Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 29 of 74
Found at i:6485743 original size:9 final size:9
Alignment explanation
Indices: 6485729--6485754 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
6485719 TCATAACCAT
6485729 TTTTTTTTG
1 TTTTTTTTG
6485738 TTTTTTTTG
1 TTTTTTTTG
6485747 TTTTTTTT
1 TTTTTTTT
6485755 TTTACATACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:6486432 original size:19 final size:20
Alignment explanation
Indices: 6486398--6486437 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
6486388 TACTCGAAAC
*
6486398 TTTCCTTTTTCTCTTTTTTT
1 TTTCCTTTTTCGCTTTTTTT
6486418 TTTCCTTTTT-GCTTTTTTT
1 TTTCCTTTTTCGCTTTTTTT
6486437 T
1 T
6486438 AAAAAGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (20 bp):
TTTCCTTTTTCGCTTTTTTT
Found at i:6488110 original size:4 final size:4
Alignment explanation
Indices: 6488103--6488134 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
6488093 TAAATACATA
*
6488103 AATG AATG AATG AGTG AATG AATG AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG AATG
6488135 CATAAATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.25
Consensus pattern (4 bp):
AATG
Found at i:6488142 original size:12 final size:12
Alignment explanation
Indices: 6488100--6488143 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
6488090 GAATAAATAC
6488100 ATAAATGAATGA
1 ATAAATGAATGA
* *
6488112 ATGAGTGAATGA
1 ATAAATGAATGA
* *
6488124 ATGAATGAATGC
1 ATAAATGAATGA
6488136 ATAAATGA
1 ATAAATGA
6488144 TAAAGCATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.50, C:0.02, G:0.23, T:0.25
Consensus pattern (12 bp):
ATAAATGAATGA
Found at i:6489720 original size:19 final size:19
Alignment explanation
Indices: 6489696--6489735 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
6489686 TAAGAACTTT
6489696 TTTTTTCT-TTTCTTGTTTC
1 TTTTTTCTCTTT-TTGTTTC
*
6489715 TTTTTTCTCTTTTTTTTTC
1 TTTTTTCTCTTTTTGTTTC
6489734 TT
1 TT
6489736 GTTGATGACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (19 bp):
TTTTTTCTCTTTTTGTTTC
Found at i:6491672 original size:7 final size:7
Alignment explanation
Indices: 6491660--6491724 Score: 51
Period size: 8 Copynumber: 8.6 Consensus size: 7
6491650 GGGTTTCGAA
6491660 TTTTAGG
1 TTTTAGG
6491667 TTTTAGG
1 TTTTAGG
6491674 ATTTT-GG
1 -TTTTAGG
6491681 ATTTTAGGG
1 -TTTTA-GG
6491690 TTTTGAGG
1 TTTT-AGG
*
6491698 GTTTATGG
1 TTTTA-GG
6491706 TTTTAAGG
1 TTTT-AGG
*
6491714 TTTAAGG
1 TTTTAGG
6491721 TTTT
1 TTTT
6491725 GATTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
7 21 0.44
8 23 0.48
9 4 0.08
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (7 bp):
TTTTAGG
Found at i:6491707 original size:16 final size:16
Alignment explanation
Indices: 6491683--6491726 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
6491673 GATTTTGGAT
* *
6491683 TTTAGGGTTTTGAGGG
1 TTTAAGGTTTTGAAGG
*
6491699 TTTATGGTTTT-AAGG
1 TTTAAGGTTTTGAAGG
6491714 TTTAAGGTTTTGA
1 TTTAAGGTTTTGA
6491727 TTTTGAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (16 bp):
TTTAAGGTTTTGAAGG
Found at i:6491808 original size:17 final size:17
Alignment explanation
Indices: 6491770--6491856 Score: 52
Period size: 17 Copynumber: 5.2 Consensus size: 17
6491760 AAATTTTAAT
* * *
6491770 GTTTGAAGGATTTCAAG
1 GTTTTAAGGGTTTAAAG
6491787 GTTTTAAGGGTTTAAAG
1 GTTTTAAGGGTTTAAAG
* * *
6491804 GTTTTTAGAGTTT--TG
1 GTTTTAAGGGTTTAAAG
* * *
6491819 GATTTCAGGGTTTAAAA
1 GTTTTAAGGGTTTAAAG
* * *
6491836 GTTTTTAGAGTTTTAAG
1 GTTTTAAGGGTTTAAAG
6491853 GTTT
1 GTTT
6491857 CAAGTATTTG
Statistics
Matches: 52, Mismatches: 16, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
15 11 0.21
17 41 0.79
ACGTcount: A:0.25, C:0.02, G:0.26, T:0.46
Consensus pattern (17 bp):
GTTTTAAGGGTTTAAAG
Found at i:6491928 original size:15 final size:15
Alignment explanation
Indices: 6491905--6491987 Score: 57
Period size: 15 Copynumber: 5.7 Consensus size: 15
6491895 AGACTTCGAC
* *
6491905 TTTAAGGTTTTGAAA
1 TTTAGGGTTTTGAAG
*
6491920 TTTAGGGTTTTGAGGG
1 TTTAGGGTTTTGA-AG
*
6491936 TTTA-GGTTTT-AGAT
1 TTTAGGGTTTTGA-AG
*
6491950 TTTAGGG-TTTGAGG
1 TTTAGGGTTTTGAAG
* *
6491964 TTTAGGATTTTG-AT
1 TTTAGGGTTTTGAAG
6491978 TTTAGGGTTT
1 TTTAGGGTTT
6491988 AAAAGGTTTT
Statistics
Matches: 53, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
14 24 0.45
15 25 0.47
16 4 0.08
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.51
Consensus pattern (15 bp):
TTTAGGGTTTTGAAG
Found at i:6492045 original size:13 final size:13
Alignment explanation
Indices: 6492027--6492073 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
6492017 GTTTGGAGGG
6492027 TTTAGGTTTTGAT
1 TTTAGGTTTTGAT
*
6492040 TTTAGGATTTGAGGT
1 TTTAGGTTTTGA--T
6492055 TTTAGGTTTTGAT
1 TTTAGGTTTTGAT
6492068 TTTAGG
1 TTTAGG
6492074 GTTTATAGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 18 0.60
15 12 0.40
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.55
Consensus pattern (13 bp):
TTTAGGTTTTGAT
Found at i:6492063 original size:7 final size:7
Alignment explanation
Indices: 6491920--6492103 Score: 90
Period size: 8 Copynumber: 24.9 Consensus size: 7
6491910 GGTTTTGAAA
6491920 TTTAGGGT
1 TTTA-GGT
*
6491928 TTTGAGGG
1 TTT-AGGT
6491936 TTTAGGT
1 TTTAGGT
*
6491943 TTTAGAT
1 TTTAGGT
6491950 TTTAGGGT
1 TTTA-GGT
*
6491958 TTGAGG-
1 TTTAGGT
6491964 TTTAGGAT
1 TTTAGG-T
*
6491972 TTT-GAT
1 TTTAGGT
6491978 TTTAGGGT
1 TTTA-GGT
*
6491986 TTAAAAGGT
1 TT--TAGGT
*
6491995 TTTGGGT
1 TTTAGGT
6492002 TTTAAGGGT
1 TTT-A-GGT
6492011 TTTAAGGT
1 TTT-AGGT
* *
6492019 TTGGAGGG
1 TT-TAGGT
6492027 TTTAGGT
1 TTTAGGT
*
6492034 TTT-GAT
1 TTTAGGT
6492040 TTTAGGAT
1 TTTAGG-T
*
6492048 TTGAGGT
1 TTTAGGT
6492055 TTTAGGT
1 TTTAGGT
*
6492062 TTT-GAT
1 TTTAGGT
6492068 TTTAGGGT
1 TTTA-GGT
*
6492076 TTATAGGG
1 TT-TAGGT
6492084 TTTAGGAT
1 TTTAGG-T
6492092 TTTA-GT
1 TTTAGGT
6492098 TTTAGG
1 TTTAGG
6492104 GTTTGGAAGG
Statistics
Matches: 134, Mismatches: 24, Indels: 37
0.69 0.12 0.19
Matches are distributed among these distances:
6 24 0.18
7 45 0.34
8 48 0.36
9 16 0.12
10 1 0.01
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.49
Consensus pattern (7 bp):
TTTAGGT
Found at i:6492067 original size:90 final size:88
Alignment explanation
Indices: 6491920--6492125 Score: 272
Period size: 90 Copynumber: 2.3 Consensus size: 88
6491910 GGTTTTGAAA
* *
6491920 TTTAGGGTTTTGAGGGTTTAGGTTTTAGATTTTAGGGTTTGAGGTTTAGGATTTTGATTTTAGGG
1 TTTAGGGTTTGGAGGGTTTAGGTTTTAGATTTTAGGATTTGAGGTTTAGGATTTTGATTTTAGGG
* *
6491985 TTTAAAAGGTTTTGGGTTTTAAGGGT
66 TTTAAAAGGTTTAGGATTTT-A--GT
*
6492011 TTTAAGGTTTGGAGGGTTTAGGTTTT-GATTTTAGGATTTGAGGTTTTAGG-TTTTGATTTTAGG
1 TTTAGGGTTTGGAGGGTTTAGGTTTTAGATTTTAGGATTTGAGG-TTTAGGATTTTGATTTTAGG
* *
6492074 GTTTATAGGGTTTAGGATTTTAGT
65 GTTTAAAAGGTTTAGGATTTTAGT
* *
6492098 TTTAGGGTTTGGAAGGTTTTAGGGTTTA
1 TTTAGGGTTTGG-AGGGTTTAGGTTTTA
6492126 AAGAAAGTGT
Statistics
Matches: 102, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
87 13 0.13
88 12 0.12
89 1 0.01
90 46 0.45
91 30 0.29
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (88 bp):
TTTAGGGTTTGGAGGGTTTAGGTTTTAGATTTTAGGATTTGAGGTTTAGGATTTTGATTTTAGGG
TTTAAAAGGTTTAGGATTTTAGT
Found at i:6492286 original size:18 final size:19
Alignment explanation
Indices: 6492253--6492308 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 19
6492243 TTAATAATAA
6492253 TATCT-TTTTATT-TTTAT
1 TATCTGTTTTATTATTTAT
6492270 TAT-TGTTTTATTATTTAT
1 TATCTGTTTTATTATTTAT
* *
6492288 TATCTTTTTTA-TATTTTT
1 TATCTGTTTTATTATTTAT
6492306 TAT
1 TAT
6492309 AATTCTTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 1 0.03
17 10 0.29
18 17 0.50
19 6 0.18
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.75
Consensus pattern (19 bp):
TATCTGTTTTATTATTTAT
Found at i:6492420 original size:3 final size:3
Alignment explanation
Indices: 6492414--6492578 Score: 119
Period size: 3 Copynumber: 55.7 Consensus size: 3
6492404 TTTATAGCAT
6492414 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** ** ** *
6492462 TTA -TA CTT- TT- TTA TTA TT- TTA TTA TTA TTTA GCGA AGA AAA ATA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA
* ** * * *
6492506 -AA AAA TT- TTGA -AA TCA TTT TTCA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
6492550 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6492579 TAGTGATTGT
Statistics
Matches: 138, Mismatches: 14, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
2 12 0.09
3 119 0.86
4 7 0.05
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:6493870 original size:22 final size:21
Alignment explanation
Indices: 6493842--6493884 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
6493832 ATCCCATCTT
*
6493842 TTTTTTTCTTATTTTTTTAAAA
1 TTTTTTTCTT-TCTTTTTAAAA
6493864 TTTTTTTCTTTCTTTTTAAAA
1 TTTTTTTCTTTCTTTTTAAAA
6493885 ATTATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTTTTCTTTCTTTTTAAAA
Found at i:6493885 original size:22 final size:22
Alignment explanation
Indices: 6493842--6493887 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
6493832 ATCCCATCTT
*
6493842 TTTTTTTCTTATTTTTTTAAAA
1 TTTTTTTCTTATTTTTTAAAAA
6493864 TTTTTTTCTT-TCTTTTTAAAAA
1 TTTTTTTCTTAT-TTTTTAAAAA
6493886 TT
1 TT
6493888 ATTATTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTTTTCTTATTTTTTAAAAA
Found at i:6496953 original size:7 final size:7
Alignment explanation
Indices: 6496941--6496975 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
6496931 TTTTTTTTTA
6496941 AAATATT
1 AAATATT
6496948 AAATATT
1 AAATATT
6496955 AAATATT
1 AAATATT
6496962 AAATATT
1 AAATATT
6496969 AAATATT
1 AAATATT
6496976 TTTTTCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAATATT
Found at i:6508055 original size:11 final size:11
Alignment explanation
Indices: 6508039--6508067 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
6508029 AATCCCATAA
6508039 GAGATTTGTTT
1 GAGATTTGTTT
6508050 GAGATTTGTTT
1 GAGATTTGTTT
6508061 GAGATTT
1 GAGATTT
6508068 ATTAGATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.52
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:6508197 original size:52 final size:52
Alignment explanation
Indices: 6508094--6508249 Score: 217
