Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, 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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 42 of 74
Found at i:8683456 original size:30 final size:27
Alignment explanation
Indices: 8683402--8683476 Score: 91
Period size: 30 Copynumber: 2.7 Consensus size: 27
8683392 ATATTTATTT
* *
8683402 TATTT-TAT-TATTTTTATTATTTATC
1 TATTTATATATATTATTATTAGTTATC
8683427 TATTGATATATATATGTATTATTAGTTATC
1 TATT--TATATATAT-TATTATTAGTTATC
8683457 TATTTATATATATTATTATT
1 TATTTATATATATTATTATT
8683477 TATCTATTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
25 4 0.09
27 8 0.19
28 12 0.28
29 3 0.07
30 16 0.37
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.63
Consensus pattern (27 bp):
TATTTATATATATTATTATTAGTTATC
Found at i:8683464 original size:24 final size:24
Alignment explanation
Indices: 8683437--8683498 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
8683427 TATTGATATA
*
8683437 TATATGTATTATTAGTTATCTATT
1 TATATATATTATTAGTTATCTATT
*
8683461 TATATATATTATTATTTATCTATT
1 TATATATATTATTAGTTATCTATT
*
8683485 AATTAATATATTAT
1 TA-T-ATATATTAT
8683499 CTTTGTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 23 0.70
25 1 0.03
26 9 0.27
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (24 bp):
TATATATATTATTAGTTATCTATT
Found at i:8683495 original size:30 final size:29
Alignment explanation
Indices: 8683415--8683495 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 29
8683405 TTTATTATTT
*
8683415 TTATTATTTATCTATTGA-TATATATATGTA
1 TTATTATTTATCTATT-ATTA-ATATATATA
*
8683445 TTATTAGTTATC---TATT--TATATATA
1 TTATTATTTATCTATTATTAATATATATA
8683469 TTATTATTTATCTATTAATTAATATAT
1 TTATTATTTATCTATT-ATTAATATAT
8683496 TATCTTTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
24 18 0.44
26 1 0.02
27 3 0.07
28 3 0.07
30 16 0.39
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (29 bp):
TTATTATTTATCTATTATTAATATATATA
Found at i:8683507 original size:28 final size:25
Alignment explanation
Indices: 8683415--8683507 Score: 82
Period size: 28 Copynumber: 3.5 Consensus size: 25
8683405 TTTATTATTT
8683415 TTATTAT-TTATCTATTGATATATATA
1 TTATTATGTTATCTATT-A-ATATATA
*
8683441 TGTATTATTAGTTATCTATTTATATATA
1 T-TATTA-T-GTTATCTATTAATATATA
8683469 TTATTAT-TTATCTATTAATTAATATA
1 TTATTATGTTATCTATTAA-T-ATATA
*
8683495 TTATCTTTGTTAT
1 TTAT-TATGTTAT
8683508 TATCTTTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
24 10 0.18
25 1 0.02
26 11 0.20
27 12 0.21
28 13 0.23
30 9 0.16
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.59
Consensus pattern (25 bp):
TTATTATGTTATCTATTAATATATA
Found at i:8684414 original size:14 final size:14
Alignment explanation
Indices: 8684391--8684482 Score: 55
Period size: 14 Copynumber: 6.2 Consensus size: 14
8684381 TTTTTCATTT
8684391 TTTA-TTATTTTTA
1 TTTATTTATTTTTA
8684404 TTTATTTATTTATTA
1 TTTATTTATTT-TTA
* *
8684419 -TTATTATATTAGGATTG
1 TTTATT-TATT---TTTA
*
8684436 TTTAATTT-TTTCTTT
1 TTT-ATTTATTT-TTA
*
8684451 TTTATTTATTTTCA
1 TTTATTTATTTTTA
8684465 TTTATTTATTTTTTA
1 TTTATTTA-TTTTTA
8684480 TTT
1 TTT
8684483 TACTTTCTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
13 4 0.07
14 24 0.39
15 23 0.38
17 4 0.07
18 3 0.05
19 3 0.05
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.73
Consensus pattern (14 bp):
TTTATTTATTTTTA
Found at i:8684493 original size:21 final size:22
Alignment explanation
Indices: 8684444--8684493 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
8684434 TGTTTAATTT
8684444 TTTCTTT-TTTATTTATTTTCA
1 TTTCTTTATTTATTTATTTTCA
*
8684465 TTTATTTATTT-TTTATTTT-A
1 TTTCTTTATTTATTTATTTTCA
8684485 CTTTCTTTA
1 -TTTCTTTA
8684494 AATAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 1 0.04
21 21 0.84
22 3 0.12
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTCTTTATTTATTTATTTTCA
Found at i:8684577 original size:59 final size:56
Alignment explanation
Indices: 8684514--8684853 Score: 310
Period size: 59 Copynumber: 5.8 Consensus size: 56
8684504 TAAAAAACAA
* *
8684514 AAAAATTTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTAGAAATTAAAAATTTC
1 AAAAATTTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTA-AAA-T-AAAGTTTC
* *
8684573 AAAAA-ATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTC
1 AAAAATTTATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCC-TAA-AATAAAGTTTC
* *
8684630 AAAAAAGGTTT-TTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCC
1 -AAAAA--TTTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT--AAAATAAAGTTT-C
** * *
8684691 AAAAAAGTATTTTTGAGGAAAAGTCGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAATTTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC-T-AAAATAAAGTTTC
* *
8684749 AAAAAAAATTTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATATAAGTTTCC
1 ---AAAAA-TTTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-AAAATA-AAGTTT-C
** * *
8684812 AAAAA-AAATATTTTGGGGAAAAGTTAAAAGTATCAATTTTCC
1 AAAAATTTAT-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
8684854 ATTGTACAAA
Statistics
Matches: 234, Mismatches: 27, Indels: 40
0.78 0.09 0.13
Matches are distributed among these distances:
57 8 0.03
58 42 0.18
59 80 0.34
60 49 0.21
61 17 0.07
62 37 0.16
63 1 0.00
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (56 bp):
AAAAATTTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTAAAATAAAGTTTC
Found at i:8684826 original size:121 final size:118
Alignment explanation
Indices: 8684511--8684853 Score: 460
Period size: 121 Copynumber: 2.9 Consensus size: 118
8684501 TTTTAAAAAA
* * *
8684511 CAAAAAAATTTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT-AGAAATTAAAAATTT-C-
1 CAAAAAAATTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCA-AAA-TATAAGTTTCCA
* *
8684573 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTT
64 AAAAAATATTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
** * * *
8684629 CAAAAAAGGTTTTTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTCGAAAT-TAAAGTTTCCAA
1 CAAAAAAATTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATAT-AAGTTTCCAA
* *
8684693 AAAAGTATTTTTGAGGAAAAGTCGAAAGTATCAATTTTCCTTAAAAATAAATTTT
65 AAAAATA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
8684748 CAAAAAAAATTTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATATAAGTTTCCA
1 C-AAAAAAA-TTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATATAAGTTTCC-
* *
8684813 AAAAAAATATTTTGGGGAAAAGTTAAAAGTATCAATTTTCC
63 AAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
8684854 ATTGTACAAA
Statistics
Matches: 195, Mismatches: 21, Indels: 15
0.84 0.09 0.06
Matches are distributed among these distances:
117 6 0.03
118 45 0.23
119 47 0.24
120 11 0.06
121 77 0.39
122 9 0.05
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (118 bp):
CAAAAAAATTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATATAAGTTTCCAAA
AAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
Found at i:8690761 original size:17 final size:17
Alignment explanation
Indices: 8690728--8690772 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
8690718 AATTTTTCTT
*
8690728 TTATTTAAAAA-TTTTA
1 TTATATAAAAATTTTTA
*
8690744 TTATATATAAATTTTTA
1 TTATATAAAAATTTTTA
8690761 TTATATAAAAAT
1 TTATATAAAAAT
8690773 ATTACAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTATATAAAAATTTTTA
Found at i:8691059 original size:18 final size:19
Alignment explanation
Indices: 8691005--8691052 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
8690995 AATATACTTT
*
8691005 AATG-ATTTAATTATAAAA
1 AATGAATTTAATAATAAAA
*
8691023 AATGAGTTTAATAATAAAA
1 AATGAATTTAATAATAAAA
*
8691042 AATTAATTTAA
1 AATGAATTTAA
8691053 ATTAAAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (19 bp):
AATGAATTTAATAATAAAA
Found at i:8691200 original size:14 final size:15
Alignment explanation
Indices: 8691170--8691203 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
8691160 TTTTAGTATT
8691170 ATTATAAAAAATTTTA
1 ATTATAAAAAA-TTTA
8691186 ATTATAAAAAA-TTA
1 ATTATAAAAAATTTA
8691200 ATTA
1 ATTA
8691204 AAATTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
16 11 0.61
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTATAAAAAATTTA
Found at i:8695884 original size:20 final size:21
Alignment explanation
Indices: 8695848--8695890 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
8695838 TCTTTCTGCA
8695848 TTTGAATTTAGTTTAATTTTAT
1 TTTGAATTTAGTTTAA-TTTAT
8695870 TTTG-ATTTA-TTTAATTTAT
1 TTTGAATTTAGTTTAATTTAT
8695889 TT
1 TT
8695891 ATTTATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 5 0.24
21 5 0.24
22 4 0.19
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (21 bp):
TTTGAATTTAGTTTAATTTAT
Found at i:8697954 original size:15 final size:16
Alignment explanation
Indices: 8697934--8697963 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8697924 TCACTTTTAT
8697934 ATTTTT-TTTCATATC
1 ATTTTTATTTCATATC
8697949 ATTTTTATTTCATAT
1 ATTTTTATTTCATAT
8697964 TAAAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTTTATTTCATATC
Found at i:8698870 original size:153 final size:153
Alignment explanation
Indices: 8698697--8698976 Score: 506
Period size: 153 Copynumber: 1.8 Consensus size: 153
8698687 TTAATAATAT
* *
8698697 AATTTATATATATGTATGTGTGTGTGTTAATGATTTAATCTTATTGTTGCAAACCAATAAGTTGC
1 AATTTATATATATGCATGTGTGTGTGTTAATGACTTAATCTTATTGTTGCAAACCAATAAGTTGC
*
8698762 TATTGAAACTTAATAAAAAATAAAAGTTGATATAATTCTGGACAAACACTGGAGCCAAATATTGT
