Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 56 of 226
Found at i:22670754 original size:13 final size:14
Alignment explanation
Indices: 22670736--22670765 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
22670726 AGATCGTCTG
22670736 TATTATT-TTTTTA
1 TATTATTATTTTTA
22670749 TATTATTATTTTTA
1 TATTATTATTTTTA
22670763 TAT
1 TAT
22670766 AAAAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TATTATTATTTTTA
Found at i:22670757 original size:16 final size:16
Alignment explanation
Indices: 22670736--22670766 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22670726 AGATCGTCTG
*
22670736 TATTATTTTTTTATAT
1 TATTATTTTTATATAT
22670752 TATTATTTTTATATA
1 TATTATTTTTATATA
22670767 AAAATAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTATTTTTATATAT
Found at i:22671623 original size:22 final size:23
Alignment explanation
Indices: 22671593--22671636 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
22671583 ATATTAAATA
*
22671593 ATAATTAAACTTATATATTTATG
1 ATAATTAAACTTATAAATTTATG
*
22671616 ATAA-TAAATTTATAAATTTAT
1 ATAATTAAACTTATAAATTTAT
22671637 TAGATTGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
ATAATTAAACTTATAAATTTATG
Found at i:22677745 original size:22 final size:22
Alignment explanation
Indices: 22677730--22677772 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
22677720 AAAATATAAT
22677730 TGTAATATCCCGAAAATTACTAC
1 TGTAATATCCCGAAAATTAC-AC
22677753 TGTAATATCCCGAAAATTAC
1 TGTAATATCCCGAAAATTAC
22677773 TACAGTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (22 bp):
TGTAATATCCCGAAAATTACAC
Found at i:22677745 original size:23 final size:23
Alignment explanation
Indices: 22677730--22677780 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
22677720 AAAATATAAT
*
22677730 TGTAATATCCCGAAAATTACTAC
1 TGTAATATCCCGAAAAATACTAC
*
22677753 TGTAATATCCCGAAAATTACTAC
1 TGTAATATCCCGAAAAATACTAC
*
22677776 AGTAA
1 TGTAA
22677781 GAAAGTAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (23 bp):
TGTAATATCCCGAAAAATACTAC
Found at i:22679297 original size:19 final size:19
Alignment explanation
Indices: 22679275--22679313 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
22679265 TAGTGAAATT
22679275 ATAGATAATGTTATATATA
1 ATAGATAATGTTATATATA
22679294 ATAGATAATGTTATATATA
1 ATAGATAATGTTATATATA
22679313 A
1 A
22679314 GCATGTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (19 bp):
ATAGATAATGTTATATATA
Found at i:22683359 original size:27 final size:27
Alignment explanation
Indices: 22683313--22683393 Score: 89
Period size: 25 Copynumber: 3.1 Consensus size: 27
22683303 TTCGGGAATG
*
22683313 CTCATATGAGCACATA-AACGGGAAGCT
1 CTCATCTGAGC-CATATAACGGGAAGCT
22683340 CTC-TCTCGAGCCATATAACGGGAA-C-
1 CTCATCT-GAGCCATATAACGGGAAGCT
* *
22683365 CTCATGTGAGCCATGTAACGGGAAGCT
1 CTCATCTGAGCCATATAACGGGAAGCT
22683392 CT
1 CT
22683394 AGAGAACTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
25 19 0.41
26 10 0.22
27 17 0.37
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (27 bp):
CTCATCTGAGCCATATAACGGGAAGCT
Found at i:22685248 original size:17 final size:18
Alignment explanation
Indices: 22685226--22685260 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
22685216 TTATGGTCCT
*
22685226 AAAATTCCAA-AAACATA
1 AAAATTACAAGAAACATA
22685243 AAAATTACAAGAAACATA
1 AAAATTACAAGAAACATA
22685261 CTAAAATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.66, C:0.14, G:0.03, T:0.17
Consensus pattern (18 bp):
AAAATTACAAGAAACATA
Found at i:22687056 original size:3 final size:3
Alignment explanation
Indices: 22687048--22687085 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
22687038 AGCCAACTAG
22687048 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
22687086 GATTCTCAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:22712584 original size:18 final size:18
Alignment explanation
Indices: 22712517--22712591 Score: 64
Period size: 18 Copynumber: 4.2 Consensus size: 18
22712507 ATTTTTTTAA
*
22712517 TTATAACATATATTTAATT
1 TTATAATATATATTT-ATT
* *
22712536 TTAT-ATATATCTTTGTT
1 TTATAATATATATTTATT
* *
22712553 TTA-AATTTTTTATTTATT
1 TTATAA-TATATATTTATT
*
22712571 TTATAATATATATTTAGT
1 TTATAATATATATTTATT
22712589 TTA
1 TTA
22712592 ATTTTGCCAA
Statistics
Matches: 43, Mismatches: 10, Indels: 7
0.72 0.17 0.12
Matches are distributed among these distances:
17 6 0.14
18 31 0.72
19 6 0.14
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (18 bp):
TTATAATATATATTTATT
Found at i:22712592 original size:36 final size:35
Alignment explanation
Indices: 22712527--22712596 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 35
22712517 TTATAACATA
*
22712527 TATTTAATTTTATATATATCTTTGTTTTAAATTTTT
1 TATTTAATTTTATATATATATTTGTTTT-AATTTTT
22712563 TATTT-ATTTTATAATATATATTTAG-TTTAATTTT
1 TATTTAATTTTAT-ATATATATTT-GTTTTAATTTT
22712597 GCCAAAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
35 13 0.42
36 17 0.55
37 1 0.03
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (35 bp):
TATTTAATTTTATATATATATTTGTTTTAATTTTT
Found at i:22715723 original size:23 final size:21
Alignment explanation
Indices: 22715685--22715733 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
22715675 CACATTAAGA
*
22715685 ATATAAAAAATGGAAATAAAT
1 ATATAAAAAATAGAAATAAAT
*
22715706 ATATAAAAAATTTAGAAATATAT
1 ATATAAAAAA--TAGAAATAAAT
22715729 ATATA
1 ATATA
22715734 TATATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.42
23 14 0.58
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (21 bp):
ATATAAAAAATAGAAATAAAT
Found at i:22715775 original size:20 final size:22
Alignment explanation
Indices: 22715738--22715777 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
22715728 TATATATATA
22715738 TATATATAATCTAGAAAAAAAT
1 TATATATAATCTAGAAAAAAAT
*
22715760 TATATA-AAT-TATAAAAAA
1 TATATATAATCTAGAAAAAA
22715778 TAAAATTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 3 0.18
22 6 0.35
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (22 bp):
TATATATAATCTAGAAAAAAAT
Found at i:22715917 original size:14 final size:15
Alignment explanation
Indices: 22715887--22715917 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22715877 TTTTGTATAA
22715887 AATTCTAAAATTTAT
1 AATTCTAAAATTTAT
22715902 AATTCTAAAA-TTAT
1 AATTCTAAAATTTAT
22715916 AA
1 AA
22715918 AAAAGGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (15 bp):
AATTCTAAAATTTAT
Found at i:22722298 original size:12 final size:12
Alignment explanation
Indices: 22722281--22722327 Score: 50
Period size: 11 Copynumber: 4.3 Consensus size: 12
22722271 CTCAACACCG
*
22722281 AATTTTTTGGGT
1 AATTTTTCGGGT
22722293 AA-TTTTCGGGT
1 AATTTTTCGGGT
22722304 AA---TTCGGGT
1 AATTTTTCGGGT
22722313 AA-TTTTCGGGT
1 AATTTTTCGGGT
22722324 AATT
1 AATT
22722328 CGGTTAATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
9 9 0.29
11 19 0.61
12 3 0.10
ACGTcount: A:0.21, C:0.06, G:0.26, T:0.47
Consensus pattern (12 bp):
AATTTTTCGGGT
Found at i:22722311 original size:9 final size:9
Alignment explanation
Indices: 22722297--22722354 Score: 89
Period size: 9 Copynumber: 6.2 Consensus size: 9
22722287 TTGGGTAATT
22722297 TTCGGGTAA
1 TTCGGGTAA
22722306 TTCGGGTAA
1 TTCGGGTAA
22722315 TTTTCGGGTAA
1 --TTCGGGTAA
*
22722326 TTCGGTTAA
1 TTCGGGTAA
22722335 TTCGGGTAA
1 TTCGGGTAA
22722344 TTCGGGTAA
1 TTCGGGTAA
22722353 TT
1 TT
22722355 TTTAACCAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
9 36 0.80
11 9 0.20
ACGTcount: A:0.21, C:0.10, G:0.29, T:0.40
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:22722314 original size:20 final size:20
Alignment explanation
Indices: 22722289--22722356 Score: 113
Period size: 20 Copynumber: 3.5 Consensus size: 20
22722279 CGAATTTTTT
22722289 GGGTAATTTTCGGGTAATTC
1 GGGTAATTTTCGGGTAATTC
22722309 GGGTAATTTTCGGGTAATTC
1 GGGTAATTTTCGGGTAATTC
*
22722329 GGTTAA--TTCGGGTAATTC
1 GGGTAATTTTCGGGTAATTC
22722347 GGGTAATTTT
1 GGGTAATTTT
22722357 TAACCAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.39
20 27 0.61
ACGTcount: A:0.21, C:0.09, G:0.29, T:0.41
Consensus pattern (20 bp):
GGGTAATTTTCGGGTAATTC
Found at i:22722335 original size:29 final size:27
Alignment explanation
Indices: 22722297--22722354 Score: 89
Period size: 29 Copynumber: 2.1 Consensus size: 27
22722287 TTGGGTAATT
22722297 TTCGGGTAATTCGGGTAATTTTCGGGTAA
1 TTCGGGTAATTCGGGTAA--TTCGGGTAA
*
22722326 TTCGGTTAATTCGGGTAATTCGGGTAA
1 TTCGGGTAATTCGGGTAATTCGGGTAA
22722353 TT
1 TT
22722355 TTTAACCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 11 0.39
29 17 0.61
ACGTcount: A:0.21, C:0.10, G:0.29, T:0.40
Consensus pattern (27 bp):
TTCGGGTAATTCGGGTAATTCGGGTAA
Found at i:22731851 original size:28 final size:28
Alignment explanation
Indices: 22731820--22731886 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
22731810 TTTTTTAAAA
22731820 TTAAAATATTT-AATACA-TTTTATACTTT
1 TTAAAATATTTAAAT-CATTTTTATA-TTT
22731848 TTAAACA-ATTTAAATCATTTTTATATTT
1 TTAAA-ATATTTAAATCATTTTTATATTT
*
22731876 TAAAAATATTT
1 TTAAAATATTT
22731887 TTTGTACTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
27 1 0.03
28 22 0.65
29 11 0.32
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (28 bp):
TTAAAATATTTAAATCATTTTTATATTT
Found at i:22731912 original size:97 final size:97
Alignment explanation
Indices: 22731799--22731993 Score: 363
Period size: 97 Copynumber: 2.0 Consensus size: 97
22731789 TGCCATTAGC
*
22731799 AATTAATTAATTTTTTTAAAATTAAAATATTTAATACATTTTATACTTTTTAAACAATTTAAATC
1 AATTAATTAATGTTTTTAAAATTAAAATATTTAATACATTTTATACTTTTTAAACAATTTAAATC
*
22731864 ATTTTTATATTTTAAAAATATTTTTTGTACTT
66 ATTTTTATATTTTAAAAATAATTTTTGTACTT
*
22731896 AATTAATTAATGTTTTTAAAATTAAAATATTTAATATATTTTATACTTTTTAAACAATTTAAATC
1 AATTAATTAATGTTTTTAAAATTAAAATATTTAATACATTTTATACTTTTTAAACAATTTAAATC
22731961 ATTTTTATATTTTAAAAATAATTTTTGTACTT
66 ATTTTTATATTTTAAAAATAATTTTTGTACTT
22731993 A
1 A
22731994 TTTTTATATT
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 95 1.00
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.53
Consensus pattern (97 bp):
AATTAATTAATGTTTTTAAAATTAAAATATTTAATACATTTTATACTTTTTAAACAATTTAAATC
ATTTTTATATTTTAAAAATAATTTTTGTACTT
Found at i:22731948 original size:28 final size:28
Alignment explanation
Indices: 22731917--22731980 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
22731907 GTTTTTAAAA
22731917 TTAAAATATTT-AAT-ATATTTTATACTTT
1 TTAAAATATTTAAATCAT-TTTTATA-TTT
22731945 TTAAACA-ATTTAAATCATTTTTATATTT
1 TTAAA-ATATTTAAATCATTTTTATATTT
