Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 114 of 186
Found at i:37778619 original size:30 final size:30
Alignment explanation
Indices: 37778585--37778651 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
37778575 GTAATCGATC
*
37778585 AAAGAGAAAAATTGATTGGGAAATAGGGAA
1 AAAGAGAAAAATTGATTGGGAAAGAGGGAA
*
37778615 AAAGAGGAAAATTGATTGGGAAAGAGGGAA
1 AAAGAGAAAAATTGATTGGGAAAGAGGGAA
*
37778645 GAAGAGA
1 AAAGAGA
37778652 TATTCGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.52, C:0.00, G:0.34, T:0.13
Consensus pattern (30 bp):
AAAGAGAAAAATTGATTGGGAAAGAGGGAA
Found at i:37782630 original size:139 final size:139
Alignment explanation
Indices: 37782380--37783240 Score: 1722
Period size: 139 Copynumber: 6.2 Consensus size: 139
37782370 TGTAACCCAC
37782380 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTTGCATCCATAAGTGAACTCGGAGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTTGCATCCATAAGTGAACTCGGAGT
37782445 CAACTCAATGAGCTCAGATGCCTAGTTACATCTCACAAACTCAGACTCAACTCAACGAGTTTGGA
66 CAACTCAATGAGCTCAGATGCCTAGTTACATCTCACAAACTCAGACTCAACTCAACGAGTTTGGA
37782510 CGTTCGCAT
131 CGTTCGCAT
37782519 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTTGCATCCATAAGTGAACTCGGAGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTTGCATCCATAAGTGAACTCGGAGT
37782584 CAACTCAATGAGCTCAGATGCCTAGTTACATCTCACAAACTCAGACTCAACTCAACGAGTTTGGA
66 CAACTCAATGAGCTCAGATGCCTAGTTACATCTCACAAACTCAGACTCAACTCAACGAGTTTGGA
37782649 CGTTCGCAT
131 CGTTCGCAT
37782658 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTTGCATCCATAAGTGAACTCGGAGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTTGCATCCATAAGTGAACTCGGAGT
37782723 CAACTCAATGAGCTCAGATGCCTAGTTACATCTCACAAACTCAGACTCAACTCAACGAGTTTGGA
66 CAACTCAATGAGCTCAGATGCCTAGTTACATCTCACAAACTCAGACTCAACTCAACGAGTTTGGA
37782788 CGTTCGCAT
131 CGTTCGCAT
37782797 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTTGCATCCATAAGTGAACTCGGAGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTTGCATCCATAAGTGAACTCGGAGT
37782862 CAACTCAATGAGCTCAGATGCCTAGTTACATCTCACAAACTCAGACTCAACTCAACGAGTTTGGA
66 CAACTCAATGAGCTCAGATGCCTAGTTACATCTCACAAACTCAGACTCAACTCAACGAGTTTGGA
37782927 CGTTCGCAT
131 CGTTCGCAT
37782936 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTTGCATCCATAAGTGAACTCGGAGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTTGCATCCATAAGTGAACTCGGAGT
37783001 CAACTCAATGAGCTCAGATGCCTAGTTACATCTCACAAACTCAGACTCAACTCAACGAGTTTGGA
66 CAACTCAATGAGCTCAGATGCCTAGTTACATCTCACAAACTCAGACTCAACTCAACGAGTTTGGA
37783066 CGTTCGCAT
131 CGTTCGCAT
37783075 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTTGCATCCATAAGTGAACTCGGAGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTTGCATCCATAAGTGAACTCGGAGT
37783140 CAACTCAATGAGCTCAGATGCCTAGTTACATCTCACAAACTCAGACTCAACTCAACGAGTTTGGA
66 CAACTCAATGAGCTCAGATGCCTAGTTACATCTCACAAACTCAGACTCAACTCAACGAGTTTGGA
37783205 CGTTCGCAT
131 CGTTCGCAT
37783214 CCATAAGTGAACTCGGACTCAACTCAA
1 CCATAAGTGAACTCGGACTCAACTCAA
37783241 TGAGTTCGGA
Statistics
Matches: 722, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
139 722 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (139 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTTGCATCCATAAGTGAACTCGGAGT
CAACTCAATGAGCTCAGATGCCTAGTTACATCTCACAAACTCAGACTCAACTCAACGAGTTTGGA
CGTTCGCAT
Found at i:37783181 original size:93 final size:93
Alignment explanation
Indices: 37783084--37783254 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
37783074 TCCATAAGTG
* * *
37783084 AACTCGGACTCAACTCAACGAGCTC-GAGCGTTTGCATCCATAAGTGAACTCGGAGTCAACTCAA
1 AACTCAGACTCAACTCAACGAGCTCGGA-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
37783148 TGAGCTCAGATGCCTAGTTACATCTCACA
65 TGAGCTCAGATGCCTAGTTACATCTCACA
* *
37783177 AACTCAGACTCAACTCAACGAGTTTGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAT
1 AACTCAGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAT
* *
37783242 GAGTTCGGATGCC
66 GAGCTCAGATGCC
37783255 CAAATATCCG
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 68 0.97
94 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAT
GAGCTCAGATGCCTAGTTACATCTCACA
Found at i:37788889 original size:42 final size:42
Alignment explanation
Indices: 37788776--37788897 Score: 120
Period size: 43 Copynumber: 2.9 Consensus size: 42
37788766 AAAAAGCTCG
* * ***
37788776 TACAATGCCAACGTCCCAAACGTGGTCTTACATGTAATCAAA
1 TACAATGCCAATGTCCCAGACGTGGTCTTACACAAAATCAAA
** * * *
37788818 TATTGATGCCACTGTACCAGACAG-CGTCTTACACAAAATCAAA
1 TA-CAATGCCAATGTCCCAGAC-GTGGTCTTACACAAAATCAAA
*
37788861 TACAATGCCAATGCCCCAGACGTGGTCTTACACAAAA
1 TACAATGCCAATGTCCCAGACGTGGTCTTACACAAAA
37788898 ACACATATCG
Statistics
Matches: 61, Mismatches: 16, Indels: 6
0.73 0.19 0.07
Matches are distributed among these distances:
41 1 0.02
42 29 0.48
43 30 0.49
44 1 0.02
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.22
Consensus pattern (42 bp):
TACAATGCCAATGTCCCAGACGTGGTCTTACACAAAATCAAA
Found at i:37798926 original size:37 final size:37
Alignment explanation
Indices: 37798876--37798954 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
37798866 TTATTACGAA
* *
37798876 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
37798913 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
37798950 GTCTT
1 GTCTT
37798955 TAGAGCTCAG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:37799268 original size:217 final size:217
Alignment explanation
Indices: 37798893--37799321 Score: 858
Period size: 217 Copynumber: 2.0 Consensus size: 217
37798883 CCGGACATAA
37798893 TCTCCACACGAAGTTATCGGGTCTTACCCGGACAAAATTCCCACACGTAGTCATCGGGTCTTTAG
1 TCTCCACACGAAGTTATCGGGTCTTACCCGGACAAAATTCCCACACGTAGTCATCGGGTCTTTAG
37798958 AGCTCAGATATAGTACGAGCACGAAGCTTACGGACATTAATCAGTGATAATATTCTCGCATAAAG
66 AGCTCAGATATAGTACGAGCACGAAGCTTACGGACATTAATCAGTGATAATATTCTCGCATAAAG
37799023 CCTGCGGGGTTTTAACCCGGATATAGTACTGACACAAATGCCCTTCGGGACTTATCACATTCATC
131 CCTGCGGGGTTTTAACCCGGATATAGTACTGACACAAATGCCCTTCGGGACTTATCACATTCATC
37799088 ACATCGGCCATTAGGCCCTATC
196 ACATCGGCCATTAGGCCCTATC
37799110 TCTCCACACGAAGTTATCGGGTCTTACCCGGACAAAATTCCCACACGTAGTCATCGGGTCTTTAG
1 TCTCCACACGAAGTTATCGGGTCTTACCCGGACAAAATTCCCACACGTAGTCATCGGGTCTTTAG
37799175 AGCTCAGATATAGTACGAGCACGAAGCTTACGGACATTAATCAGTGATAATATTCTCGCATAAAG
66 AGCTCAGATATAGTACGAGCACGAAGCTTACGGACATTAATCAGTGATAATATTCTCGCATAAAG
37799240 CCTGCGGGGTTTTAACCCGGATATAGTACTGACACAAATGCCCTTCGGGACTTATCACATTCATC
131 CCTGCGGGGTTTTAACCCGGATATAGTACTGACACAAATGCCCTTCGGGACTTATCACATTCATC
37799305 ACATCGGCCATTAGGCC
196 ACATCGGCCATTAGGCC
37799322 TTACTATCTT
Statistics
Matches: 212, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
217 212 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (217 bp):
TCTCCACACGAAGTTATCGGGTCTTACCCGGACAAAATTCCCACACGTAGTCATCGGGTCTTTAG
AGCTCAGATATAGTACGAGCACGAAGCTTACGGACATTAATCAGTGATAATATTCTCGCATAAAG
CCTGCGGGGTTTTAACCCGGATATAGTACTGACACAAATGCCCTTCGGGACTTATCACATTCATC
ACATCGGCCATTAGGCCCTATC
Found at i:37803243 original size:15 final size:15
Alignment explanation
Indices: 37803225--37803259 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
37803215 AGTTCCAGTG
*
37803225 TTTATTAATGAATGT
1 TTTATTAACGAATGT
*
37803240 TTTATTAACGACTGT
1 TTTATTAACGAATGT
37803255 TTTAT
1 TTTAT
37803260 GAAAAACAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.11, T:0.54
Consensus pattern (15 bp):
TTTATTAACGAATGT
Found at i:37807057 original size:82 final size:81
Alignment explanation
Indices: 37806966--37807215 Score: 186
Period size: 82 Copynumber: 3.1 Consensus size: 81
37806956 CATATAAGAA
*
37806966 TATTAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATG
1 TATTTATTATTAAGAATTTTATTAAATTATATATTTTAA-TATAATATATTTAATAATAATTATG
37807031 TTTAAATATGATTAAAT
65 TTTAAATATGATTAAAT
* * * * * * * *
37807048 TATTTATTATT---CATATTAATAATCTTATCAAAATTTAA-ATAACA-A--TAACAATAA-TA-
1 TATTTATTATTAAGAATTTTATTAA-ATTAT-ATATTTTAATATAATATATTTAATAATAATTAT
* *
37807104 ATTTACCAA-A--A-CAAAT
64 GTTTA--AATATGATTAAAT
* *
37807120 T-TCTGGTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAAT
1 TAT-T--T-ATTATTAAGAATTTTATTAAATTATATATTTTAA-TATAATATATTTAATAATAAT
*
37807184 TATGTTTAAATATGATTAAAA
61 TATGTTTAAATATGATTAAAT
37807205 TATTTATTATT
1 TATTTATTATT
37807216 GATAATAATA
Statistics
Matches: 121, Mismatches: 24, Indels: 46
0.63 0.13 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 5 0.04
75 9 0.07
76 17 0.14
77 4 0.03
78 13 0.11
79 13 0.11
80 4 0.03
81 17 0.14
82 19 0.16
83 5 0.04
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (81 bp):
TATTTATTATTAAGAATTTTATTAAATTATATATTTTAATATAATATATTTAATAATAATTATGT
TTAAATATGATTAAAT
Found at i:37807302 original size:157 final size:153
Alignment explanation
Indices: 37806980--37807424 Score: 385
Period size: 157 Copynumber: 2.8 Consensus size: 153
37806970 AATTATTAAG
*
37806980 AATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATGTTTAAATATGATTA
1 AATTTTATTAAATTATATATTTTAA-TAAAATAT-TTTAATAATAATTATGTTTAAATATGATTA
* * * * * *
37807045 AATTATTTATTATTCATATTAATAATCTTATCAAAAT-T-TAA-ATAACAATAA--CAATAATAA
64 AAATATTTATTATT-ATAATAATAATCTTATTAAAATATATAATTTAATAA-AATTC-TTAATAA
37807105 TTTACCAAAACAAATTTCTGGTAATTATT
126 -TTACCAAAACAAATTTCTGGTAATTATT
37807134 AAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTTAAATATGA
1 ---AATTTTATTAAATTATATATTTTAA-TAAAATAT-TTTAATAATAATTATGTTTAAATATGA
37807199 TTAAAATATTTATTATTGATAATAATAATCTTATTAAAATATATAATTTAATAAAATTCTTAATA
61 TTAAAATATTTATTATT-ATAATAATAATCTTATTAAAATATATAATTTAATAAAATTCTTAATA
* ** *
37807264 ATTACCAGAA-ATTTGTTTTGGTAAATTATT
125 ATTACCAAAACAAAT-TTCTGGT-AATTATT
** * * * * *
37807294 -ATTGTTATTGTTATT-TAAATTTTGATAAGATTATTAATATGAATAATAAATA-ATTT-AATCA
1 AATT-TTATT-AAATTATATATTTTAATAA-AATATT--T-T-AATAATAATTATGTTTAAAT-A
* * * *
37807355 T-ATTTAAACATAATTATTATTA-AAT-ATATTATAATTAAAATATATAATTTAATAAAATTCTT
58 TGA-TTAAA-ATATTTATTATTATAATAATAATCTTATTAAAATATATAATTTAATAAAATTCTT
37807417 AATAATTA
121 AATAATTA
37807425 ATATTCTTAT
Statistics
Matches: 246, Mismatches: 25, Indels: 34
0.81 0.08 0.11
Matches are distributed among these distances:
156 7 0.03
157 154 0.63
158 14 0.06
159 31 0.13
160 39 0.16
161 1 0.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (153 bp):
AATTTTATTAAATTATATATTTTAATAAAATATTTTAATAATAATTATGTTTAAATATGATTAAA
ATATTTATTATTATAATAATAATCTTATTAAAATATATAATTTAATAAAATTCTTAATAATTACC
AAAACAAATTTCTGGTAATTATT
Found at i:37807395 original size:16 final size:16
Alignment explanation
Indices: 37807358--37807399 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
37807348 TTAATCATAT
*
37807358 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
37807374 TT-AAATATATTATAA
1 TTAAAATATATTATAA
37807389 TTAAAATATAT
1 TTAAAATATAT
37807400 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:37807406 original size:14 final size:15
Alignment explanation
Indices: 37807367--37807408 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
37807357 TTTAAACATA
*
37807367 ATTATTATTAAATAT
1 ATTATAATTAAATAT
37807382 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
37807396 A-TATAATTTAATA
1 ATTATAATTAAATA
37807409 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:37814582 original size:30 final size:30
Alignment explanation
Indices: 37814548--37814608 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
37814538 TCCTTAACTC
37814548 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
37814578 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
37814608 A
1 A
37814609 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:37828063 original size:40 final size:40
Alignment explanation
Indices: 37827752--37828056 Score: 470
Period size: 40 Copynumber: 7.6 Consensus size: 40
37827742 CATTTGAATG
* * * * *
37827752 ATATCCAGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGA-T
*
37827792 TTATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
37827832 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
37827872 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