66 TATTGAAACTTAATAAAAAATAAAAGTTGATATAATTATGGACAAACACTGGAGCCAAATATTGT
8698827 TAAGAGAAATTACACAAATATAG
131 TAAGAGAAATTACACAAATATAG
* *
8698850 AATTTATATATATGCGTGTGTGTGTGTTAATGACTTAATCTTTTTGTTGCAAACCAATAAGTTGC
1 AATTTATATATATGCATGTGTGTGTGTTAATGACTTAATCTTATTGTTGCAAACCAATAAGTTGC
*
8698915 TATTGAAACTTAATAGAAAATAAAAGTTGATATAATTATGGACAAACACTGGAGCCAAATAT
66 TATTGAAACTTAATAAAAAATAAAAGTTGATATAATTATGGACAAACACTGGAGCCAAATAT
8698977 AGAATGATTA
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
153 121 1.00
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.35
Consensus pattern (153 bp):
AATTTATATATATGCATGTGTGTGTGTTAATGACTTAATCTTATTGTTGCAAACCAATAAGTTGC
TATTGAAACTTAATAAAAAATAAAAGTTGATATAATTATGGACAAACACTGGAGCCAAATATTGT
TAAGAGAAATTACACAAATATAG
Found at i:8699429 original size:17 final size:18
Alignment explanation
Indices: 8699396--8699429 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8699386 TAAAGTATTG
*
8699396 TAAAAGTAATTTGAAAAA
1 TAAAAGTAATTTAAAAAA
8699414 TAAAAGT-ATTTAAAAA
1 TAAAAGTAATTTAAAAA
8699430 TGACAAGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (18 bp):
TAAAAGTAATTTAAAAAA
Found at i:8699438 original size:17 final size:17
Alignment explanation
Indices: 8699396--8699430 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
8699386 TAAAGTATTG
8699396 TAAAAGTAATTTGAAAAA
1 TAAAAGT-ATTTGAAAAA
8699414 TAAAAGTATTT-AAAAA
1 TAAAAGTATTTGAAAAA
8699430 T
1 T
8699431 GACAAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 4 0.24
18 7 0.41
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (17 bp):
TAAAAGTATTTGAAAAA
Found at i:8704881 original size:118 final size:117
Alignment explanation
Indices: 8704737--8705016 Score: 402
Period size: 118 Copynumber: 2.4 Consensus size: 117
8704727 TTGTGTAGGG
* *
8704737 AAAATTGATACTTTCAACTTTCCCCAAAAATATTCTTTTG-AAACTTT-AATTTCGAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCCAAAAATATT-TTTTGAAAACTTTGAATTTCAAGGAAAATT
***
8704800 GATACTTTCAACTTTTCCTCAAAAATTGATTTTTTTTGAAAAGTTATTTTTAAGA
65 GATACTTTCAACTTTTCCTCAAAAACCCA--TTTTTTGAAAAGTTATTTTTAAGA
* *
8704855 AAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTGAAAATTTTGATTTTCAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTGAAAACTTTGAATTTCAAGGAAAATT
* *
8704920 GATACTTTCAACTTTTCCTCAAAAACCCATTTTTTGAAAATTTATTTTTAAGG
65 GATACTTTCAACTTTTCCTCAAAAACCCATTTTTTGAAAAGTTATTTTTAAGA
* *
8704973 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAAAA
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTGAAAA
8705017 ATCTTTTTTA
Statistics
Matches: 147, Mismatches: 11, Indels: 8
0.89 0.07 0.05
Matches are distributed among these distances:
118 86 0.59
119 21 0.14
120 40 0.27
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (117 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAAACTTTGAATTTCAAGGAAAATTG
ATACTTTCAACTTTTCCTCAAAAACCCATTTTTTGAAAAGTTATTTTTAAGA
Found at i:8704920 original size:59 final size:57
Alignment explanation
Indices: 8704735--8705016 Score: 343
Period size: 59 Copynumber: 4.8 Consensus size: 57
8704725 CCTTGTGTAG
* * * *
8704735 GGAAAATTGATACTTTCAAC-TTTCCCCAAAAATATTCTTTTGAAACTTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAAATATT-TTTTGAAAATTTATTTTCAA
* * *
8704792 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTGATTTTTTTTGAAAAGTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAA---ATATTTTTTGAAAATTTATTTTCAA
*
8704853 GAAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTGAAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTGAAAA-TTT-ATTTTCAA
** *
8704912 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCATTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAA-ATATTTTTTGAAAATTTATTTTCAA
* *
8704971 GGAAAATTGATACTTTCAACTTTTTCTC-AAAAATATTTTTTTAAAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCAAAAAATATTTTTTGAAAA
8705017 ATCTTTTTTA
Statistics
Matches: 196, Mismatches: 19, Indels: 20
0.83 0.08 0.09
Matches are distributed among these distances:
57 44 0.22
58 11 0.06
59 65 0.33
60 20 0.10
61 52 0.27
62 4 0.02
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.43
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTGAAAATTTATTTTCAA
Found at i:8707014 original size:18 final size:18
Alignment explanation
Indices: 8706991--8707025 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8706981 TTTTTTTTCT
*
8706991 CCTATTCGGATTCCTCCC
1 CCTATTCAGATTCCTCCC
8707009 CCTATTCAGATTCCTCC
1 CCTATTCAGATTCCTCC
8707026 TCTATCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.43, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTATTCAGATTCCTCCC
Found at i:8707267 original size:23 final size:23
Alignment explanation
Indices: 8707237--8707291 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
8707227 TTTTTTAAAA
8707237 AAAAAAAATAAT-AATCA-GATAAT
1 AAAAAAAATAATAAAT-ATGA-AAT
*
8707260 AAAAAAAATGATAAATATGAAAT
1 AAAAAAAATAATAAATATGAAAT
8707283 AAAAAAAAT
1 AAAAAAAAT
8707292 CTAAAATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 24 0.83
24 5 0.17
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (23 bp):
AAAAAAAATAATAAATATGAAAT
Found at i:8707922 original size:18 final size:18
Alignment explanation
Indices: 8707899--8707935 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
8707889 ATGAGCTTAT
*
8707899 CCTTGGTCCAAATCCACA
1 CCTTGGTCAAAATCCACA
8707917 CCTTGGTCAAAATCCACA
1 CCTTGGTCAAAATCCACA
8707935 C
1 C
8707936 ATAAATAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.38, G:0.11, T:0.22
Consensus pattern (18 bp):
CCTTGGTCAAAATCCACA
Found at i:8714417 original size:15 final size:14
Alignment explanation
Indices: 8714397--8714426 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
8714387 ATCAGTGGAG
8714397 CAATTTGGAAAGAAA
1 CAATTTGGAAA-AAA
8714412 CAATTTGGAAAAAA
1 CAATTTGGAAAAAA
8714426 C
1 C
8714427 GCAGTCCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.53, C:0.10, G:0.17, T:0.20
Consensus pattern (14 bp):
CAATTTGGAAAAAA
Found at i:8714788 original size:12 final size:12
Alignment explanation
Indices: 8714764--8714798 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
8714754 GGATTCTAAG
8714764 GGTTTTGTTTTGA
1 GGTTTT-TTTTGA
8714777 GGTTTTTTTTGA
1 GGTTTTTTTTGA
*
8714789 GATTTTTTTT
1 GGTTTTTTTT
8714799 TATTTGTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.09, C:0.00, G:0.23, T:0.69
Consensus pattern (12 bp):
GGTTTTTTTTGA
Found at i:8715848 original size:22 final size:19
Alignment explanation
Indices: 8715822--8715875 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 19
8715812 TATATTTTTT
*
8715822 ATTATTTATTTAATTATAAA
1 ATTA-TTATTTAATAATAAA
8715842 TATTTATTATATTAATAATAAA
1 -A-TTATTAT-TTAATAATAAA
8715864 ATTATTATTTAA
1 ATTATTATTTAA
8715876 AAACTTAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.13
20 7 0.23
21 6 0.20
22 13 0.43
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTATTATTTAATAATAAA
Found at i:8716230 original size:21 final size:20
Alignment explanation
Indices: 8716192--8716244 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
8716182 TTTGGTTCTT
* * *
8716192 TTTTTTTTAGTTTTATTTTG
1 TTTTTTTAATTTTTATTTTA
8716212 TTTTTTTAATTTTTAATTTTA
1 TTTTTTTAATTTTT-ATTTTA
8716233 TTTTTCTTAATT
1 TTTTT-TTAATT
8716245 ATATTTGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 12 0.43
21 10 0.36
22 6 0.21
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (20 bp):
TTTTTTTAATTTTTATTTTA
Found at i:8717021 original size:20 final size:20
Alignment explanation
Indices: 8716998--8717128 Score: 65
Period size: 20 Copynumber: 6.5 Consensus size: 20
8716988 CTTAATTTTG
8716998 ATTTTGATAACTTTTTATAT
1 ATTTTGATAACTTTTTATAT
* *
8717018 ATTTTGATAACATTCGTTAGA-
1 ATTTTGATAAC-TT-TTTATAT
* * * *
8717039 AGTTTGATCACTTTTCATAAA
1 ATTTTGATAACTTTTTAT-AT
* * *
8717060 ATTTTGGTATC-TTTTATACA
1 ATTTTGATAACTTTTTATA-T
*
8717080 ATTTTGTTAAC-TTTTA-AT
1 ATTTTGATAACTTTTTATAT
* *
8717098 A-TTTAATAACTTATTATAT
1 ATTTTGATAACTTTTTATAT
*
8717117 AATTTTGGTAAC
1 -ATTTTGATAAC
8717129 AATTGATATA
Statistics
Matches: 82, Mismatches: 20, Indels: 17
0.69 0.17 0.14
Matches are distributed among these distances:
17 7 0.09
18 5 0.06
19 6 0.07
20 35 0.43
21 25 0.30
22 4 0.05
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTTTGATAACTTTTTATAT
Found at i:8717128 original size:21 final size:20
Alignment explanation
Indices: 8717048--8717143 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
8717038 AAGTTTGATC
*
8717048 ACTTTTCATAAAATTTTGGTA
1 ACTTTT-ATATAATTTTGGTA
* * *
8717069 TCTTTTATACAATTTTGTTA
1 ACTTTTATATAATTTTGGTA
**
8717089 ACTTTTA-AT-A-TTTAATA
1 ACTTTTATATAATTTTGGTA
8717106 ACTTATTATATAATTTTGGTA
1 ACTT-TTATATAATTTTGGTA
* *
8717127 ACAATTGATATAATTTT
1 AC-TTTTATATAATTTT
8717144 AATATTTTTT
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
17 9 0.15
18 4 0.07
19 3 0.05
20 19 0.32
21 23 0.39
22 1 0.02
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.52
Consensus pattern (20 bp):
ACTTTTATATAATTTTGGTA
Found at i:8718926 original size:22 final size:22
Alignment explanation
Indices: 8718901--8718942 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
8718891 TTAAGTTATC
* *
8718901 ATTATGTTATCAATGATTTACT
1 ATTAAGTTATCAATAATTTACT
*
8718923 ATTAAGTTATTAATAATTTA
1 ATTAAGTTATCAATAATTTA
8718943 TTACTAAAAT
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:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (22 bp):
