Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000367.1 Hibiscus syriacus cultivar Beakdansim tig00000667_pilon, 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: 60520
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Found at i:2476 original size:20 final size:21
Alignment explanation
Indices: 2451--2489 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
2441 ACACTACCAC
2451 CATTCTATTT-CCACATCAGA
1 CATTCTATTTGCCACATCAGA
2471 CATTCTATTTGCCACATCA
1 CATTCTATTTGCCACATCA
2490 TTCTCATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.28, C:0.31, G:0.05, T:0.36
Consensus pattern (21 bp):
CATTCTATTTGCCACATCAGA
Found at i:3460 original size:12 final size:12
Alignment explanation
Indices: 3443--3467 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3433 AAATATGCAT
3443 GTTGATCTACAA
1 GTTGATCTACAA
3455 GTTGATCTACAA
1 GTTGATCTACAA
3467 G
1 G
3468 AAGTAAGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (12 bp):
GTTGATCTACAA
Found at i:5609 original size:18 final size:18
Alignment explanation
Indices: 5586--5620 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5576 ACTCGATTAA
*
5586 AAATAAATCAAATTTACT
1 AAATAAATAAAATTTACT
5604 AAATAAATAAAATTTAC
1 AAATAAATAAAATTTAC
5621 GTTCTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATAAATAAAATTTACT
Found at i:6385 original size:279 final size:274
Alignment explanation
Indices: 5890--6434 Score: 925
Period size: 279 Copynumber: 2.0 Consensus size: 274
5880 CACATAACCA
* *
5890 AATTAAGATACTAATCAAAGAATTATGAAAAAATTATAAGTTTATTTATATTTTTTAAATAATAT
1 AATTAAGATACTAATCAAAGAATTATGAAAAAATTATAAGTTTATTTATATCTTTAAAATAATAT
*
5955 ATTATATATTCTTTACTTTTTAATATTTAAAATTATTTTTATCATTTGTACCCAATTAAGCTTTT
66 ATTATATATTCTTTAATTTTTAATATTTAAAATTATTTTTATCATTTGTACCCAATTAAGCTTTT
6020 AATACTAATTAAATAATTAAATAAATTCTTAATATCAAATAAAATAATTAATTAAACTCTCCACA
131 AATACTAATTAAATAATTAAATAAATTCTTAATATCAAATAAAATAATTAATTAAACTCTCCACA
*
6085 CGAGCGACACATATCATATTACATTGAAGGTTGATATTAGTTATATTAATAAAAAGAGGGTAAAG
196 CGAGCGACACATATCATATTACATTGAAGGTTAATATTAGTTATATTAATAAAAAGAGGGTAAAG
6150 TACACATATAAAAG
261 TACACATATAAAAG
*
6164 AATTAAGATACTAATCACAGAATTATCG-AAAAATTATAA-TTTATTTATA-CTTTAAAATAATA
1 AATTAAGATACTAATCAAAGAATTAT-GAAAAAATTATAAGTTTATTTATATCTTTAAAAT-A-A
*
6226 TATAATTATATATATTCTTTATAATTTTTAATATTTATAATTATTTTTATCATTTGTACCCAATT
63 TAT-A-T-TATATATTC-TT-TAATTTTTAATATTTAAAATTATTTTTATCATTTGTACCCAATT
*
6291 AAGCTTTTAATACTAATTAAATAATTAAATAAATTCTTAATATCAAATAAAATAGTTAATTAAAC
123 AAGCTTTTAATACTAATTAAATAATTAAATAAATTCTTAATATCAAATAAAATAATTAATTAAAC
*
6356 TCTCCGCACGAGCGACACATATCATATTACATTGAAGGTTAATATTAGTTATATTAATAAAAAGA
188 TCTCCACACGAGCGACACATATCATATTACATTGAAGGTTAATATTAGTTATATTAATAAAAAGA
6421 GGGTAAAGTACACA
253 GGGTAAAGTACACA
6435 AATGGTTCTC
Statistics
Matches: 255, Mismatches: 8, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
272 7 0.03
273 11 0.04
274 40 0.16
275 2 0.01
276 1 0.00
277 9 0.04
278 2 0.01
279 183 0.72
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (274 bp):
AATTAAGATACTAATCAAAGAATTATGAAAAAATTATAAGTTTATTTATATCTTTAAAATAATAT
ATTATATATTCTTTAATTTTTAATATTTAAAATTATTTTTATCATTTGTACCCAATTAAGCTTTT
AATACTAATTAAATAATTAAATAAATTCTTAATATCAAATAAAATAATTAATTAAACTCTCCACA
CGAGCGACACATATCATATTACATTGAAGGTTAATATTAGTTATATTAATAAAAAGAGGGTAAAG
TACACATATAAAAG
Found at i:9542 original size:20 final size:22
Alignment explanation
Indices: 9517--9574 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
9507 TTCCCCTTGA
9517 AGTGCATCGATGCATGC-T-AC
1 AGTGCATCGATGCATGCTTAAC
*
9537 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATGC-TTAAC
9560 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
