Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007845.1 Hibiscus syriacus cultivar Beakdansim tig00110201_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: 2731752
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 2 of 13
Found at i:287735 original size:22 final size:21
Alignment explanation
Indices: 287674--287737 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 21
287664 ATTTATTAAT
287674 TTATTAATAA-CTCAATAAT-A
1 TTATTAATAATCT-AATAATAA
* *
287694 TT-TTAGTAATAT-ATATATAA
1 TTATTAATAATCTAATA-ATAA
287714 TTGATTAATAATCTAATAATAA
1 TT-ATTAATAATCTAATAATAA
287736 TT
1 TT
287738 TAAGGGTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
18 3 0.09
19 8 0.24
20 6 0.18
22 14 0.41
23 3 0.09
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (21 bp):
TTATTAATAATCTAATAATAA
Found at i:287784 original size:28 final size:29
Alignment explanation
Indices: 287739--287795 Score: 107
Period size: 28 Copynumber: 2.0 Consensus size: 29
287729 ATAATAATTT
287739 AAGGGTTTTTTTTAACTTTTGAAGCTTGG
1 AAGGGTTTTTTTTAACTTTTGAAGCTTGG
287768 AAGGG-TTTTTTTAACTTTTGAAGCTTGG
1 AAGGGTTTTTTTTAACTTTTGAAGCTTGG
287796 GGACTTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 23 0.82
29 5 0.18
ACGTcount: A:0.21, C:0.07, G:0.25, T:0.47
Consensus pattern (29 bp):
AAGGGTTTTTTTTAACTTTTGAAGCTTGG
Found at i:287972 original size:28 final size:28
Alignment explanation
Indices: 287932--287987 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
287922 ATAATAATTT
287932 AAGGGTTTTTTTAACTTTTGAAGCTTGG
1 AAGGGTTTTTTTAACTTTTGAAGCTTGG
287960 AAGGGTTTTTTTAACTTTTGAAGCTTGG
1 AAGGGTTTTTTTAACTTTTGAAGCTTGG
287988 GGACTTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.07, G:0.25, T:0.46
Consensus pattern (28 bp):
AAGGGTTTTTTTAACTTTTGAAGCTTGG
Found at i:288066 original size:192 final size:193
Alignment explanation
Indices: 287705--288090 Score: 749
Period size: 192 Copynumber: 2.0 Consensus size: 193
287695 TTTAGTAATA
287705 TATATATAATTGATTAATAATCTAATAATAATTTAAGGGTTTTTTTTAACTTTTGAAGCTTGGAA
1 TATATATAATTGATTAATAATCTAATAATAATTTAAGGGTTTTTTTTAACTTTTGAAGCTTGGAA
287770 GGGTTTTTTTAACTTTTGAAGCTTGGGGACTTATTATTGGATATCCCTTTTTATTTTAATTTCAT
66 GGGTTTTTTTAACTTTTGAAGCTTGGGGACTTATTATTGGATATCCCTTTTTATTTTAATTTCAT
287835 CTTTGACAATCACCCCGTGTTCTCCATAGCTGCAAACACTGTTTTCACGTCGTAGTTCATCAT
131 CTTTGACAATCACCCCGTGTTCTCCATAGCTGCAAACACTGTTTTCACGTCGTAGTTCATCAT
287898 TATATATAATTGATTAATAATCTAATAATAATTTAAGGG-TTTTTTTAACTTTTGAAGCTTGGAA
1 TATATATAATTGATTAATAATCTAATAATAATTTAAGGGTTTTTTTTAACTTTTGAAGCTTGGAA
287962 GGGTTTTTTTAACTTTTGAAGCTTGGGGACTTATTATGTGGATATCCCTTTTTATTTTAATTTCA
66 GGGTTTTTTTAACTTTTGAAGCTTGGGGACTTATTAT-TGGATATCCCTTTTTATTTTAATTTCA
288027 TCTTTGACAATCA-CCCGTGTTCTCCATAGCTGCAAACACTGTTTTCACGTCGTAGTTCATCAT
130 TCTTTGACAATCACCCCGTGTTCTCCATAGCTGCAAACACTGTTTTCACGTCGTAGTTCATCAT
288090 T
1 T
288091 TATTCGTCAT
Statistics
Matches: 192, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
192 113 0.59
193 79 0.41
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (193 bp):
TATATATAATTGATTAATAATCTAATAATAATTTAAGGGTTTTTTTTAACTTTTGAAGCTTGGAA
GGGTTTTTTTAACTTTTGAAGCTTGGGGACTTATTATTGGATATCCCTTTTTATTTTAATTTCAT
CTTTGACAATCACCCCGTGTTCTCCATAGCTGCAAACACTGTTTTCACGTCGTAGTTCATCAT
Found at i:288521 original size:41 final size:41
Alignment explanation
Indices: 288476--288580 Score: 142
Period size: 41 Copynumber: 2.5 Consensus size: 41
288466 GGTGTTGATT
288476 TTTTGCATTTTTGCGGCGTTTTTTCCACAAA-GCCGCAGTA-G
1 TTTTG-ATTTTTGCGGCGTTTTTT-CACAAACGCCGCAGTATG
*
288517 TTTTGATGTTTTGCAGCGTTTTTTCACAAACGCCGCAGTATG
1 TTTTGAT-TTTTGCGGCGTTTTTTCACAAACGCCGCAGTATG
* *
288559 TATTGATTTTTGCGGCATTTTT
1 TTTTGATTTTTGCGGCGTTTTT
288581 GCTAAAAACG
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
40 8 0.14
41 42 0.74
42 7 0.12
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.44
Consensus pattern (41 bp):
TTTTGATTTTTGCGGCGTTTTTTCACAAACGCCGCAGTATG
Found at i:289062 original size:21 final size:19
Alignment explanation
Indices: 289032--289082 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 19
289022 TGTGCTTCTT
*
289032 TCTCTACTTCCGCTGCTGC
1 TCTCTGCTTCCGCTGCTGC
*
289051 TCTGGCTGCTTCTGCTGCTGC
1 TCT--CTGCTTCCGCTGCTGC
289072 TCTCTGCTTCC
1 TCTCTGCTTCC
289083 CTTGCTTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.37
21 17 0.63
ACGTcount: A:0.02, C:0.39, G:0.20, T:0.39
Consensus pattern (19 bp):
TCTCTGCTTCCGCTGCTGC
Found at i:291465 original size:12 final size:12
Alignment explanation
Indices: 291448--291474 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
291438 TTAATTGCAA
291448 AAATTAGAATTT
1 AAATTAGAATTT
291460 AAATTAGAATTT
1 AAATTAGAATTT
291472 AAA
1 AAA
291475 AAAAAAACCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (12 bp):
AAATTAGAATTT
Found at i:291781 original size:20 final size:20
Alignment explanation
Indices: 291731--291784 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
291721 CAAAACGTGA
291731 AAATTAAAATAGAAATGGCT
1 AAATTAAAATAGAAATGGCT
291751 -AA-TAAGGAATA-AAAGTGGCT
1 AAATTAA--AATAGAAA-TGGCT
291771 AAATTAAAATAGAA
1 AAATTAAAATAGAA
291785 TAAGATTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 11
0.72 0.00 0.28
Matches are distributed among these distances:
18 3 0.11
19 5 0.18
20 13 0.46
21 4 0.14
22 3 0.11
ACGTcount: A:0.57, C:0.04, G:0.17, T:0.22
Consensus pattern (20 bp):
AAATTAAAATAGAAATGGCT
Found at i:293406 original size:8 final size:8
Alignment explanation
Indices: 293395--293422 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
293385 ATATAAGTAT
293395 AAAAAATA
1 AAAAAATA
293403 AAAAAATA
1 AAAAAATA
293411 AAAAAATA
1 AAAAAATA
293419 AAAA
1 AAAA
293423 TATTTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAATA
Found at i:293528 original size:30 final size:29
Alignment explanation
Indices: 293481--293570 Score: 117
Period size: 32 Copynumber: 3.0 Consensus size: 29
293471 AACAATATTA
*
293481 TATATAGATTTTCAAAAATGTTTTTTAAAC
1 TATATA-ATTTTCAAAAATGTTTTTAAAAC
*
293511 TATATAATTTTCAAAAAAATTGTTTTGAAAAC
1 TATATAATTTTC--AAAAA-TGTTTTTAAAAC
*
293543 TATATAATTTTCCAAAATGTTTTTAAAA
1 TATATAATTTTCAAAAATGTTTTTAAAA
293571 AAATTATATA
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.30
30 10 0.19
31 5 0.09
32 22 0.42
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (29 bp):
TATATAATTTTCAAAAATGTTTTTAAAAC
Found at i:293649 original size:13 final size:13
Alignment explanation
Indices: 293633--293657 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
293623 TATAAGTTTA
293633 TTTAAAAAATATT
1 TTTAAAAAATATT
293646 TTTAAAAAATAT
1 TTTAAAAAATAT
293658 ATATATAAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTAAAAAATATT
Found at i:293676 original size:34 final size:34
Alignment explanation
Indices: 293543--293734 Score: 131
Period size: 34 Copynumber: 5.2 Consensus size: 34
293533 TTTTGAAAAC
*
293543 TATATAA-TTTTCCAAAATGTTTTTAAAAAAATTATATA
1 TATATAAGTTTT-CAAAATATTTTT--AAAAA--ATATA
*
293581 TATATAAGTTTTAAAAATAATATTTTCAAAAACTATATA
1 TATATAAGTTTTCAAAAT-AT-TTTT-AAAAA--ATATA
*
293620 TTATATAAGTTTATTTAAAAAATATTTTTAAAAAATATA
1 -TATATAAG--T-TTT-CAAAATATTTTTAAAAAATATA
*
293659 TATATAAGTTTTCAAAATGA-TTTTAAAAACTATA
1 TATATAAGTTTTCAAAAT-ATTTTTAAAAAATATA
* *
293693 TATATATA-TTTTCTAAAAT-GTTTTAAAAACTATA
1 TATATA-AGTTTTC-AAAATATTTTTAAAAAATATA
293727 TATTATAA
1 TA-TATAA
293735 AAAATTAGAA
Statistics
Matches: 135, Mismatches: 6, Indels: 30
0.79 0.04 0.18
Matches are distributed among these distances:
34 46 0.34
35 14 0.10
36 1 0.01
38 20 0.15
39 21 0.16
40 12 0.09
41 5 0.04
42 5 0.04
43 5 0.04
44 6 0.04
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.44
Consensus pattern (34 bp):
TATATAAGTTTTCAAAATATTTTTAAAAAATATA
Found at i:293788 original size:23 final size:26
Alignment explanation
Indices: 293747--293794 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 26
293737 AATTAGAAAC
293747 TATATATATATATTCAAAAACCGTTG
1 TATATATATATATTCAAAAACCGTTG
293773 TATATA-ATATA-T-AAAAACCGTT
1 TATATATATATATTCAAAAACCGTT
293795 TGCAAACTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.45
24 1 0.05
25 5 0.23
26 6 0.27
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (26 bp):
TATATATATATATTCAAAAACCGTTG
Found at i:298049 original size:12 final size:12
Alignment explanation
Indices: 298032--298068 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
298022 TTATAACTAA
298032 TATATTAAATAT
1 TATATTAAATAT
*
298044 TATATTAAATAAA
1 TATATTAAAT-AT
298057 TATATTAAATAT
1 TATATTAAATAT
298069 ATTTATGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TATATTAAATAT
Found at i:298062 original size:13 final size:13
Alignment explanation
Indices: 298030--298067 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
298020 AATTATAACT
298030 AATATATTAAAT-
1 AATATATTAAATA
*
298042 ATTATATTAAATA
1 AATATATTAAATA
298055 AATATATTAAATA
1 AATATATTAAATA
298068 TATTTATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AATATATTAAATA
Found at i:300821 original size:33 final size:34
Alignment explanation
Indices: 300760--300859 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 34
300750 AAATTTAATG
*
300760 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
300794 TTAAATTT-GAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
300827 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
300860 AACATTTATC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 28 0.50
34 28 0.50
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:301408 original size:21 final size:20
Alignment explanation
Indices: 301381--301450 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 20
301371 GGTATAAAAC
*
301381 CCTGCGGGCTAGGCATGTAA
1 CCTGCGGGCTAGGAATGTAA
301401 CCTGGCGGGCTAGGAATGTAA
1 CCT-GCGGGCTAGGAATGTAA
*
301422 CCCTGCGGGCTCGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
301443 CCCTGCGG
1 -CCTGCGG
301451 AGATGGCATA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
20 3 0.07
21 40 0.87
22 3 0.07
ACGTcount: A:0.19, C:0.27, G:0.36, T:0.19
Consensus pattern (20 bp):
CCTGCGGGCTAGGAATGTAA
Found at i:301480 original size:21 final size:21
Alignment explanation
Indices: 301454--301501 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
301444 CCTGCGGAGA
*
301454 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
301475 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
301496 GGGCAT
1 TGGCAT
301502 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:304643 original size:21 final size:21
Alignment explanation
Indices: 304605--304644 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
304595 ATTCTGACAT
*
304605 TAAAATTTAAACACATAAAAG
1 TAAAATTTAAACAAATAAAAG
* *
304626 TAAAATTTTAATAAATAAA
1 TAAAATTTAAACAAATAAA
304645 TAAAATAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (21 bp):
TAAAATTTAAACAAATAAAAG
Found at i:304913 original size:16 final size:18
Alignment explanation
Indices: 304870--304908 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
304860 AATAAAAATA
*
304870 TATTATA-TAATATAAAC
1 TATTATATTTATATAAAC
*
304887 TATTATATTTATATAAGC
1 TATTATATTTATATAAAC
304905 TATT
1 TATT
304909 TTTTAAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (18 bp):