ATTAAGTTATCAATAATTTACT
Found at i:8718985 original size:22 final size:21
Alignment explanation
Indices: 8718960--8719086 Score: 78
Period size: 22 Copynumber: 5.8 Consensus size: 21
8718950 AATAACATTA
* *
8718960 ATTTACAACTAATTTCTAAATG
1 ATTTAC-ACTAAATTATAAATG
8718982 ATTTATCACTAAATTATAAATG
1 ATTTA-CACTAAATTATAAATG
* ** *
8719004 ATTTACCATTAAATTATTGATA
1 ATTTA-CACTAAATTATAAATG
*
8719026 ATTTATCACTAAATTACTAAA-A
1 ATTTA-CACTAAATTA-TAAATG
* *
8719048 ATTTATTA-TAAAGTTATAACTG
1 ATTTA-CACTAAA-TTATAAATG
*
8719070 ATTTACTACTAAGTTAT
1 ATTTAC-ACTAAATTAT
8719087 CGATTATTTA
Statistics
Matches: 83, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
21 7 0.08
22 70 0.84
23 6 0.07
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (21 bp):
ATTTACACTAAATTATAAATG
Found at i:8719008 original size:44 final size:45
Alignment explanation
Indices: 8718912--8719046 Score: 107
Period size: 44 Copynumber: 3.0 Consensus size: 45
8718902 TTATGTTATC
* * * * *
8718912 AATGATTTACTATTAAGTTATTAATAATTTATTACTAAA--A-TA
1 AATGATTTACAACTAAATTATAAATAATTTATCACTAAATTACTA
* * * *
8718954 ACATTAATTTACAACTAATTTCTAAATGATTTATCACTAAATTA-TA
1 A-A-TGATTTACAACTAAATTATAAATAATTTATCACTAAATTACTA
* * **
8719000 AATGATTTACCATTAAATTATTGATAATTTATCACTAAATTACTA
1 AATGATTTACAACTAAATTATAAATAATTTATCACTAAATTACTA
8719045 AA
1 AA
8719047 AATTTATTAT
Statistics
Matches: 72, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 61 0.85
45 5 0.07
46 4 0.06
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (45 bp):
AATGATTTACAACTAAATTATAAATAATTTATCACTAAATTACTA
Found at i:8719095 original size:22 final size:22
Alignment explanation
Indices: 8719070--8719121 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
8719060 GTTATAACTG
* * *
8719070 ATTTACTACTAAGTTATCGATT
1 ATTTACTACAAACTTATCAATT
*
8719092 ATTTATTACAAACTTATCAATT
1 ATTTACTACAAACTTATCAATT
*
8719114 ATTAACTA
1 ATTTACTA
8719122 ATTTATTGCT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.44
Consensus pattern (22 bp):
ATTTACTACAAACTTATCAATT
Found at i:8719155 original size:22 final size:22
Alignment explanation
Indices: 8719130--8719176 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
8719120 TAATTTATTG
*
8719130 CTAAATTATCTCTAATCTACAA
1 CTAAATTATCACTAATCTACAA
* *
8719152 CTAAATTATCACTAATTTATAA
1 CTAAATTATCACTAATCTACAA
8719174 CTA
1 CTA
8719177 TGTTATTAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (22 bp):
CTAAATTATCACTAATCTACAA
Found at i:8719873 original size:22 final size:22
Alignment explanation
Indices: 8719824--8719874 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
8719814 TTAAAGCAAA
*
8719824 ATTGATTTACTGTTAAGTTATC
1 ATTGATTTACTGTTAAGATATC
*
8719846 ATTGATTTATTGTTAAGATAT-
1 ATTGATTTACTGTTAAGATATC
8719867 ATATGATT
1 AT-TGATT
8719875 AACTACTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 24 0.92
ACGTcount: A:0.31, C:0.04, G:0.14, T:0.51
Consensus pattern (22 bp):
ATTGATTTACTGTTAAGATATC
Found at i:8720269 original size:22 final size:22
Alignment explanation
Indices: 8720200--8720383 Score: 83
Period size: 22 Copynumber: 8.4 Consensus size: 22
8720190 TACTATTATG
* * *
8720200 TTATTAATCATTTATTACTAAG
1 TTATCAATAATTTATTACTAAA
* * *
8720222 CTACCAATAATTTACTACTAAA
1 TTATCAATAATTTATTACTAAA
*
8720244 TTATCAATAATTTATTAC-ATAT
1 TTATCAATAATTTATTACTA-AA
* * *
8720266 TTATAAATGATTTA-TCCTTAAA
1 TTATCAATAATTTATTAC-TAAA
* * * *
8720288 TTATGAATTATTTATCACTAAG
1 TTATCAATAATTTATTACTAAA
*
8720310 TTA-CTGATAATTTATTA-TAAA
1 TTATC-AATAATTTATTACTAAA
** * *
8720331 GTTAT-AACTTTTTTATTATTAAT
1 -TTATCAA-TAATTTATTACTAAA
* *
8720354 TTATGAATGATTTATTA-TAAAA
1 TTATCAATAATTTATTACT-AAA
8720376 TTATCAAT
1 TTATCAAT
8720384 GATTAACTAA
Statistics
Matches: 119, Mismatches: 32, Indels: 22
0.69 0.18 0.13
Matches are distributed among these distances:
21 8 0.07
22 104 0.87
23 7 0.06
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (22 bp):
TTATCAATAATTTATTACTAAA
Found at i:8720452 original size:22 final size:22
Alignment explanation
Indices: 8720427--8720469 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
8720417 TTGTAGTTAA
*
8720427 GTTATTCATAATTTATTACTAC
1 GTTATTCATAATTTACTACTAC
* *
8720449 GTTATTGATGATTTACTACTA
1 GTTATTCATAATTTACTACTA
8720470 AATTATCAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (22 bp):
GTTATTCATAATTTACTACTAC
Found at i:8720496 original size:22 final size:23
Alignment explanation
Indices: 8720456--8720514 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
8720446 TACGTTATTG
* *
8720456 ATGATTTACTACTAAATTATCA-
1 ATGATTTACTATTATATTATCAT
* *
8720478 ATGATTTATTATTATATTATTAT
1 ATGATTTACTATTATATTATCAT
8720501 AT-ATTTACTATTAT
1 ATGATTTACTATTAT
8720515 GTCATAATTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 29 0.94
23 2 0.06
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (23 bp):
ATGATTTACTATTATATTATCAT
Found at i:8720629 original size:21 final size:22
Alignment explanation
Indices: 8720604--8720709 Score: 71
Period size: 22 Copynumber: 5.0 Consensus size: 22
8720594 CATTACCAAG
8720604 TTATCATTAATTTA-TATTACA-
1 TTATCATTAATTTACTATTA-AT
8720625 TTATCCA--AATTTACTATTAAT
1 TTAT-CATTAATTTACTATTAAT
* * * *
8720646 TTATCATTGATTAACAATTAAG
1 TTATCATTAATTTACTATTAAT
* * *
8720668 TTATTGA-TGATTTACTATTAAA
1 TTA-TCATTAATTTACTATTAAT
*
8720690 TTAT-ATTAATTTACTTTTAA
1 TTATCATTAATTTACTATTAA
8720710 CGTAATGAGT
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
20 10 0.15
21 26 0.38
22 30 0.44
23 2 0.03
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.50
Consensus pattern (22 bp):
TTATCATTAATTTACTATTAAT
Found at i:8720850 original size:22 final size:22
Alignment explanation
Indices: 8720824--8720928 Score: 77
Period size: 22 Copynumber: 4.8 Consensus size: 22
8720814 AATAAAATTG
*
8720824 ATTTATTATTAAATTATCACTA
1 ATTTATTATTAAGTTATCACTA
* * ***
8720846 GTTTACTATTAAGTTATTTTTA
1 ATTTATTATTAAGTTATCACTA
* *
8720868 ATTTATTATTAAGTTATCAATG
1 ATTTATTATTAAGTTATCACTA
* * * *
8720890 ATTAACTATTAAGTTGTCACTT
1 ATTTATTATTAAGTTATCACTA
*
8720912 ATTT-TTCATTAAATTAT
1 ATTTATT-ATTAAGTTAT
8720929 TCTTGATTTA
Statistics
Matches: 61, Mismatches: 21, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
21 1 0.02
22 60 0.98
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.52
Consensus pattern (22 bp):
ATTTATTATTAAGTTATCACTA
Found at i:8720997 original size:44 final size:44
Alignment explanation
Indices: 8720947--8721038 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
8720937 TACTACTCTC
8720947 TTATTATGCATTTACAATTATATTACAATTAATTTATTACTAAA
1 TTATTATGCATTTACAATTATATTACAATTAATTTATTACTAAA
* ** * *
8720991 TTATTATGCATTTACTATTATATTATTATTGATTTATTACTAAG
1 TTATTATGCATTTACAATTATATTACAATTAATTTATTACTAAA
8721035 TTAT
1 TTAT
8721039 CAATTATTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.52
Consensus pattern (44 bp):
TTATTATGCATTTACAATTATATTACAATTAATTTATTACTAAA
Found at i:8721003 original size:22 final size:22
Alignment explanation
Indices: 8720978--8721064 Score: 70
Period size: 22 Copynumber: 4.0 Consensus size: 22
8720968 ATTACAATTA
8720978 ATTTATTACTAAATTATTA-TG
1 ATTTATTACTAAATTATTATTG
* * *
8720999 CATTTACTATTATATTATTATTG
1 -ATTTATTACTAAATTATTATTG
* *
8721022 ATTTATTACTAAGTTATCAATT-
1 ATTTATTACTAAATTAT-TATTG
* * *
8721044 ATTGACTATTAAATTATTATT
1 ATTTATTACTAAATTATTATT
8721065 CATATATTGA
Statistics
Matches: 50, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
21 3 0.06
22 42 0.84
23 5 0.10
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.53
Consensus pattern (22 bp):
ATTTATTACTAAATTATTATTG
Found at i:8721052 original size:44 final size:44
Alignment explanation
Indices: 8720947--8721064 Score: 121
Period size: 44 Copynumber: 2.7 Consensus size: 44
8720937 TACTACTCTC
* * * **
8720947 TTATTATGCATTTACAATTATATTACAATTAATTTATTACTAAA
1 TTATAATGCATTGACTATTATATTATTATTAATTTATTACTAAA
* * * *
8720991 TTATTATGCATTTACTATTATATTATTATTGATTTATTACTAAG
1 TTATAATGCATTGACTATTATATTATTATTAATTTATTACTAAA
* *
8721035 TTATCAAT-TATTGACTATTAAATTATTATT
1 TTAT-AATGCATTGACTATTATATTATTATT
8721065 CATATATTGA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 62 0.97
45 2 0.03
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.52
Consensus pattern (44 bp):
TTATAATGCATTGACTATTATATTATTATTAATTTATTACTAAA
Found at i:8721101 original size:11 final size:11
Alignment explanation
Indices: 8721087--8721123 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
8721077 TATGCATGAT
8721087 TTATTATTAAG
1 TTATTATTAAG
8721098 TTATTATTAA-
1 TTATTATTAAG
8721108 TTAATTATTAAG
1 TT-ATTATTAAG
8721120 TTAT
1 TTAT
8721124 CAATAATTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 2 0.08
11 20 0.83
12 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (11 bp):
TTATTATTAAG
Found at i:8721114 original size:22 final size:22
Alignment explanation
Indices: 8721089--8721132 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
8721079 TGCATGATTT
* *
8721089 ATTATTAAGTTATTATTAATTA
1 ATTATTAAGTTATCAATAATTA
8721111 ATTATTAAGTTATCAATAATTA
1 ATTATTAAGTTATCAATAATTA
8721133 CTACTAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (22 bp):
ATTATTAAGTTATCAATAATTA
Found at i:8723231 original size:17 final size:16
Alignment explanation
Indices: 8723178--8723231 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
8723168 TTAAAAACAT
* *
8723178 AAAATTTTTTTATTTA
1 AAAATTTTATTATATA
*
8723194 AAAATTTTATTATACA
