Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015276.1 Kokia drynarioides strain JFW-HI SEQ_130321, 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: 629240
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Warning! 408 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:4754 original size:79 final size:79
Alignment explanation
Indices: 4667--4827 Score: 304
Period size: 79 Copynumber: 2.0 Consensus size: 79
4657 ATTTAAAAAT
* *
4667 ATAAAAAATTAGTTTAACTTGTCAACAACTGATTGAATTGATTTGTGAGCCAATTGATCTAACTC
1 ATAAAAAATTAGTTTAACTTGTCAACAACTGATTGAATCGATTTGTGAGCCAATTAATCTAACTC
4732 TTTTCTCTAGACAA
66 TTTTCTCTAGACAA
4746 ATAAAAAATTAGTTTAACTTGTCAACAACTGATTGAATCGATTTGTGAGCCAATTAATCTAACTC
1 ATAAAAAATTAGTTTAACTTGTCAACAACTGATTGAATCGATTTGTGAGCCAATTAATCTAACTC
4811 TTTTCTCTAGACAA
66 TTTTCTCTAGACAA
4825 ATA
1 ATA
4828 CTCTAATCGA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.36
Consensus pattern (79 bp):
ATAAAAAATTAGTTTAACTTGTCAACAACTGATTGAATCGATTTGTGAGCCAATTAATCTAACTC
TTTTCTCTAGACAA
Found at i:7071 original size:173 final size:173
Alignment explanation
Indices: 6393--7069 Score: 822
Period size: 173 Copynumber: 4.0 Consensus size: 173
6383 TACGAAATTG
* * * * * * * *
6393 CTATTTTGTTGATGATGCCATAAAGCAGTGTTAATGTTGCTAGAAGGAAAAGTGAGTCTC-TCCC
1 CTATTATGTTGATGATGCCATAAAGCAATGTTAGTGTGGCTTGAGGGAAAAGAGAGTCTCATCTC
* * * **
6457 CTGAGATGTATCTATTCTGCT-GGT----CA-T---ATACTAAAATATGAGGTCATAGTGGAATC
66 C-AAGATGTCTCTAATCTGCTGGGTGGAACAGTAAAATACTAAAATACAAGGTCATAGTGGAATC
** *
6513 GAATGTCATCCTATAGTGTTCATGAGATTTTTCTATTGAAATCA
130 GAATACCATCCTATAGTGTTCATGAGATGTTTCTATTGAAATCA
*
6557 CTATTATGTTGATGATGCCATAAAGCAATGTTAGTGTGGCTTGAGGGAAAGGAGAGTCTCATCTC
1 CTATTATGTTGATGATGCCATAAAGCAATGTTAGTGTGGCTTGAGGGAAAAGAGAGTCTCATCTC
* *
6622 CAAGATGTCTCTAATCTGCTGGGTGGAACAGTAAAATACTAAAATGCAAGGTCCTAGTGGAATCG
66 CAAGATGTCTCTAATCTGCTGGGTGGAACAGTAAAATACTAAAATACAAGGTCATAGTGGAATCG
6687 AATACCATCCTATAGTGTTCATGAGATGTTTCTATTGAAATCA
131 AATACCATCCTATAGTGTTCATGAGATGTTTCTATTGAAATCA
6730 CTATTATGTTGATGATGCCATAAAGCAATGTTAGTGTGGCTTGAGGGAAAAGAGAGTCTCATCTC
1 CTATTATGTTGATGATGCCATAAAGCAATGTTAGTGTGGCTTGAGGGAAAAGAGAGTCTCATCTC
* *
6795 CAAGATGTCTCTAATCTGCTGGGTGGAACAGTAAAATACTAAAATGCAAGGTCCTAGTGGAATCG
66 CAAGATGTCTCTAATCTGCTGGGTGGAACAGTAAAATACTAAAATACAAGGTCATAGTGGAATCG
* * *
6860 AATACCATCCTATAATGTTTATGAGATGTTTCTATTGTAATCA
131 AATACCATCCTATAGTGTTCATGAGATGTTTCTATTGAAATCA
* *** *** * *
6903 CTATTACGTTGATGATGCCATAAATTGATGTTTA-TGTGGCTTGAACAAAAAAAGGGTCTC-TCT
1 CTATTATGTTGATGATGCCATAAAGCAATG-TTAGTGTGGCTTGAGGGAAAAGAGAGTCTCATCT
* * *** * * *
6966 CCTGAGATGTCTCTAAACTGCTGTAAGGAGCAGTAGAATACTAAAATACGAGGGTCATAGT-GAA
65 CC-AAGATGTCTCTAATCTGCTGGGTGGAACAGTAAAATACTAAAATAC-AAGGTCATAGTGGAA
** * *
7030 TCGAATGTCGTCCTATAGTGTTCATGAGGTGTTTCTATTG
128 TCGAATACCATCCTATAGTGTTCATGAGATGTTTCTATTG
7070 TATATTTTTA
Statistics
Matches: 452, Mismatches: 48, Indels: 17
0.87 0.09 0.03
Matches are distributed among these distances:
164 68 0.15
165 7 0.02
169 2 0.00
170 1 0.00
172 5 0.01
173 357 0.79
174 12 0.03
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.32
Consensus pattern (173 bp):
CTATTATGTTGATGATGCCATAAAGCAATGTTAGTGTGGCTTGAGGGAAAAGAGAGTCTCATCTC
CAAGATGTCTCTAATCTGCTGGGTGGAACAGTAAAATACTAAAATACAAGGTCATAGTGGAATCG
AATACCATCCTATAGTGTTCATGAGATGTTTCTATTGAAATCA
Found at i:14499 original size:33 final size:34
Alignment explanation
Indices: 14445--14513 Score: 79
Period size: 33 Copynumber: 2.0 Consensus size: 34
14435 AAAAAAAAGA
* *
14445 TTTAAATAAAAATATTAATTC-TAAAAAATCAAT
1 TTTAAATAAAAATATAAATTCTTAAAAAATAAAT
*
14478 TTTAACTAAAAA-ATAAGATTCTTTAAAAAATAAAT
1 TTTAAATAAAAATATAA-ATTC-TTAAAAAATAAAT
14513 T
1 T
14514 GAACCTCAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
32 3 0.10
33 15 0.50
35 12 0.40
ACGTcount: A:0.57, C:0.06, G:0.01, T:0.36
Consensus pattern (34 bp):
TTTAAATAAAAATATAAATTCTTAAAAAATAAAT
Found at i:14691 original size:12 final size:11
Alignment explanation
Indices: 14672--14702 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
14662 TGTATAACAC
14672 TTATTTTATTA
1 TTATTTTATTA
14683 TTAATTTTATTA
1 TT-ATTTTATTA
14695 TTATTTTA
1 TTATTTTA
14703 GATGTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:16515 original size:15 final size:15
Alignment explanation
Indices: 16495--16524 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16485 ACTAAAGAAA
16495 AACAAGAGCATTTGT
1 AACAAGAGCATTTGT
16510 AACAAGAGCATTTGT
1 AACAAGAGCATTTGT
16525 CATATGAGAG
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:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (15 bp):
AACAAGAGCATTTGT
Found at i:18265 original size:21 final size:22
Alignment explanation
Indices: 18202--18292 Score: 57
Period size: 21 Copynumber: 4.2 Consensus size: 22
18192 TTAATGACTA
* *
18202 TATTTAAATATTTAA-AAT-AT
1 TATTTAAATAATTAATATTAAT
* * *
18222 AATTTATATAATCTAAT-TAAAT
1 TATTTAAATAAT-TAATATTAAT
18244 T-TTTAAATAATTAATATTAAT
1 TATTTAAATAATTAATATTAAT
* *
18265 TATTTAGAAATATTTAAAATTAA-
1 TATTT--AAATAATTAATATTAAT
18288 TATTT
1 TATTT
18293 CACATATTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
20 13 0.24
21 17 0.31
22 5 0.09
23 5 0.09
24 14 0.26
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (22 bp):
TATTTAAATAATTAATATTAAT
Found at i:18275 original size:24 final size:23
Alignment explanation
Indices: 18248--18292 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
18238 TTAAATTTTT
*
18248 AAATAATTAATATTAATTATTTAG
1 AAATAATTAAAATTAA-TATTTAG
*
18272 AAATATTTAAAATTAATATTT
1 AAATAATTAAAATTAATATTT
18293 CACATATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
AAATAATTAAAATTAATATTTAG
Found at i:21648 original size:29 final size:29
Alignment explanation
Indices: 21605--21661 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
21595 TGTTTGAAAA
21605 TTTTAAAATTCAGTTCCTATA-TTTTTAT
1 TTTTAAAATTCAGTTCCTATACTTTTTAT
* *
21633 TTTTAAGAATTTAGTTCCTTTACTTTTTA
1 TTTTAA-AATTCAGTTCCTATACTTTTTA
21662 AATTTCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.24
29 13 0.52
30 6 0.24
ACGTcount: A:0.26, C:0.11, G:0.05, T:0.58
Consensus pattern (29 bp):
TTTTAAAATTCAGTTCCTATACTTTTTAT
Found at i:22695 original size:6 final size:6
Alignment explanation
Indices: 22684--22711 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
22674 ATACACATGC
22684 ATATGT ATATGT ATATGT ATATGT ATAT
1 ATATGT ATATGT ATATGT ATATGT ATAT
22712 TACTTTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:38480 original size:28 final size:28
Alignment explanation
Indices: 38449--38503 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
38439 TATATCTAAA
*
38449 CTTTTTGAGGTCCAATTTGGTACTTAAG
1 CTTTTTGAGGTCCAATTTGGCACTTAAG
* *
38477 CTTTTTTAGGTTCAATTTGGCACTTAA
1 CTTTTTGAGGTCCAATTTGGCACTTAA
38504 ATTTATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.22, C:0.15, G:0.18, T:0.45
Consensus pattern (28 bp):
CTTTTTGAGGTCCAATTTGGCACTTAAG
Found at i:38628 original size:16 final size:18
Alignment explanation
Indices: 38607--38639 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
38597 CATTATTTTC
38607 AATTAA-TAAAA-TAAAT
1 AATTAATTAAAACTAAAT
38623 AATTAATTAAAACTAAA
1 AATTAATTAAAACTAAA
38640 AGTAATTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (18 bp):
AATTAATTAAAACTAAAT
Found at i:42964 original size:25 final size:25
Alignment explanation
Indices: 42928--43077 Score: 95
Period size: 23 Copynumber: 6.3 Consensus size: 25
42918 CACTAGCACG
42928 CTCT-TTATTTAGCAC-GTCTCGTGCT
1 CTCTGTTA-TTAGCACTGTCT-GTGCT
*
42953 CTCTGTTATTAGCACTGTGTGTGCT
1 CTCTGTTATTAGCACTGTCTGTGCT
* *
42978 CTCTG--ATTAGCACTTTGTGTGCT
1 CTCTGTTATTAGCACTGTCTGTGCT
* * *
43001 TTCTG--ATTAGCACTTTGTGTGCT
1 CTCTGTTATTAGCACTGTCTGTGCT
* * * *
43024 CTCTG--ATTAGTACTTTGTGTACT
1 CTCTGTTATTAGCACTGTCTGTGCT
* * *
43047 CTTTG-T-TTAGCACTGTGTATGCT
1 CTCTGTTATTAGCACTGTCTGTGCT
43070 CTCTGTTA
1 CTCTGTTA
43078 GTACTTTGGT
Statistics
Matches: 108, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
23 80 0.74
24 1 0.01
25 21 0.19
26 6 0.06
ACGTcount: A:0.13, C:0.21, G:0.20, T:0.46
Consensus pattern (25 bp):
CTCTGTTATTAGCACTGTCTGTGCT
Found at i:42986 original size:23 final size:23
Alignment explanation
Indices: 42948--43095 Score: 174
Period size: 23 Copynumber: 6.4 Consensus size: 23
42938 AGCACGTCTC
*
42948 GTGCTCTCTGTTATTAGCACTGTGT
1 GTGCTCTCTG--ATTAGCACTTTGT
42973 GTGCTCTCTGATTAGCACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
*
42996 GTGCTTTCTGATTAGCACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
*
43019 GTGCTCTCTGATTAGTACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
* * * *
43042 GTACTCTTTGTTTAGCACTGTGT
1 GTGCTCTCTGATTAGCACTTTGT
* *
43065 ATGCTCTCTG-TTAGTACTTTG-
1 GTGCTCTCTGATTAGCACTTTGT
*
43086 GTACTCTCTG
1 GTGCTCTCTG
43096 TTTGTTTCGT
Statistics
Matches: 107, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
21 8 0.07
22 9 0.08
23 80 0.75
25 10 0.09
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.46
Consensus pattern (23 bp):
GTGCTCTCTGATTAGCACTTTGT
Found at i:46446 original size:19 final size:19
Alignment explanation
Indices: 46435--46475 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
46425 TTATAGATTT
46435 TATATATTTTTAAAAATTC
1 TATATATTTTTAAAAATTC
* *
46454 TATTTATTTTTAGAATATTC
1 TATATATTTTTA-AAAATTC
46474 TA
1 TA
46476 AAAAAGAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (19 bp):
TATATATTTTTAAAAATTC
Found at i:46930 original size:31 final size:30
Alignment explanation
Indices: 46866--46937 Score: 90
Period size: 31 Copynumber: 2.4 Consensus size: 30
46856 TGTATATATG
* *
46866 AACTTTAATTTGGTGCAATTATATACGTGA
1 AACTTTAATTTGGTGCAAATATATACGTAA
* * *
46896 AACTCTAATTGTGGTTCAAATATATACTTAA
1 AACTTTAATT-TGGTGCAAATATATACGTAA
46927 AACTTTAATTT
1 AACTTTAATTT
46938 TGATTTAATC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 10 0.29
31 25 0.71
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (30 bp):
AACTTTAATTTGGTGCAAATATATACGTAA
Found at i:47715 original size:19 final size:18
Alignment explanation
Indices: 47679--47717 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
47669 AATATAAAGT
* *
47679 TTTTAAAAGAAAATATAA
1 TTTTAAAAAAAAAAATAA
47697 TTTTAAAAAAATAAAATAA
1 TTTTAAAAAAA-AAAATAA
47716 TT
1 TT
47718 GAAAAAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
TTTTAAAAAAAAAAATAA
Found at i:49694 original size:16 final size:17
Alignment explanation
Indices: 49670--49707 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
49660 CATTATATGG
*
49670 AAAACTAAA-TAAAATA
1 AAAAATAAATTAAAATA
*
