Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009015.1 Hibiscus syriacus cultivar Beakdansim tig00112405_pilon, 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: 151179
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Found at i:2795 original size:17 final size:18
Alignment explanation
Indices: 2775--2812 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
2765 CTCAATCCTC
2775 TTAATATATTT-TTA-TAT
1 TTAATAT-TTTATTAGTAT
2792 TTAATATTTTATTAGTAT
1 TTAATATTTTATTAGTAT
2810 TTA
1 TTA
2813 TTTAATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.16
17 10 0.53
18 6 0.32
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (18 bp):
TTAATATTTTATTAGTAT
Found at i:2855 original size:16 final size:16
Alignment explanation
Indices: 2807--2855 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
2797 ATTTTATTAG
*
2807 TATTTATTTAATTATT
1 TATTTATTTAATTTTT
* * *
2823 TAATTGTTTAATATTT
1 TATTTATTTAATTTTT
*
2839 TATTTAATTAATTTTT
1 TATTTATTTAATTTTT
2855 T
1 T
2856 TGCAGTTATA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TATTTATTTAATTTTT
Found at i:8659 original size:14 final size:12
Alignment explanation
Indices: 8619--8669 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 12
8609 TTTTCAAATG
*
8619 ATAAAATATAATT
1 ATAAAAAAT-ATT
8632 ATAAAAAATATT
1 ATAAAAAATATT
8644 ATAAAAAATACCTT
1 ATAAAAAATA--TT
8658 ATAACAAAATAT
1 ATAA-AAAATAT
8670 CGATCGAACT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
12 13 0.38
13 9 0.26
14 6 0.18
15 6 0.18
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (12 bp):
ATAAAAAATATT
Found at i:12333 original size:21 final size:22
Alignment explanation
Indices: 12279--12334 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 22
12269 TGTTAATATT
12279 TTTCATTTATTTTTTTATATCA
1 TTTCATTTATTTTTTTATATCA
* **
12301 TATC-TTTA-TTTTTTAT-TTG
1 TTTCATTTATTTTTTTATATCA
12320 TTTCATTTATTTTTT
1 TTTCATTTATTTTTT
12335 ATAACTCTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 4 0.14
20 12 0.43
21 9 0.32
22 3 0.11
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTCATTTATTTTTTTATATCA
Found at i:14540 original size:24 final size:24
Alignment explanation
Indices: 14513--14566 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
14503 CAAATATTAC
* * *
14513 AAGAGGTTGAAGATGATGCTCCGA
1 AAGAGGTTGAAGACGACGCTCCAA
*
14537 AAGAGGTTGCAGACGACGCTCCAA
1 AAGAGGTTGAAGACGACGCTCCAA
14561 AAGAGG
1 AAGAGG
14567 ATGCAGATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.17, G:0.33, T:0.15
Consensus pattern (24 bp):
AAGAGGTTGAAGACGACGCTCCAA
Found at i:22406 original size:19 final size:19
Alignment explanation
Indices: 22379--22417 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
22369 GAAATTGCAA
* * *
22379 TCTTTATATGGTGTTGTTG
1 TCTTAATATGCTGGTGTTG
22398 TCTTAATATGCTGGTGTTG
1 TCTTAATATGCTGGTGTTG
22417 T
1 T
22418 TTCTACTCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.08, G:0.26, T:0.54
Consensus pattern (19 bp):
TCTTAATATGCTGGTGTTG
Found at i:27869 original size:21 final size:21
Alignment explanation
Indices: 27835--27874 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27825 AATTATATTC
* * *
27835 AAACATGCTTAATGCTGAATT
1 AAACACGCTAAATGATGAATT
27856 AAACACGCTAAATGATGAA
1 AAACACGCTAAATGATGAA
27875 ATGATTCCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (21 bp):
AAACACGCTAAATGATGAATT
Found at i:31456 original size:20 final size:20
Alignment explanation
Indices: 31417--31456 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
31407 TCTGGGCTAG
* *
31417 GGGAATCGGTACCCATTCAA
1 GGGAATCGATACCCACTCAA
*
31437 GGGAATCGATACCCCCTCAA
1 GGGAATCGATACCCACTCAA
31457 ACGAATCAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.23, T:0.17
Consensus pattern (20 bp):
GGGAATCGATACCCACTCAA
Found at i:32704 original size:24 final size:24
Alignment explanation
Indices: 32655--32707 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
32645 TAAGTGAACC
*
32655 ATGTG-TTTATATGTATATGGGAT
1 ATGTGATTTATATGTATATGAGAT
*
32678 ATGTGATTTATATG-ATGATGAGCT
1 ATGTGATTTATATGTAT-ATGAGAT
32702 ATGTGA
1 ATGTGA
32708 AAGAACTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.28, C:0.02, G:0.26, T:0.43
Consensus pattern (24 bp):
ATGTGATTTATATGTATATGAGAT
Found at i:32992 original size:23 final size:23
Alignment explanation
Indices: 32966--33020 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
32956 ACTACAGTGT
32966 AATTCTACGCGGCACTCCGGTGC
1 AATTCTACGCGGCACTCCGGTGC
* *
32989 AATTCTACGTGGCACTTCGGTGC
1 AATTCTACGCGGCACTCCGGTGC
*
33012 AATTATACG
1 AATTCTACG
33021 AGCTGTGGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (23 bp):
AATTCTACGCGGCACTCCGGTGC
Found at i:35955 original size:17 final size:18
Alignment explanation
Indices: 35933--35967 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
35923 CGATCATCCG
35933 ATTTTTAAAAAT-ATTTT
1 ATTTTTAAAAATCATTTT
*
35950 ATTTTTAATAATCATTTT
1 ATTTTTAAAAATCATTTT
35968 TAAATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTTTAAAAATCATTTT
Found at i:42543 original size:12 final size:12
Alignment explanation
Indices: 42526--42551 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
42516 GCAAACACCT
42526 GAAATCTCACAA
1 GAAATCTCACAA
42538 GAAATCTCACAA
1 GAAATCTCACAA
42550 GA
1 GA
42552 TGTCCCCTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.23, G:0.12, T:0.15
Consensus pattern (12 bp):
GAAATCTCACAA
Found at i:44224 original size:2 final size:2
Alignment explanation
Indices: 44219--44244 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
44209 GCATGATGGA
44219 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
44245 GTTATTTAGA
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:46422 original size:98 final size:98
Alignment explanation
Indices: 46253--46450 Score: 378
Period size: 98 Copynumber: 2.0 Consensus size: 98
46243 TCTAAGACCT
* *
46253 CTAAAACGTAATTCAATATTTTCAGTTTGTGATGCAACATGAAAACCTAGGGGAATCCTCTTGTA
1 CTAAAACGTAATTCAATATTCTCAGTTTGTGATGCAACATGAAAACCAAGGGGAATCCTCTTGTA
46318 ATTAAAAGAGGAGGTGCAAACGGAGACTCGGTC
66 ATTAAAAGAGGAGGTGCAAACGGAGACTCGGTC
46351 CTAAAACGTAATTCAATATTCTCAGTTTGTGATGCAACATGAAAACCAAGGGGAATCCTCTTGTA
1 CTAAAACGTAATTCAATATTCTCAGTTTGTGATGCAACATGAAAACCAAGGGGAATCCTCTTGTA
46416 ATTAAAAGAGGAGGTGCAAACGGAGACTCGGTC
66 ATTAAAAGAGGAGGTGCAAACGGAGACTCGGTC
46449 CT
1 CT
46451 TGTATTATAA
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (98 bp):
CTAAAACGTAATTCAATATTCTCAGTTTGTGATGCAACATGAAAACCAAGGGGAATCCTCTTGTA
ATTAAAAGAGGAGGTGCAAACGGAGACTCGGTC
Found at i:49107 original size:20 final size:22
Alignment explanation
Indices: 49062--49119 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
49052 GCATGGGTAG
49062 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
49086 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
49106 TGCATCGATGCACT
1 TGCATCGATGCACT
49120 TCAAGGGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.53
22 1 0.03
23 2 0.06
24 13 0.38
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:50523 original size:30 final size:29
Alignment explanation
Indices: 50489--50549 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
50479 ACCTATGGAC
* *
50489 AGTTGCCGAGGTTCTTTATGACCTTTAGAT
1 AGTTGCCG-GGGTCTTTATGACCTCTAGAT
* *
50519 AGTTGTCGGGGTCTTTGTGACCTCTAGAT
1 AGTTGCCGGGGTCTTTATGACCTCTAGAT
50548 AG
1 AG