TATTATATTTATATAAAC
Found at i:306299 original size:25 final size:24
Alignment explanation
Indices: 306248--306299 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
306238 GTTAATTGAA
* * *
306248 TATATATAATGATTTTGTAATAAT
1 TATATATAAGGATGTTATAATAAT
306272 TATATATAAGGGATGTTATAATAAT
1 TATATATAA-GGATGTTATAATAAT
306297 TAT
1 TAT
306300 TTTAATATGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (24 bp):
TATATATAAGGATGTTATAATAAT
Found at i:321956 original size:53 final size:53
Alignment explanation
Indices: 321855--321959 Score: 147
Period size: 53 Copynumber: 2.0 Consensus size: 53
321845 CAAATTATCA
* * *
321855 TTTTGTAACTTGTAATAGTTGAAGGACTCAACAAAACAATTTCCTATAGTCGG
1 TTTTATAACTTCTAATAGTTGAAGGACTCAACAAAACAATATCCTATAGTCGG
* ** *
321908 TTTTATAACTTCTAATAGTTGAGGGACTCAACAAAGTAATATCTTATAGTCG
1 TTTTATAACTTCTAATAGTTGAAGGACTCAACAAAACAATATCCTATAGTCG
321960 AGGACCATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.35
Consensus pattern (53 bp):
TTTTATAACTTCTAATAGTTGAAGGACTCAACAAAACAATATCCTATAGTCGG
Found at i:322323 original size:34 final size:36
Alignment explanation
Indices: 322257--322331 Score: 111
Period size: 34 Copynumber: 2.1 Consensus size: 36
322247 CATATGTCTC
322257 ATTTAAAATTTAAGACTTTAAATTTTAGAGTGTAAG
1 ATTTAAAATTTAAGACTTTAAATTTTAGAGTGTAAG
*
322293 ATTTAAAATTT-AGTAC-TTAGA-TTTAGAGTGTAAG
1 ATTTAAAATTTAAG-ACTTTAAATTTTAGAGTGTAAG
322327 ATTTA
1 ATTTA
322332 GATTGTAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
34 18 0.49
35 6 0.16
36 13 0.35
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.43
Consensus pattern (36 bp):
ATTTAAAATTTAAGACTTTAAATTTTAGAGTGTAAG
Found at i:323001 original size:20 final size:21
Alignment explanation
Indices: 322962--323003 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
322952 TGCAGAGATT
**
322962 TCATCCCCAAACGGCTAGAAA
1 TCATCCCCAAACAACTAGAAA
322983 TCATCCCC-AACAACTAGAAA
1 TCATCCCCAAACAACTAGAAA
323003 T
1 T
323004 GGCCACAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.40, C:0.33, G:0.10, T:0.17
Consensus pattern (21 bp):
TCATCCCCAAACAACTAGAAA
Found at i:324078 original size:28 final size:28
Alignment explanation
Indices: 324035--324113 Score: 117
Period size: 28 Copynumber: 2.8 Consensus size: 28
324025 TATTTTATGT
324035 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTG-GA
*
324063 TCATGTAGTTCA-GTCATTTCTCTTGGA
1 TCATGTAGCTCATGTCATTTCTCTTGGA
324090 TCATGTAGCTCATGTCATGTTCTC
1 TCATGTAGCTCATGTCAT-TTCTC
324114 ATATCACATA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
27 13 0.28
28 25 0.54
29 8 0.17
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.44
Consensus pattern (28 bp):
TCATGTAGCTCATGTCATTTCTCTTGGA
Found at i:331223 original size:64 final size:63
Alignment explanation
Indices: 331154--331310 Score: 176
Period size: 64 Copynumber: 2.5 Consensus size: 63
331144 TAATGAAGGT
* **
331154 ATGCATCGATGCACTACTTGTGCATCGGTGCA-TAAAATGCATTCGATG-TTTTATTATTAATGG
1 ATGCATCGATGCACTACTTGTGCATCGATGCACT-AAATGCATTCGATGTTTTTATT-TTAA-AA
331217 G
63 G
* * * *
331218 ATGCATCGATGCA-TGCCTTATGCATCAATGCACTAATTGCATTCGATGTTTTTATTTTAAAAG
1 ATGCATCGATGCACT-ACTTGTGCATCGATGCACTAAATGCATTCGATGTTTTTATTTTAAAAG
*
331281 AGTGCATCGATGCACTACCTGTGCATCGAT
1 A-TGCATCGATGCACTACTTGTGCATCGAT
331311 ACACCTTCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
63 3 0.04
64 65 0.84
65 9 0.12
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTGTGCATCGATGCACTAAATGCATTCGATGTTTTTATTTTAAAAG
Found at i:333466 original size:162 final size:162
Alignment explanation
Indices: 333199--333522 Score: 648
Period size: 162 Copynumber: 2.0 Consensus size: 162
333189 TCTAGATGTC
333199 TATTCTGGAATCCAACAGCTCCAACAACTTGCATAGGGTTCAAACCTTTCCAGGGAATCTGTAAA
1 TATTCTGGAATCCAACAGCTCCAACAACTTGCATAGGGTTCAAACCTTTCCAGGGAATCTGTAAA
333264 GTAACCAACTCCCATAATATCACACCAAAACTGTACACGTCACATCTGCAACCAACCCAGCTGAT
66 GTAACCAACTCCCATAATATCACACCAAAACTGTACACGTCACATCTGCAACCAACCCAGCTGAT
333329 TTGTGTAAGGAACAGAAGAGAAATGTCAAAGA
131 TTGTGTAAGGAACAGAAGAGAAATGTCAAAGA
333361 TATTCTGGAATCCAACAGCTCCAACAACTTGCATAGGGTTCAAACCTTTCCAGGGAATCTGTAAA
1 TATTCTGGAATCCAACAGCTCCAACAACTTGCATAGGGTTCAAACCTTTCCAGGGAATCTGTAAA
333426 GTAACCAACTCCCATAATATCACACCAAAACTGTACACGTCACATCTGCAACCAACCCAGCTGAT
66 GTAACCAACTCCCATAATATCACACCAAAACTGTACACGTCACATCTGCAACCAACCCAGCTGAT
333491 TTGTGTAAGGAACAGAAGAGAAATGTCAAAGA
131 TTGTGTAAGGAACAGAAGAGAAATGTCAAAGA
333523 CATGCAAGCT
Statistics
Matches: 162, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
162 162 1.00
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (162 bp):
TATTCTGGAATCCAACAGCTCCAACAACTTGCATAGGGTTCAAACCTTTCCAGGGAATCTGTAAA
GTAACCAACTCCCATAATATCACACCAAAACTGTACACGTCACATCTGCAACCAACCCAGCTGAT
TTGTGTAAGGAACAGAAGAGAAATGTCAAAGA
Found at i:341380 original size:18 final size:18
Alignment explanation
Indices: 341354--341389 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
341344 GAAATGTTTC
*
341354 TGAAGGAATTGAAATCTG
1 TGAAAGAATTGAAATCTG
*
341372 TGAAAGAATTGGAATCTG
1 TGAAAGAATTGAAATCTG
341390 AAGGAATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.28, T:0.28
Consensus pattern (18 bp):
TGAAAGAATTGAAATCTG
Found at i:341395 original size:34 final size:33
Alignment explanation
Indices: 341352--341438 Score: 113
Period size: 34 Copynumber: 2.6 Consensus size: 33
341342 CTGAAATGTT
341352 TCTGAAGGAATTGAAATCTGTGAA-AGAATTGGAA
1 TCTGAAGGAATTGAAAT-TG-GAATAGAATTGGAA
* *
341386 TCTGAAGGAATTGGAATTGGAATTGGAATTGGAA
1 TCTGAAGGAATTGAAATTGGAA-TAGAATTGGAA
*
341420 TCTGAAGGAATTGGAATTG
1 TCTGAAGGAATTGAAATTG
341439 AAATCTGAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
32 3 0.06
33 2 0.04
34 44 0.90
ACGTcount: A:0.37, C:0.05, G:0.30, T:0.29
Consensus pattern (33 bp):
TCTGAAGGAATTGAAATTGGAATAGAATTGGAA
Found at i:341401 original size:6 final size:6
Alignment explanation
Indices: 341392--341464 Score: 68
Period size: 6 Copynumber: 12.8 Consensus size: 6
341382 GGAATCTGAA
341392 GGAATT GGAATT GGAATT GGAATT GGAATCT -GAA-- GGAATT GGAATT
1 GGAATT GGAATT GGAATT GGAATT GGAAT-T GGAATT GGAATT GGAATT
* *
341438 GAAATCT -GAA-- GGAATT GGAATT TGAAT
1 GGAAT-T GGAATT GGAATT GGAATT GGAAT
341465 CTGAAACCTA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
4 6 0.11
6 48 0.86
7 2 0.04
ACGTcount: A:0.37, C:0.03, G:0.30, T:0.30
Consensus pattern (6 bp):
GGAATT
Found at i:341403 original size:22 final size:22
Alignment explanation
Indices: 341377--341469 Score: 98
Period size: 22 Copynumber: 4.7 Consensus size: 22
341367 ATCTGTGAAA
341377 GAATTGGAATCTGAAGGAATTG
1 GAATTGGAATCTGAAGGAATTG
341399 GAATTGGAAT-T---GGAATTG
1 GAATTGGAATCTGAAGGAATTG
341417 GAA------TCTGAAGGAATTG
1 GAATTGGAATCTGAAGGAATTG
*
341433 GAATTGAAATCTGAAGGAATTG
1 GAATTGGAATCTGAAGGAATTG
*
341455 GAATTTGAATCTGAA
1 GAATTGGAATCTGAA
341470 ACCTATTTGG
Statistics
Matches: 59, Mismatches: 2, Indels: 20
0.73 0.02 0.25
Matches are distributed among these distances:
12 1 0.02
13 1 0.02
16 10 0.17
18 10 0.17
21 1 0.02
22 36 0.61
ACGTcount: A:0.38, C:0.04, G:0.29, T:0.29
Consensus pattern (22 bp):
GAATTGGAATCTGAAGGAATTG
Found at i:341409 original size:28 final size:28
Alignment explanation
Indices: 341377--341464 Score: 101
Period size: 28 Copynumber: 3.1 Consensus size: 28
341367 ATCTGTGAAA
341377 GAATTGGAATCTGAAGGAATTGGAATTG
1 GAATTGGAATCTGAAGGAATTGGAATTG
*
341405 GAATTGGAAT-TGGAATCTGAA--GGAATTG
1 GAATTGGAATCT-GAA--GGAATTGGAATTG
* *
341433 GAATTGAAATCTGAAGGAATTGGAATTT
1 GAATTGGAATCTGAAGGAATTGGAATTG
341461 GAAT
1 GAAT
341465 CTGAAACCTA
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
26 3 0.06
27 1 0.02
28 42 0.84
29 1 0.02
30 3 0.06
ACGTcount: A:0.38, C:0.03, G:0.30, T:0.30
Consensus pattern (28 bp):
GAATTGGAATCTGAAGGAATTGGAATTG
Found at i:342100 original size:28 final size:28
Alignment explanation
Indices: 342033--342128 Score: 131
Period size: 28 Copynumber: 3.5 Consensus size: 28
342023 CTTAAATCTG
* *
342033 AACCCGGCCCGAATACTACACTT-AAAA
1 AACCCGACCCGAATACCACACTTAAAAA
*
342060 AACCCGACTCGAATACCACACTTAAAAA
1 AACCCGACCCGAATACCACACTTAAAAA
* * *
342088 AACCCGACCCGAATATCAAACTGAAAAA
1 AACCCGACCCGAATACCACACTTAAAAA
342116 AACCCGACCCGAA
1 AACCCGACCCGAA
342129 CCCGATTTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
27 20 0.33
28 41 0.67
ACGTcount: A:0.45, C:0.33, G:0.10, T:0.11
Consensus pattern (28 bp):
AACCCGACCCGAATACCACACTTAAAAA
Found at i:342220 original size:32 final size:32
Alignment explanation
Indices: 342177--342325 Score: 109
Period size: 32 Copynumber: 4.9 Consensus size: 32
342167 ATTTTAAAAA
* ** *
342177 ACCCGATCCGAATATCGCACTTAAAAAACCCG
1 ACCCGACCCGAATATCAAACTGAAAAAACCCG
342209 ACCCGACCCGAATATCAAACTGAAAAAACCCG
1 ACCCGACCCGAATATCAAACTGAAAAAACCCG
**** *
342241 ACCCGAACCCG-AT-T-TTTTTAAAAAAACCCG
1 ACCCG-ACCCGAATATCAAACTGAAAAAACCCG
*
342271 -CCCGATCCCGAA-ATTAAA---AAAAAACCCG
1 ACCCGA-CCCGAATATCAAACTGAAAAAACCCG
* *
342299 A-CCGACCCGAGTATCAAACTTAAAAAA
1 ACCCGACCCGAATATCAAACTGAAAAAA
342326 ATTCGTCCCG
Statistics
Matches: 93, Mismatches: 14, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
27 5 0.05
28 20 0.22
29 8 0.09
30 13 0.14
31 7 0.08
32 35 0.38
33 5 0.05
ACGTcount: A:0.42, C:0.32, G:0.11, T:0.15
Consensus pattern (32 bp):
ACCCGACCCGAATATCAAACTGAAAAAACCCG
Found at i:342260 original size:116 final size:114
Alignment explanation
Indices: 342054--342303 Score: 362
Period size: 116 Copynumber: 2.1 Consensus size: 114
342044 AATACTACAC
342054 TTAAAAAACCCGACTCGAATACCACACTTAAAAAAACCCGACCCGAATATCAAACTGAAAAAAAC
1 TTAAAAAACCCGAC-CGAATACCACACTTAAAAAAACCCGACCCGAATATCAAACTGAAAAAAAC
*
342119 CCGACCCGAACCCGATTTTTTTTTTAAAAAACCCGCCCCGATCCCGAAATT-
65 CCGACCCGAACCCGA-TTTTTTTTAAAAAAACCCG-CCCGATCCCGAAATTA
* *
342170 TTAAAAAACCCGATCCGAATATCGCACTTAAAAAACCCGACCCGACCCGAATATCAAACTG-AAA
1 TTAAAAAACCCGA-CCGAATACCACACTTAAAAAA----ACCCGACCCGAATATCAAACTGAAAA
342234 AAACCCGACCCGAACCCGA-TTTTTTTAAAAAAACCCGCCCGATCCCGAAATTA
61 AAACCCGACCCGAACCCGATTTTTTTTAAAAAAACCCGCCCGATCCCGAAATTA
**
342287 AAAAAAAACCCGACCGA
1 TTAAAAAACCCGACCGA
342304 CCCGAGTATC
Statistics
Matches: 123, Mismatches: 5, Indels: 12
0.88 0.04 0.09
Matches are distributed among these distances:
116 50 0.41
117 29 0.24
119 22 0.18
120 22 0.18
ACGTcount: A:0.42, C:0.31, G:0.10, T:0.17
Consensus pattern (114 bp):
TTAAAAAACCCGACCGAATACCACACTTAAAAAAACCCGACCCGAATATCAAACTGAAAAAAACC
CGACCCGAACCCGATTTTTTTTAAAAAAACCCGCCCGATCCCGAAATTA
Found at i:345495 original size:12 final size:12
Alignment explanation
Indices: 345478--345504 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
345468 TGCCCCTCTT
345478 TGCTCATTGTCG
1 TGCTCATTGTCG
345490 TGCTCATTGTCG
1 TGCTCATTGTCG
345502 TGC
1 TGC
345505 AACGAGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.26, G:0.26, T:0.41
Consensus pattern (12 bp):
TGCTCATTGTCG
Found at i:345692 original size:55 final size:54
Alignment explanation
Indices: 345611--346201 Score: 389
Period size: 55 Copynumber: 11.0 Consensus size: 54
345601 AGAGTTGAAA
* *
345611 AATCTTCAA-ATAACGGGTCTGTTCCCTATTCTTTTAAGGAGTATAAGACTCGAAC
1 AATCTTCAACA-AACGTGTCTGCTCCCTATTC-TTTAAGGAGTATAAGACTCGAAC
*** * * *
345666 AATCTTTGGCAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCAAAC
1 AATCTTCAACAAACGTGTCTGCTCCCTATTC-TTTAAGGAGTATAAGACTCGAAC
* * *
345721 AATCTTCAACTAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCG---
1 AATCTTCAACAAACGTGTCTGCTCCCTATTCTTTAAG-GAGTATAAGACTCGAAC
* * * * * *
345773 -ATCTTCAATAAACGTGCCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCG---
1 AATCTTCAACAAACGTGTCTGCTCCCTATTCTTTAAG-GAGTATAAGACTCGAAC
* * *
345824 -ATCTTCAACAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTAT-AGAACTCG---
1 AATCTTCAACAAACGTGTCTGCTCCCTATTCTTTAAG-GAGTATAAG-ACTCGAAC
* * * * *
345875 -ATCTTCAACAAACGGGTCCGCTCCCTATCCGTTCAGGGAGTAT-AGAACTCGAAC
1 AATCTTCAACAAACGTGTCTGCTCCCTATTC-TTTAAGGAGTATAAG-ACTCGAAC
* * * * *
345929 AATCTTCATA-AAACGGGTCCGCTCTCTATTCCTTCAGAGAGTAT-AGAACTCGAAC
1 AATCTTCA-ACAAACGTGTCTGCTCCCTATTCTTTAAG-GAGTATAAG-ACTCGAAC
* * * *
345984 AATCTTCAACAAACGAGTCTGCTCTCTATTCCTTCAGAGAGTAT-AGAACTCGAAC
1 AATCTTCAACAAACGTGTCTGCTCCCTATTCTTTAAG-GAGTATAAG-ACTCGAAC
* * * * * *
346039 AATCTTCAACAAACGGGTCCGTTCTCTATTCCTTCAGAGAGTAT-AGAACTCGAAC
1 AATCTTCAACAAACGTGTCTGCTCCCTATTCTTTAAG-GAGTATAAG-ACTCGAAC
* * * * *
346094 AATCTTCATA-AAACGGGT-TCGCTCCCTATCCGTTCAGGGAGTAT-AGAACTCAAAC
1 AATCTTCA-ACAAACGTGTCT-GCTCCCTATTC-TTTAAGGAGTATAAG-ACTCGAAC
* * * * *
346149 AATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAAGACTCGA
1 AATCTTCAACAAACGTGTCTGCTCCCTATTCTTTAAG-GAGTATAAGACTCGA
346202 TCTTCATAAA
Statistics
Matches: 458, Mismatches: 60, Indels: 36
0.83 0.11 0.06
Matches are distributed among these distances:
50 1 0.00
51 134 0.29
52 2 0.00
54 8 0.02
55 306 0.67
56 7 0.02
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (54 bp):
AATCTTCAACAAACGTGTCTGCTCCCTATTCTTTAAGGAGTATAAGACTCGAAC
Found at i:345798 original size:51 final size:51
Alignment explanation
Indices: 345722--346207 Score: 525
Period size: 55 Copynumber: 9.1 Consensus size: 51
345712 GACTCAAACA
* * *
345722 ATCTTCAACTAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATA-AGACTCG
1 ATCTTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGA-ACTCG
* * * *
345773 ATCTTCAATAAACGTGCCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCG
1 ATCTTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCG
*
345824 ATCTTCAACAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCG
1 ATCTTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCG
*
345875 ATCTTCAACAAACGGGTCCGCTCCCTA-TCCGTTCAGGGAGTATAGAACTCG
1 ATCTTCAACAAACGGGTCCGCTCCCTATTCC-TTCAGAGAGTATAGAACTCG
*
345926 AACAATCTTCATA-AAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCG
1 ----ATCTTCA-ACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCG
* * *
345981 AACAATCTTCAACAAACGAGTCTGCTCTCTATTCCTTCAGAGAGTATAGAACTCG
1 ----ATCTTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCG
* *
346036 AACAATCTTCAACAAACGGGTCCGTTCTCTATTCCTTCAGAGAGTATAGAACTCG
1 ----ATCTTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCG
* * *
346091 AACAATCTTCATA-AAACGGGTTCGCTCCCTA-TCCGTTCAGGGAGTATAGAACTCAAACA
1 ----ATCTTCA-ACAAACGGGTCCGCTCCCTATTCC-TTCAGAGAGTATAGAACT----CG
*
346150 ATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATA-AGACTCG
1 ATCTTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGA-ACTCG
346201 ATCTTCA
1 ATCTTCA
346208 TAAACTGAGT
Statistics
Matches: 391, Mismatches: 26, Indels: 36
0.86 0.06 0.08
Matches are distributed among these distances:
50 3 0.01
51 146 0.37
54 6 0.02
55 227 0.58
56 8 0.02
59 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (51 bp):
ATCTTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCG
Found at i:346043 original size:110 final size:110
Alignment explanation
Indices: 345649--346201 Score: 662
Period size: 110 Copynumber: 5.1 Consensus size: 110
345639 TTCTTTTAAG
*** * *
345649 GAGTATAAGACTCGAACAATCTTTGGCAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATA-AG
1 GAGTATAAGACTCGAACAATCTTCAACAAACGGGTCTGCTCCCTATTCCTTCAGGGAGTATAGA-
* * * * *
345713 ACTCAAACAATCTTCAACTAACGTGTCTGCTCCCTATTCCTTCAGA
65 ACTCGAACAATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCAGA
* * * * * *
345759 GAGTATAAGACTCG----ATCTTCAATAAACGTGCCCGCTCCCTATTCCTTCAGAGAGTATAGGA
1 GAGTATAAGACTCGAACAATCTTCAACAAACGGGTCTGCTCCCTATTCCTTCAGGGAGTATAGAA
* *
345820 CTCG----ATCTTCAACAAACGTGTCCGCTCCCTATTCCTTCAGA
66 CTCGAACAATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCAGA
*
345861 GAGTAT-AGAACTCG----ATCTTCAACAAACGGGTCCGCTCCCTA-TCCGTTCAGGGAGTATAG
1 GAGTATAAG-ACTCGAACAATCTTCAACAAACGGGTCTGCTCCCTATTCC-TTCAGGGAGTATAG
345920 AACTCGAACAATCTTCATA-AAACGGGTCCGCTCTCTATTCCTTCAGA
64 AACTCGAACAATCTTCA-ACAAACGGGTCCGCTCTCTATTCCTTCAGA
* * *
345967 GAGTAT-AGAACTCGAACAATCTTCAACAAACGAGTCTGCTCTCTATTCCTTCAGAGAGTATAGA
1 GAGTATAAG-ACTCGAACAATCTTCAACAAACGGGTCTGCTCCCTATTCCTTCAGGGAGTATAGA
*
346031 ACTCGAACAATCTTCAACAAACGGGTCCGTTCTCTATTCCTTCAGA
65 ACTCGAACAATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCAGA
346077 GAGTAT-AGAACTCGAACAATCTTCATA-AAACGGGT-TCGCTCCCTA-TCCGTTCAGGGAGTAT
1 GAGTATAAG-ACTCGAACAATCTTCA-ACAAACGGGTCT-GCTCCCTATTCC-TTCAGGGAGTAT
*
346138 AGAACTCAAACAATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCAGA
62 AGAACTCGAACAATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCAGA
346187 GAGTATAAGACTCGA
1 GAGTATAAGACTCGA
346202 TCTTCATAAA
Statistics
Matches: 396, Mismatches: 29, Indels: 36
0.86 0.06 0.08
Matches are distributed among these distances:
101 5 0.01
102 88 0.22
106 87 0.22
107 1 0.00
109 5 0.01
110 204 0.52
111 6 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (110 bp):
GAGTATAAGACTCGAACAATCTTCAACAAACGGGTCTGCTCCCTATTCCTTCAGGGAGTATAGAA
CTCGAACAATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCAGA
Found at i:347550 original size:16 final size:16
Alignment explanation
Indices: 347522--347657 Score: 82
Period size: 16 Copynumber: 8.1 Consensus size: 16
347512 TCAACCCTCC
*
347522 TTTT-ATTTCTCTCTT
1 TTTTCATTTTTCTCTT
347537 TTTTCATTTTTCTCTT
1 TTTTCATTTTTCTCTT
*
347553 TTTTCATTTTTCATTTT
1 TTTTCATTTTTC-TCTT
**
347570 TTCTTCCCTTTTC-CATT
1 TT-TTCATTTTTCTC-TT
*
347587 TTTTC-TTCTTT-TTTT
1 TTTTCATT-TTTCTCTT
* *
347602 CTTTTCGTTTTTTCCATCAT
1 -TTTTC-ATTTTT-C-TCTT
*
347622 TTTTCTTTTTTCTCATT
1 TTTTCATTTTTCTC-TT
347639 TTTTCATTTTTTCTCTT
1 TTTTCA-TTTTTCTCTT
347656 TT
1 TT
347658 ATTTCTTCTT
Statistics
Matches: 96, Mismatches: 11, Indels: 26
0.72 0.08 0.20
Matches are distributed among these distances:
15 7 0.07
16 35 0.36
17 23 0.24
18 24 0.25
19 5 0.05
20 2 0.02
ACGTcount: A:0.07, C:0.20, G:0.01, T:0.73
Consensus pattern (16 bp):
TTTTCATTTTTCTCTT
Found at i:347592 original size:43 final size:42
Alignment explanation
Indices: 347543--347649 Score: 112
Period size: 43 Copynumber: 2.5 Consensus size: 42
347533 TCTTTTTTCA
* *
347543 TTTTTCTCTTTTTTCATTTTTCATTTTTT-CTTCCCTTTTCCAT
1 TTTTTCTCTTTTTTCATTTTTCATTTTTTCCAT-CATTTTCC-T
* *
347586 TTTTTCTTCTTTTTT--TCTTTTCGTTTTTTCCATCATTTTTCT
1 TTTTTC-TCTTTTTTCAT-TTTTCATTTTTTCCATCATTTTCCT
347628 TTTTTCTCATTTTTTCATTTTT
1 TTTTTCTC-TTTTTTCATTTTT
347650 TCTCTTTTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
41 2 0.04
42 14 0.26
43 27 0.50
44 11 0.20
ACGTcount: A:0.07, C:0.20, G:0.01, T:0.73
Consensus pattern (42 bp):
TTTTTCTCTTTTTTCATTTTTCATTTTTTCCATCATTTTCCT
Found at i:347599 original size:18 final size:17
Alignment explanation
Indices: 347559--347651 Score: 61
Period size: 18 Copynumber: 5.4 Consensus size: 17
347549 TCTTTTTTCA
347559 TTTTT-CATTTTTTCTT
1 TTTTTCCATTTTTTCTT
*
347575 CCCTTTTCCATTTTTTCTT
1 --TTTTTCCATTTTTTCTT
*
347594 CTTTTT---TTCTTTTCGT
1 -TTTTTCCATT-TTTTCTT
347610 TTTTTCCATCATTTTTC-T
1 TTTTTCCAT--TTTTTCTT
*
347628 TTTTTCTCATTTTTTCAT
1 TTTTTC-CATTTTTTCTT
347646 TTTTTC
1 TTTTTC
347652 TCTTTTATTT
Statistics
Matches: 63, Mismatches: 3, Indels: 18
0.75 0.04 0.21
Matches are distributed among these distances:
15 7 0.11
16 6 0.10
17 6 0.10
18 24 0.38
19 19 0.30
20 1 0.02
ACGTcount: A:0.06, C:0.20, G:0.01, T:0.72
Consensus pattern (17 bp):
TTTTTCCATTTTTTCTT
Found at i:347631 original size:7 final size:7
Alignment explanation
Indices: 347533--347667 Score: 54
Period size: 8 Copynumber: 16.6 Consensus size: 7
347523 TTTATTTCTC
347533 TCTTTTT
1 TCTTTTT
347540 TCATTTTT
1 TC-TTTTT
347548 CTCTTTTT
1 -TCTTTTT
*
347556 TCATTTT
1 TCTTTTT
347563 TCATTTTT
1 TC-TTTTT
347571 TCTTCCCTTT
1 TCTT---TTT
347581 TCCATTTTT
1 T-C-TTTTT
347590 TCTTCTTT
1 TCTT-TTT
*
347598 TTTTCTTT
1 TCTT-TTT
347606 TCGTTTTT
1 TC-TTTTT
347614 TCCATCATTTT
1 T-C-T--TTTT
347625 TCTTTTTT
1 TC-TTTTT
347633 CTCATTTTT
1 -TC-TTTTT
347642 TCATTTTT
1 TC-TTTTT
*
347650 TCTCTTT
1 TCTTTTT
* *
347657 TATTTCT
1 TCTTTTT
347664 TCTT
1 TCTT
347668 CAAGCAAAAT
Statistics
Matches: 102, Mismatches: 12, Indels: 28
0.72 0.08 0.20
Matches are distributed among these distances:
7 25 0.25
8 46 0.45
9 17 0.17
10 6 0.06
11 6 0.06
12 2 0.02
ACGTcount: A:0.07, C:0.20, G:0.01, T:0.73
Consensus pattern (7 bp):
TCTTTTT
Found at i:347664 original size:9 final size:8
Alignment explanation
Indices: 347543--347664 Score: 50
Period size: 9 Copynumber: 14.0 Consensus size: 8
347533 TCTTTTTTCA
347543 TTTTTCTCT
1 TTTTTCT-T
*
347552 TTTTTC-A
1 TTTTTCTT
*
347559 TTTTTCAT
1 TTTTTCTT
347567 TTTTTCTT
1 TTTTTCTT
* *
347575 CCCTTTTCCAT
1 ---TTTTTCTT
347586 TTTTTCTT
1 TTTTTCTT
347594 CTTTTT-TT
1 -TTTTTCTT
*
347602 CTTTTCGTT
1 TTTTTC-TT
* *
347611 TTTTCCATCA
1 TTTTTC-T-T
347621 TTTTTCTT
1 TTTTTCTT
*
347629 TTTTCTCAT
1 TTTT-TCTT
347638 TTTTTCATT
1 TTTTTC-TT
347647 TTTTCTCTT
1 TTTT-TCTT
347656 TTATTTCTT
1 TT-TTTCTT
347665 CTTCAAGCAA
Statistics
Matches: 85, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
7 10 0.12
8 21 0.25
9 39 0.46
10 9 0.11
11 6 0.07
ACGTcount: A:0.07, C:0.20, G:0.01, T:0.73
Consensus pattern (8 bp):
TTTTTCTT
Found at i:370810 original size:12 final size:12
Alignment explanation
Indices: 370793--370817 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
370783 TCGAAATATC
370793 AAAATGTTTTCA
1 AAAATGTTTTCA
370805 AAAATGTTTTCA
1 AAAATGTTTTCA
370817 A
1 A
370818 CAATCTCCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
AAAATGTTTTCA
Found at i:370944 original size:15 final size:15
Alignment explanation
Indices: 370924--370953 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
370914 CATTTATCAT
370924 TTTAAAACACACTTA
1 TTTAAAACACACTTA
370939 TTTAAAACACACTTA
1 TTTAAAACACACTTA
370954 AAACACGCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (15 bp):
TTTAAAACACACTTA
Found at i:370956 original size:11 final size:11
Alignment explanation
Indices: 370940--370974 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
370930 ACACACTTAT
370940 TTAAAACACAC
1 TTAAAACACAC
370951 TTAAAACACGCAC
1 TTAAAACA--CAC
370964 TTAAAACACAC
1 TTAAAACACAC
370975 ACTTCTCCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 11 0.50
13 11 0.50
ACGTcount: A:0.51, C:0.29, G:0.03, T:0.17
Consensus pattern (11 bp):
TTAAAACACAC
Found at i:370964 original size:13 final size:12
Alignment explanation
Indices: 370940--370978 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
370930 ACACACTTAT
370940 TTAAAACA-CAC
1 TTAAAACACCAC
370951 TTAAAACACGCAC
1 TTAAAACAC-CAC
370964 TTAAAACACACAC
1 TTAAAACAC-CAC
370977 TT
1 TT
