Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold144
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: 3311329
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
File 2 of 21
Found at i:94171 original size:19 final size:21
Alignment explanation
Indices: 94149--94187 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
94139 AATATTTTAT
*
94149 ATATT-TTT-ATATATTATAA
1 ATATTATTTAATATAATATAA
94168 ATATTATTTAATATAATATA
1 ATATTATTTAATATAATATA
94188 TCTATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 3 0.18
21 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATTATTTAATATAATATAA
Found at i:94759 original size:14 final size:16
Alignment explanation
Indices: 94729--94762 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
94719 TACTTTATTT
94729 TTTTTTTTGTTCATTA
1 TTTTTTTTGTTCATTA
94745 TTTTTTTT-TTC-TTA
1 TTTTTTTTGTTCATTA
94759 TTTT
1 TTTT
94763 GAGCTATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 3 0.17
16 8 0.44
ACGTcount: A:0.09, C:0.06, G:0.03, T:0.82
Consensus pattern (16 bp):
TTTTTTTTGTTCATTA
Found at i:95858 original size:27 final size:29
Alignment explanation
Indices: 95793--95859 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 29
95783 GTGTTAAATA
* * *
95793 TCAAAATATATATTAAATTGATATTTATGT
1 TCAAAAAATA-ATTAAAATGATAATTATGT
*
95823 T-AAATAATAATTAAAAT-ATAATTAT-T
1 TCAAAAAATAATTAAAATGATAATTATGT
95849 TCAAAAAATAA
1 TCAAAAAATAA
95860 AAGAACTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
26 2 0.06
27 15 0.48
28 7 0.23
29 6 0.19
30 1 0.03
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (29 bp):
TCAAAAAATAATTAAAATGATAATTATGT
Found at i:96015 original size:28 final size:28
Alignment explanation
Indices: 95937--96016 Score: 74
Period size: 28 Copynumber: 2.8 Consensus size: 28
95927 CCATATTAAT
* **
95937 TATATAATATTAAAATTTATTTCTTTATTA
1 TATATAATAATAAAATTTA-TT-AATATTA
*
95967 TATATAATAATATAATTTATTAATATTA
1 TATATAATAATAAAATTTATTAATATTA
95995 TAGTA-AATAA-AAAATTATATTA
1 TA-TATAATAATAAAATT-TATTA
96017 CTTTTTAAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
27 5 0.12
28 17 0.40
29 4 0.09
30 17 0.40
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (28 bp):
TATATAATAATAAAATTTATTAATATTA
Found at i:96499 original size:20 final size:20
Alignment explanation
Indices: 96474--96511 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
96464 AATAGTTATT
96474 ATTATTTATTAT-ATTTTTAA
1 ATTA-TTATTATAATTTTTAA
96494 ATTATTATTATAATTTTT
1 ATTATTATTATAATTTTT
96512 TTATGTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTATTATTATAATTTTTAA
Found at i:96565 original size:13 final size:14
Alignment explanation
Indices: 96537--96563 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
96527 GCTCGAAATT
96537 TATTTTTATTAAAA
1 TATTTTTATTAAAA
96551 TATTTTTATTAAA
1 TATTTTTATTAAA
96564 TAGATCAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTTTTATTAAAA
Found at i:96780 original size:112 final size:113
Alignment explanation
Indices: 96656--96863 Score: 305
Period size: 112 Copynumber: 1.8 Consensus size: 113
96646 TATATCAGTT
* * * *
96656 TATTTGCTATAAAATAAAAAATTAAAATTTATATTAAATTTT-AATGCTTTTTTATAATTAATTT
1 TATTTGATATAAAATAAAAAAATAAAATTTACAAT-AATTTTGAATGC-TTTTTATAATTAATTT
* *
96720 TA-ATTAATATTAAAAA-ATAAATTTTATAATAATATGATACACACTTCA
64 TATATTAAAATTAAAAATATAAACTTTATAATAATATGATACACACTTCA
* *
96768 TATTTGATATAAATTAAAAAAATAAAATTTACAATAATTTTGAATTCTTTTTATAATTAATTTTA
1 TATTTGATATAAAATAAAAAAATAAAATTTACAATAATTTTGAATGCTTTTTATAATTAATTTTA
96833 TATTAAAATTAAAAATATAAACTTTATAATA
66 TATTAAAATTAAAAATATAAACTTTATAATA
96864 TTATACAATT
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
111 24 0.28
112 47 0.55
113 14 0.16
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (113 bp):
TATTTGATATAAAATAAAAAAATAAAATTTACAATAATTTTGAATGCTTTTTATAATTAATTTTA
TATTAAAATTAAAAATATAAACTTTATAATAATATGATACACACTTCA
Found at i:97098 original size:22 final size:22
Alignment explanation
Indices: 97064--97113 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
97054 TTTTTGCTGG
97064 CTTCT-TGGGCTCTTCTGTCTT
1 CTTCTCTGGGCTCTTCTGTCTT
* * *
97085 CTTCTCTGTGCTCTTGTTTCTT
1 CTTCTCTGGGCTCTTCTGTCTT
97107 CTTCTCT
1 CTTCTCT
97114 TGTTTTTTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.00, C:0.30, G:0.14, T:0.56
Consensus pattern (22 bp):
CTTCTCTGGGCTCTTCTGTCTT
Found at i:97338 original size:63 final size:63
Alignment explanation
Indices: 97162--97419 Score: 317
Period size: 63 Copynumber: 4.1 Consensus size: 63
97152 GGCACCCCTT
* * * * * *
97162 TCTTGGGCTAATTTTTCTTCTCTGGTTTTTTGGGCCGCTCCACGACTTTGATGGGCTAC-CCAC
1 TCTTGGGCTTAGTTTTCTTCTCTGGTTCTTTGAGCCGCTCCACCACTTTGATGGGCT-CTCCTC
* * * *
97225 TCTTGGGC-T--TTTTCTTGTCTGGTTGTCTGGGCCGCTCCACCACTTTGATGGGCTCTCCTC
1 TCTTGGGCTTAGTTTTCTTCTCTGGTTCTTTGAGCCGCTCCACCACTTTGATGGGCTCTCCTC
* * * * *
97285 TCTTGGGCTTAGTTTCCTTCTCTGGTTCTTTGAGCCACACCACCGCTCTGATGGGCTCTCCTC
1 TCTTGGGCTTAGTTTTCTTCTCTGGTTCTTTGAGCCGCTCCACCACTTTGATGGGCTCTCCTC
* * *
97348 TCTTGGGCTCAGTTTTCTTCTCTGGTTCTTTGAGCCGCTCCAACACTTTGGTGGGCTCTCCTC
1 TCTTGGGCTTAGTTTTCTTCTCTGGTTCTTTGAGCCGCTCCACCACTTTGATGGGCTCTCCTC
97411 TCTTGGGCT
1 TCTTGGGCT
97420 CTCTTTTCTT
Statistics
Matches: 168, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
59 1 0.01
60 52 0.31
61 1 0.01
63 114 0.68
ACGTcount: A:0.08, C:0.30, G:0.23, T:0.39
Consensus pattern (63 bp):
TCTTGGGCTTAGTTTTCTTCTCTGGTTCTTTGAGCCGCTCCACCACTTTGATGGGCTCTCCTC
Found at i:97569 original size:142 final size:141
Alignment explanation
Indices: 97348--97723 Score: 556
Period size: 141 Copynumber: 2.7 Consensus size: 141
97338 GGCTCTCCTC
** * * * *
97348 TCTTGGGCTCAGTTTTCTTCTCTGGTTCTTTGAGCCGCTCCAACACTTTGGTGGGCTCTCCTCTC
1 TCTTGGGCTCTTTTTTCTGCTCTGGTTCTTTGAGCAGATCCACCACTTTGGTGGGCTCTCCTCTC
* *
97413 TTGGGCTCTCTTTTCTTCTTCTGTGGTTTTTTTGGGGGGATCTTTCGCAGTTTTTGCTGGCTCCC
66 TTGGGCTCT-TTTTCTTCTTCTCTGGTTTTTTTGGAGGGATCTTTCGCAGTTTTTGCTGGCTCCC
97478 TTGGCACCACTT
130 TTGGCACCACTT
* * *
97490 TCTTGGGCTCTTTTTTCTGCTCTGGTTTTTTGGGCAGATCCACCGCTTTGGTGGGCTCTCCTCTC
1 TCTTGGGCTCTTTTTTCTGCTCTGGTTCTTTGAGCAGATCCACCACTTTGGTGGGCTCTCCTCTC
* *
97555 TTGGGCTCTGTTTTCTTCTTCTCTGG-TTTTTTGGAGGGATCTTTCGCAGTTTTTGCTGGCTTCT
66 TTGGGCTCT-TTTTCTTCTTCTCTGGTTTTTTTGGAGGGATCTTTCGCAGTTTTTGCTGGCTCCC
*
97619 TTGGCACCCCTT
130 TTGGCACCACTT
* *
97631 TCTTGGGCTCTTTTTTCTGCTCTGGTTCTTTGAGCAGATCCACCACTTTGTTGGGCTCTCCTTTC
1 TCTTGGGCTCTTTTTTCTGCTCTGGTTCTTTGAGCAGATCCACCACTTTGGTGGGCTCTCCTCTC
**
97696 TTGAACTCTTCTTTCTTCTTCTCTGGTT
66 TTGGGCTCTT-TTTCTTCTTCTCTGGTT
97724 CATTTGTTGG
Statistics
Matches: 210, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
140 1 0.00
141 128 0.61
142 81 0.39
ACGTcount: A:0.06, C:0.26, G:0.22, T:0.46
Consensus pattern (141 bp):
TCTTGGGCTCTTTTTTCTGCTCTGGTTCTTTGAGCAGATCCACCACTTTGGTGGGCTCTCCTCTC
TTGGGCTCTTTTTCTTCTTCTCTGGTTTTTTTGGAGGGATCTTTCGCAGTTTTTGCTGGCTCCCT
TGGCACCACTT
Found at i:98819 original size:22 final size:21
Alignment explanation
Indices: 98788--98833 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 21
98778 ATAATTTCAA
98788 ATATAATTA-TATAAATATAAT
1 ATATAATTATTA-AAATATAAT
98809 ATATAAATTATTAAAATATAAT
1 ATAT-AATTATTAAAATATAAT
98831 ATA
1 ATA
98834 ATATAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.17
22 17 0.74
23 2 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATATAATTATTAAAATATAAT
Found at i:98827 original size:15 final size:13
Alignment explanation
Indices: 98786--98844 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 13
98776 TTATAATTTC
*
98786 AAATATAATTATAT
1 AAATATAA-AATAT
*
98800 AAATATAATATAT
1 AAATATAAAATAT
98813 AAATTATTAAAATAT
1 AAA-TA-TAAAATAT
98828 -AATAT--AATAT
1 AAATATAAAATAT
98838 AAATATA
1 AAATATA
98845 TTTTAAAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
10 5 0.12
11 5 0.12
12 1 0.03
13 10 0.25
14 12 0.30
15 7 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AAATATAAAATAT