Period size: 52 Copynumber: 3.0 Consensus size: 52
6508084 TGGACAAGAA
* *
6508094 GACTTGCAAAAGAAGAATTCTAAGA-GAAAGAGGA-TCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGCAAGTTT
*
6508145 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
* * * * *
6508197 GACTTACAGGAAAAGAATTCTAAGAGGAAAAGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
6508249 G
1 G
6508250 TATGGTTATA
Statistics
Matches: 94, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
51 26 0.28
52 68 0.72
ACGTcount: A:0.41, C:0.09, G:0.25, T:0.25
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:6508815 original size:25 final size:25
Alignment explanation
Indices: 6508781--6508858 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 25
6508771 AAATGGTATT
*
6508781 AGAGTTGAAGGTTCGAAACGTGAGA
1 AGAGTTGAAGGTTCGAAACGTGAAA
* *
6508806 AGAGTTGAAGATTC-AAGATGTGAAA
1 AGAGTTGAAGGTTCGAA-ACGTGAAA
* * *
6508831 AGAGCTGAAGGTTTGAGACGTGGAAA
1 AGAGTTGAAGGTTCGAAACGT-GAAA
6508857 AG
1 AG
6508859 CTAAAGGTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
24 2 0.05
25 33 0.79
26 7 0.17
ACGTcount: A:0.38, C:0.06, G:0.35, T:0.21
Consensus pattern (25 bp):
AGAGTTGAAGGTTCGAAACGTGAAA
Found at i:6509256 original size:52 final size:52
Alignment explanation
Indices: 6509167--6509323 Score: 190
Period size: 52 Copynumber: 3.0 Consensus size: 52
6509157 TGGACAAGAA
* * *
6509167 GACTTGCAAAAGAAGAATTCTAAGA-GAAAGAGAATTCTTAATAAGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAAGCAAGTTT
* *
6509219 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAAGCAAGTTT
* ** ** **
6509271 GACTTACGGGAGAAGAATTCTAAGAGGAAAAAGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAAGCAAGTTT
6509323 G
1 G
6509324 TATGGTTATA
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
52 87 0.95
53 5 0.05
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.25
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAAGCAAGTTT
Found at i:6510901 original size:20 final size:20
Alignment explanation
Indices: 6510844--6510904 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
6510834 GAGACGAAAA
6510844 AAAAGAGAAAAGAAAG--GAG
1 AAAAGA-AAAAGAAAGAAGAG
6510863 ATAAAGCAAAAAGAGAAGAAGAG
1 A-AAAG-AAAAAGA-AAGAAGAG
6510886 AAAAGAAAAAGAAAGAAGA
1 AAAAGAAAAAGAAAGAAGA
6510905 AAGAGAACGA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
19 1 0.03
20 17 0.46
21 11 0.30
22 4 0.11
23 4 0.11
ACGTcount: A:0.70, C:0.02, G:0.26, T:0.02
Consensus pattern (20 bp):
AAAAGAAAAAGAAAGAAGAG
Found at i:6510905 original size:13 final size:13
Alignment explanation
Indices: 6510839--6510917 Score: 51
Period size: 13 Copynumber: 6.2 Consensus size: 13
6510829 AGCATGAGAC
6510839 GAAAAA-AAAG-A
1 GAAAAAGAAAGAA
*
6510850 G-AAAAGAAAGGA
1 GAAAAAGAAAGAA
*
6510862 GATAAAGCAAA-AA
1 GAAAAAG-AAAGAA
6510875 GAGAAGAAGAGAA-AA
1 GA-AA-AAGA-AAGAA
6510890 GAAAAAGAAAGAA
1 GAAAAAGAAAGAA
* *
6510903 GAAAGAGAACGAA
1 GAAAAAGAAAGAA
6510916 GA
1 GA
6510918 TTGGAAAAGT
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
10 4 0.07
11 5 0.09
12 4 0.07
13 26 0.47
14 7 0.13
15 9 0.16
ACGTcount: A:0.70, C:0.03, G:0.27, T:0.01
Consensus pattern (13 bp):
GAAAAAGAAAGAA
Found at i:6511165 original size:22 final size:23
Alignment explanation
Indices: 6511114--6511166 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
6511104 AATAAAGTAA
*
6511114 AAAATAAAAAAAGGTTTAAAACGT
1 AAAA-AAAAAAAGCTTTAAAACGT
**
6511138 TGAAAAAAAAAGCTTTAAAA-GT
1 AAAAAAAAAAAGCTTTAAAACGT
6511160 AAAAAAA
1 AAAAAAA
6511167 GTTTTAAAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
22 7 0.29
23 15 0.62
24 2 0.08
ACGTcount: A:0.66, C:0.04, G:0.11, T:0.19
Consensus pattern (23 bp):
AAAAAAAAAAAGCTTTAAAACGT
Found at i:6511166 original size:23 final size:23
Alignment explanation
Indices: 6511107--6511166 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 23
6511097 AAGTCAAAAT
*
6511107 AAAGTAAAAAATAAAAAAAGGTTTA
1 AAAGT-AAAAA-AAAAAAAGCTTTA
**
6511132 AAACGT-TGAAAAAAAAAGCTTTA
1 AAA-GTAAAAAAAAAAAAGCTTTA
6511155 AAAGTAAAAAAA
1 AAAGTAAAAAAA
6511167 GTTTTAAAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
22 2 0.07
23 19 0.68
24 2 0.07
25 3 0.11
26 2 0.07
ACGTcount: A:0.67, C:0.03, G:0.12, T:0.18
Consensus pattern (23 bp):
AAAGTAAAAAAAAAAAAGCTTTA
Found at i:6511227 original size:25 final size:25
Alignment explanation
Indices: 6511199--6511262 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
6511189 AAAGCTTTTT
6511199 TAAAAATAAAAAAAAGTTTTGAAAA
1 TAAAAATAAAAAAAAGTTTTGAAAA
****
6511224 TAAAAA-AATAAGGGTGTTTTGAAAA
1 TAAAAATAA-AAAAAAGTTTTGAAAA
*
6511249 AAAAAATAAAAAAA
1 TAAAAATAAAAAAA
6511263 GAGAAGAAGA
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
24 2 0.07
25 25 0.86
26 2 0.07
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (25 bp):
TAAAAATAAAAAAAAGTTTTGAAAA
Found at i:6512193 original size:47 final size:46
Alignment explanation
Indices: 6512101--6512198 Score: 119
Period size: 47 Copynumber: 2.1 Consensus size: 46
6512091 AACACAAACT
* **
6512101 TCCAAACCTTAAACCTTTGAAACCCTAAAATTTTTAAACCATAAAA
1 TCCAAACCTTAAACCTTCGAAACCCTAAAATTTCAAAACCATAAAA
* *
6512147 TCCAAACCTTCAAAACCTTCGAAA-CCTTAAATTTCAAAACCTTAAAA
1 TCCAAACCTT--AAACCTTCGAAACCCTAAAATTTCAAAACCATAAAA
6512194 -CCAAA
1 TCCAAA
6512199 ATCTAGATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
46 15 0.33
47 19 0.42
48 11 0.24
ACGTcount: A:0.46, C:0.27, G:0.02, T:0.26
Consensus pattern (46 bp):
TCCAAACCTTAAACCTTCGAAACCCTAAAATTTCAAAACCATAAAA
Found at i:6515384 original size:17 final size:17
Alignment explanation
Indices: 6515362--6515394 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6515352 TTAGATACTT
6515362 TTATTAT-TATTATTATA
1 TTATTATAT-TTATTATA
6515379 TTATTATATTTATTAT
1 TTATTATATTTATTAT
6515395 TTCATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTATATTTATTATA
Found at i:6515410 original size:20 final size:20
Alignment explanation
Indices: 6515360--6515412 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
6515350 AATTAGATAC
*
6515360 TTTTATTATTATTATTATAT
1 TTTTATTTTTATTATTATAT
* *
6515380 TATTATATTTATTATT-TCAT
1 TTTTATTTTTATTATTAT-AT
6515400 TTTTATTTTTATT
1 TTTTATTTTTATT
6515413 TTTTGTTTCC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTATTTTTATTATTATAT
Found at i:6515421 original size:24 final size:25
Alignment explanation
Indices: 6515385--6515438 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
6515375 TATATTATTA
*
6515385 TATTTATTATTTCATTTT-TATTTT
1 TATTTTTTATTTCATTTTCTATTTT
* *
6515409 TATTTTTTGTTTCCTTTTCTATTTT
1 TATTTTTTATTTCATTTTCTATTTT
6515434 T-TTTT
1 TATTTT
6515439 CTTTGCCACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.78
Consensus pattern (25 bp):
TATTTTTTATTTCATTTTCTATTTT
Found at i:6515426 original size:18 final size:18
Alignment explanation
Indices: 6515405--6515439 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6515395 TTCATTTTTA
6515405 TTTT-TATTTTTTGTTTCC
1 TTTTCTATTTTTT-TTTCC
6515423 TTTTCTATTTTTTTTTC
1 TTTTCTATTTTTTTTTC
6515440 TTTGCCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.06, C:0.11, G:0.03, T:0.80
Consensus pattern (18 bp):
TTTTCTATTTTTTTTTCC
Found at i:6516296 original size:18 final size:18
Alignment explanation
Indices: 6516269--6516313 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
6516259 CAAGCGCAAG
6516269 TTTT-TTTTTTCATTTTA
1 TTTTATTTTTTCATTTTA
*
6516286 TTTTATTTTTTTATTTTA
1 TTTTATTTTTTCATTTTA
6516304 TTTTATTTTT
1 TTTTATTTTT
6516314 AACCTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 4 0.15
18 22 0.85
ACGTcount: A:0.13, C:0.02, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTATTTTTTCATTTTA
Found at i:6516297 original size:13 final size:13
Alignment explanation
Indices: 6516281--6516329 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
6516271 TTTTTTTTCA
6516281 TTTTATTTTATTT
1 TTTTATTTTATTT
6516294 TTTTATTTTATTT
1 TTTTATTTTATTT
* *
6516307 TATT-TTTAACCTTT
1 TTTTATTTTA--TTT
6516321 TTTTATTTT
1 TTTTATTTT
6516330 TTGCTTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 4 0.14
13 16 0.55
14 6 0.21
15 3 0.10
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTATTTTATTT
Found at i:6516306 original size:23 final size:22
Alignment explanation
Indices: 6516269--6516312 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
6516259 CAAGCGCAAG
6516269 TTTTTTTTTTCATTTTATTTTA
1 TTTTTTTTTTCATTTTATTTTA
*
6516291 TTTTTTTATTTTATTTTATTTT
1 TTTTTTT-TTTCATTTTATTTT
6516313 TAACCTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.84
Consensus pattern (22 bp):
TTTTTTTTTTCATTTTATTTTA
Found at i:6516329 original size:5 final size:5
Alignment explanation
Indices: 6516270--6516312 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
6516260 AAGCGCAAGT
*
6516270 TTTTT TTTTCA TTTTA TTTTA -TTT- TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
6516313 TAACCTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
4 6 0.18
5 24 0.71
6 4 0.12
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTA
Found at i:6516330 original size:18 final size:18
Alignment explanation
Indices: 6516269--6516331 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
6516259 CAAGCGCAAG
* *
6516269 TTTT-TTTTTTCATTTTA
1 TTTTATTTTTTAACTTTA
* *
6516286 TTTTATTTTTTTATTTTA
1 TTTTATTTTTTAACTTTA
6516304 TTTTA-TTTTTAACCTTT-
1 TTTTATTTTTTAA-CTTTA
6516321 TTTTATTTTTT
1 TTTTATTTTTT
6516332 GCTTTTATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
17 15 0.38
18 25 0.62
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTATTTTTTAACTTTA
Found at i:6522521 original size:16 final size:16
Alignment explanation
Indices: 6522491--6522521 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6522481 TGCTTGATTA
*
6522491 AAAAAAACATAAAAAT
1 AAAAAAACAAAAAAAT
6522507 AAAAAAACAAAAAAA
1 AAAAAAACAAAAAAA
6522522 GCAAAAAGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.87, C:0.06, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAAAAACAAAAAAAT
Found at i:6522631 original size:64 final size:67
Alignment explanation
Indices: 6522508--6522638 Score: 151
Period size: 64 Copynumber: 2.0 Consensus size: 67
6522498 CATAAAAATA
* * **