*
22731973 TAAAAATA
1 TTAAAATA
22731981 ATTTTTGTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
27 1 0.03
28 17 0.55
29 11 0.35
30 2 0.06
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.52
Consensus pattern (28 bp):
TTAAAATATTTAAATCATTTTTATATTT
Found at i:22731983 original size:29 final size:28
Alignment explanation
Indices: 22731917--22731984 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
22731907 GTTTTTAAAA
22731917 TTAAAAT-ATTTAATATATTTTATACTT
1 TTAAAATAATTTAATATATTTTATACTT
* *
22731944 TTTAAACAATTTAA-ATCATTTTTATA-TT
1 TTAAAATAATTTAATAT-A-TTTTATACTT
22731972 TTAAAAATAATTT
1 TT-AAAATAATTT
22731985 TTGTACTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
27 7 0.21
28 11 0.33
29 15 0.45
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (28 bp):
TTAAAATAATTTAATATATTTTATACTT
Found at i:22732027 original size:33 final size:31
Alignment explanation
Indices: 22731961--22732027 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
22731951 AATTTAAATC
*
22731961 ATTTTTATATTTTAAAAATAATTTTTGTACTT
1 ATTTTTATATTTTAAAAATAATTATTG-ACTT
22731993 ATTTTTATATTTTAAAAAATTAATTAATTG-CTT
1 ATTTTTATATTTT-AAAAA-TAATT-ATTGACTT
22732026 AT
1 AT
22732028 ATGACATCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
32 13 0.42
33 10 0.32
34 5 0.16
35 3 0.10
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (31 bp):
ATTTTTATATTTTAAAAATAATTATTGACTT
Found at i:22733019 original size:18 final size:18
Alignment explanation
Indices: 22732986--22733034 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
22732976 ATTCACCTAA
*
22732986 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
22733005 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
22733023 ACCCAACCCAAC
1 ACCCAACCCAAC
22733035 ACAATCATAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.41, C:0.45, G:0.02, T:0.12
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:22733152 original size:9 final size:9
Alignment explanation
Indices: 22733138--22733195 Score: 80
Period size: 9 Copynumber: 6.4 Consensus size: 9
22733128 GTAGTGATTC
*
22733138 AATTCGGTT
1 AATTCGGGT
22733147 AATTCGGGT
1 AATTCGGGT
22733156 AATTCGGGT
1 AATTCGGGT
* *
22733165 AATTTGGTT
1 AATTCGGGT
22733174 AATTCGGGT
1 AATTCGGGT
*
22733183 AATTCGGTT
1 AATTCGGGT
22733192 AATT
1 AATT
22733196 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.24, C:0.09, G:0.26, T:0.41
Consensus pattern (9 bp):
AATTCGGGT
Found at i:22733161 original size:18 final size:18
Alignment explanation
Indices: 22733138--22733195 Score: 89
Period size: 18 Copynumber: 3.2 Consensus size: 18
22733128 GTAGTGATTC
* *
22733138 AATTCGGTTAATTCGGGT
1 AATTCGGGTAATTCGGTT
*
22733156 AATTCGGGTAATTTGGTT
1 AATTCGGGTAATTCGGTT
22733174 AATTCGGGTAATTCGGTT
1 AATTCGGGTAATTCGGTT
22733192 AATT
1 AATT
22733196 TTTAACCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.24, C:0.09, G:0.26, T:0.41
Consensus pattern (18 bp):
AATTCGGGTAATTCGGTT
Found at i:22733173 original size:27 final size:27
Alignment explanation
Indices: 22733138--22733196 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
22733128 GTAGTGATTC
*
22733138 AATTCGGTTAATTCGGGTAATTCGGGT
1 AATTTGGTTAATTCGGGTAATTCGGGT
*
22733165 AATTTGGTTAATTCGGGTAATTCGGTT
1 AATTTGGTTAATTCGGGTAATTCGGGT
22733192 AATTT
1 AATTT
22733197 TTAACCAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.24, C:0.08, G:0.25, T:0.42
Consensus pattern (27 bp):
AATTTGGTTAATTCGGGTAATTCGGGT
Found at i:22733437 original size:18 final size:18
Alignment explanation
Indices: 22733404--22733456 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
22733394 AAAAAACTAA
*
22733404 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
22733423 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
22733441 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
22733457 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:22733570 original size:9 final size:9
Alignment explanation
Indices: 22733556--22733631 Score: 125
Period size: 9 Copynumber: 8.4 Consensus size: 9
22733546 GTAGTGATTC
22733556 AATTCGGTT
1 AATTCGGTT
22733565 AATTCGGTT
1 AATTCGGTT
22733574 AATTCGGTT
1 AATTCGGTT
*
22733583 AATTCGGGT
1 AATTCGGTT
22733592 AATTCGGTT
1 AATTCGGTT
*
22733601 AATTCGATT
1 AATTCGGTT
*
22733610 AATTCGATT
1 AATTCGGTT
22733619 AATTCGGTT
1 AATTCGGTT
22733628 AATT
1 AATT
22733632 TTTAACCAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 63 1.00
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:22733742 original size:440 final size:418
Alignment explanation
Indices: 22732982--22733846 Score: 1397
Period size: 440 Copynumber: 2.0 Consensus size: 418
22732972 CACTATTCAC
22732982 CTAAACCCAATCCAAACCCAAGTATTCAACCCAACCCAATTACCCAACCCAACACAATCATAAAA
1 CTAAACCCAATCCAAACCCAAGTATTCAACCCAACCCAATTACCCAACCCAACACAATCATAAAA
22733047 ATTACAAATAATTTAATAAATAAAAATAAAATTCTAATTAACTAAAACTAAAGTCTAAAAGTCTA
66 ATTACAAATAATTTAATAAATAAAAATAAAATTCTAATTAACTAAAACTAAAGTCTAAAAGTCTA
* *
22733112 AATATAATTCAATTATGTAGTGATTCAATTCGGTTAATTCGGGTAATTCGGGTAATTTGGTTAAT
131 AAAATAATTCAATTATGTAGTGATTCAATTCGGTTAATTCGGGTAATTCGGGTAATTCGGTTAAT
22733177 TCGGGTAATTCGGTTAATTTTTAACCAAAAATAAAAAACATATAATTTTTGGTTAATTCGGTTAA
196 TCGGGTAATTCGGTTAATTTTTAACCAAAAATAAAAAACATATAATTTTTGGTTAATTCGGTTAA
* *
22733242 CCGACCGAATTAACCGAAAAAATTTAGGTTCGGTTAAATTTTTTGAAAAAATTTTGGTTCGGTTA
261 CCGACCGAATTAACCGAAAAAATTTAGGTTCGGTTAAATTTTTTGAAAAAAATTTGGTTCGATTA
* * *
22733307 ACGGTTAAAAATTTTGAAAGGTCAGTTAATTCGGTTAATGTTATTTCGGGTCGATTAACCGAATG
326 ACGGTTAAAAATTTTGAAAGGTCAGTTAATTCGATTAATGTTATTTCGGATCGATTAACCAAATG
22733372 AACACCCCTCATTCCATCGGCGAAAAAA
391 AACACCCCTCATTCCATCGGCGAAAAAA
*
22733400 CTAAACCCAATCCAAACCCAAGTATTCAACCCAACCCAATTACCCAACCCAACCCAATCATAAAA
1 CTAAACCCAATCCAAACCCAAGTATTCAACCCAACCCAATTACCCAACCCAACACAATCATAAAA
22733465 ATTACAAATAATTTAATAAATAAAAATAAAATTCTAATTAACTAAAACTAAAGTCTAAAAGTCTA
66 ATTACAAATAATTTAATAAATAAAAATAAAATTCTAATTAACTAAAACTAAAGTCTAAAAGTCTA
*
22733530 AAAATAATTTAATTATGTAGTGATTCAATTCGGTTAATTCGGTTAATTCGGTTAATTCGGGTAAT
131 AAAATAATTCAATTATGTAGTGATTCAATTCGGTTAATTC-G-------GG-TAATTCGGGTAAT
*
22733595 TCGGTTAATTCGATTAATTCGATTAATTCGGTTAATTTTTAACCAAAAATAAAAAAAAAACATAT
187 TCGGTTAATTCG--------G-GTAATTCGGTTAATTTTTAACCAAAAAT----AAAAAACATAT
* * *
22733660 GATTTTTGGTTAATTCGGTTAACCGACCGAATTAACTGAAAAAATTTAGGTTCGGTTAATTTTTT
239 AATTTTTGGTTAATTCGGTTAACCGACCGAATTAACCGAAAAAATTTAGGTTCGGTTAAATTTTT
*
22733725 TGAAAAAAATTTGGTTCGATTAACGGTTAAAAATTTTGAAAGGTCGGTTAATTCGATTAATGTTA
304 TGAAAAAAATTTGGTTCGATTAACGGTTAAAAATTTTGAAAGGTCAGTTAATTCGATTAATGTTA
22733790 TTTCGGATCGATTAACCAAATGAACACCCCTCATTCCATCGGCGAAAAAA
369 TTTCGGATCGATTAACCAAATGAACACCCCTCATTCCATCGGCGAAAAAA
*
22733840 CAAAACC
1 CTAAACC
22733847 ATTTTCAAGC
Statistics
Matches: 410, Mismatches: 15, Indels: 22
0.92 0.03 0.05
Matches are distributed among these distances:
418 167 0.41
419 1 0.00
426 2 0.00
427 24 0.06
435 1 0.00
436 27 0.07
440 188 0.46
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.31
Consensus pattern (418 bp):
CTAAACCCAATCCAAACCCAAGTATTCAACCCAACCCAATTACCCAACCCAACACAATCATAAAA
ATTACAAATAATTTAATAAATAAAAATAAAATTCTAATTAACTAAAACTAAAGTCTAAAAGTCTA
AAAATAATTCAATTATGTAGTGATTCAATTCGGTTAATTCGGGTAATTCGGGTAATTCGGTTAAT
TCGGGTAATTCGGTTAATTTTTAACCAAAAATAAAAAACATATAATTTTTGGTTAATTCGGTTAA
CCGACCGAATTAACCGAAAAAATTTAGGTTCGGTTAAATTTTTTGAAAAAAATTTGGTTCGATTA
ACGGTTAAAAATTTTGAAAGGTCAGTTAATTCGATTAATGTTATTTCGGATCGATTAACCAAATG
AACACCCCTCATTCCATCGGCGAAAAAA
Found at i:22737751 original size:3 final size:3
Alignment explanation
Indices: 22737743--22737770 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
22737733 GTGGAGAAAT
22737743 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
22737771 GCACCTCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:22738478 original size:14 final size:14
Alignment explanation
Indices: 22738459--22738490 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
22738449 CTCCTTCATA
*
22738459 TCAAGATGAATGTC
1 TCAAGATGAATATC
22738473 TCAAGATGAATATC
1 TCAAGATGAATATC
22738487 TCAA
1 TCAA
22738491 TTGATTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (14 bp):
TCAAGATGAATATC
Found at i:22738974 original size:2 final size:2
Alignment explanation
Indices: 22738967--22738992 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22738957 TGTTCACGTT
22738967 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
22738993 AAGCCTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:22744220 original size:6 final size:6
Alignment explanation
Indices: 22744209--22744235 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
22744199 AAGTAGTAGT
22744209 CTCAGG CTCAGG CTCAGG CTCAGG CTC
1 CTCAGG CTCAGG CTCAGG CTCAGG CTC
22744236 TATAGGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.37, G:0.30, T:0.19
Consensus pattern (6 bp):
CTCAGG
Found at i:22749919 original size:17 final size:16
Alignment explanation
Indices: 22749892--22749925 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
22749882 CATACATTTT
22749892 AAAAATAATAAACATA
1 AAAAATAATAAACATA
*
22749908 AAAAATATATAAATATA
1 AAAAATA-ATAAACATA
22749925 A
1 A
22749926 TATATTAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAATAATAAACATA
Found at i:22750271 original size:21 final size:21
Alignment explanation
Indices: 22750230--22750271 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
22750220 TATATATAGG
*
22750230 TATAATAATATTAATATCTAA
1 TATAATAATAATAATATCTAA
22750251 TATAATAATAAATAATA-CTAA
1 TATAATAAT-AATAATATCTAA
22750272 CAATAAGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
TATAATAATAATAATATCTAA
Found at i:22753386 original size:19 final size:19
Alignment explanation
Indices: 22753362--22753399 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
22753352 GATTTCTAGA
22753362 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
22753381 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
22753400 TGTTTGGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (19 bp):
AAATGATTTACTTTTCTGG
Found at i:22753501 original size:18 final size:18
Alignment explanation
Indices: 22753475--22753517 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
22753465 AAAAGTTGTT
*
22753475 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
22753493 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
22753511 TTTATAT
1 TTTATAT
22753518 TTTAAATTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:22755601 original size:8 final size:8