50550 GTCCTTCGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.18, C:0.16, G:0.28, T:0.38
Consensus pattern (29 bp):
AGTTGCCGGGGTCTTTATGACCTCTAGAT
Found at i:52415 original size:30 final size:30
Alignment explanation
Indices: 52379--52437 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
52369 GTGCAGGATA
52379 TTGTAAAACTAACATCATC-AATGATTTATG
1 TTGTAAAACTAACATCATCAAAT-ATTTATG
52409 TTGTAAAACTAACATCATCAAATATTTAT
1 TTGTAAAACTAACATCATCAAATATTTAT
52438 CTTAATTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 25 0.89
31 3 0.11
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (30 bp):
TTGTAAAACTAACATCATCAAATATTTATG
Found at i:54056 original size:23 final size:23
Alignment explanation
Indices: 54023--54077 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
54013 GAAGTTCGAT
* *
54023 GGTGCATATTTTGGCTTTTGGAA
1 GGTGCAGATTTTGGATTTTGGAA
54046 GGTGCAGA-TTTGGATTTTGGAA
1 GGTGCAGATTTTGGATTTTGGAA
*
54068 GATGCAGATT
1 GGTGCAGATT
54078 GAAGATTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.22, C:0.07, G:0.33, T:0.38
Consensus pattern (23 bp):
GGTGCAGATTTTGGATTTTGGAA
Found at i:58735 original size:64 final size:63
Alignment explanation
Indices: 58650--58810 Score: 198
Period size: 64 Copynumber: 2.5 Consensus size: 63
58640 TTGTTTAAGG
* * * * *
58650 TGCATCGATGCACATGCAGTGCGTCGATGCAT-GAATTTAAATAGAAAACATCGAATATGATTTA
1 TGCATCGATGCATATGTAGTGCATCGATGCATCCAA-TTAAATA-AAAACATCGAATAGGATTTA
* * *
58714 TGCATCGATGCATAAGTAGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATATGTAGTGCATCGATGCAT-CCAATTAAATAAAAACATCGAATAGGATTTA
*
58778 TGCATCGATGCATGGTGTAGTGCATCGATGCAT
1 TGCATCGATGCAT-ATGTAGTGCATCGATGCAT
58811 ACCTTCATTA
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 59 0.70
65 24 0.29
66 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (63 bp):
TGCATCGATGCATATGTAGTGCATCGATGCATCCAATTAAATAAAAACATCGAATAGGATTTA
Found at i:60238 original size:21 final size:22
Alignment explanation
Indices: 60175--60245 Score: 92
Period size: 21 Copynumber: 3.3 Consensus size: 22
60165 AGTCGAGGGT
60175 TTCATAGGTCCTTCGGGAC-AA
1 TTCATAGGTCCTTCGGGACAAA
* *
60196 CTCATAGGTCATTCGGGACAAA
1 TTCATAGGTCCTTCGGGACAAA
*
60218 TTCACAGGTCCTTC-GGACAAA
1 TTCATAGGTCCTTCGGGACAAA
60239 TTTCATA
1 -TTCATA
60246 TGCCACTCAG
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
21 24 0.57
22 18 0.43
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (22 bp):
TTCATAGGTCCTTCGGGACAAA
Found at i:64174 original size:64 final size:63
Alignment explanation
Indices: 64089--64249 Score: 198
Period size: 64 Copynumber: 2.5 Consensus size: 63
64079 TTGTTTAAGG
* * * * *
64089 TGCATCGATGCACATGCAGTGCGTCGATGCAT-GAATTTAAATAGAAAACATCGAATATGATTTA
1 TGCATCGATGCATATGTAGTGCATCGATGCATCCAA-TTAAATA-AAAACATCGAATAGGATTTA
* * *
64153 TGCATCGATGCATAAGTAGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATATGTAGTGCATCGATGCAT-CCAATTAAATAAAAACATCGAATAGGATTTA
*
64217 TGCATCGATGCATGGTGTAGTGCATCGATGCAT
1 TGCATCGATGCAT-ATGTAGTGCATCGATGCAT
64250 ACCTTCATTA
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 59 0.70
65 24 0.29
66 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (63 bp):
TGCATCGATGCATATGTAGTGCATCGATGCATCCAATTAAATAAAAACATCGAATAGGATTTA
Found at i:65651 original size:21 final size:21
Alignment explanation
Indices: 65625--65687 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
65615 GTCGAGGGTT
65625 TCATAGGTCCTTCGGGACAAC
1 TCATAGGTCCTTCGGGACAAC
* *
65646 TCATAGGTCATTCGGGACAAAT
1 TCATAGGTCCTTCGGGAC-AAC
*
65668 TCACAGGTCCTTCGGGACAA
1 TCATAGGTCCTTCGGGACAA
65688 ATTTCATATG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 19 0.51
22 18 0.49
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (21 bp):
TCATAGGTCCTTCGGGACAAC
Found at i:65681 original size:22 final size:22
Alignment explanation
Indices: 65624--65695 Score: 101
Period size: 22 Copynumber: 3.3 Consensus size: 22
65614 AGTCGAGGGT
65624 TTCATAGGTCCTTCGGGAC-AA
1 TTCATAGGTCCTTCGGGACAAA
* *
65645 CTCATAGGTCATTCGGGACAAA
1 TTCATAGGTCCTTCGGGACAAA
*
65667 TTCACAGGTCCTTCGGGACAAA
1 TTCATAGGTCCTTCGGGACAAA
65689 TTTCATA
1 -TTCATA
65696 TGCCACTCAG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.40
22 21 0.49
23 5 0.12
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (22 bp):
TTCATAGGTCCTTCGGGACAAA
Found at i:69634 original size:64 final size:63
Alignment explanation
Indices: 69549--69709 Score: 207
Period size: 64 Copynumber: 2.5 Consensus size: 63
69539 TTGTTTAAGG
* * * *
69549 TGCATCGATGCACATGCAGTGCATCGATGCAT-GAATTTAAATAGAAAACATCGAATATGATTTA
1 TGCATCGATGCATATGTAGTGCATCGATGCATCCAA-TTAAATA-AAAACATCGAATAGGATTTA
* * *
69613 TGCATCGATGCATAAGTAGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATATGTAGTGCATCGATGCAT-CCAATTAAATAAAAACATCGAATAGGATTTA
*
69677 TGCATCGATGCATGGTGTAGTGCATCGATGCAT
1 TGCATCGATGCAT-ATGTAGTGCATCGATGCAT
69710 ACCTTCATTA
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 60 0.71
65 24 0.28
66 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (63 bp):
TGCATCGATGCATATGTAGTGCATCGATGCATCCAATTAAATAAAAACATCGAATAGGATTTA
Found at i:71113 original size:21 final size:21
Alignment explanation
Indices: 71087--71149 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
71077 GTCGAGGGTT
71087 TCATAGGTCCTTCGGGACAAC
1 TCATAGGTCCTTCGGGACAAC
* *
71108 TCATAGGTCATTCGGGACAAAT
1 TCATAGGTCCTTCGGGAC-AAC
*
71130 TCACAGGTCCTTCGGGACAA
1 TCATAGGTCCTTCGGGACAA
71150 ATTTCATATG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 19 0.51
22 18 0.49
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (21 bp):
TCATAGGTCCTTCGGGACAAC
Found at i:71143 original size:22 final size:22
Alignment explanation
Indices: 71086--71157 Score: 101
Period size: 22 Copynumber: 3.3 Consensus size: 22
71076 AGTCGAGGGT
71086 TTCATAGGTCCTTCGGGAC-AA
1 TTCATAGGTCCTTCGGGACAAA
* *
71107 CTCATAGGTCATTCGGGACAAA
1 TTCATAGGTCCTTCGGGACAAA
*
71129 TTCACAGGTCCTTCGGGACAAA
1 TTCATAGGTCCTTCGGGACAAA
71151 TTTCATA
1 -TTCATA
71158 TGCCACTCAG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.40
22 21 0.49
23 5 0.12
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (22 bp):
TTCATAGGTCCTTCGGGACAAA
Found at i:77354 original size:34 final size:34
Alignment explanation
Indices: 77299--77365 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
77289 AATCCAACTA
*
77299 AATATCTTTTAATATTTAATATT-AAACAGATAAT
1 AATATCTTTTAATATTAAATATTCAAA-AGATAAT
77333 AATATCTTTTAAT-TTAAAATATTCAAAAGATAA
1 AATATCTTTTAATATT-AAATATTCAAAAGATAA
77366 AACTCCTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 2 0.07
34 25 0.83
35 3 0.10
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (34 bp):
AATATCTTTTAATATTAAATATTCAAAAGATAAT
Found at i:79450 original size:24 final size:24
Alignment explanation
Indices: 79422--79467 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
79412 CCATAATAAT
79422 TGTGTCACAAGAGCAGAGAAAATA
1 TGTGTCACAAGAGCAGAGAAAATA
*
79446 TGTGTCATAAGAGCAGAGAAAA
1 TGTGTCACAAGAGCAGAGAAAA
79468 GCGTGTCACG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.11, G:0.26, T:0.17
Consensus pattern (24 bp):
TGTGTCACAAGAGCAGAGAAAATA
Found at i:82641 original size:18 final size:18
Alignment explanation
Indices: 82618--82731 Score: 149
Period size: 18 Copynumber: 6.4 Consensus size: 18
82608 GTCCACTTGC
*
82618 TCCACCTGAAAATCAATG
1 TCCACCTGAAAATCAGTG
* *
