Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003239.1 Hibiscus syriacus cultivar Beakdansim tig00006812_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 137509
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:91 original size:32 final size:32
Alignment explanation
Indices: 55--120 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
45 ATTCTATTAC
55 TTTTAATTTAG-TCCCTT-ATTTAAATGTTTTTG
1 TTTTAATTTAGAT-CCTTGATTT-AATGTTTTTG
* *
87 TTTTAATTTTGATCCTTGATTTATTGTTTTTG
1 TTTTAATTTAGATCCTTGATTTAATGTTTTTG
119 TT
1 TT
121 GCATTTTGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 25 0.83
33 5 0.17
ACGTcount: A:0.18, C:0.08, G:0.11, T:0.64
Consensus pattern (32 bp):
TTTTAATTTAGATCCTTGATTTAATGTTTTTG
Found at i:3882 original size:24 final size:26
Alignment explanation
Indices: 3840--3887 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
3830 GAACTCAAAA
3840 AAAATTTAGAAGCTCGATTGAAGTCT
1 AAAATTTAGAAGCTCGATTGAAGTCT
*
3866 AAAATTT-G-AGCTTGATTGAAGT
1 AAAATTTAGAAGCTCGATTGAAGT
3888 GAAAGAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.62
25 1 0.05
26 7 0.33
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (26 bp):
AAAATTTAGAAGCTCGATTGAAGTCT
Found at i:4705 original size:13 final size:13
Alignment explanation
Indices: 4687--4713 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4677 TGTTGTACCC
4687 TAAACTCCCAATT
1 TAAACTCCCAATT
4700 TAAACTCCCAATT
1 TAAACTCCCAATT
4713 T
1 T
4714 GATCGTTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAACTCCCAATT
Found at i:6223 original size:25 final size:25
Alignment explanation
Indices: 6107--6234 Score: 143
Period size: 25 Copynumber: 5.1 Consensus size: 25
6097 GGTCAAAGAA
* * *
6107 TATTAATTATGAACATTAATTGTTT
1 TATTAATTGTGAATATTAATTGTGT
*
6132 TATTAATTGTGAATATTAAGTGTGT
1 TATTAATTGTGAATATTAATTGTGT
*
6157 TATTAATTGTGAGTATT-ATCTGTGT
1 TATTAATTGTGAATATTAAT-TGTGT
*
6182 TATTAATT-TGTAATATTAGTTGTGT
1 TATTAATTGTG-AATATTAATTGTGT
* * *
6207 TAGTAATTGTTACTATTAATTGTGT
1 TATTAATTGTGAATATTAATTGTGT
6232 TAT
1 TAT
6235 GCTAGTTAAT
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
24 3 0.03
25 81 0.94
26 2 0.02
ACGTcount: A:0.30, C:0.02, G:0.16, T:0.52
Consensus pattern (25 bp):
TATTAATTGTGAATATTAATTGTGT
Found at i:9580 original size:4 final size:4
Alignment explanation
Indices: 9571--9662 Score: 76
Period size: 4 Copynumber: 23.0 Consensus size: 4
9561 GGAAATATCA
* * * * * *
9571 ATAT ATAT ATAT ATAT ATGT ATGT ATGT ATGT ATGT ATGT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * * * * *
9619 ATGT ATAT ATGT ATGT ATAT ATAT ATAT GTAT GTAT GTAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
9663 GTATGTATGT
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 80 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (4 bp):
ATAT
Found at i:9663 original size:8 final size:8
Alignment explanation
Indices: 9574--9683 Score: 114
Period size: 8 Copynumber: 13.6 Consensus size: 8
9564 AATATCAATA
*
9574 TATATATA
1 TATATATG
9582 TATATATG
1 TATATATG
*
9590 TATGTATG
1 TATATATG
*
9598 TATGTATG
1 TATATATG
* *
9606 TATGTATA
1 TATATATG
9614 TATATATG
1 TATATATG
9622 TATATATG
1 TATATATG
*
9630 TATGTATATA
1 TA--TATATG
9640 TATATATG
1 TATATATG
*
9648 TATGTATG
1 TATATATG
9656 TATATATG
1 TATATATG
*
9664 TATGTATG
1 TATATATG
*
9672 TATGTAT-
1 TATATATG
9679 TATAT
1 TATAT
9684 TTTTAAGTTA
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
7 4 0.04
8 78 0.88
10 7 0.08
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.51
Consensus pattern (8 bp):
TATATATG
Found at i:9665 original size:12 final size:12
Alignment explanation
Indices: 9574--9683 Score: 127
Period size: 12 Copynumber: 9.4 Consensus size: 12
9564 AATATCAATA
* *
9574 TATATATATATA
1 TATATATGTATG
*
9586 TATGTATGTATG
1 TATATATGTATG
*
9598 TATGTATGTATG
1 TATATATGTATG
*
9610 TATATATATATG
1 TATATATGTATG
9622 TATATATGTATG
1 TATATATGTATG
*
9634 TATATA--TATA
1 TATATATGTATG
*
9644 TATGTATGTATG
1 TATATATGTATG
9656 TATATATGTATG
1 TATATATGTATG
*
9668 TATGTATGTAT-
1 TATATATGTATG
9679 TATAT
1 TATAT
9684 TTTTAAGTTA
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
10 8 0.10
11 4 0.05
12 72 0.86
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.51
Consensus pattern (12 bp):
TATATATGTATG
Found at i:9667 original size:4 final size:4
Alignment explanation
Indices: 9586--9678 Score: 118
Period size: 4 Copynumber: 23.8 Consensus size: 4
9576 TATATATATA
* * *
9586 TATG TATG TATG TATG TATG TATG TATA TATA TATG TATA TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
9634 TA-- TATA TATA TATG TATG TATG TATA TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
9679 TATATTTTTA
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.03
4 78 0.98
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:9747 original size:19 final size:19
Alignment explanation
Indices: 9723--9760 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
9713 AAAAAGGGTT
9723 TATATATGGTATTT-TATAA
1 TATATAT-GTATTTATATAA
9742 TATATATGTATTTATATAA
1 TATATATGTATTTATATAA
9761 AAAGGATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (19 bp):
TATATATGTATTTATATAA
Found at i:10037 original size:14 final size:15
Alignment explanation
Indices: 10010--10050 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
10000 AATAGTTTTT
10010 TAGTTATATTATATA
1 TAGTTATATTATATA
10025 TAGTTAT-TTATATA
1 TAGTTATATTATATA
10039 TATGTATATATT
1 TA-GT-TATATT
10051 TATTAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.39
15 9 0.39
16 3 0.13
17 2 0.09
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (15 bp):
TAGTTATATTATATA
Found at i:10040 original size:23 final size:24
Alignment explanation
Indices: 10001--10049 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
9991 AAAAAGGAAA
*
10001 ATAGTTTTTTAGTTATAT-TATAT
1 ATAGTTATTTAGTTATATGTATAT
10024 ATAGTTATTTA-TATATATGTATAT
1 ATAGTTATTTAGT-TATATGTATAT
10048 AT
1 AT
10050 TTATTAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 1 0.04
23 15 0.65
24 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (24 bp):
ATAGTTATTTAGTTATATGTATAT
Found at i:10163 original size:17 final size:18
Alignment explanation
Indices: 10131--10168 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
10121 TTCATGCATC
*
10131 TTTATTTAATTGTTTT-G
1 TTTATTTAATTATTTTAG
*
10148 TTTATTTACTTATTTTAG
1 TTTATTTAATTATTTTAG
10166 TTT
1 TTT
10169 TATTGTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.18, C:0.03, G:0.08, T:0.71
Consensus pattern (18 bp):
TTTATTTAATTATTTTAG
Found at i:16228 original size:17 final size:17
Alignment explanation
Indices: 16208--16260 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
16198 TTTAGGGAAG
16208 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
* *
16225 TAGTTCATTCATCAAAC
1 TAGTTCATTAATTAAAC
*
16242 TAGTTCATTTATTAAAC
1 TAGTTCATTAATTAAAC
16259 TA
1 TA
16261 ACTCTTAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.42
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:16232 original size:34 final size:34
Alignment explanation
Indices: 16190--16260 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
16180 TTTAAATCAT
* ** *
16190 CTAGTTCATTTAGGGAAGTAGTTCATTAATTAAA
1 CTAGTTCATTCAGCAAACTAGTTCATTAATTAAA
* *
16224 CTAGTTCATTCATCAAACTAGTTCATTTATTAAA
1 CTAGTTCATTCAGCAAACTAGTTCATTAATTAAA
16258 CTA
1 CTA
16261 ACTCTTAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.39
Consensus pattern (34 bp):
CTAGTTCATTCAGCAAACTAGTTCATTAATTAAA
Found at i:18330 original size:14 final size:16
Alignment explanation
Indices: 18311--18343 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
18301 TTTTTAACAC
18311 TTTAAA-AAGACAT-T
1 TTTAAACAAGACATAT
18325 TTTAAACAAGACATAT
1 TTTAAACAAGACATAT
18341 TTT
1 TTT
18344 CTCGAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 7 0.41
16 4 0.24
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (16 bp):
TTTAAACAAGACATAT
Found at i:19268 original size:32 final size:32
Alignment explanation