49686 AAAAATAAATTAAACTA
1 AAAAATAAATTAAAATA
49703 AAAAA
1 AAAAA
49708 ACAAATAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAAATAAATTAAAATA
Found at i:49704 original size:22 final size:21
Alignment explanation
Indices: 49675--49715 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
49665 TATGGAAAAC
49675 TAAATAAAATAAA-AAATAAAT
1 TAAATAAAA-AAACAAATAAAT
49696 TAAACTAAAAAAACAAATAA
1 TAAA-TAAAAAAACAAATAA
49716 CTAAACCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.20
Consensus pattern (21 bp):
TAAATAAAAAAACAAATAAAT
Found at i:50092 original size:21 final size:20
Alignment explanation
Indices: 50059--50130 Score: 81
Period size: 21 Copynumber: 3.5 Consensus size: 20
50049 TTTAAAACAA
*
50059 ATTAAAAAGTTATAAAAATT
1 ATTAAAAAATTATAAAAATT
* *
50079 ATTAAATAAATTATTAACATT
1 ATTAAA-AAATTATAAAAATT
* *
50100 ATTCAAAAAGTATAAAAAATT
1 ATTAAAAAATTAT-AAAAATT
50121 ATTAAAAAAT
1 ATTAAAAAAT
50131 ATTTTTTTAA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
20 12 0.29
21 29 0.71
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (20 bp):
ATTAAAAAATTATAAAAATT
Found at i:54098 original size:3 final size:3
Alignment explanation
Indices: 54090--54122 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
54080 AGTGTTGCTT
54090 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
54123 GTGCAAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:54529 original size:22 final size:22
Alignment explanation
Indices: 54493--54546 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
54483 AAGTTGTAGA
* *
54493 TTTAATTT--TTATTTTTATAT
1 TTTAATTTGATTATTTTAAAAT
54513 TTTAATTTGATTATTTTAAAAT
1 TTTAATTTGATTATTTTAAAAT
*
54535 TTTTATTTGATT
1 TTTAATTTGATT
54547 GAGTTATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 8 0.28
22 21 0.72
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.69
Consensus pattern (22 bp):
TTTAATTTGATTATTTTAAAAT
Found at i:57471 original size:23 final size:23
Alignment explanation
Indices: 57427--57471 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
57417 TTTTTATTTA
57427 TTAAAATTTTTTATATAGTTATC
1 TTAAAATTTTTTATATAGTTATC
* *
57450 TTAATATTATTTTA-ATATTTAT
1 TTAAAATT-TTTTATATAGTTAT
57472 ATTAGAGTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
TTAAAATTTTTTATATAGTTATC
Found at i:73705 original size:21 final size:19
Alignment explanation
Indices: 73679--73725 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
73669 CATCCGAACA
*
73679 CAAAAAAATACTAATTTTTTT
1 CAAAAAAATA--AATTATTTT
73700 CAAAAAAATAAATTATTTT
1 CAAAAAAATAAATTATTTT
*
73719 CCAAAAA
1 CAAAAAA
73726 TCATTTTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 14 0.58
21 10 0.42
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (19 bp):
CAAAAAAATAAATTATTTT
Found at i:73713 original size:19 final size:21
Alignment explanation
Indices: 73679--73725 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
73669 CATCCGAACA
*
73679 CAAAAAAATACTAATT-TTTTT
1 CAAAAAAATAC-AATTATTTTC
73700 CAAAAAAATA-AATTATTTTC
1 CAAAAAAATACAATTATTTTC
73720 CAAAAA
1 CAAAAA
73726 TCATTTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 10 0.42
21 10 0.42
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (21 bp):
CAAAAAAATACAATTATTTTC
Found at i:85962 original size:25 final size:25
Alignment explanation
Indices: 85912--85962 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
85902 TTTTCGAAAA
* * *
85912 TTAAGAATTTAGTCTCTTTGTATTT
1 TTAAGAATTTAATCTCTCTATATTT
85937 TTAAGAAATTTAATCTCTCTAT-TTT
1 TTAAG-AATTTAATCTCTCTATATTT
85962 T
1 T
85963 CACATTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.55
Consensus pattern (25 bp):
TTAAGAATTTAATCTCTCTATATTT
Found at i:86502 original size:19 final size:18
Alignment explanation
Indices: 86452--86502 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
86442 TTAAAGATAA
86452 TTAATTATAATATTATTTTT
1 TTAA-TATAATA-TATTTTT
86472 TTAAT-TACATATATTTTT
1 TTAATATA-ATATATTTTT
*
86490 ATTAGTATAATAT
1 -TTAATATAATAT
86503 TAAATTTAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 9 0.33
19 12 0.44
20 6 0.22
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
TTAATATAATATATTTTT
Found at i:86547 original size:15 final size:15
Alignment explanation
Indices: 86500--86560 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
86490 ATTAGTATAA
* *
86500 TATTAAATTTAGTTT
1 TATTAAATTAATTTT
86515 T-TTAAATTTACATATTT
1 TATTAAA-TTA-AT-TTT
86532 TATTAAATTAATTTT
1 TATTAAATTAATTTT
* *
86547 TATTTAATAAATTT
1 TATTAAATTAATTT
86561 AGCTAACAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 5 0.13
15 18 0.47
16 3 0.08
17 7 0.18
18 5 0.13
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (15 bp):
TATTAAATTAATTTT
Found at i:114781 original size:16 final size:15
Alignment explanation
Indices: 114760--114789 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
114750 GAATTGTATT
114760 TTATTGAACAATTTAG
1 TTATTGAAC-ATTTAG
114776 TTATTGAACATTTA
1 TTATTGAACATTTA
114790 ATTTTTCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (15 bp):
TTATTGAACATTTAG
Found at i:120856 original size:72 final size:74
Alignment explanation
Indices: 120738--120883 Score: 224
Period size: 72 Copynumber: 2.0 Consensus size: 74
120728 GCAGATCTGC
*** *
120738 TCTGACATGCTTGCCCTTGCCAATCATTCCTGGAACTACCATTGGTATT-TTTTATTGAACCCAT
1 TCTGACATGCTTGCCCTTGCCAATCATTCCTGGAACTACCATTGGTATTCTAGCACTGAACCCAT
120802 TTGTTTCAG
66 TTGTTTCAG
* *
120811 TCTGACATGCTTG-CCTTGCCAATCATTCCTGGAACTGCCGTTGGTATTCTAGCACTGAACCCAT
1 TCTGACATGCTTGCCCTTGCCAATCATTCCTGGAACTACCATTGGTATTCTAGCACTGAACCCAT
120875 TTGTTTCAG
66 TTGTTTCAG
120884 GTTGACCAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 33 0.50
73 33 0.50
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (74 bp):
TCTGACATGCTTGCCCTTGCCAATCATTCCTGGAACTACCATTGGTATTCTAGCACTGAACCCAT
TTGTTTCAG
Found at i:130537 original size:210 final size:209
Alignment explanation
Indices: 130153--130568 Score: 656
Period size: 210 Copynumber: 2.0 Consensus size: 209
130143 TTTGGTCTCT
* *
130153 ACCTCTTTCTTCGTGCACGTGTGCAATGGATTCGAAGACAATCTCAAAGTTATGACGTTTCCATA
1 ACCTCTTTCTTCATGCACGTGTGCAATGGATTCGAAGACAATCTCAAAGTTATGACGTTCCCATA
*
130218 TTTTATAAACAGTGGGACCAAATAAACTTAACTCTAGGTCTCCAAATATTTGGATAGCGAGTTGC
66 TTTGATAAACAGTGGGACCAAATAAACTTAACTCTAGGTCTCCAAATATTTGGATAGCGAGTTG-
* * *
130283 AAGATAATAAACAAAGCGACAATTTAAAGGATTCATAGAAAGGAAAGGTAATATTCTTCAAAGTA
130 AAGACAATAAACAAAGCGACAATTTAAAAGATTCATAAAAAGGAAAGGTAATATTCTTCAAAGTA
130348 GGTTGAAGATAGTCA
195 GGTTGAAGATAGTCA
*
130363 ACCTC-TTCATTCATGCACGTGTGCAATGGATTCGAAGACAATCTCAAAGTTATGATGTTCCCAT
1 ACCTCTTTC-TTCATGCACGTGTGCAATGGATTCGAAGACAATCTCAAAGTTATGACGTTCCCAT
* * *
130427 ATTTGATATACAGTGGGACCATATAAACTTAACTCTAGGTCTCCAAATATTTGGATAGTGAGTT-
65 ATTTGATAAACAGTGGGACCAAATAAACTTAACTCTAGGTCTCCAAATATTTGGATAGCGAGTTG
* * * *
130491 AGAGACAATAACCAATGCGACAATTTAAAAGATCTGATAAAAAGGAAAGGTAATATTTTTCAAAG
130 A-AGACAATAAACAAAGCGACAATTTAAAAGAT-TCATAAAAAGGAAAGGTAATATTCTTCAAAG
130556 TAGGTTGAAGATA
193 TAGGTTGAAGATA
130569 TTCACCATTG
Statistics
Matches: 189, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
208 1 0.01
209 30 0.16
210 158 0.84
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (209 bp):
ACCTCTTTCTTCATGCACGTGTGCAATGGATTCGAAGACAATCTCAAAGTTATGACGTTCCCATA
TTTGATAAACAGTGGGACCAAATAAACTTAACTCTAGGTCTCCAAATATTTGGATAGCGAGTTGA
AGACAATAAACAAAGCGACAATTTAAAAGATTCATAAAAAGGAAAGGTAATATTCTTCAAAGTAG
GTTGAAGATAGTCA
Found at i:132326 original size:20 final size:19
Alignment explanation
Indices: 132291--132328 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
132281 AATAAAACAA
132291 TTAATAAATGTATAGGTTT
1 TTAATAAATGTATAGGTTT
132310 TTAATTAAAT-TATTAGGTT
1 TTAA-TAAATGTA-TAGGTT
132329 AAATTTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (19 bp):
TTAATAAATGTATAGGTTT
Found at i:134473 original size:16 final size:16
Alignment explanation
Indices: 134444--134476 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
134434 TTAAATTAGT
134444 TTTTTATTTAAAAATA
1 TTTTTATTTAAAAATA
134460 TTTTT-TTTACAAAATA
1 TTTTTATTTA-AAAATA
134476 T
1 T
134477 AATACTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTTATTTAAAAATA
Found at i:134721 original size:6 final size:6
Alignment explanation
Indices: 134710--134751 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
134700 TTAATGATTT
* *
134710 AATATA AATATA AAAATA AATACA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA
134752 TATAATTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (6 bp):
AATATA
Found at i:140297 original size:8 final size:8
Alignment explanation
Indices: 140286--140316 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
140276 GAAGTTTACT
*
140286 TCTCTCTC
1 TCTCTCCC
140294 TCTCTCCC
1 TCTCTCCC
140302 TCTCTCCC
1 TCTCTCCC
140310 TCTCTCC
1 TCTCTCC
140317 TTTAATGTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (8 bp):
TCTCTCCC
Found at i:141212 original size:16 final size:16
Alignment explanation
Indices: 141193--141223 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
141183 ATCTGAATTT
*
141193 AAAACTACTTGAACTC
1 AAAACGACTTGAACTC
141209 AAAACGACTTGAACT
1 AAAACGACTTGAACT
141224 TGAACTTACT
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:0.45, C:0.23, G:0.10, T:0.23
Consensus pattern (16 bp):
AAAACGACTTGAACTC
Found at i:141313 original size:16 final size:16
Alignment explanation
Indices: 141291--141330 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
141281 AACTTGAAAG
141291 ACTTGAACCCAAAACA
1 ACTTGAACCCAAAACA
*
141307 GCTTGAA-CCAAAACA
1 ACTTGAACCCAAAACA
141322 ACTTGAACC
1 ACTTGAACC
141331 TGGAACTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.45, C:0.30, G:0.10, T:0.15
Consensus pattern (16 bp):
ACTTGAACCCAAAACA
Found at i:142840 original size:21 final size:21
Alignment explanation
Indices: 142815--142861 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
142805 AATTATATAT
142815 GAAAATAATACATTAAATTAAA
1 GAAAATAATAC-TTAAATTAAA
* *
142837 -AAAATAATTCTTAATTTAAA
1 GAAAATAATACTTAAATTAAA
142857 GAAAA
1 GAAAA
142862 AATTAACTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (21 bp):
GAAAATAATACTTAAATTAAA
Found at i:142850 original size:20 final size:22
Alignment explanation
Indices: 142815--142865 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 22
142805 AATTATATAT
*
142815 GAAAATAATACATTAAATTAAA
1 GAAAATAATTCATTAAATTAAA
*
142837 -AAAATAATTC-TTAATTTAAA
1 GAAAATAATTCATTAAATTAAA
142857 GAAAA-AATT
1 GAAAATAATT
142866 AACTCAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (22 bp):