6522508 AAAAAACAAAAAAAGCAAAAAGTTCAAATTGAAAACATGAAAAGGCATTTTGAACCCAAA-AAAA
1 AAAAAACAAAAAAAG-AAAAAGTTCAAATTAAAAACACGAAAAGGCAACTTGAACCCAAAGAAAA
6522572 AGT
65 AGT
* * * * *
6522575 AAAAAA-AAAAAAAG-AAAAGTTCAAGTTAAAAACCCGAAAGGGCAACTTGGATCCAAAGAAAAA
1 AAAAAACAAAAAAAGAAAAAGTTCAAATTAAAAACACGAAAAGGCAACTTGAACCCAAAGAAAAA
6522638 G
66 G
6522639 GTTCAAATTG
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
64 34 0.63
65 6 0.11
66 8 0.15
67 6 0.11
ACGTcount: A:0.60, C:0.12, G:0.15, T:0.13
Consensus pattern (67 bp):
AAAAAACAAAAAAAGAAAAAGTTCAAATTAAAAACACGAAAAGGCAACTTGAACCCAAAGAAAAA
GT
Found at i:6523130 original size:18 final size:17
Alignment explanation
Indices: 6523103--6523149 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
6523093 GAAAACCTCT
*
6523103 AAAAAAAAAAGACAAA-
1 AAAAAAAAAAAACAAAC
*
6523119 AAAAATAAAAAAATAAAC
1 AAAAA-AAAAAAACAAAC
6523137 AAAAAGAAAAAAA
1 AAAAA-AAAAAAA
6523150 AAAGAGAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 5 0.19
17 9 0.35
18 12 0.46
ACGTcount: A:0.87, C:0.04, G:0.04, T:0.04
Consensus pattern (17 bp):
AAAAAAAAAAAACAAAC
Found at i:6523153 original size:11 final size:11
Alignment explanation
Indices: 6523103--6523163 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
6523093 GAAAACCTCT
6523103 AAAAAAAAAAG
1 AAAAAAAAAAG
* *
6523114 ACAAAAAAAAT
1 AAAAAAAAAAG
*
6523125 AAAAAAATAAAC
1 AAAAAAA-AAAG
*
6523137 AAAAAGAAAA-
1 AAAAAAAAAAG
* *
6523147 AAAAAAGAGAG
1 AAAAAAAAAAG
6523158 AAAAAA
1 AAAAAA
6523164 TTATTTGCAT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
10 7 0.17
11 24 0.60
12 9 0.22
ACGTcount: A:0.85, C:0.03, G:0.08, T:0.03
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:6523277 original size:40 final size:40
Alignment explanation
Indices: 6523233--6523348 Score: 110
Period size: 41 Copynumber: 2.9 Consensus size: 40
6523223 CAAGGATATG
* * * *
6523233 CTTCTAGGTGGATGGAAATTAG-TTTTTTGCTAAAAATGTA
1 CTTCTAGGTGG-TGAAAAATAGCTTTTTTGCCAAAAATGCA
*
6523273 CTTCTAGGCTGGTGAAAAATGGCTTTTTTGCCAAAAATGCA
1 CTTCTAGG-TGGTGAAAAATAGCTTTTTTGCCAAAAATGCA
* * *
6523314 CCTCTAGGTTGATAAAAAATAG-TTTCTTTGCCAAA
1 CTTCTAGG-TGGTGAAAAATAGCTTT-TTTGCCAAA
6523349 TATGTGTATC
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
40 18 0.29
41 45 0.71
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (40 bp):
CTTCTAGGTGGTGAAAAATAGCTTTTTTGCCAAAAATGCA
Found at i:6523309 original size:41 final size:40
Alignment explanation
Indices: 6523252--6523353 Score: 114
Period size: 41 Copynumber: 2.5 Consensus size: 40
6523242 GGATGGAAAT
* * * *
6523252 TAGTTTTTTGCTAAAAATGTACTTCTAGGCTGGTGAAAAA
1 TAGTTTTTTGCCAAAAATGTACCTCTAGGCTGATAAAAAA
* * *
6523292 TGGCTTTTTTGCCAAAAATGCACCTCTAGGTTGATAAAAAA
1 TAG-TTTTTTGCCAAAAATGTACCTCTAGGCTGATAAAAAA
*
6523333 TAGTTTCTTTGCCAAATATGT
1 TAGTTT-TTTGCCAAAAATGT
6523354 GTATCCAGGT
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
40 5 0.10
41 45 0.90
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (40 bp):
TAGTTTTTTGCCAAAAATGTACCTCTAGGCTGATAAAAAA
Found at i:6523902 original size:118 final size:117
Alignment explanation
Indices: 6523586--6523937 Score: 386
Period size: 118 Copynumber: 3.0 Consensus size: 117
6523576 TTTTGTCTTG
* * * *
6523586 GTCACTTGATCTTGGCTCAGTCCAGATCATTTCTTATGATTTATGGTTTCACCTCGATCATTTAT
1 GTCACTTGATCTTAGCTTAGTTCAGATCATTTCTTATGATTTATGGTTTCACCCCGATCATTTAT
* * **
6523651 TTTTGACCTCGACTCAGTCTTAATTGCTTCATTTGACTCATGATTTCATCCC
66 TTTTGACCTCGACTCGGTCCTAATCACTTCATTTGACTCATGATTTCATCCC
* * **
6523703 GATCATTTGATCTTAG-TTCAG-TCTAGATCATTTCTTATGATTTATGGTTTTACCCTAATCATT
1 G-TCACTTGATCTTAGCTT-AGTTC-AGATCATTTCTTATGATTTATGGTTTCACCCCGATCATT
** ** * *
6523766 TATTTTTGACCTCGACTCGGTCCTGGTCACTTCATTTGACTTGTGGTTTTATCCC
63 TATTTTTGACCTCGACTCGGTCCTAATCACTTCATTTGACTCATGATTTCATCCC
* *
6523821 AGTCACTTGATCTTAGCTTAGTTCAGATCATTTCTTATAATTCATGGTTTCACCCCGATCATTTA
1 -GTCACTTGATCTTAGCTTAGTTCAGATCATTTCTTATGATTTATGGTTTCACCCCGATCATTTA
* ** * * * * *
6523886 TTTTTTACCTTAACTCGATCTTGATCACCTT-ATTTCACTCGTGATTTCATCC
65 TTTTTGACCTCGACTCGGTCCTAATCA-CTTCATTTGACTCATGATTTCATCC
6523938 TGATCATTTA
Statistics
Matches: 194, Mismatches: 34, Indels: 13
0.80 0.14 0.05
Matches are distributed among these distances:
117 3 0.02
118 183 0.94
119 8 0.04
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (117 bp):
GTCACTTGATCTTAGCTTAGTTCAGATCATTTCTTATGATTTATGGTTTCACCCCGATCATTTAT
TTTTGACCTCGACTCGGTCCTAATCACTTCATTTGACTCATGATTTCATCCC
Found at i:6524132 original size:26 final size:26
Alignment explanation
Indices: 6524096--6524190 Score: 102
Period size: 26 Copynumber: 3.7 Consensus size: 26
6524086 ATAAACACCT
* *
6524096 ATTTTGATCAGGTCCCAATTAAGCCC
1 ATTTTAATCAGGGCCCAATTAAGCCC
* *
6524122 ATTTTAATCAGGGCCCAATTGAGCCT
1 ATTTTAATCAGGGCCCAATTAAGCCC
* *
6524148 ATTTTCATTC-GGGCCCAATTAGGCCC
1 ATTTT-AATCAGGGCCCAATTAAGCCC
* *
6524174 ATTTTAGTCAAGGCCCA
1 ATTTTAATCAGGGCCCA
6524191 TCTTGGTTCG
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
25 3 0.05
26 51 0.89
27 3 0.05
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (26 bp):
ATTTTAATCAGGGCCCAATTAAGCCC
Found at i:6524271 original size:22 final size:20
Alignment explanation
Indices: 6524240--6524295 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 20
6524230 GATGCTTTTA
*
6524240 TTATTGTTATTTTTTTATTAT
1 TTATTTTTATTTTTTTATT-T
6524261 TATATTTTTATTTTTTTATTT
1 T-TATTTTTATTTTTTTATTT
6524282 TTATTTTTCATTTT
1 TTATTTTT-ATTTT
6524296 CTTTTCTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 7 0.22
21 8 0.25
22 17 0.53
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (20 bp):
TTATTTTTATTTTTTTATTT
Found at i:6524289 original size:14 final size:14
Alignment explanation
Indices: 6524240--6524289 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 14
6524230 GATGCTTTTA
* *
6524240 TTATTGTTATTTTT
1 TTATTTTTATATTT
*
6524254 TTATTATTATATTT
1 TTATTTTTATATTT
*
6524268 TTATTTTTTTATTT
1 TTATTTTTATATTT
6524282 TTATTTTT
1 TTATTTTT
6524290 CATTTTCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (14 bp):
TTATTTTTATATTT
Found at i:6525142 original size:5 final size:5
Alignment explanation
Indices: 6525127--6525171 Score: 58
Period size: 5 Copynumber: 9.2 Consensus size: 5
6525117 CCTTTTTTCC
*
6525127 ATTTT ATTTT -TATTT -TTTT ATTTT GTTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT AT-TTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A
6525172 ACCTTTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
4 4 0.11
5 32 0.89
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:6533187 original size:64 final size:61
Alignment explanation
Indices: 6533070--6533191 Score: 140
Period size: 64 Copynumber: 2.0 Consensus size: 61
6533060 AAAATGGGTC
* * * *
6533070 AGATTATTGAAAGCATTTTTTTAAAAAAATACCTTCAATAAATTCTTATTAAAAATTTTTTG
1 AGATTATTGAAAGCATCTTTTTAAAAAAATACCATCAATAAATTCGTAGT-AAAATTTTTTG
*
6533132 AGATTATT-AAAGGCATCTTTTTAGTAAAAAATGCCATCAAT-AATCTCGTAGTAAAATTTT
1 AGATTATTGAAA-GCATCTTTTTA--AAAAAATACCATCAATAAAT-TCGTAGTAAAATTTT
6533192 AAGGGGATTA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
61 3 0.06
62 18 0.35
63 11 0.22
64 19 0.37
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (61 bp):
AGATTATTGAAAGCATCTTTTTAAAAAAATACCATCAATAAATTCGTAGTAAAATTTTTTG
Found at i:6533379 original size:127 final size:126
Alignment explanation
Indices: 6533203--6533553 Score: 399
Period size: 126 Copynumber: 2.8 Consensus size: 126
6533193 AGGGGATTAT
* * * * *
6533203 TGAAGGTCT-TTTT-TACTATAAACACCTTCACTAATTCTTTCAAACTTTTTA-AATGAATTTAT
1 TGAAGGT-TATTTTCTACTAAAAAAACCTTCAATAATTCATTC-AATTTTTTAGAA-GAATTTAT
* *
6533265 TGAAGATGTTCTTTTGCATAATATGCCTTTAATAATCCACTCCATTTTTAT-TAGAAAAATATCA
63 TGAAGGTGTT-TTTTGCATAATATGCCTTTAATAATCCACTCCATTTTTATCAAG-AAAATATCA
6533329 A
126 A
* *
6533330 TGAAGGTTATTTTCTACTAAAAAAAACTTCAATAATTCATTCTAATTTTTTAGAAAAATTTATTG
1 TGAAGGTTATTTTCTACTAAAAAAACCTTCAATAATTCATTC-AATTTTTTAGAAGAATTTATTG
* **
6533395 AAGGTG-TTTTTGCATAATATG-CTTTCAATAATCCCCTCCATTTTTATCAAGGGAATATCAA
65 AAGGTGTTTTTTGCATAATATGCCTTT-AATAATCCACTCCATTTTTATCAAGAAAATATCAA
*** ** *
6533456 TGAAGACAATTTTCTACTAAAAATGCCTTTAATAATTCACTTCAATTTTTTAGAAGAATTTATTG
1 TGAAGGTTATTTTCTACTAAAAAAACCTTCAATAATTCA-TTCAATTTTTTAGAAGAATTTATTG
* * *
6533521 AAGGTATTTTTTGCATAATACGCCTTCAATAAT
65 AAGGTGTTTTTTGCATAATATGCCTTTAATAAT
6533554 TCTCATAAAT
Statistics
Matches: 192, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
125 4 0.02
126 101 0.53
127 37 0.19
128 48 0.25
129 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.41
Consensus pattern (126 bp):
TGAAGGTTATTTTCTACTAAAAAAACCTTCAATAATTCATTCAATTTTTTAGAAGAATTTATTGA
AGGTGTTTTTTGCATAATATGCCTTTAATAATCCACTCCATTTTTATCAAGAAAATATCAA
Found at i:6533381 original size:448 final size:448
Alignment explanation
Indices: 6532516--6533394 Score: 1184
Period size: 448 Copynumber: 2.0 Consensus size: 448
6532506 TAGAGGTGTT
* *
6532516 TTTTATAAAATGCCTTTAATAATCCTCGTAATGTTTTTGGGTAGGATTATTAAAGCATTTTTGGC
1 TTTTATAAAATGCCTTTAATAATCCTCATAATATTTTTGGGTAGGATTATTAAAGCATTTTTGGC
* * *
6532581 ATAAAACACCTCTAATAAACAAGGTATCGAAAAAATGGACTGGATTATTGAAAGTATTTTCTAAA
66 ATAAAACACCTCCAATAAACAAGGTATCGAAAAAATGGACTAGATTATTGAAAGCATTTTCTAAA
* **
6532646 AAAAAATGCCTTCAATAAATTCCTTTCAAACGTTTTTTAGGATTATTAAAGGCATCTTTTAGTAA
131 AAAAAATACCTTCAATAAATTCCTTTCAAAAATTTTTTAGGATTATTAAAGGCATCTTTTAGTAA
* *
6532711 AAAATACCTTCAATAATATCGTAATAAAATTTTAAGTGGATTATTGAAGGCGTTTTTTACTACAA
196 AAAATACCATCAATAATATCGTAATAAAATTTTAAGGGGATTATTGAAGGCGTTTTTTACTACAA
** * ** *
6532776 ATGCCTTTACTAATTCCCTTAAGTTTTTTGAAAGAATTTATTGAAGGTATTTTTTACATAATATG
261 ACACCTTCACTAATTCCCTTAAACTTTTTGAAAGAATTTATTGAAGATATTTTTTACATAATATG
* *** * *
6532841 CCTTCAATAATCCTCTCCATTTTTATCAGGGGAATATCAATAAAGGCAGTTTTTTACTAAAAATA
326 CCTTCAATAATCCACTCCATTTTTATCAGAAAAATATCAATAAAGGCAGTTTTCTACTAAAAAAA
**
6532906 TTTTCAATAATCCACTCTAATTTTTTTA-AAAAATTTATTGGAGGCATTTTTTTTTTA
391 ACTTCAATAATCCACTCTAATTTTTTTAGAAAAATTTATTGGAGGCATTTTTTTTTTA
* *
6532963 TTTTATAAAATGCCTTTACTAATCCTCATAATATTTTTGGGTAGGATTATTGAAGGCATTTTTGG
1 TTTTATAAAATGCCTTTAATAATCCTCATAATATTTTTGGGTAGGATTATT-AAAGCATTTTTGG
** * * *
6533028 CATAAAATGCCTCCAATAAACAAGGTATTGAAAAAATGG-GTCAGATTATTGAAAGCATTTT-TT
