Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, 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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 25 of 77
Found at i:4888022 original size:11 final size:10
Alignment explanation
Indices: 4887794--4888041 Score: 96
Period size: 10 Copynumber: 24.5 Consensus size: 10
4887784 GAAAATTTCA
*
4887794 AAAAAATTAT
1 AAAAAATTTT
4887804 AAAAAATTTTT
1 AAAAAA-TTTT
*
4887815 AAAAAATTCT
1 AAAAAATTTT
*
4887825 AAAAAATGTT
1 AAAAAATTTT
*
4887835 -GAAAATTTAT
1 AAAAAATTT-T
* *
4887845 AAAAAAAATTC
1 -AAAAAATTTT
*
4887856 AAAAAAATTT
1 AAAAAATTTT
* * **
4887866 ACAAAGTTCA
1 AAAAAATTTT
*
4887876 AAAAAATTAT
1 AAAAAATTTT
4887886 AAAAAA-TTT
1 AAAAAATTTT
4887895 AAAAAATTTT
1 AAAAAATTTT
***
4887905 AAGAAATACTAAA
1 AA-AAA-A-TTTT
4887918 AAAAAATTTT
1 AAAAAATTTT
4887928 ----AATTTCT
1 AAAAAATTT-T
4887935 AAAATAATTTT
1 AAAA-AATTTT
* **
4887946 TAAAAATTCC
1 AAAAAATTTT
* **
4887956 AAAATATTCC
1 AAAAAATTTT
4887966 AAAAAATTTT
1 AAAAAATTTT
4887976 AAAAAATTTT
1 AAAAAATTTT
* **
4887986 TAAAAATTAC
1 AAAAAATTTT
**
4887996 AAAAAAAGTT
1 AAAAAATTTT
4888006 ACAAAAATCTTT
1 A-AAAAAT-TTT
*
4888018 -AAAAATTCT
1 AAAAAATTTT
**
4888027 AAAATTTTTT
1 AAAAAATTTT
4888037 AAAAA
1 AAAAA
4888042 TTCTAACAAC
Statistics
Matches: 172, Mismatches: 49, Indels: 34
0.67 0.19 0.13
Matches are distributed among these distances:
6 5 0.03
7 1 0.01
9 16 0.09
10 108 0.63
11 22 0.13
12 17 0.10
13 3 0.02
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:4888055 original size:19 final size:19
Alignment explanation
Indices: 4888009--4888047 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
4887999 AAAAGTTACA
4888009 AAAATC-TTTAAAAATTCT
1 AAAATCTTTTAAAAATTCT
*
4888027 AAAATTTTTTAAAAATTCT
1 AAAATCTTTTAAAAATTCT
4888046 AA
1 AA
4888048 CAACTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATCTTTTAAAAATTCT
Found at i:4888057 original size:21 final size:19
Alignment explanation
Indices: 4888015--4888058 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 19
4888005 TACAAAAATC
4888015 TTTAAAAATTCTAAAATTT
1 TTTAAAAATTCTAAAATTT
4888034 TTTAAAAATTCTAACAACTTT
1 TTTAAAAATTCTAA-AA-TTT
4888055 TTTA
1 TTTA
4888059 TTTTTTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 14 0.61
20 2 0.09
21 7 0.30
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTAAAAATTCTAAAATTT
Found at i:4888096 original size:20 final size:20
Alignment explanation
Indices: 4888071--4888215 Score: 100
Period size: 20 Copynumber: 7.2 Consensus size: 20
4888061 TTTTATATTA
4888071 AAAATTTTTTATATATTTTT
1 AAAATTTTTTATATATTTTT
* * *
4888091 AAAATTTTATAAATTTTTTT
1 AAAATTTTTTATATATTTTT
* *
4888111 AGAAA-TTTTTAGATATTTTA
1 A-AAATTTTTTATATATTTTT
* * *
4888131 AAAAATTTTTAGAATAGTTTT
1 AAAATTTTTTA-TATATTTTT
* * *
4888152 GAAATTTATTT-TATGTTTAT
1 AAAATTT-TTTATATATTTTT
*
4888172 AAAATTTTTTAGA-ATTTTT
1 AAAATTTTTTATATATTTTT
*
4888191 AAAAGTTTTTT-TAGATTTTTT
1 AAAA-TTTTTTATATA-TTTTT
4888212 AAAA
1 AAAA
4888216 GCATTTTAAA
Statistics
Matches: 96, Mismatches: 21, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
19 15 0.16
20 55 0.57
21 23 0.24
22 3 0.03
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (20 bp):
AAAATTTTTTATATATTTTT
Found at i:4888117 original size:41 final size:42
Alignment explanation
Indices: 4888072--4888246 Score: 129
Period size: 41 Copynumber: 4.3 Consensus size: 42
4888062 TTTATATTAA
4888072 AAATTTTTTATATATTTTTAAAATTTTATA-AATTTTTTTAG
1 AAATTTTTTATATATTTTTAAAATTTTATAGAATTTTTTTAG
* * **
4888113 AAA-TTTTTAGATATTTTAAAAAATTTT-TAGAATAGTTTT-G
1 AAATTTTTTATATATTTT-TAAAATTTTATAGAATTTTTTTAG
* * *
4888153 AAATTTATTT-TATGTTTATAAAATTTTTTAGAA--TTTTTA-
1 AAATTT-TTTATATATTTTTAAAATTTTATAGAATTTTTTTAG
* *
4888192 AAAGTTTTTT-TAGATTTTTTAAAAGCATTTTA-A-AATTTTTTTAA
1 AAA-TTTTTTATATA-TTTTT-AAA--ATTTTATAGAATTTTTTTAG
4888236 AAATTTTTTAT
1 AAATTTTTTAT
4888247 GTTGACGTGA
Statistics
Matches: 106, Mismatches: 13, Indels: 27
0.73 0.09 0.18
Matches are distributed among these distances:
39 12 0.11
40 34 0.32
41 35 0.33
42 4 0.04
43 17 0.16
44 4 0.04
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.57
Consensus pattern (42 bp):
AAATTTTTTATATATTTTTAAAATTTTATAGAATTTTTTTAG
Found at i:4888215 original size:40 final size:40
Alignment explanation
Indices: 4888068--4888215 Score: 119
Period size: 40 Copynumber: 3.7 Consensus size: 40
4888058 ATTTTTTATA
* * *
4888068 TTAAAAATTTTTTATATATTTTTAAAATTTTATA-AATTTTT
1 TTAAAATTTTTTTAGATATTTTTAAAATTTTTTAGAA--TTT
* *
4888109 TTAGAAA--TTTTTAGATATTTTAAAAAATTTTTAGAATAGTT
1 TTA-AAATTTTTTTAGATATTTTTAAAATTTTTTAGAAT--TT
* * *
4888150 TTGAAATTTATTTT--ATGTTTATAAAATTTTTTAGAATTT
1 TTAAAATTT-TTTTAGATATTTTTAAAATTTTTTAGAATTT
4888189 TTAAAAGTTTTTTTAGAT-TTTTTAAAA
1 TTAAAA-TTTTTTTAGATATTTTTAAAA
4888216 GCATTTTAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
39 12 0.14
40 36 0.42
41 30 0.35
42 4 0.05
43 4 0.05
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (40 bp):
TTAAAATTTTTTTAGATATTTTTAAAATTTTTTAGAATTT
Found at i:4888233 original size:11 final size:11
Alignment explanation
Indices: 4888186--4888245 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
4888176 TTTTTTAGAA
4888186 TTTTTAAAAGTT
1 TTTTTAAAA-TT
*
4888198 TTTTT-AGA-T
1 TTTTTAAAATT
**
4888207 TTTTTAAAAGC
1 TTTTTAAAATT
*
4888218 ATTTTAAAATT
1 TTTTTAAAATT
*
4888229 TTTTTAAAAAT
1 TTTTTAAAATT
4888240 TTTTTA
1 TTTTTA
4888246 TGTTGACGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
9 6 0.16
10 2 0.05
11 25 0.66
12 5 0.13
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (11 bp):
TTTTTAAAATT
Found at i:4888243 original size:21 final size:21
Alignment explanation
Indices: 4888068--4888243 Score: 75
Period size: 21 Copynumber: 8.6 Consensus size: 21
4888058 ATTTTTTATA
* *
4888068 TTAAAAATTTTTTATATATTT
1 TTAAAAATTTTTAAAATATTT
*
4888089 TT-AAAA-TTTTATAAATTTTT
1 TTAAAAATTTTTA-AAATATTT
* *
4888109 TTAGAAATTTTT-AGATATTT
1 TTAAAAATTTTTAAAATATTT
* * *
4888129 TAAAAAATTTTTAGAATAGTT
1 TTAAAAATTTTTAAAATATTT
* * *
4888150 TT-GAAATTTATT---TTATGT
1 TTAAAAATTT-TTAAAATATTT
* *
4888168 TTATAAAATTTTTTAGA-ATTT
1 TTA-AAAATTTTTAAAATATTT
* * *
4888189 TTAAAAGTTTTTTTAGAT-TTT
1 TTAAAA-ATTTTTAAAATATTT
*
4888210 TTAAAAGCA-TTTTAAAATTTTT
1 TTAAAA--ATTTTTAAAATATTT
4888232 TTAAAAATTTTT
1 TTAAAAATTTTT
4888244 TATGTTGACG
Statistics
Matches: 116, Mismatches: 24, Indels: 30
0.68 0.14 0.18
Matches are distributed among these distances:
18 5 0.04
19 6 0.05
20 44 0.38
21 48 0.41
22 13 0.11
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.56
Consensus pattern (21 bp):
TTAAAAATTTTTAAAATATTT
Found at i:4892057 original size:24 final size:23
Alignment explanation
Indices: 4892023--4892076 Score: 99
Period size: 24 Copynumber: 2.3 Consensus size: 23
4892013 TTTAAAATTT
4892023 TTAAAATTTTATTACTTTCTATA
1 TTAAAATTTTATTACTTTCTATA
4892046 TTAAACATTTTATTACTTTCTATA
1 TTAAA-ATTTTATTACTTTCTATA
4892070 TTAAAAT
1 TTAAAAT
4892077 AATAATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 7 0.23
24 23 0.77
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (23 bp):
TTAAAATTTTATTACTTTCTATA
Found at i:4893992 original size:3 final size:3
Alignment explanation
Indices: 4893984--4894030 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
4893974 CAAGGAAATC
*
4893984 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
4894031 CAAATAGTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4896043 original size:30 final size:30
Alignment explanation
Indices: 4895996--4896080 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 30
4895986 TATTATAATT
* * *
4895996 AATTGAACTTTCAAATATTTATTTTTATTC-
1 AATTAAACTTTTAAATATTTATTTTT-GTCA
* *
4896026 AATT-AAGTTCTTAAATATTTATTCTTGTCA
1 AATTAAACTT-TTAAATATTTATTTTTGTCA
4896056 AATTAAACTTTTAAATATTTATTTT
1 AATTAAACTTTTAAATATTTATTTT
4896081 CACTTTAATT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
29 6 0.13
30 36 0.78
31 4 0.09
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.53
Consensus pattern (30 bp):
AATTAAACTTTTAAATATTTATTTTTGTCA
Found at i:4897670 original size:19 final size:18
Alignment explanation
Indices: 4897645--4897686 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
4897635 CTCATAAGAA
*
4897645 AAAAAAAAGAGAAATGAAT
1 AAAAAAATGA-AAATGAAT
4897664 GAAAAAAATGAAAATGAAT
1 -AAAAAAATGAAAATGAAT
4897683 AAAA
1 AAAA
4897687 TGAAAAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 8 0.38
20 9 0.43
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (18 bp):
AAAAAAATGAAAATGAAT
Found at i:4897673 original size:9 final size:9
Alignment explanation
Indices: 4897661--4897715 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
4897651 AAGAGAAATG
4897661 AATGAAAAA
1 AATGAAAAA
4897670 AATG---AA
1 AATGAAAAA
*
4897676 AATGAATAA