9575 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (22 bp):
AGTGCATCGATGCATGCTTAAC
Found at i:9675 original size:64 final size:63
Alignment explanation
Indices: 9562--9702 Score: 151
Period size: 64 Copynumber: 2.2 Consensus size: 63
9552 TCTTTAACAT
* * *
9562 GTGCATCGATGCACTACCCATGCATCGATACACAAATTACCTTCGATGTTT-TCATTTTAAAGG
1 GTGCATCGATGCACTACCCATGCATCGATACACAAATTACATTCAATGTTTCT-ATTTTAAAGA
* * * * * * *
9625 GATGCACCGATGCACT-CCTTATGCATCGATGCACCATTTGCATTCAATGTTTCTTTTTTAAAGA
1 G-TGCATCGATGCACTACC-CATGCATCGATACACAAATTACATTCAATGTTTCTATTTTAAAGA
9689 GTGCATCGATGCAC
1 GTGCATCGATGCAC
9703 ATTGAATGTG
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
63 15 0.23
64 48 0.75
65 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATGCATCGATACACAAATTACATTCAATGTTTCTATTTTAAAGA
Found at i:10769 original size:64 final size:64
Alignment explanation
Indices: 10701--10820 Score: 168
Period size: 64 Copynumber: 1.9 Consensus size: 64
10691 TGTTCAAGGT
* * ** * *
10701 GTATCGATGCACATGAAGTGTATCGATGTGCTCCTTTAAAATAAAAACATCGAATGTCATCAGG
1 GTATCGATGCACAAGAAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGTCATCAGG
* *
10765 GTATCGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATACAAACATCGAATG
1 GTATCGATGCACAAGAAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATG
10821 GGATTTTTGT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 48 1.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (64 bp):
GTATCGATGCACAAGAAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGTCATCAGG
Found at i:11540 original size:23 final size:23
Alignment explanation
Indices: 11514--11570 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
11504 TAGCACTACG
11514 GTGCAATTATATGCGGCACTTCA
1 GTGCAATTATATGCGGCACTTCA
* * *
11537 GTGCAATTCTATGTGGCACTTCG
1 GTGCAATTATATGCGGCACTTCA
*
11560 GTGCATTTATA
1 GTGCAATTATA
11571 GGAGCTGTGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (23 bp):
GTGCAATTATATGCGGCACTTCA
Found at i:15827 original size:21 final size:22
Alignment explanation
Indices: 15797--15841 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
15787 GTTTATGAAG
*
15797 AGTCATATGAGAA-CAAATATA
1 AGTCACATGAGAATCAAATATA
* *
15818 AGTCACATGATAATGAAATATA
1 AGTCACATGAGAATCAAATATA
15840 AG
1 AG
15842 ACTATGTGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.51, C:0.09, G:0.16, T:0.24
Consensus pattern (22 bp):
AGTCACATGAGAATCAAATATA
Found at i:16904 original size:23 final size:23
Alignment explanation
Indices: 16874--16933 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
16864 CATTTTATAT
16874 GGCACTTCGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
*
16897 GGCACTTCGGTGCAATTCTACGT
1 GGCACTTCGGTGCAATTCTACGC
16920 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
16934 TTTATACAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.27
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:21570 original size:23 final size:23
Alignment explanation
Indices: 21540--21584 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
21530 CACTACAGTG
21540 CAATTCTACGCGGAACTTCGGTA
1 CAATTCTACGCGGAACTTCGGTA
* *
21563 CAATTCTACGTGGCACTTCGGT
1 CAATTCTACGCGGAACTTCGGT
21585 GCATTTATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (23 bp):
CAATTCTACGCGGAACTTCGGTA
Found at i:23791 original size:18 final size:18
Alignment explanation
Indices: 23768--23805 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
23758 CACCATTTGT
23768 ATCCATATTTGGTTATAA
1 ATCCATATTTGGTTATAA
*
23786 ATCCATCTTTGGTTATAA
1 ATCCATATTTGGTTATAA
23804 AT
1 AT
23806 ATCCATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (18 bp):
ATCCATATTTGGTTATAA
Found at i:23892 original size:30 final size:30
