Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 29 of 125
Found at i:5514031 original size:18 final size:19
Alignment explanation
Indices: 5514002--5514037 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
5513992 TATTATTCAA
5514002 TTAATTTAAATTAATAAAT
1 TTAATTTAAATTAATAAAT
5514021 TTAATTT-AATTAATAAA
1 TTAATTTAAATTAATAAA
5514038 AATTTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAATTTAAATTAATAAAT
Found at i:5514068 original size:27 final size:26
Alignment explanation
Indices: 5513963--5514069 Score: 91
Period size: 26 Copynumber: 4.1 Consensus size: 26
5513953 AATATAAAAA
5513963 TTTTAATTTTAATTTAATTTAAAT-AT
1 TTTTAA-TTTAATTTAATTTAAATAAT
*
5513989 TTTTATTATTCAA-TTAATTTAAATTAA-
1 TTTTA--ATTTAATTTAATTTAAA-TAAT
*
5514016 --TAAATTTAATTTAATTAATAAA-AAT
1 TTTTAATTTAATTTAATT--TAAATAAT
5514041 TTTTAATTTAATTTAATTTTAAATAAT
1 TTTTAATTTAATTTAA-TTTAAATAAT
5514068 TT
1 TT
5514070 AATTTGAAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 23
0.71 0.04 0.25
Matches are distributed among these distances:
23 5 0.08
24 8 0.12
25 2 0.03
26 23 0.35
27 23 0.35
28 4 0.06
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (26 bp):
TTTTAATTTAATTTAATTTAAATAAT
Found at i:5514069 original size:15 final size:15
Alignment explanation
Indices: 5514049--5514079 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5514039 ATTTTTAATT
*
5514049 TAATTTAATTTTAAA
1 TAATTTAATTTGAAA
5514064 TAATTTAATTTGAAA
1 TAATTTAATTTGAAA
5514079 T
1 T
5514080 TGATGAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
TAATTTAATTTGAAA
Found at i:5514620 original size:19 final size:19
Alignment explanation
Indices: 5514593--5514630 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
5514583 GTGAGAAAAA
5514593 AATTAAAAATTATAATATT
1 AATTAAAAATTATAATATT
*
5514612 AATTTAAAATTATAATATT
1 AATTAAAAATTATAATATT
5514631 TGTTTTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTAAAAATTATAATATT
Found at i:5514663 original size:22 final size:22
Alignment explanation
Indices: 5514633--5514674 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
5514623 ATAATATTTG
5514633 TTTTGATTTGAATCAAATTTTTA
1 TTTTGATTTGAATC-AATTTTTA
*
5514656 TTTT-ATTTTAATCAATTTT
1 TTTTGATTTGAATCAATTTT
5514675 AAATATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 8 0.44
23 4 0.22
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (22 bp):
TTTTGATTTGAATCAATTTTTA
Found at i:5514872 original size:19 final size:17
Alignment explanation
Indices: 5514848--5514883 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
5514838 TAATTTTTAT
5514848 ATTAAAATAATATATAAAA
1 ATTAAAA-AATA-ATAAAA
5514867 ATTAAAAAATAATAAAA
1 ATTAAAAAATAATAAAA
5514884 CTCAATTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 4 0.24
19 7 0.41
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
ATTAAAAAATAATAAAA
Found at i:5514900 original size:19 final size:20
Alignment explanation
Indices: 5514876--5514915 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
5514866 AATTAAAAAA
5514876 TAATAAAACTCAATT-GAAT
1 TAATAAAACTCAATTCGAAT
*
5514895 TAATAAAATTCAATTCGAAT
1 TAATAAAACTCAATTCGAAT
5514915 T
1 T
5514916 TGAATCGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (20 bp):
TAATAAAACTCAATTCGAAT
Found at i:5515073 original size:15 final size:15
Alignment explanation
Indices: 5515053--5515106 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
5515043 TATTTTAATT
5515053 ATTTTAATCAATTTA
1 ATTTTAATCAATTTA
*
5515068 ATTTTAA-AACATTTA
1 ATTTTAATCA-ATTTA
*
5515083 TTATTTTAATCAATTCA
1 --ATTTTAATCAATTTA
5515100 ATTTTAA
1 ATTTTAA
5515107 AACATTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 1 0.03
15 19 0.59
17 11 0.34
18 1 0.03
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTTTAATCAATTTA
Found at i:5515089 original size:32 final size:32
Alignment explanation
Indices: 5515050--5515116 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
5515040 AATTATTTTA
*
5515050 ATTATTTTAATCAATTTAATTTTAAAACATTT
1 ATTATTTTAATCAATTCAATTTTAAAACATTT
5515082 ATTATTTTAATCAATTCAATTTTAAAACATTT
1 ATTATTTTAATCAATTCAATTTTAAAACATTT
5515114 ATT
1 ATT
5515117 GTCATCGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (32 bp):
ATTATTTTAATCAATTCAATTTTAAAACATTT
Found at i:5515090 original size:17 final size:17
Alignment explanation
Indices: 5515068--5515116 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 17
5515058 AATCAATTTA
5515068 ATTTTAAAACATTTATT
1 ATTTTAAAACATTTATT
* *
5515085 ATTTT-AATCAATTCA--
1 ATTTTAAAAC-ATTTATT
5515100 ATTTTAAAACATTTATT
1 ATTTTAAAACATTTATT
5515117 GTCATCGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 8
0.67 0.11 0.22
Matches are distributed among these distances:
15 9 0.38
16 6 0.25
17 9 0.38
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTTAAAACATTTATT
Found at i:5517466 original size:15 final size:16
Alignment explanation
Indices: 5517446--5517477 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
5517436 TTTAAAAATT
5517446 TATAAT-AAAATATAA
1 TATAATAAAAATATAA
5517461 TATAATAAAAATATAA
1 TATAATAAAAATATAA
5517477 T
1 T
5517478 TAAATTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TATAATAAAAATATAA
Found at i:5517783 original size:20 final size:20
Alignment explanation
Indices: 5517760--5517797 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5517750 TATTAGATAA
5517760 AATATTAAAATTTATATATT
1 AATATTAAAATTTATATATT
* *
5517780 AATATTATATTTTATATA
1 AATATTAAAATTTATATA
5517798 AAAATTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AATATTAAAATTTATATATT
Found at i:5517804 original size:18 final size:18
Alignment explanation
Indices: 5517769--5517813 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
5517759 AAATATTAAA
* *
5517769 ATTTATATATTAATATTAT
1 ATTT-TATATAAAAATTAT
5517788 ATTTTATATAAAAATTAT
1 ATTTTATATAAAAATTAT
*
5517806 ATATTATA
1 ATTTTATA
5517814 AATTATGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTATATAAAAATTAT
Found at i:5517819 original size:25 final size:24
Alignment explanation
Indices: 5517777--5517824 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
5517767 AAATTTATAT
**
5517777 ATTAATATTATATTTTATATAAAA
1 ATTAATATTATAAATTATATAAAA
*
5517801 ATTATATATTATAAATTATGTAAA
1 ATTA-ATATTATAAATTATATAAA
5517825 TATAAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTAATATTATAAATTATATAAAA
Found at i:5518984 original size:21 final size:21
Alignment explanation
Indices: 5518942--5518990 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
5518932 ATGATATAAA
* **
5518942 AAATATAAAAAAATAATGAAT
1 AAATTTAAAAAAATAAAAAAT
*
5518963 AAATTTAATAAAATAAAAAAT
1 AAATTTAAAAAAATAAAAAAT
*
5518984 ATATTTA
1 AAATTTA
5518991 TATTAACATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
AAATTTAAAAAAATAAAAAAT
