Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, whole genome shotgun sequence
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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 16 of 100
Found at i:4469593 original size:34 final size:34
Alignment explanation
Indices: 4469549--4469616 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
4469539 ATTCTATTTC
* *
4469549 TACCTGTGTAAGTTGATTGAAAGAGAGAACGGGA
1 TACCTATGTAAGTTGATTGAAAGAAAGAACGGGA
4469583 TACCTATGTAAGTTGATTGAAAGAAAGAACGGGA
1 TACCTATGTAAGTTGATTGAAAGAAAGAACGGGA
4469617 ACTAAGTGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.29, T:0.24
Consensus pattern (34 bp):
TACCTATGTAAGTTGATTGAAAGAAAGAACGGGA
Found at i:4481081 original size:3 final size:3
Alignment explanation
Indices: 4481075--4481100 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4481065 TTCTTCAACA
4481075 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
4481101 GCTAAAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4481932 original size:25 final size:22
Alignment explanation
Indices: 4481904--4481952 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
4481894 TTGAAAACGT
*
4481904 AGAAACCTAGCGAAGAACCAAAAAA
1 AGAAACCT-GC-AAGAA-AAAAAAA
4481929 AGAAACCTGCAAGAAAAAAAAA
1 AGAAACCTGCAAGAAAAAAAAA
4481951 AG
1 AG
4481953 GAAAAATAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 8 0.35
23 5 0.22
24 2 0.09
25 8 0.35
ACGTcount: A:0.63, C:0.16, G:0.16, T:0.04
Consensus pattern (22 bp):
AGAAACCTGCAAGAAAAAAAAA
Found at i:4481949 original size:23 final size:25
Alignment explanation
Indices: 4481904--4481956 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
4481894 TTGAAAACGT
**
4481904 AGAAACCTAGCGAAGAACCAAAAAA
1 AGAAACCTAGCGAAGAAAAAAAAAA
4481929 AGAAACCT-GC-AAGAAAAAAAAAA
1 AGAAACCTAGCGAAGAAAAAAAAAA
*
4481952 GGAAA
1 AGAAA
4481957 AATAGAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 15 0.60
24 2 0.08
25 8 0.32
ACGTcount: A:0.64, C:0.15, G:0.17, T:0.04
Consensus pattern (25 bp):
AGAAACCTAGCGAAGAAAAAAAAAA
Found at i:4491568 original size:2 final size:2
Alignment explanation
Indices: 4491561--4491606 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
4491551 TATGAATGTG
*
4491561 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4491603 TA TA
1 TA TA
4491607 AAGGTAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4497969 original size:15 final size:15
Alignment explanation
Indices: 4497949--4497978 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4497939 CCAAACCAAC
4497949 CTCACAACAAAAATA
1 CTCACAACAAAAATA
4497964 CTCACAACAAAAATA
1 CTCACAACAAAAATA
4497979 GAACCCTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.13
Consensus pattern (15 bp):
CTCACAACAAAAATA
Found at i:4500854 original size:7 final size:7
Alignment explanation
Indices: 4500842--4500873 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
4500832 ACCTCCAGCT
4500842 GTGGGCA
1 GTGGGCA
4500849 GTGGGCA
1 GTGGGCA
4500856 GTGGGCA
1 GTGGGCA
*
4500863 GTGGGCT
1 GTGGGCA
4500870 GTGG
1 GTGG
4500874 TCTGTGGTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.09, C:0.12, G:0.59, T:0.19
Consensus pattern (7 bp):
GTGGGCA
Found at i:4500880 original size:14 final size:14
Alignment explanation
Indices: 4500839--4500873 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
4500829 GAAACCTCCA
4500839 GCTGTGGGCAGTGG
1 GCTGTGGGCAGTGG
*
4500853 GCAGTGGGCAGTGG
1 GCTGTGGGCAGTGG
4500867 GCTGTGG
1 GCTGTGG
4500874 TCTGTGGTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.09, C:0.14, G:0.57, T:0.20
Consensus pattern (14 bp):
GCTGTGGGCAGTGG
Found at i:4504509 original size:23 final size:23
Alignment explanation
Indices: 4504482--4504528 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
4504472 AGGTGAATTT
*
4504482 TTTAATATAAAATAA-AAATTAAA
1 TTTAAAAT-AAATAATAAATTAAA
*
4504505 TTTAAAATAAATAATATATTAAA
1 TTTAAAATAAATAATAAATTAAA
4504528 T
1 T
4504529 GCATATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
TTTAAAATAAATAATAAATTAAA
Found at i:4506776 original size:25 final size:25
Alignment explanation
Indices: 4506748--4506804 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
4506738 TCGATATGAA
*
4506748 TAAAATATATAA-AAATAATATAATT
1 TAAAAT-TATAATAAAAAATATAATT
* *
4506773 TAAAATTTTAATAAAAAATATAA-A
1 TAAAATTATAATAAAAAATATAATT
4506797 TAAAATTA
1 TAAAATTA
4506805 ATAAAATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 11 0.41
25 16 0.59
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
TAAAATTATAATAAAAAATATAATT
Found at i:4519101 original size:16 final size:18
Alignment explanation
Indices: 4519082--4519114 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
4519072 AGTTTAAATT
4519082 ATTTAA-TATT-TATAAA
1 ATTTAATTATTATATAAA
4519098 ATTTAATTATTATATAA
1 ATTTAATTATTATATAA
4519115 TAGTTGCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTTAATTATTATATAAA
Found at i:4519745 original size:21 final size:20
Alignment explanation
Indices: 4519708--4519762 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
4519698 GACATCATAA
*
4519708 TTTG-AATATTTTGATAATT
1 TTTGTAATATTTTTATAATT
4519727 TTTGTAATATTTTTTATAATT
1 TTTGTAATA-TTTTTATAATT
4519748 TTTGTAATAATTTTT
1 TTTGTAAT-ATTTTT
4519763 GTCACCTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 23 0.72
22 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (20 bp):
TTTGTAATATTTTTATAATT
Found at i:4519763 original size:12 final size:12
Alignment explanation
Indices: 4519721--4519764 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
4519711 GAATATTTTG
4519721 ATAATTTTTGTA
1 ATAATTTTTGTA
4519733 AT-ATTTTT-T-
1 ATAATTTTTGTA
4519742 ATAATTTTTGTA
1 ATAATTTTTGTA
4519754 ATAATTTTTGT
1 ATAATTTTTGT
4519765 CACCTTGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 2 0.07
10 7 0.24
11 7 0.24
12 13 0.45
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (12 bp):
ATAATTTTTGTA
Found at i:4535768 original size:2 final size:2
Alignment explanation
Indices: 4535761--4535790 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4535751 AGGAGAACTT
4535761 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4535791 GAGAGAGAGA
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):
TA
Found at i:4535795 original size:2 final size:2
Alignment explanation
Indices: 4535790--4535821 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4535780 ATATATATAT
4535790 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4535822 TAAGGCAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4536931 original size:2 final size:2
Alignment explanation
Indices: 4536924--4536950 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4536914 ATAATTTTTA
4536924 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4536951 GGGGAAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4547302 original size:64 final size:66
Alignment explanation
Indices: 4547189--4547313 Score: 157
Period size: 64 Copynumber: 1.9 Consensus size: 66
4547179 GATCCGTGAC
* * * *
4547189 ATTCTTCCCCACCCACCCTCATGACGTCTTTGTCACGGAAGCTGGTTACCCTACCTATCTCCGTT
1 ATTCTTCCCCACCCACCCTCATGACGCCCTTGTCACAGAAGCTAGTTACCCTACCTATCTCCGTT
4547254 G
66 G
* * *
4547255 ATTC-TCCCCACCCACCC-CGTGATGCCCTTGTCACAGAAG-TCAGTTACCCTGCCTATCTC
1 ATTCTTCCCCACCCACCCTCATGACGCCCTTGTCACAGAAGCT-AGTTACCCTACCTATCTC
4547314 ATTTGAGACA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
63 1 0.02
64 33 0.65
65 13 0.25
66 4 0.08
ACGTcount: A:0.18, C:0.40, G:0.14, T:0.28
Consensus pattern (66 bp):
ATTCTTCCCCACCCACCCTCATGACGCCCTTGTCACAGAAGCTAGTTACCCTACCTATCTCCGTT
G
Found at i:4551625 original size:25 final size:24
Alignment explanation
Indices: 4551572--4551625 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
4551562 ATCAGCATTA
*
4551572 TTTATCAAAAAATTTATTTGATAT
1 TTTATCAAAAAATTTATTTAATAT
* *
4551596 ATTATTAATAAAATTT-TTTAATAAT
1 TTTATCAA-AAAATTTATTTAAT-AT
4551621 TTTAT
1 TTTAT
4551626 AGAGATAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (24 bp):
