Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 109 of 109
Found at i:35438989 original size:43 final size:43
Alignment explanation
Indices: 35438941--35439060 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 43
35438931 TTCTGATAAA
*
35438941 TGTTTTCGTGTAAGACCACGTCTGAGACATTGGCATCGACTT-G
1 TGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGA-TTAG
** * **
35438984 TGTTTTCGTGTAAGACCTTGTCCGGGACAGCGGCATCGATTAG
1 TGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATTAG
* * * *
35439027 TGATTACATGTAAGACCACGTCTGGGACGTTGGC
1 TGTTTTCGTGTAAGACCACGTCTGGGACATTGGC
35439061 GTTGTATAAA
Statistics
Matches: 61, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 2 0.03
43 59 0.97
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (43 bp):
TGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATTAG
Found at i:35441970 original size:29 final size:29
Alignment explanation
Indices: 35441937--35442007 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 29
35441927 AATATTTCCT
*
35441937 AAAATTTTAATTAAACCCCT-ATTTTTTTG
1 AAAATTTTAATT-AACCCCTAATTCTTTTG
** * *
35441966 AAAATTGCAAATAAGCCCTAAATTCTTTTG
1 AAAATTTTAATTAACCCCT-AATTCTTTTG
35441996 AAAATTTTAATT
1 AAAATTTTAATT
35442008 GTACATCCCA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
28 6 0.19
29 9 0.28
30 17 0.53
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (29 bp):
AAAATTTTAATTAACCCCTAATTCTTTTG
Found at i:35445836 original size:19 final size:19
Alignment explanation
Indices: 35445798--35445837 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
35445788 AATATTATCA
**
35445798 ATATATTTATAATTGTAAT
1 ATATATTTATAATTAAAAT
*
35445817 ATATATTTATTATTAAAAT
1 ATATATTTATAATTAAAAT
35445836 AT
1 AT
35445838 TAATATTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
ATATATTTATAATTAAAAT
Found at i:35447487 original size:2 final size:2
Alignment explanation
Indices: 35447480--35447505 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
35447470 AATCATCATG
35447480 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
35447506 GAATCTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:35453731 original size:2 final size:2
Alignment explanation
Indices: 35453724--35453752 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
35453714 TATGAATGAG
35453724 AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35453753 NNNNNNNNNN
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35453782 original size:2 final size:2
Alignment explanation
Indices: 35453775--35453804 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
35453765 NNNNNNNNNN
35453775 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35453805 TCTTGCATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35476570 original size:1 final size:1
Alignment explanation
Indices: 35476560--35476589 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
35476550 GTAGAATCGG
*
35476560 TTTTTCTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
35476590 ACCTTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:35476934 original size:31 final size:33
Alignment explanation
Indices: 35476898--35476965 Score: 104
Period size: 31 Copynumber: 2.1 Consensus size: 33
35476888 TTATTTAGCT
*
35476898 AAATTTGACCCTCAACCTTTT-AAAAAGAGTC-
1 AAATTTGACCATCAACCTTTTGAAAAAGAGTCG
*
35476929 AAATTTGACTATCAACCTTTTGAAAAAGAGTCG
1 AAATTTGACCATCAACCTTTTGAAAAAGAGTCG
35476962 AAAT
1 AAAT
35476966 GATTTTTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 19 0.58
32 10 0.30
33 4 0.12
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (33 bp):
AAATTTGACCATCAACCTTTTGAAAAAGAGTCG
Found at i:35484294 original size:22 final size:23
Alignment explanation
Indices: 35484253--35484297 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
35484243 GCTAGGATAA
*
35484253 GAAAAATGTCAAGTATCAAATTG
1 GAAAAATGTCAAGTACCAAATTG
*
35484276 GAAAAAT-TCAGGTACCAAATTG
1 GAAAAATGTCAAGTACCAAATTG
35484298 AAATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (23 bp):
GAAAAATGTCAAGTACCAAATTG
Found at i:35487148 original size:17 final size:18
Alignment explanation
Indices: 35487126--35487160 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
35487116 ACTTGTGTAA
35487126 TTTTTTTGTT-TTGTTTT
1 TTTTTTTGTTGTTGTTTT
35487143 TTTTTTTGTTGTTGTTTT
1 TTTTTTTGTTGTTGTTTT
35487161 ACTTTTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (18 bp):
TTTTTTTGTTGTTGTTTT
Found at i:35517074 original size:32 final size:32
Alignment explanation
Indices: 35517033--35517105 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
35517023 ATTAATTTAC
35517033 GCTCCATTTTTTTCATGTGGGCCGATGGTACT
1 GCTCCATTTTTTTCATGTGGGCCGATGGTACT
*
35517065 GCTCCATTTTTTTCATGTGGGCCGGTGGTACT
1 GCTCCATTTTTTTCATGTGGGCCGATGGTACT
*
35517097 GCTCGATTT
1 GCTCCATTT
35517106 CAGTGTTCTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.11, C:0.22, G:0.26, T:0.41
Consensus pattern (32 bp):
GCTCCATTTTTTTCATGTGGGCCGATGGTACT
Found at i:35519580 original size:263 final size:263
Alignment explanation
Indices: 35519113--35519639 Score: 1029
Period size: 263 Copynumber: 2.0 Consensus size: 263
35519103 AAACTTTATT
*
35519113 TGAACCAAATTAAATCAATCAAATATCTATTGAATAATTTTATATTTGTTTCTTTCTCTTGTCTG
1 TGAACCAAATTAAATAAATCAAATATCTATTGAATAATTTTATATTTGTTTCTTTCTCTTGTCTG