Indices: 19225--19307 Score: 114
Period size: 32 Copynumber: 2.6 Consensus size: 32
19215 CTAGTTTGAC
* *
19225 TCAACTGCACGACGAATGAGTCAACCAA-GATT
1 TCAACTTCACGACGAAGGAGTCAA-CAACGATT
*
19257 TCAACTTCACGACGAAGGAGTCAAGAACGATT
1 TCAACTTCACGACGAAGGAGTCAACAACGATT
*
19289 TCAACTTCACGACAAAGGA
1 TCAACTTCACGACGAAGGA
19308 TATCATGCTA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 2 0.04
32 44 0.96
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.18
Consensus pattern (32 bp):
TCAACTTCACGACGAAGGAGTCAACAACGATT
Found at i:19953 original size:7 final size:7
Alignment explanation
Indices: 19921--20000 Score: 56
Period size: 7 Copynumber: 11.0 Consensus size: 7
19911 ATTTTCCTTT
*
19921 TTATTTA
1 TTATATA
*
19928 TTATATC
1 TTATATA
*
19935 TTATGTA
1 TTATATA
*
19942 GTATATA
1 TTATATA
19949 TTATATTA
1 TTATA-TA
*
19957 TATAGTACA
1 T-TA-TATA
19966 TTATAGTA
1 TTATA-TA
19974 TTATATA
1 TTATATA
19981 TTATAGTA
1 TTATA-TA
19989 -TAT-TA
1 TTATATA
19994 TTATATA
1 TTATATA
20001 CAAATATGTT
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
5 2 0.04
6 3 0.05
7 33 0.58
8 13 0.23
9 4 0.07
10 2 0.04
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.54
Consensus pattern (7 bp):
TTATATA
Found at i:19977 original size:20 final size:20
Alignment explanation
Indices: 19952--20000 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
19942 GTATATATTA
*
19952 TATTATATAGTACATTATAG
1 TATTATATAGTACAGTATAG
* * *
19972 TATTATATATTATAGTATAT
1 TATTATATAGTACAGTATAG
19992 TATTATATA
1 TATTATATA
20001 CAAATATGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (20 bp):
TATTATATAGTACAGTATAG
Found at i:19979 original size:25 final size:24
Alignment explanation
Indices: 19943--19999 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
19933 TCTTATGTAG
19943 TATATATTATAT-TATATAGTACAT
1 TATATATTATATAT-TATAGTACAT
*
19967 TATAGTATTATATATTATAGTATAT
1 TATA-TATTATATATTATAGTACAT
19992 TATTATAT
1 TA-TATAT
20000 ACAAATATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 4 0.14
25 22 0.76
26 3 0.10
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (24 bp):
TATATATTATATATTATAGTACAT
Found at i:25394 original size:64 final size:62
Alignment explanation
Indices: 25318--25505 Score: 175
Period size: 64 Copynumber: 2.9 Consensus size: 62
25308 AATGCATTTG
* * * *
25318 ATGCATCAATGCACCATGAATTAAATTGAACATCGAATGCATTTCATGCATCGATGCACATATC
1 ATGCATCGATGCACC-TGAATTATATTGAACATCGAATGCATTTGATGCATCGATGCACA-ACC
* * *
25382 ATGCATCGATGCA-CTGAGGATTTTA-TGAAAACATCGAATGCATTTGACGCATCGATGCACCAG
1 ATGCATCGATGCACCTGA--ATTATATTG--AACATCGAATGCATTTGATGCATCGATGCA-CAA
25445 CC
61 CC
** * *
25447 ATGCATCGATGCACTCTG-GCTATTTTGAATCATCGAATGCACTTGATGCATCGATGCAC
1 ATGCATCGATGCAC-CTGAATTATATTGAA-CATCGAATGCATTTGATGCATCGATGCAC
25506 TCTTAGTGCA
Statistics
Matches: 102, Mismatches: 13, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
62 3 0.03
63 6 0.06
64 44 0.43
65 44 0.43
66 2 0.02
67 3 0.03
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (62 bp):
ATGCATCGATGCACCTGAATTATATTGAACATCGAATGCATTTGATGCATCGATGCACAACC
Found at i:25401 original size:110 final size:110
Alignment explanation
Indices: 25208--25443 Score: 454
Period size: 110 Copynumber: 2.1 Consensus size: 110
25198 GGACCAATCC
25208 ATGCATCGATGCACCATGAATTAAATTGAACATCGAATGCATTTCATGCATCGATGCACATATCA
1 ATGCATCGATGCACCATGAATTAAATTGAACATCGAATGCATTTCATGCATCGATGCACATATCA
25273 TGCATCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTTG
66 TGCATCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTTG
*
25318 ATGCATCAATGCACCATGAATTAAATTGAACATCGAATGCATTTCATGCATCGATGCACATATCA
1 ATGCATCGATGCACCATGAATTAAATTGAACATCGAATGCATTTCATGCATCGATGCACATATCA
25383 TGCATCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTTG
66 TGCATCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTTG
*
25428 ACGCATCGATGCACCA
1 ATGCATCGATGCACCA
25444 GCCATGCATC
Statistics
Matches: 123, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 123 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (110 bp):
ATGCATCGATGCACCATGAATTAAATTGAACATCGAATGCATTTCATGCATCGATGCACATATCA
TGCATCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTTG
Found at i:25423 original size:65 final size:63
Alignment explanation
Indices: 25346--25505 Score: 196
Period size: 65 Copynumber: 2.5 Consensus size: 63
25336 AATTAAATTG
* * *
25346 AACATCGAATGCATTTCATGCATCGATGCACATATCATGCATCGATGCACTGAGGAT-TTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACA-ACCATGCATCGATGCACTCAGGATATTT-TG-
25410 A
63 A
* * * *
25411 AACATCGAATGCATTTGACGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGATATTTTGA
* *
25475 ATCATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
25506 TCTTAGTGCA
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
63 1 0.01
64 28 0.34
65 49 0.59
66 5 0.06
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAACCATGCATCGATGCACTCAGGATATTTTGA
Found at i:26840 original size:17 final size:17
Alignment explanation
Indices: 26818--26850 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
26808 GAGGAAGTTA
26818 GTTTACTCACTTCCAAC
1 GTTTACTCACTTCCAAC
26835 GTTTACTCACTTCCAA
1 GTTTACTCACTTCCAA
26851 AATCATGGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.36
Consensus pattern (17 bp):
GTTTACTCACTTCCAAC
Found at i:31332 original size:24 final size:24
Alignment explanation
Indices: 31300--31380 Score: 75
Period size: 24 Copynumber: 3.5 Consensus size: 24
31290 ACACCTAATA
31300 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCATCCCTTTGAAT
* *
31324 GTGCATCGATTCAT-CATGTTG-A-
1 GTGCATCGATGCATCCCT-TTGAAT
*
31346 -TGCACCGATGCA-CGCC-TTGAAT
1 GTGCATCGATGCATC-CCTTTGAAT
31368 GTGCATCGATGCA
1 GTGCATCGATGCA
31381 CAGGGCCATG
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
20 3 0.07
21 11 0.24
22 1 0.02
23 14 0.31
24 16 0.36
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (24 bp):
GTGCATCGATGCATCCCTTTGAAT
Found at i:33312 original size:14 final size:15
Alignment explanation
Indices: 33287--33316 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
33277 TTGATTTTGA
33287 TGTTTCTGGATTGTT
1 TGTTTCTGGATTGTT
33302 TGTTT-TGGATTGTT
1 TGTTTCTGGATTGTT
33316 T
1 T
33317 AATGTTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.07, C:0.03, G:0.27, T:0.63
Consensus pattern (15 bp):
TGTTTCTGGATTGTT
Found at i:34059 original size:45 final size:47
Alignment explanation
Indices: 34003--34110 Score: 125
Period size: 46 Copynumber: 2.4 Consensus size: 47
33993 TGCACCAATC
**
34003 CATGCATCGATGCACCATGA-ATTAAAT-TGAACATCAAATGCATTT
1 CATGCATCGATGCACCATGAGATTAAATCAAAACATCAAATGCATTT
** *
34048 CATGCATCGATGCA-C-TGAGGATTTTATCAAAACATCGAATGCATTT
1 CATGCATCGATGCACCATGA-GATTAAATCAAAACATCAAATGCATTT
*
34094 GATGCATCGATGCACCA
1 CATGCATCGATGCACCA
34111 GCCATGTATA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
43 3 0.06
44 1 0.02
45 19 0.37
46 28 0.54
47 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (47 bp):
CATGCATCGATGCACCATGAGATTAAATCAAAACATCAAATGCATTT
Found at i:35047 original size:20 final size:21
Alignment explanation
Indices: 35022--35062 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
35012 GAGTAATGAT
35022 ACTCAAAGGT-CAATACTAAC
1 ACTCAAAGGTACAATACTAAC
35042 ACTCAAAGGTACCAATACTAA
1 ACTCAAAGGTA-CAATACTAA
35063 AAGGCTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
22 9 0.47
ACGTcount: A:0.46, C:0.24, G:0.10, T:0.20
Consensus pattern (21 bp):
ACTCAAAGGTACAATACTAAC
Found at i:36547 original size:96 final size:96
Alignment explanation
Indices: 36383--36574 Score: 384
Period size: 96 Copynumber: 2.0 Consensus size: 96
36373 AGTCTCTAAT
36383 AAAGAGGCTATATAGGTATAAGACCATTAACTTCTTCAATTCCAGGGATTATGACACCATGACAG
1 AAAGAGGCTATATAGGTATAAGACCATTAACTTCTTCAATTCCAGGGATTATGACACCATGACAG
36448 TCGACCAGTGGCCTAGAGAGACCCTTAGCAC
66 TCGACCAGTGGCCTAGAGAGACCCTTAGCAC
36479 AAAGAGGCTATATAGGTATAAGACCATTAACTTCTTCAATTCCAGGGATTATGACACCATGACAG
1 AAAGAGGCTATATAGGTATAAGACCATTAACTTCTTCAATTCCAGGGATTATGACACCATGACAG
