Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 20 of 77
Found at i:3696021 original size:4 final size:4
Alignment explanation
Indices: 3696014--3696041 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
3696004 TGTGTATATA
3696014 TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG
3696042 ATTTAGATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:3697570 original size:3 final size:3
Alignment explanation
Indices: 3697562--3697611 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
3697552 CCAAACACCG
3697562 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3697610 TA
1 TA
3697612 TACATGACCC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3697838 original size:2 final size:2
Alignment explanation
Indices: 3697800--3697826 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3697790 AGCTATTACG
3697800 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 A
3697827 AGAAAAATAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3704403 original size:17 final size:16
Alignment explanation
Indices: 3704381--3704412 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
3704371 TTCATTTATT
3704381 ATTATTATAATATAAAA
1 ATTATTATAA-ATAAAA
3704398 ATTATTATAAATAAA
1 ATTATTATAAATAAA
3704413 CTGTTTTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTATTATAAATAAAA
Found at i:3719469 original size:8 final size:8
Alignment explanation
Indices: 3719456--3719493 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
3719446 AGGACATGTG
*
3719456 TGTTTTGA
1 TGTTTTAA
3719464 TGTTTTAA
1 TGTTTTAA
*
3719472 TGTTTTGA
1 TGTTTTAA
3719480 TGTTTTAA
1 TGTTTTAA
3719488 TGTTTT
1 TGTTTT
3719494 TGTTTGAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.16, C:0.00, G:0.18, T:0.66
Consensus pattern (8 bp):
TGTTTTAA
Found at i:3719477 original size:16 final size:16
Alignment explanation
Indices: 3719456--3719493 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
3719446 AGGACATGTG
3719456 TGTTTTGATGTTTTAA
1 TGTTTTGATGTTTTAA
3719472 TGTTTTGATGTTTTAA
1 TGTTTTGATGTTTTAA
3719488 TGTTTT
1 TGTTTT
3719494 TGTTTGAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.16, C:0.00, G:0.18, T:0.66
Consensus pattern (16 bp):
TGTTTTGATGTTTTAA
Found at i:3720296 original size:4 final size:4
Alignment explanation
Indices: 3720289--3720315 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
3720279 ATTAATTTCT
3720289 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
3720316 TGTTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:3721450 original size:17 final size:16
Alignment explanation
Indices: 3721406--3721458 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 16
3721396 AGGTTTGTCC
*
3721406 TTTTCTTTTTTGTTTA
1 TTTTTTTTTTTGTTTA
*
3721422 TTTTTTGTTTTTGATTTT
1 TTTTTT-TTTTTG-TTTA
3721440 TTTTATTTTTTATGTTTA
1 TTTT-TTTTTT-TGTTTA
3721458 T
1 T
3721459 ATATATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 5 0.17
17 6 0.20
18 15 0.50
19 4 0.13
ACGTcount: A:0.09, C:0.02, G:0.08, T:0.81
Consensus pattern (16 bp):
TTTTTTTTTTTGTTTA
Found at i:3721658 original size:21 final size:20
Alignment explanation
Indices: 3721609--3721687 Score: 67
Period size: 21 Copynumber: 4.0 Consensus size: 20
3721599 ATGATAATTT
3721609 ATATATTATATTATTGCATG
1 ATATATTATATTATTGCATG
* *
3721629 ATA-ACTTATGTTTATTGTATG
1 ATATA-TTAT-ATTATTGCATG
*
3721650 ATATA-T-TATTATTACATG
1 ATATATTATATTATTGCATG
*
3721668 ATATAATATTATT-TTGCATG
1 ATATATTA-TATTATTGCATG
3721688 GTGTTCTTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
18 13 0.28
19 3 0.06
20 14 0.30
21 16 0.34
22 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (20 bp):
ATATATTATATTATTGCATG
Found at i:3733216 original size:16 final size:16
Alignment explanation
Indices: 3733195--3733230 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
3733185 GATATGTGTG
3733195 TTTTGATGTTTTAATA
1 TTTTGATGTTTTAATA
3733211 TTTTGATGTTTTAATA
1 TTTTGATGTTTTAATA
3733227 TTTT
1 TTTT
3733231 TGTTTGAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (16 bp):
TTTTGATGTTTTAATA
Found at i:3735143 original size:17 final size:17
Alignment explanation
Indices: 3735123--3735161 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
3735113 GTCCTTTTCT
*
3735123 TTTTTG-TTTATTTTTTG
1 TTTTTGATTT-TTTTTTA
3735140 TTTTTGATTTTTTTTTA
1 TTTTTGATTTTTTTTTA
3735157 TTTTT
1 TTTTT
3735162 TTATGTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (17 bp):
TTTTTGATTTTTTTTTA
Found at i:3735375 original size:21 final size:20
Alignment explanation
Indices: 3735326--3735404 Score: 67
Period size: 21 Copynumber: 4.0 Consensus size: 20
3735316 ATGATAATTT
3735326 ATATATTATATTATTGCATG
1 ATATATTATATTATTGCATG
* *
3735346 ATA-ACTTATGTTTATTGTATG
1 ATATA-TTAT-ATTATTGCATG
*
3735367 ATATA-T-TATTATTACATG
1 ATATATTATATTATTGCATG
*
3735385 ATATAATATTATT-TTGCATG
1 ATATATTA-TATTATTGCATG
3735405 GTGTTCTTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
18 13 0.28
19 3 0.06
20 14 0.30
21 16 0.34
22 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (20 bp):
ATATATTATATTATTGCATG
Found at i:3745707 original size:15 final size:18
Alignment explanation
Indices: 3745674--3745745 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 18
3745664 ATAATATTTT
3745674 TATTATTTTAATAATTAA
1 TATTATTTTAATAATTAA
*
3745692 TATTATTTAATATAATATTAA
1 TATTATTTTA-AT-A-ATTAA
3745713 TATTATTTTAATAA-T-A
1 TATTATTTTAATAATTAA
*
3745729 TGAATATTTTAATAATT
1 T-ATTATTTTAATAATT
3745746 TTTTATTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
16 2 0.04
17 13 0.28
18 11 0.24
19 3 0.07
20 3 0.07
21 14 0.30
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (18 bp):
TATTATTTTAATAATTAA
Found at i:3745718 original size:39 final size:38
Alignment explanation
Indices: 3745650--3745736 Score: 113
Period size: 39 Copynumber: 2.2 Consensus size: 38
3745640 AATAATAAAT
**
3745650 ATTAATA-TACTTAAATAATATTTTTATTATTTTAATA
1 ATTAATATTACTTAAATAATATTAATATTATTTTAATA
*
3745687 ATTAATATTATTTAATATAATATTAATATTATTTTAATA
1 ATTAATATTACTTAA-ATAATATTAATATTATTTTAATA
3745726 ATATGAATATT
1 AT-T-AATATT
3745737 TTAATAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
37 7 0.16
38 6 0.14
39 23 0.53
40 1 0.02
41 6 0.14
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (38 bp):
ATTAATATTACTTAAATAATATTAATATTATTTTAATA
Found at i:3745722 original size:22 final size:22
Alignment explanation
Indices: 3745682--3745725 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
3745672 TTTATTATTT
3745682 TAATAATTAATATTATTTAATA
1 TAATAATTAATATTATTTAATA
3745704 TAAT-ATTAATATTATTTTAATA
1 TAATAATTAATATTA-TTTAATA
3745726 ATATGAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TAATAATTAATATTATTTAATA
Found at i:3745934 original size:21 final size:19
Alignment explanation
Indices: 3745910--3745966 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
3745900 TATTTTTAAT
*
3745910 ATTTTAATATTGATTATTACA
1 ATTTAAATATT-ATT-TTACA
3745931 ATTTAAATATTATTTTACTA
1 ATTTAAATATTATTTTAC-A
**
3745951 ATAAAAATA-TATTTTA
1 ATTTAAATATTATTTTA
3745967 ATAATAGTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 11 0.34
20 11 0.34
21 10 0.31
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (19 bp):
ATTTAAATATTATTTTACA
Found at i:3745960 original size:20 final size:19
Alignment explanation
Indices: 3745935--3746001 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
3745925 ATTACAATTT
*
3745935 AAATATTATTTTACTAATAA
1 AAATA-TATTTTAATAATAA
*
3745955 AAATATATTTTAATAATAG
1 AAATATATTTTAATAATAA
* *
3745974 TAATACTATTTTAAATATTATA
1 AAATA-TATTTT-AATAATA-A
3745996 AAATAT
1 AAATAT
3746002 TAATATAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 16 0.42
20 11 0.29
21 7 0.18
22 4 0.11
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (19 bp):
AAATATATTTTAATAATAA
Found at i:3745963 original size:19 final size:20
Alignment explanation
Indices: 3745935--3745987 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
3745925 ATTACAATTT
* *
3745935 AAATATTATTTTACTAATAA
1 AAATACTATTTTAATAATAA
*
3745955 AAATA-TATTTTAATAATAG
1 AAATACTATTTTAATAATAA
*
3745974 TAATACTATTTTAA
1 AAATACTATTTTAA
3745988 ATATTATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (20 bp):
AAATACTATTTTAATAATAA
Found at i:3746157 original size:22 final size:25
Alignment explanation
Indices: 3746087--3746143 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
3746077 AATAAATTTT
* *
3746087 TAATATTAATAAATA-TAGTAATAAA
1 TAAT-TTAATATATATTATTAATAAA
3746112 TAATTTCAATATATATTATTAATAAA
1 TAATTT-AATATATATTATTAATAAA
3746138 TAATTT
1 TAATTT
3746144 TTAATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 2 0.07
25 11 0.39
26 15 0.54
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
TAATTTAATATATATTATTAATAAA
Found at i:3752594 original size:12 final size:12
Alignment explanation
Indices: 3752561--3752594 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
3752551 CTTATAGTTT
* *
3752561 TTTACTTGTGCT
1 TTTACTTGTTCA
3752573 TTTACTTGTTCA
1 TTTACTTGTTCA
3752585 TTTACTTGTT
1 TTTACTTGTT
3752595 TGTGTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.12, C:0.15, G:0.12, T:0.62
Consensus pattern (12 bp):
TTTACTTGTTCA
Found at i:3754260 original size:11 final size:11
Alignment explanation
Indices: 3754236--3754265 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
3754226 TTTTATATCT
3754236 AAATATATTAA
1 AAATATATTAA
3754247 AAATCATATTAA
1 AAAT-ATATTAA
3754259 AAATATA
1 AAATATA
3754266 AAAATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATATATTAA
Found at i:3754264 original size:21 final size:21
Alignment explanation
Indices: 3754230--3754270 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
3754220 TACTTATTTT
*
3754230 ATATCTAAATATATTAAAAATC
1 ATATCTAAAAATA-TAAAAATC
3754252 ATAT-TAAAAATATAAAAAT
1 ATATCTAAAAATATAAAAAT
3754271 AAAAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (21 bp):
ATATCTAAAAATATAAAAATC
Found at i:3758183 original size:45 final size:45
Alignment explanation
Indices: 3758134--3758275 Score: 151
Period size: 45 Copynumber: 3.2 Consensus size: 45
3758124 AGTCATATAA
* * * *
3758134 ATCATGCCTAAAAGACTTGGCAAATATACTCGGAGGACTTGAAAG