Found at i:98835 original size:53 final size:53
Alignment explanation
Indices: 98777--98882 Score: 126
Period size: 53 Copynumber: 2.0 Consensus size: 53
98767 GCAACAGCAT
* *
98777 TATAATTTCAAATATAATTATATAAATATA-AT-ATATAAATTATTAAAATATAA
1 TATAATAT-AAATAT-ATTATAAAAATATATATAATATAAATTATTAAAATATAA
* * * *
98830 TATAATATAAATATATTTTAAAAATTTATATAATATTAATTATTAATATATAA
1 TATAATATAAATATATTATAAAAATATATATAATATAAATTATTAAAATATAA
98883 AAATTTATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
51 11 0.24
52 8 0.18
53 26 0.58
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (53 bp):
TATAATATAAATATATTATAAAAATATATATAATATAAATTATTAAAATATAA
Found at i:98865 original size:38 final size:34
Alignment explanation
Indices: 98824--98900 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 34
98814 AATTATTAAA
*
98824 ATATAATATAA-TATA-AATATATTTTAAAAATTT
1 ATATAATATAATTATATAA-ATATATTAAAAATTT
98857 ATATAATATTAATTAT-T-AATATA-TAAAAATTT
1 ATATAATA-TAATTATATAAATATATTAAAAATTT
98889 ATATAAATATAA
1 ATAT-AATATAA
98901 AATATTTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
32 16 0.41
33 16 0.41
34 4 0.10
35 3 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (34 bp):
ATATAATATAATTATATAAATATATTAAAAATTT
Found at i:98886 original size:61 final size:60
Alignment explanation
Indices: 98794--98960 Score: 161
Period size: 60 Copynumber: 2.8 Consensus size: 60
98784 TCAAATATAA
*
98794 TTATATAAATATAATATATAAATTATTAAAATATAATAT-AATATAAATATATTTTAAAAAT
1 TTATATAAATATAATATATAAATTATAAAAAT-TAATATAAATATAAA-ATATTTTAAAAAT
* * *
98855 TTATAT-AATATTAAT-TATTAATATATAAAAATTTATATAAATATAAAATATTTTAAATA-
1 TTATATAAATA-TAATATATAAAT-TATAAAAATTAATATAAATATAAAATATTTTAAAAAT
* * *
98914 TAAT-TAAATTATAATA-A-AAAATATAAATATT-ATATAAATATATAAAT
1 TTATATAAA-TATAATATATAAATTATAAAAATTAATATAAATATA-AAAT
98961 TATCAAATTC
Statistics
Matches: 91, Mismatches: 8, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
56 11 0.12
57 13 0.14
58 3 0.03
59 10 0.11
60 28 0.31
61 26 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (60 bp):
TTATATAAATATAATATATAAATTATAAAAATTAATATAAATATAAAATATTTTAAAAAT
Found at i:98890 original size:18 final size:19
Alignment explanation
Indices: 98829--98960 Score: 62
Period size: 18 Copynumber: 6.8 Consensus size: 19
98819 TTAAAATATA
98829 ATAT-AATATAAATATATTT
1 ATATAAATATAAA-ATATTT
* * *
98848 -TAAAAATTTATATAATATTA
1 ATATAAA--TATAAAATATTT
98868 ATTATTAATATATAAAA-ATTT
1 A-TA-TAA-ATATAAAATATTT
98889 ATATAAATATAAAATATTTT
1 ATATAAATATAAAATA-TTT
* * *
98909 AAATATAAT-TAAATTA-TA
1 ATATA-AATATAAAATATTT
*
98927 ATA-AAAAATATAAATA-TT
1 ATATAAATATA-AAATATTT
98945 ATATAAATATATAAAT
1 ATATAAATATA-AAAT
98961 TATCAAATTC
Statistics
Matches: 86, Mismatches: 14, Indels: 26
0.68 0.11 0.21
Matches are distributed among these distances:
16 2 0.02
17 3 0.03
18 21 0.24
19 17 0.20
20 20 0.23
21 12 0.14
22 8 0.09
23 2 0.02
24 1 0.01
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATAAATATAAAATATTT
Found at i:99145 original size:12 final size:12
Alignment explanation
Indices: 99123--99271 Score: 56
Period size: 13 Copynumber: 11.5 Consensus size: 12
99113 ATATGATTTT
99123 TTATATATTTATA
1 TTATAT-TTTATA
99136 TTATATTTTATAA
1 TTATATTTTAT-A
99149 TT-T-TTATTATAA
1 TTATATT-TTAT-A
*
99161 TTTTATTTTAAATA
1 TTATATTTT--ATA
99175 TTATATATTTATA
1 TTATAT-TTTATA
* *
99188 -TAAATTTAAATATT
1 TTATATTT---TATA
*
99202 TTATTAATTTATA
1 TTA-TATTTTATA
*
99215 TCATATATTTTAAA
1 T--TATATTTTATA
*
99229 ATATATATTTATA
1 TTATAT-TTTATA
99242 TTATA--TTATA
1 TTATATTTTATA
*
99252 TAATATTTTAAATA
1 TTATATTTT--ATA
99266 TTATAT
1 TTATAT
99272 ATATAATTAA
Statistics
Matches: 104, Mismatches: 13, Indels: 37
0.68 0.08 0.24
Matches are distributed among these distances:
10 9 0.09
11 4 0.04
12 25 0.24
13 28 0.27
14 26 0.25
15 9 0.09
16 3 0.03
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATATTTTATA
Found at i:99156 original size:19 final size:21
Alignment explanation
Indices: 99121--99166 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
99111 AAATATGATT
99121 TTTTATATATTTATATTAT-A
1 TTTTATATATTTATATTATAA
*
99141 TTTTATA-ATTTTTATTATAA
1 TTTTATATATTTATATTATAA
99161 TTTTAT
1 TTTTAT
99167 TTTAAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTATATATTTATATTATAA
Found at i:99156 original size:25 final size:25
Alignment explanation
Indices: 99128--99261 Score: 85
Period size: 25 Copynumber: 5.1 Consensus size: 25
99118 ATTTTTTATA
99128 TATTTATATTATATTTTATAATTTT
1 TATTTATATTATATTTTATAATTTT
*
99153 TA-TTATAATTTTATTTTA-AATATTAT
1 TATTTAT-ATTATATTTTATAAT-TT-T
* * *
99179 ATATTTATA-TAAATTTAAATATTTTAT
1 -TATTTATATTATATTT-TATAATTT-T
* * *
99206 TAATTTATATCATATATTTTAAAATATA
1 T-ATTTATAT--TATATTTTATAATTTT
*
99234 TATTTATATTATATTATATAATATTT
1 TATTTATATTATATTTTATAAT-TTT
99260 TA
1 TA
99262 AATATTATAT
Statistics
Matches: 82, Mismatches: 15, Indels: 23
0.68 0.12 0.19
Matches are distributed among these distances:
24 7 0.09
25 25 0.30
26 10 0.12
27 23 0.28
28 7 0.09
29 4 0.05
30 6 0.07
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (25 bp):
TATTTATATTATATTTTATAATTTT
Found at i:99166 original size:32 final size:32
Alignment explanation
Indices: 99130--99241 Score: 81
Period size: 32 Copynumber: 3.6 Consensus size: 32
99120 TTTTTATATA
99130 TTTATATTATATTTTATAATTTTTATTATAAT
1 TTTATATTATATTTTATAATTTTTATTATAAT
* * * * *
99162 TTTATTTTAAATATTAT-ATATTTA-TATAAA
1 TTTATATTATATTTTATAATTTTTATTATAAT
* *
99192 TTTA-A--ATATTTTATTAATTTATATCATATAT
1 TTTATATTATATTTTA-TAATTTTTATTATA-AT
* *
99223 TTTAAAATATATATTTATA
1 TTTATATTATAT-TTTATA
99242 TTATATTATA
Statistics
Matches: 60, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
27 6 0.10
28 1 0.02
29 5 0.08
30 12 0.20
31 11 0.18
32 15 0.25
34 6 0.10
35 4 0.07
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (32 bp):
TTTATATTATATTTTATAATTTTTATTATAAT
Found at i:99212 original size:17 final size:18
Alignment explanation
Indices: 99169--99212 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
99159 AATTTTATTT
*
99169 TAAATATTATATATTTATA
1 TAAAT-TTAAATATTTATA
99188 TAAATTTAAATATTT-TA
1 TAAATTTAAATATTTATA
*
99205 TTAATTTA
1 TAAATTTA
99213 TATCATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 9 0.39
18 9 0.39
19 5 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TAAATTTAAATATTTATA
Found at i:99240 original size:35 final size:36
Alignment explanation
Indices: 99123--99284 Score: 101
Period size: 35 Copynumber: 4.5 Consensus size: 36
99113 ATATGATTTT
* * *
99123 TTATATATTTATATTATATTTTATAAT-TTTTATTATAA
1 TTATATATTTAT-TAATATTATATAATATTTTA-AAT-A
*
99161 TT-T-TATTT-TAAATATTATAT-AT-TTATATAAAT-
1 TTATATATTTATTAATATTATATAATATT-T-TAAATA
*
99193 TTAAATATTTTATTAAT-TTATATCATATATTTTAAA-A
1 TTATATA-TTTATTAATATTATAT-A-ATATTTTAAATA
*
99230 -TATATATTTATATTATATTATATAATATTTTAAATA
1 TTATATATTTAT-TAATATTATATAATATTTTAAATA
*
99266 TTATATATATAATTAATAT
1 TTATATAT-TTATTAATAT
99285 AATTATATAT
Statistics
Matches: 98, Mismatches: 10, Indels: 33
0.70 0.07 0.23
Matches are distributed among these distances:
32 2 0.02
33 4 0.04
34 13 0.13
35 27 0.28
36 19 0.19
37 23 0.23
38 8 0.08
39 2 0.02
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (36 bp):
TTATATATTTATTAATATTATATAATATTTTAAATA
Found at i:99837 original size:12 final size:12
Alignment explanation
Indices: 99822--99858 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
99812 TTTTTAATAA
99822 ATAAAATAAAAT
1 ATAAAATAAAAT
99834 ATAAAATAAAAT
1 ATAAAATAAAAT
*
99846 A-AAAATTAAAT
1 ATAAAATAAAAT
99857 AT
1 AT
99859 TTATATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
ATAAAATAAAAT
Found at i:99880 original size:17 final size:17
Alignment explanation
Indices: 99852--99901 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 17
99842 AAATAAAAAT
99852 TAAATATTTATATTTAAA
1 TAAAT-TTTATATTTAAA
*
99870 TCAATTTTATA--T-AA
1 TAAATTTTATATTTAAA
*
99884 TAAATTTAATATTTAAA
1 TAAATTTTATATTTAAA