36544 TCGACCAGTGGCCTAGAGAGACCCTTAGCAC
66 TCGACCAGTGGCCTAGAGAGACCCTTAGCAC
36575 GCTCTGTCAA
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (96 bp):
AAAGAGGCTATATAGGTATAAGACCATTAACTTCTTCAATTCCAGGGATTATGACACCATGACAG
TCGACCAGTGGCCTAGAGAGACCCTTAGCAC
Found at i:48807 original size:19 final size:20
Alignment explanation
Indices: 48775--48823 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
48765 GTGCTGCAAC
* *
48775 AAAAGAACAAGAAAGAAGAAA
1 AAAAGAA-AGGAAAAAAGAAA
48796 AAAA-AAAGGAAAAAAGAAA
1 AAAAGAAAGGAAAAAAGAAA
48815 AAAAGAAAG
1 AAAAGAAAG
48824 AAGAAATACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 15 0.60
20 6 0.24
21 4 0.16
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (20 bp):
AAAAGAAAGGAAAAAAGAAA
Found at i:48817 original size:15 final size:15
Alignment explanation
Indices: 48775--48829 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
48765 GTGCTGCAAC
48775 AAAAGAACAAGAAAGAA
1 AAAAGAA-AA-AAAGAA
*
48792 GAAAA-AAAAAAGGAA
1 -AAAAGAAAAAAAGAA
48807 AAAAGAAAAAAAGAA
1 AAAAGAAAAAAAGAA
*
48822 AGAAGAAA
1 AAAAGAAA
48830 TACAAAAAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
14 4 0.12
15 21 0.64
16 2 0.06
17 2 0.06
18 4 0.12
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAAGAA
Found at i:53071 original size:16 final size:16
Alignment explanation
Indices: 53021--53068 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
53011 GATAACATTT
*
53021 TTATCCATTTCATTTTC
1 TTAT-CATTTCCTTTTC
53038 TTATCATTTCCTTTTC
1 TTATCATTTCCTTTTC
53054 TTATCATTTTCCTTT
1 TTATCA-TTTCCTTT
53069 CTTCTTTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 17 0.59
17 12 0.41
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATCATTTCCTTTTC
Found at i:54032 original size:19 final size:19
Alignment explanation
Indices: 53996--54032 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
53986 TGAAAATGAT
**
53996 TTGATTTTGAAAGCCAAAG
1 TTGATTTTGAAAAACAAAG
54015 TTGATTTTGAAAAACAAA
1 TTGATTTTGAAAAACAAA
54033 ATGAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.32
Consensus pattern (19 bp):
TTGATTTTGAAAAACAAAG
Found at i:54674 original size:21 final size:18
Alignment explanation
Indices: 54642--54680 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 18
54632 AAATGCTTTG
54642 TTTTTTACAAATTTTAAAT
1 TTTTTTACAAA-TTTAAAT
54661 TTTTTTACCTAAATTTAAAT
1 TTTTTTA-C-AAATTTAAAT
54681 GTTTATCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 8 0.44
21 3 0.17
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTTTACAAATTTAAAT
Found at i:54834 original size:11 final size:11
Alignment explanation
Indices: 54818--54846 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
54808 AACCGGGGTG
54818 AACCGACTGAA
1 AACCGACTGAA
54829 AACCGACTGAA
1 AACCGACTGAA
54840 AACCGAC
1 AACCGAC
54847 AAAATCGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.45, C:0.31, G:0.17, T:0.07
Consensus pattern (11 bp):
AACCGACTGAA
Found at i:56571 original size:18 final size:18
Alignment explanation
Indices: 56530--56571 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
56520 AAAATGTTAT
56530 CGATACCCAAAGGGGTAC
1 CGATACCCAAAGGGGTAC
**
56548 AAATACCCAAAGGGGTAC
1 CGATACCCAAAGGGGTAC
56566 CGATAC
1 CGATAC
56572 TACTCTACAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.26, G:0.24, T:0.12
Consensus pattern (18 bp):
CGATACCCAAAGGGGTAC
Found at i:70980 original size:20 final size:21
Alignment explanation
Indices: 70955--70997 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
70945 GTGAGTAATG
70955 ATACTCAAAGGT-CAATACTA
1 ATACTCAAAGGTACAATACTA
*
70975 ATACTCAAATGTACCAATACTA
1 ATACTCAAAGGTA-CAATACTA
70997 A
1 A
70998 AAGGCTTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
22 9 0.45
ACGTcount: A:0.47, C:0.21, G:0.07, T:0.26
Consensus pattern (21 bp):
ATACTCAAAGGTACAATACTA
Found at i:73093 original size:74 final size:74
Alignment explanation
Indices: 72940--73106 Score: 203
Period size: 74 Copynumber: 2.2 Consensus size: 74
72930 GTAAAATAAG
* * ** *
72940 GACTAAAATAAAAGATTTATAAATGTGGTGGCCATATTCGAATATCAAAGAAACATACATGAAAT
1 GACTAAAATAAAATATTTATAAATCTCATGGCCATATTCGAATAGCAAAGAAACATACA-GAAAT
73005 ATTAATCAGT
65 ATTAATCAGT
* * * *
73015 GACTAAAATAAAATATTTA-AAATCTCATGGTCATATTTGAATAGCAAGGAAAATATACA-AAAT
1 GACTAAAATAAAATATTTATAAATCTCATGGCCATATTCGAATAGCAAAG-AAACATACAGAAAT
73078 ATTAAATCAGT
65 ATT-AATCAGT
73089 GACTAAAATAAAACTATT
1 GACTAAAATAAAA-TATT
73107 ACAAGTATAA
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
73 7 0.09
74 43 0.54
75 30 0.38
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (74 bp):
GACTAAAATAAAATATTTATAAATCTCATGGCCATATTCGAATAGCAAAGAAACATACAGAAATA
TTAATCAGT
Found at i:74389 original size:3 final size:3
Alignment explanation
Indices: 74360--74504 Score: 247
Period size: 3 Copynumber: 48.3 Consensus size: 3
74350 TGTAATATAT
* **
74360 TAA TAA CAA TAA TTAA TAA GCA TAA TAA TAA TAA T-A TAA TAA TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
74405 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
74453 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
74501 TAA T
1 TAA T
74505 TACAATAGAT
Statistics
Matches: 134, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
2 2 0.01
3 129 0.96
4 3 0.02
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:74955 original size:132 final size:133
Alignment explanation
Indices: 74699--75055 Score: 452
Period size: 132 Copynumber: 2.7 Consensus size: 133
74689 GTTCGGGTCG
* * * * * *
74699 TCTAAGGGTGACATGGTTCCTACGTGATGAGGAAATCTGGTCGAGGG-TGACACTGCTCATACGT
1 TCTAAGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCGAGGGATGACACGGTTCCTACGT
* * * *
74763 GATGAAGAGTTCTTGGCCATC-TTAGGAATGGTGATAACTCGGTTCCTACGCAATGAGGACGGCT
66 GATGAGGAG-AC-TGGCCATCTTTAGGAATGGTGATAACTCGGCTCCTACGCAATGAGGACGACT
74827 AGTTA
129 AGTTA
* *
74832 TCTAGGGGTGACACGGCT-CTACGTGATGAAGAGAT-TGGTCGAGGGATGACACGGTTCCTACGT
1 TCTAAGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCGAGGGATGACACGGTTCCTACGT
* * * * ** *
74895 GTTGAGGACGGCTGGCCATCTTTAGGAGTGGTGATAGCTCGGCTCCTACGTGATGAGGACGACTG
66 GATGAGGA-GACTGGCCATCTTTAGGAATGGTGATAACTCGGCTCCTACGCAATGAGGACGACTA
74960 GTTA
130 GTTA
* *
74964 TCTAAGGGTGACACGGCTCCTACGTGATGAGGTGGTCTGGTCGAGGGATGACACGGTTCCTACGT
1 TCTAAGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCGAGGGATGACACGGTTCCTACGT
*
75029 GATGAGGATGATTGGCCATCTTTAGGA
66 GATGAGGA-GACTGGCCATCTTTAGGA
75056 TCATGGTTTC
Statistics
Matches: 193, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
131 18 0.09
132 94 0.49
133 30 0.16
134 51 0.26
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.26
Consensus pattern (133 bp):
TCTAAGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCGAGGGATGACACGGTTCCTACGT
GATGAGGAGACTGGCCATCTTTAGGAATGGTGATAACTCGGCTCCTACGCAATGAGGACGACTAG
TTA
Found at i:74988 original size:43 final size:40
Alignment explanation
Indices: 74934--75036 Score: 118
Period size: 40 Copynumber: 2.5 Consensus size: 40
74924 GGTGATAGCT
74934 CGGCTCCTACGTGATGAGGACGACTGGTTATCTAAGGG-TGACA
1 CGGCTCCTACGTGATGAGGACGACTGG---TC-AAGGGATGACA
** * *
74977 CGGCTCCTACGTGATGAGGTGGTCTGGTCGAGGGATGACA
1 CGGCTCCTACGTGATGAGGACGACTGGTCAAGGGATGACA
*
75017 CGGTTCCTACGTGATGAGGA
1 CGGCTCCTACGTGATGAGGA
75037 TGATTGGCCA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
39 4 0.08
40 25 0.47
43 24 0.45
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.23
Consensus pattern (40 bp):
CGGCTCCTACGTGATGAGGACGACTGGTCAAGGGATGACA
Found at i:75154 original size:31 final size:28
Alignment explanation
Indices: 75061--75157 Score: 101
Period size: 28 Copynumber: 3.4 Consensus size: 28
75051 TAGGATCATG
* *
75061 GTTTCAAGAGAAATC-GATTCAAAGATTT
1 GTTTCAAAAGAAA-CAGACTCAAAGATTT
75089 GTTTCAAAAGAAACAGACTCAAAGATTT
1 GTTTCAAAAGAAACAGACTCAAAGATTT
75117 GTTTCAAGAA-AAACA-AGCTCAAAGATAATGT
1 GTTTCAA-AAGAAACAGA-CTCAAAGAT--T-T
75148 GTTTCAAAAG
1 GTTTCAAAAG
75158 CAACTGTCTC
Statistics
Matches: 60, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
27 2 0.03