35519178 AACCAAGTCATGAATCTCATATTTTTTTTTCCTAAAGAAGTTGGAAAGAAGTTGTTAATAATTGA
66 AACCAAGTCATGAATCTCATATTTTTTTTTCCTAAAGAAGTTGGAAAGAAGTTGTTAATAATTGA
35519243 TTACCGAGAGAAATGGGTAAAAGAAATTTACCCCCGAGATTTAATAATTGGTCCATTCTTAACCT
131 TTACCGAGAGAAATGGGTAAAAGAAATTTACCCCCGAGATTTAATAATTGGTCCATTCTTAACCT
35519308 AGATAAAGTCCATCATGTTGCGATAGAAATAAACAAAAACAAATAAGTTTTAGCTAATGTAATAA
196 AGATAAAGTCCATCATGTTGCGATAGAAATAAACAAAAACAAATAAGTTTTAGCTAATGTAATAA
35519373 AGA
261 AGA
35519376 TGAACCAAATTAAATAAATTCAAATATCTA-TGAATAATTTTATATTTGTTTCTTTCTCTTGTCT
1 TGAACCAAATTAAATAAA-TCAAATATCTATTGAATAATTTTATATTTGTTTCTTTCTCTTGTCT
35519440 GAACCAAGTCATGAATCTCATATTTTTTTTTCCTAAAGAAGTTGGAAAGAAGTTGTTAATAATTG
65 GAACCAAGTCATGAATCTCATATTTTTTTTTCCTAAAGAAGTTGGAAAGAAGTTGTTAATAATTG
35519505 ATTACCGAGAGAAATGGGTAAAAGAAATTTACCCCCGAGATTTAATAATTGGTCCATTCTTAACC
130 ATTACCGAGAGAAATGGGTAAAAGAAATTTACCCCCGAGATTTAATAATTGGTCCATTCTTAACC
35519570 TAGATAAAGTCCATCATGTTGCGATAGAAATAAACAAAAACAAATAAGTTTTAGCTAATGTAATA
195 TAGATAAAGTCCATCATGTTGCGATAGAAATAAACAAAAACAAATAAGTTTTAGCTAATGTAATA
35519635 AAGA
260 AAGA
35519639 T
1 T
35519640 ACCAATTATC
Statistics
Matches: 262, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
263 251 0.96
264 11 0.04
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (263 bp):
TGAACCAAATTAAATAAATCAAATATCTATTGAATAATTTTATATTTGTTTCTTTCTCTTGTCTG
AACCAAGTCATGAATCTCATATTTTTTTTTCCTAAAGAAGTTGGAAAGAAGTTGTTAATAATTGA
TTACCGAGAGAAATGGGTAAAAGAAATTTACCCCCGAGATTTAATAATTGGTCCATTCTTAACCT
AGATAAAGTCCATCATGTTGCGATAGAAATAAACAAAAACAAATAAGTTTTAGCTAATGTAATAA
AGA
Found at i:35520256 original size:26 final size:26
Alignment explanation
Indices: 35520227--35520296 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 26
35520217 ATACCTATTT
35520227 AATTATTTATATTTAGTCA-TATAATA
1 AATTATTTATATTTA-TCATTATAATA
* *
35520253 AATTATTAATATAATTTATTATTTTAATA
1 AATTATT--TAT-ATTTATCATTATAATA
35520282 AATTATTTAATATTT
1 AATTATTT-ATATTT
35520297 TTATTTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
26 7 0.19
27 5 0.14
28 7 0.19
29 18 0.49
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (26 bp):
AATTATTTATATTTATCATTATAATA
Found at i:35520266 original size:16 final size:16
Alignment explanation
Indices: 35520245--35520294 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
35520235 ATATTTAGTC
35520245 ATATAATAAATTATTA
1 ATATAATAAATTATTA
35520261 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
35520274 TTTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
35520291 ATAT
1 ATAT
35520295 TTTTATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 11 0.42
16 10 0.38
17 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:35520270 original size:29 final size:30
Alignment explanation
Indices: 35520237--35520294 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
35520227 AATTATTTAT
35520237 ATTTAGTCA-TATAATAAATTA-TTAATATA
1 ATTTA-TCATTATAATAAATTATTTAATATA
* *
35520266 ATTTATTATTTTAATAAATTATTTAATAT
1 ATTTATCATTATAATAAATTATTTAATAT
35520295 TTTTATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 16 0.64
30 7 0.28
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (30 bp):
ATTTATCATTATAATAAATTATTTAATATA
Found at i:35520299 original size:29 final size:30
Alignment explanation
Indices: 35520248--35520313 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
35520238 TTTAGTCATA
35520248 TAATAAATTATTAATATAATTTA-TTATTT
1 TAATAAATTATTAATATAATTTATTTATTT
*
35520277 TAATAAATTATTTAATAT-TTTTATTTTATTT
1 TAATAAATTA-TTAATATAATTTA-TTTATTT
35520308 TAATAA
1 TAATAA
35520314 TAAATATCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 14 0.42
30 7 0.21
31 12 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (30 bp):
TAATAAATTATTAATATAATTTATTTATTT
Found at i:35520325 original size:19 final size:19
Alignment explanation
Indices: 35520303--35520339 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
35520293 ATTTTTATTT
*
35520303 TATTTTAATAATAAATATC
1 TATTATAATAATAAATATC
*
35520322 TATTATAATTATAAATAT
1 TATTATAATAATAAATAT
35520340 ATTAACAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
TATTATAATAATAAATATC
Found at i:35526909 original size:15 final size:17
Alignment explanation
Indices: 35526874--35526910 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
35526864 AGACTTGGAC
35526874 CTAATTTTTTTATAGTT
1 CTAATTTTTTTATAGTT
35526891 -TAATTTTTTT-TA-TT
1 CTAATTTTTTTATAGTT
35526905 CTAATT
1 CTAATT
35526911 GGACCTAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.11
15 7 0.37
16 10 0.53
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (17 bp):
CTAATTTTTTTATAGTT
Found at i:35532924 original size:154 final size:155
Alignment explanation
Indices: 35532644--35532952 Score: 602
Period size: 154 Copynumber: 2.0 Consensus size: 155
35532634 ACCAGTGGCG
35532644 GAGCCAGGGGGCCCTTGCCCCCCTTAAAATAGAATTTTTTTAACCCTTTGTAAGTTATAAAATTT
1 GAGCCAGGGGGCCCTTGCCCCCCTTAAAATAGAATTTTTTTAACCCTTTGTAAGTTATAAAATTT
35532709 TAAATTAGTAATGGTAAAATTGTACTTTGTCCCCTCAAAAATGATAAAATTTTGATTTAATCATT
66 TAAATTAGTAATGGTAAAATTGTACTTTGTCCCCTCAAAAATGATAAAATTTTGATTTAATCATT
35532774 TAAAAATTATAAAGAGA-AGAATAT
131 TAAAAATTATAAAGAGATAGAATAT
35532798 GAGCCAGGGGGCCCTTGCCCCCCTTAAAATAGAATTTTTTTAACCCTTTGTAAGTTATAAAATTT
1 GAGCCAGGGGGCCCTTGCCCCCCTTAAAATAGAATTTTTTTAACCCTTTGTAAGTTATAAAATTT