82636 TCCACCTGAAAGTCAGTA
1 TCCACCTGAAAATCAGTG
* *
82654 TCAACCTGAAAATCAATG
1 TCCACCTGAAAATCAGTG
*
82672 TCCACCTGAAAGT-AGTG
1 TCCACCTGAAAATCAGTG
*
82689 TCAACCTGAAAATCAGTG
1 TCCACCTGAAAATCAGTG
*
82707 TCCACCTGAAAATCAGTA
1 TCCACCTGAAAATCAGTG
82725 TCCACCT
1 TCCACCT
82732 CAGAGAAGGT
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
17 14 0.17
18 67 0.83
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.23
Consensus pattern (18 bp):
TCCACCTGAAAATCAGTG
Found at i:82700 original size:35 final size:36
Alignment explanation
Indices: 82621--82731 Score: 179
Period size: 36 Copynumber: 3.1 Consensus size: 36
82611 CACTTGCTCC
82621 ACCTGAAAATCAATGTCCACCTGAAAGTCAGTATCA
1 ACCTGAAAATCAATGTCCACCTGAAAGTCAGTATCA
*
82657 ACCTGAAAATCAATGTCCACCTGAAAGT-AGTGTCA
1 ACCTGAAAATCAATGTCCACCTGAAAGTCAGTATCA
* * *
82692 ACCTGAAAATCAGTGTCCACCTGAAAATCAGTATCC
1 ACCTGAAAATCAATGTCCACCTGAAAGTCAGTATCA
82728 ACCT
1 ACCT
82732 CAGAGAAGGT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 32 0.46
36 37 0.54
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (36 bp):
ACCTGAAAATCAATGTCCACCTGAAAGTCAGTATCA
Found at i:86870 original size:27 final size:26
Alignment explanation
Indices: 86832--86883 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
86822 CGAACTTACA
* *
86832 AAAAATCAAATTTTAATTCAGTTTTTT
1 AAAAATCAAATTATAAATCA-TTTTTT
86859 AAAAATCAAATTATAAATCATTTTT
1 AAAAATCAAATTATAAATCATTTTT
86884 ATGCTGACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (26 bp):
AAAAATCAAATTATAAATCATTTTTT
Found at i:87746 original size:21 final size:21
Alignment explanation
Indices: 87721--87775 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
87711 AACTTTCAAC
87721 AAAGTATCGATACATGTACAA
1 AAAGTATCGATACATGTACAA
87742 AAAGTATCGATACATGTACAA
1 AAAGTATCGATACATGTACAA
87763 AAAGTATCGATAC
1 AAAGTATCGATAC
87776 TTTTAACATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.47, C:0.15, G:0.15, T:0.24
Consensus pattern (21 bp):
AAAGTATCGATACATGTACAA
Found at i:87829 original size:20 final size:20
Alignment explanation
Indices: 87804--87854 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
87794 CTCTTTACCA
87804 ATTTTGTCATAATGAAACTG
1 ATTTTGTCATAATGAAACTG
87824 ATTTTGTCATAATGAAACTG
1 ATTTTGTCATAATGAAACTG
*
87844 GTTTTGTCATA
1 ATTTTGTCATA
87855 TTTTTACCTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (20 bp):
ATTTTGTCATAATGAAACTG
Found at i:88195 original size:71 final size:72
Alignment explanation
Indices: 88056--88235 Score: 211
Period size: 73 Copynumber: 2.5 Consensus size: 72
88046 AACAAATAGG
* *
88056 TAGGTATTTTAATATAATAGGTATCAACTATTTTTTTTTACCGTTTACAATATTAACAACCTT-A
1 TAGGTATTTTAATATAATAGGTAGCACCTA--TTTTTTTACCGTTTACAATATTAACAACCTTAA
*
88120 AAAAACCGA
64 AAAAACAGA
* * * **
88129 TAGGTAGTTTAA-AGTAATAGGTAGCACCTATTTTTTTACTGTTTACATTATTAGTAACCTTCAA
1 TAGGTATTTTAATA-TAATAGGTAGCACCTATTTTTTTACCGTTTACAATATTAACAACCTT-AA
*
88193 AAAAACATA
64 AAAAACAGA
* *
88202 TAGATATTTTAATATAATAGGTAGCGCCTATTTT
1 TAGGTATTTTAATATAATAGGTAGCACCTATTTT
88236 ATATTTCTGG
Statistics
Matches: 91, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
71 27 0.30
72 1 0.01
73 62 0.68
74 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (72 bp):
TAGGTATTTTAATATAATAGGTAGCACCTATTTTTTTACCGTTTACAATATTAACAACCTTAAAA
AAACAGA
Found at i:88679 original size:8 final size:8
Alignment explanation
Indices: 88666--88728 Score: 58
Period size: 8 Copynumber: 7.6 Consensus size: 8
88656 ATATTAGTGA
88666 AAATAAAT
1 AAATAAAT
88674 AAATAAAT
1 AAATAAAT
*
88682 AAAAATAAT
1 AAATA-AAT
88691 AAATAATAT
1 AAATAA-AT
88700 AATATAATAT
1 AA-ATAA-AT
*
88710 AAAAAAAT
1 AAATAAAT
88718 AAA-AAA-
1 AAATAAAT
88724 AAATA
1 AAATA
88729 TGAAGGAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
6 3 0.06
7 4 0.08
8 18 0.38
9 14 0.29
10 9 0.19
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAAAT
Found at i:88712 original size:40 final size:40
Alignment explanation
Indices: 88643--88728 Score: 104
Period size: 40 Copynumber: 2.1 Consensus size: 40
88633 AAAATGCATG
* * *
88643 AAAATAATAAAAAATATTAGTGAAAATAAATAAATAAATA
1 AAAATAATAAAAAATAATAGTGAAAATAAAAAAATAAAAA
*
88683 AAAATAATAAATAATATAATA-T-AATATAAAAAAATAAAAA
1 AAAATAATAAA-AA-ATAATAGTGAAAATAAAAAAATAAAAA
88723 AAAATA
1 AAAATA
88729 TGAAGGAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
40 32 0.80
41 3 0.08
42 5 0.12
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (40 bp):
AAAATAATAAAAAATAATAGTGAAAATAAAAAAATAAAAA
Found at i:88716 original size:30 final size:29
Alignment explanation
Indices: 88665--88729 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
88655 AATATTAGTG
*
88665 AAAATA-AATAAATAAATAAAAATAATAA
1 AAAATATAATAAATAAATAAAAATAAAAA
*
88693 ATAATATAATATAATATAA-AAAAATAAAAA
1 AAAATATAATA-AATA-AATAAAAATAAAAA
88723 AAAATAT
1 AAAATAT
88730 GAAGGAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 5 0.16
29 4 0.13
30 20 0.65
31 2 0.06
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (29 bp):
AAAATATAATAAATAAATAAAAATAAAAA
Found at i:88825 original size:3 final size:3
Alignment explanation
Indices: 88817--88857 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
88807 TAGTGAAATA
* * *
88817 AAT AAT AAT AAT AAT AAT AAT AAT AAG AAA AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
88858 AAAAAATGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:88862 original size:15 final size:15
Alignment explanation
Indices: 88816--88875 Score: 59
Period size: 15 Copynumber: 4.1 Consensus size: 15
88806 TTAGTGAAAT
* *
88816 AAATAATAATAATAA
1 AAATAAAAATAAAAA
* * *
88831 TAATAATAATAAGAA
1 AAATAAAAATAAAAA
88846 AAATAAAAATAAAAA
1 AAATAAAAATAAAAA
*
88861 AAAT-GAAATAAAAA
1 AAATAAAAATAAAAA
88875 A
1 A
88876 TGAAATAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
14 10 0.26
15 29 0.74
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (15 bp):
AAATAAAAATAAAAA
Found at i:88875 original size:12 final size:12
Alignment explanation
Indices: 88858--88892 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
88848 ATAAAAATAA
88858 AAAAAATGAAAT
1 AAAAAATGAAAT
88870 AAAAAATGAAAT
1 AAAAAATGAAAT
88882 AAAAAATGAAA
1 AAAAAATGAAA
88893 AAATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (12 bp):
AAAAAATGAAAT
Found at i:90198 original size:15 final size:14
Alignment explanation
Indices: 90178--90220 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
90168 AAACCTGAAA
*
90178 AAAATGAAATAAATT
1 AAAATG-AATAAAAT
90193 AAAATGAATAAAAT
1 AAAATGAATAAAAT
90207 AAAAT-AA-AAAAT
1 AAAATGAATAAAAT
90219 AA
1 AA
90221 TAATATACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 7 0.26
13 2 0.07
14 12 0.44
15 6 0.22
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (14 bp):
AAAATGAATAAAAT
Found at i:90480 original size:75 final size:75
Alignment explanation
Indices: 90340--90498 Score: 250
Period size: 75 Copynumber: 2.1 Consensus size: 75
90330 TACTTTAAAA
*
90340 ATATTATATAAGTTTTCAAAAAATATTTTTAAACTATATATTATATAATTTTCAAAAATGTTTTT
1 ATATTATATAAGTTTTCAAAAAATATTTTTAAACTATATATTATATAATTTTCAAAAATATTTTT
90405 AAAA-T-TAT
66 AAAACTATAT
* * *
90413 ATATTATATAATTTTTCAAAAAATATTTTTTTAAACTATATATTATATATTTTTTAAAAATATTT
1 ATATTATATAAGTTTTCAAAAAATA--TTTTTAAACTATATATTATATAATTTTCAAAAATATTT
90478 TTAAAACTATAT
64 TTAAAACTATAT
90490 ATATTATAT
1 ATATTATAT
90499 TTTAAAAACT