Alignment explanation
Indices: 22755588--22755613 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
22755578 TGTTACAGGC
22755588 AACAAAGA
1 AACAAAGA
22755596 AACAAAGA
1 AACAAAGA
22755604 AACAAAGA
1 AACAAAGA
22755612 AA
1 AA
22755614 GGCAACAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.12, G:0.12, T:0.00
Consensus pattern (8 bp):
AACAAAGA
Found at i:22759964 original size:17 final size:17
Alignment explanation
Indices: 22759942--22759981 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
22759932 ACATTTTAAA
*
22759942 TAAAAACTTAGAAATTT
1 TAAAAAATTAGAAATTT
* *
22759959 TAAAAAATTATAATTTT
1 TAAAAAATTAGAAATTT
22759976 TAAAAA
1 TAAAAA
22759982 GTTAAACTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
TAAAAAATTAGAAATTT
Found at i:22760127 original size:16 final size:17
Alignment explanation
Indices: 22760091--22760128 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
22760081 CAGTTTAATT
22760091 TTTTAAAAATTATAAGC
1 TTTTAAAAATTATAAGC
* *
22760108 TTTTAAAATTTCTAAG-
1 TTTTAAAAATTATAAGC
22760124 TTTTA
1 TTTTA
22760129 TTTAAAATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.50
Consensus pattern (17 bp):
TTTTAAAAATTATAAGC
Found at i:22763465 original size:132 final size:132
Alignment explanation
Indices: 22763292--22763811 Score: 680
Period size: 131 Copynumber: 3.9 Consensus size: 132
22763282 CGTCAGTCTA
* * * * * *
22763292 CTCCACTAATGCTTAAGGAGATAAGATCTGTAAAT-TTCAATCAATTCCACTGTTGCCCAGGG-A
1 CTCCACTACTACTTAGGGAGACAAGATCTG-AAATCTTCAATCTATTCCACTGCTGCCCAGGGAA
22763355 GATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTTA-G-GGAGGTAAAATCCGCCATCCTT
65 G-TAGAATTACTGGCTTCAATGTACTCCACTGTAACC--ACGAGGAGGTAAAATCCGCCATCCTT
22763418 AATCTG
127 AATCTG
*
22763424 CTCCACTACTACTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAGGG-AG
1 CTCCACTACTACTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG
* ** *
22763488 ATAGAATTAC-GGCTTCAATGTACTCCACTGTAACCAC-AGGGAGGTAAAATCTGCCATTTTTTA
66 -TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACGA-GGAGGTAAAATCCGCCATCCTTAA
22763551 TCTG
129 TCTG
* * *
22763555 CTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTTCACTGCTGTCCAGGGAAG
1 CTCCACTACTACTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG
* *
22763620 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATCTGCCAT-CTTCGAT
66 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATCCGCCATCCTT-AAT
22763684 CTG
130 CTG
* * * * * *
22763687 CTTCACTGTCTA-TGCAGGAAGGCAAGATCTAAAATCTTCAATTCTATTCCACTGCTGCCCAGGG
1 CTCCACT-ACTACT-TAGGGAGACAAGATCTGAAATCTTCAA-TCTATTCCACTGCTGCCCAGGG
*
22763751 AAGTAGAATTACTGGCTTTAATGTACTCCACTGTAACCACGAGGAGGTAAAATCCGCCATC
63 AAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATCCGCCATC
22763812 TTCGATCTGC
Statistics
Matches: 349, Mismatches: 27, Indels: 21
0.88 0.07 0.05
Matches are distributed among these distances:
129 1 0.00
131 123 0.35
132 121 0.35
133 26 0.07
134 78 0.22
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (132 bp):
CTCCACTACTACTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG
TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATCCGCCATCCTTAATC
TG
Found at i:22763560 original size:131 final size:132
Alignment explanation
Indices: 22763292--22763827 Score: 692
Period size: 132 Copynumber: 4.1 Consensus size: 132
22763282 CGTCAGTCTA
* * * * * *
22763292 CTCCACTAATGCTTAAGGAGATAAGATCTGTAAAT-TTCAATCAATTCCACTGTTGCCCAGGG-A
1 CTCCACTACTACTTAGGGAGACAAGATCTG-AAATCTTCAATCTATTCCACTGCTGCCCAGGGAA
*
22763355 GATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTTA-G-GGAGGTAAAATCCGCCATCCTT
65 G-TAGAATTACTGGCTTCAATGTACTCCACTGTAACC--ACGAGGAGGTAAAATCCGCCATCTTT
22763418 AATCTG
127 AATCTG
*
22763424 CTCCACTACTACTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAGGG-AG
1 CTCCACTACTACTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG
* * *
22763488 ATAGAATTAC-GGCTTCAATGTACTCCACTGTAACCAC-AGGGAGGTAAAATCTGCCATTTTTTA
66 -TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACGA-GGAGGTAAAATCCGCCATCTTTAA
22763551 TCTG
129 TCTG
* * *
22763555 CTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTTCACTGCTGTCCAGGGAAG
1 CTCCACTACTACTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG
* **
22763620 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATCTGCCATCTTCGATC
66 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATCCGCCATCTTTAATC
22763685 TG
131 TG
* * * * * *
22763687 CTTCACTGTCTA-TGCAGGAAGGCAAGATCTAAAATCTTCAATTCTATTCCACTGCTGCCCAGGG
1 CTCCACT-ACTACT-TAGGGAGACAAGATCTGAAATCTTCAA-TCTATTCCACTGCTGCCCAGGG
* **
22763751 AAGTAGAATTACTGGCTTTAATGTACTCCACTGTAACCACGAGGAGGTAAAATCCGCCATCTTCG
63 AAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATCCGCCATCTTTA
22763816 ATCTG
128 ATCTG
*
22763821 CTTCACT
1 CTCCACT
22763828 GTCTATGCAG
Statistics
Matches: 366, Mismatches: 28, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
129 1 0.00
131 121 0.33
132 123 0.34
133 26 0.07
134 95 0.26
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (132 bp):
CTCCACTACTACTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG
TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATCCGCCATCTTTAATC
TG
Found at i:22763626 original size:263 final size:266
Alignment explanation
Indices: 22763292--22763810 Score: 727
Period size: 263 Copynumber: 2.0 Consensus size: 266
22763282 CGTCAGTCTA
* *
22763292 CTCCACTAATGCTTAAGGAGATAAGATCTGTAAATTTCAATCAATTCCACTGTTGCCCAGGGAGA
1 CTCCACTAATGCTTAAGGAGACAAGATCTGTAAATTTCAATCAATTCCACTGCTGCCCAGGGAGA
22763357 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTTA-G-GGAGGTAAAATCCGCCATCCTT-A
66 TAGAATTACTGGCTTCAATGTACTCCACTGTAACC--ACGAGGAGGTAAAATCCGCCAT-CTTCA
* * *
22763419 ATCTGCTCCACT-ACTACT-TAGGGAGACAAGATCTGAAATCTTCAA-TCTATTCCACTGCTGAC
128 ATCTGCTCCACTGACTA-TGCAGGAAGACAAGATCTAAAATCTTCAATTCTATTCCACTGCTGAC
*
22763481 CAGGG-AGATAGAATTAC-GGCTTCAATGTACTCCACTGTAACCAC-AGGGAGGTAAAATCTGCC
192 CAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACGA-GGAGGTAAAATCCGCC
22763543 ATTTTTTATCTG
255 ATTTTTTATCTG
* * * * *
22763555 CTCCACTACTGCTTAGGGAGACAAGATCTG-AAATCTTCAATCTATTTCACTGCTGTCCAGGGA-
1 CTCCACTAATGCTTAAGGAGACAAGATCTGTAAAT-TTCAATCAATTCCACTGCTGCCCAGGGAG
* *
22763618 AGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATCTGCCATCTTCGA
65 A-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATCCGCCATCTTCAA
* * * *
22763683 TCTGCTTCACTGTCTATGCAGGAAGGCAAGATCTAAAATCTTCAATTCTATTCCACTGCTGCCCA
129 TCTGCTCCACTGACTATGCAGGAAGACAAGATCTAAAATCTTCAATTCTATTCCACTGCTGACCA
*
22763748 GGGAAGTAGAATTACTGGCTTTAATGTACTCCACTGTAACCACGAGGAGGTAAAATCCGCCAT
194 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATCCGCCAT
22763811 CTTCGATCTG
Statistics
Matches: 227, Mismatches: 18, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
261 1 0.00
262 9 0.04
263 115 0.51
264 26 0.11
265 30 0.13
266 45 0.20
267 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (266 bp):
CTCCACTAATGCTTAAGGAGACAAGATCTGTAAATTTCAATCAATTCCACTGCTGCCCAGGGAGA
TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATCCGCCATCTTCAATC
TGCTCCACTGACTATGCAGGAAGACAAGATCTAAAATCTTCAATTCTATTCCACTGCTGACCAGG
GAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATCCGCCATTTTT
TATCTG
Found at i:22763858 original size:134 final size:132
Alignment explanation
Indices: 22763314--22763851 Score: 684
Period size: 134 Copynumber: 4.1 Consensus size: 132
22763304 TTAAGGAGAT
* *
22763314 AAGATCTGTAAAT-TTCAATCAATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGT
1 AAGATCTG-AAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGT
* *
22763378 ACTCCACTGTAACCTTA-G-GGAGGTAAAATCCGCCATCCTT-AATCTGCTCCACTACTACT-TA
65 ACTCCACTGTAACC--ACGAGGAGGTAAAATCCGCCAT-CTTCGATCTGCTCCACTACTA-TGCA
*
22763439 GGGAGAC
126 GGAAGAC
*
22763446 AAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAGGGAGATAGAATTAC-GGCTTCAATGTA
1 AAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTA
* * **
22763510 CTCCACTGTAACCAC-AGGGAGGTAAAATCTGCCATTTTTTATCTGCTCCACTAC--TGCTTAGG
66 CTCCACTGTAACCACGA-GGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTATGC--AGG
*
22763572 GAGAC
128 AAGAC
* *
22763577 AAGATCTGAAATCTTCAATCTATTTCACTGCTGTCCAGGGA-AGTAGAATTACTGGCTTCAATGT
1 AAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGA-TAGAATTACTGGCTTCAATGT
* * *
22763641 ACTCCACTGTAACCACGAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCACTGTCTATGCAGGA
65 ACTCCACTGTAACCACGAGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT-ACTATGCAGGA
*
22763706 AGGC
129 AGAC
* *
22763710 AAGATCTAAAATCTTCAATTCTATTCCACTGCTGCCCAGGGA-AGTAGAATTACTGGCTTTAATG
1 AAGATCTGAAATCTTCAA-TCTATTCCACTGCTGCCCAGGGAGA-TAGAATTACTGGCTTCAATG
* *
22763774 TACTCCACTGTAACCACGAGGAGGTAAAATCCGCCATCTTCGATCTGCTTCACTGTCTATGCAGG
64 TACTCCACTGTAACCACGAGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT-ACTATGCAGG
*
22763839 AAGGC
128 AAGAC
22763844 AAGATCTG
1 AAGATCTG
22763852 CTATCTTTAA
Statistics
Matches: 369, Mismatches: 22, Indels: 28
0.88 0.05 0.07
Matches are distributed among these distances:
128 1 0.00
129 1 0.00
130 3 0.01
131 116 0.31
132 102 0.28
133 25 0.07
134 118 0.32
135 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (132 bp):
AAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTA
CTCCACTGTAACCACGAGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTATGCAGGAAG
AC
Found at i:22763902 original size:88 final size:88
Alignment explanation
Indices: 22763810--22764031 Score: 356
Period size: 88 Copynumber: 2.5 Consensus size: 88
22763800 AAATCCGCCA
* * *
22763810 TCTTCGATCTGCTTCACTGTCTA-TGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTG
1 TCTTCGATTTGCTTCATTGTC-AGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTG
22763874 CCACCGAAGGAGGCAAGGTTAGTG
65 CCACCGAAGGAGGCAAGGTTAGTG
*
22763898 TCTTCGATTTGCTTCATTGTCAGTACAGGAAGGCAAAATCTGCTATCTTTAACCTGCTCCGCTGC
1 TCTTCGATTTGCTTCATTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGC
*
22763963 CACCGAGGGAGGCAAGGTTAGTG
66 CACCGAAGGAGGCAAGGTTAGTG
* * *
22763986 TCTTCGATTTGCTTCGTTGTCAGTACAAGAAGGCAAGATCTACTAT
1 TCTTCGATTTGCTTCATTGTCAGTACAGGAAGGCAAGATCTGCTAT
22764032 ATTCAGTCTG
Statistics
Matches: 124, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
87 1 0.01
88 123 0.99
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (88 bp):
TCTTCGATTTGCTTCATTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGC
CACCGAAGGAGGCAAGGTTAGTG