37827912 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
*
37827952 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTT-ACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGA-T
* * *
37827992 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
* *
37828032 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
37828057 ATTGTGCTTG
Statistics
Matches: 249, Mismatches: 13, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
39 1 0.00
40 245 0.98
41 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
Found at i:37836324 original size:91 final size:91
Alignment explanation
Indices: 37836201--37836399 Score: 326
Period size: 91 Copynumber: 2.2 Consensus size: 91
37836191 AACCTTTTTC
* ** *
37836201 CATCACATAGTCTATACCAAAACCAATTCCATAGTATCAATCATATTCATACCATATAACATGGC
1 CATCAC-TAGCCTATACCAAAACCAACCCCATAGTATCAATCATATGCATACCATATAACATGGC
37836266 AAGAAATTCACATAACACATATCATAA
65 AAGAAATTCACATAACACATATCATAA
* *
37836293 CATCACTAGCCTATACCAAAACCAACCCCATAGTCTCAATCATATGCGTACCATATAACATGGCA
1 CATCACTAGCCTATACCAAAACCAACCCCATAGTATCAATCATATGCATACCATATAACATGGCA
37836358 AGAAATTCACATAACACATATCATAA
66 AGAAATTCACATAACACATATCATAA
*
37836384 CATCACTAGCCCATAC
1 CATCACTAGCCTATAC
37836400 ATGCCATATA
Statistics
Matches: 100, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
91 94 0.94
92 6 0.06
ACGTcount: A:0.42, C:0.28, G:0.07, T:0.24
Consensus pattern (91 bp):
CATCACTAGCCTATACCAAAACCAACCCCATAGTATCAATCATATGCATACCATATAACATGGCA
AGAAATTCACATAACACATATCATAA
Found at i:37836968 original size:42 final size:42
Alignment explanation
Indices: 37836866--37837033 Score: 139
Period size: 43 Copynumber: 4.0 Consensus size: 42
37836856 TTGTAAACTC
* * ** *
37836866 ATACAATGCCAATGTCCAAGAC-GTGGTCTTACATGTTATCAA
1 ATACGATGCCAATGTCCTAGACAGTGGTCTTACATGAAATC-T
* *
37836908 ATGTCGATGCCACTGTCCTAGACAG-GGTCTTACATGAAATCGT
1 AT-ACGATGCCAATGTCCTAGACAGTGGTCTTACATGAAATC-T
*
37836951 ATACGATGCCAATGTCCTAGACA-TGTTCTTACATGTAAATCT
1 ATACGATGCCAATGTCCTAGACAGTGGTCTTACATG-AAATCT
* * * *
37836993 CAAATCGATGCCAA-GTCCCAGA-TGTGGTCTTACACGAAATC
1 -ATA-CGATGCCAATGTCCTAGACAGTGGTCTTACATGAAATC
37837034 ACATACCGCA
Statistics
Matches: 103, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
42 37 0.36
43 56 0.54
44 10 0.10
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (42 bp):
ATACGATGCCAATGTCCTAGACAGTGGTCTTACATGAAATCT
Found at i:37838062 original size:42 final size:42
Alignment explanation
Indices: 37838016--37838099 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
37838006 GGACTTTCAG
* *
37838016 CTTTTAATTTTATAGCAATCAAGCATCTTTAATATATAGCAT
1 CTTTTAATTTCATAGCAATCAAGCATCTTTAACATATAGCAT
*
37838058 CTTTTAATTTCATAGCAATCGAGCATCTTTAACATATAGCAT
1 CTTTTAATTTCATAGCAATCAAGCATCTTTAACATATAGCAT
37838100 GCTACTTTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (42 bp):
CTTTTAATTTCATAGCAATCAAGCATCTTTAACATATAGCAT
Found at i:37843534 original size:25 final size:24
Alignment explanation
Indices: 37843497--37843553 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
37843487 TCCTATACAT
*
37843497 GTATGTTCATACGAGCTCTAAATCG
1 GTATGCTCATACGAGCTCTAAA-CG
* * *
37843522 GTATGCTCTTACGATCTGTAAACG
1 GTATGCTCATACGAGCTCTAAACG
*
37843546 GTAAGCTC
1 GTATGCTC
37843554 CTCTGAGCTG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (24 bp):
GTATGCTCATACGAGCTCTAAACG
Found at i:37843553 original size:24 final size:25
Alignment explanation
Indices: 37843506--37843553 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
37843496 TGTATGTTCA
*
37843506 TACGAGCTCTAAATCGGTATGCTCT
1 TACGAGCTCTAAATCGGTAAGCTCT
* *
37843531 TACGATCTGTAAA-CGGTAAGCTC
1 TACGAGCTCTAAATCGGTAAGCTC
37843554 CTCTGAGCTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (25 bp):
TACGAGCTCTAAATCGGTAAGCTCT
Found at i:37843586 original size:25 final size:25
Alignment explanation
Indices: 37843570--37843623 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
37843560 GCTGAGTGAT
*
37843570 GATAAGCTCATGCGAGCTGAGAATC
1 GATAAGCTCATACGAGCTGAGAATC
*
37843595 GTTAAGCTCATACGAGCTGA-AATC
1 GATAAGCTCATACGAGCTGAGAATC
37843619 GATAA
1 GATAA
37843624 CCCTAATGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (25 bp):
GATAAGCTCATACGAGCTGAGAATC
Found at i:37855636 original size:37 final size:38
Alignment explanation
Indices: 37855596--37856030 Score: 288
Period size: 37 Copynumber: 11.6 Consensus size: 38
37855586 AGTTAAATGT
*
37855596 TGAATG-TGCTCAAACGAGCAATACCTACTGATTATAT
1 TGAATGTTGCTCAAACGAGCAATACCTACTGATTATAC
* * *
37855633 TGAATG-TGCACAAATGAGCAATACCTACTAATTATAC
1 TGAATGTTGCTCAAACGAGCAATACCTACTGATTATAC
* *
37855670 T-ATATG-TGCTCAAACGAGCAATACCTATTGATTATGC
1 TGA-ATGTTGCTCAAACGAGCAATACCTACTGATTATAC
* * * * * *
37855707 TAAATG-TCCTCATACAAGCAATATCTACTGGTTATAC
1 TGAATGTTGCTCAAACGAGCAATACCTACTGATTATAC
*** * * * *
37855744 T-AAACATGCTCAAAAGAACAATGCCTACTGATTGTAC
1 TGAATGTTGCTCAAACGAGCAATACCTACTGATTATAC
* * * * *
37855781 TAAAAGTTGCTCAAATGAGCAATATCTACTGGTTATAC
1 TGAATGTTGCTCAAACGAGCAATACCTACTGATTATAC
* * * *
37855819 TGAACG-TGCTCAAAAGAGC-A-A-C--CTGAATATAT
1 TGAATGTTGCTCAAACGAGCAATACCTACTGATTATAC
* * *
37855851 TGAAAGTTTCTCAAACGAGCAATACCCACTGATTATAC
1 TGAATGTTGCTCAAACGAGCAATACCTACTGATTATAC
* * * * *
37855889 TAAATGTTTTCTCAAACGAGCTATATCC-ATTGGTTATAC
1 TGAATG-TTGCTCAAACGAGCAATA-CCTACTGATTATAC
* * * ** *
37855928 TAAATGCTTGCTCAGACAAGTGATATCC-ACTGATTTTAC
1 TGAATG-TTGCTCAAACGAGCAATA-CCTACTGATTATAC
* * *
37855967 TGAATGTTTGCTCAAATGAGCGATATCC-ATTGATTATAC
1 TGAATG-TTGCTCAAACGAGCAATA-CCTACTGATTATAC
37856006 TGAATGTTTGCTCAAACGAGCAATA
1 TGAATG-TTGCTCAAACGAGCAATA
37856031 TTCACTGATT
Statistics
Matches: 316, Mismatches: 70, Indels: 22
0.77 0.17 0.05
Matches are distributed among these distances:
32 12 0.04
33 11 0.03
34 2 0.01
35 2 0.01
36 5 0.02
37 127 0.40
38 45 0.14
39 110 0.35
40 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.30
Consensus pattern (38 bp):
TGAATGTTGCTCAAACGAGCAATACCTACTGATTATAC
Found at i:37856005 original size:78 final size:78
Alignment explanation
Indices: 37855876--37856019 Score: 216
Period size: 78 Copynumber: 1.8 Consensus size: 78
37855866 CGAGCAATAC
* * *
37855876 CCACTGATTATACTAAATGTTTTCTCAAACGAGCTATATCCATTGGTTATACTAAATGCTTGCTC
1 CCACTGATTATACTAAATGTTTGCTCAAACGAGCGATATCCATTGATTATACTAAATGCTTGCTC
37855941 AGACAAGTGATAT
66 AGACAAGTGATAT
* * * * *
37855954 CCACTGATTTTACTGAATGTTTGCTCAAATGAGCGATATCCATTGATTATACTGAATGTTTGCTC
1 CCACTGATTATACTAAATGTTTGCTCAAACGAGCGATATCCATTGATTATACTAAATGCTTGCTC
37856019 A
66 A
37856020 AACGAGCAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 58 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (78 bp):
CCACTGATTATACTAAATGTTTGCTCAAACGAGCGATATCCATTGATTATACTAAATGCTTGCTC
AGACAAGTGATAT
Found at i:37861311 original size:40 final size:40
Alignment explanation
Indices: 37861228--37861490 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
37861218 TTGAATGCTG
* * * * * *
37861228 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
37861268 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
37861308 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
37861348 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
37861388 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
37861428 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
37861467 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
37861491 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:37861510 original size:79 final size:80
Alignment explanation
Indices: 37861267--37861525 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
37861257 AAGTGAATAT
* * * * * *
37861267 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
37861331 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
37861347 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
37861412 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
37861427 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
37861491 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
37861506 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
37861526 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:37881764 original size:48 final size:47
Alignment explanation
Indices: 37881611--37881790 Score: 166
Period size: 48 Copynumber: 3.8 Consensus size: 47
37881601 TGATATGTGT
* * * * *
37881611 GCCAGTGTAAGACCATGTCTAGGACATAGCGTCGGCCACGATATGAGA
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAACATGA-A
* * * * *
37881659 GCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCATTGAGACAAG-A
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC-CTCA-ACATGAA
* *
37881707 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGACCTCAACATGTAA
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAACATG-AA
* * *
37881755 GCCAATGTAAGACTATGT-TTGGAACATGGCATCGGC
1 GCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGGC
37881791 TATTTACCCT
Statistics
Matches: 105, Mismatches: 22, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
46 4 0.04
47 5 0.05
48 93 0.89
50 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAACATGAA
Found at i:37881784 original size:96 final size:96
Alignment explanation
Indices: 37881614--37881790 Score: 239
Period size: 96 Copynumber: 1.8 Consensus size: 96
37881604 TATGTGTGCC
* * * * *
37881614 AGTGTAAGACCATGTCTAGGACATAGCGTCGGCCACGATATGAGAGCCAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTAGGACATAGCATCGACCACAACATGAGAGCCAATGTAAGACCATGTCT
* *
37881679 GGGATATGGCATCGGCATTGAGACAAGAGCT
66 GGAACATGGCATCGGCATTGAGACAAGAGCT
* * * *
37881710 AGTGTAAGACCATGTCTAGGACATGGCATCGACCTCAACATGTA-AGCCAATGTAAGACTATGTT
1 AGTGTAAGACCATGTCTAGGACATAGCATCGACCACAACATG-AGAGCCAATGTAAGACCATGTC
37881774 TGGAACATGGCATCGGC
65 TGGAACATGGCATCGGC
37881791 TATTTACCCT
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
96 68 0.99
97 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTAGGACATAGCATCGACCACAACATGAGAGCCAATGTAAGACCATGTCT
GGAACATGGCATCGGCATTGAGACAAGAGCT
Found at i:37898871 original size:24 final size:25
Alignment explanation
Indices: 37898844--37898895 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
37898834 GCCTAGCCTC
*
37898844 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
**
37898868 TTTTTGTAAACTAGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
37898893 TTT
1 TTT
37898896 GCACTTCCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (25 bp):
TTTTAATAAACTAGGGCAAAGCCCT
Found at i:37898954 original size:10 final size:10
Alignment explanation
Indices: 37898941--37898980 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
37898931 CATATATGAA
37898941 CATATCATGG
1 CATATCATGG
*
37898951 CATATCAGGTG
1 CATATCATG-G
37898962 CATATCATGG
1 CATATCATGG
37898972 CATATCATG
1 CATATCATG
37898981 TACAAAACAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (10 bp):
CATATCATGG
Found at i:37906532 original size:31 final size:31
Alignment explanation
Indices: 37906450--37906532 Score: 143
Period size: 30 Copynumber: 2.7 Consensus size: 31
37906440 TCAGTCTCAA
37906450 CATAT-ACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
*
37906480 CATATCACT-GGCCAAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
37906510 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
37906533 ACTGTAAACG
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
30 34 0.69
31 15 0.31
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.34
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATTATT
Found at i:37906787 original size:25 final size:24
Alignment explanation
Indices: 37906740--37906824 Score: 109
Period size: 25 Copynumber: 3.5 Consensus size: 24
37906730 CTGGAGGCCT
* *
37906740 AGCCTCTTTTAAT-AACTAGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
37906764 AGCCCGTTTTGATAAACTGGGGCAA
1 AGCCC-TTTTGATAAACTGGGGCAA
*
37906789 AGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTT-GATAAACTGGGGCAA
37906814 AGCCCTTTTGA
1 AGCCCTTTTGA
37906825 ACTTCCTCCA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
23 1 0.02
