Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168225.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_459, 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: 26113
ACGTcount: A:0.66, C:0.06, G:0.10, T:0.19
Found at i:650 original size:26 final size:26
Alignment explanation
Indices: 631--683 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
621 AAAAAGCAAG
631 AAAAAAT-AAAAAAATTAAAATACAA
1 AAAAAATAAAAAAAATTAAAATACAA
* *
656 AACATATAAAAAAAATT-AAA-ACAA
1 AAAAAATAAAAAAAATTAAAATACAA
680 AAAA
1 AAAA
684 GAGAAAGCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
24 7 0.29
25 8 0.33
26 9 0.38
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (26 bp):
AAAAAATAAAAAAAATTAAAATACAA
Found at i:1654 original size:24 final size:25
Alignment explanation
Indices: 1615--1661 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
1605 AAAATTTATG
* *
1615 AAAATATAAATAAAGAAAGAAATTA
1 AAAATAAAAATAAAGAAAAAAATTA
1640 AAAATAAAAAT-AAGAAAAAAAT
1 AAAATAAAAATAAAGAAAAAAAT
1662 ATTAAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (25 bp):
AAAATAAAAATAAAGAAAAAAATTA
Found at i:1692 original size:14 final size:12
Alignment explanation
Indices: 1615--1709 Score: 61
Period size: 11 Copynumber: 7.8 Consensus size: 12
1605 AAAATTTATG
1615 AAAATATAAATAA
1 AAAATA-AAATAA
* *
1628 AGAAA-GAAATTA
1 A-AAATAAAATAA
1640 AAAATAAAAATAA
1 AAAAT-AAAATAA
* *
1653 GAAA-AAAATAT
1 AAAATAAAATAA
* *
1664 TAAAGAAAA-AA
1 AAAATAAAATAA
1675 AAAATAAAATAA
1 AAAATAAAATAA
*
1687 ACAAAAAACAATAA
1 A-AAATAA-AATAA
1701 AAAATAAAA
1 AAAATAAAA
1710 AGTAAGAAAA
Statistics
Matches: 63, Mismatches: 12, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
11 20 0.32
12 15 0.24
13 19 0.30
14 9 0.14
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:1693 original size:21 final size:21
Alignment explanation
Indices: 1654--1708 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
1644 TAAAAATAAG
* *
1654 AAAAAAATATTAAAGAAAAAA-
1 AAAAAAA-AATAAACAAAAAAC
*
1675 AAAATAAAATAAACAAAAAAC
1 AAAAAAAAATAAACAAAAAAC
*
1696 AATAAAAAATAAA
1 AAAAAAAAATAAA
1709 AAGTAAGAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.13
Consensus pattern (21 bp):
AAAAAAAAATAAACAAAAAAC
Found at i:1710 original size:34 final size:35
Alignment explanation
Indices: 1630--1710 Score: 87
Period size: 34 Copynumber: 2.4 Consensus size: 35
1620 ATAAATAAAG
** * *
1630 AAAGAAATTAAAAATAAAAATAAGAAAAAAATATT
1 AAAGAAAAAAAAAATAAAAATAAGAAAAAAACAAT
1665 AAAGAAAAAAAAAAT-AAAATAA-ACAAAAAACAAT
1 AAAGAAAAAAAAAATAAAAATAAGA-AAAAAACAAT
*
1699 AAA-AAATAAAAA
1 AAAGAAAAAAAAA
1711 GTAAGAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
33 9 0.22
34 18 0.45
35 13 0.32
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.14
Consensus pattern (35 bp):
AAAGAAAAAAAAAATAAAAATAAGAAAAAAACAAT
Found at i:2210 original size:19 final size:21
Alignment explanation
Indices: 2182--2225 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
2172 TAAGATAATA
**
2182 AAAAATAATT-AATCAAAAAT
1 AAAAATAATTGAAAAAAAAAT
2202 AAAAA-AATTGAAAAAAAAAT
1 AAAAATAATTGAAAAAAAAAT
2222 AAAA
1 AAAA
2226 TAAAATACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.18
Consensus pattern (21 bp):
AAAAATAATTGAAAAAAAAAT
Found at i:2293 original size:16 final size:15
Alignment explanation
Indices: 2073--2309 Score: 66
Period size: 15 Copynumber: 15.7 Consensus size: 15
2063 ATAAAGAAAG
*
2073 AAATAAAAAATAAACCA
1 AAATAAAAAAT-AA-GA
2090 AAAT-AAAAATAA-A
1 AAATAAAAAATAAGA
* **
2103 ATAAGAAAACAATATTA
1 A-AATAAAA-AATAAGA
*
2120 AAGTAAAACAA-AA-A
1 AAATAAAA-AATAAGA
2134 AAATAAAAAA-AACGA
1 AAATAAAAAATAA-GA
*
2149 AAAT--ACAATAA-A
1 AAATAAAAAATAAGA
**
2161 AATATAAAAGGTAAGA
1 AA-ATAAAAAATAAGA
* *
2177 TAATAAAAAATAA-T
1 AAATAAAAAATAAGA
* * *
2191 TAATCAAAAATAAAA
1 AAATAAAAAATAAGA
* *
2206 AAATTGAAAAAAAAATA
1 AAA-T-AAAAAATAAGA
* *
2223 AAATAAAATACTAAAA
1 AAATAAAA-AATAAGA
* *
2239 AAAT-AACAATTA-A
1 AAATAAAAAATAAGA
*
2252 AAATAAACAAA-AACAA
1 AAATAAA-AAATAA-GA
2268 AAAGTAAAAAAGTAAGA
1 AAA-TAAAAAA-TAAGA
*
2285 AAATAAAAAATTAGA
1 AAATAAAAAATAAGA
*
2300 GAATAAAAAA
1 AAATAAAAAA
2310 ATATAAAACG
Statistics
Matches: 167, Mismatches: 31, Indels: 46
0.68 0.13 0.19
Matches are distributed among these distances:
12 3 0.02
13 16 0.10
14 30 0.18
15 47 0.28
16 44 0.26
17 25 0.15
18 2 0.01
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (15 bp):
AAATAAAAAATAAGA
Found at i:2447 original size:24 final size:23
Alignment explanation
Indices: 2420--2475 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
2410 AAAGACATAA
2420 AAAATCAAAGACAAAAAATAAAAT
1 AAAATCAAAGACAAAAAAT-AAAT
* *
2444 AAAAGTC-AATACAAAATATAAAT
1 AAAA-TCAAAGACAAAAAATAAAT
2467 AAAATCAAA
1 AAAATCAAA
2476 AGGAAGTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 2 0.07
23 10 0.36
24 14 0.50
25 2 0.07
ACGTcount: A:0.71, C:0.09, G:0.04, T:0.16
Consensus pattern (23 bp):
AAAATCAAAGACAAAAAATAAAT
Found at i:3101 original size:17 final size:18
Alignment explanation
Indices: 3081--3114 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3071 AAATCAATGA
3081 TTAA-AAAAAGAAAAAAG
1 TTAATAAAAAGAAAAAAG
*
3098 TTAATAAAAATAAAAAA
1 TTAATAAAAAGAAAAAA
3115 CAAAAGAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (18 bp):
TTAATAAAAAGAAAAAAG
Found at i:4019 original size:16 final size:15
Alignment explanation
Indices: 3998--4055 Score: 52
Period size: 14 Copynumber: 4.0 Consensus size: 15
3988 CATTATAAAT
3998 TTAAAAATAACAAAAA
1 TTAAAAATAA-AAAAA
4014 TTAAAAAT-AAAAAA
1 TTAAAAATAAAAAAA
*
4028 -TAAAGGA-AAAAAAA
1 TTAAA-AATAAAAAAA
*
4042 GT-AAAATAAAAAAA
1 TTAAAAATAAAAAAA
4056 AAAAATTAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
13 5 0.14
14 21 0.58
15 2 0.06
16 8 0.22
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.16
Consensus pattern (15 bp):
TTAAAAATAAAAAAA
Found at i:4038 original size:34 final size:34
Alignment explanation
Indices: 4000--4089 Score: 83
Period size: 33 Copynumber: 2.6 Consensus size: 34
3990 TTATAAATTT
* * * *
4000 AAAAATAACAAAAATTAAAAATAAAAAATAAAGG
1 AAAAAAAAAAAAAATTAAAAAAAAAAAATAAAGC
** *
4034 AAAAAAAAGTAAAA-TAAAAAAAAAAAATTAAGC
1 AAAAAAAAAAAAAATTAAAAAAAAAAAATAAAGC
*
4067 AAAAGAGAAAAAAAGATTAAAAA
1 AAAA-A-AAAAAAAAATTAAAAA
4090 GAGCACAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
33 20 0.45
34 12 0.27
35 6 0.14
36 6 0.14
ACGTcount: A:0.78, C:0.02, G:0.08, T:0.12
Consensus pattern (34 bp):
AAAAAAAAAAAAAATTAAAAAAAAAAAATAAAGC
Found at i:4616 original size:17 final size:18
Alignment explanation
Indices: 4587--4624 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
4577 AGAAAATTTT
*
4587 AAAACAAAGAAAAAAGTG
1 AAAACAAAGAAAAAAATG
4605 AAAACAAA-AAAAAAATG
1 AAAACAAAGAAAAAAATG
4622 AAA
1 AAA
4625 GCACATGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.79, C:0.05, G:0.11, T:0.05
Consensus pattern (18 bp):
AAAACAAAGAAAAAAATG
Found at i:4762 original size:8 final size:8
Alignment explanation
Indices: 4722--4893 Score: 64
Period size: 8 Copynumber: 20.4 Consensus size: 8
4712 CAACAACGAT
4722 AAATAAAA
1 AAATAAAA
*
4730 AAA-GAAA
1 AAATAAAA
*
4737 AGATAAAA
1 AAATAAAA
*
4745 AGATAAAA
1 AAATAAAA
4753 AAATAAAA
1 AAATAAAA
4761 AAATCCAAAA
1 AAAT--AAAA
*
4771 CATTATAAAA
1 -A-AATAAAA
* *
4781 ATTTATGAAA
1 A--AATAAAA
* *
4791 ATATAAAT
1 AAATAAAA
* *
4799 AAAGAAAG
1 AAATAAAA
4807 AAAT-AAA
1 AAATAAAA
4814 AAATAAAA
1 AAATAAAA
*
4822 ATAAGAAAA
1 A-AATAAAA
4831 AAATATAAA
1 AAATA-AAA
**
4840 ATGTAAATA
1 AAATAAA-A
4849 AACA-AAAA
1 AA-ATAAAA
4857 TACAAT-AAA
1 -A-AATAAAA
4866 AAATATAAA
1 AAATA-AAA
* *
4875 AAGTAAGA
1 AAATAAAA
4883 AAATAAAA
1 AAATAAAA
4891 AAA
1 AAA
4894 GACAAAAATT
Statistics
Matches: 125, Mismatches: 23, Indels: 32
0.69 0.13 0.18
Matches are distributed among these distances:
7 14 0.11
8 60 0.48
9 31 0.25
10 17 0.14
11 1 0.01
12 2 0.02
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.17
Consensus pattern (8 bp):
AAATAAAA
Found at i:4817 original size:19 final size:19
Alignment explanation
Indices: 4795--4840 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
4785 ATGAAAATAT
*
4795 AAATAAAGA-AAGAAATAAA
1 AAATAAAAATAAGAAA-AAA
4814 AAATAAAAATAAGAAAAAA
1 AAATAAAAATAAGAAAAAA
*
4833 ATATAAAA
1 AAATAAAA
4841 TGTAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (19 bp):
AAATAAAAATAAGAAAAAA
Found at i:4823 original size:25 final size:25
Alignment explanation
Indices: 4788--4892 Score: 99
Period size: 24 Copynumber: 4.2 Consensus size: 25
