Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 38 of 131
Found at i:8292165 original size:29 final size:30
Alignment explanation
Indices: 8292112--8292168 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
8292102 CCTTTTTGCT
* *
8292112 TTTCTTTTTTTTTTTTTATTCTTCATTTCC
1 TTTCATTTTTTTCTTTTATTCTTCATTTCC
*
8292142 TTTCATTTTTTTCTTTTCTT-TTCATTT
1 TTTCATTTTTTTCTTTTATTCTTCATTT
8292169 TTTTTTTGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (30 bp):
TTTCATTTTTTTCTTTTATTCTTCATTTCC
Found at i:8292169 original size:18 final size:18
Alignment explanation
Indices: 8292137--8292175 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
8292127 TTATTCTTCA
8292137 TTTCCTTTCATTTTTTTCT
1 TTTCCTTTCATTTTTTT-T
*
8292156 TTTCTTTTCATTTTTTTT
1 TTTCCTTTCATTTTTTTT
8292174 TT
1 TT
8292176 GCATTCTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTCCTTTCATTTTTTTT
Found at i:8293324 original size:12 final size:11
Alignment explanation
Indices: 8293306--8293347 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
8293296 CAAGACTCAA
8293306 ATTTTTTTTTC
1 ATTTTTTTTTC
8293317 ATTTTTTTTTC
1 ATTTTTTTTTC
8293328 A--TTTTTTTC
1 ATTTTTTTTTC
8293337 ATTATTTTTTT
1 ATT-TTTTTTT
8293348 GCTTTTGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 9 0.32
11 12 0.43
12 7 0.25
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (11 bp):
ATTTTTTTTTC
Found at i:8293334 original size:20 final size:21
Alignment explanation
Indices: 8293309--8293347 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
8293299 GACTCAAATT
8293309 TTTTTTTCATT-TTTTTTTCA
1 TTTTTTTCATTATTTTTTTCA
8293329 TTTTTTTCATTATTTTTTT
1 TTTTTTTCATTATTTTTTT
8293348 GCTTTTGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTTTCATTATTTTTTTCA
Found at i:8295074 original size:20 final size:20
Alignment explanation
Indices: 8295031--8295074 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
8295021 ACATAAATGG
* * **
8295031 ATGAATGGATGAATGGACGT
1 ATGAATGAATGAATGCACAA
8295051 ATGAATGAATGAATGCACAA
1 ATGAATGAATGAATGCACAA
8295071 ATGA
1 ATGA
8295075 CAAAGCTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.07, G:0.27, T:0.23
Consensus pattern (20 bp):
ATGAATGAATGAATGCACAA
Found at i:8297316 original size:26 final size:26
Alignment explanation
Indices: 8297270--8297320 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
8297260 ATTTTTTTGA
*
8297270 AAAAATAAAATAAAGAGAATTAAATT
1 AAAAATAAAATAAAGACAATTAAATT
*
8297296 AAAAATTAAATAAA-ACCAATTAAAT
1 AAAAATAAAATAAAGA-CAATTAAAT
8297321 CCACAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.24
Consensus pattern (26 bp):
AAAAATAAAATAAAGACAATTAAATT
Found at i:8298587 original size:8 final size:8
Alignment explanation
Indices: 8298576--8298614 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
8298566 TTTCTTTAAA
8298576 ATTATTTT
1 ATTATTTT
*
8298584 ATTATTAT
1 ATTATTTT
*
8298592 ATTATATT
1 ATTATTTT
8298600 ATTATTATT
1 ATTATT-TT
8298609 ATTATT
1 ATTATT
8298615 ATGCATAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
8 18 0.69
9 8 0.31
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
ATTATTTT
Found at i:8298590 original size:3 final size:3
Alignment explanation
Indices: 8298576--8298616 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
8298566 TTTCTTTAAA
8298576 ATT ATT -TT ATT ATT A-T ATT A-T ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
8298617 GCATAAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 6 0.17
3 29 0.83
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:8298595 original size:16 final size:17
Alignment explanation
Indices: 8298576--8298614 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
8298566 TTTCTTTAAA
8298576 ATTATTTTATTATTA-T
1 ATTATTTTATTATTATT
*
8298592 ATTATATTATTATTATT
1 ATTATTTTATTATTATT
8298609 ATTATT
1 ATTATT
8298615 ATGCATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTATTTTATTATTATT
Found at i:8299271 original size:12 final size:12
Alignment explanation
Indices: 8299256--8299289 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
8299246 CATTATATAA
8299256 AAAATTATTTTT
1 AAAATTATTTTT
8299268 AAAATTATTTTT
1 AAAATTATTTTT
8299280 AAAATTATTT
1 AAAATTATTT
8299290 ATTTATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AAAATTATTTTT
Found at i:8299331 original size:19 final size:21
Alignment explanation
Indices: 8299296--8299347 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
8299286 ATTTATTTAT
8299296 ATATTTATATT-TAAAAA-ATA
1 ATATTT-TATTATAAAAATATA
8299316 ATATTTTATTATAAAAATATA
1 ATATTTTATTATAAAAATATA
8299337 ATATTTTATTA
1 ATATTTTATTA
8299348 ATTTTGGATC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.13
20 12 0.40
21 14 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATATTTTATTATAAAAATATA
Found at i:8302586 original size:3 final size:3
Alignment explanation
Indices: 8302578--8302630 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
8302568 GAGTATTTAC
8302578 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8302626 TAT TA
1 TAT TA
8302631 AAAAGGGTCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:8303111 original size:21 final size:21
Alignment explanation
Indices: 8303077--8303123 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
8303067 GGTTTTAATT
*
8303077 TAAAAGAAAATGGGTTTTTTC
1 TAAAAGAAAATGGGTTTTCTC
8303098 TAAAA-AAAATTGGGTTTTCTC
1 TAAAAGAAAA-TGGGTTTTCTC
8303119 TAAAA
1 TAAAA
8303124 CNNNNNNNNN
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.43, C:0.06, G:0.15, T:0.36
Consensus pattern (21 bp):
TAAAAGAAAATGGGTTTTCTC
Found at i:8307525 original size:4 final size:4
Alignment explanation
Indices: 8307516--8307559 Score: 79
Period size: 4 Copynumber: 11.0 Consensus size: 4
8307506 TAGATACATA
*
8307516 AATG AATG AATG GATG AATG AATG AATG AATG AATG AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG
8307560 CACAAATGAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.27, T:0.25
Consensus pattern (4 bp):
AATG
Found at i:8311078 original size:3 final size:3
Alignment explanation
Indices: 8311065--8311099 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
8311055 TTTCTTTAAA
* *
8311065 ATT ACT ATT ATT ATT ATT CTT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
8311100 GCAAAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:8311800 original size:18 final size:16
Alignment explanation
Indices: 8311777--8311816 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
8311767 AATTTTTTAT
8311777 TTATATATATTTATATAA
1 TTATATAT-TTTA-ATAA
*
8311795 TTATATATTTTAATAT
1 TTATATATTTTAATAA
8311811 TTATAT
1 TTATAT
8311817 TTAAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.43
17 4 0.19
18 8 0.38
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATATATTTTAATAA
Found at i:8311801 original size:16 final size:16
Alignment explanation
Indices: 8311780--8311837 Score: 52
Period size: 15 Copynumber: 3.8 Consensus size: 16
8311770 TTTTTATTTA
8311780 TATATATTTATATAAT
1 TATATATTTATATAAT
8311796 TATATATTT-TA-ATAT
1 TATATATTTATATA-AT
* *
8311811 T-TATATTTAAAAAAT
1 TATATATTTATATAAT
*
8311826 AATAT-TTTATAT
1 TATATATTTATAT
8311838 TTTAAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
14 8 0.24
15 13 0.38
16 13 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATATATTTATATAAT
Found at i:8311816 original size:30 final size:27
Alignment explanation
Indices: 8311799--8311857 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 27
8311789 ATATAATTAT
8311799 ATATTTTAATATTTATATTTAAAAAATA
1 ATATTTT-ATATTTATATTTAAAAAATA
8311827 ATA-TTT-TA--TAT-TTTAAAAAATA
1 ATATTTTATATTTATATTTAAAAAATA
8311849 ATATTTTAT
1 ATATTTTAT
8311858 TAATTTCGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
22 14 0.48
23 6 0.21
24 1 0.03
25 2 0.07
27 3 0.10
28 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
ATATTTTATATTTATATTTAAAAAATA
Found at i:8311836 original size:21 final size:22
Alignment explanation
Indices: 8311805--8311857 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
8311795 TTATATATTT
8311805 TAATA-TTTATA-TTTAAAAAA
1 TAATATTTTATATTTTAAAAAA
8311825 TAATATTTTATATTTTAAAAAA
1 TAATATTTTATATTTTAAAAAA
8311847 TAATATTTTAT
1 TAATATTTTAT
8311858 TAATTTCGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 5 0.16
21 6 0.19
22 20 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TAATATTTTATATTTTAAAAAA
Found at i:8315086 original size:3 final size:3
Alignment explanation
Indices: 8315080--8315135 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
8315070 CTACTACTAC
8315080 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8315128 TAT TAT TA
1 TAT TAT TA
8315136 AAAAGGGTAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:8315997 original size:58 final size:58
Alignment explanation
Indices: 8315926--8316077 Score: 236
Period size: 58 Copynumber: 2.6 Consensus size: 58
8315916 TTTATATAAG
8315926 AGAAAATTGATACTTTCAACTTTTCCCT-AAAATATTTTTTTGGAAA-CTTTAATTTCGA
1 AGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTT-GAAATCTTTAATTTCGA
* * *
8315984 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAATTTTTAATTTCGA
1 AGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAATCTTTAATTTCGA
*
8316042 AGAAAATTGATATTTTCAACTTTTCCCTAAAAATAT
1 AGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT
8316078 ATATATAAAT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
57 4 0.05
58 76 0.88
59 6 0.07
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (58 bp):
AGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAATCTTTAATTTCGA
Found at i:8316276 original size:6 final size:6
Alignment explanation
Indices: 8316252--8316416 Score: 94
Period size: 6 Copynumber: 27.0 Consensus size: 6
8316242 AAAGAAAATG
*
8316252 AAATAA ATAA-AA TAAATAA AAAT-A AAATAA AAATAA AAA-AT AAAT-A