24 15 0.28
25 38 0.70
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:37906881 original size:10 final size:10
Alignment explanation
Indices: 37906868--37906907 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
37906858 CATATATGAA
37906868 CATATCATGG
1 CATATCATGG
*
37906878 CATATCAGGTG
1 CATATCATG-G
37906889 CATATCATGG
1 CATATCATGG
37906899 CATATCATG
1 CATATCATG
37906908 TACAAAACAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (10 bp):
CATATCATGG
Found at i:37914033 original size:14 final size:13
Alignment explanation
Indices: 37914013--37914044 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
37914003 AATATTAAAC
37914013 TTGTTCTTAATTA
1 TTGTTCTTAATTA
37914026 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
37914040 TTGTT
1 TTGTT
37914045 TTGATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:37925497 original size:27 final size:27
Alignment explanation
Indices: 37925449--37925543 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 27
37925439 GTAGGCTAAT
* *
37925449 ATTACTGAAATACCCCTATAGGGTAGA
1 ATTACTGAAATACCCTTGTAGGGTAGA
* * *
37925476 ATTACTGACATGCCCTTGTAGGATAGA
1 ATTACTGAAATACCCTTGTAGGGTAGA
* * *
37925503 ATTGCTGAAATACTCTTGTGGGGTAGA
1 ATTACTGAAATACCCTTGTAGGGTAGA
37925530 ATTACTGAAATACC
1 ATTACTGAAATACC
37925544 ATTGGTTTAA
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (27 bp):
ATTACTGAAATACCCTTGTAGGGTAGA
Found at i:37925574 original size:26 final size:27
Alignment explanation
Indices: 37925529--37925596 Score: 86
Period size: 26 Copynumber: 2.6 Consensus size: 27
37925519 TGTGGGGTAG
37925529 AATTACTGAAATACCATTGGTTTA-AA
1 AATTACTGAAATACCATTGGTTTACAA
*
37925555 AAGTTACTG-AATACCCTTGGTTTACAA
1 AA-TTACTGAAATACCATTGGTTTACAA
**
37925582 AATTACCAAAATACC
1 AATTACTGAAATACC
37925597 CTCAATTAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 20 0.56
27 16 0.44
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACTGAAATACCATTGGTTTACAA
Found at i:37925597 original size:27 final size:27
Alignment explanation
Indices: 37925564--37925922 Score: 251
Period size: 27 Copynumber: 13.3 Consensus size: 27
37925554 AAAGTTACTG
* **
37925564 AATACCCTTGGTTTACAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
** * *
37925591 AATACCCTCAATTAGAAAAATTACC-A
1 AATACCCTTGATTTGTAAAATTACCAA
* *
37925617 AATACCCCTGGTTTGTAAAATT-CCAA
1 AATACCCTTGATTTGTAAAATTACCAA
* * *
37925643 AATACCCCTGGTTTGTAAAATTAACAA
1 AATACCCTTGATTTGTAAAATTACCAA
* * * **
37925670 AATACCCCTAATTTGTGAAATTACTGA
1 AATACCCTTGATTTGTAAAATTACCAA
* * * *
37925697 AATACCCTCGACTTGTAAAATTATCGA
1 AATACCCTTGATTTGTAAAATTACCAA
*
37925724 AATACCCTCGATTTGTAAAATTA-CAA
1 AATACCCTTGATTTGTAAAATTACCAA
* * *
37925750 CAATACCCCTAATTTAG-AAAATTACAAA
1 -AATACCCTTGATTT-GTAAAATTACCAA
* *
37925778 AATACCCTTGATTTGGAAAATTACAAA
1 AATACCCTTGATTTGTAAAATTACCAA
** **
37925805 AATACCCTTGATTTACAAAATTATAAA
1 AATACCCTTGATTTGTAAAATTACCAA
**
37925832 AATACCCTTGACTTTCAAAAATTA-CAGA
1 AATACCCTTGA-TTTGTAAAATTACCA-A
** * * ** *
37925860 AATACTATTGGTTTGCAAAATTTTCGA
1 AATACCCTTGATTTGTAAAATTACCAA
* * *
37925887 AATACCCTTGAGTTGTAGATTTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
*
37925914 AACACCCTT
1 AATACCCTT
37925923 TTAGGGTGAA
Statistics
Matches: 265, Mismatches: 58, Indels: 18
0.78 0.17 0.05
Matches are distributed among these distances:
25 2 0.01
26 43 0.16
27 197 0.74
28 23 0.09
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AATACCCTTGATTTGTAAAATTACCAA
Found at i:37926206 original size:41 final size:41
Alignment explanation
Indices: 37926161--37926283 Score: 201
Period size: 41 Copynumber: 3.0 Consensus size: 41
37926151 GGAGGAAGAA
*
37926161 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACTG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* * *
37926202 ATTGAGGATCACATGGTTGCTCGACGATCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
*
37926243 ATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
37926284 GTGGCTTTTA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.25
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:37926716 original size:22 final size:22
Alignment explanation
Indices: 37926683--37926740 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
37926673 TCTGGCACAT
*
37926683 TGCTATGATGTTTACGACTATG
1 TGCTATCATGTTTACGACTATG
* **
37926705 TGCTATCCTGTTTACGGTTATG
1 TGCTATCATGTTTACGACTATG
*
37926727 TGCTGTCATGTTTA
1 TGCTATCATGTTTA
37926741 TGGCCTTGGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.17, C:0.16, G:0.22, T:0.45
Consensus pattern (22 bp):
TGCTATCATGTTTACGACTATG
Found at i:37932687 original size:21 final size:21
Alignment explanation
Indices: 37932661--37932709 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
37932651 AAAATATGTT
37932661 TTGAAAATA-GAGTATCAGAAC
1 TTGAAAATAGGA-TATCAGAAC
*
37932682 TTGAAAATAGGATCTCAGAAC
1 TTGAAAATAGGATATCAGAAC
37932703 TTGAAAA
1 TTGAAAA
37932710 CAGGGTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.47, C:0.10, G:0.18, T:0.24
Consensus pattern (21 bp):
TTGAAAATAGGATATCAGAAC
Found at i:37934589 original size:40 final size:40
Alignment explanation
Indices: 37934544--37934640 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
37934534 ACTATGTTCG
* *
37934544 GCACTAAGTGTGCGATTTGAAATAGTTTTGGTTATA-AATA
1 GCACTAAGTGTGCGATATGAAATAGTTTTGGCTATACAA-A
* * * * *
37934584 GCACTAAGTGTGCAAAATGGAATAGTTTTGGCTATACGAG
1 GCACTAAGTGTGCGATATGAAATAGTTTTGGCTATACAAA
37934624 GCACTAAGTGTGCGATA
1 GCACTAAGTGTGCGATA
37934641 CCGAGATAGC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
40 46 0.98
41 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (40 bp):
GCACTAAGTGTGCGATATGAAATAGTTTTGGCTATACAAA
Found at i:37937798 original size:28 final size:28
Alignment explanation
Indices: 37937733--37937831 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
37937723 CATGAGATTG
* * *
37937733 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
37937762 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
37937790 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
37937818 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
37937832 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:37947329 original size:28 final size:28
Alignment explanation
Indices: 37947264--37947362 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
37947254 CATGAGATTG
* * *
37947264 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
37947293 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
37947321 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
37947349 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
37947363 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:37954234 original size:55 final size:55
Alignment explanation
Indices: 37954150--37954276 Score: 146
Period size: 55 Copynumber: 2.3 Consensus size: 55
37954140 CCAGTCTTAA
* * *
37954150 TTTAACAGGTTCGACCACGGGTGTTCCACATGGGCATGTCAAATGCCCGTGTTGT
1 TTTAACAGGTTCGACCACGGGTCTTCCACACGGGCATGTCAAACGCCCGTGTTGT
* * * * **
37954205 TTTAACAGGTTTGCCCATGGTTCTTCCACACGGGCATGTCGCACGCCCGTGTTGT
1 TTTAACAGGTTCGACCACGGGTCTTCCACACGGGCATGTCAAACGCCCGTGTTGT
** *
37954260 TTTGGCAGGCTCGACCA
1 TTTAACAGGTTCGACCA
37954277 TAACCATATA
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (55 bp):
TTTAACAGGTTCGACCACGGGTCTTCCACACGGGCATGTCAAACGCCCGTGTTGT
Found at i:37960791 original size:30 final size:30
Alignment explanation
Indices: 37960757--37960818 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
37960747 TCAATTAAGG
*
37960757 TATGAGTTTTGTTCGGTTTTTGATGGTTAT
1 TATGAGTTTTGTTCGGTTTTTGATGATTAT
37960787 TATGAGTTTTGTTCGGTTTTTGATGATTAT
1 TATGAGTTTTGTTCGGTTTTTGATGATTAT
37960817 TA
1 TA
37960819 CGTTTTTGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.03, G:0.24, T:0.56
Consensus pattern (30 bp):
TATGAGTTTTGTTCGGTTTTTGATGATTAT
Found at i:37966415 original size:30 final size:30
Alignment explanation
Indices: 37966381--37966442 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
37966371 TCAATTAAGG
*
37966381 TATGAGTTTTGTTCGGTTTTTGATGGTTAT
1 TATGAGTTTTGTTCGGTTTTTGATGATTAT
37966411 TATGAGTTTTGTTCGGTTTTTGATGATTAT
1 TATGAGTTTTGTTCGGTTTTTGATGATTAT
37966441 TA
1 TA
37966443 CGTTTTTGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.03, G:0.24, T:0.56
Consensus pattern (30 bp):
TATGAGTTTTGTTCGGTTTTTGATGATTAT
Found at i:37971705 original size:6 final size:6
Alignment explanation
Indices: 37971696--37971727 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
37971686 CTAAAAATTA
37971696 AAAAAT AAAAAT --AAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
37971728 GTAGTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 4 0.17
6 20 0.83
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:37971717 original size:16 final size:16
Alignment explanation
Indices: 37971696--37971726 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
37971686 CTAAAAATTA
37971696 AAAAATAAAAATAAAT
1 AAAAATAAAAATAAAT
37971712 AAAAATAAAAATAAA
1 AAAAATAAAAATAAA
37971727 AGTAGTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAAATAAAAATAAAT
Found at i:37976970 original size:18 final size:19
Alignment explanation
Indices: 37976947--37976985 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
37976937 ATTTGTGATG
*
37976947 TTAATATG-TTTAATTTAA
1 TTAATATGCTTAAATTTAA
37976965 TTAATATGCTTAAATTTAA
1 TTAATATGCTTAAATTTAA
37976984 TT
1 TT
37976986 CGTGTTACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (19 bp):
TTAATATGCTTAAATTTAA
Found at i:37978835 original size:50 final size:50
Alignment explanation
Indices: 37978760--37978860 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
37978750 ATTAAGTATC
37978760 TAATAAGCAAGAAAGATGCTAAGCAGAGGTTGATTAGGAGGATACTTTTG
1 TAATAAGCAAGAAAGATGCTAAGCAGAGGTTGATTAGGAGGATACTTTTG
*
37978810 TAATAAGCAAGAAAGATGCTAAGCAGAGGTTGATTAGGTGGATACTTTTG
1 TAATAAGCAAGAAAGATGCTAAGCAGAGGTTGATTAGGAGGATACTTTTG
37978860 T
1 T
37978861 TGCAGGAGTT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.28
Consensus pattern (50 bp):
TAATAAGCAAGAAAGATGCTAAGCAGAGGTTGATTAGGAGGATACTTTTG
Found at i:37985937 original size:41 final size:41
Alignment explanation
Indices: 37985872--37986113 Score: 376
Period size: 41 Copynumber: 5.9 Consensus size: 41
37985862 TTTAAATAAA
* * *
37985872 TTCACTGGCACTTAGTCTGTTAGGCTTATAACCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAG
*
37985913 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAG
* **
37985954 ATCACCGGCACTTAGCCTGCTAGGCTTATAACCCAATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAG
37985995 TTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAG
* * * *
37986036 ATCACTGGCACTTAGCATGCTAGGCTTATAACCCGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAG
*
37986077 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGAT
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGAT
37986114 AATCTCAAAT
Statistics
Matches: 181, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 181 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAG
Found at i:37985982 original size:82 final size:82
Alignment explanation
Indices: 37985873--37986113 Score: 419
Period size: 82 Copynumber: 2.9 Consensus size: 82
37985863 TTAAATAAAT
* * *
37985873 TCACTGGCACTTAGTCTGTTAGGCTTATAACCTGATTCAGTTCACCGGCACTTAGCCTGCTAGGC
1 TCACTGGCACTTAGCCTGCTAGGCTTATAACCCGATTCAGTTCACCGGCACTTAGCCTGCTAGGC
37985938 TTATAGCCTGATTCAGA
66 TTATAGCCTGATTCAGA
* *
37985955 TCACCGGCACTTAGCCTGCTAGGCTTATAACCCAATTCAGTTCACCGGCACTTAGCCTGCTAGGC
1 TCACTGGCACTTAGCCTGCTAGGCTTATAACCCGATTCAGTTCACCGGCACTTAGCCTGCTAGGC
*
37986020 TTATAACCTGATTCAGA
66 TTATAGCCTGATTCAGA
*
37986037 TCACTGGCACTTAGCATGCTAGGCTTATAACCCGATTCAGTTCACCGGCACTTAGCCTGCTAGGC
1 TCACTGGCACTTAGCCTGCTAGGCTTATAACCCGATTCAGTTCACCGGCACTTAGCCTGCTAGGC
37986102 TTATAGCCTGAT
66 TTATAGCCTGAT
37986114 AATCTCAAAT
Statistics
Matches: 149, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 149 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (82 bp):
