Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, 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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 114 of 120
Found at i:17145740 original size:22 final size:24
Alignment explanation
Indices: 17145712--17145763 Score: 72
Period size: 22 Copynumber: 2.2 Consensus size: 24
17145702 TCGTCATGTT
*
17145712 AATTTTACTTGTA-AA-ATTAAAA
1 AATTTTACTTATAGAATATTAAAA
*
17145734 AATTTTACTTATAGAATATTAAAT
1 AATTTTACTTATAGAATATTAAAA
17145758 AATTTT
1 AATTTT
17145764 TTAAGATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 12 0.46
23 2 0.08
24 12 0.46
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (24 bp):
AATTTTACTTATAGAATATTAAAA
Found at i:17150296 original size:31 final size:32
Alignment explanation
Indices: 17150247--17150306 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
17150237 TTAGAATTTA
17150247 TTTTATTCCATTTTTGTG-AAAATGAGCTGGC
1 TTTTATTCCATTTTTGTGAAAAATGAGCTGGC
*
17150278 TTTTATT-GATTTTGTGTGAAAAATGAGCT
1 TTTTATTCCATTTT-TGTGAAAAATGAGCT
17150307 TTACAAGGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 5 0.19
31 11 0.42
32 10 0.38
ACGTcount: A:0.25, C:0.08, G:0.20, T:0.47
Consensus pattern (32 bp):
TTTTATTCCATTTTTGTGAAAAATGAGCTGGC
Found at i:17159826 original size:29 final size:28
Alignment explanation
Indices: 17159761--17159839 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 28
17159751 TAATAATATG
* *
17159761 TAAAAATTTTATTAAAAATATTATTTATAA
1 TAAAAATTTGATT-AATAT-TTATTTATAA
** *
17159791 TTTAAATTTGATTGATATTTATTTAATAA
1 TAAAAATTTGATTAATATTTATTT-ATAA
*
17159820 TAAAAATTTTATTAATATTT
1 TAAAAATTTGATTAATATTT
17159840 TTATTAAAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
28 6 0.15
29 23 0.59
30 10 0.26
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.52
Consensus pattern (28 bp):
TAAAAATTTGATTAATATTTATTTATAA
Found at i:17159850 original size:29 final size:29
Alignment explanation
Indices: 17159761--17159850 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 29
17159751 TAATAATATG
* * * *
17159761 TAAAAATTTTATTAAAAATATTATTTATAA
1 TAAAAATTTTATTAATATTTTTA-TTAAAA
** * * *
17159791 TTTAAATTTGATTGATATTTAT-TTAATAA
1 TAAAAATTTTATTAATATTTTTATTAA-AA
17159820 TAAAAATTTTATTAATATTTTTATTAAAA
1 TAAAAATTTTATTAATATTTTTATTAAAA
17159849 TA
1 TA
17159851 TTTATATAAA
Statistics
Matches: 44, Mismatches: 14, Indels: 5
0.70 0.22 0.08
Matches are distributed among these distances:
28 3 0.07
29 23 0.52
30 18 0.41
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (29 bp):
TAAAAATTTTATTAATATTTTTATTAAAA
Found at i:17159854 original size:12 final size:12
Alignment explanation
Indices: 17159822--17159877 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
17159812 TTTAATAATA
17159822 AAAAT-TTTATT
1 AAAATATTTATT
* *
17159833 AATATTTTTATT
1 AAAATATTTATT
17159845 AAAATATTTATAT
1 AAAATATTTAT-T
17159858 AAAA-ATTT-TT
1 AAAATATTTATT
*
17159868 AAAATTTTTA
1 AAAATATTTA
17159878 AAAAAATTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
10 5 0.14
11 8 0.22
12 19 0.51
13 5 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
AAAATATTTATT
Found at i:17159882 original size:21 final size:23
Alignment explanation
Indices: 17159843--17159886 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
17159833 AATATTTTTA
*
17159843 TTAAAATATTTATATAAAAATTT
1 TTAAAATATTTATAAAAAAATTT
17159866 TTAAAAT-TTT-TAAAAAAATTT
1 TTAAAATATTTATAAAAAAATTT
17159887 CAAATATTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 3 0.15
23 7 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TTAAAATATTTATAAAAAAATTT
Found at i:17159884 original size:35 final size:39
Alignment explanation
Indices: 17159810--17159884 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 39
17159800 GATTGATATT
* **
17159810 TATTTAATAATAAAAATTTTATTAATATTTTTATTAAAA
1 TATTTAATAATAAAAATTTTATTAAAATTTTTAAAAAAA
17159849 TATTT-AT-ATAAAAA-TTT-TTAAAATTTTTAAAAAAA
1 TATTTAATAATAAAAATTTTATTAAAATTTTTAAAAAAA
17159884 T
1 T
17159885 TTCAAATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 16 0.48
36 3 0.09
37 7 0.21
38 2 0.06
39 5 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (39 bp):
TATTTAATAATAAAAATTTTATTAAAATTTTTAAAAAAA
Found at i:17159940 original size:14 final size:14
Alignment explanation
Indices: 17159921--17159958 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
17159911 TAATAAAGTT
17159921 TTTTAATTTATCAA
1 TTTTAATTTATCAA
**
17159935 TTTTAATTT-TTTA
1 TTTTAATTTATCAA
17159948 TTTTAATTTAT
1 TTTTAATTTAT
17159959 ATTTAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTAATTTATCAA
Found at i:17159951 original size:27 final size:24
Alignment explanation
Indices: 17159921--17159970 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
17159911 TAATAAAGTT
17159921 TTTTAATTTATCAATTTTAATTTTTTA
1 TTTTAATTTAT--A-TTTAATTTTTTA
17159948 TTTTAATTTATATTTAATTTTTT
1 TTTTAATTTATATTTAATTTTTT
17159971 CAATAAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 11 0.48
25 1 0.04
27 11 0.48
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTAATTTATATTTAATTTTTTA
Found at i:17159952 original size:13 final size:13
Alignment explanation
Indices: 17159934--17159970 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
17159924 TAATTTATCA
17159934 ATTTTAATTTTTT
1 ATTTTAATTTTTT
*
17159947 ATTTTAA-TTTAT
1 ATTTTAATTTTTT
17159959 A-TTTAATTTTTT
1 ATTTTAATTTTTT
17159971 CAATAAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
11 5 0.24
12 9 0.43
13 7 0.33
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
ATTTTAATTTTTT
Found at i:17160950 original size:12 final size:12
Alignment explanation
Indices: 17160933--17160960 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
17160923 ACCGAAGCTC
17160933 CCATCAGCATCA
1 CCATCAGCATCA
17160945 CCATCAGCATCA
1 CCATCAGCATCA
17160957 CCAT
1 CCAT
17160961 TATCTGAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.43, G:0.07, T:0.18
Consensus pattern (12 bp):
CCATCAGCATCA
Found at i:17165002 original size:20 final size:20
Alignment explanation
Indices: 17164964--17165008 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
17164954 AGACAAAGAG
* *
17164964 GAAAGAAAGGGAGAGAGACA
1 GAAAGAAAGAGAAAGAGACA
*
17164984 GAAAGAAAGAGAAATAGACA
1 GAAAGAAAGAGAAAGAGACA
*
17165004 CAAAG
1 GAAAG
17165009 CACAAAAATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.60, C:0.07, G:0.31, T:0.02
Consensus pattern (20 bp):
GAAAGAAAGAGAAAGAGACA
Found at i:17165819 original size:18 final size:19
Alignment explanation
Indices: 17165793--17165831 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
17165783 ACATATAGGC
17165793 ATGAGTTTTA-AAATTTTA
1 ATGAGTTTTACAAATTTTA
*
17165811 ATGATTTTTATCAAATTTTA
1 ATGAGTTTTA-CAAATTTTA
17165831 A
1 A
17165832 ATTATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
20 9 0.50
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (19 bp):
ATGAGTTTTACAAATTTTA
Found at i:17173979 original size:16 final size:18
Alignment explanation
Indices: 17173947--17173979 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
17173937 ATCTCTAGTA
17173947 TTTTCTGTTTAATTATTC
1 TTTTCTGTTTAATTATTC
17173965 TTTTCT-TTT-ATTATT
1 TTTTCTGTTTAATTATT
17173980 TTGGCTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 3 0.20
18 6 0.40
ACGTcount: A:0.15, C:0.09, G:0.03, T:0.73
Consensus pattern (18 bp):
TTTTCTGTTTAATTATTC
Found at i:17176411 original size:15 final size:15
Alignment explanation
Indices: 17176373--17176411 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
17176363 AAAAATTTCC
*
17176373 AATTACAAAACTTAA
1 AATTATAAAACTTAA
* *
17176388 GATTTTAAAACTTAA
1 AATTATAAAACTTAA
17176403 AATTATAAA
1 AATTATAAA
17176412 TAATATATTA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (15 bp):
AATTATAAAACTTAA
Found at i:17176600 original size:17 final size:16
Alignment explanation
Indices: 17176562--17176605 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
17176552 AAACATAATT
17176562 AAAT-TTTTATATTTTA
1 AAATATTTTA-ATTTTA
*
17176578 ATATATTTTAATTTATA
1 AAATATTTTAATTT-TA
17176595 AAATATTTTAA
1 AAATATTTTAA
17176606 GCTCGAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AAATATTTTAATTTTA
Found at i:17181611 original size:14 final size:15
Alignment explanation
Indices: 17181594--17181630 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
17181584 ATATTTAATT
*
17181594 TAATATAAAATAA-A
1 TAATATAAAAAAATA
17181608 TAAT-TAAAAAAATA
1 TAATATAAAAAAATA