65 CATAAAACACCTCCAATAAACAAGGTATCGAAAAAATGGACT-AGATTATTGAAAGCATTTTCTA
* *
6533091 TAAAAAAATACCTTCAATAAATT-CTTATTAAAAATTTTTT-GAGATTATTAAAGGCATCTTTTT
129 AAAAAAAATACCTTCAATAAATTCCTT-TCAAAAATTTTTTAG-GATTATTAAAGGCATC-TTTT
* * *
6533154 AGTAAAAAATGCCATCAATAATCTCGTAGTAAAATTTTAAGGGGATTATTGAAGGTC-TTTTTTA
191 AGTAAAAAATACCATCAATAATATCGTAATAAAATTTTAAGGGGATTATTGAAGG-CGTTTTTTA
* * * *
6533218 CTATAAACACCTTCACTAATT-CTTTCAAACTTTTT-AAATGAATTTATTGAAGATGTTCTTTTG
255 CTACAAACACCTTCACTAATTCCCTT-AAACTTTTTGAAA-GAATTTATTGAAGATATT-TTTTA
* * * *
6533281 CATAATATGCCTTTAATAATCCACTCCATTTTTATTAGAAAAATATCAATGAAGGTTA-TTTTCT
317 CATAATATGCCTTCAATAATCCACTCCATTTTTATCAGAAAAATATCAATAAAGG-CAGTTTTCT
* *
6533345 ACTAAAAAAAACTTCAATAATTCATTCTAA-TTTTTTAGAAAAATTTATTG
381 ACTAAAAAAAACTTCAATAATCCACTCTAATTTTTTTAGAAAAATTTATTG
6533395 AAGGTGTTTT
Statistics
Matches: 375, Mismatches: 46, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
446 4 0.01
447 103 0.27
448 172 0.46
449 95 0.25
450 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (448 bp):
TTTTATAAAATGCCTTTAATAATCCTCATAATATTTTTGGGTAGGATTATTAAAGCATTTTTGGC
ATAAAACACCTCCAATAAACAAGGTATCGAAAAAATGGACTAGATTATTGAAAGCATTTTCTAAA
AAAAAATACCTTCAATAAATTCCTTTCAAAAATTTTTTAGGATTATTAAAGGCATCTTTTAGTAA
AAAATACCATCAATAATATCGTAATAAAATTTTAAGGGGATTATTGAAGGCGTTTTTTACTACAA
ACACCTTCACTAATTCCCTTAAACTTTTTGAAAGAATTTATTGAAGATATTTTTTACATAATATG
CCTTCAATAATCCACTCCATTTTTATCAGAAAAATATCAATAAAGGCAGTTTTCTACTAAAAAAA
ACTTCAATAATCCACTCTAATTTTTTTAGAAAAATTTATTGGAGGCATTTTTTTTTTA
Found at i:6537488 original size:35 final size:35
Alignment explanation
Indices: 6537442--6537513 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
6537432 AAATATAAAC
*
6537442 CAAATGTTTTCTGGGCATAAACCTATAACTGACTT
1 CAAATGTTTTCTGGGCATAAACCTACAACTGACTT
6537477 CAAATGTTTTCTGGGCATAAACCTACAACTGACTT
1 CAAATGTTTTCTGGGCATAAACCTACAACTGACTT
6537512 CA
1 CA
6537514 CATATATAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (35 bp):
CAAATGTTTTCTGGGCATAAACCTACAACTGACTT
Found at i:6537764 original size:62 final size:62
Alignment explanation
Indices: 6537660--6537869 Score: 188
Period size: 62 Copynumber: 3.4 Consensus size: 62
6537650 AATTTATTGA
* * * * *
6537660 ATGGATTATTGAAGGCATTTTAGGCAAAAAATGCCTTCAATAATCTATTCCAATTTTTTTGT
1 ATGGATTATTAAAGGCATTTTTGACCAAAAATACCTTCAATAATCTATTCCAATTTTTTTGT
* * * * *** *
6537722 ATGAATTATTAAAAGCATTTTTGACCAAAACTACCTTTAATAATTCTTCATAAAAATTTTTTGGT
1 ATGGATTATTAAAGGCATTTTTGACCAAAAATACCTTCAATAA-TC-T-ATTCCAATTTTTTTGT
* * * * ** * *
6537787 -TGGATTATTAAAGGCGTTTTTGGCTAAAAATACCTTCAAGAATCCGTTCCAAATTTTTTCT
1 ATGGATTATTAAAGGCATTTTTGACCAAAAATACCTTCAATAATCTATTCCAATTTTTTTGT
*
6537848 ATGGATTATTGAAGGCATTTTT
1 ATGGATTATTAAAGGCATTTTT
6537870 CTATCAAAAA
Statistics
Matches: 113, Mismatches: 31, Indels: 8
0.74 0.20 0.05
Matches are distributed among these distances:
61 9 0.08
62 53 0.47
63 4 0.04
64 35 0.31
65 12 0.11
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (62 bp):
ATGGATTATTAAAGGCATTTTTGACCAAAAATACCTTCAATAATCTATTCCAATTTTTTTGT
Found at i:6537894 original size:126 final size:124
Alignment explanation
Indices: 6537600--6537894 Score: 313
Period size: 126 Copynumber: 2.3 Consensus size: 124
6537590 TAACAAAATG
* * *
6537600 TTATTGAAGGCAATTTTGGACCAAAATCGCCTTCAATAATTCAATATAAAAATTTATTGAATGGA
1 TTATTGAAGGC-ATTTTTGA-CAAAAACGCCTTCAATAATTC-TTATAAAAATTTATTGAATGGA
* * * * * *
6537665 TTATTGAAGGCATTTTAGGCAAAAAATGCCTTCAATAATCTATTCCAATTTTTTTGTATGAA
63 TTATTAAAGGCATTTTAGGCAAAAAATACCTTCAAGAATCCATTCCAAATTTTTTCTATGAA
* * * * * * **
6537727 TTATTAAAAGCATTTTTGACCAAAACTACCTTTAATAATTCTTCATAAAAATTTTTTGGTTGGAT
1 TTATTGAAGGCATTTTTGACAAAAAC-GCCTTCAATAATTCTT-ATAAAAATTTATTGAATGGAT
* * * * *
6537792 TATTAAAGGCGTTTTTGGCTAAAAATACCTTCAAGAATCCGTTCCAAATTTTTTCTATGGA
64 TATTAAAGGCATTTTAGGCAAAAAATACCTTCAAGAATCCATTCCAAATTTTTTCTATGAA
*
6537853 TTATTGAAGGCATTTTTCTATCAAAAACGCCTTCAAT-ATTCT
1 TTATTGAAGGCATTTTT-GA-CAAAAACGCCTTCAATAATTCT
6537895 CTCTCCAAAA
Statistics
Matches: 136, Mismatches: 28, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
125 6 0.04
126 107 0.79
127 17 0.12
128 6 0.04
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (124 bp):
TTATTGAAGGCATTTTTGACAAAAACGCCTTCAATAATTCTTATAAAAATTTATTGAATGGATTA
TTAAAGGCATTTTAGGCAAAAAATACCTTCAAGAATCCATTCCAAATTTTTTCTATGAA
Found at i:6539022 original size:30 final size:30
Alignment explanation
Indices: 6538978--6539043 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
6538968 TTGATATTTA
* *
6538978 AAACATTTATTTTCATCTAATTAAACCCTT
1 AAACATCTAGTTTCATCTAATTAAACCCTT
* *
6539008 CAACATCTAGTTTCATCTAATTAAATCCTT
1 AAACATCTAGTTTCATCTAATTAAACCCTT
6539038 AAACAT
1 AAACAT
6539044 ATTTTTCACA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.39
Consensus pattern (30 bp):
AAACATCTAGTTTCATCTAATTAAACCCTT
Found at i:6539684 original size:8 final size:8
Alignment explanation
Indices: 6539673--6539711 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
6539663 TTCTTGTTAC
6539673 CTTTTGTT
1 CTTTTGTT
6539681 CTTTTGTT
1 CTTTTGTT
*
6539689 CTTTTGTG
1 CTTTTGTT
*
6539697 ATTTTGTT
1 CTTTTGTT
*
6539705 TTTTTGT
1 CTTTTGT
6539712 CAAATAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.03, C:0.08, G:0.15, T:0.74
Consensus pattern (8 bp):
CTTTTGTT
Found at i:6540200 original size:2 final size:2
Alignment explanation
Indices: 6540193--6540224 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
6540183 GGAATTGAAA
*
6540193 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6540225 TTGAATTGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6542164 original size:11 final size:12
Alignment explanation
Indices: 6542148--6542176 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
6542138 CTAACCTAAA
6542148 AAAAAATC-CAC
1 AAAAAATCACAC
6542159 AAAAAATCACAC
1 AAAAAATCACAC
6542171 AAAAAA
1 AAAAAA
6542177 AAGCACATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.72, C:0.21, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAAAATCACAC
Found at i:6542992 original size:3 final size:3
Alignment explanation
Indices: 6542984--6543016 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
6542974 AAAAGGTGTA
*
6542984 AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6543017 TATTATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:6543589 original size:3 final size:3
Alignment explanation
Indices: 6543581--6543607 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6543571 TTTCTTTTTA
6543581 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
6543608 GAAGACAAAA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6543647 original size:22 final size:21
Alignment explanation
Indices: 6543579--6543647 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 21
6543569 TGTTTCTTTT
*
6543579 TAAATAAT-AATAATAATAATAA
1 TAAATAATGAA-AACAA-AATAA
* *
6543601 T-AATAATGAAGACAAAACAA
1 TAAATAATGAAAACAAAATAA
*
6543621 TTAAATAATTAAAACAAAGATAA
1 -TAAATAATGAAAACAAA-ATAA
6543644 TAAA
1 TAAA
6543648 AGAAAAAGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
20 4 0.11
21 10 0.27
22 20 0.54
23 3 0.08
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (21 bp):
TAAATAATGAAAACAAAATAA
Found at i:6546305 original size:104 final size:103
Alignment explanation
Indices: 6546123--6546329 Score: 326
Period size: 104 Copynumber: 2.0 Consensus size: 103
6546113 ACCATAAAAA
* * *
6546123 AATATTCGATTCTAGTAGGATTGGAACTTCATTACCCCGATAAGATATATGCCAAAAAACTAAAG
1 AATATTCGATTCTAGTAAGATTGGAACTTCA-TACCCCAATAAGATATATGCCAAAAAACCAAAG
6546188 TCAGGGTAATATAAGAAGATTGGTAAACTAATGGGAATG
65 TCAGGGTAATATAAGAAGATTGGTAAACTAATGGGAATG
* *
6546227 AATATTTGATTCTAGTAAGATTGGAACTTCA-ACTCCTCAATAAGATATATGCCAAAAACCCAAA
1 AATATTCGATTCTAGTAAGATTGGAACTTCATAC-CC-CAATAAGATATATGCCAAAAAACCAAA
*
6546291 GTCAGGGTACTATAAGAAGATTGGTAAACTAATGGGAAT
64 GTCAGGGTAATATAAGAAGATTGGTAAACTAATGGGAAT
6546330 AAAGGTAGAG
Statistics
Matches: 95, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
102 2 0.02
103 2 0.02
104 91 0.96
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.27
Consensus pattern (103 bp):
AATATTCGATTCTAGTAAGATTGGAACTTCATACCCCAATAAGATATATGCCAAAAAACCAAAGT
CAGGGTAATATAAGAAGATTGGTAAACTAATGGGAATG
Found at i:6552637 original size:15 final size:16
Alignment explanation
Indices: 6552617--6552654 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
6552607 TGACCATTAA
*
6552617 AAAAAATTT-TTAATT
1 AAAAAATTTATAAATT
6552632 AAAAAATTTATAAATT
1 AAAAAATTTATAAATT
6552648 AAAAAAT
1 AAAAAAT
6552655 AATAATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AAAAAATTTATAAATT
Found at i:6552637 original size:16 final size:17
Alignment explanation
Indices: 6552616--6552653 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
6552606 TTGACCATTA
*
6552616 AAAAAAATTT-TTAATT
1 AAAAAAATTTATAAATT
6552632 -AAAAAATTTATAAATT
1 AAAAAAATTTATAAATT
6552648 AAAAAA
1 AAAAAA
6552654 TAATAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 9 0.47
16 5 0.26
17 5 0.26
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAAAAATTTATAAATT
Found at i:6552679 original size:21 final size:20
Alignment explanation
Indices: 6552650--6552694 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
6552640 TATAAATTAA
6552650 AAAATAATAAT-ATAATAAAT
1 AAAATAATAATCA-AATAAAT
*
6552670 AAAATAAATAATCAAATCAAT
1 AAAAT-AATAATCAAATAAAT
6552691 AAAA
1 AAAA
6552695 AAAGCTTGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 16 0.73
22 1 0.05
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAATAATAATCAAATAAAT
Found at i:6555214 original size:18 final size:18
Alignment explanation
Indices: 6555191--6555226 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6555181 TTTGTAATTT
6555191 TAAAAAAATAAAATTAAA
1 TAAAAAAATAAAATTAAA
*
6555209 TAAAAAATTAAAATTAAA
1 TAAAAAAATAAAATTAAA
6555227 ATAGGATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (18 bp):
TAAAAAAATAAAATTAAA
Found at i:6559230 original size:14 final size:13
Alignment explanation
Indices: 6559207--6559248 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
6559197 GAATAAAAGG
6559207 AAACAAA-AAAAA
1 AAACAAACAAAAA
* *
6559219 ATACAAATAAAAA
1 AAACAAACAAAAA
6559232 TAAACAAACAAAAA
