Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 280 of 295
Found at i:95423530 original size:5 final size:5
Alignment explanation
Indices: 95423520--95423551 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
95423510 GATCCTGAGG
*
95423520 CGGGT CGGGT CGGGT CGGGT CGGAT CGGGT CG
1 CGGGT CGGGT CGGGT CGGGT CGGGT CGGGT CG
95423552 TATCAAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.03, C:0.22, G:0.56, T:0.19
Consensus pattern (5 bp):
CGGGT
Found at i:95424559 original size:19 final size:20
Alignment explanation
Indices: 95424531--95424569 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
95424521 ATGTCTCATG
95424531 GAAAAAGAAA-A-TGTTTCA
1 GAAAAAGAAAGATTGTTTCA
95424549 GAAATAAGAAAGATTGTTTCA
1 GAAA-AAGAAAGATTGTTTCA
95424570 AATGCAAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 6 0.33
20 1 0.06
21 7 0.39
ACGTcount: A:0.51, C:0.05, G:0.18, T:0.26
Consensus pattern (20 bp):
GAAAAAGAAAGATTGTTTCA
Found at i:95428114 original size:20 final size:20
Alignment explanation
Indices: 95428077--95428115 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
95428067 TATTTTTTCT
*
95428077 GCTAAATCAAAAGGTTATTG
1 GCTAAATCAAAAGATTATTG
* *
95428097 GCTAAATTAAAATATTATT
1 GCTAAATCAAAAGATTATT
95428116 ATTCATTCTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.36
Consensus pattern (20 bp):
GCTAAATCAAAAGATTATTG
Found at i:95428628 original size:15 final size:16
Alignment explanation
Indices: 95428608--95428645 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
95428598 TATTCTAAAC
95428608 TAATTTTTAATT-TTT
1 TAATTTTTAATTATTT
95428623 TAA-TTTTAATTATTT
1 TAATTTTTAATTATTT
95428638 TAATTTTT
1 TAATTTTT
95428646 CTATAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 9 0.43
16 4 0.19
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TAATTTTTAATTATTT
Found at i:95428820 original size:21 final size:20
Alignment explanation
Indices: 95428794--95428833 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
95428784 GACAATAAAA
*
95428794 ATATATATAATAATCATTTAT
1 ATATATATAA-AAACATTTAT
*
95428815 ATATATGTAAAAACATTTA
1 ATATATATAAAAACATTTA
95428834 AAAACATCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (20 bp):
ATATATATAAAAACATTTAT
Found at i:95439707 original size:42 final size:42
Alignment explanation
Indices: 95439646--95439731 Score: 138
Period size: 42 Copynumber: 2.0 Consensus size: 42
95439636 ATTGGAGGCG
*
95439646 GCGGTCGCCGTCACCGATGA-TCGGTGGCCAGGGTGCAGACTC
1 GCGGTCGCCGTCACCGATGACT-GGTGGCCAGGGCGCAGACTC
*
95439688 GCGGTCGCCGTCACTGATGACTGGTGGCCAGGGCGCAGACTC
1 GCGGTCGCCGTCACCGATGACTGGTGGCCAGGGCGCAGACTC
95439730 GC
1 GC
95439732 TGGCTCCGTG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
42 40 0.98
43 1 0.02
ACGTcount: A:0.14, C:0.31, G:0.38, T:0.16
Consensus pattern (42 bp):
GCGGTCGCCGTCACCGATGACTGGTGGCCAGGGCGCAGACTC
Found at i:95440266 original size:14 final size:12
Alignment explanation
Indices: 95440237--95440284 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
95440227 TTTGCCTACT
*
95440237 TTTTTTTATATA
1 TTTTTTTATTTA
95440249 -TTTTTTATCGTTA
1 TTTTTTTAT--TTA
95440262 TTTTTTTATTTA
1 TTTTTTTATTTA
*
95440274 TTTTATTATTT
1 TTTTTTTATTT
95440285 TCGGTACTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
11 8 0.26
12 13 0.42
13 2 0.06
14 8 0.26
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (12 bp):
TTTTTTTATTTA
Found at i:95459471 original size:23 final size:24
Alignment explanation
Indices: 95459426--95459471 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
95459416 CATTATCACA
* *
95459426 TAAAATATAACATTTAAAAAAAAT
1 TAAAATATAAAATTAAAAAAAAAT
95459450 TAAAAT-TAAAATTAAAAAAAAA
1 TAAAATATAAAATTAAAAAAAAA
95459472 AGTCAGCGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (24 bp):
TAAAATATAAAATTAAAAAAAAAT
Found at i:95461270 original size:22 final size:20
Alignment explanation
Indices: 95461245--95461304 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
95461235 TAATATTTAG
95461245 TTGAAAATTACAAAAATGAAT-T
1 TTGAAAATTA-AAAAA--AATAT
*
95461267 TTGAAAAATAAAAAAAATAT
1 TTGAAAATTAAAAAAAATAT
*
95461287 GTGAAAATTAGAAAAAAA
1 TTGAAAATTA-AAAAAAA
95461305 AAGTTATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 3 0.09
20 9 0.27
21 12 0.36
22 9 0.27
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.25
Consensus pattern (20 bp):
TTGAAAATTAAAAAAAATAT
Found at i:95461749 original size:30 final size:30
Alignment explanation
Indices: 95461714--95461773 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
95461704 ACTTAACAAG
95461714 CAAATGCCACTAAAATAATAACAAAATTAA
1 CAAATGCCACTAAAATAATAACAAAATTAA
* **
95461744 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCACTAAAATAATAACAAAATTAA
95461774 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCACTAAAATAATAACAAAATTAA
Found at i:95468976 original size:7 final size:7
Alignment explanation
Indices: 95468966--95468994 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
95468956 ATTTATATTA
95468966 AATTTCG
1 AATTTCG
95468973 AATTTCG
1 AATTTCG
95468980 AATTTCG
1 AATTTCG
95468987 AATTTCG
1 AATTTCG
95468994 A
1 A
95468995 GTTTAGAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (7 bp):
AATTTCG
Found at i:95478057 original size:29 final size:30
Alignment explanation
Indices: 95477993--95478057 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
95477983 ATTCGGTCTT
* *
95477993 ATTTGATTCTTTTCAATAGTACAGGGACTA
1 ATTTGATTCATTTCAATAATACAGGGACTA
* *
95478023 AATTGATTCATTT-AATAATAGAGGGA-TGA
1 ATTTGATTCATTTCAATAATACAGGGACT-A
95478052 ATTTGA
1 ATTTGA
95478058 GCATGTCCCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
28 1 0.03
29 17 0.59
30 11 0.38
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.38
Consensus pattern (30 bp):
ATTTGATTCATTTCAATAATACAGGGACTA
Found at i:95480095 original size:42 final size:41
Alignment explanation
Indices: 95480032--95480159 Score: 184
Period size: 42 Copynumber: 3.0 Consensus size: 41
95480022 ATTCGACGTT
* *
95480032 TTGGTTGATACATTCAATGATTTAACGAGCTTGGTTTGGTTC
1 TTGGTGGATACATTC-ATGATTTAACAAGCTTGGTTTGGTTC
*
95480074 TTGGTGGATACATTCACTGATTTAACCAGCTTGGTTTGGTTC
1 TTGGTGGATACATTCA-TGATTTAACAAGCTTGGTTTGGTTC
* *
95480116 TTGGTGGATACATTTGATGGTTTAACAAGCTTGGTTTGGTTC
1 TTGGTGGATACA-TTCATGATTTAACAAGCTTGGTTTGGTTC
95480158 TT
1 TT
95480160 CTTGTTGGAA
Statistics
Matches: 79, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
41 1 0.01
42 75 0.95
43 3 0.04
ACGTcount: A:0.20, C:0.12, G:0.25, T:0.43
Consensus pattern (41 bp):
TTGGTGGATACATTCATGATTTAACAAGCTTGGTTTGGTTC
Found at i:95481806 original size:30 final size:30
Alignment explanation
Indices: 95481766--95481834 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
95481756 AGTTTATATC
* *
95481766 TTTATAATTTTTAAAA-AATTAAATTAAAAT
1 TTTATTATTTTTAAAAGAA-TAAAATAAAAT
*
95481796 TTTATTATTTTTAAAAGAATAAAATATAAT
1 TTTATTATTTTTAAAAGAATAAAATAAAAT
*
95481826 TTTACTATT
1 TTTATTATT
95481835 ACTAATTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 32 0.94
31 2 0.06
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (30 bp):
TTTATTATTTTTAAAAGAATAAAATAAAAT
Found at i:95493158 original size:19 final size:20
Alignment explanation
Indices: 95493121--95493161 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
95493111 TACAACACAA
*
95493121 TTCAATTTCATATTGAATAT
1 TTCAATTTCATATTCAATAT
*
95493141 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTCAATAT
95493160 TT
1 TT
95493162 GCTTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (20 bp):
TTCAATTTCATATTCAATAT
Found at i:95495099 original size:21 final size:22
Alignment explanation
Indices: 95495060--95495101 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
95495050 ATTTAATTTA
95495060 ATTTATATATAAATATTTGTTT
1 ATTTATATATAAATATTTGTTT
*
95495082 ATTTATAT-TAACTATTTGTT
1 ATTTATATATAAATATTTGTT
95495102 CGCTAACGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (22 bp):
ATTTATATATAAATATTTGTTT
Found at i:95504578 original size:30 final size:30
Alignment explanation
Indices: 95504544--95504606 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
95504534 ACTTATTTTA
*
95504544 TTGTTAATTTTGTTATTATTTTAAAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