35532863 TAAATTAGTAATGGTAAAATTGTACTTTGTCCCCTCAAAAATGATAAAATTTTGATTTAATCATT
66 TAAATTAGTAATGGTAAAATTGTACTTTGTCCCCTCAAAAATGATAAAATTTTGATTTAATCATT
*
35532928 TAAAAATTATAAAGATATAGAATAT
131 TAAAAATTATAAAGAGATAGAATAT
35532953 TAAAATGGTA
Statistics
Matches: 153, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
154 146 0.95
155 7 0.05
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.36
Consensus pattern (155 bp):
GAGCCAGGGGGCCCTTGCCCCCCTTAAAATAGAATTTTTTTAACCCTTTGTAAGTTATAAAATTT
TAAATTAGTAATGGTAAAATTGTACTTTGTCCCCTCAAAAATGATAAAATTTTGATTTAATCATT
TAAAAATTATAAAGAGATAGAATAT
Found at i:35534583 original size:75 final size:75
Alignment explanation
Indices: 35533905--35534572 Score: 1228
Period size: 75 Copynumber: 8.9 Consensus size: 75
35533895 GGTGTTGCGA
* * *
35533905 TTTCCTTTTCCCCATGCAGCGTTTCTTCTTGTACTTGGTTTGTGGCAATTACCACCTTTGCTTCC
1 TTTCCTTTTCCCCATGCAGCGCTTCTTCTTGTTCTTGGTTTGTGGCAATTACCACATTTGCTTCC
35533970 TCTTCAATGG
66 TCTTCAATGG
*
35533980 TTTCCTTTTCCCCATGCAGCGCTTCTTCTTGTACTTGGTTTGTGGCAATTACCACATTTGCTTCC
1 TTTCCTTTTCCCCATGCAGCGCTTCTTCTTGTTCTTGGTTTGTGGCAATTACCACATTTGCTTCC
35534045 TCTTCAATGG
66 TCTTCAATGG
35534055 TTTCCTTTTCCCCATGCAGCGCTTCTTCTTGTTCTTGGTTTGTGGCAATTACCACATTTGCTTCC
1 TTTCCTTTTCCCCATGCAGCGCTTCTTCTTGTTCTTGGTTTGTGGCAATTACCACATTTGCTTCC
35534120 TCTTCAATGG
66 TCTTCAATGG
35534130 TTTCCTTTTCCCCATGCAGCGCTTCTTCTTGTTCTTGGTTTGTGGCAATTACCACATTTGCTTCC
1 TTTCCTTTTCCCCATGCAGCGCTTCTTCTTGTTCTTGGTTTGTGGCAATTACCACATTTGCTTCC
35534195 TCTTCAATGG
66 TCTTCAATGG
*
35534205 TTTCCTTTACCCCATGCAGCGCTTCTTCTTGTTCTTGGTTTGTGGCAATTACCACATTTGCTTCC
1 TTTCCTTTTCCCCATGCAGCGCTTCTTCTTGTTCTTGGTTTGTGGCAATTACCACATTTGCTTCC
35534270 TCTTCAATGG
66 TCTTCAATGG
* * *
35534280 TTTTCTTTTCCCCGTGCAGCGCTTCTTCTTGTTCTTGGTTTGTTGCAATTACCACATTTGCTTCC
1 TTTCCTTTTCCCCATGCAGCGCTTCTTCTTGTTCTTGGTTTGTGGCAATTACCACATTTGCTTCC
*
35534345 TTTTCAATGG
66 TCTTCAATGG
35534355 TTTCCTTTTCCCCATGCAGCGCTTCTTCTTGTTCTTGGTTTGTGGCAATTACCACATTTGCTTCC
1 TTTCCTTTTCCCCATGCAGCGCTTCTTCTTGTTCTTGGTTTGTGGCAATTACCACATTTGCTTCC
35534420 TCTTCAATGG
66 TCTTCAATGG
35534430 TTTCCTTTTCCCCATGCAGCGCTTCTTCTTGTTCTTGGTTTGTGGCAATTACCACATTTGCTTCC
1 TTTCCTTTTCCCCATGCAGCGCTTCTTCTTGTTCTTGGTTTGTGGCAATTACCACATTTGCTTCC
35534495 TCTTCAATGG
66 TCTTCAATGG
* * *
35534505 TTTCCTTTTCCCCATGCAGCGCTTCTTCTTGTACTTGGCTTGTGGCAAGTACCACATTTGCTTCC
1 TTTCCTTTTCCCCATGCAGCGCTTCTTCTTGTTCTTGGTTTGTGGCAATTACCACATTTGCTTCC
35534570 TCT
66 TCT
35534573 ACTATTGTTT
Statistics
Matches: 577, Mismatches: 16, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 577 1.00
ACGTcount: A:0.12, C:0.28, G:0.16, T:0.44
Consensus pattern (75 bp):
TTTCCTTTTCCCCATGCAGCGCTTCTTCTTGTTCTTGGTTTGTGGCAATTACCACATTTGCTTCC
TCTTCAATGG
Found at i:35537818 original size:3 final size:3
Alignment explanation
Indices: 35537810--35537843 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
35537800 TTTGAGTATC
35537810 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
35537844 TTTATGTGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:35547828 original size:30 final size:30
Alignment explanation
Indices: 35547792--35547853 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
35547782 TTCTATATGC
35547792 ATATATACATAAGCTACACAAGAACATAAA
1 ATATATACATAAGCTACACAAGAACATAAA
35547822 ATATATACATAAGCTACACAAGAACATAAA
1 ATATATACATAAGCTACACAAGAACATAAA
35547852 AT
1 AT
35547854 CAGAGCTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.56, C:0.16, G:0.06, T:0.21
Consensus pattern (30 bp):
ATATATACATAAGCTACACAAGAACATAAA
Found at i:35556910 original size:17 final size:17
Alignment explanation
Indices: 35556888--35556922 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
35556878 GCATGCAAAG
35556888 GTAACTCTCTTGGAGCA
1 GTAACTCTCTTGGAGCA
35556905 GTAACTCTCTTGGAGCA
1 GTAACTCTCTTGGAGCA
35556922 G
1 G
35556923 CAATTGACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (17 bp):
GTAACTCTCTTGGAGCA
Found at i:35588710 original size:15 final size:15
Alignment explanation
Indices: 35588690--35588718 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
35588680 CAGTGATCGA
35588690 GAAATAAGCATAGTT
1 GAAATAAGCATAGTT
35588705 GAAATAAGCATAGT
1 GAAATAAGCATAGT
35588719 AAAGGCATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.21, T:0.24
Consensus pattern (15 bp):
GAAATAAGCATAGTT
Found at i:35591003 original size:36 final size:36
Alignment explanation
Indices: 35590956--35591026 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
35590946 GATTATGTAA
*
35590956 TCTTAGAGTTCTAATTGTATAGAACTTCTAATTGTG
1 TCTTAGAGTTCTAATTGTATACAACTTCTAATTGTG
* *
35590992 TCTTAGAGTTCTAATTGTATACAGCTTTTAATTGT
1 TCTTAGAGTTCTAATTGTATACAACTTCTAATTGT
35591027 AGCCTTTGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.27, C:0.11, G:0.15, T:0.46
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAACTTCTAATTGTG
Found at i:35591005 original size:19 final size:19
Alignment explanation
Indices: 35590956--35591009 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
35590946 GATTATGTAA
35590956 TCTTAGAGTTCTAA-T-TG
1 TCTTAGAGTTCTAATTGTG
* *
35590973 T-ATAGAACTTCTAATTGTG
1 TCTTAG-AGTTCTAATTGTG
35590992 TCTTAGAGTTCTAATTGT
1 TCTTAGAGTTCTAATTGT
35591010 ATACAGCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
16 3 0.10
17 8 0.28