99901 T
1 T
99902 GTAAATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
14 11 0.42
15 1 0.04
16 1 0.04
17 9 0.35
18 4 0.15
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAATTTTATATTTAAA
Found at i:101031 original size:34 final size:34
Alignment explanation
Indices: 100963--101179 Score: 294
Period size: 34 Copynumber: 6.4 Consensus size: 34
100953 ATATTTGTTG
* * *
100963 TTGTTGATTAAAT-GGTGATTTAGTAGTTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
* * * *
100996 TTGTTGATTAAATGGGTGATTTGGTGGTTTGCCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
*
101030 TTGTTGACTAAAT-GGAGATTTGGTAGCTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
*
101063 TTGTTGATTAAATGGGAAATTTGGTAGCTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
* *
101097 TTGTTGATTAAATGGGTGATTTGGTGGCTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
* * *
101131 TTGTTGACTAAATGGGAGATTTGGTAGGTTGCCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
101165 TTGTTGATTAAATGG
1 TTGTTGATTAAATGG
101180 TGGTTTTTAC
Statistics
Matches: 163, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
33 41 0.25
34 122 0.75
ACGTcount: A:0.24, C:0.08, G:0.27, T:0.41
Consensus pattern (34 bp):
TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
Found at i:101145 original size:68 final size:67
Alignment explanation
Indices: 100963--101181 Score: 321
Period size: 67 Copynumber: 3.3 Consensus size: 67
100953 ATATTTGTTG
* * * * *
100963 TTGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTGC
1 TTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTGC
101028 CA
66 CA
* * * *
101030 TTGTTGACTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGAAATTTGGTAGCTTAC
1 TTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTGC
101095 CA
66 CA
* * *
101097 TTGTTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATGGGAGATTTGGTAGGTTG
1 TTGTTGATTAAAT-GGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTG
101162 CCA
65 CCA
101165 TTGTTGATTAAATGGTG
1 TTGTTGATTAAATGGTG
101182 GTTTTTACCA
Statistics
Matches: 135, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
67 74 0.55
68 61 0.45
ACGTcount: A:0.24, C:0.08, G:0.27, T:0.41
Consensus pattern (67 bp):
TTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTGC
CA
Found at i:105659 original size:34 final size:34
Alignment explanation
Indices: 105590--105807 Score: 296
Period size: 34 Copynumber: 6.5 Consensus size: 34
105580 AAGTGGGAGA
* * *
105590 ATTGTTGATTAAAT-GGTGATTTAGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
105623 ATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
105657 ATTGTTGACTAAAT-GGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
105690 ATTGTTGATTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
105724 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
105758 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
105792 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
105808 TGGTTTTTAC
Statistics
Matches: 164, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
33 42 0.26
34 122 0.74
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:105773 original size:68 final size:67
Alignment explanation
Indices: 105590--105809 Score: 323
Period size: 67 Copynumber: 3.3 Consensus size: 67
105580 AAGTGGGAGA
* * * * *
105590 ATTGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTG
105655 CC
66 CC
* * * *
105657 ATTGTTGACTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGAAATTTGGTAGCTTA
1 ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTG
105722 CC
66 CC
* * *
105724 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATGGGAGATTTGGTAGGTT
1 ATTGTTGATTAAAT-GGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTT
105789 GCC
65 GCC
105792 ATTGTTGATTAAATGGTG
1 ATTGTTGATTAAATGGTG
105810 GTTTTTACCA
Statistics
Matches: 136, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
67 75 0.55
68 61 0.45
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (67 bp):
ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTG
CC
Found at i:106246 original size:2 final size:2
Alignment explanation
Indices: 106239--106271 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
106229 GAACTACAAA
106239 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
106272 CAGACTTGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:108787 original size:16 final size:17
Alignment explanation
Indices: 108766--108811 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
108756 GGAAGAGAAA
108766 TTTTAGATAAG-TATAT
1 TTTTAGATAAGTTATAT
* *
108782 TTTTAGGT-AGTTATTT
1 TTTTAGATAAGTTATAT
108798 TTTTAGATAGAGTT
1 TTTTAGATA-AGTT
108812 TTTATAGCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 2 0.08
16 18 0.75
18 4 0.17
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.54
Consensus pattern (17 bp):
TTTTAGATAAGTTATAT
Found at i:110003 original size:19 final size:19
Alignment explanation
Indices: 109981--110017 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
109971 TCAATAAAGC
* *
109981 TGTATTTATATATTTTTAA
1 TGTATATATATATATTTAA
110000 TGTATATATATATATTTA
1 TGTATATATATATATTTA
110018 TTACTCGAAA
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:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TGTATATATATATATTTAA
Found at i:110414 original size:3 final size:3
Alignment explanation
Indices: 110406--110434 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
110396 TTCTAACAAA
110406 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
110435 AATATTGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:110938 original size:21 final size:21
Alignment explanation
Indices: 110914--110953 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
110904 ATGTTCAATA
110914 AATATAAAAATAATATATTAC
1 AATATAAAAATAATATATTAC
* *
110935 AATATTAAAATGATATATT
1 AATATAAAAATAATATATT
110954 TAATATACGT
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:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (21 bp):
AATATAAAAATAATATATTAC
Found at i:111573 original size:13 final size:12
Alignment explanation
Indices: 111544--111594 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
111534 TCAGTTTTTA
111544 ATTTAATTAAAT
1 ATTTAATTAAAT
*
111556 ATTTACTTAAATT
1 ATTTAATTAAA-T
*
111569 ATTT-ATAAAAT
1 ATTTAATTAAAT
*
111580 ATTTTATTATAAT
1 ATTTAATTA-AAT
111593 AT
1 AT
111595 ATTTATTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
11 5 0.16
12 17 0.53
13 10 0.31
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (12 bp):
ATTTAATTAAAT
Found at i:111582 original size:24 final size:26
Alignment explanation
Indices: 111552--111600 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
111542 TAATTTAATT
111552 AAATA-TTTACTTA-AAT-TATTTATA
1 AAATATTTTA-TTATAATATATTTATA
111576 AAATATTTTATTATAATATATTTAT
1 AAATATTTTATTATAATATATTTAT
111601 TTAAAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 8 0.36
25 7 0.32
26 7 0.32
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (26 bp):
AAATATTTTATTATAATATATTTATA
Found at i:112095 original size:19 final size:21
Alignment explanation
Indices: 112052--112097 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
112042 ATTCGAATTA
112052 TTATTTAATTAATTAAATATATT
1 TTATTTAATTAATT--ATATATT
*
112075 TTATTTAATTAATT-TATTTT
1 TTATTTAATTAATTATATATT
112095 TTA
1 TTA
112098 AAAAAATTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 8 0.36
23 14 0.64
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATTTAATTAATTATATATT
Found at i:112996 original size:23 final size:24
Alignment explanation
Indices: 112951--113001 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
112941 ATTTAAATAA
* **
112951 TAATTTAAATTTTTTTATCAAATT
1 TAATTTAAATTATTTTAAAAAATT
112975 TAATTTAAA-TATTTTAAAAAATT
1 TAATTTAAATTATTTTAAAAAATT
112998 TAAT
1 TAAT
113002 AACATTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