Found at i:22765355 original size:16 final size:16
Alignment explanation
Indices: 22765329--22765367 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
22765319 GCCTCTCCAC
*
22765329 TTTT-ATTTTTCCA-T
1 TTTTCATTTTTTCACT
22765343 TTTTCATTTTTTCACT
1 TTTTCATTTTTTCACT
22765359 TTTTCATTT
1 TTTTCATTT
22765368 CTCATCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.18
15 8 0.36
16 10 0.45
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTCATTTTTTCACT
Found at i:22769917 original size:3 final size:3
Alignment explanation
Indices: 22769909--22769944 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
22769899 TGAATAATGG
22769909 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22769945 GACAAAAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22770058 original size:65 final size:64
Alignment explanation
Indices: 22769981--22770447 Score: 540
Period size: 65 Copynumber: 7.0 Consensus size: 64
22769971 AATGAAAAGA
*
22769981 AAATATAAATAATATCAAATTTAAATATTTAAAAGGTGAAAGAATAACAAATAAATAGATAAAAC
1 AAATATAAATAATATCAAATTTAAATATTTAAAA-GTAAAAGAATAACAAATAAATAGATAAAAC
* * *
22770046 AAATATAAATAATATTAAATTTAAATGTTTAAAAGTAAAAGAAAAACAAATAAATAGATAAAAC
1 AAATATAAATAATATCAAATTTAAATATTTAAAAGTAAAAGAATAACAAATAAATAGATAAAAC
* * *
22770110 AAATATTAGTAATATCAAAATTAAAATATTTAAAAAGTAAAA-AATAACAAATAAATAAATAGAT
1 AAATATAAATAATATC-AAATTTAAATATTT-AAAAGTAAAAGAATAAC----AAATAAATAGAT
22770174 AAAAC
60 AAAAC
* * *
22770179 AAATATAAATAATATCAAATTTTAAGTATTAAAAAGAGCAAAAGAATAACGAATAAATAAATAAA
1 AAATATAAATAATATCAAA-TTTAAATATT-TAAA-AGTAAAAGAATAAC--------AAATAAA
22770244 TAGATAAAAC
55 TAGATAAAAC
* * * *
22770254 AAATATAGATAGTATCAAATTTAAATATTTAAAAGTAAAATAATAACAAATAAATAAATAGATAA
1 AAATATAAATAATATCAAATTTAAATATTTAAAAGTAAAAGAATAACAAATAAATAGATA-A-AA
*
22770319 A
64 C
* *
22770320 AAATATAAATAATATCAAATTTAAATATTTACAAGTAAAAGAATAAAAAAATAAATAGATAAAAC
1 AAATATAAATAATATCAAATTTAAATATTTAAAAGTAAAAGAAT-AACAAATAAATAGATAAAAC
* * * *
22770385 AAATATAAATAAAATCAAATTTAAATATTTAAAAAGTAAAAGTATAATAAATAAATAAATAAA
1 AAATATAAATAATATCAAATTTAAATATTT-AAAAGTAAAAGAATAACAAATAAATAGATAAA
22770448 TAGATAGATA
Statistics
Matches: 348, Mismatches: 36, Indels: 36
0.83 0.09 0.09
Matches are distributed among these distances:
64 53 0.15
65 97 0.28
66 65 0.19
67 14 0.04
68 3 0.01
69 42 0.12
70 6 0.02
71 6 0.02
72 12 0.03
73 3 0.01
74 9 0.03
75 38 0.11
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.27
Consensus pattern (64 bp):
AAATATAAATAATATCAAATTTAAATATTTAAAAGTAAAAGAATAACAAATAAATAGATAAAAC
Found at i:22770253 original size:75 final size:69
Alignment explanation
Indices: 22769981--22770445 Score: 520
Period size: 66 Copynumber: 6.9 Consensus size: 69
22769971 AATGAAAAGA
* *
22769981 AAATATAAATAATATCAAATTTAAATATTTAAAAGGTGAAAGAATAAC-----AAATAAATAGAT
1 AAATATAAATAATATCAAATTTAAATA-TTAAAAAGTAAAAGAATAACAAAATAAATAAATAGAT
22770041 AAAAC
65 AAAAC
* * * *
22770046 AAATATAAATAATATTAAATTTAAATGTTTAAAAGTAAAAG----A-AAAACAAATAAATAGATA
1 AAATATAAATAATATCAAATTTAAATATTAAAAAGTAAAAGAATAACAAAATAAATAAATAGATA
22770106 AAAC
66 AAAC
* * *
22770110 AAATATTAGTAATATCAAAATTAAAATATTTAAAAAGTAAAA-AATAAC-AAATAAATAAATAGA
1 AAATATAAATAATATC-AAATTTAAATA-TTAAAAAGTAAAAGAATAACAAAATAAATAAATAGA
22770173 TAAAAC
64 TAAAAC
* *
22770179 AAATATAAATAATATCAAATTTTAAGTATTAAAAAGAGCAAAAGAATAACGAATAAATAAATAAA
1 AAATATAAATAATATCAAA-TTTAAATATT-AAAA-AGTAAAAGAATAAC--A-AAATAAATAAA
22770244 TAGATAAAAC
60 TAGATAAAAC
* * * *
22770254 AAATATAGATAGTATCAAATTTAAATATTTAAAAGTAAAATAATAAC-AAATAAATAAATAGAT-
1 AAATATAAATAATATCAAATTTAAATATTAAAAAGTAAAAGAATAACAAAATAAATAAATAGATA
22770317 AAA-
66 AAAC
* *
22770320 AAATATAAATAATATCAAATTTAAATATTTACAAGTAAAAGAAT---AAAA-AAATAAATAGATA
1 AAATATAAATAATATCAAATTTAAATATTAAAAAGTAAAAGAATAACAAAATAAATAAATAGATA
22770381 AAAC
66 AAAC
* * *
22770385 AAATATAAATAAAATCAAATTTAAATATTTAAAAAGTAAAAGTATAA-TAAATAAATAAATA
1 AAATATAAATAATATCAAATTTAAATA-TTAAAAAGTAAAAGAATAACAAAATAAATAAATA
22770446 AATAGATAGA
Statistics
Matches: 341, Mismatches: 32, Indels: 50
0.81 0.08 0.12
Matches are distributed among these distances:
60 1 0.00
63 12 0.04
64 47 0.14
65 60 0.18
66 66 0.19
67 3 0.01
68 24 0.07
69 54 0.16
70 6 0.02
71 6 0.02
72 12 0.04
73 3 0.01
74 9 0.03
75 38 0.11
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.27
Consensus pattern (69 bp):
AAATATAAATAATATCAAATTTAAATATTAAAAAGTAAAAGAATAACAAAATAAATAAATAGATA
AAAC
Found at i:22770409 original size:16 final size:15
Alignment explanation
Indices: 22770378--22770411 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
22770368 AAATAAATAG
22770378 ATAAAACAAATATAA
1 ATAAAACAAATATAA
*
22770393 ATAAAATCAAATTTAA
1 ATAAAA-CAAATATAA
22770409 ATA
1 ATA
22770412 TTTAAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
ATAAAACAAATATAA
Found at i:22770463 original size:208 final size:208
Alignment explanation
Indices: 22770029--22770453 Score: 603
Period size: 208 Copynumber: 2.1 Consensus size: 208
22770019 AAAGAATAAC
* *
22770029 AAATAAATAGATAAAACAAATATAAATAATATTAAATTTAAATGTTTAAAAGTAAAAGAAAAACA
1 AAATAAATAGATAAAACAAATATAAATAATATCAAATTTAAATATTTAAAAGTAAAAGAAAAACA
* * * *
22770094 AATAAATAGATAAAACAAATATTAGTAATATCAAAATTAAAATATTTAAAAAGTAAAAAATAACA
66 AATAAATAAATAAAAAAAATATAAATAATATCAAAATTAAAATATTTAAAAAGTAAAAAATAACA
* *
22770159 AATAAATAAATAGATAAAACAAATATAAATAATATCAAATTTTAAGTATTAAAAAGAGCAAAAGA
131 AATAAATAAATAGATAAAACAAATATAAATAAAATCAAATTTTAAATATTAAAAAGAGCAAAAGA
*
22770224 ATAACGAATAAAT
196 ATAACAAATAAAT
* * * *
22770237 AAATAAATAGATAAAACAAATATAGATAGTATCAAATTTAAATATTTAAAAGTAAAATAATAACA
1 AAATAAATAGATAAAACAAATATAAATAATATCAAATTTAAATATTTAAAAGTAAAAGAAAAACA
* *
22770302 AATAAATAAATAGATAAAAAATATAAATAATATC-AAATTTAAATATTT-ACAAGTAAAAGAAT-
66 AATAAATAAATA-A-AAAAAATATAAATAATATCAAAATTAAAATATTTAAAAAGTAAAA-AATA
* *
22770364 A-AAA-AAATAAATAGATAAAACAAATATAAATAAAATCAAA-TTTAAATATTTAAAA-AGTAAA
128 ACAAATAAATAAATAGATAAAACAAATATAAATAAAATCAAATTTTAAATATTAAAAAGAGCAAA
* *
22770425 AGTATAATAAATAAAT
193 AGAATAACAAATAAAT
22770441 AAATAAATAGATA
1 AAATAAATAGATA
22770454 GATAAAACAA
Statistics
Matches: 195, Mismatches: 19, Indels: 10
0.87 0.08 0.04
Matches are distributed among these distances:
204 31 0.16
205 13 0.07
206 35 0.18
207 3 0.02
208 80 0.41
209 17 0.09
210 16 0.08
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (208 bp):
AAATAAATAGATAAAACAAATATAAATAATATCAAATTTAAATATTTAAAAGTAAAAGAAAAACA
AATAAATAAATAAAAAAAATATAAATAATATCAAAATTAAAATATTTAAAAAGTAAAAAATAACA
AATAAATAAATAGATAAAACAAATATAAATAAAATCAAATTTTAAATATTAAAAAGAGCAAAAGA
ATAACAAATAAAT
Found at i:22773654 original size:22 final size:19
Alignment explanation
Indices: 22773617--22773657 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
22773607 ATGACTTTTA
22773617 AATAATTTTTTTATTAAGT
1 AATAATTTTTTTATTAAGT
* *
22773636 AATAA-TATTTTATTAATT
1 AATAATTTTTTTATTAAGT
22773654 AATA
1 AATA
22773658 TTATAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
AATAATTTTTTTATTAAGT
Found at i:22785834 original size:18 final size:18
Alignment explanation
Indices: 22785811--22785845 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22785801 TAATAAAACG
*
22785811 TATATAGGTATATATGAA
1 TATATAGATATATATGAA
*
22785829 TATATATATATATATGA
1 TATATAGATATATATGA
22785846 TAAAACGTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (18 bp):
TATATAGATATATATGAA
Found at i:22792016 original size:130 final size:132
Alignment explanation
Indices: 22791822--22792099 Score: 463
Period size: 131 Copynumber: 2.1 Consensus size: 132
22791812 GCGAAATGTT
* *
22791822 ACCTTATAACGAAACTTCTTTTATTATTTTGAAATTCAAAAAGGGTTCTTTGCTATTTAGGCCTA
1 ACCTTATAACAAAATTTCTTTTATTATTTTGAAATTCAAAAAGGGTTCTTTGCTATTTAGGCCTA
* * *
22791887 AC-AAAAAAATTTGAAACCCCGTAAGTTAGGGTTCGATTTTCTCGAATGGCCAAAATGCAAAGCA
66 ACAAAAAAAAATTGAAACCCCGTAAGTTAGGGTTCGATTTTCTCAAATGGCCAAAACGCAAAGCA
22791951 TG
131 TG
*
22791953 GCCTTATAACAAAATTTCTTTT-TTATTTTGAAATTCAAAAAGGGTTCTTTGCTATTT-GAGCCT
1 ACCTTATAACAAAATTTCTTTTATTATTTTGAAATTCAAAAAGGGTTCTTTGCTATTTAG-GCCT
*
22792016 AACAAAAAAAAATTGAAACCCCGTAAGTTAGGGTTCGATTTTGTCAAATGGCCAAAACGCAAAGC
65 AACAAAAAAAAATTGAAACCCCGTAAGTTAGGGTTCGATTTTCTCAAATGGCCAAAACGCAAAGC
22792081 ATG
130 ATG
22792084 ACCTTATAACAAAATT
1 ACCTTATAACAAAATT
22792100 CTTACTTTGC
Statistics
Matches: 137, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
129 1 0.01
130 42 0.31
131 94 0.69
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (132 bp):
ACCTTATAACAAAATTTCTTTTATTATTTTGAAATTCAAAAAGGGTTCTTTGCTATTTAGGCCTA
ACAAAAAAAAATTGAAACCCCGTAAGTTAGGGTTCGATTTTCTCAAATGGCCAAAACGCAAAGCA
TG
Found at i:22796386 original size:24 final size:24
Alignment explanation
Indices: 22796350--22796395 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
22796340 ACTCACCAAC
*
22796350 CTTTATCATGCATCTTTCCCTTAA
1 CTTTATCAAGCATCTTTCCCTTAA
22796374 CTTTATCAAGCATCTTTCCCTT
1 CTTTATCAAGCATCTTTCCCTT
22796396 TATCATGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.20, C:0.30, G:0.04, T:0.46
Consensus pattern (24 bp):
CTTTATCAAGCATCTTTCCCTTAA
Found at i:22798554 original size:15 final size:15
Alignment explanation
Indices: 22798518--22798554 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
22798508 TTTTCGAATT
22798518 TTAGTTTTGTTTTTA
1 TTAGTTTTGTTTTTA
*
22798533 ATA-TTTTGTTTTTA
1 TTAGTTTTGTTTTTA
22798547 TTAGTTTT
1 TTAGTTTT
22798555 AAGACATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.16, C:0.00, G:0.11, T:0.73
Consensus pattern (15 bp):
TTAGTTTTGTTTTTA
Found at i:22800700 original size:20 final size:20
Alignment explanation
Indices: 22800667--22800716 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
22800657 GCAACTACAA
* *
22800667 TAATAATGAGAATACCAAAT
1 TAATAATAATAATACCAAAT
* *
22800687 TAATAATAATAATATCAATT
1 TAATAATAATAATACCAAAT
*
22800707 TTATAATAAT
1 TAATAATAAT
22800717 GGTACTAATC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (20 bp):
TAATAATAATAATACCAAAT
Found at i:22801916 original size:15 final size:16
Alignment explanation
Indices: 22801896--22801930 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
22801886 GGAAATTAAT
22801896 TATTAAAAA-TAAAAA
1 TATTAAAAATTAAAAA
*
22801911 TATTAAAAATTATAAA
1 TATTAAAAATTAAAAA
22801927 TATT
1 TATT
22801931 GATTCGGTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TATTAAAAATTAAAAA
Found at i:22807702 original size:79 final size:80
Alignment explanation
Indices: 22807610--22807767 Score: 219
Period size: 79 Copynumber: 2.0 Consensus size: 80
22807600 GCAAAATTAA