1 ATCATGCCTAAAGGACTTAGCAATTATACTCGAAGGACTTGAAAG
* * ** * *
3758179 ATCATGCTTAGAGGACTTAGTGATTATGCTCGAAGGACTTAAAAG
1 ATCATGCCTAAAGGACTTAGCAATTATACTCGAAGGACTTGAAAG
* * *
3758224 ATCATGCC-AAGAGGACTTACCAATTATACTTGAAGGACTTGAAAT
1 ATCATGCCTAA-AGGACTTAGCAATTATACTCGAAGGACTTGAAAG
3758269 ATCATGC
1 ATCATGC
3758276 TCGAAAGTTT
Statistics
Matches: 77, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
44 1 0.01
45 76 0.99
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (45 bp):
ATCATGCCTAAAGGACTTAGCAATTATACTCGAAGGACTTGAAAG
Found at i:3758194 original size:23 final size:21
Alignment explanation
Indices: 3758166--3758242 Score: 64
Period size: 23 Copynumber: 3.4 Consensus size: 21
3758156 AATATACTCG
3758166 GAGGACTTGAAAGATCATGCTTA
1 GAGGACTT-AAAGATCATGC-TA
** * *
3758189 GAGGACTTAGTGATTATGCTC
1 GAGGACTTAAAGATCATGCTA
*
3758210 GAAGGACTTAAAAGATCATGCCAA
1 G-AGGACTT-AAAGATCATG-CTA
3758234 GAGGACTTA
1 GAGGACTTA
3758243 CCAATTATAC
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
21 2 0.05
22 16 0.38
23 22 0.52
24 2 0.05
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (21 bp):
GAGGACTTAAAGATCATGCTA
Found at i:3759651 original size:12 final size:11
Alignment explanation
Indices: 3759630--3759681 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
3759620 CCTTTTCATC
3759630 TTTTTCCTTTT
1 TTTTTCCTTTT
3759641 TTTTTCACTTTT
1 TTTTTC-CTTTT
*
3759653 TTCATTT-TTTTT
1 TT--TTTCCTTTT
*
3759665 TTTTTGCTTTT
1 TTTTTCCTTTT
3759676 TTTTTC
1 TTTTTC
3759682 TTGCATGAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 3 0.09
11 15 0.44
12 13 0.38
14 3 0.09
ACGTcount: A:0.04, C:0.13, G:0.02, T:0.81
Consensus pattern (11 bp):
TTTTTCCTTTT
Found at i:3764980 original size:17 final size:17
Alignment explanation
Indices: 3764955--3765007 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
3764945 GAAATAGAAT
3764955 AGATAAATGAAAAAAAA
1 AGATAAATGAAAAAAAA
*
3764972 AGCTAAATGAAAAACAAA
1 AGATAAATGAAAAA-AAA
*
3764990 TGATAAA-GAAAAGAAAA
1 AGATAAATGAAAA-AAAA
3765007 A
1 A
3765008 TACCAAACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 21 0.70
18 9 0.30
ACGTcount: A:0.72, C:0.04, G:0.13, T:0.11
Consensus pattern (17 bp):
AGATAAATGAAAAAAAA
Found at i:3765987 original size:17 final size:17
Alignment explanation
Indices: 3765967--3765999 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3765957 TTAGATAAAC
3765967 AATTAAACAA-ATAAATT
1 AATTAAA-AAGATAAATT
3765984 AATTAAAAAGATAAAT
1 AATTAAAAAGATAAAT
3766000 CAACATGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (17 bp):
AATTAAAAAGATAAATT
Found at i:3773506 original size:16 final size:16
Alignment explanation
Indices: 3773485--3773520 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
3773475 GATATGTGTG
3773485 TTTTGATGTTTTAATA
1 TTTTGATGTTTTAATA
3773501 TTTTGATGTTTTAATA
1 TTTTGATGTTTTAATA
3773517 TTTT
1 TTTT
3773521 TGTTTGAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (16 bp):
TTTTGATGTTTTAATA
Found at i:3775439 original size:17 final size:17
Alignment explanation
Indices: 3775414--3775457 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
3775404 ATGTTTGTCC
*
3775414 TTTTCTTTTTG-TTTATT
1 TTTTATTTTTGATTT-TT
*
3775431 TTTTGTTTTTGATTTTT
1 TTTTATTTTTGATTTTT
3775448 TTTTATTTTT
1 TTTTATTTTT
3775458 TTATGTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 21 0.88
18 3 0.12
ACGTcount: A:0.07, C:0.02, G:0.07, T:0.84
Consensus pattern (17 bp):
TTTTATTTTTGATTTTT
Found at i:3775665 original size:21 final size:20
Alignment explanation
Indices: 3775616--3775694 Score: 67
Period size: 21 Copynumber: 4.0 Consensus size: 20
3775606 ATGATAATTT
3775616 ATATATTATATTATTGCATG
1 ATATATTATATTATTGCATG
* *
3775636 ATA-ACTTATGTTTATTGTATG
1 ATATA-TTAT-ATTATTGCATG
*
3775657 ATATA-T-TATTATTACATG
1 ATATATTATATTATTGCATG
*
3775675 ATATAATATTATT-TTGCATG
1 ATATATTA-TATTATTGCATG
3775695 GTGTTCTTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
18 13 0.28
19 3 0.06
20 14 0.30
21 16 0.34
22 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (20 bp):
ATATATTATATTATTGCATG
Found at i:3785913 original size:15 final size:18
Alignment explanation
Indices: 3785880--3785951 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 18
3785870 ATAATATTTT
3785880 TATTATTTTAATAATTAA
1 TATTATTTTAATAATTAA
*
3785898 TATTATTTAATATAATATTAA
1 TATTATTTTA-AT-A-ATTAA
3785919 TATTATTTTAATAA-T-A
1 TATTATTTTAATAATTAA
*
3785935 TGAATATTTTAATAATT
1 T-ATTATTTTAATAATT
3785952 TTTTATTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
16 2 0.04
17 13 0.28
18 11 0.24
19 3 0.07
20 3 0.07
21 14 0.30
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (18 bp):
TATTATTTTAATAATTAA
Found at i:3785924 original size:39 final size:38
Alignment explanation
Indices: 3785856--3785942 Score: 113
Period size: 39 Copynumber: 2.2 Consensus size: 38
3785846 AATAATAAAT
**
3785856 ATTAATA-TACTTAAATAATATTTTTATTATTTTAATA
1 ATTAATATTACTTAAATAATATTAATATTATTTTAATA
*
3785893 ATTAATATTATTTAATATAATATTAATATTATTTTAATA
1 ATTAATATTACTTAA-ATAATATTAATATTATTTTAATA
3785932 ATATGAATATT
1 AT-T-AATATT
3785943 TTAATAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
37 7 0.16
38 6 0.14
39 23 0.53
40 1 0.02
41 6 0.14
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (38 bp):
ATTAATATTACTTAAATAATATTAATATTATTTTAATA
Found at i:3785928 original size:22 final size:22
Alignment explanation
Indices: 3785888--3785931 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
3785878 TTTATTATTT
3785888 TAATAATTAATATTATTTAATA
1 TAATAATTAATATTATTTAATA
3785910 TAAT-ATTAATATTATTTTAATA
1 TAATAATTAATATTA-TTTAATA
3785932 ATATGAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TAATAATTAATATTATTTAATA
Found at i:3786139 original size:21 final size:19
Alignment explanation
Indices: 3786087--3786156 Score: 63
Period size: 21 Copynumber: 3.6 Consensus size: 19
3786077 ATAGAATATA
* *
3786087 ATTATTTTAATAGTATAAAT
1 ATTATTTTACTA-TTTAAAT
* *
3786107 A-T-TTTTAATATTTTAAT
1 ATTATTTTACTATTTAAAT
3786124 ATTGATTATTACTATTTAAAT
1 ATT-ATT-TTACTATTTAAAT
3786145 ATTATTTTACTA
1 ATTATTTTACTA
3786157 ATAAAAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
17 6 0.14
18 9 0.21
19 7 0.17
20 6 0.14
21 14 0.33
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
ATTATTTTACTATTTAAAT
Found at i:3786166 original size:20 final size:19
Alignment explanation
Indices: 3786141--3786207 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
3786131 ATTACTATTT
*
3786141 AAATATTATTTTACTAATAA
1 AAATA-TATTTTAATAATAA
*
3786161 AAATATATTTTAATAATAG
1 AAATATATTTTAATAATAA
* *
3786180 TAATACTATTTTAAATATTATA
1 AAATA-TATTTT-AATAATA-A
3786202 AAATAT
1 AAATAT
3786208 TAATATAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 16 0.42
20 11 0.29
21 7 0.18
22 4 0.11
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (19 bp):
AAATATATTTTAATAATAA
Found at i:3786169 original size:19 final size:20
Alignment explanation
Indices: 3786141--3786193 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
3786131 ATTACTATTT
* *
3786141 AAATATTATTTTACTAATAA
1 AAATACTATTTTAATAATAA
*
3786161 AAATA-TATTTTAATAATAG
1 AAATACTATTTTAATAATAA
*
3786180 TAATACTATTTTAA
1 AAATACTATTTTAA
3786194 ATATTATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (20 bp):
AAATACTATTTTAATAATAA
Found at i:3786364 original size:22 final size:25
Alignment explanation
Indices: 3786294--3786350 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
3786284 ATAAAATTTT
* *
3786294 TAATATTAATAAATA-TAGTAATAAA
1 TAAT-TTAATATATATTATTAATAAA
3786319 TAATTTCAATATATATTATTAATAAA
1 TAATTT-AATATATATTATTAATAAA
3786345 TAATTT
1 TAATTT
3786351 TTAATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 2 0.07
25 11 0.39
26 15 0.54
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
TAATTTAATATATATTATTAATAAA
Found at i:3788352 original size:22 final size:22
Alignment explanation
Indices: 3788327--3788381 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
3788317 CTTTAGGGTT
3788327 GATCAATCACAAAGTAAGCCGA
1 GATCAATCACAAAGTAAGCCGA
3788349 GATCAATCACAAAGTAAGCCGA
1 GATCAATCACAAAGTAAGCCGA
3788371 GA-CAATC-CAAA
1 GATCAATCACAAA
3788382 ATCTAAACCC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.12
21 5 0.15
22 24 0.73
ACGTcount: A:0.47, C:0.24, G:0.16, T:0.13
Consensus pattern (22 bp):
GATCAATCACAAAGTAAGCCGA
Found at i:3789147 original size:13 final size:13
Alignment explanation
Indices: 3789129--3789154 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3789119 TCTTTATTGT
3789129 TAAAGCTAAACTA
1 TAAAGCTAAACTA
3789142 TAAAGCTAAACTA
1 TAAAGCTAAACTA
3789155 CAAATTAGGA
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:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (13 bp):
TAAAGCTAAACTA
Found at i:3794430 original size:10 final size:10
Alignment explanation
Indices: 3794410--3794453 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
3794400 AAGAACCAAA
3794410 TTATATATTT
1 TTATATATTT
3794420 TTAT-TAGTTT
1 TTATATA-TTT
3794430 TTATATATTT
1 TTATATATTT
*
3794440 TTA-AAATTT
1 TTATATATTT
3794449 TTATA
1 TTATA
3794454 AAATAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
9 10 0.33
10 18 0.60
11 2 0.07
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (10 bp):
TTATATATTT
Found at i:3794450 original size:20 final size:20
Alignment explanation
Indices: 3794410--3794453 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
3794400 AAGAACCAAA
**
3794410 TTATATATTTTTATTAGTTT
1 TTATATATTTTTAAAAGTTT
3794430 TTATATATTTTTAAAA-TTT
1 TTATATATTTTTAAAAGTTT
3794449 TTATA
1 TTATA
3794454 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TTATATATTTTTAAAAGTTT
Found at i:3794508 original size:12 final size:11
Alignment explanation
Indices: 3794479--3794526 Score: 55
Period size: 10 Copynumber: 4.5 Consensus size: 11
3794469 TTTTATATCT
*
3794479 AAATATATT-T
1 AAATATATTAA
3794489 AAATATATTAA
1 AAATATATTAA
3794500 AAATCATATTAA
1 AAAT-ATATTAA
*
3794512 AAAAATA-TAA
1 AAATATATTAA
3794522 AAATA
1 AAATA
3794527 AAAATTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
10 16 0.48
11 7 0.21
12 10 0.30