1 -AAACAAACAAAAA
6559246 AAA
1 AAA
6559249 TTAAAGAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 6 0.24
13 8 0.32
14 11 0.44
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (13 bp):
AAACAAACAAAAA
Found at i:6560255 original size:50 final size:50
Alignment explanation
Indices: 6560199--6560747 Score: 432
Period size: 50 Copynumber: 11.0 Consensus size: 50
6560189 TCCACAAGCT
* * **
6560199 TTTGTTTACGATGAGCTATTTTCAAATGAGATTTTTAAAGTCCCAAAACC
1 TTTGTTTATGATGAGCCATTTTCAAATGAGATTTTTAAAGTTTCAAAACC
* * * * * *
6560249 TATGTTTATGAAGAGCTATTGTT-AGATGAGATTTTTAAAG-TCCTAAAGCC
1 TTTGTTTATGATGAGCCATT-TTCAAATGAGATTTTTAAAGTTTC-AAAACC
* * * * * * * *
6560299 TCTGCTTATGA-GAAACTATTTTCAGATCAAATTTTTAAA-TTCTCAAAGCC
1 TTTGTTTATGATG-AGCCATTTTCAAATGAGATTTTTAAAGTT-TCAAAACC
* * * * * * * * **
6560349 TTTGCTTATGATGAACTATTTTCAGATAAGATTTTCAAAATCTCAAAGTC
1 TTTGTTTATGATGAGCCATTTTCAAATGAGATTTTTAAAGTTTCAAAACC
* * * * * * *
6560399 TTTATTTATGAGGAACCATTTTTAGAA-AATATTTTTAAAGTTTTAAAACC
1 TTTGTTTATGATGAGCCATTTTCA-AATGAGATTTTTAAAGTTTCAAAACC
* *
6560449 TTTGTTTATGATGAGCCATTTTCAAATTAGATTTTTAAAGTTTCGAAACC
1 TTTGTTTATGATGAGCCATTTTCAAATGAGATTTTTAAAGTTTCAAAACC
* * * *
6560499 TTTGTTTATGAGGAGCCATTTTTAGAA-AATATTTTTAAAGTTTCAAAACC
1 TTTGTTTATGATGAGCCATTTTCA-AATGAGATTTTTAAAGTTTCAAAACC
* *
6560549 TTTGTTTATGATGAGCCATTTTCAAATTAGATTTTTAAAGTTTCGAAACC
1 TTTGTTTATGATGAGCCATTTTCAAATGAGATTTTTAAAGTTTCAAAACC
* * * *
6560599 TTTGTTTATGATGAGCCATTTTCAAATCAAATTTTTAAAGTTCCAAAGCC
1 TTTGTTTATGATGAGCCATTTTCAAATGAGATTTTTAAAGTTTCAAAACC
* ** ** * *
6560649 TTTGTTTATAAAAAAATCATTTTCAAATGAGATTTTTAAA-TTTCTAAAGC
1 TTTGTTTAT-GATGAGCCATTTTCAAATGAGATTTTTAAAGTTTCAAAACC
* * * *
6560699 TTCTATTTATG-GGAAGCTATTTTCAAATAAGATTTTTAAA-TTTCAAAAC
1 TT-TGTTTATGATG-AGCCATTTTCAAATGAGATTTTTAAAGTTTCAAAAC
6560748 TTATATTTAT
Statistics
Matches: 409, Mismatches: 75, Indels: 30
0.80 0.15 0.06
Matches are distributed among these distances:
49 9 0.02
50 363 0.89
51 37 0.09
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (50 bp):
TTTGTTTATGATGAGCCATTTTCAAATGAGATTTTTAAAGTTTCAAAACC
Found at i:6560458 original size:150 final size:150
Alignment explanation
Indices: 6560177--6560657 Score: 504
Period size: 150 Copynumber: 3.2 Consensus size: 150
6560167 TTTTTAGATG
* * * *
6560177 AAATTTTTAAAG-TCCACAAGCTTTTGTTTACGATGAGCTATTTTCAAATGAGATTTTTAAAGTC
1 AAATTTTTAAAGTTCCA-AAGCCTTTGTTTATGATGAGCTATTTTCAGATAAGATTTTTAAAGTC
* * * * ** ** * * *
6560241 CCAAAACCTATGTTTATGAAGAGCTATTGTTAGATGAGATTTTTAAAGTCCTAAAGCCTCTGCTT
65 TCAAAACCTTTGTTTATGAAGAGCCATTTTTAGAAAAGATTTTTAAAGTTTTAAAACCTTTGTTT
* * *
6560306 ATGA-GAAACTATTTTCAGATC
130 ATGATG-AGCCATTTTCAAATC
* * * *
6560327 AAATTTTTAAA-TTCTCAAAGCCTTTGCTTATGATGAACTATTTTCAGATAAGATTTTCAAAATC
1 AAATTTTTAAAGTTC-CAAAGCCTTTGTTTATGATGAGCTATTTTCAGATAAGATTTTTAAAGTC
** * * * *
6560391 TCAAAGTCTTTATTTATGAGGAACCATTTTTAGAAAATATTTTTAAAGTTTTAAAACCTTTGTTT
65 TCAAAACCTTTGTTTATGAAGAGCCATTTTTAGAAAAGATTTTTAAAGTTTTAAAACCTTTGTTT
*
6560456 ATGATGAGCCATTTTCAAATT
130 ATGATGAGCCATTTTCAAATC
* * * * * * * *
6560477 AGATTTTTAAAGTTTCGAAA-CCTTTGTTTATGAGGAGCCATTTTTAGAAAATATTTTTAAAGTT
1 AAATTTTTAAAG-TTCCAAAGCCTTTGTTTATGATGAGCTATTTTCAGATAAGATTTTTAAAGTC
* * * **
6560541 TCAAAACCTTTGTTTATGATGAGCCATTTTCA-AATTAGATTTTTAAAGTTTCGAAACCTTTGTT
65 TCAAAACCTTTGTTTATGAAGAGCCATTTTTAGAA-AAGATTTTTAAAGTTTTAAAACCTTTGTT
6560605 TATGATGAGCCATTTTCAAATC
129 TATGATGAGCCATTTTCAAATC
6560627 AAATTTTTAAAGTTCCAAAGCCTTTGTTTAT
1 AAATTTTTAAAGTTCCAAAGCCTTTGTTTAT
6560658 AAAAAAATCA
Statistics
Matches: 270, Mismatches: 54, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
149 8 0.03
150 253 0.94
151 6 0.02
152 3 0.01
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (150 bp):
AAATTTTTAAAGTTCCAAAGCCTTTGTTTATGATGAGCTATTTTCAGATAAGATTTTTAAAGTCT
CAAAACCTTTGTTTATGAAGAGCCATTTTTAGAAAAGATTTTTAAAGTTTTAAAACCTTTGTTTA
TGATGAGCCATTTTCAAATC
Found at i:6561135 original size:22 final size:22
Alignment explanation
Indices: 6561100--6561141 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6561090 GACCTAACCT
** *
6561100 AAAAAAAATCCACAGATATCAC
1 AAAAAAAAAACACACATATCAC
6561122 AAAAAAAAAACACACATATC
1 AAAAAAAAAACACACATATC
6561142 CATTTAAGGA
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:0.64, C:0.21, G:0.02, T:0.12
Consensus pattern (22 bp):
AAAAAAAAAACACACATATCAC
Found at i:6562427 original size:25 final size:23
Alignment explanation
Indices: 6562391--6562441 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 23
6562381 ATTTTATTCT
*
6562391 AAAAAAATTATAAATAAAAATGAA
1 AAAAAAAATATAAATAAAAAT-AA
* *
6562415 AAAAATAAATATAAGTATAAATAA
1 AAAAA-AAATATAAATAAAAATAA
6562439 AAA
1 AAA
6562442 GGGGAGGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.22
Consensus pattern (23 bp):
AAAAAAAATATAAATAAAAATAA
Found at i:6562678 original size:11 final size:12
Alignment explanation
Indices: 6562662--6562690 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
6562652 AAACAAAGAC
6562662 AATAAAA-TAAA
1 AATAAAACTAAA
6562673 AATAAAACTAAA
1 AATAAAACTAAA
6562685 AATAAA
1 AATAAA
6562691 TTGAGTTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.17
Consensus pattern (12 bp):
AATAAAACTAAA
Found at i:6565728 original size:18 final size:18
Alignment explanation
Indices: 6565705--6565751 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
6565695 ATTAAAAAAA
*
6565705 AATAAAAATAAATGTGAT
1 AATAAAAATAAATATGAT
* *
6565723 AATAAATATTAATATGAT
1 AATAAAAATAAATATGAT
6565741 AA-AATAAATAA
1 AATAA-AAATAA
6565752 TTAACAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (18 bp):
AATAAAAATAAATATGAT
Found at i:6566159 original size:121 final size:121
Alignment explanation
Indices: 6565921--6566269 Score: 596
Period size: 121 Copynumber: 2.9 Consensus size: 121
6565911 TCTAGTTTAA
6565921 AAACTTTATGTCCAAAGCTCGGTCCTTTTTCAAACAAGCCTAAAATTCAAATTGAAATCAATTTA
1 AAACTTTATGTCCAAAGCTCGGTCCTTTTTCAAACAAGCCTAAAATTCAAATTGAAATCAATTTA
6565986 ATGAATCTAAATTTTTTTTTTTTCTAAATCCTTCTAAATTTCAGGTTCTAGTTTAACCTT
66 ATGAATCTAAA----TTTTTTTTCTAAATCCTTCTAAATTTCAGGTTCTAGTTTAACCTT
*
6566046 AAACTTTATGTCCAAAGCTCGGTCCTTTTTCAAACAAGCTTAAAATTCAAATTGAAATCAATTTA
1 AAACTTTATGTCCAAAGCTCGGTCCTTTTTCAAACAAGCCTAAAATTCAAATTGAAATCAATTTA
6566111 ATGAATCTAAATTTTTTTTCTAAATCCTTCTAAATTTCAGGTTCTAGTTTAACCTT
66 ATGAATCTAAATTTTTTTTCTAAATCCTTCTAAATTTCAGGTTCTAGTTTAACCTT
* * *
6566167 AAACTTTATGTCTAAAGCTCGGTCCTTTTTC--A-ATGCCTAAATTTCAAATTGAAATCAATTTA
1 AAACTTTATGTCCAAAGCTCGGTCCTTTTTCAAACAAGCCTAAAATTCAAATTGAAATCAATTTA
*
6566229 ATGAATCTAAATTTTTTTTCCAAATCCTTCTAAATTTCAGG
66 ATGAATCTAAATTTTTTTTCTAAATCCTTCTAAATTTCAGG
6566270 AAGACTTTCT
Statistics
Matches: 218, Mismatches: 6, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
118 67 0.31
119 1 0.00
121 75 0.34
125 75 0.34
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.41
Consensus pattern (121 bp):
AAACTTTATGTCCAAAGCTCGGTCCTTTTTCAAACAAGCCTAAAATTCAAATTGAAATCAATTTA
ATGAATCTAAATTTTTTTTCTAAATCCTTCTAAATTTCAGGTTCTAGTTTAACCTT
Found at i:6568368 original size:19 final size:17
Alignment explanation
Indices: 6568338--6568376 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
6568328 TGATAGACTT
6568338 AAAATAAAATAAAATCAA
1 AAAATAAAATAAAAT-AA
6568356 AAAATACAAATAAAATAA
1 AAAATA-AAATAAAATAA
6568374 AAA
1 AAA
6568377 GGGAAACCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAATAAAATAAAATAA
Found at i:6568993 original size:19 final size:20
Alignment explanation
Indices: 6568969--6569016 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
6568959 TCGTGTTATC
*
6568969 AAAATCCACTATTTC-CCCA
1 AAAATCAACTATTTCTCCCA
*
6568988 AAAATCAACTATTTCTCTCA
1 AAAATCAACTATTTCTCCCA
6569008 AAAATCAAC
1 AAAATCAAC
6569017 CTTGACTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAATCAACTATTTCTCCCA
Found at i:6569265 original size:3 final size:3
Alignment explanation
Indices: 6569257--6569376 Score: 94
Period size: 3 Copynumber: 41.3 Consensus size: 3
6569247 AAAAATGGAA
6569257 AAT AAT AAT AAT AAT AAT AAT AAT AA- ATAT ATAT ATAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT A-AT AAT AAT AAT
* * * * *
6569303 ACT AAT AAT AGT AAT -GT AAT -AT ACT AAT -AT AAT ATAT TAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
*
6569346 -AT AAT AGT AAT AAT AAT -AT AAT -AT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6569377 TGTACAATAT
Statistics
Matches: 95, Mismatches: 12, Indels: 20
0.75 0.09 0.16
Matches are distributed among these distances:
2 14 0.15
3 70 0.74
4 11 0.12
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:6569301 original size:22 final size:22
Alignment explanation
Indices: 6569270--6569392 Score: 85
Period size: 22 Copynumber: 5.4 Consensus size: 22
6569260 AATAATAATA
6569270 ATAATAATAATAAATATATATAT
1 ATAAT-ATAATAAATATATATAT
6569293 ATAATATAATACTAATA-ATAGTAAT
1 ATAATATAATA--AATATATA-T-AT
* *
6569318 GTAATATACT-AATATAATATATT
1 ATAATATAATAAATAT-ATATA-T
6569341 ATAATATAATAGTAATA-ATA-AT
1 ATAATATAATA--AATATATATAT
* *
6569363 ATAATATAAT-AATATGTACAAT
1 ATAATATAATAAATATATA-TAT
6569385 ATAATATA
1 ATAATATA
6569393 GTATACGATA
Statistics
Matches: 82, Mismatches: 5, Indels: 27
0.72 0.04 0.24
Matches are distributed among these distances:
19 4 0.05
20 2 0.02
22 32 0.39
23 19 0.23
24 11 0.13
25 10 0.12
26 4 0.05
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.38
Consensus pattern (22 bp):
ATAATATAATAAATATATATAT
Found at i:6569333 original size:40 final size:38
Alignment explanation
Indices: 6569261--6569377 Score: 125
Period size: 37 Copynumber: 3.1 Consensus size: 38
6569251 ATGGAAAATA
* *
6569261 ATAATAATAATAATAATAATAAATATAT-ATATATAAT
1 ATAATAATAATAATAGTAATTAATATATAATATATAAT
*
6569298 ATAATACTAATAATAGTAATGTAATATACTAATATA-ATAT
1 ATAATAATAATAATAGTAAT-TAATATA-TAATATATA-AT
*
6569338 ATTATAAT-ATAATAGTAA-TAATAATATAATATAATAAT
1 ATAATAATAATAATAGTAATTAAT-ATATAATAT-ATAAT
6569376 AT
1 AT
6569378 GTACAATATA
Statistics
Matches: 68, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
37 28 0.41
38 14 0.21
39 13 0.19
40 13 0.19
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (38 bp):
ATAATAATAATAATAGTAATTAATATATAATATATAAT
Found at i:6569357 original size:45 final size:46