TCACTGGCACTTAGCCTGCTAGGCTTATAACCCGATTCAGTTCACCGGCACTTAGCCTGCTAGGC
TTATAGCCTGATTCAGA
Found at i:37986472 original size:128 final size:128
Alignment explanation
Indices: 37986232--37986728 Score: 896
Period size: 128 Copynumber: 3.9 Consensus size: 128
37986222 ACAAACATTC
* *
37986232 GAACCACATATG--TAT-AATTTACA-ACATTAAAATTCAGTTCAAAGAA-TTTGTAACCTATAT
1 GAACCACATATGTATATAAAATT-CATACATT-AAATTCAGCTC-AAGAACTTTGTAACCTATAT
* *
37986292 TCGAACCACATATGTATGTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATT
63 TTGAACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATT
37986357 T
128 T
37986358 GAACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTTG
1 GAACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTTG
37986423 AACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTT
66 AACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTT
37986486 GAACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTTG
1 GAACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTTG
37986551 AACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTT
66 AACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTT
37986614 GAACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTTG
1 GAACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTTG
37986679 AACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTT
66 AACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTT
37986729 AAATATATAT
Statistics
Matches: 362, Mismatches: 4, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
126 12 0.03
127 5 0.01
128 336 0.93
129 9 0.02
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (128 bp):
GAACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTTG
AACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTT
Found at i:37986588 original size:192 final size:192
Alignment explanation
Indices: 37986232--37986728 Score: 896
Period size: 192 Copynumber: 2.6 Consensus size: 192
37986222 ACAAACATTC
* *
37986232 GAACCACATATG--TAT-AATTTACA-ACATTAAAATTCAGTTCAAAGAA-TTTGTAACCTATAT
1 GAACCACATATGTATATAAAATT-CATACATT-AAATTCAGCTC-AAGAACTTTGTAACCTATAT
* *
37986292 TCGAACCACATATGTATGTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATT
63 TTGAACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATT
37986357 TGAACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTT
128 TGAACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTT
37986422 GAACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTTG
1 GAACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTTG
37986487 AACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTTGA
66 AACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTTGA
37986552 ACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTT
131 ACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTT
37986614 GAACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTTG
1 GAACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTTG
37986679 AACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTT
66 AACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTT
37986729 AAATATATAT
Statistics
Matches: 298, Mismatches: 4, Indels: 8
0.96 0.01 0.03
Matches are distributed among these distances:
190 12 0.04
191 5 0.02
192 272 0.91
193 9 0.03
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (192 bp):
GAACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTTG
AACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTTGA
ACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTT
Found at i:37990994 original size:15 final size:15
Alignment explanation
Indices: 37990974--37991007 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
37990964 AAAAAATGCC
37990974 ACATATACTTG-TCAT
1 ACATATA-TTGATCAT
37990989 ACATATATTGATCAT
1 ACATATATTGATCAT
37991004 ACAT
1 ACAT
37991008 GATTGAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.38
Consensus pattern (15 bp):
ACATATATTGATCAT
Found at i:38004155 original size:10 final size:10
Alignment explanation
Indices: 38004140--38004166 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
38004130 ATTTATTAAC
38004140 AAACACATTT
1 AAACACATTT
38004150 AAACACATTT
1 AAACACATTT
38004160 AAACACA
1 AAACACA
38004167 CTAAACTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (10 bp):
AAACACATTT
Found at i:38004233 original size:74 final size:74
Alignment explanation
Indices: 38004107--38004255 Score: 253
Period size: 74 Copynumber: 2.0 Consensus size: 74
38004097 TAACTGATTC
* *
38004107 CAACCAAATAGTCACCTACAAGCATTTATTAACAAACACATTTAAACACATTTAAACACACTAAA
1 CAACCAAATAGTCAACTACAAGCATTTATTAACAAACACATTAAAACACATTTAAACACACTAAA
38004172 CTTAATAAG
66 CTTAATAAG
* * *
38004181 CAACTAAATAGTCAACTGCAAGCATTTATTAACAAACACATTAAAACACATTTTAACACACTAAA
1 CAACCAAATAGTCAACTACAAGCATTTATTAACAAACACATTAAAACACATTTAAACACACTAAA
38004246 CTTAATAAG
66 CTTAATAAG
38004255 C
1 C
38004256 TTAATTAATA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.48, C:0.22, G:0.05, T:0.25
Consensus pattern (74 bp):
CAACCAAATAGTCAACTACAAGCATTTATTAACAAACACATTAAAACACATTTAAACACACTAAA
CTTAATAAG
Found at i:38004405 original size:34 final size:34
Alignment explanation
Indices: 38004323--38004398 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 34
38004313 TAACAATAAG
38004323 TTATTCCAGCAATTAAATAAACTAAGATAAGCAT
1 TTATTCCAGCAATTAAATAAACTAAGATAAGCAT
* *
38004357 TTATTCCAGCAATTAAATAAATTAATATAAGCAT
1 TTATTCCAGCAATTAAATAAACTAAGATAAGCAT
38004391 TTATTCCA
1 TTATTCCA
38004399 AAAATTATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (34 bp):
TTATTCCAGCAATTAAATAAACTAAGATAAGCAT
Found at i:38005639 original size:34 final size:34
Alignment explanation
Indices: 38005594--38005702 Score: 130
Period size: 34 Copynumber: 3.2 Consensus size: 34
38005584 CATGTCGTTA
*
38005594 GCTACTAAATTGATTTGATTAAAGCATATTATTT
1 GCTACTGAATTGATTTGATTAAAGCATATTATTT
* *
38005628 GCTACTGAATTGATCTGATTACAGCATATTATTT
1 GCTACTGAATTGATTTGATTAAAGCATATTATTT
* * * * *
38005662 GGTACTTAATTAATTTG-TTATAAGTATATTAATT
1 GCTACTGAATTGATTTGATTA-AAGCATATTATTT
38005696 GCTACTG
1 GCTACTG
38005703 TTTCAATATG
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
33 3 0.05
34 59 0.95
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (34 bp):
GCTACTGAATTGATTTGATTAAAGCATATTATTT
Found at i:38005753 original size:34 final size:34
Alignment explanation
Indices: 38005615--38005733 Score: 100
Period size: 34 Copynumber: 3.5 Consensus size: 34
38005605 GATTTGATTA
* * *
38005615 AAGCATATTATTTGCTACTGAATT-GATCTGATTA-
1 AAGCATATTAATTGCTACTG-ATTCAATATG-TTAT
* * * * *
38005649 CAGCATATTATTTGGTACTTAATT-AATTTGTTAT
1 AAGCATATTAATTGCTAC-TGATTCAATATGTTAT
* *
38005683 AAGTATATTAATTGCTACTGTTTCAATATGTTAT
1 AAGCATATTAATTGCTACTGATTCAATATGTTAT
38005717 AAGCATATTAATTGCTA
1 AAGCATATTAATTGCTA
38005734 TCGCATTGAT
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
33 6 0.09
34 62 0.90
35 1 0.01
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.45
Consensus pattern (34 bp):
AAGCATATTAATTGCTACTGATTCAATATGTTAT
Found at i:38005854 original size:21 final size:22
Alignment explanation
Indices: 38005830--38005883 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
38005820 CCGTTGATTG
38005830 GTTTATCCACA-AATTTGAGCA
1 GTTTATCCACATAATTTGAGCA
** **
38005851 GTTTATCTGCATCGTTTGAGCA
1 GTTTATCCACATAATTTGAGCA
38005873 GTTTATCCACA
1 GTTTATCCACA
38005884 CTGTTGAGTG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (22 bp):
GTTTATCCACATAATTTGAGCA
Found at i:38005961 original size:62 final size:63
Alignment explanation
Indices: 38005888--38006033 Score: 161
Period size: 62 Copynumber: 2.3 Consensus size: 63
38005878 TCCACACTGT
* * *
38005888 TGAGTGATTTATCCACACCATATTAACAAATTTTATCTGCAAACTCGTTGTGCATTCACAA-C
1 TGAGTGGTTTATCCACACCATATTAACAAATTTTATCTGCAAACCCATTGTGCATTCACAACC
* * *** * ** * *
38005950 TGAGTGGTTTATCTATATTGTATTAGCAGCTTTTATCTGCAGACCCATTGTGCATTCATAACC
1 TGAGTGGTTTATCCACACCATATTAACAAATTTTATCTGCAAACCCATTGTGCATTCACAACC
38006013 T-AGTGGTTTATCCACACCATA
1 TGAGTGGTTTATCCACACCATA
38006034 CAAGTACCTT
Statistics
Matches: 65, Mismatches: 18, Indels: 2
0.76 0.21 0.02
Matches are distributed among these distances:
62 63 0.97
63 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.36
Consensus pattern (63 bp):
TGAGTGGTTTATCCACACCATATTAACAAATTTTATCTGCAAACCCATTGTGCATTCACAACC
Found at i:38007958 original size:11 final size:11
Alignment explanation
Indices: 38007940--38008000 Score: 70
Period size: 11 Copynumber: 5.5 Consensus size: 11
38007930 TCAATTAATT
38007940 TCTCAATTTCC
1 TCTCAATTTCC
* *
38007951 TATCAATTTGC
1 TCTCAATTTCC
*
38007962 TCTCAATTTGC
1 TCTCAATTTCC
38007973 TCTCAATTTCC
1 TCTCAATTTCC
*
38007984 TTCTAAATTT-C
1 -TCTCAATTTCC
38007995 TCTCAA
1 TCTCAA
38008001 ATCCATATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
10 5 0.12
11 30 0.70
12 8 0.19
ACGTcount: A:0.23, C:0.28, G:0.03, T:0.46
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:38008052 original size:11 final size:12
Alignment explanation
Indices: 38008017--38008053 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
38008007 ATTTAATTTT
38008017 AATTTGCTCTT-
1 AATTTGCTCTTA
38008028 AATTTGCTCTTA
1 AATTTGCTCTTA
38008040 AATTT-CTCTTA
1 AATTTGCTCTTA
38008051 AAT
1 AAT
38008054 CCCTATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 20 0.80
12 5 0.20
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.51
Consensus pattern (12 bp):
AATTTGCTCTTA
Found at i:38009219 original size:7 final size:7
Alignment explanation
Indices: 38009207--38009232 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
38009197 TAGTCGATTG
38009207 GTATTTA
1 GTATTTA
38009214 GTATTTA
1 GTATTTA
38009221 GTATTTA
1 GTATTTA
38009228 GTATT
1 GTATT
38009233 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:38010424 original size:7 final size:7
Alignment explanation
Indices: 38010404--38010443 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
38010394 ATTTATTAAA
38010404 AATTTAT
1 AATTTAT
38010411 AAATTTAT
1 -AATTTAT
38010419 AATTTAT
1 AATTTAT
38010426 AA-TTA-
1 AATTTAT
38010431 AATTTAT
1 AATTTAT
38010438 AATTTA
1 AATTTA
38010444 ATTGACAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 2 0.07
6 6 0.20
7 15 0.50
8 7 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
AATTTAT
Found at i:38010499 original size:21 final size:21
Alignment explanation
Indices: 38010473--38010689 Score: 357
Period size: 21 Copynumber: 10.4 Consensus size: 21
38010463 AACTCTAACC
*
38010473 CCCTAACACTTAACTTAAAAA
1 CCCTAACCCTTAACTTAAAAA
*
38010494 CTCTAACCCTTAACTTAAAAA
1 CCCTAACCCTTAACTTAAAAA
38010515 CCCTAAACCCTTAACTTAAAAA
1 CCCT-AACCCTTAACTTAAAAA
*
38010537 CCCTAACACTTAACTTAAAAA
1 CCCTAACCCTTAACTTAAAAA
*
38010558 CTCTAACCCTTAACTTAAAAA
1 CCCTAACCCTTAACTTAAAAA
38010579 -CCTAACCCTTAACTTAAAAA
1 CCCTAACCCTTAACTTAAAAA
38010599 CCCTAACCCTTAACTTAAAAA
1 CCCTAACCCTTAACTTAAAAA
38010620 CCCTAA-CCTTAACTTAAAAA
1 CCCTAACCCTTAACTTAAAAA
* *
38010640 CCTTAACGCTTAACTTAAAAA
1 CCCTAACCCTTAACTTAAAAA
38010661 CCCTAACCCTTAACTTAAAAA
1 CCCTAACCCTTAACTTAAAAA
38010682 CCCTAACC
1 CCCTAACC
38010690 GTAACCCTTA
Statistics
Matches: 182, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
20 38 0.21
21 123 0.68
22 21 0.12
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (21 bp):
CCCTAACCCTTAACTTAAAAA
Found at i:38010595 original size:41 final size:42
Alignment explanation
Indices: 38010473--38010689 Score: 357
Period size: 41 Copynumber: 5.2 Consensus size: 42
38010463 AACTCTAACC
* *
38010473 CCCTAACACTTAACTTAAAAACTCTAACCCTTAACTTAAAAA
1 CCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAA
*
38010515 CCCTAAACCCTTAACTTAAAAACCCTAACACTTAACTTAAAAA
1 CCCT-AACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAA
*
38010558 CTCTAACCCTTAACTTAAAAA-CCTAACCCTTAACTTAAAAA
1 CCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAA
38010599 CCCTAACCCTTAACTTAAAAACCCTAA-CCTTAACTTAAAAA
1 CCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAA
* *
