Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 17 of 131
Found at i:4191037 original size:18 final size:18
Alignment explanation
Indices: 4190996--4191043 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
4190986 TAAAATATTT
4190996 ATTAAATATAAATACAAA
1 ATTAAATATAAATACAAA
*
4191014 AATAAATATAATATA-AAA
1 ATTAAATATAA-ATACAAA
* *
4191032 TTTAAAAATAAA
1 ATTAAATATAAA
4191044 AATAAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 1 0.04
18 21 0.84
19 3 0.12
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (18 bp):
ATTAAATATAAATACAAA
Found at i:4194720 original size:17 final size:17
Alignment explanation
Indices: 4194698--4194731 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4194688 TGCTAAACAA
*
4194698 AATATAAGATTAAGAAT
1 AATATAAGATCAAGAAT
4194715 AATATAAGATCAAGAAT
1 AATATAAGATCAAGAAT
4194732 TTGGAGCAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.12, T:0.26
Consensus pattern (17 bp):
AATATAAGATCAAGAAT
Found at i:4196481 original size:22 final size:22
Alignment explanation
Indices: 4196441--4196482 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4196431 TGTATATTTA
* **
4196441 TATTTGTATCTCTCGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
4196463 TATTTGTATCCCTAAAATTA
1 TATTTGTATCCCTAAAATTA
4196483 GGATAGACAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:4200417 original size:22 final size:22
Alignment explanation
Indices: 4200391--4200432 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4200381 TGTATATTTA
* *
4200391 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
4200413 TATTTGTATCCCTAAAATTA
1 TATTTGTATCCCTAAAATTA
4200433 GGATAGACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:4204874 original size:15 final size:16
Alignment explanation
Indices: 4204856--4204898 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
4204846 AATATTATTT
4204856 TTTAAATATA-AAATA
1 TTTAAATATATAAATA
* *
4204871 TTTAAAAATATAATTA
1 TTTAAATATATAAATA
*
4204887 TATAAATATATA
1 TTTAAATATATA
4204899 TAAATAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTAAATATATAAATA
Found at i:4210066 original size:3 final size:3
Alignment explanation
Indices: 4210058--4210117 Score: 84
Period size: 3 Copynumber: 20.0 Consensus size: 3
4210048 TAAGTGACTT
* * * *
4210058 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA CAA CAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4210106 TAA TAA TAA TAA
1 TAA TAA TAA TAA
4210118 AAAATTCATG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:4220652 original size:28 final size:28
Alignment explanation
Indices: 4220623--4220684 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
4220613 TATTTATTTA
4220623 TTTATTTTTGAAATATTTTAAAATTATAT
1 TTTATTTTTGAAATA-TTTAAAATTATAT
** * *
4220652 TTTATTTTTTTAATATTTAAAATTCTTT
1 TTTATTTTTGAAATATTTAAAATTATAT
4220680 TTTAT
1 TTTAT
4220685 ATATTTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 16 0.55
29 13 0.45
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (28 bp):
TTTATTTTTGAAATATTTAAAATTATAT
Found at i:4220666 original size:29 final size:28
Alignment explanation
Indices: 4220623--4220693 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 28
4220613 TATTTATTTA
**
4220623 TTTATTTTTGAAATATTTTAAAATTATAT
1 TTTATTTTTTTAATA-TTTAAAATTATAT
* *
4220652 TTTATTTTTTTAATATTTAAAATTCTTT
1 TTTATTTTTTTAATATTTAAAATTATAT
*
4220680 TTTATATATTTTAA
1 TTTAT-TTTTTTAA
4220694 AATTATTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 16 0.44
29 20 0.56
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (28 bp):
TTTATTTTTTTAATATTTAAAATTATAT
Found at i:4220712 original size:22 final size:21
Alignment explanation
Indices: 4220653--4220713 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 21
4220643 AAATTATATT
4220653 TTATTTTTT-TAATATTTAAAA
1 TTATTTTTTATAAT-TTTAAAA
*
4220674 TTCTTTTTTATATATTTTAAAA
1 TTATTTTTTATA-ATTTTAAAA
4220696 TTATTTTTTATGAATTTT
1 TTATTTTTTAT-AATTTT
4220714 TTACTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 8 0.23
22 24 0.69
23 3 0.09
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (21 bp):
TTATTTTTTATAATTTTAAAA
Found at i:4223237 original size:24 final size:24
Alignment explanation
Indices: 4223190--4223237 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
4223180 TTTAAAAACA
**
4223190 AAAAATAAAAATTATTTTGTAAAT
1 AAAAATAAAAATTATTTTCCAAAT
4223214 AAAAATAAAAA-TATTTTCCCAAAT
1 AAAAATAAAAATTATTTT-CCAAAT
4223238 CAGAGTCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.33
Consensus pattern (24 bp):
AAAAATAAAAATTATTTTCCAAAT
Found at i:4245396 original size:22 final size:22
Alignment explanation
Indices: 4245357--4245402 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
4245347 TTATATTTTT
*
4245357 TTATTTTTTTGAATATCTTAAAA
1 TTATTTTTTTGAACATC-TAAAA
4245380 TTATTTTTTT-AACATCTAAAA
1 TTATTTTTTTGAACATCTAAAA
4245401 TT
1 TT
4245403 GTTACATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.32
22 5 0.23
23 10 0.45
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.57
Consensus pattern (22 bp):
TTATTTTTTTGAACATCTAAAA
Found at i:4252591 original size:12 final size:12
Alignment explanation
Indices: 4252571--4252613 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
4252561 CCTTGGGCAC
* *
4252571 CATCTTCCTTAT
1 CATCATCCTCAT
4252583 CATCATCCTCAT
1 CATCATCCTCAT
4252595 CATCATCCTCAT
1 CATCATCCTCAT
*
4252607 CCTCATC
1 CATCATC
4252614 GTCCTCGTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (12 bp):
CATCATCCTCAT
Found at i:4252596 original size:9 final size:9
Alignment explanation
Indices: 4252582--4252625 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
4252572 ATCTTCCTTA
4252582 TCATCATCC
1 TCATCATCC
*
4252591 TCATCATCA
1 TCATCATCC
*
4252600 TCCTCATCC
1 TCATCATCC
*
4252609 TCATCGTCC
1 TCATCATCC
*
4252618 TCGTCATC
1 TCATCATC
4252626 TTCTTTCTCA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.18, C:0.43, G:0.05, T:0.34
Consensus pattern (9 bp):
TCATCATCC
Found at i:4254559 original size:2 final size:2
Alignment explanation
Indices: 4254552--4254588 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
4254542 AGAACAACAG
*
4254552 AT AT AT AT AA 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 AT AT A
4254589 ACAAAAGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:4257492 original size:17 final size:17
Alignment explanation
Indices: 4257470--4257502 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4257460 AGTTTGATAG
4257470 AATTCATAAAAAATTTA
1 AATTCATAAAAAATTTA
*
4257487 AATTCATGAAAAATTT
1 AATTCATAAAAAATTT
4257503 TCAATAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (17 bp):
AATTCATAAAAAATTTA
Found at i:4257683 original size:17 final size:15
Alignment explanation
Indices: 4257663--4257696 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
4257653 AAAATAAATG
4257663 AAAATGTAAACAAAAAA
1 AAAATG-AAA-AAAAAA
4257680 AAAATGAAAAAAAAA
1 AAAATGAAAAAAAAA
4257695 AA
1 AA
4257697 GAAAAACTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 3 0.18
17 6 0.35
ACGTcount: A:0.82, C:0.03, G:0.06, T:0.09
Consensus pattern (15 bp):
AAAATGAAAAAAAAA
Found at i:4257978 original size:19 final size:19
Alignment explanation
Indices: 4257954--4258009 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
4257944 TTCACCAAAA
*
4257954 TTTGATCGAAAAATTTAAT
1 TTTGATCGAAAAATTCAAT
*
4257973 TTTGATTGAAAAATTCAAT
1 TTTGATCGAAAAATTCAAT
* **
4257992 TTTTATTAAAAAATTCAA
1 TTTGATCGAAAAATTCAA
4258010 CCGATAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (19 bp):
TTTGATCGAAAAATTCAAT
Found at i:4258443 original size:6 final size:6
Alignment explanation
Indices: 4258434--4258505 Score: 56
Period size: 6 Copynumber: 11.7 Consensus size: 6
4258424 TTCAGTTTTC
* * *
4258434 ATAAAA ATAAAA GAT-AAA ATAAAA ATAAAA TTTAAGA ATAAAA TTAAAA