Found at i:5519044 original size:13 final size:12
Alignment explanation
Indices: 5518998--5519046 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 12
5518988 TTATATTAAC
5518998 ATAAATTATAAT
1 ATAAATTATAAT
* *
5519010 ATATAATTTTCAT
1 ATA-AATTATAAT
*
5519023 ATAAAATATAAT
1 ATAAATTATAAT
5519035 ATAAATATATAA
1 ATAAAT-TATAA
5519047 ATTTTTAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
12 14 0.48
13 15 0.52
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (12 bp):
ATAAATTATAAT
Found at i:5525443 original size:22 final size:22
Alignment explanation
Indices: 5525418--5525461 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
5525408 ATTTTTTGTC
5525418 CTTAATTCTA-AGGATACAAATA
1 CTTAATTCTAGA-GATACAAATA
5525440 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
5525462 TAAATATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:5533834 original size:6 final size:6
Alignment explanation
Indices: 5533827--5533861 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
5533817 CAACTGCTTA
*
5533827 TATATA TATATG TATATG TATATG TATATG TATAT
1 TATATG TATATG TATATG TATATG TATATG TATAT
5533862 ATTCCTCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:5543739 original size:14 final size:15
Alignment explanation
Indices: 5543712--5543740 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5543702 AGTGGAAGTA
5543712 GGAAAGACGTGGTTT
1 GGAAAGACGTGGTTT
5543727 GGAAAGA-GTGGTTT
1 GGAAAGACGTGGTTT
5543741 TCGAGGATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.28, C:0.03, G:0.41, T:0.28
Consensus pattern (15 bp):
GGAAAGACGTGGTTT
Found at i:5547671 original size:12 final size:12
Alignment explanation
Indices: 5547646--5547707 Score: 79
Period size: 12 Copynumber: 5.2 Consensus size: 12
5547636 GTCTTCCTCG
* *
5547646 TCCTCCTCTTCT
1 TCCTCTTCTACT
*
5547658 TCCTCTTCAACT
1 TCCTCTTCTACT
5547670 TCCTCTTCTACT
1 TCCTCTTCTACT
*
5547682 TCTTCTTCTACT
1 TCCTCTTCTACT
*
5547694 TCCTCTTCCACT
1 TCCTCTTCTACT
5547706 TC
1 TC
5547708 TTGTAGTTGC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.08, C:0.44, G:0.00, T:0.48
Consensus pattern (12 bp):
TCCTCTTCTACT
Found at i:5555426 original size:2 final size:2
Alignment explanation
Indices: 5555419--5555457 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
5555409 GGAACTCTTA
5555419 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5555458 AAAGAGGACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5569648 original size:10 final size:10
Alignment explanation
Indices: 5569633--5569657 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
5569623 AGTCAAAATA
5569633 ATATTTTAAT
1 ATATTTTAAT
5569643 ATATTTTAAT
1 ATATTTTAAT
5569653 ATATT
1 ATATT
5569658 ATATAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
ATATTTTAAT
Found at i:5569978 original size:23 final size:24
Alignment explanation
Indices: 5569931--5569980 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
5569921 TTATAGTTAT
*
5569931 TTTTATATTTATATTTAATAAATA
1 TTTTAAATTTATATTTAATAAATA
*
5569955 TTTTAAATTTAT-TTTTATAAATA
1 TTTTAAATTTATATTTAATAAATA
5569978 TTT
1 TTT
5569981 AATAGGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTAAATTTATATTTAATAAATA
Found at i:5570066 original size:17 final size:17
Alignment explanation
Indices: 5570046--5570090 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
5570036 AATTTATTTT
*
5570046 TTTATTTATTTTATATA
1 TTTATATATTTTATATA
*
5570063 TTTATATATTTTTTATA
1 TTTATATATTTTATATA
**
5570080 AATATATATTT
1 TTTATATATTT
5570091 AAATACAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATATATTTTATATA
Found at i:5570708 original size:23 final size:22
Alignment explanation
Indices: 5570649--5570708 Score: 52
Period size: 22 Copynumber: 2.7 Consensus size: 22
5570639 ATTATTTAAT
*
5570649 ATATTATCATAG-AATTTAAAA
1 ATATTATCATAGAAAATTAAAA
* * *
5570670 AAATTTTCCA-ACAAAATTAAAA
1 ATATTAT-CATAGAAAATTAAAA
5570692 ATATTATCTATAGAAAA
1 ATATTATC-ATAGAAAA
5570709 AAAATATTAA
Statistics
Matches: 28, Mismatches: 7, Indels: 6
0.68 0.17 0.15
Matches are distributed among these distances:
21 7 0.25
22 16 0.57
23 5 0.18
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.33
Consensus pattern (22 bp):
ATATTATCATAGAAAATTAAAA
Found at i:5585374 original size:12 final size:12
Alignment explanation
Indices: 5585322--5585387 Score: 59
Period size: 12 Copynumber: 5.6 Consensus size: 12
5585312 ATATTTTGAT
5585322 ATTTAAATATTTA
1 ATTTAAA-ATTTA
*
5585335 ATTAAATAATCTT-
1 ATTTAA-AAT-TTA
5585348 ATTT--AATTT-
1 ATTTAAAATTTA
5585357 ATTTAAAATTTA
1 ATTTAAAATTTA
*
5585369 ATTTAAAATATA
1 ATTTAAAATTTA
5585381 ATTTAAA
1 ATTTAAA
5585388 TTAAATATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
9 6 0.13
10 3 0.07
11 5 0.11
12 18 0.40
13 10 0.22
14 3 0.07
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTTAAAATTTA
Found at i:5585385 original size:17 final size:16
Alignment explanation
Indices: 5585363--5585400 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
5585353 ATTTATTTAA
*
5585363 AATTTAATTTAAAATAT
1 AATTTAAATT-AAATAT
5585380 AATTTAAATTAAATAT
1 AATTTAAATTAAATAT
5585396 -ATTTA
1 AATTTA
5585401 TTTTTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 6 0.30
17 9 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTTAAATTAAATAT
Found at i:5585534 original size:28 final size:29
Alignment explanation
Indices: 5585464--5585534 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 29
5585454 TAATTTTTAA
5585464 AATTTATAAATTCAATTTGATTAATAAAAAT
1 AATTTA-AAATT-AATTTGATTAATAAAAAT
* * **
5585495 AATTT-AATTTAATTTGATT-TTAAATTT
1 AATTTAAAATTAATTTGATTAATAAAAAT
5585522 AATTTAAAATTAA
1 AATTTAAAATTAA
5585535 ATCGTAAACA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
27 10 0.29
28 15 0.44
29 4 0.12
31 5 0.15
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (29 bp):
AATTTAAAATTAATTTGATTAATAAAAAT
Found at i:5587180 original size:71 final size:70
Alignment explanation
Indices: 5587059--5587201 Score: 259
Period size: 71 Copynumber: 2.0 Consensus size: 70
5587049 TGTTAGAATT
*
5587059 AGGTTAAGGTCTTAATTTAGACTTAGATTTTGGACTTACAATATATTTTTATTATTTTTTTGTTT
1 AGGTTAAGGTCTTAATTTAGACTTAGATTTTGGACTTACAATATAATTTTATT-TTTTTTTGTTT
5587124 TATTAG
65 TATTAG
*
5587130 AGGTTAAGGTCTTAATTTAGACTTAGATTTTGGACTTATAATATAATTTTATTTTTTTTTGTTTT
1 AGGTTAAGGTCTTAATTTAGACTTAGATTTTGGACTTACAATATAATTTTATTTTTTTTTGTTTT
5587195 ATTAG
66 ATTAG
5587200 AG
1 AG
5587202 TTTCAATTAA
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
70 19 0.27
71 51 0.73
ACGTcount: A:0.27, C:0.05, G:0.15, T:0.53
Consensus pattern (70 bp):
AGGTTAAGGTCTTAATTTAGACTTAGATTTTGGACTTACAATATAATTTTATTTTTTTTTGTTTT
ATTAG
Found at i:5601515 original size:19 final size:20
Alignment explanation