370979 CTCCCCCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 8 0.32
13 17 0.68
ACGTcount: A:0.49, C:0.28, G:0.03, T:0.21
Consensus pattern (12 bp):
TTAAAACACCAC
Found at i:371581 original size:12 final size:12
Alignment explanation
Indices: 371564--371604 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
371554 TTGTTGTGCT
371564 TGCTCTTCGGGC
1 TGCTCTTCGGGC
371576 TGCTCTTCGGGC
1 TGCTCTTCGGGC
* *
371588 TGCTCCTCTGGC
1 TGCTCTTCGGGC
371600 TGCTC
1 TGCTC
371605 AGGTTCATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.00, C:0.37, G:0.29, T:0.34
Consensus pattern (12 bp):
TGCTCTTCGGGC
Found at i:373070 original size:20 final size:20
Alignment explanation
Indices: 373033--373071 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
373023 AGATTGAGTG
* * *
373033 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
373053 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
373072 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:373257 original size:21 final size:21
Alignment explanation
Indices: 373231--373270 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
373221 CAGAACCCCA
*
373231 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
373252 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
373271 TCAAAAGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:373301 original size:21 final size:23
Alignment explanation
Indices: 373252--373301 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
373242 ATTCCCCTGT
373252 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGGTTCCCCTTCAA
**
373275 AAGGGGAATCGGTT-CCC-TCAA
1 GGGGGGAATCGGTTCCCCTTCAA
373296 GGGGGG
1 GGGGGG
373302 GTCGATTCCC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 8 0.35
22 3 0.13
23 12 0.52
ACGTcount: A:0.20, C:0.22, G:0.40, T:0.18
Consensus pattern (23 bp):
GGGGGGAATCGGTTCCCCTTCAA
Found at i:379048 original size:12 final size:12
Alignment explanation
Indices: 379031--379055 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
379021 TCGAAATATC
379031 AAAATGTTTTCA
1 AAAATGTTTTCA
379043 AAAATGTTTTCA
1 AAAATGTTTTCA
379055 A
1 A
379056 CAGATACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
AAAATGTTTTCA
Found at i:379614 original size:23 final size:23
Alignment explanation
Indices: 379568--379615 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
379558 AAATAGGTCA
* *
379568 ATATAAGCACTATCTATTACATT
1 ATATAAGCACTACCTAATACATT
* *
379591 ATATAAGCGCTACCTAATATATT
1 ATATAAGCACTACCTAATACATT
379614 AT
1 AT
379616 TGTACTTGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.38
Consensus pattern (23 bp):
ATATAAGCACTACCTAATACATT
Found at i:385659 original size:33 final size:34
Alignment explanation
Indices: 385617--385705 Score: 121
Period size: 33 Copynumber: 2.7 Consensus size: 34
385607 TGGAAATCTT
* *
385617 ATCTTGGTTGGTGGCCAACTTATT-GAAAAATTC
1 ATCTTGGTTGGTGGACAACTTATTGGAAAAAATC
385650 ATCTTGGTTGGTGGACAACTTATTGGAAAAAATC
1 ATCTTGGTTGGTGGACAACTTATTGGAAAAAATC
**
385684 -T-TTGGCAGGTGGACAACTTATT
1 ATCTTGGTTGGTGGACAACTTATT
385706 TTTCATCTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
32 19 0.37
33 24 0.47
34 8 0.16
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (34 bp):
ATCTTGGTTGGTGGACAACTTATTGGAAAAAATC
Found at i:389179 original size:103 final size:105
Alignment explanation
Indices: 389011--389239 Score: 365
Period size: 103 Copynumber: 2.2 Consensus size: 105
389001 CCATATAATA
* * *
389011 ATGTCCAT-AAGGACCACATATCATTTCTTAAGAAGAATCATATATATATACTAGGGATCAAGTA
1 ATGTCC-TGAAGGACCACATATCATTTCTT-AGAAGAATCATATACATATACCAAGGATCAAGTA
389075 TGTGTCTAACCAGACTTCACACATGTTCCAAAGAATACATAT
64 TGTGTCTAACCAGACTTCACACATGTTCCAAAGAATACATAT
*
389117 ATGTCCTGAAGGACCACATATCA-TTCTT-TAAGAATCATATACATATACCAAGGATCAAGTATG
1 ATGTCCTGAAGGACCACATATCATTTCTTAGAAGAATCATATACATATACCAAGGATCAAGTATG
*
389180 TGTCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
66 TGTCTAACCAGACTTCACACATGTTCCAAAGAATACATAT
*
389220 ATGTCCCGAAGGACCACATA
1 ATGTCCTGAAGGACCACATA
389240 GACCCTCGAC
Statistics
Matches: 116, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
103 89 0.77
105 6 0.05
106 21 0.18
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.28
Consensus pattern (105 bp):
ATGTCCTGAAGGACCACATATCATTTCTTAGAAGAATCATATACATATACCAAGGATCAAGTATG
TGTCTAACCAGACTTCACACATGTTCCAAAGAATACATAT
Found at i:397763 original size:18 final size:18
Alignment explanation
Indices: 397726--397763 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
397716 CTATGATGTG
*
397726 CAACATGTGCATGCATCC
1 CAACATGTGCATGCACCC
397744 CAACAATGTGCATGC-CCC
1 CAAC-ATGTGCATGCACCC
397762 CA
1 CA
397764 TATTCTTCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.29, C:0.37, G:0.16, T:0.18
Consensus pattern (18 bp):
CAACATGTGCATGCACCC
Found at i:398444 original size:14 final size:13
Alignment explanation
Indices: 398427--398460 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
398417 AACGTAAACA
398427 AACACAAACGAAC
1 AACACAAACGAAC
*
398440 GAACATAAACGAAC
1 -AACACAAACGAAC
398454 AACACAA
1 AACACAA
398461 GCACAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.62, C:0.26, G:0.09, T:0.03
Consensus pattern (13 bp):
AACACAAACGAAC
Found at i:398772 original size:24 final size:24
Alignment explanation
Indices: 398718--398793 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
398708 GTCATCTGTT
*
398718 CGAACATAAATGAATATAAATGAA
1 CGAACATAAATGAACATAAATGAA
* *
398742 CGGACATAAATGAACATAAATGAT
1 CGAACATAAATGAACATAAATGAA
* *
398766 TGAACATAAACGAACATATAATCGAA
1 CGAACATAAATGAACATA-AAT-GAA
398792 CG
1 CG
398794 TTCACGAACG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
24 36 0.86
25 3 0.07
26 3 0.07
ACGTcount: A:0.53, C:0.13, G:0.14, T:0.20
Consensus pattern (24 bp):
CGAACATAAATGAACATAAATGAA
Found at i:400209 original size:94 final size:94
Alignment explanation
Indices: 400043--400221 Score: 277
Period size: 94 Copynumber: 1.9 Consensus size: 94
400033 GATTACGAAA
400043 ATTATGAAAATATACTTCCTTATAATCATAAAAAAATATTAAAAATATAAGATGATACACAAATT
1 ATTATGAAAATATACTTCCTTATAATCATAAAAAAATATTAAAAATATAAGATGATACACAAATT
400108 TTCTAATTAAAAATAAAAAAAATAATTTT
66 TTCTAATTAAAAATAAAAAAAATAATTTT
* * * * * *
400137 ATTATGAAAATGTACTTCCTTATAATCATCATAAACTATTAAAAATATAATATGATACATAAATT
1 ATTATGAAAATATACTTCCTTATAATCATAAAAAAATATTAAAAATATAAGATGATACACAAATT
* * *
400202 TTTTAATTAATACTAAAAAA
66 TTCTAATTAAAAATAAAAAA
400222 TAAATTTAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 76 1.00
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.36
Consensus pattern (94 bp):
ATTATGAAAATATACTTCCTTATAATCATAAAAAAATATTAAAAATATAAGATGATACACAAATT
TTCTAATTAAAAATAAAAAAAATAATTTT
Found at i:416172 original size:162 final size:164
Alignment explanation
Indices: 415905--416230 Score: 638
Period size: 162 Copynumber: 2.0 Consensus size: 164
415895 CAGGATTCCG
415905 AAAGGAGAGACCGTCGTGAGCAGGCGGAGTAGGGAGGTAAGCGATCTCATGGTCATCGAGTTCGA
1 AAAGGAGAGACCGTCGTGAGCAGGCGGAGTAGGGAGGTAAGCGATCTCATGGTCATCGAGTTCGA
415970 TTACGGTAGGGTGAACCCCTATGGTGGCCAAGAGCTTTTTCATCACGTGACACATGCAACAAGAG
66 TTACGGTAGGGTGAACCCCTATGGTGGCCAAGAGCTTTTTCATCACGTGACACATGCAACAAGAG
416035 GACCGACTG-A-ATGATCACGGGGTTCTCCGATA
131 GACCGACTGAAGATGATCACGGGGTTCTCCGATA
416067 AAAGGAGAGACCGTCGTGAGCAGGCGGAGTAGGGAGGTAAGCGATCTCATGGTCATCGAGTTCGA
1 AAAGGAGAGACCGTCGTGAGCAGGCGGAGTAGGGAGGTAAGCGATCTCATGGTCATCGAGTTCGA
416132 TTACGGTAGGGTGAACCCCTATGGTGGCCAAGAGCTTTTTCATCACGTGACACATGCAACAAGAG
66 TTACGGTAGGGTGAACCCCTATGGTGGCCAAGAGCTTTTTCATCACGTGACACATGCAACAAGAG
416197 GACCGACTGAAGATGATCACGGGGTTCTCCGATA
131 GACCGACTGAAGATGATCACGGGGTTCTCCGATA
416231 TCAACCTCCT
Statistics
Matches: 162, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
162 139 0.86
163 1 0.01
164 22 0.14
ACGTcount: A:0.27, C:0.21, G:0.32, T:0.20
Consensus pattern (164 bp):
AAAGGAGAGACCGTCGTGAGCAGGCGGAGTAGGGAGGTAAGCGATCTCATGGTCATCGAGTTCGA
TTACGGTAGGGTGAACCCCTATGGTGGCCAAGAGCTTTTTCATCACGTGACACATGCAACAAGAG
GACCGACTGAAGATGATCACGGGGTTCTCCGATA
Found at i:416940 original size:111 final size:111
Alignment explanation
Indices: 416823--417046 Score: 448
Period size: 111 Copynumber: 2.0 Consensus size: 111
416813 TTTTTTTCTT
416823 AATGTTGTTAGATTTTTTAATCATTTTATTTCCACTATTTTATTTATTATTTTTAGAATTTATAT
1 AATGTTGTTAGATTTTTTAATCATTTTATTTCCACTATTTTATTTATTATTTTTAGAATTTATAT
416888 TTTAATTATTTTCATTTGAAAATACTGAAAGAACATTTATTTCGAC
66 TTTAATTATTTTCATTTGAAAATACTGAAAGAACATTTATTTCGAC
416934 AATGTTGTTAGATTTTTTAATCATTTTATTTCCACTATTTTATTTATTATTTTTAGAATTTATAT
1 AATGTTGTTAGATTTTTTAATCATTTTATTTCCACTATTTTATTTATTATTTTTAGAATTTATAT
416999 TTTAATTATTTTCATTTGAAAATACTGAAAGAACATTTATTTCGAC
66 TTTAATTATTTTCATTTGAAAATACTGAAAGAACATTTATTTCGAC
417045 AA
1 AA
417047 CAGACATTTA
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 113 1.00
ACGTcount: A:0.32, C:0.08, G:0.07, T:0.53
Consensus pattern (111 bp):
AATGTTGTTAGATTTTTTAATCATTTTATTTCCACTATTTTATTTATTATTTTTAGAATTTATAT
TTTAATTATTTTCATTTGAAAATACTGAAAGAACATTTATTTCGAC
Found at i:419982 original size:45 final size:45
Alignment explanation
Indices: 419924--420014 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
419914 TATGATATTA
* * *
419924 ACCTGTGTTATTACATGAAAATGAGATATAAGCAATGTGATAATG
1 ACCTATGTGATTACATGAAAATGAGATATAAGCAATGTGACAATG
* *
419969 ACCTATGTGATTACATGAAAATGTGATATAAGCTATGTGACAATG
1 ACCTATGTGATTACATGAAAATGAGATATAAGCAATGTGACAATG
420014 A
1 A
420015 TTTTTGATTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.31
Consensus pattern (45 bp):
ACCTATGTGATTACATGAAAATGAGATATAAGCAATGTGACAATG
Found at i:423150 original size:21 final size:21
Alignment explanation
Indices: 423101--423164 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
423091 CATATGAAAT
* *
423101 TTGTTCCGAAGGACCTGTGAA
1 TTGTCCCGAAGGACCTATGAA
*
423122 TATGTCCCGAAGGACCTATGAG
1 T-TGTCCCGAAGGACCTATGAA
423144 TTGTCCCGAAGGACCTATGAA
1 TTGTCCCGAAGGACCTATGAA
423165 ACCCTCGACT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 20 0.53
22 18 0.47
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (21 bp):
TTGTCCCGAAGGACCTATGAA
Found at i:429379 original size:22 final size:22
Alignment explanation
Indices: 429354--429399 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
429344 GTTTACAAAT
*
429354 AGGGAATCGATTCCCCTGCTAC
1 AGGGAACCGATTCCCCTGCTAC
429376 AGGGAACCGATTCCCCTGCTAC
1 AGGGAACCGATTCCCCTGCTAC
429398 AG
1 AG
429400 TACTGCTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.33, G:0.24, T:0.20
Consensus pattern (22 bp):
AGGGAACCGATTCCCCTGCTAC
Found at i:429956 original size:21 final size:21
Alignment explanation
Indices: 429907--429970 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
429897 CATATGAAAT
*
429907 TTGTCCCGAAGGACCTGTGAA
1 TTGTCCCGAAGGACCTATGAA
*
429928 TATGTCCCGAAGGACCTATGAG
1 T-TGTCCCGAAGGACCTATGAA
429950 TTGTCCCGAAGGACCTATGAA
1 TTGTCCCGAAGGACCTATGAA
429971 ACCCTCGACT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
21 20 0.51
22 19 0.49
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (21 bp):
TTGTCCCGAAGGACCTATGAA
Found at i:436679 original size:23 final size:24
Alignment explanation
Indices: 436629--436685 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
436619 GTCGAGGGTT
436629 CTATGTGGTCCTTCGGGATAAAAC
