Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1966
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: 403291
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 1 of 3
Found at i:2379 original size:19 final size:20
Alignment explanation
Indices: 2355--2406 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
2345 CACACCCAGA
**
2355 TGTATCGATACATGTTC-AT
1 TGTATCGATACATGGACAAT
2374 TGTATCGATACATGGACAAT
1 TGTATCGATACATGGACAAT
2394 TGTATCGATACAT
1 TGTATCGATACAT
2407 AAAACTGGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATGGACAAT
Found at i:2475 original size:13 final size:13
Alignment explanation
Indices: 2453--2482 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2443 GATACATGGC
*
2453 ACATTGTATCGAT
1 ACATTATATCGAT
2466 ACATTATATCGAT
1 ACATTATATCGAT
2479 ACAT
1 ACAT
2483 GATGAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (13 bp):
ACATTATATCGAT
Found at i:8684 original size:13 final size:13
Alignment explanation
Indices: 8666--8691 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8656 ACAATATTCT
8666 TTGTATCGATACA
1 TTGTATCGATACA
8679 TTGTATCGATACA
1 TTGTATCGATACA
8692 AGGGTTACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:11181 original size:13 final size:13
Alignment explanation
Indices: 11163--11187 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11153 CATTATGCTT
11163 TGTATCGATACAA
1 TGTATCGATACAA
11176 TGTATCGATACA
1 TGTATCGATACA
11188 TGTTCATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:11183 original size:33 final size:32
Alignment explanation
Indices: 11141--11206 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 32
11131 TACACACCCA
*
11141 AATGTATCGATACAT-TATGCTTTGTATCGATAC
1 AATGTATCGATACATGT-T-CATTGTATCGATAC
11174 AATGTATCGATACATGTTCATTGTATCGATAC
1 AATGTATCGATACATGTTCATTGTATCGATAC
11206 A
1 A
11207 TGAACAATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
32 14 0.45
33 16 0.52
34 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (32 bp):
AATGTATCGATACATGTTCATTGTATCGATAC
Found at i:11218 original size:20 final size:20
Alignment explanation
Indices: 11172--11230 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
11162 TTGTATCGAT
*
11172 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGA
*
11191 TC-ATTGTATCGATACATGA
1 ACAATTGTATCGATACATGA
11210 ACAATTGTATCGATACATGA
1 ACAATTGTATCGATACATGA
11230 A
1 A
11231 ACTAGCAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
18 1 0.03
19 16 0.46
20 18 0.51
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (20 bp):
ACAATTGTATCGATACATGA
Found at i:13143 original size:23 final size:23
Alignment explanation
Indices: 13117--13165 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
13107 ATGACCACAA
13117 AAGTTTGGCCAATCAAAATTGGT
1 AAGTTTGGCCAATCAAAATTGGT
13140 AAGTTTGGCCAATCAAAATTGGT
1 AAGTTTGGCCAATCAAAATTGGT
13163 AAG
1 AAG
13166 AACATCTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (23 bp):
AAGTTTGGCCAATCAAAATTGGT
Found at i:17960 original size:13 final size:13
Alignment explanation
Indices: 17942--17969 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
17932 ATACAAAGAT
17942 CAATGTATCGATA
1 CAATGTATCGATA
17955 CAATGTATCGATA
1 CAATGTATCGATA
17968 CA
1 CA
17970 TTATTCAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:17966 original size:33 final size:33
Alignment explanation
Indices: 17924--17989 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
17914 AAATTCCCAG
17924 ATGTATCGATACA-AAGATCAATGTATCGATACA
1 ATGTATCGATACATAA-ATCAATGTATCGATACA
* *
17957 ATGTATCGATACATTATTCAATGTATCGATACA
1 ATGTATCGATACATAAATCAATGTATCGATACA
17990 TTTCATTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACATAAATCAATGTATCGATACA
Found at i:18066 original size:21 final size:18
Alignment explanation
Indices: 18020--18073 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
18010 TAGCGATACA
18020 TTGTATCGATACAACACT
1 TTGTATCGATACAACACT
*
18038 TATGTATCGATACAGTTACTCT
1 T-TGTATCGATACA---ACACT
18060 TTGTATCGATACAA
1 TTGTATCGATACAA
18074 ATTGTTGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 2 0.06
19 12 0.39
21 12 0.39
22 5 0.16
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (18 bp):
TTGTATCGATACAACACT
Found at i:26181 original size:22 final size:22
Alignment explanation
Indices: 26153--26199 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
26143 AACTTACACT
26153 CAAAAGTTTTTTATAATGAAAA
1 CAAAAGTTTTTTATAATGAAAA
26175 CAAAAGTTTTTTATAATGAAAA
1 CAAAAGTTTTTTATAATGAAAA
26197 CAA
1 CAA
26200 TTTTTAGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (22 bp):
CAAAAGTTTTTTATAATGAAAA
Found at i:28652 original size:19 final size:20
Alignment explanation
Indices: 28599--28652 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 20
28589 TGTTATGCTC
*
28599 AAAAACTTATTTTAT-TGTTT
1 AAAAA-TTATTTTATATGATT
* *
28619 AAAAAATA-TTAATAT-ATT
1 AAAAATTATTTTATATGATT
28637 AAAAATTATTTTATAT
1 AAAAATTATTTTATAT
28653 TTATTATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
18 13 0.48
19 9 0.33
20 5 0.19
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (20 bp):
AAAAATTATTTTATATGATT
Found at i:29129 original size:26 final size:28
Alignment explanation
Indices: 29072--29135 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 28
29062 AGACATGTTA
*
29072 AATTTGATTT-ATATTTAAAATTTTAATG
1 AATTTGATTTGA-ATTTAAAATTTAAATG
*
29100 AATTT-ATTTGAATTT-AAATTTAAATT
1 AATTTGATTTGAATTTAAAATTTAAATG
29126 AATTTGATTT
1 AATTTGATTT
29136 AATCAGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 14 0.44
27 12 0.38
28 6 0.19
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (28 bp):
AATTTGATTTGAATTTAAAATTTAAATG
Found at i:30938 original size:18 final size:18
Alignment explanation
Indices: 30915--30956 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
30905 GGGCGGTGAT
* *
30915 TTATTATTATTATTGTTA
1 TTATTATTATTAATGCTA
30933 TTATTATTATTAATGCTA
1 TTATTATTATTAATGCTA
30951 TTATTA
1 TTATTA
30957 ATCATGCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (18 bp):
TTATTATTATTAATGCTA
Found at i:30956 original size:3 final size:3
Alignment explanation
Indices: 30915--30944 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
30905 GGGCGGTGAT
*
30915 TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30945 ATGCTATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:32449 original size:47 final size:47
Alignment explanation
Indices: 32376--32469 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
32366 GCTACTCAGT
** *
32376 AAAGATATTAATAATTGTTATGCTTTAATTTCATATTTTTCAAATAC
1 AAAGATATTAATAATTGTTACACTTTAATTTCATATTTTTAAAATAC
32423 AAAGATATTAATAATTGTTACACTTTAATTTCATATTTTTAAAATAC
1 AAAGATATTAATAATTGTTACACTTTAATTTCATATTTTTAAAATAC
32470 TTTTTTCCTG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (47 bp):
AAAGATATTAATAATTGTTACACTTTAATTTCATATTTTTAAAATAC
Found at i:32800 original size:25 final size:25
Alignment explanation
Indices: 32756--32805 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
32746 ATAGATAAAA
*
32756 TTAATTTATGAATATTTGAAGAATG
1 TTAATTTATGAATATTTGAAAAATG
*
32781 TTAATTTATGCAT-TTATGAAAAATG
1 TTAATTTATGAATATT-TGAAAAATG
32806 AAATTACTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.44
Consensus pattern (25 bp):
TTAATTTATGAATATTTGAAAAATG
Found at i:32979 original size:16 final size:16
Alignment explanation
Indices: 32955--33096 Score: 66
Period size: 16 Copynumber: 8.6 Consensus size: 16
32945 ATGACGTTGT
*
32955 TATTATTATATTAATA
1 TATTTTTATATTAATA
32971 TATTTTTATATATTATAATTA
1 TA-TTTT-TATA-T-TAA-TA
*
32992 TATTTTAAATATT-ATA
1 TATTTT-TATATTAATA
33008 TA-TTTTATA--AATA
1 TATTTTTATATTAATA
*
33021 AATTTTAATATATTAA-A
1 TATTTT--TATATTAATA
*
33038 T-TTTATATATTATATA
1 TATTTTTATATTA-ATA
*
33054 AATTTTAATATATT--TA
1 TATTTT--TATATTAATA
33070 TATTTTTATATTATATTA
1 TATTTTTATATTA-A-TA
33088 TATTTTTAT
1 TATTTTTAT
33097 TATTTTTATT
Statistics
Matches: 97, Mismatches: 9, Indels: 38
0.67 0.06 0.26
Matches are distributed among these distances:
13 4 0.04
14 19 0.20
15 4 0.04
16 21 0.22
17 8 0.08
18 18 0.19
19 8 0.08
20 11 0.11
21 4 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTTTTATATTAATA
Found at i:32984 original size:18 final size:17
Alignment explanation
Indices: 32961--33100 Score: 102
Period size: 18 Copynumber: 8.4 Consensus size: 17
32951 TTGTTATTAT
32961 TATATTAATATATTTTTA
1 TATATT-ATATATTTTTA
32979 TATATTATAATTATATTTTA
1 TATATTAT-A-TAT-TTTTA
*
32999 AATATTATATA-TTTTA
1 TATATTATATATTTTTA
* *
33015 TA-A--ATAAATTTTAA
1 TATATTATATATTTTTA
33029 TATATTA-A-A-TTTTA
1 TATATTATATATTTTTA
*
33043 TATATTATATAAATTTTAA
1 TATATTATAT--ATTTTTA
33062 TATATT-TATATTTTTA
1 TATATTATATATTTTTA
33078 TAT-TATATTATATTTTTA
1 TATAT-TA-TATATTTTTA
33096 T-TATT
1 TATATT
33101 TTTATTATAT
Statistics
Matches: 99, Mismatches: 7, Indels: 33
0.71 0.05 0.24
Matches are distributed among these distances:
13 4 0.04
14 17 0.17
15 5 0.05
16 17 0.17
17 5 0.05
18 25 0.25
19 14 0.14
20 12 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATATTATATATTTTTA
Found at i:32993 original size:6 final size:7
Alignment explanation
Indices: 32955--33053 Score: 62
Period size: 7 Copynumber: 14.3 Consensus size: 7
32945 ATGACGTTGT
32955 TATTATTA
1 TATTA-TA
32963 TATTA-A
1 TATTATA
32969 TA-TAT-