1 ATAAAA ATAAAA -ATAAAA ATAAAA ATAAAA -ATAAAA ATAAAA ATAAAA
* * *
4258483 ATGAATA ATAATA ATAATA ATAA
1 AT-AAAA ATAAAA ATAAAA ATAA
4258506 TTCATTGAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
5 2 0.04
6 42 0.76
7 11 0.20
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (6 bp):
ATAAAA
Found at i:4258457 original size:18 final size:19
Alignment explanation
Indices: 4258434--4258482 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
4258424 TTCAGTTTTC
4258434 ATAAAAATAAAAGATAA-A
1 ATAAAAATAAAAGATAAGA
**
4258452 ATAAAAATAAAATTTAAGA
1 ATAAAAATAAAAGATAAGA
*
4258471 ATAAAATTAAAA
1 ATAAAAATAAAA
4258483 ATGAATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (19 bp):
ATAAAAATAAAAGATAAGA
Found at i:4258492 original size:19 final size:17
Alignment explanation
Indices: 4258434--4258505 Score: 63
Period size: 19 Copynumber: 3.9 Consensus size: 17
4258424 TTCAGTTTTC
4258434 ATAAAAATAAAAGATAAA
1 ATAAAAATAAAA-ATAAA
*
4258452 ATAAAAATAAAATTTAAGA
1 ATAAAAATAAAA-ATAA-A
*
4258471 ATAAAATTAAAAATGAATA
1 ATAAAAATAAAAAT-AA-A
* *
4258490 ATAATAATAATAATAA
1 ATAAAAATAAAAATAA
4258506 TTCATTGAGC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
18 18 0.41
19 26 0.59
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (17 bp):
ATAAAAATAAAAATAAA
Found at i:4259766 original size:125 final size:125
Alignment explanation
Indices: 4259544--4259795 Score: 396
Period size: 125 Copynumber: 2.0 Consensus size: 125
4259534 AGAAAAAGTA
* *
4259544 AGGGTGCTCATTCATTCAGGATGGTCCACCTTTGTCTGTCTGGCTTCTATCTCTTTGAGCCCCAC
1 AGGGTCCTCATTCATTCAGGATGGTCCACCTTTGTCTATCTGGCTTCTATCTCTTTGAGCCCCAC
** *
4259609 TTCTCTTAAAAATGTTGCAAGTGGGACTCTCAAGGCATACCTAACACCCAACATTTGATT
66 TTCTCTTAAAAATGTCACAAGTGGCACTCTCAAGGCATACCTAACACCCAACATTTGATT
* * * * *
4259669 AGGGTCCTCATTCATTGAGGATGGTCCACCTTTGTTTATCTGGGTTCTATCTCTTTGAGTCCCTC
1 AGGGTCCTCATTCATTCAGGATGGTCCACCTTTGTCTATCTGGCTTCTATCTCTTTGAGCCCCAC
* *
4259734 TTCTCTTAAAAATGTCACAAGTGGCACTCTCAAGGCATACGTAACACCCAACATTTGTTT
66 TTCTCTTAAAAATGTCACAAGTGGCACTCTCAAGGCATACCTAACACCCAACATTTGATT
4259794 AG
1 AG
4259796 ATTTAAATAT
Statistics
Matches: 115, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
125 115 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (125 bp):
AGGGTCCTCATTCATTCAGGATGGTCCACCTTTGTCTATCTGGCTTCTATCTCTTTGAGCCCCAC
TTCTCTTAAAAATGTCACAAGTGGCACTCTCAAGGCATACCTAACACCCAACATTTGATT
Found at i:4265491 original size:18 final size:18
Alignment explanation
Indices: 4265464--4265525 Score: 72
Period size: 18 Copynumber: 3.4 Consensus size: 18
4265454 TTAAAAATAT
* *
4265464 TTTAAAATTTTAAATTTA
1 TTTAATATTTTAAATTAA
4265482 TTTAATATTTTAAATTAA
1 TTTAATATTTTAAATTAA
* *
4265500 TATT-ATATATCAAATTAA
1 T-TTAATATTTTAAATTAA
4265518 TTTAATAT
1 TTTAATAT
4265526 ATATAATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
17 2 0.05
18 34 0.89
19 2 0.05
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAATATTTTAAATTAA
Found at i:4266311 original size:18 final size:19
Alignment explanation
Indices: 4266285--4266326 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
4266275 ATTTAAATTA
*
4266285 ATTACATTAA-AAATAAAT
1 ATTATATTAACAAATAAAT
*
4266303 ATTATATTAACTAATAAAT
1 ATTATATTAACAAATAAAT
4266322 -TTATA
1 ATTATA
4266327 ATTTAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTATATTAACAAATAAAT
Found at i:4268413 original size:30 final size:30
Alignment explanation
Indices: 4268271--4268413 Score: 102
Period size: 30 Copynumber: 4.9 Consensus size: 30
4268261 TTAAGCTTTA
* * *
4268271 TAATTT-TACTTAAATAAGTTATTATATTTT
1 TAATTTGTATTTAAATAAATCATTA-ATTTT
* *
4268301 T-A-TTGCATTTAAATGAACTC-TTAATTTT
1 TAATTTGTATTTAAAT-AAATCATTAATTTT
** * *
4268329 TAATTTACATTTAAA-AAATCCTTAA-ATT
1 TAATTTGTATTTAAATAAATCATTAATTTT
* **
4268357 TAATTTGTATCTAAATAAATTTTTAATTTT
1 TAATTTGTATTTAAATAAATCATTAATTTT
4268387 TAATTTGTATTTAAATACAA-CATTAAT
1 TAATTTGTATTTAAATA-AATCATTAAT
4268414 AAATTAAGTC
Statistics
Matches: 89, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
28 26 0.29
29 24 0.27
30 37 0.42
31 2 0.02
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.50
Consensus pattern (30 bp):
TAATTTGTATTTAAATAAATCATTAATTTT
Found at i:4280332 original size:16 final size:17
Alignment explanation
Indices: 4280302--4280334 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4280292 ACATTTGCTG
*
4280302 GAGGGAGAAGGGAGAGA
1 GAGGGAGAAGAGAGAGA
4280319 GAGGG-GAAGAGAGAGA
1 GAGGGAGAAGAGAGAGA
4280335 AGGTTTTACG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (17 bp):
GAGGGAGAAGAGAGAGA
Found at i:4287043 original size:93 final size:93
Alignment explanation
Indices: 4286884--4287065 Score: 337
Period size: 93 Copynumber: 2.0 Consensus size: 93
4286874 CCCAAAGAAA
* *
4286884 AAGAAAATTTACTTAAATTGCTTTGTTATAGACCCATAGTAGACAACCACAGCCCTAGCAATTGT
1 AAGAAAATTTACTTAAATTGCTTTGTTATAGACCCATAGTAGACAACCACAACCCTAGCAAGTGT
4286949 ACAAATGTCTAAAGAATATTACAGCATC
66 ACAAATGTCTAAAGAATATTACAGCATC
*
4286977 AAGAAAATTTATTTAAATTGCTTTGTTATAGACCCATAGTAGACAACCACAACCCTAGCAAGTGT
1 AAGAAAATTTACTTAAATTGCTTTGTTATAGACCCATAGTAGACAACCACAACCCTAGCAAGTGT
4287042 ACAAATGTCTAAAGAATATTACAG
66 ACAAATGTCTAAAGAATATTACAG
4287066 TCTCTTTCTC
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 86 1.00
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (93 bp):
AAGAAAATTTACTTAAATTGCTTTGTTATAGACCCATAGTAGACAACCACAACCCTAGCAAGTGT
ACAAATGTCTAAAGAATATTACAGCATC
Found at i:4291771 original size:15 final size:16
Alignment explanation
Indices: 4291751--4291783 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4291741 TATTTTTTAC
*
4291751 TTTTTT-AATAACATA
1 TTTTTTAAATAAAATA
4291766 TTTTTTAAATAAAATA
1 TTTTTTAAATAAAATA
4291782 TT
1 TT
4291784 ATCAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTTTTAAATAAAATA
Found at i:4291796 original size:19 final size:19
Alignment explanation
Indices: 4291772--4291808 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4291762 CATATTTTTT
*
4291772 AAATAAAATATTATCAAAA
1 AAATAAAATAATATCAAAA
*
4291791 AAATAAAGTAATATCAAA
1 AAATAAAATAATATCAAA
4291809 TGATGAAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (19 bp):
AAATAAAATAATATCAAAA
Found at i:4292210 original size:22 final size:24
Alignment explanation
Indices: 4292175--4292221 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
4292165 AATAATTGTA
4292175 TTTAGTTTAATTCG-AATTAAATT
1 TTTAGTTTAATTCGAAATTAAATT
*
4292198 TTTA-TTTATTTCGAAATTAAATT
1 TTTAGTTTAATTCGAAATTAAATT
4292221 T
1 T
4292222 AAATATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.55
Consensus pattern (24 bp):
TTTAGTTTAATTCGAAATTAAATT
Found at i:4292243 original size:29 final size:27
Alignment explanation
Indices: 4292211--4292280 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 27
4292201 ATTTATTTCG
**
4292211 AAATTAAATTTAAATATTAAATATATATT
1 AAATTAAATTTAAATA-TAAA-ATATAAA
* *
4292240 AAATTTAATTAAAATATAAAATATAAA
1 AAATTAAATTTAAATATAAAATATAAA
4292267 AAATTAAA-TTAAAT
1 AAATTAAATTTAAAT
4292281 TATATATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
26 5 0.14
27 12 0.34
28 4 0.11
29 14 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (27 bp):
AAATTAAATTTAAATATAAAATATAAA
Found at i:4292285 original size:29 final size:29
Alignment explanation
Indices: 4292211--4292286 Score: 86
Period size: 27 Copynumber: 2.7 Consensus size: 29
4292201 ATTTATTTCG
**
4292211 AAATTAAATTTAAATAT-TAAATATATATT
1 AAATTAAA-TTAAATATATAAATATATAAA
*
4292240 AAATTTAATTAAA-ATATAAA-ATATAAA
1 AAATTAAATTAAATATATAAATATATAAA
4292267 AAATTAAATTAAATTATATA
1 AAATTAAATTAAA-TATATA
4292287 TATTTTTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 19 0.47
28 9 0.22
29 12 0.30
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (29 bp):
AAATTAAATTAAATATATAAATATATAAA
Found at i:4302771 original size:21 final size:20
Alignment explanation