1 AAAATTTTATTATATA
*
8723210 TAAATTTTGATTATATA
1 AAAATTTT-ATTATATA
8723227 AAAAT
1 AAAAT
8723232 ATCACAATAC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
16 20 0.65
17 11 0.35
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (16 bp):
AAAATTTTATTATATA
Found at i:8727789 original size:20 final size:19
Alignment explanation
Indices: 8727764--8727808 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
8727754 AAATTTAAGT
8727764 TTTATTGTAT-TTGAATTTA
1 TTTATTGTATGTT-AATTTA
*
8727783 GTTTATTTTATGTTAATTTA
1 -TTTATTGTATGTTAATTTA
8727803 TTTATT
1 TTTATT
8727809 TAATAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 15 0.65
21 2 0.09
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (19 bp):
TTTATTGTATGTTAATTTA
Found at i:8729446 original size:16 final size:16
Alignment explanation
Indices: 8729427--8729458 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
8729417 TAGCTTTAAG
8729427 TTTTTTTT-TTT-TTA
1 TTTTTTTTATTTGTTA
8729441 TTTTTTTTATTTGTTA
1 TTTTTTTTATTTGTTA
8729457 TT
1 TT
8729459 CTATACAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.88
Consensus pattern (16 bp):
TTTTTTTTATTTGTTA
Found at i:8729601 original size:49 final size:50
Alignment explanation
Indices: 8729488--8729605 Score: 134
Period size: 50 Copynumber: 2.3 Consensus size: 50
8729478 AAAAAATAGT
* * *
8729488 TTTTAAATATATAATAATAAATTATTATTTAATATAAAAATAATTTTAATAT
1 TTTT-AATAT-TATTAATAAAATATTATTTAATATAAAAATAATTTTAATAA
* *
8729540 TTTTCAAT-TTATTAATAAAATATTATTTGATAT-AAAATCATTTT-ATAA
1 TTTT-AATATTATTAATAAAATATTATTTAATATAAAAATAATTTTAATAA
8729588 TTTTAATTATTATTAATA
1 TTTTAA-TATTATTAATA
8729606 TCACAAATAT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
47 2 0.03
48 8 0.14
49 19 0.33
50 21 0.36
51 1 0.02
52 7 0.12
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.51
Consensus pattern (50 bp):
TTTTAATATTATTAATAAAATATTATTTAATATAAAAATAATTTTAATAA
Found at i:8729800 original size:21 final size:21
Alignment explanation
Indices: 8729751--8729800 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
8729741 TACTAACTTT
*
8729751 AATCTTACTATTATAGTAATC
1 AATCTTATTATTATAGTAATC
*
8729772 AATTTTATTATTATAGTAA-C
1 AATCTTATTATTATAGTAATC
8729792 AAATCTTAT
1 -AATCTTAT
8729801 CTCCACCACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (21 bp):
AATCTTATTATTATAGTAATC
Found at i:8733766 original size:32 final size:32
Alignment explanation
Indices: 8733730--8733827 Score: 86
Period size: 32 Copynumber: 3.2 Consensus size: 32
8733720 TTTTTTTGGA
8733730 AACTTTGATTTTCAAGGAAAATTGATACTTTC
1 AACTTTGATTTTCAAGGAAAATTGATACTTTC
* *
8733762 AACTTT--TTCTT-AA--AAATATT--T-TTTTGAA
1 AACTTTGATT-TTCAAGGAAA-ATTGATACTTT--C
8733790 AACTTTGATTTTCAAGGAAAATTGATACTTTC
1 AACTTTGATTTTCAAGGAAAATTGATACTTTC
8733822 AACTTT
1 AACTTT
8733828 TTCTCAAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 24
0.64 0.05 0.31
Matches are distributed among these distances:
26 3 0.06
27 1 0.02
28 9 0.18
29 5 0.10
30 8 0.16
31 5 0.10
32 15 0.30
33 1 0.02
34 3 0.06
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (32 bp):
AACTTTGATTTTCAAGGAAAATTGATACTTTC
Found at i:8733872 original size:58 final size:58
Alignment explanation
Indices: 8733624--8733986 Score: 453
Period size: 59 Copynumber: 6.1 Consensus size: 58
8733614 TCTTGTGTAG
* * *
8733624 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAA-TTTACTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTTATTTTTAA
* * * *
8733681 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATGTTTTTTTTTTTGGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA----TATTTTTTT-GAAA-TTTTATTTTTAA
* * * *
8733745 GGAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTGAAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTG-AAA-TTTTATTTTTAA
* *
8733805 GGAAAATTGATACTTTCAACTTTTTCTC-AAAATATTTTTTTTGAAATTTTGTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAATTTTATTTTTAA
* *
8733863 GGAAAATTGACACTTTCAACTTTTCC-CTAAAAATATTTTTTGGAAATTTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTGAAA-TTTTATTTTTAA
*
8733922 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGTAATTTTATTTTTAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTTATTTTT-AA
8733981 GGAAAA
1 GGAAAA
8733987 AAAAATAAAA
Statistics
Matches: 272, Mismatches: 20, Indels: 26
0.86 0.06 0.08
Matches are distributed among these distances:
57 34 0.12
58 53 0.19
59 76 0.28
60 60 0.22
61 7 0.03
62 4 0.01
64 38 0.14
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTTATTTTTAA
Found at i:8734013 original size:22 final size:22
Alignment explanation
Indices: 8733988--8734029 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
8733978 AAAGGAAAAA
* *
8733988 AAAATAAAACAAAATAAAAGTG
1 AAAAGAAAAAAAAATAAAAGTG
8734010 AAAAGAAAAAAAAATAAAAG
1 AAAAGAAAAAAAAATAAAAG
8734030 AAAGGAAAGT
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:0.79, C:0.02, G:0.10, T:0.10
Consensus pattern (22 bp):
AAAAGAAAAAAAAATAAAAGTG
Found at i:8734039 original size:31 final size:32
Alignment explanation
Indices: 8733982--8734044 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
8733972 ATTTTTAAAG
* *
8733982 GAAAAAAAAATAAAACAAAATAAAAGTGAAAA
1 GAAAAAAAAATAAAACAAAAGAAAAGTAAAAA
* *
8734014 GAAAAAAAAATAAAA-GAAAGGAAAGTAAAAA
1 GAAAAAAAAATAAAACAAAAGAAAAGTAAAAA
8734045 TAAATATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 12 0.44
32 15 0.56
ACGTcount: A:0.78, C:0.02, G:0.13, T:0.08
Consensus pattern (32 bp):
GAAAAAAAAATAAAACAAAAGAAAAGTAAAAA
Found at i:8734042 original size:15 final size:15
Alignment explanation
Indices: 8733977--8734043 Score: 62
Period size: 15 Copynumber: 4.3 Consensus size: 15
8733967 ATTTTATTTT
* *
8733977 TAAAGGAAAAAAAAA
1 TAAAAGAAAAAAAAG
*
8733992 TAAAACAAAATAAAAG
1 TAAAAGAAAA-AAAAG
*
8734008 TGAAAAGAAAAAAAAA
1 T-AAAAGAAAAAAAAG
**
8734024 TAAAAGAAAGGAAAG
1 TAAAAGAAAAAAAAG
8734039 TAAAA
1 TAAAA
8734044 ATAAATATAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
15 24 0.57
16 10 0.24
17 8 0.19
ACGTcount: A:0.76, C:0.01, G:0.13, T:0.09
Consensus pattern (15 bp):
TAAAAGAAAAAAAAG
Found at i:8734544 original size:31 final size:31
Alignment explanation
Indices: 8734509--8734567 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
8734499 ACTGGGCAGC
* * *
8734509 TCATCGAAAACTTCAAATTTGGTCGAAATCT
1 TCATCGAAAAATTCAAACTTCGTCGAAATCT
8734540 TCATCGAAAAATTCAAACTTCGTCGAAA
1 TCATCGAAAAATTCAAACTTCGTCGAAA
8734568 ATTCAATTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (31 bp):
TCATCGAAAAATTCAAACTTCGTCGAAATCT
Found at i:8734560 original size:19 final size:18
Alignment explanation
Indices: 8734538--8734573 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
8734528 TGGTCGAAAT
8734538 CTTCATCGAAAAATTCAAA
1 CTTCATCG-AAAATTCAAA
*
8734557 CTTCGTCGAAAATTCAA
1 CTTCATCGAAAATTCAA
8734574 TTGAAATCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (18 bp):
CTTCATCGAAAATTCAAA
Found at i:8734979 original size:5 final size:5
Alignment explanation
Indices: 8734965--8735087 Score: 80
Period size: 5 Copynumber: 24.6 Consensus size: 5
8734955 ATTATAGGAT
8734965 AAAT- AAATA AAATA ATAATA ATAATA ATAATA ACAGAT- AAATA AATATA
1 AAATA AAATA AAATA A-AATA A-AATA A-AATA A-A-ATA AAATA AA-ATA
* * * * * *
8735014 TAATT AGAT- AGAT- AAATA CATATA AAATA AAAT- AAATA AAAT- ATAT-
1 AAATA AAATA AAATA AAATA -AAATA AAATA AAATA AAATA AAATA AAATA
8735060 AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA
8735088 ATATATATTA
Statistics
Matches: 100, Mismatches: 10, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
4 23 0.23
5 48 0.48
6 27 0.27
7 2 0.02
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (5 bp):
AAATA
Found at i:8734979 original size:9 final size:9
Alignment explanation
Indices: 8734965--8735086 Score: 72
Period size: 9 Copynumber: 12.8 Consensus size: 9
8734955 ATTATAGGAT
8734965 AAATAAATA
1 AAATAAATA
8734974 AAAT-AATA
1 AAATAAATA
8734982 ATAAT-AATA
1 A-AATAAATA
*
8734991 ATAATAACAGA
1 A-AATAA-ATA
8735002 TAAATAAATA
1 -AAATAAATA
*
8735012 TATAATTAGAT-
1 -A-AA-TAAATA
*
8735023 AGATAAATA
1 AAATAAATA
*
8735032 CATATAAAATA
1 -AAAT-AAATA
8735043 AAATAAATA
1 AAATAAATA
*
8735052 AAATATAT-
1 AAATAAATA
8735060 AAATAAAATA
1 AAAT-AAATA
8735070 AAATAAAATA
1 AAAT-AAATA
8735080 AAATAAA
1 AAATAAA
8735087 AATATATATT
Statistics
Matches: 93, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
8 13 0.14
9 35 0.38
10 26 0.28
11 14 0.15
12 5 0.05
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (9 bp):
AAATAAATA
Found at i:8735006 original size:34 final size:33
Alignment explanation
Indices: 8734969--8735090 Score: 94
Period size: 34 Copynumber: 3.6 Consensus size: 33
8734959 TAGGATAAAT
8734969 AAATAAAATAATAATAATAATA-ATAATAACAGAT-
1 AAATAAAAT-A-AATAATAATAGATAATAACA-ATA
*
8735003 AAAT-AAATATATAATTAGATAGATAA-ATACATATA
1 AAATAAAATAAATAA-TA-ATAGATAATA-ACA-ATA
*
8735038 AAATAAAATAAATAA-AATATATAAATAA-AATA
1 AAATAAAATAAATAATAATAGAT-AATAACAATA
*
8735070 AAATAAAATAAAATAAAAATA
1 AAATAAAAT-AAATAATAATA
8735091 TATATTAATA
Statistics
Matches: 74, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
31 4 0.05
32 15 0.20
33 20 0.27
34 21 0.28
35 5 0.07
36 9 0.12
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (33 bp):
AAATAAAATAAATAATAATAGATAATAACAATA
Found at i:8735010 original size:4 final size:4
Alignment explanation
Indices: 8735001--8735104 Score: 50
Period size: 4 Copynumber: 24.8 Consensus size: 4