Indices: 5601493--5601535 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
5601483 TAATTTTATA
* *
5601493 TTTACA-TTAAAATTAATTT
1 TTTACATTTAAAAATAATAT
*
5601512 TTTATATTTAAAAATAATAT
1 TTTACATTTAAAAATAATAT
5601532 TTTA
1 TTTA
5601536 TTAATTTTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTACATTTAAAAATAATAT
Found at i:5601542 original size:22 final size:20
Alignment explanation
Indices: 5601499--5601536 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5601489 TATATTTACA
* *
5601499 TTAAAATTAATTTTTTATAT
1 TTAAAAATAATATTTTATAT
5601519 TTAAAAATAATATTTTAT
1 TTAAAAATAATATTTTAT
5601537 TAATTTTAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTAAAAATAATATTTTATAT
Found at i:5603090 original size:16 final size:18
Alignment explanation
Indices: 5603069--5603107 Score: 64
Period size: 16 Copynumber: 2.3 Consensus size: 18
5603059 GATTTATTGA
5603069 TTTTTAATTTTTA-AT-T
1 TTTTTAATTTTTATATGT
5603085 TTTTTAATTTTTATATGT
1 TTTTTAATTTTTATATGT
5603103 TTTTT
1 TTTTT
5603108 TTATATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 13 0.62
17 2 0.10
18 6 0.29
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTTTAATTTTTATATGT
Found at i:5606869 original size:36 final size:33
Alignment explanation
Indices: 5606801--5606866 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
5606791 GATGAGATTA
* *
5606801 ATTATGATTAAATTAAAAATAGTAATAAAAATT
1 ATTATAATTAAATTAAAAAAAGTAATAAAAATT
*
5606834 ATTATAATTATAATTAAAAAAATTCAATAAAAA
1 ATTATAATTA-AATTAAAAAAAGT-AATAAAAA
5606867 ATTCATACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 9 0.32
34 11 0.39
35 8 0.29
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.35
Consensus pattern (33 bp):
ATTATAATTAAATTAAAAAAAGTAATAAAAATT
Found at i:5607680 original size:30 final size:30
Alignment explanation
Indices: 5607617--5607692 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
5607607 ATGTAACATC
* *
5607617 AATAAAATAGATAAAAATTTAATTAAATTAA
1 AATAAAATA-TTAAAAATTTAATTAAATCAA
*
5607648 AATTAAAA-ATTAAAAAGTTTAATT-GATCAA
1 AA-TAAAATATTAAAAA-TTTAATTAAATCAA
5607678 AATAAAATATTAAAA
1 AATAAAATATTAAAA
5607693 TTTTTCAAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
29 5 0.13
30 19 0.49
31 10 0.26
32 5 0.13
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (30 bp):
AATAAAATATTAAAAATTTAATTAAATCAA
Found at i:5613533 original size:19 final size:19
Alignment explanation
Indices: 5613511--5613547 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5613501 ACTATATAAA
5613511 AATTTAAAATTTAAAATTT
1 AATTTAAAATTTAAAATTT
**
5613530 AATTTAATTTTTAAAATT
1 AATTTAAAATTTAAAATT
5613548 AATAAATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AATTTAAAATTTAAAATTT
Found at i:5613623 original size:15 final size:16
Alignment explanation
Indices: 5613591--5613628 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
5613581 ATATAATTTG
**
5613591 ATTAATTTAATTTTAA
1 ATTAATTTAATTCAAA
5613607 A-TAATTTAATTCAAA
1 ATTAATTTAATTCAAA
5613622 ATTAATT
1 ATTAATT
5613629 GAATCTGTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTAATTTAATTCAAA
Found at i:5614054 original size:26 final size:26
Alignment explanation
Indices: 5614002--5614052 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
5613992 CAACCTCTTT
5614002 TAATATAATTAAAAATTATATATAAA
1 TAATATAATTAAAAATTATATATAAA
* *
5614028 TAATATAATTTAAAATTTTA-ATAAA
1 TAATATAATTAAAAATTATATATAAA
5614053 ATTATTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
TAATATAATTAAAAATTATATATAAA
Found at i:5614076 original size:22 final size:21
Alignment explanation
Indices: 5614026--5614079 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
5614016 ATTATATATA
* *
5614026 AATAATATAATTTAAAATTTT
1 AATAAAATTATTTAAAATTTT
5614047 AATAAAATTATTTATAAA-TTT
1 AATAAAATTATTTA-AAATTTT
5614068 AATATAAATTAT
1 AATA-AAATTAT
5614080 ATATTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AATAAAATTATTTAAAATTTT
Found at i:5614964 original size:19 final size:20
Alignment explanation
Indices: 5614942--5614981 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
5614932 TAAATTTATC
5614942 TTAAATT-AAAAAATAAATT
1 TTAAATTCAAAAAATAAATT
* *
5614961 TTAAATTCAACAATTAAATT
1 TTAAATTCAAAAAATAAATT
5614981 T
1 T
5614982 AATTTATGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (20 bp):
TTAAATTCAAAAAATAAATT
Found at i:5615189 original size:13 final size:12
Alignment explanation
Indices: 5615175--5615219 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 12
5615165 TTTAAAAAAT
5615175 TTTAAATTTTTA
1 TTTAAATTTTTA
5615187 TTTAAA-TTTT-
1 TTTAAATTTTTA
*
5615197 TTTAAATTTTGA
1 TTTAAATTTTTA
*
5615209 -ATAAATTTTTA
1 TTTAAATTTTTA
5615220 AATTTAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
10 6 0.21
11 16 0.57
12 6 0.21
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (12 bp):
TTTAAATTTTTA
Found at i:5615190 original size:22 final size:22
Alignment explanation
Indices: 5615165--5615206 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
5615155 GTTTAATTAT
5615165 TTTAAAAAATTTTAAATTTTTA
1 TTTAAAAAATTTTAAATTTTTA
***
5615187 TTTAAATTTTTTTAAATTTT
1 TTTAAAAAATTTTAAATTTT
5615207 GAATAAATTT
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:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTAAAAAATTTTAAATTTTTA
Found at i:5615218 original size:22 final size:22
Alignment explanation
Indices: 5615174--5615218 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
5615164 TTTTAAAAAA
* *
5615174 TTTTAAATTTTTATTTAAATTT
1 TTTTAAATTTTGATATAAATTT
5615196 TTTTAAATTTTGA-ATAAATTT
1 TTTTAAATTTTGATATAAATTT
5615217 TT
1 TT
5615219 AAATTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTTAAATTTTGATATAAATTT
Found at i:5617040 original size:19 final size:20
Alignment explanation
Indices: 5617018--5617056 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
5617008 ATTTGTAAAA
*
5617018 TTTAAATTTTGTAAT-TTTT
1 TTTAAATTTTATAATATTTT
*
5617037 TTTAATTTTTATAATATTTT
1 TTTAAATTTTATAATATTTT
5617057 AATATTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (20 bp):
TTTAAATTTTATAATATTTT
Found at i:5617167 original size:20 final size:22
Alignment explanation
Indices: 5617127--5617167 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
5617117 TTACACTAAA
5617127 ATAATATTAAACGTAATAATTC
1 ATAATATTAAACGTAATAATTC
*
5617149 ATAAT-TTAGACGT-ATAATT
1 ATAATATTAAACGTAATAATT
5617168 AAGATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (22 bp):
ATAATATTAAACGTAATAATTC
Found at i:5617639 original size:17 final size:17
Alignment explanation
Indices: 5617619--5617653 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
5617609 TGTGATATTA
5617619 ATTTTCATTTAATATAT
1 ATTTTCATTTAATATAT
* *
5617636 ATTTTTATTTAATCTAT
1 ATTTTCATTTAATATAT
5617653 A
1 A