Indices: 4302734--4302772 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
4302724 AGCTCCATGA
*
4302734 ACTGTGGCACGCGACCAGTC
1 ACTGTGGCACGCCACCAGTC
*
4302754 ACTGTGGGCATGCCACCAG
1 ACTGT-GGCACGCCACCAG
4302773 ACTGTTCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.21, C:0.33, G:0.31, T:0.15
Consensus pattern (20 bp):
ACTGTGGCACGCCACCAGTC
Found at i:4303645 original size:15 final size:13
Alignment explanation
Indices: 4303599--4303644 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 13
4303589 ACTATGATTA
*
4303599 AAAAATATTTTAAT
1 AAAAA-ATTTTATT
4303613 AAAAAATTTATATT
1 AAAAAATTT-TATT
4303627 AAATAAATTTTATT
1 AAA-AAATTTTATT
4303641 AAAA
1 AAAA
4303645 TTAATATTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 5 0.17
14 18 0.62
15 6 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAAAAATTTTATT
Found at i:4303988 original size:28 final size:29
Alignment explanation
Indices: 4303948--4304015 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 29
4303938 TTTTGAATTA
** **
4303948 TAATTAAAAAATTATTTAATTTTTA-TTG
1 TAATTAATTAATTATTTAACATTTATTTG
*
4303976 TAATTAATTAATTTTTTAACATTTATTTG
1 TAATTAATTAATTATTTAACATTTATTTG
*
4304005 TATTTAATTAA
1 TAATTAATTAA
4304016 ATGCTAATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 20 0.61
29 13 0.39
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (29 bp):
TAATTAATTAATTATTTAACATTTATTTG
Found at i:4306172 original size:34 final size:34
Alignment explanation
Indices: 4306121--4306191 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
4306111 GGTAAAAACA
* * *
4306121 CAACAAATTAGATAAAAAATTTA-AGGATTTGACC
1 CAACAAATCAGACAAAAAATTTAGA-GACTTGACC
4306155 CAACAAATCAGACAAAAAATTTAGAGACTTGACC
1 CAACAAATCAGACAAAAAATTTAGAGACTTGACC
4306189 CAA
1 CAA
4306192 AATGCTAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 32 0.97
35 1 0.03
ACGTcount: A:0.51, C:0.17, G:0.11, T:0.21
Consensus pattern (34 bp):
CAACAAATCAGACAAAAAATTTAGAGACTTGACC
Found at i:4306750 original size:184 final size:184
Alignment explanation
Indices: 4306413--4306760 Score: 425
Period size: 184 Copynumber: 1.9 Consensus size: 184
4306403 AAAAAATGTG
* *
4306413 ATTACTCAAGGCGTTTCTGATAAAAAATACCTTCAATAATCTCCTTTAATTTTTCTTTTGATTAT
1 ATTACTCAAGGCGTTTCTGATAAAAAATACCTTCAATAATCCCCTTTAATTTTTCTTTTGATTAG
* * * **
4306478 TCAAGGCATTTTTTTGTCAAAAAAACACATTGAATAATCTTTTACAAAAAATTGAATAGGGTTAT
66 TCAACGCAGTTTTTAGTCAAAAAAACACATTGAATAATCCCTTACAAAAAATTGAATAGGGTTAT
* * * * *
4306543 TCAATATGTTTTTTGCTAAAAACACCTTCAATAATCTTTTTGAATTTTTTTAGT
131 TCAAGATGTTTCTAGCCAAAAACAACTTCAATAATCTTTTTGAATTTTTTTAGT
* * * * * **
4306597 ATTATTCAAGGTGTTTCTGGTCAAAAATGCCTTCAATAATCCCCTTTTGTTTATT-TTTTAAGAT
1 ATTACTCAAGGCGTTTCTGATAAAAAATACCTTCAATAATCCCCTTTAATTT-TTCTTTT--GAT
* *
4306661 TAGTCAACGC-GTTTTTAG-CTAAAAAACACCTTGAATAATCCCTTACAAAAAATTGAAT-GGGT
63 TAGTCAACGCAGTTTTTAGTCAAAAAAACACATTGAATAATCCCTTACAAAAAATTGAATAGGG-
* *
4306723 TTATTTAAGATGTTTCTAGCCAAAAACAACTTGAATAA
127 TTATTCAAGATGTTTCTAGCCAAAAACAACTTCAATAA
4306761 GGTTCTCTCA
Statistics
Matches: 137, Mismatches: 23, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
183 3 0.02
184 115 0.84
185 8 0.06
186 11 0.08
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (184 bp):
ATTACTCAAGGCGTTTCTGATAAAAAATACCTTCAATAATCCCCTTTAATTTTTCTTTTGATTAG
TCAACGCAGTTTTTAGTCAAAAAAACACATTGAATAATCCCTTACAAAAAATTGAATAGGGTTAT
TCAAGATGTTTCTAGCCAAAAACAACTTCAATAATCTTTTTGAATTTTTTTAGT
Found at i:4306776 original size:184 final size:184
Alignment explanation
Indices: 4306412--4306820 Score: 423
Period size: 184 Copynumber: 2.2 Consensus size: 184
4306402 GAAAAAATGT
* *
4306412 GATTACTCAAGGCGTTTCTGATAAAAAATACCTTCAATAATCTCCTTTAATTTTTCTTTTGATTA
1 GATTATTCAAGGCGTTTCTGATAAAAAATACCTTCAATAATCCCCTTTAATTTTTCTTTTGATTA
* * * * **
4306477 TTCAAGGCATTTTTTTGTCAAAAAAACACATTGAATAATCTTTTACAAAAAATTGAATAGGGTTA
66 GTCAACGCAGTTTTTAGTCAAAAAAACACATTGAATAATCCCTTACAAAAAATTGAATAGGGTTA
* * * * * * *
4306542 TTCAATATGTTTTTTGCTAAAAACACCTTCAATAATCTTTTTGAATTTTTTTAG
131 TTCAAGATGTTTCTAGCCAAAAACAACTTCAATAAGCTTTCTGAATTTTTTTAG
* * * * * **
4306596 TATTATTCAAGGTGTTTCTGGTCAAAAATGCCTTCAATAATCCCCTTTTGTTTATT-TTTTAAGA
1 GATTATTCAAGGCGTTTCTGATAAAAAATACCTTCAATAATCCCCTTTAATTT-TTCTTTT--GA
* *
4306660 TTAGTCAACGC-GTTTTTAG-CTAAAAAACACCTTGAATAATCCCTTACAAAAAATTGAAT-GGG
63 TTAGTCAACGCAGTTTTTAGTCAAAAAAACACATTGAATAATCCCTTACAAAAAATTGAATAGGG
* * * * *
4306722 TTTATTTAAGATGTTTCTAGCCAAAAACAACTTGAATAAGGTTCTCT-CATTTTTTTTG
128 -TTATTCAAGATGTTTCTAGCCAAAAACAACTTCAATAAGCTT-TCTGAATTTTTTTAG
* * * * *
4306780 GATTATTCAAGGCATTTTTAACTAAAAAATACTTTAAATAA
1 GATTATTCAAGGCGTTTCTGA-TAAAAAATACCTTCAATAA
4306821 ACCCTTATAA
Statistics
Matches: 180, Mismatches: 39, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
183 3 0.02
184 141 0.78
185 25 0.14
186 11 0.06
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (184 bp):
GATTATTCAAGGCGTTTCTGATAAAAAATACCTTCAATAATCCCCTTTAATTTTTCTTTTGATTA
GTCAACGCAGTTTTTAGTCAAAAAAACACATTGAATAATCCCTTACAAAAAATTGAATAGGGTTA
TTCAAGATGTTTCTAGCCAAAAACAACTTCAATAAGCTTTCTGAATTTTTTTAG
Found at i:4307298 original size:19 final size:20
Alignment explanation
Indices: 4307269--4307312 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
4307259 AATTATTTAA
*
4307269 AATTTATAAAATTAATAAAT
1 AATTTATAAAAATAATAAAT
*
4307289 AATTTA-AAAAATACTAAAT
1 AATTTATAAAAATAATAAAT
*
4307308 TATTT
1 AATTT
4307313 TATATCAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
AATTTATAAAAATAATAAAT
Found at i:4309550 original size:13 final size:13
Alignment explanation
Indices: 4309532--4309556 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4309522 TTATTTGTAT
4309532 TTTAATTTTTTAG
1 TTTAATTTTTTAG
4309545 TTTAATTTTTTA
1 TTTAATTTTTTA
4309557 TTTCTTAATT
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:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TTTAATTTTTTAG
Found at i:4310211 original size:16 final size:17
Alignment explanation
Indices: 4310185--4310234 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
4310175 GGATGACTAG
4310185 TATTATATTTGCATGATA
1 TATT-TATTTGCATGATA
* *
4310203 -ATTTATTTGCCTAATA
1 TATTTATTTGCATGATA
*
4310219 TATTTGTTTGCATGAT
1 TATTTATTTGCATGAT
4310235 TAATATACTT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.28, C:0.08, G:0.12, T:0.52
Consensus pattern (17 bp):
TATTTATTTGCATGATA
Found at i:4310240 original size:21 final size:21
Alignment explanation
Indices: 4310214--4310302 Score: 63
Period size: 21 Copynumber: 4.1 Consensus size: 21
4310204 TTTATTTGCC
* *
4310214 TAATATATTTGTTTGCATGAT
1 TAATATACTTATTTGCATGAT
*
4310235 TAATATACTTATTTGTATGAT
1 TAATATACTTATTTGCATGAT
* * *
4310256 TTAT-TAATATATTTACATGATTAT
1 TAATATACT-TATTTGCATG---AT
* *
4310280 TAATATATTTATTTGTATGAT
1 TAATATACTTATTTGCATGAT
4310301 TA
1 TA
4310303 TATTTAATTT
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
20 3 0.06
21 33 0.63
24 13 0.25
25 3 0.06
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.54
Consensus pattern (21 bp):
TAATATACTTATTTGCATGAT
Found at i:4310281 original size:20 final size:21
Alignment explanation
Indices: 4310251--4310290 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
4310241 ACTTATTTGT
4310251 ATGATTTATTAATATATTTAC
1 ATGATTTATTAATATATTTAC
4310272 ATGA-TTATTAATATATTTA
1 ATGATTTATTAATATATTTA
4310291 TTTGTATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (21 bp):
ATGATTTATTAATATATTTAC
Found at i:4310328 original size:47 final size:45
Alignment explanation
Indices: 4310233--4310373 Score: 160
Period size: 47 Copynumber: 3.0 Consensus size: 45
4310223 TGTTTGCATG
*
4310233 ATTAATATACTTATTTGTATGATTTATTAATATATTTACATGATT
1 ATTAATATATTTATTTGTATGATTTATTAATATATTTACATGATT
*
4310278 ATTAATATATTTATTTGTATGATTATATTTAATTTGA-TTACATGATT
1 ATTAATATATTTATTTGTATGATT-TA-TTAATAT-ATTTACATGATT
* * * *
