Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01004381.1 Kokia drynarioides strain JFW-HI SEQ_117754, 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: 177220
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 42 characters in sequence are not A, C, G, or T
Found at i:106 original size:59 final size:57
Alignment explanation
Indices: 5--114 Score: 166
Period size: 59 Copynumber: 1.9 Consensus size: 57
1 ATTA
* *
5 AAAATATTATTAAATTATATATTATTTTATTAAATTGTATTTAATAATAATTATGTT
1 AAAATATAATTAAATTATATATTATTTTATTAAATTATATTTAATAATAATTATGTT
* *
62 AAAATATAATTAAATTATTTATTGTTATTTATTAAATTATATTTAATAATAAT
1 AAAATATAATTAAATTATATATT-AT-TTTATTAAATTATATTTAATAATAAT
115 CTTATTAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
57 21 0.45
58 1 0.02
59 25 0.53
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (57 bp):
AAAATATAATTAAATTATATATTATTTTATTAAATTATATTTAATAATAATTATGTT
Found at i:123 original size:59 final size:57
Alignment explanation
Indices: 5--130 Score: 164
Period size: 59 Copynumber: 2.2 Consensus size: 57
1 ATTA
* * *
5 AAAATATTATTAAATTATATATTATTTTATTAAATTGTATTTAATAATAATTATGTT
1 AAAATATAATTAAATTATATATTATTTTATTAAATTATATTTAATAATAATTATATT
* *
62 AAAATATAATTAAATTATTTATTGTTATTTATTAAATTATATTTAATAATAATCT-TATT
1 AAAATATAATTAAATTATATATT-AT-TTTATTAAATTATATTTAATAATAAT-TATATT
*
121 AAAATTTAAT
1 AAAATATAAT
131 AATAATAATC
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
57 21 0.35
58 1 0.02
59 37 0.62
60 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (57 bp):
AAAATATAATTAAATTATATATTATTTTATTAAATTATATTTAATAATAATTATATT
Found at i:151 original size:28 final size:26
Alignment explanation
Indices: 105--161 Score: 62
Period size: 29 Copynumber: 2.1 Consensus size: 26
95 AAATTATATT
*
105 TAATAATAATCTTA-TTAAAATTTAA
1 TAATAATAATCTTACTAAAAATTTAA
*
130 TAATAATAATCATCTACCTAAAAATTTGA
1 TAATAATAATC-T-TA-CTAAAAATTTAA
159 TAA
1 TAA
162 AAAATATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 11 0.42
26 1 0.04
27 2 0.08
29 12 0.46
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.39
Consensus pattern (26 bp):
TAATAATAATCTTACTAAAAATTTAA
Found at i:175 original size:28 final size:28
Alignment explanation
Indices: 144--204 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
134 AATAATCATC
*
144 TACCTAAAAATTTGATAAAAAATATTAA
1 TACCAAAAAATTTGATAAAAAATATTAA
172 TACCAAAAAATTTGATAAAAAATATTAA
1 TACCAAAAAATTTGATAAAAAATATTAA
200 TACCA
1 TACCA
205 CAATTAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (28 bp):
TACCAAAAAATTTGATAAAAAATATTAA
Found at i:3587 original size:6 final size:6
Alignment explanation
Indices: 3576--3600 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3566 AACAGTACGG
3576 CCTCGA CCTCGA CCTCGA CCTCGA C
1 CCTCGA CCTCGA CCTCGA CCTCGA C
3601 AGTGACCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.52, G:0.16, T:0.16
Consensus pattern (6 bp):
CCTCGA
Found at i:6435 original size:21 final size:20
Alignment explanation
Indices: 6393--6436 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
6383 GTCAAACATT
**
6393 AAACAATGACCAAAAATTGC
1 AAACAATGACCAAAAAAGGC
*
6413 AAACAATGGTCCAAAAAAGGC
1 AAACAAT-GACCAAAAAAGGC
6434 AAA
1 AAA
6437 TGTTGGTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.57, C:0.18, G:0.14, T:0.11
Consensus pattern (20 bp):
AAACAATGACCAAAAAAGGC
Found at i:9411 original size:94 final size:94
Alignment explanation
Indices: 9260--9569 Score: 394
Period size: 94 Copynumber: 3.3 Consensus size: 94
9250 TTTGCATATT
* * *
9260 CTCGTCAGCTTAGTGTGAGCAGCATCGT-TA-GAG-AACAGTTATATGTACATATACCGTATTGA
1 CTCGTCAGCTTAGTGTGAGCAGCATCATATACTAGTAACAGTTATATGTACATATACCGTATCGA
9322 TGGCTGAGGTACCGCATATGTTGCGAGTC
66 TGGCTGAGGTACCGCATATGTTGCGAGTC
*
9351 CTCGTCAGCTTATTGTGAGCAGCATCATATACTAGTAACAGTTATATGTACATATACCGTATCGA
1 CTCGTCAGCTTAGTGTGAGCAGCATCATATACTAGTAACAGTTATATGTACATATACCGTATCGA
**
9416 TGGCTGAGGTACCATATATGTTGCGAGTC
66 TGGCTGAGGTACCGCATATGTTGCGAGTC
* * * * * * *
9445 CTGGTTAACTTAGTGTGAGCAGCATCATATACT-GCTAAAAGTTATATGTACAAATATCGTATCA
1 CTCGTCAGCTTAGTGTGAGCAGCATCATATACTAG-TAACAGTTATATGTACATATACCGTATCG
* * *
9509 ATGGCTGAGGTACTGCATATGTTGTGAGCC
65 ATGGCTGAGGTACCGCATATGTTGCGAGTC
* * * * *
9539 CTCATTAGCTTAGTATGAGTAGCATCGTATA
1 CTCGTCAGCTTAGTGTGAGCAGCATCATATA
9570 TTGGAAACAG
Statistics
Matches: 190, Mismatches: 25, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
91 26 0.14
92 2 0.01
93 3 0.02
94 159 0.84
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (94 bp):
CTCGTCAGCTTAGTGTGAGCAGCATCATATACTAGTAACAGTTATATGTACATATACCGTATCGA
TGGCTGAGGTACCGCATATGTTGCGAGTC
Found at i:10365 original size:21 final size:21
Alignment explanation
Indices: 10327--10389 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
10317 TTGTATTATT
* * *
10327 AGTAGAAGTAATAATTGTATC
1 AGTAGTAGTCATATTTGTATC
10348 AGTAGTAGTCATATTTGTATC
1 AGTAGTAGTCATATTTGTATC
*
10369 AGTATTAGTCATATTTGTATC
1 AGTAGTAGTCATATTTGTATC
10390 GATAGAACCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.41
Consensus pattern (21 bp):
AGTAGTAGTCATATTTGTATC
Found at i:14200 original size:13 final size:13
Alignment explanation
Indices: 14182--14209 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
14172 TATTTCTTTC
14182 AGCCACGATCTGA
1 AGCCACGATCTGA
14195 AGCCACGATCTGA
1 AGCCACGATCTGA
14208 AG
1 AG
14210 GAGCATTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.29, G:0.25, T:0.14
Consensus pattern (13 bp):
AGCCACGATCTGA
Found at i:20773 original size:13 final size:14
Alignment explanation
Indices: 20745--20785 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
20735 TGCACACATG