8734991 ATAATAACAG
* * * * * *
8735001 ATAA ATAA ATAT ATAA TTAG ATAG ATAA ATAC ATAT A-AA ATAAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA
* * *
8735049 ATAAA ATAT ATAA ATAAA ATAAA ATAAA ATAAA ATAA A-AA TATAT ATTA
1 AT-AA ATAA ATAA AT-AA AT-AA AT-AA AT-AA ATAA ATAA -ATAA ATAA
8735098 ATAA ATA
1 ATAA ATA
8735105 GTAATAGTAA
Statistics
Matches: 79, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
3 4 0.05
4 47 0.59
5 28 0.35
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.29
Consensus pattern (4 bp):
ATAA
Found at i:8735063 original size:13 final size:13
Alignment explanation
Indices: 8735035--8735160 Score: 59
Period size: 13 Copynumber: 9.8 Consensus size: 13
8735025 ATAAATACAT
*
8735035 ATAAAATAAAATAA
1 ATAAAAT-ATATAA
8735049 ATAAAATATATAA
1 ATAAAATATATAA
8735062 AT-AAA-ATA-AA
1 ATAAAATATATAA
*
8735072 ATAAAATAAAATAA
1 ATAAAAT-ATATAA
* *
8735086 A-AATATATATTA
1 ATAAAATATATAA
8735098 ATAAATAGTAATAGTAA
1 ATAAA-A-T-ATA-TAA
* *
8735115 AT--AATAAATAC
1 ATAAAATATATAA
*
8735126 ATAGAATATA-AA
1 ATAAAATATATAA
** *
8735138 GGAAAATATATAC
1 ATAAAATATATAA
8735151 ATAAAATATA
1 ATAAAATATA
8735161 AATAACAAAA
Statistics
Matches: 83, Mismatches: 17, Indels: 25
0.66 0.14 0.20
Matches are distributed among these distances:
10 4 0.05
11 10 0.12
12 18 0.22
13 30 0.36
14 12 0.14
15 2 0.02
16 3 0.04
17 4 0.05
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (13 bp):
ATAAAATATATAA
Found at i:8735451 original size:41 final size:41
Alignment explanation
Indices: 8735357--8735569 Score: 297
Period size: 41 Copynumber: 5.2 Consensus size: 41
8735347 TTTTACCAAA
* * *
8735357 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAA-GTAAATT
8735400 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAGGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAA-GTAAATT
* *
8735441 GCTCCTCTAAATAGAGGCACCATGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
*
8735482 GCTCCTCTAAACAAAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
* *
8735523 GCTCCTCTAAACAGAGGCA--ACGGACTTTGAAAATTAAATT
1 GCTCCTCTAAACAGAGGCACCAC-GACTTTGGAAAGTAAATT
8735563 GCTCCTC
1 GCTCCTC
8735570 GACAATCATG
Statistics
Matches: 156, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 2 0.01
40 23 0.15
41 100 0.64
42 4 0.03
43 27 0.17
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
Found at i:8736596 original size:16 final size:16
Alignment explanation
Indices: 8736569--8736641 Score: 85
Period size: 17 Copynumber: 4.4 Consensus size: 16
8736559 TGAGTCCTCC
*
8736569 TTTTTCACTTTTTC-T
1 TTTTTCATTTTTTCAT
8736584 TTTTTCATTTTTTCTAT
1 TTTTTCATTTTTTC-AT
* *
8736601 TATTTCATTTTTCCAT
1 TTTTTCATTTTTTCAT
8736617 TTTTTCATTTTTTTCCAT
1 TTTTTCA-TTTTTT-CAT
8736635 TTTTTCA
1 TTTTTCA
8736642 AGCATAGTAC
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.27
16 8 0.16
17 18 0.37
18 10 0.20
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTCATTTTTTCAT
Found at i:8736629 original size:8 final size:8
Alignment explanation
Indices: 8736569--8736641 Score: 85
Period size: 8 Copynumber: 8.9 Consensus size: 8
8736559 TGAGTCCTCC
*
8736569 TTTTTCAC
1 TTTTTCAT
8736577 TTTTTC-T
1 TTTTTCAT
8736584 TTTTTCAT
1 TTTTTCAT
8736592 TTTTTCTAT
1 TTTTTC-AT
*
8736601 TATTTCAT
1 TTTTTCAT
*
8736609 TTTTCCAT
1 TTTTTCAT
8736617 TTTTTCATT
1 TTTTTCA-T
8736626 TTTTTCCAT
1 TTTTT-CAT
8736635 TTTTTCA
1 TTTTTCA
8736642 AGCATAGTAC
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
7 6 0.11
8 29 0.52
9 19 0.34
10 2 0.04
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.71
Consensus pattern (8 bp):
TTTTTCAT
Found at i:8736629 original size:10 final size:10
Alignment explanation
Indices: 8736608--8736639 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
8736598 TATTATTTCA
8736608 TTTTTCCA-T
1 TTTTTCCATT
8736617 TTTTT-CATT
1 TTTTTCCATT
8736626 TTTTTCCATT
1 TTTTTCCATT
8736636 TTTT
1 TTTT
8736640 CAAGCATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.10
9 11 0.52
10 8 0.38
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTTCCATT
Found at i:8746444 original size:30 final size:31
Alignment explanation
Indices: 8746383--8746444 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 31
8746373 GCACATGCAT
* *
8746383 ATGAATGACATAATTAACAATGTAAATAAAC
1 ATGAATGACATAATTAACAATATAAACAAAC
*
8746414 ATGAATGA-ATAA-TAACACATATATACAAAC
1 ATGAATGACATAATTAACA-ATATAAACAAAC
8746444 A
1 A
8746445 GGTTCAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.19
30 14 0.52
31 8 0.30
ACGTcount: A:0.56, C:0.11, G:0.08, T:0.24
Consensus pattern (31 bp):
ATGAATGACATAATTAACAATATAAACAAAC
Found at i:8747234 original size:58 final size:59
Alignment explanation
Indices: 8747003--8747426 Score: 502
Period size: 59 Copynumber: 7.1 Consensus size: 59
8746993 CTGTGTAGGA
* * * * * *
8747003 AAAATTGATACTTTCAGCTTTTTCCCAAAAATGT-TTTTTGGAAA-TTTACTTCT-AGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTGAAATTTTATTTTTAAGG
* * * *
8747059 AAAATTGATACTTTCAACTTTTCCCCAAAAATGTTTTTTTTTTTTTGGAAACTTTGATTTTCAAG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA-----TATATTTTTT-GAAA-TTTTATTTTTAAG
8747124 G
59 G
* *
8747125 AAAATTGATACTTTCAACTTTTCCCCAAAAACCCCTTTTTTTTTTGAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA----TATATTTTTTGAAATTTTATTTTTAAGG
*
8747188 AAAATTGATACTTTCAACTTTTCCTC-AAAATATATTTTTTGAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTGAAATTTTATTTTTAAGG
*
8747246 AAAATTGATACTTTCAACTTTT-CCCTAAAA-ATATTTTTTGAAAATTTTGATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTG-AAATTTT-ATTTTTAAGG
* * *
8747305 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTGAAATTTTATTTTTAAGG
* *
8747364 AAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTGCAATTTTATTTTTAAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTGAAATTTTATTTTT-AAGG
8747423 AAAA
1 AAAA
8747427 AAAATAAAAC
Statistics
Matches: 326, Mismatches: 26, Indels: 29
0.86 0.07 0.08
Matches are distributed among these distances:
56 29 0.09
57 12 0.04
58 77 0.24
59 81 0.25
60 13 0.04
61 11 0.03
62 9 0.03
63 41 0.13
64 4 0.01
65 15 0.05
66 34 0.10
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTGAAATTTTATTTTTAAGG
Found at i:8747435 original size:5 final size:5
Alignment explanation
Indices: 8747423--8747524 Score: 71
Period size: 5 Copynumber: 19.2 Consensus size: 5
8747413 TTTTTAAAGG
* * *
8747423 AAAA- AAAAT AAAAC AAAAT AAAAGT GAAAAG AAAAA AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAAT AAAAT AAAAT
** * *
8747474 AAAAAAT AAAGG AAAGT AAAAAT AAATAT AAAAT AAATAT AAAAA AAAAT
1 --AAAAT AAAAT AAAAT -AAAAT AAA-AT AAAAT AAA-AT AAAAT AAAAT
8747524 A
1 A
8747525 TTAAATAAAC
Statistics
Matches: 79, Mismatches: 11, Indels: 15
0.75 0.10 0.14
Matches are distributed among these distances:
4 4 0.05
5 51 0.65
6 15 0.19
7 9 0.11
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:8747478 original size:11 final size:11
Alignment explanation
Indices: 8747423--8747567 Score: 70
Period size: 11 Copynumber: 13.2 Consensus size: 11
8747413 TTTTTAAAGG
8747423 AAAA-AAAAT-
1 AAAATAAAATA
*
8747432 AAAACAAAATA
1 AAAATAAAATA
* *
8747443 AAAGTGAAAAGA
1 AAAAT-AAAATA
8747455 AAAA-AAAAT-
1 AAAATAAAATA
8747464 AAAATAAAATA
1 AAAATAAAATA
**
8747475 AAAA-ATAAAGG
1 AAAATA-AAATA
*
8747486 AAAGTAAAAATA
1 AAAAT-AAAATA
*
8747498 AATATAAAATA
1 AAAATAAAATA
*
8747509 AATATAAAA-A
1 AAAATAAAATA
8747519 AAAATATTAAATA
1 AAAATA--AAATA
** **
8747532 AACCTAATCTA
1 AAAATAAAATA
8747543 ATAAATAAAA-A
1 A-AAATAAAATA
8747554 ACAAATAAAATA
1 A-AAATAAAATA
8747566 AA
1 AA
8747568 TAAACAAATA
Statistics
Matches: 101, Mismatches: 22, Indels: 24
0.69 0.15 0.16
Matches are distributed among these distances:
9 8 0.08
10 21 0.21
11 43 0.43
12 23 0.23
13 6 0.06
ACGTcount: A:0.75, C:0.03, G:0.04, T:0.17
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:8747478 original size:17 final size:17
Alignment explanation
Indices: 8747425--8747524 Score: 75
Period size: 16 Copynumber: 6.1 Consensus size: 17
8747415 TTTAAAGGAA
*
8747425 AAAAAATAAAACAAAAT
1 AAAAAATAAAATAAAAT
* *
8747442 -AAAAGTGAAAA-GAAA-
1 AAAAAAT-AAAATAAAAT
8747457 AAAAAATAAAATAAAAT
1 AAAAAATAAAATAAAAT
** *
8747474 AAAAAATAAAGGAAAGT
1 AAAAAATAAAATAAAAT
8747491 -AAAAATAAATATAAAAT
1 AAAAAATAAA-ATAAAAT
* *
8747508 -AAATATAAAAAAAAAT
1 AAAAAATAAAATAAAAT
8747524 A
1 A
8747525 TTAAATAAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
15 4 0.06
16 31 0.48
17 30 0.46
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAAAATAAAATAAAAT
Found at i:8747479 original size:27 final size:27
Alignment explanation
Indices: 8747426--8747506 Score: 65
Period size: 27 Copynumber: 2.9 Consensus size: 27
8747416 TTAAAGGAAA
* *
8747426 AAAAATAAAACAAAATAAAAGT-GAAAAG
1 AAAAA-AAAATAAAATAAAA-TAAAAAAG
*
8747454 AAAAAAAAATAAAATAAAATAAAAAAT
1 AAAAAAAAATAAAATAAAATAAAAAAG
** *
8747481 AAAGGAAAGTAAAAATAAATATAAAA
1 AAAAAAAAAT-AAAATAAA-ATAAAA
8747507 TAAATATAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.02
27 24 0.55
28 13 0.30
29 6 0.14
ACGTcount: A:0.78, C:0.01, G:0.07, T:0.14
Consensus pattern (27 bp):
AAAAAAAAATAAAATAAAATAAAAAAG
Found at i:8747501 original size:32 final size:31
Alignment explanation
Indices: 8747417--8747579 Score: 111
Period size: 32 Copynumber: 5.1 Consensus size: 31
8747407 ATTTTATTTT
* *
8747417 TAAAGGAAAAAAAATAAAACAAAAT-AAAAG
1 TAAAGGAAAAAAAATAAAATAAAATAAAAAA
*
