Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 24 of 125
Found at i:4397107 original size:24 final size:24
Alignment explanation
Indices: 4397063--4397108 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
4397053 TTAATCGCAG
*
4397063 TTATAATAATTTTTTTAATTATAA
1 TTATAATAATTTTATTAATTATAA
4397087 TTATAATAATTATTATT-ATTAT
1 TTATAATAATT-TTATTAATTAT
4397109 TTTTAATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TTATAATAATTTTATTAATTATAA
Found at i:4399234 original size:15 final size:15
Alignment explanation
Indices: 4399204--4399246 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
4399194 TGGAAATATT
*
4399204 ATAAATCTTTCTAAAA
1 ATAAAT-TTTCAAAAA
4399220 ATAAATTTTCAAAAA
1 ATAAATTTTCAAAAA
4399235 ATTAAATTTTCA
1 A-TAAATTTTCA
4399247 TAAAGGTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 9 0.36
16 16 0.64
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAAATTTTCAAAAA
Found at i:4399308 original size:10 final size:10
Alignment explanation
Indices: 4399293--4399341 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
4399283 AAATTATATG
4399293 ATTTTTCAAA
1 ATTTTTCAAA
4399303 ATTTTTCAAA
1 ATTTTTCAAA
**
4399313 A-AATT-ATAA
1 ATTTTTCA-AA
4399322 A-TTTTCAAA
1 ATTTTTCAAA
4399331 ATTTTTCAAA
1 ATTTTTCAAA
4399341 A
1 A
4399342 ATAATTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
8 1 0.03
9 10 0.31
10 21 0.66
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (10 bp):
ATTTTTCAAA
Found at i:4399327 original size:28 final size:29
Alignment explanation
Indices: 4399275--4399342 Score: 111
Period size: 28 Copynumber: 2.3 Consensus size: 29
4399265 TATAAATTTA
*
4399275 TTTTCAAAAAATTATATGATTTTTCAAAAT
1 TTTTCAAAAAATTATA-GAATTTTCAAAAT
4399305 TTTTCAAAAAATTATA-AATTTTCAAAAT
1 TTTTCAAAAAATTATAGAATTTTCAAAAT
4399333 TTTTCAAAAA
1 TTTTCAAAAA
4399343 TAATTAAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
28 21 0.57
30 16 0.43
ACGTcount: A:0.47, C:0.07, G:0.01, T:0.44
Consensus pattern (29 bp):
TTTTCAAAAAATTATAGAATTTTCAAAAT
Found at i:4399350 original size:28 final size:28
Alignment explanation
Indices: 4399275--4399351 Score: 93
Period size: 28 Copynumber: 2.7 Consensus size: 28
4399265 TATAAATTTA
* *
4399275 TTTTCAAAAAATTATATGATTTTTCAAAAT
1 TTTTCAAAAAA--ATATAAATTTTCAAAAT
*
4399305 TTTTCAAAAAATTATAAATTTTCAAAAT
1 TTTTCAAAAAAATATAAATTTTCAAAAT
4399333 TTTTCAAAAATAAT-TAAAT
1 TTTTCAAAAA-AATATAAAT
4399352 AATTTTACTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 29 0.69
29 2 0.05
30 11 0.26
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.44
Consensus pattern (28 bp):
TTTTCAAAAAAATATAAATTTTCAAAAT
Found at i:4400271 original size:2 final size:2
Alignment explanation
Indices: 4400266--4400293 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4400256 AACAAATGTA
4400266 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4400294 TTTATTCGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4403864 original size:21 final size:25
Alignment explanation
Indices: 4403840--4403892 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 25
4403830 ATCTTAAATT
4403840 ATATTTAATTTT-ATAT-AT-TT-A
1 ATATTTAATTTTGATATGATATTAA
*
4403861 ATATTTGATTTTGATATGATATTAA
1 ATATTTAATTTTGATATGATATTAA
4403886 ATATTTA
1 ATATTTA
4403893 TCTACAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 11 0.42
22 4 0.15
23 2 0.08
24 2 0.08
25 7 0.27
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (25 bp):
ATATTTAATTTTGATATGATATTAA
Found at i:4405283 original size:20 final size:21