TAATTTAAATTATTTTAAAAAATT
Found at i:113705 original size:41 final size:41
Alignment explanation
Indices: 113625--113704 Score: 108
Period size: 40 Copynumber: 1.9 Consensus size: 41
113615 TCGATATTTT
* * *
113625 TTATTTATTTATAATTTTTTTAAATTTTATTTTAAAAAATA
1 TTATGTATTTATAATTTATTTAAATTTTACTTTAAAAAATA
113666 TTATGTATTTA-AATTTATTTAAATTTATAACTTTAAAAA
1 TTATGTATTTATAATTTATTTAAATTT-T-ACTTTAAAAA
113705 TTTTATCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 14 0.41
41 11 0.32
42 9 0.26
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (41 bp):
TTATGTATTTATAATTTATTTAAATTTTACTTTAAAAAATA
Found at i:114122 original size:2 final size:2
Alignment explanation
Indices: 114115--114141 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
114105 AAACCACAAT
114115 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
114142 GTTTATTAAG
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:115411 original size:17 final size:17
Alignment explanation
Indices: 115389--115426 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
115379 AACTATTTAA
115389 AATATTTT-TATAATAAT
1 AATATTTTATATAAT-AT
*
115406 AATATTTTATTTAATAT
1 AATATTTTATATAATAT
115423 AATA
1 AATA
115427 ATTAACAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATATTTTATATAATAT
Found at i:118676 original size:2 final size:2
Alignment explanation
Indices: 118669--118695 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
118659 AACTATAAGT
118669 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
118696 TTTGGATGCA
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:120056 original size:2 final size:2
Alignment explanation
Indices: 120049--120088 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
120039 AGAAAATGTT
120049 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
120089 AGGAATAAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:121135 original size:22 final size:22
Alignment explanation
Indices: 121110--121155 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
121100 TTAAATGTTA
121110 TTGACATGCATATAAGATATAT
1 TTGACATGCATATAAGATATAT
121132 TTGACATGCATATAAGATATAT
1 TTGACATGCATATAAGATATAT
121154 TT
1 TT
121156 TAAGATATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (22 bp):
TTGACATGCATATAAGATATAT
Found at i:123129 original size:25 final size:25
Alignment explanation
Indices: 123095--123149 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
123085 ATACATTAAA
123095 ATATTTTTATATTAATATCATA-TTT
1 ATATTTTTATATT-ATATCATATTTT
*
123120 ATATTTTTATATTATATTATATTTT
1 ATATTTTTATATTATATCATATTTT
123145 ATATT
1 ATATT
123150 AAATTTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 7 0.25
25 21 0.75
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (25 bp):
ATATTTTTATATTATATCATATTTT
Found at i:123131 original size:19 final size:19
Alignment explanation
Indices: 123095--123186 Score: 78
Period size: 19 Copynumber: 4.7 Consensus size: 19
123085 ATACATTAAA
* * * *
123095 ATATTTTTATATTAATATC
1 ATATTTATATTTTTATATT
123114 ATATTTATATTTTTATATT
1 ATATTTATATTTTTATATT
123133 ATA-TTATATTTTATATTAAATT
1 ATATTTATATTTT-TA-T--ATT
* *
123155 TTAATTATATTTTTATATT
1 ATATTTATATTTTTATATT
*
123174 ATATTCATATTTT
1 ATATTTATATTTT
123187 ATAACCACAA
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
18 9 0.15
19 33 0.55
20 1 0.02
21 1 0.02
22 7 0.12
23 9 0.15
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
ATATTTATATTTTTATATT
Found at i:123134 original size:5 final size:5
Alignment explanation
Indices: 123101--123184 Score: 59
Period size: 5 Copynumber: 16.4 Consensus size: 5
123091 TAAAATATTT
*
123101 TTATA TTAATA TCATA TTTATA TT-T- TTATA TTATA TTATA TTTTATA
1 TTATA TT-ATA TTATA -TTATA TTATA TTATA TTATA TTATA --TTATA
* *
123148 TTAAA TTTTAA TTATA TT-T- TTATA TTATA TTCATA TT
1 TTATA TTAT-A TTATA TTATA TTATA TTATA TT-ATA TT
123185 TTATAACCAC
Statistics
Matches: 63, Mismatches: 6, Indels: 19
0.72 0.07 0.22
Matches are distributed among these distances:
3 4 0.06
4 4 0.06
5 33 0.52
6 17 0.27
7 5 0.08
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:123146 original size:17 final size:17
Alignment explanation
Indices: 123099--123189 Score: 66
Period size: 17 Copynumber: 5.4 Consensus size: 17
123089 ATTAAAATAT
*
123099 TTTTATATTAATATCATA
1 TTTTATATT-ATATTATA
123117 -TTTATATT-T-TTATA
1 TTTTATATTATATTATA
*
123131 --TTATATTATATTTTA
1 TTTTATATTATATTATA
* * *
123146 TATTAAATTTTAATTATA
1 TTTTATATTAT-ATTATA
123164 TTTTTATATTATATTCATA
1 -TTTTATATTATATT-ATA
123183 TTTTATA
1 TTTTATA
123190 ACCACAATTC
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
13 7 0.12
14 5 0.09
15 5 0.09
17 15 0.26
18 15 0.26
19 11 0.19
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTATATTATATTATA
Found at i:123169 original size:41 final size:43
Alignment explanation
Indices: 123099--123189 Score: 141
Period size: 41 Copynumber: 2.2 Consensus size: 43
123089 ATTAAAATAT
*
123099 TTTTATATTAATATCATATTTATATTTTTATATTATATT-ATA
1 TTTTATATTAATATCATAATTATATTTTTATATTATATTCATA
**
123141 TTTTATATTAA-ATTTTAATTATATTTTTATATTATATTCATA
1 TTTTATATTAATATCATAATTATATTTTTATATTATATTCATA
123183 TTTTATA
1 TTTTATA
123190 ACCACAATTC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 24 0.53
42 21 0.47
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (43 bp):
TTTTATATTAATATCATAATTATATTTTTATATTATATTCATA
Found at i:123206 original size:41 final size:40
Alignment explanation
Indices: 123119--123205 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 40
123109 ATATCATATT
** *
123119 TATATTTTTATATTATATTATATTTTATATTAAATTTTAA
1 TATATTTTTATATTATATTATATTTTATACCAAATTCTAA
123159 TTATATTTTTATATTATATTCATATTTTATAACCACAATTCTAA
1 -TATATTTTTATATTATATT-ATATTTTAT-ACCA-AATTCTAA
123203 TAT
1 TAT
123206 TGAGTAACGC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
41 19 0.47
42 9 0.22
43 5 0.12
44 7 0.17
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (40 bp):
TATATTTTTATATTATATTATATTTTATACCAAATTCTAA
Found at i:125913 original size:13 final size:14
Alignment explanation
Indices: 125886--125932 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 14
125876 GTGTTCTTCG
125886 AAAGA-AAAAA-AA
1 AAAGACAAAAAGAA
*
125898 AAAAACAAAAAGAA
1 AAAGACAAAAAGAA
*
125912 AAAGA-AAGAAGAA
1 AAAGACAAAAAGAA
125925 AAAGACAA
1 AAAGACAA
125933 GGACACTTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 4 0.14
13 17 0.59
14 8 0.28
ACGTcount: A:0.83, C:0.04, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAGACAAAAAGAA
Found at i:129452 original size:20 final size:20
Alignment explanation
Indices: 129432--129468 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
129422 TTTAAAATTA
129432 AATAAAAAATT-TTATTTTT
1 AATAAAAAATTATTATTTTT
*
129451 AATAAAATATTATTATTT
1 AATAAAAAATTATTATTT
129469 AATTTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATAAAAAATTATTATTTTT
Found at i:129457 original size:17 final size:18
Alignment explanation
Indices: 129437--129471 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
129427 AATTAAATAA
*
129437 AAAATTTTATT-TTTAAT
1 AAAATATTATTATTTAAT
129454 AAAATATTATTATTTAAT
1 AAAATATTATTATTTAAT
129472 TTAAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AAAATATTATTATTTAAT
Found at i:129476 original size:20 final size:20
Alignment explanation
Indices: 129397--129483 Score: 56
Period size: 20 Copynumber: 4.5 Consensus size: 20
129387 CGTTAATAAA
* *
129397 TAAAATAATATTATTTTATT
1 TAAAATATTATTATTTAATT
* ** * *
129417 AAAAAT-TTAAAATTAAATA
1 TAAAATATTATTATTTAATT
* *
129436 AAAAATTTTATT-TTTAA--
1 TAAAATATTATTATTTAATT
129453 TAAAATATTATTATTTAATT
1 TAAAATATTATTATTTAATT
*
129473 TAAAAAATTAT
1 TAAAATATTAT
129484 ATAAAATTTT
Statistics
Matches: 50, Mismatches: 13, Indels: 8
0.70 0.18 0.11
Matches are distributed among these distances:
17 10 0.20
18 5 0.10
19 17 0.34
20 18 0.36
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TAAAATATTATTATTTAATT