Alignment explanation
Indices: 23856--23915 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
23846 ACAATTTAAG
*
23856 GCAAAATGTTTTTGGACTGGAATTGAATTT
1 GCAAAATATTTTTGGACTGGAATTGAATTT
* *
23886 GCAAAATATTTTTGGATTTGAATTGAATTT
1 GCAAAATATTTTTGGACTGGAATTGAATTT
23916 ATTCAAAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.43
Consensus pattern (30 bp):
GCAAAATATTTTTGGACTGGAATTGAATTT
Found at i:24022 original size:21 final size:21
Alignment explanation
Indices: 23996--24052 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
23986 AGGGTGTCAA
23996 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
24017 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
24038 AGTGCATCCATGCAT
1 AGTGCATCCATGCAT
24053 ATGCACTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.25
Consensus pattern (21 bp):
AGTGCATCCATGCATCCCTGC
Found at i:24515 original size:34 final size:32
Alignment explanation
Indices: 24476--24545 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
24466 TTTTGTAAAG
* *
24476 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
24510 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
24542 GGGA
1 GGGA
24546 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:25429 original size:19 final size:20
Alignment explanation
Indices: 25405--25452 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
25395 AATGATTTTC
*
25405 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
25424 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
25444 TTTTGAAAA
1 TTTTGAAAA
25453 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:26672 original size:89 final size:89
Alignment explanation
Indices: 26571--26749 Score: 349
Period size: 89 Copynumber: 2.0 Consensus size: 89
26561 AGGGGGAGCT
26571 TAACATTTTCATATATTTTCCAACAATTGGTAACAATTGATATCTTTTTCATTAAACAATTTATT
1 TAACATTTTCATATATTTTCCAACAATTGGTAACAATTGATATCTTTTTCATTAAACAATTTATT
*
26636 AAGGGGGAGTTTTGCCAAAACCAA
66 AAGGGGGAGTTTTACCAAAACCAA
26660 TAACATTTTCATATATTTTCCAACAATTGGTAACAATTGATATCTTTTTCATTAAACAATTTATT
1 TAACATTTTCATATATTTTCCAACAATTGGTAACAATTGATATCTTTTTCATTAAACAATTTATT
26725 AAGGGGGAGTTTTACCAAAACCAA
66 AAGGGGGAGTTTTACCAAAACCAA
26749 T
1 T
26750 TTTTCAAATG
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.39
Consensus pattern (89 bp):
TAACATTTTCATATATTTTCCAACAATTGGTAACAATTGATATCTTTTTCATTAAACAATTTATT
AAGGGGGAGTTTTACCAAAACCAA
Found at i:26860 original size:30 final size:30
Alignment explanation
Indices: 26820--26877 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
26810 AATTTAAGGA
*
26820 AAAATGTTTTTGGACTGGAATTGAATTTGC
1 AAAATATTTTTGGACTGGAATTGAATTTGC
* *
26850 AAAATATTTTTGGATTTGAATTGAATTT
1 AAAATATTTTTGGACTGGAATTGAATTT
26878 ATTCAAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (30 bp):
AAAATATTTTTGGACTGGAATTGAATTTGC
Found at i:26984 original size:21 final size:21
Alignment explanation
Indices: 26958--27014 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
26948 AGGGTGTCAA
26958 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
26979 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
27000 AGTGCATCCATGCAT
1 AGTGCATCCATGCAT
27015 ATGCACTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.25
Consensus pattern (21 bp):
AGTGCATCCATGCATCCCTGC
Found at i:29232 original size:30 final size:31
Alignment explanation
Indices: 29198--29258 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
29188 GGTCACAAAG
*
29198 AACCT-CGTCAACTGTCCATAGGTCTCGAAA
1 AACCTACGTAAACTGTCCATAGGTCTCGAAA
* *
29228 AACCTAGGTAAACTGTCCATATGTCTCGAAA
1 AACCTACGTAAACTGTCCATAGGTCTCGAAA
29259 GACATAGGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 5 0.19
31 22 0.81