95504574 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
95504604 TTG
1 TTG
95504607 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:95506882 original size:15 final size:15
Alignment explanation
Indices: 95506855--95506913 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
95506845 AACACTAATT
*
95506855 TTTC-CTTTTTTTTC
1 TTTCTCTTTCTTTTC
95506869 TTTCTCTTTCTTTTC
1 TTTCTCTTTCTTTTC
*
95506884 TTTCTATTTCGTTTTC
1 TTTCTCTTTC-TTTTC
**
95506900 ACTCTCTGTTCTTT
1 TTTCTCT-TTCTTT
95506914 CGTTAAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 4 0.11
15 18 0.49
16 12 0.32
17 3 0.08
ACGTcount: A:0.03, C:0.24, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTCTCTTTCTTTTC
Found at i:95506970 original size:16 final size:16
Alignment explanation
Indices: 95506949--95506986 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
95506939 CTTTGTTTAC
*
95506949 TTAATATATTATAATA
1 TTAATATAATATAATA
95506965 TTAATATAATATAATA
1 TTAATATAATATAATA
95506981 -TAATAT
1 TTAATAT
95506987 TATTTACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAATATAATATAATA
Found at i:95506974 original size:5 final size:5
Alignment explanation
Indices: 95506950--95506986 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
95506940 TTTGTTTACT
*
95506950 TAATA TATTA TAATA TTAATA TAATA TAATA TAATA T
1 TAATA TAATA TAATA -TAATA TAATA TAATA TAATA T
95506987 TATTTACTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (5 bp):
TAATA
Found at i:95509787 original size:46 final size:45
Alignment explanation
Indices: 95509714--95509982 Score: 249
Period size: 46 Copynumber: 5.8 Consensus size: 45
95509704 TATTTGGGCA
95509714 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
** * *** * *
95509760 TTTGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
95509807 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
95509853 TTCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
95509900 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
95509946 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
95509983 GCGGGTTACA
Statistics
Matches: 177, Mismatches: 32, Indels: 28
0.75 0.14 0.12
Matches are distributed among these distances:
43 2 0.01
44 6 0.03
45 2 0.01
46 97 0.55
47 60 0.34
48 2 0.01
49 6 0.03
50 2 0.01
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:95509827 original size:47 final size:47
Alignment explanation
Indices: 95509766--95509928 Score: 199
Period size: 47 Copynumber: 3.5 Consensus size: 47
95509756 AATGTTTGAA
*
95509766 CTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAG
*** * * * *
95509813 CTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATGTTCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--TCCGAG
95509859 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAG
95509906 CTCGTTGAGTTGAGTCCGAGTTC
1 CTCGTTGAGTTGAGTCCGAGTTC
95509929 ACTTATGGAT
Statistics
Matches: 94, Mismatches: 15, Indels: 14
0.76 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 31 0.33
47 53 0.56
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.29
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAG
Found at i:95509869 original size:93 final size:93
Alignment explanation
Indices: 95509710--95509974 Score: 467
Period size: 93 Copynumber: 2.8 Consensus size: 93
95509700 GGGATATTTG
* *
95509710 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTTGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAG
*
95509775 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
95509803 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAG
95509868 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* ** *
95509896 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAG
95509961 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
95509975 ACTTATGGGC
Statistics
Matches: 165, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 165 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:95511818 original size:15 final size:15
Alignment explanation
Indices: 95511779--95511857 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
95511769 GTATCTTGGG
*
95511779 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
95511794 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
95511809 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
95511823 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
95511838 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
95511852 TTTCTT
1 TTTCTT
95511858 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:95511842 original size:29 final size:29
Alignment explanation
Indices: 95511770--95511856 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
95511760 CATAATATCG
* * * *
95511770 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
95511800 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
95511829 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
95511857 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:95513834 original size:45 final size:45
Alignment explanation
Indices: 95513769--95513941 Score: 190
Period size: 45 Copynumber: 3.8 Consensus size: 45
95513759 ATTTGGGCAT
95513769 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *** * *
95513814 TCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCAT-
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* *
95513861 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
95513906 CCCGAGCTCGTTGAGTTGAGT-CGAGTTCGCTTATGG
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
95513942 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 42 0.40
46 28 0.26
47 27 0.25
48 4 0.04
49 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:95513931 original size:92 final size:92
Alignment explanation
Indices: 95513764--95513934 Score: 290
Period size: 92 Copynumber: 1.9 Consensus size: 92
95513754 GGGATATTTG
* *
95513764 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCGAACTCGTTGAGT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCGAACTCGTTGAGT
95513829 TGAGTCCGAGTTCGAGAGATGTAACTA
66 TGAGTCCGAGTTCGAGAGATGTAACTA
* *
95513856 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCGAACTCGTTGAG
95513921 TTGAGT-CGAGTTCG
65 TTGAGTCCGAGTTCG
95513935 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 56 0.76
93 18 0.24
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.27
Consensus pattern (92 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:95522959 original size:22 final size:23
Alignment explanation
Indices: 95522934--95522979 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
95522924 CAACCAAATC
95522934 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
95522956 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
95522979 A
1 A
95522980 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:95522985 original size:23 final size:23
Alignment explanation
Indices: 95522941--95522985 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
95522931 ATCAATTCAA
*
95522941 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
95522964 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
95522986 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:95527806 original size:24 final size:26
Alignment explanation
Indices: 95527778--95527826 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
95527768 CTTATTTTGA
* *
95527778 TATTTG-TTT-TTATGTTTTTAAATG
1 TATTTGATTTATTATATTTTAAAATG
95527802 TATTTGATTTATTATATTTTAAAAT
1 TATTTGATTTATTATATTTTAAAAT
95527827 TTTTATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (26 bp):
TATTTGATTTATTATATTTTAAAATG
Found at i:95530091 original size:19 final size:18
Alignment explanation
Indices: 95530067--95530105 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
95530057 TCTCAATTCA
*
95530067 TCATTTCATATTTCATTTC
1 TCATTTCATA-ATCATTTC
95530086 TCATTTCATAATCATTTC
1 TCATTTCATAATCATTTC
95530104 TC
1 TC
95530106 GTATTTTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (18 bp):
TCATTTCATAATCATTTC
Found at i:95530167 original size:43 final size:43
Alignment explanation
Indices: 95530082--95530167 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
95530072 TCATATTTCA