20745 AATAAGATAAAATA
1 AATAAGATAAAATA
*
20759 AATAA-ATACAATA
1 AATAAGATAAAATA
*
20772 AATAACA-AAAATA
1 AATAAGATAAAATA
20785 A
1 A
20786 CATAGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (14 bp):
AATAAGATAAAATA
Found at i:20992 original size:4 final size:4
Alignment explanation
Indices: 20983--21038 Score: 64
Period size: 4 Copynumber: 14.5 Consensus size: 4
20973 AAAATTAAGT
*
20983 AATA AATA AATA AATA AATA AA-A TAATA AAT- AATA AATA AATG AA-A
1 AATA AATA AATA AATA AATA AATA -AATA AATA AATA AATA AATA AATA
*
21029 ATTA AATA AA
1 AATA AATA AA
21039 AGACAAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
3 5 0.11
4 38 0.86
5 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:22512 original size:11 final size:11
Alignment explanation
Indices: 22496--22536 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
22486 GGCCTTGAAA
22496 TTATTTGGGTT
1 TTATTTGGGTT
*
22507 TTATTTTGGCTT
1 TTA-TTTGGGTT
22519 TTGATTTGGGTT
1 TT-ATTTGGGTT
22531 TTATTT
1 TTATTT
22537 ATTATTTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 7 0.27
12 18 0.69
13 1 0.04
ACGTcount: A:0.10, C:0.02, G:0.22, T:0.66
Consensus pattern (11 bp):
TTATTTGGGTT
Found at i:40918 original size:42 final size:42
Alignment explanation
Indices: 40855--40947 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 42
40845 TTAAATCAAC
* *
40855 TATGCATGAGTGTGTTTATAAACTGGAAAGATAATAATTGTA
1 TATGCATGAGTGTGTTTATAAACTGGAAAAAGAATAATTGTA
*
40897 TGTGCATGAGTGT-TTTAATAAACTGGAAAAAGAATAATTGTA
1 TATGCATGAGTGTGTTT-ATAAACTGGAAAAAGAATAATTGTA
40939 TATGCATGA
1 TATGCATGA
40948 ATGATTGGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 3 0.07
42 43 0.93
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (42 bp):
TATGCATGAGTGTGTTTATAAACTGGAAAAAGAATAATTGTA
Found at i:45066 original size:20 final size:20
Alignment explanation
Indices: 45004--45078 Score: 57
Period size: 20 Copynumber: 3.8 Consensus size: 20
44994 TGAAAAAAAA
* *
45004 TGCCCATGTATGAACTCCAA-
1 TGCCCATGTTTGCACT-CAAG
*
45024 TGCCCTTGTTTGCA-T-AACTG
1 TGCCCATGTTTGCACTCAA--G
45044 TGCCCATGTTTGCACTCAAG
1 TGCCCATGTTTGCACTCAAG
* *
45064 TGCCCCTATTTGCAC
1 TGCCCATGTTTGCAC
45079 ATTTGTGTCC
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
17 2 0.05
19 1 0.02
20 38 0.86
21 1 0.02
22 2 0.05
ACGTcount: A:0.20, C:0.31, G:0.17, T:0.32
Consensus pattern (20 bp):
TGCCCATGTTTGCACTCAAG
Found at i:45068 original size:40 final size:40
Alignment explanation
Indices: 45004--45139 Score: 109
Period size: 40 Copynumber: 3.4 Consensus size: 40
44994 TGAAAAAAAA
* * * * *
45004 TGCCCATGTATGAACTCCAATGCCCTTGTTTGCATAACTG
1 TGCCCATGTTTGCACTCCAATGCCCCTATTTGCACAACTG
**
45044 TGCCCATGTTTGCACT-CAAGTGCCCCTATTTGCACATTTG
1 TGCCCATGTTTGCACTCCAA-TGCCCCTATTTGCACAACTG
* *
45084 TGTCCC-TGTTTGCACTTCGATGCCCCTGA-TTGCACATA-TG
1 TG-CCCATGTTTGCACTCCAATGCCCCT-ATTTGCACA-ACTG
**
45124 TGCCTTTGTTTGCACT
1 TGCCCATGTTTGCACT
45140 TCGGTGCCCC
Statistics
Matches: 80, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
39 5 0.06
40 69 0.86
41 6 0.08
ACGTcount: A:0.17, C:0.29, G:0.18, T:0.36
Consensus pattern (40 bp):
TGCCCATGTTTGCACTCCAATGCCCCTATTTGCACAACTG
Found at i:45110 original size:20 final size:19
Alignment explanation
Indices: 45043--45151 Score: 78
Period size: 20 Copynumber: 5.5 Consensus size: 19
45033 TTGCATAACT
*
45043 GTGCCCATGTTTGCAC-TC
1 GTGCCCCTGTTTGCACTTC
* *
45061 AAGTGCCCCTATTTGCACATTT
1 --GTGCCCCTGTTTGCAC-TTC
*
45083 GTGTCCCTGTTTGCACTTC
1 GTGCCCCTGTTTGCACTTC
*
45102 GATGCCCCTGATTGCACATAT-
1 G-TGCCCCTGTTTGCAC-T-TC
**
45123 GTGCCTTTGTTTGCACTTC
1 GTGCCCCTGTTTGCACTTC
45142 GGTGCCCCTG
1 -GTGCCCCTG
45152 CAATGCATCT
Statistics
Matches: 69, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
18 1 0.01
19 4 0.06
20 60 0.87
21 2 0.03
22 2 0.03
ACGTcount: A:0.13, C:0.30, G:0.21, T:0.36
Consensus pattern (19 bp):
GTGCCCCTGTTTGCACTTC
Found at i:45140 original size:40 final size:41
Alignment explanation
Indices: 45042--45151 Score: 122
Period size: 40 Copynumber: 2.7 Consensus size: 41
45032 TTTGCATAAC
* *
45042 TGTG-CCCATGTTTGCAC-TCAAGTGCCCCT-ATTTGCACATT
1 TGTGTCCC-TGTTTGCACTTCGA-TGCCCCTGATTTGCACATA
45082 TGTGTCCCTGTTTGCACTTCGATGCCCCTGA-TTGCACATA
1 TGTGTCCCTGTTTGCACTTCGATGCCCCTGATTTGCACATA
* *
45122 TGTG-CCTTTGTTTGCACTTCGGTGCCCCTG
1 TGTGTCC-CTGTTTGCACTTCGATGCCCCTG
45152 CAATGCATCT
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
39 2 0.03
40 53 0.85
41 7 0.11
ACGTcount: A:0.13, C:0.30, G:0.21, T:0.36
Consensus pattern (41 bp):
TGTGTCCCTGTTTGCACTTCGATGCCCCTGATTTGCACATA
Found at i:45524 original size:18 final size:19
Alignment explanation
Indices: 45491--45527 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
45481 CAGCAAATGA
*
45491 TTTTAAAATTATTAAAATT
1 TTTTAAAAATATTAAAATT
45510 TTTTAAAAATA-TAAAATT
1 TTTTAAAAATATTAAAATT
45528 ATTAAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTTAAAAATATTAAAATT
Found at i:45525 original size:27 final size:27
Alignment explanation
Indices: 45494--45584 Score: 102
Period size: 27 Copynumber: 3.6 Consensus size: 27
45484 CAAATGATTT
45494 TAAAATTATTAAAATTTTTTAAAAATA
1 TAAAATTATTAAAATTTTTTAAAAATA
*
45521 TAAAATTATTAAAATTTTTTTAAAAT-
1 TAAAATTATTAAAATTTTTTAAAAATA
* * **
45547 T--AA-T-TTAGAATTATTTGTAAATA
1 TAAAATTATTAAAATTTTTTAAAAATA
45570 TAAAATTATTAAAAT
1 TAAAATTATTAAAAT
45585 ATCATCATCC
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
22 14 0.26
23 2 0.04
24 2 0.04
25 2 0.04
26 2 0.04
27 31 0.58
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (27 bp):
TAAAATTATTAAAATTTTTTAAAAATA
Found at i:45575 original size:49 final size:47