5617654 GATGTATTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTCATTTAATATAT
Found at i:5618527 original size:12 final size:12
Alignment explanation
Indices: 5618510--5618534 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5618500 TTAGTGAGTG
5618510 ATTCACAATGCA
1 ATTCACAATGCA
5618522 ATTCACAATGCA
1 ATTCACAATGCA
5618534 A
1 A
5618535 AAAGATGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.24, G:0.08, T:0.24
Consensus pattern (12 bp):
ATTCACAATGCA
Found at i:5619285 original size:2 final size:2
Alignment explanation
Indices: 5619278--5619304 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5619268 ATAGTTGAAT
5619278 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
5619305 GGAGAGTCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5636134 original size:13 final size:12
Alignment explanation
Indices: 5636110--5636153 Score: 54
Period size: 13 Copynumber: 3.7 Consensus size: 12
5636100 TTAGATTTAG
*
5636110 TAATTTAAAATA
1 TAATATAAAATA
5636122 TAATATGAAAATA
1 TAATAT-AAAATA
*
5636135 AAATATAAAA-A
1 TAATATAAAATA
5636146 TAATATAA
1 TAATATAA
5636154 TAATTGTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 8 0.29
12 9 0.32
13 11 0.39
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (12 bp):
TAATATAAAATA
Found at i:5636174 original size:23 final size:22
Alignment explanation
Indices: 5636139--5636189 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
5636129 AAAATAAAAT
5636139 ATAAAAATAATATA-ATAATTGTA
1 ATAAAAATAATATATA-AATT-TA
* *
5636162 ATAATAATTATATATAAATTTA
1 ATAAAAATAATATATAAATTTA
5636184 ATAAAA
1 ATAAAA
5636190 TAAAAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 7 0.29
23 16 0.67
24 1 0.04
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
ATAAAAATAATATATAAATTTA
Found at i:5636251 original size:11 final size:12
Alignment explanation
Indices: 5636221--5636265 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
5636211 TTTCATACAG
5636221 ATATAAATTATA
1 ATATAAATTATA
*
5636233 ACATATAATT-TA
1 ATATA-AATTATA
5636245 TATATAAATTATA
1 -ATATAAATTATA
5636258 ATATAAAT
1 ATATAAAT
5636266 ATATGAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 18 0.64
13 10 0.36
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATAAATTATA
Found at i:5636261 original size:14 final size:14
Alignment explanation
Indices: 5636221--5636262 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
5636211 TTTCATACAG
*
5636221 ATATAAATTATAAC
1 ATATAAATTATAAT
5636235 ATAT-AATT-T-AT
1 ATATAAATTATAAT
5636246 ATATAAATTATAAT
1 ATATAAATTATAAT
5636260 ATA
1 ATA
5636263 AATATATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
11 5 0.21
12 5 0.21
13 5 0.21
14 9 0.38
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (14 bp):
ATATAAATTATAAT
Found at i:5636267 original size:18 final size:18
Alignment explanation
Indices: 5636221--5636268 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
5636211 TTTCATACAG
5636221 ATATAAATTATAACATATA
1 ATATAAA-TATAACATATA
* *
5636240 ATTTATATATAA-ATTATA
1 ATATAAATATAACA-TATA
5636258 ATATAAATATA
1 ATATAAATATA
5636269 TGAATTTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 1 0.04
18 18 0.75
19 5 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATAAATATAACATATA
Found at i:5636269 original size:20 final size:21
Alignment explanation
Indices: 5636221--5636281 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 21
5636211 TTTCATACAG
5636221 ATATAAATTATAACATATAATTTAT
1 ATATAAATTAT-A-ATATAA--TAT
5636246 ATATAAATTATAATATAA-AT
1 ATATAAATTATAATATAATAT
* *
5636266 ATATGAATTTTAATAT
1 ATATAAATTATAATAT
5636282 TTTGTATGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 16 0.47
23 6 0.18
24 1 0.03
25 11 0.32
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
ATATAAATTATAATATAATAT
Found at i:5639637 original size:2 final size:2
Alignment explanation
Indices: 5639630--5639663 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
5639620 TACTTGTGGG
5639630 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5639664 ATACAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5641061 original size:12 final size:13
Alignment explanation
Indices: 5641044--5641072 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
5641034 TTTGTTGAAC
5641044 TTAATGTCTAAA-
1 TTAATGTCTAAAG
5641056 TTAATGTCTAAAG
1 TTAATGTCTAAAG
5641069 TTAA
1 TTAA
5641073 GTTCTTACGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (13 bp):
TTAATGTCTAAAG
Found at i:5654132 original size:23 final size:23
Alignment explanation
Indices: 5654062--5654132 Score: 54
Period size: 23 Copynumber: 3.1 Consensus size: 23
5654052 ATATTTTATT
* * *
5654062 TTTTGATATTAAAAATAATAAAA
1 TTTTAATATTAAATATATTAAAA
* * * **
5654085 CTTTAAT-TTATAATTTTTTTTAA
1 TTTTAATATTA-AATATATTAAAA
5654108 TTTTAATATTAAATATATTAAAA
1 TTTTAATATTAAATATATTAAAA
5654131 TT
1 TT
5654133 AAAATTTTCT
Statistics
Matches: 33, Mismatches: 13, Indels: 4
0.66 0.26 0.08
Matches are distributed among these distances:
22 3 0.09
23 27 0.82
24 3 0.09
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (23 bp):
TTTTAATATTAAATATATTAAAA
Found at i:5654453 original size:12 final size:14
Alignment explanation
Indices: 5654436--5654494 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 14
5654426 TAAAAATTTT
5654436 TTTAATTA-AT-TA
1 TTTAATTATATATA
5654448 TTTAATTATATATA
1 TTTAATTATATATA
* *
5654462 TTTATATAATAATATT
1 TTTA-ATTAT-ATATA
* *
5654478 TTTAAATATTTATA
1 TTTAATTATATATA
5654492 TTT
1 TTT
5654495 TAAAAAATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
12 8 0.22
13 2 0.05
14 12 0.32
15 7 0.19
16 8 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTAATTATATATA
Found at i:5654481 original size:16 final size:16
Alignment explanation
Indices: 5654457--5654510 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
5654447 ATTTAATTAT
* *
5654457 ATATATTTATATAATA
1 ATATTTTTAAATAATA
* *
5654473 ATATTTTTAAATATTT
1 ATATTTTTAAATAATA
*
5654489 ATA-TTTTAAAAAATA
1 ATATTTTTAAATAATA
5654504 ATATTTT
1 ATATTTT
5654511 ATTAATTTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
15 12 0.40
16 18 0.60
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATATTTTTAAATAATA
Found at i:5654492 original size:30 final size:31
Alignment explanation
Indices: 5654448--5654510 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
5654438 TAATTAATTA
* * *
5654448 TTTAATTATATATA-TTTATATAATAATATT
1 TTTAAATATATATATTTTAAAAAATAATATT
*
5654478 TTTAAATATTTATATTTTAAAAAATAATATT
1 TTTAAATATATATATTTTAAAAAATAATATT
5654509 TT
1 TT
5654511 ATTAATTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (31 bp):
TTTAAATATATATATTTTAAAAAATAATATT
Found at i:5654507 original size:15 final size:15
Alignment explanation
Indices: 5654469--5654511 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