1 AAATAA A-AATAA -AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
* * * *
8316298 AAATGA AAAT-A AAATAAA AAATAG AAAGAA AAA-AA AATTAA ACAACCCT-A
1 AAATAA AAATAA AAAT-AA AAATAA AAATAA AAATAA AAATAA A-AA---TAA
* * *
8316348 ATATAA CAATAA TAAATAAA TAAATAA AAA-AA ATAAAAA AAATAA AAATAA
1 AAATAA AAATAA -AAAT-AA -AAATAA AAATAA A-AATAA AAATAA AAATAA
*
8316399 AAATAA AAATAA TAATAA
1 AAATAA AAATAA AAATAA
8316417 TAAAAAGAAA
Statistics
Matches: 128, Mismatches: 13, Indels: 36
0.72 0.07 0.20
Matches are distributed among these distances:
5 26 0.20
6 72 0.56
7 19 0.15
8 8 0.06
9 2 0.02
10 1 0.01
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:8316276 original size:15 final size:15
Alignment explanation
Indices: 8316256--8316422 Score: 95
Period size: 15 Copynumber: 11.2 Consensus size: 15
8316246 AAAATGAAAT
8316256 AAATAAAATAAATAA
1 AAATAAAATAAATAA
8316271 AAATAAAATAAA-AA
1 AAATAAAATAAATAA
*
8316285 TAA-AAAATAAAT-A
1 AAATAAAATAAATAA
8316298 AAATGAAAATAAAATAAA
1 AAAT-AAAAT-AAAT-AA
* *
8316316 AAATAGAAAGAAAAAA
1 AAATA-AAATAAATAA
* * *
8316332 AAATTAAACAACCCT-A
1 AAATAAAATAA--ATAA
*
8316348 ATATAACAAT-AATAA
1 AAATAA-AATAAATAA
8316363 ATAA-ATAAATAAA-AA
1 A-AATA-AAATAAATAA
*
8316378 AAATAAAAAAAATAA
1 AAATAAAATAAATAA
8316393 AAAT--AA-AAATAA
1 AAATAAAATAAATAA
8316405 AAATAATAAT-AATAA
1 AAATAA-AATAAATAA
8316420 AAA
1 AAA
8316423 GAAACGAAAA
Statistics
Matches: 118, Mismatches: 14, Indels: 40
0.69 0.08 0.23
Matches are distributed among these distances:
12 10 0.08
13 13 0.11
14 13 0.11
15 48 0.41
16 20 0.17
17 6 0.05
18 8 0.07
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (15 bp):
AAATAAAATAAATAA
Found at i:8316681 original size:14 final size:14
Alignment explanation
Indices: 8316662--8316704 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
8316652 CAGCAAAACC
*
8316662 TTTCTTCTCTTCTG
1 TTTCTTCCCTTCTG
*
8316676 TTTCTTCCCTTCTAT
1 TTTCTTCCCTTCT-G
8316691 TTTCTCTCCCTTCT
1 TTTCT-TCCCTTCT
8316705 CTCTAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.48
15 5 0.20
16 8 0.32
ACGTcount: A:0.02, C:0.35, G:0.02, T:0.60
Consensus pattern (14 bp):
TTTCTTCCCTTCTG
Found at i:8316778 original size:18 final size:18
Alignment explanation
Indices: 8316755--8316800 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
8316745 TTCTAGAAAA
8316755 TTCATCGAAATCTGAGTT
1 TTCATCGAAATCTGAGTT
8316773 TTCATCGAAATCTGAGTT
1 TTCATCGAAATCTGAGTT
8316791 TTCATCGAAA
1 TTCATCGAAA
8316801 GTTCATCGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.37
Consensus pattern (18 bp):
TTCATCGAAATCTGAGTT
Found at i:8317352 original size:22 final size:23
Alignment explanation
Indices: 8317304--8317361 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
8317294 AAAAAATTAA
* *
8317304 CAGATAAATTAAAATTAAATAAT
1 CAGATAAATTATAATCAAATAAT
*
8317327 -AGATAAATTATAA-CATATAAT
1 CAGATAAATTATAATCAAATAAT
8317348 CAGATAAATATATA
1 CAGATAAAT-TATA
8317362 TAAATATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 6 0.20
22 20 0.67
23 4 0.13
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (23 bp):
CAGATAAATTATAATCAAATAAT
Found at i:8317471 original size:29 final size:30
Alignment explanation
Indices: 8317439--8317502 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
8317429 AATAAATTAT
* *
8317439 AAATACATAAGATAAAAAAA-ATAAAAGAA
1 AAATACATAAGAAAAAAAAACAAAAAAGAA
* * *
8317468 AAATATATATGAAAAAAAAACAAAAAATAA
1 AAATACATAAGAAAAAAAAACAAAAAAGAA
8317498 AAATA
1 AAATA
8317503 AAAATGTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.16
Consensus pattern (30 bp):
AAATACATAAGAAAAAAAAACAAAAAAGAA
Found at i:8317499 original size:6 final size:6
Alignment explanation
Indices: 8317455--8317560 Score: 62
Period size: 6 Copynumber: 17.8 Consensus size: 6
8317445 ATAAGATAAA
* * *
8317455 AAAAAT -AAAAG AAAAAT ATATAT GAAAAA- AAAACA- AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAA-AT AAAAAT AAAAAT
** * *
8317502 AAAAAT GTAAAT -AAAAT AAAAA- CAAAAT AAAAAT GAAAAAC ACAAAA-
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT A-AAAAT
8317549 ATAAAAT AAAAA
1 A-AAAAT AAAAA
8317561 AATGGGCTTA
Statistics
Matches: 78, Mismatches: 13, Indels: 18
0.72 0.12 0.17
Matches are distributed among these distances:
5 17 0.22
6 48 0.62
7 13 0.17
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:8317506 original size:36 final size:36
Alignment explanation
Indices: 8317454--8317560 Score: 105
Period size: 36 Copynumber: 3.0 Consensus size: 36
8317444 CATAAGATAA
* *
8317454 AAAAAAT-AAAAGAAAAATATATATGAAAA-AAAAAC
1 AAAAAATAAAAATAAAAATATAAAT-AAAATAAAAAC
*
8317489 AAAAAATAAAAATAAAAATGTAAATAAAATAAAAAC
1 AAAAAATAAAAATAAAAATATAAATAAAATAAAAAC
* *
8317525 --AAAATAAAAATGAAAAACACAAAAATAAAATAAAAA
1 AAAAAATAAAAAT--AAAA-ATATAAATAAAATAAAAA
8317561 AATGGGCTTA
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
34 11 0.18
35 11 0.18
36 24 0.39
37 15 0.25
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.14
Consensus pattern (36 bp):
AAAAAATAAAAATAAAAATATAAATAAAATAAAAAC
Found at i:8317854 original size:43 final size:44
Alignment explanation
Indices: 8317714--8317861 Score: 181
Period size: 44 Copynumber: 3.3 Consensus size: 44
8317704 TTGATCAAAA
* *
8317714 CTCCTCTAAGTAGAGGCTCAACGACTTTTGAAAAACATAAACAAAG
1 CTCCTCTAATTAGAGGCTCAACGAC-TTTGAAAAA-ATAAATAAAG
* * * * *
8317760 CTCTTTTAATCAAAGGCTCAACAACTTTGAAAAAATAAATAAAG
1 CTCCTCTAATTAGAGGCTCAACGACTTTGAAAAAATAAATAAAG
* *
8317804 CTTCTCTAATTAGAGGCTCAACGACTTTG-GAAAATAAATAAAG
1 CTCCTCTAATTAGAGGCTCAACGACTTTGAAAAAATAAATAAAG
*
8317847 CTCCTCTAAATAGAG
1 CTCCTCTAATTAGAG
8317862 ACAATTTTTG
Statistics
Matches: 86, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
43 26 0.30
44 32 0.37
45 9 0.10
46 19 0.22
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.26
Consensus pattern (44 bp):
CTCCTCTAATTAGAGGCTCAACGACTTTGAAAAAATAAATAAAG
Found at i:8317876 original size:1 final size:1
Alignment explanation
Indices: 8317866--8317928 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
8317856 ATAGAGACAA
* * * * * * * *
8317866 TTTTTGTTTTTGTTTTTTTTGTTTTATTTTTTTGTTTTGTTTTTTTGTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
8317929 AATTTGATCA
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.87
Consensus pattern (1 bp):
T
Found at i:8317895 original size:13 final size:13
Alignment explanation
Indices: 8317879--8317929 Score: 77
Period size: 13 Copynumber: 4.0 Consensus size: 13
8317869 TTGTTTTTGT
8317879 TTTTTTTGTTTTA
1 TTTTTTTGTTTTA
*
8317892 TTTTTTTGTTTTG
1 TTTTTTTGTTTTA
*
8317905 TTTTTTTGTTTTG
1 TTTTTTTGTTTTA
8317918 TTTTTTT-TTTTA
1 TTTTTTTGTTTTA
8317930 ATTTGATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
12 4 0.11
13 32 0.89
ACGTcount: A:0.04, C:0.00, G:0.10, T:0.86
Consensus pattern (13 bp):
TTTTTTTGTTTTA
Found at i:8317905 original size:18 final size:18
Alignment explanation
Indices: 8317872--8317928 Score: 84
Period size: 18 Copynumber: 3.3 Consensus size: 18
8317862 ACAATTTTTG
8317872 TTTTTGTTTT-TTTTGTT
1 TTTTTGTTTTGTTTTGTT
8317889 TTATTT-TTTTGTTTTGTT
1 TT-TTTGTTTTGTTTTGTT
8317907 TTTTTGTTTTGTTTT-TT
1 TTTTTGTTTTGTTTTGTT
8317924 TTTTT
1 TTTTT
8317929 AATTTGATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
17 16 0.43
18 21 0.57
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.88
Consensus pattern (18 bp):
TTTTTGTTTTGTTTTGTT
Found at i:8317908 original size:26 final size:27
Alignment explanation
Indices: 8317866--8317928 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
8317856 ATAGAGACAA
8317866 TTTTTGTTTTTGTTTTTTTTGTTTTATT
1 TTTTTG-TTTTGTTTTTTTTGTTTTATT
*
8317894 TTTTTGTTTTG-TTTTTTTGTTTTGTT
1 TTTTTGTTTTGTTTTTTTTGTTTTATT
8317920 TTTTT-TTTT
1 TTTTTGTTTT
8317929 AATTTGATCA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 4 0.12
26 19 0.56
27 5 0.15
28 6 0.18
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.87
Consensus pattern (27 bp):
TTTTTGTTTTGTTTTTTTTGTTTTATT
Found at i:8318007 original size:41 final size:41
Alignment explanation
Indices: 8317953--8318151 Score: 281
Period size: 41 Copynumber: 4.9 Consensus size: 41
8317943 TCTTCTAAGT
* * *
8317953 AGAGGCTCAACAACTTTGAAAAATAAATGGCTCCTCTAAAC
1 AGAGGCACCACAACTTTGAAAAATAAATTGCTCCTCTAAAC
* *
8317994 AGAGGCACCACAACTTTGGAAAGTAAATTGCTCCTCTAAAC
1 AGAGGCACCACAACTTTGAAAAATAAATTGCTCCTCTAAAC
* *
8318035 AAAGGCACCACAATTTTGAAAAATAAATTGCTCCTCTAAAC
1 AGAGGCACCACAACTTTGAAAAATAAATTGCTCCTCTAAAC
* *
8318076 AGAGGCACCACGACTTTGAAAAATAAATTGCTCATCTAAAC
1 AGAGGCACCACAACTTTGAAAAATAAATTGCTCCTCTAAAC
** * *
8318117 AGAGGCACCATGACTTTGGAAAGTAAATTGCTCCT
1 AGAGGCACCACAACTTTGAAAAATAAATTGCTCCT
8318152 TGACAATCAT
Statistics
Matches: 141, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 141 1.00
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (41 bp):
AGAGGCACCACAACTTTGAAAAATAAATTGCTCCTCTAAAC
Found at i:8319162 original size:8 final size:8
Alignment explanation
Indices: 8319151--8319214 Score: 110
Period size: 8 Copynumber: 7.8 Consensus size: 8
8319141 TTTTATTCTT
8319151 TTTTTTAA
1 TTTTTTAA
8319159 TTTTTTTTAA
1 --TTTTTTAA
8319169 TTTTTTAA
1 TTTTTTAA
8319177 TTTTTTAA
1 TTTTTTAA
8319185 TTTTTTAA
1 TTTTTTAA
8319193 TTTTTTAA
1 TTTTTTAA
8319201 TTTTTTAA
1 TTTTTTAA
8319209 TTTTTT
1 TTTTTT
8319215 CTTCAAGCAT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
8 46 0.85
10 8 0.15
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTAA
Found at i:8327633 original size:58 final size:58
Alignment explanation
Indices: 8327572--8327856 Score: 272
Period size: 62 Copynumber: 4.7 Consensus size: 58
8327562 TTGGACAAGG
* * * *
8327572 AAAAATTGATACTTTAAACTTTTCC-CCAAAATATTTTTTTGGAAACTTTAATTTTGAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT-GAAAATTTAATTTTGAA
* * *
8327630 AAAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTGAAAATTTATTTTTAAAA
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAAATTTAATTTT-GAA
* * *
8327690 AAAAATTGATACTTTCAACTTTTTCCTAAAAATATATATATTTTTTG-AATTCTTAATTTCGAA
1 AAAAATTGATACTTTCAAC-TTTTCCT-CAAA-A-ATAT-TTTTTTGAAAAT-TTAATTTTGAA
* * *
8327753 AAAAATTGATACTTTCAACTTTTCCTAAAAAAAAAAACCTTTTTTGAAAATTT-ATTCTT-AA
1 AAAAATTGATACTTTCAACTTTTCCT---CAAAAATA-TTTTTTTGAAAATTTAATT-TTGAA
* *
8327814 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTG
1 -AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTG
8327857 TTTTTTTTTT
Statistics
Matches: 190, Mismatches: 22, Indels: 30
0.79 0.09 0.12
Matches are distributed among these distances:
58 31 0.16
59 23 0.12
60 27 0.14
61 12 0.06
62 47 0.25
63 30 0.16
64 20 0.11
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.44
Consensus pattern (58 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTAATTTTGAA
Found at i:8327769 original size:123 final size:123
Alignment explanation
Indices: 8327572--8327847 Score: 352
Period size: 123 Copynumber: 2.3 Consensus size: 123
8327562 TTGGACAAGG
* * * * * *
8327572 AAAAATTGATACTTTAAACTTTTCC-C-CAAA-ATAT-T-TTTTTGGAA-ACTTTAATTTTGAGA
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATATATATTTTTTGAATTC-TTAATTTCGAAA
* * *
8327631 AAAATTGATACTTTCAACTTTTCCT-CAAAAAAACTTTTTTTGAAAATTTATTTTTAAAA
65 AAAATTGATACTTTCAACTTTTCCTAAAAAAAAACCTTTTTTGAAAATTTATTCTT-AAA
8327690 AAAAATTGATACTTTCAACTTTTTCCT-AAAAATATATATATTTTTTGAATTCTTAATTTCGAAA
1 AAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATATATATTTTTTGAATTCTTAATTTCGAAA
*
8327754 AAAATTGATACTTTCAACTTTTCCTAAAAAAAAAAACCTTTTTTGAAAATTTATTCTTAAG
65 AAAATTGATACTTTCAACTTTTCCT--AAAAAAAAACCTTTTTTGAAAATTTATTCTTAAA
*
8327815 GAAAATTGATACTTTCAACTTTTCCTCAAAAAT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAAT
8327848 TTTTTTTTGT
Statistics
Matches: 136, Mismatches: 11, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
118 18 0.13
119 6 0.04
120 3 0.02
121 4 0.03
122 1 0.01
123 43 0.32
124 8 0.06
125 26 0.19
126 27 0.20
ACGTcount: A:0.40, C:0.13, G:0.05, T:0.42
Consensus pattern (123 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAATATATATATTTTTTGAATTCTTAATTTCGAAAA
AAATTGATACTTTCAACTTTTCCTAAAAAAAAACCTTTTTTGAAAATTTATTCTTAAA
Found at i:8327914 original size:21 final size:21
Alignment explanation
Indices: 8327881--8327928 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
8327871 TTTATTTAAA
*
8327881 GAAAATGA-AATAAATAAAAAT
1 GAAAATAAGAATAAAT-AAAAT
8327902 -AAAATAAGAATAAATAAAAT
1 GAAAATAAGAATAAATAAAAT
8327922 GAAAATA
1 GAAAATA
8327929 GAAAGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (21 bp):
GAAAATAAGAATAAATAAAAT
Found at i:8327951 original size:13 final size:14
Alignment explanation
Indices: 8327923--8327956 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
8327913 AAATAAAATG
8327923 AAAATAGAAAGAAA
1 AAAATAGAAAGAAA
8327937 AAAATAGAAAGAAA
1 AAAATAGAAAGAAA
8327951 AAAATA
1 AAAATA
8327957 TTAAACAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (14 bp):
AAAATAGAAAGAAA
Found at i:8328006 original size:22 final size:23
Alignment explanation
Indices: 8327974--8328016 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
8327964 ACCTTAATAT
8327974 AATAATAAT-AAATAAATAAAACA
1 AATAATAATAAAAT-AATAAAACA
8327997 AATAA-AATAAAATAATAAAA
1 AATAATAATAAAATAATAAAA
8328017 AGAAACGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (23 bp):
AATAATAATAAAATAATAAAACA
Found at i:8328325 original size:21 final size:22
Alignment explanation
Indices: 8328282--8328325 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
8328272 TTCAGTAGAA
* **
8328282 CCCTTCTTTTTTTCTCTTTCTT
1 CCCTTCTTTTCTTCTCTCCCTT
8328304 CCCTTC-TTTCTTCTCTCCCTT
1 CCCTTCTTTTCTTCTCTCCCTT
8328325 C
1 C
8328326 TCTCTAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (22 bp):
CCCTTCTTTTCTTCTCTCCCTT
Found at i:8329045 original size:15 final size:15
Alignment explanation
Indices: 8329015--8329068 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
8329005 TATATATATT
8329015 AATAAATAGTAGTAATA
1 AATAAATA--AGTAATA
8329032 AATAAATAAGTAATA
1 AATAAATAAGTAATA
*
8329047 AATACATAAG--ATA
1 AATAAATAAGTAATA
*
8329060 AAAAAATAA
1 AATAAATAA
8329069 AAGAAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
13 10 0.29
15 16 0.47
17 8 0.24
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAATAAGTAATA
Found at i:8329072 original size:15 final size:14
Alignment explanation
Indices: 8329057--8329160 Score: 67
Period size: 14 Copynumber: 7.6 Consensus size: 14
8329047 AATACATAAG
8329057 ATAAAAAAATAAAA
1 ATAAAAAAATAAAA
* *
8329071 GA-AAAAATATATATA
1 -ATAAAAAAATA-AAA
*
8329086 A-AAAAAAATAACA
1 ATAAAAAAATAAAA
**
8329099 ATAATAAAAATGTAA
1 ATAA-AAAAATAAAA
8329114 AT--AAAAA-AAAA
1 ATAAAAAAATAAAA
* *
8329125 ATGAAAAACACAAAA
1 AT-AAAAAAATAAAA
8329140 ATAAAAAAATAAAA
1 ATAAAAAAATAAAA
8329154 A-AAAAAA
1 ATAAAAAA
8329161 GAAAATGGGC
Statistics
Matches: 70, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
11 4 0.06
12 5 0.07
13 9 0.13
14 34 0.49
15 18 0.26
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.14
Consensus pattern (14 bp):
ATAAAAAAATAAAA
Found at i:8329165 original size:26 final size:27
Alignment explanation
Indices: 8329057--8329165 Score: 82
Period size: 26 Copynumber: 4.0 Consensus size: 27
8329047 AATACATAAG
* *
8329057 ATAAAAAAATAAAAGAAAAAATATATATA
1 ATAAAAAAATAAAAGAAAAAA-AGA-AAA
* *
8329086 A-AAAAAAATAACAATAATAAAAATG-TAA
1 ATAAAAAAATAA-AAGAA-AAAAA-GAAAA
* * *
8329114 ATAAAAAAA-AAATGAAAAACACAAAA
1 ATAAAAAAATAAAAGAAAAAAAGAAAA
8329140 ATAAAAAAATAAAA-AAAAAAAGAAAA
1 ATAAAAAAATAAAAGAAAAAAAGAAAA
8329166 TGGGCTTACC
Statistics
Matches: 62, Mismatches: 12, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
26 25 0.40
27 6 0.10
28 14 0.23
29 13 0.21
30 4 0.06
ACGTcount: A:0.80, C:0.03, G:0.04, T:0.14
Consensus pattern (27 bp):
ATAAAAAAATAAAAGAAAAAAAGAAAA
Found at i:8329404 original size:22 final size:21
Alignment explanation
Indices: 8329363--8329403 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
8329353 GGTTTAAATT
*
8329363 TAAAAGAAATTGGGTTTTTTC
1 TAAAAAAAATTGGGTTTTTTC
8329384 TAAAAAAAATTGGGTTTTTT
1 TAAAAAAAATTGGGTTTTTT
8329404 TGAGTTTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (21 bp):
TAAAAAAAATTGGGTTTTTTC
Found at i:8329867 original size:42 final size:42
Alignment explanation
Indices: 8329787--8329868 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 42
8329777 TCATTTCCAT
* *
8329787 TTTTATTTATTTTATTTATTATAGATTTTCTTATTTATTTAA
1 TTTTACTTATTTTATTTATTATAGATTTTCTTACTTATTTAA
* *
8329829 TTTTACTTGTTTTATTTTTTAATA-AGTTTTC-TACTTATTT
1 TTTTACTTATTTTATTTATT-ATAGA-TTTTCTTACTTATTT
8329869 TTTAAATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
42 26 0.76
43 8 0.24
ACGTcount: A:0.23, C:0.05, G:0.04, T:0.68
Consensus pattern (42 bp):
TTTTACTTATTTTATTTATTATAGATTTTCTTACTTATTTAA
Found at i:8337482 original size:7 final size:7
Alignment explanation
Indices: 8337460--8337527 Score: 63
Period size: 7 Copynumber: 10.0 Consensus size: 7
8337450 AATTTTTCTT
*
8337460 GAAAAAG
1 GAAAAAA
8337467 GATAAAAA
1 GA-AAAAA
8337475 GAAAAAA
1 GAAAAAA
8337482 GGAAAAAA
1 -GAAAAAA
*
8337490 G--AGAA
1 GAAAAAA
*
8337495 GAGAAAA
1 GAAAAAA
8337502 G-AAAAA
1 GAAAAAA
8337508 GAAAAAA
1 GAAAAAA
8337515 G-AAAAA
1 GAAAAAA
8337521 GAAAAAA
1 GAAAAAA
8337528 AAGGAAAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
5 4 0.08
6 11 0.22
7 23 0.45
8 13 0.25
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (7 bp):
GAAAAAA
Found at i:8337527 original size:13 final size:13
Alignment explanation
Indices: 8337460--8337527 Score: 75
Period size: 13 Copynumber: 5.0 Consensus size: 13
8337450 AATTTTTCTT
8337460 GAAAAAGGATAAAAA
1 GAAAAA-GA-AAAAA
8337475 GAAAAAAGGAAAAAA
1 G-AAAAA-GAAAAAA
* *
8337490 G-AGAAGAGAAAA
1 GAAAAAGAAAAAA
8337502 GAAAAAGAAAAAA
1 GAAAAAGAAAAAA
8337515 GAAAAAGAAAAAA
1 GAAAAAGAAAAAA
8337528 AAGGAAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
12 7 0.15
13 25 0.53
15 7 0.15
16 8 0.17
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (13 bp):
GAAAAAGAAAAAA
Found at i:8337872 original size:11 final size:11
Alignment explanation
Indices: 8337838--8337891 Score: 58
Period size: 12 Copynumber: 4.9 Consensus size: 11
8337828 AAAAAAGATG
8337838 AAAATG-AAAA
1 AAAATGAAAAA
*
8337848 AAAATAAAACAA
1 AAAATGAAA-AA
*
8337860 AAAAAGCAAAAA
1 AAAATG-AAAAA
8337872 AAAATGAAAAA
1 AAAATGAAAAA
8337883 AAAAT-AAAA
1 AAAATGAAAA
8337892 GACTTAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
10 9 0.24
11 12 0.32
12 13 0.35
13 3 0.08
ACGTcount: A:0.83, C:0.04, G:0.06, T:0.07
Consensus pattern (11 bp):
AAAATGAAAAA
Found at i:8337891 original size:19 final size:19
Alignment explanation
Indices: 8337822--8337891 Score: 58
Period size: 18 Copynumber: 3.9 Consensus size: 19
8337812 AGAAAGAGGT
* **
8337822 ATGAAAAAAAAAGATGAAA
1 ATGAAAAAAAAATAAAAAA
*
8337841 ATG-AAAAAAAATAAAACA
1 ATGAAAAAAAAATAAAAAA
**
8337859 A--AAAAAGCAA-AAAAAA
1 ATGAAAAAAAAATAAAAAA
8337875 ATGAAAAAAAAATAAAA
1 ATGAAAAAAAAATAAAA
8337892 GACTTAAATT
Statistics
Matches: 38, Mismatches: 9, Indels: 8
0.69 0.16 0.15
Matches are distributed among these distances:
16 6 0.16
17 6 0.16
18 19 0.50
19 7 0.18
ACGTcount: A:0.80, C:0.03, G:0.09, T:0.09
Consensus pattern (19 bp):
ATGAAAAAAAAATAAAAAA
Found at i:8339146 original size:64 final size:64
Alignment explanation
Indices: 8339077--8339752 Score: 259
Period size: 64 Copynumber: 10.6 Consensus size: 64
8339067 AAAAGTTAGA
* * * * *
8339077 ATTTTATTTTTTAACGTGTGGTTCAATCTCAATCACTCATTTCGATCTTAACTGAGTCTAGATC
1 ATTTTATTTTTAAACCTGCGGTTCAATCCCAATCACTCATTTCGATCTTAACTGAGTCCAGATC
* * * * ** *
8339141 ATTTTATTTTCAAACCTGCGGTTCAATCCCGATCACTCATTTTGATTTTGGCTTAGTCCAGATC