* * * * *
95530082 TTTCTCATTTCATAATCATTTCTCGTATTTTCTATTTGAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAATAT
* *
95530125 TTTCTCATCTCATATTCATTTCTCATCTTTGCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAATAT
95530168 CAATCACATA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.22, C:0.21, G:0.03, T:0.53
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAATAT
Found at i:95536307 original size:16 final size:16
Alignment explanation
Indices: 95536283--95536325 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
95536273 TAAAAATAAT
* *
95536283 TTAAAATATAATTTTA
1 TTAATATATAAATTTA
95536299 TTAATATATATAAATTTA
1 TT-A-ATATATAAATTTA
95536317 TTAATATAT
1 TTAATATAT
95536326 GTAAAAATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 8 0.35
17 2 0.09
18 13 0.57
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAATATATAAATTTA
Found at i:95536311 original size:18 final size:18
Alignment explanation
Indices: 95536288--95536330 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
95536278 ATAATTTAAA
*
95536288 ATATAATTTTATTAATAT
1 ATATAAATTTATTAATAT
95536306 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
95536324 ATGTAAA
1 ATATAAA
95536331 AATAGTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:95536430 original size:19 final size:20
Alignment explanation
Indices: 95536406--95536451 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
95536396 CATCCAAACA
95536406 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
95536425 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
95536445 CCAGAAA
1 CCAGAAA
95536452 TCATTTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:95536454 original size:14 final size:14
Alignment explanation
Indices: 95536435--95536472 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
95536425 CCAGAAAAGT
95536435 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
95536449 AAATCATTTTTCAG
1 AAATCATTTTCCAG
*
95536463 AAAACATTTT
1 AAATCATTTT
95536473 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:95546118 original size:17 final size:17
Alignment explanation
Indices: 95546096--95546144 Score: 89
Period size: 17 Copynumber: 2.9 Consensus size: 17
95546086 AAAAGGCATT
*
95546096 ATTTTTAATATTTATTA
1 ATTTTTAAAATTTATTA
95546113 ATTTTTAAAATTTATTA
1 ATTTTTAAAATTTATTA
95546130 ATTTTTAAAATTTAT
1 ATTTTTAAAATTTAT
95546145 ATTATATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTTAAAATTTATTA
Found at i:95546921 original size:27 final size:27
Alignment explanation
Indices: 95546873--95546985 Score: 73
Period size: 27 Copynumber: 4.0 Consensus size: 27
95546863 GGCTTCAATG
* * * *
95546873 TTCACTTTGGTACCTGAATTTTTTTTT
1 TTCAATTTGATACTTGAGTTTTTTTTT
*
95546900 TTCAATTTGATACTTGAGTTTTTTTGT
1 TTCAATTTGATACTTGAGTTTTTTTTT
** * ** *
95546927 CCCAATTTAAGTACTTGAGTTTAGCTTCAATG
1 TTCAATTTGA-TACTTGAGTTT---TT-TTTT
*
95546959 TTCAATTTGATACTTTAGTTTTTTTTT
1 TTCAATTTGATACTTGAGTTTTTTTTT
95546986 CCTAATTACA
Statistics
Matches: 62, Mismatches: 19, Indels: 10
0.68 0.21 0.11
Matches are distributed among these distances:
27 30 0.48
28 13 0.21
31 12 0.19
32 7 0.11
ACGTcount: A:0.20, C:0.12, G:0.12, T:0.55
Consensus pattern (27 bp):
TTCAATTTGATACTTGAGTTTTTTTTT
Found at i:95547135 original size:26 final size:27
Alignment explanation
Indices: 95547084--95547135 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
95547074 GAAGCCAAAT
95547084 TCAAGTACCAAATTGGGACAAGAAAAA
1 TCAAGTACCAAATTGGGACAAGAAAAA
*
95547111 TCAAGTACCAAATT-GGACAATAAAA
1 TCAAGTACCAAATTGGGACAAGAAAA
95547136 CTAAGGTCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.17
Consensus pattern (27 bp):
TCAAGTACCAAATTGGGACAAGAAAAA
Found at i:95547396 original size:31 final size:31
Alignment explanation
Indices: 95547361--95547427 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 31
95547351 ATTTTTAGGG
*
95547361 TTAATATATT-ATTTGATATTTAAATTTAATT
1 TTAATAT-TTAATTTGATATGTAAATTTAATT
* * * *
95547392 TTAATGTTTAATTTGGTATGTAATTTTAGTT
1 TTAATATTTAATTTGATATGTAAATTTAATT
95547423 TTAAT
1 TTAAT
95547428 GTTCACTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 2 0.07
31 28 0.93
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (31 bp):
TTAATATTTAATTTGATATGTAAATTTAATT
Found at i:95547428 original size:31 final size:31
Alignment explanation
Indices: 95547371--95547430 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
95547361 TTAATATATT
*
95547371 ATTTGATATTTAAATTTAATTTTAATGTTTA
1 ATTTGATATGTAAATTTAATTTTAATGTTTA
* * *
95547402 ATTTGGTATGTAATTTTAGTTTTAATGTT
1 ATTTGATATGTAAATTTAATTTTAATGTT
95547431 CACTTTAGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (31 bp):
ATTTGATATGTAAATTTAATTTTAATGTTTA
Found at i:95548539 original size:11 final size:11
Alignment explanation
Indices: 95548523--95548554 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
95548513 AATTTTAAGT
95548523 AAAAAAAAATA
1 AAAAAAAAATA
95548534 AAAAAAAAATA
1 AAAAAAAAATA
95548545 AAAAATAAAA
1 AAAAA-AAAA
95548555 ACAGTTATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (11 bp):
AAAAAAAAATA
Found at i:95549940 original size:29 final size:29
Alignment explanation
Indices: 95549898--95549965 Score: 127
Period size: 29 Copynumber: 2.3 Consensus size: 29
95549888 AGACCCAATA
*
95549898 ACCCCAATCAAACCCATTCCCAATACATT
1 ACCCAAATCAAACCCATTCCCAATACATT
95549927 ACCCAAATCAAACCCATTCCCAATACATT
1 ACCCAAATCAAACCCATTCCCAATACATT
95549956 ACCCAAATCA
1 ACCCAAATCA
95549966 TTAAGCCCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.41, C:0.40, G:0.00, T:0.19
Consensus pattern (29 bp):
ACCCAAATCAAACCCATTCCCAATACATT
Found at i:95551266 original size:18 final size:17
Alignment explanation
Indices: 95551238--95551271 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
95551228 TCATTTTCTG
95551238 TATTTTATTTGTTATAA
1 TATTTTATTTGTTATAA
95551255 TATTTATATTTGTTATA
1 TATTT-TATTTGTTATA
95551272 TTAAATGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (17 bp):
TATTTTATTTGTTATAA
Found at i:95551826 original size:27 final size:27
Alignment explanation
Indices: 95551795--95551846 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
95551785 CTATGCATAC
* * *
95551795 ATACTTTTAACATTATATTTTATATGT
1 ATACTCTTAACATCATATTATATATGT
95551822 ATACTCTTAACATCATATTATATAT
1 ATACTCTTAACATCATATTATATAT
95551847 ATATCTTGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.50
Consensus pattern (27 bp):
ATACTCTTAACATCATATTATATATGT
Found at i:95552329 original size:16 final size:16
Alignment explanation
Indices: 95552278--95552319 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
95552268 ATATGTCATG
* *
95552278 TATTATATT-TTTGCA
1 TATTATCTTATTTACA
95552293 TATTATCTTATTTACA
1 TATTATCTTATTTACA
95552309 TATTATCTTAT
1 TATTATCTTAT
95552320 ATTATTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.60
Consensus pattern (16 bp):
TATTATCTTATTTACA
Found at i:95553550 original size:27 final size:27
Alignment explanation
Indices: 95553512--95553565 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
95553502 TGGACATGGC
95553512 ACAATCTTAAAGT-TCCATGTCATCATA
1 ACAATCTTAAAGTAT-CATGTCATCATA
*
95553539 ACAATCTTAAAGTATTATGTCATCATA
1 ACAATCTTAAAGTATCATGTCATCATA
95553566 CCTTATGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.35
Consensus pattern (27 bp):
ACAATCTTAAAGTATCATGTCATCATA
Found at i:95554331 original size:21 final size:22
Alignment explanation
Indices: 95554284--95554330 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
95554274 TTTTATATTT
*
95554284 AAAATCATGAAAATTATAAAAA
1 AAAATCATGAAAATAATAAAAA
95554306 AAAATCAT-AAAAGTAATAAAAA
1 AAAATCATGAAAA-TAATAAAAA
95554328 AAA
1 AAA
95554331 TTACAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.19
Consensus pattern (22 bp):
AAAATCATGAAAATAATAAAAA
Found at i:95560492 original size:15 final size:15
Alignment explanation
Indices: 95560472--95560501 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
95560462 ATAACATTGT
95560472 AAAATAAGATAAAAA
1 AAAATAAGATAAAAA
*
95560487 AAAATAAGTTAAAAA
1 AAAATAAGATAAAAA
95560502 CACTATACCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.17
Consensus pattern (15 bp):
AAAATAAGATAAAAA
Found at i:95569610 original size:14 final size:14