1 CTATGTGGTCCTTCGGGATAAAAC
* *
436653 CTATATGGTCCTTCGGGA-GAAAC
1 CTATGTGGTCCTTCGGGATAAAAC
436676 CTATGTGGTC
1 CTATGTGGTC
436686 ATTCTGGACA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 13 0.43
24 17 0.57
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (24 bp):
CTATGTGGTCCTTCGGGATAAAAC
Found at i:437766 original size:17 final size:17
Alignment explanation
Indices: 437744--437820 Score: 86
Period size: 17 Copynumber: 4.6 Consensus size: 17
437734 AGAAGAACTG
*
437744 TATCGATACCGGAGTAT
1 TATCGATACCAGAGTAT
* **
437761 TATCGATA-CAAAG-GG
1 TATCGATACCAGAGTAT
437776 TATCGATACCAGAGTAT
1 TATCGATACCAGAGTAT
* *
437793 TATCAATACCGGAGTAT
1 TATCGATACCAGAGTAT
437810 TATCGATACCA
1 TATCGATACCA
437821 ATGGTATCGA
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
15 8 0.17
16 7 0.15
17 32 0.68
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (17 bp):
TATCGATACCAGAGTAT
Found at i:437830 original size:15 final size:15
Alignment explanation
Indices: 437810--437839 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
437800 ACCGGAGTAT
437810 TATCGATACCAATGG
1 TATCGATACCAATGG
*
437825 TATCGATACTAATGG
1 TATCGATACCAATGG
437840 ACAAGTATCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (15 bp):
TATCGATACCAATGG
Found at i:438398 original size:46 final size:45
Alignment explanation
Indices: 438306--438448 Score: 189
Period size: 45 Copynumber: 3.2 Consensus size: 45
438296 TCATGATATA
* *
438306 TGATATTGACTTATGTAATTACATGAAAATGTGATATAAGCTATG
1 TGATAATGACTTATGTGATTACATGAAAATGTGATATAAGCTATG
*
438351 TGATAATGACCTATGTGATTACATGAAAAATGTGATATAAGCTATG
1 TGATAATGACTTATGTGATTACATG-AAAATGTGATATAAGCTATG
* * * ***
438397 TGACAATGATTTATGTGATTATATGTCCATGTGATATAAGCTATG
1 TGATAATGACTTATGTGATTACATGAAAATGTGATATAAGCTATG
438442 TGA-AATG
1 TGATAATG
438449 TTATAAATGA
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
44 4 0.05
45 42 0.48
46 41 0.47
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (45 bp):
TGATAATGACTTATGTGATTACATGAAAATGTGATATAAGCTATG
Found at i:438576 original size:23 final size:23
Alignment explanation
Indices: 438522--438623 Score: 105
Period size: 23 Copynumber: 4.4 Consensus size: 23
438512 AGTCGGGGGA
* * *
438522 TCTATGTGGTCCTTTGGGATAAT
1 TCTATGTGGTCCTTCGGGACATT
* * * *
438545 TGTACGTGGTCTTTCGAGACATT
1 TCTATGTGGTCCTTCGGGACATT
*
438568 TCTATGTGGTCCTTCGGGACATA
1 TCTATGTGGTCCTTCGGGACATT
* *
438591 TCTATGAGGTCCTTCGGGATATT
1 TCTATGTGGTCCTTCGGGACATT
*
438614 TCTACGTGGT
1 TCTATGTGGT
438624 ACTTTGGTGC
Statistics
Matches: 62, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.17, C:0.18, G:0.26, T:0.39
Consensus pattern (23 bp):
TCTATGTGGTCCTTCGGGACATT
Found at i:438638 original size:24 final size:24
Alignment explanation
Indices: 438611--438662 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
438601 CCTTCGGGAT
* * * *
438611 ATTTCTACGTGGTACTTTGGTGCA
1 ATTTCTACGCGGCACTTCGATGCA
438635 ATTTCTACGCGGCACTTCGATGCA
1 ATTTCTACGCGGCACTTCGATGCA
438659 ATTT
1 ATTT
438663 ATGTGAGTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (24 bp):
ATTTCTACGCGGCACTTCGATGCA
Found at i:444642 original size:9 final size:9
Alignment explanation
Indices: 444630--444663 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
444620 TAATATTTTG
444630 TATTTAATT
1 TATTTAATT
*
444639 TATTTAA-A
1 TATTTAATT
444647 TATTTAATT
1 TATTTAATT
444656 TATTTAAT
1 TATTTAAT
444664 ATTTTACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
TATTTAATT
Found at i:444669 original size:17 final size:17
Alignment explanation
Indices: 444630--444667 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
444620 TAATATTTTG
444630 TATTTAATTTATTTAAA
1 TATTTAATTTATTTAAA
444647 TATTTAATTTATTT-AA
1 TATTTAATTTATTTAAA
444663 TATTT
1 TATTT
444668 TACTTAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TATTTAATTTATTTAAA
Found at i:447044 original size:34 final size:33
Alignment explanation
Indices: 446992--447058 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 33
446982 AATTCATTAG
446992 GTTGGATTTGTTTTAATTTATTTTGCTAAATTT
1 GTTGGATTTGTTTTAATTTATTTTGCTAAATTT
*
447025 GTTGGACTTT-TTGTTAATTTATTTTGCTTAATTT
1 GTTGGA-TTTGTT-TTAATTTATTTTGCTAAATTT
447059 TGTTTATAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 8 0.26
34 23 0.74
ACGTcount: A:0.19, C:0.04, G:0.15, T:0.61
Consensus pattern (33 bp):
GTTGGATTTGTTTTAATTTATTTTGCTAAATTT
Found at i:451711 original size:20 final size:20
Alignment explanation
Indices: 451686--451849 Score: 195
Period size: 20 Copynumber: 8.1 Consensus size: 20
451676 GCGATTTTCC
*
451686 TAAATCACAATGCGAATACG
1 TAAATCGCAATGCGAATACG
*
451706 TAAATCGCAATGCGAATACA
1 TAAATCGCAATGCGAATACG
*
451726 TAAATCGCAGTGC-AATTACG
1 TAAATCGCAATGCGAA-TACG
*
451746 TAAATCGCAATGCGAATTAGG
1 TAAATCGCAATGCGAA-TACG
* *
451767 AAAATCGCAATGCGATTACG
1 TAAATCGCAATGCGAATACG
*
451787 TAAATCGCAATGCGAATTAGG
1 TAAATCGCAATGCGAA-TACG
* *
451808 AAAATCGCAATGCGATTACG
1 TAAATCGCAATGCGAATACG
* *
451828 TAAATCGCATTGCGATTACG
1 TAAATCGCAATGCGAATACG
451848 TA
1 TA
451850 TTCGCATTGA
Statistics
Matches: 124, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
19 2 0.02
20 85 0.69
21 37 0.30
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (20 bp):
TAAATCGCAATGCGAATACG
Found at i:451720 original size:41 final size:41
Alignment explanation
Indices: 451675--451998 Score: 259
Period size: 41 Copynumber: 8.0 Consensus size: 41
451665 AAATTCGCGT
* * * *
451675 TGCGATTTTCCTAAATCACAATGCGAATACGTAAATCGCAA
1 TGCGATTTACGTAAATCGCAATGCGATTACGTAAATCGCAA
* * * *
451716 TGCGA-ATACATAAATCGCAGTGCAATTACGTAAATCGCAA
1 TGCGATTTACGTAAATCGCAATGCGATTACGTAAATCGCAA
* * *
451756 TGCGAATTAGGAAAATCGCAATGCGATTACGTAAATCGCAA
1 TGCGATTTACGTAAATCGCAATGCGATTACGTAAATCGCAA
* * * *
451797 TGCGAATTAGGAAAATCGCAATGCGATTACGTAAATCGCAT
1 TGCGATTTACGTAAATCGCAATGCGATTACGTAAATCGCAA
* * * *
451838 TGCGA-TTACGT-ATTCGCATTGAGATTTACGT-AATCGCAT
1 TGCGATTTACGTAAATCGCAATGCGA-TTACGTAAATCGCAA
* * * * * *
451877 TGCGATTTTCCTAATTCACATTGCGATTTACGT-AATCGCAT
1 TGCGATTTACGTAAATCGCAATGCGA-TTACGTAAATCGCAA
* * * * *
451918 TGCGATTTACGT-AATCGCATTGCGATTTTCCTAATTCGCAC
1 TGCGATTTACGTAAATCGCAATGCGA-TTACGTAAATCGCAA
* * *
451959 TTCGATTTACGT-AATCGCATTGCAATTTA-GTAAATCGCAA
1 TGCGATTTACGTAAATCGCAATGCGA-TTACGTAAATCGCAA
451999 CGAGATTCTG
Statistics
Matches: 241, Mismatches: 37, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
39 23 0.10
40 71 0.29
41 147 0.61
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (41 bp):
TGCGATTTACGTAAATCGCAATGCGATTACGTAAATCGCAA
Found at i:451791 original size:61 final size:62
Alignment explanation
Indices: 451686--451998 Score: 259
Period size: 61 Copynumber: 5.2 Consensus size: 62
451676 GCGATTTTCC
* * * *
451686 TAAATCACAATGCGAA-TACGTAAATCGCAATGCGAATACATAAATCGCAGTGC-AATTACG
1 TAAATCGCAATGCGAATTACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTACG
* * *
451746 TAAATCGCAATGCGAATTAGGAAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGG
1 TAAATCGCAATGCGAATTACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTACG
* * * * * *
451808 AAAATCGCAATGCG-ATTACGTAAATCGCATTGCGATTACGT-ATTCGCATTGAGATTTACG
1 TAAATCGCAATGCGAATTACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTACG
* * * * * * * * *
451868 T-AATCGCATTGCGATTTTCCTAATTCACATTGCGATTTACGT-AATCGCATTGCGATTTACG
1 TAAATCGCAATGCGAATTACGTAAATCGCAATGCGA-TTACGTAAATCGCAATGCGAATTACG
* * * * * * * *
451929 T-AATCGCATTGCGATTTTCCTAATTCGCACTTCGATTTACGT-AATCGCATTGC-AATTTA-G
1 TAAATCGCAATGCGAATTACGTAAATCGCAATGCGA-TTACGTAAATCGCAATGCGAA-TTACG
451989 TAAATCGCAA
1 TAAATCGCAA
451999 CGAGATTCTG
Statistics
Matches: 217, Mismatches: 30, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
59 11 0.05
60 48 0.22
61 139 0.64
62 19 0.09
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (62 bp):
TAAATCGCAATGCGAATTACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTACG
Found at i:451866 original size:20 final size:20
Alignment explanation
Indices: 451728--451997 Score: 237
Period size: 20 Copynumber: 13.3 Consensus size: 20
451718 CGAATACATA
* *
451728 AATCGCAGTGC-AATTACGT
1 AATCGCATTGCGATTTACGT
* * * *
451747 AAATCGCAATGCGAATTAGGAA
1 -AATCGCATTGCGATTTACG-T
*
451769 AATCGCAATGCGA-TTACGT
1 AATCGCATTGCGATTTACGT
* * * *
451788 AAATCGCAATGCGAATTAGGAA
1 -AATCGCATTGCGATTTACG-T
*
451810 AATCGCAATGCGA-TTACGT
1 AATCGCATTGCGATTTACGT
451829 AAATCGCATTGCGA-TTACGT
1 -AATCGCATTGCGATTTACGT
* *
451849 ATTCGCATTGAGATTTACGT
1 AATCGCATTGCGATTTACGT
* *
451869 AATCGCATTGCGATTTTCCT
1 AATCGCATTGCGATTTACGT
*
451889 AATTCACATTGCGATTTACGT
1 AA-TCGCATTGCGATTTACGT
451910 AATCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTACGT
* *
451930 AATCGCATTGCGATTTTCCT
1 AATCGCATTGCGATTTACGT
451950 AATTCGCACTT-CGATTTACGT
1 AA-TCGCA-TTGCGATTTACGT
*
451971 AATCGCATTGCAATTTA-GT
1 AATCGCATTGCGATTTACGT
451990 AAATCGCA
1 -AATCGCA
451998 ACGAGATTCT
Statistics
Matches: 213, Mismatches: 25, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
19 15 0.07
20 128 0.60
21 68 0.32
22 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (20 bp):
AATCGCATTGCGATTTACGT
Found at i:455425 original size:19 final size:19
Alignment explanation
Indices: 455390--455489 Score: 111
Period size: 19 Copynumber: 5.5 Consensus size: 19
455380 CTTAATGTCT
**
455390 ATCGCAACGCGGAAATGACT
1 ATCGCAACGC-GAAATGAAA
*
455410 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
455429 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
*
455443 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
455462 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
455481 ATCGCAACG
1 ATCGCAACG
455490 ACAAAATCGC
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 44 0.64
20 9 0.13
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:455474 original size:52 final size:52
Alignment explanation
Indices: 455390--455508 Score: 175
Period size: 52 Copynumber: 2.3 Consensus size: 52
455380 CTTAATGTCT
** * * *
455390 ATCGCAACGCGGAAATGACTATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGC-GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
455443 ATCGCAATGCGAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGACAAA
455495 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
455509 GTAAATTCGC
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
52 50 0.85
53 9 0.15
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.12
Consensus pattern (52 bp):
ATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:455536 original size:19 final size:19
Alignment explanation
Indices: 455514--455611 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
455504 CGAAAGTAAA
455514 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
455533 TTCGCGTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
455548 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
455566 TTCGCGTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
455581 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
455599 TTGGCATTGCGAT
1 TTCGCGTTGCGAT
455612 AGTCATTTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
14 19 0.31
16 6 0.10
17 6 0.10
19 30 0.49
ACGTcount: A:0.10, C:0.23, G:0.22, T:0.44