Alignment explanation
Indices: 4405253--4405291 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
4405243 GTTAATAAAA
*
4405253 TATTAAAAATTTAATTTTAAT
1 TATTAAAAATTTAAATTTAAT
4405274 TATT-AAAATTTAAATTTA
1 TATTAAAAATTTAAATTTA
4405292 GACACTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTAAAAATTTAAATTTAAT
Found at i:4405818 original size:17 final size:16
Alignment explanation
Indices: 4405798--4405831 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
4405788 ATTTTATCAA
*
4405798 TTTATTAATTTATATTT
1 TTTATTAAATTAT-TTT
4405815 TTTATTAAATTATTTT
1 TTTATTAAATTATTTT
4405831 T
1 T
4405832 AAAAACTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTATTAAATTATTTT
Found at i:4414709 original size:23 final size:22
Alignment explanation
Indices: 4414677--4414722 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
4414667 ATAAGAAAAT
4414677 TGAAAATTGATGAAAAATTTATG
1 TGAAAATTGA-GAAAAATTTATG
* * *
4414700 TGAAATTTGAGAAGAGTTTATG
1 TGAAAATTGAGAAAAATTTATG
4414722 T
1 T
4414723 AGATGAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (22 bp):
TGAAAATTGAGAAAAATTTATG
Found at i:4414881 original size:23 final size:23
Alignment explanation
Indices: 4414834--4414882 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
4414824 GAAATGTTAA
*
4414834 ATAAATTATTTTTTCAACAGAAG
1 ATAAATTATTTTTTAAACAGAAG
*
4414857 ATAAATTAATTTTTTAAATAG-AG
1 ATAAATT-ATTTTTTAAACAGAAG
4414880 ATA
1 ATA
4414883 CGTGATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (23 bp):
ATAAATTATTTTTTAAACAGAAG
Found at i:4415672 original size:15 final size:14
Alignment explanation
Indices: 4415654--4415696 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
4415644 AAATTAATTT
4415654 AATTATTATTAAAAA
1 AATT-TTATTAAAAA
*
4415669 AATTTATATTAAATA
1 AATTT-TATTAAAAA
*
4415684 AATTTCATTAAAA
1 AATTTTATTAAAA
4415697 TTAATATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (14 bp):
AATTTTATTAAAAA
Found at i:4415680 original size:25 final size:25
Alignment explanation
Indices: 4415617--4415672 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
4415607 GAATAATAAT
4415617 AAAAATT-ATTATAATTATGATTGAA
1 AAAAATTAATT-TAATTATGATTGAA
*
4415642 AAAAATTAATTTAATTATTATT-AA
1 AAAAATTAATTTAATTATGATTGAA
4415666 AAAAATT
1 AAAAATT
4415673 TATATTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 9 0.31
25 17 0.59
26 3 0.10
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (25 bp):
AAAAATTAATTTAATTATGATTGAA
Found at i:4420125 original size:24 final size:26
Alignment explanation
Indices: 4420079--4420143 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 26
4420069 GCTATATCTT
*
4420079 ATAATAAATTTTAATTTTATCACTAT-A
1 ATAATTAATTTT-A-TTTATCACTATCA
4420106 ATAATTAATTTTATTT-TCACTATCA
1 ATAATTAATTTTATTTATCACTATCA
*
4420131 AT-TTTAATTTTAT
1 ATAATTAATTTTAT
4420144 CAAAATTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 17 0.49
25 6 0.17
26 1 0.03
27 11 0.31
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (26 bp):
ATAATTAATTTTATTTATCACTATCA
Found at i:4420618 original size:34 final size:33
Alignment explanation
Indices: 4420562--4420627 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
4420552 TCGAGTGATC
*
4420562 TAAAATATTTTTTAATAAATTAATTAATTTTAATT
1 TAAAATATTATTTAATAAATTAA-T-ATTTTAATT
4420597 TAAAATA-TATTTAA-AATATTAATATTTTAAT
1 TAAAATATTATTTAATAA-ATTAATATTTTAAT
4420628 ACATTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
32 8 0.28
33 3 0.10
34 11 0.38
35 7 0.24