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATATATTAA
Found at i:3798355 original size:67 final size:66
Alignment explanation
Indices: 3798284--3798475 Score: 197
Period size: 67 Copynumber: 2.9 Consensus size: 66
3798274 AGGAATTATC
* * * *
3798284 AATCATGCTCGGAGGACTTGGTGATTATACCTGGATGACTTGAAAGATCATGCTCAGAAGTCATA
1 AATCATGCTCGGAAGACTTGGTGAATAT-CCTGGAGGACTTGAAAGATCATGCTCAGAAATCATA
3798349 TA
65 TA
* * * * * * * *
3798351 AATCATGATTGAAAAACTTGGTGAATATGCTCGGAGGACTTGAAAGATCATGCTAAAAAATCTTA
1 AATCATGCTCGGAAGACTTGGTGAATATCCT-GGAGGACTTGAAAGATCATGCTCAGAAATCATA
3798416 TA
65 TA
* * **
3798418 AATCATAC-CTGGAAGACTTGGTGAATATGCTTAAAGGACTTGAAAGATCATGCTCAGA
1 AATCATGCTC-GGAAGACTTGGTGAATAT-CCTGGAGGACTTGAAAGATCATGCTCAGA
3798476 GGACTTATTG
Statistics
Matches: 99, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
66 2 0.02
67 96 0.97
68 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (66 bp):
AATCATGCTCGGAAGACTTGGTGAATATCCTGGAGGACTTGAAAGATCATGCTCAGAAATCATAT
A
Found at i:3798481 original size:45 final size:45
Alignment explanation
Indices: 3798432--3798563 Score: 140
Period size: 45 Copynumber: 2.9 Consensus size: 45
3798422 ATACCTGGAA
* * * *
3798432 GACTTGGTGAATATGCTTAAAGGACTTGAAAGATCATGCTCAGAG
1 GACTTGCTGATTATACTCAAAGGACTTGAAAGATCATGCTCAGAG
** * * *
3798477 GACTTATTGATTATACTCGAAA-AACTTAAAAGATCATGCTTAGAG
1 GACTTGCTGATTATACTC-AAAGGACTTGAAAGATCATGCTCAGAG
* *
3798522 GACTTGCTGATTATACCCAAAGGACTTTGAAATATCATGCTC
1 GACTTGCTGATTATACTCAAAGGAC-TTGAAAGATCATGCTC
3798564 GAAAGTCTTA
Statistics
Matches: 69, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
44 3 0.04
45 50 0.72
46 16 0.23
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.30
Consensus pattern (45 bp):
GACTTGCTGATTATACTCAAAGGACTTGAAAGATCATGCTCAGAG
Found at i:3798630 original size:23 final size:23
Alignment explanation
Indices: 3798602--3798663 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
3798592 CTTGGTGAAT
3798602 ATGCTTGGAGGACTTGAAAAATC
1 ATGCTTGGAGGACTTGAAAAATC
* * *
3798625 ATGCTTGGAGGTCAT-ATAAATC
1 ATGCTTGGAGGACTTGAAAAATC
*
3798647 ATGTTTGGAGGACTTGA
1 ATGCTTGGAGGACTTGA
3798664 TGATTATGCC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 18 0.56
23 14 0.44
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (23 bp):
ATGCTTGGAGGACTTGAAAAATC
Found at i:3798679 original size:67 final size:68
Alignment explanation
Indices: 3798509--3798679 Score: 173
Period size: 67 Copynumber: 2.5 Consensus size: 68
3798499 AACTTAAAAG
* * ** * *
3798509 ATCATGCTTAGAGGACTTGCTGATTATACCCAAAGGACTTTGAAATATCATGCTCGAAAGTCTTA
1 ATCATGCTTAGAGGACTTGATGATTATGCCCGGAGGACTTTGAAAAATCATGCTCGAAAGTCATA
3798574 TAA
66 TAA
** * * * ** * * *
3798577 ATCATGCCCAGAAGACTTGGTGAATATGCTTGGAGGAC-TTGAAAAATCATGCTTGGAGGTCATA
1 ATCATGCTTAGAGGACTTGATGATTATGCCCGGAGGACTTTGAAAAATCATGCTCGAAAGTCATA
3798641 TAA
66 TAA
* *
3798644 ATCATGTTTGGAGGACTTGATGATTATGCCCGGAGG
1 ATCATGCTTAGAGGACTTGATGATTATGCCCGGAGG
3798680 TCTTACAAAT
Statistics
Matches: 79, Mismatches: 24, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
67 51 0.65
68 28 0.35
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (68 bp):
ATCATGCTTAGAGGACTTGATGATTATGCCCGGAGGACTTTGAAAAATCATGCTCGAAAGTCATA
TAA
Found at i:3799037 original size:18 final size:18
Alignment explanation
Indices: 3799016--3799050 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3799006 TGATGTATAT
*
3799016 AATGCATGAAATGCATGC
1 AATGAATGAAATGCATGC
*
3799034 AATGAATGCAATGCATG
1 AATGAATGAAATGCATG
3799051 AAACCTATAC
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:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (18 bp):
AATGAATGAAATGCATGC
Found at i:3799193 original size:17 final size:19
Alignment explanation
Indices: 3799171--3799206 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
3799161 CTAAAGCAAA
3799171 CATTCTT-AAAA-CATTTT
1 CATTCTTGAAAACCATTTT
3799188 CATTCTTGAAAACCATTTT
1 CATTCTTGAAAACCATTTT
3799207 GATGTCTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 4 0.24
19 6 0.35
ACGTcount: A:0.33, C:0.19, G:0.03, T:0.44
Consensus pattern (19 bp):
CATTCTTGAAAACCATTTT
Found at i:3799824 original size:5 final size:5
Alignment explanation
Indices: 3799814--3799850 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
3799804 TAAAGTTTCA
*
3799814 TTCTT TTCTT TTCTT TTCTTT TTCTT TTTTT TTCTT T
1 TTCTT TTCTT TTCTT TTC-TT TTCTT TTCTT TTCTT T
3799851 CCCTTTTCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (5 bp):
TTCTT
Found at i:3799838 original size:16 final size:16
Alignment explanation
Indices: 3799817--3799850 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
3799807 AGTTTCATTC
3799817 TTTTCTTTTCTTTTCT
1 TTTTCTTTTCTTTTCT
*
3799833 TTTTCTTTTTTTTTCT
1 TTTTCTTTTCTTTTCT
3799849 TT
1 TT
3799851 CCCTTTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTCTTTTCTTTTCT
Found at i:3799856 original size:16 final size:16
Alignment explanation
Indices: 3799821--3799863 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
3799811 TCATTCTTTT
**
3799821 CTTTTCTTTTCTTTTT
1 CTTTTCTTTTCTTTCC
*
3799837 CTTTTTTTTTCTTTCC
1 CTTTTCTTTTCTTTCC
3799853 CTTTTCATTTT
1 CTTTTC-TTTT
3799864 TATGATTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (16 bp):
CTTTTCTTTTCTTTCC
Found at i:3799857 original size:21 final size:21
Alignment explanation
Indices: 3799814--3799864 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
3799804 TAAAGTTTCA
* * *
3799814 TTCTTTTCTTTTCTTTTCTTT
1 TTCTTTTTTTTTCTTTCCCTT
3799835 TTCTTTTTTTTTCTTTCCCTT
1 TTCTTTTTTTTTCTTTCCCTT
*
3799856 TTCATTTTT
1 TTCTTTTTT
3799865 ATGATTATTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (21 bp):
TTCTTTTTTTTTCTTTCCCTT
Found at i:3801616 original size:3 final size:3
Alignment explanation
Indices: 3801608--3801634 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
3801598 TTATGTATTC
3801608 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
3801635 GTATATCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:3802356 original size:20 final size:20
Alignment explanation
Indices: 3802331--3802368 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3802321 ACTTCCGGTG
*
3802331 AAATTTCCAGATTCCGGCGA
1 AAATTTCCAGAATCCGGCGA
3802351 AAATTTCCAGAATCCGGC
1 AAATTTCCAGAATCCGGC
3802369 ACCGGTGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
AAATTTCCAGAATCCGGCGA
Found at i:3803001 original size:58 final size:58
Alignment explanation
Indices: 3802819--3803414 Score: 685
Period size: 59 Copynumber: 9.9 Consensus size: 58
3802809 AAAATTCCAA
* *
3802819 AAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATTAAAATTTTC
1 AAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAAA-TTTC
* * *
3802880 AAAAAAAAATATTTTTAGGGAAAAGTTGAGAGTATCAATTTTCCTTAAAAAT-AAATTCC
1 --AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
* *
3802939 AAAAAAACATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAAATTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
* *
3802997 AAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
1 ----AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTTC
* *
3803060 CAAAAAATATTTTTGGGGAAAAGTCGAAAGTATCAATTTTCCTTAAAAAT-AAATTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
*** * * * *
3803117 AAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATCCAAATTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTTC
* * ** *
3803176 CAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATAAATTTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
* *
3803234 AAAAAAA-ATATTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 AAAAAAATAT-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
* ** *
3803292 AAAAAAAAAAATAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAATT
1 ------AAAAA-AAT--ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATT
3803357 TC
57 TC
* *
3803359 AAGAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCCTTAACAAAAAAAA
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT-CCTTAA-AAATAAAA
3803415 AATCCTTCCT
Statistics
Matches: 463, Mismatches: 49, Indels: 45
0.83 0.09 0.08
Matches are distributed among these distances:
57 97 0.21
58 95 0.21
59 102 0.22
60 12 0.03
61 9 0.02
62 83 0.18
63 14 0.03
64 5 0.01
65 2 0.00
67 42 0.09
68 2 0.00
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (58 bp):
AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
Found at i:3803094 original size:59 final size:58
Alignment explanation
Indices: 3802820--3803400 Score: 654
Period size: 57 Copynumber: 9.7 Consensus size: 58
3802810 AAATTCCAAA
* *
3802820 AAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATTAAAATTTTCAAA
1 AAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA-TAAAA-TTTC--C
* * *
3802883 AAAAAATATTTTTAGGGAAAAGTTGAGAGTATCAATTTTCCTTAAAAAT-AAA-TTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCC
* * * *
3802939 AAAAAAACATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAAATTTCAAAAA
1 -AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTC----C
*
3803002 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAATTTCC
* *
3803061 AAAAAATATTTTTGGGGAAAAGTCGAAAGTATCAATTTTCCTTAAAAAT-AAATTT-C
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCC
** * * *
3803117 AAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATCCAAATTTCC
1 AAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAATTTCC
* * *
3803177 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAAT-AAATTTTC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCC
* *
3803234 AAAAAAAATATTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTTCAAAAAA
1 AAAAAATAT-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATAAAATTTC------
*
3803298 A
58 C
* * *
3803299 AAAATAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAATTT-C
1 AAAA-AAT--ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCC
3803359 AAGAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AA-AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
3803401 CTTAACAAAA
Statistics
Matches: 450, Mismatches: 42, Indels: 57
0.82 0.08 0.10
Matches are distributed among these distances:
56 7 0.02