1 ATTTTATTTTTAAACCTGCGGTTCAATCCCAATCACTCATTTCGATCTTAACTGAGTCCAGATC
* * * * **** * * ** *
8339205 ATTTTATTTTTAGACCTACAGTTTAATCTTGGTTACTGATTTCGATCTCGACTTAGTCCAGATC
1 ATTTTATTTTTAAACCTGCGGTTCAATCCCAATCACTCATTTCGATCTTAACTGAGTCCAGATC
* * * * ** * **** * **
8339269 ATTTTATGTTTCT-AACTTGTGGTTCAATCCCAGTTACTTGTTTTGATCTCGGTTCAGTTTAGAT
1 ATTTTAT-TTT-TAAACCTGCGGTTCAATCCCAATCACTCATTTCGATCTTAACTGAGTCCAGAT
8339333 C
64 C
* ** * * * * *
8339334 ATTTT-TTTTCAAACCTATGGTTTAATCCCGATCACTCATTTCAATCTTGACTTAGTCCAGATC
1 ATTTTATTTTTAAACCTGCGGTTCAATCCCAATCACTCATTTCGATCTTAACTGAGTCCAGATC
* ** * * ** * * * *
8339397 ATTTTATGTTTCT-AACTTGCAATTCAATCCCAGTCAC-CTGTTTTTACCCTAACTCATTCCAGA
1 ATTTTAT-TTT-TAAACCTGCGGTTCAATCCCAATCACTC-ATTTCGATCTTAACTGAGTCCAGA
8339460 TC
63 TC
* * * * * *** ** ** ** * * *
8339462 ATTTTATTTTCAAACTTGTGCTTTAATCTTGATCACTTGTTTTTATCTTGGCTCAATCCAGGTC
1 ATTTTATTTTTAAACCTGCGGTTCAATCCCAATCACTCATTTCGATCTTAACTGAGTCCAGATC
* * * * * * ** * *
8339526 A-TTTATTTTTAGACCTGCGATTCAATCTCGATCACTTATTTCGATCTCAGTTTAGTTCAGATC
1 ATTTTATTTTTAAACCTGCGGTTCAATCCCAATCACTCATTTCGATCTTAACTGAGTCCAGATC
* * * * ** * * * * * * *
8339589 ATTTTATTTTTAGACTTGTGGTTTAATTTCGATCACTCGTTTTGATCTCAGCTCAGTCCAAATC
1 ATTTTATTTTTAAACCTGCGGTTCAATCCCAATCACTCATTTCGATCTTAACTGAGTCCAGATC
* ** * * * * * * *
8339653 ATTTTATTTTCAGGCCTACGATTTAATCTCAATCACTCATTTAGATC-TAAGTTTG-GTCTAGAT
1 ATTTTATTTTTAAACCTGCGGTTCAATCCCAATCACTCATTTCGATCTTAA--CTGAGTCCAGAT
8339716 C
64 C
*
8339717 ATTTTATTTTCAAACCTGCGGTTCAATCCCAATCAC
1 ATTTTATTTTTAAACCTGCGGTTCAATCCCAATCAC
8339753 CTATTTTATT
Statistics
Matches: 456, Mismatches: 144, Indels: 24
0.73 0.23 0.04
Matches are distributed among these distances:
63 91 0.20
64 276 0.61
65 88 0.19
66 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.43
Consensus pattern (64 bp):
ATTTTATTTTTAAACCTGCGGTTCAATCCCAATCACTCATTTCGATCTTAACTGAGTCCAGATC
Found at i:8339350 original size:128 final size:129
Alignment explanation
Indices: 8339108--8339476 Score: 379
Period size: 128 Copynumber: 2.9 Consensus size: 129
8339098 TTCAATCTCA
* * * * *
8339108 ATCACTCATTTCGATCTTAACTGAGTCTAGATCATTTTAT-TTTCAAACCTGCGGTTCAATCCC-
1 ATCACTCATTTCGATCTTGACTTAGTCCAGATCATTTTATGTTTCTAACTTGCGGTTCAATCCCA
** * * * * **
8339171 GATCACTCATTTTGATTTTGGCTTAGTCCAGATCATTTTATTTTTAGACCTACAGTTTAATCTTG
66 G-TCACTTGTTTTGATCTCGGCTTAGTCCAGATCATTTTATTTTCAAACCTACAGTTTAATCCCG
* * * * *
8339236 GTTACTGATTTCGATCTCGACTTAGTCCAGATCATTTTATGTTTCTAACTTGTGGTTCAATCCCA
1 ATCACTCATTTCGATCTTGACTTAGTCCAGATCATTTTATGTTTCTAACTTGCGGTTCAATCCCA
* ** **
8339301 GTTACTTGTTTTGATCTCGG-TTCAGTTTAGATCATTTT-TTTTCAAACCTATGGTTTAATCCCG
66 GTCACTTGTTTTGATCTCGGCTT-AGTCCAGATCATTTTATTTTCAAACCTACAGTTTAATCCCG
* **
8339364 ATCACTCATTTCAATCTTGACTTAGTCCAGATCATTTTATGTTTCTAACTTGCAATTCAATCCCA
1 ATCACTCATTTCGATCTTGACTTAGTCCAGATCATTTTATGTTTCTAACTTGCGGTTCAATCCCA
* * * ** * *
8339429 GTCACCTGTTTTTA-CCCTAACTCATTCCAGATCATTTTATTTTCAAAC
66 GTCACTTGTTTTGATCTC-GGCTTAGTCCAGATCATTTTATTTTCAAAC
8339477 TTGTGCTTTA
Statistics
Matches: 194, Mismatches: 41, Indels: 11
0.79 0.17 0.04
Matches are distributed among these distances:
127 2 0.01
128 134 0.69
129 57 0.29
130 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.43
Consensus pattern (129 bp):
ATCACTCATTTCGATCTTGACTTAGTCCAGATCATTTTATGTTTCTAACTTGCGGTTCAATCCCA
GTCACTTGTTTTGATCTCGGCTTAGTCCAGATCATTTTATTTTCAAACCTACAGTTTAATCCCG
Found at i:8339725 original size:128 final size:127
Alignment explanation
Indices: 8339456--8339731 Score: 340
Period size: 128 Copynumber: 2.2 Consensus size: 127
8339446 TAACTCATTC
* * **
8339456 CAGATCATTTTATTTTCAAACTTGTGCTTTAATCTTGATCACTTGTTTTTATCTTGGCTCAATCC
1 CAGATCATTTTATTTTCAAACTTGTGCTTTAATCTTGATCACTCGTTTTGATCTCAGCTCAATCC
** * * * * * *
8339521 AGGTCATTTATTTTTAGACCTGCGATTCAATCTCGATCACTTATTTCGATCTCAGTTTAGTT
66 AAATCATTTATTTTCAGACCTACGATTCAATCTCAATCACTCATTTAGATCTAAGTTTAGTT
* * * *
8339583 CAGATCATTTTATTTTTAGACTTGTGGTTTAAT-TTCGATCACTCGTTTTGATCTCAGCTCAGTC
1 CAGATCATTTTATTTTCAAACTTGTGCTTTAATCTT-GATCACTCGTTTTGATCTCAGCTCAATC
* * *
8339647 CAAATCATTTTATTTTCAGGCCTACGATTTAATCTCAATCACTCATTTAGATCTAAGTTT-GGT
65 CAAATCA-TTTATTTTCAGACCTACGATTCAATCTCAATCACTCATTTAGATCTAAGTTTAGTT
8339710 CTAGATCATTTTATTTTCAAAC
1 C-AGATCATTTTATTTTCAAAC
8339732 CTGCGGTTCA
Statistics
Matches: 125, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
126 2 0.02
127 61 0.49
128 62 0.50
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.45
Consensus pattern (127 bp):
CAGATCATTTTATTTTCAAACTTGTGCTTTAATCTTGATCACTCGTTTTGATCTCAGCTCAATCC
AAATCATTTATTTTCAGACCTACGATTCAATCTCAATCACTCATTTAGATCTAAGTTTAGTT
Found at i:8339770 original size:128 final size:127
Alignment explanation
Indices: 8339456--8339790 Score: 327
Period size: 128 Copynumber: 2.6 Consensus size: 127
8339446 TAACTCATTC
* * * * *
8339456 CAGATCATTTTATTTTCAAACTTGTGCTTTAATCTTGATCA-CTTGTTTTTATCTTGGCTCAATC
1 CAGATCATTTTATTTTCAAACTTGTGGTTTAATCTCGATCACCTT-TTTAT-TCTTAGCTCAGTC
** * * * * * *
8339520 CAGGTCA-TTTATTTTTAGACCTGCGATTCAATCTCGATCACTTATTTCGATCTCAGTTTAGTT
64 CAAATCATTTTATTTTCAGACCTACGATTCAATCTCAATCACTCATTTAGATCTAAGTTTAGTT
* * * * *
8339583 CAGATCATTTTATTTTTAGACTTGTGGTTTAATTTCGATCACTCGTTTTGA-TCTCAGCTCAGTC
1 CAGATCATTTTATTTTCAAACTTGTGGTTTAATCTCGATCAC-C-TTTTTATTCTTAGCTCAGTC
* * *
8339647 CAAATCATTTTATTTTCAGGCCTACGATTTAATCTCAATCACTCATTTAGATCTAAGTTT-GGT
64 CAAATCATTTTATTTTCAGACCTACGATTCAATCTCAATCACTCATTTAGATCTAAGTTTAGTT
* * * * * *
8339710 CTAGATCATTTTATTTTCAAACCTGCGGTTCAATCCCAATCACCTATTTTATTCTTAGCTCGGTC
1 C-AGATCATTTTATTTTCAAACTTGTGGTTTAATCTCGATCACCT-TTTTATTCTTAGCTCAGTC
* *
8339775 TATATCATTTTATTTT
64 CAAATCATTTTATTTT
8339791 TCTAACTTGT
Statistics
Matches: 167, Mismatches: 34, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
126 1 0.01
127 59 0.35
128 102 0.61
129 3 0.02
130 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.12, T:0.45
Consensus pattern (127 bp):
CAGATCATTTTATTTTCAAACTTGTGGTTTAATCTCGATCACCTTTTTATTCTTAGCTCAGTCCA
AATCATTTTATTTTCAGACCTACGATTCAATCTCAATCACTCATTTAGATCTAAGTTTAGTT
Found at i:8339994 original size:14 final size:14
Alignment explanation
Indices: 8339975--8340002 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8339965 TTCAATCTAG
8339975 ATCATTTTAATTTT
1 ATCATTTTAATTTT
8339989 ATCATTTTAATTTT
1 ATCATTTTAATTTT
8340003 CTAACTCGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (14 bp):
ATCATTTTAATTTT
Found at i:8340276 original size:3 final size:3
Alignment explanation
Indices: 8340263--8340321 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
8340253 AAGCATTTAC
*
8340263 TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8340311 TAT TAT TAT TA
1 TAT TAT TAT TA
8340322 CTTGTTAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:8340814 original size:21 final size:20
Alignment explanation
Indices: 8340773--8340811 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8340763 GTTTAAATTT
8340773 GAAAAAAACTGGGTTTTTTG
1 GAAAAAAACTGGGTTTTTTG
* *
8340793 GAAAAAAATTGAGTTTTTT
1 GAAAAAAACTGGGTTTTTT
8340812 TGGGTTTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (20 bp):
GAAAAAAACTGGGTTTTTTG
Found at i:8341213 original size:9 final size:9
Alignment explanation
Indices: 8341178--8341225 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
8341168 TCGATCGTAG
8341178 ATTTATTTT
1 ATTTATTTT
8341187 ATTTTATTTT
1 A-TTTATTTT
**
8341197 -TCACATTTT
1 AT-TTATTTT
8341206 ATTTATTTT
1 ATTTATTTT
8341215 ATTTATTTT
1 ATTTATTTT
8341224 AT
1 AT
8341226 AGATTTTCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
8 1 0.03
9 22 0.69
10 9 0.28
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (9 bp):
ATTTATTTT
Found at i:8342343 original size:19 final size:17
Alignment explanation
Indices: 8342304--8342355 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 17
8342294 CCAATTTTAC
8342304 TTTTATTTTGTATTTTATA
1 TTTT-TTTT-TATTTTATA
8342323 TTTTTTTTTATTATTATTA
1 TTTTTTTTTATT-TTA-TA
* *
8342342 TTATTTTATATTTT
1 TTTTTTTTTATTTT
8342356 TTCCTTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 4 0.14
18 9 0.31
19 16 0.55
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTTTTTTTATTTTATA
Found at i:8342391 original size:15 final size:15
Alignment explanation
Indices: 8342368--8342432 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
8342358 CCTTTGTACC
8342368 TTATGTATTTATTAT
1 TTATGTATTTATTAT
*
8342383 TTATTTATTTATTAT
1 TTATGTATTTATTAT
*
8342398 TACTATGTATTAATATAT
1 T--TATGTATTTAT-TAT
* * *
8342416 GTATATCTTTATTAT
1 TTATGTATTTATTAT
8342431 TT
1 TT
8342433 TTTTTCTTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
15 19 0.49
16 8 0.21
17 9 0.23
18 3 0.08
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (15 bp):
TTATGTATTTATTAT
Found at i:8342506 original size:27 final size:26
Alignment explanation
Indices: 8342463--8342532 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 26
8342453 CTGTTAATAT
8342463 TTATATA-TGTATTTTATTTA-TCTAG
1 TTATATATTGTATTTTATTTATTC-AG
* *
8342488 TTATATATTTTATTATTATTTATTCAT
1 TTATATATTGTATT-TTATTTATTCAG
* *
8342515 TTATATATTATAATTTAT
1 TTATATATTGTATTTTAT
8342533 CTTGTGATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
25 7 0.18
26 9 0.24
27 20 0.53
28 2 0.05
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (26 bp):
TTATATATTGTATTTTATTTATTCAG
Found at i:8342576 original size:23 final size:22
Alignment explanation
Indices: 8342542--8342615 Score: 78
Period size: 23 Copynumber: 3.3 Consensus size: 22
8342532 TCTTGTGATA
8342542 TTTTTTATTTATCTTATTATTT
1 TTTTTTATTTATCTTATTATTT
* *
8342564 TTTTTCTAATTATC-TATTAATAT
1 TTTTT-TATTTATCTTATT-ATTT
* *
8342587 TTTTTTATTTATCTGATTTTCTT
1 TTTTTTATTTATCTTATTAT-TT
8342610 TTTTTT
1 TTTTTT
8342616 TTTTGGGCTG
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
22 17 0.40
23 25 0.60
ACGTcount: A:0.19, C:0.07, G:0.01, T:0.73
Consensus pattern (22 bp):