Alignment explanation
Indices: 45491--45584 Score: 134
Period size: 49 Copynumber: 2.0 Consensus size: 47
45481 CAGCAAATGA
*
45491 TTTTAAAATTATTAAAATTTTTTAAAAATATAAAATTATTAAAATTT
1 TTTTAAAATTATTAAAATTATTTAAAAATATAAAATTATTAAAATTT
* **
45538 TTTTAAAATTAATTTAGAATTATTTGTAAATATAAAATTATTAAAAT
1 TTTTAAAATT-A-TTAAAATTATTTAAAAATATAAAATTATTAAAAT
45585 ATCATCATCC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 10 0.24
48 1 0.02
49 30 0.73
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (47 bp):
TTTTAAAATTATTAAAATTATTTAAAAATATAAAATTATTAAAATTT
Found at i:45610 original size:6 final size:6
Alignment explanation
Indices: 45601--45631 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
45591 ATCCCCTTCC
*
45601 CCCCTT CCCCTT CCCCTT CTCCTT CCCCTT C
1 CCCCTT CCCCTT CCCCTT CCCCTT CCCCTT C
45632 TTCTTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (6 bp):
CCCCTT
Found at i:45611 original size:14 final size:14
Alignment explanation
Indices: 45592--45628 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
45582 AATATCATCA
45592 TCCCCTTCCCCCCT
1 TCCCCTTCCCCCCT
45606 TCCCCTT--CCCCT
1 TCCCCTTCCCCCCT
*
45618 TCTCCTTCCCC
1 TCCCCTTCCCC
45629 TTCTTCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
12 11 0.55
14 9 0.45
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (14 bp):
TCCCCTTCCCCCCT
Found at i:45707 original size:68 final size:67
Alignment explanation
Indices: 45601--45730 Score: 206
Period size: 68 Copynumber: 1.9 Consensus size: 67
45591 ATCCCCTTCC
*
45601 CCCCTTCCCCTTCCCCTTCTCCTTCCCCTTCTTCTTATTTTCCTTCCGATGGGTTTTTTTTTCTG
1 CCCCTTCCCCTTCCCCTTCCCCTTCCCCTTCTTCTTATTTTCCTTCCGATGGGTTTTTTTTTCTG
45666 TT
66 TT
* * * *
45668 CCCCTTCCCCCTTTCCCTTCCCCTTCCTCTTCTTCTTATTTTCCTTTCGGTGGGTTTTTTTTT
1 CCCCTT-CCCCTTCCCCTTCCCCTTCCCCTTCTTCTTATTTTCCTTCCGATGGGTTTTTTTTT
45731 NNNNNNNNNN
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
67 6 0.11
68 51 0.89
ACGTcount: A:0.02, C:0.38, G:0.08, T:0.52
Consensus pattern (67 bp):
CCCCTTCCCCTTCCCCTTCCCCTTCCCCTTCTTCTTATTTTCCTTCCGATGGGTTTTTTTTTCTG
TT
Found at i:45813 original size:15 final size:15
Alignment explanation
Indices: 45793--45826 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
45783 TTCCCCTTCC
*
45793 CCTTCTTCTTATTTT
1 CCTTCTTCTTATTTG
*
45808 CCTTCTTTTTATTTG
1 CCTTCTTCTTATTTG
45823 CCTT
1 CCTT
45827 TTTTAGATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.26, G:0.03, T:0.65
Consensus pattern (15 bp):
CCTTCTTCTTATTTG
Found at i:46443 original size:25 final size:25
Alignment explanation
Indices: 46415--46465 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
46405 CAAACAGAAA
*
46415 AACCCAAAAGAATAGGATGATGATG
1 AACCCAAAAGAATAGGAAGATGATG
*
46440 AACCCAGAAGAATAGGAAGATGATG
1 AACCCAAAAGAATAGGAAGATGATG
46465 A
1 A
46466 TTAAAATATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.49, C:0.12, G:0.25, T:0.14
Consensus pattern (25 bp):
AACCCAAAAGAATAGGAAGATGATG
Found at i:46512 original size:20 final size:22
Alignment explanation
Indices: 46487--46528 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
46477 AAATAATTTT
46487 AATAATTTT-AT-ATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
46507 AATAATTTTAATAATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
46529 TCATTTGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 2 0.10
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATAATTTTAATAATTTTAAAA
Found at i:46529 original size:20 final size:20
Alignment explanation
Indices: 46478--46534 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
46468 AAAATATCAA
46478 AATAATTTT--AATAATTTT
1 AATAATTTTAAAATAATTTT
46496 -AT-ATTTTAAAAAATAATTTT
1 AATAATTTT--AAAATAATTTT
*
46516 AATAATTTTAAAATCATTT
1 AATAATTTTAAAATAATTT
46535 GCTGATGTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
16 5 0.16
17 2 0.06
20 18 0.56
21 2 0.06
22 5 0.16
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
AATAATTTTAAAATAATTTT
Found at i:63733 original size:22 final size:22
Alignment explanation
Indices: 63708--63753 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
63698 AACTGAAGTG
*
63708 TTATTTATTGA-TTTTGATTAGT
1 TTATTAATTGATTTTTGA-TAGT
63730 TTATTAATTGATTTTTGATAGT
1 TTATTAATTGATTTTTGATAGT
63752 TT
1 TT
63754 TAGAAAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.24, C:0.00, G:0.13, T:0.63
Consensus pattern (22 bp):
TTATTAATTGATTTTTGATAGT
Found at i:73960 original size:24 final size:24
Alignment explanation
Indices: 73924--73969 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
73914 ACATTCATCC
* *
73924 AATTCATGCATTA-GCATTCAAAAG
1 AATTCAAGAATTATGCA-TCAAAAG
73948 AATTCAAGAATTATGCATCAAA
1 AATTCAAGAATTATGCATCAAA
73970 TGAAAAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (24 bp):
AATTCAAGAATTATGCATCAAAAG
Found at i:74635 original size:12 final size:12
Alignment explanation
Indices: 74604--74646 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
74594 AAATACTTTC
74604 TTCTTCTTCCTT
1 TTCTTCTTCCTT
* *
74616 CTCCTCTTCCTT
1 TTCTTCTTCCTT
* *
74628 TTCTTCTTTCTC
1 TTCTTCTTCCTT
74640 TTCTTCT
1 TTCTTCT
74647 CTTGCTCCTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (12 bp):
TTCTTCTTCCTT
Found at i:75200 original size:17 final size:17
Alignment explanation
Indices: 75173--75205 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
75163 GTCTGAGCGG
75173 CCTTCTTCTTTCCTTTTC
1 CCTTCTTCTTT-CTTTTC
75191 CCTT-TTCTTTCTTTT
1 CCTTCTTCTTTCTTTT
75206 GTGGAACCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (17 bp):
CCTTCTTCTTTCTTTTC
Found at i:84455 original size:24 final size:24
Alignment explanation
