Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold92
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: 2337674
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 499 characters in sequence are not A, C, G, or T
File 17 of 19
Found at i:2030662 original size:34 final size:31
Alignment explanation
Indices: 2030615--2030680 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 31
2030605 TCAATTTAAT
2030615 TATAAAAATATAAAAATTAAAATTAAAATAATAA
1 TATAAAAATATAAAAA-T-AAATTAAAA-AATAA
*
2030649 TATAAATAA-ATAAAAATATATTAAAAAATAA
1 TATAAA-AATATAAAAATAAATTAAAAAATAA
2030680 T
1 T
2030681 TTAATAACTC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 6 0.20
32 8 0.27
33 1 0.03
34 13 0.43
35 2 0.07
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (31 bp):
TATAAAAATATAAAAATAAATTAAAAAATAA
Found at i:2033493 original size:32 final size:31
Alignment explanation
Indices: 2033440--2033510 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 31
2033430 ATATTATATA
* *
2033440 TTTATATAAATTTTGATATATTAATAATTTAT
1 TTTATATAAATTTTAACATATTAATAATTT-T
* *
2033472 TTTATATAAATTTTAACATATTTATTATTTT
1 TTTATATAAATTTTAACATATTAATAATTTT
2033503 TATTATAT
1 T-TTATAT
2033511 TATAATATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 2 0.06
32 32 0.94
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (31 bp):
TTTATATAAATTTTAACATATTAATAATTTT
Found at i:2033561 original size:13 final size:13
Alignment explanation
Indices: 2033525--2033558 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
2033515 ATATATTAAA
2033525 ATAAAAAATTATT
1 ATAAAAAATTATT
*
2033538 TTAAAAAATTATT
1 ATAAAAAATTATT
2033551 AATAAAAA
1 -ATAAAAA
2033559 TTACTCTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATAAAAAATTATT
Found at i:2033958 original size:15 final size:15
Alignment explanation
Indices: 2033938--2033975 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
2033928 CACGATGTCG
*
2033938 TCAATGTCAATCAAT
1 TCAATGCCAATCAAT
2033953 TCAATGCCAATCAAT
1 TCAATGCCAATCAAT
2033968 TCAATGCC
1 TCAATGCC
2033976 GAACGAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.37, C:0.26, G:0.08, T:0.29
Consensus pattern (15 bp):
TCAATGCCAATCAAT
Found at i:2034555 original size:2 final size:2
Alignment explanation
Indices: 2034548--2034584 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
2034538 ATTCTTTATG
*
2034548 TA TA TA TA TA TA TA TA TA TA TA TA TA TG 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
2034585 TTTCGTATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2034592 original size:14 final size:14
Alignment explanation
Indices: 2034544--2034584 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
2034534 TATAATTCTT
2034544 TATGTATATATATA
1 TATGTATATATATA
*
2034558 TATATATATATATA
1 TATGTATATATATA
2034572 TATGTATATATAT
1 TATGTATATATAT
2034585 TTTCGTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (14 bp):
TATGTATATATATA
Found at i:2043065 original size:29 final size:30
Alignment explanation
Indices: 2043033--2043118 Score: 83
Period size: 29 Copynumber: 2.9 Consensus size: 30
2043023 AAAATTATTT
2043033 TATAA-AATTTATATGAATAAAATATAAAA
1 TATAATAATTTATATGAATAAAATATAAAA
* *
2043062 TATAATAA-TTAAATTAA-ATAAATAT-AAA
1 TATAATAATTTATATGAATA-AAATATAAAA
*
2043090 TAAAATTAATTTACTATGAATAAAA-ATAA
1 TATAA-TAATTTA-TATGAATAAAATATAA
2043119 TTTGAGTTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
28 8 0.18
29 21 0.47
30 7 0.16
31 8 0.18
32 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (30 bp):
TATAATAATTTATATGAATAAAATATAAAA
Found at i:2043075 original size:20 final size:22
Alignment explanation
Indices: 2043033--2043118 Score: 62
Period size: 20 Copynumber: 4.2 Consensus size: 22
2043023 AAAATTATTT
*
2043033 TATAAAATTTATATGAATAAAA
1 TATAAAATATATATGAATAAAA
*
2043055 TATAAAATATA-AT-AATTAAA
1 TATAAAATATATATGAATAAAA
* *
2043075 T-T-AAATAAATATAAATAAAA
1 TATAAAATATATATGAATAAAA
*
2043095 T-T--AATTTACTATGAATAAAA
1 TATAAAATATA-TATGAATAAAA
2043115 -ATAA
1 TATAA
2043119 TTTGAGTTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
18 6 0.12
19 7 0.14
20 26 0.51
21 2 0.04
22 10 0.20
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (22 bp):
TATAAAATATATATGAATAAAA
Found at i:2048646 original size:27 final size:26
Alignment explanation
Indices: 2048608--2048665 Score: 98
Period size: 27 Copynumber: 2.2 Consensus size: 26
2048598 CAGTATTGTT
2048608 AAAGTTTTTGATTAATATATATAAAG
1 AAAGTTTTTGATTAATATATATAAAG
*
2048634 AAAGTTCTTTGATTAATATGTATAAAG
1 AAAGTT-TTTGATTAATATATATAAAG
2048661 AAAGT
1 AAAGT
2048666 AAAGTTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.45, C:0.02, G:0.14, T:0.40
Consensus pattern (26 bp):
AAAGTTTTTGATTAATATATATAAAG
Found at i:2048698 original size:24 final size:24
Alignment explanation
Indices: 2048670--2048715 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
2048660 GAAAGTAAAG
*
2048670 TTTAAATATCAAATTATTAATTTT
1 TTTAAATATCAAATTATAAATTTT
*
2048694 TTTAAATATTAAATTATAAATT
1 TTTAAATATCAAATTATAAATT
2048716 AAATTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTAAATATCAAATTATAAATTTT
Found at i:2050023 original size:33 final size:35
Alignment explanation
Indices: 2049986--2050058 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 35
2049976 AATTAATATA
2049986 ATTTAAAATATTATT-TAAATA-AAAAATATTTTT
1 ATTTAAAATATTATTATAAATATAAAAATATTTTT
* *
2050019 ATTT-AAATTTTATTATAATTATAAAAATATTTTT
1 ATTTAAAATATTATTATAAATATAAAAATATTTTT
*
2050053 AATTAA
1 ATTTAA
2050059 TAGTTTAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 9 0.26
33 9 0.26
34 15 0.44
35 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (35 bp):
ATTTAAAATATTATTATAAATATAAAAATATTTTT
Found at i:2050055 original size:18 final size:19
Alignment explanation
Indices: 2049990--2050057 Score: 60
Period size: 18 Copynumber: 3.9 Consensus size: 19
2049980 AATATAATTT
*
2049990 AAAATATTATTTAAATA-A
1 AAAATATTATTTAATTATA
2050008 AAAATATT-TTT-ATT-T-
1 AAAATATTATTTAATTATA
*
2050023 -AAATTTTATTATAATTATA
1 AAAATATTATT-TAATTATA
2050042 AAAATATT-TTTAATTA
1 AAAATATTATTTAATTA
2050058 ATAGTTTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
14 6 0.15
15 2 0.05
16 3 0.08
17 6 0.15
18 15 0.38
19 2 0.05
20 6 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AAAATATTATTTAATTATA
Found at i:2053328 original size:26 final size:23
Alignment explanation
Indices: 2053271--2053330 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 23
2053261 ATATTAAAAA
2053271 TAAATTAAA-TATATATATTTAT
1 TAAATTAAATTATATATATTTAT
*
2053293 TAATTATAAATTATATAATATTTATT
1 TAAAT-TAAATTATAT-ATATTTA-T
2053319 TAACATTAAATT
1 TAA-ATTAAATT
2053331 TTTTAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 4 0.13
23 4 0.13
24 5 0.16
25 7 0.23
26 10 0.32
27 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TAAATTAAATTATATATATTTAT
Found at i:2054286 original size:16 final size:15
Alignment explanation
Indices: 2054256--2054312 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
2054246 TTTTTTATTT
*
2054256 ATTTGATATTTAAAA
1 ATTTTATATTTAAAA
2054271 ATTTTATATATTAAAA
1 ATTTTATAT-TTAAAA
*
2054287 ATTTT-TAATTTTAAA
1 ATTTTAT-ATTTAAAA
2054302 A-TTTATATTTA
1 ATTTTATATTTA
2054313 CATGTAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
14 7 0.19
15 16 0.44
16 13 0.36
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTTATATTTAAAA
Found at i:2055021 original size:2 final size:2
Alignment explanation
Indices: 2055014--2055042 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2055004 GCCGCATTTT
2055014 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2055043 GTAAATTCCA
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2062271 original size:13 final size:13
Alignment explanation
Indices: 2062255--2062279 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2062245 TGTATTTTAA