* * * ** * *
22807610 ATAAATTCGCAATCAACACTAAATTTATTTTTTAAAATCATGAAAAATTCTAACCTAATAGTATT
1 ATAAATTCACAATCAACACGAAATTTATTCTACAAAATCATGAAAAATTCAAACATAATAGTATT
22807675 AGCAA-TTAACTTTT
66 AGCAATTTAACTTTT
* *
22807689 ATAAATTCACAATCAATACGAAATTTATTCTACAAAATCATGAAAAATTCAAACATAGTAGTATT
1 ATAAATTCACAATCAACACGAAATTTATTCTACAAAATCATGAAAAATTCAAACATAATAGTATT
*
22807754 AGTAATTTAACTTT
66 AGCAATTTAACTTT
22807768 CATCAAATCA
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
79 60 0.88
80 8 0.12
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.36
Consensus pattern (80 bp):
ATAAATTCACAATCAACACGAAATTTATTCTACAAAATCATGAAAAATTCAAACATAATAGTATT
AGCAATTTAACTTTT
Found at i:22808964 original size:43 final size:44
Alignment explanation
Indices: 22808895--22809021 Score: 134
Period size: 43 Copynumber: 3.0 Consensus size: 44
22808885 GGAAAAATGT
* * * *
22808895 CGCTATAGAACATGACCTTCAGCAGCGAC-TTCCCCATAAACAC
1 CGCTATAGAATATGACCTTTAACAGCGACTTTCCCCACAAACAC
** * *
22808938 CGCTATAGAATATGACCTTTAACAGCG-CTTTCCTGACAAATAT
1 CGCTATAGAATATGACCTTTAACAGCGACTTTCCCCACAAACAC
* * *
22808981 CGCTAAATAATATGACCTTTAACGGC-ACTTTCCCCACAAAC
1 CGCTATAGAATATGACCTTTAACAGCGACTTTCCCCACAAAC
22809022 GTCGTTAAAG
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
42 1 0.01
43 67 0.99
ACGTcount: A:0.33, C:0.30, G:0.13, T:0.24
Consensus pattern (44 bp):
CGCTATAGAATATGACCTTTAACAGCGACTTTCCCCACAAACAC
Found at i:22809043 original size:43 final size:43
Alignment explanation
Indices: 22808981--22809150 Score: 205
Period size: 43 Copynumber: 4.0 Consensus size: 43
22808971 TGACAAATAT
* * * ** *
22808981 CGCTAAATAATATGACCTTTAACGGCACTTTCCCCACAAACGT
1 CGCTAAAGAACATGGCCTTTAGTGGCACTTTCCCCACAAACGC
* * * *
22809024 CGTTAAAGAACATGGCCTTTAGTGACACTATCCCTACAAACGC
1 CGCTAAAGAACATGGCCTTTAGTGGCACTTTCCCCACAAACGC
* * *
22809067 CGCTGAAGAACATGACCTTTAGTGGCATTTTCCCCACAAACGC
1 CGCTAAAGAACATGGCCTTTAGTGGCACTTTCCCCACAAACGC
* *
22809110 CACTAAAGAACATGGCCTTTAGTGGCACTTTTCCCACAAAC
1 CGCTAAAGAACATGGCCTTTAGTGGCACTTTCCCCACAAAC
22809151 ACCATTAACT
Statistics
Matches: 105, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 105 1.00
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.24
Consensus pattern (43 bp):
CGCTAAAGAACATGGCCTTTAGTGGCACTTTCCCCACAAACGC
Found at i:22810057 original size:82 final size:83
Alignment explanation
Indices: 22809941--22810092 Score: 225
Period size: 82 Copynumber: 1.8 Consensus size: 83
22809931 GTGGAGATTT
* * * * * *
22809941 TAGTGGCGTTTTTGGTCAATCGCCGCTAGTGTTAAGGTA-TTAGCAGCGTTTTTGTCTTAGCGCC
1 TAGTGGCGTTTTTGGTCAAACGCCACTAATGTTAAGGTATTTAGCAGCGTTTCTATCATAGCGCC
22810005 GCTATAGGTTGGGGGTAA
66 GCTATAGGTTGGGGGTAA
* *
22810023 TAGTGGCGTTTTTGGTGAAACGCCACTAATGTTAAGGTATTTAGCGGCGTTTCTATCATAGCGCC
1 TAGTGGCGTTTTTGGTCAAACGCCACTAATGTTAAGGTATTTAGCAGCGTTTCTATCATAGCGCC
22810088 GCTAT
66 GCTAT
22810093 TGTTGTGAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
82 35 0.57
83 26 0.43
ACGTcount: A:0.19, C:0.17, G:0.29, T:0.35
Consensus pattern (83 bp):
TAGTGGCGTTTTTGGTCAAACGCCACTAATGTTAAGGTATTTAGCAGCGTTTCTATCATAGCGCC
GCTATAGGTTGGGGGTAA
Found at i:22810112 original size:82 final size:82
Alignment explanation
Indices: 22809937--22810117 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 82
22809927 AATGGTGGAG
* * * * * *
22809937 ATTTTAGTGGCGTTTTTGGTCAATCGCCGCTAGTGTTAAGGTATTAGCAGCGTTTTTGTCTTAGC
1 ATTTTAGTGGCGTTTTTGGTCAAACGCCACTAATGTTAAGGTATTAGCAGCGTTTCTATCATAGC
*
22810002 GCCGCTATAGGTTGGGG
66 GCCGCTATAGGTTGGGA
* ** * *
22810019 GTAATAGTGGCGTTTTTGGTGAAACGCCACTAATGTTAAGGTATTTAGCGGCGTTTCTATCATAG
1 ATTTTAGTGGCGTTTTTGGTCAAACGCCACTAATGTTAAGGTA-TTAGCAGCGTTTCTATCATAG
* *
22810084 CGCCGCTAT-TGTTGTGA
65 CGCCGCTATAGGTTGGGA
*
22810101 ATTTTACTGGCGTTTTT
1 ATTTTAGTGGCGTTTTT
22810118 ATGTATGCGC
Statistics
Matches: 80, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
82 54 0.68
83 26 0.32
ACGTcount: A:0.18, C:0.15, G:0.28, T:0.39
Consensus pattern (82 bp):
ATTTTAGTGGCGTTTTTGGTCAAACGCCACTAATGTTAAGGTATTAGCAGCGTTTCTATCATAGC
GCCGCTATAGGTTGGGA
Found at i:22810239 original size:125 final size:124
Alignment explanation
Indices: 22809999--22810254 Score: 327
Period size: 125 Copynumber: 2.1 Consensus size: 124
22809989 TTTTTGTCTT
* *
22809999 AGCGCCGCTATAGGTTGGGGGTAATAGTGGCGTTTTTGGTGAAACGCCACTAATGTTAAGGTATT
1 AGCGCCGCTATAGGTTGGGGGTAATAGTGGCGTTTCTGGTCAAACGCCACTAATGTTAAGGTATT
* ** *
22810064 TAGCGGCGTTTCTATCATAGCGCCGCTATTGTTGTGAATTTTACTGGCGTTT-TTATGTA
66 TAGCGGCGTTTCTATCAAAGCGCCGCTAAAGTTGGGAATTTTACTGGCGTTTATT-TGTA
* * * *
22810123 TGCGCCGCTATTGGTTGGGGGTGATAGTGGCGTGTTCTGGTCAATCGCCACTAATGTTAAGGTAT
1 AGCGCCGCTATAGGTTGGGGGTAATAGTGGCGT-TTCTGGTCAAACGCCACTAATGTTAAGGTAT
* * * ** *
22810188 TTAGCGGCGTTTTGTTTTAAAGCGCCGCTAAAGTTGGGTTTTTTGC-GGCGTTTATTTGTA
65 TTAGCGGCG-TTTCTATCAAAGCGCCGCTAAAGTTGGGAATTTTACTGGCGTTTATTTGTA
22810248 AGCGCCG
1 AGCGCCG
22810255 GAAAATTAGT
Statistics
Matches: 112, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
124 30 0.27
125 54 0.48
126 28 0.25
ACGTcount: A:0.18, C:0.16, G:0.30, T:0.36
Consensus pattern (124 bp):
AGCGCCGCTATAGGTTGGGGGTAATAGTGGCGTTTCTGGTCAAACGCCACTAATGTTAAGGTATT
TAGCGGCGTTTCTATCAAAGCGCCGCTAAAGTTGGGAATTTTACTGGCGTTTATTTGTA
Found at i:22811277 original size:7 final size:7
Alignment explanation
Indices: 22811259--22811379 Score: 86
Period size: 7 Copynumber: 17.1 Consensus size: 7
22811249 TTGGGATTAA
22811259 GGTTTAGG
1 GGTTT-GG
22811267 GGTTTGG
1 GGTTTGG
*
22811274 GG-TTAG
1 GGTTTGG
* *
22811280 GGTCT-A
1 GGTTTGG
22811286 GGTTTAGG
1 GGTTT-GG
*
22811294 GGTTAGG
1 GGTTTGG
*
22811301 GATTTGG
1 GGTTTGG
*
22811308 GATTTGG
1 GGTTTGG
22811315 GG-TTGG
1 GGTTTGG
*
22811321 TGGTCTGG
1 -GGTTTGG
22811329 GGTTTGG
1 GGTTTGG
22811336 GGTTTGG
1 GGTTTGG
*
22811343 GGTTTGT
1 GGTTTGG
* *
22811350 GATTTAG
1 GGTTTGG
22811357 GGTTTGG
1 GGTTTGG
*
22811364 GGTTTTAG
1 GG-TTTGG
22811372 GGTTTGG
1 GGTTTGG
22811379 G
1 G
22811380 ATTAAGGTTT
Statistics
Matches: 88, Mismatches: 19, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
6 13 0.15
7 57 0.65
8 18 0.20
ACGTcount: A:0.08, C:0.02, G:0.50, T:0.40
Consensus pattern (7 bp):
GGTTTGG
Found at i:22811287 original size:21 final size:21
Alignment explanation
Indices: 22811245--22811339 Score: 81
Period size: 21 Copynumber: 4.6 Consensus size: 21
22811235 GTATGGATTA
* * *
22811245 GGGTTTGGGATTAAGGTTTAG
1 GGGTTTGGGGTTAGGGTCTAG
22811266 GGGTTTGGGGTTAGGGTCTA-
1 GGGTTTGGGGTTAGGGTCTAG
*
22811286 -GGTTTAGGGGTTAGGGAT-TTG
1 GGGTTT-GGGGTTAGGG-TCTAG
* *
22811307 GGATTTGGGGTTGGTGGTCT-G
1 GGGTTTGGGGTTAG-GGTCTAG
22811328 GGGTTTGGGGTT
1 GGGTTTGGGGTT
22811340 TGGGGTTTGT
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
19 5 0.08
20 11 0.18
21 38 0.62
22 7 0.11
ACGTcount: A:0.11, C:0.02, G:0.49, T:0.38
Consensus pattern (21 bp):
GGGTTTGGGGTTAGGGTCTAG
Found at i:22811365 original size:28 final size:28
Alignment explanation
Indices: 22811296--22811396 Score: 96
Period size: 28 Copynumber: 3.5 Consensus size: 28
22811286 GGTTTAGGGG
* * *
22811296 TTAGGGATTTGGGATTTGGGGTTGGTGGT
1 TTAGGG-TTTGGGGTTTGGGGTTTGTGAT
* *
22811325 CTGGGGTTTGGGGTTTGGGGTTTGTGAT
1 TTAGGGTTTGGGGTTTGGGGTTTGTGAT
* *
22811353 TTAGGGTTTGGGGTTTTAGGGTTTGGGA-
1 TTAGGGTTTGGGG-TTTGGGGTTTGTGAT
*
22811381 TTAAGGTTTAGGGGTT
1 TTAGGGTTT-GGGGTT
22811397 AAGGACTTAG
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
28 40 0.67
29 20 0.33
ACGTcount: A:0.10, C:0.01, G:0.47, T:0.43
Consensus pattern (28 bp):
TTAGGGTTTGGGGTTTGGGGTTTGTGAT
Found at i:22812370 original size:23 final size:24
Alignment explanation
Indices: 22812344--22812400 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 24
22812334 CACTTAGCCG
22812344 AAATTCCCCCCAAATTAT-CCCCA
1 AAATTCCCCCCAAATTATCCCCCA
* *
22812367 AAATTCCCCCCAATTTTTCCCCCA
1 AAATTCCCCCCAAATTATCCCCCA
*
22812391 AAAATCCCCC
1 AAATTCCCCC
22812401 AATTCTAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 16 0.53
24 14 0.47
ACGTcount: A:0.32, C:0.46, G:0.00, T:0.23
Consensus pattern (24 bp):
AAATTCCCCCCAAATTATCCCCCA
Found at i:22812377 original size:12 final size:12
Alignment explanation
Indices: 22812344--22812400 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
22812334 CACTTAGCCG
22812344 AAATTCCCCCC-
1 AAATTCCCCCCA
**
22812355 AAATTATCCCCA
1 AAATTCCCCCCA
22812367 AAATTCCCCCCA
1 AAATTCCCCCCA
** *
22812379 ATTTTTCCCCCA
1 AAATTCCCCCCA
*
22812391 AAAATCCCCC
1 AAATTCCCCC
22812401 AATTCTAGAA
Statistics
Matches: 34, Mismatches: 11, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
11 9 0.26
12 25 0.74
ACGTcount: A:0.32, C:0.46, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATTCCCCCCA
Found at i:22814687 original size:24 final size:22
Alignment explanation
Indices: 22814591--22814692 Score: 54
Period size: 21 Copynumber: 4.5 Consensus size: 22
22814581 NNNNNNNNAG
22814591 AAATAATTGTAAATGTTATTTTCT
1 AAATAA-T-TAAATGTTATTTTCT
*
22814615 AAAT-ATTAACATCTATATTTTC-
1 AAATAATTAA-ATGT-TATTTTCT
*
22814637 -AATAA-TAAATTTTATAATTT-T
1 AAATAATTAAATGTTAT--TTTCT
22814658 AGAAATAATTGTAAATGTTATTTTCT
1 --AAATAA-T-TAAATGTTATTTTCT
22814684 AAAT-ATTAA
1 AAATAATTAA
22814693 CATCTATATT
Statistics
Matches: 62, Mismatches: 3, Indels: 29
0.66 0.03 0.31
Matches are distributed among these distances:
19 3 0.05
20 3 0.05
21 15 0.24
22 6 0.10
23 9 0.15
24 13 0.21
25 3 0.05
26 1 0.02
27 9 0.15
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (22 bp):
AAATAATTAAATGTTATTTTCT
Found at i:22814742 original size:68 final size:69
Alignment explanation
Indices: 22814589--22814745 Score: 298
Period size: 68 Copynumber: 2.3 Consensus size: 69
22814579 NNNNNNNNNN
22814589 AGAAATAATTGTAAATGTTATTTTCTAAATATTAACATCTATATTTTCAATAATAAATTTTATAA
1 AGAAATAATTGTAAATGTTATTTTCTAAATATTAACATCTATATTTTCAATAATAAATTTTATAA
22814654 TTTT
66 TTTT
22814658 AGAAATAATTGTAAATGTTATTTTCTAAATATTAACATCTATA-TTTCAATAATAAATTTTATAA
1 AGAAATAATTGTAAATGTTATTTTCTAAATATTAACATCTATATTTTCAATAATAAATTTTATAA
22814722 TTTT
66 TTTT
*
22814726 AGAAAGAATTGTAAATGTTA
1 AGAAATAATTGTAAATGTTA
22814746 CATAATTCAA
Statistics
Matches: 87, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
68 44 0.51
69 43 0.49
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.45
Consensus pattern (69 bp):
AGAAATAATTGTAAATGTTATTTTCTAAATATTAACATCTATATTTTCAATAATAAATTTTATAA
TTTT
Found at i:22814869 original size:28 final size:28
Alignment explanation
Indices: 22814838--22814921 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