TTTATCAAAAAATTTATTTAATAT
Found at i:4554322 original size:33 final size:33
Alignment explanation
Indices: 4554238--4554323 Score: 127
Period size: 34 Copynumber: 2.6 Consensus size: 33
4554228 AAATAAAAAT
4554238 TATTTTTGAAAATATATTTTTAAATAATTACAA
1 TATTTTTGAAAATATATTTTTAAATAATTACAA
* * * *
4554271 TGCTTATTGAAAAAATATTTTTAAATAATTATAA
1 T-ATTTTTGAAAATATATTTTTAAATAATTACAA
4554305 TATTTTTGAAAATATATTT
1 TATTTTTGAAAATATATTT
4554324 ATTGGTATAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 16 0.36
34 29 0.64
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (33 bp):
TATTTTTGAAAATATATTTTTAAATAATTACAA
Found at i:4560605 original size:21 final size:21
Alignment explanation
Indices: 4560581--4560632 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
4560571 CCTGAAATTA
4560581 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
4560602 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
4560623 AT-AAATATTA
1 ATAAAATATTA
4560633 AAAAATATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 8 0.26
21 23 0.74
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:4560640 original size:16 final size:18
Alignment explanation
Indices: 4560618--4560663 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 18
4560608 TATTATTTTT
4560618 TAAATATAAATAT-TAAA
1 TAAATATAAATATATAAA
* *
4560635 -AAATATCATTATATAAA
1 TAAATATAAATATATAAA
*
4560652 TATATATAAATA
1 TAAATATAAATA
4560664 AAAAATTAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
16 10 0.45
17 4 0.18
18 8 0.36
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAATATAAATATATAAA
Found at i:4560640 original size:30 final size:31
Alignment explanation
Indices: 4560597--4560669 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
4560587 TATTATTTTT
* * * *
4560597 TAAATATAAAATATTATTTTTTAAATATAAA
1 TAAATAAAAAATATCATTATATAAATATAAA
* *
4560628 T-ATTAAAAAATATCATTATATAAATATATA
1 TAAATAAAAAATATCATTATATAAATATAAA
4560658 TAAATAAAAAAT
1 TAAATAAAAAAT
4560670 TAAATAATTA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
30 24 0.71
31 10 0.29
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (31 bp):
TAAATAAAAAATATCATTATATAAATATAAA
Found at i:4566703 original size:53 final size:53
Alignment explanation
Indices: 4566617--4566721 Score: 167
Period size: 53 Copynumber: 2.0 Consensus size: 53
4566607 AATCAAATAG
* *
4566617 CAATTTAAATGTTTCAATTATTGTTCATTTTTATTAATTTCTCATGTATGCTC
1 CAATTTAAATGTTTCAATTATTGTTCATATTTATTAATTTATCATGTATGCTC
*
4566670 CAATTTAAATGTTTCGATTATTGTAT-ATATTTATTAATTTATCATGTATGCT
1 CAATTTAAATGTTTCAATTATTGT-TCATATTTATTAATTTATCATGTATGCT
4566722 TCAGTTGATT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
53 47 0.98
54 1 0.02
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.52
Consensus pattern (53 bp):
CAATTTAAATGTTTCAATTATTGTTCATATTTATTAATTTATCATGTATGCTC
Found at i:4567582 original size:14 final size:15
Alignment explanation
Indices: 4567560--4567592 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
4567550 TAAAAATATC
*
4567560 TTTATATTTT-AAAT
1 TTTAAATTTTAAAAT
4567574 TTTAAATTTTAAAAT
1 TTTAAATTTTAAAAT
4567589 TTTA
1 TTTA
4567593 TTTTTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTAAATTTTAAAAT
Found at i:4574303 original size:34 final size:33
Alignment explanation
Indices: 4574255--4574322 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 33
4574245 TTAATGATAA
* * *
4574255 TTTTTTGATTCAAATGCTGTTAATTTAGCTATG
1 TTTTTTGATACAAATACTGTTAATTTAGCAATG
4574288 TTTTTTCGATACAAATACTGTTAATTTAGCAATG
1 TTTTTT-GATACAAATACTGTTAATTTAGCAATG
4574322 T
1 T
4574323 CTTATTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
33 6 0.19
34 25 0.81
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (33 bp):
TTTTTTGATACAAATACTGTTAATTTAGCAATG
Found at i:4576526 original size:10 final size:11
Alignment explanation
Indices: 4576496--4576528 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
4576486 TCATTTTTTT
4576496 AATGTAATGT-
1 AATGTAATGTG
4576506 AATGTAATGTG
1 AATGTAATGTG
4576517 AAT-TAATGTG
1 AATGTAATGTG
4576527 AA
1 AA
4576529 GGGTGTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 19 0.86
11 3 0.14
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.36
Consensus pattern (11 bp):
AATGTAATGTG
Found at i:4577412 original size:7 final size:7
Alignment explanation
Indices: 4577383--4577436 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
4577373 ACATATTTTT
*
4577383 TTTAATA
1 TTTAAAA
4577390 TTTAAAA
1 TTTAAAA
4577397 TTGTCAAAA
1 TT-T-AAAA
4577406 TTTAAAA
1 TTTAAAA
*
4577413 TTTGAAA
1 TTTAAAA
*
4577420 TTAAAAA
1 TTTAAAA
*
4577427 TTTAATA
1 TTTAAAA
4577434 TTT
1 TTT
4577437 TATCTATAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
7 31 0.79
8 2 0.05
9 6 0.15
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (7 bp):
TTTAAAA
Found at i:4578111 original size:12 final size:12
Alignment explanation
Indices: 4578081--4578114 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4578071 CCATTCATTG
* *
4578081 ATATATCTATAT
1 ATATATATAAAT
4578093 ATATATATAAAT
1 ATATATATAAAT
4578105 ATATATATAA
1 ATATATATAA
4578115 TGGCTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (12 bp):
ATATATATAAAT
Found at i:4580335 original size:89 final size:89
Alignment explanation
Indices: 4580222--4580396 Score: 287
Period size: 89 Copynumber: 2.0 Consensus size: 89
4580212 TGAGACAAAG
* * * *
4580222 TGAAAAAGTGTTTGATAGCCAAAAATTTTTTATGTGGAAATTAATTATTATTTTGTATGAATTTA
1 TGAAAAAGTGTTTGATAACCAAAAATTTTTTACGTGAAAATTAATTATTATTTTATATGAATTTA
4580287 TATTTGATATATTATCATAAAAAT
66 TATTTGATATATTATCATAAAAAT
** *
4580311 TGAAAAAGTGTTTGATAATTAAAAATTTTTTACGTGAAAATTAATTATTATTTTATATGAGTTTA
1 TGAAAAAGTGTTTGATAACCAAAAATTTTTTACGTGAAAATTAATTATTATTTTATATGAATTTA
4580376 TATTTGATATATTATCATAAA
66 TATTTGATATATTATCATAAA
4580397 TTTTATGTCC
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 79 1.00
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.46
Consensus pattern (89 bp):
TGAAAAAGTGTTTGATAACCAAAAATTTTTTACGTGAAAATTAATTATTATTTTATATGAATTTA
TATTTGATATATTATCATAAAAAT
Found at i:4583159 original size:30 final size:30
Alignment explanation
Indices: 4583119--4583175 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
4583109 TAATGTATAT
4583119 TAAAGATTTATTTAGATATAAATTAAAAGA
1 TAAAGATTTATTTAGATATAAATTAAAAGA
* **
4583149 TAAAGGTTTATTTTTATATAAATTAAA
1 TAAAGATTTATTTAGATATAAATTAAA
4583176 GTTTAAGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (30 bp):
TAAAGATTTATTTAGATATAAATTAAAAGA
Found at i:4586575 original size:21 final size:21
Alignment explanation
Indices: 4586526--4586757 Score: 87
Period size: 21 Copynumber: 11.1 Consensus size: 21
4586516 ATCAAATTTC
* * *
4586526 TTACATAAGTTACTAAAAACA
1 TTACAAAAGTTACCAAAAATA
*
4586547 CTACAAAAGTTACCAAAAATA
1 TTACAAAAGTTACCAAAAATA
* *
4586568 TTATAAAAGCTT-CC-AAAATC
1 TTACAAAAG-TTACCAAAAATA
* ** *
4586588 TGACAAAAGTTATAAAAAAAAA
1 TTACAAAAGTTA-CCAAAAATA
** * *
4586610 CCCACAAAAGTTACCAAAATTT
1 -TTACAAAAGTTACCAAAAATA
* *
4586632 TTATAGAAAG-TA-CAAAAACA
1 TTACA-AAAGTTACCAAAAATA
* * * * * * *
4586652 CTATAAAAATTATCTAAATTC
1 TTACAAAAGTTACCAAAAATA
* *
4586673 TTATAAAACTTACCAAAAATA
1 TTACAAAAGTTACCAAAAATA
* ** * *
4586694 CTACAACGGTTACGAAAATTA
1 TTACAAAAGTTACCAAAAATA
* *
4586715 TTATAAAAGTTATC-AAAATA
1 TTACAAAAGTTACCAAAAATA
* *
4586735 TTACAAAAGTTAGCAAAATTA
1 TTACAAAAGTTACCAAAAATA
4586756 TT
1 TT
4586758 CCCAATATAT
Statistics
Matches: 147, Mismatches: 55, Indels: 18
0.67 0.25 0.08
Matches are distributed among these distances:
19 5 0.03
20 40 0.27
21 78 0.53
22 14 0.10
23 10 0.07
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.27
Consensus pattern (21 bp):
TTACAAAAGTTACCAAAAATA
Found at i:4586742 original size:20 final size:20
Alignment explanation
Indices: 4586708--4586753 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
4586698 AACGGTTACG
* *
4586708 AAAATTATTATAAAAGTTATC
1 AAAA-TATTACAAAAGTTAGC