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
73 24 0.31
75 41 0.53
76 1 0.01
77 12 0.15
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (75 bp):
ATATTATATAAGTTTTCAAAAAATATTTTTAAACTATATATTATATAATTTTCAAAAATATTTTT
AAAACTATAT
Found at i:90502 original size:34 final size:34
Alignment explanation
Indices: 90240--90506 Score: 219
Period size: 36 Copynumber: 7.6 Consensus size: 34
90230 AAATATAATT
* * *
90240 TATATAATATATATATTTCAAAATATTTTTTTAAAC
1 TATATATTATATAT-TTTAAAAATA-TTTTTAAAAC
* *
90276 TATATATT-T-TATTTTAAAAA-GTTTTCAAAAC
1 TATATATTATATATTTTAAAAATATTTTTAAAAC
* * * *
90307 TATATGTTATATAGTTTTCAAAATA-CTTTAAAAA
1 TATATATTATATA-TTTTAAAAATATTTTTAAAAC
90341 TAT-TA-TATA-AGTTTTCAAAAAATATTTTT-AAAC
1 TATATATTATATA-TTTT--AAAAATATTTTTAAAAC
* *
90374 TATATATTATATAATTTTCAAAAATGTTTTTAAAAT
1 TATATATTATAT-ATTTT-AAAAATATTTTTAAAAC
*
90410 TATATATTATATAATTTTTCAAAAAATATTTTTTTAAAC
1 TATATATTATAT-A-TTTT--AAAAATA-TTTTTAAAAC
90449 TATATATTATATATTTTTTAAAAATATTTTTAAAAC
1 TATATATTATATA--TTTTAAAAATATTTTTAAAAC
90485 TATATA-TATTATATTTTAAAAA
1 TATATATTA-TATATTTTAAAAA
90507 CTATATACTA
Statistics
Matches: 191, Mismatches: 23, Indels: 36
0.76 0.09 0.14
Matches are distributed among these distances:
31 21 0.11
32 5 0.03
33 22 0.12
34 34 0.18
35 18 0.09
36 47 0.25
37 12 0.06
38 7 0.04
39 25 0.13
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (34 bp):
TATATATTATATATTTTAAAAATATTTTTAAAAC
Found at i:90508 original size:59 final size:62
Alignment explanation
Indices: 90445--90618 Score: 164
Period size: 59 Copynumber: 2.9 Consensus size: 62
90435 ATATTTTTTT
** * * *
90445 AAACTATATATTATATATTTTTTAAAAATATTTTTAAAAC-TA-TATATAT-TATATTTTAA
1 AAACTATATATTATATAAGTTTTAAAAATATTTTAAAAACGTACAATATATAAATATTTTAA
* * * * *
90504 AAACTATATACTATATAAGTTTTCAAAATGTTTTAAAAACTGTACAATATATAAATGTTTTCA
1 AAACTATATATTATATAAGTTTTAAAAATATTTTAAAAAC-GTACAATATATAAATATTTTAA
* * *
90567 AAACTATATA-T-TAT-A-TTTTAAAAATATTTCAAAAACAATATAATATATAAAT
1 AAACTATATATTATATAAGTTTTAAAAATATTTTAAAAAC-GTACAATATATAAAT
90619 TTTCAACAAT
Statistics
Matches: 95, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
59 65 0.68
60 1 0.01
61 5 0.05
62 7 0.07
63 17 0.18
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.43
Consensus pattern (62 bp):
AAACTATATATTATATAAGTTTTAAAAATATTTTAAAAACGTACAATATATAAATATTTTAA
Found at i:90513 original size:21 final size:22
Alignment explanation
Indices: 90472--90519 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
90462 TTTTTTAAAA
* *
90472 ATATTTTTAAAACTATATATATT
1 ATATTTTAAAAAC-ATATATACT
90495 ATATTTTAAAAAC-TATATACT
1 ATATTTTAAAAACATATATACT
90516 ATAT
1 ATAT
90520 AAGTTTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.48
23 12 0.52
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (22 bp):
ATATTTTAAAAACATATATACT
Found at i:90555 original size:36 final size:38
Alignment explanation
Indices: 90498--90569 Score: 103
Period size: 36 Copynumber: 1.9 Consensus size: 38
90488 ATATATTATA
* *
90498 TTTTAAAAACTATATACTATAT-AA-GTTTTCAAAATG
1 TTTTAAAAACTATACAATATATAAATGTTTTCAAAATG
*
90534 TTTTAAAAACTGTACAATATATAAATGTTTTCAAAA
1 TTTTAAAAACTATACAATATATAAATGTTTTCAAAA
90570 CTATATATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 19 0.61
37 2 0.06
38 10 0.32
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (38 bp):
TTTTAAAAACTATACAATATATAAATGTTTTCAAAATG
Found at i:90700 original size:2 final size:2
Alignment explanation
Indices: 90695--90735 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
90685 TCTATATACT
*
90695 TA TA TA TA TA -A TA -A AA T- 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 TA TA
90734 TA
1 TA
90736 CAAAAACAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
1 3 0.09
2 32 0.91
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:99393 original size:31 final size:31
Alignment explanation
Indices: 99338--99397 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
99328 TAAACTTTAT
* ***
99338 GCATTAGGGGATAGTTTTGGTTATGCATCCA
1 GCATTAGGGGATAGTATCAATTATGCATCCA
99369 GCATTAGGGGATAGTATCAATTATGCATC
1 GCATTAGGGGATAGTATCAATTATGCATC
99398 TAGAACAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (31 bp):
GCATTAGGGGATAGTATCAATTATGCATCCA
Found at i:102496 original size:16 final size:16
Alignment explanation
Indices: 102475--102555 Score: 51
Period size: 16 Copynumber: 5.1 Consensus size: 16
102465 TATTAAGAAA
102475 AAAATAATAAAAAAAT
1 AAAATAATAAAAAAAT
*
102491 AAAATAA-AGTAAAAAT
1 AAAATAATA-AAAAAAT
* * *
102507 ATAAT-ATATAGAAAT
1 AAAATAATAAAAAAAT
*
102522 -AAATAAAAATAAAAAT
1 AAAATAATAA-AAAAAT
* *
102538 AGAATATTAAGAAAAAT
1 AAAATAATAA-AAAAAT
102555 A
1 A
102556 TATAAAACGT
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
14 3 0.06
15 10 0.20
16 23 0.47
17 13 0.27
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (16 bp):
AAAATAATAAAAAAAT
Found at i:102503 original size:18 final size:18
Alignment explanation
Indices: 102482--102534 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
102472 AAAAAAATAA
102482 TAAAAAAATAAAATAAAG
1 TAAAAAAATAAAATAAAG
* * *
102500 TAAAAATATAATATATAG
1 TAAAAAAATAAAATAAAG
*
102518 -AAATAAATAAAAATAAA
1 TAAAAAAAT-AAAATAAA
102535 AATAGAATAT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
17 6 0.22
18 21 0.78
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (18 bp):
TAAAAAAATAAAATAAAG
Found at i:102535 original size:31 final size:32
Alignment explanation
Indices: 102523--102607 Score: 75
Period size: 35 Copynumber: 2.5 Consensus size: 32
102513 TATAGAAATA
*
102523 AATA-AAAATAAAAATAGAATATTAAGAAA-A
1 AATATAAAATAAAAATATAATATTAAGAAATA
102553 ATATATAAAACGTATAAAATATAATATTAAGAAAATA
1 A-ATATAAAA--TA-AAAATATAATATTAAG-AAATA
*
102590 TATATATAAATAATAAAT
1 AATATA-AAATAA-AAAT
102608 GGAGAAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
30 1 0.02
31 3 0.07
32 4 0.09
34 3 0.07
35 21 0.48
36 8 0.18
37 4 0.09
ACGTcount: A:0.66, C:0.01, G:0.05, T:0.28
Consensus pattern (32 bp):
AATATAAAATAAAAATATAATATTAAGAAATA
Found at i:102701 original size:21 final size:18
Alignment explanation
Indices: 102659--102735 Score: 64
Period size: 18 Copynumber: 4.0 Consensus size: 18
102649 AGATATATCT
*
102659 AATAAAAATAATATAATATA
1 AATAAAAA-AAAAT-ATATA
102679 AATAAAAAAAGGAATATAGTA
1 AATAAAAAAA--AATATA-TA
*
102700 AATAAATAAAAATATATA
1 AATAAAAAAAAATATATA
* * *
102718 ATTAAAAATATATATATA
1 AATAAAAAAAAATATATA
102736 GGGGATGAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
18 16 0.33
19 8 0.17
20 11 0.23
21 13 0.27
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
AATAAAAAAAAATATATA
Found at i:102723 original size:14 final size:14
Alignment explanation
Indices: 102701--102731 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
102691 AATATAGTAA
102701 ATAAATAAAAATAT
1 ATAAATAAAAATAT
*
102715 ATAATTAAAAATAT
1 ATAAATAAAAATAT
102729 ATA
1 ATA
102732 TATAGGGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAAATAAAAATAT
Found at i:103166 original size:17 final size:17
Alignment explanation
Indices: 103129--103171 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
103119 TAACTATTTT
*
103129 TAGAATCCTATTAACAA
1 TAGAATCCTAATAACAA
103146 TAGAATCCTAAT-ACAA
1 TAGAATCCTAATAACAA
*
103162 CTAGACTCCT
1 -TAGAATCCT
103172 TGCTCGGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (17 bp):
TAGAATCCTAATAACAA