GAAAATAATTCATTAAATTAAA
Found at i:143831 original size:111 final size:111
Alignment explanation
Indices: 143702--143903 Score: 325
Period size: 111 Copynumber: 1.8 Consensus size: 111
143692 GTATGAAGGT
** *
143702 GAAGATTTTGGTGGTTTTGCTGCTCCTGGTGGTGTTTTACTAATGTATGGTCTTGGTGCAG-AAG
1 GAAGATTTTGGTGGTTTTGCCCCTCCTGGTGGTGTTTTACTAATGTATGGTCCTGGTGCAGCAA-
143766 CTGGCAGTGGTACTTTACCTGGTGGTGGCGAGTATGAAGGTGACGAC
65 CTGGCAGTGGTACTTTACCTGGTGGTGGCGAGTATGAAGGTGACGAC
* * *
143813 GAAGATTTTGGTGGTTTTGCCCCTGCTGGTGGTGTTTTGCTACTGTATGGTCCTGGTGCAGCAAC
1 GAAGATTTTGGTGGTTTTGCCCCTCCTGGTGGTGTTTTACTAATGTATGGTCCTGGTGCAGCAAC
*
143878 TGGCGGTGGTACTTTACCTGGTGGTG
66 TGGCAGTGGTACTTTACCTGGTGGTG
143904 ATTTTGGTGG
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
111 81 0.98
112 2 0.02
ACGTcount: A:0.14, C:0.15, G:0.35, T:0.35
Consensus pattern (111 bp):
GAAGATTTTGGTGGTTTTGCCCCTCCTGGTGGTGTTTTACTAATGTATGGTCCTGGTGCAGCAAC
TGGCAGTGGTACTTTACCTGGTGGTGGCGAGTATGAAGGTGACGAC
Found at i:143951 original size:18 final size:18
Alignment explanation
Indices: 143903--143955 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
143893 ACCTGGTGGT
*
143903 GATTTTGGTGGTGGAGGAA
1 GATTTTGGTGGT-GATGAA
* *
143922 -ATTGTGGAGGTGATGAA
1 GATTTTGGTGGTGATGAA
143939 GATTTTGGTGGTGATGA
1 GATTTTGGTGGTGATGA
143956 GGAGTGAGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 5 0.18
18 23 0.82
ACGTcount: A:0.23, C:0.00, G:0.43, T:0.34
Consensus pattern (18 bp):
GATTTTGGTGGTGATGAA
Found at i:144861 original size:5 final size:5
Alignment explanation
Indices: 144848--144877 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
144838 ATAATGATAC
*
144848 ATTTC ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA
144878 TTAACTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:147058 original size:20 final size:22
Alignment explanation
Indices: 147033--147072 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
147023 CTTCAAATAT
147033 ATAAATTTA-AAATA-AATAAG
1 ATAAATTTAGAAATATAATAAG
147053 ATAAATTTAGAAATATAATA
1 ATAAATTTAGAAATATAATA
147073 CTACAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 5 0.28
22 4 0.22
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (22 bp):
ATAAATTTAGAAATATAATAAG
Found at i:148486 original size:2 final size:2
Alignment explanation
Indices: 148450--148474 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
148440 TGTGCTTGTG
148450 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
148475 TTGTTGATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:150241 original size:60 final size:59
Alignment explanation
Indices: 150103--150271 Score: 186
Period size: 59 Copynumber: 2.9 Consensus size: 59
150093 AATATTTATA
* * * **
150103 TGAATTTGACACTTTTTTTT-A---GGTACTTAAACTTTTTTTGATCTAATTTGATATT
1 TGAATTTGACACTTTTTTTTAATTTAGTACTTAAACTTTTTTAGATCCAATTTGATAAC
*
150158 TGAATTTGACACTTTTTTTTAATTTAGTACTTAAACTTTTTTAGATCCAATTTGGTAAC
1 TGAATTTGACACTTTTTTTTAATTTAGTACTTAAACTTTTTTAGATCCAATTTGATAAC
* * * *
150217 TGAATTTGACA-TTTTTTTCCTAATTTGGTACCTAAGATTTTTTTAGATTCAATTT
1 TGAATTTGACACTTTTTTT--TAATTTAGTACTTAA-ACTTTTTTAGATCCAATTT
150272 TATACCTAAA
Statistics
Matches: 97, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
55 20 0.21
56 1 0.01
58 7 0.07
59 39 0.40
60 13 0.13
61 17 0.18
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.52
Consensus pattern (59 bp):
TGAATTTGACACTTTTTTTTAATTTAGTACTTAAACTTTTTTAGATCCAATTTGATAAC
Found at i:150484 original size:61 final size:60
Alignment explanation
Indices: 150419--150533 Score: 142
Period size: 61 Copynumber: 1.9 Consensus size: 60
150409 ATTAATATTA
150419 AAAAAGAATAAGTAGCAAATTAGAAGAAAAAAA-GTCAAGTTCAGGTACCAAATTGGACTAC
1 AAAAAGAATAAGTAGCAAATTA-AA-AAAAAAAGGTCAAGTTCAGGTACCAAATTGGACTAC
** * * * *
150480 AAAAAGTTTAAGTATCAACTTAAAAAAAAAAGTGTTAAGTTTAGGTACCAAATT
1 AAAAAGAATAAGTAGCAAATTAAAAAAAAAAG-GTCAAGTTCAGGTACCAAATT
150534 AAGAAAAAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
59 7 0.15
60 2 0.04
61 37 0.80
ACGTcount: A:0.51, C:0.10, G:0.16, T:0.23
Consensus pattern (60 bp):
AAAAAGAATAAGTAGCAAATTAAAAAAAAAAGGTCAAGTTCAGGTACCAAATTGGACTAC
Found at i:150544 original size:31 final size:31
Alignment explanation
Indices: 150506--150565 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
150496 AACTTAAAAA
*
150506 AAAAAGTGTTAAGTTT-AGGTACCAAATTAAG
1 AAAAAGTGTCAAGTTTGA-GTACCAAATTAAG
150537 AAAAAGTGTCAAGTTTGAGTACCAAATTA
1 AAAAAGTGTCAAGTTTGAGTACCAAATTA
150566 GACAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.28
Consensus pattern (31 bp):
AAAAAGTGTCAAGTTTGAGTACCAAATTAAG
Found at i:150587 original size:29 final size:28
Alignment explanation
Indices: 150547--150601 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
150537 AAAAAGTGTC
*
150547 AAGTTTGAGTACCAAATTAGACAAAAAAA
1 AAGTTTAAGTACCAAATTAGA-AAAAAAA
150576 AAGTTTAAGTACCAAATTAGAAAAAA
1 AAGTTTAAGTACCAAATTAGAAAAAA
150602 GTGCCATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.56, C:0.09, G:0.13, T:0.22
Consensus pattern (28 bp):
AAGTTTAAGTACCAAATTAGAAAAAAAA
Found at i:151122 original size:19 final size:21
Alignment explanation
Indices: 151098--151138 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
151088 CATTATTAAC
151098 AATTGAACT-TGAATTT-TGA
1 AATTGAACTCTGAATTTGTGA
*
151117 AATTGAATTCTGAATTTGTGA
1 AATTGAACTCTGAATTTGTGA
151138 A
1 A
151139 GAGTTTAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 7 0.37
21 4 0.21
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (21 bp):
AATTGAACTCTGAATTTGTGA
Found at i:151820 original size:31 final size:29
Alignment explanation
Indices: 151759--151871 Score: 106
Period size: 28 Copynumber: 3.9 Consensus size: 29
151749 GGGATTACAA
* * *
151759 TTTAAGTATCAACTTAA-AAAAAAGTCAAG
1 TTTAGGTATCAAATTAAGAAAAAA-TAAAG
*
151788 TTTAGGTTTCAAATTAAGAAAAAATATTAAG
1 TTTAGGTATCAAATTAAGAAAAAATA--AAG
*
151819 TTTAAGTATCAAATT-AGACAAAAA-AAAG
1 TTTAGGTATCAAATTAAGA-AAAAATAAAG
* *
151847 TTTAGGTACCAAATTAAAAAAAAAT
1 TTTAGGTATCAAATTAAGAAAAAAT
151872 GTCAAGTTCA
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
28 21 0.30
29 17 0.25
30 10 0.14
31 21 0.30
ACGTcount: A:0.53, C:0.07, G:0.11, T:0.29
Consensus pattern (29 bp):
TTTAGGTATCAAATTAAGAAAAAATAAAG
Found at i:151824 original size:60 final size:59
Alignment explanation
Indices: 151759--151871 Score: 149
Period size: 59 Copynumber: 1.9 Consensus size: 59
151749 GGGATTACAA
* ** *
151759 TTTAAGTATCAACTTA-A-AAAAAAGTCAAGTTTAGGTTTCAAATTAAGAAAAAATATTAAG
1 TTTAAGTATCAAATTAGACAAAAAA---AAGTTTAGGTACCAAATTAAAAAAAAATATTAAG
151819 TTTAAGTATCAAATTAGACAAAAAAAAGTTTAGGTACCAAATTAAAAAAAAAT
1 TTTAAGTATCAAATTAGACAAAAAAAAGTTTAGGTACCAAATTAAAAAAAAAT
151872 GTCAAGTTCA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
59 25 0.53
60 15 0.32
61 1 0.02
62 6 0.13
ACGTcount: A:0.53, C:0.07, G:0.11, T:0.29
Consensus pattern (59 bp):
TTTAAGTATCAAATTAGACAAAAAAAAGTTTAGGTACCAAATTAAAAAAAAATATTAAG
Found at i:155299 original size:22 final size:21
Alignment explanation
Indices: 155273--155313 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
155263 AAATCATTAA
*
155273 TCGACCTCCGATCGAATTAAGT
1 TCGACCACCGATCG-ATTAAGT
*
155295 TCGACCACTGATCGATTAA
1 TCGACCACCGATCGATTAA
155314 CCGTATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (21 bp):
TCGACCACCGATCGATTAAGT
Found at i:156901 original size:13 final size:13
Alignment explanation
Indices: 156885--156909 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
156875 TGACTTATGA
156885 TTTTGTTTTTGTT
1 TTTTGTTTTTGTT
156898 TTTTGTTTTTGT
1 TTTTGTTTTTGT
156910 CTTATGGGTT
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:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (13 bp):
TTTTGTTTTTGTT
Found at i:158672 original size:19 final size:21
Alignment explanation
Indices: 158648--158688 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
158638 CGTTATTAAC
158648 AATTGAACT-TGAATTT-TGA
1 AATTGAACTCTGAATTTGTGA
*
158667 AATTGAATTCTGAATTTGTGA
1 AATTGAACTCTGAATTTGTGA
158688 A
1 A
158689 GAGTTTAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 7 0.37
21 4 0.21
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (21 bp):
AATTGAACTCTGAATTTGTGA
Found at i:159231 original size:17 final size:18
Alignment explanation
Indices: 159211--159247 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
159201 CTTTAAAATG
159211 ATTACAAT-TTAAAAAAA
1 ATTACAATATTAAAAAAA
159228 ATTACAATAATTAAAAAAA
1 ATTACAAT-ATTAAAAAAA
159247 A
1 A
159248 CATCAACTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
19 10 0.56
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (18 bp):
ATTACAATATTAAAAAAA
Found at i:161039 original size:15 final size:15
Alignment explanation
Indices: 161019--161049 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
161009 TCCTTTCACC
161019 AAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAG
*
161034 AAAAAAGAAAAAAAG
1 AAAAAAAAAAAAAAG
161049 A
1 A
161050 GGAAATTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAAG
Found at i:174282 original size:10 final size:11
Alignment explanation
Indices: 174258--174286 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
174248 GCGGGTGTTG
174258 TGGTGGTGATA
1 TGGTGGTGATA
174269 TGGTGGTG-TA
1 TGGTGGTGATA
174279 TGGTGGTG
1 TGGTGGTG
174287 CAGAGGCTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.10, C:0.00, G:0.52, T:0.38
Consensus pattern (11 bp):
TGGTGGTGATA
Found at i:176668 original size:20 final size:21
Alignment explanation
Indices: 176643--176681 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
176633 TCATTCTGTA
176643 TTTTTTAATAT-TTTAATAAT
1 TTTTTTAATATCTTTAATAAT
*
176663 TTTTTTCATATCTTTAATA
1 TTTTTTAATATCTTTAATA
176682 TATAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTTAATATCTTTAATAAT
Found at i:179154 original size:38 final size:40
Alignment explanation
Indices: 179078--179155 Score: 99
Period size: 43 Copynumber: 1.9 Consensus size: 40
179068 AATTTACAAG
179078 TAAATTAATAAAATAAAAAGATACTTAGATACATTTTTAAAAA
1 TAAATTAATAAAATAAAAAGATAC-TA-ATACA-TTTTAAAAA
179121 TAAATTAATAAAATAAAAAAGATA-T-ATAC-TTTTAA
1 TAAATTAATAAAAT-AAAAAGATACTAATACATTTTAA
179156 TTACACTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
38 6 0.18
40 4 0.12
42 1 0.03
43 14 0.41
44 9 0.26
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (40 bp):
TAAATTAATAAAATAAAAAGATACTAATACATTTTAAAAA
Found at i:188141 original size:244 final size:242
Alignment explanation
Indices: 187679--188140 Score: 739
Period size: 242 Copynumber: 1.9 Consensus size: 242
187669 TTTTTGCCTG