4310325 ATTAATATATTTAATAGCT-TGATTTATGTATTATTATTTGCATGATT
1 ATTAATATATTTATTTG-TATGATTTAT-TAATA-TATTTACATGATT
4310372 AT
1 AT
4310374 ATATTTAATT
Statistics
Matches: 82, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
45 24 0.29
46 8 0.10
47 48 0.59
48 2 0.02
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.54
Consensus pattern (45 bp):
ATTAATATATTTATTTGTATGATTTATTAATATATTTACATGATT
Found at i:4310384 original size:12 final size:12
Alignment explanation
Indices: 4310369--4310419 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
4310359 TATTTGCATG
4310369 ATTATATATTTA
1 ATTATATATTTA
*
4310381 ATTACATATTT-
1 ATTATATATTTA
* **
4310392 ATTATTTACATA
1 ATTATATATTTA
4310404 ATTATATATTTA
1 ATTATATATTTA
4310416 ATTA
1 ATTA
4310420 CATGTTATTT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
11 7 0.23
12 23 0.77
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTATATATTTA
Found at i:4310385 original size:67 final size:65
Alignment explanation
Indices: 4310214--4310395 Score: 181
Period size: 67 Copynumber: 2.7 Consensus size: 65
4310204 TTTATTTGCC
* * * **
4310214 TAATATATTTGTTTGCATGATTAATATACTTATTTGTATGATTTATTAATATATTTACATGATTA
1 TAATATATTTATTTGCATGATT-ATATATTTAATTACATGATTTATTAATATATTTACATGATTA
4310279 T
65 T
* * *
4310280 TAATATATTTATTTGTATGATTATATTTAATTTGATTACATGA-TTATTAATATATTTA-ATAGC
1 TAATATATTTATTTGCATGATTATA--T-ATTTAATTACATGATTTATTAATATATTTACAT-GA
4310343 TTGAT
62 TT-AT
* *
4310348 TTATGTATTATTATTTGCATGATTATATATTTAATTACAT-ATTTATTA
1 TAATATA-T-TTATTTGCATGATTATATATTTAATTACATGATTTATTA
4310396 TTTACATAAT
Statistics
Matches: 96, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
65 3 0.03
66 23 0.24
67 36 0.38
68 17 0.18
69 1 0.01
70 16 0.17
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.54
Consensus pattern (65 bp):
TAATATATTTATTTGCATGATTATATATTTAATTACATGATTTATTAATATATTTACATGATTAT
Found at i:4310394 original size:35 final size:35
Alignment explanation
Indices: 4310355--4310422 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
4310345 GATTTATGTA
* *
4310355 TTATTATTTGCATGATTATATATTTAATTACATAT
1 TTATTATTTACATAATTATATATTTAATTACATAT
4310390 TTATTATTTACATAATTATATATTTAATTACAT
1 TTATTATTTACATAATTATATATTTAATTACAT
4310423 GTTATTTGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (35 bp):
TTATTATTTACATAATTATATATTTAATTACATAT
Found at i:4310395 original size:23 final size:23
Alignment explanation
Indices: 4310369--4310415 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
4310359 TATTTGCATG
**
4310369 ATTATATATTTAATTACATATTT
1 ATTATATACATAATTACATATTT
* *
4310392 ATTATTTACATAATTATATATTT
1 ATTATATACATAATTACATATTT
4310415 A
1 A
4310416 ATTACATGTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTATATACATAATTACATATTT
Found at i:4310402 original size:15 final size:16
Alignment explanation
Indices: 4310382--4310415 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
4310372 ATATATTTAA
*
4310382 TTACATATTTAT-TAT
1 TTACATAATTATATAT
4310397 TTACATAATTATATAT
1 TTACATAATTATATAT
4310413 TTA
1 TTA
4310416 ATTACATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (16 bp):
TTACATAATTATATAT
Found at i:4310413 original size:19 final size:18
Alignment explanation
Indices: 4310356--4310427 Score: 51
Period size: 20 Copynumber: 3.9 Consensus size: 18
4310346 ATTTATGTAT
*
4310356 TATTATTTGCATGATTATA
1 TATTATTTACAT-ATTATA
*
4310375 TATTTAATTACATA-T-T-
1 TA-TTATTTACATATTATA
4310391 TATTATTTACATAATTATA
1 TATTATTTACAT-ATTATA
* *
4310410 TATTTAATTACATGTTAT
1 TA-TTATTTACATATTAT
4310428 TTGCATGGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
15 9 0.21
16 3 0.07
17 2 0.05
18 2 0.05
19 9 0.21
20 17 0.40
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (18 bp):
TATTATTTACATATTATA
Found at i:4313514 original size:18 final size:19
Alignment explanation
Indices: 4313472--4313514 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 19
4313462 ATATATAAAA
4313472 ATATAT-TTTTTATTATTT
1 ATATATATTTTTATTATTT
4313490 AT-T-TATTTTTA-TATTT
1 ATATATATTTTTATTATTT
4313506 ATATATATT
1 ATATATATT
4313515 ATATTAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 8 0.36
17 8 0.36
18 6 0.27
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
ATATATATTTTTATTATTT
Found at i:4313529 original size:29 final size:29
Alignment explanation
Indices: 4313497--4313554 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
4313487 TTTATTTATT
*
4313497 TTTA-TATTTATATATATTATAT-TAATAAA
1 TTTATTATTTA-ACATATTAT-TCTAATAAA
4313526 TTTATTATTTAACATATTATTCTAATAAA
1 TTTATTATTTAACATATTATTCTAATAAA
4313555 AACTATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 1 0.04
29 19 0.73
30 6 0.23
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (29 bp):
TTTATTATTTAACATATTATTCTAATAAA
Found at i:4314226 original size:20 final size:20
Alignment explanation
Indices: 4314196--4314246 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
4314186 TTTGTATATA
4314196 TTATATTAATAAATAATACAT
1 TTAT-TTAATAAATAATACAT
* *
4314217 TTATTTAATAAATAGTATAT
1 TTATTTAATAAATAATACAT
4314237 TTATTGTAAT
1 TTATT-TAAT
4314247 TAAAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (20 bp):
TTATTTAATAAATAATACAT
Found at i:4314255 original size:20 final size:18
Alignment explanation
Indices: 4314190--4314255 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 18
4314180 ATTCTATTTG
4314190 TATATATTATATTAATAAATAA
1 TATAT-TTAT-TTAAT-AA-AA
*
4314212 TACATTTATTTAATAAATA
1 TATATTTATTTAATAAA-A
4314231 GTATATTTATTGTAATTAAAA
1 -TATATTTATT-TAA-TAAAA
4314252 TATA
1 TATA
4314256 ATAGATATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 1 0.03
19 3 0.08
20 18 0.47
21 8 0.21
22 8 0.21
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (18 bp):
TATATTTATTTAATAAAA
Found at i:4322856 original size:31 final size:31
Alignment explanation
Indices: 4322814--4322882 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
4322804 AAATAAATAA
*
4322814 AATGTACAATTTGCACCCTAAACTTTCAAAT
1 AATGTACAATTTGCACACTAAACTTTCAAAT
* *
4322845 AATGTAGAATTTGCATACTAAACTTTCAAAT
1 AATGTACAATTTGCACACTAAACTTTCAAAT
*
4322876 TATGTAC
1 AATGTAC
4322883 CATATTAACC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (31 bp):
AATGTACAATTTGCACACTAAACTTTCAAAT
Found at i:4325671 original size:20 final size:19
Alignment explanation
Indices: 4325648--4325687 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
4325638 TTAACAGATT
4325648 ACGATAATCAAAAAACAAAA
1 ACGATAATCAAAAAA-AAAA
* *
4325668 ACGATATTTAAAAAAAAAA
1 ACGATAATCAAAAAAAAAA
4325687 A
1 A
4325688 AAAGGTAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.70, C:0.10, G:0.05, T:0.15
Consensus pattern (19 bp):
ACGATAATCAAAAAAAAAA
Found at i:4334808 original size:17 final size:19
Alignment explanation
Indices: 4334788--4334825 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4334778 AAGAAATTAC
4334788 AATT-TAAAA-ATTAAAAA
1 AATTATAAAATATTAAAAA
*
4334805 AATTATAAAATGTTAAAAA
1 AATTATAAAATATTAAAAA
4334824 AA
1 AA
4334826 ATTTTATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 5 0.28
19 9 0.50
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (19 bp):
AATTATAAAATATTAAAAA
Found at i:4337916 original size:56 final size:56
Alignment explanation
Indices: 4337830--4337938 Score: 173
Period size: 56 Copynumber: 1.9 Consensus size: 56
4337820 ACTTGCCGAG
* *
4337830 ATGATGATGCGGATGGAGTGGGATTGACACATGACACCTGCATGAATATACATGGA
1 ATGATGATACGGATGGAGTGGGATTGACACATGACACATGCATGAATATACATGGA
* * *
4337886 ATGATGATATGGATGGAGTGGGATTGACACATGGCACATGTATGAATATACAT
1 ATGATGATACGGATGGAGTGGGATTGACACATGACACATGCATGAATATACAT
4337939 AGATGGGTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (56 bp):
ATGATGATACGGATGGAGTGGGATTGACACATGACACATGCATGAATATACATGGA
Found at i:4347908 original size:2 final size:2
Alignment explanation