1 AATGAAAAA
4897685 AATG-AAAA
1 AATGAAAAA
4897693 AATG--AAA
1 AATGAAAAA
4897700 AATGAAAAAA
1 AATG-AAAAA
4897710 AATGAA
1 AATGAA
4897716 TGAATGAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
6 6 0.15
7 7 0.18
8 7 0.18
9 12 0.31
10 7 0.18
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.15
Consensus pattern (9 bp):
AATGAAAAA
Found at i:4897688 original size:24 final size:26
Alignment explanation
Indices: 4897661--4897715 Score: 80
Period size: 24 Copynumber: 2.2 Consensus size: 26
4897651 AAGAGAAATG
*
4897661 AATGAAAAAAATG-AAAATG-AATAA
1 AATGAAAAAAATGAAAAATGAAAAAA
4897685 AATG-AAAAAATGAAAAATGAAAAAA
1 AATGAAAAAAATGAAAAATGAAAAAA
4897710 AATGAA
1 AATGAA
4897716 TGAATGAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 8 0.30
24 10 0.37
25 8 0.30
26 1 0.04
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.15
Consensus pattern (26 bp):
AATGAAAAAAATGAAAAATGAAAAAA
Found at i:4897693 original size:7 final size:7
Alignment explanation
Indices: 4897667--4897708 Score: 50
Period size: 7 Copynumber: 5.7 Consensus size: 7
4897657 AATGAATGAA
4897667 AAAAATG
1 AAAAATG
4897674 -AAAATG
1 AAAAATG
4897680 AATAAAATG
1 -A-AAAATG
4897689 AAAAAATG
1 -AAAAATG
4897697 AAAAATG
1 AAAAATG
4897704 AAAAA
1 AAAAA
4897709 AAATGAATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 6 0.19
7 12 0.38
8 6 0.19
9 8 0.25
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:4897709 original size:15 final size:15
Alignment explanation
Indices: 4897661--4897708 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
4897651 AAGAGAAATG
4897661 AATGAAAAAAATG-AA
1 AATG-AAAAAATGAAA
4897676 AATGAATAAAATGAAAA
1 AATGAA-AAAATG-AAA
4897693 AATG-AAAAATGAAA
1 AATGAAAAAATGAAA
4897707 AA
1 AA
4897709 AAATGAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 7 0.23
15 16 0.53
16 1 0.03
17 6 0.20
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (15 bp):
AATGAAAAAATGAAA
Found at i:4898410 original size:47 final size:45
Alignment explanation
Indices: 4898349--4898554 Score: 179
Period size: 48 Copynumber: 4.4 Consensus size: 45
4898339 ATGTGAAAAG
* * *
4898349 GAGCCTTTTCCAAAAAAGTTTATAAAGCTTCTTACTTATGTTAATA
1 GAGCCTTTTTCAAAAAAGTTTTTAAAG-TTCTTACCTATGTTAATA
* *
4898395 TGAGCCTTTTTC-AAAATGATTTTTAAAGTTCTCTTCCTATGTTAATA
1 -GAGCCTTTTTCAAAAAAG-TTTTTAAAGTTCT-TACCTATGTTAATA
*
4898442 GGAGTCCTTTTTCAAAGAAA-TTTTTAAAGTTCCTTACCTATTTTAATA
1 -GAG-CCTTTTTCAAA-AAAGTTTTTAAAGTT-CTTACCTATGTTAATA
*
4898490 GAAGCC-TTTTCAAAATATA-TTTTTTAAGTTCCTTAGCCTATGTTAATA
1 G-AGCCTTTTTCAAAA-A-AGTTTTTAAAGTT-CTTA-CCTATGTTAATA
*
4898538 GGAACC-TTTTCAAAAAA
1 -GAGCCTTTTTCAAAAAA
4898555 AAAAAAAAAA
Statistics
Matches: 136, Mismatches: 12, Indels: 23
0.80 0.07 0.13
Matches are distributed among these distances:
45 1 0.01
46 19 0.14
47 53 0.39
48 56 0.41
49 5 0.04
50 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.42
Consensus pattern (45 bp):
GAGCCTTTTTCAAAAAAGTTTTTAAAGTTCTTACCTATGTTAATA
Found at i:4898465 original size:48 final size:46
Alignment explanation
Indices: 4898320--4898552 Score: 215
Period size: 47 Copynumber: 4.9 Consensus size: 46
4898310 AGATCATTTG
* * * * *
4898320 TTTTAAAAGTTCCCTGCCTATGTGAAAAGGAGCCTTTTCCAAAA-AA
1 TTTTTAAAGTT-CCTTCCTATGTTAATAGGAGCCTTTTTCAAAATAA
* * * *
4898366 GTTTATAAAGCTT-CTTACTTATGTTAATATGAGCCTTTTTCAAAATGA
1 -TTTTTAAAG-TTCCTT-CCTATGTTAATAGGAGCCTTTTTCAAAATAA
4898414 TTTTTAAAGTTCTCTTCCTATGTTAATAGGAGTCCTTTTTCAAAGA-AA
1 TTTTTAAAGTTC-CTTCCTATGTTAATAGGAG-CCTTTTTCAAA-ATAA
* *
4898462 TTTTTAAAGTTCCTTACCTATTTTAATAGAAGCC-TTTTCAAAATATA
1 TTTTTAAAGTTCCTT-CCTATGTTAATAGGAGCCTTTTTCAAAATA-A
* *
4898509 TTTTTTAAGTTCCTTAGCCTATGTTAATAGGAACC-TTTTCAAAA
1 TTTTTAAAGTTCCTT--CCTATGTTAATAGGAGCCTTTTTCAAAA
4898553 AAAAAAAAAA
Statistics
Matches: 155, Mismatches: 20, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
45 1 0.01
46 13 0.08
47 72 0.46
48 68 0.44
49 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (46 bp):
TTTTTAAAGTTCCTTCCTATGTTAATAGGAGCCTTTTTCAAAATAA
Found at i:4898478 original size:95 final size:93
Alignment explanation
Indices: 4898320--4898555 Score: 255
Period size: 95 Copynumber: 2.5 Consensus size: 93
4898310 AGATCATTTG
* * * * *
4898320 TTTTAAAAGTTCCCTGCCTATGTGAAAAGGAGCCTTTTCCAAAAAAGTTTATAAAGCTTCTTACT
1 TTTTTAAAGTT-CCTTCCTATGTTAATAGGAGCCTTTTCCAAAAAAGTTTATAAAGCTTCTTACC
4898385 TATGTTAATATG-AGCCTTTTTCAAAAT-GA
65 TATGTTAATA-GAAGCC-TTTTCAAAATAGA
* *
4898414 TTTTTAAAGTTCTCTTCCTATGTTAATAGGAGTCCTTTTTCAAAGAAA-TTTTTAAAG-TTCCTT
1 TTTTTAAAGTTC-CTTCCTATGTTAATAGGAG-CCTTTTCCAAA-AAAGTTTATAAAGCTT-CTT
* *
4898477 ACCTATTTTAATAGAAGCCTTTTCAAAATATA
62 ACCTATGTTAATAGAAGCCTTTTCAAAATAGA
* * *
4898509 TTTTTTAAGTTCCTTAGCCTATGTTAATAGGAACCTTTTCAAAAAAA
1 TTTTTAAAGTTCCTT--CCTATGTTAATAGGAGCCTTTTCCAAAAAA
4898556 AAAAAAAAAA
Statistics
Matches: 121, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
93 1 0.01
94 45 0.37
95 57 0.47
96 18 0.15
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (93 bp):
TTTTTAAAGTTCCTTCCTATGTTAATAGGAGCCTTTTCCAAAAAAGTTTATAAAGCTTCTTACCT
ATGTTAATAGAAGCCTTTTCAAAATAGA
Found at i:4898835 original size:19 final size:20
Alignment explanation
Indices: 4898799--4898837 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
4898789 TAACCCATCC
*
4898799 CAAAGTCAAATCTGGTCAAA
1 CAAAGTCAAATCTAGTCAAA
*
4898819 CAAAG-CAAATTTAGTCAAA
1 CAAAGTCAAATCTAGTCAAA
4898838 ATCAATCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.49, C:0.18, G:0.13, T:0.21
Consensus pattern (20 bp):
CAAAGTCAAATCTAGTCAAA
Found at i:4900927 original size:6 final size:6
Alignment explanation
Indices: 4900884--4900936 Score: 54
Period size: 7 Copynumber: 8.3 Consensus size: 6
4900874 CGTATGAAAC
*
4900884 CCTAAA CCTTAAA CCTTAAA CCTAAC CCT-AA CTCTAAA CCTAAA CCTTAAA
1 CCTAAA CC-TAAA CC-TAAA CCTAAA CCTAAA C-CTAAA CCTAAA CC-TAAA
4900935 CC
1 CC
4900937 ATACGTCTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
5 2 0.05
6 17 0.41
7 22 0.54
ACGTcount: A:0.42, C:0.36, G:0.00, T:0.23
Consensus pattern (6 bp):
CCTAAA
Found at i:4900990 original size:12 final size:12
Alignment explanation
Indices: 4900973--4900997 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4900963 TTAAATCCTA
4900973 AACCCTAAACTC
1 AACCCTAAACTC
4900985 AACCCTAAACTC
1 AACCCTAAACTC
4900997 A
1 A
4900998 TAATTGAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.16
Consensus pattern (12 bp):
AACCCTAAACTC
Found at i:4900993 original size:19 final size:19
Alignment explanation
Indices: 4900969--4901033 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
4900959 AACTTTAAAT
4900969 CCTAAACCCTAAACTCAAC
1 CCTAAACCCTAAACTCAAC
* * *
4900988 CCTAAACTC-ATAATTGAAC
1 CCTAAACCCTA-AACTCAAC
* *
4901007 CTTAAACCCT-AACTTAGAC
1 CCTAAACCCTAAACTCA-AC
4901026 CCTAAACC
1 CCTAAACC
4901034 AACCCAAATC
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
18 5 0.14
19 30 0.86
ACGTcount: A:0.40, C:0.35, G:0.03, T:0.22
Consensus pattern (19 bp):
CCTAAACCCTAAACTCAAC
Found at i:4901106 original size:25 final size:26
Alignment explanation
Indices: 4901078--4901126 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
4901068 CCTAGACCCT
*
4901078 AAACTTACCC-CAAACCCTAAAACTC
1 AAACTAACCCTCAAACCCTAAAACTC
* *
4901103 AAACTAACCCTTAAACCTTAAAAC
1 AAACTAACCCTCAAACCCTAAAAC
4901127 CACTCTTGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 9 0.45
26 11 0.55
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.18
Consensus pattern (26 bp):
AAACTAACCCTCAAACCCTAAAACTC
Found at i:4903971 original size:2 final size:2
Alignment explanation
Indices: 4903939--4903963 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4903929 ATTAATTTTC
4903939 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
4903964 CAATATATTG
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:4906134 original size:24 final size:24
Alignment explanation
Indices: 4906089--4906167 Score: 70
Period size: 24 Copynumber: 3.1 Consensus size: 24
4906079 TAATATTTTT
4906089 AAAAAATGATTTTTGTAGAAAATATGA
1 AAAAAATGATTTTT-T--AAAATATGA
* *
4906116 AAAAAATTATTTTTTAAAATTTGA
1 AAAAAATGATTTTTTAAAATATGA
* *
4906140 TAAAGATGATGTTTTTAAAA-ATAGA
1 AAAAAATGAT-TTTTTAAAATAT-GA
4906165 AAA
1 AAA
4906168 TCCAGTCTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
24 16 0.37
25 13 0.30
26 1 0.02
27 13 0.30
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (24 bp):
AAAAAATGATTTTTTAAAATATGA
Found at i:4906183 original size:75 final size:74
Alignment explanation
Indices: 4906100--4906295 Score: 221
Period size: 75 Copynumber: 2.6 Consensus size: 74
4906090 AAAAATGATT
** ** *** *
4906100 TTTGTAGAAAATATGAAAAAAATTATTTTTTAAAATTTGATAAAGATGATGTTTTTAAAAATAGA
1 TTTGTAGAAAATATGAAAAAAATTATTTTTTAAAATTCAATAAA-AACAACATTTTAAAAATAAA
*
4906165 AAATCCAGTC
65 AAATCCAGTA