4586729 AAAATATTACAAAAGTTAGC
1 AAAATATTACAAAAGTTAGC
4586749 AAAAT
1 AAAAT
4586754 TATTCCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (20 bp):
AAAATATTACAAAAGTTAGC
Found at i:4586753 original size:41 final size:40
Alignment explanation
Indices: 4586613--4586757 Score: 123
Period size: 41 Copynumber: 3.5 Consensus size: 40
4586603 AAAAAAACCC
* *
4586613 ACAAAAGTTACCAAAATTTTTATAGAAAG-TACAAAAACACT
1 ACAAAAGTTA-CAAAATTATTATA-AAAGTTACAAAAATACT
* * * * *
4586654 ATAAAAATTATCTAAATTCTTATAAAACTTACCAAAAATACT
1 ACAAAAGTTA-CAAAATTATTATAAAAGTTA-CAAAAATACT
** *
4586696 ACAACGGTTACGAAAATTATTATAAAAGTTATC-AAAATATT
1 ACAAAAGTTAC-AAAATTATTATAAAAGTTA-CAAAAATACT
4586737 ACAAAAGTTAGCAAAATTATT
1 ACAAAAGTTA-CAAAATTATT
4586758 CCCAATATAT
Statistics
Matches: 82, Mismatches: 18, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
40 3 0.04
41 46 0.56
42 33 0.40
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (40 bp):
ACAAAAGTTACAAAATTATTATAAAAGTTACAAAAATACT
Found at i:4587851 original size:10 final size:10
Alignment explanation
Indices: 4587838--4587868 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
4587828 CTTTCCATGG
*
4587838 ATTTCATTTC
1 ATTTCATTCC
4587848 ATTTCATTCC
1 ATTTCATTCC
4587858 ATTTCATTCC
1 ATTTCATTCC
4587868 A
1 A
4587869 AATAAAACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.23, C:0.26, G:0.00, T:0.52
Consensus pattern (10 bp):
ATTTCATTCC
Found at i:4589760 original size:13 final size:13
Alignment explanation
Indices: 4589742--4589768 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4589732 CCTGCACAAG
4589742 TTTTTTTCCCTTT
1 TTTTTTTCCCTTT
4589755 TTTTTTTCCCTTT
1 TTTTTTTCCCTTT
4589768 T
1 T
4589769 GATGAATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTTTCCCTTT
Found at i:4592028 original size:24 final size:24
Alignment explanation
Indices: 4592001--4592050 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
4591991 AACATACATT
*
4592001 TAGTTTTACTT-TTAGTTTTTCACA
1 TAGTTTTACTTCTTAGCTTTTC-CA
*
4592025 TAGTTTTATTTCTTAGCTTTTCCA
1 TAGTTTTACTTCTTAGCTTTTCCA
4592049 TA
1 TA
4592051 TGGTATCAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.20, C:0.14, G:0.08, T:0.58
Consensus pattern (24 bp):
TAGTTTTACTTCTTAGCTTTTCCA
Found at i:4596273 original size:18 final size:18
Alignment explanation
Indices: 4596247--4596397 Score: 126
Period size: 18 Copynumber: 8.9 Consensus size: 18
4596237 AGCATAATTT
*
4596247 TATTTATAAATAATATTA
1 TATTAATAAATAATATTA
*
4596265 TATTAATAAATAA-ATAA
1 TATTAATAAATAATATTA
* *
4596282 TATT-AT--ATTATAATA
1 TATTAATAAATAATATTA
4596297 TATTAATAAATAATATTA
1 TATTAATAAATAATATTA
*
4596315 TATGAATAAATAATA-TA
1 TATTAATAAATAATATTA
4596332 CTATTAAT--AT-A-A-TA
1 -TATTAATAAATAATATTA
*
4596346 TATTAATAAATATTATTA
1 TATTAATAAATAATATTA
* * *
4596364 -ATAAATAATATATTAATA
1 TATTAATAA-ATAATATTA
4596382 TATTAATAAATAATAT
1 TATTAATAAATAATAT
4596398 AAAGAATAAT
Statistics
Matches: 106, Mismatches: 15, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
13 7 0.07
14 6 0.06
15 9 0.08
16 6 0.06
17 17 0.16
18 54 0.51
19 7 0.07
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.44
Consensus pattern (18 bp):
TATTAATAAATAATATTA
Found at i:4596297 original size:8 final size:7
Alignment explanation
Indices: 4596256--4596398 Score: 66
Period size: 8 Copynumber: 20.1 Consensus size: 7
4596246 TTATTTATAA
4596256 ATAATAT
1 ATAATAT
4596263 -T-ATAT
1 ATAATAT
*
4596268 -TAATAA
1 ATAATAT
4596274 ATAAATAAT
1 AT-AAT-AT
*
4596283 ATTATATT
1 ATAATA-T
4596291 ATAATAT
1 ATAATAT
*
4596298 ATTAATAA
1 A-TAATAT
4596306 ATAATAT
1 ATAATAT
4596313 -T-ATAT
1 ATAATAT
* *
4596318 -GAATAA
1 ATAATAT
4596324 ATAATAT
1 ATAATAT
*
4596331 ACTATTAAT
1 A-TAAT-AT
4596340 ATAATAT
1 ATAATAT
*
4596347 ATTAATAA
1 A-TAATAT
*
4596355 ATATTAT
1 ATAATAT
*
4596362 -TAATAA
1 ATAATAT
4596368 ATAATAT
1 ATAATAT
4596375 ATTAATAT
1 A-TAATAT
*
4596383 ATTAATAA
1 A-TAATAT
4596391 ATAATAT
1 ATAATAT
4596398 A
1 A
4596399 AAGAATAATA
Statistics
Matches: 103, Mismatches: 20, Indels: 26
0.69 0.13 0.17
Matches are distributed among these distances:
5 9 0.09
6 12 0.12
7 33 0.32
8 43 0.42
9 6 0.06
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.43
Consensus pattern (7 bp):
ATAATAT
Found at i:4596337 original size:36 final size:33
Alignment explanation
Indices: 4596252--4596381 Score: 118
Period size: 32 Copynumber: 4.1 Consensus size: 33
4596242 AATTTTATTT
4596252 ATAAATAATATTATATTAATAAATAA-ATA-ATA
1 ATAAATAATA-TATATTAATAAATAATATATATA
* * *
4596284 TTATATTATAATATATTAATAAATAATATTATATGA
1 ATAAATAAT-ATATATTAATAAATAATA-TATAT-A
4596320 ATAAATAATATACTATTAAT--ATAATATAT-TA
1 ATAAATAATATA-TATTAATAAATAATATATATA
4596351 AT--A-AATAT-TATTAATAAATAATATAT-TA
1 ATAAATAATATATATTAATAAATAATATATATA
4596379 ATA
1 ATA
4596382 TATTAATAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 21
0.75 0.05 0.19
Matches are distributed among these distances:
26 7 0.08
28 18 0.22
29 1 0.01
31 3 0.04
32 22 0.27
33 5 0.06
34 8 0.10
35 5 0.06
36 14 0.17
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (33 bp):
ATAAATAATATATATTAATAAATAATATATATA
Found at i:4596399 original size:28 final size:28
Alignment explanation
Indices: 4596263--4596399 Score: 113
Period size: 28 Copynumber: 4.7 Consensus size: 28
4596253 TAAATAATAT
*
4596263 TATATTAATAAATAAATAATATTATATTATAA
1 TATATTAATAAAT-AAT-ATAATATA-T-TAA
*
4596295 TATATTAATAAATAATAT--TATATGAA
1 TATATTAATAAATAATATAATATATTAA
*
4596321 TA-AATAATATACTATTAATATAATATATTAA
1 TATATTAATA-A--A-TAATATAATATATTAA
*
4596352 TAAATATT-ATTAATAA-ATAATATATTAA
1 T--ATATTAATAAATAATATAATATATTAA
4596380 TATATTAATAAATAATATAA
1 TATATTAATAAATAATATAA
4596400 AGAATAATAA
Statistics
Matches: 88, Mismatches: 6, Indels: 26
0.73 0.05 0.22
Matches are distributed among these distances:
25 6 0.07
26 10 0.11
27 8 0.09
28 22 0.25
29 9 0.10
30 3 0.03
31 11 0.12
32 14 0.16
33 3 0.03
34 2 0.02
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (28 bp):
TATATTAATAAATAATATAATATATTAA
Found at i:4596557 original size:25 final size:25
Alignment explanation
Indices: 4596493--4596558 Score: 87
Period size: 26 Copynumber: 2.6 Consensus size: 25
4596483 TTTTTTAAGA
*
4596493 TTAATCATTTTAATAATAAATAATTT
1 TTAAT-ATTTTAATAATAAAGAATTT
**
4596519 CAATATATTTTAATAATAAAGAATTT
1 TTA-ATATTTTAATAATAAAGAATTT
4596545 TTAATATTTTAATA
1 TTAATATTTTAATA
4596559 GTCATATTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 11 0.32
26 21 0.62
27 2 0.06
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (25 bp):
TTAATATTTTAATAATAAAGAATTT
Found at i:4603692 original size:16 final size:16
Alignment explanation
Indices: 4603661--4603705 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
4603651 ACTAAAATTT
4603661 AAATAAAT-AAAAATA
1 AAATAAATGAAAAATA
*
4603676 AAATAAATGAAATATA
1 AAATAAATGAAAAATA
4603692 AAA-AAATTGAAAAA
1 AAATAAA-TGAAAAA
4603706 ATCCAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (16 bp):
AAATAAATGAAAAATA
Found at i:4607977 original size:13 final size:15
Alignment explanation
Indices: 4607959--4607995 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
4607949 ATTAAATAGT
*
4607959 TAATTAAATG-TT-A
1 TAATTAAAAGATTAA
4607972 TAATTAAAAGATTAA
1 TAATTAAAAGATTAA
4607987 TAATTAAAA
1 TAATTAAAA
4607996 TAATTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.43
14 2 0.10
15 10 0.48
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (15 bp):
TAATTAAAAGATTAA
Found at i:4608825 original size:14 final size:15
Alignment explanation
Indices: 4608788--4608826 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
4608778 GTACTTATTG
4608788 TTTGACTATTAATAA
1 TTTGACTATTAATAA
**
4608803 TGAGACTATTAA-AA
1 TTTGACTATTAATAA
4608817 TTTGACTATT
1 TTTGACTATT
4608827 GATGACGAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (15 bp):
TTTGACTATTAATAA
Found at i:4610682 original size:2 final size:2
Alignment explanation
Indices: 4610675--4610700 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4610665 TCATACATAA