* * *
187679 TTAGAATGGCTTCACGGGACATGAACAAATAATGAAAGTTCGTCAAACATATCTATACCAGCTGA
1 TTAGAAGGGCTTCACGGCACATGAACAAATAATGAAAGTTCATCAAACATATCTATACCAGCTGA
*
187744 CTCGAGGGGGAATTGTTAGACCTTAGCCAGTTTGTAAAACAACCCTACCGGTACTAGATCAGACA
66 CTCGAGGGGGAATTGTTAGACCTTAGCCAGTTTGT-AAACAACCCTACCGGCACTAGATCAGACA
* * * *
187809 GGAAGTCTATTGCTTAAACTAATGTTATTATTGTCAAGTATTGCTCTACAAACACCAAGGCAATT
130 GAAAGTCTATTGCTTAAACTAACGTTATTATTGTCAAGTACTGCTCTACAAACAACAAGGCAATT
187874 AGACAATGCTGCCCAAATATATATACACATATATTGCAAATCTGTCTA
195 AGACAATGCTGCCCAAATATATATACACATATATTGCAAATCTGTCTA
* *
187922 TTAGAAGGGCTTCACTGCACATGAACTAAATAATGGAAGTTCATCAAACATATCTATACCAGCTG
1 TTAGAAGGGCTTCACGGCACATGAAC-AAATAATGAAAGTTCATCAAACATATCTATACCAGCTG
* * * *
187987 ACTCGAGGGGGAATTGTTAGAGCTTAGCCAGTTTGT-AA-AACCCTACCCTGCAGTAGATCAGGC
65 ACTCGAGGGGGAATTGTTAGACCTTAGCCAGTTTGTAAACAACCCTA-CCGGCACTAGATCAGAC
* *
188050 AGAAAGTCTGTTGCTTAAACTAACGTTATTATTGTCATGTACTGCTCTACAAACAACAAGGCAAT
129 AGAAAGTCTATTGCTTAAACTAACGTTATTATTGTCAAGTACTGCTCTACAAACAACAAGGCAAT
188115 TAGACAATGCTGCCCAAATATATATA
194 TAGACAATGCTGCCCAAATATATATA
188141 TCAAATCTTC
Statistics
Matches: 201, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
241 7 0.03
242 100 0.50
243 23 0.11
244 71 0.35
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (242 bp):
TTAGAAGGGCTTCACGGCACATGAACAAATAATGAAAGTTCATCAAACATATCTATACCAGCTGA
CTCGAGGGGGAATTGTTAGACCTTAGCCAGTTTGTAAACAACCCTACCGGCACTAGATCAGACAG
AAAGTCTATTGCTTAAACTAACGTTATTATTGTCAAGTACTGCTCTACAAACAACAAGGCAATTA
GACAATGCTGCCCAAATATATATACACATATATTGCAAATCTGTCTA
Found at i:193624 original size:17 final size:19
Alignment explanation
Indices: 193588--193627 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
193578 AAAATACAAA
193588 TTTATTTTAATACCATTATT
1 TTTATTTTAATA-CATTATT
193608 TTTATTTT-ATA-ATTATT
1 TTTATTTTAATACATTATT
193625 TTT
1 TTT
193628 TATCACATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
19 3 0.15
20 8 0.40
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTATTTTAATACATTATT
Found at i:195227 original size:15 final size:14
Alignment explanation
Indices: 195207--195245 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
195197 TATATAAGGT
195207 TTTTATAAATTATTA
1 TTTTATAAATTA-TA
195222 TTTTATATAATTATA
1 TTTTATA-AATTATA
*
195237 TATTATAAA
1 TTTTATAAA
195246 AAAAGCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 15 0.68
16 5 0.23
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTTATAAATTATA
Found at i:200906 original size:24 final size:26
Alignment explanation
Indices: 200868--200915 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
200858 TCTACATGGG
200868 CATAATCTCTCATAT-TCATCATTTCT
1 CATAATCTCTCATATATCA-CATTTCT
200894 CATAAT-T-TCATATATCACATTT
1 CATAATCTCTCATATATCACATTT
200916 ACATTTCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (26 bp):
CATAATCTCTCATATATCACATTTCT
Found at i:204671 original size:47 final size:47
Alignment explanation
Indices: 204598--204691 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
204588 TCAATCATTC
204598 CCCATCATTGGTTGCTGATTGCTGGAGGTTTAAAAATAATTTTTTAG
1 CCCATCATTGGTTGCTGATTGCTGGAGGTTTAAAAATAATTTTTTAG
*
204645 CCCATCATTGGTTGCTGATTGTTGGAGGTTTAAAAATAATTTTTTAG
1 CCCATCATTGGTTGCTGATTGCTGGAGGTTTAAAAATAATTTTTTAG
204692 TATTTCAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (47 bp):
CCCATCATTGGTTGCTGATTGCTGGAGGTTTAAAAATAATTTTTTAG
Found at i:208721 original size:5 final size:5
Alignment explanation
Indices: 208711--208735 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
208701 GCAGAGTTCT
208711 TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC
208736 CATGTATGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:209322 original size:368 final size:366
Alignment explanation
Indices: 208603--210806 Score: 2200
Period size: 353 Copynumber: 6.1 Consensus size: 366
208593 TCTAAATCTG
** * * *
208603 AAAATGTTATTCCGAAATCTTACAT-TACCTTTAACAATGTGAGATTATTGAACTAGAAT-TTTA
1 AAAATGTTATTATGAAATCTTACATATACCTTTAACAATGTGAGATTATTGAACCA-TATCTTTC
* *** *
208666 TAAACCTAACAAATTTGAATGGCAAGAAAACATTTGCAGAGTTCTTTTTCTTTTCTTTTCTTTTC
65 TAAACCTAACAAATTTGAATGGCAAGAGAACATCAAC-GA-AT-TTTTTCTTTTCTTTTCTTTTC
* * * * * *
208731 TTTTCCATGTATGCGATTTCTTAAAACAACAAACACTTGCCT-AGGACATACAGACCAAATAGAC
127 TTTTTCACGTGTGCCATTCCTT-AAACAACAAGCACTTGCCTAAGG-CATACAGACCAAATAGAC
* * * *
208795 TCACATCACAATATTTCCATTAAAAAGAAAACGATAAATCTCTCGAAGTTATTAGATCTTAAAAT
190 TCACACCAC-CTATTTCCATTAAAAAGAAAACGACAAATCTCTCAAAGTTATTAGATCTT-AAAT
* * * * * *
208860 TTAGGGTGCT-ATTTGATTAA-AGAAAAATAAAATTATATCTGAAAACAGAATTATCGAAATATA
253 TTAGAGTG-TGATTTGGTTAAGAG-AAAATAAGATTATCTCTGATAACAGAATTATCGAAATGTA
*
208923 AAATTACTTATTACATTATTGGCTCAAAGTAATCTTTGAAATCCAAATATA
316 AAATTACTTATTACATTATGGGCTCAAAGTAATCTTTGAAATCCAAATATA
* * * *
208974 AAAATATTATTATGAAATTTTACATTACTACCTTTAACAACGTGAGATTATTAAACCATATCTTT
1 AAAATGTTATTATGAAATCTTACA-TA-TACCTTTAACAATGTGAGATTATTGAACCATATCTTT
* *
209039 CTAAACCTAATAAATTTGAATGGCAAGAGAGCATCAACGGAATTTTTTCTTTTCTTTTCTTTTCT
64 CTAAACCTAACAAATTTGAATGGCAAGAGAACATCAAC-GAATTTTTTCTTTTCTTTTCTTTTCT
* * * * *
209104 TTTTCACGTGTGCCTTTCCTT-AA-AACAAGCACTTGCTTAAGGCATATAAACCAGATAGACTCA
128 TTTTCACGTGTGCCATTCCTTAAACAACAAGCACTTGCCTAAGGCATACAGACCAAATAGACTCA
*
209167 CACCATCCTATTTCCATTAAAAAGAAAACGATAAATCTCTCAAAGTTATTAGATCTTAAATTTAG
193 CACCA-CCTATTTCCATTAAAAAGAAAACGACAAATCTCTCAAAGTTATTAGATCTTAAATTTAG
* * *
209232 AGTGTGATTTGATTAAGTGAAAATAAGATTATCTTTGATAACAGAATTATCGAAATGTAAAATTA
257 AGTGTGATTTGGTTAAGAGAAAATAAGATTATCTCTGATAACAGAATTATCGAAATGTAAAATTA
* * * * * *
209297 CTTATTAAATTGTAGGCTCAAAGTAATCTATGAAATTCAAATGTA
322 CTTATTACATTATGGGCTCAAAGTAATCTTTGAAATCCAAATATA
* * * * * *
209342 AAAATGTTATTCTAAAATCTTAAAT-TGCCTTTGAA-AATGTGATATTATTG----A-A----GC
1 AAAATGTTATTATGAAATCTTACATATACCTTT-AACAATGTGAGATTATTGAACCATATCTTTC
* *
209396 ----CC-AACAAATTTGAATGGCAAGAGAACATCAACAAAGTTCTTTCTTTTCTTTTC-TTTCTT
65 TAAACCTAACAAATTTGAATGGCAAGAGAACATCAACGAA-TTTTTTCTTTTCTTTTCTTTTCTT
* * * * * * *
209455 TTCCATGTGTGTCATTTCTTAAAACAACAAGCACTTGCCTAGGGCATACAGTCCGAATAGACTCA
129 TTTCACGTGTGCCATTCCTT-AAACAACAAGCACTTGCCTAAGGCATACAGACCAAATAGACTCA
* *
209520 CACCACTCTATTTCCATTAAAAAGAAAAATGACAAATCTCTCAAAGTTACTAGATCTTAAATTTA
193 CACCAC-CTATTTCCATTAAAAAG-AAAACGACAAATCTCTCAAAGTTATTAGATCTTAAATTTA
* * * *
209585 GAGTGTGATTTGGTT-A-CG-AAA-AA-A-TATCTTTGATAACATAATTATCGAAGTGTAAAATT
256 GAGTGTGATTTGGTTAAGAGAAAATAAGATTATCTCTGATAACAGAATTATCGAAATGTAAAATT
* * *
209644 ACTTATTACATCATGGGCTCAAAGTAATCTTTGAAATTCAAATGTA
321 ACTTATTACATTATGGGCTCAAAGTAATCTTTGAAATCCAAATATA
* **
209690 AAAATGTTATTCTGAAATCTTACAT-TACCTTTGGCAATGTGAGATTATTGAACCATATCTTTCT
1 AAAATGTTATTATGAAATCTTACATATACCTTTAACAATGTGAGATTATTGAACCATATCTTTCT
* * * *
209754 AAACCTAACAAATTTGAATGGCAAGAGAAAATGAACTAA---GTTCTTTTCTTTTCTTTTC----
66 AAACCTAACAAATTTGAATGGCAAGAGAACATCAACGAATTTTTTCTTTTCTTTTCTTTTCTTTT
* * *
209812 -CATGTGTGTCATTCCTTAAAACAACAAGCACTTGTCTAAGGCAT--AGACCAAATAGACTCATC
131 TCACGTGTGCCATTCCTT-AAACAACAAGCACTTGCCTAAGGCATACAGACCAAATAGACTCA-C
* * * * * *
209874 A-C-CCGATTTTCGTT--AAA-AAAA-TACAAATCTCTCAAAGTTACTAGATCTTAGATTTA-AG
194 ACCACCTATTTCCATTAAAAAGAAAACGACAAATCTCTCAAAGTTATTAGATCTTAAATTTAGA-
* *
209932 GTGTGATCTGGTTAAGAGAAAATAAGATTATCTCTGATAACAGAATTATCGAAATGTAAACTTAC
258 GTGTGATTTGGTTAAGAGAAAATAAGATTATCTCTGATAACAGAATTATCGAAATGTAAAATTAC
* * * *
209997 TTATTACATTATGAGCACAAAGTAATTTTTGAAATCCAAATGTA
323 TTATTACATTATGGGCTCAAAGTAATCTTTGAAATCCAAATATA
* * * *
210041 AAAATGTTTTTTTATGAAATCTTACAT-TACCTTTGACAATGTGAAATTATT-AAGCCATATTTT
1 AAAATG--TTATTATGAAATCTTACATATACCTTTAACAATGTGAGATTATTGAA-CCATATCTT
* * * **
210104 TATAAACCTAATAAATTTGAATGGCAAGA-AA-A-C-ATGAATAGATTTC-TTTCTTTTCTTTTC
63 TCTAAACCTAACAAATTTGAATGGCAAGAGAACATCAACGAAT-TTTTTCTTTTCTTTTCTTTTC
* * * *
210164 -TTTTC-C--AT-CCATTCCTTAAAACAACAAGCACTTGCCTAAGGCATGCAGATCAAATAAACT
127 TTTTTCACGTGTGCCATTCCTT-AAACAACAAGCACTTGCCTAAGGCATACAGACCAAATAGACT
* * * * * *
210224 TACACCACCCTATTTCCATTAAAAAGAAAATGACAAATCTTTTAAAGTTATTGGACCTTAAATTT
191 CACACCA-CCTATTTCCATTAAAAAGAAAACGACAAATCTCTCAAAGTTATTAGATCTTAAATTT
* * *
210289 AGGGTGTGATTTGGTTAAGAGAAAATAAGATTATCTCTAATAACATAATTATCGAAATGTAAAAT
255 AGAGTGTGATTTGGTTAAGAGAAAATAAGATTATCTCTGATAACAGAATTATCGAAATGTAAAAT
* * * *
210354 TACTTATTACATTATGGGTTCAGAGTAATCTTTGAAATCCACACAT-
320 TACTTATTACATTATGGGCTCAAAGTAATCTTTGAAATCCAAATATA
* * *
210400 AAAATGTTATTATAAAATCTTACAT-TATCTTTGACAATGTGAGATTATTGAACCATATCTTTCT
1 AAAATGTTATTATGAAATCTTACATATACCTTTAACAATGTGAGATTATTGAACCATATCTTTCT
* *
210464 AAACCTAACAAATTTGAATGGCAAGAGAACATAAACAGAGTTCTTTCTTTTCTTTTCTTTTCTTT
66 AAACCTAACAAATTTGAATGGCAAGAGAACATCAAC-GA----ATT-TTTTCTTTTCTTTTCTTT
* * * * * *
210529 TCTTTTCTTTCTCACGTGTGACAATCCTTAAAACATCAAGCACTTGTCTAGGGCATACAAACCAA
125 TC---T-TTT-TCACGTGTGCCATTCCTT-AAACAACAAGCACTTGCCTAAGGCATACAGACCAA
* * * ** * * *
210594 ATAAACTTACACCACCCTATTTCCATTAAAAAGAAAACAACAAATCT-T-TTATTTTTTAGATCG
184 ATAGACTCACACCA-CCTATTTCCATTAAAAAGAAAACGACAAATCTCTCAAAGTTATTAGATCT
* * * * *
210657 TGAATTTAAAGTGTGATTTGGTTAAGAAAAAATAATATTATCTCT-ATTAACAAAATTATCGAAA
248 TAAATTTAGAGTGTGATTTGGTTAAGAGAAAATAAGATTATCTCTGA-TAACAGAATTATCGAAA
* * * * * * *
210721 TATAAAATTACTTATTATATTATGGGCTTAAAGTAATATTTAAAACCCAAACATAA
312 TGTAAAATTACTTATTACATTATGGGCTCAAAGTAATCTTTGAAATCCAAATAT-A
210777 AAAATGTTATTATGAAATCTTACAT-TACCT
1 AAAATGTTATTATGAAATCTTACATATACCT
210807 CTGACAAGTT
Statistics
Matches: 1546, Mismatches: 202, Indels: 164
0.81 0.11 0.09
Matches are distributed among these distances:
344 1 0.00
345 45 0.03
346 5 0.00
347 1 0.00
348 123 0.08
349 6 0.00
350 34 0.02
351 127 0.08
352 74 0.05
353 139 0.09
354 106 0.07
356 11 0.01
357 75 0.05
358 20 0.01
359 15 0.01
360 125 0.08
361 4 0.00
362 32 0.02
365 18 0.01
366 7 0.00
367 16 0.01
368 120 0.08
369 84 0.05
370 6 0.00
371 20 0.01
372 41 0.03
373 5 0.00
374 65 0.04
375 109 0.07
376 2 0.00
377 110 0.07
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.35
Consensus pattern (366 bp):
AAAATGTTATTATGAAATCTTACATATACCTTTAACAATGTGAGATTATTGAACCATATCTTTCT
AAACCTAACAAATTTGAATGGCAAGAGAACATCAACGAATTTTTTCTTTTCTTTTCTTTTCTTTT
TCACGTGTGCCATTCCTTAAACAACAAGCACTTGCCTAAGGCATACAGACCAAATAGACTCACAC
CACCTATTTCCATTAAAAAGAAAACGACAAATCTCTCAAAGTTATTAGATCTTAAATTTAGAGTG
TGATTTGGTTAAGAGAAAATAAGATTATCTCTGATAACAGAATTATCGAAATGTAAAATTACTTA
TTACATTATGGGCTCAAAGTAATCTTTGAAATCCAAATATA
Found at i:210517 original size:5 final size:5
Alignment explanation
Indices: 210507--210538 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
210497 AACAGAGTTC
210507 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TT