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (31 bp):
AACCTACGTAAACTGTCCATAGGTCTCGAAA
Found at i:29245 original size:31 final size:31
Alignment explanation
Indices: 29207--29271 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
29197 GAACCTCGTC
*
29207 AACTGTCCATAGGTCTCGAAAAACCTAGGTA
1 AACTGTCCATAGGTCTCGAAAAACATAGGTA
* *
29238 AACTGTCCATATGTCTCGAAAGACATAGGTA
1 AACTGTCCATAGGTCTCGAAAAACATAGGTA
29269 AAC
1 AAC
29272 CCTCGACTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (31 bp):
AACTGTCCATAGGTCTCGAAAAACATAGGTA
Found at i:30187 original size:20 final size:22
Alignment explanation
Indices: 30162--30219 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
30152 TTCCCCTTGA
30162 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATTCTTAAC
*
30182 AGTGCATCGATACATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
30205 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
30220 CTACCTATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 16 0.50
22 1 0.03
23 3 0.09
24 12 0.38
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:32777 original size:31 final size:31
Alignment explanation
Indices: 32739--32803 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
32729 GAACCTTGGC
*
32739 AACTGTCCATATGTCTCG-AAGAACCTAGGTA
1 AACTGTCCATATGTCTCGAAAG-ACATAGGTA
32770 AACTGTCCATATGTCTCGAAAGACATAGGTA
1 AACTGTCCATATGTCTCGAAAGACATAGGTA
32801 AAC
1 AAC
32804 CCTCGACTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 29 0.91
32 3 0.09
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (31 bp):
AACTGTCCATATGTCTCGAAAGACATAGGTA
Found at i:33719 original size:20 final size:22
Alignment explanation
Indices: 33694--33751 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
33684 TTCCCCTTGA
33694 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATTCTTAAC
*
33714 AGTGCATCGATACATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
33737 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
33752 CTACCCATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 16 0.50
22 1 0.03
23 3 0.09
24 12 0.38
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:33848 original size:64 final size:63
Alignment explanation
Indices: 33739--33879 Score: 155
Period size: 64 Copynumber: 2.2 Consensus size: 63
33729 TCTTTAACAT
* * *
33739 GTGCATCGATGCACTACCCATGCATCGATACACAAATTATCTTCGATGTTTTCAT-TTTAAGGG
1 GTGCATCGATGCACTACCCATGCATCGATACACAAATTAGCTTCGATG-TTTCATCTTTAAAGA
* * *
33802 GATGCATCGATGCACT-CCTTATGCATCGATGCATC-AATT-GCATTCGATGTTTCTTCTTTAAA
1 G-TGCATCGATGCACTACC-CATGCATCGATACA-CAAATTAGC-TTCGATGTTTCATCTTTAAA
33864 GA
62 GA
33866 GTGCATCGATGCAC
1 GTGCATCGATGCAC
33880 ATTGAATATG
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
63 22 0.33
64 44 0.66
65 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATGCATCGATACACAAATTAGCTTCGATGTTTCATCTTTAAAGA
Found at i:41016 original size:24 final size:23
Alignment explanation
Indices: 40988--41040 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
40978 TTTTTTATCA
* *
40988 AAATATTTATAATTATAATATAAT
1 AAATATTCATAATTAAAAT-TAAT
*
41012 AAATAATCATAATTAAAATTAAT
1 AAATATTCATAATTAAAATTAAT
*
41035 TAATAT
1 AAATAT
41041 AATGTACAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
AAATATTCATAATTAAAATTAAT
Found at i:41214 original size:20 final size:21
Alignment explanation
Indices: 41176--41215 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
41166 ATATAACATA
41176 TAAATATAATATTAATTGAAT
1 TAAATATAATATTAATTGAAT
41197 TAAAT-TAA-ATTCAATTGAA
1 TAAATATAATATT-AATTGAA
41216 ACAATACATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 10 0.56
21 5 0.28
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.40