Alignment explanation
Indices: 95569591--95569630 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
95569581 TTGATTGGCA
95569591 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
95569605 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
95569619 GGAAAATGTTTT
1 GTAAAATGTTTT
95569631 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:95569643 original size:34 final size:35
Alignment explanation
Indices: 95569599--95569665 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
95569589 CAGTAAAATG
* *
95569599 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
95569633 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
95569666 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:95569652 original size:20 final size:20
Alignment explanation
Indices: 95569614--95569653 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
95569604 CGTAAAATGA
**
95569614 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
95569634 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
95569654 GGAAAATATT
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:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:95571031 original size:27 final size:27
Alignment explanation
Indices: 95571001--95571070 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
95570991 AATAATCAAT
*
95571001 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
95571028 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAAC-AATTCAAAACATATA
*
95571056 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
95571071 CTAAAATTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.51, C:0.20, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:95572971 original size:56 final size:56
Alignment explanation
Indices: 95572911--95573072 Score: 161
Period size: 56 Copynumber: 2.9 Consensus size: 56
95572901 TCAAGTGCGT
95572911 TTTCT-TTTTTTATTTCAA-TATAAACAAAAAAATTGACAATGTTATAAATTTTTTTA
1 TTTCTATTTTTTA-TT-AATTATAAACAAAAAAATTGACAATGTTATAAATTTTTTTA
* ** * *
95572967 TTTCTATTTTTTA-TAATTTTTAAATTATAAATTTGACAATGTTATAAATTTTTTTA
1 TTTCTATTTTTTATTAA-TTATAAACAAAAAAATTGACAATGTTATAAATTTTTTTA
* ** * *
95573023 TTTCTATTTTTTA-TAATTTTTTAAATTATAAATTTGACAATGTTATAAAT
1 TTTCTATTTTTTATTAA--TTATAAACAAAAAAATTGACAATGTTATAAAT
95573073 AATGTTTAAC
Statistics
Matches: 97, Mismatches: 5, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
54 2 0.02
55 1 0.01
56 54 0.56
57 40 0.41
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (56 bp):
TTTCTATTTTTTATTAATTATAAACAAAAAAATTGACAATGTTATAAATTTTTTTA
Found at i:95572987 original size:25 final size:25
Alignment explanation
Indices: 95572952--95573044 Score: 73
Period size: 24 Copynumber: 3.5 Consensus size: 25
95572942 ATTGACAATG
95572952 TTATAAATTTTTTTATTTCTATTTT
1 TTATAAATTTTTTTATTTCTATTTT
** **
95572977 TTAT-AATTTTTAAATTATAAATTTGACAAT
1 TTATAAATTTTTTTATT-TCTATTT-----T
95573007 GTTATAAATTTTTTTATTTCTATTTT
1 -TTATAAATTTTTTTATTTCTATTTT
95573033 TTAT-AATTTTTT
1 TTATAAATTTTTT
95573045 AAATTATAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 17
0.68 0.10 0.22
Matches are distributed among these distances:
24 18 0.35
25 13 0.25
26 1 0.02
30 1 0.02
31 9 0.17
32 10 0.19
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (25 bp):
TTATAAATTTTTTTATTTCTATTTT
Found at i:95573034 original size:57 final size:57
Alignment explanation
Indices: 95572943--95573072 Score: 253
Period size: 56 Copynumber: 2.3 Consensus size: 57
95572933 AACAAAAAAA
95572943 TTGACAATGTTATAAATTTTTTTATTTCTATTTTTTATAA-TTTTTAAATTATAAAT
1 TTGACAATGTTATAAATTTTTTTATTTCTATTTTTTATAATTTTTTAAATTATAAAT
95572999 TTGACAATGTTATAAATTTTTTTATTTCTATTTTTTATAATTTTTTAAATTATAAAT
1 TTGACAATGTTATAAATTTTTTTATTTCTATTTTTTATAATTTTTTAAATTATAAAT
95573056 TTGACAATGTTATAAAT
1 TTGACAATGTTATAAAT
95573073 AATGTTTAAC
Statistics
Matches: 73, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
56 40 0.55
57 33 0.45
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.57
Consensus pattern (57 bp):
TTGACAATGTTATAAATTTTTTTATTTCTATTTTTTATAATTTTTTAAATTATAAAT
Found at i:95573846 original size:14 final size:14
Alignment explanation
Indices: 95573827--95573854 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
95573817 TCTTTAAAAA
95573827 GAATTAACTTATTT
1 GAATTAACTTATTT
95573841 GAATTAACTTATTT
1 GAATTAACTTATTT
95573855 TTAAAGGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
GAATTAACTTATTT
Found at i:95576812 original size:38 final size:38
Alignment explanation
Indices: 95576604--95576824 Score: 255
Period size: 38 Copynumber: 5.8 Consensus size: 38
95576594 AGCATAATGA
* * * * *
95576604 TATTCGTGCTATGTACCTAACAAGCTTTGTGCCGGTGA
1 TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGT
* *
95576642 TATTTGGGCTATGTGCCTGGCAGGCTTTGTGCCGGTGT
1 TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGT
*
95576680 TATTTGGGCTATGTGCCT-GACAGGCTTTGTGCCGGTGT
1 TATTCGGGCTATGTGCCTAG-CAGGCTTTGTGCCGGTGT
* * * **
95576718 TATTCGGGATATGTGCCTAGTAGGCCTTGTGTTGGTGT
1 TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGT
* **
95576756 TATTCGGGTTATGTGCCTAGCAGGCTTTGTGCCCATGT
1 TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGT
* **
95576794 TATTCGGGCTCTGTGCCTAGCAAACTTTGTG
1 TATTCGGGCTATGTGCCTAGCAGGCTTTGTG
95576825 ATGGTGGATT
Statistics
Matches: 157, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
37 1 0.01
38 155 0.99
39 1 0.01
ACGTcount: A:0.14, C:0.19, G:0.31, T:0.37
Consensus pattern (38 bp):
TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGT
Found at i:95577358 original size:38 final size:38
Alignment explanation
Indices: 95577310--95577385 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
95577300 CATAAAAAAA
95577310 ATCAATAAATAAAGAGCACATGGTAGATGCTTAAATCC
1 ATCAATAAATAAAGAGCACATGGTAGATGCTTAAATCC
*
95577348 ATCAATAAATAAAGAGCACATGGTAGCTGCTTAAATCC
1 ATCAATAAATAAAGAGCACATGGTAGATGCTTAAATCC
95577386 GCATGTAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.24
Consensus pattern (38 bp):
ATCAATAAATAAAGAGCACATGGTAGATGCTTAAATCC
Found at i:95577821 original size:12 final size:13
Alignment explanation
Indices: 95577791--95577815 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95577781 TTAAACATGT
95577791 AAATTTTTTATTC
1 AAATTTTTTATTC
95577804 AAATTTTTTATT
1 AAATTTTTTATT
95577816 TAATTTAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
AAATTTTTTATTC
Found at i:95581139 original size:102 final size:102
Alignment explanation
Indices: 95581007--95581235 Score: 343
Period size: 102 Copynumber: 2.2 Consensus size: 102
95580997 ATATGATGTG
* * *
95581007 ATAGAGTCTTTCATCTATGGTCTTACTCACTATACTTGGCTGCCATAACTTCTTTCA-CATATGG
1 ATAGTGTCTTTCATCTATGGTCTTACTCACTATACTTAGCTGCCATAACATCTTTCATC-TATGG
95581071 TCTTATACCGTATATCTTATACCTTATACCATGCTGCC
65 TCTTATACCGTATATCTTATACCTTATACCATGCTGCC
* * * *
95581109 ATAGTGTCTTTCATTTATGGTTTTACTCACTATCCTTAGCTGTCATAACATCTTTCATCTATGGT
1 ATAGTGTCTTTCATCTATGGTCTTACTCACTATACTTAGCTGCCATAACATCTTTCATCTATGGT
* *
95581174 CTTATACTGTATATCTTATACCTTGTACCATGCTGCC
66 CTTATACCGTATATCTTATACCTTATACCATGCTGCC
* *
95581211 ATGGTGTCTTTCATCCATGGTCTTA
1 ATAGTGTCTTTCATCTATGGTCTTA
95581236 TGCTATGCTA
Statistics
Matches: 113, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
102 112 0.99
103 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.42
Consensus pattern (102 bp):
ATAGTGTCTTTCATCTATGGTCTTACTCACTATACTTAGCTGCCATAACATCTTTCATCTATGGT
CTTATACCGTATATCTTATACCTTATACCATGCTGCC
Found at i:95584295 original size:95 final size:93
Alignment explanation
Indices: 95584094--95584267 Score: 233
Period size: 95 Copynumber: 1.8 Consensus size: 93
95584084 TGTTACAACC
* * * *
95584094 AATGTGGAAAGAGTACTTTTTGTAATGAAAATCATGAAAAATAATTGAGGAATTGAATTGGAGAT
1 AATGTGGAAAGAGTACTTTTTGCAATAAAAATCATGAAAAATAATTGAGGAATCGAATTAGAGAT
* * *
95584159 CAGTGGATGACTTTTCTAGTTGTTACAGCA
66 CAATGGATGAATATTCTA-TTGTTA-AGCA
*
95584189 AATGTGGAAAGAGTACTTTTTGCAATAAAAAT-AGTGAAAAATAATTTGAGGGATCGAATTAGAG
1 AATGTGGAAAGAGTACTTTTTGCAATAAAAATCA-TGAAAAATAA-TTGAGGAATCGAATTAGAG
95584253 ATCAATGGATGAATA
64 ATCAATGGATGAATA
95584268 ATTGTTTGAT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
94 1 0.01
95 40 0.58
96 28 0.41