4610675 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
4610701 GAGACAAGAC
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):
AT
Found at i:4611596 original size:20 final size:20
Alignment explanation
Indices: 4611571--4611608 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
4611561 TCTCATCCCC
4611571 GCAAATATTTAATTTAATAA
1 GCAAATATTTAATTTAATAA
4611591 GCAAATATTTAATTTAAT
1 GCAAATATTTAATTTAAT
4611609 GAATATGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (20 bp):
GCAAATATTTAATTTAATAA
Found at i:4611726 original size:26 final size:26
Alignment explanation
Indices: 4611697--4611748 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
4611687 GTATATTTTG
** * *
4611697 ATATTTTTTTATAAATATATATTAAT
1 ATATTTTTCAATAAAAATATACTAAT
4611723 ATATTTTTCAATAAAAATATACTAAT
1 ATATTTTTCAATAAAAATATACTAAT
4611749 TCTAATTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (26 bp):
ATATTTTTCAATAAAAATATACTAAT
Found at i:4612003 original size:2 final size:2
Alignment explanation
Indices: 4611996--4612055 Score: 57
Period size: 2 Copynumber: 30.0 Consensus size: 2
4611986 TTAATATCTT
* * * * * *
4611996 TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA CA CA CA CA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
4612038 CA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
4612056 AGATAAACTT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (2 bp):
TA
Found at i:4618394 original size:34 final size:33
Alignment explanation
Indices: 4618324--4618394 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 33
4618314 TTAATGATAA
* * *
4618324 TTTTTTGATTCAAATGCTGTTAATTTAGCTATG
1 TTTTTTGATACAAATACTGTTAATTTAGCTACG
4618357 TTTTTTCGATACAAATACTGTTAATTTAG-TGACG
1 TTTTTT-GATACAAATACTGTTAATTTAGCT-ACG
4618391 TTTT
1 TTTT
4618395 ATCATATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 7 0.21
34 26 0.79
ACGTcount: A:0.25, C:0.10, G:0.14, T:0.51
Consensus pattern (33 bp):
TTTTTTGATACAAATACTGTTAATTTAGCTACG
Found at i:4621473 original size:23 final size:21
Alignment explanation
Indices: 4621447--4621500 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 21
4621437 TACATATTTT
4621447 TTTAATATTTAAAATTATCAAAA
1 TTTAATATTTAAAATTA--AAAA
* *
4621470 TTTAAAATTTGAAATTAAAAA
1 TTTAATATTTAAAATTAAAAA
4621491 TTTAATATTT
1 TTTAATATTT
4621501 TATCAATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 13 0.46
23 15 0.54
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
TTTAATATTTAAAATTAAAAA
Found at i:4621476 original size:7 final size:7
Alignment explanation
Indices: 4621447--4621500 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
4621437 TACATATTTT
*
4621447 TTTAATA
1 TTTAAAA
4621454 TTTAAAA
1 TTTAAAA
4621461 TTATCAAAA
1 TT-T-AAAA
4621470 TTTAAAA
1 TTTAAAA
*
4621477 TTTGAAA
1 TTTAAAA
*
4621484 TTAAAAA
1 TTTAAAA
*
4621491 TTTAATA
1 TTTAAAA
4621498 TTT
1 TTT
4621501 TATCAATAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
7 31 0.79
8 2 0.05
9 6 0.15
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (7 bp):
TTTAAAA
Found at i:4622164 original size:2 final size:2
Alignment explanation
Indices: 4622152--4622192 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
4622142 CCATTCATTG
* *
4622152 AT AT AT CT AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4622193 ATGGCTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:4624481 original size:88 final size:89
Alignment explanation
Indices: 4624328--4624505 Score: 286
Period size: 88 Copynumber: 2.0 Consensus size: 89
4624318 AAAACTTGAG
* * *
4624328 ACAAAGTGAAAAAGTCTTTGATAGCCAAAAATTTTTTACGTGGAAATTAATTATTATTTTGTATG
1 ACAAAGTGAAAAAGTCTTTGATAACCAAAAATTTTTTACGTGAAAATTAATTATTATTTTATATG
4624393 AATTTATATTT-ATATATTATCAT
66 AATTTATATTTGATATATTATCAT
* * **
4624416 ACAAATTGAAAAAGTGTTTGATAATTAAAAATTTTTTACGTGAAAATTAATTATTATTTTATATG
1 ACAAAGTGAAAAAGTCTTTGATAACCAAAAATTTTTTACGTGAAAATTAATTATTATTTTATATG
4624481 AATTTATATTTGATATATTATCAT
66 AATTTATATTTGATATATTATCAT
4624505 A
1 A
4624506 AATTTTATAT
Statistics
Matches: 82, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 69 0.84
89 13 0.16
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.44
Consensus pattern (89 bp):
ACAAAGTGAAAAAGTCTTTGATAACCAAAAATTTTTTACGTGAAAATTAATTATTATTTTATATG
AATTTATATTTGATATATTATCAT
Found at i:4625600 original size:23 final size:22
Alignment explanation
Indices: 4625570--4625613 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
4625560 TTCTTTGTGG
4625570 TAGATCTATTACGTAGCCAGTGT
1 TAGATCTATTACGTA-CCAGTGT
*
4625593 TAGATCTATTATGTACCAGTG
1 TAGATCTATTACGTACCAGTG
4625614 AGAAAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (22 bp):
TAGATCTATTACGTACCAGTGT
Found at i:4627284 original size:30 final size:30
Alignment explanation
Indices: 4627244--4627300 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
4627234 TAATGTATAT
4627244 TAAAGATTTATTTAGATATAAATTAAAAGA
1 TAAAGATTTATTTAGATATAAATTAAAAGA
* **
4627274 TAAAGGTTTATTTTTATATAAATTAAA
1 TAAAGATTTATTTAGATATAAATTAAA
4627301 GTTTAAGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (30 bp):
TAAAGATTTATTTAGATATAAATTAAAAGA
Found at i:4630344 original size:2 final size:2
Alignment explanation
Indices: 4630337--4630369 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4630327 GAAACCTCAC
4630337 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4630370 CACATCCCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4630698 original size:21 final size:21
Alignment explanation
Indices: 4630649--4630876 Score: 79
Period size: 21 Copynumber: 10.9 Consensus size: 21
4630639 ATCAAATTTC
* * *
4630649 TTACATAAGTTACTAAAAACA
1 TTACAAAAGTTACCAAAAATA
*
4630670 CTACAAAAGTTACCAAAAATA
1 TTACAAAAGTTACCAAAAATA
* *
4630691 TTATAAAAGCTT-CC-AAAATC
1 TTACAAAAG-TTACCAAAAATA
* ** *
4630711 TGACAAAAGTTATAAAAAAAAAA
1 TTACAAAAG-T-TACCAAAAATA
** * *
4630734 CCCACAAAAGTTACCAAAATTT
1 -TTACAAAAGTTACCAAAAATA
* *
4630756 TTATAGAAAG-TA-CAAAAACA
1 TTACA-AAAGTTACCAAAAATA
* * * * * * *
4630776 CTATAAAAATTATCTAAATTC
1 TTACAAAAGTTACCAAAAATA
* *
4630797 TTATAAAACTTACCAAAAATA
1 TTACAAAAGTTACCAAAAATA
* ** * *
4630818 CTACAACGGTTACGAAAATTA
1 TTACAAAAGTTACCAAAAATA
* *
4630839 TTATAAAAGTTATC-AAAATA
1 TTACAAAAGTTACCAAAAATA
*
4630859 TTACAAAAGTTAGCAAAA
1 TTACAAAAGTTACCAAAA
4630877 TTACTCCCAA
Statistics
Matches: 143, Mismatches: 55, Indels: 18
0.66 0.25 0.08
Matches are distributed among these distances:
19 3 0.02
20 41 0.29
21 75 0.52
22 12 0.08
23 5 0.03
24 7 0.05
ACGTcount: A:0.54, C:0.14, G:0.06, T:0.26
Consensus pattern (21 bp):
TTACAAAAGTTACCAAAAATA
Found at i:4630866 original size:20 final size:20
Alignment explanation
Indices: 4630832--4630877 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
4630822 AACGGTTACG
* *
4630832 AAAATTATTATAAAAGTTATC
1 AAAA-TATTACAAAAGTTAGC
4630853 AAAATATTACAAAAGTTAGC
1 AAAATATTACAAAAGTTAGC
4630873 AAAAT
1 AAAAT
4630878 TACTCCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (20 bp):
AAAATATTACAAAAGTTAGC
Found at i:4630877 original size:41 final size:40
Alignment explanation
Indices: 4630737--4630879 Score: 119
Period size: 41 Copynumber: 3.5 Consensus size: 40
4630727 AAAAAAACCC
* *
4630737 ACAAAAGTTACCAAAATTTTTATAGAAAG-TACAAAAACACT
1 ACAAAAGTTA-CAAAATTATTATA-AAAGTTACAAAAATACT
* * * * *
4630778 ATAAAAATTATCTAAATTCTTATAAAACTTACCAAAAATACT
1 ACAAAAGTTA-CAAAATTATTATAAAAGTTA-CAAAAATACT
** *
4630820 ACAACGGTTACGAAAATTATTATAAAAGTTATC-AAAATATT
1 ACAAAAGTTAC-AAAATTATTATAAAAGTTA-CAAAAATACT
4630861 ACAAAAGTTAGCAAAATTA
1 ACAAAAGTTA-CAAAATTA
4630880 CTCCCAATAT
Statistics
Matches: 80, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
40 3 0.04
41 44 0.55
42 33 0.41
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (40 bp):
ACAAAAGTTACAAAATTATTATAAAAGTTACAAAAATACT
Found at i:4632523 original size:28 final size:28
Alignment explanation
Indices: 4632460--4632523 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