17181622 TAATATAAA
1 TAATATAAA
17181631 TATATCTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 7 0.35
14 9 0.45
15 4 0.20
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TAATATAAAAAAATA
Found at i:17186893 original size:27 final size:25
Alignment explanation
Indices: 17186861--17186921 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 25
17186851 ATAATTTAGT
17186861 TTTAATTAAATTAATCAATCAAATTGA
1 TTTAATTAAATTAATCAATC-AATT-A
** *
17186888 TTTAATTCGATTAATCGATCAATTA
1 TTTAATTAAATTAATCAATCAATTA
*
17186913 TTAAATTAA
1 TTTAATTAA
17186922 TTTCGAACGA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
25 7 0.25
26 4 0.14
27 17 0.61
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (25 bp):
TTTAATTAAATTAATCAATCAATTA
Found at i:17187941 original size:11 final size:11
Alignment explanation
Indices: 17187925--17187961 Score: 56
Period size: 11 Copynumber: 3.2 Consensus size: 11
17187915 AAAATTTGAA
17187925 TTATATTATTT
1 TTATATTATTT
17187936 TTATATTATTTAT
1 TTATATTA-TT-T
17187949 TTATATTATTT
1 TTATATTATTT
17187960 TT
1 TT
17187962 TATCTTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.46
12 4 0.17
13 9 0.38
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATATTATTT
Found at i:17187969 original size:12 final size:12
Alignment explanation
Indices: 17187925--17187970 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
17187915 AAAATTTGAA
17187925 TTATATTA-TTT
1 TTATATTATTTT
17187936 TTATATTATTTAT
1 TTATATTATTT-T
17187949 TTATATTATTTT
1 TTATATTATTTT
*
17187961 TTATCTTATT
1 TTATATTATT
17187971 ATCATTTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
11 8 0.25
12 12 0.38
13 12 0.38
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (12 bp):
TTATATTATTTT
Found at i:17187985 original size:25 final size:25
Alignment explanation
Indices: 17187897--17187970 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 25
17187887 ATTTTATTAA
*
17187897 ATTTATTTATA--ATTTTTTA-A-A
1 ATTTATTTATATTATTTTTTATATT
*
17187918 ATTTGAATTATATTAT-TTTTATATT
1 ATTT-ATTTATATTATTTTTTATATT
*
17187943 ATTTATTTATATTATTTTTTATCTT
1 ATTTATTTATATTATTTTTTATATT
17187968 ATT
1 ATT
17187971 ATCATTTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
21 4 0.09
22 6 0.14
23 5 0.12
24 13 0.30
25 15 0.35
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (25 bp):
ATTTATTTATATTATTTTTTATATT
Found at i:17192952 original size:14 final size:14
Alignment explanation
Indices: 17192935--17192978 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
17192925 ATTAATTTGA
*
17192935 ATTAATATATTTTT
1 ATTAATATATATTT
* * *
17192949 ATTAAAAAATATAT
1 ATTAATATATATTT
17192963 ATTAATATATATTT
1 ATTAATATATATTT
17192977 AT
1 AT
17192979 AAAAAAATCT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTAATATATATTT
Found at i:17193534 original size:17 final size:17
Alignment explanation
Indices: 17193508--17193540 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
17193498 ATATATATTA
17193508 ATTTTTAA-TTATTTTT
1 ATTTTTAATTTATTTTT
17193524 ATTTTTAAATTTATTTT
1 ATTTTT-AATTTATTTT
17193541 AAGAGTATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTTTAATTTATTTTT
Found at i:17203704 original size:30 final size:30
Alignment explanation
Indices: 17203670--17203731 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
17203660 TTGTTTACAC
17203670 AGGAAGTGAAAGCAAAATGAGAGGGAAAGG
1 AGGAAGTGAAAGCAAAATGAGAGGGAAAGG
*
17203700 AGGAAGTGAAAGTAAAATGAGAGGGAAAGG
1 AGGAAGTGAAAGCAAAATGAGAGGGAAAGG
17203730 AG
1 AG
17203732 TGATGGGAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.50, C:0.02, G:0.40, T:0.08
Consensus pattern (30 bp):
AGGAAGTGAAAGCAAAATGAGAGGGAAAGG
Found at i:17213441 original size:47 final size:47
Alignment explanation
Indices: 17213372--17213465 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
17213362 ATTGGCTGGG
17213372 GAGAGGGTAATGTTGCAGCGTTGCAGAATCATGGAGAGAGCAGTCTT
1 GAGAGGGTAATGTTGCAGCGTTGCAGAATCATGGAGAGAGCAGTCTT
*
17213419 GAGAGGGTAATGTTGTAGCGTTGCAGAATCATGGAGAGAGCAGTCTT
1 GAGAGGGTAATGTTGCAGCGTTGCAGAATCATGGAGAGAGCAGTCTT
17213466 TGTTTCCCTG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.28, C:0.12, G:0.36, T:0.24
Consensus pattern (47 bp):
GAGAGGGTAATGTTGCAGCGTTGCAGAATCATGGAGAGAGCAGTCTT
Found at i:17217885 original size:21 final size:23
Alignment explanation
Indices: 17217852--17217909 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 23
17217842 TTTTATGAAA
*
17217852 TAAAATTATATAAT-TTT-TAAAT
1 TAAAA-TAAATAATATTTCTAAAT
17217874 TAAAATAAATAATATTTCGTAAAT
1 TAAAATAAATAATATTTC-TAAAT
17217898 TAAAAATAAATA
1 T-AAAATAAATA
17217910 TTCATAGGCG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 7 0.23
22 8 0.26
24 6 0.19
25 10 0.32
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
TAAAATAAATAATATTTCTAAAT
Found at i:17233794 original size:33 final size:33
Alignment explanation
Indices: 17233752--17233826 Score: 150
Period size: 33 Copynumber: 2.3 Consensus size: 33
17233742 AAAAAAATTT
17233752 TTGATGGTAACTTCATTATTCTCTTATTATATG
1 TTGATGGTAACTTCATTATTCTCTTATTATATG
17233785 TTGATGGTAACTTCATTATTCTCTTATTATATG
1 TTGATGGTAACTTCATTATTCTCTTATTATATG
17233818 TTGATGGTA
1 TTGATGGTA
17233827 TGTTGATTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.24, C:0.11, G:0.15, T:0.51
Consensus pattern (33 bp):
TTGATGGTAACTTCATTATTCTCTTATTATATG
Found at i:17238505 original size:26 final size:24
Alignment explanation
Indices: 17238451--17238511 Score: 86
Period size: 26 Copynumber: 2.5 Consensus size: 24
17238441 TATTAATATA
*
17238451 ATTATTAAAATATTCAACTTATTT
1 ATTATTAAAATATTCAAATTATTT
*
17238475 ATTATTAAAATACATTTAAATTATTT
1 ATTATTAAAAT--ATTCAAATTATTT
17238501 ATTATTAAAAT
1 ATTATTAAAAT
17238512 TATTAATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
24 11 0.33
26 22 0.67
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTATTAAAATATTCAAATTATTT
Found at i:17238511 original size:16 final size:15
Alignment explanation
Indices: 17238492--17238525 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
17238482 AAATACATTT
*
17238492 AAATTATTTATTATTA
1 AAATTA-TTAATATTA
17238508 AAATTATTAATATTA
1 AAATTATTAATATTA
17238523 AAA
1 AAA
17238526 AATAATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATTATTAATATTA
Found at i:17238521 original size:15 final size:16
Alignment explanation
Indices: 17238492--17238563 Score: 56
Period size: 16 Copynumber: 4.2 Consensus size: 16
17238482 AAATACATTT
*
17238492 AAATTATTTATTATTA
1 AAATTATTTAATATTA
17238508 AAATTA-TTAATATTAA
1 AAATTATTTAATATT-A
* * *
17238524 AAAATAATTATATTTTA
1 AAATTATTTA-ATATTA
17238541 ATAATAATATTTAATATTA
1 A-AAT--TATTTAATATTA
17238560 AAAT
1 AAAT
17238564 ATTAGTTAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
15 7 0.16
16 12 0.27
17 5 0.11
18 9 0.20
19 6 0.14
20 5 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATTATTTAATATTA
Found at i:17238572 original size:18 final size:17
Alignment explanation
Indices: 17238503--17238582 Score: 67
Period size: 18 Copynumber: 4.6 Consensus size: 17
17238493 AATTATTTAT
17238503 TATTAAAAT--TATTAA
1 TATTAAAATAATATTAA
17238518 TATTAAAA-AATAATTATA
1 TATTAAAATAAT-ATTA-A
*
17238536 TTTTAATAATAATATTTAA
1 TATTAA-AATAATA-TTAA
*
17238555 TATTAAAATATTAGTTAA
1 TATTAAAATAATA-TTAA
*
17238573 TATAAAAATA
1 TATTAAAATA
17238583 CTTAAAATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
15 8 0.15
16 1 0.02
17 4 0.08
18 25 0.47
19 9 0.17
20 6 0.11
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (17 bp):
TATTAAAATAATATTAA
Found at i:17238636 original size:7 final size:8
Alignment explanation
Indices: 17238610--17238834 Score: 66
Period size: 8 Copynumber: 28.2 Consensus size: 8
17238600 TCTTCTTCTT
17238610 TATATT-A
1 TATATTAA
*
17238617 TTTATTAA
1 TATATTAA
17238625 TATATTAA
1 TATATTAA
*
17238633 -ATATTATT
1 TATATTA-A
*
17238641 TATCAATAA
1 TAT-ATTAA
17238650 TATTTATTAA
1 TA--TATTAA
17238660 TA-A-T-A
1 TATATTAA
17238665 TATATTAA
1 TATATTAA
*
17238673 TAGTATATTA
1 TA-TAT-TAA
*
17238683 TTTATTAA
1 TATATTAA
17238691 TAATATT-A
1 T-ATATTAA
*
17238699 TTTATTAA
1 TATATTAA
*
17238707 TATATTAT
1 TATATTAA
*
17238715 TATAAT-A
1 TATATTAA
*
17238722 TCTATTAA
1 TATATTAA
*
17238730 TTAAATTAA
1 -TATATTAA
*
17238739 TAATATTTAT
1 T-ATA-TTAA
17238749 TATATT-A
1 TATATTAA
*
17238756 TTTATTAA
1 TATATTAA
*
17238764 TATAAT-A
1 TATATTAA
17238771 T-TA-TAA
1 TATATTAA
17238777 TAT-TATAA
1 TATAT-TAA
17238785 TATTATTAA
1 TA-TATTAA
*
17238794 TA-ATATAT