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.30
Consensus pattern (93 bp):
AATGTGGAAAGAGTACTTTTTGCAATAAAAATCATGAAAAATAATTGAGGAATCGAATTAGAGAT
CAATGGATGAATATTCTATTGTTAAGCA
Found at i:95586226 original size:15 final size:15
Alignment explanation
Indices: 95586206--95586237 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
95586196 TTATTTAAGT
95586206 TATATATAAATATTA
1 TATATATAAATATTA
95586221 TATATATAAATATTA
1 TATATATAAATATTA
95586236 TA
1 TA
95586238 ATTATTAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATATATAAATATTA
Found at i:95586269 original size:3 final size:3
Alignment explanation
Indices: 95586263--95586297 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
95586253 TATGGTTTTA
95586263 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
95586298 AATAAAGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:95587724 original size:23 final size:23
Alignment explanation
Indices: 95587697--95587783 Score: 92
Period size: 23 Copynumber: 4.0 Consensus size: 23
95587687 GGCTTTGCCG
95587697 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
*
95587720 ATCAGACACTTTATG-GTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
* * **
95587742 TTCAGGCACCTCGTGTGTCGT-T
1 ATCAGGCACTTTATGTGTCGTAT
*
95587764 -TCAAGCAC-TTATGTGTCGTA
1 ATCAGGCACTTTATGTGTCGTA
95587784 AACTGATCAG
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
20 9 0.17
21 7 0.13
22 18 0.34
23 19 0.36
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:95589233 original size:105 final size:105
Alignment explanation
Indices: 95589044--95589246 Score: 241
Period size: 105 Copynumber: 1.9 Consensus size: 105
95589034 TGTTTAAATG
* * *
95589044 TAAGACCATAGTTGAGCTATGACATTTCAGTGAAAAGACCATAACTGGGTTATGGCACCATGAAC
1 TAAGACCATAGTAGAGCTATGACATCTCAGTGAAAAGACCATAACTGGGTTATGGCACCACGAAC
**
95589109 GTAAGACCATGGTTAGACCATGGCAGTATATGTAAAAGTA
66 GTAAGACCATGGACAGACCATGGCAGTATATGTAAAAGTA
* * **
95589149 TAAGACCATAGCTAG-GCTATGACATC-CTGATGATAAGACCATAACTGGGTTATGGCATTACGA
1 TAAGACCATAG-TAGAGCTATGACATCTCAG-TGAAAAGACCATAACTGGGTTATGGCACCACGA
** * *
95589212 GTGTAAGACCAT-GACAGGACCATGGTATTATATGT
64 ACGTAAGACCATGGACA-GACCATGGCAGTATATGT
95589247 GTAAGACCAT
Statistics
Matches: 82, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
104 4 0.05
105 76 0.93
106 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (105 bp):
TAAGACCATAGTAGAGCTATGACATCTCAGTGAAAAGACCATAACTGGGTTATGGCACCACGAAC
GTAAGACCATGGACAGACCATGGCAGTATATGTAAAAGTA
Found at i:95592803 original size:24 final size:26
Alignment explanation
Indices: 95592776--95592823 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
95592766 TTGTTTTTTA
*
95592776 ATATTTG-TTT-TTATGTTTTTAAAT
1 ATATTTGATTTATTATATTTTTAAAT
95592800 ATATTTGATTTATTATATTTTTAA
1 ATATTTGATTTATTATATTTTTAA
95592824 TTTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (26 bp):
ATATTTGATTTATTATATTTTTAAAT
Found at i:95601415 original size:7 final size:7
Alignment explanation
Indices: 95601405--95601469 Score: 94
Period size: 7 Copynumber: 9.0 Consensus size: 7
95601395 CTCGAAGCAT
95601405 CCCTAAA
1 CCCTAAA
95601412 CCCTAAA
1 CCCTAAA
95601419 CCCTAAAA
1 CCCT-AAA
95601427 CCCTAAA
1 CCCTAAA
*
95601434 CTCTAAA
1 CCCTAAA
95601441 CCCTAAAA
1 CCCT-AAA
95601449 CCCTAAA
1 CCCTAAA
*
95601456 CCTTAAA
1 CCCTAAA
95601463 CCCTAAA
1 CCCTAAA
95601470 AATCTTATTC
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
7 38 0.73
8 14 0.27
ACGTcount: A:0.45, C:0.38, G:0.00, T:0.17
Consensus pattern (7 bp):
CCCTAAA
Found at i:95601429 original size:15 final size:14
Alignment explanation
Indices: 95601405--95601469 Score: 94
Period size: 15 Copynumber: 4.5 Consensus size: 14
95601395 CTCGAAGCAT
95601405 CCCTAAACCCTAAA
1 CCCTAAACCCTAAA
95601419 CCCTAAAACCCTAAA
1 CCCT-AAACCCTAAA
*
95601434 CTCTAAACCCTAAAA
1 CCCTAAACCCT-AAA
*
95601449 CCCTAAACCTTAAA
1 CCCTAAACCCTAAA
95601463 CCCTAAA
1 CCCTAAA
95601470 AATCTTATTC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
14 21 0.46
15 25 0.54
ACGTcount: A:0.45, C:0.38, G:0.00, T:0.17
Consensus pattern (14 bp):
CCCTAAACCCTAAA
Found at i:95601433 original size:22 final size:22
Alignment explanation
Indices: 95601405--95601470 Score: 114
Period size: 22 Copynumber: 3.0 Consensus size: 22
95601395 CTCGAAGCAT
95601405 CCCTAAACCCTAAACCCTAAAA
1 CCCTAAACCCTAAACCCTAAAA
*
95601427 CCCTAAACTCTAAACCCTAAAA
1 CCCTAAACCCTAAACCCTAAAA
*
95601449 CCCTAAACCTTAAACCCTAAAA
1 CCCTAAACCCTAAACCCTAAAA
95601471 ATCTTATTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.45, C:0.38, G:0.00, T:0.17
Consensus pattern (22 bp):
CCCTAAACCCTAAACCCTAAAA
Found at i:95611211 original size:43 final size:43
Alignment explanation
Indices: 95611147--95611295 Score: 210
Period size: 43 Copynumber: 3.5 Consensus size: 43
95611137 TATCCTAGAT
* ** * *
95611147 ATGGTCTTACATGTTATCATATATCGATACCAATGTCCCAGAC
1 ATGGTCTTACACGAAATCATATAACGATGCCAATGTCCCAGAC
* *
95611190 ATAGTCTTACACGAAATCATATAACGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGAAATCATATAACGATGCCAATGTCCCAGAC
*
95611233 ATGGTCTTACACGAAATCATATAACGATGCTAATGTCCCAGAC
1 ATGGTCTTACACGAAATCATATAACGATGCCAATGTCCCAGAC
95611276 ATGGTCTTACAC-ATAATCAT
1 ATGGTCTTACACGA-AATCAT
95611296 GTCTCGTTAA
Statistics
Matches: 95, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 1 0.01
43 94 0.99
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCATATAACGATGCCAATGTCCCAGAC
Found at i:95617247 original size:28 final size:28
Alignment explanation
Indices: 95617206--95617268 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
95617196 TTCTTGTAAC
95617206 GTTAGCAGTAATACTAGAATGATTCTAAT
1 GTTA-CAGTAATACTAGAATGATTCTAAT
95617235 GTTACAGTAATACTAGAATGATTCTAAT
1 GTTACAGTAATACTAGAATGATTCTAAT
95617263 GTTACA
1 GTTACA
95617269 TACAATGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 30 0.88
29 4 0.12
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (28 bp):
GTTACAGTAATACTAGAATGATTCTAAT
Found at i:95618586 original size:18 final size:17
Alignment explanation
Indices: 95618562--95618602 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
95618552 TGCAAATAGT
95618562 GAAAAGAGGGCAGAAAA
1 GAAAAGAGGGCAGAAAA
* *
95618579 GCAAAAGATGGCAGCAAA
1 G-AAAAGAGGGCAGAAAA
95618597 GAAAAG
1 GAAAAG
95618603 GAAACAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.56, C:0.10, G:0.32, T:0.02
Consensus pattern (17 bp):
GAAAAGAGGGCAGAAAA
Found at i:95619892 original size:20 final size:20
Alignment explanation
Indices: 95619856--95619964 Score: 65
Period size: 23 Copynumber: 5.0 Consensus size: 20
95619846 TATGTATACG
* *
95619856 TTATTTTTTTATTATTATTA
1 TTATTCTTTTATTACTATTA
95619876 CTTTTATTCTTTTATTACTATTA
1 ---TTATTCTTTTATTACTATTA
* *
95619899 TTATTCTTACTAGTGTATTATTA
1 TTATTCTT-TTA-T-TACTATTA
*
95619922 TTATTCTTATATTCTACCTTATTA
1 TTATTCTTTTA-T-TA-C-TATTA
* *
95619946 TTATTATATTATTACTATT
1 TTATTCTTTTATTACTATT
95619965 GCTATCATCA
Statistics
Matches: 70, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
20 12 0.17
21 3 0.04
22 8 0.11
23 34 0.49
24 13 0.19
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.63
Consensus pattern (20 bp):
TTATTCTTTTATTACTATTA
Found at i:95619982 original size:3 final size:3
Alignment explanation
Indices: 95619864--95619964 Score: 59
Period size: 3 Copynumber: 33.7 Consensus size: 3
95619854 CGTTATTTTT
* * *
95619864 TTA TTA TTA TTA CTT- TTA TTC TT- TTA TTA CTA TTA TTA TTC TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
95619908 CTA GTGTA TTA TTA TTA TTC TTA -TA TT- CTA CCTTA TTA TTA TTA -TA
1 TTA -T-TA TTA TTA TTA TTA TTA TTA TTA TTA --TTA TTA TTA TTA TTA
*
95619954 TTA TTA CTA TT
1 TTA TTA TTA TT
95619965 GCTATCATCA
Statistics
Matches: 75, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
2 9 0.12
3 59 0.79
4 3 0.04
5 4 0.05
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:95620878 original size:14 final size:16
Alignment explanation
Indices: 95620847--95620878 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
95620837 ATAGTTGTAT
95620847 TTAATTGTTGGATTTA
1 TTAATTGTTGGATTTA
95620863 TTAATTG-TGG-TTTA
1 TTAATTGTTGGATTTA
95620877 TT
1 TT
95620879 GCACTTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 3 0.19
16 7 0.44