Indices: 84423--84471 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
84413 CAAGCTTTCA
84423 TGGCAACTTTGGATGAGAGAAATT
1 TGGCAACTTTGGATGAGAGAAATT
84447 TGGCAACTTTGGATGAGAGAAATT
1 TGGCAACTTTGGATGAGAGAAATT
84471 T
1 T
84472 AGATTTGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.31
Consensus pattern (24 bp):
TGGCAACTTTGGATGAGAGAAATT
Found at i:92326 original size:2 final size:2
Alignment explanation
Indices: 92319--92347 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
92309 GCAATATTCC
92319 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
92348 ATTAACTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95403 original size:21 final size:24
Alignment explanation
Indices: 95361--95403 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
95351 GGATAATATA
95361 TTTTGATATAACAAATTAAAGTGT
1 TTTTGATATAACAAATTAAAGTGT
95385 TTTTGA-ATAA-AAA-TAAAGT
1 TTTTGATATAACAAATTAAAGT
95404 TAAACAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 4 0.21
24 6 0.32
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.40
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTGT
Found at i:105604 original size:12 final size:12
Alignment explanation
Indices: 105554--105616 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 12
105544 TAAATAGAAA
*
105554 TTATCATTTTGTT
1 TTATCATTTT-TC
105567 TTAT-A-TTTTC
1 TTATCATTTTTC
* *
105577 TCATCATTGTTC
1 TTATCATTTTTC
*
105589 TTATCATTTTTT
1 TTATCATTTTTC
105601 TTAT-ATTTGTTC
1 TTATCATTT-TTC
105613 TTAT
1 TTAT
105617 TGCAATCTCT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
10 4 0.10
11 8 0.20
12 24 0.60
13 4 0.10
ACGTcount: A:0.17, C:0.11, G:0.05, T:0.67
Consensus pattern (12 bp):
TTATCATTTTTC
Found at i:114423 original size:4 final size:4
Alignment explanation
Indices: 114416--114443 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
114406 AAAAAAAAAA
114416 AAAG AAAG AAAG AAAG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG
114444 TAAACTAAAA
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:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:116535 original size:58 final size:59
Alignment explanation
Indices: 116460--116582 Score: 173
Period size: 58 Copynumber: 2.1 Consensus size: 59
116450 GTCATTTTTT
*
116460 ATTTTC-TTTTTCATTTTGGAGAAAATCACAT-TCATTTCCAAATGTTTCCT-ATTTCTCC
1 ATTTTCATTTTTCATTTTGGAGAAAACCACATGT-ATTTCCAAATG-TTCCTCATTTCTCC
* *
116518 ATTTTCATTTTT-GTTTTGGAGAAAACCACATGTATTTCCAAATGTTCCTCATTTTTCC
1 ATTTTCATTTTTCATTTTGGAGAAAACCACATGTATTTCCAAATGTTCCTCATTTCTCC
116576 ATTTTCA
1 ATTTTCA
116583 CCATTTCTAT
Statistics
Matches: 59, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
57 5 0.08
58 48 0.81
59 6 0.10
ACGTcount: A:0.24, C:0.20, G:0.08, T:0.48
Consensus pattern (59 bp):
ATTTTCATTTTTCATTTTGGAGAAAACCACATGTATTTCCAAATGTTCCTCATTTCTCC
Found at i:117968 original size:205 final size:207
Alignment explanation
Indices: 117584--117972 Score: 604
Period size: 206 Copynumber: 1.9 Consensus size: 207
117574 TTTTAAGTAG
* *
117584 GATACTCAATTATTTAGGTTCGAAGAAAAAATCGCACCCAACATGTTAGGGCACAATCTCTCGAA
1 GATACTCAATTATTTAGGTTCGAAGAAAAAATCACACCCAACACGTTAGGGCACAATCTCTCGAA
* * *
117649 TTCCCTAAAATAAAAGAACATTGCCTTTATTTTTAAGACAACTTATGTATTTTGAAAAACGATAT
66 TTCCCTAAAATAAAAGAACATTGCCTTTATTTTTAAAACAACTTATGCATTTTAAAAAACGATAT
*
117714 ACATTTTATTTCGTTAAAAATGTTTTACAAAAGAAGGATAAATCCATGTAATTTTACACATAAAA
131 ACATTTTATTTCGTTAAAAATGTTTTACAAAAGAAGGATAAACCCATGTAATTTTACACATAAAA
117779 ATGGTGATTATC
196 ATGGTGATTATC
* * * * *
117791 GATATTCAATTATTTAGGTTCGAAG-AAAAATCATACCCAATACGTTAGGGCATCACT-TTTCGA
1 GATACTCAATTATTTAGGTTCGAAGAAAAAATCACACCCAACACGTTAGGGCA-CAATCTCTCGA
* *
117854 ATTCCCTAAAATAAAAGAACATTGCTTTTATTTTTAAAACAATTTATGCA-TTTAAAAAACGATA
65 ATTCCCTAAAATAAAAGAACATTGCCTTTATTTTTAAAACAACTTATGCATTTTAAAAAACGATA
* * *
117918 TACATTTTATTTTGTTAAAAATGTTTTGCAAAAGATGGATAAACCCATGTAATTT
130 TACATTTTATTTCGTTAAAAATGTTTTACAAAAGAAGGATAAACCCATGTAATTT
117973 ATGAGTAGAA
Statistics
Matches: 165, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
205 64 0.39
206 74 0.45
207 27 0.16
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.34
Consensus pattern (207 bp):
GATACTCAATTATTTAGGTTCGAAGAAAAAATCACACCCAACACGTTAGGGCACAATCTCTCGAA
TTCCCTAAAATAAAAGAACATTGCCTTTATTTTTAAAACAACTTATGCATTTTAAAAAACGATAT
ACATTTTATTTCGTTAAAAATGTTTTACAAAAGAAGGATAAACCCATGTAATTTTACACATAAAA
ATGGTGATTATC
Found at i:120102 original size:42 final size:42
Alignment explanation
Indices: 120037--120280 Score: 356
Period size: 42 Copynumber: 6.0 Consensus size: 42
120027 TCGTAACCTA
*
120037 TCTTCAATCTGCCCCATGGTCGAGGTAAGAGATTGGATGATG
1 TCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGATG
* *
120079 TCTTTAATCTACCCCATGATCGAGGTAAGAGATTGGATG--G
1 TCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGATG
* *
120119 -CTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGATG
1 TCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGATG
120160 TCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGA--
1 TCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGATG
* *
120200 -CTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGATG
1 TCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGATG
* * *
120241 TCTTCAATCTGTCCCATGATTGGGGTAAGAGATTGGATGA
1 TCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGA
120281 CTTCAATCTA
Statistics
Matches: 182, Mismatches: 14, Indels: 12
0.88 0.07 0.06
Matches are distributed among these distances:
39 71 0.39
40 1 0.01
41 1 0.01
42 109 0.60
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (42 bp):
TCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGATG
Found at i:120175 original size:81 final size:81
Alignment explanation
Indices: 120038--120299 Score: 443
Period size: 81 Copynumber: 3.2 Consensus size: 81
120028 CGTAACCTAT
* * *
120038 CTTCAATCTGCCCCATGGTCGAGGTAAGAGATTGGATGATGTCTTTAATCTACCCCATGATCGAG
1 CTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGAG
*
120103 GTAAGAGATTGGATGG
66 GTAAGAGATTGGATGA
120119 CTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGAG
1 CTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGAG
120184 GTAAGAGATTGGATGA
66 GTAAGAGATTGGATGA
* * *
120200 CTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGATGTCTTCAATCTGTCCCATGATTGGG
1 CTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGAG
120265 GTAAGAGATTGGATGA
66 GTAAGAGATTGGATGA
* *
120281 CTTCAATCTACCCTATGGT
1 CTTCAATCTGCCCCATGGT
120300 TGTCTTCAAT
Statistics
Matches: 172, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 172 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (81 bp):
CTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGAG
GTAAGAGATTGGATGA
Found at i:120257 original size:123 final size:121
Alignment explanation
Indices: 120037--120280 Score: 364
Period size: 123 Copynumber: 2.0 Consensus size: 121
120027 TCGTAACCTA
* *
120037 TCTTCAATCTGCCCCATGGTCGAGGTAAGAGATTGGATGATGTCTTTAATCTACCCCATGATCGA
1 TCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGA--TCTTCAATCTACCCCATGATCGA
*
120102 GGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGATG
64 GGTAAGAGATTGGATGGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATG
* * *
120160 TCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGA-CTTCAATCTGCCCCATGGTCGGGG
1 TCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGATCTTCAATCTACCCCATGATCGAGG
* *
120224 TAAGAGATTGGATGATGTCTTCAATCTGTCCCATGATTGGGGTAAGAGATTGGATGA
66 TAAGAGATTGGATG--G-CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGA
120281 CTTCAATCTA
Statistics
Matches: 110, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
120 34 0.31
122 1 0.01
123 75 0.68
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (121 bp):
TCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGATCTTCAATCTACCCCATGATCGAGG
TAAGAGATTGGATGGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATG
Found at i:120334 original size:61 final size:61
Alignment explanation
Indices: 120239--120360 Score: 210
Period size: 61 Copynumber: 2.0 Consensus size: 61
120229 GATTGGATGA
120239 TGTCTTCAATCTGTCCCATGATTGGGGTAAGAGATTGGATGACTTCAATCTACCCTATGGT
1 TGTCTTCAATCTGTCCCATGATTGGGGTAAGAGATTGGATGACTTCAATCTACCCTATGGT
* *
120300 TGTCTTCAAT-TTTCCCCATGATTGGGGTAAGAGATTGGATGACTTCAATTTACCCTATGGT
1 TGTCTTCAATCTGT-CCCATGATTGGGGTAAGAGATTGGATGACTTCAATCTACCCTATGGT
120361 CAAGGTAAGA
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
60 2 0.03
61 56 0.97
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (61 bp):
TGTCTTCAATCTGTCCCATGATTGGGGTAAGAGATTGGATGACTTCAATCTACCCTATGGT
Found at i:120410 original size:42 final size:42
Alignment explanation
Indices: 120300--120581 Score: 300
Period size: 42 Copynumber: 7.0 Consensus size: 42
120290 ACCCTATGGT
* * *
120300 TGTCTTCAATTTTCCCCATGATTGGGGTAAGAGATTGGATGA
1 TGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGA
* * * * **
120342 ---CTTCAATTTACCCTATGGTCAAGGTAAGAGATTGGATGA
1 TGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGA
120381 TGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGA
1 TGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGA
* **
120423 ---CTTCAATCTGCCCCATGGTTTGGGTAAGAGATTGGATGA
1 TGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGA
120462 TGTCTTCAATCAT-CCCCATGATCGGGGT-A-AGATT-G--GA
1 TGTCTTCAATC-TGCCCCATGATCGGGGTAAGAGATTGGATGA
* * * * *
120499 TGTCTTTAATCTGCCCCATGGTCAGGGTAAGAGATTAGAGGA
1 TGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGA
* *
120541 TGTCTTCAATCTGCCTCATGATCGGGTTAAGAGATTGGATG
1 TGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATG
120582 GTAGCTTTGC
Statistics
Matches: 199, Mismatches: 28, Indels: 26
0.79 0.11 0.10
Matches are distributed among these distances:
36 1 0.01
37 25 0.13
38 1 0.01
39 75 0.38
40 6 0.03
41 1 0.01
42 89 0.45
43 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (42 bp):
TGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGA
Found at i:120414 original size:142 final size:142
Alignment explanation
Indices: 120158--120442 Score: 453
Period size: 142 Copynumber: 2.0 Consensus size: 142
120148 GATTGGATGA
* **
120158 TGTCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGACTTCAATCTGCCCCATGGTCGGG
1 TGTCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGACTTCAATCTACCCCATGGTCAAG
* *
120223 GTAAGAGATTGGATGATGTCTTCAATCTGTCCCATGATTGGGGTAAGAGATTGGATGACTTCAAT
66 GTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGACTTCAAT
*
120288 CTACCCTATGGT
131 CTACCCCATGGT
* * * * * *
120300 TGTCTTCAATTTTCCCCATGATTGGGGTAAGAGATTGGATGACTTCAATTTACCCTATGGTCAAG
1 TGTCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGACTTCAATCTACCCCATGGTCAAG
120365 GTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGACTTCAAT
66 GTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGACTTCAAT
*
120430 CTGCCCCATGGT
131 CTACCCCATGGT
120442 T
1 T
120443 TGGGTAAGAG
Statistics
Matches: 130, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
142 130 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (142 bp):
TGTCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGACTTCAATCTACCCCATGGTCAAG
GTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGACTTCAAT
CTACCCCATGGT