* *
4906175 TTTGTAGAAAATATGAAAAAAAATTATTTTTCAAAATTCAATAAAAACAACATTTTCAAAATAAA
1 TTTGTAGAAAATATG-AAAAAAATTATTTTTTAAAATTCAATAAAAACAACATTTTAAAAATAAA
**
4906240 AAATGTAGTA
65 AAATCCAGTA
* * * *
4906250 TTTGTTGAATATATGAAAAAAATTATTTTTTAGAATTCAACAAAAA
1 TTTGTAGAAAATATGAAAAAAATTATTTTTTAAAATTCAATAAAAA
4906296 TAATGTTTTT
Statistics
Matches: 102, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
74 28 0.27
75 48 0.47
76 26 0.25
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (74 bp):
TTTGTAGAAAATATGAAAAAAATTATTTTTTAAAATTCAATAAAAACAACATTTTAAAAATAAAA
AATCCAGTA
Found at i:4906619 original size:18 final size:16
Alignment explanation
Indices: 4906580--4906614 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
4906570 GTTATTCTCG
*
4906580 TATCACGTGTTATGAA
1 TATCATGTGTTATGAA
4906596 TATCATGTGTTATGAA
1 TATCATGTGTTATGAA
4906612 TAT
1 TAT
4906615 ATCATCAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (16 bp):
TATCATGTGTTATGAA
Found at i:4912861 original size:25 final size:25
Alignment explanation
Indices: 4912833--4912882 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
4912823 CAATAATGTG
* *
4912833 CTCAGACACACTC-TTCAGCAAACCA
1 CTCAGAAACAC-CATTCAACAAACCA
4912858 CTCAGAAACACCATTCAACAAACCA
1 CTCAGAAACACCATTCAACAAACCA
4912883 TTTAGCATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.42, C:0.38, G:0.06, T:0.14
Consensus pattern (25 bp):
CTCAGAAACACCATTCAACAAACCA
Found at i:4913018 original size:80 final size:79
Alignment explanation
Indices: 4912871--4913118 Score: 291
Period size: 80 Copynumber: 3.1 Consensus size: 79
4912861 AGAAACACCA
* * * *
4912871 TTCAACAAACCATTTAGCATATGATTCAACCTTCTAATATCATACAAAACCATTCAACAAAATAA
1 TTCAACAAACCATTCAGCATATGATTCAGCCTTC-AATATCATACAATACCATTCAACAAAACAA
*
4912936 TATCGGACAACAAGG
65 TATCAGACAACAAGG
* * * * *
4912951 TTCAGCAAACCATTCGGCATATGATTCAGCCCTTCAATATCATACAATATCATTCGACAATACAA
1 TTCAACAAACCATTCAGCATATGATTCAG-CCTTCAATATCATACAATACCATTCAACAAAACAA
*
4913016 TATCATACAACAAGG
65 TATCAGACAACAAGG
* * * *
4913031 TTTAACAAACTATTCAGCATATGATTTAGCCTTCCAATATCATACAATACCATTCAGCAAAA-AA
1 TTCAACAAACCATTCAGCATATGATTCAGCCTT-CAATATCATACAATACCATTCAACAAAACAA
* * *
4913095 AATCAAACAACAAGA
65 TATCAGACAACAAGG
*
4913110 TTCAGCAAA
1 TTCAACAAA
4913119 TCACAATATT
Statistics
Matches: 141, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
79 25 0.18
80 111 0.79
81 5 0.04
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.25
Consensus pattern (79 bp):
TTCAACAAACCATTCAGCATATGATTCAGCCTTCAATATCATACAATACCATTCAACAAAACAAT
ATCAGACAACAAGG
Found at i:4913028 original size:18 final size:18
Alignment explanation
Indices: 4912992--4913028 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4912982 CTTCAATATC
* *
4912992 ATACAATATCATTCGACA
1 ATACAATATCATACAACA
4913010 ATACAATATCATACAACA
1 ATACAATATCATACAACA
4913028 A
1 A
4913029 GGTTTAACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.22, G:0.03, T:0.24
Consensus pattern (18 bp):
ATACAATATCATACAACA
Found at i:4915984 original size:21 final size:21
Alignment explanation
Indices: 4915941--4915984 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
4915931 AAGAGAATAG
*
4915941 GAACGTGCCAAAATTGAGAAA
1 GAACGTGCCAAAATGGAGAAA
* * *
4915962 GAACGTGCTAGAATGGAGCAA
1 GAACGTGCCAAAATGGAGAAA
4915983 GA
1 GA
4915985 GCATACAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.43, C:0.14, G:0.30, T:0.14
Consensus pattern (21 bp):
GAACGTGCCAAAATGGAGAAA
Found at i:4916820 original size:134 final size:134
Alignment explanation
Indices: 4916569--4916890 Score: 403
Period size: 134 Copynumber: 2.4 Consensus size: 134
4916559 GCATTTTTTA
* ** **
4916569 TACAAATGCCACTAAAGCAACGACATTTTTCTCATAAAAATGTTACTAAATTAGCAACGTCTTTA
1 TACAAATGCCACTAAAGCAACGATATTTTTCTCATAAAAATGCAACTAAATTAGCAACGTCTCAA
* * ** * * *
4916634 AGATACAAATGTTGCTAATATGAAGGCATTTTCAAATATGAACGCCTCTAAAGTAGTGACATTTT
66 AGATACAAACGTCGCTAATATGAAGGCATTTTCAAATACAAACACATCTAAAGTAGCGACATTTT
4916699 CAGT
131 CAGT
* * * *
4916703 TACAAATGCCACCAAAGCAACGATGTTTTTCTCATAAAAATGCCACTAAATTAGCAGCGTCTCAA
1 TACAAATGCCACTAAAGCAACGATATTTTTCTCATAAAAATGCAACTAAATTAGCAACGTCTCAA
* * * *
4916768 AGATACAAACGTCGTTAATAT-AGAGGCATTTTCAGATACAAATACATTTAAAGTAGCGACATTT
66 AGATACAAACGTCGCTAATATGA-AGGCATTTTCAAATACAAACACATCTAAAGTAGCGACATTT
4916832 TCAGT
130 TCAGT
* * * * *
4916837 TACAAACGTCATTAAAGCAACGATATTTTTTTCATAAAAATGCAACTAATTTAG
1 TACAAATGCCACTAAAGCAACGATATTTTTCTCATAAAAATGCAACTAAATTAG
4916891 TGGCATTTCA
Statistics
Matches: 160, Mismatches: 27, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
133 1 0.01
134 159 0.99
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (134 bp):
TACAAATGCCACTAAAGCAACGATATTTTTCTCATAAAAATGCAACTAAATTAGCAACGTCTCAA
AGATACAAACGTCGCTAATATGAAGGCATTTTCAAATACAAACACATCTAAAGTAGCGACATTTT
CAGT
Found at i:4916852 original size:33 final size:33
Alignment explanation
Indices: 4916768--4916853 Score: 88
Period size: 33 Copynumber: 2.6 Consensus size: 33
4916758 AGCGTCTCAA
* *
4916768 AGATACAAACGTCGTTAATA-TAGAGGCATTTTC
1 AGATACAAACGTCATTAA-AGTAGAGACATTTTC
*
4916801 AGATACAAA--TACATTTAAAGTAGCGACATTTTC
1 AGATACAAACGT-CA-TTAAAGTAGAGACATTTTC
*
4916834 AGTTACAAACGTCATTAAAG
1 AGATACAAACGTCATTAAAG
4916854 CAACGATATT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
31 1 0.02
32 2 0.05
33 38 0.86
34 2 0.05
35 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (33 bp):
AGATACAAACGTCATTAAAGTAGAGACATTTTC
Found at i:4924284 original size:37 final size:37
Alignment explanation
Indices: 4924179--4924289 Score: 143
Period size: 37 Copynumber: 3.0 Consensus size: 37
4924169 TGAAATTGAC
* * *
4924179 ACTATC-ATTAAGATATGCATGAAATGGAATATATGT
1 ACTATCTATTAAGATGTGCATGAGATGGAATGTATGT
* *
4924215 ATTATCTATTAAGATGTGCATAAGATGGAATGTATGT
1 ACTATCTATTAAGATGTGCATGAGATGGAATGTATGT
* **
4924252 ACTATCTATTAAAATGTGCATGAGATAAAATGTATGT
1 ACTATCTATTAAGATGTGCATGAGATGGAATGTATGT
4924289 A
1 A
4924290 TTTTTTTATT
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
36 5 0.08
37 59 0.92
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (37 bp):
ACTATCTATTAAGATGTGCATGAGATGGAATGTATGT
Found at i:4926474 original size:27 final size:27
Alignment explanation
Indices: 4926444--4926531 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
4926434 GTTGGTTTTA
* *
4926444 AGGGATTAGGGTCTAAGGTTAAGCTTT
1 AGGGTTTAGGGTCTAAGGTTAAGATTT
*
4926471 AGGGTTTAGGGTCT-AGGTTTAGGATTT
1 AGGGTTTAGGGTCTAAGG-TTAAGATTT
* * *
4926498 -GGGTTTAAGGTCTAAGTTTAAGGTTT
1 AGGGTTTAGGGTCTAAGGTTAAGATTT
4926524 AGGGTTTA
1 AGGGTTTA
4926532 TATTTAGGGT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
26 22 0.43
27 29 0.57
ACGTcount: A:0.23, C:0.05, G:0.34, T:0.39
Consensus pattern (27 bp):
AGGGTTTAGGGTCTAAGGTTAAGATTT
Found at i:4926489 original size:13 final size:13
Alignment explanation
Indices: 4926473--4926554 Score: 50
Period size: 13 Copynumber: 6.8 Consensus size: 13
4926463 TAAGCTTTAG
4926473 GGTTTAGGGTCTA
1 GGTTTAGGGTCTA
* * *
4926486 GGTTTAGGATTTG
1 GGTTTAGGGTCTA
*
4926499 GGTTTAAGGTCTA
1 GGTTTAGGGTCTA
*
4926512 AGTTTA------A
1 GGTTTAGGGTCTA
*
4926519 GGTTTAGGGTTTA
1 GGTTTAGGGTCTA
**
4926532 TATTTAGGGTCTA
1 GGTTTAGGGTCTA
4926545 GGTTTAGGGT
1 GGTTTAGGGT
4926555 TTAGATTTTT
Statistics
Matches: 49, Mismatches: 14, Indels: 12
0.65 0.19 0.16
Matches are distributed among these distances:
7 6 0.12
13 43 0.88
ACGTcount: A:0.20, C:0.04, G:0.34, T:0.43
Consensus pattern (13 bp):
GGTTTAGGGTCTA
Found at i:4926552 original size:6 final size:6
Alignment explanation
Indices: 4926468--4926695 Score: 98
Period size: 6 Copynumber: 34.8 Consensus size: 6
4926458 AAGGTTAAGC
* * * *
4926468 TTTAGGG TTTAGGG TCTAGG TTTAGG ATTTGGG TTTAAGG TCTAAG TTTAAGG
1 TTTA-GG TTTA-GG TTTAGG TTTAGG -TTTAGG TTT-AGG TTTAGG TTT-AGG
** * * *
4926521 TTTAGGG TTTATA TTTAGGG TCTAGG TTTAGGG TTTAGATT TTTAAAG
1 TTTA-GG TTTAGG TTTA-GG TTTAGG TTTA-GG TTTAG--G TTT-AGG
* * * *
4926569 -TTAGG TTTAGGG TTTTGG TTTTGG TTTTGG TTTTGG TTTAGGG TTTAGGG
1 TTTAGG TTTA-GG TTTAGG TTTAGG TTTAGG TTTAGG TTTA-GG TTTA-GG
* * * *
4926619 TTTAGAAT TTTAGG GTTAGG TTTAGGG TTTTGG TTTAGG TTTAGAA TTTAGG
1 TTTAG--G TTTAGG TTTAGG TTTA-GG TTTAGG TTTAGG TTTAG-G TTTAGG
* *
4926671 TTTTGA TTTAAGG TTTAAGG TTTAG
1 TTTAGG TTT-AGG TTT-AGG TTTAG
4926696 AATTTGGGGT
Statistics
Matches: 172, Mismatches: 32, Indels: 35
0.72 0.13 0.15
Matches are distributed among these distances:
5 2 0.01
6 83 0.48
7 78 0.45
8 8 0.05
9 1 0.01
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.48
Consensus pattern (6 bp):
TTTAGG
Found at i:4926668 original size:13 final size:12
Alignment explanation
Indices: 4926612--4926687 Score: 53
Period size: 13 Copynumber: 5.8 Consensus size: 12
4926602 TGGTTTAGGG
4926612 TTTAGGGTTTAGAA
1 TTTA-GGTTTAG-A
* *