1 TATTATA
*
32974 TTTTATA
1 TATTATA
32981 TATTATA
1 TATTATA
32988 -ATTATA
1 TATTATA
* *
32994 TTTTAAA
1 TATTATA
33001 TATTATA
1 TATTATA
*
33008 TATTTTA
1 TATTATA
* *
33015 TAAATAAA
1 T-ATTATA
*
33023 TTTTAATA
1 TATT-ATA
*
33031 TATTAAA
1 TATTATA
*
33038 TTTTATA
1 TATTATA
33045 TATTATA
1 TATTATA
33052 TA
1 TA
33054 AATTTTAATA
Statistics
Matches: 67, Mismatches: 18, Indels: 13
0.68 0.18 0.13
Matches are distributed among these distances:
5 3 0.04
6 12 0.18
7 38 0.57
8 14 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TATTATA
Found at i:33010 original size:37 final size:35
Alignment explanation
Indices: 32961--33093 Score: 142
Period size: 33 Copynumber: 3.9 Consensus size: 35
32951 TTGTTATTAT
32961 TATATTAATATATTTTTATATATTATAATTATATTTTAA
1 TATATT-ATATA-TTTTATATATTAT-A-TATATTTTAA
33000 -ATATTATATATTTTATA-A--ATA-A-ATTTTAA
1 TATATTATATATTTTATATATTATATATATTTTAA
*
33029 TATATTA-A-ATTTTATATATTATATAAATTTTAA
1 TATATTATATATTTTATATATTATATATATTTTAA
33062 TATATT-TATATTTT-TATATTATATTATATTTT
1 TATATTATATATTTTATATATTATA-TATATTTT
33094 TATTATTTTT
Statistics
Matches: 84, Mismatches: 1, Indels: 23
0.78 0.01 0.21
Matches are distributed among these distances:
28 8 0.10
29 9 0.11
30 7 0.08
31 3 0.04
32 2 0.02
33 25 0.30
34 12 0.14
35 1 0.01
36 7 0.08
37 5 0.06
38 5 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (35 bp):
TATATTATATATTTTATATATTATATATATTTTAA
Found at i:33077 original size:8 final size:8
Alignment explanation
Indices: 33055--33105 Score: 57
Period size: 8 Copynumber: 6.0 Consensus size: 8
33045 TATTATATAA
*
33055 ATTTTAAT
1 ATTTTTAT
*
33063 ATATTTAT
1 ATTTTTAT
33071 ATTTTTAT
1 ATTTTTAT
33079 ATTATATTAT
1 ATT-T-TTAT
33089 ATTTTTATT
1 ATTTTTA-T
33098 ATTTTTAT
1 ATTTTTAT
33106 TATATCTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
8 20 0.54
9 10 0.27
10 7 0.19
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (8 bp):
ATTTTTAT
Found at i:33097 original size:16 final size:15
Alignment explanation
Indices: 32983--33100 Score: 75
Period size: 14 Copynumber: 7.6 Consensus size: 15
32973 TTTTTATATA
32983 TTATA-ATTATA-TT
1 TTATATATTATATTT
*
32996 TTAAATATTATATATT
1 TTATATATTATAT-TT
* *
33012 TTATA-AATAAATTT
1 TTATATATTATATTT
* *
33026 TAATATATTA-AATT
1 TTATATATTATATTT
33040 TTATATATTATATAAATT
1 TTATATATTATAT---TT
33058 TTAATATATTTATATTTT
1 TT-ATATA-TTATA-TTT
33076 TATATTATATTATATTT
1 T-TA-TATATTATATTT
33093 TTAT-TATT
1 TTATATATT
33101 TTTATTATAT
Statistics
Matches: 83, Mismatches: 9, Indels: 25
0.71 0.08 0.21
Matches are distributed among these distances:
13 4 0.05
14 28 0.34
15 10 0.12
16 8 0.10
17 4 0.05
18 13 0.16
19 10 0.12
20 5 0.06
21 1 0.01
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATATTATATTT
Found at i:33100 original size:19 final size:19
Alignment explanation
Indices: 33029--33110 Score: 68
Period size: 18 Copynumber: 4.5 Consensus size: 19
33019 TAAATTTTAA
*
33029 TATATTA-AATTTTATATAT
1 TATATTATATTTTTAT-TAT
* *
33048 TATA-TA-AATTTTAATA-
1 TATATTATATTTTTATTAT
33064 TAT-TTATATTTTTA-TAT
1 TATATTATATTTTTATTAT
33081 TATATTATATTTTTATTATT
1 TATATTATATTTTTATTA-T
*
33101 TTTATTATAT
1 TATATTATAT
33111 CTTTCGATAC
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
16 7 0.13
17 11 0.20
18 20 0.37
19 6 0.11
20 10 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TATATTATATTTTTATTAT
Found at i:33101 original size:33 final size:33
Alignment explanation
Indices: 33003--33106 Score: 93
Period size: 34 Copynumber: 3.0 Consensus size: 33
32993 ATTTTAAATA
* * *
33003 TTATATATTTTATAAATAAATTTTAATATATTAAATT
1 TTATATATTATATAAAT---TTTTATTAT-TTATATT
*
33040 TTATATATTATATAAATTTTAATATATTTATATT
1 TTATATATTATATAAATTTTTAT-TATTTATATT
* *
33074 TT-TATATTATATTATATTTTTATTATTTTTATT
1 TTATATATTATA-TAAATTTTTATTATTTATATT
33107 ATATCTTTCG
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
33 18 0.31
34 21 0.36
35 3 0.05
37 16 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (33 bp):
TTATATATTATATAAATTTTTATTATTTATATT
Found at i:35070 original size:2 final size:2
Alignment explanation
Indices: 35063--35093 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
35053 TGTAATTGTC
35063 TA TA TA 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 TA TA TA T
35094 GTGATATTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35375 original size:2 final size:2
Alignment explanation
Indices: 35368--35414 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
35358 AGCGACCAAA
35368 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
35410 TC TC T
1 TC TC T
35415 GTGGTGGTAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:35641 original size:2 final size:2
Alignment explanation
Indices: 35636--35666 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
35626 TATATATGAA
35636 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
35667 TTCAATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:36538 original size:2 final size:2
Alignment explanation
Indices: 36533--36561 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
36523 TCACACACAC
36533 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
36562 AATTTTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:36740 original size:2 final size:2
Alignment explanation
Indices: 36733--36758 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
36723 GCAGAAAATC
36733 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
36759 GCCTAAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43085 original size:71 final size:71
Alignment explanation
Indices: 42969--43100 Score: 228
Period size: 71 Copynumber: 1.9 Consensus size: 71
42959 TTTAAATAAA
* *
42969 ATGATGCATTGGTTGGATTACAGAATACATTTTTTGAATAAAAAAATATAAGTTTTAATAACCAA
1 ATGATGCAATGGTTGGATTAAAGAATACATTTTTTGAATAAAAAAATATAAGTTTTAATAACCAA
43034 AATGAC
66 AATGAC
* *
43040 ATGATGCAATGGTTGGATTAAAGAATGCATTTTTTGAATAAAAAAATATAATTTTTAATAA
1 ATGATGCAATGGTTGGATTAAAGAATACATTTTTTGAATAAAAAAATATAAGTTTTAATAA
43101 TAAAAGGTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (71 bp):
ATGATGCAATGGTTGGATTAAAGAATACATTTTTTGAATAAAAAAATATAAGTTTTAATAACCAA
AATGAC
Found at i:45938 original size:19 final size:21
Alignment explanation
Indices: 45887--45939 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
45877 ATTTTTTACT
45887 TAAA-TTTAATTATAAAATATA
1 TAAATTTTAA-TATAAAATATA
*
45908 TAAATATTAATATAAAA-ATA
1 TAAATTTTAATATAAAATATA
*
45928 -ATATTTTAATAT
1 TAAATTTTAATAT
45940 GTTTTAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 10 0.36
20 3 0.11
21 11 0.39
22 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAATTTTAATATAAAATATA
Found at i:47139 original size:50 final size:50
Alignment explanation
Indices: 47044--47225 Score: 240
Period size: 50 Copynumber: 3.6 Consensus size: 50
47034 ATGGCCACAT
* * *
47044 TTGTCAAAGGTTGGTGAAGAATCGTCAATAATTATGGCCACCTCTCTCTA
1 TTGTCAAAGGTTGGTGAAGAATCATCAACAATTATGGTCACCTCTCTCTA
* * *
47094 TTGTCAAAGATTGGTGAAGAATCATCAACAATAATGGTCATCTCTCTCTA
1 TTGTCAAAGGTTGGTGAAGAATCATCAACAATTATGGTCACCTCTCTCTA
* * * * *
47144 TTGTCAAAGGTTGATAAAGAATCGTCAACAATTACGATCACCTCTCTCTA
1 TTGTCAAAGGTTGGTGAAGAATCATCAACAATTATGGTCACCTCTCTCTA
*
47194 TTGTCAAAGGTTGGTGAAGGAT-AGTCAACAAT
1 TTGTCAAAGGTTGGTGAAGAATCA-TCAACAAT
47226 GGCAACAACT
Statistics
Matches: 113, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
50 113 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (50 bp):
TTGTCAAAGGTTGGTGAAGAATCATCAACAATTATGGTCACCTCTCTCTA
Found at i:47222 original size:100 final size:100
Alignment explanation
Indices: 47044--47225 Score: 276
Period size: 100 Copynumber: 1.8 Consensus size: 100
47034 ATGGCCACAT
* * * * *
47044 TTGTCAAAGGTTGGTGAAGAATCGTCAATAATTATGGCCACCTCTCTCTATTGTCAAAGATTGGT
1 TTGTCAAAGGTTGATAAAGAATCGTCAACAATTACGACCACCTCTCTCTATTGTCAAAGATTGGT
47109 GAAGAATCATCAACAATAATGGTCATCTCTCTCTA
66 GAAGAATCATCAACAATAATGGTCATCTCTCTCTA
* *
47144 TTGTCAAAGGTTGATAAAGAATCGTCAACAATTACGATCACCTCTCTCTATTGTCAAAGGTTGGT
1 TTGTCAAAGGTTGATAAAGAATCGTCAACAATTACGACCACCTCTCTCTATTGTCAAAGATTGGT
*
47209 GAAGGAT-AGTCAACAAT
66 GAAGAATCA-TCAACAAT
47226 GGCAACAACT
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
99 1 0.01
100 72 0.99
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (100 bp):
TTGTCAAAGGTTGATAAAGAATCGTCAACAATTACGACCACCTCTCTCTATTGTCAAAGATTGGT
GAAGAATCATCAACAATAATGGTCATCTCTCTCTA
Found at i:51731 original size:50 final size:50
Alignment explanation
Indices: 51639--51802 Score: 202
Period size: 50 Copynumber: 3.3 Consensus size: 50
51629 ATGGCCATAT
* * * *
51639 TTGTCAAAGGTTGGTGAAAAATCATCAATAATTATGGTCACCTCTCTCTA
1 TTGTCAAAGGTTGGTGAAGAATCATCAACAATTATAGCCACCTCTCTCTA
* * *
51689 TTGTCAAAGGTTAGTGAAGAATCTTCAACAATAATAGCCACCTCTCTCTA
1 TTGTCAAAGGTTGGTGAAGAATCATCAACAATTATAGCCACCTCTCTCTA
* * * * *
51739 TTGTCAAAAGTTGGTGAAGAATCGTCAACAATTACAACCACCTCTCTTTA
1 TTGTCAAAGGTTGGTGAAGAATCATCAACAATTATAGCCACCTCTCTCTA
* *
51789 TTATCAAAAGTTGG
1 TTGTCAAAGGTTGG
51803 CAAAGGATAA
Statistics
Matches: 99, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 99 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.32
Consensus pattern (50 bp):
TTGTCAAAGGTTGGTGAAGAATCATCAACAATTATAGCCACCTCTCTCTA
Found at i:52142 original size:22 final size:22
Alignment explanation
Indices: 52114--52156 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