Consensus pattern (21 bp):
TAAATATAATATTAATTGAAT
Found at i:45372 original size:17 final size:17
Alignment explanation
Indices: 45350--45382 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
45340 TCATGAAAAT
45350 TTTAAA-ATTTTATATTA
1 TTTAAACATTTT-TATTA
45367 TTTAAACATTTTTATT
1 TTTAAACATTTTTATT
45383 GATAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTAAACATTTTTATTA
Found at i:51369 original size:53 final size:53
Alignment explanation
Indices: 51307--51616 Score: 421
Period size: 53 Copynumber: 5.9 Consensus size: 53
51297 TTCAACCAGT
51307 GGGTTCGCTCCCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTCTGCTTAC
1 GGGTTCGCTCCCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTCTGCTTAC
* * * *
51360 GGGTTCGCTCCCTCTTGCTTCAAGGAATAGAACTC-AAAATATCTTCTTCCTAC
1 GGGTTCGCTCCCTCTTGCTTCAAGGAGTAGAACTCGAACA-ATCTTCTGCTTAC
* *
51413 GGGTTCACTCCCTCTTTCTTCAAGGAGTAGAACTCGAACAATCTT-TG-TCTAC
1 GGGTTCGCTCCCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTCTGCT-TAC
* * * * * *
51465 GAGTTTGCTCCTTTTTGCTTCAAGGAGTAGAACTCGAACAATCTTCTTCCTAC
1 GGGTTCGCTCCCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTCTGCTTAC
* **
51518 GGGTTCGCTCCCTCTTGCTTCAGGGCTTAGAACTCGAACAATCTTCTG-TCTAC
1 GGGTTCGCTCCCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTCTGCT-TAC
*
51571 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTC
1 GGGTTCGCTCCCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTC
51617 AATAAACGGG
Statistics
Matches: 222, Mismatches: 29, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
52 46 0.21
53 173 0.78
54 3 0.01
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (53 bp):
GGGTTCGCTCCCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTCTGCTTAC
Found at i:51601 original size:158 final size:158
Alignment explanation
Indices: 51321--51615 Score: 477
Period size: 158 Copynumber: 1.9 Consensus size: 158
51311 TCGCTCCCTC
*
51321 TTGCTTCAAGGAGTAGAACTCGAACAATCTTCTGCTTACGGGTTCGCTCCCTCTTGCTTCAAGGA
1 TTGCTTCAAGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAAGGA
*
51386 ATAGAACTCAAAATATCTTCTTCCTACGGGTTCACTCCCTCTTTCTTCAAGGAGTAGAACTCGAA
66 ATAGAACTCAAAATATCTTCTTCCTACGGGTTCACTCCCTCTTGCTTCAAGGAGTAGAACTCGAA
51451 CAATCTTTGTCTACGAGTTTGCTCCTTT
131 CAATCTTTGTCTACGAGTTTGCTCCTTT
* * *
51479 TTGCTTCAAGGAGTAGAACTCGAACAATCTTCTTCCTACGGGTTCGCTCCCTCTTGCTTCAGGGC
1 TTGCTTCAAGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAAGGA
* * * *
51544 TTAGAACTCGAACA-ATCTTCTGT-CTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCG
66 ATAGAACTC-AAAATATCTTCT-TCCTACGGGTTCACTCCCTCTTGCTTCAAGGAGTAGAACTCG
51607 AACAATCTT
129 AACAATCTT
51616 CAATAAACGG
Statistics
Matches: 126, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
158 122 0.97
159 4 0.03
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.32
Consensus pattern (158 bp):
TTGCTTCAAGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAAGGA
ATAGAACTCAAAATATCTTCTTCCTACGGGTTCACTCCCTCTTGCTTCAAGGAGTAGAACTCGAA
CAATCTTTGTCTACGAGTTTGCTCCTTT
Found at i:51626 original size:53 final size:53
Alignment explanation
Indices: 51289--51672 Score: 397
Period size: 53 Copynumber: 7.2 Consensus size: 53
51279 ACTCTTCTTT
* *
51289 GAACAATCTTCAA-CCAGTGGGTTCGCTCCCTCTTGCTTCAAGGAGTAGAACTC
1 GAACAATCTTCAATCTA-CGGGTTCGCTCCCTCTTGCTTCAAGGAGTAGAACTC
*
51342 GAACAATCTTC--TGCTTACGGGTTCGCTCCCTCTTGCTTCAAGGAATAGAACTC
1 GAACAATCTTCAAT-C-TACGGGTTCGCTCCCTCTTGCTTCAAGGAGTAGAACTC
* * * *
51395 -AAAATATCTTC-TTCCTACGGGTTCACTCCCTCTTTCTTCAAGGAGTAGAACTC
1 GAACA-ATCTTCAAT-CTACGGGTTCGCTCCCTCTTGCTTCAAGGAGTAGAACTC
** * * * *
51448 GAACAATCTT-TGTCTACGAGTTTGCTCCTTTTTGCTTCAAGGAGTAGAACTC