ACGTcount: A:0.22, C:0.00, G:0.19, T:0.59
Consensus pattern (16 bp):
TTAATTGTTGGATTTA
Found at i:95625844 original size:2 final size:2
Alignment explanation
Indices: 95625837--95625872 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
95625827 CAATTAAACT
* *
95625837 TA TA TA TA TG TA CA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
95625873 ATTATAACTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:95626084 original size:15 final size:16
Alignment explanation
Indices: 95626064--95626104 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
95626054 AATATTAAAA
*
95626064 TATATATTATTTGTATT
1 TATA-ATTATTTATATT
95626081 TATAATTA-TTATATT
1 TATAATTATTTATATT
95626096 TATAATTAT
1 TATAATTAT
95626105 GCTTTTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 14 0.64
16 4 0.18
17 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (16 bp):
TATAATTATTTATATT
Found at i:95626930 original size:23 final size:22
Alignment explanation
Indices: 95626889--95626943 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
95626879 AAATTTAGTC
95626889 TTTAATATTTATATGTTTTGTAAA
1 TTTAA-ATTTATATGTTTT-TAAA
* * *
95626913 TTTAAATTTTTATTTTTTTTAA
1 TTTAAATTTATATGTTTTTAAA
*
95626935 GTTAAATTT
1 TTTAAATTT
95626944 GAGCTTCAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 11 0.41
23 11 0.41
24 5 0.19
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTAAATTTATATGTTTTTAAA
Found at i:95640269 original size:365 final size:361
Alignment explanation
Indices: 95639430--95640513 Score: 1857
Period size: 365 Copynumber: 3.0 Consensus size: 361
95639420 ATATAACAGA
* *
95639430 GGGTAATTAAAGCCAATTTATAATCTCAATAAAGCAAAGCATACAGCTCAATTTGGTGATACCTA
1 GGGTAATTAAAGCCAATTTATAATCTCAGTAAAGCAAATCATACAGCTCAATTTGGTGATACCTA
* * * *
95639495 ACTTACTGATAGTTTACACTCGCCTCATACAACAATTATGGCGTTAACAGAAATTGGCAACTTAG
66 ACTTACTGATAGTTTACACTTGCCTCATACAACAATTATGGAGTTAACAGAAATTGGCGACTCAG
* *
95639560 ACTCACATGCCCATGTGGCTGCTCATGTGACTCTATACGGTCGTATGGTTACTTGTGTACCCATA
131 GCTCACATGCCCATGTGGCTGCTCATGTGACTCTATACGGTCGTATGGTTACTTGTGTGCCCATA
* *
95639625 TTCATCAAGTCAATGAGTCACAC-AGCTTGGACACACACTCACATACTAGCCCGTGTCCCTCACA
196 TTCATCAAGTCAATGAGTCACACGA-CTTGGGCACACGCTCACATACTAGCCCGTGTCCCTCACA
95639689 TTGTCCAGCACATGCCAGTTTCTCCTGTATATGCCTCCCTATTTATCAATCAGTGAGTTACACAG
260 TTGTCCAGCACATGCCAGTTTCTCCTGTATATGCCTCCCTATTTATCAATCAGTGAGTTACACAG
95639754 TCTAAGCACACGCTCGTGTGTCAACACGTGTGACGAC
325 TCTAAGCACACGCTCGTGTGTCAACACGTGTGACGAC
*
95639791 GGGTGATTAAAGCCAATTTATAATCTCAGTAAAGCAAATCATACAGCTCAATTTGGTGATACCTA
1 GGGTAATTAAAGCCAATTTATAATCTCAGTAAAGCAAATCATACAGCTCAATTTGGTGATACCTA
*
95639856 ACTTACTGATAGTTTACACTTGCCTCATACAATAATTAT-GACGTTAACAGAAATTGGCGACTCA
66 ACTTACTGATAGTTTACACTTGCCTCATACAACAATTATGGA-GTTAACAGAAATTGGCGACTCA
*
95639920 GGCTCACATGCCCATGTGGCTGCTCATGTGACTCTATACGGTCGTATAGTTACTTGTGTGCCCAT
130 GGCTCACATGCCCATGTGGCTGCTCATGTGACTCTATACGGTCGTATGGTTACTTGTGTGCCCAT
* *
95639985 ATTCATCAAGTCAATGAGTCACACGACTTGGGCACACGCTCACATACTAGCCCGTGTCCTTTACA
195 ATTCATCAAGTCAATGAGTCACACGACTTGGGCACACGCTCACATACTAGCCCGTGTCCCTCACA
95640050 TTGTCCAGCACATGCCAGTTTCTCCTGTATATGCCTCCCTATTAATTTATCAATCAGTGAGTTAC
260 TTGTCCAGCACATGCCAGTTTCTCCTGTATATGCCTCCC---T-ATTTATCAATCAGTGAGTTAC
95640115 ACAGTCTAAGCACACGCTCGTGTGTCAACACGTGTGACGAC
321 ACAGTCTAAGCACACGCTCGTGTGTCAACACGTGTGACGAC
*
95640156 GGGTAATTAAAGCCAATTTATAATCTCAGTAAAGTAAATCATACAGCTCAATTTGGTGATACCTA
1 GGGTAATTAAAGCCAATTTATAATCTCAGTAAAGCAAATCATACAGCTCAATTTGGTGATACCTA
* * *
95640221 ACTTACTGATAGTTTACACTTGCATCATACAACAATTATGGAGTTAACAGAAATTGGTGAATCAG
66 ACTTACTGATAGTTTACACTTGCCTCATACAACAATTATGGAGTTAACAGAAATTGGCGACTCAG
* * *
95640286 GCTTACATGCCCAAGTGGCTGCTCATGTGACTCTATACGGTCGTATGGTTACTTGTTTGCCCATA
131 GCTCACATGCCCATGTGGCTGCTCATGTGACTCTATACGGTCGTATGGTTACTTGTGTGCCCATA
* *
95640351 TTCATCAAGTCAATGAGTCACACGGCTTGGGCACACGCTCACGTACTAGCCCGTGTCCCTCACAT
196 TTCATCAAGTCAATGAGTCACACGACTTGGGCACACGCTCACATACTAGCCCGTGTCCCTCACAT
95640416 TGTCCAGCACATGCCAGTTTCTCCTGTATATGCCTCCCTATTTATCAATCAGTGAGTTACACAGT
261 TGTCCAGCACATGCCAGTTTCTCCTGTATATGCCTCCCTATTTATCAATCAGTGAGTTACACAGT
* * *
95640481 CTAAGCACAAGCTCGTGTGTTAACCCGTGTGAC
326 CTAAGCACACGCTCGTGTGTCAACACGTGTGAC
95640514 AACTTCACCT
Statistics
Matches: 684, Mismatches: 32, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
360 1 0.00
361 335 0.49
362 2 0.00
364 1 0.00
365 343 0.50
366 2 0.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (361 bp):
GGGTAATTAAAGCCAATTTATAATCTCAGTAAAGCAAATCATACAGCTCAATTTGGTGATACCTA
ACTTACTGATAGTTTACACTTGCCTCATACAACAATTATGGAGTTAACAGAAATTGGCGACTCAG
GCTCACATGCCCATGTGGCTGCTCATGTGACTCTATACGGTCGTATGGTTACTTGTGTGCCCATA
TTCATCAAGTCAATGAGTCACACGACTTGGGCACACGCTCACATACTAGCCCGTGTCCCTCACAT
TGTCCAGCACATGCCAGTTTCTCCTGTATATGCCTCCCTATTTATCAATCAGTGAGTTACACAGT
CTAAGCACACGCTCGTGTGTCAACACGTGTGACGAC
Found at i:95640920 original size:20 final size:20
Alignment explanation
Indices: 95640895--95640937 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
95640885 TTACCAGAAG
95640895 TTCAACAGCGTATACTCGAA
1 TTCAACAGCGTATACTCGAA
95640915 TTCAACAGCGTATACTCGAA
1 TTCAACAGCGTATACTCGAA
95640935 TTC
1 TTC
95640938 TAGACAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.28
Consensus pattern (20 bp):
TTCAACAGCGTATACTCGAA
Found at i:95641217 original size:17 final size:17
Alignment explanation
Indices: 95641186--95641243 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
95641176 AACAATGCCA
95641186 AAAAGAAAAAGGAAGAAG
1 AAAAGAAAAA-GAAGAAG
95641204 AAAAGAAAAAGAAGAAAG
1 AAAAGAAAAAGAAG-AAG
* * *
95641222 TAAATAAAATGAAGAAGG
1 AAAAGAAAAAGAAGAA-G
95641240 AAAA
1 AAAA
95641244 AATGAGTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 6 0.18
18 28 0.82
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.05
Consensus pattern (17 bp):
AAAAGAAAAAGAAGAAG
Found at i:95646310 original size:20 final size:20
Alignment explanation
Indices: 95646285--95646322 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
95646275 CAGAGAAGCT
95646285 GGGAATTAAAGAAAAAAAGG
1 GGGAATTAAAGAAAAAAAGG
*
95646305 GGGAATTAAGGAAAAAAA
1 GGGAATTAAAGAAAAAAA
95646323 AAACTGAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.29, T:0.11
Consensus pattern (20 bp):
GGGAATTAAAGAAAAAAAGG
Found at i:95648549 original size:12 final size:12
Alignment explanation
Indices: 95648532--95648561 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
95648522 AAACCAATTT
*
95648532 TTATTTATTTTA
1 TTATTTATTTAA
95648544 TTATTTATTTAA
1 TTATTTATTTAA
95648556 TTATTT
1 TTATTT
95648562 TTGGTCCGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTATTTATTTAA
Found at i:95649132 original size:26 final size:27
Alignment explanation
Indices: 95649076--95649133 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
95649066 TTTATAATTT
*
95649076 AATAAATAACAAAATTATATTTTATAT
1 AATAAATAACAAAATTATATTTTATAA
*
95649103 AATAAAT-ATAAAATTATATTATT-TAA
1 AATAAATAACAAAATTATATT-TTATAA
95649129 AATAA
1 AATAA
95649134 TAATTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 19 0.68
27 9 0.32
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (27 bp):
AATAAATAACAAAATTATATTTTATAA
Found at i:95649149 original size:13 final size:13
Alignment explanation
Indices: 95649111--95649165 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
95649101 ATAATAAATA
*
95649111 TAAAATTATATTATT
1 TAAAA-TATA-TAAT
95649126 TAAAATA-ATAAT
1 TAAAATATATAAT
95649138 TAAAA-ACTATAAT
1 TAAAATA-TATAAT
95649151 TAAAATATATAAT
1 TAAAATATATAAT
95649164 TA
1 TA
95649166 TTTTGATGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
11 1 0.03
12 8 0.22
13 19 0.53
14 3 0.08
15 5 0.14
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAAATATATAAT
Found at i:95657161 original size:7 final size:7
Alignment explanation
Indices: 95657149--95657190 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
95657139 AATGCAAATG
95657149 TTTAATA
1 TTTAATA
95657156 TTTAATA
1 TTTAATA
95657163 TTTAATA
1 TTTAATA
95657170 TTTTAA-A
1 -TTTAATA
95657177 TTT-ATA
1 TTTAATA
*
95657183 TTAAATA
1 TTTAATA
95657190 T
1 T
95657191 GTATGTGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
5 1 0.03
6 6 0.19
7 19 0.61
8 5 0.16
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTAATA
Found at i:95660437 original size:58 final size:58
Alignment explanation
Indices: 95660375--95660494 Score: 240
Period size: 58 Copynumber: 2.1 Consensus size: 58
95660365 ACAAAATTTT
95660375 ATTATTTTTGGGGTCAAATTATAATTTTAACATATATTAAAAATTTCAATTTTAGGGG
1 ATTATTTTTGGGGTCAAATTATAATTTTAACATATATTAAAAATTTCAATTTTAGGGG
95660433 ATTATTTTTGGGGTCAAATTATAATTTTAACATATATTAAAAATTTCAATTTTAGGGG
1 ATTATTTTTGGGGTCAAATTATAATTTTAACATATATTAAAAATTTCAATTTTAGGGG
95660491 ATTA
1 ATTA
95660495 GGCCCCTACT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.45
Consensus pattern (58 bp):
ATTATTTTTGGGGTCAAATTATAATTTTAACATATATTAAAAATTTCAATTTTAGGGG
Found at i:95663918 original size:6 final size:6
Alignment explanation
Indices: 95663909--95663934 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
95663899 GGGGTGGTGG
95663909 CATTGC CATTGC CATTGC CATTGC CA
1 CATTGC CATTGC CATTGC CATTGC CA
95663935 ATGACTCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.35, G:0.15, T:0.31
Consensus pattern (6 bp):
CATTGC
Found at i:95666736 original size:14 final size:15
Alignment explanation
Indices: 95666711--95666739 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
95666701 TTTTTTATTG
95666711 TTTAACAAAATTATA
1 TTTAACAAAATTATA
95666726 TTTAA-AAAATTATA
1 TTTAACAAAATTATA
95666740 ATTCTATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
TTTAACAAAATTATA
Found at i:95675934 original size:26 final size:26
Alignment explanation
Indices: 95675903--95675952 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
95675893 ATCCATTTTA
*
95675903 TTTAAAAT-ATTTATTTCGATTTTAAT
1 TTTAAAATGATTT-CTTCGATTTTAAT
*
95675929 TTTAAATTGATTTCTTCGATTTTA
1 TTTAAAATGATTTCTTCGATTTTA
95675953 CCTTAGTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (26 bp):
TTTAAAATGATTTCTTCGATTTTAAT
Found at i:95676540 original size:26 final size:24
Alignment explanation
Indices: 95676494--95676547 Score: 56
Period size: 26 Copynumber: 2.2 Consensus size: 24
95676484 TAAAAGCATG
95676494 ATAAAAGAATATATATATATATATAT
1 ATAAAAGAATATATATATATA-AT-T
* *
95676520 ATAAAATAATAT-TATTTTATAATT
1 ATAAAAGAATATATA-TATATAATT
95676544 ATAA
1 ATAA
95676548 TGTTTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 5 0.20
25 4 0.16
26 16 0.64
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
ATAAAAGAATATATATATATAATT
Found at i:95693570 original size:20 final size:19
Alignment explanation
Indices: 95693537--95693575 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
95693527 ATTTGTCTAT
95693537 ATTATTTTTTTAAT-TTTA
1 ATTATTTTTTTAATATTTA
95693555 ATTATTTTTGTTTAATATTTA
1 ATTA-TTTT-TTTAATATTTA
95693576 CTAATTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 6 0.33
21 4 0.22
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
ATTATTTTTTTAATATTTA
Found at i:95694213 original size:12 final size:14
Alignment explanation
Indices: 95694191--95694228 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
95694181 TTAACTTAAT
95694191 TAAATAATTTATAA
1 TAAATAATTTATAA
*
95694205 -AAA-AATTTAAAA
1 TAAATAATTTATAA
95694217 TAAATAATTTAT
1 TAAATAATTTAT
95694229 TTATTTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
12 8 0.40
13 6 0.30
14 6 0.30
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TAAATAATTTATAA
Found at i:95698165 original size:14 final size:15
Alignment explanation
Indices: 95698146--95698184 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
95698136 TAGATGGTAG
95698146 TAAAAACAAAA-TTT
1 TAAAAACAAAACTTT
95698160 TAAAAA-AAAACTTT
1 TAAAAACAAAACTTT
95698174 TAAAAACAAAA
1 TAAAAACAAAA
95698185 AAGAGTGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.17
14 15 0.65
15 4 0.17
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (15 bp):
TAAAAACAAAACTTT
Found at i:95698353 original size:13 final size:13
Alignment explanation
Indices: 95698335--95698396 Score: 79
Period size: 13 Copynumber: 4.7 Consensus size: 13
95698325 TTAGCGTTGT
95698335 TTTTAAAAAGTAC
1 TTTTAAAAAGTAC
95698348 TTTTAAAAAGTAC
1 TTTTAAAAAGTAC
** * *
95698361 AGTGAAAAAATAC
1 TTTTAAAAAGTAC
95698374 TTTTAAAAAGTAC
1 TTTTAAAAAGTAC
95698387 TTTTGAAAAA
1 TTTT-AAAAA
95698397 TTTTGTTTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
13 35 0.88
14 5 0.12
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (13 bp):
TTTTAAAAAGTAC
Found at i:95698755 original size:11 final size:11
Alignment explanation
Indices: 95698739--95698769 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
95698729 AGAACCAGAG
*
95698739 AGAAGAACTGA
1 AGAAGAAATGA
95698750 AGAAGAAATGA
1 AGAAGAAATGA
95698761 AGAAGAAAT
1 AGAAGAAAT
95698770 TGTTACCGTG
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:0.61, C:0.03, G:0.26, T:0.10
Consensus pattern (11 bp):
AGAAGAAATGA
Found at i:95704296 original size:22 final size:22
Alignment explanation
Indices: 95704242--95704300 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
95704232 AATCTATATT
*
95704242 TATCAAATAA-TTT-AATTATA
1 TATCAAATAATTTTAAATAATA
95704262 T-TCCATAATTAATTTTAAATAATA
1 TAT-CA-AA-TAATTTTAAATAATA
95704286 TATCAAATAATTTTA
1 TATCAAATAATTTTA
95704301 TAATTTAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
19 1 0.03
20 3 0.09
21 2 0.06
22 11 0.34
23 5 0.16
24 9 0.28
25 1 0.03
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.46
Consensus pattern (22 bp):
TATCAAATAATTTTAAATAATA
Found at i:95704714 original size:33 final size:31
Alignment explanation
Indices: 95704652--95704714 Score: 72
Period size: 33 Copynumber: 2.0 Consensus size: 31
95704642 CAAAAAAAAA
* *
95704652 AAATTTTAATTCAAATATTTACAAAAACTTC
1 AAATTTTAATTAAAAAATTTACAAAAACTTC
* *
95704683 AAATTTTATATTTAAAAAATTTATAATAACTT
1 AAATTTTA-A-TTAAAAAATTTACAAAAACTT
95704715 TAAAAAAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
31 8 0.31
32 1 0.04
33 17 0.65
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (31 bp):
AAATTTTAATTAAAAAATTTACAAAAACTTC
Found at i:95722695 original size:17 final size:17
Alignment explanation
Indices: 95722673--95722708 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
95722663 GTTAACTTGG
* *
95722673 TCGAATTGTTTTTAGGT
1 TCGAATTGGTTTTAAGT
95722690 TCGAATTGGTTTTAAGT
1 TCGAATTGGTTTTAAGT
95722707 TC
1 TC
95722709 AAGTCAACTT
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:0.19, C:0.08, G:0.22, T:0.50
Consensus pattern (17 bp):
TCGAATTGGTTTTAAGT
Found at i:95722698 original size:48 final size:48
Alignment explanation
Indices: 95722625--95722720 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 48
95722615 TAAATTACTT
* * * *
95722625 TCGAATTGTTTTTGGGTTTGGATTGGTTTTAAGTTCAAGTTAACTTGG
1 TCGAATTGTTTTTAGGTTCGAATTGGTTTTAAGTTCAAGTCAACTTGG
95722673 TCGAATTGTTTTTAGGTTCGAATTGGTTTTAAGTTCAAGTCAACTTGG
1 TCGAATTGTTTTTAGGTTCGAATTGGTTTTAAGTTCAAGTCAACTTGG
95722721 GTATGGGTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.21, C:0.08, G:0.25, T:0.46
Consensus pattern (48 bp):
TCGAATTGTTTTTAGGTTCGAATTGGTTTTAAGTTCAAGTCAACTTGG
Found at i:95726486 original size:6 final size:6
Alignment explanation
Indices: 95726475--95726502 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
95726465 TTTGCTGGGA
95726475 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
95726503 TATTCTGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:95726774 original size:39 final size:41
Alignment explanation
Indices: 95726700--95726788 Score: 121
Period size: 39 Copynumber: 2.2 Consensus size: 41
95726690 TAAAAAATAT
* *
95726700 TTATATT-AAAAACACTATTATAAATATAACGAATGTTTTA
1 TTATATTAAAAAACACTATAATAAATATAACAAATGTTTTA
*
95726740 TTATATTAAAAAACAC-A-AATAAATATAATAAATGTTTTA
1 TTATATTAAAAAACACTATAATAAATATAACAAATGTTTTA
*
95726779 TTGTATTAAA
1 TTATATTAAA
95726789 TATAATTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 28 0.64
40 8 0.18
41 8 0.18
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (41 bp):
TTATATTAAAAAACACTATAATAAATATAACAAATGTTTTA
Found at i:95729057 original size:15 final size:15
Alignment explanation
Indices: 95729032--95729089 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
95729022 TCATGTATAT
95729032 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
95729048 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