52104 TTAATAAAAT
52114 AATAATTGTTAGTAAATTATTG
1 AATAATTGTTAGTAAATTATTG
52136 AATAATTGTTAGTAAATTATT
1 AATAATTGTTAGTAAATTATT
52157 TACATTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.47
Consensus pattern (22 bp):
AATAATTGTTAGTAAATTATTG
Found at i:52165 original size:9 final size:9
Alignment explanation
Indices: 52148--52178 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
52138 TAATTGTTAG
52148 TAAATTATT
1 TAAATTATT
*
52157 TACATTATT
1 TAAATTATT
52166 TAAATTATT
1 TAAATTATT
52175 TAAA
1 TAAA
52179 ATCATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (9 bp):
TAAATTATT
Found at i:52432 original size:3 final size:3
Alignment explanation
Indices: 52424--52452 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
52414 ATATTAGAAT
52424 TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
52453 TTATTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:52457 original size:3 final size:3
Alignment explanation
Indices: 52451--52480 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
52441 CTACTACTAC
52451 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52481 CAAATTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:54963 original size:15 final size:15
Alignment explanation
Indices: 54945--54978 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
54935 TATTATTTTC
54945 ATATTTATTAAATAT
1 ATATTTATTAAATAT
**
54960 ATATTTATTTTATAT
1 ATATTTATTAAATAT
54975 ATAT
1 ATAT
54979 ATATATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATATTTATTAAATAT
Found at i:57917 original size:14 final size:14
Alignment explanation
Indices: 57898--57936 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
57888 TTTATTATAT
57898 ATATATATATAAAA
1 ATATATATATAAAA
* * *
57912 ATATATTTTTTAAA
1 ATATATATATAAAA
57926 ATATATATATA
1 ATATATATATA
57937 TAAACAAAAC
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATATATATATAAAA
Found at i:58337 original size:2 final size:2
Alignment explanation
Indices: 58330--58362 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
58320 TTGTCCCTTG
58330 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
58363 GGGAATCCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59082 original size:18 final size:18
Alignment explanation
Indices: 59059--59094 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
59049 AGATTGACTC
59059 TAAT-AATATTAAAATTAA
1 TAATAAATA-TAAAATTAA
59077 TAATAAATATAAAATTAA
1 TAATAAATATAAAATTAA
59095 ATTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TAATAAATATAAAATTAA
Found at i:59093 original size:24 final size:24
Alignment explanation
Indices: 59061--59131 Score: 88
Period size: 25 Copynumber: 2.9 Consensus size: 24
59051 ATTGACTCTA
* *
59061 ATAATATTAAAATTAATAATAAAT
1 ATAAAATTAAATTTAATAATAAAT
59085 ATAAAATTAAATTTAATAATAAAAT
1 ATAAAATTAAATTTAATAAT-AAAT
* * *
59110 ATATATTTAAATTTAAAAATAA
1 ATAAAATTAAATTTAATAATAA
59132 TGATTTAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
24 20 0.49
25 21 0.51
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
ATAAAATTAAATTTAATAATAAAT
Found at i:64242 original size:27 final size:27
Alignment explanation
Indices: 64212--64288 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 27
64202 AAAGCCACCA
* *
64212 TTTGTGTTTGTTAAAAATGGTGGTTAC
1 TTTGTGTTTGTAAAAAATAGTGGTTAC
* * *
64239 TTTGTATTTATAAAAAATAGTGGTTCC
1 TTTGTGTTTGTAAAAAATAGTGGTTAC
* * *
64266 TTTTTGTTTGTCAAAAATTGTGG
1 TTTGTGTTTGTAAAAAATAGTGG
64289 CTTGTTGTTT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.48
Consensus pattern (27 bp):
TTTGTGTTTGTAAAAAATAGTGGTTAC
Found at i:64301 original size:24 final size:24
Alignment explanation
Indices: 64269--64314 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
64259 TGGTTCCTTT
64269 TTGTTTGTCAAAAATTGTGGCTTG
1 TTGTTTGTCAAAAATTGTGGCTTG
*
64293 TTGTTTGTCAAAATTTGTGGCT
1 TTGTTTGTCAAAAATTGTGGCT
64315 AATTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.20, C:0.09, G:0.24, T:0.48
Consensus pattern (24 bp):
TTGTTTGTCAAAAATTGTGGCTTG
Found at i:65235 original size:2 final size:2
Alignment explanation
Indices: 65228--65271 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
65218 CTTCCTTTAC
65228 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65270 AT
1 AT
65272 TCAATTCATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68598 original size:2 final size:2
Alignment explanation
Indices: 68591--68623 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
68581 CAGGCCAAAA
68591 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
68624 AAGAAGAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:71871 original size:18 final size:18
Alignment explanation
Indices: 71828--71873 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
71818 AAATATTATA
*
71828 ATAATAAAATTAAAATTG
1 ATAATTAAATTAAAATTG
*
71846 ATTATTAAATTAAAATT-
1 ATAATTAAATTAAAATTG
*
71863 ATAATTTAATT
1 ATAATTAAATT
71874 TGTGATTGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
ATAATTAAATTAAAATTG
Found at i:72021 original size:32 final size:30
Alignment explanation
Indices: 71938--72021 Score: 89
Period size: 32 Copynumber: 2.7 Consensus size: 30
71928 GTATATTTTT
*
71938 AATAATATATAATATTTAAA-ATTTTAATA
1 AATATTATATAATATTTAAATATTTTAATA
*
71967 AATATTATTTTATATATTTAAATATTTTAATTA
1 AATATTA-TATA-ATATTTAAATATTTTAA-TA
* *
72000 ATTATTATATAAGTATATAAAT
1 AATATTATATAA-TATTTAAAT
72022 TTATTCATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
29 6 0.13
30 3 0.07
31 10 0.22
32 18 0.40
33 8 0.18
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (30 bp):
AATATTATATAATATTTAAATATTTTAATA
Found at i:72869 original size:2 final size:2
Alignment explanation
Indices: 72862--72902 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
72852 TAGCCAACTC
72862 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
72903 GATTTCCACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:74507 original size:20 final size:22
Alignment explanation
Indices: 74456--74509 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
74446 TAGGTTGTTC
74456 TTTAAAAG-AATTGATATAGTTT
1 TTTAAAAGAAATTGATATA-TTT
74478 TTTAAGAAAGAAATTG-TAT-TTT
1 TTT-A-AAAGAAATTGATATATTT
74500 TTTAAAAGAA
1 TTTAAAAGAA
74510 TTATAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 6 0.21
21 1 0.03
22 9 0.31
23 1 0.03
24 7 0.24
25 5 0.17
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.43
Consensus pattern (22 bp):
TTTAAAAGAAATTGATATATTT
Found at i:75642 original size:2 final size:2
Alignment explanation
Indices: 75632--75669 Score: 67
Period size: 2 Copynumber: 18.5 Consensus size: 2
75622 TAAAAAATGT
75632 TA TA GTA TA TA TA 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 TA TA TA TA TA TA T
75670 GAATGTAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:77269 original size:22 final size:23
Alignment explanation
Indices: 77243--77288 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
77233 CCATTTTGAA
*
77243 TAATTTGAT-AAAAACTATGATT
1 TAATTTCATGAAAAACTATGATT
*
77265 TAATTTCATGAAAAACTATTATT
1 TAATTTCATGAAAAACTATGATT
77288 T
1 T
77289 TGTCGACTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (23 bp):
TAATTTCATGAAAAACTATGATT
Found at i:78618 original size:13 final size:13
Alignment explanation
Indices: 78600--78625 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
78590 GATTCTTAAT
78600 TTTATTATATAGA
1 TTTATTATATAGA
78613 TTTATTATATAGA
1 TTTATTATATAGA
78626 ATATAGATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
TTTATTATATAGA
Found at i:78653 original size:21 final size:21
Alignment explanation
Indices: 78627--78667 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
78617 TTATATAGAA
78627 TATAGATATATACAACTTTTC
1 TATAGATATATACAACTTTTC
*
78648 TATAGATATATAGAACTTTT
1 TATAGATATATACAACTTTT
78668 ATCAGTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (21 bp):
TATAGATATATACAACTTTTC
Found at i:78699 original size:21 final size:21
Alignment explanation
Indices: 78675--78718 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
78665 TTTATCAGTA
*
78675 ATTCCATTTCATTTATATTCT
1 ATTCCATATCATTTATATTCT
* *
78696 ATTCTATATCATTTCTATTCT
1 ATTCCATATCATTTATATTCT
78717 AT
1 AT
78719 AGATAAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.25, C:0.18, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTCCATATCATTTATATTCT
Found at i:79989 original size:24 final size:22
Alignment explanation
Indices: 79945--79989 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
79935 CTTATTTATA
*
79945 TTTTTTATATTTTCGATTTCCT
1 TTTTTTATATTTTCCATTTCCT
*
79967 TTTTTTTTATTTATCCATCTTCC
1 TTTTTTATATTT-TCCAT-TTCC
79990 ATTGAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 11 0.58
23 4 0.21
24 4 0.21
ACGTcount: A:0.13, C:0.18, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTTTATATTTTCCATTTCCT
Found at i:80546 original size:2 final size:2
Alignment explanation
Indices: 80539--80567 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
80529 ATTCTAAGAA
80539 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
80568 AATGAAGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:80805 original size:2 final size:2
Alignment explanation
Indices: 80795--80826 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