Found at i:104259 original size:110 final size:106
Alignment explanation
Indices: 104052--104302 Score: 301
Period size: 110 Copynumber: 2.3 Consensus size: 106
104042 AGTATTGTTC
* *
104052 CGAGTCCAATATC-CTC-CGTCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGA
1 CGAGTCCAATATCACTCGC-T-GTGAAGTTGAAATTGACTCTGGAACTGGAAAATTGTTTGTTGA
* *
104115 CAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCT
64 CAACCAGCCGCCCCTTCGCTATGAAGTTGAGCTTGTGTTGTCT
* *
104158 CGAGTTCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACT-GAAAAGTTGTTTGT
1 CGAGTCCAATATCACTCGCTGTGAAGTTGAAATTGACTCTG---G-AACTGGAAAA-TTGTTTGT
* * * *
104222 TGACAATCAGTCGCCCCTTCGTTATGAATTTGAGCTTGTGTTGTCT
61 TGACAACCAGCCGCCCCTTCGCTATGAAGTTGAGCTTGTGTTGTCT
* * *
104268 TGAGTCCAATATCCCTCGCTGTAAAGTTGAAATTG
1 CGAGTCCAATATCACTCGCTGTGAAGTTGAAATTG
104303 GCTATGAAAC
Statistics
Matches: 123, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
106 32 0.26
107 3 0.02
108 1 0.01
109 5 0.04
110 82 0.67
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (106 bp):
CGAGTCCAATATCACTCGCTGTGAAGTTGAAATTGACTCTGGAACTGGAAAATTGTTTGTTGACA
ACCAGCCGCCCCTTCGCTATGAAGTTGAGCTTGTGTTGTCT
Found at i:105201 original size:19 final size:18
Alignment explanation
Indices: 105158--105205 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 18
105148 ATTCAAAGAT
105158 TTTGTTTCAAG-G-GAAA
1 TTTGTTTCAAGAGAGAAA
*
105174 -TTGTCTCAAGAGACGAAA
1 TTTGTTTCAAGAGA-GAAA
105192 TTTGTTTCAAGAGA
1 TTTGTTTCAAGAGA
105206 AACTGTCTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 9 0.35
16 1 0.04
18 4 0.15
19 12 0.46
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (18 bp):
TTTGTTTCAAGAGAGAAA
Found at i:105251 original size:37 final size:36
Alignment explanation
Indices: 105170--105259 Score: 103
Period size: 37 Copynumber: 2.5 Consensus size: 36
105160 TGTTTCAAGG
* * * * *
105170 GAAATTGTCTC-A-AGAGACGAAATTTGTTTCAAGA
1 GAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAA
105204 GAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAA
1 GAAACTGTCTCAAGAGAGACAAAA-TTAGTTCCAAAA
*
105241 GAAACTGTCTCAAGGGAGA
1 GAAACTGTCTCAAGAGAGA
105260 TGGAATTTGT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
34 10 0.21
35 1 0.02
36 9 0.19
37 27 0.57
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (36 bp):
GAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAA
Found at i:105339 original size:36 final size:36
Alignment explanation
Indices: 105292--105468 Score: 174
Period size: 36 Copynumber: 5.1 Consensus size: 36
105282 ATATTCAAAT
105292 AATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 AATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
* *
105328 AATTTGTTTCAAGGGAAATTGTCTCAAGAGAGACGA
1 AATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
* * *
105364 AATTTATTTCAAGGGAAA-TGTTTTC-------A-AT
1 AATTTGTTTCAAGGGAAACTG-TCTCAAGAGAGACAA
* *
105392 ATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
1 AATT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
* * *
105429 AATTTTGTTTCAAGGGAAACTATCTCAAGCGAGATAA
1 AA-TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
105466 AAT
1 AAT
105469 ATTCTTTTTC
Statistics
Matches: 113, Mismatches: 16, Indels: 24
0.74 0.10 0.16
Matches are distributed among these distances:
28 3 0.03
29 16 0.14
30 2 0.02
35 2 0.02
36 56 0.50
37 32 0.28
38 2 0.02
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (36 bp):
AATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
Found at i:105411 original size:101 final size:102
Alignment explanation
Indices: 105190--105462 Score: 343
Period size: 101 Copynumber: 2.7 Consensus size: 102
105180 CAAGAGACGA
* * **
105190 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAG
1 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAG
* * * * *
105255 GGAGATGGAATTTGTTTCAAATAAAACATATTCAAAT
66 AGAGACGAAATTTATTTCAAAGAAAACATATTCAAAT
* *
105292 AATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAATTGTCTCAAG
1 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAG
* * ** *
105356 AGAGACGAAATTTATTTCAAGGGAAATGTTTTC-AAT
66 AGAGACGAAATTTATTTCAAAGAAAACATATTCAAAT
* * *
105392 ATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAA
1 AATT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAA
*
105457 GCGAGA
65 GAGAGA
105463 TAAAATATTC
Statistics
Matches: 148, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
100 6 0.04
101 77 0.52
102 65 0.44
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (102 bp):
AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAG
AGAGACGAAATTTATTTCAAAGAAAACATATTCAAAT
Found at i:105448 original size:37 final size:38
Alignment explanation
Indices: 105392--105468 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 38
105382 TGTTTTCAAT
*
105392 ATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA
1 ATTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAA
* * *
105430 ATTT-TGTTTCAAGGGAAACTATCTCAAGCGAGATAAA
1 ATTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAA
105467 AT
1 AT
105469 ATTCTTTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
37 31 0.89
38 4 0.11
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (38 bp):
ATTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAA
Found at i:107055 original size:69 final size:69
Alignment explanation
Indices: 106940--107077 Score: 233
Period size: 69 Copynumber: 2.0 Consensus size: 69
106930 TGTCTCTCTC
106940 TTGATGCTCTATAATCTTCGAGTTGAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATAATCTTCGAGTTGAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
107005 TCAT
66 TCAT
* * *
107009 TTGATGCTCTATGATCTTCGAG-TGAATTGATTCAGTGATTCGGAAATGATTGTGCTTGATCAAT
1 TTGATGCTCTATAATCTTCGAGTTG-AGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAAT
107073 CTCAT
65 CTCAT
107078 AGTTTGAATC
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
68 2 0.03
69 63 0.97
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.39
Consensus pattern (69 bp):
TTGATGCTCTATAATCTTCGAGTTGAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
TCAT
Found at i:107178 original size:13 final size:14
Alignment explanation
Indices: 107149--107198 Score: 70
Period size: 13 Copynumber: 3.8 Consensus size: 14
107139 TTTTTCTTCA
107149 ATTTTC-CTTTGTT
1 ATTTTCTCTTTGTT
107162 -TTTTCTCTTT-TT
1 ATTTTCTCTTTGTT
107174 ATTTTCTCTTTGTT
1 ATTTTCTCTTTGTT
*
107188 TTTTTCTCTTT
1 ATTTTCTCTTT
107199 TTGTTCTGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
12 7 0.21
13 14 0.42
14 12 0.36
ACGTcount: A:0.04, C:0.16, G:0.04, T:0.76
Consensus pattern (14 bp):
ATTTTCTCTTTGTT
Found at i:107191 original size:26 final size:26
Alignment explanation
Indices: 107149--107200 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
107139 TTTTTCTTCA
107149 ATTTTCCTTTG-TTTTTTCTCTTTTT
1 ATTTTCCTTTGTTTTTTTCTCTTTTT
107174 ATTTTCTCTTTGTTTTTTTCTCTTTTT
1 ATTTTC-CTTTGTTTTTTTCTCTTTTT
107201 GTTCTGATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 6 0.24
26 5 0.20
27 14 0.56
ACGTcount: A:0.04, C:0.15, G:0.04, T:0.77
Consensus pattern (26 bp):
ATTTTCCTTTGTTTTTTTCTCTTTTT
Found at i:110302 original size:9 final size:10
Alignment explanation
Indices: 110290--110322 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
110280 AAAACATGTA
110290 AAAAAT-AAT
1 AAAAATAAAT
110299 AAAAATAAAT
1 AAAAATAAAT
*
110309 AAAAATAAAC