Found at i:129597 original size:22 final size:23
Alignment explanation
Indices: 129572--129657 Score: 79
Period size: 22 Copynumber: 3.7 Consensus size: 23
129562 TATTTTAAAA
129572 TTATATTTAA-ATTATTATATAT
1 TTATATTTAATATTATTATATAT
* *
129594 TTATA-TAAATATTAATATATAT
1 TTATATTTAATATTATTATATAT
* * *
129616 ATATATAT-ATATTTATAATATAT
1 TTATATTTAATA-TTATTATATAT
129639 TTATAATTTTAATATTATT
1 TTAT-A-TTTAATATTATT
129658 TTTTATTTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
21 3 0.06
22 23 0.48
23 12 0.25
24 1 0.02
25 6 0.12
26 3 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTATATTTAATATTATTATATAT
Found at i:129600 original size:2 final size:2
Alignment explanation
Indices: 129587--129643 Score: 57
Period size: 2 Copynumber: 30.0 Consensus size: 2
129577 TTTAAATTAT
* *
129587 TA TA TA TT TA TA TA AA TA T- TA -A 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
* *
129627 TT TA TA -A TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA
129644 ATTTTAATAT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:129662 original size:21 final size:20
Alignment explanation
Indices: 129638--129676 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
129628 TTATAATATA
129638 TTTATAATTTTAATATTATTT
1 TTTAT-ATTTTAATATTATTT
* *
129659 TTTATTTTTTTATATTAT
1 TTTATATTTTAATATTAT
129677 ATCATCGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTATATTTTAATATTATTT
Found at i:129665 original size:18 final size:17
Alignment explanation
Indices: 129614--129666 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
129604 ATTAATATAT
*
129614 ATATATATATATATTTATA
1 ATATATTTAT-TATTT-TA
*
129633 ATATATTTATAATTTTA
1 ATATATTTATTATTTTA
*
129650 ATATTATTTTTTATTTT
1 ATA-TATTTATTATTTT
129667 TTTATATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 5 0.17
18 15 0.52
19 9 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATATTTATTATTTTA
Found at i:134951 original size:19 final size:18
Alignment explanation
Indices: 134892--134959 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
134882 AGAAATTTCA
* *
134892 AAATCAGTAAATTTGCAG
1 AAATCAGGAAATCTGCAG
*
134910 --ATCTGGAAATCTGCAG
1 AAATCAGGAAATCTGCAG
134926 AAATCAGGAAATCTGCTAG
1 AAATCAGGAAATCTGC-AG
*
134945 AATTCAGGAAATCTG
1 AAATCAGGAAATCTG
134960 GAAATCTGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
16 13 0.31
18 13 0.31
19 16 0.38
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.25
Consensus pattern (18 bp):
AAATCAGGAAATCTGCAG
Found at i:135108 original size:77 final size:77
Alignment explanation
Indices: 134970--135145 Score: 273
Period size: 77 Copynumber: 2.3 Consensus size: 77
134960 GAAATCTGCA
* * * *
134970 AATATAAATCCTATTCAATATGAGCTTTCATTGATTTAATCGCGGTCACTGGCTTCCTAATGACT
1 AATATAAATCCTATTCGATATGAGCTTTCATTGATTGAATCGCGGTCACCGGCTTCCTAATGAAT
135035 ATCCAAAATTTT
66 ATCCAAAATTTT
* * *
135047 TATATGAATCATATTCGATATGAGCTTTCATTGATTGAATC-CTGGTCACCGGCTTCCTAATGAA
1 AATATAAATCCTATTCGATATGAGCTTTCATTGATTGAATCGC-GGTCACCGGCTTCCTAATGAA
135111 TATCCAAAATTTT
65 TATCCAAAATTTT
135124 AATATAAATCCTATTCGATATG
1 AATATAAATCCTATTCGATATG
135146 GTCACCTTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
76 1 0.01
77 87 0.99
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (77 bp):
AATATAAATCCTATTCGATATGAGCTTTCATTGATTGAATCGCGGTCACCGGCTTCCTAATGAAT
ATCCAAAATTTT
Found at i:139545 original size:23 final size:22
Alignment explanation
Indices: 139498--139546 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 22
139488 AAATTACTTA
139498 AAATTAAAAAAAATTAAGTAAAT
1 AAATTAAAAAAAATTAAGT-AAT
139521 AAATTAAAAACAAATATAAGT-AT
1 AAATTAAAAA-AAAT-TAAGTAAT
139544 AAA
1 AAA
139547 CATGATTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 15 0.62
24 4 0.17
25 5 0.21
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.24
Consensus pattern (22 bp):
AAATTAAAAAAAATTAAGTAAT
Found at i:143139 original size:18 final size:18
Alignment explanation
Indices: 143106--143150 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
143096 GTATTACAAT
143106 TAAAATTAATTTTATAAATA
1 TAAAA-TAA-TTTATAAATA
*
143126 TTAAATAATTTATAAATA
1 TAAAATAATTTATAAATA
143144 TAAAATA
1 TAAAATA
143151 TATATTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 16 0.70
19 3 0.13
20 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATAATTTATAAATA
Found at i:143340 original size:18 final size:17
Alignment explanation
Indices: 143304--143355 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
143294 TTTTATTTAT
*
143304 AAAG-AAGAAAAAGGGAA
1 AAAGAAAGAAAAA-GCAA
*
143321 AATGAAAGAAAAAGCAA
1 AAAGAAAGAAAAAGCAA
*
143338 AAAGAAA-AAAAACCAA
1 AAAGAAAGAAAAAGCAA
143354 AA
1 AA
143356 TATTTATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 10 0.33
17 12 0.40
18 8 0.27
ACGTcount: A:0.75, C:0.06, G:0.17, T:0.02
Consensus pattern (17 bp):
AAAGAAAGAAAAAGCAA
Found at i:143537 original size:17 final size:18
Alignment explanation
Indices: 143517--143556 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
143507 TTTAATGTAA
* *
143517 ATAAAT-ATTTTATTTTT
1 ATAAATCATTTAATATTT
143534 ATAAATCATTTAATATTT
1 ATAAATCATTTAATATTT
143552 ATAAA
1 ATAAA
143557 ATAAATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
ATAAATCATTTAATATTT
Found at i:144518 original size:28 final size:28
Alignment explanation
Indices: 144487--144549 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 28
144477 ACTTTTATAA
*
144487 TATAATAA-AAATATAAATTTA-ATTTTT
1 TATAATAATAAA-AAAAATTTAGATTTTT
* *
144514 GTATATTAATAAAAAAAATTTAGCTTTTT
1 -TATAATAATAAAAAAAATTTAGATTTTT
144543 TATAATA
1 TATAATA
144550 TGATTTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 21 0.72
29 8 0.28
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (28 bp):
TATAATAATAAAAAAAATTTAGATTTTT
Found at i:146229 original size:16 final size:15
Alignment explanation
Indices: 146210--146246 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
146200 TATTAAAAAT
146210 ATTTTTTTATAAATTA
1 ATTTTTTT-TAAATTA
146226 A-TTTTTTTAAATTA
1 ATTTTTTTTAAATTA
146240 ATTTTTT
1 ATTTTTT
146247 AAATTTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 11 0.55
16 1 0.05
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTTTTTAAATTA
Found at i:146232 original size:15 final size:15
Alignment explanation
Indices: 146212--146247 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
146202 TTAAAAATAT
146212 TTTTTTATAAATTAA
1 TTTTTTATAAATTAA
146227 TTTTTT-TAAATTAA
1 TTTTTTATAAATTAA
146241 TTTTTTA
1 TTTTTTA
146248 AATTTCATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTTATAAATTAA
Found at i:146244 original size:13 final size:14
Alignment explanation
Indices: 146212--146251 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
146202 TTAAAAATAT
146212 TTTTTTATAAATTAA
1 TTTTTT-TAAATTAA
146227 TTTTTTTAAATTAA
1 TTTTTTTAAATTAA
146241 -TTTTTTAAATT
1 TTTTTTTAAATT
146252 TCATACACTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 11 0.44
14 8 0.32
15 6 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTTTTTAAATTAA
Found at i:147869 original size:16 final size:15
Alignment explanation
Indices: 147822--147870 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
147812 ATAATTTACG
147822 TATAATTAAATATTT
1 TATAATTAAATATTT
*
147837 TATGATGTAAATA--T
1 TATAAT-TAAATATTT
147851 TATAATTAAAATATTT
1 TATAATT-AAATATTT
147867 TATA
1 TATA
147871 TTTTATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
13 1 0.04
14 11 0.39
15 5 0.18
16 11 0.39
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (15 bp):
TATAATTAAATATTT
Found at i:147901 original size:18 final size:18
Alignment explanation
Indices: 147880--147914 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
147870 ATTTTATATT
*
147880 AATTTTAATATATTAATA
1 AATTATAATATATTAATA
*
147898 AATTATATTATATTAAT
1 AATTATAATATATTAAT
147915 TATAAAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTATAATATATTAATA
Found at i:147913 original size:32 final size:33
Alignment explanation
Indices: 147873--147944 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 33
147863 ATTTTATATT
* * *
147873 TTATATTAATTTTAATATATTAATA-AATTATA
1 TTATATTAATTATAAAATATTAATATAATTAAA
*
147905 TTATATTAATTATAAAATATTAATATATTTAAA
1 TTATATTAATTATAAAATATTAATATAATTAAA
147938 TTATATT
1 TTATATT
147945 TTATTATTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
32 23 0.66
33 12 0.34
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (33 bp):
TTATATTAATTATAAAATATTAATATAATTAAA
Found at i:149556 original size:15 final size:15
Alignment explanation
Indices: 149516--149557 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
149506 TAGAAAAAGT
149516 TTTTTAATTTT-ATA
1 TTTTTAATTTTAATA
* *
149530 TTATTAAATTTAATA
1 TTTTTAATTTTAATA
*
149545 TTTTTATTTTTAA
1 TTTTTAATTTTAA
149558 AAATTATAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTAATTTTAATA
Found at i:149557 original size:21 final size:20
Alignment explanation
Indices: 149518--149558 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
149508 GAAAAAGTTT
149518 TTTAATTTTATATTATTAAA
1 TTTAATTTTATATTATTAAA
* *
149538 TTTAATATTTTTATTTTTAAA
1 TTTAAT-TTTATATTATTAAA
149559 AATTATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTAATTTTATATTATTAAA
Found at i:149616 original size:23 final size:25
Alignment explanation
Indices: 149557--149616 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 25
149547 TTTATTTTTA
149557 AAAATTATAA--AAAAAATAATATT
1 AAAATTATAATTAAAAAATAATATT
* * *
149580 AAAATTTTATTTAAAAATTAAT-TT
1 AAAATTATAATTAAAAAATAATATT
149604 -AAATTATAATTAA
1 AAAATTATAATTAA
149617 TATTTAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
23 19 0.63
24 2 0.07
25 9 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
AAAATTATAATTAAAAAATAATATT
Found at i:149781 original size:14 final size:14
Alignment explanation
Indices: 149729--149781 Score: 63
Period size: 14 Copynumber: 3.7 Consensus size: 14
149719 TATAATTTTA
*
149729 AAAATATAAAAATT
1 AAAATATATAAATT
149743 AAAATAT-TAAATTT
1 AAAATATATAAA-TT
*
149757 AATATTATATAAATT
1 AA-AATATATAAATT
149772 AAAATATATA
1 AAAATATATA
149782 TTTTTTTAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 3 0.09
14 18 0.55
15 8 0.24
16 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAAATATATAAATT
Found at i:149920 original size:6 final size:6
Alignment explanation
Indices: 149909--149942 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
149899 GTCTCTCTAT
*
149909 TTCTGC TTCTGC TTCTGC TTCTGC TTTTGC TTCT
1 TTCTGC TTCTGC TTCTGC TTCTGC TTCTGC TTCT
149943 TCCTCTGTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.29, G:0.15, T:0.56
Consensus pattern (6 bp):
TTCTGC
Found at i:149949 original size:18 final size:18
Alignment explanation
Indices: 149910--149954 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
149900 TCTCTCTATT
* *
149910 TCTGCTTCTGCTTCTGCT
1 TCTGCTTTTGCTTCTGCC
*
149928 TCTGCTTTTGCTTCTTCC
1 TCTGCTTTTGCTTCTGCC
149946 TCTGTCTTT
1 TCTG-CTTT
149955 GTCTCATCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.00, C:0.31, G:0.13, T:0.56
Consensus pattern (18 bp):
TCTGCTTTTGCTTCTGCC
Found at i:153599 original size:18 final size:18
Alignment explanation
Indices: 153576--153610 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
153566 AAAGATAATG
153576 ATGTAAATTTGTATATCA
1 ATGTAAATTTGTATATCA
153594 ATGTAAATTTGTATATC
1 ATGTAAATTTGTATATC
153611 GATGATTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.46
Consensus pattern (18 bp):
ATGTAAATTTGTATATCA
Found at i:154383 original size:27 final size:27
Alignment explanation
Indices: 154352--154406 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
154342 TCATCATTCT
154352 TTTTAACTAC-CCAAGCTCATAATTACC
1 TTTTAACTACTCC-AGCTCATAATTACC
* *
154379 TTTTAATTACTGCAGCTCATAATTACC
1 TTTTAACTACTCCAGCTCATAATTACC
154406 T
1 T
154407 GCGCTTAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.38
Consensus pattern (27 bp):
TTTTAACTACTCCAGCTCATAATTACC
Found at i:155964 original size:25 final size:25
Alignment explanation
Indices: 155925--155977 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
155915 ATTTTTAAAT
155925 TTTTTATGATATATTCGAAATACATA
1 TTTTTATGATATATTCG-AATACATA
* *
155951 TTTTTAT-ATTTATTCGAATATATA
1 TTTTTATGATATATTCGAATACATA
155975 TTT
1 TTT
155978 GACATATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 10 0.40
25 8 0.32
26 7 0.28
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.55
Consensus pattern (25 bp):
TTTTTATGATATATTCGAATACATA
Found at i:156571 original size:21 final size:21
Alignment explanation
Indices: 156529--156571 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
156519 ATAAAATTTT
* **
156529 TTATAATTTAAATTATTTAAA
1 TTATAATTTAAATAATAAAAA
156550 TTATAATTTAAATAATAAAAA
1 TTATAATTTAAATAATAAAAA
156571 T
1 T
156572 AATTTTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTATAATTTAAATAATAAAAA
Found at i:156611 original size:18 final size:18
Alignment explanation
Indices: 156584--156636 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 18
156574 TTTTTATTTA
*
156584 AATTTAATTATAAATATT
1 AATTTTATTATAAATATT
156602 AATTTTATTAT---T-TT
1 AATTTTATTATAAATATT
* *
156616 AATTTTATTTTAAATAAT
1 AATTTTATTATAAATATT
156634 AAT
1 AAT
156637 AAAAATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
14 12 0.43
15 1 0.04
17 1 0.04
18 14 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AATTTTATTATAAATATT
Found at i:156620 original size:32 final size:31
Alignment explanation
Indices: 156553--156636 Score: 91
Period size: 32 Copynumber: 2.7 Consensus size: 31
156543 ATTTAAATTA
*
156553 TAATTTAAATAATAAA-AATAA-TTTTTATTT
1 TAATTT-AATTATAAATAATAATTTTTTATTT
* *
156583 AAATTTAATTATAAATATTAATTTTATTATTT
1 TAATTTAATTATAAATAATAATTTT-TTATTT
* *
156615 TAATTTTATTTTAAATAATAAT
1 TAATTTAATTATAAATAATAAT
156637 AAAAATATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 8 0.18
30 9 0.20
31 3 0.07
32 24 0.55
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (31 bp):
TAATTTAATTATAAATAATAATTTTTTATTT
Found at i:157624 original size:23 final size:23
Alignment explanation
Indices: 157553--157624 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
157543 AAAAATATAT
* *
157553 ATATATATTTATTA-ATAAAAAAG
1 ATATAAATTTA-TACATTAAAAAG
* ** *
157576 -TTTAAATTTATTTATTAATAAG
1 ATATAAATTTATACATTAAAAAG
*
157598 ATATAAATTTATACATTAAAAAT
1 ATATAAATTTATACATTAAAAAG
157621 ATAT
1 ATAT
157625 TAAACACATA
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
21 1 0.03
22 15 0.41
23 21 0.57
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (23 bp):
ATATAAATTTATACATTAAAAAG
Found at i:165610 original size:12 final size:12
Alignment explanation
Indices: 165575--165613 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
165565 TAAACTTCCA
165575 ATATATATATAG
1 ATATATATATAG
* *
165587 ATAGATAAATAG
1 ATATATATATAG
*
165599 ATATAGATATAG
1 ATATATATATAG
165611 ATA
1 ATA
165614 CAATTTGTAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.13, T:0.33
Consensus pattern (12 bp):
ATATATATATAG
Found at i:169570 original size:2 final size:2
Alignment explanation
Indices: 169563--169587 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
169553 TGTAAATTAA
169563 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 A
169588 GAAGTATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:170455 original size:30 final size:33
Alignment explanation
Indices: 170413--170478 Score: 93
Period size: 30 Copynumber: 2.1 Consensus size: 33
170403 AATGAATACC
170413 TTTTATTTTTTTACTTAAATATTT-TATTA-AT
1 TTTTATTTTTTTACTTAAATATTTATATTATAT
* *
170444 TTTTA-TTTTTTATTTATATATTTATATTATAT
1 TTTTATTTTTTTACTTAAATATTTATATTATAT
170476 TTT
1 TTT
170479 ATTAAATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 16 0.52
31 10 0.32
32 5 0.16