TTTTTTATTTATCTTATTATTT
Found at i:8342994 original size:20 final size:19
Alignment explanation
Indices: 8342956--8342995 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
8342946 CAGATTCTGG
*
8342956 TGAATTTTTCGATGAAATT
1 TGAATTTTTCGACGAAATT
8342975 TGAATTTTTCGACGACAATT
1 TGAATTTTTCGACGA-AATT
8342995 T
1 T
8342996 CGGCCAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (19 bp):
TGAATTTTTCGACGAAATT
Found at i:8343500 original size:16 final size:16
Alignment explanation
Indices: 8343481--8343611 Score: 64
Period size: 16 Copynumber: 8.2 Consensus size: 16
8343471 TTCGTTTCTT
8343481 TTTATTATTTTATTTA
1 TTTATTATTTTATTTA
8343497 TTTATT-TATTTA-TTA
1 TTTATTAT-TTTATTTA
** *
8343512 TTATATTAGGGTTGTTTA
1 TT-TATTA-TTTTATTTA
*
8343530 -ATATT-TTTT-TTCT-
1 TTTATTATTTTATT-TA
8343543 TTCTATTATTTTATTTTA
1 TT-TATTATTTTA-TTTA
*
8343561 TTT-TCATTTTATTTA
1 TTTATTATTTTATTTA
*
8343576 TTTTTTATTTTCATTTTA
1 TTTATTATTTT-A-TTTA
8343594 TTT-TTA-TTTATTTCA
1 TTTATTATTTTATTT-A
8343609 TTT
1 TTT
8343612 TCTTTAAATA
Statistics
Matches: 90, Mismatches: 9, Indels: 33
0.68 0.07 0.25
Matches are distributed among these distances:
13 2 0.02
14 6 0.07
15 22 0.24
16 38 0.42
17 8 0.09
18 14 0.16
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.73
Consensus pattern (16 bp):
TTTATTATTTTATTTA
Found at i:8343558 original size:5 final size:5
Alignment explanation
Indices: 8343548--8343612 Score: 69
Period size: 5 Copynumber: 12.4 Consensus size: 5
8343538 TTTCTTTCTA
*
8343548 TTATT TTATT TTATT TTCATT TTATT TATTTT TTATT TTCATT TTATT
1 TTATT TTATT TTATT TT-ATT TTATT T-TATT TTATT TT-ATT TTATT
*
8343596 TT-TAT TTATT TCATT TT
1 TTAT-T TTATT TTATT TT
8343613 CTTTAAATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
4 1 0.02
5 35 0.69
6 15 0.29
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:8343571 original size:11 final size:11
Alignment explanation
Indices: 8343548--8343612 Score: 75
Period size: 11 Copynumber: 6.2 Consensus size: 11
8343538 TTTCTTTCTA
8343548 TTATTTT-ATT
1 TTATTTTCATT
8343558 TTATTTTCATT
1 TTATTTTCATT
*
8343569 TTATTTAT-TTT
1 TTATTT-TCATT
8343580 TTATTTTCATT
1 TTATTTTCATT
*
8343591 TTATTTTTA-T
1 TTATTTTCATT
8343601 TTA-TTTCATT
1 TTATTTTCATT
8343611 TT
1 TT
8343613 CTTTAAATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
9 4 0.09
10 15 0.32
11 27 0.57
12 1 0.02
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (11 bp):
TTATTTTCATT
Found at i:8343595 original size:43 final size:42
Alignment explanation
Indices: 8343531--8343617 Score: 106
Period size: 42 Copynumber: 2.0 Consensus size: 42
8343521 GGTTGTTTAA
*
8343531 TATTTTTTTTCTTTCTATTA-TTTTATTTTATTTTCATTTTATT
1 TATTTTTTATCTTTCTATTATTTTTA-TTTA-TTTCATTTTATT
* *
8343574 TATTTTTTAT-TTTCATTTTATTTTTATTTATTTCATTTTCTT
1 TATTTTTTATCTTTC-TATTATTTTTATTTATTTCATTTTATT
8343616 TA
1 TA
8343618 AATAAAATTC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
42 17 0.44
43 17 0.44
44 5 0.13
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (42 bp):
TATTTTTTATCTTTCTATTATTTTTATTTATTTCATTTTATT
Found at i:8343598 original size:28 final size:27
Alignment explanation
Indices: 8343546--8343606 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 27
8343536 TTTTTCTTTC
8343546 TATTATTTTATTTTATTTTCATTTTATT
1 TATT-TTTTATTTTATTTTCATTTTATT
8343574 TATTTTTTATTTTCATTTT-ATTTTTATT
1 TATTTTTTATTTT-ATTTTCA-TTTTATT
8343602 TATTT
1 TATTT
8343607 CATTTTCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
27 10 0.32
28 21 0.68
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (27 bp):
TATTTTTTATTTTATTTTCATTTTATT
Found at i:8343704 original size:58 final size:57
Alignment explanation
Indices: 8343635--8343788 Score: 220
Period size: 58 Copynumber: 2.7 Consensus size: 57
8343625 TTCAAAAACA
* * *
8343635 AAAAAACATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTC
1 AAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGTTTCC
*
8343693 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTCAAAATTAAAGTTTCC
1 AAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGTTTCC
* *
8343751 AAAAAATA-TTTTGGGAAAAACTTAAAAGTATCAATTTT
1 AAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTT
8343789 TTCTTGTACA
Statistics
Matches: 88, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 3 0.03
57 24 0.27
58 60 0.68
59 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (57 bp):
AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGTTTCC
Found at i:8355277 original size:41 final size:41
Alignment explanation
Indices: 8355231--8355646 Score: 466
Period size: 41 Copynumber: 10.1 Consensus size: 41
8355221 ATGATTGTCA
**
8355231 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCATGGTGCCTCTGTTTAG
* *
8355272 TGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCATGGTGCCTCTGTTTAG
*
8355313 AGGAGCAATTTACTTTCCAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCATGGTGCCTCTGTTTAG
* * * *
8355354 AGGAGTAATTTATTTTTCAAAGTCATGATTGCCTCTATTTAG
1 AGGAGCAATTTACTTTTCAAAGTCATG-GTGCCTCTGTTTAG
* * *
8355396 AGGAGCAATTTACTTTTCAAAGTCATAGTACCTCTGTTTAA
1 AGGAGCAATTTACTTTTCAAAGTCATGGTGCCTCTGTTTAG
* * *
8355437 AGGAGCAATTTACTTTTCAAAGTCATGATTGCCTTTATTTAG
1 AGGAGCAATTTACTTTTCAAAGTCATG-GTGCCTCTGTTTAG
8355479 AGGAGCAATTTACTTTTC---GT-A--GTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCATGGTGCCTCTGTTTAG
* *
8355514 AGGAGTAATTTACTTTTCAAAGTCATGGTGTCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCATGGTGCCTCTGTTTAG
* * * * * *
8355555 AGGAGCCATTTATTTTTCTAAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCAATTTACTTTTC--AAAGTCATGGTGCCTCTGTTTAG
* * * *** *
8355598 AGGAGCCATTTATATTTCTCAAAGTCGTTAAGCCTCTGCTTAG
1 AGGAGCAATTTA-CTTT-TCAAAGTCATGGTGCCTCTGTTTAG
8355641 AGGAGC
1 AGGAGC
8355647 TTTAATCAAA
Statistics
Matches: 324, Mismatches: 39, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
35 28 0.09
38 3 0.01
39 3 0.01
41 165 0.51
42 63 0.19
43 57 0.18
44 3 0.01
45 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCATGGTGCCTCTGTTTAG
Found at i:8355403 original size:124 final size:122
Alignment explanation
Indices: 8355231--8355646 Score: 457
Period size: 124 Copynumber: 3.4 Consensus size: 122
8355221 ATGATTGTCA
** *
8355231 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGTGGAGCAATTTACTTTTCAAAGTC
1 AGGAGCAATTTACTTTTCAAAGTCAT-GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
*
8355296 GTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCATGGTGCCTCTGTTTAG
65 ATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCATGGTGCCTCTGTTTAG
* * *
8355354 AGGAGTAATTTATTTTTCAAAGTCATGATTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGT
1 AGGAGCAATTTACTTTTCAAAGTCATG--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
* * * * * * *
8355419 CATAGTACCTCTGTTTAAAGGAGCAATTTACTTTTCAAAGTCATGATTGCCTTTATTTAG
64 CATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCATG-GTGCCTCTGTTTAG
*
8355479 AGGAGCAATTTACTTTTC---GT-A-GTGCCTCTGTTTAGAGGAGTAATTTACTTTTCAAAGTCA
1 AGGAGCAATTTACTTTTCAAAGTCATGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCA
* * * * * * * *
8355539 TGGTGTCTCTGTTTAGAGGAGCCATTTATTTTTCTAAAAGTCGTTGAGCCTCTGATTAG
66 TGGTGCCTCTGTTTAGAGGAGCAATTTA-CTTTC-CAAAGTCATGGTGCCTCTGTTTAG
* * * *
8355598 AGGAGCCATTTATATTTCTCAAAGTCGT-TAAGCCTCTGCTTAGAGGAGC
1 AGGAGCAATTTA-CTTT-TCAAAGTCATGT--GCCTCTGTTTAGAGGAGC
8355647 TTTAATCAAA
Statistics
Matches: 241, Mismatches: 38, Indels: 24
0.80 0.13 0.08
Matches are distributed among these distances:
118 59 0.24
119 23 0.10
120 11 0.05
121 3 0.01
122 3 0.01
123 22 0.09
124 76 0.32
125 28 0.12
127 16 0.07
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (122 bp):
AGGAGCAATTTACTTTTCAAAGTCATGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCA
TGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCATGGTGCCTCTGTTTAG
Found at i:8355417 original size:83 final size:82
Alignment explanation
Indices: 8355231--8355623 Score: 465
Period size: 83 Copynumber: 4.8 Consensus size: 82
8355221 ATGATTGTCA
** *
8355231 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGTGGAGCAATTTACTTTTCAAAGTC
1 AGGAGCAATTTACTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
* *
8355296 GTGGTGCCTCTGTTTAG
66 ATGGTGCCTCTATTTAG
* * *
8355313 AGGAGCAATTTACTTTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGTAATTTATTTTTCAAAGTC
1 AGGAGCAATTTACTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
*
8355378 ATGATTGCCTCTATTTAG
66 ATG-GTGCCTCTATTTAG
* * *
8355396 AGGAGCAATTTACTTTTCAAAGTCATAGTACCTCTGTTTAAAGGAGCAATTTACTTTTCAAAGTC
1 AGGAGCAATTTACTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
* *
8355461 ATGATTGCCTTTATTTAG
66 ATG-GTGCCTCTATTTAG
*
8355479 AGGAGCAATTTACTTTTC---GT-A--GTGCCTCTGTTTAGAGGAGTAATTTACTTTTCAAAGTC
1 AGGAGCAATTTACTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
* *
8355538 ATGGTGTCTCTGTTTAG
66 ATGGTGCCTCTATTTAG
* * * * * * * *
8355555 AGGAGCCATTTATTTTTCTAAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATATTTCTCAA
1 AGGAGCAATTTACTTTTC--AAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTA-CTTT-TCAA
8355620 AGTC
62 AGTC
8355624 GTTAAGCCTC
Statistics
Matches: 269, Mismatches: 31, Indels: 18
0.85 0.10 0.06
Matches are distributed among these distances:
76 26 0.10
77 38 0.14
79 1 0.00
80 2 0.01
81 2 0.01
82 61 0.23
83 106 0.39
84 22 0.08
85 3 0.01
86 8 0.03
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (82 bp):
AGGAGCAATTTACTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
ATGGTGCCTCTATTTAG
Found at i:8355598 original size:43 final size:42
Alignment explanation
Indices: 8355502--8355646 Score: 166
Period size: 43 Copynumber: 3.4 Consensus size: 42
8355492 TTTTCGTAGT
** * * * *
8355502 GCCTCTGTTTAGAGGAGTAATTTACTTTTC-AAAGTCATGGT
1 GCCTCTGTTTAGAGGAGCCATTTATTTTTCTAAAGTCGTTGA