4926626 TTTTAGGGTTAGG
1 -TTTAGGTTTAGA
* *
4926639 TTTAGGGTTTTGG
1 TTTA-GGTTTAGA
4926652 TTTAGGTTTAGAA
1 TTTAGGTTTAG-A
*
4926665 TTTAGGTTTTGA
1 TTTAGGTTTAGA
4926677 TTTAAGGTTTA
1 TTT-AGGTTTA
4926688 AGGTTTAGAA
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
12 14 0.28
13 26 0.52
14 6 0.12
15 4 0.08
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (12 bp):
TTTAGGTTTAGA
Found at i:4926686 original size:65 final size:65
Alignment explanation
Indices: 4926519--4926687 Score: 189
Period size: 65 Copynumber: 2.6 Consensus size: 65
4926509 CTAAGTTTAA
* * *
4926519 GGTTTAGGGTTTATATTTAGGGTCTAGG-TTTAGGGTTTAGATTTTTAAAGTTAGGTTTAGGGTT
1 GGTTTA-GGTTTAGATTTA-GGTTTAGGATTTAGGGTTTAGAATTTTAAAGTTAGGTTTAGGGTT
4926583 TT
64 TT
* * * * * **
4926585 GGTTTTGGTTTTGGTTTTGGTTTAGGGTTTAGGGTTTAGAATTTTAGGGTTAGGTTTAGGGTTTT
1 GGTTTAGGTTTAGATTTAGGTTTAGGATTTAGGGTTTAGAATTTTAAAGTTAGGTTTAGGGTTTT
* *
4926650 GGTTTAGGTTTAGAATTTAGGTTT-TGATTTAAGGTTTA
1 GGTTTAGGTTTAG-ATTTAGGTTTAGGATTTAGGGTTTA
4926688 AGGTTTAGAA
Statistics
Matches: 85, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
64 7 0.08
65 65 0.76
66 13 0.15
ACGTcount: A:0.18, C:0.01, G:0.31, T:0.50
Consensus pattern (65 bp):
GGTTTAGGTTTAGATTTAGGTTTAGGATTTAGGGTTTAGAATTTTAAAGTTAGGTTTAGGGTTTT
Found at i:4927208 original size:16 final size:16
Alignment explanation
Indices: 4927184--4927220 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
4927174 GCTTGGCCAA
4927184 ATACATTTTATGGCTC
1 ATACATTTTATGGCTC
*
4927200 ATACTTTTTATGGCTC
1 ATACATTTTATGGCTC
4927216 ATACA
1 ATACA
4927221 ATCACTCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.43
Consensus pattern (16 bp):
ATACATTTTATGGCTC
Found at i:4930941 original size:17 final size:17
Alignment explanation
Indices: 4930921--4930953 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
4930911 GTTCAAATTC
4930921 AAAAAATAT-AAAATAT
1 AAAAAATATCAAAATAT
4930937 AAAAAATATCAAAATAT
1 AAAAAATATCAAAATAT
4930954 TAATGTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAAATATCAAAATAT
Found at i:4931253 original size:8 final size:8
Alignment explanation
Indices: 4931240--4931278 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
4931230 GAGTTAGACC
4931240 TTAATTTA
1 TTAATTTA
*
4931248 TTAATTATG
1 TTAATT-TA
4931257 TTAATTTA
1 TTAATTTA
*
4931265 TTAATTTT
1 TTAATTTA
4931273 TTAATT
1 TTAATT
4931279 ATAATCTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 20 0.74
9 7 0.26
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (8 bp):
TTAATTTA
Found at i:4933233 original size:29 final size:28
Alignment explanation
Indices: 4933185--4933242 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
4933175 GTATAAATAA
* *
4933185 AATAATTTTATTAAATTAAGATATTAAAT
1 AATAACTTTATTAAATTAAGACA-TAAAT
4933214 AATAACTTTATT-AATATAAGACATAAAT
1 AATAACTTTATTAAAT-TAAGACATAAAT
4933242 A
1 A
4933243 TAAATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (28 bp):
AATAACTTTATTAAATTAAGACATAAAT
Found at i:4933756 original size:21 final size:21
Alignment explanation
Indices: 4933732--4933771 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4933722 AAAAAGCATT
4933732 TAAAAAAGAAAATAAAAAAGC
1 TAAAAAAGAAAATAAAAAAGC
* *
4933753 TAAAAAATAAATTAAAAAA
1 TAAAAAAGAAAATAAAAAA
4933772 AATAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (21 bp):
TAAAAAAGAAAATAAAAAAGC
Found at i:4933777 original size:21 final size:21
Alignment explanation
Indices: 4933732--4933782 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
4933722 AAAAAGCATT
* **
4933732 TAAAAAAGAAAATAAAAAAGC
1 TAAAAAATAAAATAAAAAAAA
*
4933753 TAAAAAATAAATTAAAAAAAA
1 TAAAAAATAAAATAAAAAAAA
4933774 TAAATAAAT
1 TAAA-AAAT
4933783 GGGGCATTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (21 bp):
TAAAAAATAAAATAAAAAAAA
Found at i:4933864 original size:22 final size:22
Alignment explanation
Indices: 4933836--4933885 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
4933826 TTTGTCTAAC
*
4933836 AAAAAATAATAAATG-AAAAAAA
1 AAAAAATAA-AAAAGCAAAAAAA
*
4933858 AAAAAATAAAAAAGCAAAAAAG
1 AAAAAATAAAAAAGCAAAAAAA
4933880 AAAAAA
1 AAAAAA
4933886 GAATCACGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.84, C:0.02, G:0.06, T:0.08
Consensus pattern (22 bp):
AAAAAATAAAAAAGCAAAAAAA
Found at i:4933886 original size:7 final size:7
Alignment explanation
Indices: 4933836--4933888 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
4933826 TTTGTCTAAC
*
4933836 AAAAAAT
1 AAAAAAG
*
4933843 AATAAATG
1 AA-AAAAG
*
4933851 AAAAAAA
1 AAAAAAG
*
4933858 AAAAAAT
1 AAAAAAG
4933865 AAAAAAG
1 AAAAAAG
4933872 CAAAAAAG
1 -AAAAAAG
4933880 AAAAAAG
1 AAAAAAG
4933887 AA
1 AA
4933889 TCACGTCTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
7 26 0.68
8 12 0.32
ACGTcount: A:0.83, C:0.02, G:0.08, T:0.08
Consensus pattern (7 bp):
AAAAAAG
Found at i:4934800 original size:10 final size:11
Alignment explanation
Indices: 4934767--4934811 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
4934757 TTATGTAATT
4934767 TTTTATAAATA
1 TTTTATAAATA
* *
4934778 TATTAATATATA
1 T-TTTATAAATA
4934790 TTTT-TAAATA
1 TTTTATAAATA
4934800 TTTTATAAATA
1 TTTTATAAATA
4934811 T
1 T
4934812 ATTAATTCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 9 0.32
11 10 0.36
12 9 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTATAAATA
Found at i:4935411 original size:29 final size:30
Alignment explanation
Indices: 4935365--4935421 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
4935355 ATTAAGTTGA
4935365 ATACAAATAAAAAAATAAAGACTTATTTGG
1 ATACAAATAAAAAAATAAAGACTTATTTGG
* *
4935395 ATAC-AATAAAAATATAAGGACTTATTT
1 ATACAAATAAAAAAATAAAGACTTATTT
4935422 ACATAAAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.54, C:0.07, G:0.09, T:0.30
Consensus pattern (30 bp):
ATACAAATAAAAAAATAAAGACTTATTTGG
Found at i:4937291 original size:18 final size:18
Alignment explanation
Indices: 4937250--4937285 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4937240 CTTGTGGTAG
* *
4937250 TGAAGATTTTGATGATGA
1 TGAAGATTTTGATAAGGA
4937268 TGAAGATTTTGATAAGGA
1 TGAAGATTTTGATAAGGA
4937286 ATAAGAGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.28, T:0.36
Consensus pattern (18 bp):
TGAAGATTTTGATAAGGA
Found at i:4946529 original size:30 final size:30
Alignment explanation
Indices: 4946472--4946551 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
4946462 TATACTTTTA
* * *
4946472 TTACATTTAAATAAACCTTTGATTTTTAAT
1 TTACATCTAAATAAACCTTTAAATTTTAAT
* *
4946502 TTACATCTAAATAAACTTTTAAATTTTATT
1 TTACATCTAAATAAACCTTTAAATTTTAAT
* *
4946532 TTATATCTTAATAAATCCTT
1 TTACATCTAAATAAA-CCTT
4946552 AGCTTTTAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 38 0.93
31 3 0.07
ACGTcount: A:0.38, C:0.11, G:0.01, T:0.50
Consensus pattern (30 bp):
TTACATCTAAATAAACCTTTAAATTTTAAT
Found at i:4946620 original size:3 final size:3
Alignment explanation
Indices: 4946614--4946664 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
4946604 AAATAAAAGC
4946614 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
4946662 TTA
1 TTA
4946665 CAACATACAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4946992 original size:26 final size:25
Alignment explanation
Indices: 4946961--4947015 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
4946951 TTAAAGGGTT
4946961 ATTTTTACTTTCGTAATTTTTTTATAA
1 ATTTTTACTTT-GTAATTTTTTTA-AA
* * *
4946988 TTTTTTAGTTTTTAATTTTTTTAAA
1 ATTTTTACTTTGTAATTTTTTTAAA
4947013 ATT
1 ATT
4947016 CAAAAATACA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
25 4 0.17
26 11 0.46
27 9 0.38
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (25 bp):
ATTTTTACTTTGTAATTTTTTTAAA
Found at i:4947392 original size:20 final size:20
Alignment explanation
Indices: 4947367--4947429 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 20
4947357 TATTTAAGAT
4947367 ATAATATATGATTTTAAA-A
1 ATAATATATGATTTTAAACA
4947386 ATCAATATAAT-ATGTTTGAAAACA
1 AT-AATAT-ATGAT-TTT--AAACA
4947410 ATAATATATGATTTTAAACA
1 ATAATATATGATTTTAAACA
4947430 TGTAAGTGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 13
0.74 0.00 0.26
Matches are distributed among these distances:
19 2 0.05
20 12 0.32
21 5 0.14
22 5 0.14
23 10 0.27
24 3 0.08
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.38
Consensus pattern (20 bp):
ATAATATATGATTTTAAACA
Found at i:4947557 original size:30 final size:30
Alignment explanation
Indices: 4947518--4947614 Score: 85
Period size: 30 Copynumber: 3.2 Consensus size: 30
4947508 TAATTAGTTA
*
4947518 ATTTGAATATAAATTAAATATTAAAAATTT
1 ATTTAAATATAAATTAAATATTAAAAATTT
*
4947548 ATTTAAATAT-AA-TAAAAATATAAAAATTT
1 ATTTAAATATAAATTAAATAT-TAAAAATTT
* *
4947577 ATTTTAAA-A-AAATGAAATAGTTAAGGAATTT
1 A-TTTAAATATAAATTAAATA-TTAA-AAATTT
*
4947608 TTTTAAA
1 ATTTAAA