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (33 bp):
TTTTATTTTTTTACTTAAATATTTATATTATAT
Found at i:170473 original size:13 final size:11
Alignment explanation
Indices: 170445--170497 Score: 52
Period size: 12 Copynumber: 4.5 Consensus size: 11
170435 TTTATTAATT
*
170445 TTTATTTTTTA
1 TTTATATTTTA
170456 TTTATATATTTA
1 TTTATAT-TTTA
170468 TATTATATTTTA
1 T-TTATATTTTA
* *
170480 TTAAATAATTTA
1 TT-TATATTTTA
170492 TTTATA
1 TTTATA
170498 AATATAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
11 10 0.29
12 19 0.54
13 6 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTATATTTTA
Found at i:170478 original size:24 final size:23
Alignment explanation
Indices: 170445--170497 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
170435 TTTATTAATT
* *
170445 TTTATTTTTTATT-TATATATTTA
1 TTTATATTTTATTAAATA-ATTTA
170468 TATTATATTTTATTAAATAATTTA
1 T-TTATATTTTATTAAATAATTTA
170492 TTTATA
1 TTTATA
170498 AATATAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 6 0.23
24 17 0.65
25 3 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTATATTTTATTAAATAATTTA
Found at i:170869 original size:13 final size:12
Alignment explanation
Indices: 170851--170890 Score: 55
Period size: 13 Copynumber: 3.3 Consensus size: 12
170841 AATAAGATAT
170851 TAAATTTAAAAA
1 TAAATTTAAAAA
170863 GTAAATTTAAAAA
1 -TAAATTTAAAAA
*
170876 -AAATTTAAAAT
1 TAAATTTAAAAA
170887 TAAA
1 TAAA
170891 ATTCGTACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 10 0.40
12 3 0.12
13 12 0.48
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (12 bp):
TAAATTTAAAAA
Found at i:171638 original size:8 final size:8
Alignment explanation
Indices: 171625--171670 Score: 85
Period size: 8 Copynumber: 5.9 Consensus size: 8
171615 ATAAAATTAT
171625 TATAAAAA
1 TATAAAAA
171633 TATAAAAA
1 TATAAAAA
171641 TATAAAAA
1 TATAAAAA
171649 TATAAAAA
1 TATAAAAA
171657 TATAAAAA
1 TATAAAAA
171665 TA-AAAA
1 TATAAAA
171671 CAAACATGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 4 0.11
8 34 0.89
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
TATAAAAA
Found at i:172750 original size:15 final size:15
Alignment explanation
Indices: 172730--172759 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
172720 TATACGTGAG
172730 GTTGCCAACTGCCAC
1 GTTGCCAACTGCCAC
172745 GTTGCCAACTGCCAC
1 GTTGCCAACTGCCAC
172760 CAGAACTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.40, G:0.20, T:0.20
Consensus pattern (15 bp):
GTTGCCAACTGCCAC
Found at i:175318 original size:2 final size:2
Alignment explanation
Indices: 175313--175346 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
175303 ATATATACAT
175313 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
175347 GTGTCGACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:177579 original size:24 final size:23
Alignment explanation
Indices: 177552--177605 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
177542 TCTTTCTTTA
*
177552 TTCTTTCTCTATT-CATTTTCTGC
1 TTCTTTCTCT-TTACATATTCTGC
*
177575 TTTCTCTCTCTTTACATATTCTGC
1 -TTCTTTCTCTTTACATATTCTGC
177599 TTCTTTC
1 TTCTTTC
177606 ACCCTCGAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.09, C:0.28, G:0.04, T:0.59
Consensus pattern (23 bp):
TTCTTTCTCTTTACATATTCTGC
Found at i:185189 original size:14 final size:14
Alignment explanation
Indices: 185170--185203 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
185160 CAAAAATAAG
185170 ATAAATAGTAAAAA
1 ATAAATAGTAAAAA
185184 ATAAATAGTAAAAA
1 ATAAATAGTAAAAA
*
185198 TTAAAT
1 ATAAAT
185204 TTTATAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (14 bp):
ATAAATAGTAAAAA
Found at i:185288 original size:13 final size:13
Alignment explanation
Indices: 185270--185296 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
185260 TAATAATTTT
185270 AAATATAATATAA
1 AAATATAATATAA
185283 AAATATAATATAA
1 AAATATAATATAA
185296 A
1 A
185297 TACGATATAT
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATATAATATAA
Found at i:185331 original size:20 final size:20
Alignment explanation
Indices: 185236--185337 Score: 70
Period size: 20 Copynumber: 5.1 Consensus size: 20
185226 TATATTATTA
185236 ATTAAAATATTAATATATATAA-
1 ATTAAAATATT-ATA-ATA-AAT
*
185258 ATTAATAATTTTA-AATATAAT
1 ATTAA-AATATTATAATA-AAT
* *
185279 ATAAAAATATAAT-ATAAAT
1 ATTAAAATATTATAATAAAT
** *
185298 A-CGATATATT-TAATAAAT
1 ATTAAAATATTATAATAAAT
185316 ATTAAAATATTATAATAAAT
1 ATTAAAATATTATAATAAAT
185336 AT
1 AT
185338 GATATATTTA
Statistics
Matches: 63, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
17 1 0.02
18 12 0.19
19 10 0.16
20 24 0.38
21 5 0.08
22 6 0.10
23 5 0.08
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (20 bp):
ATTAAAATATTATAATAAAT
Found at i:185353 original size:20 final size:19
Alignment explanation
Indices: 185292--185349 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 19
185282 AAAATATAAT
*
185292 ATAAATACGATATATTT-A
1 ATAAATATGATATATTTAA
* *
185310 ATAAATATTA-AAATATTATA
1 ATAAATATGATATAT-TTA-A
185330 ATAAATATGATATATTTAA
1 ATAAATATGATATATTTAA
185349 A
1 A
185350 ATAATTTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
17 3 0.10
18 10 0.32
19 2 0.06
20 13 0.42
21 3 0.10
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (19 bp):
ATAAATATGATATATTTAA
Found at i:185353 original size:40 final size:39
Alignment explanation
Indices: 185267--185349 Score: 116
Period size: 38 Copynumber: 2.2 Consensus size: 39
185257 AATTAATAAT
* *
185267 TTTAAATATAATATAAAAATATAAT-ATAAATACGATATA
1 TTTAAATA-AATATAAAAATATTATAATAAATATGATATA
*
185306 TTT-AATAAATATTAAAATATTATAATAAATATGATATA
1 TTTAAATAAATATAAAAATATTATAATAAATATGATATA
185344 TTTAAA
1 TTTAAA
185350 ATAATTTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
37 14 0.36
38 20 0.51
39 5 0.13
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (39 bp):
TTTAAATAAATATAAAAATATTATAATAAATATGATATA
Found at i:190687 original size:12 final size:12
Alignment explanation
Indices: 190672--190696 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
190662 GAAAAATATA
190672 TTTCTCTCTCTC
1 TTTCTCTCTCTC
190684 TTTCTCTCTCTC
1 TTTCTCTCTCTC
190696 T
1 T
190697 CTCTGCTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTCTCTCTCTC
Found at i:192150 original size:24 final size:23
Alignment explanation
Indices: 192114--192165 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
192104 GGCTTAACCC
192114 ATTTTATAATTATATAATAAATTA
1 ATTTTATAATTATATAATAAA-TA
** * *
192138 ATTTTATTTTTATATTATATATA
1 ATTTTATAATTATATAATAAATA
192161 ATTTT
1 ATTTT
192166 TATCATATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
ATTTTATAATTATATAATAAATA
Found at i:192187 original size:14 final size:14
Alignment explanation
Indices: 192170--192217 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
192160 AATTTTTATC
* *
192170 ATATAAAGAATAAA
1 ATATAAATATTAAA
*
192184 ATATATAATATTATA
1 ATATA-AATATTAAA
192199 ATATAAATATTAAA
1 ATATAAATATTAAA
192213 ATATA
1 ATATA
192218 TATTAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (14 bp):
ATATAAATATTAAA
Found at i:192203 original size:29 final size:30
Alignment explanation
Indices: 192154--192219 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
192144 TTTTTATATT
* *
192154 ATATATAATTTTTATCATATAAAGAATAAA
1 ATATATAATTATTATAATATAAAGAATAAA
* *
192184 ATATATAA-TATTATAATATAAATATTAAA
1 ATATATAATTATTATAATATAAAGAATAAA
192213 ATATATA
1 ATATATA
192220 TTAATTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 24 0.75
30 8 0.25
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (30 bp):
ATATATAATTATTATAATATAAAGAATAAA
Found at i:192222 original size:12 final size:13
Alignment explanation
Indices: 192182--192223 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
192172 ATAAAGAATA
192182 AAATATATAATATT
1 AAATATAT-ATATT
*
192196 ATAATATAAATATT
1 A-AATATATATATT
192210 AAA-ATATATATT
1 AAATATATATATT
192222 AA
1 AA