1 AAAAATAAAT
110319 AAAA
1 AAAA
110323 TGAATAAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 6 0.27
10 16 0.73
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:110312 original size:19 final size:19
Alignment explanation
Indices: 110290--110330 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
110280 AAAACATGTA
110290 AAAAATAATA-AAAATAAAT
1 AAAAATAA-ACAAAATAAAT
*
110309 AAAAATAAACAAAATGAAT
1 AAAAATAAACAAAATAAAT
110328 AAA
1 AAA
110331 GTGTTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (19 bp):
AAAAATAAACAAAATAAAT
Found at i:110408 original size:18 final size:17
Alignment explanation
Indices: 110376--110422 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
110366 TATTAATGGA
110376 GTAAAAAAATAAAAAAG
1 GTAAAAAAATAAAAAAG
*
110393 GTAAAAGAAATTAAAAAG
1 GTAAAA-AAATAAAAAAG
110411 G-AATAAAAATAA
1 GTAA-AAAAATAA
110423 TGTGTAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (17 bp):
GTAAAAAAATAAAAAAG
Found at i:110545 original size:16 final size:16
Alignment explanation
Indices: 110524--110581 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 16
110514 ATATTAAGAA
110524 AAAATAATAAAAAAAT
1 AAAATAATAAAAAAAT
*
110540 AAAATAAAGTAAAAATAT
1 AAAAT-AA-TAAAAAAAT
* *
110558 AATATATATAAATAAAAA
1 AAAATA-ATAAA-AAAAT
110576 AAAATA
1 AAAATA
110582 GAATATTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
16 5 0.15
17 7 0.21
18 21 0.64
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (16 bp):
AAAATAATAAAAAAAT
Found at i:110595 original size:41 final size:39
Alignment explanation
Indices: 110525--110614 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 39
110515 TATTAAGAAA
*
110525 AAATAATAAAAAAATAAAATAAAGTAAAAATATAATATATAT
1 AAATAA-AAAAAAATAAAATAAAG-AAAAATAT-ATATATAC
*
110567 AAATAAAAAAAAATAGAATATTAA-AAAAATATATATATAC
1 AAATAAAAAAAAATA-AA-ATAAAGAAAAATATATATATAC
110607 ATAATAAA
1 A-AATAAA
110615 TGGAGAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
40 8 0.19
41 23 0.53
42 8 0.19
43 4 0.09
ACGTcount: A:0.71, C:0.01, G:0.02, T:0.26
Consensus pattern (39 bp):
AAATAAAAAAAAATAAAATAAAGAAAAATATATATATAC
Found at i:110596 original size:26 final size:26
Alignment explanation
Indices: 110540--110597 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
110530 ATAAAAAAAT
* * *
110540 AAAATAAAGTAAAAATATAATATATA
1 AAAATAAAGAAAAAATAGAATATAAA
*
110566 TAAATAAA-AAAAAATAGAATATTAAA
1 AAAATAAAGAAAAAATAGAATA-TAAA
110592 AAAATA
1 AAAATA
110598 TATATATACA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (26 bp):
AAAATAAAGAAAAAATAGAATATAAA
Found at i:110601 original size:38 final size:41
Alignment explanation
Indices: 110525--110614 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 41
110515 TATTAAGAAA
*
110525 AAATAATAAAAAAATAAAATAAAGTAAAAATATAATATATAT
1 AAATAATAAAAAAATAAAAT-AAGTAAAAAAATAATATATAT
* *
110567 AAATAA-AAAAAAATAGAAT-ATTAAAAAAAT-ATATATAT
1 AAATAATAAAAAAATAAAATAAGTAAAAAAATAATATATAT
*
110605 ACATAATAAA
1 AAATAATAAA
110615 TGGAGAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
38 13 0.30
39 12 0.28
41 12 0.28
42 6 0.14
ACGTcount: A:0.71, C:0.01, G:0.02, T:0.26
Consensus pattern (41 bp):
AAATAATAAAAAAATAAAATAAGTAAAAAAATAATATATAT
Found at i:110635 original size:2 final size:2
Alignment explanation
Indices: 110628--110682 Score: 80
Period size: 2 Copynumber: 28.5 Consensus size: 2
110618 AGAAAAAGTA
110628 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT GAT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
110669 AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT A
110683 AATAAAAAGG
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
1 3 0.06
2 44 0.90
3 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:110696 original size:25 final size:23
Alignment explanation
Indices: 110668--110729 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
110658 ATAATGATAT
110668 AATATATATAATATAAATAAAAAGG
1 AATATA-ATAA-ATAAATAAAAAGG
*
110693 AATATAGTAAATAAATAAAAA--
1 AATATAATAAATAAATAAAAAGG
*
110714 AATATAATTAA-AAATA
1 AATATAATAAATAAATA
110730 TATATATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 5 0.15
21 9 0.26
23 11 0.32
24 3 0.09
25 6 0.18
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (23 bp):
AATATAATAAATAAATAAAAAGG
Found at i:113149 original size:21 final size:21
Alignment explanation
Indices: 113115--113170 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
113105 ATTTTTATTG
**
113115 AAATTTTATTTTTAT-CTTCTA
1 AAATTTTAAATTTATCCTT-TA
113136 AAATTTTAAATTTATCCCTTTA
1 AAATTTTAAATTTAT-CCTTTA
*
113158 AAATTTCAAATTT
1 AAATTTTAAATTT
113171 GTTTCCTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.43
22 14 0.47
23 3 0.10
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.54
Consensus pattern (21 bp):
AAATTTTAAATTTATCCTTTA
Found at i:116888 original size:20 final size:20
Alignment explanation
Indices: 116864--116941 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
116854 TTCGCAACAC
*
116864 GAATAGGTAAATCACAACGAT
1 GAATATGTAAATCACAACG-T
*
116885 -AATATGTAAATCGCAACGT
1 GAATATGTAAATCACAACGT
*
116904 GAATATGTAAATCACAACGC
1 GAATATGTAAATCACAACGT
* *
116924 GAATTTGTAAATCGCAAC
1 GAATATGTAAATCACAAC
116942 ACAGAAGTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
19 1 0.02
20 49 0.98
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.23
Consensus pattern (20 bp):
GAATATGTAAATCACAACGT
Found at i:116908 original size:40 final size:40
Alignment explanation
Indices: 116855--116943 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
116845 TTTTTCAAAT
*
116855 TCGCAACACGAATAGGTAAATCACAACGATAATATGTAAA
1 TCGCAACACGAATAGGTAAATCACAACGAGAATATGTAAA
** * * *
116895 TCGCAACGTGAATATGTAAATCACAACGCGAATTTGTAAA
1 TCGCAACACGAATAGGTAAATCACAACGAGAATATGTAAA
116935 TCGCAACAC
1 TCGCAACAC
116944 AGAAGTCAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (40 bp):
TCGCAACACGAATAGGTAAATCACAACGAGAATATGTAAA
Found at i:116979 original size:21 final size:20
Alignment explanation
Indices: 116935--117002 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
116925 AATTTGTAAA
* *
116935 TCGCAACACAGAAGTCAAAC
1 TCGCAACACAGAATTCAAAT
116955 TCGCAACACAGAATTTCAAAT
1 TCGCAACACAGAA-TTCAAAT
* *
116976 TCGCAACGC-GAACTTCAATT
1 TCGCAACACAGAA-TTCAAAT
116996 TCGCAAC
1 TCGCAAC
117003 GTAATTTTCT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
20 29 0.69
21 13 0.31
ACGTcount: A:0.38, C:0.29, G:0.13, T:0.19
Consensus pattern (20 bp):
TCGCAACACAGAATTCAAAT
Found at i:117064 original size:47 final size:47
Alignment explanation
Indices: 116995--117088 Score: 134
Period size: 47 Copynumber: 2.0 Consensus size: 47
116985 GAACTTCAAT
* * *
116995 TTCGCAACGTAATTTTCTAATTCGCGACGCTGATTCTGAATTCGCGA
1 TTCGCAACGCAATTTTCTAATTCCCGACGCTAATTCTGAATTCGCGA
* * *
117042 TTCGCAACGCGATTTTCTAATTCCCGGCGCTAATTCTTAATTCGCGA
1 TTCGCAACGCAATTTTCTAATTCCCGACGCTAATTCTGAATTCGCGA
117089 CGCTAATTCC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (47 bp):
TTCGCAACGCAATTTTCTAATTCCCGACGCTAATTCTGAATTCGCGA
Found at i:117082 original size:20 final size:20
Alignment explanation
Indices: 117058--117148 Score: 137
Period size: 20 Copynumber: 4.5 Consensus size: 20
117048 ACGCGATTTT
* *
117058 CTAATTCCCGGCGCTAATTC
1 CTAATTCGCGACGCTAATTC
*
117078 TTAATTCGCGACGCTAATTC
1 CTAATTCGCGACGCTAATTC
*
117098 CTAATTCGCGACGTTAATTC