4947615 ATTTCAGTCT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
28 6 0.11
29 15 0.27
30 28 0.51
31 6 0.11
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (30 bp):
ATTTAAATATAAATTAAATATTAAAAATTT
Found at i:4955853 original size:27 final size:26
Alignment explanation
Indices: 4955814--4955870 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
4955804 ATTTGATACG
*
4955814 TAATATTATAATAAATTAAAATAAGA
1 TAATATTATAATAAAATAAAATAAGA
* *
4955840 TAATATTATAAATAAAATAATATAATA
1 TAATATTAT-AATAAAATAAAATAAGA
4955867 TAAT
1 TAAT
4955871 TACTTTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 9 0.33
27 18 0.67
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (26 bp):
TAATATTATAATAAAATAAAATAAGA
Found at i:4955854 original size:17 final size:16
Alignment explanation
Indices: 4955823--4955862 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
4955813 GTAATATTAT
4955823 AATAA-ATTAAAATAA
1 AATAATATTAAAATAA
*
4955838 GATAATATTATAAATAA
1 AATAATATTA-AAATAA
4955855 AATAATAT
1 AATAATAT
4955863 AATATAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 4 0.19
16 4 0.19
17 13 0.62
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (16 bp):
AATAATATTAAAATAA
Found at i:4955857 original size:22 final size:23
Alignment explanation
Indices: 4955824--4955867 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
4955814 TAATATTATA
4955824 ATAAATTAAAATAAGATAATATT
1 ATAAATTAAAATAAGATAATATT
*
4955847 ATAAA-TAAAATAATATAATAT
1 ATAAATTAAAATAAGATAATAT
4955868 AATTACTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
ATAAATTAAAATAAGATAATATT
Found at i:4961597 original size:66 final size:65
Alignment explanation
Indices: 4961425--4961761 Score: 227
Period size: 66 Copynumber: 5.2 Consensus size: 65
4961415 CATAAGTTGT
* ** * ** * ** *
4961425 AAAAATAAAATGATCTAGACCGAGCCGAGATCGAAAATGAGTGACTGGGAATGAATTGTGAGTCA
1 AAAAATAAAATGATTTAGATTGAACTAAGATCGAAAATGAGTGTCTGGGAATGAACCG-CAGTCA
4961490 A
65 A
* ** * * *
4961491 AAAAATAAAATGATTTGGATTGAGTTGAGATTGAAAATGAGTGTCTGGGAATGAACCACGAGTCA
1 AAAAATAAAATGATTTAGATTGAACTAAGATCGAAAATGAGTGTCTGGGAATGAACCGC-AGTCA
4961556 A
65 A
* * ** ** * * *
4961557 AAAAATAAAATGATTTAGATTAAACTAAGATCGAAGATGAGTAACCAGGATTGAACTGCAAGTTA
1 AAAAATAAAATGATTTAGATTGAACTAAGATCGAAAATGAGTGTCTGGGAATGAACCGC-AGTCA
4961622 A
65 A
* * * * * *
4961623 AAAAAT-AAATGATTTGGATTGAACCAAGA-CAAAAAATGAGTAATC--GGACTGAATCGCATGT
1 AAAAATAAAATGATTTAGATTGAACTAAGATC-GAAAATGAGT-GTCTGGGAATGAACCGCA-GT
4961684 CAA
63 CAA
** * * * * *
4961687 AAAAAT-AAATGATTTAGATTGAAGAAAGATCGAAGATGAGTGT-TGAGACTAAACCACATGTCA
1 AAAAATAAAATGATTTAGATTGAACTAAGATCGAAAATGAGTGTCTGGGAATGAACCGCA-GTCA
4961750 A
65 A
4961751 AAAAATAAAAT
1 AAAAATAAAAT
4961762 TTAAAATTTT
Statistics
Matches: 215, Mismatches: 48, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
63 2 0.01
64 69 0.32
65 33 0.15
66 111 0.52
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.23
Consensus pattern (65 bp):
AAAAATAAAATGATTTAGATTGAACTAAGATCGAAAATGAGTGTCTGGGAATGAACCGCAGTCAA
Found at i:4961747 original size:64 final size:64
Alignment explanation
Indices: 4961486--4961759 Score: 212
Period size: 64 Copynumber: 4.2 Consensus size: 64
4961476 TGAATTGTGA
* ** * * * * *
4961486 GTCAAAAAAATAAAATGATTTGGATTGAGTTGAGATTGAAAATGAGTGTCTGGGAATGAACCACG
1 GTCAAAAAAAT-AAATGATTTAGATTGAACTAAGATCGAAAATGAGTATC-GAGACTGAACCAC-
4961551 A-
63 AT
* * * * * **
4961552 GTCAAAAAAATAAAATGATTTAGATTAAACTAAGATCGAAGATGAGTAACCAGGATTGAACTGCA
1 GTCAAAAAAAT-AAATGATTTAGATTGAACTAAGATCGAAAATGAGTATCGA-GACTGAACCACA
*
4961617 A
64 T
* * * * * *
4961618 GTTAAAAAAATAAATGATTTGGATTGAACCAAGA-CAAAAAATGAGTAATCG-GACTGAATCGCA
1 GTCAAAAAAATAAATGATTTAGATTGAACTAAGATC-GAAAATGAGT-ATCGAGACTGAACCACA
4961681 T
64 T
** * * * *
4961682 GTCAAAAAAATAAATGATTTAGATTGAAGAAAGATCGAAGATGAGTGTTGAGACTAAACCACAT
1 GTCAAAAAAATAAATGATTTAGATTGAACTAAGATCGAAAATGAGTATCGAGACTGAACCACAT
4961746 GTCAAAAAAATAAA
1 GTCAAAAAAATAAA
4961760 ATTTAAAATT
Statistics
Matches: 165, Mismatches: 37, Indels: 14
0.76 0.17 0.06
Matches are distributed among these distances:
63 2 0.01
64 72 0.44
65 30 0.18
66 61 0.37
ACGTcount: A:0.47, C:0.09, G:0.20, T:0.23
Consensus pattern (64 bp):
GTCAAAAAAATAAATGATTTAGATTGAACTAAGATCGAAAATGAGTATCGAGACTGAACCACAT
Found at i:4961961 original size:27 final size:26
Alignment explanation
Indices: 4961892--4961961 Score: 61
Period size: 27 Copynumber: 2.6 Consensus size: 26
4961882 TCACAAAAAG
*
4961892 TCAAGATTCACAAAGATTTGCAAGAAT
1 TCAAAATTCACAAA-ATTTGCAAGAAT
* * *
4961919 TC-AAGTTCATAAAAAATTTGCAAAGATT
1 TCAAAATTC--ACAAAATTTGC-AAGAAT
4961947 TCAAAATTCACAAAA
1 TCAAAATTCACAAAA
4961962 GGTCAAGATT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
26 4 0.12
27 13 0.39
28 11 0.33
29 5 0.15
ACGTcount: A:0.49, C:0.14, G:0.10, T:0.27
Consensus pattern (26 bp):
TCAAAATTCACAAAATTTGCAAGAAT
Found at i:4961972 original size:17 final size:17
Alignment explanation
Indices: 4961947--4961979 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4961937 TGCAAAGATT
4961947 TCAAAATTCACAAAAGG
1 TCAAAATTCACAAAAGG
*
4961964 TCAAGATTCACAAAAG
1 TCAAAATTCACAAAAG
4961980 TTTATAAGAA
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:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (17 bp):
TCAAAATTCACAAAAGG
Found at i:4962054 original size:17 final size:17
Alignment explanation
Indices: 4962032--4962107 Score: 73
Period size: 17 Copynumber: 4.5 Consensus size: 17
4962022 GAATTCAAAA
4962032 ATTTGCAAGACTTTCAT
1 ATTTGCAAGACTTTCAT
** *
4962049 ATTTGCAAGGGTTTTAT
1 ATTTGCAAGACTTTCAT
*
4962066 ATTTGCAAGAATTTCAT
1 ATTTGCAAGACTTTCAT
**
4962083 ATTCACAAGAACTTT-AT
1 ATTTGCAAG-ACTTTCAT
*
4962100 ATTCGCAA
1 ATTTGCAA
4962108 TAGTTTGAAG
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
17 44 0.92
18 4 0.08
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.39
Consensus pattern (17 bp):
ATTTGCAAGACTTTCAT
Found at i:4962099 original size:34 final size:34
Alignment explanation
Indices: 4962032--4962107 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
4962022 GAATTCAAAA
* ** ***
4962032 ATTTGCAAGACTTTCATATTTGCAAGGGTTTTAT
1 ATTTGCAAGAATTTCATATTCACAAGAACTTTAT
4962066 ATTTGCAAGAATTTCATATTCACAAGAACTTTAT
1 ATTTGCAAGAATTTCATATTCACAAGAACTTTAT
*
4962100 ATTCGCAA
1 ATTTGCAA
4962108 TAGTTTGAAG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.39
Consensus pattern (34 bp):
ATTTGCAAGAATTTCATATTCACAAGAACTTTAT
Found at i:4962417 original size:44 final size:45
Alignment explanation
Indices: 4962327--4962418 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 45
4962317 GCCTACCTCC
* *
4962327 AAAATTAAAAAATTCTTATTTGAAAATTTTAGAGATTCATACCCA
1 AAAATTAAAAAATTCTTATTTGAAAATTTTAGAGATACACACCCA
* * *
4962372 AAAATT-AAAGATTTTTATTTGAAAATTTTA-AGGATACACATCCA
1 AAAATTAAAAAATTCTTATTTGAAAATTTTAGA-GATACACACCCA
4962416 AAA
1 AAA
4962419 TTCTTATTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
43 1 0.02
44 34 0.83
45 6 0.15
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.35
Consensus pattern (45 bp):
AAAATTAAAAAATTCTTATTTGAAAATTTTAGAGATACACACCCA
Found at i:4962657 original size:45 final size:45
Alignment explanation
Indices: 4962542--4962672 Score: 140
Period size: 45 Copynumber: 2.9 Consensus size: 45
4962532 TCACAATCAC
* * *
4962542 AATTTCAAAAATTTTCAGTCGAAAAATTTTAGG-ATTCACATCCAA
1 AATTTCAAAGATTATCATTCGAAAAA-TTTAGGAATTCACATCCAA
** ** *
4962587 AATTTCAAAGATTAAT-ATTAAAAAAATTTAGGAATTCTTATCTAA
1 AATTTCAAAGATT-ATCATTCGAAAAATTTAGGAATTCACATCCAA
* *
4962632 AATTTCAAAGATTCTCATTCGAAAAATTTTGGAATTCACAT
1 AATTTCAAAGATTATCATTCGAAAAATTTAGGAATTCACAT
4962673 TCGAAAGCTC
Statistics
Matches: 69, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
44 7 0.10
45 61 0.88
46 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (45 bp):
AATTTCAAAGATTATCATTCGAAAAATTTAGGAATTCACATCCAA
Found at i:4966512 original size:23 final size:21
Alignment explanation
Indices: 4966478--4966526 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
4966468 GGGGTTAGTA
*
4966478 AACATGATATA-AACAAAAAAC
1 AACATAATATATAA-AAAAAAC
*
4966499 AATATAATATATAAAAAAAAC
1 AACATAATATATAAAAAAAAC
4966520 AACATAA
1 AACATAA
4966527 AAGGTTGGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.69, C:0.10, G:0.02, T:0.18
Consensus pattern (21 bp):
AACATAATATATAAAAAAAAC
Found at i:4969998 original size:13 final size:13
Alignment explanation
Indices: 4969980--4970005 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4969970 CCCTCATTCT
4969980 TAGATATTTTGGA
1 TAGATATTTTGGA
4969993 TAGATATTTTGGA
1 TAGATATTTTGGA
4970006 GTTTAAGTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (13 bp):
TAGATATTTTGGA
Found at i:4977540 original size:97 final size:97
Alignment explanation
Indices: 4977376--4977570 Score: 282