210539 CTCACGTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTCT
Found at i:210524 original size:357 final size:359
Alignment explanation
Indices: 209398--210813 Score: 1535
Period size: 360 Copynumber: 3.9 Consensus size: 359
209388 ATTGAAGCCC
* *
209398 AACAAATTTGAATGGCAAGAGAACATCAACAAAGTTC-TTTCTTTTCTTTTCTTTCTTTTCCATG
1 AACAAATTTGAATGGCAAGAGAACATGAACAGAGTTCTTTTCTTTTC---T-TTTCTTTTCCA--
* * * * * * * *
209462 TGTGTCATTTCTTAAAACAACAAGCACTTGCCTAGGGCATACAGTCCGAATAGACTCACACCACT
60 --T-CCATTCCTTAAAACAACAAGCACTTGCCTAAGGCATACAGACCAAATAAACTTACACCACC
*
209527 CTATTTCCATTAAAAAGAAAAATGACAAATCTCTCAAAGTTACTAGATCTTAAATTTAGAGTGTG
122 CTATTTCCATTAAAAAG-AAAATGACAAATCTCTCAAAGTTACTAGATCTTAAATTTAAAGTGTG
* * * *
209592 ATTTGGTT-A-CG-AAA-AA-A-TATCTTTGATAACATAATTATCGAAGTGTAAAATTACTTATT
186 ATTTGGTTAAGAGAAAATAAGATTATCTCTAATAACATAATTATCGAAATGTAAAATTACTTATT
* * ** *
209651 ACATCATGGGCTCAAAGTAATCTTTGAAATTCAAATGTAAAAATGTTATTCTGAAATCTTACATT
251 ACATTATGGGCTCAAAGTAATCTTTGAAATCCAAACATAAAAATGTTATTATGAAATCTTACATT
*
209716 ACCTTTGGCAATGTGAGATTATTGAACCATATCTTTCTAAACCT
316 ACCTTTGACAATGTGAGATTATTGAACCATATCTTTCTAAACCT
* * * ***
209760 AACAAATTTGAATGGCAAGAGAAAATGAACTA-AGTTCTTTTCTTTTCTTTTCCATGTGTGT-CA
1 AACAAATTTGAATGGCAAGAGAACATGAAC-AGAGTTCTTTTCTTTTCTTTT-CTTTTCCATCCA
* * * * *
209823 TTCCTTAAAACAACAAGCACTTGTCTAAGGCAT--AGACCAAATAGAC-T-CATCACCCGATTTT
64 TTCCTTAAAACAACAAGCACTTGCCTAAGGCATACAGACCAAATAAACTTACACCACCCTATTTC
* * * *
209884 CGTT--AAA-AAAAT-ACAAATCTCTCAAAGTTACTAGATCTTAGATTTAAGGTGTGATCTGGTT
129 CATTAAAAAGAAAATGACAAATCTCTCAAAGTTACTAGATCTTAAATTTAAAGTGTGATTTGGTT
* * *
209945 AAGAGAAAATAAGATTATCTCTGATAACAGAATTATCGAAATGTAAACTTACTTATTACATTATG
194 AAGAGAAAATAAGATTATCTCTAATAACATAATTATCGAAATGTAAAATTACTTATTACATTATG
* * * ** *
210010 AGCACAAAGTAATTTTTGAAATCCAAATGTAAAAATGTTTTTTTATGAAATCTTACATTACCTTT
259 GGCTCAAAGTAATCTTTGAAATCCAAACATAAAAATG--TTATTATGAAATCTTACATTACCTTT
* * *
210075 GACAATGTGAAATTATT-AAGCCATATTTTTATAAACCT
322 GACAATGTGAGATTATTGAA-CCATATCTTTCTAAACCT
* * * *
210113 AATAAATTTGAATGGCAAGAAAACATGAATAGATTTC-TTTCTTTTCTTTTCTTTTCCATCCATT
1 AACAAATTTGAATGGCAAGAGAACATGAACAGAGTTCTTTTCTTTTCTTTTCTTTTCCATCCATT
* *
210177 CCTTAAAACAACAAGCACTTGCCTAAGGCATGCAGATCAAATAAACTTACACCACCCTATTTCCA
66 CCTTAAAACAACAAGCACTTGCCTAAGGCATACAGACCAAATAAACTTACACCACCCTATTTCCA
* * * * * **
210242 TTAAAAAGAAAATGACAAATCTTTTAAAGTTATTGGACCTTAAATTTAGGGTGTGATTTGGTTAA
131 TTAAAAAGAAAATGACAAATCTCTCAAAGTTACTAGATCTTAAATTTAAAGTGTGATTTGGTTAA
210307 GAGAAAATAAGATTATCTCTAATAACATAATTATCGAAATGTAAAATTACTTATTACATTATGGG
196 GAGAAAATAAGATTATCTCTAATAACATAATTATCGAAATGTAAAATTACTTATTACATTATGGG
* * * * *
210372 TTCAGAGTAATCTTTGAAATCCACACAT-AAAATGTTATTATAAAATCTTACATTATCTTTGACA
261 CTCAAAGTAATCTTTGAAATCCAAACATAAAAATGTTATTATGAAATCTTACATTACCTTTGACA
210436 ATGTGAGATTATTGAACCATATCTTTCTAAACCT
326 ATGTGAGATTATTGAACCATATCTTTCTAAACCT
*
210470 AACAAATTTGAATGGCAAGAGAACATAAACAGAGTTCTTTCTTTTCTTTTCTTTTCTTTTCTTTT
1 AACAAATTTGAATGGCAAGAGAACATGAACAGAG----TTCTTTTCTTTTCTTTTCTTTTC----
* * * * *
210535 CTTTCTCACGTGTGACAATCCTTAAAACATCAAGCACTTGTCTAGGGCATACAAACCAAATAAAC
58 C-ATC-CA----T-----TCCTTAAAACAACAAGCACTTGCCTAAGGCATACAGACCAAATAAAC
** ** * ** * *
210600 TTACACCACCCTATTTCCATTAAAAAGAAAACAACAAATCT-T-TTATTTTTTAGATCGTGAATT
112 TTACACCACCCTATTTCCATTAAAAAGAAAATGACAAATCTCTCAAAGTTACTAGATCTTAAATT
* * * * *
210663 TAAAGTGTGATTTGGTTAAGAAAAAATAATATTATCTCTATTAACAAAATTATCGAAATATAAAA
177 TAAAGTGTGATTTGGTTAAGAGAAAATAAGATTATCTCTAATAACATAATTATCGAAATGTAAAA
* * * * *
210728 TTACTTATTATATTATGGGCTTAAAGTAATATTTAAAACCCAAACATAAAAAATGTTATTATGAA
242 TTACTTATTACATTATGGGCTCAAAGTAATCTTTGAAATCCAAACAT-AAAAATGTTATTATGAA
*
210793 ATCTTACATTACCTCTGACAA
306 ATCTTACATTACCTTTGACAA
210814 GTTCTTTCTT
Statistics
Matches: 889, Mismatches: 120, Indels: 75
0.82 0.11 0.07
Matches are distributed among these distances:
345 45 0.05
346 6 0.01
347 1 0.00
348 6 0.01
349 2 0.00
350 14 0.02
351 82 0.09
352 61 0.07
353 85 0.10
354 43 0.05
355 1 0.00
356 15 0.02
357 84 0.09
358 5 0.01
359 14 0.02
360 129 0.15
361 3 0.00
362 52 0.06
363 10 0.01
366 1 0.00
367 2 0.00
368 2 0.00
372 1 0.00
375 110 0.12
376 1 0.00
377 114 0.13
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.35
Consensus pattern (359 bp):
AACAAATTTGAATGGCAAGAGAACATGAACAGAGTTCTTTTCTTTTCTTTTCTTTTCCATCCATT
CCTTAAAACAACAAGCACTTGCCTAAGGCATACAGACCAAATAAACTTACACCACCCTATTTCCA
TTAAAAAGAAAATGACAAATCTCTCAAAGTTACTAGATCTTAAATTTAAAGTGTGATTTGGTTAA
GAGAAAATAAGATTATCTCTAATAACATAATTATCGAAATGTAAAATTACTTATTACATTATGGG
CTCAAAGTAATCTTTGAAATCCAAACATAAAAATGTTATTATGAAATCTTACATTACCTTTGACA
ATGTGAGATTATTGAACCATATCTTTCTAAACCT
Found at i:213298 original size:2 final size:2
Alignment explanation
Indices: 213291--213315 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
213281 AGAAGGGAGG
213291 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
213316 CAAATTCCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:214194 original size:17 final size:17
Alignment explanation
Indices: 214174--214209 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
214164 AAATGATTTT
**
214174 TTTTTTAATTTTTTAAA
1 TTTTTTAAAATTTTAAA
214191 TTTTTTAAAATTTTAAA
1 TTTTTTAAAATTTTAAA
214208 TT
1 TT
214210 AGTAAAGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTTAAAATTTTAAA
Found at i:214534 original size:13 final size:13
Alignment explanation
Indices: 214516--214540 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
214506 GGCTTCACCA
214516 CTTCGTTCTGCTC
1 CTTCGTTCTGCTC
214529 CTTCGTTCTGCT
1 CTTCGTTCTGCT
214541 AAACCCTCCA
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:0.00, C:0.36, G:0.16, T:0.48
Consensus pattern (13 bp):
CTTCGTTCTGCTC
Found at i:219330 original size:22 final size:22
Alignment explanation
Indices: 219288--219330 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
219278 ATGAATATGT
*
219288 ATAATATAAAAATAATTAAAAG
1 ATAATATAAAAATAATGAAAAG
219310 ATAATAATAAAAAT-ATGAAAA
1 ATAAT-ATAAAAATAATGAAAA
219331 TTGGGCTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (22 bp):
ATAATATAAAAATAATGAAAAG
Found at i:221242 original size:21 final size:21
Alignment explanation
Indices: 221195--221244 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
221185 ATCATCTCCA
*
221195 TCTTCTTCAGTGTCATCTTAT
1 TCTTCTTCAGTGTCAACTTAT
* *
221216 TATTCTTCAGCT-TCAACTTCT
1 TCTTCTTCAG-TGTCAACTTAT
221237 TCTTCTTC
1 TCTTCTTC
221245 TTCTTCTCCG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.14, C:0.28, G:0.06, T:0.52
Consensus pattern (21 bp):
TCTTCTTCAGTGTCAACTTAT
Found at i:228300 original size:2 final size:2
Alignment explanation
Indices: 228293--228322 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
228283 AAGATTTAAC
228293 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
228323 TCAAATTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:231480 original size:25 final size:25
Alignment explanation
Indices: 231451--231516 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 25
231441 ATACTACTCT
*
231451 AATGAAAATATTAAAATAATATTA-
1 AATGAAAATATTAAAATAAAATTAC
*
231475 AGATGAATATA-TAAAA-AAAATTAC
1 A-ATGAAAATATTAAAATAAAATTAC
*
231499 AATAAAAATATATAAAAT
1 AATGAAAATAT-TAAAAT
231517 TATTAAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
23 13 0.39
24 7 0.21
25 13 0.39
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (25 bp):
AATGAAAATATTAAAATAAAATTAC
Found at i:231562 original size:10 final size:10
Alignment explanation
Indices: 231486--231563 Score: 50
Period size: 10 Copynumber: 7.4 Consensus size: 10
231476 GATGAATATA
*
231486 TAAAAAAAAT
1 TAAATAAAAT
*
231496 TACAATAAAAA
1 TA-AATAAAAT
*
231507 TATATAAAAT
1 TAAATAAAAT
*
231517 T-ATTAAATAT
1 TAAATAAA-AT
*
231527 TAAATTAAAT
1 TAAATAAAAT
*
231537 TAATATAAATGTT
1 TAA-ATAAA--AT
231550 TAAATAAAAT
1 TAAATAAAAT
231560 TAAA
1 TAAA
231564 AATAATATGT
Statistics
Matches: 51, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
9 4 0.08
10 22 0.43
11 16 0.31
12 5 0.10
13 4 0.08
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (10 bp):
TAAATAAAAT
Found at i:232861 original size:16 final size:18
Alignment explanation
Indices: 232840--232873 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
232830 GACACCTATG
232840 TATTTT-TTTA-ATACGA
1 TATTTTATTTATATACGA
232856 TATTTTATTTATATACGA
1 TATTTTATTTATATACGA
232874 AAATACGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 4 0.25
18 6 0.38
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (18 bp):
TATTTTATTTATATACGA
Found at i:233072 original size:59 final size:61
Alignment explanation
Indices: 232910--233124 Score: 243
Period size: 59 Copynumber: 3.7 Consensus size: 61
232900 TGGTGTTGGC
* * *
232910 CATTTCATGGCCGACA-TCCTTTTTT-TTCAGATAAAAAATTCAA-TTTTTTT-TGTAGGT
1 CATTGCATGGCTGACACCCCTTTTTTATTCAGATAAAAAATTCAATTTTTTTTGTGTAGGT
*
232967 CATTGCATGG-TCGACACCCCTTTTTTA-TCAGATAAAAAATTCAATTTTTTTTGTGTTGGT
1 CATTGCATGGCT-GACACCCCTTTTTTATTCAGATAAAAAATTCAATTTTTTTTGTGTAGGT
* * * * *
233027 TATTGCATGGCTGAAACCCCTTTTTTATTTAG-TAAAAAA-TGAATTTTTTTTGTGTCGGT
1 CATTGCATGGCTGACACCCCTTTTTTATTCAGATAAAAAATTCAATTTTTTTTGTGTAGGT
* *
233086 CATTGCATGGCAGACACCTCC-TTTTT-GTCAGATAAAAAA
1 CATTGCATGGCTGACACC-CCTTTTTTATTCAGATAAAAAA
233125 ATTTAAATCT
Statistics
Matches: 135, Mismatches: 14, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
57 13 0.10
58 28 0.21
59 52 0.39
60 38 0.28
61 4 0.03
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (61 bp):
CATTGCATGGCTGACACCCCTTTTTTATTCAGATAAAAAATTCAATTTTTTTTGTGTAGGT
Found at i:233111 original size:119 final size:119
Alignment explanation
Indices: 232927--233156 Score: 299
Period size: 119 Copynumber: 1.9 Consensus size: 119
232917 TGGCCGACAT
232927 CCTTTTTTTTCAGATAAAAAATTCAATTTTTTTTGTAGGTCATTGCATGGTCGACACCCCTTTTT
1 CCTTTTTTTTCAGATAAAAAATTCAATTTTTTTTGTAGGTCATTGCATGGTCGACACCCCTTTTT
* * * *
232992 TATCAGAT-AAAAAATTCAATTTTTTTTGTGTTGGTTATTGCATGGCTGAAACC
66 TATCAGATAAAAAAATTCAAATCTTTTAGTGTTAGTTATTGCATGGCTGAAACC
* * *
233045 CCTTTTTTATTTAG-TAAAAAA-TGAATTTTTTTTGTGTCGGTCATTGCATGG-CAGACACCTCC
1 CCTTTTTT-TTCAGATAAAAAATTCAA-TTTTTTT-TGTAGGTCATTGCATGGTC-GACACC-CC
* *
233107 -TTTTTGTCAGATAAAAAAATTTAAATCTTTTAGTGTTAGTTATTGCATGG
61 TTTTTTATCAGATAAAAAAATTCAAATCTTTTAGTGTTAGTTATTGCATGG
233157 TCGACACCAC
Statistics
Matches: 97, Mismatches: 9, Indels: 10
0.84 0.08 0.09
Matches are distributed among these distances:
117 3 0.03
118 23 0.24
119 37 0.38
120 34 0.35
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (119 bp):
CCTTTTTTTTCAGATAAAAAATTCAATTTTTTTTGTAGGTCATTGCATGGTCGACACCCCTTTTT