*
8355543 GTCTCTGTTTAGAGGAGCCATTTATTTTTCTAAAAGTCGTTGA
1 GCCTCTGTTTAGAGGAGCCATTTATTTTTCT-AAAGTCGTTGA
* * *
8355586 GCCTCTGATTAGAGGAGCCATTTATATTTCTCAAAGTCGTTAA
1 GCCTCTGTTTAGAGGAGCCATTTATTTTTCT-AAAGTCGTTGA
*
8355629 GCCTCTGCTTAGAGGAGC
1 GCCTCTGTTTAGAGGAGC
8355647 TTTAATCAAA
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
41 26 0.29
43 63 0.71
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (42 bp):
GCCTCTGTTTAGAGGAGCCATTTATTTTTCTAAAGTCGTTGA
Found at i:8355751 original size:43 final size:43
Alignment explanation
Indices: 8355690--8355879 Score: 211
Period size: 43 Copynumber: 4.4 Consensus size: 43
8355680 AAAAAAAATT
** * *
8355690 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTCCAAAGTCGTTGA
1 GCCTCTGAATAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGA
** *
8355733 GCCTCTGACCAGAGGAGCTTTATTTATTTTTCAAAGTCGTTAA
1 GCCTCTGAATAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGA
* * *
8355776 GCTTCTGAATAGGGGAGCTTTATTCA-TTTTCAAAGTCGTTGA
1 GCCTCTGAATAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGA
* * * *
8355818 GCCTCTGATTAGAGGAGCTTTGTTTATGTTTTTCGAAGTAGTTGA
1 GCCTCTGAATAGAGGAGCTTTATTTA--TTTTTCAAAGTCGTTGA
**
8355863 GCCTCTGCTTAGAGGAG
1 GCCTCTGAATAGAGGAG
8355880 TTTTGATCAA
Statistics
Matches: 124, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
42 36 0.29
43 58 0.47
45 30 0.24
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (43 bp):
GCCTCTGAATAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGA
Found at i:8356121 original size:15 final size:15
Alignment explanation
Indices: 8356098--8356138 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
8356088 CCTTTGTATC
8356098 TTATGTATTTATTAT
1 TTATGTATTTATTAT
*
8356113 TTATTTATTTATTAT
1 TTATGTATTTATTAT
8356128 TACTATGTATT
1 T--TATGTATT
8356139 AATATATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 15 0.68
17 7 0.32
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (15 bp):
TTATGTATTTATTAT
Found at i:8356253 original size:26 final size:25
Alignment explanation
Indices: 8356196--8356256 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
8356186 TTTCTGTTAA
8356196 TATTTATATATGTATTTTATTTATC
1 TATTTATATATGTATTTTATTTATC
* *
8356221 TAGTTATATATTTATTATTATTTAT-
1 TATTTATATATGTATT-TTATTTATC
8356246 TCATTTATATA
1 T-ATTTATATA
8356257 ATATAATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 15 0.48
26 16 0.52
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (25 bp):
TATTTATATATGTATTTTATTTATC
Found at i:8356289 original size:24 final size:23
Alignment explanation
Indices: 8356262--8356337 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 23
8356252 ATATAATATA
8356262 ATTTATCTGTTATTATTATTTTTT
1 ATTTATCT-TTATTATTATTTTTT
8356286 ATTTATCTTGTA--A-TATTTTTT
1 ATTTATCTT-TATTATTATTTTTT
*
8356307 ATTTATC-TTATTATTTTTTTTCT
1 ATTTATCTTTATTATTATTTTT-T
*
8356330 AATTATCT
1 ATTTATCT
8356338 ATGAACATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
19 2 0.05
20 1 0.02
21 16 0.36
22 7 0.16
23 8 0.18
24 10 0.23
ACGTcount: A:0.22, C:0.07, G:0.03, T:0.68
Consensus pattern (23 bp):
ATTTATCTTTATTATTATTTTTT
Found at i:8356304 original size:21 final size:21
Alignment explanation
Indices: 8356278--8356359 Score: 76
Period size: 21 Copynumber: 3.8 Consensus size: 21
8356268 CTGTTATTAT
8356278 TATTTTTTATTTATCTTGTAA
1 TATTTTTTATTTATCTTGTAA
* *
8356299 TATTTTTTATTTATCTTATTAT
1 TATTTTTTATTTATCTT-GTAA
* *
8356321 TTTTTTTCTAATTATCTATG-AA
1 TATTTTT-TATTTATCT-TGTAA
*
8356343 CATTTTTTTATTTATCT
1 TA-TTTTTTATTTATCT
8356360 GATTTTTTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
21 17 0.35
22 17 0.35
23 13 0.27
24 1 0.02
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.67
Consensus pattern (21 bp):
TATTTTTTATTTATCTTGTAA
Found at i:8356313 original size:45 final size:47
Alignment explanation
Indices: 8356262--8356360 Score: 127
Period size: 45 Copynumber: 2.2 Consensus size: 47
8356252 ATATAATATA
* *
8356262 ATTTATCTGTTATTATTATTTTT-TATTTATCT-TGTA-ATATTTTTT
1 ATTTATCTGTTATTATTATTTTTCTAATTATCTATGAACAT-TTTTTT
*
8356307 ATTTATC--TTATTATTTTTTTTCTAATTATCTATGAACATTTTTTT
1 ATTTATCTGTTATTATTATTTTTCTAATTATCTATGAACATTTTTTT
8356352 ATTTATCTG
1 ATTTATCTG
8356361 ATTTTTTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
43 13 0.28
44 8 0.17
45 23 0.50
46 2 0.04
ACGTcount: A:0.23, C:0.07, G:0.04, T:0.66
Consensus pattern (47 bp):
ATTTATCTGTTATTATTATTTTTCTAATTATCTATGAACATTTTTTT
Found at i:8357190 original size:9 final size:9
Alignment explanation
Indices: 8357176--8357205 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
8357166 CCACTCCATT
*
8357176 TTTTTTTTC
1 TTTTTTTTA
8357185 TTTTTTTTA
1 TTTTTTTTA
8357194 TTTTTTTTA
1 TTTTTTTTA
8357203 TTT
1 TTT
8357206 ATTATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.07, C:0.03, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:8357251 original size:14 final size:13
Alignment explanation
Indices: 8357232--8357287 Score: 55
Period size: 14 Copynumber: 4.4 Consensus size: 13
8357222 GGTTGTTTAA
*
8357232 TATTTTTTTCTTT
1 TATTTTTTTATTT
8357245 CTATTTTTTTATTT
1 -TATTTTTTTATTT
*
8357259 TA--TTTTCATTT
1 TATTTTTTTATTT
8357270 TATTTATTTTA-TT
1 TATTT-TTTTATTT
8357283 TATTT
1 TATTT
8357288 CATTTTCTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
11 10 0.28
13 10 0.28
14 16 0.44
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (13 bp):
TATTTTTTTATTT
Found at i:8357261 original size:5 final size:5
Alignment explanation
Indices: 8357251--8357293 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
8357241 CTTTCTATTT
*
8357251 TTTTA TTTTA TTTTCA TTTTA -TTTA TTTTA -TTTA TTTCA TTTT
1 TTTTA TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
8357294 CTTTAAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 8 0.24
5 20 0.61
6 5 0.15
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:8357265 original size:20 final size:20
Alignment explanation
Indices: 8357242--8357283 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
8357232 TATTTTTTTC
8357242 TTTCTATTTT-TTTATTTTAT
1 TTTC-ATTTTATTTATTTTAT
8357262 TTTCATTTTATTTATTTTAT
1 TTTCATTTTATTTATTTTAT
8357282 TT
1 TT
8357284 ATTTCATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTCATTTTATTTATTTTAT
Found at i:8357273 original size:24 final size:24
Alignment explanation
Indices: 8357232--8357298 Score: 79
Period size: 23 Copynumber: 2.9 Consensus size: 24
8357222 GGTTGTTTAA
8357232 TATTT-TTTTC-TTTCTATTT-TTT
1 TATTTATTTTCATTT-TATTTATTT
8357254 TATTTTATTTTCATTTTATTTATTT
1 TA-TTTATTTTCATTTTATTTATTT
*
8357279 TATTTA-TTTCATTTTCTTTA
1 TATTTATTTTCATTTTATTTA
8357299 AATAAAATTC
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
22 2 0.05
23 16 0.40
24 14 0.35
25 8 0.20
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.76
Consensus pattern (24 bp):
TATTTATTTTCATTTTATTTATTT
Found at i:8357280 original size:9 final size:9
Alignment explanation
Indices: 8357246--8357292 Score: 60
Period size: 9 Copynumber: 5.1 Consensus size: 9
8357236 TTTTTCTTTC
8357246 TATTTT-TT
1 TATTTTATT
8357254 TATTTTATTT
1 TATTTTA-TT
8357264 TCATTTTATT
1 T-ATTTTATT
8357274 TATTTTATT
1 TATTTTATT
*
8357283 TATTTCATT
1 TATTTTATT
8357292 T
1 T
8357293 TCTTTAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
8 6 0.17
9 17 0.49
10 6 0.17
11 6 0.17
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (9 bp):
TATTTTATT
Found at i:8357292 original size:14 final size:13
Alignment explanation
Indices: 8357233--8357298 Score: 53
Period size: 14 Copynumber: 4.7 Consensus size: 13
8357223 GTTGTTTAAT
*
8357233 ATTTTTTTCTTTC
1 ATTTTTTTATTTC
*
8357246 TATTTTTTTATTTT
1 -ATTTTTTTATTTC
8357260 ATTTTCATTTTATTT-
1 A-TTT--TTTTATTTC
8357275 ATTTTATTTATTTC
1 ATTTT-TTTATTTC
8357289 ATTTTCTTTA
1 ATTTT-TTTA
8357299 AATAAAATTC
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
12 1 0.02
13 8 0.18
14 26 0.59
15 1 0.02
16 8 0.18
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTTTTTATTTC
Found at i:8357514 original size:58 final size:58
Alignment explanation
Indices: 8357322--8357596 Score: 295
Period size: 58 Copynumber: 4.7 Consensus size: 58
8357312 AAAAAAACAA
* * * * * * *
8357322 AAAAAACATTTTTAAGGAAAAGATGAAAGTATCAATTTTCCTCGAAATT-AAGAATTCAA
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAG-TTTC-C
* * * * *
8357381 AAAAATATATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAA-TTTTC
1 AAAAA-ATAT-TTTTGAGA-AAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGTTTCC
* *
8357441 AAACAAAGTTTTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTCAAAATTAAAGTTTCC
1 AAA-AAA-TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGTTTCC
* **
8357501 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTTTCAAAATTAAAGTTTCC
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGTTTCC
* *
8357559 AAAAAATA-TTTTGGGAAAAAGTTGAAAGTATTAATTTT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTT
8357597 TCCTTGTACA
Statistics
Matches: 185, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
57 29 0.16
58 55 0.30
59 39 0.21
60 21 0.11
61 12 0.06
62 27 0.15
63 2 0.01
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (58 bp):
AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGTTTCC
Found at i:8358719 original size:11 final size:11
Alignment explanation
Indices: 8358703--8358738 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
8358693 AAATCCCATA
8358703 AGAGATTTGTT
1 AGAGATTTGTT
8358714 AGAGATTTGTT
1 AGAGATTTGTT
*
8358725 TGAGATTTGTT
1 AGAGATTTGTT
8358736 AGA
1 AGA
8358739 TATTGCTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:8358837 original size:52 final size:52
Alignment explanation
Indices: 8358759--8358915 Score: 188
Period size: 52 Copynumber: 3.0 Consensus size: 52
8358749 TGGACAAGAA
* * *