1 GAACAATCTTCAATCTACGGGTTCGCTCCCTCTTGCTTCAAGGAGTAGAACTC
* * **
51500 GAACAATCTTC-TTCCTACGGGTTCGCTCCCTCTTGCTTCAGGGCTTAGAACTC
1 GAACAATCTTCAAT-CTACGGGTTCGCTCCCTCTTGCTTCAAGGAGTAGAACTC
** *
51553 GAACAATCTTCTGTCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTC
1 GAACAATCTTCAATCTACGGGTTCGCTCCCTCTTGCTTCAAGGAGTAGAACTC
** * * * *
51606 GAACAATCTTCAATAAACGGGTCCGCTCCCT-ATCCGTTCATGGAGTATAGAACTC
1 GAACAATCTTCAATCTACGGGTTCGCTCCCTCTTGC-TTCAAGGAG--TAGAACTC
51661 GAACAATCTTCA
1 GAACAATCTTCA
51673 TAAAACGGGT
Statistics
Matches: 283, Mismatches: 35, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
52 49 0.17
53 207 0.73
54 7 0.02
55 20 0.07
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.30
Consensus pattern (53 bp):
GAACAATCTTCAATCTACGGGTTCGCTCCCTCTTGCTTCAAGGAGTAGAACTC
Found at i:51671 original size:158 final size:157
Alignment explanation
Indices: 51323--51671 Score: 425
Period size: 158 Copynumber: 2.2 Consensus size: 157
51313 GCTCCCTCTT
51323 GCTTCAAGGAGTAGAACTCGAACAATCTTCTGCTTACGGGTTCGCTCCCTCTTGCTTCAAGGAAT
1 GCTTCAAGGAGTAGAACTCGAACAATCTTC-GCTTACGGGTTCGCTCCCTCTTGCTTCAAGGAAT
*
51388 AGAACTCAAAATATCTTCTTCCTACGGGTTCACTCCCTCTTTCTTCAAGGAGTAGAACTCGAACA
65 AGAACTCAAAATATCTTCTTCCTACGGGTTCACTCCCTCTTGCTTCAAGGAGTAGAACTCGAACA
** ** ** * **
51453 ATCTTTGTCTACGAGTTTGCTCCTTTTT
130 ATCTTAATAAACGAGTCCGCTCCTATCC
* * * **
51481 GCTTCAAGGAGTAGAACTCGAACAATCTTCTTCCTACGGGTTCGCTCCCTCTTGCTTCAGGGCTT
1 GCTTCAAGGAGTAGAACTCGAACAATCTTC-GCTTACGGGTTCGCTCCCTCTTGCTTCAAGGAAT
* * *
51546 AGAACTCGAACA-ATCTTCTGT-CTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAA
65 AGAACTC-AAAATATCTTCT-TCCTACGGGTTCACTCCCTCTTGCTTCAAGGAGTAGAACTCGAA
*
51609 CAATCTTCAATAAACGGGTCCGCTCCCTATCC
128 CAATCTT-AATAAACGAGTCCGCT-CCTATCC
*
51641 G-TTCATGGAGTATAGAACTCGAACAATCTTC
1 GCTTCAAGGAG--TAGAACTCGAACAATCTTC
51672 ATAAAACGGG
Statistics
Matches: 165, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
158 120 0.73
159 21 0.13
160 5 0.03
161 19 0.12
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (157 bp):
GCTTCAAGGAGTAGAACTCGAACAATCTTCGCTTACGGGTTCGCTCCCTCTTGCTTCAAGGAATA
GAACTCAAAATATCTTCTTCCTACGGGTTCACTCCCTCTTGCTTCAAGGAGTAGAACTCGAACAA
TCTTAATAAACGAGTCCGCTCCTATCC
Found at i:51672 original size:55 final size:54
Alignment explanation
Indices: 51545--51821 Score: 252
Period size: 55 Copynumber: 5.1 Consensus size: 54
51535 CTTCAGGGCT
** ** * * *
51545 TAGAACTCGAACAATCTTCTGTCTACGGGTTCGCTCCCTCT-TGCTTCAGG-G-A
1 TAGAACTCGAACAATCTTCAATAAACGGGTCCGCTCCCTATCCG-TTCAGGAGTA
51597 GTAGAACTCGAACAATCTTCAATAAACGGGTCCGCTCCCTATCCGTTCATGGAGTA
1 -TAGAACTCGAACAATCTTCAATAAACGGGTCCGCTCCCTATCCGTTCA-GGAGTA
51653 TAGAACTCGAACAATCTTC-ATAAAACGGGTCCGCTCCCTATCCGTTCAGGGAGTA
1 TAGAACTCGAACAATCTTCAAT-AAACGGGTCCGCTCCCTATCCGTTCA-GGAGTA
*
51708 TA-AGACTCG----ATCTTCAATAAACGTGTCCGCTCCCTATTCC-TTCAGAGAGTA
1 TAGA-ACTCGAACAATCTTCAATAAACGGGTCCGCTCCCTA-TCCGTTCAG-GAGTA
* * ** **
51759 TAGGACTCAAACAATCTTCAACGAACTTGTCCGCTCCCTATTCC-TTCAGAGAGTA
1 TAGAACTCGAACAATCTTCAATAAACGGGTCCGCTCCCTA-TCCGTTCAG-GAGTA
*
51814 TAGGACTC
1 TAGAACTC
51822 AATCTTCAAC
Statistics
Matches: 196, Mismatches: 14, Indels: 26
0.83 0.06 0.11
Matches are distributed among these distances:
50 1 0.01
51 38 0.19
52 5 0.03
53 39 0.20
54 6 0.03
55 106 0.54
56 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (54 bp):
TAGAACTCGAACAATCTTCAATAAACGGGTCCGCTCCCTATCCGTTCAGGAGTA
Found at i:51721 original size:106 final size:106
Alignment explanation
Indices: 51609--51976 Score: 439
Period size: 106 Copynumber: 3.5 Consensus size: 106
51599 AGAACTCGAA
* * *
51609 CAATCTTCAATAAACGGGTCCGCTCCCTA-TCCGTTCATG-GAGTATAGAACTCGAACAATCTTC
1 CAATCTTCAATAAACGTGTCCGCTCCCTATTCC-TTCA-GAGAGTATAGGACTCAAACAATCTTC