Indices: 4347901--4347943 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
4347891 ACCCAAATCC
*
4347901 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T- TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4347941 TA T
1 TA T
4347944 TTAATAGATA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:4348025 original size:25 final size:25
Alignment explanation
Indices: 4347996--4348055 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
4347986 ATTAATTAGA
4347996 ATTAATATAT-TTCATTAAAAAATAT
1 ATTAATATATATTCA-TAAAAAATAT
*
4348021 ATTAATATATATTTATAAAAAAT-T
1 ATTAATATATATTCATAAAAAATAT
4348045 ACTTAA-ATATA
1 A-TTAATATATA
4348056 CACGGTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
24 7 0.22
25 22 0.69
26 3 0.09
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (25 bp):
ATTAATATATATTCATAAAAAATAT
Found at i:4348484 original size:2 final size:2
Alignment explanation
Indices: 4348479--4348506 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4348469 TAATATATTC
4348479 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4348507 GAGAATAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4351904 original size:15 final size:15
Alignment explanation
Indices: 4351884--4351914 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4351874 CGCTAAGAAC
4351884 AAAATGGTACAGCAA
1 AAAATGGTACAGCAA
4351899 AAAATGGTACAGCAA
1 AAAATGGTACAGCAA
4351914 A
1 A
4351915 TGTTTGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.13, G:0.19, T:0.13
Consensus pattern (15 bp):
AAAATGGTACAGCAA
Found at i:4352579 original size:78 final size:78
Alignment explanation
Indices: 4352495--4352648 Score: 281
Period size: 78 Copynumber: 2.0 Consensus size: 78
4352485 CCATCTGGCT
* * *
4352495 TTACGATTTTGTCCTATAAAAGGTACTTCACAAGGCAGAGGTGGTGTGAACCCTTATATATTCTA
1 TTACGATTTTGTCCTACAAAAGGCACCTCACAAGGCAGAGGTGGTGTGAACCCTTATATATTCTA
4352560 GTGACCTTCTTCA
66 GTGACCTTCTTCA
4352573 TTACGATTTTGTCCTACAAAAGGCACCTCACAAGGCAGAGGTGGTGTGAACCCTTATATATTCTA
1 TTACGATTTTGTCCTACAAAAGGCACCTCACAAGGCAGAGGTGGTGTGAACCCTTATATATTCTA
4352638 GTGACCTTCTT
66 GTGACCTTCTT
4352649 TTTATATCCG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 73 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (78 bp):
TTACGATTTTGTCCTACAAAAGGCACCTCACAAGGCAGAGGTGGTGTGAACCCTTATATATTCTA
GTGACCTTCTTCA
Found at i:4364750 original size:2 final size:2
Alignment explanation
Indices: 4364743--4364771 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4364733 ACCCAAATCC
4364743 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 T
4364772 TTAATAGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4364856 original size:25 final size:25
Alignment explanation
Indices: 4364827--4364886 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
4364817 ATTAATTAGA
4364827 ATTAATATAT-TTCATTAAAAAATAT
1 ATTAATATATATTCA-TAAAAAATAT
*
4364852 ATTAATATATATTTATAAAAAAT-T
1 ATTAATATATATTCATAAAAAATAT
4364876 ACTTAA-ATATA
1 A-TTAATATATA
4364887 CACGGTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
24 7 0.22
25 22 0.69
26 3 0.09
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (25 bp):
ATTAATATATATTCATAAAAAATAT
Found at i:4377716 original size:2 final size:2
Alignment explanation
Indices: 4377709--4377743 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4377699 GCAAAAGCGA
4377709 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
4377744 ACTCAGCCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:4379708 original size:16 final size:17
Alignment explanation
Indices: 4379687--4379731 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
4379677 CCGTCTATTT
*
4379687 GAAATTTATATTAA-AA
1 GAAATTTAGATTAATAA
*
4379703 GAAATTTAGATTAATAT
1 GAAATTTAGATTAATAA
*
4379720 GAAATTTGGATT
1 GAAATTTAGATT
4379732 TAAGATCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (17 bp):
GAAATTTAGATTAATAA
Found at i:4398331 original size:2 final size:2
Alignment explanation
Indices: 4398324--4398367 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
4398314 TTGACAAATC
*
4398324 GA GA GA GA GA AA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
4398366 GA
1 GA
4398368 TTGGTGGGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4398816 original size:23 final size:23
Alignment explanation
Indices: 4398790--4398833 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
4398780 TATCATATTT
*
4398790 ATATTTTTTTATAATATTTTATC
1 ATATTATTTTATAATATTTTATC
4398813 ATATTATTTTATAATATTTTA
1 ATATTATTTTATAATATTTTA
4398834 AATTACCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
ATATTATTTTATAATATTTTATC
Found at i:4400451 original size:28 final size:29
Alignment explanation
Indices: 4400394--4400451 Score: 66
Period size: 30 Copynumber: 2.0 Consensus size: 29
4400384 AAATTTAAAA
*
4400394 TATATATTTTTTTATTTTATTAAATCTATT
1 TATATATTTTTTTATTTTA-TAAATATATT
*
4400424 TATA-ATTTTTTTAATTTTA-AATTATATT
1 TATATATTTTTTT-ATTTTATAAATATATT
4400452 ATTTTCATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 7 0.28
29 8 0.32
30 10 0.40
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (29 bp):
TATATATTTTTTTATTTTATAAATATATT
Found at i:4400541 original size:20 final size:21
Alignment explanation
Indices: 4400516--4400554 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
4400506 TGTCTTTTAG
4400516 TATAAAATTA-TTTTATTTGA
1 TATAAAATTATTTTTATTTGA
4400536 TATAAAATTATTTTTATTT
1 TATAAAATTATTTTTATTT
4400555 AATTTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (21 bp):
TATAAAATTATTTTTATTTGA
Found at i:4400552 original size:26 final size:26
Alignment explanation
Indices: 4400523--4400574 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
4400513 TAGTATAAAA
* *
4400523 TTATTTTATTTGA-TATAAAATTATTT
1 TTATTTAATTTAATTATAAAA-TATTT
4400549 TTATTTAATTTAATTATAAAATATTT
1 TTATTTAATTTAATTATAAAATATTT
4400575 AGAAATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (26 bp):
TTATTTAATTTAATTATAAAATATTT
Found at i:4401223 original size:2 final size:2
Alignment explanation
Indices: 4401218--4401251 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4401208 GGTTCTGATA
4401218 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4401252 GAAACTGCAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4403800 original size:26 final size:24
Alignment explanation
Indices: 4403762--4403821 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 24
4403752 TATTTAAATT
4403762 TTTAAAAATTTAATAATATTTAAA
1 TTTAAAAATTTAATAATATTTAAA
* *
4403786 -TTATAAATTTATTAATTAATTTAATA
1 TTTAAAAATTTAATAA-T-ATTTAA-A
4403812 TTTAAAAATT
1 TTTAAAAATT
4403822 ATTTATTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 13 0.45
24 1 0.03
25 6 0.21
26 1 0.03
27 8 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
TTTAAAAATTTAATAATATTTAAA
Found at i:4403823 original size:26 final size:27
Alignment explanation
Indices: 4403749--4403824 Score: 72
Period size: 26 Copynumber: 2.9 Consensus size: 27
4403739 ATATTTAATG
*
4403749 TAATATTTAAATTTTTAAAAA-T-TTAA
1 TAATATTT-AATATTTAAAAATTATTAA
*
4403775 TAATATTTAA-A-TTATAAATTTATTAA
1 TAATATTTAATATTTA-AAAATTATTAA
*
4403801 TTA-ATTTAATATTTAAAAATTATT
1 TAATATTTAATATTTAAAAATTATT
4403825 TATTTAACAT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
23 3 0.07
24 3 0.07
25 9 0.22
26 23 0.56
27 3 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
TAATATTTAATATTTAAAAATTATTAA
Found at i:4403828 original size:15 final size:15
Alignment explanation
Indices: 4403810--4403851 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
4403800 ATTAATTTAA
4403810 TATTTAAAA-ATTATT
1 TATTTAAAATATTA-T
4403825 TATTTAACATATATTAT
1 TATTTAA-A-ATATTAT
4403842 TATTTAAAAT
1 TATTTAAAAT
4403852 TAATCATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 9 0.38
16 2 0.08
17 9 0.38
18 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAAAATATTAT
Found at i:4403915 original size:12 final size:12
Alignment explanation
Indices: 4403898--4403924 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4403888 TATTTATATT
4403898 TTAAATATTTTA
1 TTAAATATTTTA
4403910 TTAAATATTTTA
1 TTAAATATTTTA
4403922 TTA
1 TTA
4403925 TAATTCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTAAATATTTTA
Found at i:4404574 original size:11 final size:11
Alignment explanation
Indices: 4404560--4404600 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
4404550 TAAAAATAAT
4404560 ATAATTTTTTA
1 ATAATTTTTTA
4404571 ATAA-TTTTTA
1 ATAATTTTTTA
*
4404581 AAAATATTTTTA
1 ATAAT-TTTTTA
4404593 AT-ATTTTT
1 ATAATTTTT
4404601 ATAAAATAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 13 0.50
11 6 0.23
12 7 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
ATAATTTTTTA
Found at i:4404590 original size:22 final size:22
Alignment explanation
Indices: 4404565--4404608 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
4404555 ATAATATAAT
4404565 TTTTTAATAATTTTTA-AAAATA
1 TTTTTAAT-ATTTTTATAAAATA
4404587 TTTTTAATATTTTTATAAAATA
1 TTTTTAATATTTTTATAAAATA
4404609 ACTTTAACTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTTAATATTTTTATAAAATA
Found at i:4404614 original size:22 final size:22
Alignment explanation
Indices: 4404567--4404615 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
4404557 AATATAATTT
**
4404567 TTTAATAATTTTTAAAAATATT
1 TTTAATAATTTTTAAAAATAAC
4404589 TTTAAT-ATTTTTATAAAATAAC
1 TTTAATAATTTTTA-AAAATAAC
4404611 TTTAA
1 TTTAA
4404616 CTGTTTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTAATAATTTTTAAAAATAAC
Found at i:4405329 original size:31 final size:31
Alignment explanation
Indices: 4405288--4405348 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
4405278 ACTAACTCTC
4405288 ATTTATAACAAAAAAAATAAAATAAAATAATT
1 ATTTATAACAAAAAAAATAAAA-AAAATAATT
* *
4405320 ATTTA-AACAAAAAAATTATAAAAAATAAT
1 ATTTATAACAAAAAAAATAAAAAAAATAAT
4405349 AATAAAATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 8 0.30
31 14 0.52
32 5 0.19
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (31 bp):
ATTTATAACAAAAAAAATAAAAAAAATAATT
Found at i:4405334 original size:30 final size:32
Alignment explanation
Indices: 4405288--4405348 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 32
4405278 ACTAACTCTC
4405288 ATTTATAACAAAAAAAA-TAAAATAAAATAATT
1 ATTTATAACAAAAAAAATTAAAA-AAAATAATT
*
4405320 ATTTA-AAC-AAAAAAATTATAAAAAATAAT
1 ATTTATAACAAAAAAAATTAAAAAAAATAAT
4405349 AATAAAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 15 0.56
31 7 0.26
32 5 0.19
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (32 bp):
ATTTATAACAAAAAAAATTAAAAAAAATAATT
Found at i:4405341 original size:33 final size:32
Alignment explanation
Indices: 4405288--4405351 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
4405278 ACTAACTCTC
4405288 ATTTATAACAAAAAAAATAAAATAA-AATAATT
1 ATTTATAACAAAAAAAATAAAA-AATAATAATT
4405320 ATTTA-AACAAAAAAATTATAAAAAATAATAAT
1 ATTTATAACAAAAAAA--ATAAAAAATAATAAT
4405352 AAAATGACGG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
31 10 0.34
32 7 0.24
33 12 0.41
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (32 bp):
ATTTATAACAAAAAAAATAAAAAATAATAATT
Found at i:4406985 original size:28 final size:28
Alignment explanation
Indices: 4406954--4407043 Score: 83
Period size: 28 Copynumber: 3.1 Consensus size: 28
4406944 GATCAGAGCG
4406954 GACAATATCTCATAAGGGTGTGAACCGT
1 GACAATATCTCATAAGGGTGTGAACCGT
* * * * * * *
4406982 GACAGAAAGACTGATCAGGGGGTCAGAGCG-
1 GACA-ATA-TCTCATAAGGGTGTGA-ACCGT
4407012 GACAATATCTCATAAGGGTGTGAACCGT
1 GACAATATCTCATAAGGGTGTGAACCGT
4407040 GACA
1 GACA
4407044 GAAAGACTGA
Statistics
Matches: 44, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
27 3 0.07
28 19 0.43
29 4 0.09
30 15 0.34
31 3 0.07
ACGTcount: A:0.33, C:0.18, G:0.30, T:0.19
Consensus pattern (28 bp):
GACAATATCTCATAAGGGTGTGAACCGT
Found at i:4407026 original size:58 final size:58
Alignment explanation
Indices: 4406936--4407055 Score: 231
Period size: 58 Copynumber: 2.1 Consensus size: 58
4406926 AAAACTGCGA
4406936 GATCAGGGGATCAGAGCGGACAATATCTCATAAGGGTGTGAACCGTGACAGAAAGACT
1 GATCAGGGGATCAGAGCGGACAATATCTCATAAGGGTGTGAACCGTGACAGAAAGACT
*
4406994 GATCAGGGGGTCAGAGCGGACAATATCTCATAAGGGTGTGAACCGTGACAGAAAGACT
1 GATCAGGGGATCAGAGCGGACAATATCTCATAAGGGTGTGAACCGTGACAGAAAGACT
4407052 GATC
1 GATC
4407056 TGAGACGTCG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.33, C:0.17, G:0.32, T:0.17
Consensus pattern (58 bp):
GATCAGGGGATCAGAGCGGACAATATCTCATAAGGGTGTGAACCGTGACAGAAAGACT
Found at i:4407647 original size:28 final size:27
Alignment explanation
Indices: 4407583--4407648 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
4407573 AATTATAATT
*
4407583 AAATAATTAATATAATATTAAATTTTA
1 AAATAATTAATATAATATTAAATTATA
*
4407610 AAA-AATTTAATATGATATTTAAATTATA
1 AAATAA-TTAATATAATA-TTAAATTATA
*
4407638 AAATTATTAAT
1 AAATAATTAAT
4407649 TTTTTTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
26 2 0.06
27 13 0.39
28 17 0.52
29 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (27 bp):
AAATAATTAATATAATATTAAATTATA
Found at i:4409006 original size:13 final size:13
Alignment explanation
Indices: 4408988--4409012 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4408978 GTTTTGAGAA
4408988 ATTATATCAATTT
1 ATTATATCAATTT
4409001 ATTATATCAATT
1 ATTATATCAATT
4409013 CGACTTGTTA
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:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTATATCAATTT
Found at i:4409574 original size:14 final size:13
Alignment explanation
Indices: 4409550--4409583 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
4409540 AAACAACACC
4409550 AAAAAAAAGA-AA
1 AAAAAAAAGAGAA
*
4409562 AAGAAAAAGAGAA
1 AAAAAAAAGAGAA
4409575 AAAAAAAAG
1 AAAAAAAAG
4409584 TAATTTTAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAGAA
Found at i:4412439 original size:20 final size:21
Alignment explanation
Indices: 4412414--4412453 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
4412404 TTTCATTGAA
*
4412414 ATTGATATTTA-AATTTAATC
1 ATTGATAATTATAATTTAATC
4412434 ATTGATAATTATAATTTAAT
1 ATTGATAATTATAATTTAAT
4412454 TACATCACTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (21 bp):
ATTGATAATTATAATTTAATC
Found at i:4416569 original size:19 final size:22
Alignment explanation
Indices: 4416547--4416594 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
4416537 TTATTTTTCA
4416547 TCTAAA-TTCATA-T-TCTCTC
1 TCTAAATTTCATACTCTCTCTC
4416566 TCTAAAATTTCATACTCTCTCTC
1 TCT-AAATTTCATACTCTCTCTC
4416589 TCTAAA
1 TCTAAA
4416595 ATTAAATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 3 0.12
20 3 0.12
21 6 0.24
22 4 0.16
23 9 0.36
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (22 bp):
TCTAAATTTCATACTCTCTCTC
Found at i:4416579 original size:21 final size:23
Alignment explanation
Indices: 4416553--4416597 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
4416543 TTCATCTAAA
4416553 TTCATA-T-TCTCTCTCTAAAAT
1 TTCATACTCTCTCTCTCTAAAAT
4416574 TTCATACTCTCTCTCTCTAAAAT
1 TTCATACTCTCTCTCTCTAAAAT
4416597 T
1 T
4416598 AAATCAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 6 0.27
22 1 0.05
23 15 0.68
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.47
Consensus pattern (23 bp):
TTCATACTCTCTCTCTCTAAAAT
Found at i:4416623 original size:23 final size:23
Alignment explanation
Indices: 4416585--4416628 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
4416575 TCATACTCTC
* *
4416585 TCTCTCTAAAATTAAATCAATTT
1 TCTCTCTAAAACTAAACCAATTT
*
4416608 TCTCTCTAAACCTAAACCAAT
1 TCTCTCTAAAACTAAACCAAT
4416629 CCACAAACAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.39, C:0.25, G:0.00, T:0.36
Consensus pattern (23 bp):
TCTCTCTAAAACTAAACCAATTT
Found at i:4419577 original size:88 final size:89