Alignment explanation
Indices: 6569257--6569392 Score: 143
Period size: 45 Copynumber: 2.9 Consensus size: 46
6569247 AAAAATGGAA
6569257 AATAATAATAATAATAATAATAATAAATATATATATATAATATAATACT
1 AATAATAATAAT-ATAAT-ATAAT-AATATATATATATAATATAATACT
* * *
6569306 AATAATAGTAATGTAATATACTAATATAATATATTATAATAT-A-A-T
1 AATAATAATAATATAATATAATAATAT-ATATA-TATAATATAATACT
* * *
6569351 AGTAATAATAATATAATATAATAATATGTACAATATAATATA
1 AATAATAATAATATAATATAATAATATATA-TATATAATATA
6569393 GTATACGATA
Statistics
Matches: 74, Mismatches: 9, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
44 10 0.14
45 25 0.34
46 6 0.08
47 10 0.14
48 12 0.16
49 11 0.15
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (46 bp):
AATAATAATAATATAATATAATAATATATATATATAATATAATACT
Found at i:6569397 original size:27 final size:26
Alignment explanation
Indices: 6569258--6569407 Score: 87
Period size: 27 Copynumber: 5.4 Consensus size: 26
6569248 AAAATGGAAA
*
6569258 ATAATAATAATAATAATAATAATA-AAT
1 ATAATAAT-ATAGTAAT-ATAATATAAT
6569285 AT-AT-ATATA-TAATATAATACTAATAAT
1 ATAATAATATAGTAATAT-A-A-T-ATAAT
* *
6569312 AGTAATGTAATATACTAATATAATATATT
1 A-TAA--TAATATAGTAATATAATATAAT
6569341 ATAAT-ATAATAGTAATAATAATATAAT
1 ATAATAAT-ATAGTAAT-ATAATATAAT
*
6569368 ATAATAATAT-GTACAATATAATATAGT
1 ATAATAATATAGT--AATATAATATAAT
6569395 ATACGATAATATA
1 ATA--ATAATATA
6569408 AAAATAGCAG
Statistics
Matches: 100, Mismatches: 4, Indels: 35
0.72 0.03 0.25
Matches are distributed among these distances:
22 2 0.02
23 5 0.05
24 4 0.04
25 5 0.05
26 13 0.13
27 34 0.34
28 9 0.09
29 13 0.13
30 1 0.01
31 2 0.02
32 6 0.06
33 6 0.06
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (26 bp):
ATAATAATATAGTAATATAATATAAT
Found at i:6570001 original size:60 final size:60
Alignment explanation
Indices: 6569850--6570149 Score: 190
Period size: 60 Copynumber: 5.0 Consensus size: 60
6569840 TGAATGACCA
* ** * * * * *
6569850 GGATGATGTTGCGAATCTA-AAAATGACCAAGACCAAGTCAAGGTCGAAGATGAGTGATCG
1 GGATGATGTTGCGAGT-TAGAAAGCGACCAAAATCGAGTCAAGGTCGAAGATGAATAATCG
* * * *
6569910 GGATGATGTTGCGAGTTAGGAAGCGATCAAAATCGAGTCGAGGTTGAAGATGAATAATCG
1 GGATGATGTTGCGAGTTAGAAAGCGACCAAAATCGAGTCAAGGTCGAAGATGAATAATCG
* * * * * ** * *
6569970 GGATGATGTTGTGAGTTTGAAAGCGGCCAAAATTGAGTTAAAATCCAAGATGAATAATCA
1 GGATGATGTTGCGAGTTAGAAAGCGACCAAAATCGAGTCAAGGTCGAAGATGAATAATCG
** * * * * * * * *
6570030 GGATGATACTACGAGTTTGAAAGCGACTAAGA-CTAAGTCAAGGTCGAAGATGAATGACCA
1 GGATGATGTTGCGAGTTAGAAAGCGACCAAAATC-GAGTCAAGGTCGAAGATGAATAATCG
* * * ** * * * * * *
6570090 GGATGATATCGCGAGTTTGAAAATGACCAAGATTGAGTCGAGCTCAAAGATGAATGATCG
1 GGATGATGTTGCGAGTTAGAAAGCGACCAAAATCGAGTCAAGGTCGAAGATGAATAATCG
6570150 AGACAATGTC
Statistics
Matches: 184, Mismatches: 53, Indels: 6
0.76 0.22 0.02
Matches are distributed among these distances:
59 2 0.01
60 182 0.99
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (60 bp):
GGATGATGTTGCGAGTTAGAAAGCGACCAAAATCGAGTCAAGGTCGAAGATGAATAATCG
Found at i:6570201 original size:60 final size:60
Alignment explanation
Indices: 6570136--6570272 Score: 159
Period size: 60 Copynumber: 2.3 Consensus size: 60
6570126 GTCGAGCTCA
* * * * ** *
6570136 AAGATGAATGATCGAGACAATGTCGTGAGTTTAAAAGTGACCAAGACTGAGTCAAAGTTT-
1 AAGATGAATGATCAAGACAATGCCGTAAGTCTAAAAGCAACCAAGACTAAGTCAAA-TTTG
* * * *
6570196 TAGATGAATGACCAAGACAATGCCGTAAGTCTGAAAGCAATCAAGACTAAGTCAAATTTG
1 AAGATGAATGATCAAGACAATGCCGTAAGTCTAAAAGCAACCAAGACTAAGTCAAATTTG
6570256 AAGATGAATGATCAAGA
1 AAGATGAATGATCAAGA
6570273 TGATGTTACG
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
59 3 0.05
60 60 0.95
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.23
Consensus pattern (60 bp):
AAGATGAATGATCAAGACAATGCCGTAAGTCTAAAAGCAACCAAGACTAAGTCAAATTTG
Found at i:6575073 original size:14 final size:13
Alignment explanation
Indices: 6575046--6575070 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6575036 TTTGTAAGAA
6575046 TTTTTATTTATTG
1 TTTTTATTTATTG
6575059 TTTTTATTTATT
1 TTTTTATTTATT
6575071 TGTCTTTTAA
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:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (13 bp):
TTTTTATTTATTG
Found at i:6575280 original size:6 final size:5
Alignment explanation
Indices: 6575188--6575280 Score: 55
Period size: 5 Copynumber: 17.6 Consensus size: 5
6575178 TAACTTTCTC
* * *
6575188 AAATA AAATA AAAT- CAGTA AAATA ATAAAA AAACTA AAA-A TAAATA
1 AAATA AAATA AAATA AAATA AAATA A-AATA AAA-TA AAATA -AAATA
** *
6575234 CGATA AACTTA AAATA AAATA AAATAA AAATAA AAATA AAATGA AAA
1 AAATA AA-ATA AAATA AAATA AAAT-A AAAT-A AAATA AAAT-A AAA
6575281 AAGGAAAACC
Statistics
Matches: 68, Mismatches: 12, Indels: 15
0.72 0.13 0.16
Matches are distributed among these distances:
4 3 0.04
5 37 0.54
6 28 0.41
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:6575910 original size:19 final size:20
Alignment explanation
Indices: 6575881--6575928 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
6575871 CCATGTTATC
* *
6575881 AAAATCCACTGTTT-CCCTA
1 AAAATCAACTGTTTGCCCCA
*
6575900 GAAATCAACTGTTTGCCCCA
1 AAAATCAACTGTTTGCCCCA
6575920 AAAATCAAC
1 AAAATCAAC
6575929 CCTGTCTTCC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.38, C:0.29, G:0.08, T:0.25
Consensus pattern (20 bp):
AAAATCAACTGTTTGCCCCA
Found at i:6576178 original size:3 final size:3
Alignment explanation
Indices: 6576170--6576275 Score: 61
Period size: 3 Copynumber: 38.3 Consensus size: 3
6576160 GCAAATGGAA
* * * *
6576170 AAT AAT AAT AAT -AT AGT -AT AAT -AT AAT AAT -AT GAT AAT AGT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
6576214 AAT -GT AAT -AT ACT AAT -AT AAT ATAT TAT AAT -AT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
6576256 AAT AAT -AT AAT -AT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
6576276 TGTATGATAT
Statistics
Matches: 79, Mismatches: 13, Indels: 22
0.69 0.11 0.19
Matches are distributed among these distances:
2 18 0.23
3 59 0.75
4 2 0.03
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:6576194 original size:5 final size:5
Alignment explanation
Indices: 6576171--6576296 Score: 80
Period size: 5 Copynumber: 24.6 Consensus size: 5
6576161 CAAATGGAAA
* * *
6576171 ATAAT AATAAT ATAGT ATAAT AT-A- ATAAT ATGAT AATAGT AGTAAT
1 ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT A-TAAT
* * *
6576217 GTAAT AT-A- CTAAT ATAAT ATATT ATAAT ATAAT AGTAAT AATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A-TAAT -ATAAT ATAAT
* * *
6576267 ATAAT AATATGT ATGAT ATAAT ATAGT ATA
1 ATAAT -ATA-AT ATAAT ATAAT ATAAT ATA
6576297 GTATGATAAC
Statistics
Matches: 93, Mismatches: 17, Indels: 21
0.71 0.13 0.16
Matches are distributed among these distances:
3 3 0.03
4 4 0.04
5 60 0.65
6 24 0.26
7 2 0.02
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:6576276 original size:8 final size:8
Alignment explanation
Indices: 6576174--6576267 Score: 70
Period size: 8 Copynumber: 11.8 Consensus size: 8
6576164 ATGGAAAATA
6576174 ATAATAAT
1 ATAATAAT
6576182 ATAGTATAAT
1 ATA--ATAAT
6576192 ATAATAAT
1 ATAATAAT
*
6576200 ATGATAAT
1 ATAATAAT
*
6576208 AGTAGT-A-
1 A-TAATAAT
*
6576215 AT-GTAAT
1 ATAATAAT
*
6576222 ATACTAAT
1 ATAATAAT
6576230 ATAAT-AT
1 ATAATAAT
*
6576237 ATTATAAT
1 ATAATAAT
*
6576245 ATAATAGT
1 ATAATAAT
6576253 AATAATAAT
1 -ATAATAAT
6576262 ATAATA
1 ATAATA
6576268 TAATAATATG
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
5 2 0.03
6 2 0.03
7 9 0.13
8 39 0.57
9 9 0.13
10 8 0.12
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.38
Consensus pattern (8 bp):
ATAATAAT
Found at i:6576595 original size:27 final size:28
Alignment explanation
Indices: 6576557--6576610 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
6576547 AGTTTTGGAT
6576557 TTTAGGGTTTTGATTT-GAGTTTTAAGGA
1 TTTAGGGTTTTGATTTAG-GTTTTAAGGA
*
6576585 TTTAGGG-TTTGGTTTAGGTTTTAAGG
1 TTTAGGGTTTTGATTTAGGTTTTAAGG
6576611 GGTTTTAGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (28 bp):
TTTAGGGTTTTGATTTAGGTTTTAAGGA
Found at i:6577110 original size:3 final size:3
Alignment explanation
Indices: 6577092--6577166 Score: 78
Period size: 3 Copynumber: 24.3 Consensus size: 3
6577082 AATTAATTTT
* * * *
6577092 TTA TTA TTG TTG TTA TTA TCA TTA TTA CTA TTA TTA TTA TTA TTA TTAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
* *
6577141 TGA TTA ATA TTA TTA TTA CTTA TTA T
1 TTA TTA TTA TTA TTA TTA -TTA TTA T
6577167 AAAACAATAA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
3 55 0.92
4 5 0.08
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:6577790 original size:23 final size:23
Alignment explanation
Indices: 6577750--6577829 Score: 76
Period size: 23 Copynumber: 3.4 Consensus size: 23
6577740 GAGGTGTGGC
*
6577750 AGAGCTT-GGGTTTCTAGGTATG
1 AGAGCTTGGGGTTTTTAGGTATG
6577772 AGAGCTTGGGGTTTTTAGGTATG
1 AGAGCTTGGGGTTTTTAGGTATG
* *
6577795 -GTAGTTTGGGATTTTT-GAGTATGGG
1 AG-AGCTTGGGGTTTTTAG-GTAT--G
6577820 AGAGCTTGGG
1 AGAGCTTGGG
6577830 TTTCTGGGTG
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
22 9 0.19
23 30 0.62
25 8 0.17
26 1 0.02
ACGTcount: A:0.17, C:0.05, G:0.40, T:0.38
Consensus pattern (23 bp):
AGAGCTTGGGGTTTTTAGGTATG
Found at i:6579704 original size:2 final size:2
Alignment explanation
Indices: 6579697--6579759 Score: 56
Period size: 2 Copynumber: 31.5 Consensus size: 2
6579687 ACCTCCATTA
* * * *
6579697 AT AT AT AT AT AT AT AT -T AGT AT AC AT AT AC GT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
* *
6579739 AT AT GT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
6579760 ATTCATATTG
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
1 1 0.02
2 44 0.94
3 2 0.04
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.44
Consensus pattern (2 bp):
AT
Found at i:6580674 original size:38 final size:38
Alignment explanation
Indices: 6580616--6580693 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
6580606 AATATATTGA
* *
6580616 TAATGAATTTATTAACTCCACAAACGTAATTAAAAAAT
1 TAATGAATTTATCAACTCCACAAACGTAATCAAAAAAT
*
6580654 TAATGAATTTATCAATTCCACAAACGTAATCAAAAAAT
1 TAATGAATTTATCAACTCCACAAACGTAATCAAAAAAT
6580692 TA
1 TA
6580694 TCATATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.31