2062255 TTTTTTACAATAT
1 TTTTTTACAATAT
2062268 TTTTTTACAATA
1 TTTTTTACAATA
2062280 ATGTGAATTA
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:0.08, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTTTACAATAT
Found at i:2063077 original size:15 final size:16
Alignment explanation
Indices: 2063057--2063094 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
2063047 TATATATGTA
2063057 AATATAAAT-TTTAAT
1 AATATAAATATTTAAT
2063072 AATATAAATATTTAAT
1 AATATAAATATTTAAT
2063088 -ATATAAA
1 AATATAAA
2063095 ATTCTTAGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATATAAATATTTAAT
Found at i:2063096 original size:16 final size:17
Alignment explanation
Indices: 2063058--2063096 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
2063048 ATATATGTAA
2063058 ATATAAAT-TTTAATA-
1 ATATAAATATTTAATAT
2063073 ATATAAATATTTAATAT
1 ATATAAATATTTAATAT
2063090 ATA-AAAT
1 ATATAAAT
2063097 TCTTAGACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.36
16 11 0.50
17 3 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATAAATATTTAATAT
Found at i:2063898 original size:21 final size:22
Alignment explanation
Indices: 2063846--2063904 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 22
2063836 ATTCAAACAC
2063846 TAAATTTAATATTAAATATAATT
1 TAAATTTAATA-TAAATATAATT
*
2063869 TAAAATTAATA-AAATATATATT
1 TAAATTTAATATAAATATA-ATT
2063891 T-AATTTAATGATAA
1 TAAATTTAAT-ATAA
2063905 TTTTTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
21 14 0.45
22 5 0.16
23 12 0.39
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TAAATTTAATATAAATATAATT
Found at i:2068387 original size:25 final size:27
Alignment explanation
Indices: 2068342--2068392 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 27
2068332 TCTTTCTATC
*
2068342 ATTAATATATAATCGATATTTATTATA
1 ATTAATATATAATCAATATTTATTATA
2068369 ATTAAT-TATAAT-AATATTTATTAT
1 ATTAATATATAATCAATATTTATTAT
2068393 GTCTGATCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.48
26 6 0.26
27 6 0.26
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (27 bp):
ATTAATATATAATCAATATTTATTATA
Found at i:2075780 original size:23 final size:23
Alignment explanation
Indices: 2075754--2075816 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 23
2075744 AGGCTCATGT
2075754 AATATT-TAAAAAATTTAAATAAA
1 AATATTATAAAAAA-TTAAATAAA
*
2075777 AATATTAATAAAAAATTAAGTAAA
1 AATATT-ATAAAAAATTAAATAAA
2075801 ATATAATTATAAAAAA
1 A-AT-ATTATAAAAAA
2075817 AAAAACAAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
23 6 0.17
24 9 0.26
25 17 0.49
26 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (23 bp):
AATATTATAAAAAATTAAATAAA
Found at i:2076693 original size:24 final size:24
Alignment explanation
Indices: 2076646--2076693 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2076636 CCAATATAAA
* *
2076646 TATATATTTAAATTTTTAATTTTT
1 TATATATTTAAAATATTAATTTTT
2076670 TATATATTTAAAATATTATATTTT
1 TATATATTTAAAATATTA-ATTTT
2076694 CATAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TATATATTTAAAATATTAATTTTT
Found at i:2079704 original size:37 final size:39
Alignment explanation
Indices: 2079663--2079750 Score: 90
Period size: 37 Copynumber: 2.3 Consensus size: 39
2079653 ATTTTATATT
*
2079663 ATATTTTAAAAGTTAATATAATTAA-AAATAAATAAA-A
1 ATATTTTAAAAGTTAAAATAATTAATAAATAAATAAATA
* * ** *
2079700 ATATTATATATTTTAAAATAATTAATAAATATATAAATA
1 ATATTTTAAAAGTTAAAATAATTAATAAATAAATAAATA
*
2079739 ATTTATTTAAAA
1 ATAT-TTTAAAA
2079751 TATTAATTAT
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
37 20 0.53
38 10 0.26
39 4 0.11
40 4 0.11
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (39 bp):
ATATTTTAAAAGTTAAAATAATTAATAAATAAATAAATA
Found at i:2079708 original size:27 final size:29
Alignment explanation
Indices: 2079678--2079741 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 29
2079668 TTAAAAGTTA
2079678 ATATAATTAAAAATAAATAA-AAATAT-T
1 ATATAATTAAAAATAAATAATAAATATAT
* * *
2079705 ATATATTTTAAAATAATTAATAAATATAT
1 ATATAATTAAAAATAAATAATAAATATAT
*
2079734 AAATAATT
1 ATATAATT
2079742 TATTTAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 17 0.57
28 6 0.20
29 7 0.23
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (29 bp):
ATATAATTAAAAATAAATAATAAATATAT
Found at i:2080037 original size:3 final size:3
Alignment explanation
Indices: 2080029--2080071 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
2080019 TAGTCATTTG
2080029 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2080072 AATACATATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2080812 original size:42 final size:42
Alignment explanation
Indices: 2080741--2080844 Score: 138
Period size: 42 Copynumber: 2.5 Consensus size: 42
2080731 GTGCGTATAT
* * *
2080741 ATGCCAATGTGCCTAGTTTTGAAGTTATTCTGTC-TCAAAGG
1 ATGCTAATGTGCCTAGTTTTAAAGTTATTCTGTCATCAAAAG
*
2080782 ATGCTAATGTGCCTTATTTTTAAAGTTATTCTGTCAGTCAAAAG
1 ATGCTAATGTGCC-TAGTTTTAAAGTTATTCTGTCA-TCAAAAG
*
2080826 ATGCTAATGTTCCTAGTTT
1 ATGCTAATGTGCCTAGTTT
2080845 GAAGTGTTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
41 12 0.22
42 19 0.35
43 5 0.09
44 18 0.33
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.40
Consensus pattern (42 bp):
ATGCTAATGTGCCTAGTTTTAAAGTTATTCTGTCATCAAAAG
Found at i:2082872 original size:6 final size:6
Alignment explanation
Indices: 2082861--2082891 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
2082851 GCATGACTTC
2082861 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A
2082892 TTTACGTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:2083824 original size:12 final size:12
Alignment explanation
Indices: 2083809--2083834 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2083799 AAATTTGATT
2083809 ATAAAAATATAA
1 ATAAAAATATAA
2083821 ATAAAAATATAA
1 ATAAAAATATAA
2083833 AT
1 AT
2083835 TTTTAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
ATAAAAATATAA
Found at i:2085001 original size:22 final size:24
Alignment explanation
Indices: 2084971--2085023 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
2084961 AATTTTTATT
*
2084971 TAATTTTAATTATAAAA-AATA-TA
1 TAATATTAA-TATAAAATAATAGTA
2084994 -AATATTAATATAAAATAATAGTA
1 TAATATTAATATAAAATAATAGTA
2085017 TAATATT
1 TAATATT
2085024 TCAAAACAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 7 0.27
22 11 0.42
23 2 0.08
24 6 0.23
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (24 bp):
TAATATTAATATAAAATAATAGTA
Found at i:2085403 original size:23 final size:24
Alignment explanation
Indices: 2085362--2085410 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
2085352 AAATATTAAT
**
2085362 ATATAAATAATTTTTATAAAT-AA
1 ATATAAATAATTTAAATAAATCAA
*
2085385 ATATAGATAATTTAAATAAATCAA
1 ATATAAATAATTTAAATAAATCAA
2085409 AT
1 AT
2085411 CGAACTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
ATATAAATAATTTAAATAAATCAA
Found at i:2088527 original size:2 final size:2
Alignment explanation
Indices: 2088520--2088546 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2088510 CTTTCCTCTT
2088520 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 T
2088547 GTTCAGATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2090181 original size:2 final size:2
Alignment explanation
Indices: 2090174--2090236 Score: 99
Period size: 2 Copynumber: 31.5 Consensus size: 2
2090164 GCTTATTTAC
* **
2090174 AT AT AT AT AT AT AT AT AT GT AT AT AT AT GC 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
2090216 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
2090237 AAACATTGTA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2092226 original size:18 final size:18
Alignment explanation
Indices: 2092197--2092240 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
2092187 TTTTTTATTT
* *
2092197 TATTAAAAAAATTCTCAAA
1 TATTAAAAATA-TATCAAA