28 45 0.75
29 2 0.03
30 3 0.05
31 8 0.13
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.27
Consensus pattern (28 bp):
GTTTCAAAAGAAACAGACTCAAAGATTT
Found at i:75333 original size:66 final size:62
Alignment explanation
Indices: 75159--75334 Score: 147
Period size: 66 Copynumber: 2.7 Consensus size: 62
75149 TTTCAAAAGC
* * * * *
75159 AACTGTCTCGAAAGAAACAAAATTCGTTTCAAAGGAAACAACTCAAATATAGCGTTTAAAGGG
1 AACTGTCTC-AAAGAGACAAAATTCATTTCAAGGGAAACATCTCAAAGATAGCGTTTAAAGGG
* * ** * * * * *
75222 AATTGTCTCAAGCGAGACAAAATTTGTTTTTAAGGG-AACATTCTCAAAGATTGGTGTTTCATGG
1 AACTGTCTCAA-AGAGACAAAA-TTCATTTCAAGGGAAACA-TCTCAAAGA-TAGCGTTTAAAGG
75286 G
62 G
75287 AAACTGTCTCAAATGAGACAAAATTCATTTCAAGGGAAACGATCTCAA
1 -AACTGTCTCAAA-GAGACAAAATTCATTTCAAGGGAAAC-ATCTCAA
75335 GATGTTGTTT
Statistics
Matches: 87, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
62 2 0.02
63 20 0.23
64 16 0.18
65 20 0.23
66 28 0.32
67 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (62 bp):
AACTGTCTCAAAGAGACAAAATTCATTTCAAGGGAAACATCTCAAAGATAGCGTTTAAAGGG
Found at i:75758 original size:31 final size:31
Alignment explanation
Indices: 75690--75750 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 31
75680 AAGGGAAATG
75690 ACTCAAAGATGGTTTTATTTCAAGAGAAACAA
1 ACTCAAAGAT-GTTTTATTTCAAGAGAAACAA
*
75722 ACTCAAAGAT-TTTGTATTTCTAGAGAAAC
1 ACTCAAAGATGTTT-TATTTCAAGAGAAAC
75751 TGCCTCAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 3 0.11
31 14 0.52
32 10 0.37
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (31 bp):
ACTCAAAGATGTTTTATTTCAAGAGAAACAA
Found at i:76230 original size:65 final size:65
Alignment explanation
Indices: 76094--76252 Score: 198
Period size: 65 Copynumber: 2.4 Consensus size: 65
76084 CAAAAGGAAT
* *
76094 AGACTCAAAGA-TTTTTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATATGTTTTAAGAGAAAC
1 AGACTCAAAGATTTTTTTTCAAAAGAAACTGTCTCAAGAGAGACAAAATATGTTTCAAGAGAAAC
* * * * * *
76158 ATACTCAAAGATTTTTTTCTCAAAAGAAATTGTCTCAAGAGATA-AAATTTTGTTTCCAA-ATAA
1 AGACTCAAAGATTTTTTT-TCAAAAGAAACTGTCTCAAGAGAGACAAAATATGTTT-CAAGAGAA
76221 AC
64 AC
76223 AGACTCAAAGATTTTTGTTTCAAAAGAAAC
1 AGACTCAAAGATTTTT-TTTCAAAAGAAAC
76253 GACTCAAAGA
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
64 10 0.12
65 45 0.56
66 26 0.32
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (65 bp):
AGACTCAAAGATTTTTTTTCAAAAGAAACTGTCTCAAGAGAGACAAAATATGTTTCAAGAGAAAC
Found at i:76239 original size:30 final size:29
Alignment explanation
Indices: 76160--76267 Score: 101
Period size: 30 Copynumber: 3.5 Consensus size: 29
76150 AGAGAAACAT
*
76160 ACTCAAAGATTTTT-TTCTCAAAAGAAATTG
1 ACTCAAAGATTTTTGTT-TCAAAAGAAA-CG
* * *
76190 TCTCAAGAGATAAAATTTTGTTTCCAAATAAACAG
1 ACTCAA-AGAT----TTTTGTTTCAAAAGAAAC-G
76225 ACTCAAAGATTTTTGTTTCAAAAGAAACG
1 ACTCAAAGATTTTTGTTTCAAAAGAAACG
76254 ACTCAAAGATTTTT
1 ACTCAAAGATTTTT
76268 TCATGCAAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 15
0.74 0.08 0.17
Matches are distributed among these distances:
29 15 0.23
30 21 0.33
31 4 0.06
34 4 0.06
35 18 0.28
36 2 0.03
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (29 bp):
ACTCAAAGATTTTTGTTTCAAAAGAAACG
Found at i:76246 original size:29 final size:30
Alignment explanation
Indices: 76205--76267 Score: 94
Period size: 29 Copynumber: 2.1 Consensus size: 30
76195 AGAGATAAAA
*
76205 TTTTGTTTCC-AAATAAACAGACTCAAAGAT
1 TTTTGTTTCCAAAAGAAAC-GACTCAAAGAT
76235 TTTTGTTT-CAAAAGAAACGACTCAAAGAT
1 TTTTGTTTCCAAAAGAAACGACTCAAAGAT
76264 TTTT
1 TTTT
76268 TCATGCAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
29 16 0.52
30 15 0.48
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (30 bp):
TTTTGTTTCCAAAAGAAACGACTCAAAGAT
Found at i:76258 original size:94 final size:98
Alignment explanation
Indices: 76152--76369 Score: 240
Period size: 91 Copynumber: 2.3 Consensus size: 98
76142 ATGTTTTAAG
* *
76152 AGAAACATACTCAAAGATTTTTTTCTCAAAAG-AAATTGTCTC-A-AGAGATAAAATTTTGTTTC
1 AGAAACA-ACTCAAAGATTTTTTT-TCAAAAGCAAA-TGTCTCAAGAGAGACAAAACTTTGTTTC
* *
76214 CAAATAAACAGACTCAAAGA-TTTT-TGTT-TCAAA
63 AAAAGAAACAGACTCAAAGATTTTTCTGTTCTCAAA
* *
76247 AGAAACGACTCAAAGA--TTTTTTC--ATGCAAATGTCTCAAGAGAGACAAAACTTTGTTTCAAA
1 AGAAACAACTCAAAGATTTTTTTTCAAAAGCAAATGTCTCAAGAGAGACAAAACTTTGTTTCAAA
* * *
76308 AGAAACATACTTAAAGATTTTTCTTTTCTCAAA
66 AGAAACAGACTCAAAGATTTTTCTGTTCTCAAA
* *
76341 AGAAATAACTCAAAGATTTTTATTCAAAA
1 AGAAACAACTCAAAGATTTTTTTTCAAAA
76370 TGAACAAACT
Statistics
Matches: 100, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
89 8 0.08
90 4 0.04
91 35 0.35
92 9 0.09
93 3 0.03
94 28 0.28
95 6 0.06
96 6 0.06
98 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.33
Consensus pattern (98 bp):
AGAAACAACTCAAAGATTTTTTTTCAAAAGCAAATGTCTCAAGAGAGACAAAACTTTGTTTCAAA
AGAAACAGACTCAAAGATTTTTCTGTTCTCAAA
Found at i:76369 original size:28 final size:26
Alignment explanation
Indices: 76336--76401 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 26
76326 TTTTCTTTTC
*
76336 TCAAAAGAAATAACTCAAAGATTTTTAT
1 TCAAAAGAAA-AACTCAAAGATTTGT-T
76364 TCAAAATGAACAAACTCAAAGATTTGTT
1 TCAAAA-GAA-AAACTCAAAGATTTGTT
76392 TCAAAAGAAA
1 TCAAAAGAAA
76402 CTGTCTCAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
26 1 0.03
27 3 0.09
28 13 0.37
29 17 0.49
30 1 0.03
ACGTcount: A:0.52, C:0.12, G:0.09, T:0.27
Consensus pattern (26 bp):
TCAAAAGAAAAACTCAAAGATTTGTT
Found at i:76669 original size:36 final size:36
Alignment explanation
Indices: 76629--76710 Score: 103
Period size: 36 Copynumber: 2.3 Consensus size: 36
76619 AAAGGAAAAA
* * *
76629 TGTCTCAAGCGAGACGAAGTTTG-TTTTAAGAGAATT
1 TGTCTCAAGCGAGACAAACTTTGTTTTTAA-AGAAAT
* *
76665 TGTCTTAAGTGAGACAAACTTTGTTTTTAAAGAAAT
1 TGTCTCAAGCGAGACAAACTTTGTTTTTAAAGAAAT
76701 TGTCTCAAGC
1 TGTCTCAAGC
76711 AAAACAAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
36 32 0.84
37 6 0.16
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAACTTTGTTTTTAAAGAAAT
Found at i:76718 original size:36 final size:36
Alignment explanation
Indices: 76629--76723 Score: 102
Period size: 36 Copynumber: 2.6 Consensus size: 36
76619 AAAGGAAAAA
* * *
76629 TGTCTCAAGCGAGACGAAGTTTGTTTTAAGAGAATT
1 TGTCTCAAGCGAGACAAAATTTGTTTTAAGAGAAAT
* * *
76665 TGTCTTAAGTGAGACAAACTTTGTTTTTAA-AGAAAT
1 TGTCTCAAGCGAGACAAAATTTG-TTTTAAGAGAAAT
* *
76701 TGTCTCAAGCAAAACAAAATTTG
1 TGTCTCAAGCGAGACAAAATTTG
76724 AGAAAACGAT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
36 42 0.88
37 6 0.12
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.34
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTAAGAGAAAT
Found at i:76827 original size:38 final size:35
Alignment explanation
Indices: 76774--76929 Score: 118
Period size: 36 Copynumber: 4.3 Consensus size: 35
76764 AACAAATTCG
* * **
76774 AAATTTGTATCTCAAGGAAAAATGTCTCAAGTGAGAC
1 AAATTTGTTTTTCAA-G-AAAATGTCTCAAACGAGAC
* *
76811 GGAATTTGTTTTTCAAGAAATTGTCTCAAACGAGAC
1 -AAATTTGTTTTTCAAGAAAATGTCTCAAACGAGAC
* *
76847 AAATTTGTTTTT--AGAAAGCTGTCTCAAGCGAGAC
1 AAATTTGTTTTTCAAGAAA-ATGTCTCAAACGAGAC
* ** * *
76881 AAAATTTGCTTTGAAAGAAATTGTCTCAAGCGAGAC
1 -AAATTTGTTTTTCAAGAAAATGTCTCAAACGAGAC
76917 AAAAATTTGTTTT
1 --AAATTTGTTTT
76930 AAAATTCTCA
Statistics
Matches: 100, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
33 5 0.05
34 14 0.14
35 21 0.21
36 31 0.31
37 17 0.17
38 12 0.12
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (35 bp):
AAATTTGTTTTTCAAGAAAATGTCTCAAACGAGAC
Found at i:76879 original size:34 final size:34
Alignment explanation
Indices: 76796--76929 Score: 144
Period size: 36 Copynumber: 3.8 Consensus size: 34
76786 CAAGGAAAAA
* **
76796 TGTCTCAAGTGAGACGGAATTTGTTTTTCAAGAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTT--AGAAAT
* *
76832 TGTCTCAAACGAGAC-AAATTTGTTTTTAGAAAGC
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAAA-T
**
76866 TGTCTCAAGCGAGACAAAATTTGCTTTGAAAGAAAT
1 TGTCTCAAGCGAGACAAAATTTG-TTT-TTAGAAAT
76902 TGTCTCAAGCGAGACAAAAATTTGTTTT
1 TGTCTCAAGCGAGAC-AAAATTTGTTTT
76930 AAAATTCTCA
Statistics
Matches: 84, Mismatches: 9, Indels: 11
