT-ATTTTTGACCCCGAAACTTTTAAAAATTATATTTTTGCCTCGAAACT
1 TTCAAAATT-TCATTTTTAACCCCGAAACTTTCAAAAATTACATTTTTGCCCCGAAACT
*
35692175 TTCAAAATTTCATTTTTAACCCTGAAACTTTCAAAAATTACATTTTTGCCCCCG-AACT
1 TTCAAAATTTCATTTTTAACCCCGAAACTTTCAAAAATTACATTTTTG-CCCCGAAACT
** * * * * *
35692233 ACCAAAAATTCCATTTTTAACCTCGAAACTTCCAAAAATTACATTTTT-ACCCTAAACT
1 TTC-AAAATTTCATTTTTAACCCCGAAACTTTCAAAAATTACATTTTTGCCCCGAAACT
* * * * *
35692291 TTTAAAATTTCCATTTTTACCCCCTAAAACTTTCAAAAAATTATA-TTTTGCCCCCAAACT
1 TTCAAAATTT-CATTTTTAACCCC-GAAACTTTC-AAAAATTACATTTTTGCCCCGAAACT
* * * * *
35692351 TCCAAAAATTTCATTTTTCACCTCG-AACTTCCAAAAATTCCATTTTTG
1 TTC-AAAATTTCATTTTTAACCCCGAAACTTTCAAAAATTACATTTTTG
35692399 ACCCTAAAAC
Statistics
Matches: 181, Mismatches: 33, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
57 18 0.10
58 73 0.40
59 55 0.30
60 28 0.15
61 7 0.04
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.38
Consensus pattern (58 bp):
TTCAAAATTTCATTTTTAACCCCGAAACTTTCAAAAATTACATTTTTGCCCCGAAACT
Found at i:35692404 original size:88 final size:87
Alignment explanation
Indices: 35692128--35692409 Score: 272
Period size: 88 Copynumber: 3.2 Consensus size: 87
35692118 TCAAAATTAT
* * *
35692128 ATTTTTGACCCCGAAACTTT-TAAAAATTATATTTTTGCCTCGAAACTTTC-AAAATTTCATTTT
1 ATTTTTGACCCCAAAACTTTCAAAAAATTATA-TTTTGCCTCGAAACTTCCAAAAATTTCATTTT
*
35692191 TAACCCTGAAACTTTCAAAAATTAC
65 T-ACCCTG-AACTTTCAAAAATTCC
** * * * *
35692216 ATTTTTG-CCCCCGAAC-TACCAAAAATTCCAT-TTTTAACCTCGAAACTTCCAAAAATTACATT
1 ATTTTTGACCCCAAAACTTTCAAAAAATT--ATATTTT-GCCTCGAAACTTCCAAAAATTTCATT
* * *
35692278 TTTACCCTAAACTTTTAAAATTTCC
63 TTTACCCTGAACTTTCAAAAATTCC
* *
35692303 ATTTTT-ACCCCCTAAAACTTTCAAAAAATTATATTTTGCCCCCAAACTTCCAAAAATTTCATTT
1 ATTTTTGA-CCCC-AAAACTTTCAAAAAATTATATTTTGCCTCGAAACTTCCAAAAATTTCATTT
*
35692367 TT-CACCTCGAACTTCCAAAAATTCC
64 TTAC-CCT-GAACTTTCAAAAATTCC
*
35692392 ATTTTTGACCCTAAAACT
1 ATTTTTGACCCCAAAACT
35692410 CCCAAAATTA
Statistics
Matches: 157, Mismatches: 24, Indels: 26
0.76 0.12 0.13
Matches are distributed among these distances:
86 1 0.01
87 38 0.24
88 64 0.41
89 44 0.28
90 10 0.06
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (87 bp):
ATTTTTGACCCCAAAACTTTCAAAAAATTATATTTTGCCTCGAAACTTCCAAAAATTTCATTTTT
ACCCTGAACTTTCAAAAATTCC
Found at i:35692416 original size:29 final size:29
Alignment explanation
Indices: 35692165--35692430 Score: 195
Period size: 29 Copynumber: 9.1 Consensus size: 29
35692155 TATATTTTTG
* *
35692165 CCTCGAAACTTTC-AAAATTTCATTTTTAAC
1 CCTC-AAACTTCCAAAAATTCCATTTTT-AC
* * * *
35692195 CCTGAAACTTTCAAAAATTACATTTTTGC
1 CCTCAAACTTCCAAAAATTCCATTTTTAC
* * * *
35692224 CCCCGAACTACCAAAAATTCCATTTTTAA
1 CCTCAAACTTCCAAAAATTCCATTTTTAC
*
35692253 CCTCGAAACTTCCAAAAATTACATTTTTAC
1 CCTC-AAACTTCCAAAAATTCCATTTTTAC
** *
35692283 CCT-AAACTTTTAAAATTTCCATTTTTACCC
1 CCTCAAACTTCCAAAAATTCCATTTTTA--C
* * *
35692313 CCTAAAACTTTCAAAAAATT--ATATTTTGC
1 CCTCAAAC-TTCCAAAAATTCCAT-TTTTAC
* *
35692342 CCCCAAACTTCCAAAAATTTCATTTTT-C
1 CCTCAAACTTCCAAAAATTCCATTTTTAC
*
35692370 ACCTCGAACTTCCAAAAATTCCATTTTTGAC
1 -CCTCAAACTTCCAAAAATTCCATTTTT-AC
* *
35692401 CCTAAAAC-TCCCAAAATTACCA-TTTTAC
1 CCTCAAACTTCCAAAAATT-CCATTTTTAC
35692429 CC
1 CC
35692431 CCAGATGTCC
Statistics
Matches: 190, Mismatches: 33, Indels: 28
0.76 0.13 0.11
Matches are distributed among these distances:
28 35 0.18
29 81 0.43
30 57 0.30
31 9 0.05
32 8 0.04
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (29 bp):
CCTCAAACTTCCAAAAATTCCATTTTTAC
Found at i:35693189 original size:28 final size:28
Alignment explanation
Indices: 35693157--35693213 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
35693147 TATCCTCTTC
35693157 AAAAGTTTTCAAAACATCCTTCAATTTT
1 AAAAGTTTTCAAAACATCCTTCAATTTT
35693185 AAAAGTTTTCAAAACATCCTTCAATTTT
1 AAAAGTTTTCAAAACATCCTTCAATTTT
35693213 A
1 A
35693214 TGTATCTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.39
Consensus pattern (28 bp):
AAAAGTTTTCAAAACATCCTTCAATTTT
Found at i:35694819 original size:18 final size:18
Alignment explanation
Indices: 35694785--35694826 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
35694775 GAGTTTTAAA
* *
35694785 ATTTTT-TAATTATTTTT
1 ATTTTTATAAGTAATTTT
35694802 ATTTTTATAAGTAATTTT
1 ATTTTTATAAGTAATTTT
35694820 -TTTTTAT
1 ATTTTTAT
35694827 TTTCATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (18 bp):
ATTTTTATAAGTAATTTT
Found at i:35701704 original size:140 final size:136
Alignment explanation
Indices: 35701560--35701978 Score: 474
Period size: 139 Copynumber: 3.0 Consensus size: 136
35701550 TTCTTAAACA
* ** ** *
35701560 AAATCACTAATTTTCTAAAAAAATTAAAGCTTTTATTTCGAAA-CGTTAAAAAAAT-TAAACTTT
1 AAATCACTAATTTTCT-TAAAAATTAAAAATTTTATTTCGAAATAATTAAAAAAATCAAAACTTT
*
35701623 ATTTAAAAATTTAAACTTTTTCTTTAAAATGACTAAAAAATATTTTTTTATTTTTAAAAATCTAA
65 ATTTAAAAATTTAAA-TTTTTCTTTAAAAGGACTAAAAAATA--TTTTTATTTTTAAAAATCTAA
35701688 ACTTATTTTTTT
127 A-TT-TTTTTTT
* * *
35701700 AAATCACT-ATTTTACTTAAAAATTAAAAATTTTATTTCAAAATATTTAAAAAAATCAAAATTTT
1 AAATCACTAATTTT-CTTAAAAATTAAAAATTTTATTTCGAAATAATTAAAAAAATCAAAACTTT
** * *
35701764 ATTTAAAAATTTAAAAATTTCTTTTAAAAGGACTAAAAACTATTTTTATTTTAAAAAATCT--AT
65 ATTTAAAAATTTAAATTTTTC-TTTAAAAGGACTAAAAAATATTTTTATTTTTAAAAATCTAAAT
35701827 TTTTTTTT
129 TTTTTTTT
* * * * *
35701835 AAAAAAATCACTACTTTTCTTAAAAATCAAAATTTTTAATTAGAAATAATTAAAAAAATCAAAAC
1 ----AAATCACTAATTTTCTTAAAAATTAAAAATTTTATTTCGAAATAATTAAAAAAATCAAAAC
*
35701900 TTTATTTAAAAA--TAATTTTTTTCCTTTAAAAGGACTAAAAAATATTTTTATTTTTAAAAATCT
62 TTTATTTAAAAATTTAA-ATTTTT-CTTTAAAAGGACTAAAAAATATTTTTATTTTTAAAAATCT
35701963 AAATTTTCTTTTT
125 AAATTTT-TTTTT
35701976 AAA
1 AAA
35701979 AAATCACAAA
Statistics
Matches: 239, Mismatches: 26, Indels: 31
0.81 0.09 0.10
Matches are distributed among these distances:
135 7 0.03
136 2 0.01
137 7 0.03
138 40 0.17
139 106 0.44
140 33 0.14
141 44 0.18
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (136 bp):
AAATCACTAATTTTCTTAAAAATTAAAAATTTTATTTCGAAATAATTAAAAAAATCAAAACTTTA
TTTAAAAATTTAAATTTTTCTTTAAAAGGACTAAAAAATATTTTTATTTTTAAAAATCTAAATTT
TTTTTT
Found at i:35701749 original size:30 final size:28
Alignment explanation
Indices: 35701715--35701782 Score: 91
Period size: 31 Copynumber: 2.3 Consensus size: 28
35701705 ACTATTTTAC
35701715 TTAAAAATTAAAAATTTTATTTCAAAATAT
1 TTAAAAATTAAAAATTTTATTT-AAAA-AT
* *
35701745 TTAAAAAAATCAAAATTTTATTTAAAAAT
1 TT-AAAAATTAAAAATTTTATTTAAAAAT
35701774 TTAAAAATT
1 TTAAAAATT
35701783 TCTTTTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.18
29 4 0.12
30 6 0.18
31 18 0.53
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (28 bp):
TTAAAAATTAAAAATTTTATTTAAAAAT
Found at i:35701780 original size:21 final size:22
Alignment explanation
Indices: 35701742--35701792 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
35701732 TATTTCAAAA
*
35701742 TATTTAAAAAAATCAAAATTT-
1 TATTTAAAAAAATAAAAATTTC
**
35701763 TATTTAAAAATTTAAAAATTTC
1 TATTTAAAAAAATAAAAATTTC
35701785 T-TTTAAAA
1 TATTTAAAA
35701793 GGACTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (22 bp):
TATTTAAAAAAATAAAAATTTC
Found at i:35701843 original size:20 final size:20
Alignment explanation
Indices: 35701798--35701840 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
35701788 TAAAAGGACT
35701798 AAAAA-CTATTTTTATTTTA
1 AAAAATCTATTTTTATTTTA
35701817 AAAAATCTATTTTT-TTTTA
1 AAAAATCTATTTTTATTTTA
35701836 AAAAA
1 AAAAA
35701841 ATCACTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
AAAAATCTATTTTTATTTTA
Found at i:35701913 original size:31 final size:32
Alignment explanation
Indices: 35701856--35701916 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
35701846 TACTTTTCTT
* *
35701856 AAAAATCAAAATTTTTAATTAGAAATAATTAA
1 AAAAATCAAAATCTTTAATTAAAAATAATTAA
*
35701888 AAAAATCAAAA-CTTTATTTAAAAATAATT
1 AAAAATCAAAATCTTTAATTAAAAATAATT
35701917 TTTTTCCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (32 bp):
AAAAATCAAAATCTTTAATTAAAAATAATTAA
Found at i:35701981 original size:22 final size:22
Alignment explanation
Indices: 35701945--35701992 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
35701935 TAAAAAATAT
*
35701945 TTTTATTTTTAAAAATC-TAAA
1 TTTTATTTTTAAAAATCACAAA
*
35701966 TTTTCTTTTTAAAAAATCACAAA
1 TTTTATTTTT-AAAAATCACAAA
35701989 TTTT
1 TTTT
35701993 TTTAAGATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 9 0.39
22 7 0.30
23 7 0.30
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTATTTTTAAAAATCACAAA
Found at i:35706150 original size:18 final size:18
Alignment explanation
Indices: 35706111--35706150 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
35706101 TTTAACAATG
* *
35706111 TTTTTGTTCCAAAAGTAA
1 TTTTTGTTCAAAAAATAA
35706129 TTTTTGTTCAAAAAAT-A
1 TTTTTGTTCAAAAAATAA
35706146 TTTTT
1 TTTTT
35706151 AAAAGCAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (18 bp):
TTTTTGTTCAAAAAATAA
Found at i:35712066 original size:7 final size:7
Alignment explanation
Indices: 35712054--35712078 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
35712044 ATATTGATAG
35712054 TGGATGA
1 TGGATGA
35712061 TGGATGA
1 TGGATGA
35712068 TGGATGA
1 TGGATGA
35712075 TGGA
1 TGGA
35712079 AGCCTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.44, T:0.28
Consensus pattern (7 bp):
TGGATGA
Found at i:35723058 original size:21 final size:21
Alignment explanation
Indices: 35723033--35723072 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
35723023 ATTAATAGGT
35723033 TTAATCAAGATTAAAAATGGG
1 TTAATCAAGATTAAAAATGGG
* * *
35723054 TTAATTAAGTTTAATAATG
1 TTAATCAAGATTAAAAATG
35723073 AAAGTCTAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.38
Consensus pattern (21 bp):
TTAATCAAGATTAAAAATGGG
Found at i:35731112 original size:80 final size:80
Alignment explanation
Indices: 35730971--35731121 Score: 230
Period size: 80 Copynumber: 1.9 Consensus size: 80
35730961 GGTGCAAAAC
* * **
35730971 CGTTGGTTAATCCAACTAGAGCTAGGCTCATTTATTACGGTTTATCCACTAGGCATTGGGTGCCA
1 CGTTGGTTAATCCAACTAAAGCTAGGCTCACTTATTACGGTTTATCCACTAGGCACCGGGTGCCA
35731036 TGAATTGATGGAATT
66 TGAATTGATGGAATT
* * * *
35731051 CGTTGGTTAATCCAACTAAAGTTGGGCTCACTTATTGCGGTTTATCCACTGGGCACCGGGTGCCA
1 CGTTGGTTAATCCAACTAAAGCTAGGCTCACTTATTACGGTTTATCCACTAGGCACCGGGTGCCA
35731116 TGAATT
66 TGAATT
35731122 AACAGATTTG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 63 1.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (80 bp):
CGTTGGTTAATCCAACTAAAGCTAGGCTCACTTATTACGGTTTATCCACTAGGCACCGGGTGCCA
TGAATTGATGGAATT
Found at i:35735746 original size:37 final size:38
Alignment explanation
Indices: 35735648--35735747 Score: 105
Period size: 38 Copynumber: 2.7 Consensus size: 38
35735638 ATTTTTCTAG
* * * *
35735648 ATTGCACCCAAGACTGACGCTACATAAATATTCTTCAA
1 ATTGCAACCAAGAATGTCGCTGCATAAATATTCTTCAA
* * * *
35735686 ATTGCATCC-AGAACTATCACTGCATAAGTATTCTTC-A
1 ATTGCAACCAAGAA-TGTCGCTGCATAAATATTCTTCAA
35735723 ATTGCAACCAAGAATGTCGCTGCAT
1 ATTGCAACCAAGAATGTCGCTGCAT
35735748 GAACATGTAC
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
37 21 0.42
38 29 0.58
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (38 bp):
ATTGCAACCAAGAATGTCGCTGCATAAATATTCTTCAA
Found at i:35738789 original size:16 final size:17
Alignment explanation
Indices: 35738752--35738816 Score: 78
Period size: 17 Copynumber: 3.9 Consensus size: 17
35738742 CTATAGTATA
*
35738752 ATTGTCCCTGCATTTTT
1 ATTGTCACTGCATTTTT
35738769 ATTGTCACTGCATTTTT
1 ATTGTCACTGCATTTTT
* **
35738786 -TTGTCACTGCATCTAC
1 ATTGTCACTGCATTTTT
*
35738802 ATTGTCATTGCATTT
1 ATTGTCACTGCATTT
35738817 CCATTTATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
16 13 0.32
17 28 0.68
ACGTcount: A:0.17, C:0.22, G:0.12, T:0.49