2092216 TACTTAAAAATATATCAAA
1 TA-TTAAAAATATATCAAA
2092235 TATTAA
1 TATTAA
2092241 TACTTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 10 0.45
20 8 0.36
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
TATTAAAAATATATCAAA
Found at i:2095614 original size:16 final size:18
Alignment explanation
Indices: 2095581--2095623 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 18
2095571 ATAAAAATTT
2095581 AATTATATAATTTGATAA
1 AATTATATAATTTGATAA
2095599 AATTATA-AATTT-AT-A
1 AATTATATAATTTGATAA
*
2095614 ACTTATATAA
1 AATTATATAA
2095624 AAATTAATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 7 0.30
16 4 0.17
17 5 0.22
18 7 0.30
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
AATTATATAATTTGATAA
Found at i:2096276 original size:24 final size:23
Alignment explanation
Indices: 2096246--2096317 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 23
2096236 CATGATATGA
2096246 ATATATAAAAAAATAATTAAAAC
1 ATATATAAAAAAATAATTAAAAC
*
2096269 ATAATATAAATATATAAATATATTAAAAT
1 AT-ATAT-AA-A-A-AAATA-ATTAAAAC
*
2096298 ATATATAAATAAATAATTAA
1 ATATATAAAAAAATAATTAA
2096318 CGTGTATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
23 7 0.17
24 9 0.22
25 2 0.05
26 2 0.05
27 3 0.07
28 9 0.22
29 9 0.22
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (23 bp):
ATATATAAAAAAATAATTAAAAC
Found at i:2096303 original size:28 final size:28
Alignment explanation
Indices: 2096250--2096313 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
2096240 ATATGAATAT
*
2096250 ATAAAAAAATAATTAAAACATAATATAA
1 ATAAATAAATAATTAAAACATAATATAA
* *
2096278 ATATATAAATATATTAAAATAT-ATATAA
1 ATAAATAAATA-ATTAAAACATAATATAA
2096306 ATAAATAA
1 ATAAATAA
2096314 TTAACGTGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 22 0.71
29 9 0.29
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (28 bp):
ATAAATAAATAATTAAAACATAATATAA
Found at i:2097277 original size:24 final size:26
Alignment explanation
Indices: 2097249--2097299 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
2097239 ATAATATCAA
* *
2097249 AATTATATAAAA-TAT-TTTAAATAT
1 AATTATAAAAAATTATATATAAATAT
2097273 AATTATAAAAAATTATATATAAATAT
1 AATTATAAAAAATTATATATAAATAT
2097299 A
1 A
2097300 CAAATTACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 11 0.48
25 3 0.13
26 9 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
AATTATAAAAAATTATATATAAATAT
Found at i:2099688 original size:43 final size:43
Alignment explanation
Indices: 2099640--2099723 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
2099630 AACTAAGTGT
**
2099640 AAATATTAAAAAATTAGA-ATTAAATTAATTTAATTTAATATAA
1 AAATATT-AAAAATTAGATAAAAAATTAATTTAATTTAATATAA
* * *
2099683 AAATATTAATAATTTGATAAAAAATTAATTTATTTTAATAT
1 AAATATTAAAAATTAGATAAAAAATTAATTTAATTTAATAT
2099724 TATTATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 8 0.23
43 27 0.77
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (43 bp):
AAATATTAAAAATTAGATAAAAAATTAATTTAATTTAATATAA
Found at i:2100137 original size:110 final size:112
Alignment explanation
Indices: 2099989--2100216 Score: 356
Period size: 110 Copynumber: 2.1 Consensus size: 112
2099979 GTTTTTTTTG
* *
2099989 TTAATTTAATTTAGTTTAAATTAAATTGATATTTAATAATTAAAAAATTATTTTTAAATTTAATT
1 TTAATTTAATTGAGTTTAAATTAAATTGATATTCAATAATTAAAAAATTATTTTTAAATTTAATT
* * **
2100054 ATAAAATATATAAATAATA-ATCTAAAAA-TATTTTTTAAATTTTATA
66 ATAAAATATATAAATAA-ACATATAAAAATTAGTTTCAAAATTTTATA
2100100 -TAATTTAAGTTGA-TTTAAATTAAATTGATATTCAATAATTAAAAAATTATTTTTAAATTTAAT
1 TTAATTTAA-TTGAGTTTAAATTAAATTGATATTCAATAATTAAAAAATTATTTTTAAATTTAAT
2100163 TATAAAATATATAAATAAACATATAAAAATTAGTTTCAAAATTTTATA
65 TATAAAATATATAAATAAACATATAAAAATTAGTTTCAAAATTTTATA
2100211 TTAATT
1 TTAATT
2100217 ACGAATAATA
Statistics
Matches: 107, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
109 1 0.01
110 83 0.78
111 18 0.17
112 5 0.05
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (112 bp):
TTAATTTAATTGAGTTTAAATTAAATTGATATTCAATAATTAAAAAATTATTTTTAAATTTAATT
ATAAAATATATAAATAAACATATAAAAATTAGTTTCAAAATTTTATA
Found at i:2101141 original size:12 final size:12
Alignment explanation
Indices: 2101125--2101187 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
2101115 GACTTATTTA
2101125 ATTTTATATTAT
1 ATTTTATATTAT
* *
2101137 TTTTTATATAAT
1 ATTTTATATTAT
2101149 ATTTTA-ATTAAT
1 ATTTTATATT-AT
* *
2101161 CTTTTATATTCT
1 ATTTTATATTAT
*
2101173 ATTTATATTTTAT
1 ATTT-TATATTAT
2101186 AT
1 AT
2101188 AATCAAATTG
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
11 2 0.05
12 26 0.67
13 11 0.28
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (12 bp):
ATTTTATATTAT
Found at i:2101569 original size:21 final size:21
Alignment explanation
Indices: 2101543--2101582 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2101533 TTTTAATAAT
* *
2101543 ATTTATTATTTATAAATATTA
1 ATTTATTAATAATAAATATTA
2101564 ATTTATTAATAATAAATAT
1 ATTTATTAATAATAAATAT
2101583 GTCATTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTTATTAATAATAAATATTA
Found at i:2101918 original size:29 final size:29
Alignment explanation
Indices: 2101881--2101988 Score: 112
Period size: 29 Copynumber: 3.6 Consensus size: 29
2101871 TATTCACATA
2101881 ATATAATATTAAAATTTAATTAAAATAAT
1 ATATAATATTAAAATTTAATTAAAATAAT
* *
2101910 ATATAATATAAAAATATAATT-AAA-AAT
1 ATATAATATTAAAATTTAATTAAAATAAT
* * *
2101937 ATAAATATATTAAAATTTAAATAAAATAAA
1 ATATA-ATATTAAAATTTAATTAAAATAAT
2101967 ATTATTAATATTTTAAAATTTA
1 A-TA-TAATA--TTAAAATTTA
2101989 TATAAATATA
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
27 7 0.11
28 16 0.25
29 22 0.34
30 3 0.05
31 5 0.08
32 1 0.02
33 10 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (29 bp):
ATATAATATTAAAATTTAATTAAAATAAT
Found at i:2101933 original size:12 final size:13
Alignment explanation
Indices: 2101880--2101945 Score: 62
Period size: 13 Copynumber: 4.8 Consensus size: 13
2101870 TTATTCACAT
*
2101880 AATATAATATTAA
1 AATATAATATAAA
* *
2101893 AATTTAATTAAAATA
1 AATATAA-TATAA-A
2101908 ATATATAATATAAA
1 A-ATATAATATAAA
2101922 AATATAAT-TAAA
1 AATATAATATAAA
2101934 AATATAAATATA
1 AATAT-AATATA
2101946 TTAAAATTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
12 9 0.21
13 16 0.37
14 7 0.16
15 6 0.14
16 5 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AATATAATATAAA
Found at i:2101967 original size:33 final size:33
Alignment explanation
Indices: 2101921--2101994 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
2101911 TATAATATAA
*
2101921 AAATATAATTAAAAATATAAATATATTAAAATTT
1 AAATA-AAATAAAAATATAAATATATTAAAATTT
* * *
2101955 AAATAAAATAAAATTATTAATATTTTAAAATTT
1 AAATAAAATAAAAATATAAATATATTAAAATTT
*
2101988 ATATAAA
1 AAATAAA
2101995 TATATAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
33 30 0.86
34 5 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (33 bp):
AAATAAAATAAAAATATAAATATATTAAAATTT
Found at i:2102730 original size:17 final size:17
Alignment explanation
Indices: 2102710--2102761 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 17
2102700 TTGATATTTT
2102710 TATAAAAAATTAATTAC
1 TATAAAAAATTAATTAC
*
2102727 TAT-AAATATT--TTA-
1 TATAAAAAATTAATTAC
2102740 TA-AAAAAATTAATTAC
1 TATAAAAAATTAATTAC
*
2102756 TCTAAA
1 TATAAA
2102762 TAGTAATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 10
0.68 0.08 0.25
Matches are distributed among these distances:
13 8 0.30
14 3 0.11
15 3 0.11
16 7 0.26
17 6 0.22
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
TATAAAAAATTAATTAC
Found at i:2102741 original size:28 final size:29
Alignment explanation
Indices: 2102707--2102763 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
2102697 AATTTGATAT
2102707 TTTTAT-AAAAAATTAATTACTATAAATA
1 TTTTATAAAAAAATTAATTACTATAAATA
*
2102735 TTTTATAAAAAAATTAATTACTCTAAATA
1 TTTTATAAAAAAATTAATTACTATAAATA
2102764 GTAATTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (29 bp):