Found at i:120441 original size:81 final size:81
Alignment explanation
Indices: 120300--120581 Score: 399
Period size: 81 Copynumber: 3.5 Consensus size: 81
120290 ACCCTATGGT
* * * * * * *
120300 TGTCTTCAATTTTCCCCATGATTGGGGTAAGAGATTGGATGACTTCAATTTACCCTATGGTCAAG
1 TGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGACTTCAATCTGCCCCATGGTCAGG
120365 GTAAGAGATTGGATGA
66 GTAAGAGATTGGATGA
**
120381 TGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGACTTCAATCTGCCCCATGGTTTGG
1 TGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGACTTCAATCTGCCCCATGGTCAGG
120446 GTAAGAGATTGGATGA
66 GTAAGAGATTGGATGA
* *
120462 TGTCTTCAATCAT-CCCCATGATCGGGGT-A-AGATTGGATGTCTTTAATCTGCCCCATGGTCAG
1 TGTCTTCAATC-TGCCCCATGATCGGGGTAAGAGATTGGATGACTTCAATCTGCCCCATGGTCAG
* *
120524 GGTAAGAGATTAGAGGA
65 GGTAAGAGATTGGATGA
* *
120541 TGTCTTCAATCTGCCTCATGATCGGGTTAAGAGATTGGATG
1 TGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATG
120582 GTAGCTTTGC
Statistics
Matches: 180, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 68 0.38
80 2 0.01
81 108 0.60
82 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (81 bp):
TGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGACTTCAATCTGCCCCATGGTCAGG
GTAAGAGATTGGATGA
Found at i:120482 original size:223 final size:221
Alignment explanation
Indices: 120090--120520 Score: 675
Period size: 223 Copynumber: 1.9 Consensus size: 221
120080 CTTTAATCTA
* * **
120090 CCCCATGATCGAGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGA
1 CCCCATGATCGAGGTAAGAGATTGGATGACTTCAATCTACCCCATGGTCAAGGTAAGAGATTGGA
120155 TGATGTCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGACTTCAATCTGCCCCATGGTC
66 TGATGTCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGACTTCAATCTGCCCCATGGTC
* *
120220 GGGGTAAGAGATTGGATGATGTCTTCAATCTGTCCCATGATTGGGGTAAGAGATTGGATGACTTC
131 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGGGGT-A-AGATTGGATGACTTC
*
120285 AATCTACCCTATGGTTGTCTTCAATTTT
194 AATCTACCCCATGGTTGTCTTCAATTTT
* * * *
120313 CCCCATGATTGGGGTAAGAGATTGGATGACTTCAATTTACCCTATGGTCAAGGTAAGAGATTGGA
1 CCCCATGATCGAGGTAAGAGATTGGATGACTTCAATCTACCCCATGGTCAAGGTAAGAGATTGGA
* *
120378 TGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGACTTCAATCTGCCCCATGGTT
66 TGATGTCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGACTTCAATCTGCCCCATGGTC
* * *
120443 TGGGTAAGAGATTGGATGATGTCTTCAATCAT-CCCCATGATCGGGGTAAGATTGGATGTCTTTA
131 GGGGTAAGAGATTGGATGATGTCTTCAATC-TGCCCCATGATCGGGGTAAGATTGGATGACTTCA
*
120507 ATCTGCCCCATGGT
195 ATCTACCCCATGGT
120521 CAGGGTAAGA
Statistics
Matches: 190, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
221 26 0.14
222 1 0.01
223 162 0.85
224 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (221 bp):
CCCCATGATCGAGGTAAGAGATTGGATGACTTCAATCTACCCCATGGTCAAGGTAAGAGATTGGA
TGATGTCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGACTTCAATCTGCCCCATGGTC
GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGGGGTAAGATTGGATGACTTCAA
TCTACCCCATGGTTGTCTTCAATTTT
Found at i:132403 original size:18 final size:18
Alignment explanation
Indices: 132380--132418 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
132370 TGCTTTTATT
*
132380 TTTAAAACAATT-TATGCA
1 TTTAAAA-AATTATATACA
132398 TTTAAAAAATTATATACA
1 TTTAAAAAATTATATACA
132416 TTT
1 TTT
132419 TATTTTGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (18 bp):
TTTAAAAAATTATATACA
Found at i:132446 original size:204 final size:206
Alignment explanation
Indices: 132087--132488 Score: 535
Period size: 204 Copynumber: 2.0 Consensus size: 206
132077 AGGATACTCA
* *
132087 ATTATTTAGGTTCAAAGAAAAAATCGTACCCAACACGTACGGGCACAATCTATCGAATTCCAGAA
1 ATTATTTAGGTTCAAAGAAAAAATCATAACCAACACGTACGGGCACAATCTATCGAATTCCAGAA
* * **
132152 AATAAAAAAAACATTGCCTTTATTTTTAAGACAACTTATGTATTTTGAAAACGATATACATTTTA
66 AATAAAAAAAACATTGCCTTTATTTTTAAAACAACTTATGCATTTAAAAAACGATATACATTTTA
*
132217 TTTTGTTAAAAATATTTTACAAAAGATGCATAAATCCATGTAATTTAC-ACATAAAAATGGCGAT
131 TTTTGTTAAAAATATTTTACAAAAGATGCATAAACCCATGTAATTTACGA-ATAAAAATGGCGAT
132281 TATCGATATTTG
195 TATCGATATTTG
* * * * * **
132293 ATTATTTAGGTTCGAAG-AAAAATTATAACCAACACTTTA-GGGCACCA-CTTTTCGAATTCCCT
1 ATTATTTAGGTTCAAAGAAAAAATCATAACCAACAC-GTACGGGCACAATC-TATCGAATTCCAG
* * * **
132355 AAAAT-AAAATAACATTGCTTTTATTTTTAAAACAATTTATGCATTTAAAAAATTATATACATTT
64 AAAATAAAAAAAACATTGCCTTTATTTTTAAAACAACTTATGCATTTAAAAAACGATATACATTT
* * * *
132419 TATTTTGTTAAAAATGTTTTGCAAAAGATGGATAAACCCATGTAATTTACGAGTAAAAATGGCGA
129 TATTTTGTTAAAAATATTTTACAAAAGATGCATAAACCCATGTAATTTACGAATAAAAATGGCGA
132484 TTATC
194 TTATC
132489 AAGTTAAAAT
Statistics
Matches: 170, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
204 114 0.67
205 38 0.22
206 18 0.11
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (206 bp):
ATTATTTAGGTTCAAAGAAAAAATCATAACCAACACGTACGGGCACAATCTATCGAATTCCAGAA
AATAAAAAAAACATTGCCTTTATTTTTAAAACAACTTATGCATTTAAAAAACGATATACATTTTA
TTTTGTTAAAAATATTTTACAAAAGATGCATAAACCCATGTAATTTACGAATAAAAATGGCGATT
ATCGATATTTG
Found at i:140252 original size:30 final size:30
Alignment explanation
Indices: 140218--140279 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 30
140208 GTTTTGGATT
140218 CCTTAAAAGTAAG-AAAATTTTTTTTAGACC
1 CCTTAAAAGT-AGTAAAATTTTTTTTAGACC
* *
140248 CCTTAAAAGTTGTTAAAATTTTTTTTTGACC
1 CCTTAAAAGTAG-TAAAATTTTTTTTAGACC
140279 C
1 C
140280 TTTGAAAGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 1 0.04
30 10 0.36
31 17 0.61
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.42
Consensus pattern (30 bp):
CCTTAAAAGTAGTAAAATTTTTTTTAGACC
Found at i:141752 original size:12 final size:12
Alignment explanation