57 103 0.23
58 76 0.17
59 97 0.22
60 15 0.03
61 3 0.01
62 86 0.19
63 13 0.03
65 4 0.01
66 2 0.00
67 41 0.09
68 3 0.01
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (58 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCC
Found at i:3803324 original size:67 final size:68
Alignment explanation
Indices: 3803239--3803365 Score: 195
Period size: 67 Copynumber: 1.9 Consensus size: 68
3803229 TTTTCAAAAA
* *
3803239 AAATATTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAA-TAAATTTTCAAAAAAAAAAA
1 AAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTCC-TAGAAATTAAAATTTCAAAAAAAAAAA
3803303 TAAT
65 TAAT
* *
3803307 AAAT-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAATTTCAAGAAAA
1 AAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTAGAAATTAAAATTTCAAAAAAA
3803366 TATTTTTGGG
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
66 5 0.09
67 45 0.83
68 4 0.07
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.32
Consensus pattern (68 bp):
AAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTAGAAATTAAAATTTCAAAAAAAAAAAT
AAT
Found at i:3807890 original size:17 final size:17
Alignment explanation
Indices: 3807865--3807917 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
3807855 GAAATAGAAT
3807865 AGATAAATGAAAAAAAA
1 AGATAAATGAAAAAAAA
*
3807882 AGCTAAATGAAAAACAAA
1 AGATAAATGAAAAA-AAA
*
3807900 TGATAAA-GAAAAGAAAA
1 AGATAAATGAAAA-AAAA
3807917 A
1 A
3807918 TACCAAACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 21 0.70
18 9 0.30
ACGTcount: A:0.72, C:0.04, G:0.13, T:0.11
Consensus pattern (17 bp):
AGATAAATGAAAAAAAA
Found at i:3808881 original size:17 final size:17
Alignment explanation
Indices: 3808861--3808893 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3808851 TTAGATAAAC
3808861 AATTAAACAA-ATAAATT
1 AATTAAA-AAGATAAATT
3808878 AATTAAAAAGATAAAT
1 AATTAAAAAGATAAAT
3808894 CAACATGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (17 bp):
AATTAAAAAGATAAATT
Found at i:3819444 original size:59 final size:61
Alignment explanation
Indices: 3819346--3819460 Score: 171
Period size: 59 Copynumber: 1.9 Consensus size: 61
3819336 AATTTTATTT
*
3819346 AATTTTTTTAAGATTATTTAAGATATTTTTCAACTAAAAAA-A-ATTAAATAATCTAGTTC
1 AATTTTTTTAAGATTATTTAAGATATTTTTCAACAAAAAAATACATTAAATAATCTAGTTC
*** *
3819405 AATTTTTTTAAGATTATTTAAGATATTTTTTGTCAAAAAAATACTTTAAATAATCT
1 AATTTTTTTAAGATTATTTAAGATATTTTTCAACAAAAAAATACATTAAATAATCT
3819461 TTTAAAAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
59 37 0.76
60 1 0.02
61 11 0.22
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (61 bp):
AATTTTTTTAAGATTATTTAAGATATTTTTCAACAAAAAAATACATTAAATAATCTAGTTC
Found at i:3824323 original size:38 final size:38
Alignment explanation
Indices: 3824267--3824342 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
3824257 TACAAGCATT
*
3824267 TAGGCACAATTTGGTACATGCCATCTCAATGTCAATCA
1 TAGGCACAATTTGATACATGCCATCTCAATGTCAATCA
3824305 TAGGCACAATTTGATACATGCCATCTCAATGTCAATCA
1 TAGGCACAATTTGATACATGCCATCTCAATGTCAATCA
3824343 ACGAACATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (38 bp):
TAGGCACAATTTGATACATGCCATCTCAATGTCAATCA
Found at i:3825306 original size:16 final size:15
Alignment explanation
Indices: 3825285--3825318 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
3825275 AAACTCAAGG
3825285 AAAAAATATTTATAAA
1 AAAAAATATTTA-AAA
3825301 AAAAAATATTTAAAA
1 AAAAAATATTTAAAA
3825316 AAA
1 AAA
3825319 TTTTAGCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAAAATATTTAAAA
Found at i:3830067 original size:18 final size:18
Alignment explanation
Indices: 3830039--3830081 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
3830029 TTTTTATTTC
3830039 AAAATAA-TATT-TTTTA
1 AAAATAATTATTGTTTTA
3830055 AATAATAATTATTGTTTTA
1 AA-AATAATTATTGTTTTA
3830074 AAAATAAT
1 AAAATAAT
3830082 AATATATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.08
17 5 0.21
18 10 0.42
19 7 0.29
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
AAAATAATTATTGTTTTA
Found at i:3830220 original size:16 final size:16
Alignment explanation
Indices: 3830201--3830236 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
3830191 TTTATTTACG
* *
3830201 TATTTATTACTTAATT
1 TATTCATTAATTAATT
3830217 TATTCATTAATTAATT
1 TATTCATTAATTAATT
3830233 TATT
1 TATT
3830237 AAATAGTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTCATTAATTAATT
Found at i:3830355 original size:19 final size:19
Alignment explanation
Indices: 3830307--3830361 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
3830297 TCATATATTT
* *
3830307 ATATAATATA-TAAAATAA
1 ATATAATTTATTAATATAA
*
3830325 A-ATTATTATATTAATATAA
1 ATATAATT-TATTAATATAA
*
3830344 ATATAATTTATTTATATA
1 ATATAATTTATTAATATA
3830362 TTAATTATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 4 0.14
18 3 0.10
19 17 0.59
20 5 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATATAATTTATTAATATAA
Found at i:3830359 original size:17 final size:17
Alignment explanation
Indices: 3830324--3830374 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
3830314 ATATAAAATA
3830324 AAATT-ATTATATTAATAT
1 AAATTAATTATATT--TAT
3830342 AAATATAATT-TATTTAT
1 AAAT-TAATTATATTTAT
*
3830359 ATATTAATTATATTTA
1 AAATTAATTATATTTA
3830375 CATATAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 5 0.17
17 12 0.41
18 4 0.14
19 5 0.17
20 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATTAATTATATTTAT
Found at i:3830650 original size:7 final size:7
Alignment explanation
Indices: 3830638--3830667 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
3830628 TATTACAATT
3830638 TCAACTC
1 TCAACTC
3830645 TCAACTC
1 TCAACTC
3830652 TTCAACTC
1 -TCAACTC
3830660 TCAACTC
1 TCAACTC
3830667 T
1 T
3830668 GGCACCTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.27, C:0.40, G:0.00, T:0.33
Consensus pattern (7 bp):
TCAACTC
Found at i:3830657 original size:15 final size:15
Alignment explanation
Indices: 3830637--3830667 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3830627 CTATTACAAT
3830637 TTCAACTCTCAACTC
1 TTCAACTCTCAACTC
3830652 TTCAACTCTCAACTC
1 TTCAACTCTCAACTC
3830667 T
1 T
3830668 GGCACCTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.39, G:0.00, T:0.35
Consensus pattern (15 bp):
TTCAACTCTCAACTC
Found at i:3836792 original size:19 final size:19
Alignment explanation
Indices: 3836738--3836794 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
3836728 TAAAAGGGAA
*
3836738 AAAAAT-AAAGAAAAGATGG
1 AAAAATGAAAGAAAA-AGGG
**
3836757 AAAAATGAAAGGGAAAGGG
1 AAAAATGAAAGAAAAAGGG
*
3836776 AAAAATGAAATAAAAAGGG
1 AAAAATGAAAGAAAAAGGG
3836795 CATAAGATGC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 25 0.81
20 6 0.19
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (19 bp):
AAAAATGAAAGAAAAAGGG
Found at i:3837876 original size:30 final size:30
Alignment explanation
Indices: 3837842--3837905 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
3837832 TTGATTTATG
* *
3837842 TTAAGGGTTTATTTA-AGTACAAATTAAAAC
1 TTAAGGGCTTAATTAGA-TACAAATTAAAAC
* *
3837872 TTAAGGGCTTAATTGGATACAAATTAAAAT
1 TTAAGGGCTTAATTAGATACAAATTAAAAC
3837902 TTAA
1 TTAA
3837906 AAACTTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (30 bp):
TTAAGGGCTTAATTAGATACAAATTAAAAC
Found at i:3839742 original size:31 final size:32
Alignment explanation
Indices: 3839674--3839742 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
3839664 ATTTTATTTT
* *
3839674 ATTTTCATATATATTAATTAGTTATATAATAA
1 ATTTTAATATATATTAATTAATTATATAATAA
3839706 ATTTTAATATATATT-ATTAA-TATCAT-ATAAA
1 ATTTTAATATATATTAATTAATTAT-ATAAT-AA
3839737 ATTTTA
1 ATTTTA
3839743 TTTTAATTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
30 5 0.15
31 14 0.42
32 14 0.42
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (32 bp):
ATTTTAATATATATTAATTAATTATATAATAA
Found at i:3840321 original size:29 final size:30
Alignment explanation
Indices: 3840282--3840353 Score: 110
Period size: 29 Copynumber: 2.4 Consensus size: 30
3840272 AATTGATAAA
*
3840282 TTTATAATTTAGATATTATATTAAAAATTT
1 TTTATAATTTAAATATTATATTAAAAATTT
*
3840312 TTTA-AATTTAAATATTATATTAAATATTT
1 TTTATAATTTAAATATTATATTAAAAATTT
3840341 TTCTATAATTTAA
1 TT-TATAATTTAA
3840354 GAACCAATCA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 25 0.66
30 6 0.16
31 7 0.18
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (30 bp):
TTTATAATTTAAATATTATATTAAAAATTT
Found at i:3843340 original size:20 final size:18
Alignment explanation
Indices: 3843315--3843370 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
3843305 GTCTGATAGA
*
3843315 TTCTTTGGCTTTTCTTTTT
1 TTCTTTGG-TTTTCTATTT
**
3843334 CTTCTTTTTTTTTTCTATTT
1 -TTC-TTTGGTTTTCTATTT
3843354 TTCTTTGGTTTTCTATT
1 TTCTTTGGTTTTCTATT
3843371 CATTTTTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 12 0.40
19 3 0.10
20 12 0.40
21 3 0.10
ACGTcount: A:0.04, C:0.14, G:0.07, T:0.75
Consensus pattern (18 bp):
TTCTTTGGTTTTCTATTT
Found at i:3849972 original size:25 final size:23
Alignment explanation
Indices: 3849941--3849991 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 23
3849931 TTCGGTAACG
3849941 TTTGTTTTTTATTGTCTTTTTTGTT
1 TTTGTTTTTTATT-T-TTTTTTGTT
*
3849966 TTTGTTTTTTATTTTTTTTTTTT
1 TTTGTTTTTTATTTTTTTTTGTT
3849989 TTT
1 TTT
3849992 AACAATCACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 11 0.44
24 1 0.04
25 13 0.52
ACGTcount: A:0.04, C:0.02, G:0.08, T:0.86
Consensus pattern (23 bp):
TTTGTTTTTTATTTTTTTTTGTT
Found at i:3850228 original size:21 final size:18
Alignment explanation
Indices: 3850191--3850230 Score: 53
Period size: 21 Copynumber: 2.1 Consensus size: 18
3850181 TTATTATGAG
3850191 ATGCTAATAAATTTAAAC
1 ATGCTAATAAATTTAAAC
3850209 ATGCTTAATTAAATATTAAAC
1 ATGC-TAA-TAAAT-TTAAAC
3850230 A
1 A
3850231 CTTAACAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 3 0.16
20 5 0.26
21 7 0.37
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (18 bp):
ATGCTAATAAATTTAAAC
Found at i:3861772 original size:42 final size:42
Alignment explanation
Indices: 3861680--3861772 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
3861670 ACCTCCGGGT
* *
3861680 ATCATTCTCCAAAGCTTCCATGTATCATGTTTCAATATCTCCG