38010640 CCTTAACGCTTAACTTAAAAACCCTAACCCTTAACTTAAAAA
1 CCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAA
38010682 CCCTAACC
1 CCCTAACC
38010690 GTAACCCTTA
Statistics
Matches: 162, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
41 78 0.48
42 46 0.28
43 38 0.23
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (42 bp):
CCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAA
Found at i:38010617 original size:62 final size:62
Alignment explanation
Indices: 38010473--38010689 Score: 355
Period size: 62 Copynumber: 3.5 Consensus size: 62
38010463 AACTCTAACC
*
38010473 CCCTAACACTTAACTTAAAAACTCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAA
1 CCCTAACACTTAACTTAAAAACCCTAACCCTTAACTTAAAAA-CCT-AACCCTTAACTTAAAAA
*
38010537 CCCTAACACTTAACTTAAAAACTCTAACCCTTAACTTAAAAACCTAACCCTTAACTTAAAAA
1 CCCTAACACTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCTAACCCTTAACTTAAAAA
* *
38010599 CCCTAACCCTTAACTTAAAAACCCTAA-CCTTAACTTAAAAACCTTAACGCTTAACTTAAAAA
1 CCCTAACACTTAACTTAAAAACCCTAACCCTTAACTTAAAAACC-TAACCCTTAACTTAAAAA
*
38010661 CCCTAACCCTTAACTTAAAAACCCTAACC
1 CCCTAACACTTAACTTAAAAACCCTAACC
38010690 GTAACCCTTA
Statistics
Matches: 148, Mismatches: 3, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
61 16 0.11
62 86 0.58
63 4 0.03
64 42 0.28
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (62 bp):
CCCTAACACTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCTAACCCTTAACTTAAAAA
Found at i:38010668 original size:27 final size:25
Alignment explanation
Indices: 38010476--38010720 Score: 141
Period size: 21 Copynumber: 11.1 Consensus size: 25
38010466 TCTAACCCCC
*
38010476 TAACACTTAACTTAAAAACTCTAAC-
1 TAAC-CTTAACTTAAAAACCCTAACT
38010501 ---CCTTAACTTAAAAACCCTAA--
1 TAACCTTAACTTAAAAACCCTAACT
*
38010521 -ACCCTTAACTTAAAAACCCTAAC-
1 TAACCTTAACTTAAAAACCCTAACT
*
38010544 --A-CTTAACTTAAAAACTCTAAC-
1 TAACCTTAACTTAAAAACCCTAACT
38010565 ---CCTTAACTTAAAAA-CCTAAC-
1 TAACCTTAACTTAAAAACCCTAACT
38010585 ---CCTTAACTTAAAAACCCTAAC-
1 TAACCTTAACTTAAAAACCCTAACT
38010606 ---CCTTAACTTAAAAA-CC---C-
1 TAACCTTAACTTAAAAACCCTAACT
*
38010623 TAACCTTAACTTAAAAACCTTAAC-
1 TAACCTTAACTTAAAAACCCTAACT
*
38010647 --G-CTTAACTTAAAAACCCTAAC-
1 TAACCTTAACTTAAAAACCCTAACT
*
38010668 ---CCTTAACTTAAAAACCCTAACCG
1 TAACCTTAACTTAAAAACCCTAA-CT
38010691 TAACCCTTAACTTAAAAACCCTTAACT
1 TAA-CCTTAACTTAAAAACCC-TAACT
38010718 TAA
1 TAA
38010721 AAACACTAAA
Statistics
Matches: 192, Mismatches: 8, Indels: 38
0.81 0.03 0.16
Matches are distributed among these distances:
17 1 0.01
20 35 0.18
21 109 0.57
22 22 0.11
24 1 0.01
27 21 0.11
28 3 0.02
ACGTcount: A:0.44, C:0.29, G:0.01, T:0.26
Consensus pattern (25 bp):
TAACCTTAACTTAAAAACCCTAACT
Found at i:38010685 original size:15 final size:15
Alignment explanation
Indices: 38010665--38010724 Score: 74
Period size: 15 Copynumber: 4.2 Consensus size: 15
38010655 TAAAAACCCT
38010665 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
*
38010680 AACCC-TAACCGT---
1 AACCCTTAA-CTTAAA
38010692 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
38010707 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
38010722 AAC
1 AAC
38010725 ACTAAAACCC
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
12 7 0.18
13 3 0.08
14 3 0.08
15 25 0.66
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (15 bp):
AACCCTTAACTTAAA
Found at i:38010926 original size:102 final size:102
Alignment explanation
Indices: 38010780--38010973 Score: 343
Period size: 102 Copynumber: 1.9 Consensus size: 102
38010770 CTAATATGAT
38010780 ATAATTTGATAAATTTACTAACAATTAATACAATTAAAAATTAATAATTTGACTAACAAAATGTT
1 ATAATTTGATAAATTTACTAACAATTAATACAATTAAAAATTAATAATTTGACTAACAAAATGTT
38010845 AGATTTTACAAAATATTTTGATTGGTACTAACGATTA
66 AGATTTTACAAAATATTTTGATTGGTACTAACGATTA
* * *
38010882 ATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTTACTAACAAAATGTT
1 ATAATTTGATAAATTTACTAACAATTAATACAATTAAAAATTAATAATTTGACTAACAAAATGTT
* *
38010947 AGATTTTCCAAAATGTTTTGATTGGTA
66 AGATTTTACAAAATATTTTGATTGGTA
38010974 GAAAAAAATA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 87 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (102 bp):
ATAATTTGATAAATTTACTAACAATTAATACAATTAAAAATTAATAATTTGACTAACAAAATGTT
AGATTTTACAAAATATTTTGATTGGTACTAACGATTA
Found at i:38010938 original size:19 final size:19
Alignment explanation
Indices: 38010890--38010940 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 19
38010880 TAATAATTTG
38010890 ATAATTTTACTAACAATTA
1 ATAATTTTACTAACAATTA
*
38010909 ATACA----ATTAACAATTA
1 ATA-ATTTTACTAACAATTA
38010925 ATAATTTTACTAACAA
1 ATAATTTTACTAACAA
38010941 AATGTTAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
15 1 0.04
16 13 0.52
19 10 0.40
20 1 0.04
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (19 bp):
ATAATTTTACTAACAATTA
Found at i:38014251 original size:124 final size:123
Alignment explanation
Indices: 38013982--38014422 Score: 711
Period size: 125 Copynumber: 3.5 Consensus size: 123
38013972 CCCAAACATG
* *
38013982 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* * *
38014047 TTGAAGCGTTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTCAAGAC
66 TTGAAGC-ATTTTTATACTATTT-TTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* *
38014107 CTACTGTAGCAAAAGTGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
*
38014172 TTGAAGCATTTTTATACTATTTGTTCAGAAACATCAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCATTTTTATACTATTT-TTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
*
38014231 CTACTATAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* *
38014296 CTGAAGCATTTTTTATACTATTTTCTCAAAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCA-TTTTTATACTATTTT-TCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* * *
38014356 CTATTGTAGCAAAAGCGTGTCCACGTGGGCGCGATTTCAGAAATTCTTCTAATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
38014421 TT
66 TT
38014423 TGATTTTATC
Statistics
Matches: 296, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
124 117 0.40
125 179 0.60
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (123 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
TTGAAGCATTTTTATACTATTTTTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
Found at i:38014592 original size:21 final size:22
Alignment explanation
Indices: 38014554--38014594 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
38014544 CTAAAAATCC
* *
38014554 TAAAAACCTTAAACCCTAACCT
1 TAAAAACCTCAAAACCTAACCT
38014576 TAAAAACC-CAAAACCTAAC
1 TAAAAACCTCAAAACCTAAC
38014595 GTGGGAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.51, C:0.32, G:0.00, T:0.17
Consensus pattern (22 bp):
TAAAAACCTCAAAACCTAACCT
Found at i:38015676 original size:9 final size:9
Alignment explanation
Indices: 38015662--38015703 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
38015652 TTACAATTAC
38015662 AATTATAAT
1 AATTATAAT
*
38015671 AATTATCAT
1 AATTATAAT
38015680 AATTA-ATAT
1 AATTATA-AT
*
38015689 AATTAGAAT
1 AATTATAAT
38015698 AATTAT
1 AATTAT
38015704 GATTTGAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
9 27 0.96
10 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (9 bp):
AATTATAAT
Found at i:38016920 original size:22 final size:21
Alignment explanation
Indices: 38016888--38017138 Score: 151
Period size: 20 Copynumber: 12.6 Consensus size: 21
38016878 TTTTTTACTT
38016888 CCTCA-AATTTTTTGATATTC
1 CCTCATAATTTTTTGATATTC
*
38016908 CCTCATCATTTTTTGATATTC
1 CCTCATAATTTTTTGATATTC
38016929 CCTCATAATTTTTTG-TA-TC
1 CCTCATAATTTTTTGATATTC
* *
38016948 CTCTCATAATTTTTAG-TATTT
1 C-CTCATAATTTTTTGATATTC
* * * *
38016969 TCTCAT-A-TTTCTGGTATTA
1 CCTCATAATTTTTTGATATTC
** *
38016988 CAACATATTTTTTTG-TACTT-
1 CCTCATAATTTTTTGATA-TTC
*
38017008 CCTCAT-ATTTTTTTATATTC
1 CCTCATAATTTTTTGATATTC
* **
38017028 CTTCATAATTTTTTTTTACTT-
1 CCTCATAATTTTTTGATA-TTC
* *
38017049 TCTCATAAATTTTTG-TATTC
1 CCTCATAATTTTTTGATATTC
* *
38017069 TCTCATAA-TTTTTGGTATTC
1 CCTCATAATTTTTTGATATTC
* *
38017089 CCT-A-AA-TTTTTGGTATTTT
1 CCTCATAATTTTTTGATA-TTC
38017108 CC-CATAATTTTTTG-TATTC
1 CCTCATAATTTTTTGATATTC
*
38017127 TCTCAT-ATTTTT
1 CCTCATAATTTTT
38017139 ATATTTTTTT
Statistics
Matches: 186, Mismatches: 27, Indels: 37
0.74 0.11 0.15
Matches are distributed among these distances:
18 15 0.08
19 42 0.23
20 64 0.34
21 63 0.34
22 2 0.01
ACGTcount: A:0.22, C:0.17, G:0.05, T:0.56
Consensus pattern (21 bp):
CCTCATAATTTTTTGATATTC
Found at i:38017028 original size:120 final size:119
Alignment explanation
Indices: 38016875--38017138 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 119
38016865 CTTTTCTTTT
* * * *
38016875 TTTTTTTTTACTTCCTCAAATTTTTTGATATTCCCTCATCATTTTTTGATA-TTCCCTCATAATT
1 TTTTTTTGTACTTCCTCATATTTTTTGATATTCCCTCATAATTTTTTGATACTT-CCTCATAAAT
** *
38016939 TTTTGTATCCTCTCATAATTTTTAGTATTTTCTCATATTTCTGGTA-TTACAACATA
65 TTTTGTATCCTCTCATAATTTTTAGTATTCCCT-AAATTTCTGGTATTTAC-ACATA
* * ** *
38016995 TTTTTTTGTACTTCCTCATATTTTTTTATATTCCTTCATAATTTTTTTTTACTTTCTCATAAATT
1 TTTTTTTGTACTTCCTCATATTTTTTGATATTCCCTCATAATTTTTTGATACTTCCTCATAAATT
* * * * *
38017060 TTTGTATTCTCTCATAATTTTTGGTATTCCCTAAATTTTTGGTATTTTCCCATA
66 TTTGTATCCTCTCATAATTTTTAGTATTCCCTAAATTTCTGGTATTTACACATA
*
38017114 ATTTTTTGTA-TTCTCTCATATTTTT
1 TTTTTTTGTACTTC-CTCATATTTTT
38017139 ATATTTTTTT
Statistics
Matches: 123, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
118 3 0.02
119 34 0.28
120 84 0.68
121 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.05, T:0.58
Consensus pattern (119 bp):
TTTTTTTGTACTTCCTCATATTTTTTGATATTCCCTCATAATTTTTTGATACTTCCTCATAAATT
TTTGTATCCTCTCATAATTTTTAGTATTCCCTAAATTTCTGGTATTTACACATA
Found at i:38017105 original size:38 final size:37
Alignment explanation
Indices: 38017054--38017126 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 37
38017044 TACTTTCTCA
*
38017054 TAAATTTTTGTATTCTCTCATAATTTTTGGTATTCCC
1 TAAATTTTTGTATTCTCCCATAATTTTTGGTATTCCC
* *
38017091 TAAATTTTTGGTATTTTCCCATAATTTTTTGTATTC
1 TAAATTTTT-GTATTCTCCCATAATTTTTGGTATTC
38017127 TCTCATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 9 0.28
38 23 0.72
ACGTcount: A:0.22, C:0.14, G:0.08, T:0.56
Consensus pattern (37 bp):
TAAATTTTTGTATTCTCCCATAATTTTTGGTATTCCC
Found at i:38017126 original size:58 final size:57
Alignment explanation
Indices: 38016932--38017143 Score: 180
Period size: 58 Copynumber: 3.6 Consensus size: 57
38016922 GATATTCCCT
* ** * * *
38016932 CATAATTTTTTGTATCCTCTCATAATTTTTAGTATTTTCTCATATTTCTGGTATTACAA
1 CATAATTTTTTGTATTCTCTCATAATTTTTAGTATTCCCT-AAATTTTTGGTATTTC-A
* * * ** *
38016991 CATATTTTTTTGTACTTC-CTCATATTTTTTTA-TATTCCTTCATAATTTTTTTTTACTTTCT
1 CATAATTTTTTGTA-TTCTCTCATA-ATTTTTAGTATTCC--C-TAAATTTTTGGTA-TTTCA
* * *
38017052 CATAAATTTTTGTATTCTCTCATAATTTTTGGTATTCCCTAAATTTTTGGTATTTTCC
1 CATAATTTTTTGTATTCTCTCATAATTTTTAGTATTCCCTAAATTTTTGGTA-TTTCA
38017110 CATAATTTTTTGTATTCTCTCAT-ATTTTTA-TATT
1 CATAATTTTTTGTATTCTCTCATAATTTTTAGTATT
38017144 TTTTTGTAAT
Statistics
Matches: 122, Mismatches: 23, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
56 4 0.03
57 6 0.05
58 36 0.30
59 24 0.20
60 16 0.13
61 32 0.26
62 4 0.03
ACGTcount: A:0.22, C:0.15, G:0.05, T:0.58
Consensus pattern (57 bp):
CATAATTTTTTGTATTCTCTCATAATTTTTAGTATTCCCTAAATTTTTGGTATTTCA
Found at i:38017149 original size:28 final size:30
Alignment explanation
Indices: 38017115--38017174 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
38017105 TTTCCCATAA
38017115 TTTTTTGT-ATT-CTCTCATATTTTT-ATAT
1 TTTTTTGTAATTCCTCTCA-ATTTTTGATAT
38017143 TTTTTTGTAATTCCTCTCAATTTTTGATAT
1 TTTTTTGTAATTCCTCTCAATTTTTGATAT
38017173 TT
1 TT
38017175 GCTCATAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 8 0.28
29 9 0.31
30 12 0.41
ACGTcount: A:0.18, C:0.12, G:0.05, T:0.65
Consensus pattern (30 bp):
TTTTTTGTAATTCCTCTCAATTTTTGATAT
Found at i:38017166 original size:68 final size:67
Alignment explanation
Indices: 38017077--38017207 Score: 158
Period size: 68 Copynumber: 1.9 Consensus size: 67
38017067 TCTCTCATAA
* * * *