TTTTATAAAAAAATTAATTACTATAAATA
Found at i:2102772 original size:29 final size:29
Alignment explanation
Indices: 2102713--2102772 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
2102703 ATATTTTTAT
**
2102713 AAAAAATTAATTACTATAAATATTTTATA
1 AAAAAATTAATTACTATAAATATAATATA
*
2102742 AAAAAATTAATTACTCTAAATAGTAAT-TA
1 AAAAAATTAATTACTATAAATA-TAATATA
2102771 AA
1 AA
2102773 TTTAATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 25 0.93
30 2 0.07
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (29 bp):
AAAAAATTAATTACTATAAATATAATATA
Found at i:2103423 original size:36 final size:36
Alignment explanation
Indices: 2103376--2103450 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
2103366 ACATCACTCC
*
2103376 TGATCTTAAGTTTTTAATTTAATTAATTCAATTGAT
1 TGATCTTAAGTTTTTAATTGAATTAATTCAATTGAT
* *
2103412 TGATCTTAAGTTTTTAATTGAATTAGTTTAATTGAT
1 TGATCTTAAGTTTTTAATTGAATTAATTCAATTGAT
2103448 TGA
1 TGA
2103451 ATTAATCGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.32, C:0.04, G:0.12, T:0.52
Consensus pattern (36 bp):
TGATCTTAAGTTTTTAATTGAATTAATTCAATTGAT
Found at i:2110312 original size:12 final size:12
Alignment explanation
Indices: 2110297--2110354 Score: 61
Period size: 12 Copynumber: 5.0 Consensus size: 12
2110287 AAATTTTTAA
2110297 TAATATTTAAAT
1 TAATATTTAAAT
2110309 TAATATATTAAA-
1 TAATAT-TTAAAT
*
2110321 TATTATTTAAAT
1 TAATATTTAAAT
2110333 TAA-A-TTAAAT
1 TAATATTTAAAT
2110343 TAA-ATATTAAAT
1 TAATAT-TTAAAT
2110355 CGAATGTCAC
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 10 0.25
11 6 0.15
12 19 0.47
13 5 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TAATATTTAAAT
Found at i:2110327 original size:24 final size:26
Alignment explanation
Indices: 2110295--2110351 Score: 82
Period size: 24 Copynumber: 2.3 Consensus size: 26
2110285 AAAAATTTTT
* *
2110295 AATAATATTTAAATT-AA-TATATTA
1 AATATTATTTAAATTAAATTAAATTA
2110319 AATATTATTTAAATTAAATTAAATTA
1 AATATTATTTAAATTAAATTAAATTA
2110345 AATATTA
1 AATATTA
2110352 AATCGAATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 14 0.48
25 2 0.07
26 13 0.45
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
AATATTATTTAAATTAAATTAAATTA
Found at i:2110777 original size:19 final size:19
Alignment explanation
Indices: 2110750--2110789 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
2110740 ATATATAAAA
*
2110750 ATTTAATATTTTATTTTTT
1 ATTTAATATTTTAATTTTT
*
2110769 ATTTGATATTTTAATTTTT
1 ATTTAATATTTTAATTTTT
2110788 AT
1 AT
2110790 ATCATTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (19 bp):
ATTTAATATTTTAATTTTT
Found at i:2111418 original size:20 final size:19
Alignment explanation
Indices: 2111373--2111432 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
2111363 CCTTTAGAGA
*
2111373 TATTAATAATATATTATTT
1 TATTATTAATATATTATTT
* *
2111392 AACTTATTAATATTTTAATTT
1 TA-TTATTAATATATT-ATTT
2111413 TATTA-TAAT-TATGTATTT
1 TATTATTAATATAT-TATTT
2111431 TA
1 TA
2111433 GTTTTGATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
18 8 0.24
19 6 0.18
20 14 0.42
21 5 0.15
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (19 bp):
TATTATTAATATATTATTT
Found at i:2111444 original size:12 final size:12
Alignment explanation
Indices: 2111403--2111458 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
2111393 ACTTATTAAT
2111403 ATTTTAATTTT-
1 ATTTTAATTTTG
* *
2111414 ATTATAATTATG
1 ATTTTAATTTTG
*
2111426 TATTTTAGTTTTG
1 -ATTTTAATTTTG
2111439 ATTTTAATTTT-
1 ATTTTAATTTTG
2111450 ACTTTTAAT
1 A-TTTTAAT
2111459 ATTATTTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
11 10 0.28
12 17 0.47
13 9 0.25
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (12 bp):
ATTTTAATTTTG
Found at i:2112927 original size:16 final size:16
Alignment explanation
Indices: 2112906--2112936 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2112896 TTTTTATTAT
*
2112906 TTTATTATGATTAATA
1 TTTATTATAATTAATA
2112922 TTTATTATAATTAAT
1 TTTATTATAATTAAT
2112937 TATAATAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TTTATTATAATTAATA
Found at i:2112971 original size:27 final size:25
Alignment explanation
Indices: 2112917--2112971 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 25
2112907 TTATTATGAT
*
2112917 TAATATTTATTATAATTAATTATAA
1 TAATATTTATTATAAATAATTATAA
2112942 TAATATTTATTATATGAATAATTATAA
1 TAATATTTATTATA--AATAATTATAA
2112969 TAA
1 TAA
2112972 ATATAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 14 0.52
27 13 0.48
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
TAATATTTATTATAAATAATTATAA
Found at i:2113926 original size:29 final size:29
Alignment explanation
Indices: 2113894--2113962 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
2113884 CAAAATCAAA
*
2113894 TTAATATTAATAT-ATTATTATAATTAAAT
1 TTAATATTAAAATAATT-TTATAATTAAAT
*
2113923 TTAA-ATTAAAAATAATTTTATTATTAAAT
1 TTAATATT-AAAATAATTTTATAATTAAAT
2113952 TATAAT-TTAAA
1 T-TAATATTAAA
2113963 CTAAATCGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
28 3 0.09
29 23 0.68
30 8 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
TTAATATTAAAATAATTTTATAATTAAAT
Found at i:2115048 original size:17 final size:16
Alignment explanation
Indices: 2115028--2115059 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
2115018 CAAGAATAGC
2115028 AGAAAAGAGAAAAGAAA
1 AGAAAAGA-AAAAGAAA
2115045 AGAAAAGAAAAAGAA
1 AGAAAAGAAAAAGAA
2115060 GAGGTAAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
AGAAAAGAAAAAGAAA
Found at i:2115597 original size:156 final size:157
Alignment explanation
Indices: 2115427--2115738 Score: 446
Period size: 156 Copynumber: 2.0 Consensus size: 157
2115417 TAATAATAAT
* * *
2115427 TAAAACTATTTAATTGAATTTAAAAATTAATTCAATTAATTCATAAAATTATCTTTTCACATTAT
1 TAAAACTATTTAATTGAATTTAAAAATTAATTCAATTAATTCATAAAATTACCTTTTCAAATAAT
* *
2115492 ATGAAGTAAATTTAAATTATAAATTTTAATAATTACAATATTTCAATTATCCCAAGATAACACAA
66 ATGAAGTAAATTTAAATTATAAATCTTAATAATTACAATATTTCAATTATCCCAAGACAACACAA
* *
2115557 CGATATCT-TTTATATATATATATATG
131 CGATATATATATATATATATATATATG
* * *
2115583 TAAAATTATTTAATTTAATTTAAAAATTAATTCAATTAGTTCATAAAATTACCTTTTCAAATAAT
1 TAAAACTATTTAATTGAATTTAAAAATTAATTCAATTAATTCATAAAATTACCTTTTCAAATAAT
** * * * * * *
2115648 ATTTAGTATATTTAAATTGTGAATCTTAATAATTATAATATTTCAATTATCTCAAGACCACACAA
66 ATGAAGTAAATTTAAATTATAAATCTTAATAATTACAATATTTCAATTATCCCAAGACAACACAA
*
2115713 CTATATATATATATATATATATATAT
131 CGATATATATATATATATATATATAT
2115739 ATATATATAT
Statistics
Matches: 136, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
156 120 0.88
157 16 0.12
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (157 bp):
TAAAACTATTTAATTGAATTTAAAAATTAATTCAATTAATTCATAAAATTACCTTTTCAAATAAT
ATGAAGTAAATTTAAATTATAAATCTTAATAATTACAATATTTCAATTATCCCAAGACAACACAA
CGATATATATATATATATATATATATG
Found at i:2115719 original size:2 final size:2
Alignment explanation
Indices: 2115714--2115754 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2115704 ACCACACAAC
2115714 TA TA TA TA TA 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 TA TA T
2115755 TAAAAAACCC
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2116413 original size:24 final size:22
Alignment explanation
Indices: 2116383--2116439 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
2116373 ACCATTTCTT
2116383 TATTATATAA-TATATTAGATTTA
1 TATTATATAATTATA-TA-ATTTA
*
2116406 TATTTATATACATTATATAATTTT
1 TA-TTATATA-ATTATATAATTTA
2116430 TATTATATAA
1 TATTATATAA
2116440 AAAATAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
22 1 0.03
23 9 0.30
24 13 0.43
25 3 0.10
26 4 0.13
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
TATTATATAATTATATAATTTA
Found at i:2116469 original size:19 final size:20
Alignment explanation
Indices: 2116434--2116476 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