80785 TAAAAAATGT
80795 TA TA GTA 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 TA TA TA T
80827 GAATGTAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:82426 original size:22 final size:23
Alignment explanation
Indices: 82400--82445 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
82390 CCATTTTGAA
*
82400 TAATTTGAT-AAAAACTATGATT
1 TAATTTCATGAAAAACTATGATT
*
82422 TAATTTCATGAAAAACTATTATT
1 TAATTTCATGAAAAACTATGATT
82445 T
1 T
82446 TGTCGACTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (23 bp):
TAATTTCATGAAAAACTATGATT
Found at i:83420 original size:20 final size:20
Alignment explanation
Indices: 83384--83421 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
83374 TACTACCAGT
*
83384 TTCATGTATCAATACAATTC
1 TTCATGTATCAACACAATTC
*
83404 TTCATGTATCGACACAAT
1 TTCATGTATCAACACAAT
83422 GAACATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (20 bp):
TTCATGTATCAACACAATTC
Found at i:83445 original size:13 final size:13
Alignment explanation
Indices: 83427--83451 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83417 ACAATGAACA
83427 TGTATCGATACAT
1 TGTATCGATACAT
83440 TGTATCGATACA
1 TGTATCGATACA
83452 AAGCAGTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:87348 original size:126 final size:124
Alignment explanation
Indices: 87106--87359 Score: 375
Period size: 124 Copynumber: 2.0 Consensus size: 124
87096 CATCCTTTTC
* * * * *
87106 AAGCTTTGTTAAAATACTCATTGGTGTTTCACACAGTTTGACTTGATCCATTTGAAACTTTTTGA
1 AAGCTTTGTTAAAATACTCATCGATGTTTCACACAGTTTAACTTGATCCATTTGAAACCTTTTAA
* * *
87171 GTATCCTTTGCATATTTTGCTTGATTGATGAAGATCATGTCCATTGTTTGCTTTACTTG
66 GTATCCTTTGCATATTTTGCTTAATTGATAAAGATCATGTCCATTGTTTGCTTCACTTG
* * *
87230 AAGCTTTGTTGAAGTACTCATCGATGTTTCACACGGTTTAACTTGATCCATTTGAAACCTTTTAA
1 AAGCTTTGTTAAAATACTCATCGATGTTTCACACAGTTTAACTTGATCCATTTGAAACCTTTTAA
87295 GTAGCTCCTTTGCATATTTTGCTTAATTGATAAAGATC-TCGTCCATTGTTTGCTTCACTTG
66 GTA--TCCTTTGCATATTTTGCTTAATTGATAAAGATCAT-GTCCATTGTTTGCTTCACTTG
87356 AAGC
1 AAGC
87360 CCCAAAAAGA
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
124 60 0.52
125 1 0.01
126 55 0.47
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (124 bp):
AAGCTTTGTTAAAATACTCATCGATGTTTCACACAGTTTAACTTGATCCATTTGAAACCTTTTAA
GTATCCTTTGCATATTTTGCTTAATTGATAAAGATCATGTCCATTGTTTGCTTCACTTG
Found at i:93571 original size:18 final size:17
Alignment explanation
Indices: 93528--93573 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
93518 CATACCAAAA
93528 TTTGATTGAA--TTTTT
1 TTTGATTGAATTTTTTT
*
93543 TTT-ATTAAATTTTTATT
1 TTTGATTGAATTTTT-TT
93560 TTTGATTGAATTTT
1 TTTGATTGAATTTT
93574 CATTCAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 5 0.20
15 3 0.12
16 3 0.12
17 5 0.20
18 9 0.36
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (17 bp):
TTTGATTGAATTTTTTT
Found at i:93726 original size:21 final size:21
Alignment explanation
Indices: 93688--93736 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
93678 ATAGAAAATT
* *
93688 AAATTTTATAAAAAATTATTA
1 AAATTATATAAAAAATTATCA
* *
93709 AAATTATATCAAATATTATCA
1 AAATTATATAAAAAATTATCA
93730 AAATTAT
1 AAATTAT
93737 GTCATTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (21 bp):
AAATTATATAAAAAATTATCA
Found at i:94058 original size:16 final size:16
Alignment explanation
Indices: 94021--94068 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
94011 TTCGAAAAAA
94021 CAAAATTTAAAAT-AT
1 CAAAATTTAAAATAAT
*
94036 CTTAAATTTAAAATAAT
1 C-AAAATTTAAAATAAT
**
94053 CAAAATCAAAAATAAT
1 CAAAATTTAAAATAAT
94069 TTAATCCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 1 0.04
16 23 0.85
17 3 0.11
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.31
Consensus pattern (16 bp):
CAAAATTTAAAATAAT
Found at i:96632 original size:16 final size:16
Alignment explanation
Indices: 96591--96643 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
96581 AATGGTGTTA
96591 TTATAATTATT-AT-T
1 TTATAATTATTAATAT
* *
96605 TTATGATT-TTAATTT
1 TTATAATTATTAATAT
*
96620 TTTTAATTATTAATAT
1 TTATAATTATTAATAT
96636 TTATAATT
1 TTATAATT
96644 GATATTTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
13 2 0.06
14 9 0.29
15 7 0.23
16 13 0.42
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TTATAATTATTAATAT
Found at i:98598 original size:11 final size:11
Alignment explanation
Indices: 98582--98606 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
98572 TTTTAATATA
98582 TCATATTATTC
1 TCATATTATTC
98593 TCATATTATTC
1 TCATATTATTC
98604 TCA
1 TCA
98607 AATCAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.20, G:0.00, T:0.52
Consensus pattern (11 bp):
TCATATTATTC
Found at i:100490 original size:12 final size:12
Alignment explanation
Indices: 100473--100509 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
100463 ATCAAGAGCC
100473 ATGGTAACCACA
1 ATGGTAACCACA
100485 ATGGTAACCACA
1 ATGGTAACCACA
100497 ATGGTAACCACA
1 ATGGTAACCACA
100509 A
1 A
100510 CACCTTGGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.43, C:0.24, G:0.16, T:0.16
Consensus pattern (12 bp):
ATGGTAACCACA
Found at i:100891 original size:17 final size:17
Alignment explanation
Indices: 100869--100902 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
100859 GTTCATTTCC
* *
100869 TTTTTATTTTATGTTAA
1 TTTTTATATTATATTAA
100886 TTTTTATATTATATTAA
1 TTTTTATATTATATTAA
100903 AGAAGAGAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTTATATTATATTAA
Found at i:103356 original size:28 final size:27
Alignment explanation
Indices: 103286--103357 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 27
103276 TAAATTTTTA
103286 TAAAAAAATATATTTATCTTTAATATT
1 TAAAAAAATATATTTATCTTTAATATT
* *
103313 T-AAAAAATATTCATTTTTTTTTAA-AGTT
1 TAAAAAAATA-T-ATTTATCTTTAATA-TT
103341 TGAAAAAAATATATTTA
1 T-AAAAAAATATATTTA
103358 ATCATAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
26 8 0.22
27 3 0.08
28 17 0.46
29 1 0.03
30 8 0.22
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (27 bp):
TAAAAAAATATATTTATCTTTAATATT
Found at i:106856 original size:31 final size:31
Alignment explanation
Indices: 106818--106894 Score: 145
Period size: 31 Copynumber: 2.5 Consensus size: 31
106808 TACATTATTC
*
106818 AATGTATCGATACATCTAGGTAAAAAGACAT
1 AATGTATCGATACATATAGGTAAAAAGACAT
106849 AATGTATCGATACATATAGGTAAAAAGACAT
1 AATGTATCGATACATATAGGTAAAAAGACAT
106880 AATGTATCGATACAT
1 AATGTATCGATACAT
106895 TGTAGAATAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (31 bp):
AATGTATCGATACATATAGGTAAAAAGACAT
Found at i:106925 original size:40 final size:39
Alignment explanation
Indices: 106877--106954 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
106867 GGTAAAAAGA
* *
106877 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
106916 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
106955 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:106927 original size:20 final size:20
Alignment explanation
Indices: 106880--106954 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
106870 AAAAAGACAT
*
106880 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
106899 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
106920 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
106940 AATGTATCGATACAT
1 AATGTATCGATACAT
106955 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:108506 original size:4 final size:4
Alignment explanation
Indices: 108499--108545 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
108489 AAGTGAATTG
108499 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT
108546 TTCTTAATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:108901 original size:3 final size:3
Alignment explanation
Indices: 108893--108930 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
108883 TCCCAACTCC
108893 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
108931 CTTATCTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:116857 original size:2 final size:2
Alignment explanation
Indices: 116852--116877 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
116842 TTTTTCCTCT
116852 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
116878 AGTTTTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:120015 original size:39 final size:42
Alignment explanation
Indices: 119972--120050 Score: 119
Period size: 39 Copynumber: 2.0 Consensus size: 42
119962 AGAAGTTGAT
*
119972 TTGATGAACATCCATGG-TCACTAGA-A-AAAAAAAAAATGA
1 TTGATGAACATCCATGGCTCACTACATAGAAAAAAAAAATGA
*
120011 TTGATGAACATCCCTGGCTCACTACATAGAAAAAAAAAAT
1 TTGATGAACATCCATGGCTCACTACATAGAAAAAAAAAAT
120051 TTGTTGACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
39 16 0.46
40 7 0.20
41 1 0.03
42 11 0.31
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (42 bp):
TTGATGAACATCCATGGCTCACTACATAGAAAAAAAAAATGA
Found at i:122783 original size:14 final size:14
Alignment explanation
Indices: 122761--122811 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
122751 AATTTTTAAT
*
122761 TAAACTTTTACATA
1 TAAAATTTTACATA
122775 TAAAATTTTTA-AT-
1 TAAAA-TTTTACATA
122788 TAAACATTTTACATA
1 TAAA-ATTTTACATA
*
122803 CAAAATTTT
1 TAAAATTTT
122812 TAATTATACT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
13 9 0.29
14 14 0.45
15 8 0.26
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (14 bp):
TAAAATTTTACATA