38017077 TTTTTGGTATTCCCTAAATTTTTGGTATTTTCCCATAATTTTTTGTAT-TCTCTCAT-ATTTTTA
1 TTTTTGGTATTCCCTAAATTTTTGATATTTGCCCATAACTGTTTGTATCTC-CTCATAATTTTTA
38017140 TAT
65 TAT
* * *
38017143 TTTTTTGTAATTCCTCTCAATTTTTGATATTTGCTCATAACTGTTTGTATCTCCTCATAATTTTT
1 TTTTTGGT-ATTCC-CTAAATTTTTGATATTTGCCCATAACTGTTTGTATCTCCTCATAATTTTT
38017208 TTTATATTTC
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
66 7 0.13
67 5 0.09
68 34 0.63
69 8 0.15
ACGTcount: A:0.20, C:0.15, G:0.08, T:0.57
Consensus pattern (67 bp):
TTTTTGGTATTCCCTAAATTTTTGATATTTGCCCATAACTGTTTGTATCTCCTCATAATTTTTAT
AT
Found at i:38017922 original size:21 final size:20
Alignment explanation
Indices: 38017871--38017923 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
38017861 TTAGTTCTCT
38017871 CTCATAATTTTTGGCACTTC
1 CTCATAATTTTTGGCACTTC
* * *
38017891 CTCGTATTTTTTGGTA-TATC
1 CTCATAATTTTTGGCACT-TC
38017911 ACTCATAATTTTT
1 -CTCATAATTTTT
38017924 AAACATTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 1 0.04
20 15 0.58
21 10 0.38
ACGTcount: A:0.21, C:0.19, G:0.09, T:0.51
Consensus pattern (20 bp):
CTCATAATTTTTGGCACTTC
Found at i:38020947 original size:16 final size:15
Alignment explanation
Indices: 38020928--38020973 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
38020918 CTATAATCTA
*
38020928 AACAGAATTTAATAGT
1 AACA-AATTTAATAAT
38020944 AACACAATTTAATAAT
1 AACA-AATTTAATAAT
38020960 AACAAATTTTAATA
1 AACAAA-TTTAATA
38020974 CTTGAGTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 2 0.07
16 25 0.93
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (15 bp):
AACAAATTTAATAAT
Found at i:38027454 original size:110 final size:111
Alignment explanation
Indices: 38027324--38027536 Score: 261
Period size: 110 Copynumber: 1.9 Consensus size: 111
38027314 ATTTTTATAA
* * * *
38027324 TATATTTAAGTTATTAATTGAGTT-ATTATTACGAGTTAATTCAATATTAATTTAGCT-AAAAAT
1 TATATTTAAGTTACTAATTGAATTGA-TATTACGAGTAAATTCAATATCAATTTAGCTGAAAAAT
*
38027387 AACTAAAATAT-TATTTTATATACAAAGTAAATTATATTAATGTGTAT
65 AACTAAAATATAT-TTTTATATACAAAGCAAATTATATTAATGTGTAT
* * * *** *
38027434 TATATTTACGTTGCTAATTGAATTGATGTTACGAGTAAATTGTGTATCAATTTAGCTGAGAAATA
1 TATATTTAAGTTACTAATTGAATTGATATTACGAGTAAATTCAATATCAATTTAGCTGAAAAATA
* *
38027499 ATTAAAATATATTTTTATATACAAAGCGAATTATATTA
66 ACTAAAATATATTTTTATATACAAAGCAAATTATATTA
38027537 TCTATAATTC
Statistics
Matches: 86, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
110 45 0.52
111 40 0.47
112 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.11, T:0.43
Consensus pattern (111 bp):
TATATTTAAGTTACTAATTGAATTGATATTACGAGTAAATTCAATATCAATTTAGCTGAAAAATA
ACTAAAATATATTTTTATATACAAAGCAAATTATATTAATGTGTAT
Found at i:38027643 original size:84 final size:84
Alignment explanation
Indices: 38027540--38027695 Score: 312
Period size: 84 Copynumber: 1.9 Consensus size: 84
38027530 TATATTATCT
38027540 ATAATTCTATACTATATTTAAATTATTAACTGAGTTAGTGTCACGAGTCAATCAAACACTAATTC
1 ATAATTCTATACTATATTTAAATTATTAACTGAGTTAGTGTCACGAGTCAATCAAACACTAATTC
38027605 AATTGAACTAACTCAGTTA
66 AATTGAACTAACTCAGTTA
38027624 ATAATTCTATACTATATTTAAATTATTAACTGAGTTAGTGTCACGAGTCAATCAAACACTAATTC
1 ATAATTCTATACTATATTTAAATTATTAACTGAGTTAGTGTCACGAGTCAATCAAACACTAATTC
38027689 AATTGAA
66 AATTGAA
38027696 AAACGATTAA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 72 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.36
Consensus pattern (84 bp):
ATAATTCTATACTATATTTAAATTATTAACTGAGTTAGTGTCACGAGTCAATCAAACACTAATTC
AATTGAACTAACTCAGTTA
Found at i:38039808 original size:22 final size:22
Alignment explanation
Indices: 38039780--38039830 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
38039770 ATTGTAATTG
38039780 AAAAAAAAATATT-CGAAGTATA
1 AAAAAAAAATATTACGAAGT-TA
** *
38039802 AAAAAAATTTATTATGAAGTTA
1 AAAAAAAAATATTACGAAGTTA
38039824 AAAAAAA
1 AAAAAAA
38039831 GTCTTGAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (22 bp):
AAAAAAAAATATTACGAAGTTA
Found at i:38040840 original size:20 final size:20
Alignment explanation
Indices: 38040774--38040860 Score: 56
Period size: 21 Copynumber: 4.3 Consensus size: 20
38040764 TAAATGAAAT
38040774 TGAGAG-AAGAAAAA-AGGAAA
1 TGAGAGAAAGAAAAAGA-G-AA
*
38040794 TGAGAGAAAAAGTAAAAGAG-A
1 TGAGAG--AAAGAAAAAGAGAA
*
38040815 T-CGAGAAAGAAAAAGAGAA
1 TGAGAGAAAGAAAAAGAGAA
* * *
38040834 TGAGAGAGAGCAAAAAGGGAT
1 TGAGAGAAAG-AAAAAGAGAA
38040855 TGAGAG
1 TGAGAG
38040861 CAAAAAAGCG
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
18 11 0.21
19 2 0.04
20 15 0.28
21 16 0.30
23 8 0.15
24 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.32, T:0.08
Consensus pattern (20 bp):
TGAGAGAAAGAAAAAGAGAA
Found at i:38047001 original size:21 final size:21
Alignment explanation
Indices: 38046945--38047001 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
38046935 ATATATTTTG
* *
38046945 AAAAATCAAAATTTTCTTTAG
1 AAAAATCAAACTTTTCTTTAA
*
38046966 AAAAATCACTACTTTTC-TTAA
1 AAAAATCA-AACTTTTCTTTAA
38046987 AAAAATCAAAGCTTT
1 AAAAATCAAA-CTTT
38047002 ATTTCGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 1 0.03
21 23 0.77
22 6 0.20
ACGTcount: A:0.47, C:0.14, G:0.04, T:0.35
Consensus pattern (21 bp):
AAAAATCAAACTTTTCTTTAA
Found at i:38047301 original size:160 final size:153
Alignment explanation
Indices: 38046956--38047357 Score: 524
Period size: 160 Copynumber: 2.6 Consensus size: 153
38046946 AAAATCAAAA
* *
38046956 TTTT-CTTTAGAAAAATCACTACTTTTCTTAAAAAAATCAAAGC-TTTATTTCGAAATAGTTGAA
1 TTTTCCTTTAAAAAAATCACTACTTTTCTT--AAAGATCAAAGCTTTTATTTCGAAATAGTTGAA
* * * * **
38047019 AAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTTGCTTGAAAATTACTAATTTTTTTTATTTT
64 AAAAATCAAAACTTTATTTTAAAAATTTAAACATTTCCTTGAAAATGACTAATAATTTTTATTTT
38047084 TAAAAATCTAAACTTTCTCTTTTTT
129 TAAAAATCTAAACTTTCTCTTTTTT
* * *
38047109 TTTTCTTTTAAAAAAATCACTAATTTTCTTAAAGATCAAAGCTTTTATTTCGAAATAGTAGAAAA
1 TTTTCCTTTAAAAAAATCACTACTTTTCTTAAAGATCAAAGCTTTTATTTCGAAATAGTTGAAAA
* * *
38047174 AAATTAAAATTTTATTTTAAAAATTTAAA-ATTTCCTTTAAAATGACTAATAAAACAAATTTTTA
66 AAATCAAAACTTTATTTTAAAAATTTAAACATTTCCTTGAAAATGACTAAT------AATTTTTA
38047238 TTTTTAAAAATCTAAACTTTCTCTTCTTTTT
125 TTTTTAAAAATCTAAACTTTCTC-T-TTTTT
*
38047269 TTTTCCTTTAAAAAAATCACTACTTTTCTTAAAGATCAAAACTTTTATTTCGAAATAGTTGAAAA
1 TTTTCCTTTAAAAAAATCACTACTTTTCTTAAAGATCAAAGCTTTTATTTCGAAATAGTTG--AA
*
38047334 AAAAATCAAAACTTT-TTTAAAAAA
64 AAAAATCAAAACTTTATTTTAAAAA
38047358 GTCTAAACTT
Statistics
Matches: 216, Mismatches: 21, Indels: 16
0.85 0.08 0.06
Matches are distributed among these distances:
152 28 0.13
153 51 0.24
154 22 0.10
158 29 0.13
159 1 0.00
160 62 0.29
161 8 0.04
162 15 0.07
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.43
Consensus pattern (153 bp):
TTTTCCTTTAAAAAAATCACTACTTTTCTTAAAGATCAAAGCTTTTATTTCGAAATAGTTGAAAA
AAATCAAAACTTTATTTTAAAAATTTAAACATTTCCTTGAAAATGACTAATAATTTTTATTTTTA
AAAATCTAAACTTTCTCTTTTTT
Found at i:38047403 original size:107 final size:107
Alignment explanation
Indices: 38047238--38047667 Score: 767
Period size: 107 Copynumber: 4.0 Consensus size: 107
38047228 CAAATTTTTA
* *
38047238 TTTTT-AAAAA-TCTAAACTTTCTCTTCTTTTTTTTTCCTTTAAAAAAATCACTACTTTTCTTAA
1 TTTTTAAAAAAGTCTAAAC-TT-TC-TCTTTTTTTTT-CTTTTAAAAAATCACTATTTTTCTTAA
*
38047301 AGATCAAAACTTTTATTTCGAAATAGTTGAAAAAAAAATCAAAACT
62 AAATCAAAACTTTTATTTCGAAATAGTTGAAAAAAAAATCAAAACT
38047347 TTTTTAAAAAAGTCTAAACTTTCTCTTTTTTTTTCTTTTAAAAAATCACTATTTTTCTTAAAAAT
1 TTTTTAAAAAAGTCTAAACTTTCTCTTTTTTTTTCTTTTAAAAAATCACTATTTTTCTTAAAAAT
38047412 CAAAACTTTTATTTCGAAATAGTTGAAAAAAAAATCAAAACT
66 CAAAACTTTTATTTCGAAATAGTTGAAAAAAAAATCAAAACT
38047454 TTTTTAAAAAAGTCTAAACTTTCTCTTTTTTTTTCTTTTAAAAAATCACTATTTTTCTTAAAAAT
1 TTTTTAAAAAAGTCTAAACTTTCTCTTTTTTTTTCTTTTAAAAAATCACTATTTTTCTTAAAAAT
38047519 CAAAACTTTTATTTCGAAATAGTTGAAAAAAAAATCAAAACT
66 CAAAACTTTTATTTCGAAATAGTTGAAAAAAAAATCAAAACT
38047561 TTTTTAAAAAAGTCTAAACTTTCTCTTTTTTTTTCTTTTAAAAAATCACTATTTTTCTTAAAAAT
1 TTTTTAAAAAAGTCTAAACTTTCTCTTTTTTTTTCTTTTAAAAAATCACTATTTTTCTTAAAAAT
*
38047626 CAAAACTTTTATTTCGAAATAGTTG-AAAAAAAATCTAAACT
66 CAAAACTTTTATTTCGAAATAGTTGAAAAAAAAATCAAAACT
38047667 T
1 T
38047668 AGTTTTCAAA
Statistics
Matches: 315, Mismatches: 4, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
106 16 0.05
107 267 0.85
108 11 0.03
109 7 0.02
110 7 0.02
111 7 0.02
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.43
Consensus pattern (107 bp):
TTTTTAAAAAAGTCTAAACTTTCTCTTTTTTTTTCTTTTAAAAAATCACTATTTTTCTTAAAAAT
CAAAACTTTTATTTCGAAATAGTTGAAAAAAAAATCAAAACT
Found at i:38048605 original size:42 final size:42
Alignment explanation
Indices: 38048558--38048694 Score: 195
Period size: 42 Copynumber: 3.3 Consensus size: 42
38048548 CTTCGTGTAC
* *
38048558 AATGCAATGAAAAGTAAATGGACCTCCACACCTGAGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
* *
38048600 AATGCAATGAAAAGTAAATGAACATCCACACTTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
* **
38048642 AATGCAATGAAATA-TAAATGGACCTACATGCTTGGGCCTCTA
1 AATGCAATGAAA-AGTAAATGGACCTCCACACTTGGGCCTCTA
38048684 AATGCAATGAA
1 AATGCAATGAA
38048695 TGCTTTCCTT
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 84 0.99
43 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
Found at i:38059156 original size:13 final size:13
Alignment explanation
Indices: 38059138--38059164 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38059128 AATCTATTCA
38059138 CATACGTCTTCGG
1 CATACGTCTTCGG
38059151 CATACGTCTTCGG
1 CATACGTCTTCGG
38059164 C
1 C
38059165 TTGCAGAGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.22, T:0.30
Consensus pattern (13 bp):
CATACGTCTTCGG
Found at i:38064653 original size:50 final size:50
Alignment explanation
Indices: 38064521--38064655 Score: 146
Period size: 50 Copynumber: 2.7 Consensus size: 50
38064511 CATTATTGAG
* * * * * *
38064521 GTTATGAGAGGTCCCACGTAAGATCATGTGTAGGACATGGCGTTGGCACC
1 GTTATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACC
** *
38064571 GAGATGAGAGGTCCC-TCGTAAGACTATGTCTGGGACATGGCATGGGCACC
1 GTTATGAGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCATGGGCACC
** *
38064621 GTTATGAGAACTCCCATGTAAGACCATATCTGGGA
1 GTTATGAGAGGTCCCATGTAAGACCATGTCTGGGA
38064656 TATGACATTG
Statistics
Matches: 68, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
50 67 0.99
51 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (50 bp):
GTTATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACC
Found at i:38064944 original size:20 final size:20
Alignment explanation
Indices: 38064919--38064957 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
38064909 TAAGTTATTT
38064919 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
38064939 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
38064958 GAAGAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:38066526 original size:12 final size:12
Alignment explanation
Indices: 38066509--38066533 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38066499 AAAAAAAATC
38066509 TTCATCCTTCTA
1 TTCATCCTTCTA
38066521 TTCATCCTTCTA
1 TTCATCCTTCTA
38066533 T
1 T
38066534 GTTGGCCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.52
Consensus pattern (12 bp):
TTCATCCTTCTA
Found at i:38066811 original size:27 final size:26
Alignment explanation
Indices: 38066750--38066812 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 26
38066740 TTAAAATTAC
38066750 TAAAAAAATATTTTTTTTTATTTTTA
1 TAAAAAAATATTTTTTTTTATTTTTA
*
38066776 -AAAATAAAAACTTTTTCTTTT-TTTTTA
1 TAAAA-AAATA-TTTTT-TTTTATTTTTA
38066803 TTAAAAAAAT
1 -TAAAAAAAT
38066813 CACTACTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
25 4 0.13
26 4 0.13
27 11 0.37
28 7 0.23
29 4 0.13
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (26 bp):
TAAAAAAATATTTTTTTTTATTTTTA
Found at i:38066933 original size:157 final size:158
Alignment explanation
Indices: 38066639--38067052 Score: 558
Period size: 156 Copynumber: 2.6 Consensus size: 158
38066629 AAAATTAAAG
* * *
38066639 TTTTATTTTAAAAAAATAACTACTTTTCTTAAA-AATCAAAAC-TTTATTTCGAAATAGTTG-AA
1 TTTTCTTTTAAAAAAATCACTACTTTTCTTAAAGAATCAAAGCTTTTATTTCGAAATAGTTGAAA