22814828 ATTATATAAC
*
22814838 AACTTATATATAAACTTACATAATATAT
1 AACTTATATATAAACTTACATAATACAT
*
22814866 AACTTATGACAT-AA--TAC-----ACAT
1 AACTTAT-ATATAAACTTACATAATACAT
22814887 AACTTATATATAAACTTACATAATACAT
1 AACTTATATATAAACTTACATAATACAT
22814915 AACTTAT
1 AACTTAT
22814922 TACATAATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 18
0.68 0.05 0.28
Matches are distributed among these distances:
20 3 0.07
21 12 0.27
23 3 0.07
26 3 0.07
28 20 0.45
29 3 0.07
ACGTcount: A:0.49, C:0.14, G:0.01, T:0.36
Consensus pattern (28 bp):
AACTTATATATAAACTTACATAATACAT
Found at i:22815324 original size:9 final size:9
Alignment explanation
Indices: 22815310--22815357 Score: 82
Period size: 9 Copynumber: 5.6 Consensus size: 9
22815300 NNNNNNNACT
22815310 TAACTTACA
1 TAACTTACA
22815319 TAACTTACA
1 TAACTTACA
22815328 TAACTTACA
1 TAACTTACA
22815337 TAA--TACA
1 TAACTTACA
22815344 TAACTTACA
1 TAACTTACA
22815353 TAACT
1 TAACT
22815358 CATATATACT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 7 0.19
9 30 0.81
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (9 bp):
TAACTTACA
Found at i:22815345 original size:16 final size:17
Alignment explanation
Indices: 22815310--22815361 Score: 81
Period size: 16 Copynumber: 3.1 Consensus size: 17
22815300 NNNNNNNACT
22815310 TAACTTACATAACTTACA
1 TAACTTACATAAC-TACA
22815328 TAACTTACATAA-TACA
1 TAACTTACATAACTACA
22815344 TAACTTACATAACT-CA
1 TAACTTACATAACTACA
22815360 TA
1 TA
22815362 TATACTTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 20 0.61
17 1 0.03
18 12 0.36
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
TAACTTACATAACTACA
Found at i:22821293 original size:43 final size:42
Alignment explanation
Indices: 22821238--22821394 Score: 165
Period size: 43 Copynumber: 3.7 Consensus size: 42
22821228 CAAGGTCTTT
* **
22821238 TAGCGGCGTTTGTGACCAAAGCGCCGCTAAAGGTCAACATATA
1 TAGCGGCGTTTGTAAATAAAGCGCCGCTAAAGGTCAA-ATATA
* * *
22821281 TAGCGGCGTTTGTAAATAAAGCGCCGCTATAGG-CTAATGTA
1 TAGCGGCGTTTGTAAATAAAGCGCCGCTAAAGGTCAAATATA
* * * *
22821322 TTTGCGGCGTTTGT-ACTGAAAGCGCCGCTAAAGGTCAAGGTATC
1 -TAGCGGCGTTTGTAAAT-AAAGCGCCGCTAAAGGTCAA-ATATA
*
22821366 TAGTGGCGTTTGTAAATAAAGCGCCGCTA
1 TAGCGGCGTTTGTAAATAAAGCGCCGCTA
22821395 TAGGCTAATG
Statistics
Matches: 93, Mismatches: 16, Indels: 10
0.78 0.13 0.08
Matches are distributed among these distances:
41 6 0.06
42 29 0.31
43 54 0.58
44 4 0.04
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (42 bp):
TAGCGGCGTTTGTAAATAAAGCGCCGCTAAAGGTCAAATATA
Found at i:22821336 original size:42 final size:43
Alignment explanation
Indices: 22821283--22821438 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 43
22821273 AACATATATA
22821283 GCGGCGTTTGTAAAT-AAAGCGCCGCTATAGGCTAATGTATTT
1 GCGGCGTTTGTAAATGAAAGCGCCGCTATAGGCTAATGTATTT
* * * *
22821325 GCGGCGTTTGT-ACTGAAAGCGCCGCTAAAGG-TCAAGGTATCTA
1 GCGGCGTTTGTAAATGAAAGCGCCGCTATAGGCT-AATGTAT-TT
* *
22821368 GTGGCGTTTGTAAAT-AAAGCGCCGCTATAGGCTAATGTTTTTTT
1 GCGGCGTTTGTAAATGAAAGCGCCGCTATAGGCTAATG--TATTT
* *
22821412 GCGGCGTTT-TTAGTGAAAGCGCCGCTA
1 GCGGCGTTTGTAAATGAAAGCGCCGCTA
22821439 AAGGTCAAGC
Statistics
Matches: 93, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
41 3 0.03
42 32 0.34
43 32 0.34
44 24 0.26
45 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
GCGGCGTTTGTAAATGAAAGCGCCGCTATAGGCTAATGTATTT
Found at i:22821475 original size:43 final size:42
Alignment explanation
Indices: 22821255--22821484 Score: 173
Period size: 43 Copynumber: 5.4 Consensus size: 42
22821245 GTTTGTGACC
* **
22821255 AAAGCGCCGCTAAAGGTCAA-CATATATAGCGGCGTTTGTAAAT
1 AAAGCGCCGCTAAAGGTCAAGC-TATTTAGCGGCGTTT-TAGTT
* * *
22821298 AAAGCGCCGCTATAGG-CTAATG-TATTT-GCGGCGTTTGTACTG
1 AAAGCGCCGCTAAAGGTC-AA-GCTATTTAGCGGCGTTT-TAGTT
* * * **
22821340 AAAGCGCCGCTAAAGGTCAAGGTATCTAGTGGCGTTTGTAAAT
1 AAAGCGCCGCTAAAGGTCAAGCTATTTAGCGGCGTTT-TAGTT
* * * * *
22821383 AAAGCGCCGCTATAGG-CTAATGTTTTTTTGCGGCGTTTTTAGTG
1 AAAGCGCCGCTAAAGGTC-AA-GCTATTTAGCGGCG-TTTTAGTT
*
22821427 AAAGCGCCGCTAAAGGTCAAGCTCTTTAGCGGCGTTTTAGGTT
1 AAAGCGCCGCTAAAGGTCAAGCTATTTAGCGGCGTTTTA-GTT
*
22821470 TAAGCGCCGCTAAAG
1 AAAGCGCCGCTAAAG
22821485 ATAATAACCT
Statistics
Matches: 150, Mismatches: 26, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
41 1 0.01
42 40 0.27
43 77 0.51
44 28 0.19
45 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (42 bp):
AAAGCGCCGCTAAAGGTCAAGCTATTTAGCGGCGTTTTAGTT
Found at i:22821481 original size:87 final size:85
Alignment explanation
Indices: 22821240--22821463 Score: 317
Period size: 85 Copynumber: 2.6 Consensus size: 85
22821230 AGGTCTTTTA
*
22821240 GCGGCGTTTGTGAC-CAAAGCGCCGCTAAAGGTCAA-CATATATAGCGGCGTTTGTAAATAAAGC
1 GCGGCGTTTGT-ACTGAAAGCGCCGCTAAAGGTCAAGC-TATATAGCGGCGTTTGTAAATAAAGC
22821303 GCCGCTATAGGCTAATGTATTT
64 GCCGCTATAGGCTAATGTATTT
* * *
22821325 GCGGCGTTTGTACTGAAAGCGCCGCTAAAGGTCAAGGTATCTAGTGGCGTTTGTAAATAAAGCGC
1 GCGGCGTTTGTACTGAAAGCGCCGCTAAAGGTCAAGCTATATAGCGGCGTTTGTAAATAAAGCGC
*
22821390 CGCTATAGGCTAATGTTTTTTT
66 CGCTATAGGCTAATG--TATTT
* * * *
22821412 GCGGCGTTTTTAGTGAAAGCGCCGCTAAAGGTCAAGCTCTTTAGCGGCGTTT
1 GCGGCGTTTGTACTGAAAGCGCCGCTAAAGGTCAAGCTATATAGCGGCGTTT
22821464 TAGGTTTAAG
Statistics
Matches: 124, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
84 2 0.02
85 72 0.58
87 50 0.40
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (85 bp):
GCGGCGTTTGTACTGAAAGCGCCGCTAAAGGTCAAGCTATATAGCGGCGTTTGTAAATAAAGCGC
CGCTATAGGCTAATGTATTT
Found at i:22823975 original size:29 final size:29
Alignment explanation
Indices: 22823943--22824000 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
22823933 GATTTGTTAA
*
22823943 AACGTAGAATTTTAT-TTGTAAAATTTATT
1 AACGAAGAATTTTATATT-TAAAATTTATT
*
22823972 AACGAATAATTTTATATTTAAAATTTATT
1 AACGAAGAATTTTATATTTAAAATTTATT
22824001 TAATTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.48
Consensus pattern (29 bp):
AACGAAGAATTTTATATTTAAAATTTATT
Found at i:22825026 original size:3 final size:3
Alignment explanation
Indices: 22825018--22825058 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
22825008 CCAGAAGCTG
*
22825018 CTT CTT CTT CTT CTT CTT CTT CTT CTT CAT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
22825059 ACGTTATCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.63
Consensus pattern (3 bp):
CTT
Found at i:22833552 original size:19 final size:19
Alignment explanation
Indices: 22833513--22833552 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
22833503 GACCCATATT
*
22833513 AAATATATATTTGATTAAA
1 AAATATATATTTAATTAAA
22833532 AAATATATATTTAATATAAA
1 AAATATATATTTAAT-TAAA
22833552 A
1 A
22833553 TTCGGGCCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (19 bp):
AAATATATATTTAATTAAA
Found at i:22834559 original size:28 final size:28
Alignment explanation
Indices: 22834523--22834593 Score: 117
Period size: 28 Copynumber: 2.5 Consensus size: 28
22834513 AAATAAAAAA
*
22834523 TTACCAAAATGT-TATACATTTTTTTTAT
1 TTACCAAAATATATATA-ATTTTTTTTAT
22834551 TTACCAAAATATATATAATTTTTTTTAT
1 TTACCAAAATATATATAATTTTTTTTAT
22834579 TTACCAAAATATATA
1 TTACCAAAATATATA
22834594 AAAAAAACCA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 37 0.90
29 4 0.10
ACGTcount: A:0.39, C:0.10, G:0.01, T:0.49
Consensus pattern (28 bp):
TTACCAAAATATATATAATTTTTTTTAT
Found at i:22834605 original size:19 final size:18
Alignment explanation
Indices: 22834581--22834618 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
22834571 TTTTTTATTT
*
22834581 ACCAAAATATATAAAAAAA
1 ACCAAAA-AAATAAAAAAA
22834600 ACCAAAAAAATAAAAAAA
1 ACCAAAAAAATAAAAAAA
22834618 A
1 A
22834619 AAAATCTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.79, C:0.11, G:0.00, T:0.11
Consensus pattern (18 bp):
ACCAAAAAAATAAAAAAA
Found at i:22834692 original size:27 final size:27
Alignment explanation
Indices: 22834662--22834729 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
22834652 AAGGGAACAC
22834662 TGTTGGCGGCACCAAACAAGGAAACCT
1 TGTTGGCGGCACCAAACAAGGAAACCT
**
22834689 TGTTGGCGGCACCAAACAAGGATTCCT
1 TGTTGGCGGCACCAAACAAGGAAACCT
22834716 TGTTGGCGGCACCA
1 TGTTGGCGGCACCA
22834730 CCTTAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.19
Consensus pattern (27 bp):
TGTTGGCGGCACCAAACAAGGAAACCT
Found at i:22834799 original size:18 final size:17
Alignment explanation
Indices: 22834776--22834814 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
22834766 GAAGGAGAGG
22834776 GGAAG-AAGAAGAAAGAAA
1 GGAAGAAAGAA-AAAG-AA
22834794 GGAAGAAAGAAAAAGAA
1 GGAAGAAAGAAAAAGAA
22834811 GGAA
1 GGAA
22834815 AAGGAAAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 9 0.45
19 5 0.25
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (17 bp):
GGAAGAAAGAAAAAGAA
Found at i:22834809 original size:22 final size:23
Alignment explanation
Indices: 22834778--22834820 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
22834768 AGGAGAGGGG
*
22834778 AAGAAGAAGAAAG-AAAGGAAGA
1 AAGAAAAAGAAAGAAAAGGAAGA
*
22834800 AAGAAAAAGAAGGAAAAGGAA
1 AAGAAAAAGAAAGAAAAGGAA
22834821 AGGAGAGGNN
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (23 bp):
AAGAAAAAGAAAGAAAAGGAAGA
Found at i:22835637 original size:18 final size:18
Alignment explanation
Indices: 22835614--22835650 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
22835604 ATTTTGGTGT
22835614 TTTTTTAATATTTTATTA
1 TTTTTTAATATTTTATTA
* *
22835632 TTTTTTTATGTTTTATTA
1 TTTTTTAATATTTTATTA
22835650 T
1 T
22835651 GGGTTTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (18 bp):
TTTTTTAATATTTTATTA
Found at i:22835770 original size:17 final size:17
Alignment explanation
Indices: 22835748--22835781 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
22835738 CAAAATATTT
22835748 CAAAAAA-AAGTAAAAAA
1 CAAAAAAGAA-TAAAAAA
22835765 CAAAAAAGAATAAAAAA
1 CAAAAAAGAATAAAAAA
22835782 AGGAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.82, C:0.06, G:0.06, T:0.06
Consensus pattern (17 bp):
CAAAAAAGAATAAAAAA
Found at i:22837394 original size:61 final size:62
Alignment explanation
Indices: 22837283--22837400 Score: 161
Period size: 61 Copynumber: 1.9 Consensus size: 62
22837273 CCACTAATCC
* *
22837283 TAATAACTAACACAATAATAATATTAATAATTTTATATACAAAATAATACTAACTAAAATTAT
1 TAATAACTAACACAAAAATAATACTAAT-ATTTTATATACAAAATAATACTAACTAAAATTAT
*
22837346 TAATAACTAACTACAAAAATAATACTAAT-TTTT-TACTA-ACAATAATACTAACTAA
1 TAATAACTAAC-ACAAAAATAATACTAATATTTTATA-TACAAAATAATACTAACTAA
22837401 CATCTTAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