1 ATCATT-TCCAAAACCTCCATGTATCATGTTTCAATATCTCCG
* *
3861723 ATAATTTCCAAAACCTCCATGTATCA-GTTTTAA-ATCTCCAG
1 ATCATTTCCAAAACCTCCATGTATCATGTTTCAATATCTCC-G
3861764 ATGCATTTC
1 AT-CATTTC
3861773 TAAGACTTCC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
40 6 0.14
41 9 0.21
42 23 0.53
43 5 0.12
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.37
Consensus pattern (42 bp):
ATCATTTCCAAAACCTCCATGTATCATGTTTCAATATCTCCG
Found at i:3870581 original size:10 final size:10
Alignment explanation
Indices: 3870566--3870604 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
3870556 AGGAAAGGTC
*
3870566 AAATCTTGGT
1 AAATCTTGAT
3870576 AAATCTTGAT
1 AAATCTTGAT
*
3870586 CAATCTTGAT
1 AAATCTTGAT
3870596 AAATTCTTG
1 AAA-TCTTG
3870605 GTTCATTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 20 0.80
11 5 0.20
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (10 bp):
AAATCTTGAT
Found at i:3875048 original size:20 final size:20
Alignment explanation
Indices: 3875025--3875063 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3875015 CTTTAAAAAA
*
3875025 CTTTCTTTTACATTCTTTTC
1 CTTTCCTTTACATTCTTTTC
* *
3875045 CTTTCCTTTCCTTTCTTTT
1 CTTTCCTTTACATTCTTTT
3875064 ACTAATATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.67
Consensus pattern (20 bp):
CTTTCCTTTACATTCTTTTC
Found at i:3880570 original size:20 final size:20
Alignment explanation
Indices: 3880534--3880571 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3880524 CAATTTAACT
*
3880534 AAATTTGACTAATTTTGAAA
1 AAATTTGACTAAATTTGAAA
3880554 AAATTTGA-TCAAATTTGA
1 AAATTTGACT-AAATTTGA
3880572 CCTAAGTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (20 bp):
AAATTTGACTAAATTTGAAA
Found at i:3881624 original size:17 final size:17
Alignment explanation
Indices: 3881605--3881637 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3881595 TTCTTTATTT
*
3881605 TTTTGTTTTT-CTTTGC
1 TTTTATTTTTCCTTTGC
3881621 TTTTATTTTTCCTTTGC
1 TTTTATTTTTCCTTTGC
3881638 CTGTTTTTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.03, C:0.15, G:0.09, T:0.73
Consensus pattern (17 bp):
TTTTATTTTTCCTTTGC
Found at i:3883065 original size:15 final size:15
Alignment explanation
Indices: 3883038--3883074 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
3883028 ATCTTTTATT
3883038 TTTCATTTATTTTTA
1 TTTCATTTATTTTTA
3883053 TTTC-TTTAGTTTTTA
1 TTTCATTTA-TTTTTA
3883068 TTT-ATTT
1 TTTCATTT
3883075 CTTTATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTCATTTATTTTTA
Found at i:3883065 original size:25 final size:24
Alignment explanation
Indices: 3883024--3883074 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
3883014 CAAGCCCATC
*
3883024 TTTTATCTTTTATTTTTCATTTAT
1 TTTTATCTTTTAGTTTTCATTTAT
* *
3883048 TTTTATTTCTTTAGTTTTTATTTAT
1 TTTTATCT-TTTAGTTTTCATTTAT
3883073 TT
1 TT
3883075 CTTTATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTTATCTTTTAGTTTTCATTTAT
Found at i:3883073 original size:19 final size:20
Alignment explanation
Indices: 3883043--3883090 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
3883033 TTATTTTTCA
3883043 TTTATT-TTTATTTCTTTAG
1 TTTATTATTTATTTCTTTAG
*
3883062 TTT-TTATTTATTTCTTTAT
1 TTTATTATTTATTTCTTTAG
3883081 TTTATTATTT
1 TTTATTATTT
3883091 TCAAAAATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 2 0.08
19 18 0.69
20 6 0.23
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTATTATTTATTTCTTTAG
Found at i:3883091 original size:25 final size:23
Alignment explanation
Indices: 3883031--3883091 Score: 54
Period size: 25 Copynumber: 2.5 Consensus size: 23
3883021 ATCTTTTATC
*
3883031 TTTTATT-TTTCATTTATTTTTA
1 TTTTATTATTTTATTTATTTTTA
3883053 TTTCT-TTAGTTTTTATTTATTTCTTTA
1 TTT-TATTA--TTTTATTTA-TT-TTTA
3883080 TTTTATTATTTT
1 TTTTATTATTTT
3883092 CAAAAATCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
22 5 0.16
23 1 0.03
25 12 0.39
26 3 0.10
27 10 0.32
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (23 bp):
TTTTATTATTTTATTTATTTTTA
Found at i:3884644 original size:70 final size:69
Alignment explanation
Indices: 3884487--3884717 Score: 220
Period size: 70 Copynumber: 3.3 Consensus size: 69
3884477 AGCAACGAGG
* * **
3884487 ACTTCATTTTTATCTTAAAAATGTGAAT-TTTATTAAAATTTCTTAATTTCAAAAGTAACATTTC
1 ACTTCATTTTTATCTTAAAAATGT-AATCTTTATTAAAATTT-TAAATTTTAAAAACAA-ATTTC
3884551 AACATCC
63 AACATCC
*
3884558 A-TTACATTTTTATCTTAAAAATGTAATCTTTATTAAAATTTTAAATTTTGAAAACAAAGTTTCA
1 ACTT-CATTTTTATCTTAAAAATGTAATCTTTATTAAAATTTTAAATTTTAAAAACAAA-TTTCA
*
3884622 ACATCT
64 ACATCC
* * * * * * *
3884628 ACTTTATTTTCATCTT--AAATGCAATCATTGTTAAAATTCTAAAATTTTAAAAACATAATTTTA
1 ACTTCATTTTTATCTTAAAAATGTAATCTTTATTAAAATT-TTAAATTTTAAAAACA-AATTTCA
3884691 ACATCC
64 ACATCC
* *
3884697 A-TTACGTCTTTATCTTAAAAA
1 ACTT-CATTTTTATCTTAAAAA
3884718 CACAATTATT
Statistics
Matches: 132, Mismatches: 19, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
68 21 0.16
69 33 0.25
70 39 0.30
71 39 0.30
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.43
Consensus pattern (69 bp):
ACTTCATTTTTATCTTAAAAATGTAATCTTTATTAAAATTTTAAATTTTAAAAACAAATTTCAAC
ATCC
Found at i:3884712 original size:69 final size:65
Alignment explanation
Indices: 3884546--3884715 Score: 162
Period size: 69 Copynumber: 2.4 Consensus size: 65
3884536 CAAAAGTAAC
* * * *
3884546 ATTTCAACATCCATTACATTTTTATCTTAAAAATGTAATCTTTATTAAAATTTTAAATTTTGAAA
1 ATTTCAACATCCATTAC--TTTTATCTT--AAATGCAATCATTATTAAAATTTAAAATTTTAAAA
3884611 ACAA
62 ACAA
* *
3884615 AGTTTCAACATCTACTTTA-TTTTCATCTTAAATGCAATCATTGTTAAAATTCTAAAATTTTAAA
1 A-TTTCAACATC--CATTACTTTT-ATCTTAAATGCAATCATTATTAAAATT-TAAAATTTTAAA
3884679 AACATA
61 AACA-A
*
3884685 ATTTTAACATCCATTACGTCTTTATCTTAAA
1 ATTTCAACATCCATTAC-T-TTTATCTTAAA
3884716 AACACAATTA
Statistics
Matches: 84, Mismatches: 8, Indels: 18
0.76 0.07 0.16
Matches are distributed among these distances:
67 4 0.05
68 19 0.23
69 37 0.44
70 20 0.24
72 4 0.05
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.43
Consensus pattern (65 bp):
ATTTCAACATCCATTACTTTTATCTTAAATGCAATCATTATTAAAATTTAAAATTTTAAAAACAA
Found at i:3886392 original size:16 final size:16
Alignment explanation
Indices: 3886371--3886401 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3886361 TTTCTAACAC
3886371 CAAATAACCACATTTA
1 CAAATAACCACATTTA
*
3886387 CAAATAACCATATTT
1 CAAATAACCACATTT
3886402 CCATCATCAA
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:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (16 bp):
CAAATAACCACATTTA
Found at i:3892431 original size:27 final size:26
Alignment explanation
Indices: 3892401--3892457 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
3892391 ATTAGATTTG
* *
3892401 TAAAAAATACAGATAT-TATTAATAAT
1 TAAAAAATAAAAATATATATT-ATAAT
3892427 ATAAAAAATAAAAATATATATTATAAT
1 -TAAAAAATAAAAATATATATTATAAT
3892454 TAAA
1 TAAA
3892458 TAAAATGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 4 0.15
27 19 0.70
28 4 0.15
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (26 bp):
TAAAAAATAAAAATATATATTATAAT
Found at i:3899177 original size:20 final size:19
Alignment explanation
Indices: 3899121--3899186 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 19
3899111 CAATTAGGGC
3899121 TAGGGTCTTTGTTTGGGGTTT
1 TAGGGT-TTTGTTTGGGG-TT
*
3899142 TAGAGGATTGTGTTTGGGGTT
1 TAG-GG-TTTTGTTTGGGGTT
*
3899163 TAGGGTTTATGTTTGAGGTT
1 TAGGGTTT-TGTTTGGGGTT
3899183 TAGG
1 TAGG
3899187 TAAACCTGGC
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
19 2 0.05
20 16 0.41
21 8 0.21
22 12 0.31
23 1 0.03
ACGTcount: A:0.12, C:0.02, G:0.39, T:0.47
Consensus pattern (19 bp):
TAGGGTTTTGTTTGGGGTT
Found at i:3899458 original size:27 final size:26
Alignment explanation
Indices: 3899423--3899475 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
3899413 TAGATTTCCA
3899423 GGTTTAGGTTTAAGGTTTGTATTTGG
1 GGTTTAGGTTTAAGGTTTGTATTTGG
* *
3899449 GGTTTAAGGTTTAGGGTTTGTGTTTGG
1 GGTTT-AGGTTTAAGGTTTGTATTTGG
3899476 AATGCATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.13, C:0.00, G:0.38, T:0.49
Consensus pattern (26 bp):
GGTTTAGGTTTAAGGTTTGTATTTGG
Found at i:3904101 original size:20 final size:20
Alignment explanation
Indices: 3904060--3904101 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
3904050 TACATTTTTA
* *
3904060 CTTGATTTTCTATTCAATTT
1 CTTGATTTTCCATTCAAGTT
3904080 CTTGCATTTTCCATT-AAGTT
1 CTTG-ATTTTCCATTCAAGTT
3904100 CT
1 CT
3904102 CAAATCTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.19, C:0.19, G:0.07, T:0.55
Consensus pattern (20 bp):
CTTGATTTTCCATTCAAGTT
Found at i:3911122 original size:19 final size:20
Alignment explanation
Indices: 3911098--3911139 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
3911088 TGAATTTTTA
3911098 GAAAAAAAAATTT-TGATTT
1 GAAAAAAAAATTTATGATTT
*
3911117 GAAAAAGAAATTTGATGATTT
1 GAAAAAAAAATTT-ATGATTT
3911138 GA
1 GA
3911140 TGAATGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
21 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (20 bp):
GAAAAAAAAATTTATGATTT
Found at i:3914090 original size:166 final size:166
Alignment explanation
Indices: 3913812--3914132 Score: 482
Period size: 166 Copynumber: 1.9 Consensus size: 166
3913802 AAATAGCAAA
* * *
3913812 ACATCAGGAGGATGTGTGGATAAAGAATGATATATATGTAGAGACTTAATCCTAAACTTGTGAGG
1 ACATCAGGAGGATGTGTGGATAAAGAATAATATATATGTAAAGACTTAATCCCAAACTTGTGAGG
** * * * * *
3913877 TGCTTTTTGTGGGATAAAACCGTGAGATCTTTGGGTCAAAACGGACAATACCTCGCAGGTTGGGT
66 CACCTTTTGTAGGACAAAACCGTGAGACCTTCGGGTCAAAACGGACAATACCTCGCAGGTTGGGT
* *
3913942 GC-GAGTCTCCATAAAAATTGTAACGCCTCCAATCCC
131 GCAGA-TCTCCACAAAAATGGTAACGCCTCCAATCCC
*
3913978 ACATCAGGAGGATGTGTGGATAAGGAATAATATATATGTAAAGACTTAATCCCAAACTTGTGAGG
1 ACATCAGGAGGATGTGTGGATAAAGAATAATATATATGTAAAGACTTAATCCCAAACTTGTGAGG
* *
3914043 CACCTTTTGTAGGACAAAACCGTGAGACCTTCGGGTCAAAGCGGACAATACCTTGCAGGTTGGGT
66 CACCTTTTGTAGGACAAAACCGTGAGACCTTCGGGTCAAAACGGACAATACCTCGCAGGTTGGGT
*
3914108 GCAGATCTCTACAAAAATGGTAACG
131 GCAGATCTCCACAAAAATGGTAACG
3914133 GAATGGTCAC
Statistics
Matches: 138, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
166 136 0.99
167 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (166 bp):