Found at i:122798 original size:28 final size:28
Alignment explanation
Indices: 122726--123137 Score: 196
Period size: 28 Copynumber: 15.2 Consensus size: 28
122716 CTTGTAAATT
** * *
122726 TTTTTAATTAAACCCTTT-CATGTGAAA
1 TTTTTAATTAAACATTTTACATATAAAA
122753 TTTTTAATTAAAC-TTTTACATATAAAA
1 TTTTTAATTAAACATTTTACATATAAAA
*
122780 TTTTTAATTAAACATTTTACATACAAAA
1 TTTTTAATTAAACATTTTACATATAAAA
* * * ** *
122808 TTTTTAATTATAC-TTTCACCTATGGAG
1 TTTTTAATTAAACATTTTACATATAAAA
* * *
122835 TTTTCAATTGAAC-TTTTCACA-AAAATAA
1 TTTTTAATTAAACATTTT-ACATATAA-AA
* * * *
122863 TTTTAAATTAAGCCTTGTACATATAAAA
1 TTTTTAATTAAACATTTTACATATAAAA
* ** * * * *
122891 TTTTTAATCATGCCTTTTACATTTAGAG
1 TTTTTAATTAAACATTTTACATATAAAA
** * * *
122919 TTTTTAATTAAACCCTATGCATCTAAAA
1 TTTTTAATTAAACATTTTACATATAAAA
* * * *
122947 CTTTTAGTTAAAC---TTCCACAT-AAA
1 TTTTTAATTAAACATTTTACATATAAAA
*
122971 TTTTTAATTAAA-ATTTTTAC--ACAAAA
1 TTTTTAATTAAACA-TTTTACATATAAAA
* *
122997 -TTTTAAGTT-AA-ATTTTCCCATATGAAA
1 TTTTTAA-TTAAACATTTT-ACATATAAAA
* * *
123024 TTTTTAATTAAAAATTTTACACATAGAA
1 TTTTTAATTAAACATTTTACATATAAAA
* * *
123052 TTTTAAATTAAA-ATTTCACATATAGAA
1 TTTTTAATTAAACATTTTACATATAAAA
* * *
123079 TTTTTAATTAAAC-TTCTTGCATTTAGAA
1 TTTTTAATTAAACATT-TTACATATAAAA
** *
123107 CATTTAATT-AA-ATTTCACATATAAAA
1 TTTTTAATTAAACATTTTACATATAAAA
123133 TTTTT
1 TTTTT
123138 TTATTTACAT
Statistics
Matches: 291, Mismatches: 73, Indels: 43
0.71 0.18 0.11
Matches are distributed among these distances:
24 17 0.06
25 15 0.05
26 19 0.07
27 94 0.32
28 135 0.46
29 11 0.04
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (28 bp):
TTTTTAATTAAACATTTTACATATAAAA
Found at i:122809 original size:55 final size:54
Alignment explanation
Indices: 122750--123137 Score: 200
Period size: 55 Copynumber: 7.1 Consensus size: 54
122740 CTTTCATGTG
*
122750 AAATTTTTAATTAAACTTTTACATATAAAATTTTTAATTAAACATTTTACATACA
1 AAATTTTTAATTAAACTTTTACATATAAAATTTTTAATTAAA-ATTTTACATATA
* * * ** * * * * *
122805 AAATTTTTAATTATACTTTCACCTATGGAGTTTTCAATTGAACTTTTCACA-AAA
1 AAATTTTTAATTAAACTTTTACATATAAAATTTTTAATTAAAATTTT-ACATATA
* * * * *** *
122859 ATAATTTTAAATTAAGCCTTGTACATATAAAATTTTTAATCATGCCTTTTACATTTA
1 A-AATTTTTAATTAA-ACTTTTACATATAAAATTTTTAATTA-AAATTTTACATATA
* * * * * * * * * * *
122916 GAGTTTTTAATTAAACCCTATGCATCTAAAACTTTTAGTT-AAA-CTTCCACAT-
1 AAATTTTTAATTAAA-CTTTTACATATAAAATTTTTAATTAAAATTTTACATATA
* * * *
122968 AAATTTTTAATTAAAATTTTTAC--ACAAAA-TTTTAAGTT-AAATTTTCCCATATG
1 AAATTTTTAATT-AAACTTTTACATATAAAATTTTTAA-TTAAAATTTT-ACATATA
* * * * *
123021 AAATTTTTAATTAAAAATTTTACACATAGAATTTTAAATTAAAATTTCACATATA
1 AAATTTTTAATT-AAACTTTTACATATAAAATTTTTAATTAAAATTTTACATATA
* * * * ** *
123076 GAATTTTTAATTAAACTTCTTGCATTTAGAACATTTAATT-AAATTTCACATATA
1 AAATTTTTAATTAAACTT-TTACATATAAAATTTTTAATTAAAATTTTACATATA
123130 AAATTTTT
1 AAATTTTT
123138 TTATTTACAT
Statistics
Matches: 246, Mismatches: 71, Indels: 33
0.70 0.20 0.09
Matches are distributed among these distances:
49 5 0.02
50 9 0.04
51 2 0.01
52 18 0.07
53 30 0.12
54 33 0.13
55 85 0.35
56 58 0.24
57 6 0.02
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44
Consensus pattern (54 bp):
AAATTTTTAATTAAACTTTTACATATAAAATTTTTAATTAAAATTTTACATATA
Found at i:123009 original size:25 final size:27
Alignment explanation
Indices: 122963--123090 Score: 129
Period size: 27 Copynumber: 4.7 Consensus size: 27
122953 GTTAAACTTC
122963 CACATAAATTTTTAATTAAAATTTTTA
1 CACATAAATTTTTAATTAAAATTTTTA
**
122990 CACA-AAA-TTTTAAGTT-AAATTTTCC
1 CACATAAATTTTTAA-TTAAAATTTTTA
* *
123015 CATATGAAATTTTTAATTAAAAATTTTA
1 CACAT-AAATTTTTAATTAAAATTTTTA
* *
123043 CACATAGAATTTTAAATTAAAA-TTTCA
1 CACATA-AATTTTTAATTAAAATTTTTA
*
123070 CATATAGAATTTTTAATTAAA
1 CACATA-AATTTTTAATTAAA
123091 CTTCTTGCAT
Statistics
Matches: 84, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
25 16 0.19
26 5 0.06
27 33 0.39
28 30 0.36
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (27 bp):
CACATAAATTTTTAATTAAAATTTTTA
Found at i:123694 original size:21 final size:22
Alignment explanation
Indices: 123668--123709 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
123658 CTCTTGGAAG
*
123668 TTGAGAGAAAGAAAGA-AAAGC
1 TTGAGAGAAAAAAAGAGAAAGC
123689 TTGAGAGAAAAAAAGAGAAAG
1 TTGAGAGAAAAAAAGAGAAAG
123710 GCAGAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.60, C:0.02, G:0.29, T:0.10
Consensus pattern (22 bp):
TTGAGAGAAAAAAAGAGAAAGC
Found at i:123707 original size:10 final size:10
Alignment explanation
Indices: 123692--123753 Score: 54
Period size: 10 Copynumber: 6.2 Consensus size: 10
123682 GAAAAGCTTG
123692 AGAGAAAAAA
1 AGAGAAAAAA
***
123702 AGAGAAAGGC
1 AGAGAAAAAA
*
123712 AGAAAAAAAA
1 AGAGAAAAAA
123722 AGA-AAAGAAA
1 AGAGAAA-AAA
*
123732 AGAGAAAGAA
1 AGAGAAAAAA
*
123742 AGAAAAAAAA
1 AGAGAAAAAA
123752 AG
1 AG
123754 TTTTATCATT
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
9 3 0.08
10 34 0.85
11 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.23, T:0.00
Consensus pattern (10 bp):
AGAGAAAAAA
Found at i:123743 original size:20 final size:20
Alignment explanation
Indices: 123692--123753 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
123682 GAAAAGCTTG
**
123692 AGAGAAAAAAAGAGAAAG-GC
1 AGAGAAAAAAAGA-AAAGAAA
*
123712 AGAAAAAAAAAGAAAAGAAA
1 AGAGAAAAAAAGAAAAGAAA
* *
123732 AGAGAAAGAAAGAAAAAAAA
1 AGAGAAAAAAAGAAAAGAAA
123752 AG
1 AG
123754 TTTTATCATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 4 0.11
20 31 0.89
ACGTcount: A:0.76, C:0.02, G:0.23, T:0.00
Consensus pattern (20 bp):
AGAGAAAAAAAGAAAAGAAA
Found at i:123852 original size:17 final size:17
Alignment explanation
Indices: 123815--123849 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
123805 TTTTTTTTCA
*
123815 TCATCTCATCTTCATCT
1 TCATCTCATCTCCATCT
123832 TCATCTCTATCTCCATCT
1 TCATCTC-ATCTCCATCT
123850 CATTTTCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (17 bp):
TCATCTCATCTCCATCT
Found at i:125191 original size:20 final size:20
Alignment explanation
Indices: 125166--125240 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
125156 TTTTCACAAT
*
125166 TTGTATTGATACATTGTTAA
1 TTGTATCGATACATTGTTAA
* *
125186 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTAA
125206 TTGTATCGATACATT-TTACA
1 TTGTATCGATACATTGTTA-A
*
125226 ATGTATCGATACATT
1 TTGTATCGATACATT
125241 CAGGCATTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
19 1 0.02
20 47 0.98
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.44
Consensus pattern (20 bp):
TTGTATCGATACATTGTTAA
Found at i:127820 original size:28 final size:28
Alignment explanation
Indices: 127789--127843 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
127779 GTCATCTAAC
127789 CCCGTTATTTCATCG-G-GGATACTCCAAT
1 CCCGTTATTT--TCGAGAGGATACTCCAAT
127817 CCCGTTATTTTCGAGAGGATACTCCAA
1 CCCGTTATTTTCGAGAGGATACTCCAA
127844 CCCCAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 3 0.12
27 1 0.04
28 21 0.84
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (28 bp):
CCCGTTATTTTCGAGAGGATACTCCAAT
Found at i:127889 original size:51 final size:51
Alignment explanation
Indices: 127833--127950 Score: 173
Period size: 51 Copynumber: 2.3 Consensus size: 51
127823 ATTTTCGAGA
* *
127833 GGATACTCCAACCCCAATTTTATTTCTAAAATACCAATTTTTCGCAATCGG
1 GGATACTCCAACCCCAATTTTATTTCTAAAATACCAATTTTTCACAATCAG
* * *
127884 GGATACTCCAACTCCGATTTTATTTCTAAAATACTAATTTTTCACAATCAG
1 GGATACTCCAACCCCAATTTTATTTCTAAAATACCAATTTTTCACAATCAG
* *
127935 AGATATTCCAACCCCA
1 GGATACTCCAACCCCA
127951 TTATTTCATC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.33
Consensus pattern (51 bp):
GGATACTCCAACCCCAATTTTATTTCTAAAATACCAATTTTTCACAATCAG
Found at i:127995 original size:28 final size:28
Alignment explanation
Indices: 127934--128006 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
127924 TTCACAATCA
* * **
127934 GAGATATTCCAACCCCATTATTTCATCG
1 GAGATACTCCAACCCCGTTATTTCAGAG
*
127962 GAGATACTCCAACCCCGTTATTTCCGAG
1 GAGATACTCCAACCCCGTTATTTCAGAG
*
127990 GGGATACTCCAACCCCG
1 GAGATACTCCAACCCCG
128007 GCTTTATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (28 bp):
GAGATACTCCAACCCCGTTATTTCAGAG
Found at i:128054 original size:51 final size:51
Alignment explanation
Indices: 127990--128108 Score: 177
Period size: 51 Copynumber: 2.3 Consensus size: 51
127980 TATTTCCGAG
* *
127990 GGGATACTCCAACCCCGGCTTTATTT-TCAAAATATTGATTTCTCACAATTA
1 GGGATACTCCAACCCCGGCCTTATTTCT-AAAATATTGATTTCTCACAATCA
* * *
128041 GGGATACTTCAACCCTGGCCTTATTTCTAAAATATTGATTTCTCACAATCG
1 GGGATACTCCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCACAATCA
128092 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
128109 TTATTATCTC
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 59 0.98
52 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (51 bp):
GGGATACTCCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCACAATCA
Found at i:128065 original size:158 final size:158
Alignment explanation
Indices: 127786--128113 Score: 399
Period size: 158 Copynumber: 2.1 Consensus size: 158
127776 GGGGTCATCT
* * * *
127786 AACCCCGTTATTTCATCGGGGATACTCCAATCCCGTTATTTTCGAGAGGATACTCCAACCCCAAT
1 AACCCCGTTATTTCATCGGAGATACTCCAACCCCGTTATTTCCGAGAGGATACTCCAACCCCAAC
* * * **
127851 TTTATTTCTAAAATACCAATTTTTCGCAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAT
66 TTTATTTCTAAAATACCAATTTCTCACAATCAGGGATACTCCAACTCCGACCTTATTTCTAAAAT
* *
127916 ACTAATTTTTCACAATCAGAGATATTCC
131 ACTAATTTCTCACAATCAGAGATACTCC
* * **
127944 AACCCCATTATTTCATCGGAGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGC
1 AACCCCGTTATTTCATCGGAGATACTCCAACCCCGTTATTTCCGAGAGGATACTCCAACCCCAAC
*** * * *
128009 TTTATTT-TCAAAATATTGATTTCTCACAATTAGGGATACTTCAAC-CCTGGCCTTATTTCTAAA
66 TTTATTTCT-AAAATACCAATTTCTCACAATCAGGGATACTCCAACTCC-GACCTTATTTCTAAA
* * * *
128072 ATATTGATTTCTCACAATCGGGGATACTCC
129 ATACTAATTTCTCACAATCAGAGATACTCC
128102 AACCCCGTTATT
1 AACCCCGTTATT
128114 ATCTCCAAAA
Statistics
Matches: 142, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
157 3 0.02
158 139 0.98
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.33
Consensus pattern (158 bp):
AACCCCGTTATTTCATCGGAGATACTCCAACCCCGTTATTTCCGAGAGGATACTCCAACCCCAAC
TTTATTTCTAAAATACCAATTTCTCACAATCAGGGATACTCCAACTCCGACCTTATTTCTAAAAT
ACTAATTTCTCACAATCAGAGATACTCC
Found at i:128124 original size:51 final size:50
Alignment explanation
Indices: 127989--128136 Score: 170
Period size: 51 Copynumber: 2.9 Consensus size: 50
127979 TTATTTCCGA
* *
127989 GGGGATACTCCAACCCCGGCTTTATTTTCAAAATATTGATTTCTCACAATT
1 GGGGATACTCCAACCCC-GCTTTATTTCCAAAATATTGATTTCTCACAATC
* * * * *
128040 AGGGATACTTCAACCCTGGCCTTATTTCTAAAATATTGATTTCTCACAATC
1 GGGGATACTCCAACCC-CGCTTTATTTCCAAAATATTGATTTCTCACAATC
* * *
128091 GGGGATACTCCAACCCCGTTATTATCTCCAAAATATTAAATTTCTC
1 GGGGATACTCCAACCCCGCT-TTATTTCCAAAATATT-GATTTCTC
128137 GTCGGGAGAT
Statistics
Matches: 79, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
50 1 0.01
51 71 0.90
52 7 0.09
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (50 bp):
GGGGATACTCCAACCCCGCTTTATTTCCAAAATATTGATTTCTCACAATC
Found at i:131419 original size:2 final size:2
Alignment explanation
Indices: 131408--131446 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
131398 TACAAGGAAG
* *
131408 TA TA -A TA TA TA TG CA 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 TA TA TA TA TA TA
131447 AACAAAGGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:132020 original size:13 final size:13
Alignment explanation
Indices: 132002--132058 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
131992 CATAAAGTGT
132002 TGTATCGATACAA
1 TGTATCGATACAA
132015 TGTATCGATACATAA
1 TGTATCGATAC--AA
132030 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
132047 TGTATCGATACA
1 TGTATCGATACA
132059 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:132037 original size:32 final size:32
Alignment explanation
Indices: 131982--132079 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
131972 TTCAACGATT
131982 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
132015 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
132047 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
132079 T
1 T
132080 TTAAGCTACT
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 51 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:132039 original size:19 final size:18
Alignment explanation
Indices: 131980--132077 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
131970 ATTTCAACGA
131980 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
131999 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
132015 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
132031 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
132047 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
132063 TTTTGTATCGATACA
1 -TTTGTATCGATACA
132078 ATTTAAGCTA
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
19 24 0.36
20 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:132138 original size:13 final size:13
Alignment explanation
Indices: 132120--132144 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
132110 ATTACTCAAA
132120 TGTATCGATACAT
1 TGTATCGATACAT
132133 TGTATCGATACA
1 TGTATCGATACA
132145 CTTATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:132142 original size:34 final size:33
Alignment explanation
Indices: 132099--132165 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 33
132089 TGCCAAAAAA
132099 TGTATCGATACA-TTACTCAAATGTATCGATACAT
1 TGTATCGATACACTTA-TC-AATGTATCGATACAT
**
132133 TGTATCGATACACTTATCTTTGTATCGATACAT
1 TGTATCGATACACTTATCAATGTATCGATACAT
132166 GCAGGAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 13 0.43
34 14 0.47
35 3 0.10
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (33 bp):
TGTATCGATACACTTATCAATGTATCGATACAT
Found at i:139131 original size:10 final size:10
Alignment explanation
Indices: 139120--139189 Score: 79
Period size: 10 Copynumber: 6.8 Consensus size: 10
139110 AAGTGATGAA
*
139120 AAAAAACAAAA
1 AAAAAA-AAAC
139131 AAAAAACAAAC
1 AAAAAA-AAAC
139142 AAAAAAAAAC
1 AAAAAAAAAC
*
139152 AAAAAACAA-
1 AAAAAAAAAC
139161 AAAAAAAAAC
1 AAAAAAAAAC
*
139171 AAAAAAACAC
1 AAAAAAAAAC
139181 AGAAAAAAA
1 A-AAAAAAA
139190 GGTGCAAAGG
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
9 8 0.15
10 22 0.42
11 22 0.42
ACGTcount: A:0.87, C:0.11, G:0.01, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:139145 original size:20 final size:19
Alignment explanation
Indices: 139118--139189 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 19
139108 AAAAGTGATG
139118 AAAAAAAACAAAAAAAAAAC
1 AAAAAAAA-AAAAAAAAAAC
139138 AAACAAAAAAAAACAAAAAAC
1 AAA-AAAAAAAAA-AAAAAAC
139159 AAAAAAAAAAACAAAAAAAC
1 AAAAAAAAAAA-AAAAAAAC
139179 ACAGAAAAAAA
1 A-A-AAAAAAA
139190 GGTGCAAAGG
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
20 23 0.49
21 17 0.36
22 7 0.15
ACGTcount: A:0.88, C:0.11, G:0.01, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAAAAAAAAAC
Found at i:139186 original size:29 final size:30
Alignment explanation
Indices: 139120--139187 Score: 93
Period size: 29 Copynumber: 2.2 Consensus size: 30
139110 AAGTGATGAA
139120 AAAAAACAAAAAAAAAACAAACAAAAAAAAAC
1 AAAAAAC--AAAAAAAACAAACAAAAAAAAAC
*
139152 AAAAAACAAAAAAAA-AAACAAAAAAACAC
1 AAAAAACAAAAAAAACAAACAAAAAAAAAC
139181 AGAAAAA
1 A-AAAAA
139188 AAGGTGCAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
29 14 0.41
30 13 0.38
32 7 0.21
ACGTcount: A:0.87, C:0.12, G:0.01, T:0.00
Consensus pattern (30 bp):
AAAAAACAAAAAAAACAAACAAAAAAAAAC
Found at i:139188 original size:11 final size:11
Alignment explanation
Indices: 139118--139177 Score: 86
Period size: 11 Copynumber: 5.5 Consensus size: 11
139108 AAAAGTGATG
139118 AAAAAAAACAA
1 AAAAAAAACAA
139129 AAAAAAAACAA
1 AAAAAAAACAA
*
139140 ACAAAAAA-AA
1 AAAAAAAACAA
*
139150 ACAAAAAACAAA
1 AAAAAAAAC-AA
139162 AAAAAAAACAA
1 AAAAAAAACAA
139173 AAAAA
1 AAAAA
139178 CACAGAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.22
11 25 0.56
12 10 0.22
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:139189 original size:1 final size:1
Alignment explanation
Indices: 139118--139177 Score: 66
Period size: 1 Copynumber: 60.0 Consensus size: 1
139108 AAAAGTGATG
* * * * * *
139118 AAAAAAAACAAAAAAAAAACAAACAAAAAAAAACAAAAAACAAAAAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
139178 CACAGAAAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:140510 original size:34 final size:33
Alignment explanation
Indices: 140449--141261 Score: 434
Period size: 34 Copynumber: 25.3 Consensus size: 33
140439 ATTTCTTCTC
* * *
140449 AAAGTCCACCACTCCATGGCACCCTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCA-CCTTTTCCTTTT
* *
140483 AAAGCCTACAACTTCGTGGCACTCTTTTTCCCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-C-TTTT-CC-TTTT
140520 AAAGCCCACAACTCCGTGGCACCTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTCCTTTT
* * **
140553 -AAGTCCACGACTTTGTGGCACCCTCTTTCC----
1 AAAGCCCACAACTCCGTGGCA-CCT-TTTCCTTTT
* * * *
140583 AAAGTCCACGACTCCGTGGCACCTTTTTCTTTCC
1 AAAGCCCACAACTCCGTGGCACCTTTTCCTTT-T
* * *
140617 AAAGTCCACGACTCCGTGGCACCTTTTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTCCTTTT
* *
140650 CAAAGTCCACAACTCCGTGGCA----TTCTTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTCCTTTT
* *
140680 AAAGCCCACAACTCCATGGCACTCTTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-C-TTTTCCTTTT
* *
140715 -AAGCCCACGACTCCGTGGCACTCTTTTTCTTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTCCTTT-T
* *
140749 -AAGCCCACGACTCCGTGGCACTCTTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-C-TTTTCCTTTT
* * *
140783 -AAGTCCATAATTCCGTGGCA-C----CCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTCCTTTT
140810 AAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-C--TTTTCC-TTTT
*
140847 AAAGCCCACAACTACGTGGCACCTTTTCCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTCC-TTTT
*
140881 AAAGCCCACAACTCCGTGGCACC--TTCCTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTCCTTTT
* * * * *
140912 AAAGTCCACGACTCAGTGGCA--ATTT-CTTCTC
1 AAAGCCCACAACTCCGTGGCACCTTTTCCTT-TT
* * *
140943 AAAGTCCACGACTCAGTGG---C--TT-C----
1 AAAGCCCACAACTCCGTGGCACCTTTTCCTTTT
* * *
140966 AAAGTCCACGACTCAGTGGCATCCTTTT--TTTT
1 AAAGCCCACAACTCCGTGGCA-CCTTTTCCTTTT
* * * * * *
140998 AAAGTCCACGACTCAGTGGCA--TTTT-GTCTC
1 AAAGCCCACAACTCCGTGGCACCTTTTCCTTTT
* * * * * *
141028 AAAGTCCACGACTCAGTGGCA-TTTTTTC-TTC
1 AAAGCCCACAACTCCGTGGCACCTTTTCCTTTT
* *
141059 AAAGCCCACAACTCCGTGGCGCCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACC-TTTTCCTTTT
* * *