5654459 ATATTTATAT
*
5654469 AATAATATTTTTAAAT
1 AATAATA-TTTTAAAA
* *
5654485 ATTTATATTTTAAAA
1 AATAATATTTTAAAA
5654500 AATAATATTTTA
1 AATAATATTTTA
5654512 TTAATTTTAG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
AATAATATTTTAAAA
Found at i:5666902 original size:64 final size:64
Alignment explanation
Indices: 5666814--5666940 Score: 191
Period size: 64 Copynumber: 2.0 Consensus size: 64
5666804 CTTCATTGCA
* * * **
5666814 TGTTTGAATATTTGTCTTGGTTGATTGTGAAAGCCCCATTAACTTTTTCTTGCTTTTCTTCTTC
1 TGTTTGAATATTTGACTTGATTGATTGTGAAAGCACCATTAACTTTTTCTTGCTCCTCTTCTTC
* *
5666878 TGTTTGAATATTTGACTTGATTGATTGTGAACGCACCATTATCTTTTTCTTGCTCCTCTTCTT
1 TGTTTGAATATTTGACTTGATTGATTGTGAAAGCACCATTAACTTTTTCTTGCTCCTCTTCTT
5666941 TATCATCATG
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.17, C:0.18, G:0.15, T:0.50
Consensus pattern (64 bp):
TGTTTGAATATTTGACTTGATTGATTGTGAAAGCACCATTAACTTTTTCTTGCTCCTCTTCTTC
Found at i:5668063 original size:16 final size:17
Alignment explanation
Indices: 5668042--5668073 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
5668032 AAATATGTTT
5668042 TTAAATTT-AATAAAAA
1 TTAAATTTAAATAAAAA
5668058 TTAAATTTAAATAAAA
1 TTAAATTTAAATAAAA
5668074 TTTTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAATTTAAATAAAAA
Found at i:5668648 original size:16 final size:16
Alignment explanation
Indices: 5668627--5668658 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
5668617 ATATTTTTAA
5668627 AATAAAAAATATATAT
1 AATAAAAAATATATAT
5668643 AATAAAAAATATATAT
1 AATAAAAAATATATAT
5668659 TATCAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AATAAAAAATATATAT
Found at i:5679258 original size:19 final size:20
Alignment explanation
Indices: 5679221--5679259 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
5679211 TTTGACAGCT
* *
5679221 TTTTAAAATATGGTTTAAAA
1 TTTTAAAATATGATATAAAA
5679241 TTTT-AAATATGATATAAAA
1 TTTTAAAATATGATATAAAA
5679260 ATATAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (20 bp):
TTTTAAAATATGATATAAAA
Found at i:5683957 original size:12 final size:12
Alignment explanation
Indices: 5683937--5683974 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
5683927 AATTTTAGGC
*
5683937 AATAATAATAAT
1 AATATTAATAAT
5683949 AATATTAATAAT
1 AATATTAATAAT
*
5683961 AGTATTAATAAT
1 AATATTAATAAT
5683973 AA
1 AA
5683975 AGTGTCCAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (12 bp):
AATATTAATAAT
Found at i:5685062 original size:30 final size:29
Alignment explanation
Indices: 5685028--5685086 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
5685018 TTTATATAAA
5685028 AATTTTA-TATAATATAAAATATAATTTTTT
1 AATTTTATTA-AATAT-AAATATAATTTTTT
**
5685058 AATTTTATTAAATATATTTATAATTTTTT
1 AATTTTATTAAATATAAATATAATTTTTT
5685087 TAAAAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 12 0.46
30 12 0.46
31 2 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (29 bp):
AATTTTATTAAATATAAATATAATTTTTT
Found at i:5685083 original size:21 final size:20
Alignment explanation
Indices: 5685050--5685107 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
5685040 TATAAAATAT
*
5685050 AATTTTTTAATTTTATTAAA
1 AATTTTATAATTTTATTAAA
* *
5685070 TATATTTATAATTTTTTTAAA
1 AAT-TTTATAATTTTATTAAA
*
5685091 AATTTTA-AATTATATTA
1 AATTTTATAATTTTATTA
5685108 TTTTCGTATT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 8 0.26
20 6 0.19
21 17 0.55
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
AATTTTATAATTTTATTAAA
Found at i:5686345 original size:11 final size:12
Alignment explanation
Indices: 5686331--5686359 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
5686321 AAATGTATAT
5686331 ATTAAA-TTTAA
1 ATTAAATTTTAA
5686342 ATTAAATTTTAA
1 ATTAAATTTTAA
5686354 ATTAAA
1 ATTAAA
5686360 ATATAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
ATTAAATTTTAA
Found at i:5693703 original size:23 final size:24
Alignment explanation
Indices: 5693677--5693732 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
5693667 TTAAGCAACT
*
5693677 AAAATCATTATTAAATAA-AAAT-A
1 AAAATCATTAATAAA-AACAAATAA
*
5693700 AAAATTA-TAATAAAAACAAATAA
1 AAAATCATTAATAAAAACAAATAA
5693723 AAAATCATTA
1 AAAATCATTA
5693733 CTGTTAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 2 0.07
22 10 0.37
23 13 0.48
24 2 0.07
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (24 bp):
AAAATCATTAATAAAAACAAATAA
Found at i:5694781 original size:27 final size:28
Alignment explanation
Indices: 5694748--5694802 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
5694738 TAAAAGAAAT
*
5694748 TTAATTTTAATATA-TTTAATATTAAAA
1 TTAATTTTAATAAATTTTAATATTAAAA
* *
5694775 TTAATTTTTATAAATTTTAATGTTAAAA
1 TTAATTTTAATAAATTTTAATATTAAAA
5694803 AATTAAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (28 bp):
TTAATTTTAATAAATTTTAATATTAAAA
Found at i:5694783 original size:28 final size:27
Alignment explanation
Indices: 5694748--5694802 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
5694738 TAAAAGAAAT
*
5694748 TTAATTTTA-ATATATTTAATATTAAAA
1 TTAATTTTATAAAT-TTTAATATTAAAA
*
5694775 TTAATTTTTATAAATTTTAATGTTAAAA
1 TTAA-TTTTATAAATTTTAATATTAAAA
5694803 AATTAAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.17
28 17 0.71
29 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
TTAATTTTATAAATTTTAATATTAAAA
Found at i:5694890 original size:23 final size:23
Alignment explanation
Indices: 5694820--5694884 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
5694810 AGAAATCATG
*
5694820 AAATATAATTTCAAAATA-TAAA
1 AAATATAATTTTAAAATATTAAA
* *
5694842 AAATAAAAATTTT-AAATGTTAAA
1 AAAT-ATAATTTTAAAATATTAAA
5694865 AAATATAATTTTAAAATATT
1 AAATATAATTTTAAAATATT
5694885 CCAAAAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
22 15 0.43
23 20 0.57
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (23 bp):
AAATATAATTTTAAAATATTAAA
Found at i:5696452 original size:27 final size:27
Alignment explanation
Indices: 5696421--5696477 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
5696411 ATATTATTTG
*
5696421 ATTAAT-TATTAAATATAAAATTTTAAA
1 ATTAATATATAAAAT-TAAAATTTTAAA
*
5696448 ATTAATATATAAAATTAAATTTTTAAA
1 ATTAATATATAAAATTAAAATTTTAAA
5696475 ATT
1 ATT
5696478 TTTTTTCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
ATTAATATATAAAATTAAAATTTTAAA
Found at i:5696476 original size:14 final size:14
Alignment explanation
Indices: 5696431--5696477 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
5696421 ATTAATTATT
*
5696431 AAATATAAAATTTTA
1 AAAT-TAAATTTTTA
* *
5696446 AAATT-AATATATA
1 AAATTAAATTTTTA
5696459 AAATTAAATTTTTA
1 AAATTAAATTTTTA
5696473 AAATT
1 AAATT
5696478 TTTTTTCATA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
13 10 0.38
14 12 0.46
15 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATTAAATTTTTA
Found at i:5707864 original size:2 final size:2
Alignment explanation
Indices: 5707857--5707889 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5707847 ATAAGGAATA
5707857 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5707890 GCCATGAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5716480 original size:2 final size:2
Alignment explanation
Indices: 5716473--5716502 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
5716463 TGTCTACTTT
5716473 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5716503 AAGTGGAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5748725 original size:27 final size:27
Alignment explanation
Indices: 5748674--5748740 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 27
5748664 AAAATAAAAT
* *
5748674 ATAAAAATA-ATATAATTTTAAATTTTA
1 ATAAAAATATATATAAATTT-AATTTAA
5748701 ATAAAAATTATATATAAATTT-ATTTAA
1 ATAAAAA-TATATATAAATTTAATTTAA
5748728 ATTAAAAATATAT
1 A-TAAAAATATAT
5748741 TTTTTATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 18 0.51
28 8 0.23
29 9 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
ATAAAAATATATATAAATTTAATTTAA
Found at i:5748731 original size:21 final size:20
Alignment explanation
Indices: 5748705--5748756 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 20
5748695 ATTTTAATAA
5748705 AAATTATATATAAATTTATTT
1 AAATTATATATAAATTT-TTT
* * *
5748726 AAATTAAAAATATATTTTTT
1 AAATTATATATAAATTTTTT
*
5748746 ATATTA-ATATA
1 AAATTATATATA
5748757 TTATAATACA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 4 0.15
20 8 0.31
21 14 0.54
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AAATTATATATAAATTTTTT
Found at i:5749666 original size:6 final size:6
Alignment explanation
Indices: 5749657--5749691 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
5749647 ACCTTGCATT
5749657 CCTTTG CCTTTG CCTTTG CCTTTG CCTTTG CCTTT
1 CCTTTG CCTTTG CCTTTG CCTTTG CCTTTG CCTTT
5749692 CATGGTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.14, T:0.51
Consensus pattern (6 bp):
CCTTTG
Found at i:5755262 original size:2 final size:2
Alignment explanation
Indices: 5755255--5755351 Score: 68
Period size: 2 Copynumber: 48.5 Consensus size: 2
5755245 ACATACAGAC
* * * * * * *
5755255 AT AT AT AT AT AT GT AT AT AC AT GT AC AC AC AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * *
5755297 AT AC AT AT AT AC AT AT AT AT GT GT AC AT GT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5755339 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
5755352 AGGACAAGGG
Statistics
Matches: 73, Mismatches: 22, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.41
Consensus pattern (2 bp):
AT
Found at i:5755297 original size:26 final size:26
Alignment explanation
Indices: 5755259--5755351 Score: 78
Period size: 26 Copynumber: 3.6 Consensus size: 26
5755249 ACAGACATAT
* * *
5755259 ATATATATGTATATACATGTACACAC
1 ATATATGTATATATACATATACACAC
* *
5755285 ATATATGTATATATACATATATACAT
1 ATATATGTATATATACATATACACAC
* * ** * *
5755311 ATATATGTGTACATGTATATACATAT
1 ATATATGTATATATACATATACACAC
*
5755337 ATATATATATATATA
1 ATATATGTATATATA
5755352 AGGACAAGGG
Statistics
Matches: 52, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (26 bp):
ATATATGTATATATACATATACACAC
Found at i:5764079 original size:15 final size:15
Alignment explanation
Indices: 5764059--5764088 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
5764049 AATTTAAGGT
5764059 TAAGAGTAATGCTGG
1 TAAGAGTAATGCTGG
5764074 TAAGAGTAATGCTGG
1 TAAGAGTAATGCTGG
5764089 ACTAACCTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.27
Consensus pattern (15 bp):
TAAGAGTAATGCTGG
Found at i:5765373 original size:2 final size:2
Alignment explanation
Indices: 5765366--5765404 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
5765356 TATAAATAAA
*
5765366 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AC AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5765405 AAAGAAAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:5765405 original size:12 final size:13
Alignment explanation
Indices: 5765353--5765405 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
5765343 CCACATGCAG
* *
5765353 ACATATAAATAAA
1 ACATATATATATA
*
5765366 ATATATATATATA
1 ACATATATATATA
*
5765379 TATATATATATATA
1 -ACATATATATATA
5765393 ACATAT-TATATA
1 ACATATATATATA
5765405 A
1 A
5765406 AAGAAAATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
12 7 0.20
13 15 0.43
14 13 0.37
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
ACATATATATATA
Found at i:5767014 original size:18 final size:18
Alignment explanation
Indices: 5766988--5767047 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
5766978 CAAATATAAA
*
5766988 ATTTATATATTTATATCAT
1 ATTT-TATATTAATATCAT
* * *
5767007 ATTTTATATGAAAATTAT
1 ATTTTATATTAATATCAT
*
5767025 ATATTATAATTAATATCAT
1 ATTTTAT-ATTAATATCAT
5767044 ATTT
1 ATTT
5767048 AAGTAAGGGC
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
18 16 0.52
19 15 0.48
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (18 bp):
ATTTTATATTAATATCAT
Found at i:5767242 original size:19 final size:20
Alignment explanation
Indices: 5767214--5767265 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
5767204 GTGTATCTTA
5767214 ATAA-TTTAATTAAATTTTT
1 ATAATTTTAATTAAATTTTT
5767233 A-AATTTTAA-TAAATTTTT
1 ATAATTTTAATTAAATTTTT
*
5767251 ATTATTTTAATTAAA
1 ATAATTTTAATTAAA
5767266 AATTATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 12 0.41
19 13 0.45
20 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATAATTTTAATTAAATTTTT
Found at i:5767412 original size:38 final size:37
Alignment explanation
Indices: 5767314--5767415 Score: 111
Period size: 38 Copynumber: 2.7 Consensus size: 37
5767304 AAATTTGAGT
* *
5767314 TTAAAT-AATTTAAGTATAAAATTAAATTTATTTTTA
1 TTAAATCAATTTAAGTAAAAAATTAAACTTATTTTTA
* *
5767350 TTAATTCGAATTTAAGTATAAAATTAAACTTATTTTTA
1 TTAAATC-AATTTAAGTAAAAAATTAAACTTATTTTTA
5767388 TTAAAT-AATTTTAA-TCAAATAAATTAAA
1 TTAAATCAA-TTTAAGT-AAA-AAATTAAA
5767416 ATAATTTAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
36 8 0.14
37 7 0.12
38 42 0.74
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (37 bp):
TTAAATCAATTTAAGTAAAAAATTAAACTTATTTTTA
Found at i:5767511 original size:26 final size:25
Alignment explanation
Indices: 5767461--5767508 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
5767451 TAAAAATTAA
*
5767461 AATAAATTTAAATTAAATTTCAAGT
1 AATAAATTTAAATTAAATCTCAAGT
5767486 AATAAATTTTAAATTAAA-CTCAA
1 AATAAA-TTTAAATTAAATCTCAA
5767509 AGTCAGAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (25 bp):
AATAAATTTAAATTAAATCTCAAGT
Found at i:5773357 original size:26 final size:25
Alignment explanation
Indices: 5773321--5773381 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