8747447 TGAAAAGAAAAAAAAATAAAATAAAATAAAAAA
1 T--AAAGGAAAAAAAATAAAATAAAATAAAAAA
*
8747480 TAAAGGAAAGTAAAAATAAATATAAAAT-AAATA
1 TAAAGGAAA--AAAAATAAA-ATAAAATAAAAAA
* * * **
8747513 TAAA--AAAAAATATTAAATAAACCTAATCTAA
1 TAAAGGAAAAAAAATAAAATAAA-ATAA-AAAA
**
8747544 TAAATAAAAAACAAATAAAAT-AAATAAACAAA
1 TAAAGGAAAAA-AAATAAAATAAAATAAA-AAA
8747576 TAAA
1 TAAA
8747580 TAAATAAATT
Statistics
Matches: 104, Mismatches: 16, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
28 5 0.05
29 8 0.08
30 2 0.02
31 15 0.14
32 31 0.30
33 29 0.28
34 14 0.13
ACGTcount: A:0.74, C:0.04, G:0.05, T:0.17
Consensus pattern (31 bp):
TAAAGGAAAAAAAATAAAATAAAATAAAAAA
Found at i:8747511 original size:4 final size:4
Alignment explanation
Indices: 8747493--8747588 Score: 58
Period size: 4 Copynumber: 24.0 Consensus size: 4
8747483 AGGAAAGTAA
* * * *
8747493 AAAT AAAT ATA- AAAT AAAT ATAA- AAAA AAAT -ATT AAAT AAACCT AATCT
1 AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAA--T AA-AT
* *
8747542 AA-T AAAT AAA- AAAC AAAT AAAAT AAAT AAAC AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT
8747589 TCAAAAAAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 20
0.72 0.09 0.20
Matches are distributed among these distances:
3 12 0.16
4 49 0.67
5 9 0.12
6 3 0.04
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:8747566 original size:16 final size:16
Alignment explanation
Indices: 8747493--8747587 Score: 77
Period size: 16 Copynumber: 5.7 Consensus size: 16
8747483 AGGAAAGTAA
*
8747493 AAATAAATATA-AAAT
1 AAATAAATAAACAAAT
* *
8747508 AAATATAAAAAAAAATATT
1 AAATA-AATAAACAA-A-T
* *
8747527 AAATAAACCTAATCTAAT
1 AAATAAA--TAAACAAAT
8747545 AAATAAA-AAACAAAT
1 AAATAAATAAACAAAT
8747560 AAAATAAATAAACAAAT
1 -AAATAAATAAACAAAT
8747577 AAATAAATAAA
1 AAATAAATAAA
8747588 TTCAAAAAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
15 11 0.17
16 22 0.34
17 10 0.16
18 11 0.17
19 7 0.11
20 3 0.05
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (16 bp):
AAATAAATAAACAAAT
Found at i:8747567 original size:20 final size:20
Alignment explanation
Indices: 8747542--8747588 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
8747532 AACCTAATCT
8747542 AATAAATAAA-AAACAAATAA
1 AATAAATAAACAAACAAAT-A
*
8747562 AATAAATAAACAAATAAATA
1 AATAAATAAACAAACAAATA
8747582 AATAAAT
1 AATAAAT
8747589 TCAAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (20 bp):
AATAAATAAACAAACAAATA
Found at i:8748075 original size:19 final size:19
Alignment explanation
Indices: 8748051--8748087 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8748041 TGGCCGGAAT
*
8748051 CTTCGTCGAAAAATTCAAA
1 CTTCGTCAAAAAATTCAAA
8748070 CTTCGTCAAAAAATTCAA
1 CTTCGTCAAAAAATTCAA
8748088 CCGAAATCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (19 bp):
CTTCGTCAAAAAATTCAAA
Found at i:8748484 original size:4 final size:4
Alignment explanation
Indices: 8748475--8748688 Score: 55
Period size: 4 Copynumber: 54.2 Consensus size: 4
8748465 ATATTATAGG
*
8748475 ATAA ATAA ATAA A-ATA AT-A AT-A AT-A AT-A AT-A AT-A ACAA ATAA
1 ATAA ATAA ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
* * * * * *
8748517 ATAA ATAT ATAA TTAG ATAG ATAA ATAC ATAT A-AA ATAAA ATAA ATAAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA AT-AA
* * *
8748566 ATAAA ATAAA ATAA A-AA TATAT ATTA ATAA ATAGTA AT-A GTAA AT-A
1 AT-AA AT-AA ATAA ATAA -ATAA ATAA ATAA ATA--A ATAA ATAA ATAA
* * * * *
8748612 ATAA ATAC ATAA A-AT ATAA AGGAAA ATAT ATAC ATAAA ATAA A-AA AT-A
1 ATAA ATAA ATAA ATAA ATAA A--TAA ATAA ATAA AT-AA ATAA ATAA ATAA
*
8748660 A-AA ATAAA ATAA A-AA ATAA CAAAA ATAA A
1 ATAA AT-AA ATAA ATAA ATAA -ATAA ATAA A
8748689 ACTGGACTTA
Statistics
Matches: 160, Mismatches: 28, Indels: 44
0.69 0.12 0.19
Matches are distributed among these distances:
3 39 0.24
4 86 0.54
5 29 0.18
6 6 0.04
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:8748491 original size:9 final size:9
Alignment explanation
Indices: 8748477--8748580 Score: 63
Period size: 9 Copynumber: 10.8 Consensus size: 9
8748467 ATTATAGGAT
8748477 AAATAAATA
1 AAATAAATA
8748486 AAAT-AATA
1 AAATAAATA
8748494 ATAAT-AATA
1 A-AATAAATA
*
8748503 ATAAT-AA-C
1 A-AATAAATA
8748511 AAATAAATA
1 AAATAAATA
8748520 AATATATAATTA
1 AA-ATA-AA-TA
8748532 GATAGATAAATA
1 -A-A-ATAAATA
*
8748544 CATATAAAATA
1 -AAAT-AAATA
8748555 AAATAAATA
1 AAATAAATA
8748564 AAATAAAATA
1 AAAT-AAATA
8748574 AAATAAA
1 AAATAAA
8748581 AATATATATT
Statistics
Matches: 79, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
7 3 0.04
8 8 0.10
9 32 0.41
10 17 0.22
11 7 0.09
12 5 0.06
13 3 0.04
14 4 0.05
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (9 bp):
AAATAAATA
Found at i:8748498 original size:6 final size:6
Alignment explanation
Indices: 8748482--8748615 Score: 57
Period size: 6 Copynumber: 21.3 Consensus size: 6
8748472 AGGATAAATA
*
8748482 AATAA- AATAAT AATAAT AATAAT AATAACA AATAAAT AAATATAT AATTAGAT
1 AATAAT AATAAT AATAAT AATAAT AATAA-T AAT-AAT -AATA-AT AA-TA-AT
*
8748535 AGATAAAT ACAT-AT AA-AAT AA-AAT AAATAA- AATAA- AATAA- AATAAA
1 A-AT-AAT A-ATAAT AATAAT AATAAT -AATAAT AATAAT AATAAT AATAAT
* * *
8748581 AATATAT ATTAAT AAATAGT AATAGT AAATAAT AA
1 AATA-AT AATAAT -AATAAT AATAAT -AATAAT AA
8748616 ATACATAAAA
Statistics
Matches: 105, Mismatches: 9, Indels: 29
0.73 0.06 0.20
Matches are distributed among these distances:
5 28 0.27
6 36 0.34
7 21 0.20
8 18 0.17
9 2 0.02
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.28
Consensus pattern (6 bp):
AATAAT
Found at i:8748520 original size:34 final size:33
Alignment explanation
Indices: 8748477--8748689 Score: 102
Period size: 39 Copynumber: 6.1 Consensus size: 33
8748467 ATTATAGGAT
8748477 AAATAAATAAAATAATAATAATAATAATAATAA
1 AAATAAATAAAATAATAATAATAATAATAATAA
8748510 CAAATAAAT-AAATATATAATTAGATAGATAAATACATATA
1 -AAATAAATAAAATA-ATAA-TA-ATA-AT-AATA-ATA-A
8748550 AAATAAA-ATAAATAA-AATAA-AATAA-AATAA
1 AAATAAATA-AAATAATAATAATAATAATAATAA
* * * *
8748580 AAATATATATTAATAAATAGTAATAGTAAATAATAA
1 AAATAAATA-AAAT-AATAATAATAAT-AATAATAA
*
8748616 ATACATAAAATATAAAGGAA-AATATATACATAA-AATAAA
1 A-A-AT-AAATA-AAA-TAATAATA-ATA-ATAATAAT-AA
* *
8748655 AAATAAAAATAAAATAA-AA-AATAACAAAAATAA
1 AAAT--AAATAAAATAATAATAATAATAATAATAA
8748688 AA
1 AA
8748690 CTGGACTTAC
Statistics
Matches: 144, Mismatches: 11, Indels: 49
0.71 0.05 0.24
Matches are distributed among these distances:
30 7 0.05
31 8 0.06
32 3 0.02
33 18 0.12
34 22 0.15
35 6 0.04
36 14 0.10
37 10 0.07
38 21 0.15
39 28 0.19
40 7 0.05
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (33 bp):
AAATAAATAAAATAATAATAATAATAATAATAA
Found at i:8754503 original size:15 final size:15
Alignment explanation
Indices: 8754477--8754513 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
8754467 AATATCACGT
8754477 TATCCAATTATGAGTA
1 TATCC-ATTATGAGTA
8754493 TATCCATTATGAGTA
1 TATCCATTATGAGTA
8754508 TATCCA
1 TATCCA
8754514 AAAATAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TATCCATTATGAGTA
Found at i:8757472 original size:20 final size:20
Alignment explanation
Indices: 8757447--8757486 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
8757437 AAATAAAGTA
8757447 CAATATAAGAAGCAAGATCT
1 CAATATAAGAAGCAAGATCT
8757467 CAATATAAGAAGCAAGATCT
1 CAATATAAGAAGCAAGATCT
8757487 GATTTTCTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (20 bp):
CAATATAAGAAGCAAGATCT
Found at i:8764821 original size:19 final size:19
Alignment explanation
Indices: 8764783--8764852 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
8764773 AAAGAATTTA
* *
8764783 AAAAAATTTTAAACATTCT
1 AAAAAATTTTAAAAACTCT
*
8764802 AAAATATTTTAAAAACTCT
1 AAAAAATTTTAAAAACTCT
* * * *
8764821 -AACAATTGTAAAAAGTCA
1 AAAAAATTTTAAAAACTCT
8764839 AAAAAATTTTAAAA
1 AAAAAATTTTAAAA
8764853 CTTTTTAAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
18 13 0.32
19 27 0.68
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (19 bp):
AAAAAATTTTAAAAACTCT
Found at i:8764945 original size:18 final size:17
Alignment explanation
Indices: 8764918--8764974 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 17
8764908 TTTTTTTTAA
8764918 TTCTATAAAATTTTAACAT
1 TTCTA-AAAATTTTAA-AT
8764937 TTCTAAAAAATTTTAAAT
1 TTCT-AAAAATTTTAAAT
*
8764955 TTCTAAAAACTTTTCAAT
1 TTCTAAAAA-TTTTAAAT
8764973 TT
1 TT
8764975 AAAAAAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
17 5 0.14
18 15 0.43
19 14 0.40
20 1 0.03
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (17 bp):
TTCTAAAAATTTTAAAT
Found at i:8764980 original size:18 final size:17
Alignment explanation
Indices: 8764924--8764981 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
8764914 TTAATTCTAT
*
8764924 AAAATTTTAACATTTCTAA
1 AAAATTTTAA-ATTT-AAA
*
8764943 AAAATTTTAAATTTCTAA
1 AAAATTTTAAATTT-AAA
* *
8764961 AAACTTTTCAATTTAAA
1 AAAATTTTAAATTTAAA
8764978 AAAA
1 AAAA
8764982 ATATTCAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 5 0.14
18 20 0.57
19 10 0.29
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAATTTTAAATTTAAA
Found at i:8765062 original size:30 final size:29
Alignment explanation
Indices: 8764993--8765064 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 29
8764983 TATTCAAAAC
* *
8764993 ATTTTTAAAAAATATTAATAGTTTTAGAA
1 ATTTTTAAAAAATATTAATAATTTTACAA
* *
8765022 AGTTTCTAAAAAATATTTAA-AATTTTTCAA
1 A-TTTTTAAAAAATA-TTAATAATTTTACAA
8765052 ATTTTATAAAAAA
1 ATTTT-TAAAAAA
8765065 AAAAATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