4778 AAAATTTATG
*
4788 AAAATATAAATAAAGAAAGAAATAA
1 AAAATATAAATAAAGAAAAAAATAA
* *
4813 AAAATAAAAAT-AAGAAAAAAATAT
1 AAAATATAAATAAAGAAAAAAATAA
* *
4837 AAAATGTAAATAAACAAAAATACAATAA
1 AAAATATAAATAAA-GAAAA-A-AATAA
*
4865 AAAATAT-AA-AAAGTAAGAAAATAA
1 AAAATATAAATAAAG-AAAAAAATAA
4889 AAAA
1 AAAA
4893 AGACAAAAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 11
0.76 0.12 0.13
Matches are distributed among these distances:
24 29 0.45
25 13 0.20
26 10 0.15
27 3 0.05
28 10 0.15
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (25 bp):
AAAATATAAATAAAGAAAAAAATAA
Found at i:4891 original size:35 final size:33
Alignment explanation
Indices: 4810--4902 Score: 109
Period size: 35 Copynumber: 2.8 Consensus size: 33
4800 AAGAAAGAAA
*
4810 TAAAAAATAAAAATAAGAAAAAAATATAAAATG
1 TAAAAAATAAAAATAAGAAAAAAATATAAAAAG
*
4843 TAAATAAACAAAAATACA-ATAAAAAATATAAAAAG
1 TAAA-AAATAAAAATA-AGA-AAAAAATATAAAAAG
*
4878 TAAGAAAATAAAAA-AAGACAAAAAT
1 TAA-AAAATAAAAATAAGAAAAAAAT
4903 TGAATAAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
33 11 0.22
34 13 0.25
35 26 0.51
36 1 0.02
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.16
Consensus pattern (33 bp):
TAAAAAATAAAAATAAGAAAAAAATATAAAAAG
Found at i:5264 original size:36 final size:36
Alignment explanation
Indices: 5222--5297 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
5212 TTTATGAAAT
*
5222 TAAATAA-AGAAAGAA-ATAAAAATAAACCAAATAAAA
1 TAAATAAGA-AAAGAATATAAAAATAAAACAAA-AAAA
* *
5258 TAAATAAGAAAAGAATATTAAAGTAAAACAAAAAAA
1 TAAATAAGAAAAGAATATAAAAATAAAACAAAAAAA
5294 TAAA
1 TAAA
5298 AATAAACAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 21 0.60
37 14 0.40
ACGTcount: A:0.74, C:0.04, G:0.07, T:0.16
Consensus pattern (36 bp):
TAAATAAGAAAAGAATATAAAAATAAAACAAAAAAA
Found at i:5304 original size:18 final size:18
Alignment explanation
Indices: 5223--5309 Score: 63
Period size: 18 Copynumber: 4.7 Consensus size: 18
5213 TTATGAAATT
* *
5223 AAATAAAGAAAGAAATAA
1 AAATAAACAAAAAAATAA
5241 AAATAAACCAAATAAAAT--
1 AAATAAA-CAAA-AAAATAA
* *
5259 AAATAAGA-AAAGAATATTA
1 AAATAA-ACAAA-AAAATAA
*
5278 AAGTAAAACAAAAAAATAA
1 AAAT-AAACAAAAAAATAA
5297 AAATAAACAAAAA
1 AAATAAACAAAAA
5310 TACAATAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
17 7 0.13
18 22 0.41
19 16 0.30
20 9 0.17
ACGTcount: A:0.76, C:0.05, G:0.06, T:0.14
Consensus pattern (18 bp):
AAATAAACAAAAAAATAA
Found at i:5599 original size:26 final size:27
Alignment explanation
Indices: 5570--5654 Score: 79
Period size: 26 Copynumber: 3.2 Consensus size: 27
5560 GCAAAATAAA
*
5570 AAGAAATTGGAAAAAAAAAGAAAAG-C
1 AAGAAATTAGAAAAAAAAAGAAAAGAC
*
5596 AAG-AATTAGAATAAAAAATGAAAAGAC
1 AAGAAATTAGAA-AAAAAAAGAAAAGAC
* *
5623 AA-AAGATTTGAAATAAAAAGAAAA-AC
1 AAGAA-ATTAGAAAAAAAAAGAAAAGAC
*
5649 GAGAAA
1 AAGAAA
5655 GTAAAAATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
25 7 0.15
26 19 0.40
27 16 0.33
28 6 0.12
ACGTcount: A:0.68, C:0.04, G:0.16, T:0.12
Consensus pattern (27 bp):
AAGAAATTAGAAAAAAAAAGAAAAGAC
Found at i:5819 original size:5 final size:5
Alignment explanation
Indices: 5809--5863 Score: 53
Period size: 5 Copynumber: 11.0 Consensus size: 5
5799 AGAAAAATAT
*
5809 TAAAA TAAAA TAAAA TAATTAA TAAAA AAAAA TAAAA -AAAA -AACAA
1 TAAAA TAAAA TAAAA TAA--AA TAAAA TAAAA TAAAA TAAAA TAA-AA
5855 -AAAA TAAAA
1 TAAAA TAAAA
5864 AGGAAGAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
4 8 0.18
5 31 0.70
7 5 0.11
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (5 bp):
TAAAA
Found at i:5824 original size:10 final size:9
Alignment explanation
Indices: 5809--5864 Score: 51
Period size: 9 Copynumber: 5.7 Consensus size: 9
5799 AGAAAAATAT
5809 TAAAATAAAA
1 TAAAA-AAAA
5819 TAAAATAATTAA
1 TAAAA-AA--AA
5831 TAAAAAAAAA
1 T-AAAAAAAA
5841 TAAAAAAAA
1 TAAAAAAAA
5850 -AACAAAAAA
1 TAA-AAAAAA
5859 TAAAAA
1 TAAAAA
5865 GGAAGAAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
8 2 0.05
9 17 0.41
10 13 0.32
12 5 0.12
13 4 0.10
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:5850 original size:14 final size:14
Alignment explanation
Indices: 5778--5882 Score: 59
Period size: 17 Copynumber: 6.6 Consensus size: 14
5768 AAAAAATAGG
5778 AAAAAAAAGACAAAAT
1 AAAAAAAA-A-AAAAT
* *
5794 AAGAAAGAAAAATATT
1 AA-AAA-AAAAAAAAT
*
5810 AAAATAAAATAAAAT
1 AAAA-AAAAAAAAAT
5825 AATTAATAAAAAAAAAT
1 AA--AA-AAAAAAAAAT
5842 AAAAAAAAAACAAA-
1 AAAAAAAAAA-AAAT
5856 AAATAAAAAGGAAGAAAT
1 AAA-AAAAA--AA-AAAT
5874 AAAAAAAAA
1 AAAAAAAAA
5883 TATAAAAAAG
Statistics
Matches: 72, Mismatches: 7, Indels: 21
0.72 0.07 0.21
Matches are distributed among these distances:
14 9 0.12
15 21 0.29
16 8 0.11
17 28 0.39
18 6 0.08
ACGTcount: A:0.80, C:0.02, G:0.06, T:0.12
Consensus pattern (14 bp):
AAAAAAAAAAAAAT
Found at i:6484 original size:34 final size:33
Alignment explanation
Indices: 6435--6498 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 33
6425 AAGCAAAAGG
* *
6435 AAAAGATAAATAAGTAATAAAAAAGAAAAAAATA
1 AAAAAATAAAGAAGTAA-AAAAAAGAAAAAAATA
**
6469 AAAAAATAAAGAAGTAAGGAAAAGAAAAAA
1 AAAAAATAAAGAAGTAAAAAAAAGAAAAAA
6499 TGAGTCAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 11 0.42
34 15 0.58
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.11
Consensus pattern (33 bp):
AAAAAATAAAGAAGTAAAAAAAAGAAAAAAATA
Found at i:6941 original size:19 final size:18
Alignment explanation
Indices: 6903--6942 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6893 AGAAAATTTT
* *
6903 AAAACAAAGAAAAAAGTG
1 AAAACAAAAAAAAAAATG
6921 AAAACAAAAAAAAAATATG
1 AAAACAAAAAAAAAA-ATG
6940 AAA
1 AAA
6943 GCACATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.78, C:0.05, G:0.10, T:0.07
Consensus pattern (18 bp):
AAAACAAAAAAAAAAATG
Found at i:7143 original size:39 final size:35
Alignment explanation
Indices: 7100--7172 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 35
7090 AAAATATAAA
*
7100 TAAAGAAAGAAATTAAAAATAAAAATAAGAAAAAAATAT
1 TAAAGAAA-AAAAT-AAAAT-AAAATAA-AAAAAAATAT
*
7139 TAAAGAAAAAAATAAAATAAAATAAACAAAAATA
1 TAAAGAAAAAAATAAAATAAAATAAAAAAAAATA
7173 CAATAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 8 0.25
36 7 0.22
37 5 0.16
38 4 0.12
39 8 0.25
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.16
Consensus pattern (35 bp):
TAAAGAAAAAAATAAAATAAAATAAAAAAAAATAT
Found at i:7149 original size:26 final size:25
Alignment explanation
Indices: 7090--7162 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
7080 AAAATTTATG
* *
7090 AAAATATAAATAAAGAAAGAA-ATTA
1 AAAATAAAAATAAA-AAAAAATATTA
7115 AAAATAAAAATAAGAAAAAAATATTA
1 AAAATAAAAATAA-AAAAAAATATTA
*
7141 AAGAA-AAAAATAAAATAAAATA
1 AA-AATAAAAATAAAAAAAAATA
7163 AACAAAAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 25 0.60
26 15 0.36
27 2 0.05
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (25 bp):
AAAATAAAAATAAAAAAAAATATTA
Found at i:7155 original size:32 final size:33
Alignment explanation
Indices: 7114--7204 Score: 98
Period size: 32 Copynumber: 2.7 Consensus size: 33
7104 GAAAGAAATT
* *
7114 AAAAATAAAAATAAGAAAAAAATATTA-AAGAA
1 AAAAATAAAAATAAGAAAAAAAAAATACAAGAA
*
7146 AAAAAT-AAAATAA-AATAAACAAAAATACAATAA
1 AAAAATAAAAATAAGAA-AAA-AAAAATACAAGAA
7179 AAAATATAAAAAGTAAGAAAAAAAAA
1 AAAA-ATAAAAA-TAAGAAAAAAAAA
7205 GGCAAAAATT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
30 2 0.04
31 10 0.20
32 11 0.22
33 8 0.16
34 2 0.04
35 8 0.16
36 6 0.12
37 2 0.04
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.14
Consensus pattern (33 bp):
AAAAATAAAAATAAGAAAAAAAAAATACAAGAA
Found at i:7170 original size:15 final size:14
Alignment explanation
Indices: 7147--7189 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
7137 ATTAAAGAAA
7147 AAAATAAAATAAAAT
1 AAAA-AAAATAAAAT
*
7162 AAACAAAAATACAAT
1 AAA-AAAAATAAAAT
*
7177 AAAAAATATAAAA
1 AAAAAAAATAAAA
7190 AGTAAGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 8 0.33
15 15 0.62
16 1 0.04
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAAAAAATAAAAT
Found at i:7770 original size:16 final size:15
Alignment explanation
Indices: 7611--7786 Score: 57
Period size: 15 Copynumber: 11.7 Consensus size: 15
7601 TAAAACAAAA
7611 AAAATAAAAAA-AACG
1 AAAATAAAAAATAA-G
*
7626 AAAAT--ACAATAA-
1 AAAATAAAAAATAAG
**
7638 AAATATAAAAGGTAAG
1 AAA-ATAAAAAATAAG
*
7654 ATAATAAAAAATAA-
1 AAAATAAAAAATAAG
** *
7668 TTAATCAAAAATACA-
1 AAAATAAAAAATA-AG
*
7683 AAAATTGAAAAAA-AAT
1 AAAA-T-AAAAAATAAG
* *
7699 AAAATAAAATACTAAA
1 AAAATAAAA-AATAAG
* *
7715 AAAAT-AACAATTA-