1 CTAATTCGCGACGCTAATTC
*
117118 CTAATTCGCGACACTAATTC
1 CTAATTCGCGACGCTAATTC
117138 CTAATTCGCGA
1 CTAATTCGCGA
117149 TTCGCAACAC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (20 bp):
CTAATTCGCGACGCTAATTC
Found at i:117263 original size:21 final size:20
Alignment explanation
Indices: 117211--117280 Score: 52
Period size: 20 Copynumber: 3.5 Consensus size: 20
117201 CGGAATTTCA
* * *
117211 AATTCGCAACGCGGACTCC-
1 AATTCGCGACGCGAATTCCG
* *
117230 AATTTCGCAACGCGATTTTCCG
1 AA-TTCGCGACGCGA-ATTCCG
* *
117252 AATTCGCGACGCTAATTCCT
1 AATTCGCGACGCGAATTCCG
117272 AATTCGCGA
1 AATTCGCGA
117281 TTTGCAACTT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
19 2 0.05
20 24 0.59
21 13 0.32
22 2 0.05
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (20 bp):
AATTCGCGACGCGAATTCCG
Found at i:117342 original size:20 final size:20
Alignment explanation
Indices: 117339--117409 Score: 99
Period size: 20 Copynumber: 3.5 Consensus size: 20
117329 GCTAATTTCA
117339 AATTCACAA-TTCGTGACGCT
1 AATTC-CAAATTCGTGACGCT
* *
117359 AATTCCTAATTCGTGATGCT
1 AATTCCAAATTCGTGACGCT
*
117379 AATTCCAAATTCATGACGCT
1 AATTCCAAATTCGTGACGCT
117399 AATTCCAAATT
1 AATTCCAAATT
117410 ACAAAATCGT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
19 2 0.04
20 43 0.96
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (20 bp):
AATTCCAAATTCGTGACGCT
Found at i:117350 original size:47 final size:47
Alignment explanation
Indices: 117299--117391 Score: 134
Period size: 47 Copynumber: 2.0 Consensus size: 47
117289 TTATTTTCCG
*
117299 AATTCGCGACGCTAACT-CTGAATTCGTGACGCTAATTTCAAATTCAC
1 AATTCGCGACGCTAACTCCT-AATTCGTGACGCTAATTCCAAATTCAC
* * *
117346 AATTCGTGACGCTAATTCCTAATTCGTGATGCTAATTCCAAATTCA
1 AATTCGCGACGCTAACTCCTAATTCGTGACGCTAATTCCAAATTCA
117392 TGACGCTAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 39 0.95
48 2 0.05
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (47 bp):
AATTCGCGACGCTAACTCCTAATTCGTGACGCTAATTCCAAATTCAC
Found at i:117369 original size:27 final size:27
Alignment explanation
Indices: 117319--117370 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
117309 GCTAACTCTG
*
117319 AATTCGTGACGCTAATTTCAAATTCAC
1 AATTCGTGACGCTAATTCCAAATTCAC
*
117346 AATTCGTGACGCTAATTCCTAATTC
1 AATTCGTGACGCTAATTCCAAATTC
117371 GTGATGCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.35
Consensus pattern (27 bp):
AATTCGTGACGCTAATTCCAAATTCAC
Found at i:117457 original size:47 final size:47
Alignment explanation
Indices: 117404--117522 Score: 175
Period size: 47 Copynumber: 2.5 Consensus size: 47
117394 ACGCTAATTC
* *
117404 CAAATTACAAAATCGTGTTGCGAATCGCAAATTAGGAATTAGCGTCG
1 CAAATTACAAAATCGCGTTGCGAATCGCAAATTAGGAATTAGCGCCG
* * * *
117451 CGAATTACAAAATCGCATTGCGAATCGCGAATTCGGAATTAGCGCCG
1 CAAATTACAAAATCGCGTTGCGAATCGCAAATTAGGAATTAGCGCCG
*
117498 CAAATTAGAAAATCGCGTTGCGAAT
1 CAAATTACAAAATCGCGTTGCGAAT
117523 TTGGAAAATC
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 63 1.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (47 bp):
CAAATTACAAAATCGCGTTGCGAATCGCAAATTAGGAATTAGCGCCG
Found at i:117529 original size:21 final size:21
Alignment explanation
Indices: 117505--117566 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
117495 CCGCAAATTA
117505 GAAAATCGCGTTGCGAATTTG
1 GAAAATCGCGTTGCGAATTTG
* * *
117526 GAAAATCACGTTGTGAAATTG
1 GAAAATCGCGTTGCGAATTTG
**
117547 G-AGTTCGCGTTGCGAATTTG
1 GAAAATCGCGTTGCGAATTTG
117567 AAATTCCGTG
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
20 14 0.42
21 19 0.58
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (21 bp):
GAAAATCGCGTTGCGAATTTG
Found at i:117619 original size:20 final size:20
Alignment explanation
Indices: 117596--117665 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
117586 TGACTTATGT
*
117596 GTTGCGATTTACAAATTCGC
1 GTTGCGATTTACATATTCGC
**
117616 GTTGCGATTTACATATTATC
1 GTTGCGATTTACATATTCGC
* * *
117636 GTTGTGATTTACCTATTCGA
1 GTTGCGATTTACATATTCGC
117656 GTTGCGATTT
1 GTTGCGATTT
117666 TGAAACCTGT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.43
Consensus pattern (20 bp):
GTTGCGATTTACATATTCGC
Found at i:127195 original size:27 final size:27
Alignment explanation
Indices: 127165--127230 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
127155 ATTTATACAT
*
127165 AATAA-TAATAATAATAAAATATAAAAC
1 AATAATTAAAAATAATAAAAT-TAAAAC
*
127192 AATAATTAAAAATAATGAAATTAAAAC
1 AATAATTAAAAATAATAAAATTAAAAC
* *
127219 TATAAATAAAAA
1 AATAATTAAAAA
127231 AAACTAGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 21 0.62
28 13 0.38
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.26
Consensus pattern (27 bp):
AATAATTAAAAATAATAAAATTAAAAC
Found at i:127231 original size:28 final size:28
Alignment explanation
Indices: 127163--127231 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
127153 ATATTTATAC
127163 ATAATAATAATAATAATAAAATATAAAACA
1 ATAATAA-AA-AATAATAAAATATAAAACA
* * *
127193 ATAATTAAAAATAATGAAAT-TAAAACT
1 ATAATAAAAAATAATAAAATATAAAACA
127220 ATAAATAAAAAA
1 AT-AATAAAAAA
127232 AACTAGTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
27 8 0.24
28 18 0.53
29 2 0.06
30 6 0.18
ACGTcount: A:0.70, C:0.03, G:0.01, T:0.26
Consensus pattern (28 bp):
ATAATAAAAAATAATAAAATATAAAACA
Found at i:128423 original size:7 final size:7
Alignment explanation
Indices: 128413--128462 Score: 54
Period size: 6 Copynumber: 7.7 Consensus size: 7
128403 TTGGGCTTTG
*
128413 TAATATT
1 TAATATA
*
128420 TAATAAA
1 TAATATA
128427 TAATATA
1 TAATATA
128434 TAATA-A
1 TAATATA
128440 TAATA-A
1 TAATATA
128446 TAATA-A
1 TAATATA
128452 TAATA-A
1 TAATATA
128458 TAATA
1 TAATA
128463 ATAGTTTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
6 24 0.60
7 16 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
TAATATA
Found at i:128439 original size:3 final size:3
Alignment explanation
Indices: 128420--128484 Score: 85
Period size: 3 Copynumber: 21.0 Consensus size: 3
128410 TTGTAATATT
*
128420 TAA TAAA TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
128467 TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
128485 ATTTAAATAA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:128722 original size:46 final size:45
Alignment explanation
Indices: 128611--128759 Score: 244
Period size: 45 Copynumber: 3.3 Consensus size: 45
128601 GATGGAAATG
**
128611 TTTGAAAACATCATGCACTGAAGGGGTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
128656 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-T
* * *
128702 TTTGAAAACATCATGCACTGAAGGACTTACAAATGACCCTAAGGC
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
128747 TTTGAAAACATCA
1 TTTGAAAACATCA
128760 AAAAGCTCCC
Statistics
Matches: 98, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
45 55 0.56
46 43 0.44
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.23
Consensus pattern (45 bp):
TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
Found at i:129063 original size:37 final size:36
Alignment explanation
Indices: 129022--129473 Score: 357
Period size: 37 Copynumber: 12.3 Consensus size: 36
129012 AGAAAAACAA
* *
129022 TCTCAAGTGAGATAAAGTTCTGTTTCGAGTGAAACTG
1 TCTCAAGTGAGACAAA-TTTTGTTTCGAGTGAAACTG
* ** ** **
129059 TCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAA
1 TCTCAAGTGAGACAAATTTTGTTTCGAGTGAAACTG
129095 TCTCAAGTGAGACAAATTTTTGTTTCGAGTGAAACTG