29 4 0.11
30 27 0.77
31 4 0.11
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (29 bp):
ATTTTTAAAAAATATTAATAATTTTACAA
Found at i:8765348 original size:7 final size:7
Alignment explanation
Indices: 8765329--8765362 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
8765319 TTAAAGTTTA
8765329 AAAAATT
1 AAAAATT
8765336 ACAAAATT
1 A-AAAATT
*
8765344 AAAAACT
1 AAAAATT
8765351 AAAAATT
1 AAAAATT
8765358 AAAAA
1 AAAAA
8765363 AATTATAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.21
Consensus pattern (7 bp):
AAAAATT
Found at i:8765412 original size:18 final size:19
Alignment explanation
Indices: 8765391--8765438 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
8765381 TTTTTCAAAA
*
8765391 TTTAAAAAATT-ATAAATT
1 TTTAAAAAATTAAAAAATT
8765409 TTTAAAAAATTCAAAAAATT
1 TTTAAAAAATT-AAAAAATT
*
8765429 TTTGAAAAAT
1 TTTAAAAAAT
8765439 CAAATATCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 11 0.42
20 15 0.58
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TTTAAAAAATTAAAAAATT
Found at i:8765436 original size:19 final size:20
Alignment explanation
Indices: 8765404--8765442 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
8765394 AAAAAATTAT
*
8765404 AAATTTTTAAAAAATTCAAA
1 AAATTTTTAAAAAAATCAAA
*
8765424 AAATTTTT-GAAAAATCAAA
1 AAATTTTTAAAAAAATCAAA
8765443 TATCTTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (20 bp):
AAATTTTTAAAAAAATCAAA
Found at i:8765833 original size:9 final size:9
Alignment explanation
Indices: 8765819--8765884 Score: 53
Period size: 10 Copynumber: 6.9 Consensus size: 9
8765809 TTAAATATCC
8765819 TTAATTTTT
1 TTAATTTTT
8765828 TTAATTATTT
1 TTAATT-TTT
*
8765838 TAAAGTTTTT
1 TTAA-TTTTT
*
8765848 TAGAATTTTT
1 T-TAATTTTT
8765858 TTAA-TTTT
1 TTAATTTTT
*
8765866 TAAAGTTTTTT
1 TTAA--TTTTT
8765877 TTAATTTT
1 TTAATTTT
8765885 ATAAATTTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
8 7 0.15
9 12 0.26
10 16 0.35
11 11 0.24
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (9 bp):
TTAATTTTT
Found at i:8765865 original size:19 final size:18
Alignment explanation
Indices: 8765819--8765893 Score: 71
Period size: 20 Copynumber: 3.9 Consensus size: 18
8765809 TTAAATATCC
*
8765819 TTAATTTTTTTAATTATTT
1 TTAATTTTTTAAATT-TTT
*
8765838 TAAAGTTTTTTAGAATTTTT
1 TTAA-TTTTTTA-AATTTTT
8765858 TTAA-TTTTTAAAGTTTTTT
1 TTAATTTTTTAAA--TTTTT
*
8765877 TTAATTTTATAAATTTT
1 TTAATTTTTTAAATTTT
8765894 AAAAAAATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
17 2 0.04
18 10 0.21
19 12 0.26
20 19 0.40
21 4 0.09
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (18 bp):
TTAATTTTTTAAATTTTT
Found at i:8765867 original size:18 final size:17
Alignment explanation
Indices: 8765844--8765893 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 17
8765834 ATTTTAAAGT
8765844 TTTTTAGAATTTTTTTAA
1 TTTTTA-AATTTTTTTAA
8765862 TTTTTAAAGTTTTTTTTAA
1 TTTTTAAA--TTTTTTTAA
8765881 TTTTATAAATTTT
1 TTTT-TAAATTTT
8765894 AAAAAAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 2 0.07
18 10 0.34
19 13 0.45
20 4 0.14
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (17 bp):
TTTTTAAATTTTTTTAA
Found at i:8765879 original size:30 final size:30
Alignment explanation
Indices: 8765821--8765876 Score: 98
Period size: 28 Copynumber: 1.9 Consensus size: 30
8765811 AAATATCCTT
8765821 AATTTTTTTAATTATTTTAAAGTTTTTTAG
1 AATTTTTTTAATTATTTTAAAGTTTTTTAG
8765851 AATTTTTTTAA-T-TTTTAAAGTTTTTT
1 AATTTTTTTAATTATTTTAAAGTTTTTT
8765877 TTAATTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 14 0.54
29 1 0.04
30 11 0.42
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (30 bp):
AATTTTTTTAATTATTTTAAAGTTTTTTAG
Found at i:8765882 original size:28 final size:28
Alignment explanation
Indices: 8765819--8765893 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
8765809 TTAAATATCC
8765819 TTAATTTTTTTAATTATTTTAAAGTTTTTT
1 TTAATTTTTTTAA-T-TTTTAAAGTTTTTT
**
8765849 AGAATTTTTTTAATTTTTAAAGTTTTTT
1 TTAATTTTTTTAATTTTTAAAGTTTTTT
* *
8765877 TTAATTTTATAAATTTT
1 TTAATTTTTTTAATTTT
8765894 AAAAAAATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 27 0.69
29 1 0.03
30 11 0.28
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (28 bp):
TTAATTTTTTTAATTTTTAAAGTTTTTT
Found at i:8765903 original size:11 final size:11
Alignment explanation
Indices: 8765887--8765917 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
8765877 TTAATTTTAT
8765887 AAATTTTAAAA
1 AAATTTTAAAA
*
8765898 AAATTTTAACA
1 AAATTTTAAAA
8765909 AAATTTTAA
1 AAATTTTAA
8765918 GAATGTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (11 bp):
AAATTTTAAAA
Found at i:8766373 original size:10 final size:10
Alignment explanation
Indices: 8766344--8766398 Score: 60
Period size: 10 Copynumber: 5.5 Consensus size: 10
8766334 ACATTCAAAG
8766344 AAAAATTC-A
1 AAAAATTCTA
*
8766353 AATAA-TCTA
1 AAAAATTCTA
8766362 AAAAATTCTAA
1 AAAAATTCT-A
8766373 AAACAATTCTA
1 AAA-AATTCTA
*
8766384 AAAAATTTTA
1 AAAAATTCTA
8766394 AAAAA
1 AAAAA
8766399 ATGAAAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
8 2 0.05
9 9 0.23
10 14 0.36
11 8 0.21
12 6 0.15
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAATTCTA
Found at i:8766507 original size:28 final size:28
Alignment explanation
Indices: 8766469--8766529 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
8766459 ATAAGTTAAG
* *
8766469 AAATTCAAAAAATCACAAAATTTTAATAA
1 AAATCCAAAAAATCA-AAAATTTTAACAA
*
8766498 AAATCCAAAAAATTAAAAATTTTAACAA
1 AAATCCAAAAAATCAAAAATTTTAACAA
8766526 AAAT
1 AAAT
8766530 AAAAATTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 16 0.55
29 13 0.45
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (28 bp):
AAATCCAAAAAATCAAAAATTTTAACAA
Found at i:8766513 original size:19 final size:20
Alignment explanation
Indices: 8766476--8766513 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
8766466 AAGAAATTCA
**
8766476 AAAAATCACAAAATTTTAAT
1 AAAAATCACAAAAAATTAAT
8766496 AAAAATC-CAAAAAATTAA
1 AAAAATCACAAAAAATTAA
8766514 AAATTTTAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAATCACAAAAAATTAAT
Found at i:8766696 original size:9 final size:9
Alignment explanation
Indices: 8766667--8766803 Score: 91
Period size: 10 Copynumber: 14.4 Consensus size: 9
8766657 AATCTTTAAA
8766667 TTTTAAA-T
1 TTTTAAATT
*
8766675 TTTTATATAT
1 TTTTAAAT-T
*
8766685 TTTTGAATT
1 TTTTAAATT
8766694 TTTCATAAATT
1 TTT--TAAATT
*
8766705 TTTAAAATTT
1 TTTTAAA-TT
8766715 TTATTAAA-T
1 TT-TTAAATT
*
8766724 TTTTAATTGT
1 TTTTAAAT-T
*
8766734 TTTTTAATT
1 TTTTAAATT
*
8766743 TTTTTAATT
1 TTTTAAATT
8766752 TTTGTAAATT
1 TTT-TAAATT
8766762 TTTTAGAATGT
1 TTTTA-AAT-T
**
8766773 TTCAAAATT
1 TTTTAAATT
8766782 TTTT-AATT
1 TTTTAAATT
8766790 TTTTAGAATT
1 TTTTA-AATT
8766800 TTTT
1 TTTT
8766804 GAGAAAATTT
Statistics
Matches: 102, Mismatches: 14, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
8 18 0.18
9 28 0.27
10 40 0.39
11 16 0.16
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.64
Consensus pattern (9 bp):
TTTTAAATT
Found at i:8766704 original size:11 final size:10
Alignment explanation
Indices: 8766670--8766831 Score: 69
Period size: 9 Copynumber: 16.8 Consensus size: 10
8766660 CTTTAAATTT
8766670 TAAATTTTTA
1 TAAATTTTTA
*
8766680 TATA-TTTT-
1 TAAATTTTTA
*
8766688 TGAATTTTTCA
1 TAAATTTTT-A
8766699 TAAATTTTTA
1 TAAATTTTTA
8766709 -AAATTTTTA
1 TAAATTTTTA
8766718 TTAAA-TTTT-
1 -TAAATTTTTA
*
8766727 T-AATTGTTTT
1 TAAATT-TTTA
*
8766737 TTAATTTTT-
1 TAAATTTTTA
* *
8766746 TTAATTTTTG
1 TAAATTTTTA
8766756 TAAATTTTT-
1 TAAATTTTTA
*
8766765 TAGAATGTTTCA
1 TA-AAT-TTTTA
8766777 -AAATTTTT-
1 TAAATTTTTA
*
8766785 TAATTTTTTA
1 TAAATTTTTA
* *
8766795 GAATTTTTTGA
1 TAAATTTTT-A
* *
8766806 GAAAATTTTA
1 TAAATTTTTA
8766816 T--ATTTTTA
1 TAAATTTTTA
*
8766824 TTAATTTT
1 TAAATTTT
8766832 CAAATTTTAT
Statistics
Matches: 121, Mismatches: 13, Indels: 36
0.71 0.08 0.21
Matches are distributed among these distances:
7 2 0.02
8 11 0.09
9 41 0.34
10 40 0.33
11 27 0.22
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.62
Consensus pattern (10 bp):
TAAATTTTTA
Found at i:8766713 original size:20 final size:18
Alignment explanation
Indices: 8766663--8766802 Score: 106
Period size: 19 Copynumber: 7.5 Consensus size: 18
8766653 TTTTAATCTT
8766663 TAAA-TTTTAAATTTTTA
1 TAAATTTTTAAATTTTTA
* *
8766680 TATATTTTTGAATTTTTCA
1 TAAATTTTTAAATTTTT-A
8766699 TAAATTTTTAAAATTTTTA
1 TAAATTTTT-AAATTTTTA
* *
8766718 TTAAATTTTTAATTGTTTTT
1 -TAAATTTTTAAAT-TTTTA
* * *
8766738 TAATTTTTTTAATTTTTG
1 TAAATTTTTAAATTTTTA
*
8766756 TAAATTTTTTAGAATGTTTCA
1 TAAA-TTTTTA-AAT-TTTTA
*
8766777 -AAATTTTTTAATTTTT-
1 TAAATTTTTAAATTTTTA
8766793 TAGAATTTTT
1 TA-AATTTTT
8766803 TGAGAAAATT
Statistics
Matches: 97, Mismatches: 16, Indels: 19
0.73 0.12 0.14
Matches are distributed among these distances:
17 7 0.07
18 28 0.29
19 33 0.34
20 26 0.27
21 3 0.03
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (18 bp):
TAAATTTTTAAATTTTTA
Found at i:8766716 original size:38 final size:38
Alignment explanation
Indices: 8766667--8766805 Score: 131
Period size: 38 Copynumber: 3.6 Consensus size: 38
8766657 AATCTTTAAA
*
8766667 TTTTAAATTTTTATATATTTTTGAATTTTTCATAAATT
1 TTTTAAATTTTTATAAATTTTTGAATTTTTCATAAATT
* * *
8766705 TTTAAAATTTTTATTAAATTTTT-AATTGTTT-TTTAATT
1 TTTTAAATTTTTA-TAAATTTTTGAATT-TTTCATAAATT
* * *
8766743 TTTTTAATTTTTGTAAATTTTTTAGAATGTTTCA-AAATT