1 AAAATAAAAAATAAG
*
7728 AAAATAAACAAA-AACA
1 AAAATAAA-AAATAA-G
7744 AAAAGTAAAAAAGTAAG
1 AAAA-TAAAAAA-TAAG
*
7761 AAAATAAAAAATTAG
1 AAAATAAAAAATAAG
*
7776 AGAATAAAAAA
1 AAAATAAAAAA
7787 ATATAAAACG
Statistics
Matches: 121, Mismatches: 22, Indels: 36
0.68 0.12 0.20
Matches are distributed among these distances:
12 3 0.02
13 10 0.08
14 23 0.19
15 41 0.34
16 29 0.24
17 13 0.11
18 2 0.02
ACGTcount: A:0.73, C:0.05, G:0.06, T:0.16
Consensus pattern (15 bp):
AAAATAAAAAATAAG
Found at i:7929 original size:24 final size:23
Alignment explanation
Indices: 7902--7957 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
7892 AAAGACATAA
7902 AAAATCAAAGACAAAAAATAAAAT
1 AAAATCAAAGACAAAAAAT-AAAT
* *
7926 AAAAGTC-AATACAAAATATAAAT
1 AAAA-TCAAAGACAAAAAATAAAT
7949 AAAATCAAA
1 AAAATCAAA
7958 AGGAAGTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 2 0.07
23 10 0.36
24 14 0.50
25 2 0.07
ACGTcount: A:0.71, C:0.09, G:0.04, T:0.16
Consensus pattern (23 bp):
AAAATCAAAGACAAAAAATAAAT
Found at i:9339 original size:22 final size:23
Alignment explanation
Indices: 9301--9363 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
9291 CAAATTTTAT
*
9301 TAAATAAAAGATAAATTACACGA
1 TAAATAAAAGATAAATTACAAGA
*
9324 TAAATAAAA-ATAAATTTCAAGA
1 TAAATAAAAGATAAATTACAAGA
* *
9346 TAAAATACAAGATGAATT
1 T-AAATAAAAGATAAATT
9364 TAATTAGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 12 0.35
23 16 0.47
24 6 0.18
ACGTcount: A:0.60, C:0.06, G:0.08, T:0.25
Consensus pattern (23 bp):
TAAATAAAAGATAAATTACAAGA
Found at i:10048 original size:19 final size:18
Alignment explanation
Indices: 10010--10049 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
10000 AGAAAATTTT
* *
10010 AAAACAAAGAAAAAAGTG
1 AAAACAAAAAAAAAAATG
10028 AAAACAAAAAAAAAATATG
1 AAAACAAAAAAAAAA-ATG
10047 AAA
1 AAA
10050 GCACATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.78, C:0.05, G:0.10, T:0.07
Consensus pattern (18 bp):
AAAACAAAAAAAAAAATG
Found at i:10186 original size:7 final size:7
Alignment explanation
Indices: 10147--10344 Score: 73
Period size: 7 Copynumber: 26.4 Consensus size: 7
10137 CAACAACGAT
10147 AAATAAA
1 AAATAAA
*
10154 AAAGAAA
1 AAATAAA
*
10161 AGATAAA
1 AAATAAA
10168 AAGATAAAA
1 AA-AT-AAA
10177 AAATAAAA
1 AAAT-AAA
10185 AAATCCAAA
1 AAAT--AAA
10194 ACATTATAAA
1 A-A--ATAAA
10204 AATTTATGAAA
1 AA---AT-AAA
*
10215 ATATAAA
1 AAATAAA
*
10222 TAAAGAAA
1 -AAATAAA
10230 GAAATAAA
1 -AAATAAA
10238 AAAT-AA
1 AAATAAA
*
10244 AAATAAG
1 AAATAAA
10251 AAA-AAA
1 AAATAAA
*
10257 ATATAAA
1 AAATAAA
**
10264 ATGTAAA
1 AAATAAA
*
10271 TAAA-CAA
1 -AAATAAA
10278 AAAT--A
1 AAATAAA
*
10283 CAATAAA
1 AAATAAA
10290 AAATATAA
1 AAATA-AA
10298 AAAGTAAGA
1 AAA-TAA-A
10307 AAATAAA
1 AAATAAA
*
10314 AAATAAT
1 AAATAAA
* *
10321 GAATCAA
1 AAATAAA
*
10328 AAACAAA
1 AAATAAA
10335 AAATAAA
1 AAATAAA
10342 AAA
1 AAA
10345 AGACAAAAAT
Statistics
Matches: 146, Mismatches: 27, Indels: 36
0.70 0.13 0.17
Matches are distributed among these distances:
5 4 0.03
6 13 0.09
7 63 0.43
8 35 0.24
9 16 0.11
10 9 0.06
11 4 0.03
12 2 0.01
ACGTcount: A:0.74, C:0.04, G:0.06, T:0.17
Consensus pattern (7 bp):
AAATAAA
Found at i:10241 original size:19 final size:19
Alignment explanation
Indices: 10219--10353 Score: 61
Period size: 20 Copynumber: 7.0 Consensus size: 19
10209 ATGAAAATAT
*
10219 AAATAAAGA-AAGAAATAAA
1 AAATAAAAATAAGAAA-AAA
10238 AAATAAAAATAAGAAAAAA
1 AAATAAAAATAAGAAAAAA
* * *
10257 ATAT-AAAAT--G-TAAAT
1 AAATAAAAATAAGAAAAAA
*
10272 AAACAAAAATACA-ATAAAAA
1 AAATAAAAATA-AGA-AAAAA
*
10292 ATATAAAAAGTAAGAAAATAAA
1 AAATAAAAA-TAAG-AAA-AAA
*
10314 AAATAATGAATCAA-AAACAAA
1 AAATAA-AAAT-AAGAAA-AAA
10335 AAATAAAAA-AAGACAAAAA
1 AAATAAAAATAAGA-AAAAA
10354 TTGAATAAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 30
0.66 0.11 0.23
Matches are distributed among these distances:
15 5 0.06
16 6 0.07
18 7 0.08
19 18 0.21
20 21 0.24
21 16 0.18
22 10 0.11
23 4 0.05
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (19 bp):
AAATAAAAATAAGAAAAAA
Found at i:10251 original size:24 final size:23
Alignment explanation
Indices: 10212--10319 Score: 81
Period size: 24 Copynumber: 4.4 Consensus size: 23
10202 AAAATTTATG
* *
10212 AAAATATAAATAAAGAAAGAAAT
1 AAAAAATAAAAAAAGAAAGAAAT
*
10235 AAAAAATAAAAATAAGAAAAAAAT
1 AAAAAATAAAAA-AAGAAAGAAAT
* * *
10259 ATAAAATGTAAATAAACAAAAATACAAT
1 A-AAAA-ATAAA-AAA-AGAAAGA-AAT
* *
10287 AAAAAATATAAAAAGTAAGAAAAT
1 AAAAAATAAAAAAAGAAAG-AAAT
10311 AAAAAATAA
1 AAAAAATAA
10320 TGAATCAAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
23 10 0.15
24 25 0.38
25 8 0.12
26 8 0.12
27 11 0.17
28 4 0.06
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.17
Consensus pattern (23 bp):
AAAAAATAAAAAAAGAAAGAAAT
Found at i:10315 original size:35 final size:33
Alignment explanation
Indices: 10234--10315 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 33
10224 AAGAAAGAAA
*
10234 TAAAAAATAAAAATAAGAAAAAAATATAAAATG
1 TAAAAAATAAAAATAAGAAAAAAATATAAAAAG
*
10267 TAAATAAACAAAAATACA-ATAAAAAATATAAAAAG
1 TAAA-AAATAAAAATA-AGA-AAAAAATATAAAAAG
10302 TAAGAAAATAAAAA
1 TAA-AAAATAAAAA
10316 ATAATGAATC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 4 0.10
34 11 0.26
35 26 0.62
36 1 0.02
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (33 bp):
TAAAAAATAAAAATAAGAAAAAAATATAAAAAG
Found at i:10345 original size:8 final size:8
Alignment explanation
Indices: 10145--10316 Score: 55
Period size: 8 Copynumber: 20.0 Consensus size: 8
10135 ACCAACAACG
10145 ATAAATAAA
1 ATAAA-AAA
10154 A-AAGAAAA
1 ATAA-AAAA
*
10162 GATAAAAAG
1 -ATAAAAAA
10171 ATAAAAAA
1 ATAAAAAA
10179 ATAAAAAA
1 ATAAAAAA
*
10187 ATCCAAAACATT
1 AT--AAAA-A-A
*
10199 ATAAAAATTT
1 ATAAAAA--A
* *
10209 ATGAAAAT
1 ATAAAAAA
*
10217 ATAAATAA
1 ATAAAAAA
* *
10225 AGAAAGAA
1 ATAAAAAA
10233 AT-AAAAA
1 ATAAAAAA
10240 ATAAAAATA
1 ATAAAAA-A
*
10249 AGAAAAAA
1 ATAAAAAA
*
10257 ATATAAAAT
1 ATA-AAAAA
*
10266 GTAAATAAA
1 ATAAA-AAA
10275 CA-AAAATACA
1 -ATAAAA-A-A
10285 AT-AAAAA
1 ATAAAAAA
10292 ATATAAAAA
1 ATA-AAAAA
* *
10301 GTAAGAAA
1 ATAAAAAA
10309 ATAAAAAA
1 ATAAAAAA
10317 TAATGAATCA
Statistics
Matches: 124, Mismatches: 21, Indels: 37
0.68 0.12 0.20
Matches are distributed among these distances:
7 9 0.07
8 56 0.45
9 37 0.30
10 19 0.15
11 1 0.01
12 2 0.02
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.17
Consensus pattern (8 bp):
ATAAAAAA
Found at i:10674 original size:463 final size:469
Alignment explanation
Indices: 10175--11057 Score: 1212
Period size: 477 Copynumber: 1.9 Consensus size: 469
10165 AAAAAGATAA
10175 AAAAATAAAAAAATCCAAAACATTATAAAAATTTATGAAAATATAAATAAAGAAAGAAATAAAAA
1 AAAAATAAAAAAATCCAAAACATTATAAAAATTTATGAAAATATAAATAAAGAAAGAAATAAAAA
* *
10240 AT-AA-AAATAAGAAA-AAAAT-ATAA-AAT-GTAAA-T-AAACAAAAATACAATAAAAAATATA
66 ATAAACAAATAA-AAATAAAATAAAAAGAATAGTAAAGTAAAACAAAAA-A-AATAAAAAATAAA
* *
10297 -AAAAGT-AA-GAAAATA-AAAAA-TAATGAATCAA-AAACAAA-AAATAA-AAAAAGACAAAAA
128 CAAAAATAAATAAAAATATAAAAAGTAA-GAA--AATAAA-AAATAAATAACAAAAAGACAAAAA
* *
10354 TTGAATAAAAATTTCA-AAAATG-AAAGGAAATGACAAAATAGAAAAAAAATA-TTTTAAAAAAT
189 TTGAATAAAAATTT-AGAAAATGAAAAAG-AATGACAAAATAAAAAAAAAATAGTTTT-AAAAAT
* * *
10416 ACAAAAAATTGAAAAACATATAAGAAATAATAAGAAAACAATATAAAAAATCAAAGACAAAAGAT
251 ACAAAAAATTGAAAAACATATAAGAAATAACAAGAAAACAATAGAAAAAATCAAAGACAAAAAAT
10481 TAAAAAAGAGAAAAGTTAATGCAAAATAAAAATGAAAACCAAAGAAGAAAATGCAACAAAAAAAC
316 TAAAAAAGAG--AAGTTAATGCAAAATAAAAATGAAAACCAAAGAAGAAAATG-AA-AAAAAAAC
* * *
10546 TATAAGAATTTGAAAATGAAAATAAGAAATAAAAAGAAATTTGTGAAAAAATTAAGAAAATAATA
377 TACAAGAATTTAAAAACGAAAATAAGAAATAAAAAGAAATTTGTGAAAAAATTAAGAAAATAATA
10611 AAAATGAAAAGACAAAAGATGATTTATG
442 AAAATGAAAAGACAAAAGATGATTTATG
* * *
10639 AAAAAT-AAAAAATCCAAAACATTCTAAACATTTATGAAAATTTAAATAAAGAAAGAAATAAAAA
1 AAAAATAAAAAAATCCAAAACATTATAAAAATTTATGAAAATATAAATAAAGAAAGAAATAAAAA
*
10703 ATAAACCAAATAAAAATAAAATAAGAAAAGAATATTAAAGTAAAACAAAAAAAATAAAAAATAAA
66 ATAAA-CAAATAAAAATAAAAT-A-AAAAGAATAGTAAAGTAAAACAAAAAAAATAAAAAATAAA
* *
10768 CAAAAATACAATAAAAATATAAAAAGTAAGAAAATAAAAAATAATTAATCAAAAATACAAAAATT
128 CAAAAATA-AATAAAAATATAAAAAGTAAGAAAATAAAAAATAAATAA-CAAAAAGACAAAAATT
*
10833 GAATAAAAATTTAGAAAGTGAAAAAGAATGACAAAATAAAAAAAAAATAGTTTTAAAAATACAAA
191 GAATAAAAATTTAGAAAATGAAAAAGAATGACAAAATAAAAAAAAAATAGTTTTAAAAATACAAA
**
10898 AAATTGAAAAACATATAAGAAATAACAAGAAAACAATAGAAAAGGTCAAAGACAAAAAATTAAAA
256 AAATTGAAAAACATATAAGAAATAACAAGAAAACAATAGAAAAAATCAAAGACAAAAAATTAAAA
* * * * *