TATCAGATAAAAAAATTCAAATCTTTTAGTGTTAGTTATTGCATGGCTGAAACC
Found at i:233225 original size:63 final size:60
Alignment explanation
Indices: 232902--233482 Score: 359
Period size: 60 Copynumber: 9.5 Consensus size: 60
232892 AAAAAATTTG
* * ** * *
232902 GTGTTGGCCATTTCATGGCCGACATCC-TTTTTTTTCAGAT-AAAAAATTC-AATTTTTTT
1 GTGTTGGCCATTGCATTGCCGACA-CCACCTTTTATCTGATAAAAAAATTCAAATTTTTTT
* * * * * *
232960 -TGTAGGTCATTGCATGGTCGACACC-CCTTTTTTATCAGAT-AAAAAATTCAATTTTTTTT
1 GTGTTGGCCATTGCATTGCCGACACCACC--TTTTATCTGATAAAAAAATTCAAATTTTTTT
** * * * * * *
233019 GTGTTGGTTATTGCATGGCTGAAACC-CCTTTTTTAT-TTAGT-AAAAAA-TGAATTTTTTTT
1 GTGTTGGCCATTGCATTGCCGACACCACC--TTTTATCTGA-TAAAAAAATTCAAATTTTTTT
* * * * * * * * * *
233078 GTGTCGGTCATTGCATGGCAGACACCTCCTTTTTGTCAGATAAAAAAATTTAAATCTTTTA
1 GTGTTGGCCATTGCATTGCCGACACCACC-TTTTATCTGATAAAAAAATTCAAATTTTTTT
* ** * * * *
233139 GTGTTAGTTATTGCATGGTCGACACCACCTTTTCAATATGATAAAAAAATTCAAAATTTTTT
1 GTGTTGGCCATTGCATTGCCGACACCACCTTTT--ATCTGATAAAAAAATTCAAATTTTTTT
* * * *
233201 GCTATTGACCATTGCATTGCCGACACCACGTTTTATCTAATAAAAAAAATT-AAATTTTTTT
1 G-TGTTGGCCATTGCATTGCCGACACCACCTTTTATCTGAT-AAAAAAATTCAAATTTTTTT
* * *
233262 GTGTTGGCCA-TGCATTGATCGACACCACCTATTATCTGATAAAAAAA-TCAATTTTTTTTT
1 GTGTTGGCCATTGCATTG-CCGACACCACCTTTTATCTGATAAAAAAATTCAA-ATTTTTTT
*
233322 GTGTTGGCCATGCATTGGCCTTGGCCGACACCACCTTTTTATCTGATAAAAAAAATTCAAATATT
1 GTGTTGG-C---CATT-GCATT-GCCGACACCACC-TTTTATCTGAT-AAAAAAATTCAAAT-TT
233387 TTTT
57 TTTT
* * *
233391 GTGTTGGTCA-TGCATTGGTCGACACCACATTTTTATCTGA-AAAAAAATTC-AATTTTTTT
1 GTGTTGGCCATTGCATT-GCCGACACCAC-CTTTTATCTGATAAAAAAATTCAAATTTTTTT
* *
233450 GGTGTTGGCCATTAC-TTGACCGACACCAACTTT
1 -GTGTTGGCCATTGCATTG-CCGACACCACCTTT
233483 CCCTCATTTT
Statistics
Matches: 421, Mismatches: 71, Indels: 61
0.76 0.13 0.11
Matches are distributed among these distances:
56 2 0.00
57 19 0.05
58 20 0.05
59 75 0.18
60 111 0.26
61 59 0.14
62 30 0.07
63 49 0.12
64 3 0.01
65 3 0.01
66 14 0.03
67 11 0.03
68 8 0.02
69 17 0.04
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.40
Consensus pattern (60 bp):
GTGTTGGCCATTGCATTGCCGACACCACCTTTTATCTGATAAAAAAATTCAAATTTTTTT
Found at i:233403 original size:129 final size:126
Alignment explanation
Indices: 233219--233461 Score: 364
Period size: 129 Copynumber: 1.9 Consensus size: 126
233209 CCATTGCATT
233219 GCCGACACCACGTTTTATCTAATAAAAAAAATTAAATTTTTTTGTGTTGGCCATGCATTGATCGA
1 GCCGACACCACGTTTTATCTAATAAAAAAAATTAAATTTTTTTGTGTTGGCCATGCATTGATCGA
*
233284 CACCAC-CTATTATCTGATAAAAAAA-TCAATTTTTTTTTGTGTTGGCCATGCATTGGCCTTG
66 CACCACACTATTATCTGA-AAAAAAATTCAA-TTTTTTTGGTGTTGGCCATGCATTGGCCTTG
* * * *
233345 GCCGACACCACCTTTTTATCTGATAAAAAAAATTCAAATATTTTTTGTGTTGGTCATGCATTGGT
1 GCCGACACCA-CGTTTTATCTAATAAAAAAAATT-AAAT-TTTTTTGTGTTGGCCATGCATTGAT
* *
233410 CGACACCACATTTTTATCTGAAAAAAAATTCAATTTTTTTGGTGTTGGCCAT
63 CGACACCACACTATTATCTGAAAAAAAATTCAATTTTTTTGGTGTTGGCCAT
233462 TACTTGACCG
Statistics
Matches: 105, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
126 10 0.10
127 21 0.20
128 4 0.04
129 57 0.54
130 13 0.12
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.38
Consensus pattern (126 bp):
GCCGACACCACGTTTTATCTAATAAAAAAAATTAAATTTTTTTGTGTTGGCCATGCATTGATCGA
CACCACACTATTATCTGAAAAAAAATTCAATTTTTTTGGTGTTGGCCATGCATTGGCCTTG
Found at i:234436 original size:30 final size:30
Alignment explanation
Indices: 234320--234436 Score: 164
Period size: 30 Copynumber: 3.9 Consensus size: 30
234310 AAAAAATAAT
* *
234320 AATTAGAAATAAAATTTAAAATATAAACGA
1 AATTACAAATTAAATTTAAAATATAAACGA
*
234350 AATTACAAATTAAAATTAAAATATACAA-GA
1 AATTACAAATTAAATTTAAAATATA-AACGA
*
234380 AATTAGAAATTAAATTTAAAATATAAACGA
1 AATTACAAATTAAATTTAAAATATAAACGA
* *
234410 AATTACAAATTAAATTAAAAAAATAAA
1 AATTACAAATTAAATTTAAAATATAAA
234437 TGGAAAAAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
29 2 0.03
30 73 0.95
31 2 0.03
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.27
Consensus pattern (30 bp):
AATTACAAATTAAATTTAAAATATAAACGA
Found at i:236078 original size:60 final size:59
Alignment explanation
Indices: 235932--236274 Score: 230
Period size: 60 Copynumber: 5.8 Consensus size: 59
235922 ATTATTTTGT
*
235932 TAGATTAAAAAGGTGGTGTCGGCCATGCAATGACCT-ACACA-AAAAAATTTTAATTTTTTATC
1 TAGATAAAAAAGG-GGTGTCGGCCATGCAATGA-CTAACACACAAAAAA--TTAATTTTTTA-C
* * *
235994 T-GA-CAAAAAGAGGTGTCGGCCATGCAATGACTAACACACAAAAAATTAATGTTTTAC
1 TAGATAAAAAAGGGGTGTCGGCCATGCAATGACTAACACACAAAAAATTAATTTTTTAC
* *
236051 TAGATAAAAAACGGGGTGTCGGTCATGCAATGA-T--CATCACTAAAAAATTTGAATATTTTA-
1 TAGATAAAAAA-GGGGTGTCGGCCATGCAATGACTAACA-CAC-AAAAAA-TT-AATTTTTTAC
* ** * * *
236111 TATGA-CAAAAAGAGAATGTCGGCCATGCAATGACCAATAC-CAAAAAAATTGATTTTTTAC
1 TA-GATAAAAAAG-GGGTGTCGGCCATGCAATGACTAACACAC-AAAAAATTAATTTTTTAC
* * * * *
236171 CAGATAAAAATGGGGGTGTCGCCCATGCAATGACAAACAC-CAAAAAATTTGAATATTTTATC
1 TAGATAAAAA-AGGGGTGTCGGCCATGCAATGACTAACACACAAAAAA-TT-AATTTTTTA-C
* * * *
236233 TA-ACAAAAAA-GAGTATCGACCATGCAATGA-TCAACAC-CAAAA
1 TAGATAAAAAAGGGGTGTCGGCCATGCAATGACT-AACACACAAAA
236275 TTTTTTTTAT
Statistics
Matches: 227, Mismatches: 33, Indels: 45
0.74 0.11 0.15
Matches are distributed among these distances:
57 4 0.02
58 17 0.07
59 79 0.35
60 89 0.39
61 33 0.15
62 4 0.02
63 1 0.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.25
Consensus pattern (59 bp):
TAGATAAAAAAGGGGTGTCGGCCATGCAATGACTAACACACAAAAAATTAATTTTTTAC
Found at i:236078 original size:119 final size:117
Alignment explanation
Indices: 235932--236468 Score: 408
Period size: 120 Copynumber: 4.6 Consensus size: 117
235922 ATTATTTTGT
* * *
235932 TAGATTAAAAAGGTGGTGTCGGCCATGCAATGACCTACACAAAAAAATTTTAATTTTTTATCTGA
1 TAGATAAAAAAGG-GGTGTCGGCCATGCAATGACC-ACACAAAAAAATTTGAATATTTTATCTGA
235997 CAAAAAGAG-GTGTCGGCCATGCAATGACTAACACACAAAAAATTAATGTTTTAC
64 CAAAAAGAGAGTGTCGGCCATGCAATGACTAACAC-CAAAAAATTAATGTTTTAC
* * * *
236051 TAGATAAAAAACGGGGTGTCGGTCATGCAATGATCATCACTAAAAAATTTGAATATTTTATATGA
1 TAGATAAAAAA-GGGGTGTCGGCCATGCAATGACCA-CACAAAAAAATTTGAATATTTTATCTGA
* * * * *
236116 CAAAAAGAGAATGTCGGCCATGCAATGACCAATACCAAAAAAATTGATTTTTTAC
64 CAAAAAGAGAGTGTCGGCCATGCAATGACTAACACC-AAAAAATTAATGTTTTAC
* * * * * *
236171 CAGATAAAAATGGGGGTGTCGCCCATGCAATGACAAACACCAAAAAATTTGAATATTTTATCTAA
1 TAGATAAAAA-AGGGGTGTCGGCCATGCAATGAC-CACACAAAAAAATTTGAATATTTTATCTGA
* * *
236236 CAAAAA-AGAGTATCGACCATGCAATGA-TCAACACC--AAAATT--TTTTTTATC
64 CAAAAAGAGAGTGTCGGCCATGCAATGACT-AACACCAAAAAATTAATGTTTTA-C
*** * **
236286 T-GATAAAAAAATACTAGTGTCAGGCAATGC-ATGACCA-ACACTTAAAA----AA-A-TTTATC
1 TAGAT--AAAAA-AGGGGTGTC-GGCCATGCAATGACCACACA-AAAAAATTTGAATATTTTATC
* * * * * * *
236342 TAACAAAAAGAGA-TGTCGACAATGGAATG-GTCCACACCAAAAAATTAATTTTTTAC
61 TGACAAAAAGAGAGTGTCGGCCATGCAATGACT-AACACCAAAAAATTAATGTTTTAC
* **** * * *
236398 CAGATAAAAAAGGAGGTGTCAATTATGCAATGGCCAACACAAAAAAAATTGAATTTTTTATCTGA
1 TAGATAAAAAAGG-GGTGTCGGCCATGCAATGACC-ACACAAAAAAATTTGAATATTTTATCTGA
236463 CAAAAA
64 CAAAAA
236469 AGGCATGACC
Statistics
Matches: 335, Mismatches: 54, Indels: 59
0.75 0.12 0.13
Matches are distributed among these distances:
109 35 0.10
110 9 0.03
111 23 0.07
112 6 0.02
113 13 0.04
114 12 0.04
115 6 0.02
116 24 0.07
117 6 0.02
118 15 0.04
119 86 0.26
120 99 0.30
121 1 0.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.26
Consensus pattern (117 bp):
TAGATAAAAAAGGGGTGTCGGCCATGCAATGACCACACAAAAAAATTTGAATATTTTATCTGACA
AAAAGAGAGTGTCGGCCATGCAATGACTAACACCAAAAAATTAATGTTTTAC
Found at i:236187 original size:120 final size:118
Alignment explanation
Indices: 235937--236274 Score: 412
Period size: 120 Copynumber: 2.8 Consensus size: 118
235927 TTTGTTAGAT
* * * *
235937 TAAAAAGGTGGTGTCGGCCATGCAATGACCTACACAAAAAAATTTTAATTTTTTATCTGACAAAA
1 TAAAAAGGGGGTGTCGGCCATGCAATGACAT-CACAAAAAAATTTGAATATTTTATCTGACAAAA
* *
236002 AGAG-GTGTCGGCCATGCAATGACTAACA-CACAAAAAATTAATGTTTTACTAGA
65 AGAGAGTGTCGGCCATGCAATGACCAACACCA-AAAAAATTAATGTTTTACCAGA
* * * *
236055 TAAAAAACGGGGTGTCGGTCATGCAATGATCATCACTAAAAAATTTGAATATTTTATATGACAAA
1 T-AAAAAGGGGGTGTCGGCCATGCAATGA-CATCACAAAAAAATTTGAATATTTTATCTGACAAA
* * * *
236120 AAGAGAATGTCGGCCATGCAATGACCAATACCAAAAAAATTGATTTTTTACCAGA
64 AAGAGAGTGTCGGCCATGCAATGACCAACACCAAAAAAATTAATGTTTTACCAGA
* * * *
236175 TAAAAATGGGGGTGTCGCCCATGCAATGACAAACACCAAAAAATTTGAATATTTTATCTAACAAA
1 TAAAAA-GGGGGTGTCGGCCATGCAATGAC-ATCACAAAAAAATTTGAATATTTTATCTGACAAA
* * *
236240 AA-AGAGTATCGACCATGCAATGATCAACACCAAAA
64 AAGAGAGTGTCGGCCATGCAATGACCAACACCAAAA
236275 TTTTTTTTAT
Statistics
Matches: 188, Mismatches: 26, Indels: 11
0.84 0.12 0.05
Matches are distributed among these distances:
118 1 0.01
119 91 0.48
120 94 0.50
121 2 0.01
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (118 bp):
TAAAAAGGGGGTGTCGGCCATGCAATGACATCACAAAAAAATTTGAATATTTTATCTGACAAAAA
GAGAGTGTCGGCCATGCAATGACCAACACCAAAAAAATTAATGTTTTACCAGA
Found at i:236644 original size:16 final size:18
Alignment explanation
Indices: 236611--236644 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
236601 TTTCGTATTT
236611 TCGTATATAAATAAAATA
1 TCGTATATAAATAAAATA
236629 TCGTAT-TAAA-AAAATA
1 TCGTATATAAATAAAATA
236645 CATAGGTGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 4 0.25
18 6 0.38
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (18 bp):
TCGTATATAAATAAAATA
Found at i:247356 original size:30 final size:30
Alignment explanation
Indices: 247316--247385 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
247306 CAATGGTAAA
*
247316 AGGGCTAAAGTGAGAACTTCACTATAGTAC
1 AGGGCCAAAGTGAGAACTTCACTATAGTAC
* ***
247346 AGGGCCAAAGTGAGAATTTTGTTATAGTAC
1 AGGGCCAAAGTGAGAACTTCACTATAGTAC
247376 ATGGGCCAAA
1 A-GGGCCAAA
247386 ACAAGTTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 26 0.76
31 8 0.24
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (30 bp):
AGGGCCAAAGTGAGAACTTCACTATAGTAC
Found at i:252353 original size:24 final size:24
Alignment explanation
Indices: 252317--252383 Score: 57
Period size: 24 Copynumber: 2.8 Consensus size: 24
252307 AATAAAAACA
* * *
252317 TAAAATTTTAAAATTATAATTTTT
1 TAAAATATAAAAATTATAATTTCT
**
252341 TAAAATATAAAAAAAATCATATTTCT
1 TAAAATATAAAAATTAT-A-ATTTCT
252367 T-AAA-ATAAAAATTATAA
1 TAAAATATAAAAATTATAA
252384 AAAACAAACT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
22 1 0.03
23 1 0.03
24 22 0.65
25 4 0.12
26 6 0.18
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (24 bp):
TAAAATATAAAAATTATAATTTCT
Found at i:252364 original size:26 final size:26
Alignment explanation
Indices: 252326--252377 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
252316 ATAAAATTTT
* *