Period size: 97 Copynumber: 2.0 Consensus size: 97
4977366 TTTCTATTGC
* * * *
4977376 AAGTGAGTGGTGGCTATTAAGGGTGGACGGTGGGTGGCATAGTAGTTCGAGGATATAATTCCAAG
1 AAGTGAGTGGTGGCTATTAAAGGTAGACGATGGGTGGCATAGTAGTTCGAGGATAGAATTCCAAG
*
4977441 TTTTATTATTTTTTTGGTTAGGAATTTTGGAA
66 TTTTATTATTTTTTTAGTTAGGAATTTTGGAA
* * * * **
4977473 AAGTGAGTGGTGGCTATTAAAGGTAGACTATGGGTGGCATAGTGGTTCGGGGATAGGATTCTGAG
1 AAGTGAGTGGTGGCTATTAAAGGTAGACGATGGGTGGCATAGTAGTTCGAGGATAGAATTCCAAG
*
4977538 TTTTATTGTTTTTTTAGTTAGGAATTTTGGAA
66 TTTTATTATTTTTTTAGTTAGGAATTTTGGAA
4977570 A
1 A
4977571 GAAAGGTAGA
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
97 86 1.00
ACGTcount: A:0.25, C:0.06, G:0.32, T:0.37
Consensus pattern (97 bp):
AAGTGAGTGGTGGCTATTAAAGGTAGACGATGGGTGGCATAGTAGTTCGAGGATAGAATTCCAAG
TTTTATTATTTTTTTAGTTAGGAATTTTGGAA
Found at i:4980164 original size:29 final size:29
Alignment explanation
Indices: 4980131--4980188 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
4980121 ACCTTTCTTA
4980131 TGGTACCTTTGCCAAAATTACACCATTGT
1 TGGTACCTTTGCCAAAATTACACCATTGT
**
4980160 TGGTAGGTTTGCCAAAATTACACCATTGT
1 TGGTACCTTTGCCAAAATTACACCATTGT
4980189 AGAATTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (29 bp):
TGGTACCTTTGCCAAAATTACACCATTGT
Found at i:4981924 original size:8 final size:8
Alignment explanation
Indices: 4981907--4981940 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
4981897 CGAAAACATA
4981907 ATAAATAT
1 ATAAATAT
*
4981915 ATATATAT
1 ATAAATAT
*
4981923 ATAGATAT
1 ATAAATAT
4981931 ATAAATAT
1 ATAAATAT
4981939 AT
1 AT
4981941 TAGAGGTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (8 bp):
ATAAATAT
Found at i:4985818 original size:12 final size:12
Alignment explanation
Indices: 4985801--4985827 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4985791 TGGATGGTGG
4985801 AATTAGGTGTGA
1 AATTAGGTGTGA
4985813 AATTAGGTGTGA
1 AATTAGGTGTGA
4985825 AAT
1 AAT
4985828 CTCATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (12 bp):
AATTAGGTGTGA
Found at i:4992163 original size:36 final size:36
Alignment explanation
Indices: 4992096--4992175 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
4992086 AAATTTTTAA
* ** *
4992096 TTTC-AAGTTTCATAACCTCTGGTTAAAGGAGCTTT
1 TTTCAAAGTATCATAACCTCCAGTTAAAGGAGCTCT
* **
4992131 TTTTAAAGTATCATAACCTCCAGTTATGGGAGCTCT
1 TTTCAAAGTATCATAACCTCCAGTTAAAGGAGCTCT
4992167 TTTCAAAGT
1 TTTCAAAGT
4992176 TTTATAGCCT
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
35 3 0.08
36 33 0.92
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (36 bp):
TTTCAAAGTATCATAACCTCCAGTTAAAGGAGCTCT
Found at i:4992246 original size:33 final size:33
Alignment explanation
Indices: 4992181--4992246 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
4992171 AAAGTTTTAT
**
4992181 AGCCTTTAGTTAGAGGAGTTTTCTAATTTTAAG
1 AGCCTTTAGTTAGAGGAGTTTTCTAAAATTAAG
* *
4992214 AGCCTTTGGTTAGAGGACTTTT-TCAAAATTAAG
1 AGCCTTTAGTTAGAGGAGTTTTCT-AAAATTAAG
4992247 CATGATTTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (33 bp):
AGCCTTTAGTTAGAGGAGTTTTCTAAAATTAAG
Found at i:4992410 original size:35 final size:35
Alignment explanation
Indices: 4992296--4992471 Score: 140
Period size: 36 Copynumber: 5.0 Consensus size: 35
4992286 TTCAGCTTTC
* * * * *
4992296 TTTAAAGTGTCATAGCCTCTTGTTAGAATAACCTTA
1 TTTAAAGTCTCATAACCTCTAGTTAGAA-GAGCTTA
* * * *
4992332 TTTAAAGTCTCACAATCTTTGGTTAGAAGAGCCTTA
1 TTTAAAGTCTCATAACCTCTAGTTAGAAGAG-CTTA
*
4992368 TTTAAAGTCTCATAACTTCTAGTTAGAAGAGCTTA
1 TTTAAAGTCTCATAACCTCTAGTTAGAAGAGCTTA
* * *
4992403 TTTAAAGTTTCATTACCTCTAGTTA-AATGAGCATTC
1 TTTAAAGTCTCATAACCTCTAGTTAGAA-GAGC-TTA
* * * * *
4992439 TTAAAAGTGT-TTAGCCTCTGGTTAGAAGAGCTT
1 TTTAAAGTCTCATAACCTCTAGTTAGAAGAGCTT
4992472 TAAAAAAAAA
Statistics
Matches: 113, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
34 4 0.04
35 45 0.40
36 64 0.57
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (35 bp):
TTTAAAGTCTCATAACCTCTAGTTAGAAGAGCTTA
Found at i:4992562 original size:12 final size:11
Alignment explanation
Indices: 4992543--4992587 Score: 56
Period size: 12 Copynumber: 4.0 Consensus size: 11
4992533 TCTTTCTTTC
4992543 AAAAAAAAAAG
1 AAAAAAAAAAG
*
4992554 AACAAAAAACA-
1 AA-AAAAAAAAG
4992565 AAAAAAAAAAG
1 AAAAAAAAAAG
4992576 AAAGAAAAAAAG
1 AAA-AAAAAAAG
4992588 GTTCATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
10 7 0.24
11 7 0.24
12 15 0.52
ACGTcount: A:0.87, C:0.04, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:4993598 original size:6 final size:6
Alignment explanation
Indices: 4993587--4993631 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
4993577 CCTTTTTCCA
4993587 TTTTAT TTTTAT TTTT-T TATTTCAT TTTTA- TTTTA- TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT T-TTT-AT TTTTAT TTTTAT TTTTAT TTTT
4993632 GTTATTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
5 12 0.34
6 18 0.51
7 3 0.09
8 2 0.06
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:4993601 original size:5 final size:5
Alignment explanation
Indices: 4993586--4993639 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
4993576 TCCTTTTTCC
* *
4993586 ATTTT ATTTT -TATTT -TTTT ATTTC ATTTTT ATTTT ATTTT ATTTT -TGTT
1 ATTTT ATTTT AT-TTT ATTTT ATTTT A-TTTT ATTTT ATTTT ATTTT ATTTT
4993635 ATTTT
1 ATTTT
4993640 TTAGTTAGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
4 7 0.17
5 30 0.73
6 4 0.10
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:4993622 original size:16 final size:16
Alignment explanation
Indices: 4993601--4993631 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4993591 ATTTTTATTT
4993601 TTTTATTTCATTTTTA
1 TTTTATTTCATTTTTA
*
4993617 TTTTATTTTATTTTT
1 TTTTATTTCATTTTT
4993632 GTTATTTTTT
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:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTATTTCATTTTTA
Found at i:4993631 original size:11 final size:11
Alignment explanation
Indices: 4993586--4993630 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
4993576 TCCTTTTTCC
4993586 ATTTTATTTTT
1 ATTTTATTTTT
4993597 A--TT-TTTTT
1 ATTTTATTTTT
*
4993605 ATTTCATTTTT
1 ATTTTATTTTT
4993616 ATTTTA-TTTT
1 ATTTTATTTTT
4993626 ATTTT
1 ATTTT
4993631 TGTTATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
8 6 0.21
9 2 0.07
10 10 0.34
11 11 0.38
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (11 bp):
ATTTTATTTTT
Found at i:4993636 original size:19 final size:18
Alignment explanation
Indices: 4993586--4993639 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
4993576 TCCTTTTTCC
*
4993586 ATTTTATTTTTATTTTTTT
1 ATTTTATTTTT-TTATTTT
*
4993605 ATTTCA--TTTTTATTTT
1 ATTTTATTTTTTTATTTT
4993621 ATTTTATTTTTGTTATTTT
1 ATTTTATTTTT-TTATTTT
4993640 TTAGTTAGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 11 0.38
17 3 0.10
18 3 0.10
19 12 0.41
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.80
Consensus pattern (18 bp):
ATTTTATTTTTTTATTTT
Found at i:4994744 original size:28 final size:28
Alignment explanation
Indices: 4994708--4994764 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
4994698 ATTTCGAGAA
*
4994708 TTTTGTGAATGATCAATTTTTTA-AAATT
1 TTTTGTGAATGA-AAATTTTTTATAAATT
* *
4994736 TTTTTTGAATTAAAATTTTTTATAAATT
1 TTTTGTGAATGAAAATTTTTTATAAATT
4994764 T
1 T
4994765 CGCTAAAGCG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 9 0.36
28 16 0.64
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (28 bp):
TTTTGTGAATGAAAATTTTTTATAAATT
Found at i:4994763 original size:17 final size:17
Alignment explanation
Indices: 4994728--4994763 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4994718 GATCAATTTT
* *
4994728 TTAAAATTTTTTTTGAA
1 TTAAAATTTTTTATAAA
4994745 TTAAAATTTTTTATAAA
1 TTAAAATTTTTTATAAA
4994762 TT
1 TT
4994764 TCGCTAAAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TTAAAATTTTTTATAAA
Found at i:4995839 original size:30 final size:30
Alignment explanation
Indices: 4995760--4995822 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
4995750 TAAATAAACT
* ***
4995760 TTTCACATTGGCTAGATTAATGGAGATTGA
1 TTTCACATTGGCTAAATTAAAATAGATTGA
4995790 TTTCACATTGGCTAAATTAAAATAGATTGA
1 TTTCACATTGGCTAAATTAAAATAGATTGA
4995820 TTT
1 TTT
4995823 TGCATTGGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (30 bp):
TTTCACATTGGCTAAATTAAAATAGATTGA
Found at i:4997756 original size:2 final size:2
Alignment explanation
Indices: 4997749--4997796 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
4997739 TGTAAAACAA
* **
4997749 AT AT AT AT AC AT AT AT AT AT A- AT GC AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4997790 AT AT AT A
1 AT AT AT A
4997797 ACAAAGACAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:4998572 original size:3 final size:3
Alignment explanation
Indices: 4998564--4998611 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