10963 AAGAGAAGTTATTGCAAAATAAAAATGAAAACCAAAGGAGAAATTGAAAAAAAAAGTACGAGAAT
321 AAGAGAAGTTAATGCAAAATAAAAATGAAAACCAAAGAAGAAAATGAAAAAAAAACTACAAGAAT
*
11028 TTAAAAACGCAAATAAGAAATAAAAAGAAA
386 TTAAAAACGAAAATAAGAAATAAAAAGAAA
11058 AGCAAGAATA
Statistics
Matches: 368, Mismatches: 27, Indels: 39
0.85 0.06 0.09
Matches are distributed among these distances:
463 57 0.15
464 8 0.02
465 3 0.01
466 11 0.03
469 3 0.01
470 3 0.01
471 16 0.04
472 7 0.02
473 50 0.14
474 9 0.02
475 52 0.14
476 9 0.02
477 132 0.36
478 8 0.02
ACGTcount: A:0.68, C:0.05, G:0.09, T:0.18
Consensus pattern (469 bp):
AAAAATAAAAAAATCCAAAACATTATAAAAATTTATGAAAATATAAATAAAGAAAGAAATAAAAA
ATAAACAAATAAAAATAAAATAAAAAGAATAGTAAAGTAAAACAAAAAAAATAAAAAATAAACAA
AAATAAATAAAAATATAAAAAGTAAGAAAATAAAAAATAAATAACAAAAAGACAAAAATTGAATA
AAAATTTAGAAAATGAAAAAGAATGACAAAATAAAAAAAAAATAGTTTTAAAAATACAAAAAATT
GAAAAACATATAAGAAATAACAAGAAAACAATAGAAAAAATCAAAGACAAAAAATTAAAAAAGAG
AAGTTAATGCAAAATAAAAATGAAAACCAAAGAAGAAAATGAAAAAAAAACTACAAGAATTTAAA
AACGAAAATAAGAAATAAAAAGAAATTTGTGAAAAAATTAAGAAAATAATAAAAATGAAAAGACA
AAAGATGATTTATG
Found at i:10733 original size:39 final size:38
Alignment explanation
Indices: 10682--10761 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 38
10672 ATGAAAATTT
*
10682 AAATAAAGAAAGAA-ATAAAAAATAAACCAAATAAAAATA
1 AAATAAAGAAAGAATAT-AAAAATAAAACAAA-AAAAATA
* *
10721 AAAT-AAGAAAAGAATATTAAAGTAAAACAAAAAAAATA
1 AAATAAAG-AAAGAATATAAAAATAAAACAAAAAAAATA
10759 AAA
1 AAA
10762 AATAAACAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
38 13 0.36
39 21 0.58
40 2 0.06
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (38 bp):
AAATAAAGAAAGAATATAAAAATAAAACAAAAAAAATA
Found at i:10792 original size:38 final size:39
Alignment explanation
Indices: 10750--10830 Score: 89
Period size: 38 Copynumber: 2.1 Consensus size: 39
10740 AAGTAAAACA
10750 AAAAAAATAA-AAAATAAACAAA-AATACAAT-AAAAATA-
1 AAAAAAATAAGAAAATAAA-AAATAAT-CAATCAAAAATAC
* * *
10787 TAAAAAGTAAGAAAATAAAAAATAATTAATCAAAAATAC
1 AAAAAAATAAGAAAATAAAAAATAATCAATCAAAAATAC
10826 AAAAA
1 AAAAA
10831 TTGAATAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
37 14 0.39
38 18 0.50
39 4 0.11
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (39 bp):
AAAAAAATAAGAAAATAAAAAATAATCAATCAAAAATAC
Found at i:10830 original size:8 final size:7
Alignment explanation
Indices: 10694--10831 Score: 84
Period size: 7 Copynumber: 18.6 Consensus size: 7
10684 ATAAAGAAAG
10694 AAATAAA
1 AAATAAA
10701 AAATAAA
1 AAATAAA
10708 CCAAAT-AA
1 --AAATAAA
10716 AAATAAA
1 AAATAAA
*
10723 ATAAGAAA
1 A-AATAAA
*
10731 AGAATATTA
1 A-AATA-AA
*
10740 AAGTAAA
1 AAATAAA
10747 ACAA-AAA
1 A-AATAAA
10754 AAATAAA
1 AAATAAA
10761 AAATAAA
1 AAATAAA
10768 CAAA-AATA
1 -AAATAA-A
*
10776 CAATAAA
1 AAATAAA
10783 AATATAAA
1 AA-ATAAA
*
10791 AAGTAAGA
1 AAATAA-A
10799 AAATAAA
1 AAATAAA
*
10806 AAATAAT
1 AAATAAA
* *
10813 TAATCAA
1 AAATAAA
10820 AAATACAA
1 AAATA-AA
10828 AAAT
1 AAAT
10832 TGAATAAAAA
Statistics
Matches: 101, Mismatches: 17, Indels: 25
0.71 0.12 0.17
Matches are distributed among these distances:
6 6 0.06
7 49 0.49
8 40 0.40
9 6 0.06
ACGTcount: A:0.75, C:0.05, G:0.04, T:0.17
Consensus pattern (7 bp):
AAATAAA
Found at i:11070 original size:24 final size:24
Alignment explanation
Indices: 11043--11116 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 24
11033 AACGCAAATA
11043 AGAAATAAAAAGAAAAGCAAGAAT
1 AGAAATAAAAAGAAAAGCAAGAAT
*
11067 AG-AATAAAAATGAAAAGACAAAAGATT
1 AGAAATAAAAA-GAAAAG-C--AAGAAT
*
11094 TGAAATAAAAAAGAAAA-CAAGAA
1 AGAAAT-AAAAAGAAAAGCAAGAA
11117 AGTAAAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
23 8 0.20
24 12 0.29
25 1 0.02
26 1 0.02
27 6 0.15
28 8 0.20
29 5 0.12
ACGTcount: A:0.70, C:0.04, G:0.15, T:0.11
Consensus pattern (24 bp):
AGAAATAAAAAGAAAAGCAAGAAT
Found at i:11248 original size:21 final size:20
Alignment explanation
Indices: 11224--11266 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
11214 GAAAAATTAT
*
11224 AAAATAGAACAAAAAATAGAA
1 AAAAAAGAACAAAAAA-AGAA
* *
11245 AAAAAAGGACAAAATAAGAA
1 AAAAAAGAACAAAAAAAGAA
11265 AA
1 AA
11267 TGAAAAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.77, C:0.05, G:0.12, T:0.07
Consensus pattern (20 bp):
AAAAAAGAACAAAAAAAGAA
Found at i:11266 original size:8 final size:7
Alignment explanation
Indices: 11255--11393 Score: 63
Period size: 8 Copynumber: 18.6 Consensus size: 7
11245 AAAAAAGGAC
11255 AAAATAA
1 AAAATAA
11262 GAAAATGAA
1 -AAAAT-AA
11271 AAAATAAA
1 AAAAT-AA
11279 AAAGATTCAA
1 AAA-A-T-AA
11289 AAAAT-A
1 AAAATAA
11295 AAAATAA
1 AAAATAA
11302 AAAAT--
1 AAAATAA
11307 -AAATGAA
1 AAAAT-AA
11314 AAAATAA
1 AAAATAA
*
11321 ATTAATAA
1 A-AAATAA
*
11329 AAAATATT
1 AAAATA-A
*
11337 AATATAA
1 AAAATAA
11344 AAGAA-AA
1 AA-AATAA
*
11351 AAATAAACA
1 AAA-ATA-A
*
11360 AAAACAA
1 AAAATAA
11367 AAAATAA
1 AAAATAA
*
11374 AAAAGGAA
1 AAAA-TAA
11382 GAAAATAA
1 -AAAATAA
11390 AAAA
1 AAAA
11394 ATTAGCTAAT
Statistics
Matches: 103, Mismatches: 12, Indels: 33
0.70 0.08 0.22
Matches are distributed among these distances:
4 4 0.04
6 7 0.07
7 35 0.34
8 39 0.38
9 12 0.12
10 6 0.06
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:11303 original size:13 final size:13
Alignment explanation
Indices: 11287--11376 Score: 69
Period size: 13 Copynumber: 6.9 Consensus size: 13
11277 AAAAAGATTC
11287 AAAAAATAAAAAT
1 AAAAAATAAAAAT
11300 AAAAAAT--AAAT
1 AAAAAATAAAAAT
11311 GAAAAAATAAATTAAT
1 -AAAAAATAAA--AAT
**
11327 AAAAAATATTAAT
1 AAAAAATAAAAAT
* *
11340 ATAAAAGAAAAA-
1 AAAAAATAAAAAT
* * *
11352 AATAAACAAAAAC
1 AAAAAATAAAAAT
11365 AAAAAATAAAAA
1 AAAAAATAAAAA
11377 AGGAAGAAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
11 4 0.07
12 16 0.27
13 28 0.47
14 1 0.02
15 8 0.13
16 3 0.05
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:11331 original size:16 final size:16
Alignment explanation
Indices: 11290--11374 Score: 66
Period size: 17 Copynumber: 5.2 Consensus size: 16
11280 AAGATTCAAA
11290 AAATAAAAATAAAAAAT
1 AAATAAAAA-AAAAAAT
* *
11307 AAATGAAAAAATAAAT
1 AAATAAAAAAAAAAAT
* * *
11323 TAAT--AAAAAATATT
1 AAATAAAAAAAAAAAT
11337 AATATAAAAGAAAAAAAT
1 AA-ATAAAA-AAAAAAAT
*
11355 AAACAAAAACAAAAAAT
1 AAATAAAAA-AAAAAAT
11372 AAA
1 AAA
11375 AAAGGAAGAA
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
14 8 0.15
15 2 0.04
16 10 0.19
17 25 0.47
18 8 0.15
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (16 bp):
AAATAAAAAAAAAAAT
Found at i:11691 original size:26 final size:26
Alignment explanation
Indices: 11672--11724 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
11662 AAAAAGCAAG
11672 AAAAAAT-AAAAAAATTAAAATACAA
1 AAAAAATAAAAAAAATTAAAATACAA
* *
11697 AACATATAAAAAAAATT-AAA-ACAA
1 AAAAAATAAAAAAAATTAAAATACAA
11721 AAAA
1 AAAA
11725 GAGAAAGCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
24 7 0.29
25 8 0.33
26 9 0.38
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (26 bp):
AAAAAATAAAAAAAATTAAAATACAA
Found at i:12189 original size:111 final size:111
Alignment explanation
Indices: 12074--12287 Score: 262
Period size: 112 Copynumber: 1.9 Consensus size: 111
12064 AAAAACTAAT
12074 AAAAATGAAAA-AAATG-GCAAAATAGAAAAAAA-TTAAGTTTACAAAATACAAAC-AAAA-AA-
1 AAAAATGAAAAGAAATGAG-AAAATAGAAAAAAATTTAA-TTTACAAAATACAAACAAAAATAAG
12133 TAATAAGATATAAAGATATAAAAAATCAAAGATA-AAAAATTAAAAGAAGTTC
64 TAATAAGA-A-AAA-A-A-AAAAAATCAAAGATACAAAAATTAAAAGAAGTTC
** * * *
12185 AAAAATGAAAAGGGATGAGAAAGTAGAAAAAAATTTAATTTAGAAAATACAAGCAAAAATAATGT
1 AAAAATGAAAAGAAATGAGAAAATAGAAAAAAATTTAATTTACAAAATACAAACAAAAATAA-GT
12250 AATAAGAAAAAAAAAAAAATCAAAGATACAAAAATTAA
65 AATAAGAAAAAAAAAAAAATCAAAGATACAAAAATTAA
12288 CAGAGGGAAA
Statistics
Matches: 90, Mismatches: 5, Indels: 15
0.82 0.05 0.14
Matches are distributed among these distances:
111 26 0.29
112 40 0.44
113 10 0.11
114 5 0.06
115 1 0.01
116 8 0.09
ACGTcount: A:0.66, C:0.05, G:0.11, T:0.18
Consensus pattern (111 bp):
AAAAATGAAAAGAAATGAGAAAATAGAAAAAAATTTAATTTACAAAATACAAACAAAAATAAGTA
ATAAGAAAAAAAAAAAAATCAAAGATACAAAAATTAAAAGAAGTTC
Found at i:12488 original size:19 final size:18
Alignment explanation
Indices: 12450--12489 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
12440 AGAAAATTTT
* *
12450 AAAACAAAGAAAAAAGTG
1 AAAACAAAAAAAAAAATG
12468 AAAACAAAAAAAAAATATG
1 AAAACAAAAAAAAAA-ATG
12487 AAA
1 AAA
12490 GCACATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.78, C:0.05, G:0.10, T:0.07
Consensus pattern (18 bp):
AAAACAAAAAAAAAAATG