2116424 AATTTTTATT
*
2116434 ATATAAAAAATAAATATATC
1 ATATAAAAAATAAATATATA
*
2116454 ATATAAAGAA-AAATATATA
1 ATATAAAAAATAAATATATA
2116473 ATAT
1 ATAT
2116477 TAGTGTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
ATATAAAAAATAAATATATA
Found at i:2122260 original size:3 final size:3
Alignment explanation
Indices: 2122252--2122281 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
2122242 TTAATTAGCA
2122252 TAT TAT TAT TAT TAT TAT TAT TATT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA
2122282 AGTTTTGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2122795 original size:16 final size:17
Alignment explanation
Indices: 2122774--2122806 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2122764 TTAATTAATA
*
2122774 AAATTTTGT-TTTTTTT
1 AAATTTTCTCTTTTTTT
2122790 AAATTTTCTCTTTTTTT
1 AAATTTTCTCTTTTTTT
2122807 TAAAATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.73
Consensus pattern (17 bp):
AAATTTTCTCTTTTTTT
Found at i:2126890 original size:32 final size:30
Alignment explanation
Indices: 2126853--2126928 Score: 107
Period size: 32 Copynumber: 2.5 Consensus size: 30
2126843 GTATTATATA
2126853 TTTATATAAATTTTAATATGTTAATAATTT
1 TTTATATAAATTTTAATATGTTAATAATTT
* *
2126883 GTATTATAAAAATTGTAATATGTTAATAATTT
1 -T-TTATATAAATTTTAATATGTTAATAATTT
*
2126915 TTTTTATAAATTTT
1 TTTATATAAATTTT
2126929 GACACATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
30 10 0.26
31 2 0.05
32 27 0.69
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (30 bp):
TTTATATAAATTTTAATATGTTAATAATTT
Found at i:2127040 original size:27 final size:27
Alignment explanation
Indices: 2127010--2127074 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
2127000 TGTCATAATC
* * *
2127010 ATGTTATTCGTATTATTTTTGTTATTT
1 ATGTTATTCGTATTAATTGTATTATTT
* *
2127037 ATGTTAATCGTGTTAATTGTATTATTT
1 ATGTTATTCGTATTAATTGTATTATTT
* *
2127064 AGGTCATTCGT
1 ATGTTATTCGT
2127075 GTTGTCATTG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.22, C:0.06, G:0.15, T:0.57
Consensus pattern (27 bp):
ATGTTATTCGTATTAATTGTATTATTT
Found at i:2127362 original size:20 final size:19
Alignment explanation
Indices: 2127331--2127374 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
2127321 TTTATTTTAA
2127331 TTTAATTATAAAATATATAT
1 TTTAATTATAAAATA-ATAT
2127351 TATTAA-TATAAAATAATAT
1 T-TTAATTATAAAATAATAT
2127370 TTTAA
1 TTTAA
2127375 CAATTTCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.17
19 5 0.22
20 10 0.43
21 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTAATTATAAAATAATAT
Found at i:2127661 original size:13 final size:13
Alignment explanation
Indices: 2127643--2127671 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2127633 GAGTCCACTA
2127643 TATGTTAAATGTC
1 TATGTTAAATGTC
2127656 TATGTTAAATGTC
1 TATGTTAAATGTC
2127669 TAT
1 TAT
2127672 TGTCTAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (13 bp):
TATGTTAAATGTC
Found at i:2127736 original size:2 final size:2
Alignment explanation
Indices: 2127731--2127773 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
2127721 TACACACACT
2127731 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2127773 T
1 T
2127774 CCAGCAAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2128367 original size:7 final size:6
Alignment explanation
Indices: 2128342--2128375 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
2128332 AATAAATAAT
2128342 AATT-A AATTAA AATTAA AATTTAA AATTAA AATT
1 AATTAA AATTAA AATTAA AA-TTAA AATTAA AATT
2128376 TTTTTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 4 0.15
6 17 0.63
7 6 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
AATTAA
Found at i:2128367 original size:13 final size:13
Alignment explanation
Indices: 2128349--2128376 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2128339 AATAATTAAA
2128349 TTAAAATTAAAAT
1 TTAAAATTAAAAT
2128362 TTAAAATTAAAAT
1 TTAAAATTAAAAT
2128375 TT
1 TT
2128377 TTTTAAAATT
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TTAAAATTAAAAT
Found at i:2128652 original size:2 final size:2
Alignment explanation
Indices: 2128647--2128677 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2128637 TTTTTCCCTC
2128647 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
2128678 GATTTTAATT
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:2128828 original size:32 final size:29
Alignment explanation
Indices: 2128764--2128860 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 29
2128754 CTTTATTGAG
* * * *
2128764 ATAAAACCTCAATATTTTTATTATACTTAA
1 ATAAACCCTCAA-ATTTTAATTTTACTCAA
2128794 ATATATACCCTCAAATTTTAAGTTTTACTCAA
1 ATA-A-ACCCTCAAATTTTAA-TTTTACTCAA
** *
2128826 ATAAATTCTTAAATTTTAATTTGTACTCAA
1 ATAAACCCTCAAATTTTAATTT-TACTCAA
2128856 ATAAA
1 ATAAA
2128861 TTTTAACTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
29 3 0.05
30 27 0.48
31 8 0.14
32 18 0.32
ACGTcount: A:0.42, C:0.13, G:0.02, T:0.42
Consensus pattern (29 bp):
ATAAACCCTCAAATTTTAATTTTACTCAA
Found at i:2128876 original size:29 final size:29
Alignment explanation
Indices: 2128806--2128876 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 29
2128796 ATATACCCTC
2128806 AAATTTTAAGTTTTACTCAAATAAATTCTT
1 AAATTTTAA-TTTTACTCAAATAAATTCTT
2128836 AAATTTTAATTTGTACTCAAATAAATT-TT
1 AAATTTTAATTT-TACTCAAATAAATTCTT
*
2128865 AACTTTTAATTT
1 AAATTTTAATTT
2128877 ATATTAAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
29 16 0.41
30 23 0.59
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.49
Consensus pattern (29 bp):
AAATTTTAATTTTACTCAAATAAATTCTT
Found at i:2129047 original size:2 final size:2
Alignment explanation
Indices: 2129034--2129073 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
2129024 GTATTTTAGC
* *
2129034 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2129074 GCTACATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2129290 original size:18 final size:21
Alignment explanation
Indices: 2129255--2129297 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
2129245 CCATCACTAA
2129255 ATTACTTTATATGTAGAAA-T
1 ATTACTTTATATGTAGAAATT
*
2129275 ATTA-TTTATTTG-AGAAATT
1 ATTACTTTATATGTAGAAATT
2129294 ATTA
1 ATTA
2129298 AATTCTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 12 0.57
20 4 0.19
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (21 bp):
ATTACTTTATATGTAGAAATT
Found at i:2129876 original size:42 final size:42
Alignment explanation
Indices: 2129817--2129898 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
2129807 TCTTACAATA
*
2129817 TATGATAACAAAAAACTATTAACAAAATCATACATGATAATG
1 TATGATAACAAAAAACTATTAACAAAATCATACACGATAATG
*
2129859 TATGATAACAAAAAACTATTAATAAAATCATACACGATAA
1 TATGATAACAAAAAACTATTAACAAAATCATACACGATAA
2129899 GACTTGAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.26
Consensus pattern (42 bp):
TATGATAACAAAAAACTATTAACAAAATCATACACGATAATG
Found at i:2131005 original size:2 final size:2
Alignment explanation
Indices: 2130998--2131028 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2130988 TTAGAGATTA
2130998 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 A
2131029 GATAAGGATC
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2135778 original size:72 final size:72
Alignment explanation
Indices: 2135656--2136116 Score: 628
Period size: 72 Copynumber: 6.5 Consensus size: 72
2135646 GATGAAATGA
* *
2135656 TAATTCGAGATAATCTGCACGATAAATACAATCAACAAATATTTCTGCATATTTAAAACTACTAT
1 TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATATTTCTGCATATTTAAAACTACTAT
2135721 CAACAAC
66 CAACAAC
* * * * *
2135728 TAATCCGAGATAATCTGCATGATAAATACAATCAATAACTATTTCTGCATATTTAAAACTATTAT
1 TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATATTTCTGCATATTTAAAACTACTAT
2135793 CAACAAC
66 CAACAAC
* * * * * * *
2135800 TAATCCAAGATAATCTGTATGATAAATACAATCAACAACTATTTCTACATATTTAAAACTCCTAT