1 TATAT-TAA
*
17238802 TATATT-G
1 TATATTAA
*
17238809 TATTAATAA
1 TA-TATTAA
17238818 TATATT-A
1 TATATTAA
*
17238825 TTTATTAA
1 TATATTAA
17238833 TA
1 TA
17238835 AATAATATTA
Statistics
Matches: 157, Mismatches: 32, Indels: 57
0.64 0.13 0.23
Matches are distributed among these distances:
5 4 0.03
6 6 0.04
7 39 0.25
8 55 0.35
9 35 0.22
10 17 0.11
11 1 0.01
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (8 bp):
TATATTAA
Found at i:17238643 original size:31 final size:31
Alignment explanation
Indices: 17238608--17238831 Score: 99
Period size: 31 Copynumber: 7.0 Consensus size: 31
17238598 TTTCTTCTTC
*
17238608 TTTATATTATTTATTAATATATTAAATATTA
1 TTTATATTATTTATTAATATATTATATATTA
17238639 TTTATCAATAATATTTATTAATA-A-TATATATTAA
1 TTTAT--AT--TATTTATTAATATATTATATATT-A
* *
17238673 TAGTATATTATTTATTAATAATATTATTTATTA
1 T-TTATATTATTTATTAAT-ATATTATATATTA
* *
17238706 -ATATATTA-TTA-TAATATCTATTAATTAAATTA
1 TTTATATTATTTATTAATA--TATT-A-TATATTA
* * * *
17238738 ATAATATTTATTATATT-ATTTATTA-ATATAA
1 TTTATA-TTATT-TATTAATATATTATATATTA
* *
17238769 TATTATAATA-TTA-TAATATTATTA-ATAATA
1 T-TTATATTATTTATTAATA-TATTATATATTA
* * *
17238799 TATTATATTGTATTAATAATATATTATTTATTA
1 T-TTATATTAT-TTATTAATATATTATATATTA
17238832 ATAAATAATA
Statistics
Matches: 147, Mismatches: 21, Indels: 48
0.68 0.10 0.22
Matches are distributed among these distances:
28 2 0.01
29 8 0.05
30 25 0.17
31 30 0.20
32 18 0.12
33 26 0.18
34 17 0.12
35 16 0.11
36 4 0.03
37 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (31 bp):
TTTATATTATTTATTAATATATTATATATTA
Found at i:17238653 original size:13 final size:13
Alignment explanation
Indices: 17238632--17238665 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
17238622 TAATATATTA
*
17238632 AATATTATTTATC
1 AATAATATTTATC
*
17238645 AATAATATTTATT
1 AATAATATTTATC
17238658 AATAATAT
1 AATAATAT
17238666 ATATTAATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
AATAATATTTATC
Found at i:17238681 original size:11 final size:10
Alignment explanation
Indices: 17238660--17238824 Score: 85
Period size: 11 Copynumber: 17.2 Consensus size: 10
17238650 TATTTATTAA
17238660 TAATATATAT
1 TAATATATAT
17238670 TAATAGTATAT
1 TAATA-TATAT
17238681 T-AT-T-TAT
1 TAATATATAT
17238688 TAATA-ATAT
1 TAATATATAT
17238697 T-AT-T-TAT
1 TAATATATAT
17238704 TAATATATTATT
1 TAATATA-TA-T
*
17238716 ATAATATCTAT
1 -TAATATATAT
*
17238727 TAAT-TAAAT
1 TAATATATAT
17238736 TAATA-ATAT
1 TAATATATAT
*
17238745 TTAT-TATAT
1 TAATATATAT
17238754 T-AT-T-TAT
1 TAATATATAT
17238761 TAATATAATAT
1 TAATAT-ATAT
17238772 T-ATA-ATAT
1 TAATATATAT
17238780 T-ATAATATTAT
1 TAAT-ATA-TAT
17238791 TAATAATATAT
1 TAAT-ATATAT
*
17238802 T-ATATTGTAT
1 TAATA-TATAT
17238812 TAATAATATAT
1 TAAT-ATATAT
17238823 TA
1 TA
17238825 TTTATTAATA
Statistics
Matches: 124, Mismatches: 7, Indels: 47
0.70 0.04 0.26
Matches are distributed among these distances:
7 12 0.10
8 19 0.15
9 26 0.21
10 22 0.18
11 29 0.23
12 10 0.08
13 6 0.05
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (10 bp):
TAATATATAT
Found at i:17238721 original size:57 final size:57
Alignment explanation
Indices: 17238620--17238826 Score: 191
Period size: 57 Copynumber: 3.7 Consensus size: 57
17238610 TATATTATTT
* *
17238620 ATTAAT-ATATT-A-AATATTATTTATCAATAATATTTATTAATAATATATATTAATAGTAT
1 ATTAATAATATTAATAATATTATTTATTAAT-ATA-TTATT-ATAATAT-TATTAATA-TAA
*
17238679 ATT-AT-TTATTAATAATATTATTTATTAATATATTATTATAATATCTATTAAT-TAA
1 ATTAATAATATTAATAATATTATTTATTAATATATTATTATAATAT-TATTAATATAA
* * * *
17238734 ATTAATAATATTTATTATATTATTTATTAATATAATATTATAATATTA-TAATAT-T
1 ATTAATAATATTAATAATATTATTTATTAATATATTATTATAATATTATTAATATAA
* * *
17238789 ATTAATAATA-T-ATTATATTGTATTAATAATATATTATT
1 ATTAATAATATTAATAATATTAT-TTATTAATATATTATT
17238827 TATTAATAAA
Statistics
Matches: 130, Mismatches: 12, Indels: 17
0.82 0.08 0.11
Matches are distributed among these distances:
53 9 0.07
54 15 0.12
55 19 0.15
56 5 0.04
57 49 0.38
58 11 0.08
59 7 0.05
60 15 0.12
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (57 bp):
ATTAATAATATTAATAATATTATTTATTAATATATTATTATAATATTATTAATATAA
Found at i:17238761 original size:73 final size:72
Alignment explanation
Indices: 17238626--17238846 Score: 204
Period size: 73 Copynumber: 3.0 Consensus size: 72
17238616 ATTTATTAAT
* * * *
17238626 ATATTA-AATATTATTTATCAATAATATT-TATTAATAATATATATTAATAGTATATTATTTATT
1 ATATTATAATATTATTAAT-AAT-ATATTATATTAA-ATTA-ATAAT-ATATTATATTATTTATT
17238689 AATAATATTAT-
61 AATAATATTATA
*
17238700 TTATTA-ATATATTATT-ATAATATCTATTA-ATTAAATTAATAATATTTATTATATTATTTATT
1 ATATTATA-ATATTATTAATAATA--TATTATATTAAATTAATAATA--TATTATATTATTTATT
17238762 AATATAATATTATA
61 -A-ATAATATTATA
** * *
17238776 ATATTATAATATTATTAATAATATATTATATTGTATTAATAATATATTAT-TTATTAATAAATAA
1 ATATTATAATATTATTAATAATATATTATATTAAATTAATAATATATTATATTATTTATTAATAA
17238840 TATTATA
66 TATTATA
17238847 TCCATAAATT
Statistics
Matches: 126, Mismatches: 9, Indels: 27
0.78 0.06 0.17
Matches are distributed among these distances:
71 12 0.10
72 6 0.05
73 28 0.22
74 24 0.19
75 23 0.18
76 26 0.21
77 7 0.06
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (72 bp):
ATATTATAATATTATTAATAATATATTATATTAAATTAATAATATATTATATTATTTATTAATAA
TATTATA
Found at i:17238814 original size:21 final size:20
Alignment explanation
Indices: 17238662--17238847 Score: 99
Period size: 21 Copynumber: 9.2 Consensus size: 20
17238652 TTTATTAATA
* *
17238662 ATATATATTAATAGTATA-T
1 ATATTTATTAATAATATATT
17238681 -TATTTATTAAT-A-ATA-T
1 ATATTTATTAATAATATATT
17238697 -TATTTATTAAT-ATATTATT
1 ATATTTATTAATAATA-TATT
*
17238716 ATAATATCTATTAATTAA-ATTAATA
1 AT-AT-T-TATTAA-TAATA-T-ATT
* *
17238741 ATATTTATTATATTATTTATT
1 ATATTTATTA-ATAATATATT
* *
17238762 AATATAATATT-ATAATATTATA
1 -ATAT-TTATTAATAATA-TATT
17238784 ATA-TTATTAATAATATATT
1 ATATTTATTAATAATATATT
17238803 ATATTGTATTAATAATATA-T
1 ATATT-TATTAATAATATATT
17238823 -TATTTATTAATAAATAATATT
1 ATATTTATTAAT-AAT-ATATT
17238844 ATAT
1 ATAT
17238848 CCATAAATTA
Statistics
Matches: 133, Mismatches: 12, Indels: 41
0.72 0.06 0.22
Matches are distributed among these distances:
16 16 0.12
17 1 0.01
18 19 0.14
19 18 0.14
20 12 0.09
21 25 0.19
22 19 0.14
23 12 0.09
24 6 0.05
25 5 0.04
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.53
Consensus pattern (20 bp):
ATATTTATTAATAATATATT
Found at i:17238840 original size:55 final size:54
Alignment explanation
Indices: 17238693--17238845 Score: 150
Period size: 55 Copynumber: 2.8 Consensus size: 54
17238683 TTTATTAATA
* * * *
17238693 ATATTATTTATTAATATATTATTATAATATCTATTAAT-TAAATTAATAATATTTATT
1 ATATTATTTAATAATATAATATTATAATA--TAATAATAT-TATTAATAATA-TTATT
* *
17238750 ATATTATTTATTAATATAATATTATAATATTATAATATTATTAATAATA-TATT
1 ATATTATTTAATAATATAATATTATAATATAATAATATTATTAATAATATTATT
* *
17238803 ATATTGTATTAATAATATATTATTTATTAATA-AATAATATTAT
1 ATATTAT-TTAATAATATAATA-TTA-TAATATAATAATATTAT
17238846 ATCCATAAAT
Statistics
Matches: 84, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
53 10 0.12
54 12 0.14
55 28 0.33
56 6 0.07
57 28 0.33
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.53
Consensus pattern (54 bp):
ATATTATTTAATAATATAATATTATAATATAATAATATTATTAATAATATTATT
Found at i:17238858 original size:76 final size:75
Alignment explanation
Indices: 17238708--17238859 Score: 175
Period size: 76 Copynumber: 2.0 Consensus size: 75
17238698 ATTTATTAAT
* * * *
17238708 ATATTATTATAATATCTATTAATTAAATTAATAATATTTATTATATTATTTATTAATATAATATT
1 ATATTATTATAATA-CTATTAATTAAATTAATAATATTTATTATATTAATAAATAATATAATATC
17238773 ATAATATTATA
65 ATAATATTATA
** *
17238784 ATATTATTAATAATA-TATTATATTGTATTAATAATATATTATT-TATTAATAAATAATATTATA
1 ATATTATT-ATAATACTATTA-ATTAAATTAATAATAT-TTATTATATTAATAAATAATATAATA
17238847 TCCATAA-ATTATA
63 T-CATAATATTATA
17238860 TACTAATAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
75 5 0.08
76 45 0.69
77 15 0.23
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.51
Consensus pattern (75 bp):
ATATTATTATAATACTATTAATTAAATTAATAATATTTATTATATTAATAAATAATATAATATCA
TAATATTATA
Found at i:17238928 original size:13 final size:13
Alignment explanation
Indices: 17238911--17238967 Score: 59
Period size: 13 Copynumber: 4.6 Consensus size: 13
17238901 ATATATGATT
17238911 TATTAATATATTA
1 TATTAATATATTA
* *
17238924 CATTAATA-A-AA
1 TATTAATATATTA
17238935 TA-TAATATTATT-
1 TATTAATA-TATTA
17238947 TATTAATATATTA
1 TATTAATATATTA
17238960 TATTAATA
1 TATTAATA