18 1 0.03
19 14 0.48
20 3 0.10
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (19 bp):
TCTTAGAGTTCTAATTGTG
Found at i:35591269 original size:48 final size:48
Alignment explanation
Indices: 35591197--35591288 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
35591187 GGGAATTCTA
*
35591197 TTGAATCCTTTATCATTGCAAGTTAGGCCAACTTAGGCGTTTTTGTTG
1 TTGAATCCTTTATCATTGCAAGTTAGGCCAACTTAGACGTTTTTGTTG
* **
35591245 TTGAATCCTTTATCATTGCGAGTTAGGCTGACTTAGACGTTTTT
1 TTGAATCCTTTATCATTGCAAGTTAGGCCAACTTAGACGTTTTT
35591289 AAGCAAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (48 bp):
TTGAATCCTTTATCATTGCAAGTTAGGCCAACTTAGACGTTTTTGTTG
Found at i:35604419 original size:19 final size:19
Alignment explanation
Indices: 35604395--35604433 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
35604385 TGTTCGATAA
35604395 AATGCTTGTATAAGATTAG
1 AATGCTTGTATAAGATTAG
35604414 AATGCTTGTATAAGATTAG
1 AATGCTTGTATAAGATTAG
35604433 A
1 A
35604434 GTTTGATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (19 bp):
AATGCTTGTATAAGATTAG
Found at i:35605456 original size:274 final size:274
Alignment explanation
Indices: 35604967--35605520 Score: 1081
Period size: 274 Copynumber: 2.0 Consensus size: 274
35604957 GAGCATTAAA
35604967 ATGGATGACTCTTAGAAGATAAAAACGTAGATGTGATTAACTGGATTGAAGATACATCTGAAAGG
1 ATGGATGACTCTTAGAAGATAAAAACGTAGATGTGATTAACTGGATTGAAGATACATCTGAAAGG
35605032 ACCCAAGTAGAATAGATCTTAGATCCATTTATGGATTTATTCACTTGTGACATTTATGGCGTGGA
66 ACCCAAGTAGAATAGATCTTAGATCCATTTATGGATTTATTCACTTGTGACATTTATGGCGTGGA
35605097 ATACTTTAATCTCGAGTAGATGATGGACTATGTATATGTGACTCGTATACTTAGATGTAAGTAAA
131 ATACTTTAATCTCGAGTAGATGATGGACTATGTATATGTGACTCGTATACTTAGATGTAAGTAAA
35605162 AGCCTGAGTTCAAAAAGATAAGGAACTGAATGTTGCATTGAGTATACGAATTTTGTAGTATGTTG
196 AGCCTGAGTTCAAAAAGATAAGGAACTGAATGTTGCATTGAGTATACGAATTTTGTAGTATGTTG
35605227 CGTCATTTTACAAT
261 CGTCATTTTACAAT
35605241 ATGGATGACTCTTAGAAGATAAAAACGTAGATGTGATTAACTGGATTGAAGATACATCTGAAAGG
1 ATGGATGACTCTTAGAAGATAAAAACGTAGATGTGATTAACTGGATTGAAGATACATCTGAAAGG
*
35605306 ACCCAAGTAGAATAGATCTTAGATCCATTTATGGATTTATTCACTTGTGACATTTATGGTGTGGA
66 ACCCAAGTAGAATAGATCTTAGATCCATTTATGGATTTATTCACTTGTGACATTTATGGCGTGGA
35605371 ATACTTTAATCTCGAGTAGATGATGGACTATGTATATGTGACTCGTATACTTAGATGTAAGTAAA
131 ATACTTTAATCTCGAGTAGATGATGGACTATGTATATGTGACTCGTATACTTAGATGTAAGTAAA
*
35605436 AGCCTGAGTTCAAAAAGATAAGGAACTGAATGTTGCATTGAGTATATGAATTTTGTAGTATGTTG
196 AGCCTGAGTTCAAAAAGATAAGGAACTGAATGTTGCATTGAGTATACGAATTTTGTAGTATGTTG
35605501 CGTCATTTTACAAT
261 CGTCATTTTACAAT
35605515 ACTGGA
1 A-TGGA
35605521 ATTCATAACC
Statistics
Matches: 277, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
274 273 0.99
275 4 0.01
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (274 bp):
ATGGATGACTCTTAGAAGATAAAAACGTAGATGTGATTAACTGGATTGAAGATACATCTGAAAGG
ACCCAAGTAGAATAGATCTTAGATCCATTTATGGATTTATTCACTTGTGACATTTATGGCGTGGA
ATACTTTAATCTCGAGTAGATGATGGACTATGTATATGTGACTCGTATACTTAGATGTAAGTAAA
AGCCTGAGTTCAAAAAGATAAGGAACTGAATGTTGCATTGAGTATACGAATTTTGTAGTATGTTG
CGTCATTTTACAAT
Found at i:35606136 original size:18 final size:19
Alignment explanation
Indices: 35606113--35606148 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
35606103 ACTATTATTT
35606113 AATTAA-TAAAATAATTAA
1 AATTAATTAAAATAATTAA
*
35606131 AATTAATTAAATTAATTA
1 AATTAATTAAAATAATTA
35606149 GCCATTGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AATTAATTAAAATAATTAA
Found at i:35612394 original size:12 final size:12
Alignment explanation
Indices: 35612377--35612487 Score: 64
Period size: 12 Copynumber: 8.8 Consensus size: 12
35612367 AAAAACTTAA
35612377 TGATTAAAAACT
1 TGATTAAAAACT
35612389 TGATTAAAAACT
1 TGATTAAAAACT
* *
35612401 TGATGAAAAGCT
1 TGATTAAAAACT
*
35612413 T-A-AAAAGAACT
1 TGATTAAA-AACT
**
35612424 TGATGCAAAACT
1 TGATTAAAAACT
* *
35612436 TAATAAAAGAAAACT
1 TGAT--TA-AAAACT
35612451 TGGTAATTAAAAACT
1 T-G--ATTAAAAACT
*
35612466 TGATTAATAACT
1 TGATTAAAAACT
*
35612478 TGATGAAAAA
1 TGATTAAAAA
35612488 AACTTGGTGA
Statistics
Matches: 76, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
10 3 0.04
11 5 0.07
12 48 0.63
13 2 0.03
14 1 0.01
15 14 0.18
16 1 0.01
18 2 0.03
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (12 bp):
TGATTAAAAACT
Found at i:35612526 original size:28 final size:27
Alignment explanation
Indices: 35612475--35612538 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 27
35612465 TTGATTAATA
**
35612475 ACTTGATG-AAAAAAACTTGGTGAAAG
1 ACTTGATGAAAAAAAACTTAATGAAAG
* *
35612501 GCTTGATGAAAAAAACACTTAATGAATG
1 ACTTGATGAAAAAAA-ACTTAATGAAAG
35612529 ACTTGATGAA
1 ACTTGATGAA
35612539 TAAATGAACA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 7 0.23
27 6 0.19
28 18 0.58
ACGTcount: A:0.45, C:0.09, G:0.20, T:0.25
Consensus pattern (27 bp):
ACTTGATGAAAAAAAACTTAATGAAAG
Found at i:35618705 original size:23 final size:24
Alignment explanation
Indices: 35618679--35618729 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
35618669 AACTTGATGG
*
35618679 AAAACTTTATG-AAAAGCTTAA-AA
1 AAAACTTGATGCAAAA-CTTAATAA
35618702 AAAACTTGATGCAAAACTTAATAA
1 AAAACTTGATGCAAAACTTAATAA
35618726 AAAA
1 AAAA
35618730 AACTTGGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.59, C:0.10, G:0.08, T:0.24
Consensus pattern (24 bp):
AAAACTTGATGCAAAACTTAATAA