* * * * *
38066701 AAAGATCAAAACTTTATTTTAAAAATTTAAACTTTTCCTTTAAAATTACTAAAAAAATATTTTTT
66 AAAAATCAAAACTTTGTTTTAAAAATTTAAAC-TTTCCTTTAAAATGACTAAAAAAACA-TTATT
* *
38066766 TTTATTTTTAAAAAT-AAAAACTTTTTCTTT
129 TTTATTTTTAAAAATCAAAAA-TTTATATTT
38066796 TTTT-TTATTAAAAAAATCACTACTTTTCTTAAAGAAT-AAAGCTTTTATTTCGAAATAGTTGAA
1 TTTTCTT-TTAAAAAAATCACTACTTTTCTTAAAGAATCAAAGCTTTTATTTCGAAATAGTTG-A
* * *
38066859 AAAAAAATCAAAATTTTGTTTTAAAAATTTATACTTTCCTTTAAAATGATTAAAAAAACA-TATT
64 AAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACTAAAAAAACATTATT
*
38066923 TTTATTTTTAAAAATCTAAAATTTATATTT
129 TTTATTTTTAAAAATCAAAAATTTATATTT
*
38066953 TTTTCTTTT-AAAAAATCACTACTTTTCTTAATG-ATCAAAGCTTTTATTTCGAAATAGTTGAGA
1 TTTTCTTTTAAAAAAATCACTACTTTTCTTAAAGAATCAAAGCTTTTATTTCGAAATAGTTGA-A
* *
38067016 AAAAAATCAAAAGTTTGTTTTAAAAATCTAAACTTTC
65 AAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTC
38067053 TCTTGTTTTT
Statistics
Matches: 231, Mismatches: 17, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
155 3 0.01
156 84 0.36
157 64 0.28
158 27 0.12
159 23 0.10
160 30 0.13
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.44
Consensus pattern (158 bp):
TTTTCTTTTAAAAAAATCACTACTTTTCTTAAAGAATCAAAGCTTTTATTTCGAAATAGTTGAAA
AAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACTAAAAAAACATTATTTT
TATTTTTAAAAATCAAAAATTTATATTT
Found at i:38067094 original size:112 final size:113
Alignment explanation
Indices: 38066956--38067165 Score: 325
Period size: 112 Copynumber: 1.9 Consensus size: 113
38066946 TATATTTTTT
* * * *
38066956 TCTTTTAAAAAATCACTACTTTTCTTAATGATCAAAGCTTTTATTTCGAAATAGTTG-AGAAAAA
1 TCTTTTAAAAAATCACTACTTGTCTTAAAGATCAAAGCTTTTATTTCAAAATAGTTGAAAAAAAA
*
38067020 AATCAAAA-GTTTGTTTTAAAAATCTAAACTTTCTCTTGTTTTTTTCCG
66 AATCAAAACG-TTGTTTTAAAAATATAAACTTTCTCTTGTTTTTTTCCG
*
38067068 TCTTTTAAAAAATCATTACTTGTCTTAAAGATCAAAGCTTTTATTTCAAAATAGTTGAAAAAAAA
1 TCTTTTAAAAAATCACTACTTGTCTTAAAGATCAAAGCTTTTATTTCAAAATAGTTGAAAAAAAA
* *
38067133 AATCAAAACGTTGTTTTCAAAATATAAATTTTC
66 AATCAAAACGTTGTTTTAAAAATATAAACTTTC
38067166 CTTTAAAATG
Statistics
Matches: 88, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
112 53 0.60
113 34 0.39
114 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.40
Consensus pattern (113 bp):
TCTTTTAAAAAATCACTACTTGTCTTAAAGATCAAAGCTTTTATTTCAAAATAGTTGAAAAAAAA
AATCAAAACGTTGTTTTAAAAATATAAACTTTCTCTTGTTTTTTTCCG
Found at i:38073118 original size:9 final size:9
Alignment explanation
Indices: 38073106--38073165 Score: 57
Period size: 9 Copynumber: 6.4 Consensus size: 9
38073096 TTAAAAACAT
38073106 GAGAGTTGA
1 GAGAGTTGA
*
38073115 GAGACTTGA
1 GAGAGTTGA
*
38073124 GAGGGTTTGA
1 GAGAG-TTGA
*
38073134 GAGAATTTGA
1 GAG-AGTTGA
* *
38073144 GAGAATCGA
1 GAGAGTTGA
38073153 GAGAGTTGA
1 GAGAGTTGA
38073162 GAGA
1 GAGA
38073166 AAGATGTGAA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
9 26 0.65
10 14 0.35
ACGTcount: A:0.35, C:0.03, G:0.40, T:0.22
Consensus pattern (9 bp):
GAGAGTTGA
Found at i:38077993 original size:275 final size:275
Alignment explanation
Indices: 38077496--38078319 Score: 1603
Period size: 275 Copynumber: 3.0 Consensus size: 275
38077486 ACGAGTGAAA
*
38077496 GATTTAGATATGCTGAAAACTACATTTAGAACTAGGTACGAACACTATGAATTTCTTATGATGCC
1 GATTTGGATATGCTGAAAACTACATTTAGAACTAGGTACGAACACTATGAATTTCTTATGATGCC
38077561 ATTTGGTTTAACTAATGCACCTGCGATATTTATGGATTTTATGATATTCTAATATATTCCCGAGA
66 ATTTGGTTTAACTAATGCACCTGCGATATTTATGGATTTTATGATATTCTAATATATTCCCGAGA
38077626 TGAATCTGAGCATGCTGAGCAATTGAGAATTGTTTTACAAACTCCGCAAGATAAACAACTGTTTG
131 TGAATCTGAGCATGCTGAGCAATTGAGAATTGTTTTACAAACTCCGCAAGATAAACAACTGTTTG
38077691 CTAAGTTTAGCAAATGCGAGTTCTAGCTCTGAGAAGTTGATTTTCTGGGACATATAGTGTAGGCT
196 CTAAGTTTAGCAAATGCGAGTTCTAGCTCTGAGAAGTTGATTTTCTGGGACATATAGTGTAGGCT
38077756 GAAGGCATCAGAGTC
261 GAAGGCATCAGAGTC
38077771 GATTTGGATATGCTGAAAACTACATTTAGAACTAGGTACGAACACTATGAATTTCTTATGATGCC
1 GATTTGGATATGCTGAAAACTACATTTAGAACTAGGTACGAACACTATGAATTTCTTATGATGCC
38077836 ATTTGGTTTAACTAATGCACCTGCGATATTTATGGATTTTATGATATTCTAATATATTCCCGAGA
66 ATTTGGTTTAACTAATGCACCTGCGATATTTATGGATTTTATGATATTCTAATATATTCCCGAGA
38077901 TGAATCTGAGCATGCTGAGCAATTGAGAATTGTTTTACAAACTCCGCAAGATAAACAACTGTTTG
131 TGAATCTGAGCATGCTGAGCAATTGAGAATTGTTTTACAAACTCCGCAAGATAAACAACTGTTTG
38077966 CTAAGTTTAGCAAATGCGAGTTCTAGCTCTGAGAAGTTGATTTTCTGGGACATATAGTGTAGGCT
196 CTAAGTTTAGCAAATGCGAGTTCTAGCTCTGAGAAGTTGATTTTCTGGGACATATAGTGTAGGCT
38078031 GAAGGCATCAGAGTC
261 GAAGGCATCAGAGTC
38078046 GATTTGGATATGCTGAAAACTACATTTAGAACTAGGTACGAACACTATGAATTTCTTATGATGCC
1 GATTTGGATATGCTGAAAACTACATTTAGAACTAGGTACGAACACTATGAATTTCTTATGATGCC
38078111 ATTTGGTTTAACTAATGCACCTGCGATATTTATGGATTTTATGATATTCTAATATATTCCCGAGA
66 ATTTGGTTTAACTAATGCACCTGCGATATTTATGGATTTTATGATATTCTAATATATTCCCGAGA
* *
38078176 TGAATCTGAGCATGCTGAACAATTGAGAATTGTTTTACAAACTCCACAAGATAAACAACTGTTTG
131 TGAATCTGAGCATGCTGAGCAATTGAGAATTGTTTTACAAACTCCGCAAGATAAACAACTGTTTG
*
38078241 CTAAGTTTAGCAAATGCGAGTTCTAGCTCTGAGAAGTCGATTTTCTGGGACATATAGTGTAGGCT
196 CTAAGTTTAGCAAATGCGAGTTCTAGCTCTGAGAAGTTGATTTTCTGGGACATATAGTGTAGGCT
*
38078306 AAAGGCATCAGAGT
261 GAAGGCATCAGAGT
38078320 TGATCCAAGT
Statistics
Matches: 544, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
275 544 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.33
Consensus pattern (275 bp):
GATTTGGATATGCTGAAAACTACATTTAGAACTAGGTACGAACACTATGAATTTCTTATGATGCC
ATTTGGTTTAACTAATGCACCTGCGATATTTATGGATTTTATGATATTCTAATATATTCCCGAGA
TGAATCTGAGCATGCTGAGCAATTGAGAATTGTTTTACAAACTCCGCAAGATAAACAACTGTTTG
CTAAGTTTAGCAAATGCGAGTTCTAGCTCTGAGAAGTTGATTTTCTGGGACATATAGTGTAGGCT
GAAGGCATCAGAGTC
Found at i:38082229 original size:19 final size:19
Alignment explanation
Indices: 38082202--38082294 Score: 86
Period size: 19 Copynumber: 5.1 Consensus size: 19
38082192 TGATTTAAGC
*
38082202 AACTAAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
38082221 AACTTAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
* * * * *
38082240 -A-GTAATTTATTCCAG--C
1 AACTTAATTAACT-AAGATG
38082256 AACTTAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
*
38082275 AACTCAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
38082294 A
1 A
38082295 GTAATTTATT
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
17 10 0.18
18 10 0.18
19 37 0.65
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (19 bp):
AACTTAATTAACTAAGATG
Found at i:38082265 original size:54 final size:54
Alignment explanation
Indices: 38082199--38082317 Score: 211
Period size: 54 Copynumber: 2.2 Consensus size: 54
38082189 TAATGATTTA
*
38082199 AGCAACTAAATTAACTAAGATGAACTTAATTAACTAAGATGAGTAATTTATTCC
1 AGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAATTTATTCC
*
38082253 AGCAACTTAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAATTTATTCC
1 AGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAATTTATTCC
*
38082307 AGTAACTAAAT
1 AGCAACTAAAT
38082318 ACTTATTCCA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.31
Consensus pattern (54 bp):
AGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAATTTATTCC
Found at i:38083250 original size:18 final size:18
Alignment explanation
Indices: 38083215--38083277 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
38083205 ACAAATCGAT
*
38083215 TTCTTTTCTCTTAATTTTTC
1 TTCTTTTCT-TT-CTTTTTC
38083235 TTCTTTTCTTTCTTTTTC
1 TTCTTTTCTTTCTTTTTC
*
38083253 -T-TTTTCATTTTCATTTTC
1 TTCTTTTC--TTTCTTTTTC
38083271 TTCTTTT
1 TTCTTTT
38083278 TCTCTCATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 5 0.14
17 1 0.03
18 15 0.41
19 3 0.08
20 13 0.35
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (18 bp):
TTCTTTTCTTTCTTTTTC
Found at i:38085415 original size:12 final size:11
Alignment explanation
Indices: 38085396--38085426 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
38085386 TTTGTGCACG
38085396 AATTTTTTTTA
1 AATTTTTTTTA
*
38085407 AATTTTTTTTG
1 AATTTTTTTTA
38085418 AATTTTTTT
1 AATTTTTTT
38085427 ACAAACCTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (11 bp):
AATTTTTTTTA
Found at i:38086744 original size:19 final size:19
Alignment explanation
Indices: 38086717--38086755 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
38086707 TGATTTAAAC
38086717 AACTAAATTAACTAAGATG
1 AACTAAATTAACTAAGATG
*
38086736 AACTTAATTAACTAAGATG
1 AACTAAATTAACTAAGATG
38086755 A
1 A
38086756 GTAATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.28
Consensus pattern (19 bp):
AACTAAATTAACTAAGATG
Found at i:38093378 original size:50 final size:50
Alignment explanation
Indices: 38093256--38093439 Score: 205
Period size: 50 Copynumber: 3.7 Consensus size: 50
38093246 TAATAACATA
* *
38093256 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCATGTAC--TG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGGTG
* * *
38093305 CCAATGCCATATCCCAGATATGGTTTTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTG
* * ** *
38093355 CCCATGCCATGTCCCAGACATGGTCTTA-AGAGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACA-TGGGAGTTCTCATATCGGTG
* *
38093405 CCAACGCCATGTCCCAGATATGGTCTTACATGGGA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
38093440 CCTCTTTACC
Statistics
Matches: 113, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
48 4 0.04
49 37 0.33
50 71 0.63
51 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTG
Found at i:38095552 original size:209 final size:210
Alignment explanation
Indices: 38095192--38095611 Score: 691
Period size: 209 Copynumber: 2.0 Consensus size: 210
38095182 TAGCTACACC
*
38095192 TACATGCCCTATGATCAGGGATGTTGATCCCAGAGAGCAAAGCATGCCCATCCATCGGATCCGTG
1 TACATGCCCTATGATCAGGGATGTTGATCCCAGAGAGCAAAGCACGCCCATCCATCGGATCCGTG
* *
38095257 TGAAGAAAATAGTGCTTAACAGAAGGAACATACGGAGAGTTGACGAAACGACTTAGGGGATGACA
66 TGAAGAAAATAGTGCTTAACAGAAGGAACATACCGAGAGTTGACGAAACGACTTAGGGGACGACA
38095322 CGTCCAATGCATAGTTACATGCTTTTACATTTATTATTTA-TTTTTTATGCGACATGTAAAATAT
131 CGTCCAATGCATAGTTACATGCTTTTACATTTATTATTTATTTTTTTATGCGACATGTAAAATAT
*
38095386 TAAACAAATTTTGGA
196 TAAACAAAATTTGGA
* * * * *
38095401 TACATGCCCTATGATCGGGGATGTTGATCCTAGAGAGCAAAGCACGCCCATTCGTCGGATGCGTG
1 TACATGCCCTATGATCAGGGATGTTGATCCCAGAGAGCAAAGCACGCCCATCCATCGGATCCGTG
* *
38095466 TGAATAAAATAGTGCTTAACAGAAGGAACATACCGAGAGTTGACGAAACAGA-TTGGGGGACGAC
66 TGAAGAAAATAGTGCTTAACAGAAGGAACATACCGAGAGTTGACGAAAC-GACTTAGGGGACGAC
* * *
38095530 ACGTCCAATGCCTAGTTACATGCTTTTACATTTATTTTTTATTTTTTTATGCGACATGTAAACTA
130 ACGTCCAATGCATAGTTACATGCTTTTACATTTATTATTTATTTTTTTATGCGACATGTAAAATA
38095595 TTAAACAAAATTTGGA
195 TTAAACAAAATTTGGA
38095611 T
1 T
38095612 TTGTGTTGCA
Statistics
Matches: 195, Mismatches: 14, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
209 155 0.79
210 40 0.21
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.29
Consensus pattern (210 bp):
TACATGCCCTATGATCAGGGATGTTGATCCCAGAGAGCAAAGCACGCCCATCCATCGGATCCGTG
TGAAGAAAATAGTGCTTAACAGAAGGAACATACCGAGAGTTGACGAAACGACTTAGGGGACGACA
CGTCCAATGCATAGTTACATGCTTTTACATTTATTATTTATTTTTTTATGCGACATGTAAAATAT
TAAACAAAATTTGGA
Found at i:38095948 original size:12 final size:12
Alignment explanation
Indices: 38095931--38095956 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38095921 TTATGCATTT
38095931 TTCAAAAAAAAA
1 TTCAAAAAAAAA
38095943 TTCAAAAAAAAA
1 TTCAAAAAAAAA
38095955 TT
1 TT
38095957 GTTTTTGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
TTCAAAAAAAAA
Found at i:38096876 original size:62 final size:61
Alignment explanation
Indices: 38096764--38096881 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 61
38096754 ATGCTCAGAC
* * * * *
38096764 TATATTAGATATTATAATTATTTAATTTTATTTTTCACCTAATTAATATTTCGATATCATT
1 TATATTAGATATTACAATTATTAAACTTTATTTTTCACCAAAATAATATTTCGATATCATT
* * * *
38096825 TATACTTAGATATTGCAATTATTAAACTTTATTTTTTACCAAAATAGTATTTGGATA
1 TATA-TTAGATATTACAATTATTAAACTTTATTTTTCACCAAAATAATATTTCGATA
38096882 CTATTTTGTA
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
61 4 0.09
62 43 0.91
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (61 bp):
TATATTAGATATTACAATTATTAAACTTTATTTTTCACCAAAATAATATTTCGATATCATT