192224 TTTATTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 10 0.40
13 2 0.08
14 7 0.28
15 6 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATATATATATT
Found at i:192768 original size:26 final size:26
Alignment explanation
Indices: 192735--192804 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 26
192725 ATAAATAAAT
192735 TAAT-TTTTTATATAATAAAAAATTA
1 TAATATTTTTATATAATAAAAAATTA
* *
192760 TAATATTTTT-TAATAATAAAAATTTT
1 TAATATTTTTAT-ATAATAAAAAATTA
*
192786 TAA-ATTTTATAAATAATAA
1 TAATATTTT-TATATAATAA
192805 TTACAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
25 10 0.26
26 28 0.74
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TAATATTTTTATATAATAAAAAATTA
Found at i:192800 original size:23 final size:25
Alignment explanation
Indices: 192735--192806 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
192725 ATAAATAAAT
* *
192735 TAATTTTTTATATAATAAAAAATTA
1 TAATATTTTATATAATAAAAATTTA
* *
192760 TAATATTTTTTAATAATAAAAATTTT
1 TAATATTTTAT-ATAATAAAAATTTA
*
192786 TAA-ATTTTATA-AATAATAATT
1 TAATATTTTATATAATAAAAATT
192807 ACAAAATAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
23 9 0.22
24 1 0.03
25 15 0.38
26 15 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TAATATTTTATATAATAAAAATTTA
Found at i:193348 original size:13 final size:13
Alignment explanation
Indices: 193332--193357 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
193322 TTTAAAAAAA
193332 TTATTTTATTATT
1 TTATTTTATTATT
193345 TTATTTTATTATT
1 TTATTTTATTATT
193358 CTGATATATG
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:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTTTATTATT
Found at i:193502 original size:25 final size:24
Alignment explanation
Indices: 193454--193507 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
193444 ATATATCAAA
*
193454 ATTTAAAATATAATTTAATAATAT
1 ATTTAAAATATAAATTAATAATAT
*
193478 ATTTAACATATTAAATTAAT--TAT
1 ATTTAAAATA-TAAATTAATAATAT
193501 ATTTAAA
1 ATTTAAA
193508 TTCTATATCG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 9 0.35
24 9 0.35
25 8 0.31
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATTTAAAATATAAATTAATAATAT
Found at i:193973 original size:27 final size:26
Alignment explanation
Indices: 193919--194001 Score: 76
Period size: 27 Copynumber: 3.1 Consensus size: 26
193909 ATAATTAATC
* *
193919 AATTTGATTAAATTAATTTTATTTTA
1 AATTTGATTAAATTAATTTTAATATA
* *
193945 AATTTGATGTTAATTGATTTTAATATAA
1 AATTTGAT-TAAATTAATTTTAATAT-A
** *
193973 AATTAAATTAAATTAATTTTTAATTTA
1 AATTTGATTAAATTAA-TTTTAATATA
194000 AA
1 AA
194002 AAAATCGAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
26 8 0.18
27 22 0.49
28 15 0.33
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (26 bp):
AATTTGATTAAATTAATTTTAATATA
Found at i:195221 original size:17 final size:16
Alignment explanation
Indices: 195193--195226 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
195183 ATAATAGGTA
195193 TATTAAATAATTATAT
1 TATTAAATAATTATAT
195209 TATTAATATAATTATAT
1 TATTAA-ATAATTATAT
195226 T
1 T
195227 TATATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTAAATAATTATAT
Found at i:195231 original size:14 final size:14
Alignment explanation
Indices: 195199--195255 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
195189 GGTATATTAA
195199 ATAATTATATTATTAAT
1 ATAATTATA-T-TT-AT
195216 ATAATTATATTTAT
1 ATAATTATATTTAT
195230 AT-ATTATATTTAT
1 ATAATTATATTTAT
*
195243 -TATATTATTTTTA
1 ATA-ATTATATTTA
195256 ATTAAAAGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
12 1 0.03
13 11 0.30
14 13 0.35
15 2 0.05
16 1 0.03
17 9 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
ATAATTATATTTAT
Found at i:195234 original size:22 final size:23
Alignment explanation
Indices: 195191--195248 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
195181 ATATAATAGG
*
195191 TATATTAA--ATAATTATATTAT
1 TATATTAATTATATTTATATTAT
195212 TA-ATATAATTATATTTATA-TAT
1 TATAT-TAATTATATTTATATTAT
*
195234 TATATTTATTATATT
1 TATATTAATTATATT
195249 ATTTTTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 2 0.06
21 5 0.16
22 14 0.45
23 10 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TATATTAATTATATTTATATTAT
Found at i:195237 original size:5 final size:5
Alignment explanation
Indices: 195202--195250 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
195192 ATATTAAATA
*
195202 ATTAT ATTATT AATAT AATTAT ATT-T A-TAT ATTAT ATT-T ATTAT ATTAT
1 ATTAT ATTA-T ATTAT -ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
195251 TTTTAATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
3 1 0.03
4 8 0.22
5 20 0.54
6 8 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:195882 original size:18 final size:18
Alignment explanation
Indices: 195845--195883 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
195835 AGAAAAAACG
* * *
195845 TTAAAAATATAATAACAA
1 TTAAAAATAAAAAAAAAA
195863 TTAAAAATAAAAAAAAAA
1 TTAAAAATAAAAAAAAAA
195881 TTA
1 TTA
195884 GAGGGAGTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
TTAAAAATAAAAAAAAAA
Found at i:198234 original size:16 final size:15
Alignment explanation
Indices: 198215--198244 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
198205 ATTATATCAA
198215 TTAAATATATTATTTT
1 TTAAATATA-TATTTT
198231 TTAAATATATATTT
1 TTAAATATATATTT
198245 AATGAGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTAAATATATATTTT
Found at i:198353 original size:25 final size:26
Alignment explanation
Indices: 198309--198377 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 26
198299 AAATTGATAT
* *
198309 AAAATTTATATAAATAAAATATAAAAT-
1 AAAATATAT-TAAATTAAATA-AAAATA
*
198336 AAAATA-ATTAAATTAAATAAATATA
1 AAAATATATTAAATTAAATAAAAATA
*
198361 AAAATATATAAAATTAA
1 AAAATATATTAAATTAA
198378 TTTAATTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 4 0.11
25 16 0.44
26 11 0.31
27 5 0.14
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (26 bp):
AAAATATATTAAATTAAATAAAAATA
Found at i:198510 original size:2 final size:2
Alignment explanation
Indices: 198503--198536 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
198493 TGAGGATAAA
*
198503 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
198537 TTTATGACAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:199540 original size:20 final size:20
Alignment explanation
Indices: 199500--199540 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
199490 ACTAAATAAT
*
199500 AATTAAATTAAATCATCTTA
1 AATTAAATTAAATAATCTTA
199520 AATTAAATTCAAATAAT-TTA
1 AATTAAATT-AAATAATCTTA
199540 A
1 A
199541 CACTTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (20 bp):
AATTAAATTAAATAATCTTA
Found at i:203649 original size:28 final size:28
Alignment explanation
Indices: 203607--203663 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
203597 AAGATAAGTG
* *
203607 TTACATGATGAGAGCCACTTCTAAAATC
1 TTACATAATGAGAGCCACATCTAAAATC
*
203635 TTACATAATGGGAGCCACATCTAAAATC
1 TTACATAATGAGAGCCACATCTAAAATC
203663 T
1 T
203664 CAGTGCCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (28 bp):
TTACATAATGAGAGCCACATCTAAAATC
Found at i:204394 original size:23 final size:23
Alignment explanation
Indices: 204365--204413 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
204355 AAAATTTTTA
*
204365 AATATAAATAAAAATAATTTTATTT
1 AATA-AAAT-AAAATAATTTAATTT
*
204390 AATAAAATAATATAATTTAATTT
1 AATAAAATAAAATAATTTAATTT
204413 A
1 A
204414 TTAATAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 14 0.64
24 4 0.18
25 4 0.18
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AATAAAATAAAATAATTTAATTT
Found at i:204398 original size:18 final size:18
Alignment explanation
Indices: 204375--204410 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
204365 AATATAAATA
* *
204375 AAAATAATTTTATTTAAT
1 AAAATAATATAATTTAAT
204393 AAAATAATATAATTTAAT
1 AAAATAATATAATTTAAT
204411 TTATTAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAATAATATAATTTAAT
Done.