ACATCAGGAGGATGTGTGGATAAAGAATAATATATATGTAAAGACTTAATCCCAAACTTGTGAGG
CACCTTTTGTAGGACAAAACCGTGAGACCTTCGGGTCAAAACGGACAATACCTCGCAGGTTGGGT
GCAGATCTCCACAAAAATGGTAACGCCTCCAATCCC
Found at i:3917740 original size:12 final size:12
Alignment explanation
Indices: 3917713--3917755 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
3917703 TATAAATATA
*
3917713 AAATAAATATGAC
1 AAATAATTA-GAC
*
3917726 AAATACTTAGAC
1 AAATAATTAGAC
3917738 AAATAATTAGAC
1 AAATAATTAGAC
3917750 AAATAA
1 AAATAA
3917756 ATGCATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 20 0.74
13 7 0.26
ACGTcount: A:0.60, C:0.09, G:0.07, T:0.23
Consensus pattern (12 bp):
AAATAATTAGAC
Found at i:3927305 original size:23 final size:23
Alignment explanation
Indices: 3927279--3927327 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
3927269 AAAGCCTTAG
*
3927279 AAGCTGTAGTGGAAATGATGCGT
1 AAGCTGTAGTGGAAATGATGCAT
3927302 AAGCTGTAGTGGAAATGATGCAT
1 AAGCTGTAGTGGAAATGATGCAT
3927325 AAG
1 AAG
3927328 GAGATTAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.08, G:0.33, T:0.24
Consensus pattern (23 bp):
AAGCTGTAGTGGAAATGATGCAT
Found at i:3933280 original size:18 final size:17
Alignment explanation
Indices: 3933252--3933286 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
3933242 TGATGAAAGA
3933252 TATTTTTTAATATATAT
1 TATTTTTTAATATATAT
3933269 TATTTTTATAATATATAT
1 TATTTTT-TAATATATAT
3933287 ATCCGCTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TATTTTTTAATATATAT
Found at i:3933733 original size:10 final size:10
Alignment explanation
Indices: 3933714--3933747 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
3933704 TTTAAAATGA
*
3933714 AAATAATAAT
1 AAATATTAAT
3933724 AAATATTAAT
1 AAATATTAAT
*
3933734 AAATGTTAAT
1 AAATATTAAT
3933744 AAAT
1 AAAT
3933748 TTTTAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (10 bp):
AAATATTAAT
Found at i:3936468 original size:2 final size:2
Alignment explanation
Indices: 3936457--3936496 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
3936447 ATGAAACAAT
3936457 TA TA -A 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
3936497 TATGTTAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3938469 original size:20 final size:21
Alignment explanation
Indices: 3938444--3938486 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
3938434 AATTTATAGT
*
3938444 ATTATG-TTGTTATACATGAA
1 ATTATGATTGTTATAAATGAA
*
3938464 ATTATGATTGTTTTAAATGAA
1 ATTATGATTGTTATAAATGAA
3938485 AT
1 AT
3938487 GAACCATGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (21 bp):
ATTATGATTGTTATAAATGAA
Found at i:3940303 original size:14 final size:14
Alignment explanation
Indices: 3940284--3940312 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3940274 GTCGAAATTC
3940284 TATTCTTTTATTTA
1 TATTCTTTTATTTA
3940298 TATTCTTTTATTTA
1 TATTCTTTTATTTA
3940312 T
1 T
3940313 TTTTTCTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (14 bp):
TATTCTTTTATTTA
Found at i:3945851 original size:124 final size:124
Alignment explanation
Indices: 3945613--3945877 Score: 386
Period size: 124 Copynumber: 2.1 Consensus size: 124
3945603 AAAAACATCT
* * * *
3945613 TCAATAACATTTTATTATGGATTATTCAAGGTATTTTCTTGCTAAAAGCACTTTTAATAATCCAT
1 TCAATAA-A-TTT-TTAAGGATTATTCAAAGTATTTTCTTGCTAAAAACACTTTTAATAATCAAT
* * *
3945678 AGGAAAAATATGAAACGGATTCTTGAAGACGTTTTTAGCTGAAAACACCTTCAATAATCCAA
63 AGAAAAAATATGAAACGGATTCTTGAAGACATTTTTAGCCGAAAACACCTTCAATAATCCAA
* *
3945740 TCAATAAATTTTTAAGGATTATTCAAAGTGTTTTCTTGCTAAAAACACTTTTAATAATTAATAGA
1 TCAATAAATTTTTAAGGATTATTCAAAGTATTTTCTTGCTAAAAACACTTTTAATAATCAATAGA
* * * *
3945805 AAAAATATGAAACGGATTCTTGAAGATATTTTTTGCCGAAAGCACCTTCAATAATCCAG
66 AAAAATATGAAACGGATTCTTGAAGACATTTTTAGCCGAAAACACCTTCAATAATCCAA
3945864 TCAATAAATTTTTA
1 TCAATAAATTTTTA
3945878 GGTGGGATTA
Statistics
Matches: 125, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
124 114 0.91
125 3 0.02
126 1 0.01
127 7 0.06
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.36
Consensus pattern (124 bp):
TCAATAAATTTTTAAGGATTATTCAAAGTATTTTCTTGCTAAAAACACTTTTAATAATCAATAGA
AAAAATATGAAACGGATTCTTGAAGACATTTTTAGCCGAAAACACCTTCAATAATCCAA
Found at i:3945919 original size:64 final size:63
Alignment explanation
Indices: 3945849--3946353 Score: 211
Period size: 64 Copynumber: 8.2 Consensus size: 63
3945839 GCCGAAAGCA
* *
3945849 CCTTCAATAATCCAGTCAATAAATTTTTAGGTGGGATTATTGAAGGCGATTTTTGTCAAAAATG
1 CCTTCAATAATCCA-TCAATAAATTTTTAGATAGGATTATTGAAGGCGATTTTTGTCAAAAATG
* ** * * * *
3945913 CCTTCAATAATTCATACAA-AAA-AGTTAGA-ACGGTTTTTTGAAGGC-ATTTTTAGCCCAAAAT
1 CCTTCAATAATCCAT-CAATAAATTTTTAGATA-GGATTATTGAAGGCGATTTTT-GTCAAAAAT
3945974 G
63 G
* * * *
3945975 CCTTTAATATTCTACA-CAATAAATTTTTAGGTAAGATTATTGAAGGCGA-TTTTGATCAAAAAT
1 CCTTCAATAATC--CATCAATAAATTTTTAGATAGGATTATTGAAGGCGATTTTTG-TCAAAAAT
3946038 G
63 G
* * * * *
3946039 CCTTTAATAA--CAT---T---TTGTT--A-AGGATTATTCAAGGCGTTTTCTTGTTAAAAATG
1 CCTTCAATAATCCATCAATAAATTTTTAGATAGGATTATTGAAGGCGATTT-TTGTCAAAAATG
* * ** * * *
3946092 CCCTT-AATAATCCAT-AGGAGAAATATGGA-AT-GGATTCTTGAAGGC-ATTTTTGTTTGAAAG
1 -CCTTCAATAATCCATCA--ATAAATTTTTAGATAGGATTATTGAAGGCGATTTTTG--TCAAAA
3946152 A-G
61 ATG
* * * * * *
3946154 TCTTAAAAAATCTAATCAATAAATATTTA-ATTGGGATTATTGAAGGCGATTTTTGTCAAAAATG
1 CCTTCAATAATC-CATCAATAAATTTTTAGA-TAGGATTATTGAAGGCGATTTTTGTCAAAAATG
* * * ** * * * * *
3946218 CCTTCAATAATCCACACAAAAAAGTTGGA-AT-GGATTTTTAAAGGTG-TTTTTGGCCCAAAATG
1 CCTTCAATAATCCA-TCAATAAATTTTTAGATAGGATTATTGAAGGCGATTTTT-GTCAAAAATG
* * * * * * *
3946280 CCTTTAATATTTCACA-CAATAAATTTTTAGGTAGGATTATTAAAGGCGCTTTTGGTAAAAAATG
1 CCTTCAATA-ATC-CATCAATAAATTTTTAGATAGGATTATTGAAGGCGATTTTTGTCAAAAATG
3946344 CCTTCAATAA
1 CCTTCAATAA
3946354 CATTTTGTTA
Statistics
Matches: 324, Mismatches: 76, Indels: 83
0.67 0.16 0.17
Matches are distributed among these distances:
52 14 0.04
53 15 0.05
54 7 0.02
55 7 0.02
58 1 0.00
60 2 0.01
61 17 0.05
62 93 0.29
63 39 0.12
64 116 0.36
65 13 0.04
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (63 bp):
CCTTCAATAATCCATCAATAAATTTTTAGATAGGATTATTGAAGGCGATTTTTGTCAAAAATG
Found at i:3945920 original size:303 final size:302
Alignment explanation
Indices: 3945362--3945922 Score: 666
Period size: 303 Copynumber: 1.8 Consensus size: 302
3945352 AAAAACACCC
* * *** *
3945362 TTAATAATCCATAGGAAAAATATGGAACGAATTCTTAAAGACGTTTTTGGCCGAAAGTGCCTTTA
1 TTAATAATCCATAGGAAAAATATGAAACGAATTCTTAAAGACGTTTTTAGCCGAAAACACCTTCA
* * *
3945427 ATAATCCAATCAATAAATTTTAAGTGGGATTATTGAATGTGGCTTTTGTCCAAAATGCCTTTAAT
66 ATAATCCAATCAATAAATTTTAA--GGGATTATTCAAAGTGGCTTTTGTCCAAAATACCTTTAAT
* * * ** * *
3945492 AAACCATACAAAAAAGTTGTAACGGATTCTTGAAGGTATTTTTGGCCCAAAATGCCTTTAATATT
129 AAACAATACAAAAAAGTTGAAACGGATTCTTGAAGATATTTTTGGCCCAAAACACCTTCAATAAT
*
3945557 CCACATAATAAATTTTTAGGTAAAATTATTAAAGGCAGTTTTGGTCAAAAACATCTTCAATAACA
194 CCACATAATAAATTTTTAGGTAAAATTATTAAAGGCAGTTTTGGTCAAAAACACCTTCAATAACA
3945622 TTTTATTATGGATTATTCAAGGTATTTTCTTGCTAAAAGCACTT
259 TTTTATTATGGATTATTCAAGGTATTTTCTTGCTAAAAGCACTT
* * *
3945666 TTAATAATCCATAGGAAAAATATGAAACGGATTCTTGAAGACGTTTTTAGCTGAAAACACCTTCA
1 TTAATAATCCATAGGAAAAATATGAAACGAATTCTTAAAGACGTTTTTAGCCGAAAACACCTTCA
** *
3945731 ATAATCCAATCAATAAATTTTTAA-GGATTATTCAAAGTGTTTTCTTG-CTAAAA-ACACTTTTA
66 ATAATCCAATCAATAAA-TTTTAAGGGATTATTCAAAGTGGCTT-TTGTCCAAAATAC-C-TTTA
** * * * *
3945793 ATAATTAATAGAAAAAA-TATGAAACGGATTCTTGAAGATATTTTTTGCCGAAAGCACCTTCAAT
127 ATAAACAATACAAAAAAGT-TGAAACGGATTCTTGAAGATATTTTTGGCCCAAAACACCTTCAAT
* *** * * **
3945857 AATCCA-GTCAATAAATTTTTAGGTGGGATTATTGAAGGC-GATTTTTGTCAAAAATGCCTTCAA
191 AATCCACAT-AATAAATTTTTAGGTAAAATTATTAAAGGCAG-TTTTGGTCAAAAACACCTTCAA
3945920 TAA
254 TAA
3945923 TTCATACAAA
Statistics
Matches: 213, Mismatches: 37, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
301 1 0.00
302 24 0.11
303 109 0.51
304 73 0.34
305 6 0.03
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.35
Consensus pattern (302 bp):
TTAATAATCCATAGGAAAAATATGAAACGAATTCTTAAAGACGTTTTTAGCCGAAAACACCTTCA
ATAATCCAATCAATAAATTTTAAGGGATTATTCAAAGTGGCTTTTGTCCAAAATACCTTTAATAA
ACAATACAAAAAAGTTGAAACGGATTCTTGAAGATATTTTTGGCCCAAAACACCTTCAATAATCC
ACATAATAAATTTTTAGGTAAAATTATTAAAGGCAGTTTTGGTCAAAAACACCTTCAATAACATT
TTATTATGGATTATTCAAGGTATTTTCTTGCTAAAAGCACTT
Found at i:3946101 original size:429 final size:428
Alignment explanation
Indices: 3945352--3946134 Score: 1079
Period size: 429 Copynumber: 1.8 Consensus size: 428
3945342 TTTTTGACAA
* * * *
3945352 AAAAACACCCTTAATAATCCATAGGAAAAATATGGAACGAATTCTTAAAGACGTTTTTGGCCGAA
1 AAAAACACCCTTAATAATCAATAGAAAAAATATGAAACGAATTCTTAAAGACATTTTTGGCCGAA
** * * * * *
3945417 AGTGCCTTTAATAATCCAATCAATAAATTTTAAGTGGGATTATTGAATGTGGCTTTTGTCCAAAA
66 AGCACCTTCAATAATCCAATCAATAAATTTTAAGTGGGATTATTGAAGGCGACTTTTGTCAAAAA
* * *
3945482 TGCCTTTAATAAACCATACAAAAAAGTTGTAACGGATTCTTGAAGGTATTTTTGGCCCAAAATGC
131 TGCCTTCAATAAACCATACAAAAAAGTTGTAACGGATTCTTGAAGGCATTTTTAGCCCAAAATGC
* * *
3945547 CTTTAATATTCCACATAATAAATTTTTAGGTAAAATTATTAAAGGCAGTTTTGGTCAAAAACATC
196 CTTTAATATTCCACACAATAAATTTTTAGGTAAAATTATTAAAGGCAGTTTTGATCAAAAACACC
* * *
3945612 TTCAATAACATTTTATTATGGATTATTCAAGGTATTTTCTTGCTAAAAGCACTTTTAATAATCCA
261 TTCAATAACATTTTATTAAGGATTATTCAAGGCATTTTCTTGCTAAAAGCACTCTTAATAATCCA
3945677 TAGGAAAAATATGAAACGGATTCTTGAAGACGTTTTTAGCTGAAAACACCTTCAATAATCCAATC
326 TAGGAAAAATATGAAACGGATTCTTGAAGACGTTTTTAGCTGAAAACACCTTCAATAATCCAATC
3945742 AATAAATTTTTAAGGATTATTCAAAGTGTTTTCTTGCT
391 AATAAATTTTTAAGGATTATTCAAAGTGTTTTCTTGCT
** * * * * *
3945780 AAAAACACTTTTAATAATTAATAGAAAAAATATGAAACGGATTCTTGAAGATATTTTTTGCCGAA
1 AAAAACACCCTTAATAATCAATAGAAAAAATATGAAACGAATTCTTAAAGACATTTTTGGCCGAA
* * *
3945845 AGCACCTTCAATAATCCAGTCAATAAATTTTTAGGTGGGATTATTGAAGGCGATTTTTGTCAAAA
66 AGCACCTTCAATAATCCAATCAATAAA-TTTTAAGTGGGATTATTGAAGGCGACTTTTGTCAAAA
** * *
3945910 ATGCCTTCAATAATTCATACAAAAAAGTTAG-AACGGTTTTTTGAAGGCATTTTTAGCCCAAAAT
130 ATGCCTTCAATAAACCATACAAAAAAGTT-GTAACGGATTCTTGAAGGCATTTTTAGCCCAAAAT
* * * *
3945974 GCCTTTAATATTCTACACAATAAATTTTTAGGTAAGATTATTGAAGGC-GATTTTGATCAAAAAT
194 GCCTTTAATATTCCACACAATAAATTTTTAGGTAAAATTATTAAAGGCAG-TTTTGATCAAAAAC
* * * * *
3946038 GCCTTTAATAACATTTTGTTAAGGATTATTCAAGGCGTTTTCTTGTTAAAAATGC-C-CTTAATA