Consensus pattern (17 bp):
ATTGTCACTGCATTTTT
Found at i:35740066 original size:38 final size:37
Alignment explanation
Indices: 35740023--35740122 Score: 107
Period size: 38 Copynumber: 2.7 Consensus size: 37
35740013 ATTTTTCTAG
35740023 ATTGCACCAAAGACTGACGCTGCATAAATATTCTTCAA
1 ATTGCACCAAAGACTGACGCTGCATAAATATTCTTC-A
* *
35740061 ATTGCATCCAAA-ACT-ATCACTGCATAAGTATTCTTCA
1 ATTGCA-CCAAAGACTGA-CGCTGCATAAATATTCTTCA
* *
35740098 ATTGCAACC-AAGAATGCCGCTGCAT
1 ATTGC-ACCAAAGACTGACGCTGCAT
35740123 GAACATGTAC
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
36 2 0.04
37 18 0.35
38 27 0.52
39 5 0.10
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (37 bp):
ATTGCACCAAAGACTGACGCTGCATAAATATTCTTCA
Found at i:35742364 original size:24 final size:24
Alignment explanation
Indices: 35742348--35742415 Score: 118
Period size: 24 Copynumber: 2.8 Consensus size: 24
35742338 AGTTTGACTC
35742348 AAACAAATAAACAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
35742372 AAACAAATAAACAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
* *
35742396 AAACAATTAAAAAGAGTTTA
1 AAACAAATAAACAGAGTTTA
35742416 GCTGAAAGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.56, C:0.07, G:0.12, T:0.25
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAATTG
Found at i:35742421 original size:24 final size:24
Alignment explanation
Indices: 35742335--35742422 Score: 104
Period size: 24 Copynumber: 3.7 Consensus size: 24
35742325 CTAGACTAAT
* *
35742335 AAGAGTTTGACTCAAACAAATAAA
1 AAGAGTTTAACTGAAACAAATAAA
* *
35742359 CAGAGTTTAATTGAAACAAATAAA
1 AAGAGTTTAACTGAAACAAATAAA
* * *
35742383 CAGAGTTTAATTGAAACAATTAAA
1 AAGAGTTTAACTGAAACAAATAAA
*
35742407 AAGAGTTTAGCTGAAA
1 AAGAGTTTAACTGAAA
35742423 GATTATTTCT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.51, C:0.09, G:0.15, T:0.25
Consensus pattern (24 bp):
AAGAGTTTAACTGAAACAAATAAA
Found at i:35744422 original size:24 final size:24
Alignment explanation
Indices: 35744336--35744423 Score: 97
Period size: 24 Copynumber: 3.7 Consensus size: 24
35744326 CTAGACTAAT
* * *
35744336 AAGAGTTTGACTCAAATAAATAAA
1 AAGAGTTTAACTGAAACAAATAAA
* *
35744360 CAGAGTTTAATTGAAACAAATAAA
1 AAGAGTTTAACTGAAACAAATAAA
* *
35744384 CAA-AGTTTAATTGAAACAATTAAA
1 -AAGAGTTTAACTGAAACAAATAAA
35744408 AAGAGTTTAACTGAAA
1 AAGAGTTTAACTGAAA
35744424 GATTATTTCT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
23 2 0.04
24 51 0.94
25 1 0.02
ACGTcount: A:0.53, C:0.08, G:0.12, T:0.26
Consensus pattern (24 bp):
AAGAGTTTAACTGAAACAAATAAA
Found at i:35745205 original size:158 final size:158
Alignment explanation
Indices: 35744912--35745237 Score: 463
Period size: 158 Copynumber: 2.1 Consensus size: 158
35744902 CCTGACCCAC
* * * * *
35744912 AGCTTGTGTGAGCATTACAGGTTATATGGGTGCTGGTATTAGATGTCCTACAGATGGTTAAGGTC
1 AGCTCGTGTGAGCATTACAAGTTATATGGGTGCTGGTATTAGATATCATACAGATGGATAAGGTC
* * * *
35744977 TTACATTGGTTGCAGATTCTCCACAACTCGTGTGAGCAGCATCGTGTATCCTAACATCTCGACCT
66 TAACATTGATTGCAGATTCTCCACAACTCGTGTGAGCAGCATCGTGTAGCCCAACATCTCGACCT
* *
35745042 ACAGCTCATGTGAGCAGGCTCATTTTAT
131 ACAGCTCATGTGAGCAGGCCCATTTCAT
* * *
35745070 AGCTCGTGTGAGCATTACAAGTTATATGGGTGTTGTTATTAGATATCATACTGATGGATAAGGTC
1 AGCTCGTGTGAGCATTACAAGTTATATGGGTGCTGGTATTAGATATCATACAGATGGATAAGGTC
* * * * *
35745135 TAACATTTATTGCAGATTCTCTACAGCTCGTGTGAGCAGCATTGTGTAGCCCCACATCTCGACCT
66 TAACATTGATTGCAGATTCTCCACAACTCGTGTGAGCAGCATCGTGTAGCCCAACATCTCGACCT
* *
35745200 ACAGCTCGTGTGAGTAGGCCCATTTCAT
131 ACAGCTCATGTGAGCAGGCCCATTTCAT
35745228 AGCTCGTGTG
1 AGCTCGTGTG
35745238 TGAGCATATA
Statistics
Matches: 147, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
158 147 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (158 bp):
AGCTCGTGTGAGCATTACAAGTTATATGGGTGCTGGTATTAGATATCATACAGATGGATAAGGTC
TAACATTGATTGCAGATTCTCCACAACTCGTGTGAGCAGCATCGTGTAGCCCAACATCTCGACCT
ACAGCTCATGTGAGCAGGCCCATTTCAT
Found at i:35745586 original size:21 final size:21
Alignment explanation
Indices: 35745561--35745612 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
35745551 AGATTTGTAT
35745561 CGATACAAGTGACAATTCTAC
1 CGATACAAGTGACAATTCTAC
* **
35745582 TGATACAAGTGACTCTTCTAC
1 CGATACAAGTGACAATTCTAC
*
35745603 CGATATAAGT
1 CGATACAAGT
35745613 CTTACCTCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (21 bp):
CGATACAAGTGACAATTCTAC
Found at i:35759853 original size:19 final size:20
Alignment explanation
Indices: 35759829--35759866 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
35759819 TTAGACCTTG
35759829 TCCTG-TGATTTTTGTTCTC
1 TCCTGTTGATTTTTGTTCTC
*
35759848 TCCTGTTGGTTTTTGTTCT
1 TCCTGTTGATTTTTGTTCT
35759867 TGTTGCTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.03, C:0.18, G:0.18, T:0.61
Consensus pattern (20 bp):
TCCTGTTGATTTTTGTTCTC
Found at i:35762975 original size:16 final size:16
Alignment explanation
Indices: 35762950--35762980 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35762940 TAATAGTGCG
*
35762950 AATTATTTAAAAATTA
1 AATTAATTAAAAATTA
35762966 AATTAATTAAAAATT
1 AATTAATTAAAAATT
35762981 TTAGTGTATG
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTAATTAAAAATTA
Found at i:35763719 original size:29 final size:30
Alignment explanation
Indices: 35763668--35763732 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
35763658 AAAATTAGAT
* * *
35763668 ATGAATTTTGATTTAATGTGTAATTGTATAC
1 ATGAATTTTAATTTAA-GTGTAATTATACAC
*
35763699 ATGAATTTTAATTTGA-TGTAATTATACAC
1 ATGAATTTTAATTTAAGTGTAATTATACAC
35763728 ATGAA
1 ATGAA
35763733 ACTCTAATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 16 0.53
31 14 0.47
ACGTcount: A:0.37, C:0.05, G:0.14, T:0.45
Consensus pattern (30 bp):
ATGAATTTTAATTTAAGTGTAATTATACAC
Found at i:35774249 original size:15 final size:16
Alignment explanation
Indices: 35774222--35774251 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
35774212 AGATGGTCTT
35774222 CTTGATGGAGAGAAAA
1 CTTGATGGAGAGAAAA
35774238 CTTGAT-GAGAGAAA
1 CTTGATGGAGAGAAA
35774252 GATGTAGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.07, G:0.30, T:0.20
Consensus pattern (16 bp):
CTTGATGGAGAGAAAA
Found at i:35779759 original size:29 final size:28
Alignment explanation
Indices: 35779718--35779915 Score: 131
Period size: 30 Copynumber: 6.8 Consensus size: 28
35779708 AATCGAGGTC
35779718 AAAATGGAATTTTGGAAAGTTCGGGGGT
1 AAAATGGAATTTTGGAAAGTTCGGGGGT
*
35779746 GAAATGGTAATTTTTGCTGAAA--TC-GGGGT
1 AAAATGG-AA-TTTTG--GAAAGTTCGGGGGT
35779775 CAAAAATGGAATTTTGGAAAGTTCGGGGGT
1 --AAAATGGAATTTTGGAAAGTTCGGGGGT
* * *
35779805 GAAATGGTAATTTTTGGTGAAA-TT-AGGGTT
1 AAAATGG-AA-TTTT-G-GAAAGTTCGGGGGT
* *
35779835 AAAAATGGAATTTTAGAAAGTTCGAGGGT
1 -AAAATGGAATTTTGGAAAGTTCGGGGGT
*
35779864 AAAATGGTAATTTTTGGTGAAA--TCGGGGTT
1 AAAATGG-AA-TTTT-G-GAAAGTTCGGGGGT
*
35779894 CAAAATGGGATTTTGGAAAGTT
1 -AAAATGGAATTTTGGAAAGTT
35779916 TATGGGTAGA
Statistics
Matches: 133, Mismatches: 14, Indels: 45
0.69 0.07 0.23
Matches are distributed among these distances:
27 12 0.09
28 22 0.17
29 30 0.23
30 35 0.26
31 22 0.17
32 12 0.09
ACGTcount: A:0.33, C:0.04, G:0.31, T:0.32
Consensus pattern (28 bp):
AAAATGGAATTTTGGAAAGTTCGGGGGT
Found at i:35779772 original size:30 final size:29
Alignment explanation
Indices: 35779688--35779901 Score: 128
Period size: 30 Copynumber: 7.3 Consensus size: 29
35779678 AGGTTTAGGA
* *
35779688 GTAAAATGGTAA-TTTAGTGAAATC-GAG
1 GTAAAATGGTAATTTTTGTGAAATCGGGG
35779715 GTCAAAATGG-AA-TTTTG-GAAAGTTCGGGG
1 GT-AAAATGGTAATTTTTGTGAAA--TCGGGG
*
35779744 GTGAAATGGTAATTTTTGCTGAAATC-GGG
1 GTAAAATGGTAATTTTTG-TGAAATCGGGG
35779773 GTCAAAAATGG-AA-TTTTG-GAAAGTTCGGGG
1 GT--AAAATGGTAATTTTTGTGAAA--TCGGGG
* **
35779803 GTGAAATGGTAATTTTTGGTGAAATTAGGG
1 GTAAAATGGTAATTTTT-GTGAAATCGGGG
* * *
35779833 TTAAAAATGG-AA-TTTT-AGAAAGTTCGAGG
1 GT-AAAATGGTAATTTTTGTGAAA--TCGGGG
35779862 GTAAAATGGTAATTTTTGGTGAAATCGGGG
1 GTAAAATGGTAATTTTT-GTGAAATCGGGG
*
35779892 TTCAAAATGG
1 GT-AAAATGG
35779902 GATTTTGGAA
Statistics
Matches: 145, Mismatches: 17, Indels: 46
0.70 0.08 0.22
Matches are distributed among these distances:
26 4 0.03
27 16 0.11
28 28 0.19
29 30 0.21
30 35 0.24
31 20 0.14
32 12 0.08
ACGTcount: A:0.34, C:0.05, G:0.30, T:0.31
Consensus pattern (29 bp):
GTAAAATGGTAATTTTTGTGAAATCGGGG
Found at i:35779792 original size:59 final size:58
Alignment explanation
Indices: 35779691--35779915 Score: 319
Period size: 59 Copynumber: 3.9 Consensus size: 58
35779681 TTTAGGAGTA
* *
35779691 AAATGGTAA--TTTAGTGAAATCGAGGTCAAAATGGAATTTTGGAAAGTTCGGGGGTG
1 AAATGGTAATTTTTGGTGAAATCGGGGTCAAAATGGAATTTTGGAAAGTTCGGGGGTG
*
35779747 AAATGGTAATTTTTGCTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTCGGGGGTG
1 AAATGGTAATTTTTGGTGAAATCGGGGTC-AAAATGGAATTTTGGAAAGTTCGGGGGTG
* * * * * *
35779806 AAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGTA
1 AAATGGTAATTTTTGGTGAAA-TCGGGGTCAAAATGGAATTTTGGAAAGTTCGGGGGTG
*
35779865 AAATGGTAATTTTTGGTGAAATCGGGGTTCAAAATGGGATTTTGGAAAGTT
1 AAATGGTAATTTTTGGTGAAATCGGGG-TCAAAATGGAATTTTGGAAAGTT
35779916 TATGGGTAGA
Statistics
Matches: 149, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
56 9 0.06
58 19 0.13
59 116 0.78
60 5 0.03
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.32
Consensus pattern (58 bp):
AAATGGTAATTTTTGGTGAAATCGGGGTCAAAATGGAATTTTGGAAAGTTCGGGGGTG
Found at i:35779935 original size:118 final size:116
Alignment explanation
Indices: 35779718--35779998 Score: 329
Period size: 118 Copynumber: 2.4 Consensus size: 116
35779708 AATCGAGGTC
* * *
35779718 AAAATGGAATTTTGGAAAGTTCGGGGGTGAAATGGTAATTTTTGCTGAAATCGGGGTCAAAAATG
1 AAAATGGAATTTT-GAAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATG
* * *
35779783 GAATTTTGGAAAGTTCGGGGGTGAAATGGTAATTTTTGGTGAAA-TTAGGGTTA
65 GAATTTTGGAAAGTTCAGGGGTGAAATGGAAATTTTT--AGAAAGTTAGGGTTA
35779836 AAAATGGAATTTTAGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTC-AAAAT
1 AAAATGGAATTTT-GAAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATCGGGG-TCAAAAAT
* * * *
35779900 GGGATTTTGGAAAGTTTATGGGT-AGAATTGAAATTTTTAGAAAGTTTAGGGTTA
64 GGAATTTTGGAAAGTTCAGGGGTGA-AATGGAAATTTTTAGAAAG-TTAGGGTTA
* *
35779954 AAATAT-AAATTTTGAGAAGTTCGAGGGTCAAAAT-ATAATTTTTGG
1 AAA-ATGGAATTTTGA-AAGTTCGAGGGT-AAAATGGTAATTTTTGG
35779999 ACAGTTTAGA
Statistics
Matches: 143, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
116 4 0.03
117 3 0.02
118 127 0.89
119 9 0.06
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34
Consensus pattern (116 bp):
AAAATGGAATTTTGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGG
AATTTTGGAAAGTTCAGGGGTGAAATGGAAATTTTTAGAAAGTTAGGGTTA
Found at i:35779964 original size:30 final size:30
Alignment explanation
Indices: 35779904--35780007 Score: 90
Period size: 30 Copynumber: 3.5 Consensus size: 30
35779894 CAAAATGGGA
* *
35779904 TTTTGGAAAGTTTATGGG-TAGAAT-TGAAAT
1 TTTTAGAAAGTTTA-GGGTTAAAATAT-AAAT
35779934 TTTTAGAAAGTTTAGGGTTAAAATATAAAT
1 TTTTAGAAAGTTTAGGGTTAAAATATAAAT
* * *
35779964 TTTGAG-AAGTTCGAGGGTCAAAATAT-AAT
1 TTTTAGAAAGTT-TAGGGTTAAAATATAAAT
* *
35779993 TTTTGGACAGTTTAG
1 TTTTAGAAAGTTTAG
35780008 AGATCTCTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
29 17 0.28
30 43 0.70
31 1 0.02
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (30 bp):
TTTTAGAAAGTTTAGGGTTAAAATATAAAT
Found at i:35781180 original size:24 final size:24
Alignment explanation
Indices: 35781136--35781182 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
35781126 TATTATTTTT
*
35781136 AAAGGTATTATTAATGCTTATTAA
1 AAAGGTATTATTAATACTTATTAA
*
35781160 AAAGGT-TTATTATATATTTATTA
1 AAAGGTATTATTA-ATACTTATTA
35781183 CACTCCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (24 bp):
AAAGGTATTATTAATACTTATTAA