0.81 0.09 0.11
Matches are distributed among these distances:
33 5 0.06
34 14 0.17
35 18 0.21
36 34 0.40
37 13 0.15
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.33
Consensus pattern (34 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTAGAAAT
Found at i:76899 original size:70 final size:71
Alignment explanation
Indices: 76796--76929 Score: 189
Period size: 70 Copynumber: 1.9 Consensus size: 71
76786 CAAGGAAAAA
* ** * **
76796 TGTCTCAAGTGAGACGGAATTTGTTTTTCAAGAAATTGTCTCAAACGAGAC-AAATTTGTTTTTA
1 TGTCTCAAGCGAGACAAAATTTGCTTTGAAAGAAATTGTCTCAAACGAGACAAAATTTGTTTTTA
76860 GAAAGC
66 GAAAGC
*
76866 TGTCTCAAGCGAGACAAAATTTGCTTTGAAAGAAATTGTCTCAAGCGAGACAAAAATTTGTTTT
1 TGTCTCAAGCGAGACAAAATTTGCTTTGAAAGAAATTGTCTCAAACGAGAC-AAAATTTGTTTT
76930 AAAATTCTCA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
70 44 0.80
72 11 0.20
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.33
Consensus pattern (71 bp):
TGTCTCAAGCGAGACAAAATTTGCTTTGAAAGAAATTGTCTCAAACGAGACAAAATTTGTTTTTA
GAAAGC
Found at i:77289 original size:4 final size:4
Alignment explanation
Indices: 77280--77343 Score: 110
Period size: 4 Copynumber: 16.0 Consensus size: 4
77270 TTTATGTATC
*
77280 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATAT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
77328 ATGT ATAT ATGT ATGT
1 ATGT ATGT ATGT ATGT
77344 TTTTCTCGAT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 56 1.00
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:78525 original size:11 final size:11
Alignment explanation
Indices: 78500--78540 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
78490 TTATCCTCTT
* *
78500 TTTTTCTTCGC
1 TTTTTCTTTGA
78511 TTTTTCTTTGA
1 TTTTTCTTTGA
78522 TTTTTGCTTTGA
1 TTTTT-CTTTGA
78534 TTTTTCT
1 TTTTTCT
78541 CTTTGCTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.05, C:0.15, G:0.10, T:0.71
Consensus pattern (11 bp):
TTTTTCTTTGA
Found at i:78544 original size:13 final size:12
Alignment explanation
Indices: 78511--78545 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
78501 TTTTCTTCGC
78511 TTTTTCTTTGAT
1 TTTTTCTTTGAT
*
78523 TTTTGCTTTGAT
1 TTTTTCTTTGAT
78535 TTTTCTCTTTG
1 TTTT-TCTTTG
78546 CTCATTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.06, C:0.11, G:0.11, T:0.71
Consensus pattern (12 bp):
TTTTTCTTTGAT
Found at i:79174 original size:20 final size:20
Alignment explanation
Indices: 79151--79191 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
79141 GGATAAATGC
*
79151 AATGTTTCAAGGTGTCAAAG
1 AATGTTTCAAGGTCTCAAAG
79171 AATGTTTCAAGGTCTCAAAG
1 AATGTTTCAAGGTCTCAAAG
79191 A
1 A
79192 GAGGGAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (20 bp):
AATGTTTCAAGGTCTCAAAG
Found at i:82159 original size:15 final size:16
Alignment explanation
Indices: 82141--82176 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
82131 TTTCATACAT
82141 AAATAAATATAA-TGA
1 AAATAAATATAATTGA
*
82156 AAATAAATGTAATTGA
1 AAATAAATATAATTGA
82172 AAATA
1 AAATA
82177 CAAATATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (16 bp):
AAATAAATATAATTGA
Found at i:82781 original size:73 final size:75
Alignment explanation
Indices: 82630--82796 Score: 214
Period size: 74 Copynumber: 2.2 Consensus size: 75
82620 GTAAAATAAG
* * ** *
82630 GACTAAAATAAAAGATTTATAAATGTGGTGGCCATATTTGAATATCAAAGAAACATACATGAAAT
1 GACTAAAATAAAATATTTATAAATCTCATGGCCATATTTGAATAGCAAAGAAACATACA-GAAAT
82695 ATTAAATCAGT
65 ATTAAATCAGT
* * *
82706 GACT-AAATAAAATATTTA-AAATCTCATGGTCATATTTGAATAGCAAGGAAAATATACA-AAAT
1 GACTAAAATAAAATATTTATAAATCTCATGGCCATATTTGAATAGCAAAG-AAACATACAGAAAT
82768 ATTAAATCAGT
65 ATTAAATCAGT
82779 GACTAAAATAAAACTATT
1 GACTAAAATAAAA-TATT
82797 ACAAGTATAA
Statistics
Matches: 80, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
73 19 0.24
74 32 0.40
75 25 0.31
76 4 0.05
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (75 bp):
GACTAAAATAAAATATTTATAAATCTCATGGCCATATTTGAATAGCAAAGAAACATACAGAAATA
TTAAATCAGT
Found at i:83145 original size:5 final size:5
Alignment explanation
Indices: 83135--83159 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
83125 CTCCCATTTG
83135 CCTCA CCTCA CCTCA CCTCA CCTCA
1 CCTCA CCTCA CCTCA CCTCA CCTCA
83160 AACCAGAAGA
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:0.20, C:0.60, G:0.00, T:0.20
Consensus pattern (5 bp):
CCTCA
Found at i:84095 original size:3 final size:3
Alignment explanation
Indices: 84066--84121 Score: 67
Period size: 3 Copynumber: 18.3 Consensus size: 3
84056 TGTAATATAT
* ** *
84066 TAA TAA CAA TAA TTAA TAA GCA TAA TAA TAA TAA TAA CAA TAA TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
84112 TAA TAA TAA T
1 TAA TAA TAA T
84122 TACAATTAGA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:84491 original size:14 final size:14
Alignment explanation
Indices: 84459--84508 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
84449 AACCCGAATT
* *
84459 GAGTCAACTCATCT
1 GAGTCAACTCGTCC
*
84473 TAGTCAACTCGTCC
1 GAGTCAACTCGTCC
* *
84487 GAGTCAACTTGCCC
1 GAGTCAACTCGTCC
84501 GAGTCAAC
1 GAGTCAAC
84509 CCGTTGACTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (14 bp):
GAGTCAACTCGTCC
Found at i:84543 original size:13 final size:13
Alignment explanation
Indices: 84509--84550 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
84499 CCGAGTCAAC
84509 CCGTTGACTTTGA
1 CCGTTGACTTTGA
*
84522 CATGTTGACTTTGA
1 C-CGTTGACTTTGA
84536 CCGTTGACTTTGA
1 CCGTTGACTTTGA
84549 CC
1 CC
84551 AAAAAGTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (13 bp):
CCGTTGACTTTGA
Found at i:90569 original size:19 final size:20
Alignment explanation
Indices: 90545--90613 Score: 77
Period size: 19 Copynumber: 3.4 Consensus size: 20
90535 ATTAAAAAAT
*
90545 GGTATCGATACCATAGTA-G
1 GGTATCGATATCATAGTAGG
*
90564 GGTATCGGTATCATAGTATGG
1 GGTATCGATATCATAGTA-GG
* *
90585 TAGTATCGATATCATTGTAGG
1 -GGTATCGATATCATAGTAGG
90606 GGTATCGA
1 GGTATCGA
90614 CACTGAGGAG
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
19 16 0.39
20 7 0.17
21 3 0.07
22 15 0.37
ACGTcount: A:0.28, C:0.12, G:0.29, T:0.32
Consensus pattern (20 bp):
GGTATCGATATCATAGTAGG
Found at i:90597 original size:22 final size:19
Alignment explanation
Indices: 90545--90613 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 19
90535 ATTAAAAAAT
*
90545 GGTATCGATACCATAGTAG
1 GGTATCGATATCATAGTAG
*
90564 GGTATCGGTATCATAGTATG
1 GGTATCGATATCATAGTA-G
*
90584 GTAGTATCGATATCATTGTAGG
1 G--GTATCGATATCATAGTA-G
90606 GGTATCGA
1 GGTATCGA
90614 CACTGAGGAG
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
19 16 0.38
20 9 0.21
22 17 0.40
ACGTcount: A:0.28, C:0.12, G:0.29, T:0.32
Consensus pattern (19 bp):
GGTATCGATATCATAGTAG
Found at i:91086 original size:45 final size:45
Alignment explanation
Indices: 91022--91187 Score: 228
Period size: 45 Copynumber: 3.7 Consensus size: 45
91012 AAAACGAATT
91022 CCAAAATAATAATGCATATGGGTGCATTATCGATATGAAAGGATG
1 CCAAAATAATAATGCATATGGGTGCATTATCGATATGAAAGGATG
* *
91067 CCAAAATAATAATGCATATGGGTGCATTATCGACATGAAAAGATG
1 CCAAAATAATAATGCATATGGGTGCATTATCGATATGAAAGGATG
* *
91112 CCAAAATAATAATGCATATAGGTGCATTTTC-ATCATGAAAGGATG
1 CCAAAATAATAATGCATATGGGTGCATTATCGAT-ATGAAAGGATG
* ** *
91157 CTATAGTTGA-AATGCATATGGGTGCATTATC
1 CCA-AAATAATAATGCATATGGGTGCATTATC
91188 AACATAAAAG
Statistics
Matches: 107, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
44 1 0.01
45 103 0.96
46 3 0.03
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (45 bp):
CCAAAATAATAATGCATATGGGTGCATTATCGATATGAAAGGATG
Found at i:91128 original size:90 final size:90
Alignment explanation
Indices: 91022--91202 Score: 251
Period size: 90 Copynumber: 2.0 Consensus size: 90
91012 AAAACGAATT
*
91022 CCAAAATAATAATGCATATGGGTGCATTATCGAT-ATGAAAGGATGCCA-AAATAATAATGCATA
1 CCAAAATAATAATGCATATAGGTGCATTATC-ATCATGAAAGGATGCCATAAATAA-AATGCATA
*
91085 TGGGTGCATTATCGACATGAAAAG-ATG
64 TGGGTGCATTATCAACAT-AAAAGTATG
* * ** *
91112 CCAAAATAATAATGCATATAGGTGCATTTTCATCATGAAAGGATGCTATAGTTGAAATGCATATG