Consensus pattern (38 bp):
TAATGAATTTATCAACTCCACAAACGTAATCAAAAAAT
Found at i:6586461 original size:32 final size:32
Alignment explanation
Indices: 6586422--6586482 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
6586412 TATAATAAAT
6586422 AAAATTTATTATTAAATAATAAATAAATAGAC
1 AAAATTTATTATTAAATAATAAATAAATAGAC
* *
6586454 AAAATTTATTATTATATAATAAATTAATA
1 AAAATTTATTATTAAATAATAAATAAATA
6586483 AATAATATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (32 bp):
AAAATTTATTATTAAATAATAAATAAATAGAC
Found at i:6588409 original size:2 final size:2
Alignment explanation
Indices: 6588402--6588433 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6588392 AATAACAATA
6588402 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
6588434 GATGGTCACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6591156 original size:9 final size:9
Alignment explanation
Indices: 6591142--6591167 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
6591132 AAGTACACCT
6591142 CTCCCACTG
1 CTCCCACTG
6591151 CTCCCACTG
1 CTCCCACTG
6591160 CTCCCACT
1 CTCCCACT
6591168 AAGCTTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.58, G:0.08, T:0.23
Consensus pattern (9 bp):
CTCCCACTG
Found at i:6594105 original size:15 final size:16
Alignment explanation
Indices: 6594085--6594114 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6594075 AGCTATAATT
6594085 AGAAAAAA-AAAAAAA
1 AGAAAAAAGAAAAAAA
6594100 AGAAAAAAGAAAAAA
1 AGAAAAAAGAAAAAA
6594115 CAGCTAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (16 bp):
AGAAAAAAGAAAAAAA
Found at i:6597748 original size:21 final size:21
Alignment explanation
Indices: 6597724--6597765 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6597714 TATAGACTTA
6597724 TACTGATGGTTTTTAAGGTGT
1 TACTGATGGTTTTTAAGGTGT
6597745 TACTGATGGTTTTTAAGGTGT
1 TACTGATGGTTTTTAAGGTGT
6597766 CAAAATAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.05, G:0.29, T:0.48
Consensus pattern (21 bp):
TACTGATGGTTTTTAAGGTGT
Found at i:6598134 original size:49 final size:49
Alignment explanation
Indices: 6598062--6598167 Score: 126
Period size: 49 Copynumber: 2.2 Consensus size: 49
6598052 TTATACGTTT
* * * *
6598062 TAATTTTTTTGATCTATACCGACAATTAACA-CCTATCAATATAGACTTG
1 TAATTTTTTTGACCCATACCGACAATTAACATCC-ATCAATATAAACTTA
* * *
6598111 TAATTTTTTTTACCCATACCGACACTTAGCATCCATCAATATAAACTTA
1 TAATTTTTTTGACCCATACCGACAATTAACATCCATCAATATAAACTTA
6598160 T-ATTTTTT
1 TAATTTTTT
6598168 AATTTTTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
48 7 0.14
49 40 0.82
50 2 0.04
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.42
Consensus pattern (49 bp):
TAATTTTTTTGACCCATACCGACAATTAACATCCATCAATATAAACTTA
Found at i:6598414 original size:24 final size:24
Alignment explanation
Indices: 6598382--6598428 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
6598372 TTTTTTTAAA
6598382 AATTATATTT-TCAATTATTAATATT
1 AATTATATTTAT-AATTA-TAATATT
6598407 AATT-TATTTATAATTATAATAT
1 AATTATATTTATAATTATAATAT
6598429 GATATGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 6 0.29
24 10 0.48
25 5 0.24
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
AATTATATTTATAATTATAATATT
Found at i:6605804 original size:25 final size:25
Alignment explanation
Indices: 6605753--6605805 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
6605743 ATTGCAAAAG
* *
6605753 AACAAAATTTTAAAGCTTGAAATTTA
1 AACAAAATTTT-AAGCTTAAAAGTTA
6605779 AACAAAGATTTT-AGCTTAAAAGTTA
1 AACAAA-ATTTTAAGCTTAAAAGTTA
6605804 AA
1 AA
6605806 AAGATCAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 13 0.54
26 6 0.25
27 5 0.21
ACGTcount: A:0.51, C:0.08, G:0.09, T:0.32
Consensus pattern (25 bp):
AACAAAATTTTAAGCTTAAAAGTTA
Found at i:6606404 original size:62 final size:62
Alignment explanation
Indices: 6606331--6606449 Score: 150
Period size: 62 Copynumber: 1.9 Consensus size: 62
6606321 TTTTTTGAGT
* * **
6606331 GGATTAATCAAGGTG-TTTTTAGCCAAAAATGCCTTGAATAATCCCTTCCAATTTTTTGGAAG
1 GGATTAATCAAGGTGATTTCTA-CCAAAAATACCTCCAATAATCCCTTCCAATTTTTTGGAAG
* * * *
6606393 GGATTATTCAAGGTGATTTCTATCAAAAATACCTCCAATAATCTCTTCCTATTTTTT
1 GGATTAATCAAGGTGATTTCTACCAAAAATACCTCCAATAATCCCTTCCAATTTTTT
6606450 TGGGATCATT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
62 43 0.90
63 5 0.10
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (62 bp):
GGATTAATCAAGGTGATTTCTACCAAAAATACCTCCAATAATCCCTTCCAATTTTTTGGAAG
Found at i:6606786 original size:292 final size:289
Alignment explanation
Indices: 6606353--6608178 Score: 1211
Period size: 293 Copynumber: 6.3 Consensus size: 289
6606343 GTGTTTTTAG
** * * * * * *
6606353 CCAAAAATGCCTTGAATAATCCCTTCCAATTTTTTGGAAGGGATTATTCAAGGTGATTTCTATCA
1 CCAAAAACACCTTTAATAATCCCTTCTAA-TTTTTAGAGGGGATTATTCGAGGTGTTTTCTATCA
** * * *
6606418 AAAATACCTCCAATAAT-CTCTTCCTATTTTTTTGGGATCATTCTAGGAGTTTTTGTGATAAAAC
65 AAAATACCTTTAATAATCCTC-TCCCATTTTTTTGGGATCATTCAAGCA-TTTTTG-GATAAAAC
* *
6606482 ACCTTGAATAATCTCCTTCAGGCATTTATGAGGAGATTATTTAAGGCATTTTTCTCCAGAAAATG
127 ACCTTGAATAATCCCCTTCAGGCATTTATGAGGAGATTATTGAAGGCATTTTTCTCCAGAAAATG
* *
6606547 CCTTGAATAATCTCTAACAAAATATTGAAAGGATTATTGAAGGCGTTTTTTGCCAAAAATGCCTT
192 CCTTGAATAATCTCTAACAAAATATTGAAAGGGTTATTGAAGGCATTTTTTGCCAAAAATGCCTT
*
6606612 GAATAAATCTTGGATTATTGAAAGCATTTTTGG
257 GAATAAATCTTGGATTATTGAAAGCATTTTTGA
* * *
6606645 TCAAAAACACCTTTAATAATCCCTTCTAATTTTTAGAGGAGATTATTCGAGATGTTTTCTATCAA
1 CCAAAAACACCTTTAATAATCCCTTCTAATTTTTAGAGGGGATTATTCGAGGTGTTTTCTATCAA
* *
6606710 AAA-AGCCTTTAATAATCCTCTCCCATTTTTTTGGGATCATTTAAGATATTTTTTGCGATAAAAC
66 AAATA-CCTTTAATAATCCTCTCCCATTTTTTTGGGATCATTCAAG-CA-TTTTTG-GATAAAAC
* *
6606774 ACCTTAAATAATCCCCTTCAGGCATTTATGAGGAGATTGTTGAAGGCA----T-T---GAAAATG
127 ACCTTGAATAATCCCCTTCAGGCATTTATGAGGAGATTATTGAAGGCATTTTTCTCCAGAAAATG
* * * * * *
6606831 CCTTGAATAATCCCTAACAAAATATT-AAATGGGGTTATTAAAGGTATTTTTAGCAAAAAATACC
192 CCTTGAATAATCTCTAACAAAATATTGAAA--GGGTTATTGAAGGCATTTTTTGCCAAAAATGCC
* * * * *
6606895 TTAAATAAATATTGGATTGTTGAAGGCATTTTTAA
255 TTGAATAAATCTTGGATTATTGAAAGCATTTTTGA
** * * * * * *
6606930 CCAAAAACGGCTTTAGTAATCTCTTTTAATTTTTTGAAGGGGATTATTCGAGGTGTTTTTTTTTT
1 CCAAAAACACCTTTAATAATCCCTTCTAATTTTTAG-AGGGGATTATTCGAGGTG--TTTTCTAT
* *
6606995 AAAAAATACCTTTAATAATCC-CTTTCCATTTTTTTTTTGGGATCATTCAAGGCA----T--A-A
63 CAAAAATACCTTTAATAATCCTC-TCCCA---TTTTTTTGGGATCATTCAA-GCATTTTTGGATA
** *** * * *
6607052 AAATGCCTTGAATAATCTATTTCAAGCATTTATAAAGAGATTATTGAAGGCATTTTTGCT--AGA
123 AAACACCTTGAATAATCCCCTTCAGGCATTTATGAGGAGATTATTGAAGGCATTTTT-CTCCAGA
* * *
6607115 AAACGCCTTGAATAATCTTTAAGAAAATATT-AAATGGGGTTATTGAAGGCATTTTTTGCCAAAA
187 AAATGCCTTGAATAATCTCTAACAAAATATTGAAA--GGGTTATTGAAGGCATTTTTTGCCAAAA
* * * * *
6607179 ATGCCTTTAATAATCTCCTCCAATTTTTTAAAGGAGATTATTTAAAGTAATTTCT-A
250 ATGCCTTGAAT-A--------AA--TCTT----G-GATTATTGAAAG-CATTTTTGA
** * * * * * * *
6607235 CCAAAAATGCCTTCGAA-AATCCCTTC--CTTTTT--ATGGGATAATT-AAGGTGTTTT-TGTGA
1 CCAAAAACACCTT-TAATAATCCCTTCTAATTTTTAGAGGGGATTATTCGAGGTGTTTTCTATCA
** * * * * * *
6607293 TAAAACGCCTTGAATAA-----TCCC----TTGT-GG-TTAATCAAGGCATTTATGG-TAAAAAA
65 -AAAATACCTTTAATAATCCTCTCCCATTTTTTTGGGATCATTCAA-GCATTTTTGGATAAAACA
* * * **
6607346 GGCTTTGAATAATCCCCTTCAGGCGTTTATGAGGAGATTATTAAAGGTGTTTTT-TCCTAGAAAA
128 --CCTTGAATAATCCCCTTCAGGCATTTATGAGGAGATTATTGAAGGCATTTTTCTCC-AGAAAA
* * * * * * *
6607410 TGCCTTGAATAATCTCTATCAAAATATTGAACGAGGTTATTGAAGGCATTTCTGGTCAAAAACGT
190 TGCCTTGAATAATCTCTAACAAAATATTGAAAG-GGTTATTGAAGGCATTTTTTGCCAAAAATGC
* ** * *
6607475 CTTGAATAAATCTTGGATTATTGAAGGTGTATTTGG
254 CTTGAATAAATCTTGGATTATTGAAAGCATTTTTGA
** * * * * ** *
6607511 CCAAAAATGCCTTTAATAATCCCATCCAATTTTTTGGAAGGGGATTATTCGAAGCATTTTTTAT-
1 CCAAAAACACCTTTAATAATCCCTTCTAA-TTTTTAG-AGGGGATTATTCGAGGTGTTTTCTATC
* * * ** * *
6607575 AAAAATACCTTCAATAATCCCCTCTCATTTTTTTTAGATCATTCAATGTAGTTTTTTGATAAAAC
64 AAAAATACCTTTAATAATCCTCTCCCATTTTTTTGGGATCATTCAA-GCA-TTTTTGGATAAAAC
* **
6607640 ACCTTGAATAATCCCCTTCAAGCATTTATGAGGAGATTATTGAAGGTGTTTTTGC-CCAGAAAAT
127 ACCTTGAATAATCCCCTTCAGGCATTTATGAGGAGATTATTGAAGGCATTTTT-CTCCAGAAAAT
* * * *
6607704 GCCTTGAATAATCCCTAACAAAATATTGAATTA-GGTTATTGAAGGCATTTCTGGCAAAAAATGC
191 GCCTTGAATAATCTCTAACAAAATATTGAA--AGGGTTATTGAAGGCATTTTTTGCCAAAAATGC
* * **
6607768 CTTGAATAAATCCTGGATTATTGAAAGCGTTTTTTC
254 CTTGAATAAATCTTGGATTATTGAAAGCATTTTTGA
* *** * * *
6607804 CCAAAAACACCTTTAATAATCCC-T-TAATTTCTTGGAATTGATTATTTGAGGCGTTTTCTACCA
1 CCAAAAACACCTTTAATAATCCCTTCTAATTT-TTAGAGGGGATTATTCGAGGTGTTTTCTATCA
* * * **
6607867 AAAATACCTTTAATAATCCTTTCTCATTTTTTTTTGTGATCA-TCAAGGCATTTTTAAAATAAAA
65 AAAATACCTTTAATAATCCTCTCCCA--TTTTTTTGGGATCATTCAA-GCATTTTT-GGATAAAA
** * * * * * *
6607931 CACCTTGAATAATTTCCTTTAGGCATTTATAAGGAGATTATTGAAGGCGTTTTGGC-CAAAAAAA
126 CACCTTGAATAATCCCCTTCAGGCATTTATGAGGAGATTATTGAAGGCATTTT-TCTC--CAGAA
** * * * *
6607995 AACACCTTGAATAATCGT-TAACAAAATATTGAATGGGTTATTGAAGGTA-TTTCTGACCATAAA
188 AATGCCTTGAATAATC-TCTAACAAAATATTGAAAGGGTTATTGAAGGCATTTTTTG-CCAAAAA
** ** * * *
6608058 CACCTTTCATAATTCTTGAATTATTGAAACCATTTTTGA
251 TGCCTTGAATAAATCTTGGATTATTGAAAGCATTTTTGA
* * * * * * ** * *
6608097 CCAAAAGCGCCTTCAATAAT-CCTTTTCAAATTTTAGAGGGGCTTATTCGAGGCATTTTTTACCA
1 CCAAAAACACCTTTAATAATCCCTTCT-AATTTTTAGAGGGGATTATTCGAGGTGTTTTCTATCA
*
6608161 AAAATACCTTAAATAATC
65 AAAATACCTTTAATAATC
6608179 TGTGATTTTT
Statistics
Matches: 1207, Mismatches: 232, Indels: 188
0.74 0.14 0.12
Matches are distributed among these distances:
275 5 0.00
276 31 0.03
277 1 0.00
279 5 0.00
281 3 0.00
282 65 0.05
283 23 0.02
284 36 0.03
285 87 0.07
286 18 0.01
287 6 0.00
288 30 0.02
289 73 0.06
290 23 0.02
291 164 0.14
292 220 0.18
293 247 0.20
294 81 0.07
295 10 0.01
296 3 0.00
297 17 0.01
298 2 0.00
299 5 0.00
300 12 0.01
303 5 0.00
304 1 0.00
305 28 0.02
306 6 0.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (289 bp):
CCAAAAACACCTTTAATAATCCCTTCTAATTTTTAGAGGGGATTATTCGAGGTGTTTTCTATCAA
AAATACCTTTAATAATCCTCTCCCATTTTTTTGGGATCATTCAAGCATTTTTGGATAAAACACCT
TGAATAATCCCCTTCAGGCATTTATGAGGAGATTATTGAAGGCATTTTTCTCCAGAAAATGCCTT
GAATAATCTCTAACAAAATATTGAAAGGGTTATTGAAGGCATTTTTTGCCAAAAATGCCTTGAAT
AAATCTTGGATTATTGAAAGCATTTTTGA
Found at i:6612875 original size:24 final size:24
Alignment explanation