*
51672 ATA-AAACGGGTCCGCTCCCTA-TCCGTTCAGGGAGTATAAGACT
64 A-ACAAACGGGTCCGCTCCCTATTCC-TTCAGAGAGTATAAGACT
*
51715 CGATCTTCAATAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAAACAATCTTCAA
1 CAATCTTCAATAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAAACAATCTTCAA
* ** *
51780 CGAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT
66 CAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAAGACT
* * *
51821 CAATCTTCAACT-AACTTGTCCGCTCCTTATTCCTTCAGAGAGTATAGGACT----CAATTTTCA
1 CAATCTTCAA-TAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAAACAATCTTCA
* ** *
51881 ACGAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT
65 ACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAAGACT
* ** * *
51923 CAATTTTCAACGAACTTGTCCGCTCCCTATTCCTTTAGAGAGTATAGGACTCAA
1 CAATCTTCAATAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAA
51977 TCTTCAACAA
Statistics
Matches: 236, Mismatches: 17, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
102 96 0.41
105 2 0.01
106 131 0.56
107 7 0.03
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.29
Consensus pattern (106 bp):
CAATCTTCAATAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAAACAATCTTCAA
CAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAAGACT
Found at i:51742 original size:51 final size:51
Alignment explanation
Indices: 51609--51989 Score: 446
Period size: 51 Copynumber: 7.3 Consensus size: 51
51599 AGAACTCGAA
* * *
51609 CAATCTTCAATAAACGGGTCCGCTCCCTA-TCCGTTCATG-GAGTATAGAACT
1 CAATCTTCAACAAACGTGTCCGCTCCCTATTCC-TTCA-GAGAGTATAGGACT
* * *
51660 CGAACAATCTTCATA-AAACGGGTCCGCTCCCTA-TCCGTTCAGGGAGTATAAGACT
1 ----CAATCTTCA-ACAAACGTGTCCGCTCCCTATTCC-TTCAGAGAGTATAGGACT
* *
51715 CGATCTTCAATAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT
1 CAATCTTCAACAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT
* *
51766 CAAACAATCTTCAACGAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT
1 ----CAATCTTCAACAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT
* * *
51821 CAATCTTCAACTAACTTGTCCGCTCCTTATTCCTTCAGAGAGTATAGGACT
1 CAATCTTCAACAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT
* * *
51872 CAATTTTCAACGAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT
1 CAATCTTCAACAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT
* * * *
51923 CAATTTTCAACGAACTTGTCCGCTCCCTATTCCTTTAGAGAGTATAGGACT
1 CAATCTTCAACAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT
51974 CAATCTTCAACAAACG
1 CAATCTTCAACAAACG
51990 AGTTTGCTTC
Statistics
Matches: 299, Mismatches: 19, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
50 1 0.00
51 201 0.67
52 3 0.01
54 1 0.00
55 92 0.31
56 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (51 bp):
CAATCTTCAACAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT
Found at i:53407 original size:19 final size:18
Alignment explanation
Indices: 53336--53401 Score: 72
Period size: 19 Copynumber: 3.9 Consensus size: 18
53326 TTTCTCTTTT
53336 TTTTCA-TTTTTCTT--C
1 TTTTCATTTTTTCTTCAC
53351 TTTTC-TTTTTT-TATCA-
1 TTTTCATTTTTTCT-TCAC
53367 TTTTCATTTTTTCTTCAC
1 TTTTCATTTTTTCTTCAC
53385 TTTTCCATTTTTTCTTC
1 TTTT-CATTTTTTCTTC
53402 TTTTTTTTCT
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
14 1 0.02
15 11 0.26
16 5 0.12
17 9 0.21
18 5 0.12
19 12 0.28
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTCATTTTTTCTTCAC
Found at i:53421 original size:43 final size:45
Alignment explanation
Indices: 53353--53452 Score: 118
Period size: 43 Copynumber: 2.2 Consensus size: 45
53343 TTTTCTTCTT
*
53353 TTCTTTTTTTATCATTTTCA-TTTTTT-CTTCACTTTTCCATTTTTTC
1 TTCTTTTTTT-TCATTTTCAGTTTTTTCCATCA-TTTTCC-TTTTTTC
*