1 TTTTAAATTTTTATAAA-TTTTT-GAATTTTTCATAAATT
* * *
8766782 TTTTAATTTTTTAGAATTTTTTGA
1 TTTTAAATTTTTATAAATTTTTGA
8766806 GAAAATTTTA
Statistics
Matches: 80, Mismatches: 15, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
37 6 0.08
38 41 0.51
39 30 0.38
40 3 0.04
ACGTcount: A:0.30, C:0.01, G:0.05, T:0.63
Consensus pattern (38 bp):
TTTTAAATTTTTATAAATTTTTGAATTTTTCATAAATT
Found at i:8766940 original size:18 final size:16
Alignment explanation
Indices: 8766913--8766951 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
8766903 TTTAAGAAAA
8766913 TTTTATTTTTATTATAC
1 TTTTATTTTTATTA-AC
*
8766930 TTTTCATTTTTTTTAAC
1 TTTT-ATTTTTATTAAC
8766947 TTTTA
1 TTTTA
8766952 GAATTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 10 0.50
18 9 0.45
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTATTTTTATTAAC
Found at i:8769098 original size:20 final size:19
Alignment explanation
Indices: 8769053--8769101 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 19
8769043 TTATATAAAC
8769053 AAAAATAGTTTTTTAAATTG
1 AAAAATA-TTTTTTAAATTG
8769073 ATAAAATATTTTTTAATATAT-
1 A-AAAATATTTTTTAA-AT-TG
8769094 AAAAATAT
1 AAAAATAT
8769102 AAATATTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 16 0.62
21 9 0.35
22 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (19 bp):
AAAAATATTTTTTAAATTG
Found at i:8769723 original size:10 final size:10
Alignment explanation
Indices: 8769708--8769745 Score: 69
Period size: 10 Copynumber: 3.9 Consensus size: 10
8769698 TTTGAAAAAA
8769708 TAAAAATTTC
1 TAAAAATTTC
8769718 TAAAAATTT-
1 TAAAAATTTC
8769727 TAAAAATTTC
1 TAAAAATTTC
8769737 TAAAAATTT
1 TAAAAATTT
8769746 TTCATTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 9 0.33
10 18 0.67
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (10 bp):
TAAAAATTTC
Found at i:8769730 original size:19 final size:19
Alignment explanation
Indices: 8769708--8769746 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
8769698 TTTGAAAAAA
8769708 TAAAAATTTCTAAAAATTT
1 TAAAAATTTCTAAAAATTT
8769727 TAAAAATTTCTAAAAATTT
1 TAAAAATTTCTAAAAATTT
8769746 T
1 T
8769747 TCATTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAAAATTTCTAAAAATTT
Found at i:8769801 original size:25 final size:25
Alignment explanation
Indices: 8769767--8769833 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
8769757 AATCTTACGA
* *
8769767 TTTTACTTTTATATATTTTATTTAAT
1 TTTTATTTTTATAT-TTTTATTAAAT
*
8769793 TTTT-TTTTTGAAATTTTTATTAAAT
1 TTTTATTTTT-ATATTTTTATTAAAT
8769818 TTTTATTTTTAT-TTTT
1 TTTTATTTTTATATTTT
8769834 AGAAATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
24 4 0.11
25 19 0.54
26 12 0.34
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.73
Consensus pattern (25 bp):
TTTTATTTTTATATTTTTATTAAAT
Found at i:8769850 original size:31 final size:33
Alignment explanation
Indices: 8769791--8769871 Score: 102
Period size: 31 Copynumber: 2.6 Consensus size: 33
8769781 ATTTTATTTA
8769791 ATTTTT-TTTTT-GAAATTTTTATTAAATTTTT
1 ATTTTTATTTTTAGAAATTTTTATTAAATTTTT
8769822 ATTTTTATTTTTAGAAATTTTT-TT-AATTTTT
1 ATTTTTATTTTTAGAAATTTTTATTAAATTTTT
**
8769853 ATAATTA-TTTTAG-AATTTT
1 ATTTTTATTTTTAGAAATTTT
8769872 ATTTTTCAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
29 6 0.13
30 6 0.13
31 18 0.39
32 7 0.15
33 9 0.20
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (33 bp):
ATTTTTATTTTTAGAAATTTTTATTAAATTTTT
Found at i:8769863 original size:19 final size:19
Alignment explanation
Indices: 8769820--8769863 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
8769810 TATTAAATTT
8769820 TTATTTTTATTTTTAGAAA
1 TTATTTTTATTTTTAGAAA
*
8769839 TT-TTTTTAATTTTTA-TAA
1 TTATTTTT-ATTTTTAGAAA
8769857 TTATTTT
1 TTATTTT
8769864 AGAATTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (19 bp):
TTATTTTTATTTTTAGAAA
Found at i:8769925 original size:10 final size:10
Alignment explanation
Indices: 8769795--8769919 Score: 51
Period size: 10 Copynumber: 11.8 Consensus size: 10
8769785 TATTTAATTT
8769795 TTTTTTTGAAA
1 TTTTTTT-AAA
8769806 TTTTTATTAAA
1 TTTTT-TTAAA
**
8769817 TTTTTATTTTTA
1 -TTTT-TTTAAA
**
8769829 TTTTTAGAAA
1 TTTTTTTAAA
8769839 TTTTTTT-AA
1 TTTTTTTAAA
*
8769848 TTTTTAT-AA
1 TTTTTTTAAA
*
8769857 TTATTTTAGAA
1 TTTTTTTA-AA
8769868 TTTTATTTTTCAAA
1 --TT-TTTTT-AAA
**
8769882 -AATTTT-AA
1 TTTTTTTAAA
8769890 TTTTTTTCAGAA
1 TTTTTTT-A-AA
8769902 TTTTTTTAAA
1 TTTTTTTAAA
8769912 TTTTTTTA
1 TTTTTTTA
8769920 TTTTTTCAAA
Statistics
Matches: 85, Mismatches: 16, Indels: 27
0.66 0.12 0.21
Matches are distributed among these distances:
8 2 0.02
9 19 0.22
10 21 0.25
11 15 0.18
12 18 0.21
13 3 0.04
14 6 0.07
15 1 0.01
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:8770017 original size:16 final size:17
Alignment explanation
Indices: 8769991--8770031 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
8769981 AATTTTAAGA
*
8769991 AAATTTT-A-TTTTATT
1 AAATTTTGATTTTTATG
8770006 AAATTTTGATTTTTATG
1 AAATTTTGATTTTTATG
8770023 AAATTTTGA
1 AAATTTTGA
8770032 AAATTATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.30
16 1 0.04
17 15 0.65
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (17 bp):
AAATTTTGATTTTTATG
Found at i:8770021 original size:17 final size:16
Alignment explanation
Indices: 8769977--8770031 Score: 58
Period size: 17 Copynumber: 3.4 Consensus size: 16
8769967 TTTGTGATTT
* *
8769977 TTTTAATTTTAAGAAAA
1 TTTTGATTTTATG-AAA
*
8769994 TTTT-ATTTTATTAAA
1 TTTTGATTTTATGAAA
8770009 TTTTGATTTTTATGAAA
1 TTTTGA-TTTTATGAAA
8770026 TTTTGA
1 TTTTGA
8770032 AAATTATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 7 0.21
16 7 0.21
17 19 0.58
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (16 bp):
TTTTGATTTTATGAAA
Found at i:8776413 original size:19 final size:19
Alignment explanation
Indices: 8776391--8776428 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
8776381 ATTATTTGAA
*
8776391 ATAAAATGAATTAAA-TCTT
1 ATAAAA-GAAATAAACTCTT
8776410 ATAAAAGAAATAAACTCTT
1 ATAAAAGAAATAAACTCTT
8776429 CCAACATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.32
Consensus pattern (19 bp):
ATAAAAGAAATAAACTCTT
Found at i:8779135 original size:2 final size:2
Alignment explanation
Indices: 8779128--8779152 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8779118 CTTATAAATA
8779128 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
8779153 GAGAGAGAGA
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:8779157 original size:2 final size:2
Alignment explanation
Indices: 8779152--8779176 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8779142 ATATATATAT
8779152 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
8779177 TTCTTGTTTT
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8784351 original size:15 final size:15
Alignment explanation
Indices: 8784299--8784352 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
8784289 ACTTAATCTT
* **
8784299 TTTAAATCATTTGGA
1 TTTAAATTATTTTAA
8784314 TTTAAATTATTTTAA
1 TTTAAATTATTTTAA
* *
8784329 GTTCAAATTTTTTTAA
1 -TTTAAATTATTTTAA
8784345 TTTAAATT
1 TTTAAATT
8784353 GAGCTAATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
15 19 0.59
16 13 0.41
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (15 bp):
TTTAAATTATTTTAA
Found at i:8784373 original size:13 final size:14
Alignment explanation
Indices: 8784342--8784375 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
8784332 CAAATTTTTT
8784342 TAATTTAAATTGAGC
1 TAATTTAAATT-AGC
8784357 TAATTTAAATT-GC
1 TAATTTAAATTAGC
8784370 TAATTT
1 TAATTT
8784376 TTCATTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
15 11 0.58
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (14 bp):
TAATTTAAATTAGC
Found at i:8790213 original size:28 final size:28
Alignment explanation
Indices: 8790173--8790228 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
8790163 TGGGAAGAGG
8790173 AAGATTTTAGGTTAGCACTTCAATGGCT
1 AAGATTTTAGGTTAGCACTTCAATGGCT
8790201 AAGATTTTAGGTTAGCACTTCAATGGCT
1 AAGATTTTAGGTTAGCACTTCAATGGCT
8790229 TTTGGTGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (28 bp):
AAGATTTTAGGTTAGCACTTCAATGGCT
Found at i:8792270 original size:5 final size:5
Alignment explanation
Indices: 8792249--8792301 Score: 54
Period size: 5 Copynumber: 10.4 Consensus size: 5
8792239 TAAGATTCAA
* * *
8792249 AATTT AGTTT GAATTT AATTT AATTT AA-TT ATTTT AATTT GAGTTT AATTT
1 AATTT AATTT -AATTT AATTT AATTT AATTT AATTT AATTT -AATTT AATTT
8792300 AA
1 AA
8792302 ATAAAAATTG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
4 3 0.08
5 28 0.72
6 8 0.21
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.57
Consensus pattern (5 bp):
AATTT
Found at i:8792458 original size:18 final size:19
Alignment explanation
Indices: 8792424--8792470 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
8792414 AATATTTTAT
8792424 TAATTAAAATAATAAAAATA
1 TAATT-AAATAATAAAAATA
* *
8792444 TATTTAAAT-ATAAAAATT
1 TAATTAAATAATAAAAATA
8792462 TAATTAAAT
1 TAATTAAAT
8792471 TTATAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 16 0.67
19 4 0.17
20 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATTAAATAATAAAAATA
Found at i:8793215 original size:3 final size:3
Alignment explanation
Indices: 8793207--8793247 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
8793197 TTATATATCT
8793207 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8793248 GTGATGCTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Done.