4632450 AAATTTGTTT
*
4632460 AAAATTTATACATTTGATTTATATTATA
1 AAAATTTTTACATTTGATTTATATTATA
* *
4632488 AAATTTTTTA-ATTT-ATTTATTTTTAATA
1 AAAATTTTTACATTTGATTTA-TATT-ATA
4632516 AAAATTTT
1 AAAATTTT
4632524 CATGAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 5 0.17
27 7 0.23
28 18 0.60
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (28 bp):
AAAATTTTTACATTTGATTTATATTATA
Found at i:4636491 original size:24 final size:24
Alignment explanation
Indices: 4636464--4636513 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
4636454 AACATACATT
*
4636464 TAGTTTTACTT-TTAGTTTTTCACA
1 TAGTTTTACTTCTTAGCTTTTC-CA
*
4636488 TAGTTTTATTTCTTAGCTTTTCCA
1 TAGTTTTACTTCTTAGCTTTTCCA
4636512 TA
1 TA
4636514 TGATATCAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.20, C:0.14, G:0.08, T:0.58
Consensus pattern (24 bp):
TAGTTTTACTTCTTAGCTTTTCCA
Found at i:4640787 original size:28 final size:28
Alignment explanation
Indices: 4640738--4640842 Score: 115
Period size: 28 Copynumber: 3.7 Consensus size: 28
4640728 TTTATAAATA
* *
4640738 ATATTATATTA-ATAAATAAATAATATT
1 ATATTATAATATATTAATAAATAATATT
4640765 ATATTATAATATATTAATAAATAATATACT
1 ATATTATAATATATTAATAAATAATAT--T
* *
4640795 ATTAATATAATATATTAATAAATATTATT
1 A-TATTATAATATATTAATAAATAATATT
*
4640824 A-ATAAATAATATATTAATA
1 ATAT-TATAATATATTAATA
4640843 TATTAATAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
27 11 0.16
28 28 0.42
29 2 0.03
30 2 0.03
31 24 0.36
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (28 bp):
ATATTATAATATATTAATAAATAATATT
Found at i:4640821 original size:41 final size:36
Alignment explanation
Indices: 4640737--4640869 Score: 119
Period size: 36 Copynumber: 3.6 Consensus size: 36
4640727 ATTTATAAAT
* *
4640737 AATATTATATTAATAAATAA-ATAATATTATATT-ATA
1 AATATTATA--AATAAATAATATATTAATATATTAATA
*
4640773 ATATATTAATAAATAATATACTATTAATATAATATATTAATA
1 A-ATATT-ATAAATAA-ATAATA-T-AT-TAATATATTAATA
*
4640815 AATATTATTAATAAATAATATATTAATATATTAATA
1 AATATTATAAATAAATAATATATTAATATATTAATA
* *
4640851 AATAATATAAA-GAATAATA
1 AATATTATAAATAAATAATA
4640870 AATAGTTTTA
Statistics
Matches: 81, Mismatches: 8, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
35 7 0.09
36 28 0.35
37 10 0.12
38 5 0.06
39 6 0.07
40 8 0.10
41 13 0.16
42 4 0.05
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (36 bp):
AATATTATAAATAAATAATATATTAATATATTAATA
Found at i:4640850 original size:44 final size:46
Alignment explanation
Indices: 4640729--4640850 Score: 128
Period size: 44 Copynumber: 2.7 Consensus size: 46
4640719 ATAATTTTAT
* * *
4640729 TTATAAAT-AATATTATATTAATAAATAAATAATATTATATTATAATA
1 TTATTAATAAATAATATATTAAT-AATTAAT-ATATTATATTATAATA
* *
4640776 -TATTAATAAATAATATACTATTAATATAATATATTA-A-TA-AATA
1 TTATTAATAAATAATATATTAATAAT-TAATATATTATATTATAATA
4640819 TTATTAATAAATAATATATTAATATATTAATA
1 TTATTAATAAATAATATATTAATA-ATTAATA
4640851 AATAATATAA
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
43 4 0.06
44 28 0.44
45 3 0.05
46 15 0.23
47 14 0.22
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (46 bp):
TTATTAATAAATAATATATTAATAATTAATATATTATATTATAATA
Found at i:4640860 original size:28 final size:29
Alignment explanation
Indices: 4640797--4640860 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
4640787 AATATACTAT
* * *
4640797 TAATATAATATAT-TAATAAATATTATTAA
1 TAATATAATATATATAATATAT-TAATAAA
4640826 TAA-ATAATATAT-TAATATATTAATAAA
1 TAATATAATATATATAATATATTAATAAA
4640853 TAATATAA
1 TAATATAA
4640861 AGAATAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 8 0.26
28 20 0.65
29 3 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (29 bp):
TAATATAATATATATAATATATTAATAAA
Found at i:4640873 original size:23 final size:23
Alignment explanation
Indices: 4640730--4640873 Score: 57
Period size: 23 Copynumber: 6.3 Consensus size: 23
4640720 TAATTTTATT
* **
4640730 TATAAAT-AATATTATATTAATA
1 TATAAATAAATAATATAAGAATA
* * * *
4640752 AATAAATAATATTATATTATAATA
1 TATAAATAA-ATAATATAAGAATA
* ** *
4640776 TATTAATAAATAATATACTATTA
1 TATAAATAAATAATATAAGAATA
* *
4640799 -ATATAATATATTA-AT-A-AATA
1 TATA-AATAAATAATATAAGAATA
* **
4640819 TTATTAATAAATAATATATTAATA
1 -TATAAATAAATAATATAAGAATA
*
4640843 TATTAATAAATAATATAAAGAATA
1 TATAAATAAATAATAT-AAGAATA
4640867 -ATAAATA
1 TATAAATA
4640874 GTTTTATTTT
Statistics
Matches: 90, Mismatches: 23, Indels: 17
0.69 0.18 0.13
Matches are distributed among these distances:
20 3 0.03
21 7 0.08
22 14 0.16
23 40 0.44
24 26 0.29
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.41
Consensus pattern (23 bp):
TATAAATAAATAATATAAGAATA
Found at i:4648199 original size:23 final size:23
Alignment explanation
Indices: 4648173--4648217 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
4648163 TCATATTAAG
4648173 AAATA-AAATAAATAAAAAAAATA
1 AAATATAAA-AAATAAAAAAAATA
**
4648196 AAATATAAAAAATTGAAAAAAT
1 AAATATAAAAAATAAAAAAAAT
4648218 CCAAAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (23 bp):
AAATATAAAAAATAAAAAAAATA
Found at i:4650731 original size:2 final size:2
Alignment explanation
Indices: 4650724--4650749 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4650714 TACATAAATC
4650724 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
4650750 AAAATTCAGT
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:4662660 original size:18 final size:17
Alignment explanation
Indices: 4662637--4662678 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
4662627 CATTTATATT
4662637 ATTTAATAACTATATTAA
1 ATTTAA-AACTATATTAA
*
4662655 ATTT-AAATTATATTAA
1 ATTTAAAACTATATTAA
4662671 ATATTAAA
1 AT-TTAAA
4662679 TAGATTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 12 0.57
17 3 0.14
18 6 0.29
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTAAAACTATATTAA
Found at i:4662666 original size:16 final size:17
Alignment explanation
Indices: 4662647--4662679 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
4662637 ATTTAATAAC
4662647 TATATTAAAT-TTAAAT
1 TATATTAAATATTAAAT
4662663 TATATTAAATATTAAAT
1 TATATTAAATATTAAAT
4662680 AGATTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATTAAATATTAAAT
Found at i:4662863 original size:20 final size:20
Alignment explanation
Indices: 4662840--4662877 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4662830 CACAAAATAC
* *
4662840 ATTTATGTATAATTAATTGA
1 ATTTATGAATAATAAATTGA
4662860 ATTTATGAATAATAAATT
1 ATTTATGAATAATAAATT
4662878 TCTATTTGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (20 bp):
ATTTATGAATAATAAATTGA
Found at i:4671075 original size:10 final size:10
Alignment explanation
Indices: 4671060--4671084 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4671050 TATGTAATTG
4671060 TATATTTATA
1 TATATTTATA
4671070 TATATTTATA
1 TATATTTATA
4671080 TATAT
1 TATAT
4671085 ATTAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TATATTTATA
Found at i:4671079 original size:16 final size:16
Alignment explanation
Indices: 4671036--4671100 Score: 53
Period size: 16 Copynumber: 4.0 Consensus size: 16
4671026 CTAAATATGA
*
4671036 ATATATATAT-TATTT
1 ATATATATTTATATTT
*
4671051 ATGTA-ATTGTATATTT
1 ATATATATT-TATATTT
*
4671067 ATATATATTTATATAT
1 ATATATATTTATATTT
*
4671083 ATATTAAATTTTATATTT
1 ATA-TATA-TTTATATTT
4671101 GTATTTAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
14 2 0.05
15 5 0.13
16 18 0.46
17 6 0.15
18 8 0.21
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
ATATATATTTATATTT
Found at i:4671117 original size:19 final size:20
Alignment explanation
Indices: 4671095--4671143 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
4671085 ATTAAATTTT
4671095 ATATTTGTAT-TTAAAAA-TA
1 ATATTT-TATATTAAAAAGTA
4671114 ATATTTTATATTAAAAAGTA
1 ATATTTTATATTAAAAAGTA
*
4671134 ATATTATATA
1 ATATTTTATA
4671144 AATATTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 3 0.11
19 13 0.48
20 11 0.41
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (20 bp):
ATATTTTATATTAAAAAGTA
Found at i:4671130 original size:20 final size:20