Found at i:35781852 original size:27 final size:26
Alignment explanation
Indices: 35781812--35781880 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 26
35781802 CATTGGGCCT
*
35781812 ATTTGGGTCATTGTAATTGGGCCTTCA
1 ATTTGGG-CCTTGTAATTGGGCCTTCA
*
35781839 ATTTGGGCCTTTGTAATTGGGCCTTTA
1 ATTTGGGCC-TTGTAATTGGGCCTTCA
35781866 ATTTGGGCCTTGTAA
1 ATTTGGGCCTTGTAA
35781881 ATGAACTTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
26 7 0.18
27 32 0.82
ACGTcount: A:0.17, C:0.14, G:0.26, T:0.42
Consensus pattern (26 bp):
ATTTGGGCCTTGTAATTGGGCCTTCA
Found at i:35781860 original size:14 final size:14
Alignment explanation
Indices: 35781812--35781880 Score: 74
Period size: 13 Copynumber: 5.1 Consensus size: 14
35781802 CATTGGGCCT
*
35781812 ATTTGGGTCATTGTA
1 ATTTGGG-CCTTGTA
*
35781827 A-TTGGGCCTT-CA
1 ATTTGGGCCTTGTA
35781839 ATTTGGGCCTTTGTA
1 ATTTGGGCC-TTGTA
35781854 A-TTGGGCCTT-TA
1 ATTTGGGCCTTGTA
35781866 ATTTGGGCCTTGTA
1 ATTTGGGCCTTGTA
35781880 A
1 A
35781881 ATGAACTTTG
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
12 5 0.11
13 21 0.46
14 17 0.37
15 3 0.07
ACGTcount: A:0.17, C:0.14, G:0.26, T:0.42
Consensus pattern (14 bp):
ATTTGGGCCTTGTA
Found at i:35781950 original size:17 final size:17
Alignment explanation
Indices: 35781928--35781967 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
35781918 TTTCAAATAT
*
35781928 TTTAAATTTAA-AATGAA
1 TTTAAA-TTAATAATAAA
35781945 TTTAAATTAATAATAAA
1 TTTAAATTAATAATAAA
35781962 TTTAAA
1 TTTAAA
35781968 CCTAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
TTTAAATTAATAATAAA
Found at i:35782705 original size:200 final size:200
Alignment explanation
Indices: 35782311--35782955 Score: 1069
Period size: 200 Copynumber: 3.2 Consensus size: 200
35782301 TTCATTGACC
* * * * *
35782311 TGGTCTTCTTCCCTGTGTCTCATCAGGAAGATGACCGCAATCAT-CTGTTTTAATTCGCTTCTCT
1 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGC-CTC-TGTTGTTTTAATTCGCTTCTCT
*
35782375 GGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTTATCAGGAAGCTAACCT-TTTT
64 GGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTTATCAGGAAGCTAA-CTATTTT
* * * * *
35782439 ATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGTTCAAAGATTTGCTCGCGTTGAG
128 ATTGTTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTACGAAGATTTGCTCGCTTTGAG
35782504 CGTTGAGT
193 CGTTGAGT
* * *
35782512 TGGTATTCTTCTCTGTATCTCATCAGGAATATAACCGCCTCTGTTGTTTTAATTTGCTTCTCTGG
1 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCTGTTGTTTTAATTCGCTTCTCTGG
*
35782577 ATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACTATTTTATT
66 ATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTTATCAGGAAGCTAACTATTTTATT
*
35782642 GTTTCGACCTACTTCTCAGTGTCTCATCAGGAAGCTGGGTACGAAGATTTGCTCGCTTTGAGCGT
131 GTTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTACGAAGATTTGCTCGCTTTGAGCGT
35782707 TGAGT
196 TGAGT
35782712 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCTGTTGTTTTAATTCGCTTCTCTGG
1 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCTGTTGTTTTAATTCGCTTCTCTGG
* *
35782777 ATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTTATCAAGAAGCTAACCATTTTATT
66 ATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTTATCAGGAAGCTAACTATTTTATT
35782842 GTTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTACGAAGATTTGCTCGCTTTGAGCGT
131 GTTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTACGAAGATTTGCTCGCTTTGAGCGT
35782907 TGAGT
196 TGAGT
* *
35782912 TGGTATTCTTCTCTGTATCTTATAAGGAAGATGACCGCCTCTGT
1 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCTGT
35782956 CTTGTTGAAC
Statistics
Matches: 417, Mismatches: 25, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
199 3 0.01
200 381 0.91
201 33 0.08
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.37
Consensus pattern (200 bp):
TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCTGTTGTTTTAATTCGCTTCTCTGG
ATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTTATCAGGAAGCTAACTATTTTATT
GTTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTACGAAGATTTGCTCGCTTTGAGCGT
TGAGT
Found at i:35784713 original size:17 final size:17
Alignment explanation
Indices: 35784691--35784729 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
35784681 AGAATGGCAA
35784691 GGAGGAAGTTATGACAT
1 GGAGGAAGTTATGACAT
35784708 GGAGGAAGTTATGACAT
1 GGAGGAAGTTATGACAT
35784725 GGAGG
1 GGAGG
35784730 TTTGATGGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.33, C:0.05, G:0.41, T:0.21
Consensus pattern (17 bp):
GGAGGAAGTTATGACAT
Found at i:35793716 original size:70 final size:70
Alignment explanation
Indices: 35793602--35793735 Score: 241
Period size: 70 Copynumber: 1.9 Consensus size: 70
35793592 TGTTTGCACG
* *
35793602 AAAGTGAAAACTTCACGAAAACAAGGGTACTTTGTAATCTCGAAAGCGATCTACCATCCTGCACA
1 AAAGTGAAAACTTCACGAAAACAAAGGTACTTTGTAATCCCGAAAGCGATCTACCATCCTGCACA
35793667 AAGGT
66 AAGGT
*
35793672 AAAGTGAAAACTTCACGAAAATAAAGGTACTTTGTAATCCCGAAAGCGATCTACCATCCTGCAC
1 AAAGTGAAAACTTCACGAAAACAAAGGTACTTTGTAATCCCGAAAGCGATCTACCATCCTGCAC
35793736 GGAGGTGAAG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
70 61 1.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (70 bp):
AAAGTGAAAACTTCACGAAAACAAAGGTACTTTGTAATCCCGAAAGCGATCTACCATCCTGCACA
AAGGT
Found at i:35795342 original size:28 final size:28
Alignment explanation
Indices: 35795311--35795401 Score: 76
Period size: 28 Copynumber: 3.2 Consensus size: 28
35795301 AAAGGGTCAA
35795311 AAATGAAATTTTGGAAAGTTCGGGGGTG
1 AAATGAAATTTTGGAAAGTTCGGGGGTG
* * ****
35795339 AAATGGTAATTTTTGGTGAAG-TCGGGTCAA
1 AAAT-G-AAATTTTGG-AAAGTTCGGGGGTG
* *
35795369 AAATGGAATTTTGGAAAGTTCGAGGGTG
1 AAATGAAATTTTGGAAAGTTCGGGGGTG
35795397 AAATG
1 AAATG
35795402 GTAATTTTTG
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
27 3 0.07
28 20 0.44
29 2 0.04
30 17 0.38
31 3 0.07
ACGTcount: A:0.33, C:0.04, G:0.33, T:0.30
Consensus pattern (28 bp):
AAATGAAATTTTGGAAAGTTCGGGGGTG
Found at i:35795354 original size:30 final size:30
Alignment explanation
Indices: 35795319--35795528 Score: 144
Period size: 30 Copynumber: 7.1 Consensus size: 30
35795309 AAAAATGAAA
*
35795319 TTTTGGAAAGTTCGGGGGTGAAATGGTAAT
1 TTTTGGAAAGTTCGAGGGTGAAATGGTAAT
* *
35795349 TTTTGGTGAAG-TC--GGGTCAAAAATGG-AA-
1 TTTTGG-AAAGTTCGAGGGT--GAAATGGTAAT
35795377 TTTTGGAAAGTTCGAGGGTGAAATGGTAAT
1 TTTTGGAAAGTTCGAGGGTGAAATGGTAAT
*
35795407 TTTTGGTGAAA--TCGA-GGTCAAAAATGG-AA-
1 TTTT-G-GAAAGTTCGAGGGT--GAAATGGTAAT
*
35795436 TTTTAGAAAGTTCGAGGGTGAAATGGTAAT
1 TTTTGGAAAGTTCGAGGGTGAAATGGTAAT
* *
35795466 TTTTGCTGAAA--TC-AGGGTCAAAAAT-G-AAA
1 TTTTG--GAAAGTTCGAGGGT--GAAATGGTAAT
*
35795495 TTTTGGAAAGTTCGAGGGTGAAATGGTATT
1 TTTTGGAAAGTTCGAGGGTGAAATGGTAAT
35795525 TTTT
1 TTTT
35795529 TGGTGAAATC
Statistics
Matches: 141, Mismatches: 13, Indels: 52
0.68 0.06 0.25
Matches are distributed among these distances:
27 11 0.08
28 28 0.20
29 32 0.23
30 48 0.34
31 14 0.10
32 8 0.06
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.33
Consensus pattern (30 bp):
TTTTGGAAAGTTCGAGGGTGAAATGGTAAT
Found at i:35795385 original size:58 final size:58
Alignment explanation
Indices: 35795247--35795565 Score: 437
Period size: 59 Copynumber: 5.5 Consensus size: 58
35795237 TGAAAATTCG
* * * * * **
35795247 GGGTTAAAAATTGG-ATTTTGGAAGGTTTGGGGGTAAAATGGTAATTTTTGGT-AAAAA
1 GGGTCAAAAA-TGGAATTTTGGAAAGTTCGAGGGTGAAATGGTAATTTTTGGTGAAATC
* * *
35795304 GGGTCAAAAATGAAATTTTGGAAAGTTCGGGGGTGAAATGGTAATTTTTGGTGAAGTC
1 GGGTCAAAAATGGAATTTTGGAAAGTTCGAGGGTGAAATGGTAATTTTTGGTGAAATC
35795362 GGGTCAAAAATGGAATTTTGGAAAGTTCGAGGGTGAAATGGTAATTTTTGGTGAAATC
1 GGGTCAAAAATGGAATTTTGGAAAGTTCGAGGGTGAAATGGTAATTTTTGGTGAAATC
* *
35795420 GAGGTCAAAAATGGAATTTTAGAAAGTTCGAGGGTGAAATGGTAATTTTTGCTGAAATC
1 G-GGTCAAAAATGGAATTTTGGAAAGTTCGAGGGTGAAATGGTAATTTTTGGTGAAATC
* *
35795479 AGGGTCAAAAATGAAATTTTGGAAAGTTCGAGGGTGAAATGGTATTTTTTTGGTGAAATC
1 -GGGTCAAAAATGGAATTTTGGAAAGTTCGAGGGTGAAATGGTA-ATTTTTGGTGAAATC
*
35795539 GGGATCAAAATTGG-ATTTTGGAAAGTT
1 GGG-TCAAAAATGGAATTTTGGAAAGTT
35795566 TGGGGATAGA
Statistics
Matches: 237, Mismatches: 19, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
56 2 0.01
57 44 0.19
58 58 0.24
59 111 0.47
60 22 0.09
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.32
Consensus pattern (58 bp):
GGGTCAAAAATGGAATTTTGGAAAGTTCGAGGGTGAAATGGTAATTTTTGGTGAAATC
Found at i:35795451 original size:29 final size:29
Alignment explanation
Indices: 35795363--35795452 Score: 80
Period size: 29 Copynumber: 3.1 Consensus size: 29
35795353 GGTGAAGTCG
*
35795363 GGTCAAAAATGGAATTTTGGAAAGTTCGA
1 GGTCAAAAATGGAATTTTAGAAAGTTCGA
* *
35795392 GGGT--GAAATGGTAATTTTTGGTGAAA--TCGA
1 -GGTCAAAAATGG-AA-TTTT--AGAAAGTTCGA
35795422 GGTCAAAAATGGAATTTTAGAAAGTTCGA
1 GGTCAAAAATGGAATTTTAGAAAGTTCGA
35795451 GG
1 GG
35795453 GTGAAATGGT
Statistics
Matches: 48, Mismatches: 4, Indels: 17
0.70 0.06 0.25
Matches are distributed among these distances:
27 4 0.08
28 6 0.12
29 15 0.31
30 13 0.27
31 6 0.12
32 4 0.08
ACGTcount: A:0.36, C:0.06, G:0.30, T:0.29
Consensus pattern (29 bp):
GGTCAAAAATGGAATTTTAGAAAGTTCGA
Found at i:35795615 original size:30 final size:30
Alignment explanation
Indices: 35795581--35795648 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
35795571 ATAGAATGGA
** *
35795581 AATTTTT-AGAAAGTTTTAGAGTCAAAATAT
1 AATTTTTGAG-AAGTTCGAGAGTCAAAATAC
* *
35795611 AATTTCTGAGAAGTTCGAGGGTCAAAATAC
1 AATTTTTGAGAAGTTCGAGAGTCAAAATAC
35795641 AATTTTTG
1 AATTTTTG
35795649 GACAATTTAG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.37
Consensus pattern (30 bp):
AATTTTTGAGAAGTTCGAGAGTCAAAATAC
Found at i:35795615 original size:118 final size:116
Alignment explanation
Indices: 35795261--35795632 Score: 341
Period size: 118 Copynumber: 3.2 Consensus size: 116
35795251 TAAAAATTGG
* * * * ** * *
35795261 ATTTTGGAAGGTTTGGGGGTAAAATGGTAATTTTTGGT-AAAAAG-GGTCAAAAATGAAATTTTG
1 ATTTTGGAAAGTTCGAGGGTGAAATGGTAATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTA
* * ** * * *
35795324 GAAAGTTCGGGGGTGAAATGGTAATTTTTGGTGAAGTC-GGGTCAAAAATGGA
66 GAAAGTTCGAGGGTGAAATGGAAATTTTT-CAGAAATCAGAGTCAAAAAT-AA
35795376 ATTTTGGAAAGTTCGAGGGTGAAATGGTAATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTA
1 ATTTTGGAAAGTTCGAGGGTGAAATGGTAATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTA
* * *
35795441 GAAAGTTCGAGGGTGAAATGGTAATTTTTGCTGAAATCAGGGTCAAAAATGAA
66 GAAAGTTCGAGGGTGAAATGGAAATTTTT-CAGAAATCAGAGTCAAAAAT-AA
* *
35795494 ATTTTGGAAAGTTCGAGGGTGAAATGGTATTTTTTTGGTGAAATCG-GGATCAAAATTGG-ATTT
1 ATTTTGGAAAGTTCGAGGGTGAAATGGTA-ATTTTTGGTGAAATCGAGG-TCAAAAATGGAATTT
* * *
35795557 TGGAAAGTTTG-GGGAT-AGAATGGAAATTTTT-AGAAAGTTTTAGAGTC-AAAATATA
64 TAGAAAGTTCGAGGG-TGA-AATGGAAATTTTTCAGAAA---TCAGAGTCAAAAATA-A
35795612 ATTTCT-GAGAAGTTCGAGGGT
1 ATTT-TGGA-AAGTTCGAGGGT
35795633 CAAAATACAA
Statistics
Matches: 224, Mismatches: 20, Indels: 22
0.84 0.08 0.08
Matches are distributed among these distances:
115 34 0.15
116 8 0.04
117 57 0.25
118 82 0.37
119 43 0.19
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.33
Consensus pattern (116 bp):
ATTTTGGAAAGTTCGAGGGTGAAATGGTAATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTA
GAAAGTTCGAGGGTGAAATGGAAATTTTTCAGAAATCAGAGTCAAAAATAA
Found at i:35797487 original size:14 final size:13
Alignment explanation
Indices: 35797468--35797535 Score: 50
Period size: 13 Copynumber: 5.0 Consensus size: 13
35797458 TTGGGCCTAT
35797468 TTGGGCCATTGTAA
1 TTGGGCC-TTGTAA
*
35797482 TTGGGCCTT-CAA
1 TTGGGCCTTGTAA
*
35797494 TTTGGGACTTTGTAA
1 -TTGGG-CCTTGTAA
*
35797509 TTGGGCCTT-CAA
1 TTGGGCCTTGTAA
35797521 TTTGGGCCTTTGTAA
1 -TTGGGCC-TTGTAA
35797536 ATGGACTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