4998554 GACTGATTAC
4998564 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4998612 GTAATAGAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4999332 original size:17 final size:16
Alignment explanation
Indices: 4999289--4999345 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 16
4999279 TTTTTCTTAA
4999289 TATTTT-TATTAT-TT
1 TATTTTCTATTATATT
*
4999303 TA-TTTCTAGTATATT
1 TATTTTCTATTATATT
*
4999318 TATTTCTCTATTATAAT
1 TATTT-TCTATTATATT
*
4999335 TATTTTTTATT
1 TATTTTCTATT
4999346 TTAGCAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
13 3 0.09
14 7 0.20
15 4 0.11
16 7 0.20
17 14 0.40
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (16 bp):
TATTTTCTATTATATT
Found at i:5000614 original size:2 final size:2
Alignment explanation
Indices: 5000607--5000637 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
5000597 AGTTTAGATC
5000607 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5000638 CCATATCCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5004403 original size:15 final size:15
Alignment explanation
Indices: 5004319--5004395 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 15
5004309 AGATTTAGTT
*
5004319 ATTTGATTATCTTATA
1 ATTT-ATTATATTATA
*
5004335 ATTTATTA-ATTGATT
1 ATTTATTATATT-ATA
5004350 ATTTATTA-ATTATA
1 ATTTATTATATTATA
*
5004364 ACTTAATTATGATATAATA
1 A-TTTATTAT-AT-T-ATA
5004383 ATTTATTAT-TTAT
1 ATTTATTATATTAT
5004396 TATATTATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
14 7 0.14
15 24 0.48
16 5 0.10
17 2 0.04
18 8 0.16
19 4 0.08
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.56
Consensus pattern (15 bp):
ATTTATTATATTATA
Found at i:5004967 original size:4 final size:4
Alignment explanation
Indices: 5004958--5004985 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
5004948 TATGGACGCA
5004958 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
5004986 TTCTATGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:5005381 original size:30 final size:30
Alignment explanation
Indices: 5005311--5005386 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 30
5005301 GATTTGACTC
* *
5005311 AAATAAAT-AAAATATTATTTTTTAAATAT
1 AAATAAATAAAAATATTATTATATAAATAT
**
5005340 AAATATTTAAAAATATTATTATATAAATAT
1 AAATAAATAAAAATATTATTATATAAATAT
*
5005370 ATATAAATAAAAA-ATTA
1 AAATAAATAAAAATATTA
5005387 AATAATTAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 10 0.26
30 29 0.74
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (30 bp):
AAATAAATAAAAATATTATTATATAAATAT
Found at i:5006583 original size:16 final size:15
Alignment explanation
Indices: 5006564--5006598 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
5006554 GTATTATTAA
5006564 ATTTAAATTTAATTTT
1 ATTTAAATTT-ATTTT
*
5006580 ATTTAAATTTTTTTT
1 ATTTAAATTTATTTT
5006595 ATTT
1 ATTT
5006599 TTTTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTAAATTTATTTT
Found at i:5007636 original size:7 final size:7
Alignment explanation
Indices: 5007624--5007653 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
5007614 TTATTAAAAA
5007624 AAATAAT
1 AAATAAT
5007631 AAATAAT
1 AAATAAT
5007638 AAATAA-
1 AAATAAT
5007644 AAATAAT
1 AAATAAT
5007651 AAA
1 AAA
5007654 GAATTGAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAATAAT
Found at i:5007668 original size:20 final size:20
Alignment explanation
Indices: 5007618--5007657 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
5007608 AAAAATTTAT
*
5007618 TAAA-AAAAATAATAAATAA
1 TAAATAAAAATAATAAAGAA
5007637 TAAATAAAAATAATAAAGAA
1 TAAATAAAAATAATAAAGAA
5007657 T
1 T
5007658 TGAATAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (20 bp):
TAAATAAAAATAATAAAGAA
Found at i:5009771 original size:51 final size:51
Alignment explanation
Indices: 5009712--5009813 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
5009702 CATATGACTA
5009712 GATCTGATAATGGAAAAAAATTCTTTCTATCATGATGACCAAATAGCTAGT
1 GATCTGATAATGGAAAAAAATTCTTTCTATCATGATGACCAAATAGCTAGT
* *
5009763 GATCTGATAATGGAAAGAAATTCTTTCTATCGTGATGACCAAATAGCTAGT
1 GATCTGATAATGGAAAAAAATTCTTTCTATCATGATGACCAAATAGCTAGT
5009814 ATATTTACCT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (51 bp):
GATCTGATAATGGAAAAAAATTCTTTCTATCATGATGACCAAATAGCTAGT
Found at i:5013049 original size:24 final size:21
Alignment explanation
Indices: 5013022--5013077 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
5013012 TGTGTGATTT
*
5013022 TTTTATTTTTTAATATATATAA
1 TTTTATTTTTTAATAAAT-TAA
5013044 TCTTT-TGATTTTTAATAAATTAA
1 T-TTTAT--TTTTTAATAAATTAA
5013067 TTTTATTTTTT
1 TTTTATTTTTT
5013078 TAATTTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
21 5 0.17
22 5 0.17
23 8 0.28
24 11 0.38
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTTATTTTTTAATAAATTAA
Found at i:5013080 original size:22 final size:23
Alignment explanation
Indices: 5013022--5013081 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
5013012 TGTGTGATTT
*
5013022 TTTTA-TTTTTTAATATATATAA
1 TTTTATTTTTTTAATAAATATAA
*
5013044 TCTTT-TGATTTTTAATAAAT-TAA
1 T-TTTAT-TTTTTTAATAAATATAA
5013067 TTTTATTTTTTTAAT
1 TTTTATTTTTTTAAT
5013082 TTAAATATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
22 12 0.39
23 8 0.26
24 11 0.35
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTATTTTTTTAATAAATATAA
Found at i:5019038 original size:136 final size:136
Alignment explanation
Indices: 5018717--5019092 Score: 506
Period size: 136 Copynumber: 2.8 Consensus size: 136
5018707 AATATATGGT
* * **
5018717 AAAAATGCAAATTCAAACTTTAAACTCGGATATCACCACCGAGTGATTTTGAAAATATCTTGGAT
1 AAAAATACAAATTCAAACTTTAAACTCAGATATCACCATTGA-TGATTTTGAAAATATCTTGGAT
* * * * * * * * *
5018782 ATCACCACCAAAAAAAT-AAGATTCAAGCTTTAACACTCAAATATCACTACTGAGAATATGTAAA
65 GTCACCACCAAGAAAATGAA-ATTCAAGCTTTAACACTTAAATAACACCACTAAAAAAATGCAAA
5018846 TGTAAAGA
129 TGTAAAGA
*
5018854 AAAAATACAAATTCAAACTTTAAACTCAGATATCACCACTATG-TGATTTTGAAAACATCTTGGA
1 AAAAATACAAATTCAAACTTTAAACTCAGATATCACCA-T-TGATGATTTTGAAAATATCTTGGA
* * *
5018918 TGTCACCACTAAGAAAATGAAATGCAAGCTTTAACACTTAGATAACACCA-TAAAAAAATGCAAA
64 TGTCACCACCAAGAAAATGAAATTCAAGCTTTAACACTTAAATAACACCACTAAAAAAATGCAAA
*
5018982 TGTAGAGA
129 TGTAAAGA
* *
5018990 AAAAATTCAAATTCAAACTTTAAACTCAGATATCACCATTGAATGATTTTAAAAATATCTTGGAT
1 AAAAATACAAATTCAAACTTTAAACTCAGATATCACCATTG-ATGATTTTGAAAATATCTTGGAT
5019055 GTCACCACCAAGAAAATGAAATTCAAGCTTTAACACTT
65 GTCACCACCAAGAAAATGAAATTCAAGCTTTAACACTT
5019093 GTATATCACC
Statistics
Matches: 211, Mismatches: 23, Indels: 11
0.86 0.09 0.04
Matches are distributed among these distances:
134 2 0.01
135 1 0.00
136 110 0.52
137 95 0.45
138 2 0.01
139 1 0.00
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.27
Consensus pattern (136 bp):
AAAAATACAAATTCAAACTTTAAACTCAGATATCACCATTGATGATTTTGAAAATATCTTGGATG
TCACCACCAAGAAAATGAAATTCAAGCTTTAACACTTAAATAACACCACTAAAAAAATGCAAATG
TAAAGA
Found at i:5019157 original size:42 final size:42
Alignment explanation
Indices: 5019056--5019184 Score: 152
Period size: 42 Copynumber: 3.1 Consensus size: 42
5019046 ATCTTGGATG
* * *
5019056 TCACCACCAAGAAAATGAAATTCAAGCTTTAACACTTGTATA
1 TCACCACCAAGAAAATGTAATTCTAGCTTTAACACTTGAATA
* *
5019098 TCACCACCGAGAAAATGTAATTCTAGCTTTAACACTTGGATA
1 TCACCACCAAGAAAATGTAATTCTAGCTTTAACACTTGAATA
* * * * *
5019140 TCACTTA-CAAGAAAATGTAACTCTAGATTTACCACTCGAATA
1 TCAC-CACCAAGAAAATGTAATTCTAGCTTTAACACTTGAATA
5019182 TCA
1 TCA
5019185 ATACCGAAAG
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
42 74 0.99
43 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.28
Consensus pattern (42 bp):
TCACCACCAAGAAAATGTAATTCTAGCTTTAACACTTGAATA
Found at i:5019567 original size:38 final size:38
Alignment explanation
Indices: 5019468--5019558 Score: 146
Period size: 38 Copynumber: 2.4 Consensus size: 38
5019458 TACCACTACG
* *
5019468 ATGCAAATGTCTTCTCTTAAAATAATGATGCAAATGAA
1 ATGCAAATGTCTTTTCTTAAAATGATGATGCAAATGAA
**
5019506 ATGCAAATGTCTTTTCTTAAAATGATGATTTAAATGAA
1 ATGCAAATGTCTTTTCTTAAAATGATGATGCAAATGAA
5019544 ATGCAAATGTCTTTT
1 ATGCAAATGTCTTTT
5019559 ACAAAAATGC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.37
Consensus pattern (38 bp):
ATGCAAATGTCTTTTCTTAAAATGATGATGCAAATGAA
Found at i:5019681 original size:46 final size:46
Alignment explanation
Indices: 5019611--5019704 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 46
5019601 CTAATGATGC
* * * *
5019611 AAAAACAAAGTCAAAAGATTCAAATGCTCTAAATTTTCTTTTCTTA
1 AAAAACAAAGTCAAAAGATGCAAATGCCCAAAATCTTCTTTTCTTA
* ** *
5019657 AAAAACCAAGTCAAATTATGCAAATGCCCAAAATCTTCTTTTTTTA
1 AAAAACAAAGTCAAAAGATGCAAATGCCCAAAATCTTCTTTTCTTA
5019703 AA
1 AA
5019705 TCTTCCAAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (46 bp):
AAAAACAAAGTCAAAAGATGCAAATGCCCAAAATCTTCTTTTCTTA
Found at i:5021315 original size:15 final size:15
Alignment explanation