53399 TTCTTTTTTTTC-TTTTC-GTTTTTTCCATCATTTTTCTTTTTTC
1 TTCTTTTTTTTCATTTTCAGTTTTTTCCATCATTTTCCTTTTTTC
*
53442 TTTTTTTTTTT
1 TTCTTTTTTTT
53453 TTCTCTTTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
43 17 0.35
44 16 0.33
45 6 0.12
46 10 0.20
ACGTcount: A:0.07, C:0.17, G:0.01, T:0.75
Consensus pattern (45 bp):
TTCTTTTTTTTCATTTTCAGTTTTTTCCATCATTTTCCTTTTTTC
Found at i:53439 original size:7 final size:7
Alignment explanation
Indices: 53429--53471 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
53419 TTTTCCATCA
53429 TTTTTCT
1 TTTTTCT
53436 TTTTTCT
1 TTTTTCT
*
53443 TTTTTTT
1 TTTTTCT
53450 TTTTTCT
1 TTTTTCT
* *
53457 CTTTTAT
1 TTTTTCT
*
53464 TTATTCT
1 TTTTTCT
53471 T
1 T
53472 CAAGCAAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTCT
Found at i:53446 original size:8 final size:8
Alignment explanation
Indices: 53333--53461 Score: 59
Period size: 8 Copynumber: 15.5 Consensus size: 8
53323 TTATTTCTCT
53333 TTTTTTTC
1 TTTTTTTC
*
53341 -ATTTTTC
1 TTTTTTTC
*
53348 TTCTTTTC
1 TTTTTTTC
*
53356 TTTTTTTA
1 TTTTTTTC
**
53364 TCATTTTC
1 TTTTTTTC
*
53372 ATTTTTTC
1 TTTTTTTC
*
53380 TTCACTTTTCC
1 TT---TTTTTC
*
53391 ATTTTTTC
1 TTTTTTTC
53399 TTCTTTTT-
1 TT-TTTTTC
53407 TTTCTTTTC
1 TTT-TTTTC
*
53416 GTTTTTTCC
1 -TTTTTTTC
*
53425 ATCATTTTTC
1 -T-TTTTTTC
53435 -TTTTTTC
1 TTTTTTTC
53442 TTTTTTT-
1 TTTTTTTC
53449 TTTTTTCTC
1 TTTTTT-TC
53458 TTTT
1 TTTT
53462 ATTTATTCTT
Statistics
Matches: 88, Mismatches: 21, Indels: 23
0.67 0.16 0.17
Matches are distributed among these distances:
7 19 0.22
8 41 0.47
9 14 0.16
10 8 0.09
11 6 0.07
ACGTcount: A:0.06, C:0.17, G:0.01, T:0.76
Consensus pattern (8 bp):
TTTTTTTC
Found at i:53450 original size:12 final size:12
Alignment explanation
Indices: 53392--53452 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 12
53382 CACTTTTCCA
*
53392 TTTTTTCTTCTT
1 TTTTTTCTTTTT
53404 TTTTTTCTTTTCGT
1 TTTTTTCTTTT--T
53418 TTTTTCCATCATTTTT
1 TTTTT---TC-TTTTT
53434 CTTTTTTCTTTTT
1 -TTTTTTCTTTTT
53447 TTTTTT
1 TTTTTT
53453 TTCTCTTTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
12 16 0.39
13 5 0.12
14 8 0.20
16 1 0.02
17 7 0.17
18 4 0.10
ACGTcount: A:0.03, C:0.15, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTTTCTTTTT
Found at i:53453 original size:44 final size:46
Alignment explanation
Indices: 53343--53453 Score: 122
Period size: 44 Copynumber: 2.4 Consensus size: 46
53333 TTTTTTTCAT
*
53343 TTTTCTTCTTTTCTTTTTTTATCATTTTCATTTTTTCTTCACTTTTCCA
1 TTTT-TTCTTTT-TTTTTTT-TCATTTTCATTTTTTCATCACTTTTCCA
* * *
53392 TTTTTTC-TTCTTTTTTTTC-TTTTCGTTTTTTCCATCA-TTTTTC-
1 TTTTTTCTTTTTTTTTTTTCATTTTCATTTTTT-CATCACTTTTCCA
53435 TTTTTTCTTTTTTTTTTTT
1 TTTTTTCTTTTTTTTTTTT
53454 TCTCTTTTAT
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
43 7 0.13
44 26 0.47
45 6 0.11
46 7 0.13
47 2 0.04
48 3 0.05
49 4 0.07
ACGTcount: A:0.06, C:0.17, G:0.01, T:0.76
Consensus pattern (46 bp):
TTTTTTCTTTTTTTTTTTTCATTTTCATTTTTTCATCACTTTTCCA
Found at i:53453 original size:45 final size:46
Alignment explanation
Indices: 53343--53465 Score: 119
Period size: 45 Copynumber: 2.7 Consensus size: 46
53333 TTTTTTTCAT
* *
53343 TTTTCTTCTTTTCTTTTTTTATCATTTTCATTTTTTCTTCACTTTTCCA
1 TTTT-TTCTTTT-TTTTTTTTTC-TTTTCATTTTTTCATCACTTTTCCA
* * *
53392 TTTTTTC--TTCTTTTTTTTCTTTTCGTTTTTTCCATCA-TTTTTC-
1 TTTTTTCTTTTTTTTTTTTTCTTTTCATTTTTT-CATCACTTTTCCA
*
53435 TTTTTTCTTTTTTTTTTTTTCTCTTTTATTT
1 TTTTTTCTTTTTTTTTTTTTCT-TTTCATTT
53466 ATTCTTCAAG
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
43 7 0.11
44 16 0.26
45 24 0.39
46 8 0.13
48 3 0.05
49 4 0.06
ACGTcount: A:0.07, C:0.17, G:0.01, T:0.76
Consensus pattern (46 bp):
TTTTTTCTTTTTTTTTTTTTCTTTTCATTTTTTCATCACTTTTCCA
Done.