12 4 0.10
13 17 0.40
14 17 0.40
15 4 0.10
ACGTcount: A:0.18, C:0.16, G:0.26, T:0.40
Consensus pattern (13 bp):
TTGGGCCTTGTAA
Found at i:35797506 original size:27 final size:27
Alignment explanation
Indices: 35797466--35797535 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
35797456 CATTGGGCCT
*
35797466 ATTTGGGCCATTGTAATTGGGCCTTCA
1 ATTTGGGCCTTTGTAATTGGGCCTTCA
*
35797493 ATTTGGGACTTTGTAATTGGGCCTTCA
1 ATTTGGGCCTTTGTAATTGGGCCTTCA
35797520 ATTTGGGCCTTTGTAA
1 ATTTGGGCCTTTGTAA
35797536 ATGGACTTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.19, C:0.16, G:0.26, T:0.40
Consensus pattern (27 bp):
ATTTGGGCCTTTGTAATTGGGCCTTCA
Found at i:35797527 original size:13 final size:13
Alignment explanation
Indices: 35797482--35797530 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
35797472 GCCATTGTAA
35797482 TTGGGCCTTCAAT
1 TTGGGCCTTCAAT
* *
35797495 TTGGGACTTTGTAA-
1 TTGGG-CCTT-CAAT
35797509 TTGGGCCTTCAAT
1 TTGGGCCTTCAAT
35797522 TTGGGCCTT
1 TTGGGCCTT
35797531 TGTAAATGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
12 2 0.07
13 17 0.59
14 8 0.28
15 2 0.07
ACGTcount: A:0.14, C:0.18, G:0.27, T:0.41
Consensus pattern (13 bp):
TTGGGCCTTCAAT
Found at i:35797622 original size:17 final size:18
Alignment explanation
Indices: 35797600--35797640 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
35797590 TTTCAAATAT
*
35797600 TTTAAATTTAA-AATGAA
1 TTTAAATTTAATAATAAA
35797617 TTTAAATTTAATAATAAA
1 TTTAAATTTAATAATAAA
35797635 TTTAAA
1 TTTAAA
35797641 CCTAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
TTTAAATTTAATAATAAA
Found at i:35798123 original size:18 final size:19
Alignment explanation
Indices: 35798089--35798125 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
35798079 AAATATAAAT
35798089 ATATATAATTATTATTTAAC
1 ATATATAATTA-TATTTAAC
35798109 ATATATAATTA-ATTTAA
1 ATATATAATTATATTTAA
35798126 ATTATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATATAATTATATTTAAC
Found at i:35813354 original size:24 final size:20
Alignment explanation
Indices: 35813300--35813340 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
35813290 ATTCATGAAG
35813300 TTAAAAAAAATAAATATAAT
1 TTAAAAAAAATAAATATAAT
*
35813320 TTAAAGAAAATAAATATAAT
1 TTAAAAAAAATAAATATAAT
35813340 T
1 T
35813341 ATCTAAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
TTAAAAAAAATAAATATAAT
Found at i:35813482 original size:20 final size:21
Alignment explanation
Indices: 35813447--35813499 Score: 74
Period size: 20 Copynumber: 2.5 Consensus size: 21
35813437 TCATTTTGGA
35813447 ATTTTTTTAGATAATTACAT-TT
1 ATTTTTTTA-ATAATTA-ATATT
35813469 ATTTTTTTAA-AATTAATATT
1 ATTTTTTTAATAATTAATATT
35813489 ATTTTTTTAAT
1 ATTTTTTTAAT
35813500 TTCATGTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.07
20 17 0.59
21 1 0.03
22 9 0.31
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
ATTTTTTTAATAATTAATATT
Found at i:35818189 original size:30 final size:30
Alignment explanation
Indices: 35818147--35818307 Score: 91
Period size: 30 Copynumber: 5.4 Consensus size: 30
35818137 GTTTTGGGGT
35818147 AAAATGGTAATTTTTGGTAAAATCGAGGTTA
1 AAAATGG-AATTTTTGGTAAAATCGAGGTTA
* * ** **
35818178 AAAATGGAA-TTTTAG-AAAGTTTAGGGGCA
1 AAAATGGAATTTTTGGTAAAATCGA-GGTTA
* * *
35818207 AAAATGTAATTTTTGGTGAAATCGGGGTTA
1 AAAATGGAATTTTTGGTAAAATCGAGGTTA
* * * * *
35818237 AAAATAGAA-TTTTGG-AAAGTTTGGGGGT-
1 AAAATGGAATTTTTGGTAAA-ATCGAGGTTA
* *
35818265 AAAATGGTAATTTTTGGTGAAATCTG-GGTCA
1 AAAATGG-AATTTTTGGTAAAATC-GAGGTTA
35818296 AAAATGGAATTT
1 AAAATGGAATTT
35818308 CAAAAAGTTT
Statistics
Matches: 94, Mismatches: 27, Indels: 19
0.67 0.19 0.14
Matches are distributed among these distances:
28 13 0.14
29 30 0.32
30 31 0.33
31 20 0.21
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (30 bp):
AAAATGGAATTTTTGGTAAAATCGAGGTTA
Found at i:35818240 original size:118 final size:117
Alignment explanation
Indices: 35818083--35818330 Score: 340
Period size: 118 Copynumber: 2.1 Consensus size: 117
35818073 AGACTTTCGG
* *
35818083 GGGGC-AAAATGGTAATTTTTGGTAAAATTGGGGTCAAAAAT-GAAATGTTAGAAAGTTTTGGGG
1 GGGGCAAAAAT-GTAATTTTTGGTAAAATCGGGGTCAAAAATAG-AATGTTAGAAAGTTTGGGGG
* * *
35818146 TAAAATGGTAATTTTTGGTAAAATC-GAGGTTAAAAATGGAATTTTAGAAAGTTT
64 TAAAATGGTAATTTTTGGTAAAATCTG-GGTCAAAAATGGAATTTCAAAAAGTTT
* * * *
35818200 AGGGGCAAAAATGTAATTTTTGGTGAAATCGGGGTTAAAAATAGAATTTTGGAAAGTTTGGGGGT
1 -GGGGCAAAAATGTAATTTTTGGTAAAATCGGGGTCAAAAATAGAATGTTAGAAAGTTTGGGGGT
*
35818265 AAAATGGTAATTTTTGGTGAAATCTGGGTCAAAAATGGAATTTCAAAAAGTTT
65 AAAATGGTAATTTTTGGTAAAATCTGGGTCAAAAATGGAATTTCAAAAAGTTT
35818318 GGAGGCAAAAATG
1 GG-GGCAAAAATG
35818331 CAACTTTGGG
Statistics
Matches: 116, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
117 2 0.02
118 107 0.92
119 7 0.06
ACGTcount: A:0.38, C:0.04, G:0.27, T:0.31
Consensus pattern (117 bp):
GGGGCAAAAATGTAATTTTTGGTAAAATCGGGGTCAAAAATAGAATGTTAGAAAGTTTGGGGGTA
AAATGGTAATTTTTGGTAAAATCTGGGTCAAAAATGGAATTTCAAAAAGTTT
Found at i:35818318 original size:59 final size:59
Alignment explanation
Indices: 35818082--35818319 Score: 293
Period size: 59 Copynumber: 4.0 Consensus size: 59
35818072 TAGACTTTCG
* * *
35818082 GGGGGCAAAATGGTAATTTTTGGTAAAAT-TGGGGTCAAAAATGAAATGTTAGAAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGTAAAATCT-GGGTCAAAAATGGAATTTTAGAAAGTTT
* *
35818141 TGGGGTAAAATGGTAATTTTTGGTAAAATC-GAGGTTAAAAATGGAATTTTAGAAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGTAAAATCTG-GGTCAAAAATGGAATTTTAGAAAGTTT
** * * * * *
35818200 AGGGGCAAAAAT-GTAATTTTTGGTGAAATCGGGGTTAAAAATAGAATTTTGGAAAGTTT
1 -GGGGGTAAAATGGTAATTTTTGGTAAAATCTGGGTCAAAAATGGAATTTTAGAAAGTTT
* * *
35818259 GGGGGTAAAATGGTAATTTTTGGTGAAATCTGGGTCAAAAATGGAATTTCAAAAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGTAAAATCTGGGTCAAAAATGGAATTTTAGAAAGTTT
35818318 GG
1 GG
35818320 AGGCAAAAAT
Statistics
Matches: 155, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
58 10 0.06
59 136 0.88
60 9 0.06
ACGTcount: A:0.37, C:0.03, G:0.28, T:0.32
Consensus pattern (59 bp):
GGGGGTAAAATGGTAATTTTTGGTAAAATCTGGGTCAAAAATGGAATTTTAGAAAGTTT
Found at i:35819330 original size:53 final size:55
Alignment explanation
Indices: 35819213--35819320 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
35819203 GTTTCAAAGA
35819213 AAGAACTTTTATTCCTCTTTTTTAAGCCTTTTTTTTGTTGTTTAAAACATATGAT
1 AAGAACTTTTATTCCTCTTTTTTAAGCCTTTTTTTTGTTGTTTAAAACATATGAT
35819268 AAGAACTTTTATTCCTCTTTTTTAAGCC-TTTTTTTG-TGTTTAAAACATATGAT
1 AAGAACTTTTATTCCTCTTTTTTAAGCCTTTTTTTTGTTGTTTAAAACATATGAT
35819321 TTTCCCTTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
53 17 0.32
54 8 0.15
55 28 0.53
ACGTcount: A:0.26, C:0.13, G:0.09, T:0.52
Consensus pattern (55 bp):
AAGAACTTTTATTCCTCTTTTTTAAGCCTTTTTTTTGTTGTTTAAAACATATGAT
Found at i:35820300 original size:16 final size:17
Alignment explanation
Indices: 35820265--35820312 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
35820255 TAATTTTGCA
* *
35820265 TTAAGTTTAATATTATT
1 TTAAATTTAATATAATT
35820282 TTAAATTTAAT-TAATT
1 TTAAATTTAATATAATT
*
35820298 TTAAATTTAAAATAA
1 TTAAATTTAATATAA
35820313 ATCTAAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
TTAAATTTAATATAATT
Found at i:35821107 original size:37 final size:38
Alignment explanation
Indices: 35821055--35821133 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 38
35821045 TTTAAAGCAA
*
35821055 TAAACTGACACTCAGTATCTCATCG-ACCTAGCCGAAG
1 TAAACTGACACTCAGTACCTCATCGAACCTAGCCGAAG
* * * *
35821092 TAAAGTGATACTCAGTACCTCATCGAATCTATCCGAAG
1 TAAACTGACACTCAGTACCTCATCGAACCTAGCCGAAG
35821130 TAAA
1 TAAA
35821134 ATAATGACAC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 22 0.61
38 14 0.39
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.24
Consensus pattern (38 bp):
TAAACTGACACTCAGTACCTCATCGAACCTAGCCGAAG
Found at i:35823746 original size:2 final size:2
Alignment explanation
Indices: 35823737--35823774 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
35823727 TACCTTAGTT
35823737 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
35823775 TAGTTTTTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:35833925 original size:17 final size:17
Alignment explanation
Indices: 35833905--35833958 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
35833895 AATAAAGATA
35833905 TTAATTTAGTTGAGAAT
1 TTAATTTAGTTGAGAAT
* *
35833922 TTAATTCA---GA-AAA
1 TTAATTTAGTTGAGAAT
35833935 TT-ATTTAGTTGAGAAT
1 TTAATTTAGTTGAGAAT
35833951 TTAATTTA
1 TTAATTTA
35833959 AATAATTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 10
0.67 0.10 0.24
Matches are distributed among these distances:
12 4 0.14
13 4 0.14
14 2 0.07
15 2 0.07
16 4 0.14
17 12 0.43
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.46
Consensus pattern (17 bp):
TTAATTTAGTTGAGAAT
Found at i:35835696 original size:21 final size:21
Alignment explanation
Indices: 35835672--35835723 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
35835662 CGAGATGATT
*
35835672 CTACCGATAC-ATGTGACGCAA
1 CTACCGATACAAT-TCACGCAA
* *
35835693 CTACCGAAACAATTCATGCAA
1 CTACCGATACAATTCACGCAA
35835714 CTACCGATAC
1 CTACCGATAC
35835724 CAAAAACTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.37, C:0.31, G:0.13, T:0.19
Consensus pattern (21 bp):
CTACCGATACAATTCACGCAA
Found at i:35836489 original size:52 final size:52
Alignment explanation
Indices: 35836411--35836706 Score: 466
Period size: 52 Copynumber: 5.7 Consensus size: 52
35836401 ATTTCATTTC
*
35836411 ATTCATATACTCACGATGACACATAGCCACCGAACCTCATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGAACCTCATAATCCGTAAAGG
*
35836463 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGAACCTCATAATCCGTAAAGG
* * *
35836515 ATTCATATACTCACGATGACACATAGCCATTGAACTTTATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGAACCTCATAATCCGTAAAGG
* * * *
35836567 ATTCATATACTCACGATGACACATAGCCATTGGACTTCATAATCTGTAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGAACCTCATAATCCGTAAAGG
* *
35836619 ATTCAAATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGAACCTCATAATCCGTAAAGG
* * *
35836671 ATACATATACTCACGATGACACTTAGTCATCGAACC
1 ATTCATATACTCACGATGACACATAGCCATCGAACC
35836707 CTTTTTCATT
Statistics
Matches: 226, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 226 1.00
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACATAGCCATCGAACCTCATAATCCGTAAAGG
Found at i:35841039 original size:91 final size:91
Alignment explanation
Indices: 35840896--35841071 Score: 307
Period size: 91 Copynumber: 1.9 Consensus size: 91
35840886 CTATCGGTAC
* *
35840896 CTGATGAACATGTACCGATAGTTGTCAAGTCAGAAAATAGTTTAGAAATATTGCAGAGTTCTACC
1 CTGATGAACATGTACCGATAGTTGTCAAGTCAGAAAATAGTTCAGAAATATTGCAGAGTTCTACA
35840961 GATACTCGAGATGATTCTACATGTAT
66 GATACTCGAGATGATTCTACATGTAT
* * *
35840987 CTGATGAACATGTATCGGTAGTTGTCAAGTCAGAAAATAGTTCAGAAATATTGTAGAGTTCTACA
1 CTGATGAACATGTACCGATAGTTGTCAAGTCAGAAAATAGTTCAGAAATATTGCAGAGTTCTACA
35841052 GATACTCGAGATGATTCTAC
66 GATACTCGAGATGATTCTAC
35841072 CAATACATGT
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 80 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (91 bp):
CTGATGAACATGTACCGATAGTTGTCAAGTCAGAAAATAGTTCAGAAATATTGCAGAGTTCTACA
GATACTCGAGATGATTCTACATGTAT
Found at i:35841918 original size:52 final size:51
Alignment explanation
Indices: 35841829--35842046 Score: 337
Period size: 52 Copynumber: 4.2 Consensus size: 51
35841819 ATTTCATTTC
* *
35841829 ATTCATATACTCACGATGACACATAGTCACCGAACCTCATAATCCATAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCG-ACCTCATAATCCATAAAGG
* * * *
35841881 ATTCATATACTCACGATGACACATAGCCATTAGACCTCATAATTCGTAAATG
1 ATTCATATACTCACGATGACACATAGCCA-TCGACCTCATAATCCATAAAGG