Alignment explanation
Indices: 4671102--4671143 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
4671092 TTTATATTTG
* *
4671102 TATTTAAAAATAATATTTTA
1 TATTAAAAAATAATATTATA
*
4671122 TATTAAAAAGTAATATTATA
1 TATTAAAAAATAATATTATA
4671142 TA
1 TA
4671144 AATATTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
TATTAAAAAATAATATTATA
Found at i:4671185 original size:24 final size:24
Alignment explanation
Indices: 4671156--4671212 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
4671146 TATTTTTTGT
* *
4671156 TATTTATTTA-ATTTTATATTTATA
1 TATTTATATATATTTTAAATTT-TA
4671180 TATTTATATATATTTTAAATTTTA
1 TATTTATATATATTTTAAATTTTA
4671204 TATTTATAT
1 TATTTATAT
4671213 TTAAAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 20 0.67
25 10 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
TATTTATATATATTTTAAATTTTA
Found at i:4671193 original size:18 final size:16
Alignment explanation
Indices: 4671165--4671206 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4671155 TTATTTATTT
*
4671165 AATTTTATAT-TTATA
1 AATTTTATATATTTTA
*
4671180 TATTTATATATATTTTA
1 AATTT-TATATATTTTA
4671197 AATTTTATAT
1 AATTTTATAT
4671207 TTATATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 4 0.18
16 10 0.45
17 8 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTTTATATATTTTA
Found at i:4671214 original size:108 final size:110
Alignment explanation
Indices: 4671045--4671242 Score: 346
Period size: 108 Copynumber: 1.8 Consensus size: 110
4671035 AATATATATA
*
4671045 TTATTTATGTAATTGTATATTTATATATATTTATATATATATTAAATTTTATATTTGTATTTAAA
1 TTATTTATGTAATTGTATATTTATATATATTTATATATATATTAAATTTTATATTTATATTTAAA
4671110 AATAATATTTTATATTAAAAAGTAATATTATATAAATATTTTTTG
66 AATAATATTTTATATTAAAAAGTAATATTATATAAATATTTTTTG
* * *
4671155 TTATTTATTTAATTTTATA-TT-TATATATTTATATATATTTTAAATTTTATATTTATATTTAAA
1 TTATTTATGTAATTGTATATTTATATATATTTATATATATATTAAATTTTATATTTATATTTAAA
4671218 AATAATATTTTATATTAAAAAGTAA
66 AATAATATTTTATATTAAAAAGTAA
4671243 CATTTTATTA
Statistics
Matches: 84, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
108 65 0.77
109 2 0.02
110 17 0.20
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (110 bp):
TTATTTATGTAATTGTATATTTATATATATTTATATATATATTAAATTTTATATTTATATTTAAA
AATAATATTTTATATTAAAAAGTAATATTATATAAATATTTTTTG
Found at i:4671225 original size:19 final size:19
Alignment explanation
Indices: 4671203--4671251 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
4671193 TTTAAATTTT
4671203 ATATTTATATTTAAAAA-TA
1 ATATTT-TATTTAAAAAGTA
4671222 ATATTTTATATTAAAAAGTA
1 ATATTTTAT-TTAAAAAGTA
*
4671242 ACATTTTATT
1 ATATTTTATT
4671252 AATTTTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 3 0.11
19 14 0.52
20 10 0.37
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
ATATTTTATTTAAAAAGTA
Found at i:4671229 original size:20 final size:20
Alignment explanation
Indices: 4671206--4671250 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
4671196 AAATTTTATA
*
4671206 TTTATATTTAAAAA-TAATAT
1 TTTATA-TTAAAAAGTAACAT
4671226 TTTATATTAAAAAGTAACAT
1 TTTATATTAAAAAGTAACAT
4671246 TTTAT
1 TTTAT
4671251 TAATTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (20 bp):
TTTATATTAAAAAGTAACAT
Found at i:4671236 original size:38 final size:37
Alignment explanation
Indices: 4671082--4671236 Score: 99
Period size: 38 Copynumber: 4.2 Consensus size: 37
4671072 TATTTATATA
*
4671082 TATATTAAATTTTATATTTGTATTTAAAAATAATATTT
1 TATATTAAATTTTATATTTATATTTAAAAAT-ATATTT
* * * *
4671120 TATATTAAA----A-AGTAATATTATATAAATATTTTT
1 TATATTAAATTTTATATTTATATT-TAAAAATATATTT
* * * * * * *
4671153 TGTTATT-TATTTAAT-TTTATATTTATATATTTATATA
1 T-ATATTAAATTTTATATTTATATTTAAAAATATAT-TT
*
4671190 TATTTTAAATTTTATATTTATATTTAAAAATAATATTT
1 TATATTAAATTTTATATTTATATTTAAAAAT-ATATTT
4671228 TATATTAAA
1 TATATTAAA
4671237 AAGTAACATT
Statistics
Matches: 84, Mismatches: 22, Indels: 22
0.66 0.17 0.17
Matches are distributed among these distances:
33 13 0.15
34 11 0.13
36 11 0.13
37 15 0.18
38 31 0.37
39 3 0.04
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (37 bp):
TATATTAAATTTTATATTTATATTTAAAAATATATTT
Found at i:4677057 original size:26 final size:26
Alignment explanation
Indices: 4677028--4677078 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
4677018 TATATTTTGG
** *
4677028 TATTTTTTTATAAACATATATTAATA
1 TATTTTTCAATAAAAATATATTAATA
4677054 TATTTTTCAATAAAAATATATTAAT
1 TATTTTTCAATAAAAATATATTAAT
4677079 TTTAATTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (26 bp):
TATTTTTCAATAAAAATATATTAATA
Found at i:4677328 original size:2 final size:2
Alignment explanation
Indices: 4677321--4677353 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4677311 TTGATATCCC
4677321 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4677354 GATAAACTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4680764 original size:60 final size:60
Alignment explanation
Indices: 4680666--4680779 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 60
4680656 ATAAATGCAA
* * *
4680666 AAATTTTAGACCTAAAGCATAACATTATGTTTGCCTATTTTCATACTGATTGATAACATTG
1 AAATTTTAGACCTAAAGCAT-ACAGTATGTTTGACTATTTCCATACTGATTGATAACATTG
4680727 AAATTTTAGACCTTAAA-CAT-CAGGTATGTTTGACTATTTCCATACTGATTGAT
1 AAATTTTAGACC-TAAAGCATACA-GTATGTTTGACTATTTCCATACTGATTGAT
4680780 GCAATTTGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
59 2 0.04
60 27 0.56
61 15 0.31
62 4 0.08
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (60 bp):
AAATTTTAGACCTAAAGCATACAGTATGTTTGACTATTTCCATACTGATTGATAACATTG
Found at i:4683254 original size:26 final size:26
Alignment explanation
Indices: 4683215--4683268 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
4683205 TTGGTTCACA
*
4683215 TTCATAATTAATAGCCTAGTTTCGGT
1 TTCATAATTAATAGCCTAGTTTCAGT
*
4683241 TTCATAATTTATAGCCTAGTTTCAGT
1 TTCATAATTAATAGCCTAGTTTCAGT
4683267 TT
1 TT
4683269 TTCTTTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (26 bp):
TTCATAATTAATAGCCTAGTTTCAGT
Found at i:4684810 original size:20 final size:20
Alignment explanation
Indices: 4684771--4684827 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
4684761 TCGAATTTAA
* *
4684771 ATAATTTATAAGTATTAATAT
1 ATAATTTAT-ATTTTTAATAT
4684792 ATAATTTATATTTTTAATAT
1 ATAATTTATATTTTTAATAT
*
4684812 A-AATATTAAATTTTTA
1 ATAAT-TTATATTTTTA
4684828 CTTTTTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.09
20 20 0.62
21 9 0.28
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
ATAATTTATATTTTTAATAT
Found at i:4686264 original size:16 final size:17
Alignment explanation
Indices: 4686243--4686313 Score: 69
Period size: 16 Copynumber: 4.4 Consensus size: 17
4686233 AAATAGATTT
*
4686243 ATTTAT-AATTAATTGA
1 ATTTATGAATTAATTAA
4686259 ATTTATGAATATAA-TAA
1 ATTTATGAAT-TAATTAA
*
4686276 ATTTATGAA-TGATTAA
1 ATTTATGAATTAATTAA
* *
4686292 ATTCAT-AAATAATTAA
1 ATTTATGAATTAATTAA
4686308 ATTTAT
1 ATTTAT
4686314 TCAATTTTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
15 4 0.09
16 25 0.54
17 14 0.30
18 3 0.07
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.45
Consensus pattern (17 bp):
ATTTATGAATTAATTAA
Found at i:4686433 original size:20 final size:20
Alignment explanation
Indices: 4686393--4686433 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4686383 AAACCCAAAA
* *
4686393 TAAATTTATGTACAATTAAT
1 TAAATTTATGAACAATAAAT
*
4686413 TAAATTTATGAATAATAAAT
1 TAAATTTATGAACAATAAAT
4686433 T
1 T
4686434 TCTATTTGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (20 bp):
TAAATTTATGAACAATAAAT
Found at i:4688611 original size:139 final size:139
Alignment explanation
Indices: 4688437--4688714 Score: 556
Period size: 139 Copynumber: 2.0 Consensus size: 139
4688427 GCTTTTGTCC
4688437 GATTTTGTCTCACTGAATGCAGTTCTTGATCACCCAAAGAACAATCCAGGTAACCACTCTTTCTT
1 GATTTTGTCTCACTGAATGCAGTTCTTGATCACCCAAAGAACAATCCAGGTAACCACTCTTTCTT
4688502 TGCATTTTTAATATTTTGCTGTAGTTTGTTAACTTAATCATCTTGGAGGGTGGATCATAACGGTA
66 TGCATTTTTAATATTTTGCTGTAGTTTGTTAACTTAATCATCTTGGAGGGTGGATCATAACGGTA