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (33 bp):
TAAAATATTATTTAATAAATTAATATTTTAATT
Found at i:4421864 original size:16 final size:17
Alignment explanation
Indices: 4421845--4421877 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4421835 TAGTATTTAA
4421845 TTAATT-TTTAATTTTT
1 TTAATTATTTAATTTTT
*
4421861 TTAATTATTTTATTTTT
1 TTAATTATTTAATTTTT
4421878 AAAAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTAATTATTTAATTTTT
Found at i:4422113 original size:24 final size:23
Alignment explanation
Indices: 4422076--4422139 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 23
4422066 ATCTTTTAAG
*
4422076 TAAAAAAAATATAAAAATATATT
1 TAAATAAAATATAAAAATATATT
* *
4422099 TAAATAAAATGATAAAAGTTTATT
1 TAAATAAAAT-ATAAAAATATATT
4422123 TAAATAAAATAATAAAA
1 TAAATAAAAT-ATAAAA
4422140 TTCGATAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 9 0.25
24 27 0.75
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (23 bp):
TAAATAAAATATAAAAATATATT
Found at i:4424184 original size:30 final size:30
Alignment explanation
Indices: 4424090--4424184 Score: 120
Period size: 30 Copynumber: 3.1 Consensus size: 30
4424080 TACTTTTCAA
4424090 TTTTTAAGAATTTAATTCTTATAATATTATT
1 TTTTTAA-AATTTAATTCTTATAATATTATT
***
4424121 TTAAAAAAATTTAATTCTTATAATA-TATAT
1 TTTTTAAAATTTAATTCTTATAATATTAT-T
* *
4424151 TTTTTAAAATTTAATCCTTATACTATTATT
1 TTTTTAAAATTTAATTCTTATAATATTATT
4424181 TTTT
1 TTTT
4424185 AAGGAATTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
29 3 0.06
30 44 0.81
31 7 0.13
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.56
Consensus pattern (30 bp):
TTTTTAAAATTTAATTCTTATAATATTATT
Found at i:4425273 original size:51 final size:51
Alignment explanation
Indices: 4425192--4425295 Score: 172
Period size: 51 Copynumber: 2.0 Consensus size: 51
4425182 TTTGTTTGGC
* *
4425192 TCTTTCAACTAACTAAGCTGCATACCTCAAATAACTTTGCCTTTCTAGTTG
1 TCTTTCAACTAACTAAGCTGCATACCTCAAACAACTCTGCCTTTCTAGTTG
* *
4425243 TCTTTCAACTAACTAAGCTGCATTCTTCAAACAACTCTGCCTTTCTAGTTG
1 TCTTTCAACTAACTAAGCTGCATACCTCAAACAACTCTGCCTTTCTAGTTG
4425294 TC
1 TC
4425296 CCTTTTTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.26, C:0.27, G:0.10, T:0.38
Consensus pattern (51 bp):
TCTTTCAACTAACTAAGCTGCATACCTCAAACAACTCTGCCTTTCTAGTTG
Found at i:4431252 original size:21 final size:23
Alignment explanation
Indices: 4431209--4431273 Score: 82
Period size: 21 Copynumber: 2.9 Consensus size: 23
4431199 ATATATTTAT
* *
4431209 ATAAT-TTTATATTTATATTAAAA
1 ATAATATTT-TATTAATTTTAAAA
4431232 ATAATATTTTA-T-ATTTTAAAA
1 ATAATATTTTATTAATTTTAAAA
4431253 ATAATATTTTATTAATTTTAA
1 ATAATATTTTATTAATTTTAA
4431274 GTTAAATCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
21 19 0.50
22 2 0.05
23 14 0.37
24 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
ATAATATTTTATTAATTTTAAAA
Found at i:4439351 original size:16 final size:17
Alignment explanation
Indices: 4439330--4439365 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
4439320 AAATTTAATT
*
4439330 TAATTAATTTA-TATAA
1 TAATTAATTAATTATAA
4439346 TAATTAATTAATTATAA
1 TAATTAATTAATTATAA
4439363 TAA
1 TAA
4439366 AAAATTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATTAATTAATTATAA
Found at i:4441956 original size:3 final size:3
Alignment explanation
Indices: 4441948--4441972 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4441938 CCTTCACCGC
4441948 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