8358759 GACTTGCAAAAGAAGAATTCTAAGAGAAAAGAGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAATAATTCTAAGAGAAAAGGGATTCTTAATAGGTAAGTTT
* * *** *
8358811 GACTTGTAAGAGAATAATTCTAAGAGAAAAGGGATTTTTAATACACAAATTT
1 GACTTGCAAGAGAATAATTCTAAGAGAAAAGGGATTCTTAATAGGTAAGTTT
* * * * *
8358863 GACTTACAGGAGAATAATTCTAAGAGGAGAGGGATTCTTAATGGGTAAGTTT
1 GACTTGCAAGAGAATAATTCTAAGAGAAAAGGGATTCTTAATAGGTAAGTTT
8358915 G
1 G
8358916 TATGATTATA
Statistics
Matches: 85, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
52 85 1.00
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.29
Consensus pattern (52 bp):
GACTTGCAAGAGAATAATTCTAAGAGAAAAGGGATTCTTAATAGGTAAGTTT
Found at i:8362114 original size:16 final size:16
Alignment explanation
Indices: 8362064--8362126 Score: 51
Period size: 16 Copynumber: 3.9 Consensus size: 16
8362054 AATTTCTATT
* *
8362064 TAATAAATTTTAAAAA
1 TAATATATTTCAAAAA
*
8362080 TAAT-TATTAT-AAATTA
1 TAATATATT-TCAAA-AA
8362096 TAACTAT-TTTCAAAAA
1 TAA-TATATTTCAAAAA
8362112 TAATATATTTCAAAA
1 TAATATATTTCAAAA
8362127 TTTTTCTCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
15 9 0.24
16 22 0.58
17 6 0.16
18 1 0.03
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATATATTTCAAAAA
Found at i:8367321 original size:29 final size:29
Alignment explanation
Indices: 8367288--8367353 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
8367278 ATCTTTTAAA
* *
8367288 TTAAAATAAAATATATTATATATGATA-AT
1 TTAAAATAAAAT-GATTATAAATGATATAT
*
8367317 TTAAAAT-AAATGATTATAAATTATATAT
1 TTAAAATAAAATGATTATAAATGATATAT
8367345 TTAAAATAA
1 TTAAAATAA
8367354 TTTTAATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 11 0.34
28 13 0.41
29 8 0.25
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (29 bp):
TTAAAATAAAATGATTATAAATGATATAT
Found at i:8367322 original size:24 final size:26
Alignment explanation
Indices: 8367294--8367352 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
8367284 TAAATTAAAA
*
8367294 TAAAATAT-ATTATATATGATA-ATT
1 TAAAATATGATTATAAATGATATATT
*
8367318 TAAAATAAATGATTATAAATTATATATT
1 TAAAAT--ATGATTATAAATGATATATT
8367346 TAAAATA
1 TAAAATA
8367353 ATTTTAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 6 0.21
26 3 0.10
27 11 0.38
28 9 0.31
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.42
Consensus pattern (26 bp):
TAAAATATGATTATAAATGATATATT
Found at i:8367937 original size:55 final size:56
Alignment explanation
Indices: 8367852--8367956 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 56
8367842 ATATATTTAA
* *
8367852 TATTAAAATTAAAATTAAAATTTCAAAAATTTT-AACA-TAAAAAAATAAAAAATT
1 TATTAAAATTAAAATTAAAATATAAAAAATTTTAAACATTAAAAAAATAAAAAATT
** *
8367906 TATTAAAATATAATTTTAAAATATAAAAAATTTTAAATATTAAAAAAATAA
1 TATTAAAAT-TAAAATTAAAATATAAAAAATTTTAAACATTAAAAAAATAA
8367957 TTTTGAGACA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
54 9 0.21
55 20 0.47
56 3 0.07
57 11 0.26
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (56 bp):
TATTAAAATTAAAATTAAAATATAAAAAATTTTAAACATTAAAAAAATAAAAAATT
Found at i:8367945 original size:16 final size:18
Alignment explanation
Indices: 8367917--8367952 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
8367907 ATTAAAATAT
8367917 AATTTTAAAATA-TAAAA
1 AATTTTAAAATATTAAAA
8367934 AATTTT-AAATATTAAAA
1 AATTTTAAAATATTAAAA
8367951 AA
1 AA
8367953 ATAATTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTTTAAAATATTAAAA
Found at i:8369099 original size:2 final size:2
Alignment explanation
Indices: 8369092--8369128 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
8369082 GGCTGACTTC
8369092 AT AT 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 AT AT A
8369129 AAAGGTGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8371775 original size:19 final size:20
Alignment explanation
Indices: 8371751--8371788 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8371741 ATATATATCT
*
8371751 AATAATA-AAATTTTTATTA
1 AATAATATAAATTGTTATTA
8371770 AATAATATAAATTGTTATT
1 AATAATATAAATTGTTATT
8371789 TTAAATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
AATAATATAAATTGTTATTA
Found at i:8374350 original size:22 final size:19
Alignment explanation
Indices: 8374313--8374357 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 19
8374303 CGCTAGCAGT
*
8374313 AAAAAAAAAGCTTAAAAAA
1 AAAAAAAAAACTTAAAAAA
8374332 GAAAAAAAAAACATGTAAAAAA
1 -AAAAAAAAAAC-T-TAAAAAA
8374354 AAAA
1 AAAA
8374358 GAAAGACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 10 0.45
21 5 0.23
22 7 0.32
ACGTcount: A:0.80, C:0.04, G:0.07, T:0.09
Consensus pattern (19 bp):
AAAAAAAAAACTTAAAAAA
Found at i:8374377 original size:26 final size:26
Alignment explanation
Indices: 8374326--8374378 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
8374316 AAAAAAGCTT
*
8374326 AAAAAAGAAAAAAAAAACATGTAAAA
1 AAAAAAGAAAAAAAAAACATGAAAAA
* *
8374352 AAAAAAGAAAGACAAACACA-GAAAAA
1 AAAAAAGAAA-AAAAAAACATGAAAAA
8374378 A
1 A
8374379 TAGGGAAAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.79, C:0.08, G:0.09, T:0.04
Consensus pattern (26 bp):
AAAAAAGAAAAAAAAAACATGAAAAA
Found at i:8375966 original size:3 final size:3
Alignment explanation
Indices: 8375958--8375999 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
8375948 ATATGTATAT
8375958 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8376000 CGAATGAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8377599 original size:118 final size:118
Alignment explanation
Indices: 8377395--8377726 Score: 486
Period size: 118 Copynumber: 2.8 Consensus size: 118
8377385 TTTTGTGTAG
* * **
8377395 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTGTTTTTGAAAACTTTAATTTCGAGG
1 GAAAAATTGATACTTTCAACTTTT-CCTCAAAATA-TTTT-TTTTTGAAAA-TTTATTTTTAAGG
8377460 AAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTGAAAA-TTTTAATTTCGA
62 AAAATTGATACTTTCAACTTTTCCCAAAAAATA-TTTTTTGAAAACTTTTAATTTCGA
* *
8377517 GAAAAATTGATACTTTTAACTTTTCCTCAAAATCTTTTTTTTTGAAAATTTATTTTTAAGGAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTTGAAAATTTATTTTTAAGGAAAA
**
8377582 TTGATACTTTCAACTTTTCCCCGAAAATATTTTTTGAAAACTTTTAATTTCGA
66 TTGATACTTTCAACTTTTCCCAAAAAATATTTTTTGAAAACTTTTAATTTCGA
* * ***
8377635 GAAAAATTGATACTTTCAACTTTTTCTCAAAAAAACCTTTTTTGAAAATTTATTTTTAAGGAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTTGAAAATTTATTTTTAAGGAAAA
*
8377700 TTGATACTTTCAACTTTTCCTAAAAAA
66 TTGATACTTTCAACTTTTCCCAAAAAA
8377727 AAACCTTTTA
Statistics
Matches: 191, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
117 11 0.06
118 135 0.71
119 10 0.05
120 4 0.02
121 8 0.04
122 23 0.12
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (118 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTTGAAAATTTATTTTTAAGGAAAA
TTGATACTTTCAACTTTTCCCAAAAAATATTTTTTGAAAACTTTTAATTTCGA
Found at i:8377728 original size:59 final size:59
Alignment explanation
Indices: 8377397--8377726 Score: 380
Period size: 59 Copynumber: 5.5 Consensus size: 59
8377387 TTGTGTAGGA
*
8377397 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTGTTTTTGAAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTT-CCTAAAAA-A-TATT-TTTTTGAAAACTTTAATTTCGAGG
* * *
8377460 AAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTGAAAATTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCTAAAAAATATTTTTTTGAAAACTTTAATTTCGAGG
* ** * * **
8377519 AAAATTGATACTTTTAACTTTTCCTCAAAATCTTTTTTTTTGAAAA-TTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCT-AAAAAATATTTTTTTGAAAACTTTAATTTCGAGG
*** *
8377578 AAAATTGATACTTTCAACTTTTCCCCGAAAATA-TTTTTTGAAAACTTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCTAAAAAATATTTTTTTGAAAAC-TTTAATTTCGAGG
* * * **
8377637 AAAATTGATACTTTCAACTTTTTCTCAAAAAA-ACCTTTTTTGAAAA-TTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCT-AAAAAATA-TTTTTTTGAAAACTTTAATTTCGAGG
8377696 AAAATTGATACTTTCAACTTTTCCTAAAAAA
1 AAAATTGATACTTTCAACTTTTCCTAAAAAA
8377727 AAACCTTTTA
Statistics
Matches: 228, Mismatches: 33, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
57 11 0.05
58 9 0.04
59 143 0.63
60 24 0.11
61 12 0.05
62 7 0.03
63 22 0.10
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTAAAAAATATTTTTTTGAAAACTTTAATTTCGAGG
Found at i:8377836 original size:17 final size:16
Alignment explanation
Indices: 8377815--8377881 Score: 71
Period size: 17 Copynumber: 4.0 Consensus size: 16
8377805 AATAAAATAA
8377815 TAAAACAAAATAAAAG
1 TAAAACAAAATAAAAG
* *
8377831 TGAAAATAAAAAAAAAG
1 T-AAAACAAAATAAAAG
*
8377848 TAAAACAAAAATAAAAA
1 TAAAAC-AAAATAAAAG
*
8377865 TAAAATAAAGATAAAAG
1 TAAAACAAA-ATAAAAG
8377882 AATATTAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
16 8 0.20
17 33 0.80
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.13
Consensus pattern (16 bp):
TAAAACAAAATAAAAG
Found at i:8377878 original size:6 final size:5
Alignment explanation
Indices: 8377803--8377894 Score: 62
Period size: 5 Copynumber: 17.6 Consensus size: 5
8377793 TTATTTAAAG
* *
8377803 AAAAT AAAAT --AAT AAAAC AAAAT AAAAGT GAAAAT AAAAA AAAAGT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAA-T
* * * *
8377849 AAAACA AAAAT AAAAAT AAAAT AAAGAT AAAAG AATAT TAAAT AAA
1 AAAA-T AAAAT -AAAAT AAAAT AAA-AT AAAAT AAAAT AAAAT AAA
8377895 CCTAATCTAA
Statistics
Matches: 67, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
3 3 0.04
5 40 0.60
6 20 0.30
7 4 0.06
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:8377880 original size:22 final size:21
Alignment explanation
Indices: 8377813--8377873 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
8377803 AAAATAAAAT
* *
8377813 AATAAAACAAAATAAAAGTGAA
1 AATAAAAAAAAATAAAACT-AA
*
8377835 AATAAAAAAAAAGTAAAACAAA
1 AATAAAAAAAAA-TAAAACTAA
8377857 AATAAAAATAAAATAAA
1 AATAAAAA-AAAATAAA
8377874 GATAAAAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 25 0.74
23 9 0.26
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (21 bp):