*
35841933 ATTCATATACTCACGATGACACATAGCCATTGACCTCATAATCCATAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGACCTCATAATCCATAAAGG
*
35841984 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGCCATC-GACCTCATAATCCATAAAGG
35842036 ATTCATATACT
1 ATTCATATACT
35842047 GATGATGGCA
Statistics
Matches: 152, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
51 48 0.32
52 103 0.68
53 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.26
Consensus pattern (51 bp):
ATTCATATACTCACGATGACACATAGCCATCGACCTCATAATCCATAAAGG
Found at i:35842009 original size:103 final size:104
Alignment explanation
Indices: 35841829--35842046 Score: 366
Period size: 103 Copynumber: 2.1 Consensus size: 104
35841819 ATTTCATTTC
*
35841829 ATTCATATACTCACGATGACACATAGTCACCGAACCTCATAATCCATAAAGGATTCATATACTCA
1 ATTCATATACTCACGATGACACATAGCCACCGAACCTCATAATCCATAAAGGATTCATATACTCA
* * *
35841894 CGATGACACATAGCCATTAGACCTCATAATTCGTAAATG
66 CGATGACACATAGCCATCAGACCTCATAATCCGTAAAGG
**
35841933 ATTCATATACTCACGATGACACATAGCCATTG-ACCTCATAATCCATAAAGGATTCATATACTCA
1 ATTCATATACTCACGATGACACATAGCCACCGAACCTCATAATCCATAAAGGATTCATATACTCA
*
35841997 CGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
66 CGATGACACATAGCCATCAGACCTCATAATCCGTAAAGG
35842036 ATTCATATACT
1 ATTCATATACT
35842047 GATGATGGCA
Statistics
Matches: 107, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
103 78 0.73
104 29 0.27
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.26
Consensus pattern (104 bp):
ATTCATATACTCACGATGACACATAGCCACCGAACCTCATAATCCATAAAGGATTCATATACTCA
CGATGACACATAGCCATCAGACCTCATAATCCGTAAAGG
Found at i:35845132 original size:21 final size:21
Alignment explanation
Indices: 35845108--35845161 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
35845098 CTTGGGATAG
* *
35845108 TTCTATCGATACAAGTGTAAC
1 TTCTACCGATACAAGTCTAAC
* *
35845129 TTCTACCGAAACAAGTCTTAC
1 TTCTACCGATACAAGTCTAAC
35845150 TTCTACCGATAC
1 TTCTACCGATAC
35845162 TAAAAATTCC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.31
Consensus pattern (21 bp):
TTCTACCGATACAAGTCTAAC
Found at i:35855180 original size:14 final size:14
Alignment explanation
Indices: 35855161--35855188 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35855151 TTTAGAGGGT
35855161 CATATCTCAATTAC
1 CATATCTCAATTAC
35855175 CATATCTCAATTAC
1 CATATCTCAATTAC
35855189 ATTGGTGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.00, T:0.36
Consensus pattern (14 bp):
CATATCTCAATTAC
Found at i:35857453 original size:29 final size:29
Alignment explanation
Indices: 35857386--35857453 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 29
35857376 AATAATTTAT
* *
35857386 ATTTTATAATTTTTAAAGAATTAAATTAAA
1 ATTTTATTA-TTTTAAAGAATTAAAATAAA
* *
35857416 AATTT-TTATTTT-AAGAGATTAAAATATA
1 ATTTTATTATTTTAAAGA-ATTAAAATAAA
35857444 ATTTTATTAT
1 ATTTTATTAT
35857454 ATATTAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
27 4 0.13
28 17 0.55
29 6 0.19
30 4 0.13
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (29 bp):
ATTTTATTATTTTAAAGAATTAAAATAAA
Found at i:35862278 original size:9 final size:10
Alignment explanation
Indices: 35862259--35862307 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
35862249 AAAGAGAATG
35862259 AAAAAGAAAA
1 AAAAAGAAAA
35862269 AAAAAGAAAA
1 AAAAAGAAAA
**
35862279 AAAAAGTTAA
1 AAAAAGAAAA
* *
35862289 AAGAACATAAA
1 AAAAAGA-AAA
35862300 AAAAAGAA
1 AAAAAGAA
35862308 TTAAATTGCT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
10 23 0.77
11 7 0.23
ACGTcount: A:0.82, C:0.02, G:0.10, T:0.06
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:35862497 original size:29 final size:30
Alignment explanation
Indices: 35862460--35862558 Score: 94
Period size: 31 Copynumber: 3.3 Consensus size: 30
35862450 ACAACACGAT
* **
35862460 AACATAAATAACTAAAACATTATATT-T-CA
1 AACAAAAATAACTAAAACAAAAT-TTATGCA
*
35862489 AACAAAAATAACTAAAATAAAATTTGATGCA
1 AACAAAAATAACTAAAACAAAATTT-ATGCA
* * *
35862520 AACAAAAATAACTAAAATGAAACTTGATGCA
1 AACAAAAATAACTAAAA-CAAAATTTATGCA
35862551 AACAAAAA
1 AACAAAAA
35862559 AAATAACTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
28 2 0.03
29 19 0.32
30 1 0.02
31 32 0.54
32 5 0.08
ACGTcount: A:0.61, C:0.12, G:0.05, T:0.22
Consensus pattern (30 bp):
AACAAAAATAACTAAAACAAAATTTATGCA
Found at i:35862525 original size:31 final size:31
Alignment explanation
Indices: 35862487--35862558 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
35862477 CATTATATTT
*
35862487 CAAACAAAAATAACTAAAATAAAATTTGATG
1 CAAACAAAAATAACTAAAATAAAACTTGATG
*
35862518 CAAACAAAAATAACTAAAATGAAACTTGATG
1 CAAACAAAAATAACTAAAATAAAACTTGATG
35862549 CAAACAAAAA
1 CAAACAAAAA
35862559 AAATAACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.62, C:0.12, G:0.07, T:0.18
Consensus pattern (31 bp):
CAAACAAAAATAACTAAAATAAAACTTGATG
Found at i:35864901 original size:25 final size:24
Alignment explanation
Indices: 35864859--35864918 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
35864849 ATTAAAGTTG
* *
35864859 TAAAAATTTATAAATATATTTGAAAA
1 TAAAAATATATAAATATAGTT--AAA
*
35864885 TAAAAATATAT-ATTATAGTTAAA
1 TAAAAATATATAAATATAGTTAAA
35864908 TAAAAATATAT
1 TAAAAATATAT
35864919 TTTGAAGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 14 0.45
25 7 0.23
26 10 0.32
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (24 bp):
TAAAAATATATAAATATAGTTAAA
Found at i:35866403 original size:90 final size:90
Alignment explanation
Indices: 35866237--35866410 Score: 231
Period size: 90 Copynumber: 1.9 Consensus size: 90
35866227 TACAGGATAA
* ** * ** *
35866237 GTACAAATATATGTTCGATCAAATTACAATGTAAAATTTAATTAGTACAATGTACAATTGATTAA
1 GTACAAATATATGTCCGATCAAATTACAATGTAAAATCCAACTAGTACAATGTACAACGGACTAA
**
35866302 AAAGTGGACAAAATCAACATAAAGT
66 AAAGTCAACAAAATCAACATAAAGT
* *
35866327 GTACAAATATATGTCCGATCAAATTACAATGTAAAATCCAACTGGTACAATGTATAACGGACTAA
1 GTACAAATATATGTCCGATCAAATTACAATGTAAAATCCAACTAGTACAATGTACAACGGACTAA
* *
35866392 GAATTCAACAAAATCAACA
66 AAAGTCAACAAAATCAACA
35866411 CAAAACATAT
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
90 71 1.00
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (90 bp):
GTACAAATATATGTCCGATCAAATTACAATGTAAAATCCAACTAGTACAATGTACAACGGACTAA
AAAGTCAACAAAATCAACATAAAGT
Found at i:35871441 original size:26 final size:26
Alignment explanation
Indices: 35871412--35871463 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
35871402 TCACTGTTCA
35871412 TCTTTTAATATCATGTCATACATAAT
1 TCTTTTAATATCATGTCATACATAAT
35871438 TCTTTTAATATCATGTCATACATAAT
1 TCTTTTAATATCATGTCATACATAAT
35871464 CATTTAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.04, T:0.46
Consensus pattern (26 bp):
TCTTTTAATATCATGTCATACATAAT
Found at i:35871473 original size:26 final size:26
Alignment explanation
Indices: 35871412--35871474 Score: 92
Period size: 26 Copynumber: 2.4 Consensus size: 26
35871402 TCACTGTTCA
*
35871412 TCTTTTAATATCATGTCATACATAAT
1 TCTTTAAATATCATGTCATACATAAT
*
35871438 TCTTTTAATATCATGTCATACATAA-
1 TCTTTAAATATCATGTCATACATAAT
35871463 TCATTTAAATAT
1 TC-TTTAAATAT
35871475 AATCATAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
25 2 0.06
26 33 0.94
ACGTcount: A:0.37, C:0.14, G:0.03, T:0.46
Consensus pattern (26 bp):
TCTTTAAATATCATGTCATACATAAT
Found at i:35871642 original size:21 final size:21
Alignment explanation
Indices: 35871618--35871669 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
35871608 TGAGACAATA
35871618 CTACCGATACAAGT-ATGACTT
1 CTACCGATACAAGTCATG-CTT
* *
35871639 CTACCGAAACATGTCATGCTT
1 CTACCGATACAAGTCATGCTT
*
35871660 CTACTGATAC
1 CTACCGATAC
35871670 TAAAAACTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (21 bp):
CTACCGATACAAGTCATGCTT
Found at i:35874975 original size:21 final size:19
Alignment explanation
Indices: 35874951--35875003 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 19
35874941 AGAGTTTTTA
35874951 GTATCGGTAGATGCATGACTT
1 GTATCGGTAGAT-CAT-ACTT
35874972 GTATCGGTAGAAATCATACTT
1 GTATCGGTAG--ATCATACTT
35874993 GTATCGGTAGA
1 GTATCGGTAGA
35875004 GCTAGCACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 1 0.03
21 24 0.80
22 3 0.10
23 2 0.07
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.32
Consensus pattern (19 bp):
GTATCGGTAGATCATACTT
Found at i:35876343 original size:21 final size:22
Alignment explanation
Indices: 35876326--35876486 Score: 110
Period size: 23 Copynumber: 6.9 Consensus size: 22
35876316 AAAAGAGTAC
*
35876326 CAAAGTACTAACAGAGAGCACA
1 CAAAGTGCTAACAGAGAGCACA
*
35876348 -TAAGTGCTGGGCAACAGAGAGCACA
1 CAAAGTGCT----AACAGAGAGCACA
* * *
35876373 CACAGTGCTAAATAGAGAGTACA
1 CAAAGTGCT-AACAGAGAGCACA
*
35876396 CAAAGTACTAATCAGAGAGCACA
1 CAAAGTGCTAA-CAGAGAGCACA
* *
35876419 CAAAGTGCTAATCAGACAGCAGA
1 CAAAGTGCTAA-CAGAGAGCACA
*
35876442 CACAGTGCTAATAACAGAGAGCACA
1 CAAAGTGC---TAACAGAGAGCACA
*
35876467 -AGACGTGCTAAACAGAGAGC
1 CA-AAGTGCT-AACAGAGAGC
35876487 GCGCTAGTGT
Statistics
Matches: 109, Mismatches: 19, Indels: 21
0.73 0.13 0.14
Matches are distributed among these distances:
21 6 0.06
22 3 0.03
23 64 0.59
24 1 0.01
25 26 0.24
26 9 0.08
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.12
Consensus pattern (22 bp):
CAAAGTGCTAACAGAGAGCACA
Found at i:35876396 original size:23 final size:23
Alignment explanation
Indices: 35876362--35876486 Score: 128
Period size: 23 Copynumber: 5.3 Consensus size: 23
35876352 TGCTGGGCAA
*
35876362 CAGAGAGCACACACAGTGCTAAAT
1 CAGAGAGCACACAAAGTGCT-AAT
* *
35876386 -AGAGAGTACACAAAGTACTAAT
1 CAGAGAGCACACAAAGTGCTAAT
35876408 CAGAGAGCACACAAAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAT
* * *
35876431 CAGACAGCAGACACAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAT
* *
35876454 AACAGAGAGCACA-AGACGTGCTAAA
1 --CAGAGAGCACACA-AAGTGCTAAT
35876479 CAGAGAGC
1 CAGAGAGC
35876487 GCGCTAGTGT
Statistics
Matches: 84, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
22 3 0.04
23 64 0.76
24 1 0.01
25 16 0.19
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (23 bp):
CAGAGAGCACACAAAGTGCTAAT
Found at i:35876445 original size:69 final size:66
Alignment explanation
Indices: 35876319--35876452 Score: 171
Period size: 69 Copynumber: 1.9 Consensus size: 66
35876309 GAGCAAAAAA
* *
35876319 AGAGTACCAAAGTACTAACAGAGAGCACATAAGTGCTGGGCAACAGAGAGCACACACAGTGCTAA
1 AGAGTACCAAAGTACTAACAGAGAGCACAAAAGTGCT--G-AACAGACAGCACACACAGTGCTAA
35876384 ATAG
63 ATAG
*
35876388 AGAGTACACAAAGTACTAATCAGAGAGCACACAAAGTGCT-AATCAGACAGCAGACACAGTGCTA
1 AGAGTAC-CAAAGTACTAA-CAGAGAGCACA-AAAGTGCTGAA-CAGACAGCACACACAGTGCTA
35876452 A
62 A
35876453 TAACAGAGAG
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
68 2 0.03
69 27 0.47
70 11 0.19
71 11 0.19
72 7 0.12
ACGTcount: A:0.43, C:0.21, G:0.22, T:0.13
Consensus pattern (66 bp):
AGAGTACCAAAGTACTAACAGAGAGCACAAAAGTGCTGAACAGACAGCACACACAGTGCTAAATA
G
Found at i:35879837 original size:18 final size:18
Alignment explanation
Indices: 35879802--35879843 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
35879792 AGTTATAAGG
*
35879802 AGGAAAATATGGGTTAGA
1 AGGAAAATATGGGCTAGA
35879820 AGGAAAA-ATGGGGCTAGA
1 AGGAAAATAT-GGGCTAGA
*
35879838 ACGAAA
1 AGGAAA
35879844 TTTTGTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.48, C:0.05, G:0.33, T:0.14
Consensus pattern (18 bp):
AGGAAAATATGGGCTAGA
Found at i:35880699 original size:132 final size:132
Alignment explanation
Indices: 35880447--35880725 Score: 423
Period size: 132 Copynumber: 2.1 Consensus size: 132
35880437 AGGCCCATTT
* *
35880447 CACAGCTCGTGTGAGCATTACAAGTTATGTGGGTGCTGGTCTTAGATGTCCTACCGATGGCTAAG
1 CACAGCTCGTGTGAGCATTACAAGTTATATGGGTGCTGGTCTTAAATGTCCTACCGATGGCTAAG
* * * * *