17238968 ATATACGTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
10 5 0.14
11 2 0.06
12 8 0.23
13 20 0.57
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (13 bp):
TATTAATATATTA
Found at i:17238955 original size:36 final size:35
Alignment explanation
Indices: 17238898--17238968 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 35
17238888 AATAGTAAAT
17238898 AATATATATGATTTATTAATATATTACATTAATAA
1 AATATATATGATTTATTAATATATTACATTAATAA
* *
17238933 AATATAATATTATTTATTAATATATTATATTAATAA
1 AATAT-ATATGATTTATTAATATATTACATTAATAA
17238969 TATACGTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
35 5 0.15
36 28 0.85
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (35 bp):
AATATATATGATTTATTAATATATTACATTAATAA
Found at i:17241539 original size:3 final size:3
Alignment explanation
Indices: 17241531--17241555 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
17241521 AGCTGGCATG
17241531 GCA GCA GCA GCA GCA GCA GCA GCA G
1 GCA GCA GCA GCA GCA GCA GCA GCA G
17241556 AGTTCCTTGT
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:0.32, C:0.32, G:0.36, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:17241884 original size:2 final size:2
Alignment explanation
Indices: 17241877--17241904 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17241867 GTAGAAGGCC
17241877 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
17241905 TGAATATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17247044 original size:2 final size:2
Alignment explanation
Indices: 17247039--17247064 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17247029 GCGCGCACAC
17247039 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
17247065 ATCATTTATG
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):
GA
Found at i:17249626 original size:21 final size:21
Alignment explanation
Indices: 17249600--17249642 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
17249590 ATATTCCCCC
17249600 TTTTTTATTCTGTGGATAAGT
1 TTTTTTATTCTGTGGATAAGT
*
17249621 TTTTTTATTTTGTGGATAAGT
1 TTTTTTATTCTGTGGATAAGT
17249642 T
1 T
17249643 AACTCATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.02, G:0.19, T:0.60
Consensus pattern (21 bp):
TTTTTTATTCTGTGGATAAGT
Found at i:17254713 original size:28 final size:31
Alignment explanation
Indices: 17254618--17254736 Score: 115
Period size: 29 Copynumber: 3.9 Consensus size: 31
17254608 ATATAAAATT
* * *
17254618 TATTATTTTATTGTGTACCATTAAACTTTTTAAC
1 TATTATTTT-TTGTTTA--ATTAAAATTCTTAAC
* *
17254652 TA-CATTTTTTGTTTAA-TAAAATTCTTAAG
1 TATTATTTTTTGTTTAATTAAAATTCTTAAC
17254681 TATTA-TTTTTGTTTAATTAAAATT-TT-AC
1 TATTATTTTTTGTTTAATTAAAATTCTTAAC
*
17254709 TATTATTTTTTATTTAATT-AAATTCTTA
1 TATTATTTTTTGTTTAATTAAAATTCTTA
17254737 TTTTTTTTAT
Statistics
Matches: 72, Mismatches: 8, Indels: 14
0.77 0.09 0.15
Matches are distributed among these distances:
28 11 0.15
29 39 0.54
30 9 0.12
32 6 0.08
33 5 0.07
34 2 0.03
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (31 bp):
TATTATTTTTTGTTTAATTAAAATTCTTAAC
Found at i:17255467 original size:18 final size:20
Alignment explanation
Indices: 17255440--17255478 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
17255430 TTCCCTTTAA
17255440 TTTTATTGAT-GAAGTTGAT
1 TTTTATTGATCGAAGTTGAT
*
17255459 TTTTA-TGATCGTAGTTGAT
1 TTTTATTGATCGAAGTTGAT
17255478 T
1 T
17255479 GATTGATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.23, C:0.03, G:0.21, T:0.54
Consensus pattern (20 bp):
TTTTATTGATCGAAGTTGAT
Found at i:17264615 original size:8 final size:8
Alignment explanation
Indices: 17264602--17264634 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
17264592 TAAATTTTAA
17264602 TTTTAATT
1 TTTTAATT
17264610 TTTTAATT
1 TTTTAATT
17264618 TTTT-ATT
1 TTTTAATT
17264625 TTGTTAATT
1 TT-TTAATT
17264634 T
1 T
17264635 ATTACATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 5 0.22
8 14 0.61
9 4 0.17
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (8 bp):
TTTTAATT
Found at i:17264631 original size:16 final size:15
Alignment explanation
Indices: 17264596--17264634 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
17264586 TGATTTTAAA
17264596 TTTTAA-TTTTAATT
1 TTTTAATTTTTAATT
*
17264610 TTTTAATTTTTTATT
1 TTTTAATTTTTAATT
17264625 TTGTTAATTT
1 TT-TTAATTT
17264635 ATTACATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.27
15 9 0.41
16 7 0.32
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (15 bp):
TTTTAATTTTTAATT
Found at i:17268829 original size:10 final size:11
Alignment explanation
Indices: 17268804--17268842 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
17268794 AATACGATAC
17268804 AAAAATAATTT
1 AAAAATAATTT
17268815 AAAAATAATTT
1 AAAAATAATTT
*
17268826 AAAAATAATAT
1 AAAAATAATTT
17268837 AAAAAT
1 AAAAAT
17268843 GACTCGATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAAATAATTT
Found at i:17270235 original size:13 final size:14
Alignment explanation
Indices: 17270217--17270249 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
17270207 TTCGACTTTT
17270217 AAATTATTAT-ATA
1 AAATTATTATAATA
17270230 AAATTA-TATAATA
1 AAATTATTATAATA
17270243 AAATTAT
1 AAATTAT
17270250 CAATTATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.17
13 15 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAATTATTATAATA
Found at i:17278112 original size:2 final size:2
Alignment explanation
Indices: 17278107--17278143 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
17278097 TAAGTGTGTG
*
17278107 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17278144 GTACATATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:17278752 original size:25 final size:25
Alignment explanation
Indices: 17278718--17278767 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
17278708 GTCCTTGTTT
17278718 GAGTTTCACATCATTGTAAGGACTA
1 GAGTTTCACATCATTGTAAGGACTA
*
17278743 GAGTTTCACATCATTGTAATGACTA
1 GAGTTTCACATCATTGTAAGGACTA
17278768 AGGATCATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (25 bp):
GAGTTTCACATCATTGTAAGGACTA
Found at i:17278928 original size:19 final size:19
Alignment explanation
Indices: 17278906--17278966 Score: 86
Period size: 19 Copynumber: 3.2 Consensus size: 19
17278896 TTGGGTAATT
*
17278906 TTTACTTTTAACGGCTACC
1 TTTACTTTTAATGGCTACC
17278925 TTTACTTTTAATGGCTACC
1 TTTACTTTTAATGGCTACC
* *
17278944 TTTTGCTTTTAATGGCTTCC
1 -TTTACTTTTAATGGCTACC
17278964 TTT
1 TTT
17278967 TTTGGGTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 21 0.55
20 17 0.45
ACGTcount: A:0.16, C:0.21, G:0.11, T:0.51
Consensus pattern (19 bp):
TTTACTTTTAATGGCTACC
Found at i:17278954 original size:20 final size:20
Alignment explanation
Indices: 17278905--17278967 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
17278895 TTTGGGTAAT
*
17278905 TTTTACTTTTAACGGCTACC
1 TTTTACTTTTAATGGCTACC
17278925 -TTTACTTTTAATGGCTACC
1 TTTTACTTTTAATGGCTACC
* *
17278944 TTTTGCTTTTAATGGCTTCC
1 TTTTACTTTTAATGGCTACC
17278964 TTTT
1 TTTT
17278968 TTGGGTAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
19 18 0.46
20 21 0.54
ACGTcount: A:0.16, C:0.21, G:0.11, T:0.52
Consensus pattern (20 bp):
TTTTACTTTTAATGGCTACC
Found at i:17281892 original size:5 final size:5
Alignment explanation
Indices: 17281882--17281907 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
17281872 ACCGAATTTA
17281882 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
17281908 TTTTTTCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:17283750 original size:25 final size:25
Alignment explanation
Indices: 17283722--17283771 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
17283712 TCTTCCCATG
*
17283722 GCTTGAACTATTAATTTTTCCCACA
1 GCTTGAACCATTAATTTTTCCCACA
*
17283747 GCTTGAACCATTAGTTTTTCCCACA
1 GCTTGAACCATTAATTTTTCCCACA
17283772 TCCTAATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.38
Consensus pattern (25 bp):
GCTTGAACCATTAATTTTTCCCACA
Found at i:17286421 original size:2 final size:2
Alignment explanation
Indices: 17286414--17286441 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17286404 CTTCAAAAAG
17286414 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
17286442 AGATGCACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17289303 original size:20 final size:20
Alignment explanation
Indices: 17289278--17289315 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
17289268 TTGAAGGCTT
*
17289278 AATTGAATGAAAATAAATTC
1 AATTGAAAGAAAATAAATTC
17289298 AATTGAAAGAAAATAAAT
1 AATTGAAAGAAAATAAAT