4688567 ATCAGGGGA
131 ATCAGGGGA
4688576 GATTTTGTCTCACTGAATGCAGTTCTTGATCACCCAAAGAACAATCCAGGTAACCACTCTTTCTT
1 GATTTTGTCTCACTGAATGCAGTTCTTGATCACCCAAAGAACAATCCAGGTAACCACTCTTTCTT
4688641 TGCATTTTTAATATTTTGCTGTAGTTTGTTAACTTAATCATCTTGGAGGGTGGATCATAACGGTA
66 TGCATTTTTAATATTTTGCTGTAGTTTGTTAACTTAATCATCTTGGAGGGTGGATCATAACGGTA
4688706 ATCAGGGGA
131 ATCAGGGGA
4688715 TTCTTGGCCC
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
139 139 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (139 bp):
GATTTTGTCTCACTGAATGCAGTTCTTGATCACCCAAAGAACAATCCAGGTAACCACTCTTTCTT
TGCATTTTTAATATTTTGCTGTAGTTTGTTAACTTAATCATCTTGGAGGGTGGATCATAACGGTA
ATCAGGGGA
Found at i:4695533 original size:21 final size:21
Alignment explanation
Indices: 4695508--4695549 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
4695498 GATCTTGATC
*
4695508 GATTCAATTTGATTTTATAAG
1 GATTCAACTTGATTTTATAAG
4695529 GATTCAACTTGATTTTATAAG
1 GATTCAACTTGATTTTATAAG
4695550 ATAAATATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.45
Consensus pattern (21 bp):
GATTCAACTTGATTTTATAAG
Found at i:4695715 original size:16 final size:15
Alignment explanation
Indices: 4695694--4695749 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 15
4695684 ATATATATAT
4695694 TATTTATATAATTGTA
1 TATTTATATAATT-TA
4695710 TATTTATAT-ATTTA
1 TATTTATATAATTTA
* *
4695724 TATATATTTAAATTTTA
1 TATTTATAT-AA-TTTA
4695741 TATTTATAT
1 TATTTATAT
4695750 TAAAAAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
14 9 0.27
15 3 0.09
16 10 0.30
17 11 0.33
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (15 bp):
TATTTATATAATTTA
Found at i:4695719 original size:31 final size:31
Alignment explanation
Indices: 4695684--4695749 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
4695674 ATCTGAATGG
4695684 ATATATATAT-TAT-TTATATAATTGTATATTT
1 ATATATATATATATATT-TA-AATTGTATATTT
* *
4695715 ATATATTTATATATATTTAAATTTTATATTT
1 ATATATATATATATATTTAAATTGTATATTT
4695746 ATAT
1 ATAT
4695750 TAAAAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 24 0.77
32 5 0.16
33 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (31 bp):
ATATATATATATATATTTAAATTGTATATTT
Found at i:4695788 original size:20 final size:20
Alignment explanation
Indices: 4695745--4695788 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
4695735 ATTTTATATT
* *
4695745 TATATTAAAAAATAATATTT
1 TATATTAAAAAATAACATTA
4695765 TATATTAAAAAATAACATTA
1 TATATTAAAAAATAACATTA
4695785 TATA
1 TATA
4695789 AATATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TATATTAAAAAATAACATTA
Found at i:4695848 original size:22 final size:23
Alignment explanation
Indices: 4695814--4695857 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
4695804 TTATTTAATG
4695814 TTATATTTATATATTTTTAAAATT
1 TTATATTTATATA-TTTTAAAATT
4695838 TTATA-TT-TATATTTTAAAAT
1 TTATATTTATATATTTTAAAAT
4695858 AATATTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.45
22 4 0.20
23 2 0.10
24 5 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TTATATTTATATATTTTAAAATT
Found at i:4696394 original size:16 final size:16
Alignment explanation
Indices: 4696353--4696407 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
4696343 ATATATATAA
4696353 ATAT-TTTTTATTATTT
1 ATATATTTTTA-TATTT
* *
4696369 ATTTAATTTTATATTT
1 ATATATTTTTATATTT
4696385 ATATATTTTT-TAATTT
1 ATATATTTTTAT-ATTT
4696401 -TATATTT
1 ATATATTT
4696408 ATGTTTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
15 8 0.24
16 20 0.61
17 5 0.15
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
ATATATTTTTATATTT
Found at i:4696396 original size:23 final size:23
Alignment explanation
Indices: 4696359--4696409 Score: 86
Period size: 23 Copynumber: 2.2 Consensus size: 23
4696349 ATAAATATTT
4696359 TTTATTATTTATTTAATTTTATA
1 TTTATTATTTATTTAATTTTATA
4696382 TTTATATATTT-TTTAATTTTATA
1 TTTAT-TATTTATTTAATTTTATA
4696405 TTTAT
1 TTTAT
4696410 GTTTAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 22 0.81
24 5 0.19
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTATTATTTATTTAATTTTATA
Found at i:4696436 original size:22 final size:22
Alignment explanation
Indices: 4696401--4696452 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
4696391 TTTTTAATTT
*
4696401 TATATTTATGTTT-AAAAATAA
1 TATATTTATATTTAAAAAATAA
4696422 TATATTTTATATTTAAAAAATAA
1 TATA-TTTATATTTAAAAAATAA
4696445 TAT-TTTAT
1 TATATTTAT
4696453 TAATTTCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 9 0.32
22 8 0.29
23 11 0.39
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TATATTTATATTTAAAAAATAA
Found at i:4698397 original size:6 final size:6
Alignment explanation
Indices: 4698386--4698425 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
4698376 ACAGAAATCA
* *
4698386 AAAAGG AAAAGG AAAAGG ACAAGG ACAAGG AAAAAGG AAA
1 AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG -AAAAGG AAA
4698426 GAAAATTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.65, C:0.05, G:0.30, T:0.00
Consensus pattern (6 bp):
AAAAGG
Found at i:4702324 original size:22 final size:21
Alignment explanation
Indices: 4702295--4702357 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
4702285 CTGGTGAGCC
*
4702295 TTTT-ATTTCATG-GAAGCCAGG
1 TTTTGATTT-ATGTGAA-CCAGA
*
4702316 TTTTGATTTATGTGAATCAGA
1 TTTTGATTTATGTGAACCAGA
*
4702337 TTTTGATTTACGTGAACCAGA
1 TTTTGATTTATGTGAACCAGA
4702358 AACCTTAGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 29 0.81
22 7 0.19
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.41
Consensus pattern (21 bp):
TTTTGATTTATGTGAACCAGA
Found at i:4719087 original size:8 final size:8
Alignment explanation
Indices: 4719076--4719113 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
4719066 AATTAATTAA
4719076 TTATATAT
1 TTATATAT
4719084 TTATATAT
1 TTATATAT
*
4719092 TTATTTAGT
1 TTATATA-T
4719101 TT-TATAT
1 TTATATAT
4719108 TTATAT
1 TTATAT
4719114 TTAAAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 3 0.12
8 20 0.77
9 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (8 bp):
TTATATAT
Found at i:4720078 original size:2 final size:2
Alignment explanation
Indices: 4720071--4720110 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4720061 GGGAAGACAA
4720071 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4720111 TCGTATAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4725670 original size:17 final size:17
Alignment explanation
Indices: 4725650--4725683 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4725640 ATATCAATCA
* *
4725650 ATAAATATAAATAATAT
1 ATAAATAAAAAAAATAT
4725667 ATAAATAAAAAAAATAT
1 ATAAATAAAAAAAATAT
4725684 GTAATAAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAATAAAAAAAATAT
Found at i:4725735 original size:42 final size:40
Alignment explanation
Indices: 4725667--4725749 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 40
4725657 TAAATAATAT
* * *
4725667 ATAAATAAAAAAAATATGTAATAAAGTATATGCACATACA
1 ATAAATAAAAAAAATATATAACAAAGTACATGCACATACA
* *
4725707 ATAATATAAATAAGAATATATAACAAAGTACATGTACATACA
1 ATAA-ATAAA-AAAAATATATAACAAAGTACATGCACATACA
4725749 A
1 A
4725750 CAAAAATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
40 4 0.11
41 5 0.14
42 27 0.75
ACGTcount: A:0.59, C:0.08, G:0.07, T:0.25
Consensus pattern (40 bp):
ATAAATAAAAAAAATATATAACAAAGTACATGCACATACA
Found at i:4725761 original size:42 final size:41
Alignment explanation
Indices: 4725669--4725763 Score: 100
Period size: 42 Copynumber: 2.3 Consensus size: 41
4725659 AATAATATAT
* * * * *
4725669 AAATAAAAAAAATATGTAATAAAGTATATGCACATACAATA
1 AAATAATAAAAATATATAACAAAGTACATGCACATACAAAA
* * *
4725710 ATATAAATAAGAATATATAACAAAGTACATGTACATACAACAA
1 AAAT-AATAAAAATATATAACAAAGTACATGCACATACAA-AA
4725753 AAATAATAAAA
1 AAATAATAAAA
4725764 TGCAACATTG
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
41 3 0.07
42 35 0.83
43 4 0.10
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.23
Consensus pattern (41 bp):