5773311 ATCTTATAAA
*
5773321 ATATTAAAATT-CGTATATTATATTTT
1 ATATTAAAATTACATATATTA-A-TTT
*
5773347 ATATAAAAATTACATATATTAATTT
1 ATATTAAAATTACATATATTAATTT
5773372 ATATTAAAAT
1 ATATTAAAAT
5773382 AAAAATATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 12 0.39
26 11 0.35
27 8 0.26
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (25 bp):
ATATTAAAATTACATATATTAATTT
Found at i:5774196 original size:18 final size:19
Alignment explanation
Indices: 5774164--5774200 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
5774154 ATAATTCAAA
5774164 ATTTTAATAAAATTTTTAT
1 ATTTTAATAAAATTTTTAT
*
5774183 ATTTTAAT-ATATTTTTAT
1 ATTTTAATAAAATTTTTAT
5774201 TAATAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTAATAAAATTTTTAT
Found at i:5774211 original size:17 final size:18
Alignment explanation
Indices: 5774167--5774215 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
5774157 ATTCAAAATT
5774167 TTAATAAAAT-TTTTATA
1 TTAATAAAATATTTTATA
* *
5774184 TT-TTAATATATTTT-TA
1 TTAATAAAATATTTTATA
5774200 TTAATAAAATATTTTA
1 TTAATAAAATATTTTA
5774216 AACTTTAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAATAAAATATTTTATA
Found at i:5779893 original size:3 final size:3
Alignment explanation
Indices: 5779842--5779876 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
5779832 TTTTAAATCT
5779842 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
5779877 TATTTCAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:5780289 original size:25 final size:23
Alignment explanation
Indices: 5780261--5780308 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
5780251 AATCTCATAA
5780261 TAAAATATATATATATA-TATGAAAT
1 TAAAAT-TATA-ATATACTAT-AAAT
5780286 TAAAATTATAATATACTATAAAT
1 TAAAATTATAATATACTATAAAT
5780309 AACAAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 9 0.41
24 7 0.32
25 6 0.27
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
TAAAATTATAATATACTATAAAT
Found at i:5781000 original size:13 final size:14
Alignment explanation
Indices: 5780982--5781015 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
5780972 AAATAATTAT
5780982 AAAATTAT-AATAA
1 AAAATTATGAATAA
5780995 AAAATTATGAATAA
1 AAAATTATGAATAA
5781009 AATAATT
1 AA-AATT
5781016 TTATGATAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
14 7 0.37
15 4 0.21
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (14 bp):
AAAATTATGAATAA
Found at i:5782097 original size:3 final size:3
Alignment explanation
Indices: 5782089--5782121 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
5782079 TTTATTGGTC
5782089 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
5782122 TATTATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:5782126 original size:3 final size:3
Alignment explanation
Indices: 5782120--5782174 Score: 55
Period size: 3 Copynumber: 19.7 Consensus size: 3
5782110 AATAATAATA
* * *
5782120 ATT ATT ATT ATT ATT ATT A-T ATT TTT ATT -TT AAT ATT ATT -TT AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
5782165 ATT ATT -TT AT
1 ATT ATT ATT AT
5782175 GTTCGTTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
2 8 0.19
3 34 0.81
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:5782158 original size:11 final size:11
Alignment explanation
Indices: 5782115--5782173 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
5782105 ATAATAATAA
5782115 TAATAATTATTAT
1 TAAT-ATTATT-T
* *
5782128 TATTATTATTA
1 TAATATTATTT
* *
5782139 TATTTTTATTT
1 TAATATTATTT
5782150 TAATATTATTT
1 TAATATTATTT
*
5782161 TAGTATTATTT
1 TAATATTATTT
5782172 TA
1 TA
5782174 TGTTCGTTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
11 30 0.77
12 6 0.15
13 3 0.08
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TAATATTATTT
Found at i:5782193 original size:10 final size:10
Alignment explanation
Indices: 5782180--5782214 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
5782170 TTTATGTTCG
5782180 TTTAAATTTA
1 TTTAAATTTA
*
5782190 TTTATATTTA
1 TTTAAATTTA
5782200 TTTAAAATTTA
1 TTT-AAATTTA
5782211 TTTA
1 TTTA
5782215 TTTAATTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTAAATTTA
Found at i:5791060 original size:2 final size:2
Alignment explanation
Indices: 5791053--5791083 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
5791043 AATTTTGGAG
5791053 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5791084 GTTAAGTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5805664 original size:2 final size:2
Alignment explanation
Indices: 5805657--5805707 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
5805647 CTCCTTTATT
* *
5805657 TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
5805699 TA CA TA TA T
1 TA TA TA TA T
5805708 TATTAACTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:5806119 original size:2 final size:2
Alignment explanation
Indices: 5806112--5806136 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5806102 AAGGAAAACA
5806112 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
5806137 GCTCTAGAGT
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:5806158 original size:16 final size:16
Alignment explanation
Indices: 5806137--5806169 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
5806127 TATATATATA
5806137 GCTCTAGAGTGAAGTG
1 GCTCTAGAGTGAAGTG
5806153 GCTCTAGAGTGAAGTG
1 GCTCTAGAGTGAAGTG
5806169 G
1 G
5806170 ACGAAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.39, T:0.24
Consensus pattern (16 bp):
GCTCTAGAGTGAAGTG
Found at i:5810752 original size:18 final size:18
Alignment explanation
Indices: 5810729--5810767 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
5810719 GTTCAAACTT
5810729 TCTGGCCCCTTGATATAA
1 TCTGGCCCCTTGATATAA
*
5810747 TCTGGCCTCTTGATATAA
1 TCTGGCCCCTTGATATAA
5810765 TCT
1 TCT
5810768 TGAGCTGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (18 bp):
TCTGGCCCCTTGATATAA
Found at i:5816416 original size:3 final size:3
Alignment explanation
Indices: 5816408--5816432 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
5816398 GTAATCATCC
5816408 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
5816433 CACATTCTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:5821810 original size:14 final size:15
Alignment explanation
Indices: 5821791--5821823 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
5821781 ACATTCAAAA
5821791 TTTTTATTA-ATAAT
1 TTTTTATTATATAAT
*
5821805 TTTTTATTATATTAT
1 TTTTTATTATATAAT
5821820 TTTT
1 TTTT
5821824 ATAGCATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTATTATATAAT
Found at i:5823139 original size:19 final size:19
Alignment explanation
Indices: 5823097--5823139 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
5823087 GACAAGTAAA
*
5823097 ATATTTTTTATTATTATTT