61 18 0.36
62 6 0.12
63 11 0.22
64 15 0.30
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (62 bp):
TAATAACTAACACAAAAATAATACTAATATTTTATATACAAAATAATACTAACTAAAATTAT
Found at i:22837396 original size:12 final size:12
Alignment explanation
Indices: 22837277--22837452 Score: 75
Period size: 12 Copynumber: 14.7 Consensus size: 12
22837267 ATTTAACCAC
*
22837277 TAATCCTAATAA
1 TAATACTAATAA
*
22837289 CTAACAC-AATAA
1 -TAATACTAATAA
*
22837301 TAATATTAATAA
1 TAATACTAATAA
22837313 TTTTATATAC-AA-AA
1 ---TA-ATACTAATAA
22837327 TAATACTAACTAA
1 TAATACTAA-TAA
*
22837340 -AATTATTAATAA
1 TAA-TACTAATAA
*
22837352 CTAACTAC-AAAAA
1 -TAA-TACTAATAA
*
22837365 TAATACTAAT-T
1 TAATACTAATAA
** *
22837376 TTTTACTAACAA
1 TAATACTAATAA
22837388 TAATACTAACTAA
1 TAATACTAA-TAA
*
22837401 -CAT-CT--TAA
1 TAATACTAATAA
*
22837409 TAATAATAATAA
1 TAATACTAATAA
*
22837421 TAATAATAATAA
1 TAATACTAATAA
*
22837433 TAATAATAATAA
1 TAATACTAATAA
22837445 TAATACTA
1 TAATACTA
22837453 TAAAATTTTT
Statistics
Matches: 123, Mismatches: 22, Indels: 37
0.68 0.12 0.20
Matches are distributed among these distances:
8 3 0.02
9 2 0.02
10 5 0.04
11 20 0.16
12 63 0.51
13 17 0.14
14 6 0.05
15 4 0.03
16 3 0.02
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (12 bp):
TAATACTAATAA
Found at i:22837414 original size:3 final size:3
Alignment explanation
Indices: 22837406--22837449 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
22837396 ACTAACATCT
22837406 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
22837450 CTATAAAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:22837836 original size:27 final size:27
Alignment explanation
Indices: 22837732--22837827 Score: 165
Period size: 27 Copynumber: 3.6 Consensus size: 27
22837722 ATAACACGAG
22837732 TGGTGCCGCCAACAGGGAACCCTTGTT
1 TGGTGCCGCCAACAGGGAACCCTTGTT
22837759 TGGTGCCGCCAACAGGGAACCCTTGTT
1 TGGTGCCGCCAACAGGGAACCCTTGTT
** *
22837786 TGGTGCCGCCAACAGGGTTCCCTTCTT
1 TGGTGCCGCCAACAGGGAACCCTTGTT
22837813 TGGTGCCGCCAACAG
1 TGGTGCCGCCAACAG
22837828 TGTTCCCTTG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.17, C:0.31, G:0.29, T:0.23
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGGAACCCTTGTT
Found at i:22837913 original size:22 final size:22
Alignment explanation
Indices: 22837888--22837932 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
22837878 GTTTTTTTTG
22837888 ATATATTTTGGTAAATAAAAAA
1 ATATATTTTGGTAAATAAAAAA
22837910 ATATATTTTGGTAAATAAAAAA
1 ATATATTTTGGTAAATAAAAAA
22837932 A
1 A
22837933 ATGTATAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.36
Consensus pattern (22 bp):
ATATATTTTGGTAAATAAAAAA
Found at i:22838475 original size:28 final size:28
Alignment explanation
Indices: 22838422--22838475 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
22838412 CATCCCTGTG
* *
22838422 TATGCTATTATTAATTTTAATCTTATTT
1 TATGCTATTATTAATTCTAATATTATTT
*
22838450 TATGCTATT-TTAATTACTATTATTAT
1 TATGCTATTATTAATT-CTAATATTAT
22838476 ACTTATAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (28 bp):
TATGCTATTATTAATTCTAATATTATTT
Found at i:22838935 original size:115 final size:117
Alignment explanation
Indices: 22838725--22838956 Score: 328
Period size: 115 Copynumber: 2.0 Consensus size: 117
22838715 TTGATATCAT
** *
22838725 CATAAAATGCAAATTAGTTTAAAATTTTAAATATTTTTACTTTGATATTAAAATCATAGGCTTTC
1 CATAAAATGCAAATTAGTTTAAAATTTTAAATATTTTTACTTCAATATTAAAATCAAAGGCTTTC
* *
22838790 ATGAGTAAAAATTACAGGTCTTGAGCTTATTTAACTA-AAAAA-A-CATAAG
66 ATGAGTAAAAATTACAAGTCTTGAGATTATTTAACTACAAAAATAGCATAAG
* *
22838839 CATAAAATGTAAATTAGTTTAAAGTTTTAAAATATTTTTACTTCAATATTAAAATCAAAGGCTTT
1 CATAAAATGCAAATTAGTTTAAAATTTT-AAATATTTTTACTTCAATATTAAAATCAAAGGCTTT
* * *
22838904 CATGATTAAAAATTATAAGT-TGTGGGATTATTTAACTACAAAAATAGCATAAG
65 CATGAGTAAAAATTACAAGTCT-TGAGATTATTTAACTACAAAAATAGCATAAG
22838957 GACTAGTTTA
Statistics
Matches: 103, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
114 27 0.26
115 64 0.62
116 5 0.05
117 1 0.01
118 6 0.06
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.37
Consensus pattern (117 bp):
CATAAAATGCAAATTAGTTTAAAATTTTAAATATTTTTACTTCAATATTAAAATCAAAGGCTTTC
ATGAGTAAAAATTACAAGTCTTGAGATTATTTAACTACAAAAATAGCATAAG
Found at i:22840124 original size:3 final size:3
Alignment explanation
Indices: 22840116--22840150 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
22840106 TAGTCCCCAT
*
22840116 TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
22840151 CCTATAGTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:22840155 original size:12 final size:12
Alignment explanation
Indices: 22840117--22840155 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
22840107 AGTCCCCATT
*
22840117 TATTATTATTAT
1 TATTATTATTAC
22840129 TATTATTATTAC
1 TATTATTATTAC
*
22840141 TATTATTATTCC
1 TATTATTATTAC
22840153 TAT
1 TAT
22840156 AGTCATTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:22840189 original size:2 final size:2
Alignment explanation
Indices: 22840178--22840227 Score: 57
Period size: 2 Copynumber: 25.0 Consensus size: 2
22840168 GCATGGTTCT
* * *
22840178 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TG TA TT TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22840219 TA GTA TA TA
1 TA -TA TA TA
22840228 CGCATAGTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
1 1 0.02
2 39 0.93
3 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22841734 original size:2 final size:2
Alignment explanation
Indices: 22841727--22841774 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
22841717 NNNNNNNNNN
22841727 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22841769 AT AT AT
1 AT AT AT
22841775 GCTAATACAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22843822 original size:19 final size:20
Alignment explanation
Indices: 22843778--22843822 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
22843768 AACGTCTCTT
*
22843778 TATGCA-TTCATTTCATGCA
1 TATGCATTTCATTACATGCA
22843797 T-TCGCATTTCATTACAT-CA
1 TAT-GCATTTCATTACATGCA
22843816 TATGCAT
1 TATGCAT
22843823 CAAAGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
18 1 0.05
19 11 0.50
20 10 0.45
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (20 bp):
TATGCATTTCATTACATGCA
Found at i:22846617 original size:16 final size:15
Alignment explanation
Indices: 22846592--22846622 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
22846582 TTTGAGTCCC
22846592 AAAAAAAAAAAAGAA
1 AAAAAAAAAAAAGAA
22846607 AAAAGAAAAAAAAGAA
1 AAAA-AAAAAAAAGAA
22846623 GTGATGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAGAA
Found at i:22848053 original size:44 final size:44
Alignment explanation
Indices: 22847991--22848210 Score: 246
Period size: 45 Copynumber: 5.0 Consensus size: 44
22847981 AGCAGGTTGA
22847991 AAAG-AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
1 AAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
* * *** *
22848034 AAAGATACCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC
1 AAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC
*
22848079 GAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
1 AAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
* * *** * *
22848123 AAAGAGAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGAT-
1 AAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC
* * *
22848167 AGAAGAAAATAGATCTTGTCTTCATGTACTAGTGTGAAGTAGAT
1 A-AAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGAT
22848211 TAGATATAGC
Statistics
Matches: 143, Mismatches: 30, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
43 4 0.03
44 69 0.48
45 70 0.49
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (44 bp):
AAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
Found at i:22848146 original size:89 final size:89
Alignment explanation
Indices: 22847995--22848500 Score: 451
Period size: 89 Copynumber: 5.7 Consensus size: 89
22847985 GGTTGAAAAG
*
22847995 AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCAT
1 AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCAT
*
22848060 ACTGGTGGTGAAGTAGATCGAAGA
66 ACTGGTGGCGAAGTAGATCGAAGA
*
22848084 AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAGAGCAGATCTTGTCTTCCCAT
1 AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCAT
*
22848149 ACTGGTGGCGAAGTAGATAGAAGA
66 ACTGGTGGCGAAGTAGATCGAAGA
* * * * * * *
22848173 AAATAGATCTTGTCTTCATGTACTAGTGTGAAGTAGATTAGATATAGCAGATCTTGCCTT-CC-T
1 AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCAT
****
22848236 ACATAAACAGCGAAGTAGATCGAAGA
66 AC-T-GGTGGCGAAGTAGATCGAAGA
*** * * * ** ** * * ** ** * *
22848262 TGGCTGAT-TT-TACCTCCTCGTGGTTACAGTGGAGTACATTGAAGCCAGTA-AT-TCTATC-TC
1 AAACAGATCTTGT-CTTCAT-GTACTGGC-GTGAAGTAGATCAAAGATAGCAGATCT-TGTCTTC
* * * *
22848322 CC-TGGGCAGCAGT-G-GAA-TAGATTGTAGA
62 CCAT--ACTG--GTGGCGAAGTAGATCGAAGA
***
22848350 TTTCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATA-CTAGATCTTGTCTTCCCA
1 AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGC-AGATCTTGTCTTCCCA
*
22848414 TACTGGTGGCAAAGTAGATCGAAGA
65 TACTGGTGGCGAAGTAGATCGAAGA
*
22848439 AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGCCTTCC
1 AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCC
22848501 TGCATAGACA
Statistics
Matches: 323, Mismatches: 72, Indels: 44
0.74 0.16 0.10
Matches are distributed among these distances:
86 2 0.01
87 19 0.06
88 38 0.12
89 245 0.76
90 18 0.06
91 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (89 bp):
AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCAT
ACTGGTGGCGAAGTAGATCGAAGA
Found at i:22848225 original size:44 final size:44
Alignment explanation
Indices: 22847996--22848233 Score: 228
Period size: 44 Copynumber: 5.4 Consensus size: 44
22847986 GTTGAAAAGA
* *
22847996 AACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAT
1 AACAGATCTTGTCTTCATGTACTGGTGTGAAGTAGATCAGAGAT
* *** *
22848040 ACCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC-GAAGAA
1 AACAGATCTTGTCTTCATGTACTGGT-GTGAAGTAGATCAG-AGAT
* * *
22848085 AACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAG
1 AACAGATCTTGTCTTCATGTACTGGTGTGAAGTAGATCAGAGAT
* *** * *
22848129 AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGAT-AGAAGAA
1 AACAGATCTTGTCTTCATGTACTGGT-GTGAAGTAGATCAG-AGAT
* * * *
22848174 AATAGATCTTGTCTTCATGTACTAGTGTGAAGTAGATTAGATAT
1 AACAGATCTTGTCTTCATGTACTGGTGTGAAGTAGATCAGAGAT
* *
22848218 AGCAGATCTTGCCTTC
1 AACAGATCTTGTCTTC