AATAAAAAAAAATAAAACTAA
Found at i:8378460 original size:25 final size:25
Alignment explanation
Indices: 8378423--8378471 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
8378413 CGAAATCTGG
* *
8378423 AAATTTTCCAAAAAT-TTCCAAAAAA
1 AAATTGTCAAAAAATCTT-CAAAAAA
8378448 AAATTGTCAAAAAATCTTCAAAAA
1 AAATTGTCAAAAAATCTTCAAAAA
8378472 TTTTTTTCCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.27
Consensus pattern (25 bp):
AAATTGTCAAAAAATCTTCAAAAAA
Found at i:8378743 original size:9 final size:9
Alignment explanation
Indices: 8378729--8378771 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
8378719 ATTTCTGTCG
8378729 AATAAATCA
1 AATAAATCA
*
8378738 AATAAATAA
1 AATAAATCA
*
8378747 AAAAAATCA
1 AATAAATCA
8378756 AATAAATCA
1 AATAAATCA
*
8378765 GATAAAT
1 AATAAAT
8378772 AAAAAAATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.21
Consensus pattern (9 bp):
AATAAATCA
Found at i:8378905 original size:6 final size:6
Alignment explanation
Indices: 8378894--8378988 Score: 61
Period size: 6 Copynumber: 15.0 Consensus size: 6
8378884 ATAAATACAT
* *
8378894 AAAATA AAAATA AAAGAAA AAAATA TAAAA-A CAATAATA ATAATA AAAAT-
1 AAAATA AAAATA AAA-ATA AAAATA -AAAATA -AA-AATA AAAATA AAAATA
* *
8378944 AAAATA AAAATGTA AAATGTA AAATACA AAAATA AAAA-A AAAATA
1 AAAATA AAAA--TA AAA-ATA AAA-ATA AAAATA AAAATA AAAATA
8378989 GACTTACCTA
Statistics
Matches: 71, Mismatches: 9, Indels: 18
0.72 0.09 0.18
Matches are distributed among these distances:
5 10 0.14
6 33 0.46
7 22 0.31
8 6 0.08
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:8379290 original size:41 final size:40
Alignment explanation
Indices: 8379160--8379367 Score: 238
Period size: 41 Copynumber: 5.0 Consensus size: 40
8379150 ATCAAAACTA
* *
8379160 CTCTAAGCAGAGGCTCAACAACTTTGGAAAAATAAA-TGACTC
1 CTCTAAACAGAGGCTCAACGACTTT-G-AAAATAAATTG-CTC
* *
8379202 CTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATGGCTC
1 CTCTAAACAGAGGCTCAACGACTTTG--AAAATAAATTGCTC
* *
8379244 CTCTAATCAGAGGCTCAACAACTTTGAAACATAAATTGCTC
1 CTCTAAACAGAGGCTCAACGACTTTGAAA-ATAAATTGCTC
* * *
8379285 CTCTAAACAGAGGCACTACGACTTTGGAAAGTAAATTGCTC
1 CTCTAAACAGAGGCTCAACGACTTT-GAAAATAAATTGCTC
* *
8379326 CTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTC
1 CTCTAAACAGAGGCTCAACGACTTTGAAAA-TAAATTGCTC
8379367 C
1 C
8379368 ACGACTTTGA
Statistics
Matches: 149, Mismatches: 12, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
40 7 0.05
41 77 0.52
42 64 0.43
43 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (40 bp):
CTCTAAACAGAGGCTCAACGACTTTGAAAATAAATTGCTC
Found at i:8379369 original size:25 final size:25
Alignment explanation
Indices: 8379341--8379392 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
8379331 AACAGAGGCA
8379341 CCACGACTTTGAAAAGTAAATTGCT
1 CCACGACTTTGAAAAGTAAATTGCT
8379366 CCACGACTTTGAAAAGTAAATTGCT
1 CCACGACTTTGAAAAGTAAATTGCT
8379391 CC
1 CC
8379393 TCTAAACAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
CCACGACTTTGAAAAGTAAATTGCT
Found at i:8379408 original size:66 final size:66
Alignment explanation
Indices: 8379302--8379429 Score: 238
Period size: 66 Copynumber: 1.9 Consensus size: 66
8379292 CAGAGGCACT
*
8379302 ACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTC
1 ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTC
8379367 C
66 C
*
8379368 ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTGAAAAGTAAATTG
1 ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTG
8379430 TTTCATCTAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (66 bp):
ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTC
C
Found at i:8379427 original size:41 final size:42
Alignment explanation
Indices: 8379366--8379476 Score: 170
Period size: 41 Copynumber: 2.6 Consensus size: 42
8379356 GTAAATTGCT
*
8379366 CCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG-CA
1 CCACGACTTTGAAAAGTAAATTGCTCATCTAAACAGAGGCCA
* *
8379407 CCATGACTTTGAAAAGTAAATTGTTTCATCTAAACAGAGGCCA
1 CCACGACTTTGAAAAGTAAATTG-CTCATCTAAACAGAGGCCA
8379450 CCACGACTTATGAAAAGTAAATTGCTC
1 CCACGACTT-TGAAAAGTAAATTGCTC
8379477 TCGTTGACAA
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
41 22 0.35
42 14 0.23
43 12 0.19
44 14 0.23
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (42 bp):
CCACGACTTTGAAAAGTAAATTGCTCATCTAAACAGAGGCCA
Found at i:8380506 original size:19 final size:18
Alignment explanation
Indices: 8380484--8380525 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
8380474 TTTCATTCAC
*
8380484 TTTTTTTCTTTTTTCATAT
1 TTTTTTTATTTTTTCAT-T
8380503 TTTTTTTATTTTTTCATT
1 TTTTTTTATTTTTTCATT
8380521 TTTTT
1 TTTTT
8380526 CAAGCATAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTTATTTTTTCATT
Found at i:8390969 original size:59 final size:59
Alignment explanation
Indices: 8390829--8391055 Score: 260
Period size: 59 Copynumber: 3.8 Consensus size: 59
8390819 TGTTTTTGTG
* * *
8390829 TAAGAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTGTTTTTGAAAACTTTAATTT
1 TAAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAAT-CTTTT-TTTTTGAAAA-TTTAATTT
** * *
8390892 CGAGGAAAATTGAAACTTTCAACTTTTCCTCAAAATCTTTTTTTTTGAAAATTTATTTT
1 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATCTTTTTTTTTGAAAATTTAATTT
* * * *
8390951 TAAGGAAAATTGATACTTTCAACTTTTTCTCGAAAA--TATTTTTTGGAAACTTTTAATTT
1 TAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAATCTTTTTTTTTGAAA-ATTTAATTT
* * *
8391010 TGAGGAAAATTGATACTTTCAACTTTTCCCCAAAAACTTTTTTTTT
1 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATCTTTTTTTTT
8391056 TTTTGGATTT
Statistics
Matches: 140, Mismatches: 20, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
58 15 0.11
59 69 0.49
60 21 0.15
61 4 0.03
62 12 0.09
63 19 0.14
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.46
Consensus pattern (59 bp):
TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATCTTTTTTTTTGAAAATTTAATTT
Found at i:8391050 original size:118 final size:119
Alignment explanation
Indices: 8390829--8391055 Score: 325
Period size: 118 Copynumber: 1.9 Consensus size: 119
8390819 TGTTTTTGTG
8390829 TAAGAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTGTTTTTGAAAACTTTAATTTCG
1 TAAGAAAAATTGATACTTTCAACTTTTTCCTAAAAATA---TTGTTTTTGAAAACTTTAATTTCG
* *
8390894 AGGAAAATTGAAACTTTCAACTTTTCCTCAAAATCTTTTTTTTTGAAAATTTATTTT
63 AGGAAAATTGAAACTTTCAACTTTTCCCCAAAAACTTTTTTTTTGAAAATTTATTTT
* * * *
8390951 TAAGGAAAATTGATACTTTCAACTTTTT-CTCGAAAATA-T-TTTTTGGAAACTTTTAATTTTGA
1 TAAGAAAAATTGATACTTTCAACTTTTTCCT-AAAAATATTGTTTTTGAAAAC-TTTAATTTCGA
*
8391013 GGAAAATTGATACTTTCAACTTTTCCCCAAAAACTTTTTTTTT
64 GGAAAATTGAAACTTTCAACTTTTCCCCAAAAACTTTTTTTTT
8391056 TTTTGGATTT
Statistics
Matches: 96, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
117 10 0.10
118 51 0.53
121 2 0.02
122 33 0.34
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.46
Consensus pattern (119 bp):
TAAGAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTGTTTTTGAAAACTTTAATTTCGAGG
AAAATTGAAACTTTCAACTTTTCCCCAAAAACTTTTTTTTTGAAAATTTATTTT
Found at i:8391083 original size:5 final size:5
Alignment explanation
Indices: 8391075--8391154 Score: 76
Period size: 5 Copynumber: 15.6 Consensus size: 5
8391065 TTATTTAAAG
*
8391075 AAAAT AAAAT --AAT AAAAC AAAAT AAAAGT GAAAAT AAAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT -AAAAT AAAAT
*
8391121 AAAAT AAAAT AAAGAT AAAA- AAATAT TAAAT AAA
1 AAAAT AAAAT AAA-AT AAAAT AAA-AT AAAAT AAA
8391155 CCTAATCTAA
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
3 3 0.05
4 3 0.05
5 39 0.62
6 14 0.22
7 4 0.06
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:8391098 original size:18 final size:18
Alignment explanation
Indices: 8391070--8391145 Score: 59
Period size: 18 Copynumber: 4.1 Consensus size: 18
8391060 GGATTTTATT
*
8391070 TAAAGAAAATAAAAT-AA
1 TAAAAAAAATAAAATAAA
*
8391087 TAAAACAAAATAAAAGTGAA
1 TAAAA-AAAATAAAA-TAAA
*
8391107 -AATAAAAATAAAATAAAA
1 TAAAAAAAATAAAAT-AAA
8391125 TAAAATAAAGATAAAA-AAA
1 TAAAA-AAA-ATAAAATAAA
8391144 TA
1 TA
8391146 TTAAATAAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
17 5 0.10
18 20 0.42
19 12 0.25
20 5 0.10
21 6 0.12
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.17
Consensus pattern (18 bp):
TAAAAAAAATAAAATAAA
Found at i:8391121 original size:11 final size:11
Alignment explanation
Indices: 8391075--8391154 Score: 74
Period size: 11 Copynumber: 7.2 Consensus size: 11
8391065 TTATTTAAAG
8391075 AAAATAAAATAA
1 AAAATAAAAT-A
*
8391087 TAAAACAAAATA
1 -AAAATAAAATA
*
8391099 AAAGTGAAAATA
1 AAAAT-AAAATA
8391111 AAAATAAAAT-
1 AAAATAAAATA
8391121 AAAATAAAATA
1 AAAATAAAATA
*
8391132 AAGATAAAA-A
1 AAAATAAAATA
* *
8391142 AATATTAAATA
1 AAAATAAAATA
8391153 AA
1 AA
8391155 CCTAATCTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
10 18 0.32
11 19 0.33
12 11 0.19
13 9 0.16
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:8391488 original size:14 final size:13
Alignment explanation
Indices: 8391469--8391502 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
8391459 ACCTCCTCCC
*
8391469 TCTCTCTCTTCTTT
1 TCTCTCTCCTC-TT
8391483 TCTCTCTCCTCTT
1 TCTCTCTCCTCTT
8391496 TCTCTCT
1 TCTCTCT
8391503 AGAACACTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (13 bp):
TCTCTCTCCTCTT
Found at i:8392022 original size:9 final size:9
Alignment explanation
Indices: 8391990--8392035 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
8391980 ATTTCAACCG
8391990 AATAAATCA
1 AATAAATCA
*
8391999 AAGAAAT-A
1 AATAAATCA
*
8392007 AAAAAATCA
1 AATAAATCA
8392016 AATAAATCA
1 AATAAATCA
*
8392025 GATAAATCA
1 AATAAATCA
8392034 AA
1 AA
8392036 AAGTTAACAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
8 7 0.23
9 24 0.77
ACGTcount: A:0.70, C:0.09, G:0.04, T:0.17
Consensus pattern (9 bp):
AATAAATCA
Done.