Found at i:35618777 original size:14 final size:13
Alignment explanation
Indices: 35618758--35618795 Score: 60
Period size: 12 Copynumber: 2.9 Consensus size: 13
35618748 TTGATTAGTA
35618758 ACTTGATGAAAAG
1 ACTTGATGAAAAG
35618771 CACTTGATG-AAAG
1 -ACTTGATGAAAAG
35618784 ACTTGATGAAAA
1 ACTTGATGAAAA
35618796 AAAAACACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.35
13 7 0.30
14 8 0.35
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.24
Consensus pattern (13 bp):
ACTTGATGAAAAG
Found at i:35620293 original size:33 final size:33
Alignment explanation
Indices: 35620225--35620319 Score: 111
Period size: 35 Copynumber: 2.8 Consensus size: 33
35620215 GGGGCGACAT
* *
35620225 AAGTGTATATATATATTATAAATATTTAAAGTTAA
1 AAGT-TATATATATATTAT-AATATTAAAACTTAA
35620260 AA-TATATATATATATTATAATATTAAAACTTAA
1 AAGT-TATATATATATTATAATATTAAAACTTAA
*
35620293 AAGTTAAGTATATATATTATTATATTA
1 AAGTT-A-TATATATATTATAATATTA
35620320 TAATAATTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
33 16 0.30
34 17 0.32
35 20 0.38
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.44
Consensus pattern (33 bp):
AAGTTATATATATATTATAATATTAAAACTTAA
Found at i:35620354 original size:17 final size:17
Alignment explanation
Indices: 35620332--35620367 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
35620322 ATAATTAAAT
35620332 AAAAGAAAAAGAATAGA
1 AAAAGAAAAAGAATAGA
* *
35620349 AAAAGAAAGAGCATAGA
1 AAAAGAAAAAGAATAGA
35620366 AA
1 AA
35620368 CGAAACAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.72, C:0.03, G:0.19, T:0.06
Consensus pattern (17 bp):
AAAAGAAAAAGAATAGA
Found at i:35621415 original size:78 final size:78
Alignment explanation
Indices: 35621286--35621501 Score: 362
Period size: 78 Copynumber: 2.8 Consensus size: 78
35621276 ACTTCGAGTT
* *
35621286 GATGAGACACTGGGTGTCAAATTATTACTTCAGATTAATTCGATGAGGCATTGGGTGCCAATTTA
1 GATGAGACACTAGGTGTCAAATTATTACTTCGGATTAATTCGATGAGGCATTGGGTGCCAATTTA
*
35621351 CTTCGGTTTAGTC
66 CTTCGATTTAGTC
*
35621364 GATGAGACACTAGGAGTCAAATTATTACTTCGGATTAATTCGATGAGGCATTGGGTGCCAATTTA
1 GATGAGACACTAGGTGTCAAATTATTACTTCGGATTAATTCGATGAGGCATTGGGTGCCAATTTA
35621429 CTTCGATTTAGTC
66 CTTCGATTTAGTC
* * *
35621442 GATGAGACACTAGGTGTCAAATTATTACTTCGAATT-ATCCGATGAGGCACTGGGTGCCAA
1 GATGAGACACTAGGTGTCAAATTATTACTTCGGATTAATTCGATGAGGCATTGGGTGCCAA
35621502 ACGGGTGTGT
Statistics
Matches: 130, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
77 22 0.17
78 108 0.83
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (78 bp):
GATGAGACACTAGGTGTCAAATTATTACTTCGGATTAATTCGATGAGGCATTGGGTGCCAATTTA
CTTCGATTTAGTC
Found at i:35621474 original size:40 final size:40
Alignment explanation
Indices: 35621286--35621502 Score: 205
Period size: 40 Copynumber: 5.5 Consensus size: 40
35621276 ACTTCGAGTT
* *
35621286 GATGAGACACTGGGTGTCAAATTATTACTTCAGATTAATTC
1 GATGAGACACTGGGTGTCAAATTATTACTTC-GATTTAGTC
* * * *
35621327 GATGAGGCATTGGGTG-CCAA-T-TTACTTCGGTTTAGTC
1 GATGAGACACTGGGTGTCAAATTATTACTTCGATTTAGTC
* * * *
35621364 GATGAGACACTAGGAGTCAAATTATTACTTCGGATTAATTC
1 GATGAGACACTGGGTGTCAAATTATTACTTC-GATTTAGTC
* * *
35621405 GATGAGGCATTGGGTG-CCAA-T-TTACTTCGATTTAGTC
1 GATGAGACACTGGGTGTCAAATTATTACTTCGATTTAGTC
* *
35621442 GATGAGACACTAGGTGTCAAATTATTACTTCGAATTA-TCC
1 GATGAGACACTGGGTGTCAAATTATTACTTCGATTTAGT-C
* *
35621482 GATGAGGCACTGGGTGCCAAA
1 GATGAGACACTGGGTGTCAAA
35621503 CGGGTGTGTT
Statistics
Matches: 139, Mismatches: 29, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
37 38 0.27
38 20 0.14
39 5 0.04
40 44 0.32
41 32 0.23
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAAATTATTACTTCGATTTAGTC
Found at i:35626831 original size:2 final size:2
Alignment explanation
Indices: 35626824--35626857 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
35626814 GAAAGTTTAA
35626824 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35626858 GAGAATTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35627081 original size:45 final size:44
Alignment explanation
Indices: 35626949--35627092 Score: 152
Period size: 45 Copynumber: 3.2 Consensus size: 44
35626939 ATTAATGAAA
*
35626949 ATAAAGGTGATTGCTATGTGCTGATTTCACTGGATACCAATG-GTT
1 ATAAAGGTGATTGCTATGTGCTGATTTCACTGG-TACCATTGAG-T
*
35626994 ATATAA-GTGATTGCTATGTGCTGAATTCACCCT-GTACCATTGAGT
1 ATA-AAGGTGATTGCTATGTGCTGATTTCA--CTGGTACCATTGAGT
* *
35627039 ATAAAGGT-AGTTGCTATGTGCTGATTTCACTGAGTACTATTGATT
1 ATAAAGGTGA-TTGCTATGTGCTGATTTCACTG-GTACCATTGAGT
*
35627084 ATAAGGGTG
1 ATAAAGGTG
35627093 GTGTTGTGTG
Statistics
Matches: 84, Mismatches: 6, Indels: 17
0.79 0.06 0.16
Matches are distributed among these distances:
43 2 0.02
44 3 0.04
45 73 0.87
46 4 0.05
47 2 0.02
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (44 bp):
ATAAAGGTGATTGCTATGTGCTGATTTCACTGGTACCATTGAGT
Found at i:35629020 original size:25 final size:25
Alignment explanation
Indices: 35628966--35629034 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
35628956 GGACTCACCA
*
35628966 CAGCTCGTATGAGCTTACCAATTTG
1 CAGCTCGTAGGAGCTTACCAATTTG
* * *
35628991 TAGCTCGTAGGAGTTTACCGATATT-
1 CAGCTCGTAGGAGCTTACCAAT-TTG
35629016 CAGCTCAG-AGGAGCTTACC
1 CAGCTC-GTAGGAGCTTACC
35629035 TTTTATCGCT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
25 33 0.92
26 3 0.08
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (25 bp):