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:455560 original size:33 final size:33
Alignment explanation
Indices: 455518--455611 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
455508 AGTAAATTCG
455518 CGTTGCGATTTTCATTTCGCGTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCCCT
*
455551 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCCCT
* *
455584 CGTTGCGATTTTCATTTGGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCGTTGCGAT
455612 AGTCATTTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCCCT
Found at i:455589 original size:14 final size:14
Alignment explanation
Indices: 455537--455593 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
455527 TTTCATTTCG
*
455537 CGTTGCGATTCCCT
1 CGTTGCGATTCTCT
*
455551 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
455570 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
455584 CGTTGCGATT
1 CGTTGCGATT
455594 TTCATTTGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:455737 original size:14 final size:14
Alignment explanation
Indices: 455718--455751 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
455708 CATCAATTAA
455718 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
455732 ACAAATCATCTTTT
1 ACAAATCAACTTTT
455746 ACAAAT
1 ACAAAT
455752 GAATTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:457164 original size:42 final size:42
Alignment explanation
Indices: 457118--457197 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
457108 CGATGACAGT
* * *
457118 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
457160 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGA
457198 CAGGCGAGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:457638 original size:19 final size:19
Alignment explanation
Indices: 457622--457691 Score: 104
Period size: 19 Copynumber: 3.6 Consensus size: 19
457612 AAAAATGACT
457622 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
457641 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
* **
457660 ATCGTAACGCGAAACCAAAA
1 ATCGCAACGCGAAA-TGAAA
457680 ATCGCAACGCGA
1 ATCGCAACGCGA
457692 TTATAGTTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
19 32 0.70
20 14 0.30
ACGTcount: A:0.46, C:0.24, G:0.20, T:0.10
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:457722 original size:20 final size:20
Alignment explanation
Indices: 457697--457734 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
457687 CGCGATTATA
457697 GTTTCGCGTTGCGATTTTTG
1 GTTTCGCGTTGCGATTTTTG
457717 GTTTCGCGTTGCGATTTT
1 GTTTCGCGTTGCGATTTT
457735 GTCGTTGCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.16, G:0.29, T:0.50
Consensus pattern (20 bp):
GTTTCGCGTTGCGATTTTTG
Found at i:457765 original size:19 final size:19
Alignment explanation
Indices: 457737--457774 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
457727 GCGATTTTGT
457737 CGTTGCGATTTTCATTTCA
1 CGTTGCGATTTTCATTTCA
*
457756 CGTTGTGATTTTCATTTCA
1 CGTTGCGATTTTCATTTCA
457775 ACCAAAAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.18, G:0.16, T:0.50
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCA
Found at i:457974 original size:94 final size:93
Alignment explanation
Indices: 457862--458139 Score: 410
Period size: 94 Copynumber: 3.1 Consensus size: 93
457852 ATGGATTGCA
* *
457862 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGTT
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
457927 TAGCAGAATTGGCAGCAAACGAACAAAT
66 TAGCAGAATTGGCAGCAAACGAACAAAT
457955 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
458020 TTAGCAGAATTGGCAGC-AAC---CGAAT
65 TTAGCAGAATTGGCAGCAAACGAACAAAT
* *
458045 ATACTTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAGT
1 TTACTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* * *
458106 TTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTAGCAGAATTGGCAGCAAACGAACAAAT
458135 TTACT
1 TTACT
458140 AAGCAATCTA
Statistics
Matches: 169, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
86 25 0.15
87 2 0.01
89 19 0.11
90 41 0.24
93 7 0.04
94 75 0.44
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.21
Consensus pattern (93 bp):
TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAAACGAACAAAT
Found at i:459859 original size:20 final size:20
Alignment explanation
Indices: 459834--459896 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
459824 TTTTGGTTGA
459834 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
*
459854 AATGAAAATCGCAACGCG-G
1 AATGAAAATCGCAACGAGAG
***
459873 AAATGCCTATCGCAACGAGAG
1 -AATGAAAATCGCAACGAGAG
459894 AAT
1 AAT
459897 CGCAACGAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.03
20 34 0.94
21 1 0.03
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:459900 original size:14 final size:14
Alignment explanation
Indices: 459881--459948 Score: 82
Period size: 14 Copynumber: 4.5 Consensus size: 14
459871 GGAAATGCCT
459881 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
459895 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
459909 ATCGCAACACGAAATGAAA
1 ATCGC-A-ACG--A-GAGA
459928 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
459942 ATCGCAA
1 ATCGCAA
459949 TGCGATTTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
14 29 0.62
15 2 0.04
16 3 0.06
17 3 0.06
18 2 0.04
19 8 0.17
ACGTcount: A:0.46, C:0.22, G:0.24, T:0.09
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:459997 original size:33 final size:33
Alignment explanation
Indices: 459949--460041 Score: 123
Period size: 33 Copynumber: 2.8 Consensus size: 33
459939 AGAATCGCAA
**
459949 TGCGATTTTGGTTTCGCGTTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
* *
459982 TGCGATTTTTATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
**
460015 TGCGATAGTCATTTCCGCGTTGCGATT
1 TGCGATTTTCATTT-CGCGTTGCGATT
460042 TTCATTCTCG
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 41 0.77
34 12 0.23
ACGTcount: A:0.11, C:0.20, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
Found at i:460617 original size:21 final size:21
Alignment explanation
Indices: 460591--460664 Score: 98
Period size: 20 Copynumber: 3.6 Consensus size: 21
460581 CGATAGTCAG
*
460591 ATTCGCATTGCGATTTTCCTA
1 ATTCGCATTGCGATTTACCTA
*
460612 ATTCGCATTGCGATTTACTTA
1 ATTCGCATTGCGATTTACCTA
* *
460633 A-TCGCGTTGCGATTTACGT-
1 ATTCGCATTGCGATTTACCTA
460652 ATTCGCATTGCGA
1 ATTCGCATTGCGA
460665 ATTATGAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
19 1 0.02
20 26 0.55
21 20 0.43
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (21 bp):
ATTCGCATTGCGATTTACCTA
Found at i:460685 original size:21 final size:21
Alignment explanation
Indices: 460661--460706 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
460651 TATTCGCATT
460661 GCGAATTAT-GAAAATCGCAAC
1 GCGAATT-TGGAAAATCGCAAC
* *
460682 GCGAATTTGGGAAATCGCAAT
1 GCGAATTTGGAAAATCGCAAC
460703 GCGA
1 GCGA
460707 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (21 bp):
GCGAATTTGGAAAATCGCAAC
Found at i:463022 original size:12 final size:13
Alignment explanation
Indices: 462999--463027 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
462989 TTTAGAGTTA
462999 TATTTCAAAATTT
1 TATTTCAAAATTT
463012 TATTT-AAAATTT
1 TATTTCAAAATTT
463024 TATT
1 TATT
463028 ATGCATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (13 bp):
TATTTCAAAATTT
Found at i:465841 original size:23 final size:23
Alignment explanation
Indices: 465815--465910 Score: 147
Period size: 23 Copynumber: 4.2 Consensus size: 23
465805 CACCACAGCT
* * *
465815 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGGAGTGCCG
*
465838 CGTAGAATTGCTCCGGAGTGCCG
1 CGTAGAATTGCACCGGAGTGCCG
465861 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGGAGTGCCG
*
465884 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAATTGCACCGGAGTGCCG
465907 CGTA
1 CGTA
465911 ATAATGTCCA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.23, C:0.26, G:0.30, T:0.21
Consensus pattern (23 bp):
CGTAGAATTGCACCGGAGTGCCG
Found at i:466093 original size:103 final size:103
Alignment explanation
Indices: 465922--466134 Score: 390
Period size: 103 Copynumber: 2.1 Consensus size: 103
465912 TAATGTCCAT
** *
465922 AAGGACCACATATCATTCCTTAAGAATCATATACATATATTAGGGATCAAGCATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGCATGTGTCTCACCA
465987 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
466025 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGCATGTGTCTCACCA
466090 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
466128 AAGGACC
1 AAGGACC
466135 GCGTAGACCC
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGCATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:467564 original size:21 final size:21
Alignment explanation
Indices: 467512--467564 Score: 90
Period size: 20 Copynumber: 2.5 Consensus size: 21
467502 GAGGGGTATT
467512 GATTCCCCATTGAATGGGTACC
1 GATTCCCC-TTGAATGGGTACC
467534 GATT-CCCTTGAATGGGTACC
1 GATTCCCCTTGAATGGGTACC
467554 GATTCCCCTTG
1 GATTCCCCTTG
467565 CCCAAAAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 17 0.57
21 9 0.30
22 4 0.13
ACGTcount: A:0.19, C:0.28, G:0.23, T:0.30
Consensus pattern (21 bp):
GATTCCCCTTGAATGGGTACC
Found at i:475563 original size:18 final size:19
Alignment explanation
Indices: 475542--475577 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
475532 GGTTTGTTGG
475542 GTTGTTGTT-CTCTGTTTT
1 GTTGTTGTTGCTCTGTTTT
*
475560 GTTGTTTTTGCTCTGTTT
1 GTTGTTGTTGCTCTGTTT
475578 CTGTCTCTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.00, C:0.11, G:0.22, T:0.67
Consensus pattern (19 bp):
GTTGTTGTTGCTCTGTTTT
Found at i:476025 original size:3 final size:3
Alignment explanation
Indices: 476007--476055 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
475997 TGTAATATTA
* * * *
476007 AAT AAT ATAT ATT AAT AAT AAT AAT CAT TAT AAT TAT AAT AAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
476053 AAT
1 AAT
476056 TATTATATAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (3 bp):
AAT
Found at i:476048 original size:9 final size:9
Alignment explanation
Indices: 475999--476062 Score: 51
Period size: 9 Copynumber: 7.2 Consensus size: 9
475989 TTGGGTTTTG
475999 TAAT-ATTA
1 TAATAATTA
476007 -AATAATATA
1 TAATAAT-TA
* *
476016 TATTAATAA
1 TAATAATTA
*
476025 TAATAATCA
1 TAATAATTA
*
476034 TTATAATTA
1 TAATAATTA
*
476043 TAATAATAA
1 TAATAATTA
*
476052 TAATTATTA
1 TAATAATTA
476061 TA
1 TA
476063 TAAATAACAT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
7 3 0.07
8 2 0.05
9 33 0.77
10 5 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (9 bp):
TAATAATTA
Found at i:476068 original size:21 final size:21
Alignment explanation
Indices: 476007--476069 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 21
475997 TGTAATATTA
*
476007 AATAA-TA-TATATTAATAAT
1 AATAATTATTATATAAATAAT
*
476026 AATAATCATTATAATTATAATAAT
1 AATAATTATTAT-A-TA-AATAAT
476050 AATAATTATTATATAAATAA
1 AATAATTATTATATAAATAA
476070 CATTAAAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
19 5 0.14
20 1 0.03
21 8 0.22
22 3 0.08
23 2 0.06
24 17 0.47
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
AATAATTATTATATAAATAAT
Found at i:476493 original size:16 final size:18
Alignment explanation