95729063 AATAATTTCAATCAA
1 TATAAATTCAATCAA
95729078 TATAAATTCAAT
1 TATAAATTCAAT
95729090 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:95730368 original size:5 final size:5
Alignment explanation
Indices: 95730358--95730384 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
95730348 TTGAGTTTAT
95730358 ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA AT
95730385 TAAAACATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:95730840 original size:29 final size:29
Alignment explanation
Indices: 95730782--95730840 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
95730772 GTTTTAAAAA
* * *
95730782 TTTTAAAAATTCAAAAATATAAAATTTAT
1 TTTTAAAAATTAAAAAACATAAAATCTAT
*
95730811 TTTTATAAATTAAAAAACATTAAAA-CTAT
1 TTTTAAAAATTAAAAAACA-TAAAATCTAT
95730840 T
1 T
95730841 AATAAGTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (29 bp):
TTTTAAAAATTAAAAAACATAAAATCTAT
Found at i:95732345 original size:38 final size:39
Alignment explanation
Indices: 95732301--95732385 Score: 136
Period size: 38 Copynumber: 2.2 Consensus size: 39
95732291 AACAAATATA
*
95732301 TTTAATACAATAAAATATTTATTATATTTAT-TTGTGTT
1 TTTAATACAATAAAATATTTATTATATTTATGTAGTGTT
*
95732339 TTTAATATAATAAAATATTTATTATATTTATGGTAGTGTT
1 TTTAATACAATAAAATATTTATTATATTTAT-GTAGTGTT
95732379 TTTAATA
1 TTTAATA
95732386 TAAATATTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
38 30 0.70
40 13 0.30
ACGTcount: A:0.38, C:0.01, G:0.07, T:0.54
Consensus pattern (39 bp):
TTTAATACAATAAAATATTTATTATATTTATGTAGTGTT
Found at i:95740240 original size:26 final size:27
Alignment explanation
Indices: 95740201--95740253 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
95740191 TAAAATGGAT
95740201 TTTATTTTAGTGGATAATAAAT-TTAGA
1 TTTATTTTAGTGGA-AATAAATATTAGA
*
95740228 TTTATTTTA-TGGAACTAAATATTAGA
1 TTTATTTTAGTGGAAATAAATATTAGA
95740254 AAAAAGAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 6 0.25
26 9 0.38
27 9 0.38
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (27 bp):
TTTATTTTAGTGGAAATAAATATTAGA
Found at i:95749897 original size:8 final size:8
Alignment explanation
Indices: 95749884--95749908 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
95749874 TTAGGTATTA
95749884 TGGAATTT
1 TGGAATTT
95749892 TGGAATTT
1 TGGAATTT
95749900 TGGAATTT
1 TGGAATTT
95749908 T
1 T
95749909 TTAATTTGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (8 bp):
TGGAATTT
Found at i:95750250 original size:16 final size:16
Alignment explanation
Indices: 95750209--95750283 Score: 55
Period size: 16 Copynumber: 4.7 Consensus size: 16
95750199 TGGGCAGTAG
95750209 AAGAAGAAGAGAAAAA
1 AAGAAGAAGAGAAAAA
*
95750225 AAGAACAAGAGAAGAAA
1 AAGAAGAAGAGAA-AAA
* *
95750242 CAG-AGAAGA-AAAAG
1 AAGAAGAAGAGAAAAA
* * * *
95750256 AAGAGGAGGAGGAGAAG
1 AAGAAGAAGA-GAAAAA
95750273 AAGAAGAAGAG
1 AAGAAGAAGAG
95750284 GAGGAGAATG
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
14 4 0.09
15 6 0.13
16 18 0.40
17 17 0.38
ACGTcount: A:0.64, C:0.03, G:0.33, T:0.00
Consensus pattern (16 bp):
AAGAAGAAGAGAAAAA
Found at i:95750274 original size:23 final size:24
Alignment explanation
Indices: 95750243--95750309 Score: 100
Period size: 23 Copynumber: 2.8 Consensus size: 24
95750233 GAGAAGAAAC
95750243 AGAGAAGAAAAAGAAGAGGAGGAG
1 AGAGAAGAAAAAGAAGAGGAGGAG
*
95750267 -GAGAAGAAGAAGAAGAGGAGGAG
1 AGAGAAGAAAAAGAAGAGGAGGAG
95750290 AATGAGAAGAAAAAGAAGAG
1 -A-GAGAAGAAAAAGAAGAG
95750310 AAAATGGAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
23 22 0.58
26 16 0.42
ACGTcount: A:0.58, C:0.00, G:0.40, T:0.01
Consensus pattern (24 bp):
AGAGAAGAAAAAGAAGAGGAGGAG
Found at i:95750282 original size:26 final size:26
Alignment explanation
Indices: 95750245--95750308 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
95750235 GAAGAAACAG
* *
95750245 AGAAGAAAAAGAAGAGGAGGAGGAGA
1 AGAAGAAGAAGAAGAGGAGAAGGAGA
* *
95750271 AGAAGAAGAAGAGGAGGAGAATGAGA
1 AGAAGAAGAAGAAGAGGAGAAGGAGA
*
95750297 AGAAAAAGAAGA
1 AGAAGAAGAAGA
95750309 GAAAATGGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.59, C:0.00, G:0.39, T:0.02
Consensus pattern (26 bp):
AGAAGAAGAAGAAGAGGAGAAGGAGA
Found at i:95750297 original size:20 final size:20
Alignment explanation
Indices: 95750248--95750300 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
95750238 GAAACAGAGA
* *
95750248 AGAAAAAGAAGAGGAGGAGG
1 AGAAGAAGAAGAAGAGGAGG
95750268 AGAAGAAGAAGAAGAGGAGG
1 AGAAGAAGAAGAAGAGGAGG
95750288 AGAATG-AGAAGAA
1 AGAA-GAAGAAGAA
95750301 AAAGAAGAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.42, T:0.02
Consensus pattern (20 bp):
AGAAGAAGAAGAAGAGGAGG
Found at i:95750299 original size:17 final size:17
Alignment explanation
Indices: 95750207--95750291 Score: 54
Period size: 17 Copynumber: 5.2 Consensus size: 17
95750197 CTTGGGCAGT
*
95750207 AGAAGAAGAAGA-GAAA
1 AGAAGAAGAAGAGGAGA
* * *
95750223 AAAAGAACAAGAGAAGA
1 AGAAGAAGAAGAGGAGA
*
95750240 A-ACAG-AGAAGA--AAA
1 AGA-AGAAGAAGAGGAGA
* *
95750254 AGAAGAGGAGGAGGAGA
1 AGAAGAAGAAGAGGAGA
*
95750271 AGAAGAAGAAGAGGAGG
1 AGAAGAAGAAGAGGAGA
95750288 AGAA
1 AGAA
95750292 TGAGAAGAAA
Statistics
Matches: 51, Mismatches: 12, Indels: 11
0.69 0.16 0.15
Matches are distributed among these distances:
14 5 0.10
15 5 0.10
16 16 0.31
17 25 0.49
ACGTcount: A:0.62, C:0.02, G:0.35, T:0.00
Consensus pattern (17 bp):
AGAAGAAGAAGAGGAGA
Found at i:95751788 original size:30 final size:31
Alignment explanation
Indices: 95751721--95751788 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
95751711 ATTGTTAATC
* * **
95751721 AGTGGCTATTTTGTCACTTTTTTATAACGTT
1 AGTGACTATTTTGTAACTTTTCGATAACGTT
95751752 AGTGACTATTTTGTAACTTTTCGA-AA-GTT
1 AGTGACTATTTTGTAACTTTTCGATAACGTT
95751781 GAGTGACT
1 -AGTGACT
95751789 GAAATGAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 3 0.09
30 9 0.28
31 20 0.62
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.46
Consensus pattern (31 bp):
AGTGACTATTTTGTAACTTTTCGATAACGTT
Found at i:95752466 original size:15 final size:15
Alignment explanation
Indices: 95752442--95752480 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
95752432 TTTTGAAGAC
*
95752442 ATTTACTTTTATAAT
1 ATTTATTTTTATAAT
*
95752457 ATTTATTTTTTTAAT
1 ATTTATTTTTATAAT
*
95752472 TTTTATTTT
1 ATTTATTTT
95752481 AAATTATGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (15 bp):
ATTTATTTTTATAAT
Found at i:95756330 original size:6 final size:6
Alignment explanation
Indices: 95756321--95756351 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
95756311 GTTGGTGCCC
*
95756321 GTGGCG GTGGCG GTTGCG GTGGCG GTGGCG G
1 GTGGCG GTGGCG GTGGCG GTGGCG GTGGCG G
95756352 AGGAAGGGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.16, G:0.65, T:0.19
Consensus pattern (6 bp):
GTGGCG
Found at i:95757288 original size:25 final size:25
Alignment explanation
Indices: 95757260--95757311 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
95757250 ATTATAAAAA
*
95757260 ATAATTTATATA-TTATAAAAATATT
1 ATAATATATATATTTATAAAAAT-TT
*
95757285 ATAATATATTTATTTATAAAAATTT
1 ATAATATATATATTTATAAAAATTT
95757310 AT
1 AT
95757312 GGGTTAAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
ATAATATATATATTTATAAAAATTT
Found at i:95757480 original size:16 final size:16
Alignment explanation
Indices: 95757459--95757489 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95757449 TTATAATTTT
*
95757459 TTATAAAGTTTATATA
1 TTATAAAATTTATATA
95757475 TTATAAAATTTATAT
1 TTATAAAATTTATAT
95757490 TATTTTTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
TTATAAAATTTATATA
Found at i:95757513 original size:36 final size:34
Alignment explanation
Indices: 95757437--95757536 Score: 105
Period size: 36 Copynumber: 2.9 Consensus size: 34
95757427 GTTATGAAAG
*
95757437 TTATTATACAATTTATAATTTTTTATAAAGTTTA
1 TTATTATAAAATTTATAATTTTTTATAAAGTTTA
* *
95757471 TATATTATAAAATTTATATTATTTTTATTTAA-TTTA
1 T-TATTATAAAATTTATAAT-TTTTTA-TAAAGTTTA
*
95757507 CTTATTATAAAATATA-AATTTATTTATAAA
1 -TTATTATAAAATTTATAATTT-TTTATAAA
95757537 TCAATAATGG
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
34 6 0.11
35 22 0.40
36 23 0.42
37 4 0.07
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (34 bp):
TTATTATAAAATTTATAATTTTTTATAAAGTTTA
Done.