CAGCTCGTAGGAGCTTACCAATTTG
Found at i:35634584 original size:25 final size:25
Alignment explanation
Indices: 35634530--35634598 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
35634520 GGACTCACCA
*
35634530 CAGCTCGTATGAGCTTACCAATTTG
1 CAGCTCGTAGGAGCTTACCAATTTG
* * *
35634555 TAGCTCGTAGGAGTTTACCGATATT-
1 CAGCTCGTAGGAGCTTACCAAT-TTG
35634580 CAGCTCAG-AGGAGCTTACC
1 CAGCTC-GTAGGAGCTTACC
35634599 TTTTATCGCT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
25 33 0.92
26 3 0.08
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (25 bp):
CAGCTCGTAGGAGCTTACCAATTTG
Found at i:35639995 original size:6 final size:6
Alignment explanation
Indices: 35639984--35640018 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
35639974 ATAAATTCAA
35639984 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAAA
35640019 TTATAATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:35648208 original size:29 final size:30
Alignment explanation
Indices: 35648141--35648209 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 30
35648131 ATTGTAACAC
* * **
35648141 GATAATATAAGTGACTAAAACATAACATTT
1 GATAACATAAATGACTAAAACATAACATGA
* *
35648171 TA-AACATAAATGACTAAAATATAACATGA
1 GATAACATAAATGACTAAAACATAACATGA
35648200 GATAA-ATAAA
1 GATAACATAAA
35648210 AATGACAATA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
29 28 0.90
30 3 0.10
ACGTcount: A:0.57, C:0.09, G:0.09, T:0.26
Consensus pattern (30 bp):
GATAACATAAATGACTAAAACATAACATGA
Found at i:35651294 original size:20 final size:20
Alignment explanation
Indices: 35651261--35651300 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
35651251 CTAGCGTTAT
* *
35651261 CTAAAGGCTTTGAAAAGTGA
1 CTAAAAGCTGTGAAAAGTGA
*
35651281 CTAAAAGCTGTGAAAGGTGA
1 CTAAAAGCTGTGAAAAGTGA
35651301 TGTGGAAAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.10, G:0.28, T:0.23
Consensus pattern (20 bp):
CTAAAAGCTGTGAAAAGTGA
Found at i:35656260 original size:43 final size:43
Alignment explanation
Indices: 35656181--35656314 Score: 164
Period size: 43 Copynumber: 3.1 Consensus size: 43
35656171 AGATTACGTA
* * *
35656181 TAAGACCATATCTGGGA-TATGACATCGATAAT-AGAATTCGTG
1 TAAGACCATATCTAGGACAATGGCATCGAT-ATGAGAATTCGTG
*
35656223 TAAGACCATCTCTAGGACAATGGCATCGATATGAGAATTCGTG
1 TAAGACCATATCTAGGACAATGGCATCGATATGAGAATTCGTG
* * * * *
35656266 TAAGACCATATCTAGGACATTGGTATCGATATGTGATTTTGTG
1 TAAGACCATATCTAGGACAATGGCATCGATATGAGAATTCGTG
35656309 TAAGAC
1 TAAGAC
35656315 TATGGTTGGG
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
42 17 0.21
43 63 0.79
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (43 bp):
TAAGACCATATCTAGGACAATGGCATCGATATGAGAATTCGTG
Found at i:35660893 original size:19 final size:19
Alignment explanation
Indices: 35660869--35660905 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
35660859 TATTTTAAAG
35660869 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
35660888 TTATTTAGGTAGATAAAT
1 TTATTTAGGTAGATAAAT
35660906 ATTAGAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.43
Consensus pattern (19 bp):
TTATTTAGGTAGATAAATC
Found at i:35660992 original size:41 final size:41
Alignment explanation
Indices: 35660947--35661026 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
35660937 ATAGTTTATT
35660947 TTATCTTTTAGTAGTTTA-TAGAATAAAGGGAATTATTTTTC
1 TTATCTTTTAGTAGTTTATTAGAAT-AAGGGAATTATTTTTC
35660988 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTT
1 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTT
35661027 CCCAATTAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 32 0.84
42 6 0.16
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.50
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTTC
Found at i:35666457 original size:27 final size:26
Alignment explanation
Indices: 35666419--35666469 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
35666409 AAATAGAAAA
35666419 AATAAAAAAAATAAAAATTGAAATTGC
1 AATAAAAAAAATAAAAA-TGAAATTGC
* *
35666446 AATAAAATAAATTAAAATGAAATT
1 AATAAAAAAAATAAAAATGAAATT
35666470 AAAACTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (26 bp):
AATAAAAAAAATAAAAATGAAATTGC
Found at i:35667592 original size:20 final size:19
Alignment explanation
Indices: 35667567--35667622 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
35667557 TGTCCTTGGT
35667567 TCAGCTCACTTGAGCTCAAG
1 TCAGCTCA-TTGAGCTCAAG
*
35667587 TCAGCTCATTCGAGCTCAAT
1 TCAGCTCATT-GAGCTCAAG
*
35667607 TCAGTTCATTGAGCTC
1 TCAGCTCATTGAGCTC
35667623 GTTATTAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 8 0.24
20 25 0.76
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (19 bp):
TCAGCTCATTGAGCTCAAG
Found at i:35668903 original size:19 final size:19
Alignment explanation
Indices: 35668879--35668925 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
35668869 TTGTGGTCTA
* * *
35668879 TAAAAAATTTGAAAAATAT
1 TAAAAAAATTCAAAAAAAT
35668898 TAAAAAAATTCAAAAAAAT
1 TAAAAAAATTCAAAAAAAT
35668917 TCAAAAAAA
1 T-AAAAAAA
35668926 AAGTAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.23
Consensus pattern (19 bp):
TAAAAAAATTCAAAAAAAT
Found at i:35668926 original size:11 final size:10
Alignment explanation
Indices: 35668880--35668925 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
35668870 TGTGGTCTAT
* *
35668880 AAAAAATTTG