Indices: 141737--141769 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
141727 TTTTTTCTGC
141737 TCTCCTTCCCCT
1 TCTCCTTCCCCT
*
141749 TCTCCATCCCCT
1 TCTCCTTCCCCT
141761 TCTCCTTCC
1 TCTCCTTCC
141770 AAGAAATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.03, C:0.58, G:0.00, T:0.39
Consensus pattern (12 bp):
TCTCCTTCCCCT
Found at i:142277 original size:39 final size:39
Alignment explanation
Indices: 142234--142312 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
142224 ATAGAAGAGA
* * *
142234 TTTGAAAATGAAATGGCTTCAAATGAAAGTAGAACCAAC
1 TTTGAAAATGAAATGACCTCAAATAAAAGTAGAACCAAC
142273 TTTGAAAATGAAATGACCTCAAATAAAAGTAGAACCAAC
1 TTTGAAAATGAAATGACCTCAAATAAAAGTAGAACCAAC
142312 T
1 T
142313 CTAAAGATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.48, C:0.14, G:0.15, T:0.23
Consensus pattern (39 bp):
TTTGAAAATGAAATGACCTCAAATAAAAGTAGAACCAAC
Found at i:143423 original size:24 final size:23
Alignment explanation
Indices: 143374--143423 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
143364 TTAATATATG
* * *
143374 AAATATTAATTTTAAATATTTTT
1 AAATATTAATATTAAATACTTAT
*
143397 AAATAATTAATATTAATTACTTAT
1 AAAT-ATTAATATTAAATACTTAT
143421 AAA
1 AAA
143424 ATCTAATTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
AAATATTAATATTAAATACTTAT
Found at i:151591 original size:24 final size:24
Alignment explanation
Indices: 151561--151739 Score: 94
Period size: 24 Copynumber: 7.2 Consensus size: 24
151551 TTCATTTCGT
*
151561 TTTATGCTCGCCAGCTTGTACACG
1 TTTATGCTCGTCAGCTTGTACACG
* **
151585 TTTATGCTCGTTAGCTTACACACG
1 TTTATGCTCGTCAGCTTGTACACG
* * *
151609 TTGATGCTCGTCAGCTATATATATGCG
1 TTTATGCTCGTCAGCT-TGTACA--CG
* * * *
151636 TTTACGCT-TTCCAGCTTGCACATG
1 TTTATGCTCGT-CAGCTTGTACACG
* * *
151660 TTTACT-CTTGTCAGCTTATATATATGCG
1 TTTA-TGCTCGTCAGC-T-TGTACA--CG
*
151688 TTTATGCTC-TCCAGCTTGCACACG
1 TTTATGCTCGT-CAGCTTGTACACG
* *
151712 TTTATGCTCGTCAACTTGTACGCG
1 TTTATGCTCGTCAGCTTGTACACG
151736 TTTA
1 TTTA
151740 CGCTTATCAG
Statistics
Matches: 114, Mismatches: 28, Indels: 26
0.68 0.17 0.15
Matches are distributed among these distances:
24 70 0.61
25 7 0.06
26 10 0.09
27 16 0.14
28 11 0.10
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.39
Consensus pattern (24 bp):
TTTATGCTCGTCAGCTTGTACACG
Found at i:151690 original size:52 final size:51
Alignment explanation
Indices: 151618--151715 Score: 160
Period size: 52 Copynumber: 1.9 Consensus size: 51
151608 GTTGATGCTC
* *
151618 GTCAGCTATATATATGCGTTTACGCTTTCCAGCTTGCACATGTTTACTCTT
1 GTCAGCTATATATATGCGTTTACGCTCTCCAGCTTGCACACGTTTACTCTT
*
151669 GTCAGCTTATATATATGCGTTTATGCTCTCCAGCTTGCACACGTTTA
1 GTCAGC-TATATATATGCGTTTACGCTCTCCAGCTTGCACACGTTTA
151716 TGCTCGTCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
51 6 0.14
52 37 0.86
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.40
Consensus pattern (51 bp):
GTCAGCTATATATATGCGTTTACGCTCTCCAGCTTGCACACGTTTACTCTT
Found at i:151739 original size:76 final size:76
Alignment explanation
Indices: 151650--151834 Score: 235
Period size: 76 Copynumber: 2.4 Consensus size: 76
151640 CGCTTTCCAG
* * * * *
151650 CTTGCACATGTTTACTCTTGTCAGCTTATATATATGCGTTTATGCTCTCCAGCTTGCACACGTTT
1 CTTGCACACGTTTACGCTTATCAGCTTATATATATGCATTTATGCTCGCCAGCTTGCACACGTTT
**
151715 ATGCTCGTCAA
66 ACACTCGTCAA
* * * * *
151726 CTTGTACGCGTTTACGCTTATCAGTTTATATATATGCATTTATGCTCGCTAGCTTGCACATGTTT
1 CTTGCACACGTTTACGCTTATCAGCTTATATATATGCATTTATGCTCGCCAGCTTGCACACGTTT
*
151791 ACACTCGTCAG
66 ACACTCGTCAA
* *
151802 CTTGCACACGTTTACGCTCATCATCTTATATAT
1 CTTGCACACGTTTACGCTTATCAGCTTATATAT
151835 GCGTTGCTTT
Statistics
Matches: 91, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
76 91 1.00
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (76 bp):
CTTGCACACGTTTACGCTTATCAGCTTATATATATGCATTTATGCTCGCCAGCTTGCACACGTTT
ACACTCGTCAA
Found at i:158556 original size:24 final size:24
Alignment explanation
Indices: 158421--158544 Score: 185
Period size: 24 Copynumber: 5.2 Consensus size: 24
158411 ATTCATTGTT
*
158421 TTTATGCTCGTCAGCTTGCACACG
1 TTTACGCTCGTCAGCTTGCACACG
*
158445 TTTACGCTCGTCAGCTTGCACACA
1 TTTACGCTCGTCAGCTTGCACACG
*
158469 TTTACGCTCGTCATCTTGCACACG
1 TTTACGCTCGTCAGCTTGCACACG
*
158493 TTTACGCTCGTCATCTTGCACACG
1 TTTACGCTCGTCAGCTTGCACACG
* * *
158517 TTTACGCTCATTAGCTTGCACAGG
1 TTTACGCTCGTCAGCTTGCACACG
158541 TTTA
1 TTTA
158545 TGCTTGTTAG
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 92 1.00
ACGTcount: A:0.19, C:0.30, G:0.18, T:0.34
Consensus pattern (24 bp):
TTTACGCTCGTCAGCTTGCACACG
Found at i:158663 original size:24 final size:24
Alignment explanation
Indices: 158626--158717 Score: 71
Period size: 24 Copynumber: 3.7 Consensus size: 24
158616 TATATATGCA
**
158626 TTTACGCTCATCAGCTTGCACACG
1 TTTACGCTTGTCAGCTTGCACACG
* *
158650 TTTACGCTTGTCAGC-TACATATATGCG
1 TTTACGCTTGTCAGCTTGC--ACA--CG
* *
158677 TTTACGC-TCTCTAACTTGCACACG
1 TTTACGCTTGTC-AGCTTGCACACG
158701 TTTACGCTTGTCAGCTT
1 TTTACGCTTGTCAGCTT
158718 ATATATATGT
Statistics
Matches: 51, Mismatches: 10, Indels: 14
0.68 0.13 0.19
Matches are distributed among these distances:
23 2 0.04
24 26 0.51
25 5 0.10
26 5 0.10
27 11 0.22
28 2 0.04
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (24 bp):
TTTACGCTTGTCAGCTTGCACACG
Found at i:158720 original size:109 final size:109
Alignment explanation
Indices: 158517--158725 Score: 283
Period size: 109 Copynumber: 1.9 Consensus size: 109
158507 CTTGCACACG
* * * * * *
158517 TTTACGCTCATTAGCTTGCACAGGTTTATGCTTGTTAGCTACGTATATGCGTTTACGCTCGCCAG
1 TTTACGCTCATCAGCTTGCACACGTTTACGCTTGTCAGCTACATATATGCGTTTACGCTCGCCAA
* ** *