17289316 GTTTAATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.61, C:0.03, G:0.11, T:0.26
Consensus pattern (20 bp):
AATTGAAAGAAAATAAATTC
Found at i:17289334 original size:30 final size:30
Alignment explanation
Indices: 17289292--17289360 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
17289282 GAATGAAAAT
* *
17289292 AAATTCAATTGAAAGAAAATAAATGTTTAA
1 AAATTTAATTGAAAGAAAATAAATATTTAA
* * *
17289322 TAGTTTAATTGAATGAAAATAAATATTTAA
1 AAATTTAATTGAAAGAAAATAAATATTTAA
17289352 AAATTTAAT
1 AAATTTAAT
17289361 AAATTATAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.54, C:0.01, G:0.09, T:0.36
Consensus pattern (30 bp):
AAATTTAATTGAAAGAAAATAAATATTTAA
Found at i:17301920 original size:31 final size:30
Alignment explanation
Indices: 17301874--17301945 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 30
17301864 ATTTTAAAAA
*
17301874 AATTTATTTATTAATAAAAT-ATTATTATTT
1 AATTTATTAATTAAT-AAATCATTATTATTT
*
17301904 AATTTATCTAATTAATAAATCATTTTTATTT
1 AATTTAT-TAATTAATAAATCATTATTATTT
*
17301935 AATCTATTAAT
1 AATTTATTAAT
17301946 AATGTATCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 15 0.41
31 22 0.59
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (30 bp):
AATTTATTAATTAATAAATCATTATTATTT
Found at i:17303885 original size:17 final size:17
Alignment explanation
Indices: 17303860--17303918 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
17303850 ATATCCATAT
17303860 TTTAAATAAAATATTAA
1 TTTAAATAAAATATTAA
* * *
17303877 TTTATATAAAAAATTTA
1 TTTAAATAAAATATTAA
*
17303894 TTTAGATACAAAT-TATAA
1 TTTAAATA-AAATAT-TAA
17303912 TTTAAAT
1 TTTAAAT
17303919 TTTTATTGGT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
17 22 0.67
18 11 0.33
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (17 bp):
TTTAAATAAAATATTAA
Found at i:17303964 original size:30 final size:30
Alignment explanation
Indices: 17303890--17303970 Score: 76
Period size: 30 Copynumber: 2.7 Consensus size: 30
17303880 ATATAAAAAA
* * * *
17303890 TTTATTTAGATACAAATTATAATTTAAATT
1 TTTATTTTGATACAAAATAAAAGTTAAATT
*
17303920 TTTATTGGTG-TACAAAATAAAAGTT-AATAT
1 TTTATT-TTGATACAAAATAAAAGTTAAAT-T
*
17303950 TTTATTTTGATACAACATAAA
1 TTTATTTTGATACAAAATAAA
17303971 TATAAAAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
29 5 0.12
30 35 0.85
31 1 0.02
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.44
Consensus pattern (30 bp):
TTTATTTTGATACAAAATAAAAGTTAAATT
Found at i:17306462 original size:12 final size:12
Alignment explanation
Indices: 17306447--17306472 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17306437 AGGGATACTC
17306447 ACTGCCCTTATA
1 ACTGCCCTTATA
17306459 ACTGCCCTTATA
1 ACTGCCCTTATA
17306471 AC
1 AC
17306473 AAATTCAGAA
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:0.27, C:0.35, G:0.08, T:0.31
Consensus pattern (12 bp):
ACTGCCCTTATA
Found at i:17310069 original size:2 final size:2
Alignment explanation
Indices: 17310062--17310086 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17310052 TGTCTAAAAT
17310062 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 T
17310087 TTTTTACATT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17311332 original size:12 final size:12
Alignment explanation
Indices: 17311314--17311353 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
17311304 ATTTTTAATA
17311314 TAAATATAAAAT
1 TAAATATAAAAT
*
17311326 TATATATATAAA-
1 TAAATATA-AAAT
17311338 TAAATATAAAAT
1 TAAATATAAAAT
17311350 TAAA
1 TAAA
17311354 AAAATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 3 0.12
12 18 0.75
13 3 0.12
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TAAATATAAAAT
Found at i:17312426 original size:2 final size:2
Alignment explanation
Indices: 17312419--17312446 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17312409 TGGAATGGAG
17312419 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
17312447 GTTTATTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17314420 original size:17 final size:17
Alignment explanation
Indices: 17314398--17314430 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17314388 TTAATGGGAA
17314398 AAAAAAAAAAAAACAAC
1 AAAAAAAAAAAAACAAC
*
17314415 AAAAAAACAAAAACAA
1 AAAAAAAAAAAAACAA
17314431 ATCAGAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAACAAC
Found at i:17328032 original size:6 final size:6
Alignment explanation
Indices: 17328021--17328054 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
17328011 GCCATTGAAG
17328021 AGAGCC AGAGCC AGAGCC AGAGCC AGAGCC AGAG
1 AGAGCC AGAGCC AGAGCC AGAGCC AGAGCC AGAG
17328055 ACAATGATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.35, C:0.29, G:0.35, T:0.00
Consensus pattern (6 bp):
AGAGCC
Found at i:17330002 original size:13 final size:13
Alignment explanation
Indices: 17329984--17330008 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17329974 CCTGACCTGA
17329984 ATTTATATATATT
1 ATTTATATATATT
17329997 ATTTATATATAT
1 ATTTATATATAT
17330009 GTGAATTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTATATATATT
Found at i:17334008 original size:12 final size:12
Alignment explanation
Indices: 17333988--17334032 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
17333978 TCAATACCTG
*
17333988 TGTAGTAATAAA
1 TGTAATAATAAA
17334000 TGTAATAAT-AA
1 TGTAATAATAAA
*
17334011 CG--ATAATAAA
1 TGTAATAATAAA
17334021 TGTAATAATAAA
1 TGTAATAATAAA
17334033 GACTACAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
9 5 0.19
10 3 0.11
11 3 0.11
12 16 0.59
ACGTcount: A:0.56, C:0.02, G:0.11, T:0.31
Consensus pattern (12 bp):
TGTAATAATAAA
Found at i:17334890 original size:23 final size:23
Alignment explanation
Indices: 17334859--17334908 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
17334849 CGGATATTAA
* *
17334859 TTTTTATATA-ATTATTATAATT
1 TTTTTATATATATAATGATAATT
17334881 TTTTTGATATATATAATGATAATT
1 TTTTT-ATATATATAATGATAATT
17334905 TTTT
1 TTTT
17334909 ATTTTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 5 0.21
23 5 0.21
24 14 0.58
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (23 bp):
TTTTTATATATATAATGATAATT
Found at i:17336394 original size:12 final size:11
Alignment explanation
Indices: 17336368--17336401 Score: 54
Period size: 10 Copynumber: 3.3 Consensus size: 11
17336358 TCTTTAATTT
17336368 AATA-ATTAAA
1 AATATATTAAA
17336378 AATAT-TTAAA
1 AATATATTAAA
17336388 AATATATTAAA
1 AATATATTAAA
17336399 AAT
1 AAT
17336402 TTAATTTCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AATATATTAAA
Found at i:17336745 original size:21 final size:24
Alignment explanation
Indices: 17336727--17336776 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
17336717 ATATATATGT
17336727 TATA-TTTTTATATTAATATAATA
1 TATATTTTTTATATTAATATAATA
* *
17336750 TATATTTTTTATA-TAAAATAAAA
1 TATATTTTTTATATTAATATAATA
17336773 TATA
1 TATA
17336777 AATATATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TATATTTTTTATATTAATATAATA
Found at i:17338616 original size:2 final size:2
Alignment explanation
Indices: 17338609--17338633 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17338599 AAACGTTTAC
17338609 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
17338634 AACGTTATCT
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:17347575 original size:15 final size:17
Alignment explanation
Indices: 17347547--17347579 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
17347537 AACCTAATGT
17347547 GAATTATTCTAAGTAAA
1 GAATTATTCTAAGTAAA
17347564 GAATTA-TC-AAGTAAA
1 GAATTATTCTAAGTAAA
17347579 G
1 G
17347580 TAAAATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.30
Consensus pattern (17 bp):
GAATTATTCTAAGTAAA
Found at i:17348464 original size:17 final size:17
Alignment explanation
Indices: 17348439--17348476 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
17348429 GTATTTTTAT
* *
17348439 ATTTTTATATAATAGAA
1 ATTTATATATAATAAAA
17348456 ATTTATATATAATAAAA
1 ATTTATATATAATAAAA
17348473 ATTT
1 ATTT
17348477 TCAAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
ATTTATATATAATAAAA
Found at i:17350976 original size:22 final size:22
Alignment explanation
Indices: 17350922--17351013 Score: 94
Period size: 22 Copynumber: 4.2 Consensus size: 22
17350912 ATAACTTAAC
*
17350922 AAATAAGTGATAACTTACTAGT
1 AAATAAGTGATAACTTAATAGT
* * * *
17350944 TAATTATTGATAACTTAATAAT
1 AAATAAGTGATAACTTAATAGT
* *
17350966 AAATAAATGATAACTCAATAGT
1 AAATAAGTGATAACTTAATAGT
* * *
17350988 AAGTTAGTGATAATTTAATAGT