1 AAAAAAATTC
*
35668890 AAAAATATT-
1 AAAAAAATTC
35668899 AAAAAAATTC
1 AAAAAAATTC
35668909 AAAAAAATTC
1 AAAAAAATTC
35668919 AAAAAAA
1 AAAAAAA
35668926 AAGTAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
9 8 0.25
10 24 0.75
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:35668948 original size:14 final size:14
Alignment explanation
Indices: 35668920--35668967 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
35668910 AAAAAATTCA
35668920 AAAAAAAAGT-A--
1 AAAAAAAAGTGAGC
35668931 AAAAAAAAGTGAGC
1 AAAAAAAAGTGAGC
*
35668945 AAAAAAAAGCGAGC
1 AAAAAAAAGTGAGC
35668959 ACAAAAAAA
1 A-AAAAAAA
35668968 TAAGAGTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 10 0.31
12 1 0.03
14 14 0.44
15 7 0.22
ACGTcount: A:0.73, C:0.08, G:0.15, T:0.04
Consensus pattern (14 bp):
AAAAAAAAGTGAGC
Found at i:35669824 original size:5 final size:6
Alignment explanation
Indices: 35669790--35669843 Score: 54
Period size: 6 Copynumber: 9.0 Consensus size: 6
35669780 TAACGAAATC
** * ** *
35669790 GAAAAA GAAAGT GAAGAA GAAAAA GAAAAA GAAAAA GAAATT GCAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
35669838 GAAAAA
1 GAAAAA
35669844 AAATCGAAAA
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.72, C:0.02, G:0.20, T:0.06
Consensus pattern (6 bp):
GAAAAA
Found at i:35669897 original size:18 final size:17
Alignment explanation
Indices: 35669814--35669945 Score: 74
Period size: 18 Copynumber: 7.6 Consensus size: 17
35669804 AGAAGAAAAA
35669814 GAAAAAGAAAAAGAAATT
1 GAAAAAGAAAAA-AAATT
* *
35669832 GCAAAAGAAAAAAAATC
1 GAAAAAGAAAAAAAATT
*
35669849 GAAAAAGTGAGAAAAAA-T
1 GAAAAA--GAAAAAAAATT
* *
35669867 GAAAACG-AAGAAAA--
1 GAAAAAGAAAAAAAATT
*
35669881 GAAAATTGAAAAAGAAATT
1 GAAAA-AGAAAAA-AAATT
* **
35669900 GAGATTGAGAAAAAAATT
1 GAAAAAGA-AAAAAAATT
* *
35669918 AAAAAAGAAAAAAATGTT
1 GAAAAAGAAAAAAA-ATT
35669936 GAAAAAGAAA
1 GAAAAAGAAA
35669946 CGAGAGGAAA
Statistics
Matches: 87, Mismatches: 18, Indels: 18
0.71 0.15 0.15
Matches are distributed among these distances:
14 5 0.06
15 6 0.07
16 4 0.05
17 18 0.21
18 39 0.45
19 15 0.17
ACGTcount: A:0.68, C:0.02, G:0.17, T:0.12
Consensus pattern (17 bp):
GAAAAAGAAAAAAAATT
Found at i:35671631 original size:20 final size:20
Alignment explanation
Indices: 35671606--35671679 Score: 100
Period size: 20 Copynumber: 3.8 Consensus size: 20
35671596 TCCTTGGTTT
35671606 AGCTCACTT-GAGCTCAAGTC
1 AGCTCA-TTCGAGCTCAAGTC
35671626 AGCTCATTCGAGCTCAAGTC
1 AGCTCATTCGAGCTCAAGTC
*
35671646 AGCTGATTCGAGCTC-AGTTC
1 AGCTCATTCGAGCTCAAG-TC
35671666 AGCTCATT-GAGCTC
1 AGCTCATTCGAGCTC
35671680 GTTATTAGCT
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
19 10 0.20
20 40 0.80
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (20 bp):
AGCTCATTCGAGCTCAAGTC
Found at i:35683308 original size:167 final size:168
Alignment explanation
Indices: 35683032--35683366 Score: 663
Period size: 167 Copynumber: 2.0 Consensus size: 168
35683022 TCAACAAAAA
35683032 TTTAAGCTAATTAATCTTGGAAAAATTCTGCTTTGGCCCGTCTTCTTTGCTCATTTCTTCAATCT
1 TTTAAGCTAATTAATCTTGGAAAAATTCTGCTTTGGCCCGTCTTCTTTGCTCATTTCTTCAATCT
35683097 AGCCCAATTGTTTCATTTTTCTTCTATTTAGCCCCAAATTGCATCCCTACACAAAATTCAACAAA
66 AGCCCAATTGTTTCATTTTTCTTCTATTTAGCCCCAAATTGCATCCCTACACAAAATTCAACAAA
35683162 AACGTGAAAAAATTAGTGGTGCACTCT-ATAAATTAAC
131 AACGTGAAAAAATTAGTGGTGCACTCTCATAAATTAAC
35683199 TTTAAGCTAATTAATCTTGGAAAAATTCTGCTTTGGCCCGTCTTCTTTGCTCATTTCTTCAATCT
1 TTTAAGCTAATTAATCTTGGAAAAATTCTGCTTTGGCCCGTCTTCTTTGCTCATTTCTTCAATCT
35683264 AGCCCAATTGTTTCATTTTTCTTCTATTTAGCCCCAAATTGCATCCCTACACAAAATTCAACAAA
66 AGCCCAATTGTTTCATTTTTCTTCTATTTAGCCCCAAATTGCATCCCTACACAAAATTCAACAAA
35683329 AACGTGAAAAAATTAGTGGTGCACTCTCATAAATTAAC
131 AACGTGAAAAAATTAGTGGTGCACTCTCATAAATTAAC
35683367 CAATTTAATT
Statistics
Matches: 167, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
167 157 0.94
168 10 0.06
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.36
Consensus pattern (168 bp):
TTTAAGCTAATTAATCTTGGAAAAATTCTGCTTTGGCCCGTCTTCTTTGCTCATTTCTTCAATCT
AGCCCAATTGTTTCATTTTTCTTCTATTTAGCCCCAAATTGCATCCCTACACAAAATTCAACAAA
AACGTGAAAAAATTAGTGGTGCACTCTCATAAATTAAC
Found at i:35684207 original size:47 final size:46
Alignment explanation
Indices: 35684144--35684241 Score: 126
Period size: 47 Copynumber: 2.1 Consensus size: 46
35684134 CATAGACCTA
* * * *
35684144 ATGTAAAAAGCTTGATTAGGTGGGTC-GAATCAAGTAGAGATATTGT
1 ATGTAAAAAGATTGATTAGGT-GGTCTAAATCAAGTAAAAATATTGT
*
35684190 ATGTAACAAAGATTGATTAGGTGGTCTAAATCAGGTAAAAATATTGT
1 ATGTAA-AAAGATTGATTAGGTGGTCTAAATCAAGTAAAAATATTGT
35684237 ATGTA
1 ATGTA
35684242 GTTGTATTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
46 10 0.22
47 35 0.78
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (46 bp):
ATGTAAAAAGATTGATTAGGTGGTCTAAATCAAGTAAAAATATTGT
Found at i:35692222 original size:16 final size:16
Alignment explanation
Indices: 35692179--35692230 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
35692169 GGATTGTTGC
35692179 ATTTTATTTATTTGCTG
1 ATTTTATTTATTTG-TG
35692196 AATTTTATTTATTTGTG
1 -ATTTTATTTATTTGTG
* *
35692213 ATTTTGTTTATTAGTG
1 ATTTTATTTATTTGTG
35692229 AT
1 AT
35692231 GTTTTCTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 16 0.50
17 2 0.06
18 14 0.44
ACGTcount: A:0.21, C:0.02, G:0.13, T:0.63
Consensus pattern (16 bp):