258 ACCTTCAATAACATTTTATTAAGGATTATTCAAGGCATTTTCTTGCT-AAAA-GCACTCTTAATA
* * *
3946101 ATCCATAGGAGAAATATGGAATGGATTCTTGAAG
321 ATCCATAGGAAAAATATGAAACGGATTCTTGAAG
3946135 GCATTTTTGT
Statistics
Matches: 304, Mismatches: 46, Indels: 9
0.85 0.13 0.03
Matches are distributed among these distances:
428 78 0.26
429 218 0.72
430 6 0.02
431 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (428 bp):
AAAAACACCCTTAATAATCAATAGAAAAAATATGAAACGAATTCTTAAAGACATTTTTGGCCGAA
AGCACCTTCAATAATCCAATCAATAAATTTTAAGTGGGATTATTGAAGGCGACTTTTGTCAAAAA
TGCCTTCAATAAACCATACAAAAAAGTTGTAACGGATTCTTGAAGGCATTTTTAGCCCAAAATGC
CTTTAATATTCCACACAATAAATTTTTAGGTAAAATTATTAAAGGCAGTTTTGATCAAAAACACC
TTCAATAACATTTTATTAAGGATTATTCAAGGCATTTTCTTGCTAAAAGCACTCTTAATAATCCA
TAGGAAAAATATGAAACGGATTCTTGAAGACGTTTTTAGCTGAAAACACCTTCAATAATCCAATC
AATAAATTTTTAAGGATTATTCAAAGTGTTTTCTTGCT
Found at i:3946489 original size:35 final size:35
Alignment explanation
Indices: 3946443--3946511 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
3946433 GTATATATGC
* *
3946443 AGTCAGTTGTAGGTTTATGTCCAAAAAACATTTGA
1 AGTCAGTTGTAGATTTATGCCCAAAAAACATTTGA
3946478 AGTCAGTTGTAGATTTATGCCCAAAAAACATTTG
1 AGTCAGTTGTAGATTTATGCCCAAAAAACATTTG
3946512 GTTTATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (35 bp):
AGTCAGTTGTAGATTTATGCCCAAAAAACATTTGA
Found at i:3950943 original size:237 final size:237
Alignment explanation
Indices: 3950402--3952022 Score: 1447
Period size: 237 Copynumber: 6.9 Consensus size: 237
3950392 AAATGTAGGG
* * ** * * * *
3950402 AATTATTGAAGGCGTATTATGCAAAAAATACCTTTAATAAATTTTTTCAAAAAACTATAGCAAAT
1 AATTATTGAAGGCGTATAATGCAAAAAATACCTTCAATAAATTCCTTC-AAAAATTAGAACGAAT
** * * * *
3950467 TAGTGAAGGCATTTTTTTCCCAAAAAATGCCTTCACTAA-C-TGCTTTAAAATGTTAGTAGTGGA
65 TAGTGAAGGCATTTTTTT-AGAATAAATGCCTTCAATAACCAT-C-TTAAAATTTTAGTAGTGAA
* **
3950530 ATATTGAAGGCGTTTTTCACTAGAAGAC-C-TTTAATAATCTTAAACAATTTTTTAAAATAAATT
127 ATATTGAAGGCTTTTTTCACTAGAAGACGCATTTAATAATCCCAAACAATTTTTTAAAA-AAATT
* ** * * *
3950593 ATTAAAGGTGTTTGTTCTAAAAAATCTCCTTT-AATAATTCTGTACAAA
191 ATTGAAGGCATTTATTCTAAAAAAACT-CTTTCAATAATT-TGTAAAAA
* * * *
3950641 AATTATTGAAGGCATATAATACAAGAAATACCTTTAATAAATTCCTTCAAAAATTAGAACGAATT
1 AATTATTGAAGGCGTATAATGCAAAAAATACCTTCAATAAATTCCTTCAAAAATTAGAACGAATT
* ** * * *** * *
3950706 AGTGAAGGCATTTTCTTAGAATAAACACCTTGACTAATTGTTTTAAAATTTTAGAAGTGAAATAT
66 AGTGAAGGCATTTTTTTAGAATAAATGCCTTCAATAACCATCTTAAAATTTTAGTAGTGAAATAT
* * *
3950771 TGAAGGCTTTTTTCACTAGAAGACACATTTAATAATCCTAAATAATTTTTTAAAAAAATTATTGA
131 TGAAGGCTTTTTTCACTAGAAGACGCATTTAATAATCCCAAACAATTTTTTAAAAAAATTATTGA
*
3950836 AGGCATTTATCCTAAAAAAACTCTTTCAATAATTCTGTAAAAA
196 AGGCATTTATTCTAAAAAAACTCTTTCAATAATT-TGTAAAAA
* * * *
3950879 AATTATTGAAGGCGTATAATTCAAAAAATGCCTCCAA-AAATTCCTTCAAAAATTAGATCGAATT
1 AATTATTGAAGGCGTATAATGCAAAAAATACCTTCAATAAATTCCTTCAAAAATTAGAACGAATT
* * * ** *
3950943 ATTGAAGGTATTTTTTTGGAATAAACACCTTCAATAACCATCTTAAAATTTTAGTAGTGGAATAT
66 AGTGAAGGCATTTTTTTAGAATAAATGCCTTCAATAACCATCTTAAAATTTTAGTAGTGAAATAT
* *
3951008 TGAAGGCATTTTT---T-----A-G--TTTAATAATCCCAAACAA-TTGTTAAAAGGAAATTATT
131 TGAAGGCTTTTTTCACTAGAAGACGCATTTAATAATCCCAAACAATTTTTTAAAA--AAATTATT
* ** * * * * *
3951061 AAAGGTGTTT-TTTTATCAATAAACACCTTCAATAATTAGCTAAAAA
194 GAAGGCATTTATTCTA--AAAAAACTCTTTCAATAATTTG-TAAAAA
* * * * *
3951107 AATTATTGAAGGTGTTTAATGCAAAAAATACCTTTAATAAATTCTTTC--AAATTAGAATGAATT
1 AATTATTGAAGGCGTATAATGCAAAAAATACCTTCAATAAATTCCTTCAAAAATTAGAACGAATT
* ** * * * * * *
3951170 AGTAAAGGTGTTTTTCTAGAATAAATGCCTTTATTAACCGTCTTAAAATTTTGGTAGTGTAATAT
66 AGTGAAGGCATTTTTTTAGAATAAATGCCTTCAATAACCATCTTAAAATTTTAGTAGTGAAATAT
** * * *
3951235 TGAAGGCGTTTTTTCACTAGAAGATACCTTTAATAATCTCAAATAA-TTTTTAAATGAAAATTAT
131 TGAAGGC-TTTTTTCACTAGAAGACGCATTTAATAATCCCAAACAATTTTTTAAA--AAAATTAT
* *
3951299 TAAAGGCATTTATTCTAAAAAAACTCTTTCAATAACTTTGTAAAAG
193 TGAAGGCATTTATTCTAAAAAAACTCTTTCAATAA-TTTGTAAAAA
* * ** *
3951345 AATTATTAAAAGTATATAATTCAAAAAATACCTTCAATAAATTCCTTCAAAAATTAGAACGAATT
1 AATTATTGAAGGCGTATAATGCAAAAAATACCTTCAATAAATTCCTTCAAAAATTAGAACGAATT
* ** * * * *
3951410 AGTGAATGTGTTTTTCTAAAATAAATGCATTCAATAACCATATTAAAATTTTAGTAGT-AGAATA
66 AGTGAAGGCATTTTTTTAGAATAAATGCCTTCAATAACCATCTTAAAATTTTAGTAGTGA-AATA
** * * * * * *
3951474 TTGATTGC-GTTTTCTACTAGAAGATGCCTTTAGTAATCCCAAATAATTTTTAAAAGAAAATTAT
130 TTGAAGGCTTTTTTC-ACTAGAAGACGCATTTAATAATCCCAAACAATTTTTTAAA-AAAATTAT
* * * * *
3951538 TGAAGGCATTTTTTCTCAAGAAACCCTTTCAATAATTATCG-ACAAA
193 TGAAGGCATTTATTCTAAAAAAACTCTTTCAATAATT-T-GTAAAAA
* * * ** * * **
3951584 AATTATTAAAGGTGTTTAATGCAAAAAACGCCTTCAATAAATTCCTT--GAAATTATAAAAAATT
1 AATTATTGAAGGCGTATAATGCAAAAAATACCTTCAATAAATTCCTTCAAAAATTAGAACGAATT
* * * * * * *
3951647 AGTGAAGGTATTTTTCTGGAATAAATGCCTTGACTAACCATATTAAAATTTTAGTAGTGGAATAT
66 AGTGAAGGCATTTTTTTAGAATAAATGCCTTCAATAACCATCTTAAAATTTTAGTAGTGAAATAT
* * * *
3951712 TGAAGACATTTTTCATTAGAAGACGCATTTAATAATCCCAAACAA-TTTTAAAAAAAATTATTGA
131 TGAAGGCTTTTTTCACTAGAAGACGCATTTAATAATCCCAAACAATTTTTTAAAAAAATTATTGA
* * * * * * * *
3951776 AAGCATTTTTTCTTAAGAAACACCTTCAATAATTATCTACAAA
196 AGGCATTTATTCTAAAAAAACTCTTTCAATAATT-TGTAAAAA
* ** * *
3951819 AATTATTGAAGGCGTATAATGCATAAAACGCTTTCAATAAATTCCTTCAAAAATTAGAACAAATT
1 AATTATTGAAGGCGTATAATGCAAAAAATACCTTCAATAAATTCCTTCAAAAATTAGAACGAATT
* * *
3951884 AGTGAAGGCATTTTTTTGGAATAAACGCCTTCAATAATC-TCTT-AAA-TTTAGTAGTGAAATAT
66 AGTGAAGGCATTTTTTTAGAATAAATGCCTTCAATAACCATCTTAAAATTTTAGTAGTGAAATAT
* * * *
3951946 TAAAGG-TGTTTTCTAC-AGAA-ACGCATTTTATAATCCCAAACAATTTTTAAAAGAAAATTATT
131 TGAAGGCTTTTTTC-ACTAGAAGACGCATTTAATAATCCCAAACAATTTTTTAAA-AAAATTATT
*
3952008 GAAGGCATTTTTTCT
194 GAAGGCATTTATTCT
3952023 TAGGAAATGC
Statistics
Matches: 1154, Mismatches: 186, Indels: 89
0.81 0.13 0.06
Matches are distributed among these distances:
225 8 0.01
226 19 0.02
227 89 0.08
228 59 0.05
229 10 0.01
231 1 0.00
232 22 0.02
233 17 0.01
234 44 0.04
235 93 0.08
236 12 0.01
237 296 0.26
238 175 0.15
239 223 0.19
240 85 0.07
241 1 0.00
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (237 bp):
AATTATTGAAGGCGTATAATGCAAAAAATACCTTCAATAAATTCCTTCAAAAATTAGAACGAATT
AGTGAAGGCATTTTTTTAGAATAAATGCCTTCAATAACCATCTTAAAATTTTAGTAGTGAAATAT
TGAAGGCTTTTTTCACTAGAAGACGCATTTAATAATCCCAAACAATTTTTTAAAAAAATTATTGA
AGGCATTTATTCTAAAAAAACTCTTTCAATAATTTGTAAAAA
Found at i:3951671 original size:477 final size:469
Alignment explanation
Indices: 3950402--3952022 Score: 1336
Period size: 477 Copynumber: 3.4 Consensus size: 469
3950392 AAATGTAGGG
* * * * * * ** * * *
3950402 AATTATTGAAGGCGTATTATGCAAAAAATACCTTTAATAAATTTTTTCAAAAAACTATAGCAAAT
1 AATTATTAAAAGCATATAATGCAAAAAACACCTTCAATAAATTCCTTC-AAAAATTAGAACAAAT
** * * * *
3950467 TAGTGAAGGCATTTTTTTCCCAAA-AAATGCCTTCACTAACTGCT-TTAAAATGTTAGTAGTGGA
65 TAGTGAAGGCA--TTTTTCTAAAATAAACGCATTCAATAAC--CTATT-AAAT-TTAGTAGTGAA
* ** *
3950530 ATATTGAAGGCGTTTT-TCACTAG-AA-G-ACCTTTAATAATCTTAAACAATTTTTTAAAA-TAA
124 ATATTAAAGGCGTTTTCT-AC-AGAAACGCA-CTTT-ATAATCCCAAACAA-TTTTTAAAAGAAA
* ** * * * * * *
3950590 ATTATTAAAGGTGTTTGTTCT-AAAAAATCTCCTTTAATAATT--CTGTACAAAAATTATTGAAG
184 ATTATTGAAGGCATTTTTTCTCAAGAAA-CACCTTCAATAATTAGC-G-AAAAAAATTATTAAAG
** * * * * * ** * *
3950652 GCATATAATACAAGAAATACCTTTAATAAATTCCTTCAAAAATTAGAACGAATTAGTGAAGGCA-
246 GTGTTTAATGCAAAAAACACCTTCAATAAATTCCTTC--AAATTAGAAAAAATTAGTAAAGGTAT
** *** * * * * *
3950716 TTTTCTTAGAATAAACACCTTGACTAATTGTTTTAAAATTTTAGAAGTGAAATATTGAAGGCTTT
309 TTTTC-TAGAATAAATGCCTTGACTAACCATATTAAAATTTTAGTAGTGGAATATTGAAGACATT
* * * *
3950781 TTTCACTAGAAGACACATTTAATAATCCTAAATAATTTTTTAAAAAAATTATTGAAGGCATTTAT
373 TTTCACTAGAAGACACATTTAATAATCCCAAACAA-TTTTAAAAAAAATTATTGAAAGCATTTAT
* * * * * *
3950846 CCTAAAAAAACTCTTTCAATAATTCTGTAAAAA
437 TCTAAAAAAACACCTTCAATAATTATCTACAAA
* * * * ** * * *
3950879 AATTATTGAAGGCGTATAATTCAAAAAATGCCTCCAA-AAATTCCTTCAAAAATTAGATCGAATT
1 AATTATTAAAAGCATATAATGCAAAAAACACCTTCAATAAATTCCTTCAAAAATTAGAACAAATT
* * * ** * * * *
3950943 ATTGAAGGTATTTTTTTGGAATAAACACCTTCAATAACCATCTTAAAATTTTAGTAGTGGAATAT
66 AGTGAAGGCATTTTTCTAAAATAAACGCATTCAATAACC-TATT-AAA-TTTAGTAGTGAAATAT
* * * * * *
3951008 TGAAGGCATTTT-T-----TA-G---TTTAATAATCCCAAACAATTGTTAAAAGGAAATTATTAA
128 TAAAGGCGTTTTCTACAGAAACGCACTTT-ATAATCCCAAACAATTTTTAAAAGAAAATTATTGA
** * * * *
3951063 AGGTGTTTTTTTATCAATAAACACCTTCAATAATTAGCTAAAAAAATTATTGAAGGTGTTTAATG
192 AGG-CATTTTTTCTCAAGAAACACCTTCAATAATTAGCGAAAAAAATTATTAAAGGTGTTTAATG
* * * ** *
3951128 CAAAAAATACCTTTAATAAATTCTTTCAAATTAGAATGAATTAGTAAAGGTGTTTTTCTAGAATA
256 CAAAAAACACCTTCAATAAATTCCTTCAAATTAGAAAAAATTAGTAAAGGTATTTTTCTAGAATA
* * * * * * * *
3951193 AATGCCTTTATTAACCGTCTTAAAATTTTGGTAGTGTAATATTGAAGGCGTTTTTTCACTAGAAG
321 AATGCCTTGACTAACCATATTAAAATTTTAGTAGTGGAATATTGAAGAC-ATTTTTCACTAGAAG
* * * * *
3951258 ATACCTTTAATAATCTCAAATAATTTTTAAATGAAAATTATT-AAAGGCATTTATTCTAAAAAAA
385 ACACATTTAATAATCCCAAACAA-TTTTAAA-AAAAATTATTGAAA-GCATTTATTCTAAAAAAA
* * *
3951322 CTCTTTCAATAACTT-TGTA-AAA
447 CACCTTCAATAA-TTATCTACAAA
* * * *
3951344 GAATTATTAAAAGTATATAATTCAAAAAATACCTTCAATAAATTCCTTCAAAAATTAGAACGAAT
1 -AATTATTAAAAGCATATAATGCAAAAAACACCTTCAATAAATTCCTTCAAAAATTAGAACAAAT
* ** *
3951409 TAGTGAATGTGTTTTTCTAAAATAAATGCATTCAATAACCATATTAAAATTTTAGTAGT-AGAAT
65 TAGTGAAGGCATTTTTCTAAAATAAACGCATTCAATAACC-TATT-AAA-TTTAGTAGTGA-AAT
* ** * *
3951473 ATTGATTGCGTTTTCTACTAGAAGATGC-CTTTAGTAATCCCAAATAATTTTTAAAAGAAAATTA
126 ATTAAAGGCGTTTTCTAC-AGAA-ACGCACTTTA-TAATCCCAAACAATTTTTAAAAGAAAATTA
* *
3951537 TTGAAGGCATTTTTTCTCAAGAAAC-CCTTTCAATAATTATCGACAAAAATTATTAAAGGTGTTT
188 TTGAAGGCATTTTTTCTCAAGAAACACC-TTCAATAATTAGCGAAAAAAATTATTAAAGGTGTTT
* * * * *
3951601 AATGCAAAAAACGCCTTCAATAAATTCCTTGAAATTATAAAAAATTAGTGAAGGTATTTTTCTGG
252 AATGCAAAAAACACCTTCAATAAATTCCTTCAAATTAGAAAAAATTAGTAAAGGTATTTTTCTAG
*
3951666 AATAAATGCCTTGACTAACCATATTAAAATTTTAGTAGTGGAATATTGAAGACATTTTTCATTAG
317 AATAAATGCCTTGACTAACCATATTAAAATTTTAGTAGTGGAATATTGAAGACATTTTTCACTAG
* * * *
3951731 AAGACGCATTTAATAATCCCAAACAATTTTAAAAAAAATTATTGAAAGCATTTTTTCTTAAGAAA
382 AAGACACATTTAATAATCCCAAACAATTTTAAAAAAAATTATTGAAAGCATTTATTCTAAAAAAA
3951796 CACCTTCAATAATTATCTACAAA
447 CACCTTCAATAATTATCTACAAA
* * * * * *
3951819 AATTATTGAAGGCGTATAATGCATAAAACGCTTTCAATAAATTCCTTCAAAAATTAGAACAAATT
1 AATTATTAAAAGCATATAATGCAAAAAACACCTTCAATAAATTCCTTCAAAAATTAGAACAAATT