22848234 CTACATAAAC
Statistics
Matches: 154, Mismatches: 34, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
44 83 0.54
45 71 0.46
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (44 bp):
AACAGATCTTGTCTTCATGTACTGGTGTGAAGTAGATCAGAGAT
Found at i:22848404 original size:44 final size:43
Alignment explanation
Indices: 22848353--22848499 Score: 179
Period size: 44 Copynumber: 3.3 Consensus size: 43
22848343 TTGTAGATTT
22848353 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATA
1 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATA
*** * * *
22848396 CTAGATCTTGTCTTCCCATACTGGTG-GCAAAGTAGATCGAAGAAAA
1 C-AGATCTTGTCTTCATGTACTGGCGTG--AAGTAGATCAAAG-ATA
22848442 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATA
1 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATA
*
22848485 GCAGATCTTGCCTTC
1 -CAGATCTTGTCTTC
22848500 CTGCATAGAC
Statistics
Matches: 85, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
43 4 0.05
44 45 0.53
45 32 0.38
46 4 0.05
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (43 bp):
CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATA
Found at i:22848561 original size:266 final size:266
Alignment explanation
Indices: 22848086--22848626 Score: 872
Period size: 266 Copynumber: 2.0 Consensus size: 266
22848076 ATCGAAGAAA
22848086 ACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAGAGCAGATCTTGTCTTCCCATAC
1 ACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAGAGCAGATCTTGTCTTCCCATAC
* * * * * *
22848151 TGGTGGCGAAGTAGATAGAAGAAAATAGATCTTGTCTTCATGTACTAGTGTGAAGTAGATTAGAT
66 TGGTGGCAAAGTAGATAGAAGAAAACAGATCTTGTCTTCATGTACTAGCGTGAAGTAGATCAAAG
* * *
22848216 ATAGCAGATCTTGCCTTCCTACATAAACAGCGAAGTAGATCGAAGATGGCTGATTTTACCTCCTC
131 ATAGCAGATCTTGCCTTCCTACATAAACAGCGAAGCAGATCGAAGATGCCTAATTTTACCTCCTC
* *
22848281 GTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC-AGCAGTGGAATAGATT
196 GAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCGA-CAGTGGAATAGAGT
*
22848345 GTAGATT
260 GAAGATT
* *
22848352 TCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATA-CTAGATCTTGTCTTCCCATA
1 ACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAGAGC-AGATCTTGTCTTCCCATA
* *
22848416 CTGGTGGCAAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAA
65 CTGGTGGCAAAGTAGATAGAAGAAAACAGATCTTGTCTTCATGTACTAGCGTGAAGTAGATCAAA
* *
22848481 GATAGCAGATCTTGCCTTCCTGCATAGACAGCGAAGCAGATCGAAGATGCCTAATTTTACCTCC-
130 GATAGCAGATCTTGCCTTCCTACATAAACAGCGAAGCAGATCGAAGATGCCTAATTTTACCTCCT
22848545 CTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCGACAGTGGAATAGAG
195 C-GAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCGACAGTGGAATAGAG
22848610 TGAAGATT
259 TGAAGATT
22848618 ACAGATCTT
1 ACAGATCTT
22848627 ATCTCCCTAA
Statistics
Matches: 253, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
265 2 0.01
266 250 0.99
267 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (266 bp):
ACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAGAGCAGATCTTGTCTTCCCATAC
TGGTGGCAAAGTAGATAGAAGAAAACAGATCTTGTCTTCATGTACTAGCGTGAAGTAGATCAAAG
ATAGCAGATCTTGCCTTCCTACATAAACAGCGAAGCAGATCGAAGATGCCTAATTTTACCTCCTC
GAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCGACAGTGGAATAGAGTG
AAGATT
Found at i:22848800 original size:44 final size:44
Alignment explanation
Indices: 22848751--22848852 Score: 141
Period size: 44 Copynumber: 2.3 Consensus size: 44
22848741 TTGAAGATGA
* * * *
22848751 CAGATCTTGTTTTCATGTATTGGCGTGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCATGTATTGGCATGAAATAGATCAAAGAAAG
* *
22848795 TAGATCTTGTCTTCATGTATTGGCATGAAATAGATCAAAGAGAG
1 CAGATCTTGTCTTCATGTATTGGCATGAAATAGATCAAAGAAAG
*
22848839 CAGATCTTATCTTC
1 CAGATCTTGTCTTC
22848853 CCATACTGGT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (44 bp):
CAGATCTTGTCTTCATGTATTGGCATGAAATAGATCAAAGAAAG
Found at i:22852175 original size:5 final size:5
Alignment explanation
Indices: 22852165--22852191 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
22852155 TTTATAACAT
22852165 ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA AT
22852192 TATATGACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:22853067 original size:31 final size:31
Alignment explanation
Indices: 22853031--22853093 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
22853021 TGTCATTCAC
* *
22853031 CATCTATGACGAGTGTTTGTTATTATTTTCT
1 CATCTATGACGAGTCTTTATTATTATTTTCT
22853062 CATCTATGACGAGTCTTTATTATTATTTTCT
1 CATCTATGACGAGTCTTTATTATTATTTTCT
22853093 C
1 C
22853094 CCTAAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.51
Consensus pattern (31 bp):
CATCTATGACGAGTCTTTATTATTATTTTCT
Found at i:22853509 original size:25 final size:25
Alignment explanation
Indices: 22853481--22853536 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
22853471 AATTAAAATT
*
22853481 AAAATTAAATAGTAAAATTTAATAA
1 AAAATTAAATAGCAAAATTTAATAA
* * * *
22853506 AAAATCAAGTGGCAAAATTTAATAT
1 AAAATTAAATAGCAAAATTTAATAA
22853531 AAAATT
1 AAAATT
22853537 GAAGTGGAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (25 bp):
AAAATTAAATAGCAAAATTTAATAA
Found at i:22871942 original size:57 final size:59
Alignment explanation
Indices: 22871827--22871973 Score: 210
Period size: 57 Copynumber: 2.5 Consensus size: 59
22871817 ATTGACGATA
22871827 AAAAAGATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGTGTG
1 AAAAAGATCTAGCCCGGACGGGTGATCC-AT-CTGATATAGCCCTCCCGAAGAATATGTG-G
*
22871889 AAAAAGATCTAGTCCGGACGGGTGAT-C-T-TGATATAGCCCTCCCGAAGAATATGTGG
1 AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGG
* *
22871945 AAAATAGATTTAGCCCGGACGGGTAATCC
1 AAAA-AGATCTAGCCCGGACGGGTGATCC
22871974 GAATTAGGGT
Statistics
Matches: 79, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
56 5 0.06
57 46 0.58
58 1 0.01
59 1 0.01
61 1 0.01
62 25 0.32
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (59 bp):
AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGG
Found at i:22873409 original size:21 final size:21
Alignment explanation
Indices: 22873369--22873417 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
22873359 ATAAATAAAA
*
22873369 TCATTCA-TGTCAATTCCCTG
1 TCATTCATTGACAATTCCCTG
*
22873389 TCATTCATTGACAATTTCCTG
1 TCATTCATTGACAATTCCCTG
22873410 TCATTCAT
1 TCATTCAT
22873418 AACTTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.22, C:0.27, G:0.08, T:0.43
Consensus pattern (21 bp):
TCATTCATTGACAATTCCCTG
Found at i:22873694 original size:21 final size:21
Alignment explanation
Indices: 22873590--22873688 Score: 105
Period size: 21 Copynumber: 4.8 Consensus size: 21
22873580 TGAATACACC
22873590 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
* *
22873611 AACAGAAGCTTG-AA-AGCTA
1 AACAGAAGCTCGTAAGAGCTG
* *
22873630 AATAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTG
* * *
22873651 AACAAAAACTCAG-AAGAGTTG
1 AACAGAAGCTC-GTAAGAGCTG
22873672 AACAGAAGCTCGTAAGA
1 AACAGAAGCTCGTAAGA
22873689 ATTGAATATA
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
19 14 0.22
20 5 0.08
21 43 0.68
22 1 0.02
ACGTcount: A:0.45, C:0.16, G:0.23, T:0.15
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:22873858 original size:17 final size:17
Alignment explanation
Indices: 22873838--22873876 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
22873828 AAATCCAATT
22873838 CAATAATAT-AATTCCAA
1 CAATAAT-TCAATTCCAA
22873855 CAATAATTCAATTCCAA
1 CAATAATTCAATTCCAA
22873872 CAATA
1 CAATA
22873877 GAATAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.51, C:0.21, G:0.00, T:0.28
Consensus pattern (17 bp):
CAATAATTCAATTCCAA
Found at i:22880777 original size:2 final size:2
Alignment explanation
Indices: 22880770--22880814 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
22880760 AAGGCATTAA
22880770 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22880812 AT A
1 AT A
22880815 AAAGGAAAGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22880987 original size:31 final size:31
Alignment explanation
Indices: 22880944--22881021 Score: 138
Period size: 31 Copynumber: 2.5 Consensus size: 31
22880934 CCTTTTTCTT
22880944 TTTTAGATTTTATAAGAATTATCTAATTTCAA
1 TTTT-GATTTTATAAGAATTATCTAATTTCAA
22880976 TTTTGATTTTATAAGAATTATCTAATTTCAA
1 TTTTGATTTTATAAGAATTATCTAATTTCAA
22881007 TTTTGATCTTTATAA
1 TTTTGAT-TTTATAA
22881022 TATATTTAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
31 34 0.76
32 11 0.24
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (31 bp):
TTTTGATTTTATAAGAATTATCTAATTTCAA
Found at i:22892542 original size:89 final size:89
Alignment explanation
Indices: 22892391--22892618 Score: 393
Period size: 89 Copynumber: 2.6 Consensus size: 89
22892381 AAAAAAGCTA
* * *
22892391 AAAATTAGGAAGAAAAATCTGATTTGTCATTCTCCTATTAGAAAGGGATATGGATGACGTGGAAT
1 AAAATTAGGAAGAAAAATCTGATTTATCTTTCTCCTATTGGAAAGGGATATGGATGACGTGGAAT
22892456 CACAATTTAGTACAATCTCTCCTC
66 CACAATTTAGTACAATCTCTCCTC
22892480 AAAATTAGGAAGAAAAATCTGATTTATCTTTCTCCTATTGGAAAGGGATATGGATGACGTGGAAT
1 AAAATTAGGAAGAAAAATCTGATTTATCTTTCTCCTATTGGAAAGGGATATGGATGACGTGGAAT
*
22892545 CACAATTTCGTACAATCTCTCCTC
66 CACAATTTAGTACAATCTCTCCTC
* * *
22892569 AAAATCAGGAAGAAAAATCTGATTTATCTTTCTCCTATTGAAAAGAGATA
1 AAAATTAGGAAGAAAAATCTGATTTATCTTTCTCCTATTGGAAAGGGATA
22892619 GGGGTGAACT
Statistics
Matches: 132, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
89 132 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (89 bp):
AAAATTAGGAAGAAAAATCTGATTTATCTTTCTCCTATTGGAAAGGGATATGGATGACGTGGAAT
CACAATTTAGTACAATCTCTCCTC
Found at i:22895070 original size:21 final size:22
Alignment explanation
Indices: 22895031--22895079 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
22895021 TCCTATTTAG
* *
22895031 TATATTTTAAATTCTAATATAA-
1 TATATTTAAAATTCAAATA-AAT
22895053 TATATTTAAAATT-AAATAAAT
1 TATATTTAAAATTCAAATAAAT
22895074 TATATT
1 TATATT
22895080 AGTATCATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 10 0.42
22 12 0.50
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TATATTTAAAATTCAAATAAAT
Found at i:22896065 original size:13 final size:15
Alignment explanation
Indices: 22896039--22896073 Score: 56
Period size: 13 Copynumber: 2.5 Consensus size: 15
22896029 ATGGAGGCAA
22896039 AAAAAAAGCAAAAAC
1 AAAAAAAGCAAAAAC
22896054 AAAAAAA-C-AAAAC
1 AAAAAAAGCAAAAAC
22896067 AAAAAAA
1 AAAAAAA
22896074 AACCTCTACC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 12 0.60
14 1 0.05
15 7 0.35
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (15 bp):
AAAAAAAGCAAAAAC
Done.