Found at i:12681 original size:39 final size:35
Alignment explanation
Indices: 12638--12710 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 35
12628 AAAATATAAA
*
12638 TAAAGAAAGAAATTAAAAATAAAAATAAGAAAAAAATAT
1 TAAAGAAA-AAAAT-AAAAT-AAAATAA-AAAAAAATAT
*
12677 TAAAGAAAAAAATAAAATAAAATAAACAAAAATA
1 TAAAGAAAAAAATAAAATAAAATAAAAAAAAATA
12711 CAATAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 8 0.25
36 7 0.22
37 5 0.16
38 4 0.12
39 8 0.25
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.16
Consensus pattern (35 bp):
TAAAGAAAAAAATAAAATAAAATAAAAAAAAATAT
Found at i:12687 original size:26 final size:25
Alignment explanation
Indices: 12628--12700 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
12618 AAAATTTATG
* *
12628 AAAATATAAATAAAGAAAGAA-ATTA
1 AAAATAAAAATAAA-AAAAAATATTA
12653 AAAATAAAAATAAGAAAAAAATATTA
1 AAAATAAAAATAA-AAAAAAATATTA
*
12679 AAGAA-AAAAATAAAATAAAATA
1 AA-AATAAAAATAAAAAAAAATA
12701 AACAAAAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 25 0.60
26 15 0.36
27 2 0.05
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (25 bp):
AAAATAAAAATAAAAAAAAATATTA
Found at i:12693 original size:32 final size:33
Alignment explanation
Indices: 12652--12742 Score: 98
Period size: 32 Copynumber: 2.7 Consensus size: 33
12642 GAAAGAAATT
* *
12652 AAAAATAAAAATAAGAAAAAAATATTA-AAGAA
1 AAAAATAAAAATAAGAAAAAAAAAATACAAGAA
*
12684 AAAAAT-AAAATAA-AATAAACAAAAATACAATAA
1 AAAAATAAAAATAAGAA-AAA-AAAAATACAAGAA
12717 AAAATATAAAAAGTAAGAAAAAAAAA
1 AAAA-ATAAAAA-TAAGAAAAAAAAA
12743 GGCAAAAATT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
30 2 0.04
31 10 0.20
32 11 0.22
33 8 0.16
34 2 0.04
35 8 0.16
36 6 0.12
37 2 0.04
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.14
Consensus pattern (33 bp):
AAAAATAAAAATAAGAAAAAAAAAATACAAGAA
Found at i:12708 original size:15 final size:14
Alignment explanation
Indices: 12685--12727 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
12675 ATTAAAGAAA
12685 AAAATAAAATAAAAT
1 AAAA-AAAATAAAAT
*
12700 AAACAAAAATACAAT
1 AAA-AAAAATAAAAT
*
12715 AAAAAATATAAAA
1 AAAAAAAATAAAA
12728 AGTAAGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 8 0.33
15 15 0.62
16 1 0.04
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAAAAAATAAAAT
Found at i:13310 original size:16 final size:15
Alignment explanation
Indices: 13091--13326 Score: 59
Period size: 15 Copynumber: 15.7 Consensus size: 15
13081 ATAAAGAAAG
*
13091 AAATAAAAAATAAACCA
1 AAATAAAAAAT-AA-GA
13108 AAAT-AAAAATAA-A
1 AAATAAAAAATAAGA
* **
13121 ATAAGAAAACAATATTA
1 A-AATAAAA-AATAAGA
*
13138 AAGTAAAACAA-AA-A
1 AAATAAAA-AATAAGA
13152 AAATAAAAAA-AACGA
1 AAATAAAAAATAA-GA
*
13167 AAAT--ACAATAA-A
1 AAATAAAAAATAAGA
**
13179 AATATAAAAGGTAAGA
1 AA-ATAAAAAATAAGA
* *
13195 TAATAAAAAATAA-T
1 AAATAAAAAATAAGA
* *
13209 TAATCAAAAATACA-A
1 AAATAAAAAATA-AGA
*
13224 AAATTGAAAAAA-AATA
1 AAA-T-AAAAAATAAGA
* *
13240 AAATAAAATACTAAAA
1 AAATAAAA-AATAAGA
* *
13256 AAAT-AACAATTA-A
1 AAATAAAAAATAAGA
*
13269 AAATAAACAAA-AACAA
1 AAATAAA-AAATAA-GA
13285 AAAGTAAAAAAGTAAGA
1 AAA-TAAAAAA-TAAGA
*
13302 AAATAAAAAATTAGA
1 AAATAAAAAATAAGA
*
13317 GAATAAAAAA
1 AAATAAAAAA
13327 ATATAAAACG
Statistics
Matches: 167, Mismatches: 28, Indels: 50
0.68 0.11 0.20
Matches are distributed among these distances:
12 3 0.02
13 16 0.10
14 33 0.20
15 47 0.28
16 47 0.28
17 19 0.11
18 2 0.01
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (15 bp):
AAATAAAAAATAAGA
Found at i:13468 original size:24 final size:23
Alignment explanation
Indices: 13441--13496 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
13431 AAAGACATAA
13441 AAAATCAAAGACAAAAAATAAAAT
1 AAAATCAAAGACAAAAAAT-AAAT
* *
13465 AAAAGTC-AATACAAAATATAAAT
1 AAAA-TCAAAGACAAAAAATAAAT
13488 AAAATCAAA
1 AAAATCAAA
13497 AGGAAGTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 2 0.07
23 10 0.36
24 14 0.50
25 2 0.07
ACGTcount: A:0.71, C:0.09, G:0.04, T:0.16
Consensus pattern (23 bp):
AAAATCAAAGACAAAAAATAAAT
Found at i:14885 original size:22 final size:23
Alignment explanation
Indices: 14847--14909 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
14837 CAAATTTTAT
*
14847 TAAATAAAAGATAAATTACACGA
1 TAAATAAAAGATAAATTACAAGA
*
14870 TAAATAAAA-ATAAATTTCAAGA
1 TAAATAAAAGATAAATTACAAGA
* *
14892 TAAAATACAAGATGAATT
1 T-AAATAAAAGATAAATT
14910 TAATTAGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 12 0.35
23 16 0.47
24 6 0.18
ACGTcount: A:0.60, C:0.06, G:0.08, T:0.25
Consensus pattern (23 bp):
TAAATAAAAGATAAATTACAAGA
Found at i:15625 original size:19 final size:18
Alignment explanation
Indices: 15587--15626 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15577 AGAAAATTTT
* *
15587 AAAACAAAGAAAAAAGTG
1 AAAACAAAAAAAAAAATG
15605 AAAACAAAAAAAAAATATG
1 AAAACAAAAAAAAAA-ATG
15624 AAA
1 AAA
15627 GCACATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.78, C:0.05, G:0.10, T:0.07
Consensus pattern (18 bp):
AAAACAAAAAAAAAAATG
Found at i:15819 original size:19 final size:19
Alignment explanation
Indices: 15797--15931 Score: 61
Period size: 20 Copynumber: 7.0 Consensus size: 19
15787 ATGAAAATAT
*
15797 AAATAAAGA-AAGAAATAAA
1 AAATAAAAATAAGAAA-AAA
15816 AAATAAAAATAAGAAAAAA
1 AAATAAAAATAAGAAAAAA
* * *
15835 ATAT-AAAAT--G-TAAAT
1 AAATAAAAATAAGAAAAAA
*
15850 AAACAAAAATACA-ATAAAAA
1 AAATAAAAATA-AGA-AAAAA
*
15870 ATATAAAAAGTAAGAAAATAAA
1 AAATAAAAA-TAAG-AAA-AAA
*
15892 AAATAATGAATCAA-AAACAAA
1 AAATAA-AAAT-AAGAAA-AAA
15913 AAATAAAAA-AAGACAAAAA
1 AAATAAAAATAAGA-AAAAA
15932 TTGAATAAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 30
0.66 0.11 0.23
Matches are distributed among these distances:
15 5 0.06
16 6 0.07
18 7 0.08
19 18 0.21
20 21 0.24
21 16 0.18
22 10 0.11
23 4 0.05
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (19 bp):
AAATAAAAATAAGAAAAAA
Found at i:15821 original size:7 final size:7
Alignment explanation
Indices: 15790--15922 Score: 69
Period size: 7 Copynumber: 18.9 Consensus size: 7
15780 AAAATTTATG
*
15790 AAAATAT
1 AAAAAAT
*
15797 AAATAAAG
1 AAA-AAAT
15805 AAAGAAAT
1 AAA-AAAT
15813 AAAAAAT
1 AAAAAAT
15820 -AAAAAT
1 AAAAAAT
*
15826 AAGAAA-
1 AAAAAAT
*
15832 AAAATAT
1 AAAAAAT
**
15839 AAAATGT
1 AAAAAAT
15846 AAATAAA-
1 AAA-AAAT
*
15853 CAAAAAT
1 AAAAAAT
*
15860 --ACAAT
1 AAAAAAT
15865 AAAAAAT
1 AAAAAAT
15872 ATAAAAAGT
1 A-AAAAA-T
15881 AAGAAAAT
1 AA-AAAAT
15889 AAAAAAT
1 AAAAAAT
**
15896 AATGAAT
1 AAAAAAT
* *
15903 CAAAAAC
1 AAAAAAT
15910 AAAAAAT
1 AAAAAAT
15917 AAAAAA
1 AAAAAA
15923 AGACAAAAAT
Statistics
Matches: 95, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
5 4 0.04
6 13 0.14
7 51 0.54
8 21 0.22
9 6 0.06
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (7 bp):
AAAAAAT
Found at i:15829 original size:24 final size:23
Alignment explanation
Indices: 15790--15897 Score: 81
Period size: 24 Copynumber: 4.4 Consensus size: 23
15780 AAAATTTATG
* *
15790 AAAATATAAATAAAGAAAGAAAT
1 AAAAAATAAAAAAAGAAAGAAAT
*
15813 AAAAAATAAAAATAAGAAAAAAAT
1 AAAAAATAAAAA-AAGAAAGAAAT
* * *
15837 ATAAAATGTAAATAAACAAAAATACAAT
1 A-AAAA-ATAAA-AAA-AGAAAGA-AAT
* *
15865 AAAAAATATAAAAAGTAAGAAAAT
1 AAAAAATAAAAAAAGAAAG-AAAT
15889 AAAAAATAA
1 AAAAAATAA
15898 TGAATCAAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
23 10 0.15
24 25 0.38
25 8 0.12
26 8 0.12
27 11 0.17
28 4 0.06
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.17
Consensus pattern (23 bp):
AAAAAATAAAAAAAGAAAGAAAT
Found at i:15893 original size:35 final size:33
Alignment explanation
Indices: 15812--15893 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 33
15802 AAGAAAGAAA
*
15812 TAAAAAATAAAAATAAGAAAAAAATATAAAATG
1 TAAAAAATAAAAATAAGAAAAAAATATAAAAAG
*
15845 TAAATAAACAAAAATACA-ATAAAAAATATAAAAAG
1 TAAA-AAATAAAAATA-AGA-AAAAAATATAAAAAG
15880 TAAGAAAATAAAAA
1 TAA-AAAATAAAAA
15894 ATAATGAATC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 4 0.10
34 11 0.26
35 26 0.62
36 1 0.02
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (33 bp):
TAAAAAATAAAAATAAGAAAAAAATATAAAAAG
Found at i:15923 original size:8 final size:8
Alignment explanation
Indices: 15724--15894 Score: 62
Period size: 8 Copynumber: 20.2 Consensus size: 8
15714 CAACAACGAT
15724 AAATAAAA
1 AAATAAAA
*
15732 AAA-GAAA
1 AAATAAAA
*
15739 AGATAAAA
1 AAATAAAA
*
15747 AGATAAAA
1 AAATAAAA
15755 AAATAAAA
1 AAATAAAA
15763 AAATCCAAAA
1 AAAT--AAAA
*
15773 CATTATAAAA
1 -A-AATAAAA
* *
15783 ATTTATGAAA
1 A--AATAAAA
* *
15793 ATATAAAT