Indices: 476418--476513 Score: 71
Period size: 17 Copynumber: 5.5 Consensus size: 18
476408 GTTGAACAAA
*
476418 TTCTTC-TCATTATGAAT
1 TTCTTCTTCATTATGAAC
* *
476435 TTCTTCTTTCA-GATG-AG
1 TTCTTC-TTCATTATGAAC
476452 TTCTTC-TCATTATGAAATTC
1 TTCTTCTTCATTATG-AA--C
*
476472 TTCTTCTTCA-TATG-AG
1 TTCTTCTTCATTATGAAC
476488 TTCTTC-TCATTATGAAC
1 TTCTTCTTCATTATGAAC
476505 TTCTTCTTC
1 TTCTTCTTC
476514 CTTCTTCAGA
Statistics
Matches: 62, Mismatches: 6, Indels: 21
0.70 0.07 0.24
Matches are distributed among these distances:
15 6 0.10
16 13 0.21
17 20 0.32
18 7 0.11
19 3 0.05
20 10 0.16
21 3 0.05
ACGTcount: A:0.20, C:0.21, G:0.08, T:0.51
Consensus pattern (18 bp):
TTCTTCTTCATTATGAAC
Found at i:476518 original size:40 final size:39
Alignment explanation
Indices: 476418--476546 Score: 175
Period size: 40 Copynumber: 3.5 Consensus size: 39
476408 GTTGAACAAA
476418 TTCTTCTCATTATGAA--T-TTCTTC-T-TTCAGATGAG
1 TTCTTCTCATTATGAACTTATTCTTCTTCTTCAGATGAG
*
476452 TTCTTCTCATTATGAA---ATTCTTCTTCTTCATATGAG
1 TTCTTCTCATTATGAACTTATTCTTCTTCTTCAGATGAG
*
476488 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
1 TTCTTCTCATTATGAACTTATTCTT-CTTCTTCAGATGAG
476528 TTCTTCTCATTATGAACTT
1 TTCTTCTCATTATGAACTT
476547 TCTCTGGAAA
Statistics
Matches: 85, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
34 22 0.26
35 1 0.01
36 25 0.29
39 5 0.06
40 32 0.38
ACGTcount: A:0.20, C:0.21, G:0.09, T:0.50
Consensus pattern (39 bp):
TTCTTCTCATTATGAACTTATTCTTCTTCTTCAGATGAG
Found at i:476549 original size:182 final size:184
Alignment explanation
Indices: 476311--476661 Score: 507
Period size: 182 Copynumber: 1.9 Consensus size: 184
476301 TTGAATAAGC
* * *
476311 TCTTCTTATTATGAACTTTCTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGTAAAG
1 TCTTCTCATTATGAACTTTCTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAA
* * *
476376 GTTGATCCATTAAGTGATGAATTTGAACAAAA-GTTGAACAAATTCTTCTCATTATGAA-T-TTC
66 GCTGATCCATCAAGTGATGAATTTGAACAAAAGGTTGAACAAACTCTTCTCATTATGAACTCTTC
476438 TT-C-T-TTCAGATGAGTTCTTCTCATTATGAAATTCTTCTTCTTCATATGAGT
131 TTCCTTCTTCAGATGAGTTCTTCTCATTATGAAATTCTTCTTCTTCATATGAGT
476489 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAAC-T-TTC-T-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
* * * *
476554 AAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACT
62 AAAAGCTGATCCATCAAGTGATGAATTTGAACAAAAGGTTGAACAAACTCTTCTCATTATGAAC-
* *
476619 TCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCT
126 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAATTCT
476662 CTGGAAAAGC
Statistics
Matches: 150, Mismatches: 12, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
178 15 0.10
179 1 0.01
180 3 0.02
181 1 0.01
182 69 0.46
183 24 0.16
185 1 0.01
186 5 0.03
187 1 0.01
188 1 0.01
189 29 0.19
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.43
Consensus pattern (184 bp):
TCTTCTCATTATGAACTTTCTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAA
GCTGATCCATCAAGTGATGAATTTGAACAAAAGGTTGAACAAACTCTTCTCATTATGAACTCTTC
TTCCTTCTTCAGATGAGTTCTTCTCATTATGAAATTCTTCTTCTTCATATGAGT
Found at i:476715 original size:112 final size:112
Alignment explanation
Indices: 476489--476885 Score: 733
Period size: 112 Copynumber: 3.5 Consensus size: 112
476479 TCATATGAGT
476489 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCTGG
*
476554 AAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
65 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
*
476602 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTCTGGA
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGA
476667 AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
66 AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
*
476714 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTC-TCTGG
476779 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
65 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
*
476827 TCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATTAGTTCTTCTCATTATGAACTTCT
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCT
476886 TCTTCTTCTT
Statistics
Matches: 279, Mismatches: 4, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
111 1 0.00
112 146 0.52
113 132 0.47
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (112 bp):
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGA
AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
Found at i:476881 original size:39 final size:39
Alignment explanation
Indices: 476827--476922 Score: 183
Period size: 39 Copynumber: 2.5 Consensus size: 39
476817 TTGAACAAGC
*
476827 TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATTAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGT
476866 TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGT
476905 TCTTCTCATTATGAACTT
1 TCTTCTCATTATGAACTT
476923 TCTCTGGAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.19, C:0.23, G:0.08, T:0.50
Consensus pattern (39 bp):
TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGT
Found at i:476929 original size:151 final size:153
Alignment explanation
Indices: 476714--477037 Score: 582
Period size: 151 Copynumber: 2.1 Consensus size: 153
476704 TTGAACAAGC
*
476714 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGG
476779 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACT
66 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACT
*
476844 TCTTCTT-CTTCTTCAGATTAGT
131 TCTTCTTCCTTCTTCAGATGAGT
476866 TCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTT-TCTCTG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCT-TCTG
*
476929 GAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAAC
65 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAAC
476994 TTCTTCTTCCTTCTTCAGATGAGT
130 TTCTTCTTCCTTCTTCAGATGAGT
*
477018 TCTTCTTATTATGAACTTCT
1 TCTTCTCATTATGAACTTCT
477038 CTGGAAAAGC
Statistics
Matches: 166, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
150 1 0.01
151 108 0.65
152 57 0.34
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.41
Consensus pattern (153 bp):
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGG
AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACT
TCTTCTTCCTTCTTCAGATGAGT
Found at i:476982 original size:112 final size:112
Alignment explanation
Indices: 476866--477258 Score: 697
Period size: 112 Copynumber: 3.5 Consensus size: 112
476856 TCAGATTAGT
476866 TCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCTGG
*
476930 AAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
65 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
*
476978 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTCTGGA
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGA
477043 AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
66 AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
477090 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTC-T-T-ATTATGAACTTCTTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTC-TCTGG
*
477152 AAAAGCTGATCCATCAAGTTATGGATTTGAGCAAAAGGTTGAACAAGC
65 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
*
477200 TCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATTAGTTCTTCTCATTATGAACTTCT
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCT
477259 TCTTCTTCTT
Statistics
Matches: 272, Mismatches: 4, Indels: 11
0.95 0.01 0.04
Matches are distributed among these distances:
109 28 0.10
110 78 0.29
111 3 0.01
112 133 0.49
113 30 0.11
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (112 bp):
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGA
AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
Found at i:477233 original size:373 final size:374
Alignment explanation
Indices: 476453--477406 Score: 1771
Period size: 376 Copynumber: 2.6 Consensus size: 374
476443 TCAGATGAGT
* * *
476453 TCTTCTCATTATGAA---ATTCTTCTTCTTCATATGAGTTCTTCTCATTATGAACTTCTTCTTCC
1 TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATTAGTTCTTCTCATTATGAACTTCTTCTT-C
476515 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCGAGTGATGGAT
65 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCGAGTGATGGAT
476580 TTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
130 TTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
476645 TCTTATTATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAAC
195 TCTTATTATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAAC
476710 AAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTT
260 AAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG-T-TTCTTATTATGAACTTCTT
476775 CTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
323 CTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
476827 TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATTAGTTCTTCTCATTATGAACTTCTTCTTCT
1 TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATTAGTTCTTCTCATTATGAACTTCTTCTTCT
476892 TCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCGAGTGATGGATT
66 TCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCGAGTGATGGATT
476957 TGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT
131 TGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT
477022 CTTATTATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
196 CTTATTATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
477087 AGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG-TTCTTATTATGAACTTCTTCTG
261 AGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTTCTTATTATGAACTTCTTCTG
*
477151 GAAAAGCTGATCCATCAAGTTATGGATTTGAGCAAAAGGTTGAACAAGC
326 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
477200 TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATTAGTTCTTCTCATTATGAACTTCTTCTTCT
1 TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATTAGTTCTTCTCATTATGAACTTCTTCTTCT
477265 TCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCGAGTGATGGATT
66 TCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCGAGTGATGGATT
*
477330 TGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAA---CTTCTT-CTTCTTCAGATTAGTTCTT
131 TGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT
*
477391 CTCATTATGAACTTCT
196 CTTATTATGAACTTCT
477407 TCTTCTTCTT
Statistics
Matches: 571, Mismatches: 6, Indels: 11
0.97 0.01 0.02
Matches are distributed among these distances:
369 33 0.06
370 6 0.01
373 236 0.41
374 15 0.03
376 239 0.42
377 42 0.07
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (374 bp):
TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATTAGTTCTTCTCATTATGAACTTCTTCTTCT
TCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCGAGTGATGGATT
TGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT
CTTATTATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
AGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTTCTTATTATGAACTTCTTCTG
GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
Found at i:477243 original size:39 final size:39
Alignment explanation
Indices: 477200--477295 Score: 183
Period size: 39 Copynumber: 2.5 Consensus size: 39
477190 TTGAACAAGC
*
477200 TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATTAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGT
477239 TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGT
477278 TCTTCTCATTATGAACTT
1 TCTTCTCATTATGAACTT
477296 TCTCTGGAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.19, C:0.23, G:0.08, T:0.50
Consensus pattern (39 bp):
TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGT
Found at i:477327 original size:151 final size:151
Alignment explanation
Indices: 477090--477559 Score: 819
Period size: 148 Copynumber: 3.1 Consensus size: 151
477080 TTGAACAAGC
477090 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTC-T-T-ATTATGAAC-TTCTTCTG
1 TCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC-TCTG
* *
477151 GAAAAGCTGATCCATCAAGTTATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAAC
64 GAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAAC
477216 TTCTTCTTCTTCTTCAGATTAGT
129 TTCTTCTTCTTCTTCAGATTAGT
477239 TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
1 TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
477304 AAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAA---
66 AAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTT
477366 CTTCTTCTTCTTCAGATTAGT
131 CTTCTTCTTCTTCAGATTAGT
477387 TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
1 TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
477452 AAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTT
66 AAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTT
* *
477517 CTTCTTCCTTCTTCAAATGAGT
131 CTTCTT-CTTCTTCAGATTAGT
*
477539 TCTTCTTATTATGAACTTCTT
1 TCTTCTCATTATGAACTTCTT
477560 TGGAAAAGCT
Statistics
Matches: 308, Mismatches: 5, Indels: 13
0.94 0.02 0.04
Matches are distributed among these distances:
148 165 0.54
149 25 0.08
150 1 0.00
151 81 0.26
152 36 0.12
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.41
Consensus pattern (151 bp):
TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
AAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTT
CTTCTTCTTCTTCAGATTAGT
Found at i:477368 original size:73 final size:73
Alignment explanation
Indices: 477278--477516 Score: 198
Period size: 73 Copynumber: 3.2 Consensus size: 73
477268 TCAGATGAGT
477278 TCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTT
1 TCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTT
477343 GAACAAGC
66 GAACAAGC
* ** ** * * * * *** ***
477351 TCTTCTCATTATGAACTTCTTCTTCTTCAGATTAG-TTCTTC-TC-A-TTATGAACTTCTTCTTC
1 TCTTCTCATTATGAAC-T-TTC-TC-T-GGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAA
*** * ** *
477412 TTCTTCAGATGAGT
61 AGGTTGA-ACAAGC
477426 TCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTT
1 TCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTT
477491 GAACAAGC
66 GAACAAGC
477499 TCTTCTCATTATGAACTT
1 TCTTCTCATTATGAACTT
477517 CTTCTTCCTT
Statistics
Matches: 112, Mismatches: 44, Indels: 20
0.64 0.25 0.11
Matches are distributed among these distances:
70 4 0.04
71 4 0.04
72 4 0.04
73 41 0.37
74 24 0.21
75 23 0.21
76 4 0.04
77 4 0.04
78 4 0.04
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.38
Consensus pattern (73 bp):
TCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTT
GAACAAGC
Found at i:477373 original size:17 final size:17
Alignment explanation
Indices: 477351--477409 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
477341 TTGAACAAGC
477351 TCTTCTCATTATGAACT
1 TCTTCTCATTATGAACT
*
477368 TCTTCTTC-TTCA-GATTAGT
1 TCTTC-TCATT-ATGA--ACT
477387 TCTTCTCATTATGAACT
1 TCTTCTCATTATGAACT
477404 TCTTCT
1 TCTTCT
477410 TCTTCTTCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
17 17 0.50
18 6 0.18
19 11 0.32
ACGTcount: A:0.19, C:0.24, G:0.07, T:0.51
Consensus pattern (17 bp):
TCTTCTCATTATGAACT
Found at i:477420 original size:39 final size:39
Alignment explanation
Indices: 477351--477443 Score: 156
Period size: 39 Copynumber: 2.5 Consensus size: 39
477341 TTGAACAAGC
*
477351 TCTTCTCATTATGAA---CTTCTTCTTCTTCAGATTAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGT
477387 TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGT
477426 TCTTCTCATTATGAACTT
1 TCTTCTCATTATGAACTT
477444 TCTCTGGAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
36 15 0.28
39 38 0.72
ACGTcount: A:0.19, C:0.23, G:0.09, T:0.49
Consensus pattern (39 bp):
TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGT
Found at i:477483 original size:521 final size:525
Alignment explanation
Indices: 476714--477781 Score: 1975
Period size: 521 Copynumber: 2.0 Consensus size: 525
476704 TTGAACAAGC
*
476714 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGG
476779 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACT
66 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAA--
476844 TCTTCTTCTTCTTCAGATTAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTT
129 TCTTCTTCTTCTTCAGATTAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTT
476909 CTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAAC
194 CTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAAC
*
476974 AAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTC
259 AAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTTATTATGAACTTCTC
477039 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGA
324 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGA
477104 ACTTCTTCTTCCTTCTTCAGATGAG-TTCTTATTATGAACTTCTTCTGGAAAAGCTGATCCATCA
389 ACTTCTTCTTCCTTCTTCAGATGAGTTTCTTATTATGAACTTCTTCTGGAAAAGCTGATCCATCA
* *
477168 AGTTATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTT-CTTCTTCA
454 AGTGATGGATTTGAGCAAAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
*
477232 GATTAGT
519 GATGAGT
477239 TCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTT-TCTCTG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCT-TCTG
*
477302 GAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAA-
65 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAAT
477366 CTTCTTCTTCTTCAGATTAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTC
130 CTTCTTCTTCTTCAGATTAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTC
477431 TCATTATGAACTTTCTCTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACA
195 TCATTATGAACTTTCTCTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACA
*
477496 AGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTTATTATGAACTTCTTT
260 AGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTTATTATGAACTTCTCT
477561 GGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAA
325 GGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAA
*
477626 CTTCTTCTTCCTTTTTCAGATGAGTTCTTCTTATTATGAACTTCTTCTGGAAAAGCTGATCCATC
390 CTTCTTCTTCCTTCTTCAGATGAG-T-TTCTTATTATGAACTTCTTCTGGAAAAGCTGATCCATC
*
477691 AAGTGATGGATTTGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
453 AAGTGATGGATTTGAGCAAAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
477756 AGATGAGT
518 AGATGAGT
477764 TCTTCTCATTATGAACTT
1 TCTTCTCATTATGAACTT
477782 TCTCTGGAAA
Statistics
Matches: 529, Mismatches: 9, Indels: 10
0.97 0.02 0.02
Matches are distributed among these distances:
521 281 0.53
523 1 0.00
524 191 0.36
525 56 0.11
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (525 bp):
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGG
AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAATC
TTCTTCTTCTTCAGATTAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCT
CATTATGAACTTTCTCTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAA
GCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTTATTATGAACTTCTCTG
GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAAC
TTCTTCTTCCTTCTTCAGATGAGTTTCTTATTATGAACTTCTTCTGGAAAAGCTGATCCATCAAG
TGATGGATTTGAGCAAAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
TGAGT
Found at i:477565 original size:112 final size:113
Alignment explanation
Indices: 477387--477816 Score: 758
Period size: 113 Copynumber: 3.8 Consensus size: 113
477377 TCAGATTAGT
477387 TCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
*
477451 AAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
66 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
* * *
477499 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTTATTATGAAC-TTCTTTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
477563 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
66 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
* *
477611 TCTTCTCATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCTTATTATGAAC-TTCTTCTG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC-TCTG
* *
477675 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAGT
65 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
477724 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
477789 AAAAGCTGATCCATCAAGTGATGGATTT
66 AAAAGCTGATCCATCAAGTGATGGATTT
477817 AAATCTTTGC
Statistics
Matches: 304, Mismatches: 11, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
112 135 0.44
113 166 0.55
114 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (113 bp):
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
Found at i:477668 original size:225 final size:225
Alignment explanation
Indices: 477387--477816 Score: 756
Period size: 225 Copynumber: 1.9 Consensus size: 225
477377 TCAGATTAGT
477387 TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTT-TCTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCT-TCTGG
* *
477451 AAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACT
65 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAGCTCTTCTCATTATGAACT
* *
477516 TCTTCTTCCTTCTTCAAATGAGTTCTTCTTATTATGAAC-TTCTTTGGAAAAGCTGATCCATCAA
130 TCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAA
477580 GTGATGGATTTGAGCAAAAGGTTGAACAAGC
195 GTGATGGATTTGAGCAAAAGGTTGAACAAGC
* *
477611 TCTTCTCATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCTTATTATGAACTTCTTCTGG
1 TCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGG
*
477676 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACT
65 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAGCTCTTCTCATTATGAACT
*
477741 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAA
130 TCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAA
477806 GTGATGGATTT
195 GTGATGGATTT
477817 AAATCTTTGC
Statistics
Matches: 195, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
224 24 0.12
225 135 0.69
226 36 0.18
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (225 bp):
TCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGGA
AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAGCTCTTCTCATTATGAACTT
CTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAG
TGATGGATTTGAGCAAAAGGTTGAACAAGC
Found at i:478190 original size:52 final size:52
Alignment explanation
Indices: 478112--478216 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
478102 CAACATGTTA
478112 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCAC
1 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCAC
478164 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCAC
1 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCAC
478216 A
1 A
478217 GATATCGATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.36
Consensus pattern (52 bp):
ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCAC
Done.