35880512 ATCCGACATTCATTGTGGATTCTCCACAGCTCGTGTGAGCAGTATCATGTAGCCTAACATCTTGA
66 ATCCGACATTCATTGCGGATTCTCCACAGCTCATGTGAACAGCATCATGTAGCCTAACATCTCGA
35880577 CC
131 CC
* * *
35880579 CACAACTCGTGTGAGCATTACAGGTTATATGGGTGCTGGTCTTAAATGTCCTACCGATGGCTGAG
1 CACAGCTCGTGTGAGCATTACAAGTTATATGGGTGCTGGTCTTAAATGTCCTACCGATGGCTAAG
* * *
35880644 ATCCGACATTCGTTGCGGATTCTCCACAGCTCATGTGAACAGCATCGTGTGGCCTAACATCTCGA
66 ATCCGACATTCATTGCGGATTCTCCACAGCTCATGTGAACAGCATCATGTAGCCTAACATCTCGA
35880709 CC
131 CC
**
35880711 CGTAGCTCGTGTGAG
1 CACAGCTCGTGTGAG
35880726 TAGGCCCACT
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
132 131 1.00
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.28
Consensus pattern (132 bp):
CACAGCTCGTGTGAGCATTACAAGTTATATGGGTGCTGGTCTTAAATGTCCTACCGATGGCTAAG
ATCCGACATTCATTGCGGATTCTCCACAGCTCATGTGAACAGCATCATGTAGCCTAACATCTCGA
CC
Found at i:35882163 original size:18 final size:18
Alignment explanation
Indices: 35882140--35882176 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
35882130 ACAATTCATA
35882140 TCACTTTCAATTCCAATT
1 TCACTTTCAATTCCAATT
* *
35882158 TCACTTTCACTTTCAATT
1 TCACTTTCAATTCCAATT
35882176 T
1 T
35882177 TGATCACAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (18 bp):
TCACTTTCAATTCCAATT
Found at i:35886064 original size:22 final size:22
Alignment explanation
Indices: 35886023--35886064 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
35886013 CTTTTTATAT
**
35886023 ATATTATTATATTACTTAAAAA
1 ATATTATTATATTAAGTAAAAA
*
35886045 ATATTATTATGTTAAGTAAA
1 ATATTATTATATTAAGTAAA
35886065 CTATTAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (22 bp):
ATATTATTATATTAAGTAAAAA
Found at i:35893149 original size:18 final size:20
Alignment explanation
Indices: 35893126--35893173 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
35893116 CGATTACACG
*
35893126 GATGATGAA-GGA-GATGAT
1 GATGATGAAGGGAGGAGGAT
35893144 GATGATGAAGGGAGGGAGGAT
1 GATGATGAAGGGA-GGAGGAT
35893165 GATGATGAA
1 GATGATGAA
35893174 AATGGGGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 9 0.35
19 3 0.12
21 14 0.54
ACGTcount: A:0.38, C:0.00, G:0.44, T:0.19
Consensus pattern (20 bp):
GATGATGAAGGGAGGAGGAT
Found at i:35906025 original size:2 final size:2
Alignment explanation
Indices: 35906018--35906044 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
35906008 GTTAATAATC
35906018 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
35906045 TGGATATAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:35907158 original size:10 final size:9
Alignment explanation
Indices: 35907114--35907171 Score: 53
Period size: 10 Copynumber: 6.1 Consensus size: 9
35907104 GAGTTTTTAA
*
35907114 ATAAATTTT
1 ATAATTTTT
*
35907123 ATAGTTTATT
1 ATAATTT-TT
*
35907133 ACAATTTATT
1 ATAATTT-TT
35907143 ATAATTTTT
1 ATAATTTTT
*
35907152 ATAAATTTAT
1 AT-AATTTTT
35907162 ATAATTTTT
1 ATAATTTTT
35907171 A
1 A
35907172 AAAAATATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
9 16 0.40
10 24 0.60
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (9 bp):
ATAATTTTT
Found at i:35907166 original size:19 final size:19
Alignment explanation
Indices: 35907114--35907171 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
35907104 GAGTTTTTAA
*
35907114 ATAAATTT-TATAGTTTATT
1 ATAAATTTATATAATTT-TT
*
35907133 A-CAATTTATTATAATTTTT
1 ATAAATTTA-TATAATTTTT
35907152 ATAAATTTATATAATTTTT
1 ATAAATTTATATAATTTTT
35907171 A
1 A
35907172 AAAAATATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 5 0.15
19 15 0.45
20 13 0.39
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
ATAAATTTATATAATTTTT
Found at i:35913602 original size:83 final size:77
Alignment explanation
Indices: 35913473--35913629 Score: 224
Period size: 83 Copynumber: 2.0 Consensus size: 77
35913463 ATGATTTCAG
* *
35913473 GAAAATGATGAATTGAGGATTACACTTAATACCAGGTTGGTTAACCATTAAAATCACTTAGGGTA
1 GAAAATGATCAATTGAGGATTACACTTAATACCAGGTTGGTTAACCATT-AAACCACTTAGGGTA
35913538 TTAGAAAAAGCAA
65 TTAGAAAAAGCAA
*
35913551 GAAAATGATCAATTGAGGATTACATTATACTTAATACGAGGTTGGTTAACCATTAAACCACTTAG
1 GAAAATGATCAATTGAGGATTAC-----ACTTAATACCAGGTTGGTTAACCATTAAACCACTTAG
*
35913616 GGTATTAGAGAAAG
61 GGTATTAGAAAAAG
35913630 TGCGAAAGTG
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
78 22 0.31
82 23 0.33
83 25 0.36
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.28
Consensus pattern (77 bp):
GAAAATGATCAATTGAGGATTACACTTAATACCAGGTTGGTTAACCATTAAACCACTTAGGGTAT
TAGAAAAAGCAA
Found at i:35916415 original size:31 final size:31
Alignment explanation
Indices: 35916349--35916438 Score: 103
Period size: 31 Copynumber: 2.9 Consensus size: 31
35916339 TAAAATATTT
* *
35916349 TTTAAAAAATTAAATATAATAATAAATAAGA
1 TTTAAATAATTAAATATAATGATAAATAAGA
* *
35916380 TTTAAATAATTTAATATAATGATAAATGATG-
1 TTTAAATAATTAAATATAATGATAAAT-AAGA
* *
35916411 TTTAAATAA-GAAATATAATGATACATAA
1 TTTAAATAATTAAATATAATGATAAATAA
35916439 AATATTTTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
29 1 0.02
30 14 0.28
31 33 0.66
32 2 0.04
ACGTcount: A:0.57, C:0.01, G:0.07, T:0.36
Consensus pattern (31 bp):
TTTAAATAATTAAATATAATGATAAATAAGA
Found at i:35916477 original size:17 final size:17
Alignment explanation
Indices: 35916421--35916478 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
35916411 TTTAAATAAG
* *
35916421 AAATATAATGATACATA
1 AAATATAATAATATATA
** *
35916438 AAATATTTTAATAT-TT
1 AAATATAATAATATATA
*
35916454 TAATATAATAATATATA
1 AAATATAATAATATATA
35916471 AAATATAA
1 AAATATAA
35916479 ATTAATCTAA
Statistics
Matches: 30, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
16 12 0.40
17 18 0.60
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
AAATATAATAATATATA
Found at i:35919621 original size:28 final size:29
Alignment explanation
Indices: 35919585--35919652 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 29
35919575 AGGAAAAACG
* * *
35919585 AGGTCAAAAT-CAAATTTTGGAAAGTTGA
1 AGGTTAAAATGCAAATTTTAGAAAGTCGA
* *
35919613 AGGTTAAAATGTAATTTTTAGAAAGTCGA
1 AGGTTAAAATGCAAATTTTAGAAAGTCGA
*
35919642 GGGTTAAAATG
1 AGGTTAAAATG
35919653 AGATTTTCAG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 9 0.27
29 24 0.73
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.31
Consensus pattern (29 bp):
AGGTTAAAATGCAAATTTTAGAAAGTCGA
Found at i:35921790 original size:161 final size:158
Alignment explanation
Indices: 35921490--35922060 Score: 694
Period size: 161 Copynumber: 3.6 Consensus size: 158
35921480 TCTTGATGTA
* * ** *
35921490 GGGGTAAAAGATTG-TATG-CTTCAATCTGCCC-CATGATCGGGGTAAGAGATTGGATGATGTCT
1 GGGGTAAGAGATTGATGTGTCTTCAATCTGCCCTC-TGATTAGGGTAAAAGATT-GA-GATG-CT
* * ** *
35921552 TCAATCTGCCCCATGATCGGGGTAAGAGAATGGTGTGTCTTCAATCTACCCCTCTTGACTAGGGC
62 TCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCCTGATG-TTAGGG-
*
35921617 TAAAAGATTGGATGCTTCAATTTGCCTCATGATC
125 TAAAAGATTGGATGCTTCAATTTGCCCCATGATC
* *
35921651 GGGGTAAGAGATTGGTGTGTCTTCAATCTACCCTCTGATTAGGGTAAAAGATTGA-ATGCTTCAA
1 GGGGTAAGAGATTGATGTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGAGATGCTTCAA
* *
35921715 TCT-ACCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGTGTAGTGT
66 TCTGCCCCATGATCGGGGTAAGAGATTGG-TG-TGTCTTCAATCTGCCCC-TGAT-GT-TAGGGT
35921779 AAAAGATTGGATGCTTCAATTTGCCCCATGATC
126 AAAAGATTGGATGCTTCAATTTGCCCCATGATC
* * ** * *
35921812 AGTGTAAGAGATTGATGTGTCTTCAATCTGCCCTCTGATTAAAGTAAAAAATT-AGATGCTTCAG
1 GGGGTAAGAGATTGATGTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGAGATGCTTCAA
*
35921876 TCTGGCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGA--TTAGGGTAAAA
66 TCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCC-CTGATGTTAGGGTAAAA
* *
35921939 GATTGGATGCTTCAATCTACCCCATGATC
130 GATTGGATGCTTCAATTTGCCCCATGATC
* * *
35921968 GGGGTAAGAGATTGATGTGTCTTCAATTTGCTCTTTGATTAGGGT-AAAGATTG-GATGCTTCAA
1 GGGGTAAGAGATTGATGTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGAGATGCTTCAA
* *
35922031 TTTGCCCCATGATCGGGGGTAAAAGATTGG
66 TCTGCCCCATGATC-GGGGTAAGAGATTGG
35922061 ATGATTGAAT
Statistics
Matches: 359, Mismatches: 38, Indels: 31
0.84 0.09 0.07
Matches are distributed among these distances:
155 27 0.08
156 88 0.25
157 1 0.00
158 23 0.06
159 11 0.03
160 39 0.11
161 108 0.30
162 34 0.09
163 27 0.08
164 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (158 bp):
GGGGTAAGAGATTGATGTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGAGATGCTTCAA
TCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCCTGATGTTAGGGTAAAAG
ATTGGATGCTTCAATTTGCCCCATGATC
Found at i:35921885 original size:78 final size:78
Alignment explanation
Indices: 35921490--35922059 Score: 666
Period size: 78 Copynumber: 7.2 Consensus size: 78
35921480 TCTTGATGTA
* * ** *
35921490 GGGGTAAAAGATTG-TATG-CTTCAATCTGCCC-CATGATCGGGGTAAGAGATTGGATGATGTCT
1 GGGGTAAGAGATTGATGTGTCTTCAATCTGCCCTC-TGATTAGGGTAAAAGATT-G--GATG-CT
35921552 TCAATCTGCCCCATGATC
61 TCAATCTGCCCCATGATC
* * * *
35921570 GGGGTAAGAGAATGGTGTGTCTTCAATCTACCCCTCTTGACTAGGGCTAAAAGATTGGATGCTTC
1 GGGGTAAGAGATTGATGTGTCTTCAATCT-GCCCTC-TGATTAGGG-TAAAAGATTGGATGCTTC
* *
35921635 AATTTGCCTCATGATC
63 AATCTGCCCCATGATC
* * *
35921651 GGGGTAAGAGATTGGTGTGTCTTCAATCTACCCTCTGATTAGGGTAAAAGATTGAATGCTTCAAT
1 GGGGTAAGAGATTGATGTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATGCTTCAAT
*
35921716 CT-ACCCATGATC
66 CTGCCCCATGATC
*
35921728 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCC-CATGATCGTGTAGTGTAAAAGATTGGATG
1 GGGGTAAGAGATT-GATG-TGTCTTCAATCTGCCCTC-TGA---T-TAGGGTAAAAGATTGGATG
*
35921792 CTTCAATTTGCCCCATGATC
59 CTTCAATCTGCCCCATGATC
* * ** * * *
35921812 AGTGTAAGAGATTGATGTGTCTTCAATCTGCCCTCTGATTAAAGTAAAAAATTAGATGCTTCAGT
1 GGGGTAAGAGATTGATGTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATGCTTCAAT
*
35921877 CTGGCCCATGATC
66 CTGCCCCATGATC
*
35921890 GGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATGCTTCAAT
1 GGGGTAAGAGATTGATGTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATGCTTCAAT
*
35921955 CTACCCCATGATC
66 CTGCCCCATGATC
* * *
35921968 GGGGTAAGAGATTGATGTGTCTTCAATTTGCTCTTTGATTAGGGT-AAAGATTGGATGCTTCAAT
1 GGGGTAAGAGATTGATGTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATGCTTCAAT
*
35922032 TTGCCCCATGATC
66 CTGCCCCATGATC
*
35922045 GGGGGTAAAAGATTG
1 -GGGGTAAGAGATTG
35922060 GATGATTGAA
Statistics
Matches: 425, Mismatches: 50, Indels: 32
0.84 0.10 0.06
Matches are distributed among these distances:
77 51 0.12
78 179 0.42
79 27 0.06
80 17 0.04
81 49 0.12
82 33 0.08
83 33 0.08
84 28 0.07
85 8 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (78 bp):
GGGGTAAGAGATTGATGTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATGCTTCAAT
CTGCCCCATGATC
Found at i:35921936 original size:239 final size:240
Alignment explanation
Indices: 35921490--35922044 Score: 726
Period size: 239 Copynumber: 2.3 Consensus size: 240
35921480 TCTTGATGTA
* * *
35921490 GGGGTAAAAGATTG-TATG-CTTCAATCTGCCCCATGATCG-G--GGTAAGAGATTGGATGATGT
1 GGGGTAAGAGATTGATGTGTCTTCAATCTGCCCCATGATCGTGTAGGTAAAAGATT-G--GATG-
* * * **
35921550 CTTCAATCTGCCCCATGATCGGGGTAAGAGAATGGTGTGTCTTCAATCTACCCCTCTTGACTAGG
62 CTTCAATTTGCCCCATGATCAGGGTAAGAGAATGATGTGTCTTCAATCTACCCCTCTTGACTAAA
* * *
35921615 GCTAAAAGATTGGATGCTTCAATTTGCCTCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCT
127 GCTAAAAAATTAGATGCTTCAATTGGCCTCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCT
35921680 ACCCTCTGATTAGGGTAAAAGATTGAATGCTTCAATCTA-CCCATGATC
192 ACCCTCTGATTAGGGTAAAAGATTGAATGCTTCAATCTACCCCATGATC
35921728 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGTGTAGTGTAAAAGATTGGATGC
1 GGGGTAAGAGATT-GATG-TGTCTTCAATCTGCCCCATGATCGTGTAG-GTAAAAGATTGGATGC
* * * *
35921793 TTCAATTTGCCCCATGATCAGTGTAAGAGATTGATGTGTCTTCAATCT-GCCCTC-TGATTAAAG