1 AAATAAAA
* *
15801 AAAGAAAG
1 AAATAAAA
15809 AAAT-AAA
1 AAATAAAA
15816 AAATAAAA
1 AAATAAAA
*
15824 ATAAGAAAA
1 A-AATAAAA
15833 AAATATAAA
1 AAATA-AAA
**
15842 ATGTAAATA
1 AAATAAA-A
15851 AACA-AAAA
1 AA-ATAAAA
15859 TACAAT-AAA
1 -A-AATAAAA
15868 AAATATAAA
1 AAATA-AAA
* *
15877 AAGTAAGA
1 AAATAAAA
15885 AAATAAAA
1 AAATAAAA
15893 AA
1 AA
15895 TAATGAATCA
Statistics
Matches: 124, Mismatches: 23, Indels: 32
0.69 0.13 0.18
Matches are distributed among these distances:
7 14 0.11
8 59 0.48
9 31 0.25
10 17 0.14
11 1 0.01
12 2 0.02
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.17
Consensus pattern (8 bp):
AAATAAAA
Found at i:16311 original size:39 final size:38
Alignment explanation
Indices: 16260--16339 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 38
16250 ATGAAAATTT
*
16260 AAATAAAGAAAGAA-ATAAAAAATAAACCAAATAAAAATA
1 AAATAAAGAAAGAATAT-AAAAATAAAACAAA-AAAAATA
* *
16299 AAAT-AAGAAAAGAATATTAAAGTAAAACAAAAAAAATA
1 AAATAAAG-AAAGAATATAAAAATAAAACAAAAAAAATA
16337 AAA
1 AAA
16340 AATAAACAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
38 13 0.36
39 21 0.58
40 2 0.06
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (38 bp):
AAATAAAGAAAGAATATAAAAATAAAACAAAAAAAATA
Found at i:16370 original size:38 final size:39
Alignment explanation
Indices: 16328--16408 Score: 89
Period size: 38 Copynumber: 2.1 Consensus size: 39
16318 AAGTAAAACA
16328 AAAAAAATAA-AAAATAAACAAA-AATACAAT-AAAAATA-
1 AAAAAAATAAGAAAATAAA-AAATAAT-CAATCAAAAATAC
* * *
16365 TAAAAAGTAAGAAAATAAAAAATAATTAATCAAAAATAC
1 AAAAAAATAAGAAAATAAAAAATAATCAATCAAAAATAC
16404 AAAAA
1 AAAAA
16409 TTGAATAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
37 14 0.39
38 18 0.50
39 4 0.11
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (39 bp):
AAAAAAATAAGAAAATAAAAAATAATCAATCAAAAATAC
Found at i:16408 original size:8 final size:7
Alignment explanation
Indices: 16272--16409 Score: 84
Period size: 7 Copynumber: 18.6 Consensus size: 7
16262 ATAAAGAAAG
16272 AAATAAA
1 AAATAAA
16279 AAATAAA
1 AAATAAA
16286 CCAAAT-AA
1 --AAATAAA
16294 AAATAAA
1 AAATAAA
*
16301 ATAAGAAA
1 A-AATAAA
*
16309 AGAATATTA
1 A-AATA-AA
*
16318 AAGTAAA
1 AAATAAA
16325 ACAA-AAA
1 A-AATAAA
16332 AAATAAA
1 AAATAAA
16339 AAATAAA
1 AAATAAA
16346 CAAA-AATA
1 -AAATAA-A
*
16354 CAATAAA
1 AAATAAA
16361 AATATAAA
1 AA-ATAAA
*
16369 AAGTAAGA
1 AAATAA-A
16377 AAATAAA
1 AAATAAA
*
16384 AAATAAT
1 AAATAAA
* *
16391 TAATCAA
1 AAATAAA
16398 AAATACAA
1 AAATA-AA
16406 AAAT
1 AAAT
16410 TGAATAAAAA
Statistics
Matches: 101, Mismatches: 17, Indels: 25
0.71 0.12 0.17
Matches are distributed among these distances:
6 6 0.06
7 49 0.49
8 40 0.40
9 6 0.06
ACGTcount: A:0.75, C:0.05, G:0.04, T:0.17
Consensus pattern (7 bp):
AAATAAA
Found at i:16844 original size:8 final size:7
Alignment explanation
Indices: 16833--16971 Score: 63
Period size: 8 Copynumber: 18.6 Consensus size: 7
16823 AAAAAAAGAC
16833 AAAATAA
1 AAAATAA
16840 GAAAATGAA
1 -AAAAT-AA
16849 AAAATAAA
1 AAAAT-AA
16857 AAAGATTCAA
1 AAA-A-T-AA
16867 AAAAT-A
1 AAAATAA
16873 AAAATAA
1 AAAATAA
16880 AAAAT--
1 AAAATAA
16885 -AAATGAA
1 AAAAT-AA
16892 AAAATAA
1 AAAATAA
*
16899 ATTAATAA
1 A-AAATAA
*
16907 AAAATATT
1 AAAATA-A
*
16915 AATATAA
1 AAAATAA
16922 AAGAA-AA
1 AA-AATAA
*
16929 AAATAAACA
1 AAA-ATA-A
*
16938 AAAACAA
1 AAAATAA
16945 AAAATAA
1 AAAATAA
*
16952 AAAAGGAA
1 AAAA-TAA
16960 GAAAATAA
1 -AAAATAA
16968 AAAA
1 AAAA
16972 ATTAGCTAAT
Statistics
Matches: 103, Mismatches: 12, Indels: 33
0.70 0.08 0.22
Matches are distributed among these distances:
4 4 0.04
6 7 0.07
7 35 0.34
8 39 0.38
9 12 0.12
10 6 0.06
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:16881 original size:13 final size:13
Alignment explanation
Indices: 16865--16954 Score: 69
Period size: 13 Copynumber: 6.9 Consensus size: 13
16855 AAAAAGATTC
16865 AAAAAATAAAAAT
1 AAAAAATAAAAAT
16878 AAAAAAT--AAAT
1 AAAAAATAAAAAT
16889 GAAAAAATAAATTAAT
1 -AAAAAATAAA--AAT
**
16905 AAAAAATATTAAT
1 AAAAAATAAAAAT
* *
16918 ATAAAAGAAAAA-
1 AAAAAATAAAAAT
* * *
16930 AATAAACAAAAAC
1 AAAAAATAAAAAT
16943 AAAAAATAAAAA
1 AAAAAATAAAAA
16955 AGGAAGAAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
11 4 0.07
12 16 0.27
13 28 0.47
14 1 0.02
15 8 0.13
16 3 0.05
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:16909 original size:16 final size:16
Alignment explanation
Indices: 16868--16952 Score: 66
Period size: 17 Copynumber: 5.2 Consensus size: 16
16858 AAGATTCAAA
16868 AAATAAAAATAAAAAAT
1 AAATAAAAA-AAAAAAT
* *
16885 AAATGAAAAAATAAAT
1 AAATAAAAAAAAAAAT
* * *
16901 TAAT--AAAAAATATT
1 AAATAAAAAAAAAAAT
16915 AATATAAAAGAAAAAAAT
1 AA-ATAAAA-AAAAAAAT
*
16933 AAACAAAAACAAAAAAT
1 AAATAAAAA-AAAAAAT
16950 AAA
1 AAA
16953 AAAGGAAGAA
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
14 8 0.15
15 2 0.04
16 10 0.19
17 25 0.47
18 8 0.15
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (16 bp):
AAATAAAAAAAAAAAT
Found at i:17269 original size:26 final size:26
Alignment explanation
Indices: 17250--17302 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
17240 AAAAAGCAAG
17250 AAAAAAT-AAAAAAATTAAAATACAA
1 AAAAAATAAAAAAAATTAAAATACAA
* *
17275 AACATATAAAAAAAATT-AAA-ACAA
1 AAAAAATAAAAAAAATTAAAATACAA
17299 AAAA
1 AAAA
17303 GAGAAAGCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
24 7 0.29
25 8 0.33
26 9 0.38
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (26 bp):
AAAAAATAAAAAAAATTAAAATACAA
Found at i:17767 original size:111 final size:112
Alignment explanation
Indices: 17652--17866 Score: 264
Period size: 112 Copynumber: 1.9 Consensus size: 112
17642 AAAAACTAAT
17652 AAAAATGAAAA-AAATG-GCAAAATAGAAAAAAA-TTAAGTTTACAAAATACAAAC-AAAA-AA-
1 AAAAATGAAAAGAAATGAG-AAAATAGAAAAAAATTTAA-TTTACAAAATACAAACAAAAATAAG
*
17711 TAATAAGATATAAAGATATAAAAAATCAAAGATA-AAAAATTAAAAGAAGTTC
64 TAATAAGA-A-AAA-A-AAAAAAAATCAAAGATACAAAAATTAAAAGAAGTTC
** * * *
17763 AAAAATGAAAAGGGATGAGAAAGTAGAAAAAAATTTAATTTAGAAAATACAAGCAAAAATAATGT
1 AAAAATGAAAAGAAATGAGAAAATAGAAAAAAATTTAATTTACAAAATACAAACAAAAATAA-GT
17828 AATAAGAAAAAAAAAAAAAATCAAAGATACAAAAATTAA
65 AATAAGAAAAAAAAAAAAAATCAAAGATACAAAAATTAA
17867 CAGAGGGAAA
Statistics
Matches: 90, Mismatches: 6, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
111 11 0.12
112 46 0.51
113 19 0.21
114 5 0.06
115 1 0.01
116 8 0.09
ACGTcount: A:0.67, C:0.05, G:0.11, T:0.18
Consensus pattern (112 bp):
AAAAATGAAAAGAAATGAGAAAATAGAAAAAAATTTAATTTACAAAATACAAACAAAAATAAGTA
ATAAGAAAAAAAAAAAAAATCAAAGATACAAAAATTAAAAGAAGTTC
Found at i:18060 original size:19 final size:19
Alignment explanation
Indices: 18029--18088 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
18019 AGAAAATTTT
*
18029 AAAAC-AAAGAAAAAAGTG
1 AAAACAAAAAAAAAAAGTG
18047 AAAACAAAAAAAAAATA-TG
1 AAAACAAAAAAAAAA-AGTG
* *
18066 AAAGCACATAAAAAAAAG-G
1 AAAACA-AAAAAAAAAAGTG
18085 AAAA
1 AAAA
18089 GGAGTTAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
18 5 0.15
19 20 0.59
20 9 0.26
ACGTcount: A:0.75, C:0.07, G:0.12, T:0.07
Consensus pattern (19 bp):
AAAACAAAAAAAAAAAGTG
Found at i:18061 original size:18 final size:18
Alignment explanation
Indices: 18029--18088 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
18019 AGAAAATTTT
*
18029 AAAACAAAGAAAAAAGTG
1 AAAACAAAAAAAAAAGTG
*
18047 AAAACAAAAAAAAAATATG
1 AAAACAAAAAAAAAA-GTG
*
18066 AAAGCACATAAAAAAAAG-G
1 AAA--ACAAAAAAAAAAGTG
18085 AAAA
1 AAAA
18089 GGAGTTAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
17 1 0.03
18 14 0.40
19 9 0.26
21 11 0.31
ACGTcount: A:0.75, C:0.07, G:0.12, T:0.07
Consensus pattern (18 bp):
AAAACAAAAAAAAAAGTG
Found at i:18258 original size:39 final size:35
Alignment explanation
Indices: 18215--18287 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 35
18205 AAAATATAAA
*
18215 TAAAGAAAGAAATTAAAAATAAAAATAAGAAAAAAATAT
1 TAAAGAAA-AAAAT-AAAAT-AAAATAA-AAAAAAATAT
*
18254 TAAAGAAAAAAATAAAATAAAATAAACAAAAATA
1 TAAAGAAAAAAATAAAATAAAATAAAAAAAAATA
18288 CAATAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 8 0.25
36 7 0.22
37 5 0.16
38 4 0.12
39 8 0.25
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.16
Consensus pattern (35 bp):
TAAAGAAAAAAATAAAATAAAATAAAAAAAAATAT
Found at i:18264 original size:26 final size:25
Alignment explanation
Indices: 18205--18277 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
18195 AAAATTTATG
* *
18205 AAAATATAAATAAAGAAAGAA-ATTA
1 AAAATAAAAATAAA-AAAAAATATTA
18230 AAAATAAAAATAAGAAAAAAATATTA