1 TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATATTTCTGCATATTTAAAACTACTAT
*
2135865 CAATAAC
66 CAACAAC
* * * *
2135872 TAATTCGAGAT-A-----ACGATAACTACAGTTAACAAATATTTCTGCATATTTAAAACTGCTAT
1 TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATATTTCTGCATATTTAAAACTACTAT
*
2135931 CAACAAT
66 CAACAAC
** * *
2135938 TAATCCGAGATAATCTATACGATAACTACAATCAACAAATATTTTTGCATATTTAAAACTATTAT
1 TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATATTTCTGCATATTTAAAACTACTAT
2136003 CAACAAC
66 CAACAAC
* * *
2136010 TAATCCGAGATAATTTGCACGATAACTACAATCAACAAATATTTCTGTATATTTAAAGCTACTAT
1 TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATATTTCTGCATATTTAAAACTACTAT
2136075 CAACAAC
66 CAACAAC
*
2136082 TAATCCGAGATAATTTGCACGATAACTACAATCAA
1 TAATCCGAGATAATCTGCACGATAACTACAATCAA
2136117 TAACTTTGTG
Statistics
Matches: 346, Mismatches: 37, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
66 55 0.16
67 1 0.00
71 1 0.00
72 289 0.84
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (72 bp):
TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATATTTCTGCATATTTAAAACTACTAT
CAACAAC
Found at i:2136042 original size:210 final size:210
Alignment explanation
Indices: 2135674--2136094 Score: 626
Period size: 210 Copynumber: 2.0 Consensus size: 210
2135664 GATAATCTGC
2135674 ACGATAAATACAATCAACAAATATTTCTGCATATTTAAAACTACTATCAACAACTAATCCGAGAT
1 ACGATAAATACAATCAACAAATATTTCTGCATATTTAAAACTACTATCAACAACTAATCCGAGAT
* * * *
2135739 AATCTGCATGATAAATACAATCAATAACTATTTCTGCATATTTAAAACTATTATCAACAACTAAT
66 AATCTACACGATAAATACAATCAACAAATATTTCTGCATATTTAAAACTATTATCAACAACTAAT
* * * * *
2135804 CCAAGATAATCTGTATGATAAATACAATCAACAACTATTTCTACATATTTAAAACTCCTATCAAT
131 CCAAGATAATCTGCACGATAAATACAATCAACAAATATTTCTACATATTTAAAACTACTATCAAC
*
2135869 AACTAATTCGAGATA
196 AACTAATCCGAGATA
* * * * *
2135884 ACGATAACTACAGTTAACAAATATTTCTGCATATTTAAAACTGCTATCAACAATTAATCCGAGAT
1 ACGATAAATACAATCAACAAATATTTCTGCATATTTAAAACTACTATCAACAACTAATCCGAGAT
* * *
2135949 AATCTATACGATAACTACAATCAACAAATATTTTTGCATATTTAAAACTATTATCAACAACTAAT
66 AATCTACACGATAAATACAATCAACAAATATTTCTGCATATTTAAAACTATTATCAACAACTAAT
* * * ** *
2136014 CCGAGATAATTTGCACGATAACTACAATCAACAAATATTTCTGTATATTTAAAGCTACTATCAAC
131 CCAAGATAATCTGCACGATAAATACAATCAACAAATATTTCTACATATTTAAAACTACTATCAAC
2136079 AACTAATCCGAGATA
196 AACTAATCCGAGATA
2136094 A
1 A
2136095 TTTGCACGAT
Statistics
Matches: 187, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
210 187 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.31
Consensus pattern (210 bp):
ACGATAAATACAATCAACAAATATTTCTGCATATTTAAAACTACTATCAACAACTAATCCGAGAT
AATCTACACGATAAATACAATCAACAAATATTTCTGCATATTTAAAACTATTATCAACAACTAAT
CCAAGATAATCTGCACGATAAATACAATCAACAAATATTTCTACATATTTAAAACTACTATCAAC
AACTAATCCGAGATA
Found at i:2136044 original size:39 final size:39
Alignment explanation
Indices: 2136001--2136121 Score: 121
Period size: 39 Copynumber: 3.3 Consensus size: 39
2135991 TAAAACTATT
2136001 ATCAACAACTAATCCGAGATAATTTGCACGATAACTACA
1 ATCAACAACTAATCCGAGATAATTTGCACGATAACTACA
* * * * * *
2136040 ATCAACAAATATTTC-TG-TATATTT--A--A-AGCTACT
1 ATCAACAACTAATCCGAGATA-ATTTGCACGATAACTACA
2136073 ATCAACAACTAATCCGAGATAATTTGCACGATAACTACA
1 ATCAACAACTAATCCGAGATAATTTGCACGATAACTACA
*
2136112 ATCAATAACT
1 ATCAACAACT
2136122 TTGTGTGCCA
Statistics
Matches: 61, Mismatches: 13, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
33 17 0.28
34 6 0.10
35 2 0.03
36 2 0.03
37 2 0.03
38 6 0.10
39 26 0.43
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (39 bp):
ATCAACAACTAATCCGAGATAATTTGCACGATAACTACA
Found at i:2136422 original size:27 final size:27
Alignment explanation
Indices: 2136384--2136436 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
2136374 GTCGTGGTAG
* *
2136384 GATATGAGGGGTGTGGAAGTTCAGTAA
1 GATATGACGGGTATGGAAGTTCAGTAA
* *
2136411 GATATGACGGGTATGGAGGTTGAGTA
1 GATATGACGGGTATGGAAGTTCAGTA
2136437 GAAAAATATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.28, C:0.04, G:0.42, T:0.26
Consensus pattern (27 bp):
GATATGACGGGTATGGAAGTTCAGTAA
Found at i:2141015 original size:21 final size:21
Alignment explanation
Indices: 2140991--2141037 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2140981 CTCTTGGTTC
*
2140991 TCTTTCAAGAGAGCTTGATTA
1 TCTTTCAAGAGAACTTGATTA
** *
2141012 TCTTTCAATTGAACTTGGTTA
1 TCTTTCAAGAGAACTTGATTA
2141033 TCTTT
1 TCTTT
2141038 TAATTTATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.47
Consensus pattern (21 bp):
TCTTTCAAGAGAACTTGATTA
Found at i:2142696 original size:66 final size:67
Alignment explanation
Indices: 2142590--2142727 Score: 224
Period size: 66 Copynumber: 2.1 Consensus size: 67
2142580 ATGTAATGTG
*
2142590 CAAGTGGAACAAACATATCATTTTCATTTAAAAATGGGTGAAGTTCAAGTCTATTTCACATTCTA
1 CAAGTGGAACAAACATATCATTTTCATTTAAAAATGGGTGAAGTTCAAGTCTACTTCACATTCTA
2142655 A-
66 AC
* * * *
2142656 CAAGTGGAACAAACATATTATTTTCATTTTAAAATGGGTGAAGTTCAAGTTTACTTCTCATTCTA
1 CAAGTGGAACAAACATATCATTTTCATTTAAAAATGGGTGAAGTTCAAGTCTACTTCACATTCTA
2142721 AC
66 AC
2142723 CAAGT
1 CAAGT
2142728 CATAATGACT
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
66 61 0.92
67 5 0.08
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (67 bp):
CAAGTGGAACAAACATATCATTTTCATTTAAAAATGGGTGAAGTTCAAGTCTACTTCACATTCTA
AC
Found at i:2149033 original size:20 final size:20
Alignment explanation
Indices: 2148991--2149035 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
2148981 CTTTTATACT
* *
2148991 AAAAAAATAAAAAAAATATG
1 AAAAAAATAAAAAAAAAAAG
2149011 AAAAAAA-AAAAAAAAGAAAG
1 AAAAAAATAAAAAAAA-AAAG
2149031 AAAAA
1 AAAAA
2149036 CTTTGGCTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.87, C:0.00, G:0.07, T:0.07
Consensus pattern (20 bp):
AAAAAAATAAAAAAAAAAAG
Found at i:2154022 original size:13 final size:13
Alignment explanation
Indices: 2153993--2154029 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
2153983 ATTTAATTTA
*
2153993 TTAATAATAAAAAT
1 TTAATAA-AATAAT
2154007 TTAATAAAATAAT
1 TTAATAAAATAAT
2154020 TTAATAAAAT
1 TTAATAAAAT
2154030 TGAATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAATAAAATAAT
Found at i:2157006 original size:7 final size:7
Alignment explanation
Indices: 2156994--2157037 Score: 61
Period size: 7 Copynumber: 5.9 Consensus size: 7
2156984 TATAAAACAA
2156994 TAAAAAT
1 TAAAAAT
2157001 TAAAAAT
1 TAAAAAT
2157008 ATAAAAAAAT
1 -T--AAAAAT
2157018 TAAAAAT
1 TAAAAAT
2157025 TAAAAAT
1 TAAAAAT
2157032 TAAAAA
1 TAAAAA
2157038 AAAAAAAGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
7 26 0.76
8 1 0.03
9 1 0.03
10 6 0.18
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (7 bp):
TAAAAAT
Found at i:2157009 original size:23 final size:22
Alignment explanation
Indices: 2156983--2157044 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 22
2156973 CCTCAAAACT
2156983 ATATAAAACAATAAAAATTAAAA
1 ATATAAAA-AATAAAAATTAAAA
2157006 ATATAAAAAAATTAAAAATTAAAA
1 ATAT-AAAAAA-TAAAAATTAAAA
*
2157030 AT-TAAAAAAAAAAAA
1 ATATAAAAAATAAAAA
2157045 GCAAAGCAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
21 5 0.14
22 6 0.17
23 7 0.19
24 18 0.50
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (22 bp):
ATATAAAAAATAAAAATTAAAA
Found at i:2157021 original size:24 final size:23
Alignment explanation
Indices: 2156983--2157044 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 23
2156973 CCTCAAAACT
*
2156983 ATATAAAACAATAAAAATTAAAA
1 ATATAAAAAAATAAAAATTAAAA
2157006 ATATAAAAAAATTAAAAATTAAAA
1 ATATAAAAAAA-TAAAAATTAAAA
2157030 AT-TAAAAAAA-AAAAA
1 ATATAAAAAAATAAAAA
2157045 GCAAAGCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
21 5 0.14
23 18 0.49
24 14 0.38
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (23 bp):
ATATAAAAAAATAAAAATTAAAA
Found at i:2157040 original size:17 final size:17
Alignment explanation