63 TTCAATTTGCCCCATGATCAGGGTAAGAGAATGATGTGTCTTCAATCTACCCCTCTTGACTAAAG
*
35921856 -TAAAAAATTAGATGCTTCAGTCTGGCC-CATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCT
128 CTAAAAAATTAGATGCTTCAAT-TGGCCTCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCT
* *
35921919 GCCCTCTGATTAGGGTAAAAGATTGGATGCTTCAATCTACCCCATGATC
192 ACCCTCTGATTAGGGTAAAAGATTGAATGCTTCAATCTACCCCATGATC
* * **
35921968 GGGGTAAGAGATTGATGTGTCTTCAATTTGCTCTTTGA---T-TAGGGT-AAAGATTGGATGCTT
1 GGGGTAAGAGATTGATGTGTCTTCAATCTGCCCCATGATCGTGTA-GGTAAAAGATTGGATGCTT
35922028 CAATTTGCCCCATGATC
65 CAATTTGCCCCATGATC
35922045 GGGGGTAAAA
Statistics
Matches: 284, Mismatches: 22, Indels: 27
0.85 0.07 0.08
Matches are distributed among these distances:
233 32 0.11
234 4 0.01
235 2 0.01
238 29 0.10
239 96 0.34
240 33 0.12
241 7 0.02
242 65 0.23
243 5 0.02
245 2 0.01
246 9 0.03
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (240 bp):
GGGGTAAGAGATTGATGTGTCTTCAATCTGCCCCATGATCGTGTAGGTAAAAGATTGGATGCTTC
AATTTGCCCCATGATCAGGGTAAGAGAATGATGTGTCTTCAATCTACCCCTCTTGACTAAAGCTA
AAAAATTAGATGCTTCAATTGGCCTCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTACCC
TCTGATTAGGGTAAAAGATTGAATGCTTCAATCTACCCCATGATC
Found at i:35922140 original size:196 final size:194
Alignment explanation
Indices: 35921545--35922256 Score: 624
Period size: 196 Copynumber: 3.6 Consensus size: 194
35921535 GAGATTGGAT
* * * *
35921545 GATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGAATGGTGTGTCTTCAATCTACCCCTCTTGA
1 GATG-CTTCAATCTACCCCATGATCGGGGTAAGAGATTGATGTGTCTTCAATCT-GCCCTC-TGA
* * * * * * * *
35921610 CTAGGGCTAAAAGATTGGATGCTTCAATTTGCCTCATGATCGGGGTAAGAGATTGGTGTGTCTTC
63 TTAGGG-TAAAAGATTGGATGCTTCAATCTGCCCCATGATCAGGGTAAAAGATTGG-ATG-ATTG
* * * * * * * * *
35921675 AATCT-ACCCTCTGATTAGG-GTAAAAGATT-GAATG-CTTCAATCTACCC-ATGA-TCGGGGTA
125 AATCTGGCCC-ATGA-TCGGAGTAAGAGATTGGTATGTCTTCAATCTGCCCTCTAACT-AGGGTA
*
35921734 AGAGATTGG
187 AAAGATT-G
* * *
35921743 ATGATGTCTTCAATCTGCCCCATGATCGTGTAGTGTAAAAGATTG--GATG-CTTCAATTTGCCC
1 --GATG-CTTCAATCTACCCCATGATCG-G--G-GTAAGAGATTGATG-TGTCTTCAATCTGCCC
* * * * ** * *
35921805 -CATGATCAGTGTAAGAGATT-GATGTGTCTTCAATCTGCCCTC-TGATTAAAGTAAAAAATTAG
58 TC-TGATTAGGGTAAAAGATTGGA--TG-CTTCAATCTGCCC-CATGATCAGGGTAAAAGATTGG
* * * * * * *
35921867 ATGCTTCAGTCTGGCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATTAG
118 ATGATTGAATCTGGCCCATGATCGGAGTAAGAGATTGGTATGTCTTCAATCTGCCCTCTAACTAG
35921932 GGTAAAAGATTG
183 GGTAAAAGATTG
* * *
35921944 GATGCTTCAATCTACCCCATGATCGGGGTAAGAGATTGATGTGTCTTCAATTTGCTCTTTGATTA
1 GATGCTTCAATCTACCCCATGATCGGGGTAAGAGATTGATGTGTCTTCAATCTGCCCTCTGATTA
* *
35922009 GGGT-AAAGATTGGATGCTTCAATTTGCCCCATGATCGGGGGTAAAAGATTGGATGATTGAATCT
66 GGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATC-AGGGTAAAAGATTGGATGATTGAATCT
*
35922073 GTCCCATGATCGGAGTAAGAGATTGGTATGTCTT-AATCTGCCCCTCTTAACTAGTGGTAAAAGA
130 GGCCCATGATCGGAGTAAGAGATTGGTATGTCTTCAATCTG-CCCTC-TAACTAG-GGTAAAAGA
35922137 TTG
192 TTG
* * * *
35922140 GATGCTTCAATCTGCCCCATGATTGGGGTAAGAGTTTGGTGTGTCTTCAATCTGCCCTCTGATTA
1 GATGCTTCAATCTACCCCATGATCGGGGTAAGAGATTGATGTGTCTTCAATCTGCCCTCTGATTA
*
35922205 GGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCAGGGTAAGAGATTGG
66 GGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCAGGGTAAAAGATTGG
35922257 TGTGTCTTCA
Statistics
Matches: 424, Mismatches: 62, Indels: 56
0.78 0.11 0.10
Matches are distributed among these distances:
192 1 0.00
193 22 0.05
194 67 0.16
195 14 0.03
196 110 0.26
197 32 0.08
198 25 0.06
199 32 0.08
200 43 0.10
201 41 0.10
202 24 0.06
203 4 0.01
204 9 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (194 bp):
GATGCTTCAATCTACCCCATGATCGGGGTAAGAGATTGATGTGTCTTCAATCTGCCCTCTGATTA
GGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCAGGGTAAAAGATTGGATGATTGAATCTG
GCCCATGATCGGAGTAAGAGATTGGTATGTCTTCAATCTGCCCTCTAACTAGGGTAAAAGATTG
Found at i:35922161 original size:352 final size:352
Alignment explanation
Indices: 35921505--35922401 Score: 1051
Period size: 352 Copynumber: 2.5 Consensus size: 352
35921495 AAAAGATTGT
35921505 ATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCC-CATGAT
1 ATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGG-TG-TGTCTTCAATCTGCCCTC-TGAT
** * * * * * *
35921569 CGGGGTAAGAGAATGGTGTGTCTTCAATCTACCCCTCTTGACTAGGGCTAAAAGATTG-GATG-C
63 TAGGGTAAAAG-ATTG-GTG-CTTCAATCTA-CCC-CATGA-TCGGGGTAAGAGATTGTG-TGTC
* ** * **
35921632 TTCAATTTGCCTCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTACCCTC-TGAT-TAGGG
121 TTCAATTTGCCT-TTGATTAGGGTAA-AGATTGG-ATG-CTTCAATCTACCC-CATGATCGGGGG
* *
35921695 TAAAAGATTGAATGCTTCAATCTACCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTG
181 TAAAAGATTGAATGATTCAATCTACCCATGATCGGAGTAAGAGATTGGATGATGTCTTCAATCTG
* * *
35921760 CCCCATGATCGTGTAGTGTAAAAGATTGGATGCTTCAATTTGCCCCATGATCAGTGTAAGAGATT
246 CCCCATGAACGTGTAGTGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCAGGGTAAGAGATT
35921825 GATGTGTCTTCAATCTGCCCTCTGATTAAAGTAAAAAATTAG
311 GATGTGTCTTCAATCTGCCCTCTGATTAAAGTAAAAAATTAG
* *
35921867 ATGCTTCAGTCTGGCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATTAG
1 ATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATTAG
35921932 GGTAAAAGATTGGATGCTTCAATCTACCCCATGATCGGGGTAAGAGATTGATGTGTCTTCAATTT
66 GGTAAAAGATTGG-TGCTTCAATCTACCCCATGATCGGGGTAAGAGATTG-TGTGTCTTCAATTT
* * *
35921997 GCTCTTTGATTAGGGTAAAGATTGGATGCTTCAATTTGCCCCATGATCGGGGGTAAAAGATTGGA
129 GC-CTTTGATTAGGGTAAAGATTGGATGCTTCAATCTACCCCATGATCGGGGGTAAAAGATTGAA
* * * *
35922062 TGATTGAATCTGTCCCATGATCGGAGTAAGAGATTGG-T-ATGTCTT-AATCTGCCCCTCTTAAC
193 TGATTCAATCT-ACCCATGATCGGAGTAAGAGATTGGATGATGTCTTCAATCTGCCCC-ATGAAC
** * *
35922124 ---TAGTGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATTGGGGTAAGAGTTTGGTGTGTCT
256 GTGTAGT-GTAAAAGATTGGATGCTTCAATCTGCCCCATGATCAGGGTAAGAGATTGATGTGTCT
** * *
35922186 TCAATCTGCCCTCTGATTAGGGTAAAAGATTGG
320 TCAATCTGCCCTCTGATTAAAGTAAAAAATTAG
* * *
35922219 ATGCTTCAATCTGCCCCATGATCAGGGTAAGAGATTGGTGTGTCTTCAATCTACCCTCTAATTAG
1 ATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATTAG
* * * * *
35922284 GGTAAAGGATTAGGTGCTTTAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTTAATCT
66 GGTAAAAGATT-GGTGCTTCAATCTACCCCATGATCGGGGTAAGAGATT-GTGTGTCTTCAATTT
* * * * *
35922349 GCCATTTAATTAGGGTAAAAGATTAGATGTTTTAATCTACCCTATGATCGGGG
129 GCC-TTTGATTAGGGT-AAAGATTGGATGCTTCAATCTACCCCATGATCGGGG
35922402 TATGAGATGG
Statistics
Matches: 467, Mismatches: 53, Indels: 39
0.84 0.09 0.07
Matches are distributed among these distances:
351 5 0.01
352 208 0.45
353 44 0.09
354 25 0.05
355 39 0.08
356 36 0.08
357 25 0.05
358 13 0.03
359 5 0.01
360 28 0.06
361 3 0.01
362 36 0.08
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (352 bp):
ATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATTAG
GGTAAAAGATTGGTGCTTCAATCTACCCCATGATCGGGGTAAGAGATTGTGTGTCTTCAATTTGC
CTTTGATTAGGGTAAAGATTGGATGCTTCAATCTACCCCATGATCGGGGGTAAAAGATTGAATGA
TTCAATCTACCCATGATCGGAGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGAACGTGTA
GTGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCAGGGTAAGAGATTGATGTGTCTTCAATC
TGCCCTCTGATTAAAGTAAAAAATTAG
Found at i:35922182 original size:274 final size:274
Alignment explanation
Indices: 35921490--35922334 Score: 824
Period size: 274 Copynumber: 3.1 Consensus size: 274
35921480 TCTTGATGTA
* * * *
35921490 GGGGTAAAAGATTGTATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCA
1 GGGGTAAAAGATTGGATGATTCAATCTGCCCCATGATCAGAGTAAGAGATT-GAT-ATGTCTTCA
* *** * * * *
35921555 ATCTGCCC-CATGA-TCGGGGTAAGAGAATGGT-G-TGTCTTCAATCTACCCCTCTTGACTAGGG
64 ATCTGCCCTC-TAACT-AAAGTAA-AAAAT--TAGATG-CTTCAATCT-GCCC-CATGA-TCGGG
* * * * ** * *
35921616 CTAAAAGATTGG-ATG-CTTCAATTTG-CCTCATGATCGGGGTAAGAGATTGGTGTGTCTTCAAT
120 GTAAGAGATTGGTGTGTCTTCAATCTGCCCTC-TGATTAGGGTAAAAGATTGG-ATG-CTTCAAT
* * * * * **
35921678 CTACCCTC-TGATTAGGGTAAAAGATTGA-ATG-CTTCAATCTACCC-ATGATCGGGGT-AAGAG
182 CTACCC-CATGATCAGGGTAAGAGATTGATGTGTCTTCAATCTACCCTCTAATTAGGGTAAAG-G
*
35921738 ATTGGATGATGTCTTCAATCTGCCCCATGATCG
245 ATT--AGGATG-CTTCAATCTGCCCCATGATCG
* * * * *
35921771 TGTAGTGTAAAAGATTGGATGCTTCAATTTGCCCCATGATCAGTGTAAGAGATTGATGTGTCTTC
1 -G--GGGTAAAAGATTGGATGATTCAATCTGCCCCATGATCAGAGTAAGAGATTGATATGTCTTC
* * * *
35921836 AATCTGCCCTCTGATTAAAGTAAAAAATTAGATGCTTCAGTCTGGCCCATGATCGGGGTAAGAGA
63 AATCTGCCCTCTAACTAAAGTAAAAAATTAGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGA
35921901 TTGGTGTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATGCTTCAATCTACCCCATGA
128 TTGGTGTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATGCTTCAATCTACCCCATGA
* * * * * *
35921966 TCGGGGTAAGAGATTGATGTGTCTTCAATTTGCTCTTTGATTAGGGTAAA-GATT-GGATGCTTC
193 TCAGGGTAAGAGATTGATGTGTCTTCAATCTACCCTCTAATTAGGGTAAAGGATTAGGATGCTTC
*
35922029 AATTTGCCCCATGATCG
258 AATCTGCCCCATGATCG
* * * *
35922046 GGGGTAAAAGATTGGATGATTGAATCTGTCCCATGATCGGAGTAAGAGATTGGTATGTCTT-AAT
1 GGGGTAAAAGATTGGATGATTCAATCTGCCCCATGATCAGAGTAAGAGATTGATATGTCTTCAAT
** * * * *
35922110 CTGCCCCTCTTAACTAGTGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATTGGGGTAAGAGT
66 CTG-CCCTC-TAACTA-AAGTAAAAAATTAGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGA
*
35922175 TTGGTGTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGA
128 TTGGTGTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATGCTTCAATCTACCCCATGA
* *
35922240 TCAGGGTAAGAGATTGGTGTGTCTTCAATCTACCCTCTAATTAGGGTAAAGGATTAGG-TGCTTT
193 TCAGGGTAAGAGATTGATGTGTCTTCAATCTACCCTCTAATTAGGGTAAAGGATTAGGATGCTTC
35922304 AATCTGCCCCATGATC-
258 AATCTGCCCCATGATCG
*
35922320 GGGGTAAGAGATTGG
1 GGGGTAAAAGATTGG
35922335 TGTGTCTTTA
Statistics
Matches: 479, Mismatches: 65, Indels: 46
0.81 0.11 0.08
Matches are distributed among these distances:
271 6 0.01
272 56 0.12
273 4 0.01
274 162 0.34
275 44 0.09
276 7 0.01
277 44 0.09
278 10 0.02
279 43 0.09
280 21 0.04
281 8 0.02
282 24 0.05
283 5 0.01
284 45 0.09
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (274 bp):
GGGGTAAAAGATTGGATGATTCAATCTGCCCCATGATCAGAGTAAGAGATTGATATGTCTTCAAT
CTGCCCTCTAACTAAAGTAAAAAATTAGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
GTGTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATGCTTCAATCTACCCCATGATCA
GGGTAAGAGATTGATGTGTCTTCAATCTACCCTCTAATTAGGGTAAAGGATTAGGATGCTTCAAT
CTGCCCCATGATCG
Found at i:35922237 original size:78 final size:78
Alignment explanation
Indices: 35922047--35922409 Score: 478
Period size: 78 Copynumber: 4.6 Consensus size: 78
35922037 CCATGATCGG
* * * * *
35922047 GGGTAAAAGATTGGATGATTGAATCTGTCCCATGATCGGAGTAAGAGATTGGTATGTCTT-AATC
1 GGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATC
*
35922111 TGCCCCTCTTAACTA
66 TG-CCCTC-TAATTA
* *
35922126 GTGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATTGGGGTAAGAGTTTGGTGTGTCTTCAAT
1 G-GGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAAT
*
35922191 CTGCCCTCTGATTA
65 CTGCCCTCTAATTA
*
35922205 GGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCAGGGTAAGAGATTGGTGTGTCTTCAATC
1 GGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATC
*
35922270 TACCCTCTAATTA
66 TGCCCTCTAATTA
* * *
35922283 GGGTAAAGGATTAGG-TGCTTTAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTTAAT
1 GGGTAAAAGATT-GGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAAT
* *
35922347 CTGCCATTTAATTA
65 CTGCCCTCTAATTA
* * * * * *
35922361 GGGTAAAAGATTAGATGTTTTAATCTACCCTATGATCGGGGTATGAGAT
1 GGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGAT
35922410 GGATGGTAGC
Statistics
Matches: 253, Mismatches: 27, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
77 1 0.00
78 181 0.72
79 8 0.03
80 57 0.23
81 6 0.02
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (78 bp):
GGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATC
TGCCCTCTAATTA
Found at i:35922365 original size:40 final size:40
Alignment explanation
Indices: 35921467--35922396 Score: 549
Period size: 40 Copynumber: 23.4 Consensus size: 40
35921457 AGATGGTAGT
* * *
35921467 TTCAATCTGCCCTTCTTGATGTAGGGGTAAAAGATT-GTATG-C
1 TTCAATCTGCCC-T-ATGAT-TA-GGGTAAGAGATTGGTGTGTC
* **
35921509 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTC
1 TTCAATCTGCCCTATGATTAGGGTAAGAGATTGG-TG-TGTC
* ** *
35921551 TTCAATCTGCCCCATGATCGGGGTAAGAGAATGGTGTGTC
1 TTCAATCTGCCCTATGATTAGGGTAAGAGATTGGTGTGTC
* * * * *
35921591 TTCAATCTACCCCTCTTGACTAGGGCTAAAAGATTGG-ATG-C
1 TTCAATCT-GCCCT-ATGATTAGGG-TAAGAGATTGGTGTGTC
* **
35921632 TTCAATTTG-CCTCATGATCGGGGTAAGAGATTGGTGTGTC
1 TTCAATCTGCCCT-ATGATTAGGGTAAGAGATTGGTGTGTC
* * * **
35921672 TTCAATCTACCCTCTGATTAGGGTAAAAGATT-GAATG-C
1 TTCAATCTGCCCTATGATTAGGGTAAGAGATTGGTGTGTC
* **
35921710 TTCAATCTACCC-ATGATCGGGGTAAGAGATTGGATGATGTC
1 TTCAATCTGCCCTATGATTAGGGTAAGAGATTGG-TG-TGTC
* * * *
35921751 TTCAATCTGCCCCATGATCGTGTAGTGTAAAAGATTGG-ATG-C
1 TTCAATCTGCCCTATGA---T-TAGGGTAAGAGATTGGTGTGTC
* * * * *
35921793 TTCAATTTGCCCCATGATCAGTGTAAGAGATTGATGTGTC
1 TTCAATCTGCCCTATGATTAGGGTAAGAGATTGGTGTGTC
* ** * * * *
35921833 TTCAATCTGCCCTCTGATTAAAGTAAAAAATTAG-ATG-C
1 TTCAATCTGCCCTATGATTAGGGTAAGAGATTGGTGTGTC
* **
35921871 TTCAGTCTGGCCC-ATGATCGGGGTAAGAGATTGGTGTGTC
1 TTCAATCT-GCCCTATGATTAGGGTAAGAGATTGGTGTGTC
* * *
35921911 TTCAATCTGCCCTCTGATTAGGGTAAAAGATTGG-ATG-C
1 TTCAATCTGCCCTATGATTAGGGTAAGAGATTGGTGTGTC
* * ** *
35921949 TTCAATCTACCCCATGATCGGGGTAAGAGATTGATGTGTC
1 TTCAATCTGCCCTATGATTAGGGTAAGAGATTGGTGTGTC
* * * *
35921989 TTCAATTTGCTCTTTGATTAGGGTAA-AGATTGG-ATG-C
1 TTCAATCTGCCCTATGATTAGGGTAAGAGATTGGTGTGTC
* * ** * * *
35922026 TTCAATTTGCCCCATGATCGGGGGTAAAAGATTGG-ATG-A
1 TTCAATCTGCCCTATGAT-TAGGGTAAGAGATTGGTGTGTC
* * *
35922065 TTGAATCTGTCCC-ATGA-TCGGAGTAAGAGATTGGTATGTC
1 TTCAATCTG-CCCTATGATTAGG-GTAAGAGATTGGTGTGTC
* * * * *
35922105 TT-AATCTGCCCCTCTTAACTAGTGGTAAAAGATTGG-ATG-C
1 TTCAATCTG-CCCT-ATGATTAG-GGTAAGAGATTGGTGTGTC
* * *
35922145 TTCAATCTGCCCCATGATTGGGGTAAGAGTTTGGTGTGTC
1 TTCAATCTGCCCTATGATTAGGGTAAGAGATTGGTGTGTC
* * *
35922185 TTCAATCTGCCCTCTGATTAGGGTAAAAGATTGG-ATG-C
1 TTCAATCTGCCCTATGATTAGGGTAAGAGATTGGTGTGTC
* *
35922223 TTCAATCTGCCCCATGATCAGGGTAAGAGATTGGTGTGTC
1 TTCAATCTGCCCTATGATTAGGGTAAGAGATTGGTGTGTC
* * * *
35922263 TTCAATCTACCCTCTAATTAGGGTAA-AGGATTAG-GTG-C
1 TTCAATCTGCCCTATGATTAGGGTAAGA-GATTGGTGTGTC
* * **
35922301 TTTAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTC
1 TTCAATCTGCCCTATGATTAGGGTAAGAGATTGGTGTGTC
* * * * * *
35922341 TTTAATCTGCCATTTAATTAGGGTAAAAGATTAGATGT-T-
1 TTCAATCTGCCCTATGATTAGGGTAAGAGATT-GGTGTGTC
*
35922380 TT-AATCTACCCTATGAT
1 TTCAATCTGCCCTATGAT
35922397 CGGGGTATGA
Statistics
Matches: 686, Mismatches: 155, Indels: 98
0.73 0.17 0.10
Matches are distributed among these distances:
37 33 0.05
38 194 0.28
39 94 0.14
40 207 0.30
41 45 0.07
42 88 0.13
43 12 0.02
45 1 0.00
46 12 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (40 bp):
TTCAATCTGCCCTATGATTAGGGTAAGAGATTGGTGTGTC
Found at i:35923213 original size:111 final size:110
Alignment explanation
Indices: 35923009--35923340 Score: 513
Period size: 112 Copynumber: 3.0 Consensus size: 110
35922999 TCCTATATCG
* * *
35923009 TTAGACCACTAACTGTCATTTCAATGCAAAAATGCTTGAACAGGGTTGTAAGGTGGATAAAATTG
1 TTAGTCCACTAACTGTTATTTCAATGCAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATTG
*
35923074 AATTTTATTGAAGGTAAAACTCGCATGAATGAAAAGATTTAAAATA
66 AATTTTATTGAAGGTAAAGCTCGCATGAATGAAAAGA-TTAAAATA
** *
35923120 TTAGTCCACTAACTGTTATTTCAATGCAAACGTGCTTGAACAAGGTTGTAAAGTGGATAAAATTG
1 TTAGTCCACTAACTGTTATTTCAATGCAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATTG
* *
35923185 AATTTTATT-AGAGGCAAAGCTCGTATGAATGAAAAGATTAAAGATTA
66 AATTTTATTGA-AGGTAAAGCTCGCATGAATGAAAAGATTAAA-A-TA
* * *
35923232 TTAGTCCATTAACTATTATTTCAATGCAAATATGCTTGAACAAGGTTGTAAGGTGGATAAAATTG
1 TTAGTCCACTAACTGTTATTTCAATGCAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATTG
35923297 AATTTTATTGAAGGTAAAGCTCGCATGAATGAAAAGATTAAAAT
66 AATTTTATTGAAGGTAAAGCTCGCATGAATGAAAAGATTAAAAT
35923341 GACAAACATT
Statistics
Matches: 201, Mismatches: 16, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
110 7 0.03
111 93 0.46
112 100 0.50
113 1 0.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.31
Consensus pattern (110 bp):
TTAGTCCACTAACTGTTATTTCAATGCAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATTG
AATTTTATTGAAGGTAAAGCTCGCATGAATGAAAAGATTAAAATA
Found at i:35928850 original size:29 final size:30
Alignment explanation
Indices: 35928819--35928977 Score: 152
Period size: 29 Copynumber: 5.4 Consensus size: 30
35928809 AAAATCAAAA
35928819 TTTTAGAAAGTTTAGGGGTTAAAATTCAA-
1 TTTTAGAAAGTTTAGGGGTTAAAATTCAAT
* * *
35928848 TTTTAGAAAATTTA-GGGTCAAAATGCAAT
1 TTTTAGAAAGTTTAGGGGTTAAAATTCAAT
* * *
35928877 TTTTAGAAAGTTCAAGGGTTTAAA--CAAAT
1 TTTTAGAAAGTTTAGGGGTTAAAATTC-AAT
35928906 TTTTAGCAAAGTTTAGGGG-TAAAATGT-AAT
1 TTTTAG-AAAGTTTAGGGGTTAAAAT-TCAAT
* * *
35928936 TTTTAGAAAGTTTAGGAGTT-AAATTTAAA
1 TTTTAGAAAGTTTAGGGGTTAAAATTCAAT
*
35928965 TTTTGGAAAGTTT
1 TTTTAGAAAGTTT
35928978 CGAGGTCGAA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
28 14 0.13
29 67 0.62
30 27 0.25
ACGTcount: A:0.38, C:0.04, G:0.19, T:0.38
Consensus pattern (30 bp):
TTTTAGAAAGTTTAGGGGTTAAAATTCAAT
Found at i:35928869 original size:58 final size:58
Alignment explanation
Indices: 35928806--35928973 Score: 164
Period size: 59 Copynumber: 2.9 Consensus size: 58
35928796 GAAAAATAGA
*
35928806 GTCAAAATCAAAATTTTAGAAAGTTTAGGGGTTAAAATTCAATTTTAGAAAATTTA-GG
1 GTCAAAATC-AATTTTTAGAAAGTTTAGGGGTTAAAATTCAATTTTAGAAAATTTAGGG
* * * *
35928864 GTCAAAATGCAATTTTTAGAAAGTTCAAGGGTTTAAA--CAAATTTTTAGCAAAGTTTAGGG
1 GTCAAAAT-CAATTTTTAGAAAGTTTAGGGGTTAAAATTC-AA-TTTTAG-AAAATTTAGGG
* * * * *
35928924 GT-AAAATGTAATTTTTAGAAAGTTTAGGAGTTAAATTTAAATTTTGGAAA
1 GTCAAAAT-CAATTTTTAGAAAGTTTAGGGGTTAAAATTCAATTTTAGAAA
35928974 GTTTCGAGGT
Statistics
Matches: 90, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
56 1 0.01
57 2 0.02
58 40 0.44
59 41 0.46
60 6 0.07
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (58 bp):
GTCAAAATCAATTTTTAGAAAGTTTAGGGGTTAAAATTCAATTTTAGAAAATTTAGGG
Found at i:35928990 original size:88 final size:87
Alignment explanation
Indices: 35928814--35928997 Score: 196
Period size: 88 Copynumber: 2.1 Consensus size: 87
35928804 GAGTCAAAAT
* *
35928814 CAAAATTTTAGAAAGTTTAGGGGTTAAAATTCAATTTTAGAAAATTTAGGGTCAAAATGCAATTT
1 CAAATTTTTAGAAAGTTTAGGGGTTAAAATTCAATTTTAGAAAATTTAGGGTCAAAATGCAAATT
**
35928879 TTAGAAAGTTCAAGGGTTTAAA
66 TTAGAAAGTTCAAGGGTCGAAA
* * **
35928901 CAAATTTTTAGCAAAGTTTAGGGG-TAAAATGT-AATTTTTAGAAAGTTTAGGAGT-TAAATTTA
1 CAAATTTTTAG-AAAGTTTAGGGGTTAAAAT-TCAA-TTTTAGAAAATTTAGG-GTCAAAATGCA
* *
35928963 AATTTTGGAAAGTTTCGA-GGTCGAAA
62 AATTTTAGAAAG-TTCAAGGGTCGAAA
35928989 CATAATTTT
1 CA-AATTTT
35928998 AAAATAAAAT
Statistics
Matches: 81, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
87 18 0.22
88 51 0.63
89 12 0.15
ACGTcount: A:0.39, C:0.05, G:0.19, T:0.36
Consensus pattern (87 bp):
CAAATTTTTAGAAAGTTTAGGGGTTAAAATTCAATTTTAGAAAATTTAGGGTCAAAATGCAAATT
TTAGAAAGTTCAAGGGTCGAAA
Found at i:35935333 original size:24 final size:24
Alignment explanation
Indices: 35935272--35935334 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
35935262 TAGAGTAATA
* *
35935272 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
*
35935296 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
35935320 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
35935335 GATTATTTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.24
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:35937312 original size:25 final size:25
Alignment explanation
Indices: 35937270--35937321 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
35937260 AGTTTGACTC
* *
35937270 AAACAAATAAATAGAGTTTAATTGA
1 AAACAAATAAACAGAGTTTAACTGA
* *
35937295 AAACAAATATACATAGTTTAACTGA
1 AAACAAATAAACAGAGTTTAACTGA
35937320 AA
1 AA
35937322 GATTATTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.56, C:0.08, G:0.10, T:0.27
Consensus pattern (25 bp):
AAACAAATAAACAGAGTTTAACTGA
Found at i:35938065 original size:6 final size:6
Alignment explanation
Indices: 35938054--35938133 Score: 51
Period size: 6 Copynumber: 13.8 Consensus size: 6
35938044 TTAGAATAAT
** *
35938054 TTTAAA TTTAAA CAT-AA TTTAAA CTTAAA -TTAAA -TTAAA TTTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA
** * **
35938100 -ACAAA TTCAAA TTTAAA AATAAA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
35938134 TAAATCTAAA
Statistics
Matches: 57, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
5 16 0.28
6 36 0.63
7 5 0.09
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (6 bp):
TTTAAA
Found at i:35938072 original size:18 final size:16
Alignment explanation
Indices: 35938038--35938133 Score: 84
Period size: 17 Copynumber: 5.6 Consensus size: 16
35938028 GTTTTATTTA
*
35938038 TTAAATTTAGAATAATT
1 TTAAATTTAAAATAA-T
35938055 TTAAATTTAAACATAAT
1 TTAAATTTAAA-ATAAT
* * *
35938072 TTAAACTTAAATTAAA
1 TTAAATTTAAAATAAT
*
35938088 TTAAATTTTAAAACAAAT
1 TTAAA-TTTAAAA-TAAT
*
35938106 TCAAATTTAAAAATAAAT
1 TTAAATTT-AAAAT-AAT
35938124 TTAAATTTAA
1 TTAAATTTAA
35938134 TAAATCTAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
16 8 0.13
17 31 0.49
18 24 0.38
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (16 bp):
TTAAATTTAAAATAAT
Found at i:35947984 original size:3 final size:3
Alignment explanation
Indices: 35947978--35948004 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
35947968 TAAGTAGTAG
35947978 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
35948005 ATTTGTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:35951374 original size:2 final size:2
Alignment explanation
Indices: 35951363--35951410 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
35951353 CTTCATACCG
35951363 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35951404 TA TA TA T
1 TA TA TA T
35951411 TTATGATTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:35951838 original size:18 final size:19
Alignment explanation
Indices: 35951817--35951853 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
35951807 AGAAAACACA
35951817 TAATAAA-TAAAATTATAT
1 TAATAAATTAAAATTATAT
35951835 TAATAAATTTAAAATTATA
1 TAATAAA-TTAAAATTATA
35951854 AAAATGCGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAATAAATTAAAATTATAT
Found at i:35953387 original size:18 final size:18
Alignment explanation
Indices: 35953360--35953399 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
35953350 GAGCACACAC
* *
35953360 TTAT-AAAAAATTAGAAA
1 TTATAAAAAAAATAAAAA
35953377 TTATAAAAAAAATAAAAA
1 TTATAAAAAAAATAAAAA
35953395 TTATA
1 TTATA
35953400 TATTGAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (18 bp):
TTATAAAAAAAATAAAAA
Found at i:35954354 original size:51 final size:51
Alignment explanation
Indices: 35954280--35954376 Score: 124
Period size: 51 Copynumber: 1.9 Consensus size: 51
35954270 TGTTATTTAA
* *
35954280 ATTGTTTTCAGATATGATGTTTTATATAAAAATAAATATTTATTTAAATTG
1 ATTGTTTTCAGATATGATGTTTTACATAAAAATAAACATTTATTTAAATTG
* * * *
35954331 ATTGTGTTT-AGATCTGCTGTTTTACATAAATATAAACATTTGTTTA
1 ATTGT-TTTCAGATATGATGTTTTACATAAAAATAAACATTTATTTA
35954377 TATTATTTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 36 0.92
52 3 0.08
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.48
Consensus pattern (51 bp):
ATTGTTTTCAGATATGATGTTTTACATAAAAATAAACATTTATTTAAATTG
Done.