1 AAATAAGTGATAACTTAATAGT
17351010 AAAT
1 AAAT
17351014 CAATTTTAAT
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (22 bp):
AAATAAGTGATAACTTAATAGT
Found at i:17351043 original size:44 final size:43
Alignment explanation
Indices: 17350922--17351043 Score: 118
Period size: 44 Copynumber: 2.8 Consensus size: 43
17350912 ATAACTTAAC
* * *
17350922 AAATAAGTGATAACTTACTAGTTAATTATTGATAACTTAATAAT
1 AAATAAATGATAACTCAATAG-TAATTATTGATAACTTAATAAT
* * *
17350966 AAATAAATGATAACTCAATAGTAAGTTAGTGATAATTTAATAGT
1 AAATAAATGATAACTCAATAGTAA-TTATTGATAACTTAATAAT
* ** * *
17351010 AAATCAATTTTAATTTAATAGTAATTAATTGATA
1 AAATAAATGATAACTCAATAGTAATT-ATTGATA
17351044 GTAATAAATC
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
43 5 0.08
44 59 0.92
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.39
Consensus pattern (43 bp):
AAATAAATGATAACTCAATAGTAATTATTGATAACTTAATAAT
Found at i:17351096 original size:22 final size:22
Alignment explanation
Indices: 17351043--17351096 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
17351033 ATTAATTGAT
17351043 AGTAATAAATCATAAATAACTA
1 AGTAATAAATCATAAATAACTA
* *
17351065 AATAACAAATCA-ATAATAACTA
1 AGTAATAAATCATA-AATAACTA
*
17351087 AGTAGTAAAT
1 AGTAATAAAT
17351097 AATTGATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.26
Consensus pattern (22 bp):
AGTAATAAATCATAAATAACTA
Found at i:17351193 original size:22 final size:22
Alignment explanation
Indices: 17351146--17351448 Score: 88
Period size: 22 Copynumber: 14.0 Consensus size: 22
17351136 TAAATCATCA
* *
17351146 ATAACTTAATAGTTAATAAGTG
1 ATAACTTAATAGTAAATTAGTG
17351168 ATAACTTAATAGTAAATTA-TG
1 ATAACTTAATAGTAAATTAGTG
*
17351189 CATAA-TTAATA-TAAATTAGTA
1 -ATAACTTAATAGTAAATTAGTG
* ** *
17351210 ATAATTTGGTAGTGAATTA-TAG
1 ATAACTTAATAGTAAATTAGT-G
* * **
17351232 ATAATTTAGT-GATAAATCGGTG
1 ATAACTTAATAG-TAAATTAGTG
* ** * *
17351254 ATAATTTTGTAGTAAATAATTG
1 ATAACTTAATAGTAAATTAGTG
* * * * **
17351276 AAAAATTAAGTAATAAATCAAAG
1 ATAACTTAA-TAGTAAATTAGTG
* *
17351299 ATAACATAATAGTAAATATA-TA
1 ATAACTTAATAGTAAAT-TAGTG
* * ***
17351321 AAAACTTAATGGTAAATCCTTG
1 ATAACTTAATAGTAAATTAGTG
* **
17351343 ATAATTTGCTAGTAAA--A-TG
1 ATAACTTAATAGTAAATTAGTG
* * * *
17351362 ATAACTTAGTAGTAAATCACTA
1 ATAACTTAATAGTAAATTAGTG
* * *
17351384 ATAACGTAATTA-TAAATTACTA
1 ATAACTTAA-TAGTAAATTAGTG
*
17351406 ATAACTTAATTA-TAAATCAGTG
1 ATAACTTAA-TAGTAAATTAGTG
* *
17351428 ATAATTTAGTAGTAAATTAGT
1 ATAACTTAATAGTAAATTAGT
17351449 TAATTATTAA
Statistics
Matches: 209, Mismatches: 56, Indels: 32
0.70 0.19 0.11
Matches are distributed among these distances:
19 15 0.07
20 11 0.05
21 18 0.09
22 145 0.69
23 20 0.10
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.36
Consensus pattern (22 bp):
ATAACTTAATAGTAAATTAGTG
Found at i:17351444 original size:44 final size:43
Alignment explanation
Indices: 17351134--17351446 Score: 140
Period size: 44 Copynumber: 7.2 Consensus size: 43
17351124 AAAACTTGAA
* * * * *
17351134 AGTAAATCATCAATAACTTAA-TAGTTAATAAGTGATAACTTAAT
1 AGTAAATTAT-AATAACTTAATTA-TAAATCAGTGATAATTTAGT
* * * *
17351178 AGTAAATTATGCATAA-TTAA-TATAAATTAGTAATAATTTGGT
1 AGTAAATTAT-AATAACTTAATTATAAATCAGTGATAATTTAGT
* * * * * *
17351220 AGTGAATTATAGATAATTTAGTGATAAATCGGTGATAATTTTGT
1 AGTAAATTATA-ATAACTTAATTATAAATCAGTGATAATTTAGT
* * * ** ** *
17351264 AGTAAATAATTGAA-AAATTAAGTAATAAATCAAAGATAACATAAT
1 AGTAAATTA-T-AATAACTTAA-TTATAAATCAGTGATAATTTAGT
* ** **
17351309 AGTAAATATATAAAAACTTAATGGTAAATCCTTGATAATTT-GCT
1 AGTAAAT-TATAATAACTTAATTATAAATCAGTGATAATTTAG-T
* * * * * * *
17351353 AGTAAA--ATGATAACTT-AGTAGTAAATCACTAATAACGTAATT
1 AGTAAATTATAATAACTTAATTA-TAAATCAGTGATAA-TTTAGT
17351395 A-TAAATTACTAATAACTTAATTATAAATCAGTGATAATTTAGT
1 AGTAAATTA-TAATAACTTAATTATAAATCAGTGATAATTTAGT
17351438 AGTAAATTA
1 AGTAAATTA
17351447 GTTAATTATT
Statistics
Matches: 195, Mismatches: 57, Indels: 34
0.68 0.20 0.12
Matches are distributed among these distances:
40 1 0.01
41 23 0.12
42 30 0.15
43 14 0.07
44 91 0.47
45 34 0.17
46 2 0.01
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (43 bp):
AGTAAATTATAATAACTTAATTATAAATCAGTGATAATTTAGT
Found at i:17351495 original size:22 final size:22
Alignment explanation
Indices: 17351470--17351527 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
17351460 AATTTTTTAG
* *
17351470 TAAATTATCGATAAATTAATAA
1 TAAATAATCAATAAATTAATAA
* * *
17351492 TAAATCAGT-TATAAATTTATAA
1 TAAAT-AATCAATAAATTAATAA
17351514 TAAATAATCAATAA
1 TAAATAATCAATAA
17351528 CTTAGTGATA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
21 2 0.07
22 25 0.89
23 1 0.04
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.36
Consensus pattern (22 bp):
TAAATAATCAATAAATTAATAA
Found at i:17351586 original size:22 final size:22
Alignment explanation
Indices: 17351480--17351614 Score: 78
Period size: 22 Copynumber: 6.2 Consensus size: 22
17351470 TAAATTATCG
*
17351480 ATAAATTAATAATAAATCAGTT-
1 ATAAATTAATAACAAATCA-TTA
* * * *
17351502 ATAAATTTATAATAAATAATCA
1 ATAAATTAATAACAAATCATTA
* * * * **
17351524 ATAACTTAGTGATAAATCACCA
1 ATAAATTAATAACAAATCATTA
* * *
17351546 ACAATTTAATAA-AAATCATTC
1 ATAAATTAATAACAAATCATTA
* *
17351567 ATAACTTAATAACAAATCATTT
1 ATAAATTAATAACAAATCATTA
*
17351589 ATAAATTAGT-ACTAAATCATTA
1 ATAAATTAATAAC-AAATCATTA
17351611 ATAA
1 ATAA
17351615 TTTTGTAGTA
Statistics
Matches: 88, Mismatches: 22, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
21 19 0.22
22 69 0.78
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.34
Consensus pattern (22 bp):
ATAAATTAATAACAAATCATTA
Found at i:17351655 original size:22 final size:22
Alignment explanation
Indices: 17351621--17351662 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
17351611 ATAATTTTGT
*
17351621 AGTAAATAATTGATAGCTTAAA
1 AGTAAATAATTGATAACTTAAA
**
17351643 AGTAAATTGTTGATAACTTA
1 AGTAAATAATTGATAACTTA
17351663 GTTGTCAATC
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:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (22 bp):
AGTAAATAATTGATAACTTAAA
Found at i:17351995 original size:29 final size:29
Alignment explanation
Indices: 17351963--17352023 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
17351953 GTGATAACTT
* * *
17351963 AATAGTTAATTATTGATAACTTAATACTA
1 AATAGTAAATTAATGATAACTTAATAATA
17351992 AATAGTAAATTAATGATAACTTAATAATA
1 AATAGTAAATTAATGATAACTTAATAATA
17352021 AAT
1 AAT
17352024 CAATTTCAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.38
Consensus pattern (29 bp):
AATAGTAAATTAATGATAACTTAATAATA
Found at i:17352512 original size:21 final size:21
Alignment explanation
Indices: 17352488--17352527 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
17352478 TACCTAACTA
*
17352488 ATATC-AAAGGTTATCAAAAGT
1 ATATCGAAA-GTTACCAAAAGT
17352509 ATATCGAAAGTTACCAAAA
1 ATATCGAAAGTTACCAAAA
17352528 TTTTATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.25
Consensus pattern (21 bp):
ATATCGAAAGTTACCAAAAGT
Found at i:17352570 original size:27 final size:27
Alignment explanation
Indices: 17352523--17352574 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
17352513 CGAAAGTTAC
*
17352523 CAAAATTTTATTAAAAATTATCAAAAT
1 CAAAATTATATTAAAAATTATCAAAAT
*
17352550 CAAAATTATA-TAAGAAGTTATCAAA
1 CAAAATTATATTAA-AAATTATCAAA
17352575 TTTTACTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.33
Consensus pattern (27 bp):
CAAAATTATATTAAAAATTATCAAAAT
Found at i:17352631 original size:79 final size:81
Alignment explanation
Indices: 17352548--17352710 Score: 213
Period size: 79 Copynumber: 2.0 Consensus size: 81
17352538 AATTATCAAA
* * * * **
17352548 ATCAAAATTATATAAGAAGTTATCAAATTTTACTTATA-ATA-TAAAAATTTAAATTAAATTATT
1 ATCAAAAGTATATAAAAAATTATCAAATTTTACTTATATATACCAAAAATAAAAATTAAATTATT
*
17352611 AGTATTTATCATTATT
66 AGTATTTATAATTATT
* * *
17352627 ATCAAAAGTATATAAAAAATTATCAAATTTTATTTATATTATACCAAAAATAAAAATTAAGTTGT
1 ATCAAAAGTATATAAAAAATTATCAAATTTTACTTATA-TATACCAAAAATAAAAATTAAATTAT
17352692 TAGTATTTATAATTATT
65 TAGTATTTATAATTATT
17352709 AT
1 AT
17352711 TACAACATCA
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
79 34 0.48
81 3 0.04
82 34 0.48
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (81 bp):
ATCAAAAGTATATAAAAAATTATCAAATTTTACTTATATATACCAAAAATAAAAATTAAATTATT
AGTATTTATAATTATT
Found at i:17353714 original size:22 final size:22
Alignment explanation
Indices: 17353688--17353729 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
17353678 AGGTTTTTAA
17353688 TAAAAATAATTAAA-TAAAAATT
1 TAAAAATAA-TAAATTAAAAATT