252326 AAAATTATAATTTTTTAAAATATAAAA
1 AAAATCATAATTTCTTAAAATA-AAAA
252353 AAAATCAT-ATTTCTTAAAATAAAAA
1 AAAATCATAATTTCTTAAAATAAAAA
252378 TTATAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 4 0.17
26 12 0.52
27 7 0.30
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (26 bp):
AAAATCATAATTTCTTAAAATAAAAA
Found at i:252880 original size:30 final size:30
Alignment explanation
Indices: 252829--252893 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
252819 CGAAGTTAAA
*
252829 TTATAATTTTTACAGGATTAAA-TCAAAATT
1 TTATCATTTTTACAGGATTAAAGT-AAAATT
* *
252859 TTATCATTTTTA-AGGGGTTAAAGTATAATT
1 TTATCATTTTTACA-GGATTAAAGTAAAATT
252889 TTATC
1 TTATC
252894 TTTAGTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 1 0.03
30 28 0.93
31 1 0.03
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.46
Consensus pattern (30 bp):
TTATCATTTTTACAGGATTAAAGTAAAATT
Found at i:256095 original size:34 final size:34
Alignment explanation
Indices: 256053--256128 Score: 152
Period size: 34 Copynumber: 2.2 Consensus size: 34
256043 TTTTCTTTTC
256053 TTTCCTTCACCTCTCTCTCCCTTCTCCCACGTTT
1 TTTCCTTCACCTCTCTCTCCCTTCTCCCACGTTT
256087 TTTCCTTCACCTCTCTCTCCCTTCTCCCACGTTT
1 TTTCCTTCACCTCTCTCTCCCTTCTCCCACGTTT
256121 TTTCCTTC
1 TTTCCTTC
256129 CTCCTCTCCC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.05, C:0.46, G:0.03, T:0.46
Consensus pattern (34 bp):
TTTCCTTCACCTCTCTCTCCCTTCTCCCACGTTT
Found at i:263583 original size:29 final size:31
Alignment explanation
Indices: 263539--263597 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
263529 ACCGTAACAA
*
263539 ATACCTATTTTCATAATTAA-TATAATTTTC
1 ATACCTATTGTCATAATTAATTATAATTTTC
*
263569 ATACCT-TTGTCATAATTAATTATTATTTT
1 ATACCTATTGTCATAATTAATTATAATTTT
263598 TATATTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.34, C:0.12, G:0.02, T:0.53
Consensus pattern (31 bp):
ATACCTATTGTCATAATTAATTATAATTTTC
Found at i:264946 original size:9 final size:9
Alignment explanation
Indices: 264908--264961 Score: 56
Period size: 10 Copynumber: 5.7 Consensus size: 9
264898 AAAAATAAAC
264908 TTTAAATTT
1 TTTAAATTT
264917 CTTTATATATTT
1 -TTTA-A-ATTT
264929 TTTAGAATTT
1 TTTA-AATTT
264939 TTTAAATTT
1 TTTAAATTT
*
264948 TAT-AATTT
1 TTTAAATTT
264956 TTTAAA
1 TTTAAA
264962 ATACAAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
8 7 0.18
9 9 0.24
10 12 0.32
11 6 0.16
12 4 0.11
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTAAATTT
Found at i:264954 original size:17 final size:17
Alignment explanation
Indices: 264928--264961 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
264918 TTTATATATT
264928 TTTTAGAATTTTTTAAA
1 TTTTAGAATTTTTTAAA
*
264945 TTTTATAATTTTTTAAA
1 TTTTAGAATTTTTTAAA
264962 ATACAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTTAGAATTTTTTAAA
Found at i:264998 original size:19 final size:20
Alignment explanation
Indices: 264968--265039 Score: 80
Period size: 19 Copynumber: 3.6 Consensus size: 20
264958 TAAAATACAA
*
264968 ATTTTGGAATTTTTATAAA-T
1 ATTTT-GAATTTTTAAAAATT
264988 ATTTTGAA--TTTAAAAATTT
1 ATTTTGAATTTTTAAAAA-TT
265007 ATTTTGAATTTTTGAAAAATT
1 ATTTTGAATTTTT-AAAAATT
265028 ATTTT-AATTTTT
1 ATTTTGAATTTTT
265040 TTTGTAAGTT
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
17 7 0.15
19 12 0.26
20 12 0.26
21 10 0.22
22 5 0.11
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:265041 original size:22 final size:22
Alignment explanation
Indices: 264987--265039 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
264977 TTTTTATAAA
264987 TATTTTGAA--TTT-AAAAATT
1 TATTTTGAATTTTTGAAAAATT
265006 TATTTTGAATTTTTGAAAAA-T
1 TATTTTGAATTTTTGAAAAATT
265027 TATTTT-AATTTTT
1 TATTTTGAATTTTT
265040 TTTGTAAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.29
20 7 0.23
21 10 0.32
22 5 0.16
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (22 bp):
TATTTTGAATTTTTGAAAAATT
Found at i:268456 original size:11 final size:11
Alignment explanation
Indices: 268440--268470 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
268430 TTCTGACTTT
268440 GAAAAATAATA
1 GAAAAATAATA
268451 GAAAAAT-ATA
1 GAAAAATAATA
268461 GAAAAATAAT
1 GAAAAATAAT
268471 TTTAGGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (11 bp):
GAAAAATAATA
Found at i:268953 original size:23 final size:23
Alignment explanation
Indices: 268924--269024 Score: 132
Period size: 23 Copynumber: 4.3 Consensus size: 23
268914 ACACTAGCGC
268924 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
*
268949 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
268972 GCTCTCTGATTAGTACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
*
268995 ACTCTCT-ATTTAGCACTGTGTGT
1 GCTCTCTGA-TTAGCACTGTGTGT
269018 GCTCTCT
1 GCTCTCT
269025 ATTGCTCAGC
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
22 1 0.01
23 60 0.87
25 8 0.12
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.45
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:269015 original size:69 final size:68
Alignment explanation
Indices: 268935--269074 Score: 205
Period size: 69 Copynumber: 2.0 Consensus size: 68
268925 CTCTCTGTTA
*
268935 TTAGCACTGTGTGTGCTCTCTGA-T-T-AGCACTTTGTGTGCTCTCTGATTAGTACTTTGTGTAC
1 TTAGCACTGTGTGTGCTCTCT-ATTCTCAGCAC-TTATGTGCTCTCTG-TTAGTACTTTG-GTAC
268997 TCTCTAT
62 TCTCTAT
269004 TTAGCACTGTGTGTGCTCTCTATTGCTCAGCACTTATGTGCTCTCTGTTAGTACTTTGGTACTCT
1 TTAGCACTGTGTGTGCTCTCTATT-CTCAGCACTTATGTGCTCTCTGTTAGTACTTTGGTACTCT
269069 CTAT
65 CTAT
269073 TT
1 TT
269075 GTTCCGTATA
Statistics
Matches: 66, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
68 1 0.02
69 35 0.53
70 11 0.17
71 14 0.21
72 5 0.08
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.45
Consensus pattern (68 bp):
TTAGCACTGTGTGTGCTCTCTATTCTCAGCACTTATGTGCTCTCTGTTAGTACTTTGGTACTCTC
TAT
Found at i:269025 original size:23 final size:23
Alignment explanation
Indices: 268935--269074 Score: 128
Period size: 23 Copynumber: 6.1 Consensus size: 23
268925 CTCTCTGTTA
*
268935 TTAGCACTGTGTGTGCTCTCTGA-
1 TTAGCACTTTGTGTGCTCTCT-AT
268958 TTAGCACTTTGTGTGCTCTCTGA-
1 TTAGCACTTTGTGTGCTCTCT-AT
* *
268981 TTAGTACTTTGTGTACTCTCTAT
1 TTAGCACTTTGTGTGCTCTCTAT
*
269004 TTAGCACTGTGTGTGCTCTCTAT
1 TTAGCACTTTGTGTGCTCTCTAT
* *
269027 TGCTCAGCAC-TTATGTGCTCTCT-G
1 T--T-AGCACTTTGTGTGCTCTCTAT
* *
269051 TTAGTACTTTG-GTACTCTCTAT
1 TTAGCACTTTGTGTGCTCTCTAT
269073 TT
1 TT
269075 GTTCCGTATA
Statistics
Matches: 98, Mismatches: 13, Indels: 13
0.79 0.10 0.10
Matches are distributed among these distances:
21 12 0.12
22 6 0.06
23 62 0.63
24 1 0.01
25 12 0.12
26 5 0.05
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.45
Consensus pattern (23 bp):
TTAGCACTTTGTGTGCTCTCTAT
Found at i:270729 original size:25 final size:23
Alignment explanation
Indices: 270677--270733 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 23
270667 CTATATGAAT
*
270677 TTAAATATTTTTTTAATTTAGTAT
1 TTAAAT-TTTTTTTAATTTAGTAC
*
270701 TTAAATTTTTTATCTAATTTGGTAC
1 TTAAATTTTTT-T-TAATTTAGTAC
270726 TTAAATTT
1 TTAAATTT
270734 GACATTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 5 0.17
24 7 0.24
25 17 0.59
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.60
Consensus pattern (23 bp):
TTAAATTTTTTTTAATTTAGTAC
Found at i:270750 original size:31 final size:31
Alignment explanation
Indices: 270705--270777 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
270695 TAGTATTTAA
*
270705 ATTTTTTATCTAATTTGGTA-CTTAAATTTGAC
1 ATTTTTT-TTTAATTTGGTATC-TAAATTTGAC
270737 ATTTTTTTTTAATTTGGTATCTAAATTTGAC
1 ATTTTTTTTTAATTTGGTATCTAAATTTGAC
*
270768 -TCTTTTTTTA
1 ATTTTTTTTTA
270778 TGTGGGTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 9 0.24
31 21 0.55
32 8 0.21
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.59
Consensus pattern (31 bp):
ATTTTTTTTTAATTTGGTATCTAAATTTGAC
Found at i:270786 original size:30 final size:31
Alignment explanation
Indices: 270727--270791 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
270717 ATTTGGTACT
* * *
270727 TAAATTTGACATTTTTTTTTAATTTGGTATC
1 TAAATTTGACATCTTTTTTTAATTGGGTATA
270758 TAAATTTGAC-TCTTTTTTT-ATGTGGGTATA
1 TAAATTTGACATCTTTTTTTAAT-TGGGTATA
270788 TAAA
1 TAAA
270792 CTTTTCGGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 2 0.07
30 18 0.60
31 10 0.33
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.54
Consensus pattern (31 bp):
TAAATTTGACATCTTTTTTTAATTGGGTATA
Found at i:273538 original size:61 final size:61
Alignment explanation
Indices: 273455--273576 Score: 190
Period size: 61 Copynumber: 2.0 Consensus size: 61
273445 CACTGCTATT
* ** * * *
273455 CCACGCTTGGTTGTTTTTGCATTGGTGAGTAGTCTTTGCTTAAGGACAGTCCAAATGAAGA
1 CCACGCTTGGTTCTTTCAGCATTGATGAGGAGCCTTTGCTTAAGGACAGTCCAAATGAAGA
273516 CCACGCTTGGTTCTTTCAGCATTGATGAGGAGCCTTTGCTTAAGGACAGTCCAAATGAAGA
1 CCACGCTTGGTTCTTTCAGCATTGATGAGGAGCCTTTGCTTAAGGACAGTCCAAATGAAGA
273577 AACGAACCCT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (61 bp):
CCACGCTTGGTTCTTTCAGCATTGATGAGGAGCCTTTGCTTAAGGACAGTCCAAATGAAGA
Found at i:277174 original size:12 final size:12
Alignment explanation
Indices: 277159--277282 Score: 74
Period size: 12 Copynumber: 9.8 Consensus size: 12
277149 CCTGAGCCCA
277159 AACAACAAAAAT
1 AACAACAAAAAT
277171 AACAATC-AAAAT
1 AACAA-CAAAAAT
* *
277183 AGCAGCAAAAAT
1 AACAACAAAAAT
*
277195 AACAGCAAACAACATT
1 AACAAC-AA-AA-A-T
277211 AAAAGCAACAAAAAT
1 --AA-CAACAAAAAT
**
277226 AACAACAAAAGC
1 AACAACAAAAAT
277238 AACAACAAAAAT
1 AACAACAAAAAT
* *
277250 AACAGC-AAAAC
1 AACAACAAAAAT
*
277261 AAC-ACGAAAAT
1 AACAACAAAAAT
277272 AACAACCAAAA
1 AACAA-CAAAA
277283 CAATAAAAAA
Statistics
Matches: 87, Mismatches: 13, Indels: 23
0.71 0.11 0.19
Matches are distributed among these distances:
10 1 0.01
11 15 0.17
12 47 0.54
13 9 0.10
14 2 0.02
15 2 0.02
16 2 0.02
17 2 0.02
18 4 0.05
19 3 0.03
ACGTcount: A:0.67, C:0.20, G:0.06, T:0.07
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:277243 original size:24 final size:23
Alignment explanation
Indices: 277216--277285 Score: 97
Period size: 24 Copynumber: 3.0 Consensus size: 23
277206 ACATTAAAAG
277216 CAACAAAAATAACAACAAAAGCAA
1 CAACAAAAATAACAACAAAA-CAA
*
277240 CAACAAAAATAACAGCAAAACAA
1 CAACAAAAATAACAACAAAACAA
*
277263 C-ACGAAAATAACAACCAAAACAA
1 CAACAAAAATAACAA-CAAAACAA
277286 TAAAAAAGCA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
22 11 0.26
23 12 0.29
24 19 0.45
ACGTcount: A:0.69, C:0.23, G:0.04, T:0.04
Consensus pattern (23 bp):
CAACAAAAATAACAACAAAACAA
Found at i:277276 original size:55 final size:55
Alignment explanation
Indices: 277161--277270 Score: 150