Found at i:38099181 original size:14 final size:14
Alignment explanation
Indices: 38099159--38099196 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
38099149 AAACTGATAT
*
38099159 TTAATTTTTTATA-A
1 TTAAATTTTTA-ACA
38099173 TTAAATTTTTAACA
1 TTAAATTTTTAACA
38099187 TTAAATTTTT
1 TTAAATTTTT
38099197 CTTTCACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 1 0.05
14 21 0.95
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (14 bp):
TTAAATTTTTAACA
Found at i:38115390 original size:21 final size:21
Alignment explanation
Indices: 38115358--38115397 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
38115348 CTCATACAAT
*
38115358 TCATTATTTTACA-ATTTTTA
1 TCATTATATTACACATTTTTA
38115378 TCATGTATATTACACATTTT
1 TCAT-TATATTACACATTTT
38115398 ACAAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 8 0.47
22 5 0.29
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTATATTACACATTTTTA
Found at i:38115830 original size:35 final size:35
Alignment explanation
Indices: 38115790--38115860 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
38115780 TAACCTTTGA
38115790 AATCACACATTTAATGTCCACATTTGTACACTCAT
1 AATCACACATTTAATGTCCACATTTGTACACTCAT
* *
38115825 AATCACACATTTAATGTCTATATTTGTACACTCAT
1 AATCACACATTTAATGTCCACATTTGTACACTCAT
38115860 A
1 A
38115861 CTAACAATAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.37
Consensus pattern (35 bp):
AATCACACATTTAATGTCCACATTTGTACACTCAT
Found at i:38116763 original size:144 final size:143
Alignment explanation
Indices: 38116472--38116794 Score: 379
Period size: 146 Copynumber: 2.2 Consensus size: 143
38116462 TTCTTTTTTT
*
38116472 AAAAGAGAAAGTTTAGATTTTAAAAATAAAAATCTATTTTTTTAGTCATTTCAAAGGAAAGTTTA
1 AAAAGAGAAAGTTTAGATTTTAAAAATAAAAATCTATTTTTTTAGTCATTTCAAAGGAAAGTTAA
* *
38116537 ATTTTTAAAACAAATTTTTAATTTTTTAACTATTTAGAAATAAAAGTTTTGATTTTTAAGAAAAA
66 ATTTTTAAAACAAAGTTTTAATTTTTTAACTATTTAGAAATAAAAGCTTTGATTTTTAAGAAAAA
*
38116602 TAGTGATTTTTTTA
131 TAGTGA-TTTTTAA
* * *
38116616 AAAAGAGAAAGTTTATATTTTTAAAATAAAAATCTA-TTTTTTAGTCATTT-TAAGGAAAAGTCT
1 AAAAGAGAAAGTTTAGATTTTAAAAATAAAAATCTATTTTTTTAGTCATTTCAAAGG-AAAGT-T
* * * *
38116679 AAATATTTTTAAAA-GAAGTTTTGATCTTTTTCAACTATTTCGAAAT-AGAGCTTTGATTTTTAA
64 -AA-ATTTTTAAAACAAAGTTTTAAT-TTTTT-AACTATTTAGAAATAAAAGCTTTGATTTTTAA
*
38116742 GAAAAGTAGTGA-TTTTAA
125 GAAAAATAGTGATTTTTAA
* * *
38116760 AAAA-ATAAAATTTTGATTTTGTAAAAAATAAAAAT
1 AAAAGAGAAAGTTTAGA-TTT-T-AAAAATAAAAAT
38116795 AAAAAAATAT
Statistics
Matches: 153, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
142 4 0.03
143 27 0.18
144 47 0.31
145 10 0.07
146 52 0.34
147 13 0.08
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.42
Consensus pattern (143 bp):
AAAAGAGAAAGTTTAGATTTTAAAAATAAAAATCTATTTTTTTAGTCATTTCAAAGGAAAGTTAA
ATTTTTAAAACAAAGTTTTAATTTTTTAACTATTTAGAAATAAAAGCTTTGATTTTTAAGAAAAA
TAGTGATTTTTAA
Found at i:38130058 original size:42 final size:42
Alignment explanation
Indices: 38129999--38130345 Score: 433
Period size: 42 Copynumber: 8.3 Consensus size: 42
38129989 AAAGAAAGCA
38129999 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* ** * * *
38130041 TTCATTACATTTAGAGGCCTGGGCGTAGAGGTCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
38130083 TTTATTGCATTTAGAGGCCTAGGTGTAGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
38130125 TTCATTGCATTTAAAGTCCTAGGTGTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
38130167 TTCATTGCATTTAAAGGCTCAGGTGTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * **
38130209 TTCATTGCATTTAAAGGCCCGGGTGTGGAGGTTAATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* ** * * * *
38130251 TTTATTGTTTTTAGAGGCCTAGGTGTGCAGGCCCGTTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
*
38130293 TTCATTGCATTTAGAAGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
*
38130335 TGCATTGCATT
1 TTCATTGCATT
38130346 GTATATGAAG
Statistics
Matches: 261, Mismatches: 44, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 261 1.00
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.38
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
Found at i:38131365 original size:148 final size:151
Alignment explanation
Indices: 38131144--38131433 Score: 403
Period size: 148 Copynumber: 1.9 Consensus size: 151
38131134 AAAGTTTTGA
* *
38131144 TTTTTTTTAAAAGCGAAAGTTTAGATTTTTAAAAATAAAAATTTGTTTTTTTAGTCATTTCAAAA
1 TTTTTTTAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATTTGTTTTTTTAGTCATTTCAAAA
* * * *
38131209 GAAAGTTTA-ATTTT-TAAAATAAACTTTTGAT-TTTTT-AATTATTTTGAAATAAA-AGTTATG
66 GAAAGTTTACATTTTCTAAAACAAACTTTTAATCTTTTTCAACTATTTCGAAATAAAGA-TT-TG
38131269 ATTTTTAAGAAAAAAAATAGCGG
129 ATTTTTAAGAAAAAAAATAGCGG
* * **
38131292 TTTTTTTAAAAAAGAGAAAGTTTAGATTTTT-AAAATAAAAGTTTGTTTTTTTTGTCATTTTTAA
1 TTTTTTT-AAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATTTGTTTTTTTAGTCATTTCAAA
* *
38131356 GGAAAGTTTACATTTTCTAAAACAAAGTTTTAATCTTTTTCAACTATTTCGAAATAAAGATTTGA
65 AGAAAGTTTACATTTTCTAAAACAAACTTTTAATCTTTTTCAACTATTTCGAAATAAAGATTTGA
38131421 TTTTTAAGAAAAA
130 TTTTTAAGAAAAA
38131434 TATTGATTTT
Statistics
Matches: 124, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
148 45 0.36
149 26 0.21
150 14 0.11
151 21 0.17
152 17 0.14
153 1 0.01
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (151 bp):
TTTTTTTAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATTTGTTTTTTTAGTCATTTCAAAA
GAAAGTTTACATTTTCTAAAACAAACTTTTAATCTTTTTCAACTATTTCGAAATAAAGATTTGAT
TTTTAAGAAAAAAAATAGCGG
Found at i:38131431 original size:22 final size:21
Alignment explanation
Indices: 38131406--38131465 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 21
38131396 CAACTATTTC
38131406 GAAATAAAGATTTGATTTTTAA
1 GAAATAAA-ATTTGATTTTTAA
*
38131428 GAAA-AATA-TTGATTTTTTAA
1 GAAATAAAATTTGA-TTTTTAA
38131448 -AAATAAAACTTTGATTTT
1 GAAATAAAA-TTTGATTTT
38131466 GCAAGAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
19 7 0.22
20 11 0.34
21 6 0.19
22 8 0.25
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (21 bp):
GAAATAAAATTTGATTTTTAA
Found at i:38147761 original size:45 final size:45
Alignment explanation
Indices: 38147693--38147805 Score: 136
Period size: 45 Copynumber: 2.5 Consensus size: 45
38147683 TCATAGAGTC
* * *
38147693 TTTCAATCATAATCTTATTCATTCTCGTCTTGATGCCATAATGTA
1 TTTCAACCATAGTCTTATACATTCTCGTCTTGATGCCATAATGTA
** * *
38147738 TTTCAACCATAGTCTTATACATTCTCGTCTTGATGTTATAGTGTC
1 TTTCAACCATAGTCTTATACATTCTCGTCTTGATGCCATAATGTA
* * *
38147783 TGTCAACCATGGTCTTCTACATT
1 TTTCAACCATAGTCTTATACATT
38147806 TTTATATCGT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (45 bp):
TTTCAACCATAGTCTTATACATTCTCGTCTTGATGCCATAATGTA
Found at i:38155562 original size:19 final size:18
Alignment explanation
Indices: 38155538--38155587 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 18
38155528 AACCTTAAAA
38155538 AAATATTTACCATATCAGT
1 AAATATTTA-CATATCAGT
38155557 AAATATTGT-CATATCAGT
1 AAATATT-TACATATCAGT
38155575 AAAT-TTTAACATA
1 AAATATTT-ACATA
38155588 ATGGAAAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
16 1 0.04
17 2 0.07
18 17 0.61
19 7 0.25
20 1 0.04
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (18 bp):
AAATATTTACATATCAGT
Found at i:38157963 original size:23 final size:23
Alignment explanation
Indices: 38157936--38158005 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 23
38157926 AAATGAGCAC
38157936 CATATACATACCAAATTTAACAG
1 CATATACATACCAAATTTAACAG
* * ** *
38157959 CATATATACAGTAAA--TAGGCAG
1 CATATACATACCAAATTTA-ACAG
38157981 CATATACATACCAAATTTAACAG
1 CATATACATACCAAATTTAACAG
38158004 CA
1 CA
38158006 CTTTTACACC
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
21 2 0.06
22 14 0.41
23 16 0.47
24 2 0.06
ACGTcount: A:0.47, C:0.20, G:0.09, T:0.24
Consensus pattern (23 bp):
CATATACATACCAAATTTAACAG
Found at i:38157965 original size:45 final size:45
Alignment explanation
Indices: 38157916--38158005 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
38157906 GGACAGCTTT
38157916 TATATACAACAAAT-GAGCACCATATACATACCAAATTTAACAGCA
1 TATATACAACAAATAG-GCACCATATACATACCAAATTTAACAGCA
** *
38157961 TATATACAGTAAATAGGCAGCATATACATACCAAATTTAACAGCA
1 TATATACAACAAATAGGCACCATATACATACCAAATTTAACAGCA
38158006 CTTTTACACC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 40 0.98
46 1 0.02
ACGTcount: A:0.48, C:0.20, G:0.09, T:0.23
Consensus pattern (45 bp):
TATATACAACAAATAGGCACCATATACATACCAAATTTAACAGCA
Found at i:38158896 original size:41 final size:41
Alignment explanation
Indices: 38158847--38158963 Score: 191
Period size: 41 Copynumber: 2.9 Consensus size: 41
38158837 CCCAATACAT
* *
38158847 TTCA-CGGCACAAAGCCTGCTAGACATAAAGTCTGATATAA
1 TTCACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAA
* *
38158887 TTCACCGGCACAGAGCCTGCTAGGCATCAAGCCTGATATAA
1 TTCACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAA
38158928 TTCACCGGCACAAAGCCTGCTAGGCATAAAGCCTGA
1 TTCACCGGCACAAAGCCTGCTAGGCATAAAGCCTGA
38158964 ACTTACAAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 4 0.06
41 66 0.94
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (41 bp):
TTCACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAA
Found at i:38165446 original size:69 final size:69
Alignment explanation
Indices: 38165336--38166802 Score: 2448
Period size: 69 Copynumber: 21.3 Consensus size: 69
38165326 GGACAACTCT
* * * * *
38165336 TATATACAACAAATGGGCAACATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
38165401 AGCA
66 AGCA
* * * * * * * *
38165405 TATACACAGTAAATAGGCAGCATATACATATCAAATTTAACAGCACTTCTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
38165470 AGCA
66 AGCA
* * * *
38165474 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
38165539 AGCA
66 AGCA
* * * * * * * *
38165543 TATACACAGTAAATAGGCAGCATATACATATCAAATTTAACAGCACTTCTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
38165608 AGCA
66 AGCA
* * * *
38165612 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
38165677 AGCA
66 AGCA
* * * * * * * *
38165681 TATACACAGTAAATAGGCAGCATATACATATCAAATTTAACAGCACTTCTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
38165746 AGCA
66 AGCA
38165750 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
38165815 AGCA
66 AGCA
38165819 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
38165884 AGCA
66 AGCA
38165888 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
38165953 AGCA
66 AGCA
38165957 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
38166022 AGCA
66 AGCA
38166026 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
38166091 AGCA
66 AGCA
38166095 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
38166160 AGCA
66 AGCA
38166164 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
38166229 AGCA
66 AGCA
38166233 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
38166298 AGCA
66 AGCA
38166302 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
38166367 AGCA
66 AGCA
* * * * * * *
38166371 TATATACAGTAAATAGGCAGCATATACATACCAAATTTAACAGCATTTTTACATCAAAATTTAAC
1 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
38166436 AGCA
66 AGCA
* * * *
38166440 TATATACAGTAAATAGGCAGCATATACATACCAAATTTAATAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
38166505 AGCA
66 AGCA
38166509 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
38166574 AGCA
66 AGCA
38166578 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
38166643 AGCA
66 AGCA
38166647 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
38166712 AGCA
66 AGCA
* * * * * *
38166716 TATATACAGTAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATATAAC
1 TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
38166781 AGCA
66 AGCA
38166785 TATATACAGCAAATAGGC
1 TATATACAGCAAATAGGC
38166803 TTAAAAATAA
Statistics
Matches: 1346, Mismatches: 52, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 1346 1.00
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.25
Consensus pattern (69 bp):
TATATACAGCAAATAGGCAACATATAGATACCAAAGTTAATAGCACTTTTACACCAAAATTTAAC
AGCA
Done.