AAATAATAAAAATATATAACAAAGTACATGCACATACAAAA
Found at i:4727917 original size:10 final size:10
Alignment explanation
Indices: 4727902--4727929 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
4727892 AGAATCTCCC
4727902 TCTTCGTTCT
1 TCTTCGTTCT
4727912 TCTTCGTTCT
1 TCTTCGTTCT
4727922 TCTTCGTT
1 TCTTCGTT
4727930 TTCCTCCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.29, G:0.11, T:0.61
Consensus pattern (10 bp):
TCTTCGTTCT
Found at i:4729158 original size:17 final size:18
Alignment explanation
Indices: 4729118--4729158 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
4729108 TAGTTGATAA
* *
4729118 ATGTTTATTTCATAGTAT
1 ATGTTTATTCCAAAGTAT
4729136 AT-TTTATTCCAAAG-AT
1 ATGTTTATTCCAAAGTAT
4729152 ATGTTTA
1 ATGTTTA
4729159 ATCTGTGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 4 0.20
17 14 0.70
18 2 0.10
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (18 bp):
ATGTTTATTCCAAAGTAT
Found at i:4731057 original size:51 final size:51
Alignment explanation
Indices: 4730996--4731097 Score: 168
Period size: 51 Copynumber: 2.0 Consensus size: 51
4730986 TAGGAGTTTA
*
4730996 ATGCTCAAGTGTAGGATTAAGAGGGCATCACTATGGTCATTATTAATGGTT
1 ATGCTCAAGTGTAGGATTAAGAGGGCATCACTATGGTCACTATTAATGGTT
* **
4731047 ATGCTCAAGTGTAGGATTAAGGGGGCATCTGTATGGTCACTATTAATGGTT
1 ATGCTCAAGTGTAGGATTAAGAGGGCATCACTATGGTCACTATTAATGGTT
4731098 GAGATTTCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.33
Consensus pattern (51 bp):
ATGCTCAAGTGTAGGATTAAGAGGGCATCACTATGGTCACTATTAATGGTT
Found at i:4734948 original size:21 final size:23
Alignment explanation
Indices: 4734910--4734951 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
4734900 GGTCTCTGAC
4734910 AAAAAAAAAATGATAATAATTTG
1 AAAAAAAAAATGATAATAATTTG
*
4734933 AAAAAATAAAT-A-AATAATT
1 AAAAAAAAAATGATAATAATT
4734952 ATGATTGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 1 0.06
23 10 0.56
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (23 bp):
AAAAAAAAAATGATAATAATTTG
Found at i:4735422 original size:22 final size:22
Alignment explanation
Indices: 4735374--4735422 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
4735364 TAGATAAAAT
* ** *
4735374 TATTTAACAATTTTTTTATTTA
1 TATTTAAAAATTTTTGGATATA
*
4735396 AATTTAAAAATTTTTGGATATA
1 TATTTAAAAATTTTTGGATATA
4735418 TATTT
1 TATTT
4735423 CCAATAAATT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (22 bp):
TATTTAAAAATTTTTGGATATA
Found at i:4737162 original size:60 final size:60
Alignment explanation
Indices: 4737069--4737188 Score: 213
Period size: 60 Copynumber: 2.0 Consensus size: 60
4737059 GCTGTACTCC
* * *
4737069 CATTTTCCTTGCTGATACAGATTATTGGGGAGAAGAGACAAACAAGGTTTTGAATTTTGA
1 CATTTTCCTTACTGATACAGATTATTAGGGAGAAAAGACAAACAAGGTTTTGAATTTTGA
4737129 CATTTTCCTTACTGATACAGATTATTAGGGAGAAAAGACAAACAAGGTTTTGAATTTTGA
1 CATTTTCCTTACTGATACAGATTATTAGGGAGAAAAGACAAACAAGGTTTTGAATTTTGA
4737189 TGGCTAAAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (60 bp):
CATTTTCCTTACTGATACAGATTATTAGGGAGAAAAGACAAACAAGGTTTTGAATTTTGA
Found at i:4746427 original size:2 final size:2
Alignment explanation
Indices: 4746416--4746454 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
4746406 TTCAAGGAGC
4746416 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4746455 GTCAAGAAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4759051 original size:2 final size:2
Alignment explanation
Indices: 4759044--4759070 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4759034 CCCAAAAGCC
4759044 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4759071 GCTGAACTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4759200 original size:158 final size:158
Alignment explanation
Indices: 4758912--4759226 Score: 630
Period size: 158 Copynumber: 2.0 Consensus size: 158
4758902 GGAATGACCA
4758912 AGCTGAACTGATGGACCAAAACATTTCAATTAGTATACAAGGAAAAGCTTGACAGTTGACGGCAC
1 AGCTGAACTGATGGACCAAAACATTTCAATTAGTATACAAGGAAAAGCTTGACAGTTGACGGCAC
4758977 TGGCCATTGATCTGCTATAAATATTGGCATAGTAACTCCAATACTTTCTTCATTTGGCCCAAAAG
66 TGGCCATTGATCTGCTATAAATATTGGCATAGTAACTCCAATACTTTCTTCATTTGGCCCAAAAG
4759042 CCATATATATATATATATATATATATAT
131 CCATATATATATATATATATATATATAT
4759070 AGCTGAACTGATGGACCAAAACATTTCAATTAGTATACAAGGAAAAGCTTGACAGTTGACGGCAC
1 AGCTGAACTGATGGACCAAAACATTTCAATTAGTATACAAGGAAAAGCTTGACAGTTGACGGCAC
4759135 TGGCCATTGATCTGCTATAAATATTGGCATAGTAACTCCAATACTTTCTTCATTTGGCCCAAAAG
66 TGGCCATTGATCTGCTATAAATATTGGCATAGTAACTCCAATACTTTCTTCATTTGGCCCAAAAG
4759200 CCATATATATATATATATATATATATA
131 CCATATATATATATATATATATATATA
4759227 ACCTCAACTT
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
158 157 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (158 bp):
AGCTGAACTGATGGACCAAAACATTTCAATTAGTATACAAGGAAAAGCTTGACAGTTGACGGCAC
TGGCCATTGATCTGCTATAAATATTGGCATAGTAACTCCAATACTTTCTTCATTTGGCCCAAAAG
CCATATATATATATATATATATATATAT
Found at i:4759209 original size:2 final size:2
Alignment explanation
Indices: 4759202--4759226 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4759192 CCCAAAAGCC
4759202 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4759227 ACCTCAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4764278 original size:36 final size:37
Alignment explanation
Indices: 4764174--4764280 Score: 164
Period size: 36 Copynumber: 2.9 Consensus size: 37
4764164 CATGTTAATC
* * *
4764174 AAAGGACTGATCCAGGTGTCATTCAATGAAGTCA-TA
1 AAAGGATTGATCCAAGTGTCATTCAATGAAGTGATTA
4764210 AAAGGATTGATCCAAGTGTCATTCAATGAAGTGATTA
1 AAAGGATTGATCCAAGTGTCATTCAATGAAGTGATTA
*
4764247 AAA-GATTGATCCAAGTGTCATTCAATAAAGTGAT
1 AAAGGATTGATCCAAGTGTCATTCAATGAAGTGAT
4764281 ATATTAAATA
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
36 61 0.92
37 5 0.08
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (37 bp):
AAAGGATTGATCCAAGTGTCATTCAATGAAGTGATTA
Found at i:4766532 original size:22 final size:22
Alignment explanation
Indices: 4766504--4766551 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
4766494 TATTATTTTT
4766504 TAAATATAAATATAAAATTAAA
1 TAAATATAAATATAAAATTAAA
* * *
4766526 TAAATATACATATATAATTAAT
1 TAAATATAAATATAAAATTAAA
4766548 TAAA
1 TAAA
4766552 AATTAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAATATAAATATAAAATTAAA
Found at i:4778989 original size:17 final size:18
Alignment explanation
Indices: 4778963--4778996 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4778953 CTGGTAGAGT
4778963 TTAAACT-AAATAAAAAA
1 TTAAACTAAAATAAAAAA
*
4778980 TTAAATTAAAATAAAAA
1 TTAAACTAAAATAAAAA
4778997 TTTGAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
TTAAACTAAAATAAAAAA
Found at i:4779796 original size:10 final size:10
Alignment explanation
Indices: 4779752--4779795 Score: 70
Period size: 10 Copynumber: 4.4 Consensus size: 10
4779742 TTTATTTTTA
4779752 AATTAAAAAT
1 AATTAAAAAT
4779762 AATTAAAAAT
1 AATTAAAAAT
4779772 AATTAAAAAT
1 AATTAAAAAT
**
4779782 AATTTCAAAT
1 AATTAAAAAT
4779792 AATT
1 AATT
4779796 TACATCCCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (10 bp):
AATTAAAAAT
Found at i:4779930 original size:25 final size:26
Alignment explanation
Indices: 4779892--4779941 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
4779882 AGGCTGTTGC
* *
4779892 TTTTT-TTTTTTTTATTTTAAAAATA
1 TTTTTGTTTATTTAATTTTAAAAATA
*
4779917 TTTTTGTTTATTTAATTTTATAAAT
1 TTTTTGTTTATTTAATTTTAAAAAT
4779942 GTATGATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (26 bp):
TTTTTGTTTATTTAATTTTAAAAATA
Found at i:4782913 original size:27 final size:26
Alignment explanation
Indices: 4782883--4782945 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 26
4782873 ATAAAATAAG
4782883 ATAATATTAT-TTAATTTAATTTTATTT
1 ATAATATTATCTT-ATTTAATTTTA-TT
*
4782910 ATAATATTATCTTATTTTATTTTATT
1 ATAATATTATCTTATTTAATTTTATT
*
4782936 ATAATTTTAT
1 ATAATATTAT
4782946 ATATTAAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 11 0.33
27 20 0.61
28 2 0.06
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (26 bp):
ATAATATTATCTTATTTAATTTTATT
Done.