Period size: 55 Copynumber: 2.0 Consensus size: 55
277151 TGAGCCCAAA
* * * **
277161 CAACAAAAATAACAATCAAAATAGCAGCAAAAATAACAGCAAACAACATTAAAAG
1 CAACAAAAATAACAATCAAAACAACAACAAAAATAACAGCAAACAACACGAAAAG
277216 CAACAAAAATAACAA-CAAAAGCAACAACAAAAATAACAGCAAAACAACACGAAAA
1 CAACAAAAATAACAATCAAAA-CAACAACAAAAATAACAGC-AAACAACACGAAAA
277271 TAACAACCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
54 5 0.10
55 31 0.65
56 12 0.25
ACGTcount: A:0.66, C:0.20, G:0.06, T:0.07
Consensus pattern (55 bp):
CAACAAAAATAACAATCAAAACAACAACAAAAATAACAGCAAACAACACGAAAAG
Found at i:277300 original size:19 final size:20
Alignment explanation
Indices: 277276--277365 Score: 96
Period size: 19 Copynumber: 4.5 Consensus size: 20
277266 GAAAATAACA
277276 ACCAAAACAATAAAAA-AGC
1 ACCAAAACAATAAAAACAGC
*
277295 ACCAAAACAATAAAAA-A-T
1 ACCAAAACAATAAAAACAGC
* **
277313 ACAAAAACAGCAAACAACAGC
1 ACCAAAACAATAAA-AACAGC
277334 AACCAAAACAATAAAAAACAGC
1 -ACCAAAACAAT-AAAAACAGC
277356 ACCAAAACAA
1 ACCAAAACAA
277366 CAATATAATT
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
18 11 0.19
19 19 0.33
20 1 0.02
21 10 0.17
22 14 0.24
23 3 0.05
ACGTcount: A:0.68, C:0.23, G:0.04, T:0.04
Consensus pattern (20 bp):
ACCAAAACAATAAAAACAGC
Found at i:280001 original size:95 final size:95
Alignment explanation
Indices: 279838--280027 Score: 344
Period size: 95 Copynumber: 2.0 Consensus size: 95
279828 AATTCAATTC
* *
279838 ATAGACATGGAAAACCAAGTGCAAGCTAGGAAATTATTCTCGAAGAGATTGATTCTGAGCAAAGT
1 ATAGACACGGAAAACCAAGTGCAAGCTAGGAAATTATTCTCGAAGAGATTGATTCAGAGCAAAGT
279903 GGAAAGATGCATACTATTTTTCTTTTCATG
66 GGAAAGATGCATACTATTTTTCTTTTCATG
*
279933 ATAGACACGGAAAACCAAGTGCAAGCTAGGAAATTATTCTCGAGGAGATTGATTCAGAGCAAAGT
1 ATAGACACGGAAAACCAAGTGCAAGCTAGGAAATTATTCTCGAAGAGATTGATTCAGAGCAAAGT
*
279998 GGAACGATGCATACTATTTTTCTTTTCATG
66 GGAAAGATGCATACTATTTTTCTTTTCATG
280028 TCTATTGCTG
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 91 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (95 bp):
ATAGACACGGAAAACCAAGTGCAAGCTAGGAAATTATTCTCGAAGAGATTGATTCAGAGCAAAGT
GGAAAGATGCATACTATTTTTCTTTTCATG
Found at i:280770 original size:308 final size:307
Alignment explanation
Indices: 280253--281110 Score: 970
Period size: 308 Copynumber: 2.8 Consensus size: 307
280243 CAATGGAGAA
* * *
280253 CCTCAAAATGAATTCAAGATTCTGATTAAAAGGAAAATAAGATTGTTTGGGCAAGATATTTGGGG
1 CCTCAGAATGAATTCAAGGTTCTGATTAAAAGGAAAATAAGATTGTTTGGGCAAGACATTTGGGG
* ** * * * * * *
280318 ATAACTCATTGTATAAATTGT-CAAAAGCTTTTTACATC---GTCGAGGGAAGCCATTAGAAAAT
66 AGAGGTCATGGTGTAAATT-TCCAAAAGTTTTTTACATCATTGTTGGGGGAAGCCAATAGAAAAT
** * * * * * *
280379 AAGAGTAGGTATTAAAGC--TGTCTTTCATGTACCAAATATTTCTTTATATTGAATAAAACATGT
130 AAGAACAAGTAATAAAGCTATGTTTTTCATGTACCAAATGTTTCTTCATATTGAATAAAACTTGT
* * *
280442 GATTCCAAATATATATTAATTATCTTCTCCCTTTTATTCATTACAAATATTGGCTATAAGATGAT
195 GGTTCCAAATATATATTAATTATCTTCTCCCTTTTATTCATTACAAATATTGGCTACAAGATAAT
* * *
280507 GAAATCACTCTTATGACAATACCTCAACAAGAAGGTAACACCGGAGGG
260 GAAATCACTCTCATGACAAAACCTCAACAAGAAGGTAACAACGGAGGG
* * *
280555 CCTCAGAATGAATTGAAGGTTCTGATTAAAA-AAAAATAAGATTGTTTGGGCAACACATTGTGGG
1 CCTCAGAATGAATTCAAGGTTCTGATTAAAAGGAAAATAAGATTGTTTGGGCAAGACATT-TGGG
* * * *
280619 GAGAGGTCGTGGTGTAAATTTCCAAAAGTTTTTTACATCATTGTTGTGGGGGAGTCACTAGAAAA
65 GAGAGGTCATGGTGTAAATTTCCAAAAGTTTTTTACATCATTGTTG-GGGGAAGCCAATAGAAAA
280684 TAAGAACAAGTAATAAAGCTATGTTTTTCATGTACCAAATGTTTCTTCATATTGAATAAAACTTG
129 TAAGAACAAGTAATAAAGCTATGTTTTTCATGTACCAAATGTTTCTTCATATTGAATAAAACTTG
* * * *
280749 TGGTTCCAAATATATATTAATTACCTTAC-CCCTTTTATTCATTACAAATATTAGCTACCATATA
194 TGGTTCCAAATATATATTAATTATCTT-CTCCCTTTTATTCATTACAAATATTGGCTACAAGATA
* * *
280813 ATGAAATTACTCTCATGACAAAACCTCAACAAGAAGGTAATAATGGAGGG
258 ATGAAATCACTCTCATGACAAAACCTCAACAAGAAGGTAACAACGGAGGG
* * * * * * * * * ***
280863 TCTTAGAATTATTTCAAGGTTCCGATTAAAAGGAAAATAAAATTGTTCGGGTAAGGCATTTTCAG
1 CCTCAGAATGAATTCAAGGTTCTGATTAAAAGGAAAATAAGATTGTTTGGGCAAGACATTTGGGG
* * * * * *
280928 AGGGGTCATGGTGTAAATTACCACAAACTTTTTATGC--CATTATTAGGGGAAGCCAATAGAAAA
66 AGAGGTCATGGTGTAAATTTCCA-AAAGTTTTT-TACATCATTGTTGGGGGAAGCCAATAGAAAA
* * ** *
280991 TAGGAACATGTACCAAAGCTATGTATTTT-ATGTACCAAATGTTTCCTCATA---AATAAAACTT
129 TAAGAACAAGTAATAAAGCTATGT-TTTTCATGTACCAAATGTTTCTTCATATTGAATAAAACTT
* *
281052 GTGGTTCCAAATATATATTAACTATCTTCTCCTTTTTATTCATTACAAATATTGGCTAC
193 GTGGTTCCAAATATATATTAATTATCTTCTCCCTTTTATTCATTACAAATATTGGCTAC
281111 CAATTCTTTT
Statistics
Matches: 469, Mismatches: 73, Indels: 26
0.83 0.13 0.05
Matches are distributed among these distances:
301 26 0.06
302 62 0.13
303 1 0.00
304 63 0.13
305 3 0.01
306 29 0.06
307 56 0.12
308 196 0.42
309 31 0.07
310 2 0.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (307 bp):
CCTCAGAATGAATTCAAGGTTCTGATTAAAAGGAAAATAAGATTGTTTGGGCAAGACATTTGGGG
AGAGGTCATGGTGTAAATTTCCAAAAGTTTTTTACATCATTGTTGGGGGAAGCCAATAGAAAATA
AGAACAAGTAATAAAGCTATGTTTTTCATGTACCAAATGTTTCTTCATATTGAATAAAACTTGTG
GTTCCAAATATATATTAATTATCTTCTCCCTTTTATTCATTACAAATATTGGCTACAAGATAATG
AAATCACTCTCATGACAAAACCTCAACAAGAAGGTAACAACGGAGGG
Found at i:285805 original size:13 final size:14
Alignment explanation
Indices: 285787--285816 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
285777 AAGAATACTT
285787 ATTTTATTA-CAAA
1 ATTTTATTATCAAA
285800 ATTTTATTATCAAA
1 ATTTTATTATCAAA
285814 ATT
1 ATT
285817 CAAATGACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTTATTATCAAA
Found at i:287034 original size:14 final size:14
Alignment explanation
Indices: 287015--287041 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
287005 TATTGTTCCA
287015 TGATCCAACTATGG
1 TGATCCAACTATGG
287029 TGATCCAACTATG
1 TGATCCAACTATG
287042 CTAGGCAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (14 bp):
TGATCCAACTATGG
Found at i:288155 original size:21 final size:21
Alignment explanation
Indices: 288122--288161 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
288112 GATTGTTTTT
* *
288122 TCTTTGACGATATGACATTCC
1 TCTTTAACAATATGACATTCC
288143 TCTTTAACAATATGACATT
1 TCTTTAACAATATGACATT
288162 TTTTATTAGA
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:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (21 bp):
TCTTTAACAATATGACATTCC
Found at i:293928 original size:37 final size:37
Alignment explanation
Indices: 293880--293955 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
293870 ATTTCAAAAT
293880 AATATTATTTTAATAGT-TTAATATTAAATTAA-ATTA
1 AATATTATTTTAATAGTATT-ATATTAAATTAATATTA
* *
293916 AATATTTATTTTAATAGTATTTTATTAATTTAATATTA
1 AATA-TTATTTTAATAGTATTATATTAAATTAATATTA
293954 AA
1 AA
293956 GTGATTATCT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 4 0.11
37 23 0.66
38 8 0.23
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (37 bp):
AATATTATTTTAATAGTATTATATTAAATTAATATTA
Found at i:293962 original size:20 final size:18
Alignment explanation
Indices: 293880--293986 Score: 67
Period size: 19 Copynumber: 5.8 Consensus size: 18
293870 ATTTCAAAAT
* *
293880 AATATTATTTTAATAGTTT
1 AATATTAATTTAATA-TTA
*
293899 AATATTAAATTAA-ATTA
1 AATATTAATTTAATATTA
* *
293916 AATATTTATTTTAATAGTA
1 AATA-TTAATTTAATATTA
**
293935 TTTTATTAATTTAATATTA
1 -AATATTAATTTAATATTA
*
293954 AAGTGATT-ATCTAAATATTA
1 AA-T-ATTAAT-TTAATATTA
293974 AAT-TTAATTTAAT
1 AATATTAATTTAAT
293987 GTTTATATTG
Statistics
Matches: 67, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
17 12 0.18
18 10 0.15
19 30 0.45
20 15 0.22
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (18 bp):
AATATTAATTTAATATTA
Found at i:293980 original size:51 final size:48
Alignment explanation
Indices: 293879--293981 Score: 116
Period size: 48 Copynumber: 2.1 Consensus size: 48
293869 TATTTCAAAA
* * * * *
293879 TAATATTATTTTAATAGTTTAATATTAAATTAAATTAAATATTTATTT
1 TAATAGTATTTTAATAATTTAATATTAAATGAAATTAAATATTAAATT
* *
293927 TAATAGTATTTTATTAATTTAATATTAAAGTGATTATCTAAATATTAAATT
1 TAATAGTATTTTAATAATTTAATATTAAA-TGA-AAT-TAAATATTAAATT
293978 TAAT
1 TAAT
293982 TTAATGTTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
48 26 0.58
49 2 0.04
50 2 0.04
51 15 0.33
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (48 bp):
TAATAGTATTTTAATAATTTAATATTAAATGAAATTAAATATTAAATT
Found at i:301245 original size:32 final size:32
Alignment explanation
Indices: 301198--301263 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
301188 TTGAACTATG
* * *
301198 AAGCTAAGTTTAGGTA-CTAATTGGAATTAAAA
1 AAGCCAAGTTCAGGTACCTAATTGG-ATAAAAA
*
301230 AAGCCAAGTTCAGGTACCTGATTGGATAAAAA
1 AAGCCAAGTTCAGGTACCTAATTGGATAAAAA
301262 AA
1 AA
301264 ACTCTGAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 22 0.76
33 7 0.24
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.26
Consensus pattern (32 bp):
AAGCCAAGTTCAGGTACCTAATTGGATAAAAA
Found at i:303051 original size:27 final size:27
Alignment explanation
Indices: 303020--303071 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
303010 GCAATAATGG
303020 TATGGTTGTTGCCTTTAAGCTCCTTGA
1 TATGGTTGTTGCCTTTAAGCTCCTTGA
303047 TATGGTTGTTGCCTTTAAGCTCCTT
1 TATGGTTGTTGCCTTTAAGCTCCTT
303072 ATTTTACATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.46
Consensus pattern (27 bp):
TATGGTTGTTGCCTTTAAGCTCCTTGA
Found at i:320918 original size:2 final size:2
Alignment explanation
Indices: 320874--320901 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
320864 ACAAACTGTG
320874 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
320902 ATTATTTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:336030 original size:16 final size:18
Alignment explanation
Indices: 335995--336031 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
335985 AAAAGCTGTG
*
335995 ATAATTATATATTTAGAA
1 ATAATTATATACTTAGAA
336013 ATAATTATA-ACTTA-AA
1 ATAATTATATACTTAGAA
336029 ATA
1 ATA
336032 TATAATTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 5 0.28
17 4 0.22
18 9 0.50
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (18 bp):
ATAATTATATACTTAGAA
Found at i:343399 original size:70 final size:70
Alignment explanation
Indices: 343317--343451 Score: 270
Period size: 70 Copynumber: 1.9 Consensus size: 70
343307 TTTTTAGCGG
343317 CGTTTTTTGGGCCTATAGTGGCGCTTATAAGTGCAACTAAAACATGTAAAAGCGCCGCTAAAAAT
1 CGTTTTTTGGGCCTATAGTGGCGCTTATAAGTGCAACTAAAACATGTAAAAGCGCCGCTAAAAAT
343382 CGCGA
66 CGCGA
343387 CGTTTTTTGGGCCTATAGTGGCGCTTATAAGTGCAACTAAAACATGTAAAAGCGCCGCTAAAAAT
1 CGTTTTTTGGGCCTATAGTGGCGCTTATAAGTGCAACTAAAACATGTAAAAGCGCCGCTAAAAAT
343452 GCCGCTAAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (70 bp):
CGTTTTTTGGGCCTATAGTGGCGCTTATAAGTGCAACTAAAACATGTAAAAGCGCCGCTAAAAAT
CGCGA
Done.