Indices: 2156995--2157030 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
2156985 ATAAAACAAT
2156995 AAAAATTAAAAATATAA
1 AAAAATTAAAAATATAA
2157012 AAAAATTAAAAAT-TAA
1 AAAAATTAAAAATATAA
2157028 AAA
1 AAA
2157031 TTAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAAATTAAAAATATAA
Found at i:2162814 original size:21 final size:21
Alignment explanation
Indices: 2162775--2162826 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
2162765 GGCTACATAA
*
2162775 ATCGATACAA-TTCATCATGT
1 ATCGATACAATTTAATCATGT
2162795 ATCGATACAATTTAATCATGT
1 ATCGATACAATTTAATCATGT
*
2162816 TTCGATACAAT
1 ATCGATACAAT
2162827 CGAAGGATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 10 0.34
21 19 0.66
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (21 bp):
ATCGATACAATTTAATCATGT
Found at i:2163490 original size:28 final size:28
Alignment explanation
Indices: 2163458--2163515 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
2163448 TTTTATTTTT
* *
2163458 TAATTATGTTTAAGATGTTATATATTTA
1 TAATTATATTTAAGATATTATATATTTA
* *
2163486 TAATTTTATTTAAGGTATTATATATTTA
1 TAATTATATTTAAGATATTATATATTTA
2163514 TA
1 TA
2163516 TAGATTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (28 bp):
TAATTATATTTAAGATATTATATATTTA
Found at i:2164484 original size:18 final size:20
Alignment explanation
Indices: 2164456--2164511 Score: 73
Period size: 18 Copynumber: 2.9 Consensus size: 20
2164446 AAATATTTTT
2164456 TATA-TATATAAATTTTA-A
1 TATATTATATAAATTTTATA
*
2164474 TATATTA-ATAAATTGTAATA
1 TATATTATATAAATT-TTATA
2164494 TATATTATATAAATTTTA
1 TATATTATATAAATTTTA
2164512 GAATATTGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 11 0.34
19 4 0.12
20 10 0.31
21 7 0.22
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TATATTATATAAATTTTATA
Found at i:2175059 original size:16 final size:16
Alignment explanation
Indices: 2175038--2175070 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2175028 AAAGTATAAA
2175038 ACTGTTTTAGTTTAAG
1 ACTGTTTTAGTTTAAG
2175054 ACTGTTTTAGTTTAAG
1 ACTGTTTTAGTTTAAG
2175070 A
1 A
2175071 GCATACGATT
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:0.27, C:0.06, G:0.18, T:0.48
Consensus pattern (16 bp):
ACTGTTTTAGTTTAAG
Found at i:2177557 original size:20 final size:22
Alignment explanation
Indices: 2177511--2177559 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
2177501 ATATATTTTA
*
2177511 AAATATATATAATATTAATTAT
1 AAATATATATAAAATTAATTAT
* *
2177533 TAATATAT-TAAAATTTA-TAT
1 AAATATATATAAAATTAATTAT
2177553 AAATATA
1 AAATATA
2177560 ATTTAATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 9 0.39
21 7 0.30
22 7 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATATATATAAAATTAATTAT
Found at i:2177575 original size:30 final size:32
Alignment explanation
Indices: 2177503--2177578 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 32
2177493 ACATAAATAT
* *
2177503 ATATTTTAAAATATATATAATATTAATTATTA
1 ATATATTAAAATTTATATAATATTAATTATTA
2177535 ATATATTAAAATTTATATAA-ATATAA-T-TTA
1 ATATATTAAAATTTATATAATAT-TAATTATTA
2177565 ATA-ATATAAAATTT
1 ATATAT-TAAAATTT
2177579 TTAAAAAATG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
29 2 0.05
30 14 0.35
31 3 0.08
32 21 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (32 bp):
ATATATTAAAATTTATATAATATTAATTATTA
Found at i:2177577 original size:15 final size:16
Alignment explanation
Indices: 2177509--2177578 Score: 58
Period size: 15 Copynumber: 4.5 Consensus size: 16
2177499 ATATATATTT
*
2177509 TAAAATATATATAATA
1 TAAAATTTATATAATA
* *
2177525 TTAATTATTA-AT-ATA
1 TAAAAT-TTATATAATA
2177540 TTAAAATTTATATAA-A
1 -TAAAATTTATATAATA
*
2177556 TATAATTTA-ATAATA
1 TAAAATTTATATAATA
2177571 TAAAATTT
1 TAAAATTT
2177579 TTAAAAAATG
Statistics
Matches: 42, Mismatches: 7, Indels: 11
0.70 0.12 0.18
Matches are distributed among these distances:
14 4 0.10
15 22 0.52
16 13 0.31
17 3 0.07
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TAAAATTTATATAATA
Found at i:2177899 original size:19 final size:20
Alignment explanation
Indices: 2177863--2177905 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
2177853 TAAAAAATTT
* *
2177863 AAATTTAAAAATTAATAA-A
1 AAATTAAAAAAATAATAATA
*
2177882 AAATTAAAAAAATGATAATA
1 AAATTAAAAAAATAATAATA
2177902 AAAT
1 AAAT
2177906 ATTTATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (20 bp):
AAATTAAAAAAATAATAATA
Found at i:2179082 original size:20 final size:23
Alignment explanation
Indices: 2179033--2179083 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
2179023 TTTATTTAAA
2179033 TTTAAT-TATAAAAATATATCAT
1 TTTAATATATAAAAATATATCAT
2179055 TATTAATATA-AAAAAT-TAT-AT
1 T-TTAATATATAAAAATATATCAT
2179076 TTTAATAT
1 TTTAATAT
2179084 TTTAAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 7 0.26
21 3 0.11
22 4 0.15
23 11 0.41
24 2 0.07
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TTTAATATATAAAAATATATCAT
Found at i:2179816 original size:16 final size:18
Alignment explanation
Indices: 2179774--2179821 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 18
2179764 TTATATAAGG
2179774 TTAATTACATATATATTTT
1 TTAATTA-ATATATATTTT
2179793 TTATATTAATA-AT-TTTT
1 TTA-ATTAATATATATTTT
2179810 TTAATTAA-ATAT
1 TTAATTAATATAT
2179822 CTGAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 7 0.26
17 7 0.26
18 2 0.07
19 6 0.22
20 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTAATTAATATATATTTT
Found at i:2179820 original size:17 final size:19
Alignment explanation
Indices: 2179774--2179821 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
2179764 TTATATAAGG
*
2179774 TTAATTACATATATATTTT
1 TTAATTAAATATATATTTT
2179793 TTATATT-AATA-AT-TTTT
1 TTA-ATTAAATATATATTTT
2179810 TTAATTAAATAT
1 TTAATTAAATAT
2179822 CTGAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 3 0.12
17 11 0.44
18 2 0.08
19 6 0.24
20 3 0.12
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
TTAATTAAATATATATTTT
Found at i:2181065 original size:19 final size:20
Alignment explanation
Indices: 2181033--2181079 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
2181023 TGATTCAACA
* *
2181033 ATAATTTATTTTTATATATT
1 ATAATTTATATTTAAATATT
2181053 ATAA-TTATATTTAAATATT
1 ATAATTTATATTTAAATATT
2181072 ATATATTT
1 ATA-ATTT
2181080 TTATAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 16 0.70
20 5 0.22
21 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATAATTTATATTTAAATATT
Found at i:2181086 original size:19 final size:19
Alignment explanation
Indices: 2181039--2181087 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
2181029 AACAATAATT
2181039 TATTTTTAT--ATATTATA
1 TATTTTTATAAATATTATA
2181056 -ATTATATT-TAAATATTATA
1 TATT-T-TTATAAATATTATA
2181075 TATTTTTATAAAT
1 TATTTTTATAAAT
2181088 TTTGATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
16 3 0.12
17 2 0.08
18 4 0.15
19 14 0.54
20 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTTTATAAATATTATA
Found at i:2181402 original size:16 final size:17
Alignment explanation
Indices: 2181350--2181400 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
2181340 TAAATACGAG
2181350 ATAATAT-ATGATATAAA
1 ATAATATAAT-ATATAAA
*
2181367 ATAAAAATAATAT-TAAA
1 AT-AATATAATATATAAA
2181384 ATAATATAATATATAAA
1 ATAATATAATATATAAA
2181401 TATATTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 9 0.31
17 12 0.41
18 6 0.21
19 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
ATAATATAATATATAAA
Found at i:2181417 original size:27 final size:27
Alignment explanation
Indices: 2181360--2181411 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
2181350 ATAATATATG
2181360 ATATAAAATAAAAATAATATTAAAATA
1 ATATAAAATAAAAATAATATTAAAATA
* *
2181387 ATATAATATATAAAT-ATATTAAAAT
1 ATATAAAATAAAAATAATATTAAAAT
2181412 CTATATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (27 bp):
ATATAAAATAAAAATAATATTAAAATA