1 TCTCAAGTGAGACAAA-TTTTGTTTCGAGTGAAACTG
* * ** ** **
129132 TCTTAAGAGAGACAAATTTTGTTTTAAGAAAAACAA
1 TCTCAAGTGAGACAAATTTTGTTTCGAGTGAAACTG
* *
129168 TCTCAAGTGAGATAAAGTTCTGTTTCGAGTGAAACTG
1 TCTCAAGTGAGACAAA-TTTTGTTTCGAGTGAAACTG
* ** ** **
129205 TCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAA
1 TCTCAAGTGAGACAAATTTTGTTTCGAGTGAAACTG
* *
129241 TGTCAAGTGAGATAAATTTTTGTTTCGAGTGAAACTG
1 TCTCAAGTGAGACAAA-TTTTGTTTCGAGTGAAACTG
* ** ** **
129278 TCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAA
1 TCTCAAGTGAGACAAATTTTGTTTCGAGTGAAACTG
*
129314 TCTCAAGTGAGATAAATTGTTGTTTCGAGTGAAACTG
1 TCTCAAGTGAGACAAATT-TTGTTTCGAGTGAAACTG
* * *
129351 TCTCGAGAGAGACAAAGTTCTGTTTCGAGTGAAACTG
1 TCTCAAGTGAGACAAA-TTTTGTTTCGAGTGAAACTG
* * ** * * *
129388 TCTCGAGTGAGACAAAGTTCTGTTTTAAG-AAAAATAA
1 TCTCAAGTGAGACAAA-TTTTGTTTCGAGTGAAACT-G
* * * *
129425 TCTCAAGTGAGATACATTGTTGTTTCGAGGGAAACTT
1 TCTCAAGTGAGACAAATT-TTGTTTCGAGTGAAACTG
*
129462 TCTCAAGCGAGA
1 TCTCAAGTGAGA
129474 AACAATTTGT
Statistics
Matches: 318, Mismatches: 89, Indels: 16
0.75 0.21 0.04
Matches are distributed among these distances:
36 117 0.37
37 195 0.61
38 6 0.02
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (36 bp):
TCTCAAGTGAGACAAATTTTGTTTCGAGTGAAACTG
Found at i:129103 original size:73 final size:73
Alignment explanation
Indices: 128983--129412 Score: 628
Period size: 73 Copynumber: 5.9 Consensus size: 73
128973 TCAAAATAAT
* *
128983 TGTCTTAAGCGAGACAAATCCTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTTTC
1 TGTCTCAAGCGAGACAAAT-TTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTTTC
129048 GAGTGAAAC
65 GAGTGAAAC
* * *
129057 TGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGACAAATTTTTGTTTCG
1 TGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTTTCG
129122 AGTGAAAC
66 AGTGAAAC
* *
129130 TGTCTTAAGAGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTTTCG
1 TGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTTTCG
129195 AGTGAAAC
66 AGTGAAAC
* * *
129203 TGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATGTCAAGTGAGATAAATTTTTGTTTCG
1 TGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTTTCG
129268 AGTGAAAC
66 AGTGAAAC
*
129276 TGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAA-TTGTTGTTTC
1 TGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTT-CTGTTTC
129340 GAGTGAAAC
65 GAGTGAAAC
* * * ** ** ** * *
129349 TGTCTCGAGAGAGACAAAGTTCTGTTTCGAGTGAAACTGTCTCGAGTGAGACAAAGTTCTGTTT
1 TGTCTCAAGCGAGACAAA-TTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTTT
129413 TAAGAAAAAT
Statistics
Matches: 325, Mismatches: 28, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
72 2 0.01
73 271 0.83
74 50 0.15
75 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (73 bp):
TGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTTTCG
AGTGAAAC
Found at i:129459 original size:74 final size:74
Alignment explanation
Indices: 129371--129512 Score: 198
Period size: 74 Copynumber: 1.9 Consensus size: 74
129361 GACAAAGTTC
* * * * *
129371 TGTTTCGAGTGAAACTGTCTCGAGTGAGACAA-AGTTCTG-TTTTAAGAAAAATAATCTCAAGTG
1 TGTTTCGAGGGAAACTGTCTCAAGCGAGA-AACAATT-TGTTTTTAAGAAAAACAATCTCAAGTG
129434 AGATACATTGT
64 AGATACATTGT
*
129445 TGTTTCGAGGGAAACTTTCTCAAGCGAGAAACAATTTGTTTTTAAGAAAAACAATCTCAAGTGAG
1 TGTTTCGAGGGAAACTGTCTCAAGCGAGAAACAATTTGTTTTTAAGAAAAACAATCTCAAGTGAG
129510 ATA
66 ATA
129513 AATTTCTATT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
73 4 0.07
74 56 0.93
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (74 bp):
TGTTTCGAGGGAAACTGTCTCAAGCGAGAAACAATTTGTTTTTAAGAAAAACAATCTCAAGTGAG
ATACATTGT
Found at i:129503 original size:37 final size:35
Alignment explanation
Indices: 129410--129510 Score: 94
Period size: 37 Copynumber: 2.8 Consensus size: 35
129400 CAAAGTTCTG
* *
129410 TTTTAAGAAAAATAATCTCAAGTGAGATACATTGT
1 TTTTAAGAAAAACAATCTCAAGTGAGAAACATTGT
* ** ** *
129445 TGTTTCGAGGGAAACTTTCTCAAGCGAGAAACAATTTGT
1 T-TTT-AAGAAAAACAATCTCAAGTGAGAAAC-A-TTGT
129484 TTTTAAGAAAAACAATCTCAAGTGAGA
1 TTTTAAGAAAAACAATCTCAAGTGAGA
129511 TAAATTTCTA
Statistics
Matches: 48, Mismatches: 14, Indels: 6
0.71 0.21 0.09
Matches are distributed among these distances:
35 1 0.02
36 3 0.06
37 35 0.73
38 4 0.08
39 5 0.10
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.31
Consensus pattern (35 bp):
TTTTAAGAAAAACAATCTCAAGTGAGAAACATTGT
Found at i:130256 original size:22 final size:22
Alignment explanation
Indices: 130231--130285 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
130221 AATAAAGCTT
130231 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
130253 TCATCTTTTAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
130275 TCATCTTTGAA
1 TCATCTTTGAA
130286 GAGTGTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:136274 original size:16 final size:17
Alignment explanation
Indices: 136253--136295 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
136243 CTTCTCAACT
**
136253 AATTCATTTGGGT-CAA
1 AATTCATTTCAGTACAA
136269 AATTCATTATCAGTACAA
1 AATTCATT-TCAGTACAA
136287 AATTCATTT
1 AATTCATTT
136296 AGCTTTAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 8 0.35
17 4 0.17
18 11 0.48
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (17 bp):
AATTCATTTCAGTACAA
Found at i:136873 original size:14 final size:15
Alignment explanation
Indices: 136856--136890 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
136846 AAAGTATAAT
136856 TGCAAA-ATAAAAAA
1 TGCAAAGATAAAAAA
*
136870 TGCAAAGATGAAAAA
1 TGCAAAGATAAAAAA
136885 TGCAAA
1 TGCAAA
136891 TGTATGTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.63, C:0.09, G:0.14, T:0.14
Consensus pattern (15 bp):
TGCAAAGATAAAAAA
Found at i:139150 original size:3 final size:3
Alignment explanation
Indices: 139142--139193 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
139132 ATATTTATAC
* *
139142 ATA ATA ATA ATA ATA ATA ATA ATA AAA AT- ATA A-A ACA ATA ATTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
*
139186 AAA ATA AT
1 ATA ATA AT
139194 GAAATTAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
2 4 0.10
3 34 0.83
4 3 0.07
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:140418 original size:3 final size:3
Alignment explanation
Indices: 140405--140464 Score: 86
Period size: 3 Copynumber: 20.0 Consensus size: 3
140395 TTGTAATATT
**
140405 TAA TAAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TTT
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
140450 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
140465 ATTTAAATGA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 46 0.90
4 3 0.06
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:141384 original size:57 final size:58
Alignment explanation
Indices: 141290--141403 Score: 140
Period size: 57 Copynumber: 2.0 Consensus size: 58
141280 ATATAAATTT
* *
141290 TCTCCGACTATAAAGTGTTATTTTATCAAATCTTACAATTAATAAATGTTACAAAATGA
1 TCTCCGAC-ATAAAGTGTTATTTTATCAAATCCTACAATTAATAAAAGTTACAAAATGA
* * ** * *
141349 TCTCCGAC-TAAGGTGTTGTTTTATTGAATCCTACAATTATTAAAAGTTATAAAAT
1 TCTCCGACATAAAGTGTTATTTTATCAAATCCTACAATTAATAAAAGTTACAAAAT
141404 AGTCACTCGA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
57 39 0.83
59 8 0.17
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.39
Consensus pattern (58 bp):
TCTCCGACATAAAGTGTTATTTTATCAAATCCTACAATTAATAAAAGTTACAAAATGA
Done.