1 CCAAAATAATAATGCATATAGGTGCATTATCATCATGAAAGGATGCCATAAATAAAATGCATATG
91177 GGTGCATTATCAACATAAAAGTATG
66 GGTGCATTATCAACATAAAAGTATG
91202 C
1 C
91203 TATAATTGAA
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
89 7 0.09
90 71 0.88
91 3 0.04
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.28
Consensus pattern (90 bp):
CCAAAATAATAATGCATATAGGTGCATTATCATCATGAAAGGATGCCATAAATAAAATGCATATG
GGTGCATTATCAACATAAAAGTATG
Found at i:91259 original size:91 final size:90
Alignment explanation
Indices: 91022--91247 Score: 217
Period size: 90 Copynumber: 2.5 Consensus size: 90
91012 AAAACGAATT
* * ** * * * *
91022 CCAAAATAATAATGCATATGGGTGCATTATCGATATGAAAGGATGCCA-AAATAATAATGCATAT
1 CCAAAATAATAATGCATATAGGTGCATCATAAACATGAAAGGATGCTATAGATGA-AATGCATAT
*
91086 GGGTGCATTATCGACATGAAAAGATG
65 GGGTGCATTATCAACATGAAAAGATG
** * * *
91112 CCAAAATAATAATGCATATAGGTGCATTTTCATCATGAAAGGATGCTATAGTTGAAATGCATATG
1 CCAAAATAATAATGCATATAGGTGCATCATAAACATGAAAGGATGCTATAGATGAAATGCATATG
91177 GGTGCATTATCAACAT-AAAAGTATG
66 GGTGCATTATCAACATGAAAAG-ATG
* * * *
91202 CTATAATTGAA-AATTCATA-ATGGTGCATCATAAACATGAATGGATG
1 CCA-AAAT-AATAATGCATATA-GGTGCATCATAAACATGAAAGGATG
91248 TTATTAATGA
Statistics
Matches: 113, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
89 5 0.04
90 73 0.65
91 33 0.29
92 2 0.02
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.28
Consensus pattern (90 bp):
CCAAAATAATAATGCATATAGGTGCATCATAAACATGAAAGGATGCTATAGATGAAATGCATATG
GGTGCATTATCAACATGAAAAGATG
Found at i:94680 original size:56 final size:56
Alignment explanation
Indices: 94610--94754 Score: 193
Period size: 56 Copynumber: 2.6 Consensus size: 56
94600 AAGTAGGTGA
* *
94610 TGTAATTTCTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAACGT
1 TGTAATGT-TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAACAT
* * * *
94667 TGTAATGTTTAACTTATCCAAGTTGATACATTCAAATATGGAATTTTGAATAGCAT
1 TGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAACAT
* *
94723 TGTAGA-GTTTAAATTATCCAAGTTGTTCCATT
1 TGTA-ATGTTTAACTTATCCAAGTTGTTACATT
94755 TTTGAAAGTA
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
56 70 0.90
57 8 0.10
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (56 bp):
TGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAACAT
Found at i:94834 original size:56 final size:57
Alignment explanation
Indices: 94748--95263 Score: 552
Period size: 56 Copynumber: 9.2 Consensus size: 57
94738 ATCCAAGTTG
* * * * *
94748 TTCCATTTTTGAAAGTAACAACTTGGATAAGTTAAAC-TCTATAATTCTTTTCAAAT
1 TTCCATATTTGAATGTAACAACTTGGATAAGTTAAACATCTACAATTCTATTCAAAC
* * *
94804 TTCCATATTTGAATGTAATAAATTGGATAAGTAAAACAT-TACAATAT-TATTCAAAC
1 TTCCATATTTGAATGTAACAACTTGGATAAGTTAAACATCTACAAT-TCTATTCAAAC
* * * *
94860 TTCCATATTTGAATGCAACAACTTAGATAAGTTAAACATC-ACAATACTATTAAAAC
1 TTCCATATTTGAATGTAACAACTTGGATAAGTTAAACATCTACAATTCTATTCAAAC
* * * *
94916 TTTCATATTTGATTGTAACAACTTGGATAAGTTAAACATTTA-AATTTTATTCAAAC
1 TTCCATATTTGAATGTAACAACTTGGATAAGTTAAACATCTACAATTCTATTCAAAC
* * * * *
94972 TTCCATCTTTGAACGTAACAACTTAGATAAGTTAAAC-TCTATAATGCTATTCAAAC
1 TTCCATATTTGAATGTAACAACTTGGATAAGTTAAACATCTACAATTCTATTCAAAC
* * ** *
95028 TTACATATTTTAATGTAACAACTTGGATAAGTTAAA-ATCTACAACACTATTTAAAC
1 TTCCATATTTGAATGTAACAACTTGGATAAGTTAAACATCTACAATTCTATTCAAAC
* * * *
95084 TTTCATATTTGAATGTAACAACTGGGATAAATTAAACAT-TACAATGT-TATTAAAAC
1 TTCCATATTTGAATGTAACAACTTGGATAAGTTAAACATCTACAAT-TCTATTCAAAC
* * * * *
95140 TTCCATATTTGAATGTAAAAATTTGGATAAGTTAAGACAT-TACAATGCTATACAAAT
1 TTCCATATTTGAATGTAACAACTTGGATAAGTTAA-ACATCTACAATTCTATTCAAAC
* * * *
95197 TTCCATCTTTGAATGTATCAACTTGGATAAGTTAAAC-TTTACAACAT-TATTCAAAC
1 TTCCATATTTGAATGTAACAACTTGGATAAGTTAAACATCTACAA-TTCTATTCAAAC
*
95253 TTTCATATTTG
1 TTCCATATTTG
95264 TTAAGCCATT
Statistics
Matches: 381, Mismatches: 66, Indels: 26
0.81 0.14 0.05
Matches are distributed among these distances:
55 4 0.01
56 325 0.85
57 52 0.14
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (57 bp):
TTCCATATTTGAATGTAACAACTTGGATAAGTTAAACATCTACAATTCTATTCAAAC
Found at i:95050 original size:168 final size:169
Alignment explanation
Indices: 94755--95263 Score: 634
Period size: 168 Copynumber: 3.0 Consensus size: 169
94745 TTGTTCCATT
* * * *
94755 TTTGAAAGTAACAACTTGGATAAGTTAAAC-TCTATAATTCTT-TTCAAATTTCCATATTTGAAT
1 TTTGAATGTAACAACTTGGATAAGTTAAACATTTACAATT-TTATTCAAACTTCCATATTTGAAT
* * ** *
94818 GTAATAAATTGGATAAGTAAAACATTACAATATTATTCAAACTTCCATATTTGAATGCAACAACT
65 GTAAAAAATTGGATAAGTTAAACATTACAATGCTATTCAAACTTCCATATTTGAATGTAACAACT
* *
94883 TAGATAAGTTAAACATCACAATACTATTAAAACTTTCATA
130 TGGATAAGTTAAACATCACAACACTATTAAAACTTTCATA
* * *
94923 TTTGATTGTAACAACTTGGATAAGTTAAACATTTA-AATTTTATTCAAACTTCCATCTTTGAACG
1 TTTGAATGTAACAACTTGGATAAGTTAAACATTTACAATTTTATTCAAACTTCCATATTTGAATG
* * * * * *
94987 TAACAACTTAGATAAGTTAAAC-TCTATAATGCTATTCAAACTTACATATTTTAATGTAACAACT
66 TAAAAAATTGGATAAGTTAAACAT-TACAATGCTATTCAAACTTCCATATTTGAATGTAACAACT
*
95051 TGGATAAGTTAAA-ATCTACAACACTATTTAAACTTTCATA
130 TGGATAAGTTAAACATC-ACAACACTATTAAAACTTTCATA
* * * *
95091 TTTGAATGTAACAACTGGGATAAATTAAACA-TTACAATGTTATTAAAACTTCCATATTTGAATG
1 TTTGAATGTAACAACTTGGATAAGTTAAACATTTACAATTTTATTCAAACTTCCATATTTGAATG
* * * * *
95155 TAAAAATTTGGATAAGTTAAGACATTACAATGCTATACAAATTTCCATCTTTGAATGTATCAACT
66 TAAAAAATTGGATAAGTTAA-ACATTACAATGCTATTCAAACTTCCATATTTGAATGTAACAACT
* * * *
95220 TGGATAAGTTAAACTTTACAACATTATTCAAACTTTCATA
130 TGGATAAGTTAAACATCACAACACTATTAAAACTTTCATA
95260 TTTG
1 TTTG
95264 TTAAGCCATT
Statistics
Matches: 293, Mismatches: 40, Indels: 15
0.84 0.11 0.04
Matches are distributed among these distances:
167 9 0.03
168 206 0.70
169 76 0.26
170 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (169 bp):
TTTGAATGTAACAACTTGGATAAGTTAAACATTTACAATTTTATTCAAACTTCCATATTTGAATG
TAAAAAATTGGATAAGTTAAACATTACAATGCTATTCAAACTTCCATATTTGAATGTAACAACTT
GGATAAGTTAAACATCACAACACTATTAAAACTTTCATA
Found at i:95369 original size:56 final size:56
Alignment explanation
Indices: 95280--95494 Score: 227
Period size: 56 Copynumber: 3.8 Consensus size: 56
95270 CATTTTAATG
* * * * **
95280 CTATTCAAAATTCCATCTTTTAATGGATTAACTTGGACAAGTTAAACATTACAACA
1 CTATACAAACTTCCATCTTTGAATGTAACAACTTGGACAAGTTAAACATTACAACA
* *
95336 CTATACAAGCTT-CAGTCTTTGAATGTAACAACTTGGGCAAGTTAAACATTACAACA
1 CTATACAAACTTCCA-TCTTTGAATGTAACAACTTGGACAAGTTAAACATTACAACA
* * * * * * *
95392 TTATTCAAACTTCCATTTTTGAATGCAACAACTTCGATAAGTTAAA-ATCTATAACA
1 CTATACAAACTTCCATCTTTGAATGTAACAACTTGGACAAGTTAAACAT-TACAACA
* * * *
95448 CTATCCAAACTTCCATCTTTAAATGTAACAACTTGGATATGTTAAAC
1 CTATACAAACTTCCATCTTTGAATGTAACAACTTGGACAAGTTAAAC
95495 TCTTTACTTC
Statistics
Matches: 131, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
55 4 0.03
56 125 0.95
57 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (56 bp):
CTATACAAACTTCCATCTTTGAATGTAACAACTTGGACAAGTTAAACATTACAACA
Found at i:95478 original size:112 final size:112
Alignment explanation
Indices: 95281--95483 Score: 268
Period size: 112 Copynumber: 1.8 Consensus size: 112
95271 ATTTTAATGC
* ** * *
95281 TATTCAAAATTCCATCTTTTAATGGATTAACTTGGACAAGTTAAACATTACAACACTATACAAGC
1 TATTCAAAATTCCATCTTTTAATGCAACAACTTCGACAAGTTAAACATTACAACACTATACAAAC
*
95346 TTCAGTCTTTGAATGTAACAACTTGGGCAAGTTAAACATTACAACAT
66 TTCAGTCTTTAAATGTAACAACTTGGGCAAGTTAAACATTACAACAT
* * * *
95393 TATTCAAACTTCCAT-TTTTGAATGCAACAACTTCGATAAGTTAAA-ATCTATAACACTATCCAA
1 TATTCAAAATTCCATCTTTT-AATGCAACAACTTCGACAAGTTAAACAT-TACAACACTATACAA
95456 ACTTCCA-TCTTTAAATGTAACAACTTGG
64 ACTT-CAGTCTTTAAATGTAACAACTTGG
95484 ATATGTTAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
111 6 0.08
112 70 0.90
113 2 0.03
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (112 bp):
TATTCAAAATTCCATCTTTTAATGCAACAACTTCGACAAGTTAAACATTACAACACTATACAAAC
TTCAGTCTTTAAATGTAACAACTTGGGCAAGTTAAACATTACAACAT
Found at i:96461 original size:23 final size:22
Alignment explanation
Indices: 96402--96486 Score: 97
Period size: 21 Copynumber: 4.0 Consensus size: 22
96392 CCAAAGTGCA
*
96402 ACATAGAATGCCCCGATA-GACC