* ** * * *
3951884 AGTGAAGGCATTTTTTTGGAATAAACGCCTTCAATAATCTCTTAAATTTAGTAGTGAAATATTAA
66 AGTGAAGGCATTTTTCTAAAATAAACGCATTCAATAACCTATTAAATTTAGTAGTGAAATATTAA
* *
3951949 AGGTGTTTTCTACAGAAACGCATTTTATAATCCCAAACAATTTTTAAAAGAAAATTATTGAAGGC
131 AGGCGTTTTCTACAGAAACGCACTTTATAATCCCAAACAATTTTTAAAAGAAAATTATTGAAGGC
3952014 ATTTTTTCT
196 ATTTTTTCT
3952023 TAGGAAATGC
Statistics
Matches: 953, Mismatches: 156, Indels: 78
0.80 0.13 0.07
Matches are distributed among these distances:
464 75 0.08
465 80 0.08
466 137 0.14
467 95 0.10
468 4 0.00
469 49 0.05
470 8 0.01
471 26 0.03
472 5 0.01
473 13 0.01
474 168 0.18
475 36 0.04
476 42 0.04
477 179 0.19
478 36 0.04
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (469 bp):
AATTATTAAAAGCATATAATGCAAAAAACACCTTCAATAAATTCCTTCAAAAATTAGAACAAATT
AGTGAAGGCATTTTTCTAAAATAAACGCATTCAATAACCTATTAAATTTAGTAGTGAAATATTAA
AGGCGTTTTCTACAGAAACGCACTTTATAATCCCAAACAATTTTTAAAAGAAAATTATTGAAGGC
ATTTTTTCTCAAGAAACACCTTCAATAATTAGCGAAAAAAATTATTAAAGGTGTTTAATGCAAAA
AACACCTTCAATAAATTCCTTCAAATTAGAAAAAATTAGTAAAGGTATTTTTCTAGAATAAATGC
CTTGACTAACCATATTAAAATTTTAGTAGTGGAATATTGAAGACATTTTTCACTAGAAGACACAT
TTAATAATCCCAAACAATTTTAAAAAAAATTATTGAAAGCATTTATTCTAAAAAAACACCTTCAA
TAATTATCTACAAA
Found at i:3969949 original size:20 final size:20
Alignment explanation
Indices: 3969926--3969963 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3969916 TAATGTAAGG
3969926 AGCTGAC-TTGGGAAGATTCA
1 AGCTGACTTTGGG-AGATTCA
3969946 AGCTGACTTTGGGAGATT
1 AGCTGACTTTGGGAGATT
3969964 AAAAGAGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.29
Consensus pattern (20 bp):
AGCTGACTTTGGGAGATTCA
Found at i:3974458 original size:14 final size:13
Alignment explanation
Indices: 3974433--3974474 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
3974423 ATTAGTATCT
3974433 TTAAAAAAATTAA
1 TTAAAAAAATTAA
3974446 TTAAAAAACATTAA
1 TTAAAAAA-ATTAA
*
3974460 --AATAAAATTAA
1 TTAAAAAAATTAA
3974471 TTAA
1 TTAA
3974475 TTAATTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
11 5 0.20
12 5 0.20
13 10 0.40
14 5 0.20
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAAAAAAATTAA
Found at i:3979809 original size:16 final size:16
Alignment explanation
Indices: 3979788--3979819 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
3979778 AAGGGATATC
3979788 TTTGAAAGCATTAATG
1 TTTGAAAGCATTAATG
3979804 TTTGAAAGCATTAATG
1 TTTGAAAGCATTAATG
3979820 CAAACGAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (16 bp):
TTTGAAAGCATTAATG
Found at i:3986344 original size:31 final size:32
Alignment explanation
Indices: 3986276--3986343 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 32
3986266 TTTCACTTGA
*
3986276 GAAAAAGATAAAGAAAAGTAAAAAAAAAAAAT
1 GAAAAAGAGAAAGAAAAGTAAAAAAAAAAAAT
* *
3986308 GAAAAAGAGAAA-AAAAGTCACAAAAAAAAA-
1 GAAAAAGAGAAAGAAAAGTAAAAAAAAAAAAT
3986338 GAAAAA
1 GAAAAA
3986344 AACAAGATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 6 0.18
31 16 0.48
32 11 0.33
ACGTcount: A:0.78, C:0.03, G:0.13, T:0.06
Consensus pattern (32 bp):
GAAAAAGAGAAAGAAAAGTAAAAAAAAAAAAT
Found at i:3987402 original size:28 final size:28
Alignment explanation
Indices: 3987349--3987403 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
3987339 ATTTTAAAGT
*
3987349 TTCAAAGCCTCTGTTGGGAAGGAGCCAC
1 TTCAAAGCCTCTGTTGGGAAGAAGCCAC
3987377 TTCAAAGCCTCTGTTGGGGAA-AAGCCA
1 TTCAAAGCCTCTGTT-GGGAAGAAGCCA
3987404 TTTTCAGACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 20 0.80
29 5 0.20
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (28 bp):
TTCAAAGCCTCTGTTGGGAAGAAGCCAC
Found at i:3990811 original size:23 final size:24
Alignment explanation
Indices: 3990785--3990852 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 24
3990775 CTTTCAAATA
*
3990785 ATTAATTAAAATAAAATTA-ATTG
1 ATTAATTAAAATAAAATAATATTG
*
3990808 ATTAATTAAAATAGAATAATATTG
1 ATTAATTAAAATAAAATAATATTG
* *
3990832 A-TAATAAAAATTAAAAAAATA
1 ATTAATTAAAA-TAAAATAATA
3990853 GAGCTAGAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
23 25 0.66
24 13 0.34
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (24 bp):
ATTAATTAAAATAAAATAATATTG
Found at i:3993155 original size:16 final size:16
Alignment explanation
Indices: 3993096--3993155 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 16
3993086 GGATTTGTAT
3993096 CTTTCCATTTTTAGTAA
1 CTTTCCA-TTTTAGTAA
* *
3993113 CCTACCATTTTAGATAA
1 CTTTCCATTTTAG-TAA
* *
3993130 C-TGCTAATTTTAGTAA
1 CTTTC-CATTTTAGTAA
3993146 CTTTCCATTT
1 CTTTCCATTT
3993156 AGGGCTTCCT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
16 16 0.47
17 18 0.53
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (16 bp):
CTTTCCATTTTAGTAA
Found at i:3993591 original size:16 final size:16
Alignment explanation
Indices: 3993532--3993591 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 16
3993522 GGATTTGTAT
3993532 CTTTCCATTTTTAGTAA
1 CTTTCCA-TTTTAGTAA
* *
3993549 CCTACCATTTTAGATAA
1 CTTTCCATTTTAG-TAA
* *
3993566 C-TGCTAATTTTAGTAA
1 CTTTC-CATTTTAGTAA
3993582 CTTTCCATTT
1 CTTTCCATTT
3993592 AGGGCTTCCT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
16 16 0.47
17 18 0.53
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (16 bp):
CTTTCCATTTTAGTAA
Found at i:3994029 original size:16 final size:16
Alignment explanation
Indices: 3993978--3994029 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
3993968 ATCTTTCCAT
*
3993978 TTTTAGTAACTTACCA
1 TTTTAGTAACTTATCA
** *
3993994 TTTTAGATAACTGCTAA
1 TTTTAG-TAACTTATCA
*
3994011 TTTTAGTAACTTTTCA
1 TTTTAGTAACTTATCA
3994027 TTT
1 TTT
3994030 AGGGCTTTCT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
16 16 0.57
17 12 0.43
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (16 bp):
TTTTAGTAACTTATCA
Found at i:3994452 original size:408 final size:409
Alignment explanation
Indices: 3993775--3994592 Score: 1462
Period size: 408 Copynumber: 2.0 Consensus size: 409
3993765 TATTTCATGC
3993775 ATTTTAGTCCGAGTTAGGAATTTAAGTACATTAATTTTCAAATTAAAAATGCTAACTTTCTTCTT
1 ATTTTAGTCCGAGTTAGGAATTTAAGTACATTAATTTTCAAATTAAAAATGCTAACTTTCTTCTT
*
3993840 TTATGTTTTATTAGGTTAATTTTCAGTTTTAATTTGTTGCTTCTAGGTTTTGATTTCTATCTCTT
66 TTATGTTTTATTAGGTTAATTTTCAATTTTAATTTGTTGCTTCTAGGTTTTGATTTCTATCTCTT
*
3993905 CCCTTTTTAATTGCAATTTTATTTCATGCTTTTAATTTTGTCCAGTTTAATTTTAAGATTTGTAT
131 CCCTTTTTAACTGCAATTTTATTTCATGCTTTTAATTTTGTCCAGTTTAATTTTAAGATTTGTAT
* *
3993970 CTTTCCATTTTTAGTAACTTACCATTTTAGATAACTGCTAATTTTAGTAACTTTTCATTTAGGGC
196 CTTTCCATTTTTAGTAACCTACCATTTTAGATAACTGCTAATTTTAGTAACTTTCCATTTAGGGC
*
3994035 TTTCTTTCCATAATTTGTAGTTAAATTAGGTTTAATTA-TTGGTAATTTTGTTAGATAAATTAGA
261 TTCCTTTCCATAATTTGTAGTTAAATTAGGTTTAATTATTTGGTAATTTTGTTAGATAAATTAGA
3994099 TCAACT-AAAATTTTTTTATAGGATTAGATATACCTAAAACATCAAAGTTGGTACCTACCTCTAG
326 TCAACTGAAAA-TTTTTTATAGGATTAGATATACCTAAAACATCAAAGTTGGTACCTACCTCTAG
3994163 GTTTAGAACTCCCAATCTCT
390 GTTTAGAACTCCCAATCTCT
* *
3994183 ATTTTAGTCTGAGTTAGGAATTTAAGTACATTAATTTTTAAATTAAAAATGCTAACTTTCTTCTT
1 ATTTTAGTCCGAGTTAGGAATTTAAGTACATTAATTTTCAAATTAAAAATGCTAACTTTCTTCTT
3994248 TTATGTTTTATTAGGTTAATTTTCAATTTTAATTTGTTGCTTCTAGGTTTTGATTTCTATCTCTT
66 TTATGTTTTATTAGGTTAATTTTCAATTTTAATTTGTTGCTTCTAGGTTTTGATTTCTATCTCTT
* *
3994313 CCCTTTTTAACTGCAATTTTATTTCATGTTTTTAATTTTG-CCAAGTTTAATTTTAGGATTTGTA
131 CCCTTTTTAACTGCAATTTTATTTCATGCTTTTAATTTTGTCC-AGTTTAATTTTAAGATTTGTA
*
3994377 TTTTTCCATTTTTAGTAACCTACCATTTTAGATAACTGCTAATTTTAGTAACTTTCCATTTAGGG
195 TCTTTCCATTTTTAGTAACCTACCATTTTAGATAACTGCTAATTTTAGTAACTTTCCATTTAGGG
*
3994442 CTTCCTTTCCATAATTTGTAGTTAATTTAGGTTTAATTATTTGGTAATTTTGTTAGATAAATTAG
260 CTTCCTTTCCATAATTTGTAGTTAAATTAGGTTTAATTATTTGGTAATTTTGTTAGATAAATTAG
* ** *
3994507 ATCAATTGAAAATTTTTTATAGGATTAGATATACCTAAAATGTCAAAGTTGGTACTTACCTCTAG
325 ATCAACTGAAAATTTTTTATAGGATTAGATATACCTAAAACATCAAAGTTGGTACCTACCTCTAG
3994572 GTTTAGAACTCCCAATCTCT
390 GTTTAGAACTCCCAATCTCT
3994592 A
1 A
3994593 GTGAGTTGAT
Statistics
Matches: 392, Mismatches: 15, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
407 2 0.01
408 284 0.72
409 102 0.26
410 4 0.01
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.48
Consensus pattern (409 bp):
ATTTTAGTCCGAGTTAGGAATTTAAGTACATTAATTTTCAAATTAAAAATGCTAACTTTCTTCTT
TTATGTTTTATTAGGTTAATTTTCAATTTTAATTTGTTGCTTCTAGGTTTTGATTTCTATCTCTT
CCCTTTTTAACTGCAATTTTATTTCATGCTTTTAATTTTGTCCAGTTTAATTTTAAGATTTGTAT
CTTTCCATTTTTAGTAACCTACCATTTTAGATAACTGCTAATTTTAGTAACTTTCCATTTAGGGC
TTCCTTTCCATAATTTGTAGTTAAATTAGGTTTAATTATTTGGTAATTTTGTTAGATAAATTAGA
TCAACTGAAAATTTTTTATAGGATTAGATATACCTAAAACATCAAAGTTGGTACCTACCTCTAGG
TTTAGAACTCCCAATCTCT
Found at i:3995484 original size:17 final size:17
Alignment explanation
Indices: 3995462--3995499 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
3995452 AAAAATCTAA
3995462 AATGTATGGAATTGATG
1 AATGTATGGAATTGATG
3995479 AATGTATGGAATTGATG
1 AATGTATGGAATTGATG
3995496 AATG
1 AATG
3995500 CATAGATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.34
Consensus pattern (17 bp):
AATGTATGGAATTGATG
Found at i:3996897 original size:60 final size:60
Alignment explanation
Indices: 3996827--3996941 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
3996817 TTAAATGGGG
* * * * *
3996827 TTATTTAAGGCGTTTTTCTTGAAAAATGCCTTCAATAATGC-CCTTCAATTTTTTTTTAGA
1 TTATTTAAGGCGTTTCTCGTCAAAAACGCCTTAAATAAT-CTCCTTCAATTTTTTTTTAGA
* *
3996887 TTATTTAAGGCGTTTCTGGTCAAAAACGCCTTAAATAATCTCCTTCCATTTTTTT
1 TTATTTAAGGCGTTTCTCGTCAAAAACGCCTTAAATAATCTCCTTCAATTTTTTT
3996942 AAAATTATTC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
59 1 0.02
60 46 0.98
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.45
Consensus pattern (60 bp):
TTATTTAAGGCGTTTCTCGTCAAAAACGCCTTAAATAATCTCCTTCAATTTTTTTTTAGA
Found at i:4010053 original size:20 final size:22
Alignment explanation
Indices: 4010030--4010073 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
4010020 AATAATTTAT
*
4010030 AAAA-TAAGATTATCTGG-TAA
1 AAAATTAAAATTATCTGGATAA
*
4010050 AAAATTAAAATTATTTGGATAA
1 AAAATTAAAATTATCTGGATAA
4010072 AA
1 AA
4010074 TCCATATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.55, C:0.02, G:0.11, T:0.32
Consensus pattern (22 bp):
AAAATTAAAATTATCTGGATAA
Done.