Indices: 5021297--5021328 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
5021287 TTTTTTTCTC
*
5021297 TTTTTTCTTTTTATT
1 TTTTTTCATTTTATT
5021312 TTTTTTCATTTTATT
1 TTTTTTCATTTTATT
5021327 TT
1 TT
5021329 CACAACTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTCATTTTATT
Found at i:5022637 original size:13 final size:13
Alignment explanation
Indices: 5022619--5022644 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5022609 ATATTTTAAT
5022619 TAATAATAATAAA
1 TAATAATAATAAA
5022632 TAATAATAATAAA
1 TAATAATAATAAA
5022645 ATATATGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TAATAATAATAAA
Found at i:5023376 original size:18 final size:19
Alignment explanation
Indices: 5023345--5023380 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
5023335 CACATCTTTT
5023345 TTTTTAATTATTTTTACCC
1 TTTTTAATTATTTTTACCC
*
5023364 TTTTT-ATTTTTTTTACC
1 TTTTTAATTATTTTTACC
5023381 AATTGACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTAATTATTTTTACCC
Found at i:5023428 original size:12 final size:13
Alignment explanation
Indices: 5023411--5023446 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
5023401 ACTAAAAGAA
5023411 CAAAAATTAAAC-
1 CAAAAATTAAACT
5023423 CAAAAATTAAACT
1 CAAAAATTAAACT
*
5023436 AAAAAATTAAA
1 CAAAAATTAAA
5023447 ATACAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.69, C:0.11, G:0.00, T:0.19
Consensus pattern (13 bp):
CAAAAATTAAACT
Found at i:5025629 original size:21 final size:21
Alignment explanation
Indices: 5025556--5025632 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
5025546 CACTTAGATG
*
5025556 AATAATAAAATTGATT-TTGAT
1 AATAATAAAATTAATTATT-AT
* * * * *
5025577 AAGATTAAAAATAATAATAAT
1 AATAATAAAATTAATTATTAT
*
5025598 AATAAAAAAATTAATTATTAT
1 AATAATAAAATTAATTATTAT
5025619 AATAATAAAATTAA
1 AATAATAAAATTAA
5025633 AATTAATGAT
Statistics
Matches: 42, Mismatches: 13, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
21 41 0.98
22 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (21 bp):
AATAATAAAATTAATTATTAT
Found at i:5025780 original size:18 final size:19
Alignment explanation
Indices: 5025749--5025790 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
5025739 ATAAAAAATT
* *
5025749 TAAATTATTTAAT-ATTTA
1 TAAATTAATAAATAATTTA
5025767 TAAATTAATAAATAATTTA
1 TAAATTAATAAATAATTTA
5025786 -AAATT
1 TAAATT
5025791 TTATAACAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TAAATTAATAAATAATTTA
Found at i:5032637 original size:10 final size:9
Alignment explanation
Indices: 5032533--5032677 Score: 53
Period size: 9 Copynumber: 15.2 Consensus size: 9
5032523 TAAAAAAATG
5032533 TTAAATATTGT
1 TTAAA-ATT-T
*
5032544 TTAGAATTT
1 TTAAAATTT
5032553 TTATAAATTT
1 TTA-AAATTT
*
5032563 TTAAAAAAATT
1 TT--AAAATTT
*
5032574 TTAGAATTGCT
1 TTAAAATT--T
*
5032585 TT-GAATTT
1 TTAAAATTT
*
5032593 TTGAAA--T
1 TTAAAATTT
5032600 TTAAAATTT
1 TTAAAATTT
5032609 TTAAAATTT
1 TTAAAATTT
* *
5032618 TGCAGAATTT
1 T-TAAAATTT
*
5032628 TAAAATATTTT
1 TTAAA-A-TTT
*
5032639 TTAGAATTT
1 TTAAAATTT
*
5032648 TTTAAATTT
1 TTAAAATTT
**
5032657 GGAAAATTTT
1 TTAAAA-TTT
*
5032667 TTGAAATTT
1 TTAAAATTT
5032676 TT
1 TT
5032678 TATGTGAAAT
Statistics
Matches: 101, Mismatches: 21, Indels: 26
0.68 0.14 0.18
Matches are distributed among these distances:
7 6 0.06
8 3 0.03
9 41 0.41
10 30 0.30
11 20 0.20
12 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.08, T:0.52
Consensus pattern (9 bp):
TTAAAATTT
Found at i:5032644 original size:20 final size:19
Alignment explanation
Indices: 5032599--5032648 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
5032589 ATTTTTGAAA
* *
5032599 TTTAAAATTTTTAAAATTT
1 TTTAGAATTTTAAAAATTT
**
5032618 TGCAGAATTTTAAAATATTT
1 TTTAGAATTTTAAAA-ATTT
5032638 TTTAGAATTTT
1 TTTAGAATTTT
5032649 TTAAATTTGG
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (19 bp):
TTTAGAATTTTAAAAATTT
Found at i:5036879 original size:2 final size:2
Alignment explanation
Indices: 5036872--5036912 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
5036862 TGATAAAACC
5036872 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5036913 GGGGAAGAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5038347 original size:25 final size:26
Alignment explanation
Indices: 5038319--5038367 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
5038309 GTGATGTCTC
5038319 TAATCTTG-TAAATAATATGTTCATT
1 TAATCTTGATAAATAATATGTTCATT
* * *
5038344 TAATTTTGATAAGTAGTATGTTCA
1 TAATCTTGATAAATAATATGTTCA
5038368 AGTATATGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (26 bp):
TAATCTTGATAAATAATATGTTCATT
Found at i:5040161 original size:2 final size:2
Alignment explanation
Indices: 5040154--5040179 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5040144 TATTTTTGAG
5040154 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
5040180 TTTTTTTGTT
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5040306 original size:16 final size:16
Alignment explanation
Indices: 5040259--5040311 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
5040249 TTGTTAAAAT
* *
5040259 AAATAATTATTT-TTT
1 AAATATTTATTTATTA
5040274 AAATATTTAAGTTTATTA
1 AAATATTT-A-TTTATTA
5040292 AAATATTTATTTATTA
1 AAATATTTATTTATTA
5040308 AAAT
1 AAAT
5040312 TTTTTGTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 7 0.21
16 12 0.36
17 4 0.12
18 10 0.30
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
AAATATTTATTTATTA
Found at i:5040549 original size:21 final size:21
Alignment explanation
Indices: 5040525--5040584 Score: 50
Period size: 24 Copynumber: 2.7 Consensus size: 21
5040515 TTCATTATTG
5040525 TTAATTAAAATTTAAATAAAT-
1 TTAATTAAAATTTAAA-AAATA
5040546 TTAAATATTAAATATTTAAAAAATA
1 TT--A-ATTAAA-ATTTAAAAAATA
* *
5040571 TTATTTTAAATTTA
1 TTAATTAAAATTTA
5040585 TCTTGAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
21 7 0.22
22 4 0.12
23 2 0.06
24 10 0.31
25 9 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAATTAAAATTTAAAAAATA
Found at i:5046599 original size:41 final size:41
Alignment explanation
Indices: 5046542--5046622 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
5046532 ATGTGGTTGT
5046542 TGATAGCAACAATGATGTCATTGCTTACTTGTTAGGTTCTG
1 TGATAGCAACAATGATGTCATTGCTTACTTGTTAGGTTCTG
* *
5046583 TGATAGCAACAATGATGTCGTTGCTTACTTGTTATGTTCT
1 TGATAGCAACAATGATGTCATTGCTTACTTGTTAGGTTCT
5046623 TGTTCGATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (41 bp):
TGATAGCAACAATGATGTCATTGCTTACTTGTTAGGTTCTG
Found at i:5049858 original size:115 final size:115
Alignment explanation
Indices: 5049656--5049886 Score: 453
Period size: 115 Copynumber: 2.0 Consensus size: 115
5049646 GTCTATTGGC
*
5049656 TAAAAGAAACAAATAGCCAAATGTGAATTTTTTAATATCTACACACCTAGTAAAATTTGAATATA
1 TAAAAGAAACAAATAGCCAAATGTGAATTTTTTAATATCTACACACCTAGTAAAATCTGAATATA
5049721 GATATCCTATCACCTCAAGATGATTGGATTTTCTATAAATAAGTATATGA
66 GATATCCTATCACCTCAAGATGATTGGATTTTCTATAAATAAGTATATGA
5049771 TAAAAGAAACAAATAGCCAAATGTGAATTTTTTAATATCTACACACCTAGTAAAATCTGAATATA
1 TAAAAGAAACAAATAGCCAAATGTGAATTTTTTAATATCTACACACCTAGTAAAATCTGAATATA
5049836 GATATCCTATCACCTCAAGATGATTGGATTTTCTATAAATAAGTATATGA
66 GATATCCTATCACCTCAAGATGATTGGATTTTCTATAAATAAGTATATGA
5049886 T
1 T
5049887 CTTTTGTTCC
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 115 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.33
Consensus pattern (115 bp):
TAAAAGAAACAAATAGCCAAATGTGAATTTTTTAATATCTACACACCTAGTAAAATCTGAATATA
GATATCCTATCACCTCAAGATGATTGGATTTTCTATAAATAAGTATATGA
Found at i:5054357 original size:29 final size:30
Alignment explanation
Indices: 5054300--5054361 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
5054290 CAAATCTAAC
*
5054300 AAATAACAATATGAAAATAAATTATAAAGG
1 AAATAAAAATATGAAAATAAATTATAAAGG
* * *
5054330 AAATAAAAATAT-AGAATAATTTTTAAAGG
1 AAATAAAAATATGAAAATAAATTATAAAGG
5054359 AAA
1 AAA
5054362 ATTACAAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.26
Consensus pattern (30 bp):
AAATAAAAATATGAAAATAAATTATAAAGG
Found at i:5064181 original size:19 final size:19
Alignment explanation
Indices: 5064157--5064196 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
5064147 GATAAATTGC
5064157 TATATTT-TTCTAATATTTT
1 TATATTTATT-TAATATTTT
*
5064176 TATATTTATTTAATTTTTT
1 TATATTTATTTAATATTTT
5064195 TA
1 TA
5064197 GGTTTGACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (19 bp):
TATATTTATTTAATATTTT
Found at i:5065734 original size:19 final size:19
Alignment explanation
Indices: 5065693--5065734 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
5065683 ATATATTTTT
* *
5065693 AAAATTACAAAATATTATA
1 AAAATTACAAAAAATTAAA
*
5065712 AAAATTATAAAAAATTAAA
1 AAAATTACAAAAAATTAAA
5065731 AAAA
1 AAAA
5065735 CCCTCAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAATTACAAAAAATTAAA
Done.