*
17353710 TAAAATTAATAAATTAAAAA
1 TAAAAATAATAAATTAAAAA
17353730 ATGTTGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAAATAATAAATTAAAAATT
Found at i:17354512 original size:6 final size:6
Alignment explanation
Indices: 17354466--17354517 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
17354456 TTAAGATTGA
* * * *
17354466 TATTTT TATTTA TATTTT T-TATT TACTTT TATGTTT GATTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TAT-TTT TATTTT TATTTT
17354514 TATT
1 TATT
17354518 CATTTCCTGA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
5 4 0.11
6 27 0.75
7 5 0.14
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (6 bp):
TATTTT
Found at i:17354750 original size:14 final size:12
Alignment explanation
Indices: 17354732--17354774 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
17354722 AATATTATTT
17354732 TTAAATATAAATA
1 TTAAATATAAA-A
17354745 TATAAATATAAAA
1 T-TAAATATAAAA
17354758 TTAAATA-AATAA
1 TTAAATATAA-AA
17354770 TTAAA
1 TTAAA
17354775 AATATTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 2 0.07
12 13 0.46
13 3 0.11
14 10 0.36
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TTAAATATAAAA
Found at i:17355104 original size:16 final size:15
Alignment explanation
Indices: 17355083--17355120 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
17355073 CTATTAAAAA
*
17355083 ATTAAAATTATTTATT
1 ATTAAAATTA-TTAAT
17355099 ATTAAAATTATTAAT
1 ATTAAAATTATTAAT
17355114 ATTAAAA
1 ATTAAAA
17355121 GATAATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTAAAATTATTAAT
Found at i:17355118 original size:15 final size:16
Alignment explanation
Indices: 17355083--17355177 Score: 66
Period size: 18 Copynumber: 5.5 Consensus size: 16
17355073 CTATTAAAAA
*
17355083 ATTAAAATTATTTATT
1 ATTAAAATTATTTAAT
17355099 ATTAAAATTA-TTAAT
1 ATTAAAATTATTTAAT
* *
17355114 ATTAAAAGATAATTATAT
1 ATTAAAA-TTATTTA-AT
*
17355132 TTTAATAATATTATTTAAT
1 ATT-A-AA-ATTATTTAAT
17355151 ATTAAAATATTATGTTAAT
1 ATT-AAA-ATTAT-TTAAT
*
17355170 ATAAAAAT
1 ATTAAAAT
17355178 ACTTAAAATA
Statistics
Matches: 65, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
15 11 0.17
16 12 0.18
17 5 0.08
18 15 0.23
19 14 0.22
20 7 0.11
21 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
ATTAAAATTATTTAAT
Found at i:17355168 original size:19 final size:18
Alignment explanation
Indices: 17355089--17355178 Score: 80
Period size: 19 Copynumber: 5.1 Consensus size: 18
17355079 AAAAATTAAA
*
17355089 ATTATTTATTATT-AAA-
1 ATTATTTAATATTAAAAT
*
17355105 ATTA-TTAATATTAAAAG
1 ATTATTTAATATTAAAAT
* *
17355122 A-TAATTATATTTTAATAAT
1 ATTATTTA-ATATTAA-AAT
17355141 ATTATTTAATATTAAAAT
1 ATTATTTAATATTAAAAT
*
17355159 ATTATGTTAATATAAAAAT
1 ATTAT-TTAATATTAAAAT
17355178 A
1 A
17355179 CTTAAAATAA
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
15 7 0.11
16 9 0.15
17 4 0.07
18 14 0.23
19 22 0.36
20 5 0.08
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
ATTATTTAATATTAAAAT
Found at i:17355398 original size:18 final size:18
Alignment explanation
Indices: 17355377--17355518 Score: 60
Period size: 17 Copynumber: 8.4 Consensus size: 18
17355367 AATATTATTT
17355377 ATTATATATTATAATATA
1 ATTATATATTATAATATA
17355395 ATTAT-TA--AT-ATATA
1 ATTATATATTATAATATA
*
17355409 ATT-TATTAATATAATATA
1 ATTATA-TATTATAATATA
* *
17355427 CTT-TAT-TTGTTAATATA
1 ATTATATATT-ATAATATA
* *
17355444 A-TAT-TATT-TATTAAA
1 ATTATATATTATAATATA
17355459 ATTA-ATA-TATTAATATA
1 ATTATATATTA-TAATATA
*
17355476 A-TATTTATTTATAATAATA
1 ATTATATA-TTATAAT-ATA
* * *
17355495 TTTAT-TAATATAATATT
1 ATTATATATTATAATATA
17355512 ATTATAT
1 ATTATAT
17355519 TATATTTATT
Statistics
Matches: 93, Mismatches: 13, Indels: 36
0.65 0.09 0.25
Matches are distributed among these distances:
13 1 0.01
14 8 0.09
15 11 0.12
16 9 0.10
17 29 0.31
18 25 0.27
19 7 0.08
20 3 0.03
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.53
Consensus pattern (18 bp):
ATTATATATTATAATATA
Found at i:17355432 original size:54 final size:55
Alignment explanation
Indices: 17355207--17355611 Score: 223
Period size: 54 Copynumber: 7.4 Consensus size: 55
17355197 ATTATTTTTT
17355207 ATATTATTTATTA-ATA-TATTAATATATTATTATTAATA-AT-ATTTATTAATATA
1 ATATTATTTATTATATATTATTAATATA--ATTATTAATATATAATTTATTAATATA
* * * * *
17355260 ATA-TA-TTAATAGTATATTATTTAT-TAATAATATTACT-TATTAATATATTACTATA
1 ATATTATTTATTA-TATATTATTAATATAAT--TATTAATATA-TAATTTATTAATATA
* * * * *
17355315 ATATTTATTAATTA-A-ATTAATCATATTTATTATTATATTATATAA-ATA-T-A-ATA
1 ATA-TTATTTATTATATATTATTAATA-TAATTATTA-A-TATATAATTTATTAATATA
17355368 ATATTATTTATTATATATTA-TAATATAATTATTAATATATAATTTATTAATATA
1 ATATTATTTATTATATATTATTAATATAATTATTAATATATAATTTATTAATATA
* * * * *
17355422 ATA-TACTTTATT-TGT-TAATATAATATTATTTATTAAAAT-TAATATATTAATATA
1 ATATTA-TTTATTATATATTAT-TAATA-TAATTATTAATATATAATTTATTAATATA
* *
17355476 ATATTTATTTATAATAATATTTATTAATATAA-TATTATTATATTATATTTATT--TATGA
1 ATA-TTATTTATTAT-ATA-TTATTAATATAATTATTAATATA-TA-ATTTATTAATAT-A
* * * *
17355534 ATA-TA-TTATAATATTATTATTAATATATTATATTAATAGTAT--GTTATTTATATA
1 ATATTATTTATTATA-TATTATTAATATAAT-TATTAATA-TATAATTTATTAATATA
*
17355588 ATATTATTTATTAATATAATATTA
1 ATATTATTTATT-ATATATTATTA
17355612 TTTTAAGTAA
Statistics
Matches: 274, Mismatches: 33, Indels: 87
0.70 0.08 0.22
Matches are distributed among these distances:
50 7 0.03
51 10 0.04
52 22 0.08
53 36 0.13
54 61 0.22
55 57 0.21
56 35 0.13
57 20 0.07
58 17 0.06
59 9 0.03
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (55 bp):
ATATTATTTATTATATATTATTAATATAATTATTAATATATAATTTATTAATATA
Found at i:17355551 original size:67 final size:68
Alignment explanation
Indices: 17355472--17355605 Score: 170
Period size: 67 Copynumber: 2.0 Consensus size: 68
17355462 AATATATTAA
*
17355472 TATAATATTTATT-TATAATAATATT-TATTAATA-TAATATTA-TTATATTATATTTATTTATG
1 TATAATATTTATTAT-TAAT-ATATTATATTAATAGT-ATATTATTTATATAATA-TTATTTATG
17355533 AATATAT
62 AATATAT
* *
17355540 TATAATA-TTATTATTAATATATTATATTAATAGTATGTTATTTATATAATATTATTTATTAATA
1 TATAATATTTATTATTAATATATTATATTAATAGTATATTATTTATATAATATTATTTATGAATA
17355604 TA
66 TA
17355606 ATATTATTTT
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
66 5 0.08
67 36 0.61
68 18 0.31
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (68 bp):
TATAATATTTATTATTAATATATTATATTAATAGTATATTATTTATATAATATTATTTATGAATA
TAT
Found at i:17355581 original size:19 final size:19
Alignment explanation
Indices: 17355559--17355614 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
17355549 ATTATTAATA
17355559 TATTATAT-TAATAGTATGT
1 TATTATATATAATAGTAT-T
*
17355578 TATT-TATATAATATTATT
1 TATTATATATAATAGTATT
*
17355596 TATTA-ATATAATATTATT
1 TATTATATATAATAGTATT
17355614 T
1 T
17355615 TAAGTAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 22 0.65
19 12 0.35
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (19 bp):
TATTATATATAATAGTATT
Found at i:17364147 original size:22 final size:22
Alignment explanation
Indices: 17364103--17364147 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
17364093 AATAAATTAG
*
17364103 TAATAATTTAATAGTAAATAAA
1 TAATAATTTAATAGTAAAGAAA
* *
17364125 TAATAATTTAGTAGTCAAGAAA
1 TAATAATTTAATAGTAAAGAAA
17364147 T
1 T
17364148 TGATAACTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (22 bp):
TAATAATTTAATAGTAAAGAAA
Found at i:17364305 original size:22 final size:22
Alignment explanation
Indices: 17364278--17364360 Score: 76
Period size: 22 Copynumber: 3.8 Consensus size: 22
17364268 CAAATAATTA
* * *
17364278 ATAACTTACTAGTTAATTATTG
1 ATAACTTAATAGTAAATTAATG
* * *
17364300 ATAACTTAGTAATAAATAAATG
1 ATAACTTAATAGTAAATTAATG
** *
17364322 ATAACTTAATAGTAAATTCGTA
1 ATAACTTAATAGTAAATTAATG
*
17364344 ATAATTTAATAGTAAAT
1 ATAACTTAATAGTAAAT
17364361 AAGTTTCACT
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (22 bp):
ATAACTTAATAGTAAATTAATG
Found at i:17364524 original size:22 final size:22
Alignment explanation
Indices: 17364493--17364576 Score: 93
Period size: 22 Copynumber: 3.9 Consensus size: 22
17364483 GTAAATCATA
*
17364493 AATAATTTAATAGTTAATTAGT
1 AATAATTTAATAGTAAATTAGT
* *
17364515 GATAAATTAATAGTAAATTACG-
1 AATAATTTAATAGTAAATTA-GT
*
17364537 CATAATTTAA-A-TAAATTAGT
1 AATAATTTAATAGTAAATTAGT
*
17364557 AATAATTTAATAGTGAATTA
1 AATAATTTAATAGTAAATTA
17364577 CAGATAGTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
19 1 0.02
20 16 0.31
21 2 0.04
22 31 0.61
23 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (22 bp):
AATAATTTAATAGTAAATTAGT