1 AAAATAAAAATAA-AAAAAAATATTA
*
18256 AAGAA-AAAAATAAAATAAAATA
1 AA-AATAAAAATAAAAAAAAATA
18278 AACAAAAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 25 0.60
26 15 0.36
27 2 0.05
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (25 bp):
AAAATAAAAATAAAAAAAAATATTA
Found at i:18270 original size:32 final size:33
Alignment explanation
Indices: 18229--18319 Score: 98
Period size: 32 Copynumber: 2.7 Consensus size: 33
18219 GAAAGAAATT
* *
18229 AAAAATAAAAATAAGAAAAAAATATTA-AAGAA
1 AAAAATAAAAATAAGAAAAAAAAAATACAAGAA
*
18261 AAAAAT-AAAATAA-AATAAACAAAAATACAATAA
1 AAAAATAAAAATAAGAA-AAA-AAAAATACAAGAA
18294 AAAATATAAAAAGTAAGAAAAAAAAA
1 AAAA-ATAAAAA-TAAGAAAAAAAAA
18320 GGCAAAAATT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
30 2 0.04
31 10 0.20
32 11 0.22
33 8 0.16
34 2 0.04
35 8 0.16
36 6 0.12
37 2 0.04
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.14
Consensus pattern (33 bp):
AAAAATAAAAATAAGAAAAAAAAAATACAAGAA
Found at i:18285 original size:15 final size:14
Alignment explanation
Indices: 18262--18304 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
18252 ATTAAAGAAA
18262 AAAATAAAATAAAAT
1 AAAA-AAAATAAAAT
*
18277 AAACAAAAATACAAT
1 AAA-AAAAATAAAAT
*
18292 AAAAAATATAAAA
1 AAAAAAAATAAAA
18305 AGTAAGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 8 0.33
15 15 0.62
16 1 0.04
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAAAAAATAAAAT
Found at i:18888 original size:16 final size:15
Alignment explanation
Indices: 18668--18904 Score: 59
Period size: 15 Copynumber: 15.7 Consensus size: 15
18658 ATAAAGAAAG
*
18668 AAATAAAAAATAAACCA
1 AAATAAAAAAT-AA-GA
18685 AAAT-AAAAATAA-A
1 AAATAAAAAATAAGA
* **
18698 ATAAGAAAACAATATTA
1 A-AATAAAA-AATAAGA
*
18715 AAGTAAAACAA-AA-A
1 AAATAAAA-AATAAGA
18729 AAATAAAAAA-AACGA
1 AAATAAAAAATAA-GA
*
18744 AAAT--ACAATAA-A
1 AAATAAAAAATAAGA
**
18756 AATATAAAAGGTAAGA
1 AA-ATAAAAAATAAGA
* *
18772 TAATAAAAAATAA-T
1 AAATAAAAAATAAGA
* *
18786 TAATCAAAAATACA-A
1 AAATAAAAAATA-AGA
* *
18801 AAATTGAAAAAAAAATA
1 AAA-T-AAAAAATAAGA
* *
18818 AAATAAAATACTAAAA
1 AAATAAAA-AATAAGA
* *
18834 AAAT-AACAATTA-A
1 AAATAAAAAATAAGA
*
18847 AAATAAACAAA-AACAA
1 AAATAAA-AAATAA-GA
18863 AAAGTAAAAAAGTAAGA
1 AAA-TAAAAAA-TAAGA
*
18880 AAATAAAAAATTAGA
1 AAATAAAAAATAAGA
*
18895 GAATAAAAAA
1 AAATAAAAAA
18905 ATATAAAACG
Statistics
Matches: 167, Mismatches: 30, Indels: 48
0.68 0.12 0.20
Matches are distributed among these distances:
12 3 0.02
13 16 0.10
14 29 0.17
15 48 0.29
16 45 0.27
17 24 0.14
18 2 0.01
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (15 bp):
AAATAAAAAATAAGA
Found at i:19281 original size:39 final size:38
Alignment explanation
Indices: 19191--19282 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 38
19181 TGAAAAATAC
*
19191 AAAATATATAAAAAT-AATTAAAACAAAAAGAATGAAAG
1 AAAAT-TATAAAAATAAATTAAAAAAAAAAGAATGAAAG
* * * *
19229 CAAATGA-ACAAAATAAATTAAAGAAAAAAAGAATTAATG
1 AAAATTATA-AAAATAAATTAAA-AAAAAAAGAATGAAAG
19268 AAAATTATAAAAATA
1 AAAATTATAAAAATA
19283 GAATAGATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
36 1 0.02
37 6 0.14
38 11 0.26
39 24 0.56
40 1 0.02
ACGTcount: A:0.70, C:0.03, G:0.08, T:0.20
Consensus pattern (38 bp):
AAAATTATAAAAATAAATTAAAAAAAAAAGAATGAAAG
Found at i:19552 original size:34 final size:35
Alignment explanation
Indices: 19460--19570 Score: 85
Period size: 34 Copynumber: 3.3 Consensus size: 35
19450 ATAAGTACAA
19460 AAAAGAAAAAATTAAAAATAA-ACAAAAACGCAATT
1 AAAAGAAAAAATTAAAAA-AATACAAAAACGCAATT
* * * *
19495 ---A-AAAAAAGTAAGAAAATTA-AAAAATG-AGTT
1 AAAAGAAAAAATTAA-AAAAATACAAAAACGCAATT
* *
19525 AAAAGAAAAAATTAAAAAAATACAAAAAC-TAATA
1 AAAAGAAAAAATTAAAAAAATACAAAAACGCAATT
19559 AAAATGAAAAAA
1 AAAA-GAAAAAA
19571 GGAAAAGAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
30 3 0.05
31 16 0.28
32 5 0.09
33 7 0.12
34 20 0.34
35 7 0.12
ACGTcount: A:0.73, C:0.05, G:0.07, T:0.15
Consensus pattern (35 bp):
AAAAGAAAAAATTAAAAAAATACAAAAACGCAATT
Found at i:19582 original size:65 final size:65
Alignment explanation
Indices: 19460--19582 Score: 146
Period size: 65 Copynumber: 1.9 Consensus size: 65
19450 ATAAGTACAA
** *
19460 AAAAGAAAAAATTAAAAATAAACAAAAACGCAATTAAAAAAAGTAAGAAAATTAAAAAATGAGTT
1 AAAAGAAAAAATTAAAAATAAACAAAAACGCAATTAAAAAAAAAAAGAAAATGAAAAAATGAGTT
*
19525 AAAAGAAAAAATTAAAAA-AATACAAAAAC-TAA-TAAAAATGAAAAAAGGAAAA-GAAAAA
1 AAAAGAAAAAATTAAAAATAA-ACAAAAACGCAATTAAAAA--AAAAAA-GAAAATGAAAAA
19583 GACAATAGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
63 6 0.12
64 4 0.08
65 35 0.70
66 5 0.10
ACGTcount: A:0.73, C:0.04, G:0.09, T:0.14
Consensus pattern (65 bp):
AAAAGAAAAAATTAAAAATAAACAAAAACGCAATTAAAAAAAAAAAGAAAATGAAAAAATGAGTT
Found at i:20453 original size:22 final size:23
Alignment explanation
Indices: 20415--20477 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
20405 CAAATTTTAT
*
20415 TAAATAAAAGATAAATTACACGA
1 TAAATAAAAGATAAATTACAAGA
*
20438 TAAATAAAA-ATAAATTTCAAGA
1 TAAATAAAAGATAAATTACAAGA
* *
20460 TAAAATACAAGATGAATT
1 T-AAATAAAAGATAAATT
20478 TAATTAGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 12 0.35
23 16 0.47
24 6 0.18
ACGTcount: A:0.60, C:0.06, G:0.08, T:0.25
Consensus pattern (23 bp):
TAAATAAAAGATAAATTACAAGA
Found at i:21168 original size:19 final size:18
Alignment explanation
Indices: 21130--21169 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
21120 AGAAAATTTT
* *
21130 AAAACAAAGAAAAAAGTG
1 AAAACAAAAAAAAAAATG
21148 AAAACAAAAAAAAAATATG
1 AAAACAAAAAAAAAA-ATG
21167 AAA
1 AAA
21170 GCACATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.78, C:0.05, G:0.10, T:0.07
Consensus pattern (18 bp):
AAAACAAAAAAAAAAATG
Found at i:21350 original size:17 final size:18
Alignment explanation
Indices: 21330--21377 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
21320 AATTTATGAA
*
21330 AATAAAAATAAAGA-AAG
1 AATAAAAATAAAAATAAG
21347 AATAAAAAATAAAAATAAG
1 AAT-AAAAATAAAAATAAG
21366 AA-AAAAATAAAA
1 AATAAAAATAAAA
21378 TGTAAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 13 0.46
18 10 0.36
19 5 0.18
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.12
Consensus pattern (18 bp):
AATAAAAATAAAAATAAG
Found at i:21360 original size:24 final size:24
Alignment explanation
Indices: 21328--21447 Score: 83
Period size: 24 Copynumber: 4.9 Consensus size: 24
21318 AAAATTTATG
*
21328 AAAATAAAAATAAAGAAAGAATAA
1 AAAATAAAAATAAAGAAAAAATAA
21352 AAAATAAAAAT-AAGAAAAAAATAAA
1 AAAATAAAAATAAAG-AAAAAAT-AA
21377 ATGTAAATAAAAACTAAA-AAATACAAGTAA
1 A---AAATAAAAA-TAAAGAAA-A-AA-TAA
*
21407 AAAAT--AAATAAAG-AATAA-AA
1 AAAATAAAAATAAAGAAAAAATAA
*
21427 AAAATAAAAA-AAAGACAAAAT
1 AAAATAAAAATAAAGAAAAAAT
21448 TGAATAAAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 31
0.69 0.04 0.28
Matches are distributed among these distances:
20 7 0.09
21 4 0.05
22 8 0.10
23 3 0.04
24 23 0.30
25 6 0.08
27 4 0.05
28 12 0.16
29 2 0.03
30 7 0.09
31 1 0.01
ACGTcount: A:0.78, C:0.03, G:0.06, T:0.14
Consensus pattern (24 bp):
AAAATAAAAATAAAGAAAAAATAA
Found at i:21394 original size:11 final size:10
Alignment explanation
Indices: 21329--21439 Score: 70
Period size: 11 Copynumber: 10.9 Consensus size: 10
21319 AAATTTATGA
21329 AAATAAAAAT
1 AAATAAAAAT
*
21339 AAAGAAAGAAT
1 AAATAAA-AAT
21350 AAA-AAATAA-
1 AAATAAA-AAT
*
21359 AAATAAGAAAA
1 AAATAA-AAAT
*
21370 AAATAAAATGT
1 AAATAAAA-AT
21381 AAATAAAAACT
1 AAATAAAAA-T
* *
21392 AAA-AAATAC
1 AAATAAAAAT
*
21401 AAGTAAAAAAT
1 AAAT-AAAAAT
21412 AAATAAAGAAT
1 AAATAAA-AAT
21423 AAA-AAAAAT
1 AAATAAAAAT
21432 AAA-AAAAA
1 AAATAAAAA
21440 GACAAAATTG
Statistics
Matches: 81, Mismatches: 11, Indels: 19
0.73 0.10 0.17
Matches are distributed among these distances:
9 16 0.20
10 27 0.33
11 38 0.47
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.14
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:21823 original size:37 final size:37
Alignment explanation
Indices: 21772--21863 Score: 91
Period size: 37 Copynumber: 2.5 Consensus size: 37
21762 TATGAAAATT
* *
21772 TAAAATAAAGAAAGAA-ATAAAAAATAAACCAATAAAA
1 TAAAATAAAGAAAGAATAT-AAAAATAAAACAAAAAAA
* *
21809 TAAAAT-AAGAAAAGAATATTAAAGTAAAACAAAAAAA
1 TAAAATAAAG-AAAGAATATAAAAATAAAACAAAAAAA
*
21846 TAAAAATAAACAAA-AATA
1 T-AAAATAAAGAAAGAATA
21864 CAATAAAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
36 3 0.07
37 31 0.67
38 10 0.22
39 2 0.04
ACGTcount: A:0.75, C:0.04, G:0.05, T:0.15
Consensus pattern (37 bp):
TAAAATAAAGAAAGAATATAAAAATAAAACAAAAAAA