Alignment explanation
Indices: 4419427--4419601 Score: 343
Period size: 88 Copynumber: 2.0 Consensus size: 89
4419417 ATGGTTATGG
4419427 CAGTAGACATCTTAGCAAAAAAAAAAAAGATTAGAGAAATAAGATGATCTCATTTAGCTTGAAAG
1 CAGTAGACATCTTAGCAAAAAAAAAAAAGATTAGAGAAATAAGATGATCTCATTTAGCTTGAAAG
4419492 ATCTTGAAAGAATCTAAACCCAGA
66 ATCTTGAAAGAATCTAAACCCAGA
4419516 CAGTAGACATCTTAGC-AAAAAAAAAAAGATTAGAGAAATAAGATGATCTCATTTAGCTTGAAAG
1 CAGTAGACATCTTAGCAAAAAAAAAAAAGATTAGAGAAATAAGATGATCTCATTTAGCTTGAAAG
4419580 ATCTTGAAAGAATCTAAACCCA
66 ATCTTGAAAGAATCTAAACCCA
4419602 CATAATGATG
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
88 70 0.81
89 16 0.19
ACGTcount: A:0.48, C:0.14, G:0.15, T:0.23
Consensus pattern (89 bp):
CAGTAGACATCTTAGCAAAAAAAAAAAAGATTAGAGAAATAAGATGATCTCATTTAGCTTGAAAG
ATCTTGAAAGAATCTAAACCCAGA
Found at i:4433878 original size:21 final size:21
Alignment explanation
Indices: 4433854--4433896 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
4433844 CTTTATTGTT
*
4433854 AATTGATTTTCTCTTTCTAAA
1 AATTGATATTCTCTTTCTAAA
*
4433875 AATTTATATTCTCTTTCTAAA
1 AATTGATATTCTCTTTCTAAA
4433896 A
1 A
4433897 CCACTAGACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.02, T:0.51
Consensus pattern (21 bp):
AATTGATATTCTCTTTCTAAA
Found at i:4439335 original size:38 final size:38
Alignment explanation
Indices: 4439288--4439364 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 38
4439278 TGAAGAGTTC
4439288 AAAGCTTGAA-AAGAAGATATTCTAAAATATTTCAACAA
1 AAAGCTTGAAGAAGAA-ATATTCTAAAATATTTCAACAA
* *** *
4439326 AAAGTTTGAAGCTTAAATATTCTAAAATATTTCAGCAA
1 AAAGCTTGAAGAAGAAATATTCTAAAATATTTCAACAA
4439364 A
1 A
4439365 GCAATGGCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
38 31 0.94
39 2 0.06
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.30
Consensus pattern (38 bp):
AAAGCTTGAAGAAGAAATATTCTAAAATATTTCAACAA
Found at i:4447928 original size:373 final size:373
Alignment explanation
Indices: 4447243--4447988 Score: 1429
Period size: 373 Copynumber: 2.0 Consensus size: 373
4447233 AGCAAGCATT
*
4447243 TTCTTTCACTTGATGGAAAAAATGCGATCTTAATAAATTGTAGTTCATTGTAATCATCCTGTGTT
1 TTCTTTCACGTGATGGAAAAAATGCGATCTTAATAAATTGTAGTTCATTGTAATCATCCTGTGTT
*
4447308 AATTATCTAGAATTCGGTGACGGCATATTCGTGAATCGCATTAAGTTCATACTAATCATCCAGAT
66 AATTATCTAGAATTCGGTGACAGCATATTCGTGAATCGCATTAAGTTCATACTAATCATCCAGAT
*
4447373 TACTAACTCCTGAATACTAAATTCCATGATTGTATCCGAGTTTCCTCAAGTGGGGATAATTTTCT
131 TACTAACTCCTGAATACTAAATTCCATGATTGTATCCGAGTTTCCTCAAGTGGGCATAATTTTCT
*
4447438 TTTGAGCAGCTGGATCAGGATTGAAAAATGAAACGCAACAAGGCAGTCCGAATGGGCTTACTGTG
196 TTTGAGCAGCTGGATCAGGATTGAAAAATGAAACGCAACAAAGCAGTCCGAATGGGCTTACTGTG
4447503 CAAGTCTGTGGTTTTTTCCAGAATTAATTGGCCTTGGTACAGTTTTATGACCAGACAGACAAGCA
261 CAAGTCTGTGGTTTTTTCCAGAATTAATTGGCCTTGGTACAGTTTTATGACCAGACAGACAAGCA
*
4447568 ACGAATCCAAACCTCTGTTGGGAAATCGTCAATGCTACAAAATAAAAA
326 ACGAATCAAAACCTCTGTTGGGAAATCGTCAATGCTACAAAATAAAAA
4447616 TTCTTTCACGTGATGGAAAAAATGCGATCTTAATAAATTGTAGTTCATTGTAATCATCCTGTGTT
1 TTCTTTCACGTGATGGAAAAAATGCGATCTTAATAAATTGTAGTTCATTGTAATCATCCTGTGTT
*
4447681 AATTATCTAGAATTCGGTGACAGCATATTCGTGAATCGCATTAAGTTCATACTAATCATGCAGAT
66 AATTATCTAGAATTCGGTGACAGCATATTCGTGAATCGCATTAAGTTCATACTAATCATCCAGAT
4447746 TACTAACTCCTGAATACTAAATTCCATGATTGTATCCGAGTTTCCTCAAGTGGGCATAATTTTCT
131 TACTAACTCCTGAATACTAAATTCCATGATTGTATCCGAGTTTCCTCAAGTGGGCATAATTTTCT
4447811 TTTGAGCAGCTGGATCAGGATTGAAAAATGAAACGCAACAAAGCAGTCCGAATGGGCTTACTGTG
196 TTTGAGCAGCTGGATCAGGATTGAAAAATGAAACGCAACAAAGCAGTCCGAATGGGCTTACTGTG
*
4447876 CAAGTCTGTGGTTTTTTCCAGAATTAATTGGCCTTGGTACAGTTTTATGACCAGACAGATAAGCA
261 CAAGTCTGTGGTTTTTTCCAGAATTAATTGGCCTTGGTACAGTTTTATGACCAGACAGACAAGCA
4447941 ACGAATCAAAACCTCTGTTGGGAAATCGTCAATGCTACAAAATAAAAA
326 ACGAATCAAAACCTCTGTTGGGAAATCGTCAATGCTACAAAATAAAAA
4447989 AGGAACAACC
Statistics
Matches: 366, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
373 366 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (373 bp):
TTCTTTCACGTGATGGAAAAAATGCGATCTTAATAAATTGTAGTTCATTGTAATCATCCTGTGTT
AATTATCTAGAATTCGGTGACAGCATATTCGTGAATCGCATTAAGTTCATACTAATCATCCAGAT
TACTAACTCCTGAATACTAAATTCCATGATTGTATCCGAGTTTCCTCAAGTGGGCATAATTTTCT
TTTGAGCAGCTGGATCAGGATTGAAAAATGAAACGCAACAAAGCAGTCCGAATGGGCTTACTGTG
CAAGTCTGTGGTTTTTTCCAGAATTAATTGGCCTTGGTACAGTTTTATGACCAGACAGACAAGCA
ACGAATCAAAACCTCTGTTGGGAAATCGTCAATGCTACAAAATAAAAA
Found at i:4450619 original size:30 final size:28
Alignment explanation
Indices: 4450585--4450690 Score: 101
Period size: 30 Copynumber: 3.7 Consensus size: 28
4450575 CAATTTTGTT
4450585 AAATAAAAATTTATTTAAATACAAATTAAA
1 AAATAAAAATTTATTTAAATAC-AA-TAAA
** *
4450615 AAATAAAAGGTTATTTAGATACAATAAA
1 AAATAAAAATTTATTTAAATACAATAAA
4450643 AATATAAAAATTTATTTTAAA-A-AATAAA
1 AA-ATAAAAATTTA-TTTAAATACAATAAA
*
4450671 ATAATTCAAAATTT-TTTAAA
1 A-AA-TAAAAATTTATTTAAA
4450691 AATATTTTAG
Statistics
Matches: 65, Mismatches: 7, Indels: 11
0.78 0.08 0.13
Matches are distributed among these distances:
27 6 0.09
28 14 0.22
29 21 0.32
30 24 0.37
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (28 bp):
AAATAAAAATTTATTTAAATACAATAAA
Found at i:4453082 original size:28 final size:28
Alignment explanation
Indices: 4453019--4453076 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
4453009 AAGGGATGAC
4453019 TTAGTTTATAAATTGGTTCTCTTGAGTG
1 TTAGTTTATAAATTGGTTCTCTTGAGTG
4453047 TTAGTTTATAAATTGGTTCTCTTGAGTG
1 TTAGTTTATAAATTGGTTCTCTTGAGTG
4453075 TT
1 TT
4453077 GATTTAGGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.52
Consensus pattern (28 bp):
TTAGTTTATAAATTGGTTCTCTTGAGTG
Found at i:4453157 original size:24 final size:24
Alignment explanation
Indices: 4453125--4453172 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
4453115 TTTCACCTAC
*
4453125 CCCTCTATGTTTATAAATCACATA
1 CCCTCTATGTTAATAAATCACATA
4453149 CCCTCTATGTTAATAAATCACATA
1 CCCTCTATGTTAATAAATCACATA
4453173 TTCTTCTCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.35
Consensus pattern (24 bp):
CCCTCTATGTTAATAAATCACATA
Found at i:4457810 original size:6 final size:6
Alignment explanation
Indices: 4457799--4457829 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
4457789 TAAAAAGGAT
4457799 AAGAGA AAGAGA AAGAGA AAGAGA AAGAGA A
1 AAGAGA AAGAGA AAGAGA AAGAGA AAGAGA A
4457830 TTTAGGATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (6 bp):
AAGAGA
Found at i:4458198 original size:19 final size:20
Alignment explanation
Indices: 4458158--4458201 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
4458148 TCACTCGCCG
*
4458158 GAAAAATAAAAAATAATAAA
1 GAAAAATAAAAAATAAGAAA
4458178 GAAAAA-AAAAAA-AAGAGAA
1 GAAAAATAAAAAATAAGA-AA
4458197 GAAAA
1 GAAAA
4458202 GGATTCTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 13 0.59
20 6 0.27
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (20 bp):
GAAAAATAAAAAATAAGAAA
Found at i:4458764 original size:37 final size:38
Alignment explanation
Indices: 4458685--4458764 Score: 87
Period size: 37 Copynumber: 2.2 Consensus size: 38
4458675 CAAGTATTGG
* * *
4458685 ATAAATTTGTTAAATATTTTTTTAAAATAATTAAAATT
1 ATAAATTTATTAAATATATATTTAAAATAATTAAAATT
4458723 -TAAATTTATTAAATATCATATTTAAAA-AA-T-AAATGT
1 ATAAATTTATTAAATAT-ATATTTAAAATAATTAAAAT-T
4458759 ATAAAT
1 ATAAAT
4458765 AATTTAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
35 4 0.11
36 2 0.06
37 22 0.61
38 8 0.22
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (38 bp):
ATAAATTTATTAAATATATATTTAAAATAATTAAAATT
Found at i:4459474 original size:2 final size:2
Alignment explanation
Indices: 4459467--4459492 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4459457 ACCAGGGGAG
4459467 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
4459493 GCCTCATCAA
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:4482705 original size:13 final size:13
Alignment explanation