Found at i:17364567 original size:42 final size:44
Alignment explanation
Indices: 17364494--17364577 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 44
17364484 TAAATCATAA
* *
17364494 ATAATTTAATAGTTAATTAGTGATAAATTAATAGTAAATTACGC
1 ATAATTTAATAGTAAATTAGTAATAAATTAATAGTAAATTACGC
* *
17364538 ATAATTTAA-A-TAAATTAGTAATAATTTAATAGTGAATTAC
1 ATAATTTAATAGTAAATTAGTAATAAATTAATAGTAAATTAC
17364578 AGATAGTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 26 0.72
43 1 0.03
44 9 0.25
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.39
Consensus pattern (44 bp):
ATAATTTAATAGTAAATTAGTAATAAATTAATAGTAAATTACGC
Found at i:17364769 original size:22 final size:22
Alignment explanation
Indices: 17364729--17364770 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
17364719 TAGTAAATCA
*
17364729 CTAATAACGTAATTGTAAATTT
1 CTAATAACGTAATTATAAATTT
* *
17364751 CTAATAACTTGATTATAAAT
1 CTAATAACGTAATTATAAAT
17364771 CAGTAATAAT
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:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (22 bp):
CTAATAACGTAATTATAAATTT
Found at i:17364809 original size:52 final size:52
Alignment explanation
Indices: 17364752--17364850 Score: 121
Period size: 52 Copynumber: 1.9 Consensus size: 52
17364742 TGTAAATTTC
*
17364752 TAATAACTTGATTA-TAAATCAGT-AATAATTTAATAGTAAATTAGTTAATTAT
1 TAATAA-TTGATTAGTAAATCA-TCAATAAATTAATAGTAAATTAGTTAATTAT
** * *
17364804 TAATAATTTTTTAGTAAATTATCCATAAATTAATAGTAAATTAGTTA
1 TAATAATTGATTAGTAAATCATCAATAAATTAATAGTAAATTAGTTA
17364851 TAAATTTATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
51 6 0.15
52 34 0.85
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.43
Consensus pattern (52 bp):
TAATAATTGATTAGTAAATCATCAATAAATTAATAGTAAATTAGTTAATTAT
Found at i:17364831 original size:22 final size:22
Alignment explanation
Indices: 17364791--17364846 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
17364781 TTAATAGTAA
* * *
17364791 ATTAGTTAATTATTAATAATTT
1 ATTAGTAAATTATCAATAAATT
* *
17364813 TTTAGTAAATTATCCATAAATT
1 ATTAGTAAATTATCAATAAATT
*
17364835 AATAGTAAATTA
1 ATTAGTAAATTA
17364847 GTTATAAATT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (22 bp):
ATTAGTAAATTATCAATAAATT
Found at i:17364923 original size:21 final size:22
Alignment explanation
Indices: 17364899--17364940 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
17364889 TACCAACAAT
17364899 TTAATAA-AAATCATTCATAAC
1 TTAATAACAAATCATTCATAAC
*
17364920 TTAATAACAAATCATTTATAA
1 TTAATAACAAATCATTCATAA
17364941 ATTAGTACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (22 bp):
TTAATAACAAATCATTCATAAC
Found at i:17365275 original size:22 final size:22
Alignment explanation
Indices: 17365245--17365286 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
17365235 CCATATTAGT
*
17365245 AAATCAGTGATAAATTAATAAA
1 AAATAAGTGATAAATTAATAAA
*
17365267 AAATAAGTGATAACTTAATA
1 AAATAAGTGATAAATTAATA
17365287 GTTAATCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.57, C:0.05, G:0.10, T:0.29
Consensus pattern (22 bp):
AAATAAGTGATAAATTAATAAA
Found at i:17365311 original size:29 final size:29
Alignment explanation
Indices: 17365279--17365337 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
17365269 ATAAGTGATA
* * *
17365279 ACTTAATAGTTAATCATTGATAACTTAAT
1 ACTTAATAATAAATCAATGATAACTTAAT
* *
17365308 ACTTAGTAATAAATTAATGATAACTTAAT
1 ACTTAATAATAAATCAATGATAACTTAAT
17365337 A
1 A
17365338 ATAAATCTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (29 bp):
ACTTAATAATAAATCAATGATAACTTAAT
Found at i:17365568 original size:22 final size:21
Alignment explanation
Indices: 17365519--17365558 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
17365509 ACATCAATGC
17365519 TAATTTAGTAATAAATTTTGA
1 TAATTTAGTAATAAATTTTGA
*
17365540 TAATTTAGTAATATATTTT
1 TAATTTAGTAATAAATTTT
17365559 TTATAGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (21 bp):
TAATTTAGTAATAAATTTTGA
Found at i:17365882 original size:21 final size:21
Alignment explanation
Indices: 17365858--17365897 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
17365848 AAATAAATTT
17365858 TATCAATAA-TTATCAAAAGTA
1 TATC-ATAAGTTATCAAAAGTA
17365879 TATCATAAGTTATCAAAAG
1 TATCATAAGTTATCAAAAG
17365898 ATTACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (21 bp):
TATCATAAGTTATCAAAAGTA
Found at i:17365888 original size:11 final size:10
Alignment explanation
Indices: 17365857--17365907 Score: 50
Period size: 10 Copynumber: 4.8 Consensus size: 10
17365847 TAAATAAATT
17365857 TTATCAATAA-
1 TTATCAA-AAG
17365867 TTATCAAAAG
1 TTATCAAAAG
*
17365877 TATATCATAAG
1 T-TATCAAAAG
17365888 TTATCAAAAG
1 TTATCAAAAG
17365898 ATTACTCAAA
1 -TTA-TCAAA
17365908 TTACATTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 16 0.46
11 12 0.34
12 5 0.14
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.33
Consensus pattern (10 bp):
TTATCAAAAG
Found at i:17366001 original size:11 final size:10
Alignment explanation
Indices: 17365984--17366035 Score: 59
Period size: 11 Copynumber: 5.0 Consensus size: 10
17365974 ATATTGAAGG
17365984 TTATCAAAAT
1 TTATCAAAAT
17365994 TGTATCAAAAT
1 T-TATCAAAAT
*
17366005 TTACCAAAATT
1 TTATCAAAA-T
* *
17366016 TTATTAAAAA
1 TTATCAAAAT
17366026 TTATCAAAAT
1 TTATCAAAAT
17366036 CAAAATTATA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 16 0.47
11 18 0.53
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (10 bp):
TTATCAAAAT
Found at i:17366014 original size:21 final size:21
Alignment explanation
Indices: 17365988--17366035 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
17365978 TGAAGGTTAT
*
17365988 CAAAATTGTATCAAAATTTAC
1 CAAAATTGTATCAAAAATTAC
* * *
17366009 CAAAATTTTATTAAAAATTAT
1 CAAAATTGTATCAAAAATTAC
17366030 CAAAAT
1 CAAAAT
17366036 CAAAATTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.35
Consensus pattern (21 bp):
CAAAATTGTATCAAAAATTAC
Found at i:17366056 original size:27 final size:27
Alignment explanation
Indices: 17366009--17366060 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
17365999 CAAAATTTAC
*
17366009 CAAAATTTTATTAAAAATTATCAAAAT
1 CAAAATTATATTAAAAATTATCAAAAT
*
17366036 CAAAATTATA-TAAGAAGTTATCAAA
1 CAAAATTATATTAA-AAATTATCAAA
17366061 TTTTACTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.33
Consensus pattern (27 bp):
CAAAATTATATTAAAAATTATCAAAAT
Found at i:17367292 original size:14 final size:14
Alignment explanation
Indices: 17367275--17367307 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
17367265 AAAATTTAAT
17367275 ATATTTTTAA-ATAA
1 ATATTTTTAATA-AA
17367289 ATATTTTTAATAAA
1 ATATTTTTAATAAA
17367303 ATATT
1 ATATT
17367308 AATAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.94
15 1 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATTTTTAATAAA
Found at i:17367601 original size:12 final size:12
Alignment explanation
Indices: 17367586--17367650 Score: 62
Period size: 12 Copynumber: 5.4 Consensus size: 12
17367576 ACCGTGTCGG
17367586 CAACCCGAGTCT
1 CAACCCGAGTCT
* *
17367598 CAA-CCGTGTCGG
1 CAACCCGAGTC-T
17367610 CAACCCGAGTCT
1 CAACCCGAGTCT
* *
17367622 CAA-CCGTGTCGG
1 CAACCCGAGTC-T
17367634 CAACCCGAGTCT
1 CAACCCGAGTCT
17367646 CAACC
1 CAACC
17367651 GTGTCGGAAG
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
11 12 0.29
12 17 0.41
13 12 0.29
ACGTcount: A:0.23, C:0.40, G:0.22, T:0.15
Consensus pattern (12 bp):
CAACCCGAGTCT
Found at i:17367607 original size:24 final size:24
Alignment explanation
Indices: 17367575--17367657 Score: 166
Period size: 24 Copynumber: 3.5 Consensus size: 24
17367565 CCCAACTCCA
17367575 AACCGTGTCGGCAACCCGAGTCTC
1 AACCGTGTCGGCAACCCGAGTCTC
17367599 AACCGTGTCGGCAACCCGAGTCTC
1 AACCGTGTCGGCAACCCGAGTCTC
17367623 AACCGTGTCGGCAACCCGAGTCTC
1 AACCGTGTCGGCAACCCGAGTCTC
17367647 AACCGTGTCGG
1 AACCGTGTCGG
17367658 AAGGTGTGAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.20, C:0.36, G:0.27, T:0.17
Consensus pattern (24 bp):
AACCGTGTCGGCAACCCGAGTCTC
Found at i:17368136 original size:19 final size:19
Alignment explanation
Indices: 17368114--17368165 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 19
17368104 TTAATATTTA
*
17368114 TATTTTTATTTATATTTTT
1 TATTTTTATTTTTATTTTT
*
17368133 TA--TTTATTTTTATGTTT
1 TATTTTTATTTTTATTTTT
*
17368150 GATTTTTATTTTTATT
1 TATTTTTATTTTTATT
17368166 CATTTCTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 14 0.52
19 13 0.48
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (19 bp):
TATTTTTATTTTTATTTTT
Done.