1 ACATAGAATGTCCCGA-AGGACC
96424 ACATAG-ATGTCCCGAAGGACC
1 ACATAGAATGTCCCGAAGGACC
*
96445 ACATAGAATTGTCCCGAAGAACC
1 ACATAGAA-TGTCCCGAAGGACC
*
96468 ACATA-TATGT-CCGAAGGAC
1 ACATAGAATGTCCCGAAGGAC
96487 TGCGTAGAAC
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
20 9 0.16
21 21 0.38
22 8 0.14
23 18 0.32
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.16
Consensus pattern (22 bp):
ACATAGAATGTCCCGAAGGACC
Found at i:96495 original size:43 final size:43
Alignment explanation
Indices: 96402--96486 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
96392 CCAAAGTGCA
96402 ACATAGAATGCCCCGATAGACCACATAGATGTCCCGAAGGACC
1 ACATAGAATGCCCCGATAGACCACATAGATGTCCCGAAGGACC
* *
96445 ACATAGAATTGTCCCGA-AGAACCACATATATGT-CCGAAGGAC
1 ACATAGAA-TGCCCCGATAG-ACCACATAGATGTCCCGAAGGAC
96487 TGCGTAGAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
43 19 0.50
44 19 0.50
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.16
Consensus pattern (43 bp):
ACATAGAATGCCCCGATAGACCACATAGATGTCCCGAAGGACC
Found at i:98593 original size:20 final size:20
Alignment explanation
Indices: 98564--98601 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
98554 TTTCAAAGTG
98564 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
* *
98584 ATGCATCGATGTACCAAT
1 ATGCACCGATGCACCAAT
98602 TAATTTTTCA
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:0.32, C:0.32, G:0.16, T:0.21
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:98653 original size:19 final size:20
Alignment explanation
Indices: 98629--98681 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
98619 AATGCATTTT
*
98629 ATGCATCGATGCAC-ATATC
1 ATGCATCGATGCACAATACC
98648 ATGCATCGATGCACAATACC
1 ATGCATCGATGCACAATACC
98668 ATGCATCGATGCAC
1 ATGCATCGATGCAC
98682 TCAGTTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (20 bp):
ATGCATCGATGCACAATACC
Found at i:98745 original size:85 final size:84
Alignment explanation
Indices: 98564--98727 Score: 251
Period size: 85 Copynumber: 1.9 Consensus size: 84
98554 TTTCAAAGTG
*
98564 ATGCACCGATGCACCAATCCATGCATCGATGTACCAATTAATTTTTCAAACATCGAATGCATTTT
1 ATGCACCGATGCACCAATCCATGCATCGATGCACCAATTAATTTTTCAAACATCGAATGCATTTT
98629 ATGCATCGATGCACATATC
66 ATGCATCGATGCACATATC
* * *
98648 ATGCATCGATGCA-CAATACCATGCATCGATGCACTCAGTT-TTTTTTCAAAACATCGAATGCAT
1 ATGCACCGATGCACCAAT-CCATGCATCGATGCAC-CAATTAATTTTTC-AAACATCGAATGCAT
98711 TTTATGCATCGATGCAC
63 TTTATGCATCGATGCAC
98728 TCTTAGTGTA
Statistics
Matches: 73, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
83 4 0.05
84 33 0.45
85 36 0.49
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (84 bp):
ATGCACCGATGCACCAATCCATGCATCGATGCACCAATTAATTTTTCAAACATCGAATGCATTTT
ATGCATCGATGCACATATC
Found at i:102953 original size:19 final size:19
Alignment explanation
Indices: 102905--102942 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
102895 ATATAGTGAG
*
102905 AAACAAGGCTAGACTTTTT
1 AAACAAGGCTAGACTTGTT
102924 AAACAAGGCTAGACTTGTT
1 AAACAAGGCTAGACTTGTT
102943 GCTCAAGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAACAAGGCTAGACTTGTT
Found at i:113275 original size:40 final size:40
Alignment explanation
Indices: 113228--113306 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
113218 ATATATGCAC
113228 CGAAGTACATTACACATAAAGTTGTGCCCACCATATACAT
1 CGAAGTACATTACACATAAAGTTGTGCCCACCATATACAT
*
113268 CGAAGTACATTACACATAAGGTTGTGCCCACCATATACA
1 CGAAGTACATTACACATAAAGTTGTGCCCACCATATACA
113307 CTTAGCGTCC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (40 bp):
CGAAGTACATTACACATAAAGTTGTGCCCACCATATACAT
Found at i:114252 original size:30 final size:31
Alignment explanation
Indices: 114183--114257 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 31
114173 AACCATTCAC
* * *
114183 AATTTTTCCAAAAATTATCGAAATGGTCCCCT
1 AATTTTT-CAAAAGTTATCAAAATGGTCCCCA
* *
114215 AACTTTTCAAAAGTTA-CAAAATGGTCTCCA
1 AATTTTTCAAAAGTTATCAAAATGGTCCCCA
*
114245 AATTTTTCTAAAG
1 AATTTTTCAAAAG
114258 CTTTTAGAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 22 0.61
31 8 0.22
32 6 0.17
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (31 bp):
AATTTTTCAAAAGTTATCAAAATGGTCCCCA
Found at i:114356 original size:13 final size:13
Alignment explanation
Indices: 114338--114363 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
114328 ATCATGACCG
114338 AATGTTTTAGCCT
1 AATGTTTTAGCCT
114351 AATGTTTTAGCCT
1 AATGTTTTAGCCT
114364 TGAAAACTAT
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:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (13 bp):
AATGTTTTAGCCT
Found at i:115437 original size:29 final size:33
Alignment explanation
Indices: 115354--115440 Score: 82
Period size: 29 Copynumber: 2.9 Consensus size: 33
115344 CCCAAAATAT
* *
115354 AACTTTT-TAAAA-TTACCATTTTGGTC-CCTA
1 AACTTTTCCAAAATTTATCATTTTGGTCACCTA
* *
115384 AACTTTTCCAAAGTTTAT-ACTTTGGTCACC-A
1 AACTTTTCCAAAATTTATCATTTTGGTCACCTA
115415 AAC-TTT-CAAAATTT-TCATTTTGGTCA
1 AACTTTTCCAAAATTTATCATTTTGGTCA
115441 TAATCTAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
28 1 0.02
29 16 0.34
30 10 0.21
31 15 0.32
32 5 0.11
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.43
Consensus pattern (33 bp):
AACTTTTCCAAAATTTATCATTTTGGTCACCTA
Found at i:119522 original size:21 final size:21
Alignment explanation
Indices: 119498--119566 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
119488 AAGAATCACA
119498 TAGATTTCCCGAAGGACCACG
1 TAGATTTCCCGAAGGACCACG
*
119519 TAGAATTGTCCCGAAGGACCACA
1 TAG-ATT-TCCCGAAGGACCACG
* * *
119542 TATATGTCTCGAAGGA-CAGCG
1 TAGATTTCCCGAAGGACCA-CG
119563 TAGA
1 TAGA
119567 ACCCTCGACT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 2 0.05
21 16 0.41
22 5 0.13
23 16 0.41
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (21 bp):
TAGATTTCCCGAAGGACCACG
Found at i:119555 original size:44 final size:43
Alignment explanation
Indices: 119476--119567 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 43
119466 AAGTGCCATA
* * *
119476 TAGAATGTCTCGAAGAATCACATAGATTTCCCGAAGGACCA-CG
1 TAGAATGTCCCGAAGAACCACATAGATGTCCCGAAGGA-CAGCG
* * *
119519 TAGAATTGTCCCGAAGGACCACATATATGTCTCGAAGGACAGCG
1 TAGAA-TGTCCCGAAGAACCACATAGATGTCCCGAAGGACAGCG
119563 TAGAA
1 TAGAA
119568 CCCTCGACTC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
43 7 0.17
44 34 0.83
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.21
Consensus pattern (43 bp):
TAGAATGTCCCGAAGAACCACATAGATGTCCCGAAGGACAGCG
Found at i:119730 original size:15 final size:15
Alignment explanation
Indices: 119701--119745 Score: 72
Period size: 15 Copynumber: 2.9 Consensus size: 15
119691 ACATAGATCA
119701 TCACATAGACTTATAC
1 TCACATAG-CTTATAC
*
119717 TCACATAGCTTATAG
1 TCACATAGCTTATAC
119732 TCACATAGCTTATA
1 TCACATAGCTTATA
119746 TCATTCTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
15 20 0.71
16 8 0.29
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.33
Consensus pattern (15 bp):
TCACATAGCTTATAC
Found at i:121544 original size:56 final size:55
Alignment explanation
Indices: 121296--121961 Score: 524
Period size: 56 Copynumber: 11.9 Consensus size: 55
121286 TTTTAACTTA
* * * * *
121296 TCCATCTTTGAATGCAACAACTTGGATAAGTTAAGACTTTACAACACTATTTAATCT
1 TCCATATTTGAATGTAAAAACTTGGATAAGTTAA-AC-TTACAACACTATTCAAACT
** * * * * *** *
121353 TGTATTTTTTAATGTAACAACTTGGATAAGTTAAACATTAAAATTTTATTCAAACC
1 TCCATATTTGAATGTAAAAACTTGGATAAGTTAAAC-TTACAACACTATTCAAACT
* * * **
121409 TCTATCTTTGAATGT---AACTTGGATATGTTAAGACATTACAATGCTATGT-AAACT
1 TCCATATTTGAATGTAAAAACTTGGATAAGTTAA-AC-TTACAACACTAT-TCAAACT
* * * *
121463 TTCA-ATTTTGAATGTAACAACTTGGATAAGTTAAACTCTATAGCACTATTCAAACT
1 TCCATA-TTTGAATGTAAAAACTTGGATAAGTTAAACT-TACAACACTATTCAAACT
* * * *
121519 TCCATATTTGATTGTAAAAACTTGGATAAGTTAAGAAATTACAATACTATTTAAACT
1 TCCATATTTGAATGTAAAAACTTGGATAAGTT-A-AACTTACAACACTATTCAAACT
* * * * ** *
121576 TTCATTTTTGAATGT-AACACTTGGATAAGTTATACATTACAATTCTATTTAAACT
1 TCCATATTTGAATGTAAAAACTTGGATAAGTTAAAC-TTACAACACTATTCAAACT
* * * *
121631 TCCATCTTTAAATGTAACAACTTGGATAAGTTAAACTCTACAACGCTATTCAAACT