Found at i:2181885 original size:13 final size:13
Alignment explanation
Indices: 2181869--2181902 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
2181859 TTAAATTATA
*
2181869 TTTTTTCATCAAT
1 TTTTTTAATCAAT
*
2181882 TTTTTTAATCTAT
1 TTTTTTAATCAAT
2181895 TTTTTTAA
1 TTTTTTAA
2181903 CTCGATAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTTTAATCAAT
Found at i:2182272 original size:14 final size:14
Alignment explanation
Indices: 2182240--2182270 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
2182230 GATGTGATAC
2182240 TTTTATCATATTAT
1 TTTTATCATATTAT
2182254 TTTTA-CATATTAT
1 TTTTATCATATTAT
2182267 TTTT
1 TTTT
2182271 TAATAAATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTATCATATTAT
Found at i:2182325 original size:27 final size:26
Alignment explanation
Indices: 2182295--2182372 Score: 66
Period size: 27 Copynumber: 2.7 Consensus size: 26
2182285 TGTTTAAAAA
2182295 TTTTATATTAAATAAATAATTAAATAT
1 TTTTATATTAAATAAATAA-TAAATAT
* * *
2182322 TTTTATTTTATATAAAATTTAATATATAT
1 TTTTATATTAAAT-AAA--TAATAAATAT
2182351 TATTTATGATTAAAATAAATAA
1 T-TTTAT-ATT-AAATAAATAA
2182373 ATATAAATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
27 11 0.28
28 3 0.08
29 10 0.25
30 8 0.20
31 5 0.12
32 3 0.08
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (26 bp):
TTTTATATTAAATAAATAATAAATAT
Found at i:2182340 original size:25 final size:27
Alignment explanation
Indices: 2182312--2182399 Score: 69
Period size: 26 Copynumber: 3.4 Consensus size: 27
2182302 TTAAATAAAT
*
2182312 AATTAAATAT-TTTTATTT-T-ATATAA
1 AATTAAATATATATTATTTATGAT-TAA
*
2182337 AATTTAATATATATTATTTATGATTAA
1 AATTAAATATATATTATTTATGATTAA
* * * *
2182364 AA-TAAATAAATATAAATTAT-ATAAA
1 AATTAAATATATATTATTTATGATTAA
*
2182389 AATCAAATATA
1 AATTAAATATA
2182400 ATTTAATTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
25 15 0.30
26 27 0.54
27 6 0.12
28 2 0.04
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (27 bp):
AATTAAATATATATTATTTATGATTAA
Found at i:2186218 original size:32 final size:32
Alignment explanation
Indices: 2186182--2186251 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
2186172 CTCATAAACT
* * **
2186182 ATTTAAATTATTTTATTTATTAAAATATTTAA
1 ATTTAAATCATTTAATAAATTAAAATATTTAA
* *
2186214 ATTTAACTCATTTAATAAATTAAATTATTTAA
1 ATTTAAATCATTTAATAAATTAAAATATTTAA
2186246 ATTTAA
1 ATTTAA
2186252 CTTGACACCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (32 bp):
ATTTAAATCATTTAATAAATTAAAATATTTAA
Found at i:2187215 original size:3 final size:3
Alignment explanation
Indices: 2187207--2187235 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2187197 GGCATTTGTA
2187207 GCT GCT GCT GCT GCT GCT GCT GCT GCT GC
1 GCT GCT GCT GCT GCT GCT GCT GCT GCT GC
2187236 AGGGTTGGGT
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:0.00, C:0.34, G:0.34, T:0.31
Consensus pattern (3 bp):
GCT
Found at i:2190554 original size:2 final size:2
Alignment explanation
Indices: 2190547--2190586 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
2190537 ACATACATAC
*
2190547 AT AT AT AT AT AT AT AT AC 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
2190587 GCATCTCATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2193238 original size:15 final size:17
Alignment explanation
Indices: 2193220--2193259 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
2193210 AATTAACATA
2193220 ATTAAATTTAA-A-TTT
1 ATTAAATTTAATATTTT
2193235 ATTAAAATTTAATATTTT
1 ATT-AAATTTAATATTTT
2193253 ATTAAAT
1 ATTAAAT
2193260 CATAAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 3 0.14
16 8 0.36
17 5 0.23
18 6 0.27
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTAAATTTAATATTTT
Found at i:2193244 original size:16 final size:18
Alignment explanation
Indices: 2193223--2193258 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2193213 TAACATAATT
2193223 AAATTTAA-A-TTTATTA
1 AAATTTAATATTTTATTA
2193239 AAATTTAATATTTTATTA
1 AAATTTAATATTTTATTA
2193257 AA
1 AA
2193259 TCATAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 1 0.06
18 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AAATTTAATATTTTATTA
Found at i:2193271 original size:25 final size:24
Alignment explanation
Indices: 2193237--2193408 Score: 81
Period size: 25 Copynumber: 7.5 Consensus size: 24
2193227 TTAAATTTAT
*
2193237 TAAAATTTAATATTTTATTAAATCA
1 TAAAAATTAATATTTTATTAAAT-A
2193262 TAAAAATTAATTATTTT-TT---TA
1 TAAAAATTAA-TATTTTATTAAATA
*
2193283 -AAAAA-TAATTTTTTAATTAAAT-
1 TAAAAATTAATATTTT-ATTAAATA
* * *
2193305 TGACATAATTAA-ATTTAAATT-TAT-
1 T-A-AAAATTAATATTT-TATTAAATA
*
2193329 TAAAACTTAATATTTTATTAAATCA
1 TAAAAATTAATATTTTATTAAAT-A
2193354 TAAAAATTAAT-TATTTATT-AATA
1 TAAAAATTAATAT-TTTATTAAATA
2193377 TTAAAAAATT-ATA-TTT-TT--ATA
1 -T-AAAAATTAATATTTTATTAAATA
2193398 TAAAAATTAAT
1 TAAAAATTAAT
2193409 TAATATTTCC
Statistics
Matches: 116, Mismatches: 11, Indels: 45
0.67 0.06 0.26
Matches are distributed among these distances:
18 5 0.04
19 10 0.09
20 10 0.09
21 4 0.03
22 12 0.10
23 12 0.10
24 11 0.09
25 43 0.37
26 9 0.08
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (24 bp):
TAAAAATTAATATTTTATTAAATA
Found at i:2193290 original size:26 final size:25
Alignment explanation
Indices: 2193237--2193290 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
2193227 TTAAATTTAT
* **
2193237 TAAAATTTAATATTTTATTAAATCA
1 TAAAAATTAATATTTTATTAAAAAA
*
2193262 TAAAAATTAATTATTTTTTTAAAAAA
1 TAAAAATTAA-TATTTTATTAAAAAA
2193288 TAA
1 TAA
2193291 TTTTTTAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TAAAAATTAATATTTTATTAAAAAA
Found at i:2193302 original size:19 final size:19
Alignment explanation
Indices: 2193262--2193303 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
2193252 TATTAAATCA
* *
2193262 TAAAAATTAATTATTTTTT
1 TAAAAAATAATTATTTTAT
2193281 TAAAAAATAATT-TTTTAAT
1 TAAAAAATAATTATTTT-AT
2193300 TAAA
1 TAAA
2193304 TTGACATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TAAAAAATAATTATTTTAT
Found at i:2193409 original size:23 final size:23
Alignment explanation
Indices: 2193353--2193416 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 23
2193343 TTATTAAATC
2193353 ATAAAAATTAATTAT-TTATTAAT
1 ATAAAAATTAATTATATT-TTAAT
* *
2193376 ATTAAAA--AATTATATTTTTAT
1 ATAAAAATTAATTATATTTTAAT
2193397 ATAAAAATTAATTAATATTT
1 ATAAAAATTAATT-ATATTT
2193417 CCTTTTTTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 16 0.47
22 2 0.06
23 10 0.29
24 6 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATAAAAATTAATTATATTTTAAT
Found at i:2193741 original size:15 final size:16
Alignment explanation
Indices: 2193713--2193744 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
2193703 ATTTATATTT
2193713 TAAAATTAATTAAAAA
1 TAAAATTAATTAAAAA
2193729 TAAAATT-ATTAAAAA
1 TAAAATTAATTAAAAA
2193744 T
1 T
2193745 TAATTAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TAAAATTAATTAAAAA
Found at i:2193743 original size:26 final size:27
Alignment explanation
Indices: 2193707--2193780 Score: 100
Period size: 26 Copynumber: 2.8 Consensus size: 27
2193697 TAAATTATTT
2193707 ATATTTT-AAAATTAATTAAAAATA-A
1 ATATTTTAAAAATTAATTAAAAATATA
2193732 A-ATTATTAAAAATTAATTAAAAATATA
1 ATATT-TTAAAAATTAATTAAAAATATA
*
2193759 ATATTTTAAAAAATAATATAAA
1 ATATTTTAAAAATTAAT-TAAA
2193781 TTAATTAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
24 3 0.07
25 3 0.07
26 17 0.40
27 13 0.30
28 7 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
ATATTTTAAAAATTAATTAAAAATATA
Found at i:2193774 original size:15 final size:16
Alignment explanation
Indices: 2193748--2193777 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2193738 TAAAAATTAA
2193748 TTAAAAATATAATATT
1 TTAAAAATATAATATT
2193764 TTAAAAA-ATAATAT
1 TTAAAAATATAATAT
2193778 AAATTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TTAAAAATATAATATT
Done.