Found at i:22353 original size:8 final size:7
Alignment explanation
Indices: 22342--22479 Score: 61
Period size: 7 Copynumber: 18.6 Consensus size: 7
22332 AAAAAAAGAC
22342 AAAATAA
1 AAAATAA
22349 GAAAATGAA
1 -AAAAT-AA
22358 AAAATAAA
1 AAAAT-AA
22366 AAAGATTCAA
1 AAA-A-T-AA
22376 AAAAT-A
1 AAAATAA
22382 AAAATAA
1 AAAATAA
22389 AAAAT--
1 AAAATAA
22394 -AAATAA
1 AAAATAA
22400 AAAATAA
1 AAAATAA
* *
22407 ATTAAGAA
1 A-AAATAA
*
22415 AAAATATT
1 AAAATA-A
*
22423 AATATAA
1 AAAATAA
22430 AAGAA-AA
1 AA-AATAA
*
22437 AAATAAACA
1 AAA-ATA-A
*
22446 AAAACAA
1 AAAATAA
22453 AAAATAA
1 AAAATAA
*
22460 AAAAGGAA
1 AAAA-TAA
22468 GAAAATAA
1 -AAAATAA
22476 AAAA
1 AAAA
22480 ATTAGCTAAT
Statistics
Matches: 101, Mismatches: 14, Indels: 31
0.69 0.10 0.21
Matches are distributed among these distances:
4 4 0.04
6 7 0.07
7 38 0.38
8 34 0.34
9 12 0.12
10 6 0.06
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (7 bp):
AAAATAA
Found at i:22390 original size:11 final size:11
Alignment explanation
Indices: 22383--22460 Score: 56
Period size: 11 Copynumber: 7.3 Consensus size: 11
22373 CAAAAAATAA
22383 AAATAAAAAAT
1 AAATAAAAAAT
22394 AAATAAAAAAT
1 AAATAAAAAAT
*
22405 AAATTAAGAAA-
1 AAA-TAAAAAAT
* *
22416 AAATATTAATAT
1 AAATA-AAAAAT
*
22428 AAA-AGAAAA-
1 AAATAAAAAAT
*
22437 AAATAAACAA-
1 AAATAAAAAAT
*
22447 AAACAAAAAAT
1 AAATAAAAAAT
22458 AAA
1 AAA
22461 AAAGGAAGAA
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
9 3 0.06
10 17 0.33
11 23 0.44
12 9 0.17
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (11 bp):
AAATAAAAAAT
Found at i:22390 original size:13 final size:13
Alignment explanation
Indices: 22374--22462 Score: 67
Period size: 13 Copynumber: 6.9 Consensus size: 13
22364 AAAAAGATTC
22374 AAAAAATAAAAAT
1 AAAAAATAAAAAT
22387 AAAAAAT--AAAT
1 AAAAAATAAAAAT
*
22398 AAAAAATAAATTAAG
1 AAAAAATAAA--AAT
**
22413 AAAAAATATTAAT
1 AAAAAATAAAAAT
* *
22426 ATAAAAGAAAAA-
1 AAAAAATAAAAAT
* * *
22438 AATAAACAAAAAC
1 AAAAAATAAAAAT
22451 AAAAAATAAAAA
1 AAAAAATAAAAA
22463 AGGAAGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
11 11 0.19
12 9 0.16
13 28 0.48
15 10 0.17
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:22401 original size:24 final size:23
Alignment explanation
Indices: 22342--22463 Score: 79
Period size: 24 Copynumber: 5.0 Consensus size: 23
22332 AAAAAAAGAC
22342 AAAATAAGAAAATGAAAAAATAAAAA
1 AAAATAA-AAAAT--AAAAATAAAAA
* *
22368 AGATTCAAAAAATAAAAATAAAAA
1 AAAAT-AAAAAATAAAAATAAAAA
* *
22392 ATAAATAAAAAAT-AAATTAAGAA
1 A-AAATAAAAAATAAAAATAAAAA
* *
22415 AAAATATTAATATAAAAGA-AAAAA
1 AAAATA-AAAAATAAAA-ATAAAAA
*
22439 ATAAACAAAAACA-AAAAATAAAAA
1 A-AAATAAAAA-ATAAAAATAAAAA
22463 A
1 A
22464 GGAAGAAAAT
Statistics
Matches: 75, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
22 5 0.07
23 14 0.19
24 39 0.52
25 7 0.09
26 8 0.11
27 2 0.03
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (23 bp):
AAAATAAAAAATAAAAATAAAAA
Found at i:23391 original size:21 final size:21
Alignment explanation
Indices: 23367--23413 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
23357 ATTAACAGAG
*
23367 GGAAAAGT-TAAAACAAAATAA
1 GGAAAAGTGTAAAA-AAAAAAA
23388 GG-AAAGTGTAAAAAAAAAAA
1 GGAAAAGTGTAAAAAAAAAAA
*
23408 TGAAAA
1 GGAAAA
23414 CAAGAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.68, C:0.02, G:0.17, T:0.13
Consensus pattern (21 bp):
GGAAAAGTGTAAAAAAAAAAA
Found at i:23551 original size:24 final size:24
Alignment explanation
Indices: 23524--23569 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
23514 AGAAAATTTT
* * *
23524 AAAAACAAAGAAA-AAGTGAAAAC
1 AAAAAAAAAAAAATAAGTAAAAAC
23547 AAAAAAAAAAAAATAAGTAAAAA
1 AAAAAAAAAAAAATAAGTAAAAA
23570 AAGGAAAGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.80, C:0.04, G:0.09, T:0.07
Consensus pattern (24 bp):
AAAAAAAAAAAAATAAGTAAAAAC
Found at i:23757 original size:23 final size:22
Alignment explanation
Indices: 23692--23776 Score: 66
Period size: 23 Copynumber: 3.6 Consensus size: 22
23682 AAAATTTATG
*
23692 AAATATAAATAAAGAAAGAAATTAA
1 AAATA-AAATAAA-AAA-ATATTAA
23717 AAATAAAATAAGAAAAATATTAA
1 AAATAAAATAA-AAAAATATTAA
*
23740 AGAA-AAAATAAATAAAATA-AACA
1 A-AATAAAATAAA-AAAATATTA-A
*
23763 AAATACAATAAAAA
1 AAATAAAATAAAAA
23777 TATAAAAAGT
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
22 6 0.12
23 29 0.56
24 11 0.21
25 6 0.12
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (22 bp):
AAATAAAATAAAAAAATATTAA
Found at i:23784 original size:19 final size:17
Alignment explanation
Indices: 23717--23775 Score: 52
Period size: 16 Copynumber: 3.5 Consensus size: 17
23707 AAGAAATTAA
23717 AAATAAAATAAGAAAAAT
1 AAATAAAATAA-AAAAAT
* *
23735 --ATTAAA-GAAAAAAT
1 AAATAAAATAAAAAAAT
23749 AAATAAAATAAACAAAAT
1 AAATAAAATAAA-AAAAT
23767 ACAATAAAA
1 A-AATAAAA
23776 ATATAAAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
14 6 0.19
15 1 0.03
16 10 0.31
17 2 0.06
18 6 0.19
19 7 0.22
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.17
Consensus pattern (17 bp):
AAATAAAATAAAAAAAT
Found at i:24324 original size:24 final size:21
Alignment explanation
Indices: 24275--24324 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 21
24265 ACAAAAATTG
*
24275 AAAAAAATAAAATAAAATACC
1 AAAAAAATAAAATAAAATAAC
*
24296 TAAAAAATAACAATTAAAAATAAC
1 AAAAAAATAA-AA-T-AAAATAAC
24320 AAAAA
1 AAAAA
24325 CAAAAAGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 9 0.39
22 2 0.09
23 1 0.04
24 11 0.48
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (21 bp):
AAAAAAATAAAATAAAATAAC
Found at i:24375 original size:7 final size:7
Alignment explanation
Indices: 24259--24376 Score: 53
Period size: 7 Copynumber: 15.7 Consensus size: 7
24249 AATATTAATC
24259 AAAAATA
1 AAAAATA
24266 CAAAAATTGA
1 -AAAAA-T-A
24276 AAAAA-A
1 AAAAATA
*
24282 TAAAATA
1 AAAAATA
*
24289 AAATACCTA
1 AAA-A-ATA
24298 AAAAAT-
1 AAAAATA
* *
24304 AACAATT
1 AAAAATA
24311 AAAAATA
1 AAAAATA
24318 ACAAAA-A
1 A-AAAATA
24325 CAAAAAGTA
1 -AAAAA-TA
24334 AAAAAGTA
1 AAAAA-TA
24342 AGAAAATA
1 A-AAAATA
*
24350 AAAATTA
1 AAAAATA
* *
24357 GAGAATA
1 AAAAATA
24364 AAAAATA
1 AAAAATA
24371 TAAAAA
1 -AAAAA
24377 CGATAAATGA
Statistics
Matches: 85, Mismatches: 13, Indels: 24
0.70 0.11 0.20
Matches are distributed among these distances:
6 10 0.12
7 29 0.34
8 29 0.34
9 16 0.19
10 1 0.01
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (7 bp):
AAAAATA
Found at i:24505 original size:23 final size:23
Alignment explanation
Indices: 24434--24533 Score: 69
Period size: 23 Copynumber: 4.2 Consensus size: 23
24424 TTAGAATATA
* *
24434 CAAAGA-AAAACAAAAAAAAAAAA
1 CAAAGACAAAA-AAAAAATAAAAT
* *
24457 CAAATGTAGAAAAAAAGACATAAAAAT
1 CAAA-G-ACAAAAAAA-AAAT-AAAAT
24484 CAAAGACAAAAAAAAAATAAAAGT
1 CAAAGACAAAAAAAAAATAAAA-T
* * *
24508 C-AATACAAAATATAAATAAAAT
1 CAAAGACAAAAAAAAAATAAAAT
24530 CAAA
1 CAAA
24534 AGGAAGTTCA
Statistics
Matches: 62, Mismatches: 8, Indels: 14
0.74 0.10 0.17
Matches are distributed among these distances:
22 2 0.03
23 27 0.44
24 6 0.10
25 12 0.19
26 7 0.11
27 8 0.13
ACGTcount: A:0.74, C:0.09, G:0.06, T:0.11
Consensus pattern (23 bp):
CAAAGACAAAAAAAAAATAAAAT
Found at i:25531 original size:18 final size:18
Alignment explanation
Indices: 25495--25545 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
25485 TATAAAAAGT
**
25495 AAAAAAAAAAAAACAAAA
1 AAAAAAAAAAAAATTAAA
25513 AAAAAAAAAAAAATTAAA
1 AAAAAAAAAAAAATTAAA
* **
25531 AGAAATTAAAAAATT
1 AAAAAAAAAAAAATT
25546 CTACAAAGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.84, C:0.02, G:0.02, T:0.12
Consensus pattern (18 bp):
AAAAAAAAAAAAATTAAA
Found at i:25543 original size:1 final size:1
Alignment explanation
Indices: 25495--25525 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
25485 TATAAAAAGT
*
25495 AAAAAAAAAAAAACAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
25526 TTAAAAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:25899 original size:22 final size:23
Alignment explanation
Indices: 25861--25922 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 23
25851 CAAATTTTAT
*
25861 TAAATAAAAGATAAATTACACGA
1 TAAATAAAAGATAAATTACAAGA
*
25884 TAAATAAAA-ATAAATTTCAAGA
1 TAAATAAAAGATAAATTACAAGA
*
25906 TAAA-AACAAGATGAATT
1 TAAATAA-AAGATAAATT
25923 TAATTAGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 2 0.06
22 17 0.50
23 15 0.44
ACGTcount: A:0.61, C:0.06, G:0.08, T:0.24
Consensus pattern (23 bp):
TAAATAAAAGATAAATTACAAGA
Done.