ATTTTATTTATTTGTG
Found at i:35695059 original size:52 final size:53
Alignment explanation
Indices: 35694976--35695079 Score: 140
Period size: 52 Copynumber: 2.0 Consensus size: 53
35694966 AATTTTGCTT
*
35694976 CATGCATCTGTAAGTGAAATGTGTGTGTATATA-TATTCTTTTGATATATTTG
1 CATGCATCCGTAAGTGAAATGTGTGTGTATATATTATTCTTTTGATATATTTG
* * *
35695028 CATGCATCCGTAAGTGAAATTTGCT-TTTATATATTTATTCTTTTGATGTATT
1 CATGCATCCGTAAGTGAAATGTG-TGTGTATATA-TTATTCTTTTGATATATT
35695080 CTTTCAATCT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
52 28 0.62
53 1 0.02
54 16 0.36
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.48
Consensus pattern (53 bp):
CATGCATCCGTAAGTGAAATGTGTGTGTATATATTATTCTTTTGATATATTTG
Found at i:35699408 original size:7 final size:7
Alignment explanation
Indices: 35699398--35699422 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
35699388 TTAAATTTGG
35699398 ATTTCAA
1 ATTTCAA
35699405 ATTTCAA
1 ATTTCAA
35699412 ATTTCAA
1 ATTTCAA
35699419 ATTT
1 ATTT
35699423 TGAAATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (7 bp):
ATTTCAA
Found at i:35699437 original size:22 final size:21
Alignment explanation
Indices: 35699412--35699468 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
35699402 CAAATTTCAA
*
35699412 ATTTCAAATTTTGAAATTTATT
1 ATTTCAAATTTTG-AATTCATT
*
35699434 ATTT-ATGATTTATGAATTCATT
1 ATTTCA-AATTT-TGAATTCATT
35699456 ATTTCTAAATTTT
1 ATTTC-AAATTTT
35699469 TTTGTTTGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
21 1 0.04
22 20 0.71
23 6 0.21
24 1 0.04
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (21 bp):
ATTTCAAATTTTGAATTCATT
Found at i:35699954 original size:107 final size:108
Alignment explanation
Indices: 35699768--35699982 Score: 423
Period size: 107 Copynumber: 2.0 Consensus size: 108
35699758 ATTAAAAAAC
35699768 TATTTTCAAATTCTTTTGCAATTGAATTGATATGAACTTTATATAATCATAGATATTATAGTATA
1 TATTTTCAAATTCTTTTGCAATTGAATTGATATGAACTTTATATAATCATAGATATTATAGTATA
35699833 AATAATAACAACAATGTTATCTTTCAAAATT-AAAAATATCTA
66 AATAATAACAACAATGTTATCTTTCAAAATTAAAAAATATCTA
35699875 TATTTTCAAATTCTTTTGCAATTGAATTGATATGAACTTTATATAATCATAGATATTATAGTATA
1 TATTTTCAAATTCTTTTGCAATTGAATTGATATGAACTTTATATAATCATAGATATTATAGTATA
35699940 AATAATAACAACAATGTTATCTTTCAAAATTAAAAAATATCTA
66 AATAATAACAACAATGTTATCTTTCAAAATTAAAAAATATCTA
35699983 AAACATTAAA
Statistics
Matches: 107, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
107 96 0.90
108 11 0.10
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (108 bp):
TATTTTCAAATTCTTTTGCAATTGAATTGATATGAACTTTATATAATCATAGATATTATAGTATA
AATAATAACAACAATGTTATCTTTCAAAATTAAAAAATATCTA
Found at i:35712939 original size:13 final size:13
Alignment explanation
Indices: 35712918--35712956 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
35712908 TCTAAAATCG
35712918 AAATTAAAACCTC
1 AAATTAAAACCTC
*
35712931 AAATAAAAACC-C
1 AAATTAAAACCTC
*
35712943 AAATTGAAACCTC
1 AAATTAAAACCTC
35712956 A
1 A
35712957 TCCCACGCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.56, C:0.23, G:0.03, T:0.18
Consensus pattern (13 bp):
AAATTAAAACCTC
Found at i:35721961 original size:47 final size:47
Alignment explanation
Indices: 35721908--35721998 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 47
35721898 CCTAATGTAC
*
35721908 AAAGCTTGATTAGGTGAG-CTGAATCAGGTAGAGATATTGTATGTGAT
1 AAAGCTTGATTAGGTG-GTCTGAATCAGGTAAAGATATTGTATGTGAT
* *
35721955 AAAGCTTGATTAGGTGGTTTGAATCAGGTAAATATATTGTATGT
1 AAAGCTTGATTAGGTGGTCTGAATCAGGTAAAGATATTGTATGT
35721999 AACTGTATTG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 1 0.03
47 39 0.98
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.35
Consensus pattern (47 bp):
AAAGCTTGATTAGGTGGTCTGAATCAGGTAAAGATATTGTATGTGAT
Found at i:35723802 original size:16 final size:16
Alignment explanation
Indices: 35723781--35723839 Score: 66
Period size: 16 Copynumber: 3.7 Consensus size: 16
35723771 TATTCCAGTC
35723781 AGGGATATCCCATTCT
1 AGGGATATCCCATTCT
**
35723797 AGGGATATCCC-GGCT
1 AGGGATATCCCATTCT
* *
35723812 TGGGATATCTCATTCT
1 AGGGATATCCCATTCT
35723828 AGGGGATATCCC
1 A-GGGATATCCC
35723840 GGCTTGGGTC
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
15 11 0.33
16 13 0.39
17 9 0.27
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (16 bp):
AGGGATATCCCATTCT
Found at i:35723820 original size:31 final size:32
Alignment explanation
Indices: 35723782--35723847 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
35723772 ATTCCAGTCA
35723782 GGGATATCCCATTCTA-GGGATATCCCGGCTT
1 GGGATATCCCATTCTAGGGGATATCCCGGCTT
*
35723813 GGGATATCTCATTCTAGGGGATATCCCGGCTT
1 GGGATATCCCATTCTAGGGGATATCCCGGCTT
35723845 GGG
1 GGG
35723848 TCTAGGGGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 15 0.45
32 18 0.55
ACGTcount: A:0.18, C:0.23, G:0.30, T:0.29
Consensus pattern (32 bp):
GGGATATCCCATTCTAGGGGATATCCCGGCTT
Found at i:35725756 original size:7 final size:7
Alignment explanation
Indices: 35725740--35725770 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
35725730 ATAGAGAAAA
*
35725740 AGGGTTT
1 AGGGTCT
35725747 AGGGTCT
1 AGGGTCT
35725754 AGGGTCT
1 AGGGTCT
35725761 AGGGTCT
1 AGGGTCT
35725768 AGG
1 AGG
35725771 CTTGAGGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.16, C:0.10, G:0.45, T:0.29
Consensus pattern (7 bp):
AGGGTCT
Done.