158582 GTTGCACATTTTTACTCTCATCAGATTATATATATATATATGCA
66 CTTGCACACGTTTACGCTCATCAGATTATATATATATATATGCA
* *
158626 TTTACGCTCATCAGCTTGCACACGTTTACGCTTGTCAGCTACATATATGCGTTTACGCTCTCTAA
1 TTTACGCTCATCAGCTTGCACACGTTTACGCTTGTCAGCTACATATATGCGTTTACGCTCGCCAA
** *
158691 CTTGCACACGTTTACGCTTGTCAGCTTATATATAT
66 CTTGCACACGTTTACGCTCATCAGATTATATATAT
158726 GTGTTTATGC
Statistics
Matches: 85, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
109 85 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (109 bp):
TTTACGCTCATCAGCTTGCACACGTTTACGCTTGTCAGCTACATATATGCGTTTACGCTCGCCAA
CTTGCACACGTTTACGCTCATCAGATTATATATATATATATGCA
Found at i:158746 original size:52 final size:52
Alignment explanation
Indices: 158614--158775 Score: 202
Period size: 51 Copynumber: 3.1 Consensus size: 52
158604 AGATTATATA
* ** *
158614 TATATATATGCATTTACGCTCATCAGCTTGCACACGTTTACGCTTGTCAGC-
1 TATATATATGCGTTTACGCTCGCCAACTTGCACACGTTTACGCTTGTCAGCT
* * *
158665 TACATATATGCGTTTACGCTCTCTAACTTGCACACGTTTACGCTTGTCAGCT
1 TATATATATGCGTTTACGCTCGCCAACTTGCACACGTTTACGCTTGTCAGCT
* * * *
158717 TATATATATGTGTTTATGCTCGCCAACTTGCACATGTTTACGC-TCTCTAGCT
1 TATATATATGCGTTTACGCTCGCCAACTTGCACACGTTTACGCTTGTC-AGCT
158769 TATATAT
1 TATATAT
158776 GCATTGCTTT
Statistics
Matches: 96, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
51 48 0.50
52 48 0.50
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (52 bp):
TATATATATGCGTTTACGCTCGCCAACTTGCACACGTTTACGCTTGTCAGCT
Found at i:161711 original size:18 final size:18
Alignment explanation
Indices: 161688--161723 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
161678 AATCTTGTAA
161688 TAATAAT-AATAAATAAAT
1 TAATAATAAAT-AATAAAT
161706 TAATAATAAATAATAAAT
1 TAATAATAAATAATAAAT
161724 AATTATTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TAATAATAAATAATAAAT
Found at i:161717 original size:7 final size:7
Alignment explanation
Indices: 161686--161726 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
161676 AAAATCTTGT
161686 AATAAT-
1 AATAATA
161692 AATAATA
1 AATAATA
*
161699 AATAAATT
1 AAT-AATA
161707 AATAATA
1 AATAATA
161714 AATAATA
1 AATAATA
161721 AATAAT
1 AATAAT
161727 TATTTAGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
6 6 0.19
7 19 0.61
8 6 0.19
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
AATAATA
Found at i:161737 original size:22 final size:22
Alignment explanation
Indices: 161685--161725 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
161675 TAAAATCTTG
161685 TAATAAT-AATAATAAATAAAT
1 TAATAATAAATAATAAATAAAT
161706 TAATAATAAATAATAAATAA
1 TAATAATAAATAATAAATAA
161726 TTATTTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
TAATAATAAATAATAAATAAAT
Found at i:169753 original size:26 final size:25
Alignment explanation
Indices: 169638--169841 Score: 167
Period size: 26 Copynumber: 7.9 Consensus size: 25
169628 AAAATCACTA
* *
169638 GCTCAAGGCTTGCTATTTAGTCACCG
1 GCTCAA-GCCTGCTATTTAATCACCG
* * * *
169664 GCTCGAAGCCTACTAATGATTCACCG
1 GCTC-AAGCCTGCTATTTAATCACCG
* * *
169690 GCTCATAGACTGCTA-TTAGTCACCT
1 GCTCA-AGCCTGCTATTTAATCACCG
* *
169715 GCTCAAGGTCTGCTATTTAATCATCG
1 GCTCAA-GCCTGCTATTTAATCACCG
* *
169741 GCTCGAAGCCTGCTAGTAAATCACCG
1 GCTC-AAGCCTGCTATTTAATCACCG
*
169767 GCTCAAGGCCTGCTATTTAATCATCG
1 GCTCAA-GCCTGCTATTTAATCACCG
* * * *
169793 GTTCGAAGCCTGTTAGTAAATCACCG
1 GCTC-AAGCCTGCTATTTAATCACCG
169819 GCTCAAGGCCTGCTATTTAATCA
1 GCTCAA-GCCTGCTATTTAATCA
169842 TTGAATTTCT
Statistics
Matches: 140, Mismatches: 30, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
24 1 0.01
25 24 0.17
26 109 0.78
27 6 0.04
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (25 bp):
GCTCAAGCCTGCTATTTAATCACCG
Found at i:169773 original size:52 final size:52
Alignment explanation
Indices: 169709--169842 Score: 232
Period size: 52 Copynumber: 2.6 Consensus size: 52
169699 CTGCTATTAG
* *
169709 TCACCTGCTCAAGGTCTGCTATTTAATCATCGGCTCGAAGCCTGCTAGTAAA
1 TCACCGGCTCAAGGCCTGCTATTTAATCATCGGCTCGAAGCCTGCTAGTAAA
* *
169761 TCACCGGCTCAAGGCCTGCTATTTAATCATCGGTTCGAAGCCTGTTAGTAAA
1 TCACCGGCTCAAGGCCTGCTATTTAATCATCGGCTCGAAGCCTGCTAGTAAA
169813 TCACCGGCTCAAGGCCTGCTATTTAATCAT
1 TCACCGGCTCAAGGCCTGCTATTTAATCAT
169843 TGAATTTCTA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 78 1.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (52 bp):
TCACCGGCTCAAGGCCTGCTATTTAATCATCGGCTCGAAGCCTGCTAGTAAA
Found at i:173382 original size:3 final size:3
Alignment explanation
Indices: 173374--173411 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
173364 AAAATCTCAA
173374 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
173412 AGAATAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:174502 original size:22 final size:22
Alignment explanation
Indices: 174467--174509 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
174457 CTAAAAGTGA
174467 ATGGTGAATATTTGATGAATTT
1 ATGGTGAATATTTGATGAATTT
*
174489 ATGGTGTAAT-TTTGATTAATT
1 ATGGTG-AATATTTGATGAATT
174510 ATTTCATGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.49
Consensus pattern (22 bp):
ATGGTGAATATTTGATGAATTT
Found at i:176066 original size:18 final size:18
Alignment explanation
Indices: 176029--176089 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
176019 AAATAGAGAG
*
176029 AAGAAAAAAAGAAA-TG-
1 AAGAGAAAAAGAAATTGA
176045 -AGAGAAAAAGAAATTGA
1 AAGAGAAAAAGAAATTGA
* *
176062 AAGAGGAAAAGAACTTGA
1 AAGAGAAAAAGAAATTGA
*
176080 GAGAGAAAAA
1 AAGAGAAAAA
176090 AGAGAACAGT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 12 0.32
16 2 0.05
18 23 0.62
ACGTcount: A:0.66, C:0.02, G:0.25, T:0.08
Consensus pattern (18 bp):
AAGAGAAAAAGAAATTGA
Done.