1 TCCATATTTGAATGTAAAAACTTGGATAAGTTAAACT-TACAACACTATTCAAACT
* * *
121687 TCCAT-TTGTGAATGTAACAAGTTGGATAAGTTAAACTCTACAATGA-TATTCAAACT
1 TCCATATT-TGAATGTAAAAACTTGGATAAGTTAAACT-TACAA-CACTATTCAAACT
* ** *
121743 TCCATATTTTAATGTAACAAA-TTGGATAAGTTAAACTATACAATGCTATTTAAACT
1 TCCATATTTGAATGTAA-AAACTTGGATAAGTTAAACT-TACAACACTATTCAAACT
* * * ** *
121799 TCCATCA-GTGAATGTAATAACTTGGATAAGCTAAACATTACAACGTTATTCAGACT
1 TCCAT-ATTTGAATGTAAAAACTTGGATAAGTTAAAC-TTACAACACTATTCAAACT
* * * *
121855 TCCATCTTTGAATGTAATAACTTGGATAAGTTAAGACATTACAACAATATTTAAACT
1 TCCATATTTGAATGTAAAAACTTGGATAAGTTAA-AC-TTACAACACTATTCAAACT
** * *
121912 TTGATATTTGATTGTAAAAACTTGGATAAGTTAAACATTACAACATTATT
1 TCCATATTTGAATGTAAAAACTTGGATAAGTTAAAC-TTACAACACTATT
121962 GATTCTAGGA
Statistics
Matches: 501, Mismatches: 84, Indels: 49
0.79 0.13 0.08
Matches are distributed among these distances:
53 15 0.03
54 28 0.06
55 39 0.08
56 291 0.58
57 125 0.25
58 3 0.01
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (55 bp):
TCCATATTTGAATGTAAAAACTTGGATAAGTTAAACTTACAACACTATTCAAACT
Found at i:121654 original size:168 final size:165
Alignment explanation
Indices: 121296--121954 Score: 695
Period size: 168 Copynumber: 3.9 Consensus size: 165
121286 TTTTAACTTA
* * * * **
121296 TCCATCTTTGAATGCAACAACTTGGATAAGTTAAGACTTTACAACACTATTTAATCTTGTATTTT
1 TCCATCTTTGAATGTAACAACTTGGATAAGTTAA-ACTCTACAACACTATTCAAACTTCCA-TTT
* * * * * *
121361 TTAATGTAACAACTTGGATAAGTTAAACATTAAAATTTTATTCAAAC-CTCTATCTTTGAATGT-
64 TGAATGTAACAACTTGGATAAGTTAAAAATTACAA-TATATTCAAACTTTC-ATTTTTGAATGTA
* *
121424 A-ACTTGGATATGTTAAGACATTACAATGCTATGTAAACTT
127 ACACTTGGATAAGTTAA-ACATTACAATGCTATTTAAAC-T
* * *
121464 TCAAT-TTTGAATGTAACAACTTGGATAAGTTAAACTCTATAGCACTATTCAAACTTCCATATTT
1 TCCATCTTTGAATGTAACAACTTGGATAAGTTAAACTCTACAACACTATTCAAACTTCCAT-TTT
* * *
121528 GATTGTAAAAACTTGGATAAGTTAAGAAATTACAATACTATTTAAACTTTCATTTTTGAATGTAA
65 GAATGTAACAACTTGGATAAGTTAA-AAATTACAATA-TATTCAAACTTTCATTTTTGAATGTAA
* *
121593 CACTTGGATAAGTTATACATTACAATTCTATTTAAACT
128 CACTTGGATAAGTTAAACATTACAATGCTATTTAAACT
* *
121631 TCCATCTTTAAATGTAACAACTTGGATAAGTTAAACTCTACAACGCTATTCAAACTTCCATTTGT
1 TCCATCTTTGAATGTAACAACTTGGATAAGTTAAACTCTACAACACTATTCAAACTTCCATTT-T
* * *
121696 GAATGTAACAAGTTGGATAAGTT-AAACTCTACAATGATATTCAAACTTCCATATTTT-AATGTA
65 GAATGTAACAACTTGGATAAGTTAAAAAT-TACAAT-ATATTCAAACTTTCAT-TTTTGAATGTA
*
121759 ACAAATTGGATAAGTTAAAC-TATACAATGCTATTTAAACT
127 AC-ACTTGGATAAGTTAAACAT-TACAATGCTATTTAAACT
** * * ** *
121799 TCCATCAGTGAATGTAATAACTTGGATAAGCTAAACAT-TACAACGTTATTCAGACTTCCATCTT
1 TCCATCTTTGAATGTAACAACTTGGATAAGTTAAAC-TCTACAACACTATTCAAACTTCCAT-TT
* * * * * * *
121863 TGAATGTAATAACTTGGATAAGTTAAGACATTACAACAATATTTAAACTTTGATATTTGATTGTA
64 TGAATGTAACAACTTGGATAAGTTAA-AAATTACAA-TATATTCAAACTTTCATTTTTGAATGT-
*
121928 AAAACTTGGATAAGTTAAACATTACAA
126 AACACTTGGATAAGTTAAACATTACAA
121955 CATTATTGAT
Statistics
Matches: 415, Mismatches: 55, Indels: 41
0.81 0.11 0.08
Matches are distributed among these distances:
165 1 0.00
166 48 0.12
167 89 0.21
168 212 0.51
169 60 0.14
170 5 0.01
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.36
Consensus pattern (165 bp):
TCCATCTTTGAATGTAACAACTTGGATAAGTTAAACTCTACAACACTATTCAAACTTCCATTTTG
AATGTAACAACTTGGATAAGTTAAAAATTACAATATATTCAAACTTTCATTTTTGAATGTAACAC
TTGGATAAGTTAAACATTACAATGCTATTTAAACT
Found at i:121658 original size:112 final size:113
Alignment explanation
Indices: 121296--121954 Score: 685
Period size: 112 Copynumber: 5.9 Consensus size: 113
121286 TTTTAACTTA
* ** *
121296 TCCATCTTTGAATGCAACAACTTGGATAAGTTAAGACTTTACAACACTATTTAATCTTGT-ATTT
1 TCCATCTTTGAATGTAACAACTTGGATAAGTTAAGAAATTACAACACTATTTAAACTT-TCATTT
* * * *
121360 TTTAATGTAACAACTTGGATAAGTTAAACATTAAAATTTTATTCAAACC
65 TTGAATGTAACAACTTGGATAAGTTAAACATTACAATTCTATTCAAACT
* * * ** * *
121409 TCTATCTTTGAATGT---AACTTGGATATGTTAAGACATTACAATGCTATGTAAACTTTCAATTT
1 TCCATCTTTGAATGTAACAACTTGGATAAGTTAAGAAATTACAACACTATTTAAACTTTCATTTT
* ***
121471 TGAATGTAACAACTTGGATAAGTTAAAC-TCTATAGCACTATTCAAACT
66 TGAATGTAACAACTTGGATAAGTTAAACAT-TACAATTCTATTCAAACT
* * * *
121519 TCCATATTTGATTGTAAAAACTTGGATAAGTTAAGAAATTACAATACTATTTAAACTTTCATTTT
1 TCCATCTTTGAATGTAACAACTTGGATAAGTTAAGAAATTACAACACTATTTAAACTTTCATTTT
* *
121584 TGAATGTAAC-ACTTGGATAAGTTATACATTACAATTCTATTTAAACT
66 TGAATGTAACAACTTGGATAAGTTAAACATTACAATTCTATTCAAACT
* * * * *
121631 TCCATCTTTAAATGTAACAACTTGGATAAGTT-A-AACTCTACAACGCTATTCAAACTTCCATTT
1 TCCATCTTTGAATGTAACAACTTGGATAAGTTAAGAAAT-TACAACACTATTTAAACTTTCATTT
* * **
121694 GTGAATGTAACAAGTTGGATAAGTTAAAC-TCTACAATGATATTCAAACT
65 TTGAATGTAACAACTTGGATAAGTTAAACAT-TACAATTCTATTCAAACT
* * * * ** * **
121743 TCCATATTTTAATGTAACAAATTGGATAAGTT-A-AACTATACAATGCTATTTAAACTTCCATCA
1 TCCATCTTTGAATGTAACAACTTGGATAAGTTAAGAAAT-TACAACACTATTTAAACTTTCATTT
* * * * *
121806 GTGAATGTAATAACTTGGATAAGCTAAACATTACAACGT-TATTCAGACT
65 TTGAATGTAACAACTTGGATAAGTTAAACATTACAA-TTCTATTCAAACT
* * * * *
121855 TCCATCTTTGAATGTAATAACTTGGATAAGTTAAGACATTACAACAATATTTAAACTTTGATATT
1 TCCATCTTTGAATGTAACAACTTGGATAAGTTAAGAAATTACAACACTATTTAAACTTTCATTTT
* *
121920 TGATTGTAAAAACTTGGATAAGTTAAACATTACAA
66 TGAATGTAACAACTTGGATAAGTTAAACATTACAA
121955 CATTATTGAT
Statistics
Matches: 457, Mismatches: 76, Indels: 26
0.82 0.14 0.05
Matches are distributed among these distances:
109 2 0.00
110 92 0.20
111 33 0.07
112 210 0.46
113 118 0.26
114 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.36
Consensus pattern (113 bp):
TCCATCTTTGAATGTAACAACTTGGATAAGTTAAGAAATTACAACACTATTTAAACTTTCATTTT
TGAATGTAACAACTTGGATAAGTTAAACATTACAATTCTATTCAAACT
Found at i:126714 original size:16 final size:16
Alignment explanation
Indices: 126693--126725 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
126683 CTCATATCAT
126693 ATATATACATACATAC
1 ATATATACATACATAC
126709 ATATATACATACATAC
1 ATATATACATACATAC
126725 A
1 A
126726 CACACAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (16 bp):
ATATATACATACATAC
Found at i:129248 original size:16 final size:16
Alignment explanation
Indices: 129214--129259 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
129204 TTGTAATAAT
*
129214 TAATTATAATA-TA-A
1 TAATAATAATATTATA
129228 TAATAATAATATTATA
1 TAATAATAATATTATA
*
129244 TAATAATATTATTATA
1 TAATAATAATATTATA
129260 ATACTTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 10 0.36
15 2 0.07
16 16 0.57
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TAATAATAATATTATA
Found at i:129520 original size:35 final size:35
Alignment explanation
Indices: 129445--129574 Score: 208
Period size: 35 Copynumber: 3.7 Consensus size: 35
129435 TGATTTGATC
129445 CTTCACTACTCTTTTGTGAAGG-TTGGATTTGCATTG
1 CTTCACTACTCTTTTGTGAAGGCTT-GA-TTGCATTG
* *
129481 CTTCACTACTCTTTTGTGAAGGCTTGATTGCACTA
1 CTTCACTACTCTTTTGTGAAGGCTTGATTGCATTG
*
129516 CTTCACTACTCTTTTCTGAAGGCTTGATTGCATTG
1 CTTCACTACTCTTTTGTGAAGGCTTGATTGCATTG
129551 CTTCACTACTCTTTTGTGAAGGCT
1 CTTCACTACTCTTTTGTGAAGGCT
129575 GAGTTCGAAT
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
35 61 0.70
36 24 0.28
37 2 0.02
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (35 bp):
CTTCACTACTCTTTTGTGAAGGCTTGATTGCATTG
Found at i:129736 original size:43 final size:43
Alignment explanation
Indices: 129590--129736 Score: 125
Period size: 43 Copynumber: 3.3 Consensus size: 43
129580 CGAATGACTT
* * *
129590 CACTACTCCTCCGTGAAGGTCAGATTCAAGGTTGATTTGCTGC
1 CACTACTCTTCCGTGAAGATCAGATTCAAGGTTGATTTGCTTC
* ** ** *** * *
129633 CACTACTCTTCCGTGGAGATTGGATTGACTTGAAAAGAATCTG-TTT
1 CACTACTCTTCCGTGAAGATCAGATT--CAAG-GTTG-ATTTGCTTC
*
129679 CACTACTCTTCCGTGAAGATCAGAATCAAGGTTGATTTGCTTC
1 CACTACTCTTCCGTGAAGATCAGATTCAAGGTTGATTTGCTTC
129722 CACTACTCTTCCGTG
1 CACTACTCTTCCGTG
129737 GAGACCAAAT
Statistics
Matches: 75, Mismatches: 24, Indels: 10
0.69 0.22 0.09
Matches are distributed among these distances:
42 4 0.05
43 39 0.52
44 2 0.03
45 2 0.03
46 24 0.32
47 4 0.05
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (43 bp):
CACTACTCTTCCGTGAAGATCAGATTCAAGGTTGATTTGCTTC
Done.