1 ATATTTTTTATTATTATAT
* *
5823116 TTATTTTTTTTTATTATAT
1 ATATTTTTTATTATTATAT
5823135 ATATT
1 ATATT
5823140 CTTATATTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
ATATTTTTTATTATTATAT
Found at i:5823337 original size:19 final size:20
Alignment explanation
Indices: 5823313--5823352 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
5823303 AACTTTTTAC
5823313 AAATATA-T-ATTTTAAATTA
1 AAATATATTAATTTT-AATTA
5823332 AAATATATTAATTTTAATTA
1 AAATATATTAATTTTAATTA
5823352 A
1 A
5823353 TCTAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 7 0.37
21 5 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATATATTAATTTTAATTA
Found at i:5833554 original size:121 final size:121
Alignment explanation
Indices: 5833340--5833581 Score: 439
Period size: 121 Copynumber: 2.0 Consensus size: 121
5833330 AAGACAGATC
*
5833340 AAAATTTGATTTTCAATTGCACAGCTAGGGTTTTAGAGAATCTCAATTTGTTAAATTCTTTTATT
1 AAAATTTGATTTTCAATTGCACAGCTAGGGTTTTAGAGAATCTCAATTCGTTAAATTCTTTTATT
5833405 TTTTAATGTGAAAGTTTGAATTTTTGTTTGTTTTAGTAGGCCAGGTGCTTCATCAG
66 TTTTAATGTGAAAGTTTGAATTTTTGTTTGTTTTAGTAGGCCAGGTGCTTCATCAG
* * * *
5833461 AAAATTTGATTTTCACTTGGAGAGTTAGGGTTTTAGAGAATCTCAATTCGTTAAATTCTTTTATT
1 AAAATTTGATTTTCAATTGCACAGCTAGGGTTTTAGAGAATCTCAATTCGTTAAATTCTTTTATT
5833526 TTTTAATGTGAAAGTTTGAATTTTTGTTTGTTTTAGTAGGCCAGGTGCTTCATCAG
66 TTTTAATGTGAAAGTTTGAATTTTTGTTTGTTTTAGTAGGCCAGGTGCTTCATCAG
5833582 GAATAATGTT
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 116 1.00
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (121 bp):
AAAATTTGATTTTCAATTGCACAGCTAGGGTTTTAGAGAATCTCAATTCGTTAAATTCTTTTATT
TTTTAATGTGAAAGTTTGAATTTTTGTTTGTTTTAGTAGGCCAGGTGCTTCATCAG
Found at i:5841666 original size:27 final size:28
Alignment explanation
Indices: 5841617--5841675 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
5841607 TTTCATTAAA
*
5841617 ATTTTTTTTCAATCATAATTACAATAAT
1 ATTTTTTTTCAATCATAACTACAATAAT
* *
5841645 ATTTTTTTT-AATCATAGCTACAGTAAT
1 ATTTTTTTTCAATCATAACTACAATAAT
5841672 -TTTT
1 ATTTT
5841676 ATTAGTAGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 4 0.14
27 15 0.54
28 9 0.32
ACGTcount: A:0.34, C:0.10, G:0.03, T:0.53
Consensus pattern (28 bp):
ATTTTTTTTCAATCATAACTACAATAAT
Found at i:5841833 original size:26 final size:26
Alignment explanation
Indices: 5841795--5841853 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
5841785 TTTTCATTAA
*
5841795 AAATTTTTTTCAATTGCAATTACAAT
1 AAATTTTTTTCAATTACAATTACAAT
* *
5841821 AATTTTTTTTCAATTACAGTTACAAT
1 AAATTTTTTTCAATTACAATTACAAT
5841847 AAATTTT
1 AAATTTT
5841854 ATTACTGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.37, C:0.10, G:0.03, T:0.49
Consensus pattern (26 bp):
AAATTTTTTTCAATTACAATTACAAT
Found at i:5842548 original size:17 final size:17
Alignment explanation
Indices: 5842522--5842556 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
5842512 CTTGTTTTCT
* *
5842522 AAATGTTACTTATAAAA
1 AAATGCTACTAATAAAA
5842539 AAATGCTACTAATAAAA
1 AAATGCTACTAATAAAA
5842556 A
1 A
5842557 CAACAGAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.57, C:0.09, G:0.06, T:0.29
Consensus pattern (17 bp):
AAATGCTACTAATAAAA
Found at i:5849630 original size:2 final size:2
Alignment explanation
Indices: 5849623--5849665 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
5849613 GCCACCGAGC
5849623 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5849665 A
1 A
5849666 GTAAGTTTAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5850028 original size:28 final size:29
Alignment explanation
Indices: 5849988--5850044 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
5849978 TATCATTTCA
*
5849988 ATAAATAAATTTA-TAATTTAAATATTAC
1 ATAAATAAATTTACAAATTTAAATATTAC
*
5850016 ATAAA-AAATTTTACAAATTTAAGTATTAC
1 ATAAATAAA-TTTACAAATTTAAATATTAC
5850045 TTTAATCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 3 0.12
28 9 0.36
29 13 0.52
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (29 bp):
ATAAATAAATTTACAAATTTAAATATTAC
Found at i:5850984 original size:9 final size:9
Alignment explanation
Indices: 5850972--5851008 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
5850962 AATATTTTAT
5850972 TAATTAAAA
1 TAATTAAAA
5850981 TAATTAAAA
1 TAATTAAAA
5850990 TATATTAAAA
1 TA-ATTAAAA
5851000 T-ATTAAAA
1 TAATTAAAA
5851008 T
1 T
5851009 TCGATTAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.30
9 11 0.41
10 8 0.30
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
TAATTAAAA
Found at i:5850998 original size:10 final size:10
Alignment explanation
Indices: 5850974--5851002 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
5850964 TATTTTATTA
5850974 ATTAAAATA-
1 ATTAAAATAT
5850983 ATTAAAATAT
1 ATTAAAATAT
5850993 ATTAAAATAT
1 ATTAAAATAT
5851003 TAAAATTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:5860403 original size:21 final size:21
Alignment explanation
Indices: 5860379--5860426 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
5860369 CGGGTGCCCA
5860379 TATCCAGGATAAACC-GGCATG
1 TATCCAGGAT-AACCAGGCATG
*
5860400 TATCCAGGGTAACCAGGCATG
1 TATCCAGGATAACCAGGCATG
*
5860421 AATCCA
1 TATCCA
5860427 AAATCGGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (21 bp):
TATCCAGGATAACCAGGCATG
Found at i:5860525 original size:3 final size:3
Alignment explanation
Indices: 5860517--5860543 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
5860507 TCCACCATCT
5860517 CCA CCA CCA CCA CCA CCA CCA CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA
5860544 TTGCCACCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.67, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:5867126 original size:2 final size:2
Alignment explanation
Indices: 5867119--5867148 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
5867109 TGCTCACCCC
*
5867119 TA TA TA TA TA TT 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
5867149 AACCATGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:5867416 original size:12 final size:13
Alignment explanation
Indices: 5867400--5867442 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
5867390 GTACTTGAAA
5867400 TTTTTAATCATA-
1 TTTTTAATCATAC
* *
5867412 TTTTTTATCACAC
1 TTTTTAATCATAC
*
5867425 TTTTTAAACATAC
1 TTTTTAATCATAC
5867438 TTTTT
1 TTTTT
5867443 TTTATTGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.58
Consensus pattern (13 bp):
TTTTTAATCATAC
Found at i:5876190 original size:16 final size:16
Alignment explanation
Indices: 5876169--5876199 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
5876159 TCACCAACTC
5876169 TTAAAATTCAAAGGTT
1 TTAAAATTCAAAGGTT
5876185 TTAAAATTCAAAGGT
1 TTAAAATTCAAAGGT
5876200 CTCTACCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.35
Consensus pattern (16 bp):
TTAAAATTCAAAGGTT
Done.