141093 AAAGCCCACGACTCCGTGGCACTTTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTCCTTTT
*
141127 -AAGTCCACAACTCCGTGGCA-C----CCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTCCTTTT
141154 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-C-TTTT-CCTTTT
* *
141190 -AAGTCCACAATTCCGTGGCA-C----CCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTCCTTTT
* *
141217 -AAGTCCACAACTCCGTGGCATCTTTCTCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTT-TCCTTTT
141250 CAAAAGCCCACA
1 --AAAGCCCACA
141262 CAAGTCGGTG
Statistics
Matches: 641, Mismatches: 68, Indels: 138
0.76 0.08 0.16
Matches are distributed among these distances:
23 19 0.03
27 36 0.06
28 40 0.06
29 29 0.05
30 37 0.06
31 85 0.13
32 42 0.07
33 44 0.07
34 201 0.31
35 39 0.06
36 20 0.03
37 49 0.08
ACGTcount: A:0.21, C:0.33, G:0.14, T:0.32
Consensus pattern (33 bp):
AAAGCCCACAACTCCGTGGCACCTTTTCCTTTT
Found at i:140649 original size:97 final size:95
Alignment explanation
Indices: 140483--141236 Score: 465
Period size: 97 Copynumber: 7.9 Consensus size: 95
140473 TTTTCCTTTT
* * * * *
140483 AAAGCCTACAACTTCGTGGCACTCTTTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--C-TTTCAAAGCCCACGACTCCGTGGCACCTTTTT
**
140548 CTTTTAAGTCCACGACTTTGTGGCACCCTCTTTCC
62 CTTTTAAGTCCACGACTCCGTGGCA-CCTCTTTCC
* * *
140583 AAAGTCCACGACTCCGTGGCACCTTTTTCTTTCCAAAGTCCACGACTCCGTGGCACCTTTTTCTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTT-CAAAGCCCACGACTCCGTGGCACCTTTTTCTT
* * **
140648 TTCAAAGTCCACAACTCCGTGGCA-TTCTTTTT
65 TT--AAGTCCACGACTCCGTGGCACCTCTTTCC
* * *
140680 AAAGCCCACAACTCCATGGCACTCTTTTTCCTTCTAAGCCCACGACTCCGTGGCACTCTTTTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTCAAAGCCCACGACTCCGTGGCAC-CTTTTTCT
* *
140745 TTCTAAGCCCACGACTCCGTGGCACTCTTTTTCCTTC
64 TT-TAAGTCCACGACTCCGTGGCAC-CTCTTT-C--C
* * * * * *
140782 TAAGTCCATAATTCCGTGGCACC-----CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTCAAAGCCCACGACTCCGTGGCAC-C-TTTTT-C
* * *
140842 TTTTTAAAGCCCACAACTACGTGGCACCT-TTTCC
63 -TTTT-AAGTCCACGACTCCGTGGCACCTCTTTCC
* * * *
140876 TTTTTAAAGCCCACAACTCCGTGGCACC--TTCCTTTCAAAGTCCACGACTCAGTGGCA-ATTTC
1 -----AAAGCCCACAACTCCGTGGCACCTTTTTCTTTCAAAGCCCACGACTCCGTGGCACCTTT-
** *
140938 TTC-TCAAAGTCCACGACTCAGTGG-----C-TT-C
60 TTCTTTTAAGTCCACGACTCCGTGGCACCTCTTTCC
* * * * *
140966 AAAGTCCACGACTCAGTGGCATCCTTTTT-TTT-AAAGTCCACGACTCAGTGGCA--TTTTGTC-
1 AAAGCCCACAACTCCGTGGCA-CCTTTTTCTTTCAAAGCCCACGACTCCGTGGCACCTTTT-TCT
** * * *
141026 TCAAAGTCCACGACTCAGTGGCA-TTTTTTCTTC
64 TTTAAGTCCACGACTCCGTGGCACCTCTTTC--C
* * *
141059 AAAGCCCACAACTCCGTGGCGCCTTTTTCTTTTTAAAGCCCACGACTCCGTGGCACTTTTTTCCT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTCAAAGCCCACGACTCCGTGGCACCTTTTT-CT
* * *
141124 TCTAAGTCCACAACTCCGTGGCACC-CTTT-T
64 TTTAAGTCCACGACTCCGTGGCACCTCTTTCC
* * * *
141154 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT-TAAGTCCACAATTCCGTGGCACC-----C
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTCAAAGCCCACGACTCCGTGGCACCTTTTTC
*
141213 TTTTAAGTCCACAACTCCGTGGCA
63 TTTTAAGTCCACGACTCCGTGGCA
141237 TCTTTCTCCT
Statistics
Matches: 530, Mismatches: 76, Indels: 106
0.74 0.11 0.15
Matches are distributed among these distances:
84 1 0.00
85 44 0.08
86 23 0.04
87 3 0.01
88 2 0.00
90 27 0.05
91 2 0.00
92 7 0.01
93 18 0.03
94 4 0.01
95 40 0.08
96 68 0.13
97 111 0.21
98 47 0.09
99 73 0.14
100 20 0.04
101 1 0.00
102 39 0.07
ACGTcount: A:0.21, C:0.33, G:0.14, T:0.32
Consensus pattern (95 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTCAAAGCCCACGACTCCGTGGCACCTTTTTCTTT
TAAGTCCACGACTCCGTGGCACCTCTTTCC
Found at i:140969 original size:23 final size:23
Alignment explanation
Indices: 140941--140985 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
140931 CAATTTCTTC
140941 TCAAAGTCCACGACTCAGTGGCT
1 TCAAAGTCCACGACTCAGTGGCT
140964 TCAAAGTCCACGACTCAGTGGC
1 TCAAAGTCCACGACTCAGTGGC
140986 ATCCTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (23 bp):
TCAAAGTCCACGACTCAGTGGCT
Found at i:141034 original size:30 final size:30
Alignment explanation
Indices: 140964--141146 Score: 150
Period size: 30 Copynumber: 5.8 Consensus size: 30
140954 CTCAGTGGCT
*
140964 TCAAAGTCCACGACTCAGTGGCATCCTTTTTT
1 TCAAAGTCCACGACTCAGTGGCAT--TTTTTC
* *
140996 TTAAAGTCCACGACTCAGTGGCATTTTGTC
1 TCAAAGTCCACGACTCAGTGGCATTTTTTC
141026 TCAAAGTCCACGACTCAGTGGCATTTTTTC
1 TCAAAGTCCACGACTCAGTGGCATTTTTTC
* * * * *
141056 TTCAAAGCCCACAACTCCGTGGCGCCTTTTTCTTT
1 -TCAAAGTCCACGACTCAGT-G-G-CATTTT-TTC
* * *
141091 TTAAAGCCCACGACTCCGTGGCACTTTTTTCC
1 TCAAAGTCCACGACTCAGTGGCA-TTTTTT-C
* * *
141123 TTCTAAGTCCACAACTCCGTGGCA
1 -TCAAAGTCCACGACTCAGTGGCA
141147 CCCTTTTAAA
Statistics
Matches: 125, Mismatches: 18, Indels: 15
0.79 0.11 0.09
Matches are distributed among these distances:
30 32 0.26
31 19 0.15
32 29 0.23
33 21 0.17
34 22 0.18
35 2 0.02
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.32
Consensus pattern (30 bp):
TCAAAGTCCACGACTCAGTGGCATTTTTTC
Found at i:141039 original size:85 final size:85
Alignment explanation
Indices: 140881--141047 Score: 248
Period size: 85 Copynumber: 2.0 Consensus size: 85
140871 TTTCCTTTTT
*
140881 AAAGCCCACAACTCCGTGGCACCTTCCTTTCAAAGTCCACGACTCAGTGGCAATTTCTTCTCAAA
1 AAAGCCCACAACTCAGTGGCACCTTCCTTTCAAAGTCCACGACTCAGTGGCAATTTCTTCTCAAA
140946 GTCCACGACTCAGTGGCTTC
66 GTCCACGACTCAGTGGCTTC
* * ** *
140966 AAAGTCCACGACTCAGTGGCATCCTTTTTTTTAAAGTCCACGACTCAGTGGC-ATTT-TGTCTCA
1 AAAGCCCACAACTCAGTGGCA-CCTTCCTTTCAAAGTCCACGACTCAGTGGCAATTTCT-TCTCA
141029 AAGTCCACGACTCAGTGGC
64 AAGTCCACGACTCAGTGGC
141048 ATTTTTTCTT
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
84 1 0.01
85 46 0.62
86 27 0.36
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (85 bp):
AAAGCCCACAACTCAGTGGCACCTTCCTTTCAAAGTCCACGACTCAGTGGCAATTTCTTCTCAAA
GTCCACGACTCAGTGGCTTC
Found at i:141205 original size:35 final size:36
Alignment explanation
Indices: 141147--141216 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 36
141137 CTCCGTGGCA
*
141147 CCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTT
* *
141183 CCCTTTT-AAGTCCACAATTCCGTGGCACCCTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCACCCTTTT
141217 AAGTCCACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 24 0.77
36 7 0.23
ACGTcount: A:0.19, C:0.36, G:0.11, T:0.34
Consensus pattern (36 bp):
CCCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTT
Found at i:141209 original size:63 final size:62
Alignment explanation
Indices: 141089--141249 Score: 247
Period size: 61 Copynumber: 2.6 Consensus size: 62
141079 GCCTTTTTCT
* *
141089 TTTTAAAGCCCACGACTCCGTGGCACT-TTTTTCCTTCTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCC
*
141150 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAATTCCGTGGCACCC
1 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTAAGTCCACAACTCCGTGGCACCC
* *
141213 TTTT-AAGTCCACAACTCCGTGGCA-TCTTTCTCCTTTT
1 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
141250 CAAAAGCCCA
Statistics
Matches: 93, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
60 6 0.06
61 32 0.34
62 24 0.26
63 31 0.33
ACGTcount: A:0.19, C:0.34, G:0.13, T:0.34
Consensus pattern (62 bp):
TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCC
Found at i:141221 original size:27 final size:27
Alignment explanation
Indices: 141183--141236 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
141173 CACTCTTTTT
*
141183 CCCTTTTAAGTCCACAATTCCGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCA
141210 CCCTTTTAAGTCCACAACTCCGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCA
141237 TCTTTCTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.28
Consensus pattern (27 bp):
CCCTTTTAAGTCCACAACTCCGTGGCA
Found at i:141289 original size:33 final size:33
Alignment explanation
Indices: 141252--141512 Score: 400
Period size: 33 Copynumber: 7.9 Consensus size: 33
141242 CTCCTTTTCA
*
141252 AAAGCCCACACAAGTCGGTGGTAACCCTTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
* * *
141285 AAAGCCCACACAAGTCGGTGGCAACCTTTTTCA
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
141318 AAAGCCCACACAAGTCGGTGGCAA-CCTTCTTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTC-TCT
141351 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
* *
141384 AAAGCCCACACAAGTCGGTGGCAACCTTTTTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
141417 AAAGCCCACACAAGTCGGTGGCAACCC-TCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
* *
141449 AAAGCCCACACAAGTTGGTGGCAACCATTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
* * *
141482 AAAGCCTACACAAGTTGATGGCAACCCTTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCT
141513 AAGCCCAATA
Statistics
Matches: 209, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
32 32 0.15
33 172 0.82
34 5 0.02
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.21
Consensus pattern (33 bp):
AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
Found at i:141578 original size:49 final size:49
Alignment explanation
Indices: 141512--142082 Score: 582
Period size: 49 Copynumber: 12.0 Consensus size: 49
141502 GCAACCCTTC
* *
141512 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * *
141561 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT-G--CC---ACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