Indices: 6612843--6612888 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
6612833 AGAGGAAAAT
* *
6612843 ATTATGAATTAATATTTTTTTAAA
1 ATTAGGAATAAATATTTTTTTAAA
6612867 ATTAGGAATAAATATTTTTTTA
1 ATTAGGAATAAATATTTTTTTA
6612889 GCTTATACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (24 bp):
ATTAGGAATAAATATTTTTTTAAA
Found at i:6618356 original size:18 final size:18
Alignment explanation
Indices: 6618333--6618509 Score: 145
Period size: 18 Copynumber: 9.8 Consensus size: 18
6618323 AATTTTTTAC
*
6618333 AATATTAACAAATAATAT
1 AATATTAATAAATAATAT
6618351 AATATTAATAAATAATAT
1 AATATTAATAAATAATAT
*
6618369 TATATTAATAAATAATATTAT
1 AATATTAATAAAT-A-A-TAT
6618390 ACTATATTAATAAATAATAT
1 A--ATATTAATAAATAATAT
*
6618410 ATTATTAATAAATAATAT
1 AATATTAATAAATAATAT
*
6618428 ACTATTAAT--AT-A-AT
1 AATATTAATAAATAATAT
*
6618442 -ATATTAATAAATATTATT
1 AATATTAATAAATAATA-T
*
6618460 AATA--AAT-AATATTAT
1 AATATTAATAAATAATAT
6618475 AATATATTAATAAATAATAT
1 -A-ATATTAATAAATAATAT
* *
6618495 ACAAAATAATAAATA
1 A-ATATTAATAAATA
6618510 GTTTTATTTT
Statistics
Matches: 132, Mismatches: 11, Indels: 31
0.76 0.06 0.18
Matches are distributed among these distances:
13 7 0.05
14 2 0.02
15 4 0.03
16 10 0.08
17 7 0.05
18 54 0.41
19 19 0.14
20 12 0.09
21 4 0.03
22 1 0.01
23 12 0.09
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
AATATTAATAAATAATAT
Found at i:6618405 original size:59 final size:62
Alignment explanation
Indices: 6618334--6618494 Score: 197
Period size: 59 Copynumber: 2.6 Consensus size: 62
6618324 ATTTTTTACA
* *
6618334 ATATTAACAAATAATATAATATTAATAAATAATATTA-TATTAATA-AATAATATT-AT-ACT
1 ATATTAATAAATAATATAATATTAATAAATAATATTACTATTAATATAAT-ATATTAATAAAT
*
6618393 ATATTAATAAATAATATATTATTAATAAATAATA-TACTATTAATATAATATATTAATAAAT
1 ATATTAATAAATAATATAATATTAATAAATAATATTACTATTAATATAATATATTAATAAAT
6618454 ATTATTAATAAATAATATTATAATATATTAATAAATAATAT
1 A-TATTAATAAAT-A-A-TAT-A-ATATTAATAAATAATAT
6618495 ACAAAATAAT
Statistics
Matches: 87, Mismatches: 4, Indels: 13
0.84 0.04 0.12
Matches are distributed among these distances:
58 2 0.02
59 45 0.52
60 5 0.06
61 3 0.03
62 11 0.13
63 1 0.01
64 1 0.01
65 3 0.03
66 1 0.01
67 15 0.17
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (62 bp):
ATATTAATAAATAATATAATATTAATAAATAATATTACTATTAATATAATATATTAATAAAT
Found at i:6618409 original size:41 final size:42
Alignment explanation
Indices: 6618352--6618494 Score: 195
Period size: 41 Copynumber: 3.4 Consensus size: 42
6618342 AAATAATATA
*
6618352 ATATTAATAAATAATATTA-TATTAATAAATAATATTATACT
1 ATATTAATAAATAATATTATTATTAATAAATAATATTATAAT
6618393 ATATTAATAAATAATA-TATTATTAATAAATAATATACTATTAAT
1 ATATTAATAAATAATATTATTATTAATAAATAATAT--TA-TAAT
* *
6618437 ATAATATATTAATAA-A-TATTATTAATAAATAATATTATAAT
1 ATATTA-ATAAATAATATTATTATTAATAAATAATATTATAAT
6618478 ATATTAATAAATAATAT
1 ATATTAATAAATAATAT
6618495 ACAAAATAAT
Statistics
Matches: 90, Mismatches: 5, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
40 9 0.10
41 42 0.47
42 2 0.02
43 2 0.02
44 28 0.31
45 7 0.08
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (42 bp):
ATATTAATAAATAATATTATTATTAATAAATAATATTATAAT
Found at i:6618491 original size:23 final size:24
Alignment explanation
Indices: 6618422--6618495 Score: 82
Period size: 23 Copynumber: 3.1 Consensus size: 24
6618412 TATTAATAAA
6618422 TAAT-ATACTATTAATATAAT-ATA
1 TAATAATACTATTAATA-AATAATA
*
6618445 TTAATAAATATTATTAATAAATAATA
1 -TAAT-AATACTATTAATAAATAATA
*
6618471 TTATAATA-TATTAATAAATAATA
1 TAATAATACTATTAATAAATAATA
6618494 TA
1 TA
6618496 CAAAATAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
23 16 0.36
24 8 0.18
25 6 0.14
26 14 0.32
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (24 bp):
TAATAATACTATTAATAAATAATA
Found at i:6618509 original size:23 final size:23
Alignment explanation
Indices: 6618450--6618509 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
6618440 ATATATTAAT
* *
6618450 AAATATTATTAATAAATAATATTA
1 AAATA-TATAAATAAATAATATCA
* *
6618474 TAATATATTAATAAATAATATACA
1 AAATATATAAATAAATAATAT-CA
6618498 AAATA-ATAAATA
1 AAATATATAAATA
6618510 GTTTTATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
23 22 0.71
24 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATATATAAATAAATAATATCA
Found at i:6618568 original size:19 final size:19
Alignment explanation
Indices: 6618523--6618568 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
6618513 TTATTTTAAG
*
6618523 TATTTTTATATTAACATAA
1 TATTTTAATATTAACATAA
*
6618542 TATTTTAATATTAA-ATAT
1 TATTTTAATATTAACATAA
6618560 TATTATTAA
1 TATT-TTAA
6618569 AATATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TATTTTAATATTAACATAA
Found at i:6618791 original size:14 final size:14
Alignment explanation
Indices: 6618772--6618804 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
6618762 AAAATGTTAA
*
6618772 TATTTTTCAAAAAT
1 TATTTTCCAAAAAT
6618786 TATTTTCCAAAAAT
1 TATTTTCCAAAAAT
6618800 TATTT
1 TATTT
6618805 ATTGCGGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (14 bp):
TATTTTCCAAAAAT
Found at i:6621144 original size:9 final size:9
Alignment explanation
Indices: 6621127--6621161 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
6621117 TTACATTAAT
6621127 AATAATAAC
1 AATAATAAC
*
6621136 AACAATAAC
1 AATAATAAC
6621145 AATAATAAC
1 AATAATAAC
6621154 AATAATAA
1 AATAATAA
6621162 TAAACATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.69, C:0.11, G:0.00, T:0.20
Consensus pattern (9 bp):
AATAATAAC
Found at i:6621793 original size:15 final size:16
Alignment explanation
Indices: 6621768--6621832 Score: 75
Period size: 16 Copynumber: 4.2 Consensus size: 16
6621758 AAGAAATATT
6621768 AAAATATATATAATAA
1 AAAATATATATAATAA
*
6621784 AAAATA-ATATAA-AT
1 AAAATATATATAATAA
*
6621798 AAAA-AT-GATAATAA
1 AAAATATATATAATAA
6621812 ATAAATATATATAATAA
1 A-AAATATATATAATAA
6621829 AAAA
1 AAAA
6621833 GCTTGGCCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
13 5 0.12
14 7 0.17
15 9 0.22
16 11 0.28
17 8 0.20
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.28
Consensus pattern (16 bp):
AAAATATATATAATAA
Found at i:6621821 original size:28 final size:29
Alignment explanation
Indices: 6621777--6621831 Score: 87
Period size: 28 Copynumber: 1.9 Consensus size: 29
6621767 TAAAATATAT
6621777 ATAATAAAAAATAATATA-AATAAAAATG
1 ATAATAAAAAATAATATATAATAAAAATG
6621805 ATAATAAATAAAT-ATATATAATAAAAA
1 ATAATAAA-AAATAATATATAATAAAAA
6621832 AGCTTGGCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (29 bp):
ATAATAAAAAATAATATATAATAAAAATG
Found at i:6623415 original size:3 final size:3
Alignment explanation
Indices: 6623407--6623447 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
6623397 AACTCAAAAT
6623407 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6623448 TTCACCTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6623503 original size:16 final size:15
Alignment explanation
Indices: 6623472--6623506 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6623462 AAAGAATTAT
*
6623472 TAAATAATAAAATAA
1 TAAAGAATAAAATAA
6623487 TAAAGAATAAGAATAA
1 TAAAGAATAA-AATAA
6623503 TAAA
1 TAAA
6623507 ATTTTAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (15 bp):
TAAAGAATAAAATAA
Found at i:6623505 original size:24 final size:24
Alignment explanation
Indices: 6623473--6623546 Score: 78
Period size: 27 Copynumber: 2.9 Consensus size: 24
6623463 AAGAATTATT
6623473 AAATAATAAAATAATAAAGAAT-AA
1 AAATAATAAAATAATAAA-AATAAA
*
6623497 GAATAATAAAATTTTAATAAAAATAAA
1 AAATAATAAAA---TAATAAAAATAAA
6623524 AAATATATAAAATATATAAAAAT
1 AAATA-ATAAAATA-ATAAAAAT
6623547 TCATTATTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
24 10 0.24
25 2 0.05
26 11 0.26
27 13 0.31
28 6 0.14
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (24 bp):
AAATAATAAAATAATAAAAATAAA
Found at i:6628775 original size:31 final size:32
Alignment explanation
Indices: 6628724--6628784 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
6628714 CCCATATTAG
* **
6628724 TTGGCATCAATGAAGTTTTAAACC-AGTTTCA
1 TTGGCATCAATCAAAATTTAAACCTAGTTTCA
*
6628755 TTGGCATCAATCAAAATTTAAGCCTAGTTT
1 TTGGCATCAATCAAAATTTAAACCTAGTTT
6628785 AGTTGGTATG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 20 0.80
32 5 0.20
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (32 bp):
TTGGCATCAATCAAAATTTAAACCTAGTTTCA
Found at i:6628874 original size:32 final size:32
Alignment explanation
Indices: 6628806--6628874 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 32
6628796 AAGCCAATAT
* * * *
6628806 TAGCTAGCACCAATGAAGTTGTAAGGTTAGTT
1 TAGCTAGCACCAATGAAATTGTAAGCTCAGTC
*
6628838 TAGCTAGCATCAATCGAAATT-TAAGCTCAGTC
1 TAGCTAGCACCAAT-GAAATTGTAAGCTCAGTC
6628870 TAGCT
1 TAGCT
6628875 GACATATAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 26 0.84
33 5 0.16
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.30
Consensus pattern (32 bp):
TAGCTAGCACCAATGAAATTGTAAGCTCAGTC
Found at i:6629221 original size:32 final size:32
Alignment explanation
Indices: 6629173--6629457 Score: 180
Period size: 32 Copynumber: 8.7 Consensus size: 32
6629163 ACTTGGTACT
6629173 CAATGAAAGTTTAAGCCTAGATTATCTGGCACC
1 CAATGAAA-TTTAAGCCTAGATTATCTGGCACC
* * *
6629206 CAATGAAATTTAAGCCCA-ATTTAACTGGCACT
1 CAATGAAATTTAAGCCTAGA-TTATCTGGCACC
* * * * * *
6629238 CGATGAAAAAATTTAAACCCAGATTACCTAGCACT
1 CAATG---AAATTTAAGCCTAGATTATCTGGCACC
* *
6629273 CAATGAAATTTTAAGTCTAAATTATCTGGCACC
1 CAATGAAA-TTTAAGCCTAGATTATCTGGCACC
* *** * **
6629306 AAATGAAATTTAAAATTGGATTATCTGGCTTC
1 CAATGAAATTTAAGCCTAGATTATCTGGCACC
* * * * *
6629338 TAATGAAATTTAAGCCTAGTTTAGCTAGCACT
1 CAATGAAATTTAAGCCTAGATTATCTGGCACC
* * * *
6629370 CAATGAAAAATTTAAAGCC-ATATTACCTCGCACT
1 CAATG--AAATTT-AAGCCTAGATTATCTGGCACC
* * * *
6629404 CAATGAAATTTTAGGCCTAAATTATCTAGCGCC
1 CAATGAAA-TTTAAGCCTAGATTATCTGGCACC
6629437 CAATGAAATTTAAGCCT-GATT
1 CAATGAAATTTAAGCCTAGATT
6629458 TAGTTAGCTC
Statistics
Matches: 194, Mismatches: 47, Indels: 24
0.73 0.18 0.09
Matches are distributed among these distances:
31 4 0.02
32 83 0.43
33 53 0.27
34 22 0.11
35 31 0.16
36 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (32 bp):
CAATGAAATTTAAGCCTAGATTATCTGGCACC
Done.