Indices: 4482687--4482714 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4482677 TCTTACTATT
4482687 TTATATTTTAAAA
1 TTATATTTTAAAA
4482700 TTATATTTTAAAA
1 TTATATTTTAAAA
4482713 TT
1 TT
4482715 TTTTTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTATATTTTAAAA
Found at i:4485600 original size:62 final size:62
Alignment explanation
Indices: 4485453--4485586 Score: 259
Period size: 62 Copynumber: 2.2 Consensus size: 62
4485443 AGGTGAGGCA
4485453 TTGCTTCTGTGCCCTTTAATCTTAATGAATATCAGACAATACAATTTACATTATTGATGTGT
1 TTGCTTCTGTGCCCTTTAATCTTAATGAATATCAGACAATACAATTTACATTATTGATGTGT
*
4485515 TTGCTTCTGTGCCCTTTAATCTTAATGAATTTCAGACAATACAATTTACATTATTGATGTGT
1 TTGCTTCTGTGCCCTTTAATCTTAATGAATATCAGACAATACAATTTACATTATTGATGTGT
4485577 TTGCTTCTGT
1 TTGCTTCTGT
4485587 CCTCATTACT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 71 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.44
Consensus pattern (62 bp):
TTGCTTCTGTGCCCTTTAATCTTAATGAATATCAGACAATACAATTTACATTATTGATGTGT
Found at i:4486635 original size:2 final size:2
Alignment explanation
Indices: 4486628--4486666 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
4486618 TGTCCCAATA
*
4486628 TC TC TC TC TC TC TC TC TT TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
4486667 GGTTTATTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:4489566 original size:12 final size:12
Alignment explanation
Indices: 4489545--4489580 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
4489535 GATGGTGAAT
4489545 TTTACCTAACTA
1 TTTACCTAACTA
*
4489557 TTTGCCTAACTA
1 TTTACCTAACTA
4489569 TTTACCTAACTA
1 TTTACCTAACTA
4489581 AACTAATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.42
Consensus pattern (12 bp):
TTTACCTAACTA
Found at i:4489889 original size:12 final size:13
Alignment explanation
Indices: 4489832--4489911 Score: 67
Period size: 13 Copynumber: 6.1 Consensus size: 13
4489822 AATATTATTT
4489832 TAAATATAAATATA
1 TAAAT-TAAATATA
4489846 -AAATTAAATATA
1 TAAATTAAATATA
*
4489858 TATAA-AAAATATA
1 TA-AATTAAATATA
4489871 TATAATTAAATATA
1 TA-AATTAAATATA
* *
4489885 -AAATTAAAAAAAA
1 TAAATT-AAATATA
*
4489898 TAAATTATATATA
1 TAAATTAAATATA
4489911 T
1 T
4489912 CGGGTCGGGT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
12 12 0.22
13 28 0.52
14 14 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
TAAATTAAATATA
Found at i:4489893 original size:27 final size:26
Alignment explanation
Indices: 4489839--4489911 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
4489829 TTTTAAATAT
4489839 AAATATAAAATTAAATATATATAAAAA
1 AAATAT-AAATTAAATATATATAAAAA
* * *
4489866 ATATATATAATTAAATATAAAATTAAAA
1 AAATATA-AATTAAATAT-ATATAAAAA
*
4489894 AAA-ATAAATTATATATAT
1 AAATATAAATTAAATATAT
4489912 CGGGTCGGGT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 1 0.03
26 10 0.26
27 18 0.47
28 9 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (26 bp):
AAATATAAATTAAATATATATAAAAA
Found at i:4490467 original size:11 final size:11
Alignment explanation
Indices: 4490435--4490468 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
4490425 TTAAATAGAT
4490435 ATTTTTAATAAA
1 ATTTTT-ATAAA
4490447 ATTATTTATAAA
1 ATT-TTTATAAA
4490459 ATTTTTATAA
1 ATTTTTATAA
4490469 TTAAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 7 0.33
12 11 0.52
13 3 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATTTTTATAAA
Found at i:4490549 original size:19 final size:20
Alignment explanation
Indices: 4490509--4490566 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
4490499 AACTAATATT
*
4490509 TTTAATAATTTTTATATTAA
1 TTTAATAATTTTTATATAAA
4490529 TTTAA-AATTTTTAT-TAAAA
1 TTTAATAATTTTTATAT-AAA
* *
4490548 TTTATTTATTTTTA-ATAAA
1 TTTAATAATTTTTATATAAA
4490567 AAATTTCATA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 1 0.03
19 18 0.56
20 13 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTAATAATTTTTATATAAA
Found at i:4491114 original size:14 final size:15
Alignment explanation
Indices: 4491104--4491136 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
4491094 TAATTTATAT
4491104 AATTATT-TTTAAAA
1 AATTATTGTTTAAAA
4491118 AATTATTGTTTAAAA
1 AATTATTGTTTAAAA
4491133 AATT
1 AATT
4491137 TTAAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
AATTATTGTTTAAAA
Found at i:4492304 original size:2 final size:2
Alignment explanation
Indices: 4492285--4492331 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
4492275 GGAGGAAACA
* * *
4492285 AT AT AT GT AA AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4492327 AT AT A
1 AT AT A
4492332 ACTTCCCTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:4492547 original size:2 final size:2
Alignment explanation
Indices: 4492536--4492572 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
4492526 AATATTCGTT
4492536 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4492573 AATTGACGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4497942 original size:2 final size:2
Alignment explanation
Indices: 4497935--4497966 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4497925 CCATTTTGAA
4497935 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4497967 ATATATATAT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:4497971 original size:2 final size:2
Alignment explanation
Indices: 4497966--4497998 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4497956 TCTCTCTCTC
4497966 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
4497999 TTCAGAGAAG
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:4498516 original size:3 final size:3
Alignment explanation
Indices: 4498508--4498534 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4498498 ATGTCAGCTG
4498508 TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA
4498535 GAATAGTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:4505242 original size:16 final size:16
Alignment explanation
Indices: 4505186--4505248 Score: 65
Period size: 16 Copynumber: 3.9 Consensus size: 16
4505176 ATAGATTTTT
* *
4505186 ATTTATTTTGAATTTG
1 ATTTAATTTAAATTTG
*
4505202 ATTTAATTTTATATTTG
1 ATTTAA-TTTAAATTTG
*
4505219 -TTAAATTTAAATTTG
1 ATTTAATTTAAATTTG
*
4505234 ATTTGATTTAAATTT
1 ATTTAATTTAAATTT
4505249 TTTTATTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
15 9 0.24
16 21 0.55
17 8 0.21
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (16 bp):
ATTTAATTTAAATTTG
Found at i:4505360 original size:21 final size:22
Alignment explanation
Indices: 4505322--4505373 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 22
4505312 TTCGAAATTA
4505322 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
4505344 ATAAAATATTA-TTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
4505365 AT-AAATATT
1 ATAAAATATT
4505374 TAAATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 12 0.40
22 11 0.37
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:4505379 original size:8 final size:8
Alignment explanation
Indices: 4505359--4505399 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
4505349 ATATTATTTT
4505359 TAAA-ATA
1 TAAATATA
*
4505366 TAAATATT
1 TAAATATA
4505374 TAAATATA
1 TAAATATA
*
4505382 TAATTATA
1 TAAATATA
4505390 TAAATATA
1 TAAATATA
4505398 TA
1 TA
4505400 TAAATAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 4 0.14
8 25 0.86
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TAAATATA
Found at i:4506038 original size:14 final size:14
Alignment explanation
Indices: 4505989--4506038 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
4505979 CTCGATTTTT
*
4505989 TTATTTTTCAAATA
1 TTATTTTTAAAATA
4506003 -TATTTTATAAAA-A
1 TTATTTT-TAAAATA
**
4506016 TTAAATTTAAAATA
1 TTATTTTTAAAATA
4506030 TTATTTTTA
1 TTATTTTTA
4506039 TATTTTTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
13 12 0.43
14 16 0.57
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (14 bp):
TTATTTTTAAAATA
Done.