141604 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * * *
141653 TAAGTCCAATGTAGTTGGCCTTGAATCAACACATTGGCACCTTTA----
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
141698 -AA-TCCAATATCA-CTGGCCTTGAATCAGCATATTGGCACCTTCATCTC
1 TAAGTCCAATAT-AGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
141745 TAAATCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCT-TCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-TATCTT
* *
141794 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
141837 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
141886 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
141929 TAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTT
* * * *
141981 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC---TT-T-ATCTT
* * * * * *
142036 TAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
142083 ACTTTTCTCA
Statistics
Matches: 439, Mismatches: 49, Indels: 68
0.79 0.09 0.12
Matches are distributed among these distances:
43 148 0.34
44 6 0.01
46 4 0.01
48 6 0.01
49 192 0.44
50 1 0.00
51 2 0.00
52 37 0.08
53 2 0.00
54 1 0.00
55 39 0.09
56 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
Found at i:141674 original size:92 final size:92
Alignment explanation
Indices: 141507--141972 Score: 515
Period size: 92 Copynumber: 5.1 Consensus size: 92
141497 TGATGGCAAC
* * *
141507 CCTTCTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATA
*
141572 TAGCTGGCCTTGAATCAGCACATTGCCA
65 TAGCTGGCCTTGAATCAGCATATTGCCA
*
141600 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATAT
* * * *
141665 AGTTGGCCTTGAATCAACACATTGGCA
66 AGCTGGCCTTGAATCAGCATATTGCCA
* * * *
141692 CCTTTAAATCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTCATCTCTAAATCCAATAT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATAT
*
141757 AGCTGGCCTTGAATCAGCATATTGGCACCTT
66 AGCTGGCCTTGAATCAGCATATT-G--CC-A
* * *
141788 CTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAAT
1 C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
*
141847 ATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
64 ATAGCTGGCCTTGAATCAGCATATT-G---C--CA
* * * *
141882 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATAT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATAT
* *
141941 AGCTGGCCTTGAATCAACATATTGGCA
66 AGCTGGCCTTGAATCAGCATATTGCCA
141968 CCTTT
1 CCTTT
141973 TCCATCTTTA
Statistics
Matches: 333, Mismatches: 31, Indels: 25
0.86 0.08 0.06
Matches are distributed among these distances:
86 6 0.02
91 1 0.00
92 279 0.84
93 6 0.02
94 1 0.00
95 2 0.01
96 1 0.00
98 37 0.11
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATAT
AGCTGGCCTTGAATCAGCATATTGCCA
Found at i:141771 original size:141 final size:140
Alignment explanation
Indices: 141525--141972 Score: 578
Period size: 141 Copynumber: 3.2 Consensus size: 140
141515 GCCCAATATC
* * *
141525 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT-AGCTGGCCTTGAATCA
1 GCTGGCCTTGAATCAACACATTGGCACCTTTA-----AA-TCCAATATCA-CTGGCCTTGAATCA
* * * *
141589 GCACATTGCCA-C--C-T-T-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
59 GCATATTGGCACCTTCATCTCTAAATCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
141648 ATCTTTAAGTCCAATGTA
124 -TCTTTAAGTCCAATGTA
*
141666 GTTGGCCTTGAATCAACACATTGGCACCTTTAAATCCAATATCACTGGCCTTGAATCAGCATATT
1 GCTGGCCTTGAATCAACACATTGGCACCTTTAAATCCAATATCACTGGCCTTGAATCAGCATATT
141731 GGCACCTTCATCTCTAAATCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTA
66 GGCACCTTCATCTCTAAATCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC-TCTTTA
141796 AGTCCAATGTA
130 AGTCCAATGTA
* * *
141807 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
1 GCTGGCCTTGAATCAACACATTGGCACCTTTAAATCCAATATCACTGGCCTTGAATCAGCATATT
* * * *
141872 GGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C-CTTTAA
66 GGCACCTTCATCTCTAAATCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTCTTTAA
*
141932 GTCCAATATA
131 GTCCAATGTA
*
141942 GCTGGCCTTGAATCAACATATTGGCACCTTT
1 GCTGGCCTTGAATCAACACATTGGCACCTTT
141973 TCCATCTTTA
Statistics
Matches: 280, Mismatches: 20, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
135 74 0.26
136 4 0.01
137 1 0.00
138 1 0.00
139 1 0.00
140 1 0.00
141 198 0.71
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (140 bp):
GCTGGCCTTGAATCAACACATTGGCACCTTTAAATCCAATATCACTGGCCTTGAATCAGCATATT
GGCACCTTCATCTCTAAATCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTCTTTAA
GTCCAATGTA
Found at i:141924 original size:233 final size:235
Alignment explanation
Indices: 141517--142025 Score: 846
Period size: 233 Copynumber: 2.2 Consensus size: 235
141507 CCTTCTAAGC
*
141517 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
141582 TGAATCAGCACATTGCCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
66 TGAATCAGCACATTGCCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
*
141647 CATCTTTAAGTCCAATGTAGTTGGCCTTGAATCAACACATTGGCACCTTTAAATCCAATATCA-C
131 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCACCTTTAAATCCAATAT-AGC
*
141711 TGGCCTTGAATCAGCATATTGGCACC-TT-CATCTCTAAAT
195 TGGCCTTGAATCAACATATTGGCACCTTTCCATCTCTAAAT
141750 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCT-TCTTTAAGTCCAATGTAGCTGGCC
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-TATCTTTAAGTCCAATGTAGCTGGCC
*
141814 TTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
65 TTGAATCAGCACATTGCCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
* *
141879 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGC
130 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCACCTTTAAATCCAATATAGC
* *
141944 TGGCCTTGAATCAACATATTGGCACCTTTTCCATCTTTAAGT
195 TGGCCTTGAATCAACATATTGGCACC-TTTCCATCTCTAAAT
* * * *
141986 TCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCTTT
142026 TTCTCATCTT
Statistics
Matches: 258, Mismatches: 12, Indels: 9
0.92 0.04 0.03
Matches are distributed among these distances:
232 1 0.00
233 210 0.81
234 1 0.00
235 2 0.01
236 40 0.16
237 4 0.02
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (235 bp):
CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
TGAATCAGCACATTGCCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCACCTTTAAATCCAATATAGCT
GGCCTTGAATCAACATATTGGCACCTTTCCATCTCTAAAT
Found at i:142004 original size:52 final size:53
Alignment explanation
Indices: 141926--142345 Score: 193
Period size: 52 Copynumber: 7.9 Consensus size: 53
141916 ACATTGGCAC
141926 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTTTCTCAT
* * * * *
141978 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCA-CC-TTTTCTCAT
* * * * * *
142033 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATC-TTTATCA-
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTTTCTCAT
* * * *
142084 CTTT---TCTC-ATCT-TCAT---CTTTAAGTCCA-ATATCGCTGGCCTTGAATCAGCATATTGG
1 CTTTAAGTC-CAATATAGC-TGGCCTTGAA-TCAACATAT---TGG-C----A-C--C-T-TT--
*
142140 CACCTTCAT
48 --TC-TCAT
* * *
142149 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA------C-C--
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTTTCTCAT
142193 -TTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTTTCTCAT
* * * * *
142244 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCA-CC-TTTTCTCAT
* * * * *
142299 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTT
142346 ATCACTTTTC
Statistics
Matches: 271, Mismatches: 50, Indels: 93
0.65 0.12 0.22
Matches are distributed among these distances:
43 38 0.14
45 8 0.03
46 4 0.01
48 9 0.03
49 4 0.01
51 4 0.01
52 79 0.29
53 8 0.03
54 12 0.04
55 72 0.27
56 1 0.00
59 2 0.01
63 1 0.00
64 3 0.01
65 4 0.01
67 2 0.01
68 9 0.03
69 1 0.00
70 2 0.01
71 8 0.03
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTTTCTCAT
Found at i:142143 original size:266 final size:266
Alignment explanation
Indices: 141834--142427 Score: 1161
Period size: 266 Copynumber: 2.2 Consensus size: 266
141824 ACATTGGCAC
141834 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
141899 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATT
66 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATT
141964 GGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTC
131 GGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTC
142029 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCAT
196 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCAT
142094 CTTCAT
261 CTTCAT
142100 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
142165 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATT
66 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATT
142230 GGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTC
131 GGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTC
142295 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCAT
196 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCAT
142360 CTTCAT
261 CTTCAT
* * *
142366 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
142428 ATCGCTAGCC
Statistics
Matches: 325, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
266 325 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (266 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATT
GGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTC
TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCAT
CTTCAT
Done.