4441973 ATCATCAGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:4448353 original size:15 final size:15
Alignment explanation
Indices: 4448330--4448361 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4448320 AATATCATAA
*
4448330 AATAGTATAAAAAAT
1 AATAATATAAAAAAT
4448345 AATAATATAAAAAAT
1 AATAATATAAAAAAT
4448360 AA
1 AA
4448362 ATTAGTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (15 bp):
AATAATATAAAAAAT
Found at i:4448528 original size:17 final size:15
Alignment explanation
Indices: 4448483--4448529 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 15
4448473 ATGAAATAAT
4448483 AAAATAT-TAACAA-
1 AAAATATATAACAAC
*
4448496 ATAATATATAACAAC
1 AAAATATATAACAAC
4448511 AAAATATAATAACTAAC
1 AAAATAT-ATAAC-AAC
4448528 AA
1 AA
4448530 TATGCTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 6 0.21
16 5 0.18
17 5 0.18
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATATATAACAAC
Found at i:4454780 original size:13 final size:13
Alignment explanation
Indices: 4454762--4454801 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
4454752 AATTTACATG
4454762 AAAATTTTTAAAT
1 AAAATTTTTAAAT
*
4454775 AAAATTTATAAA-
1 AAAATTTTTAAAT
*
4454787 AATATTTTTAAAT
1 AAAATTTTTAAAT
4454800 AA
1 AA
4454802 TTTAATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AAAATTTTTAAAT
Found at i:4454780 original size:25 final size:22
Alignment explanation
Indices: 4454752--4454829 Score: 70
Period size: 23 Copynumber: 3.3 Consensus size: 22
4454742 TCCACGATAC
*
4454752 AATTTACATGAAAATTTTTAAAT
1 AATTTA-ATAAAAATTTTTAAAT
4454775 AAAATTT-ATAAAAATATTTTTAAAT
1 --AATTTAAT-AAAA-ATTTTTAAAT
4454800 AATTTAATAAAAATTTTATTAAA-
1 AATTTAATAAAAA-TTT-TTAAAT
4454823 AATTTAA
1 AATTTAA
4454830 ATCTGTTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
22 1 0.02
23 21 0.45
24 10 0.21
25 15 0.32
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (22 bp):
AATTTAATAAAAATTTTTAAAT
Found at i:4454826 original size:12 final size:12
Alignment explanation
Indices: 4454775--4454827 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
4454765 ATTTTTAAAT
4454775 AAAA-TTTA-TA
1 AAAATTTTATTA
4454785 AAAATATTT-TTA
1 AAAAT-TTTATTA
*
4454797 AATAA-TTTAATA
1 AA-AATTTTATTA
4454809 AAAATTTTATTA
1 AAAATTTTATTA
4454821 AAAATTT
1 AAAATTT
4454828 AAATCTGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
10 4 0.11
11 5 0.14
12 24 0.69
13 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
AAAATTTTATTA
Found at i:4454829 original size:23 final size:23
Alignment explanation
Indices: 4454775--4454829 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
4454765 ATTTTTAAAT
4454775 AAAATTT-ATAAAAATATTTTTA
1 AAAATTTAATAAAAATATTTTTA
4454797 AATAATTTAATAAAAAT-TTTATTA
1 AA-AATTTAATAAAAATATTT-TTA
4454821 AAAATTTAA
1 AAAATTTAA
4454830 ATCTGTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
22 2 0.07
23 15 0.50
24 13 0.43
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
AAAATTTAATAAAAATATTTTTA
Found at i:4455068 original size:13 final size:13
Alignment explanation
Indices: 4455050--4455076 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4455040 TTAATCTATC
4455050 AATTTTAATTTTT
1 AATTTTAATTTTT
4455063 AATTTTAATTTTT
1 AATTTTAATTTTT
4455076 A
1 A
4455077 TTTAATCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
AATTTTAATTTTT
Found at i:4460316 original size:25 final size:25
Alignment explanation
Indices: 4460288--4460350 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 25
4460278 AATTTTTTAT
*
4460288 TAATTTTTTTTAATCACAATTATAA
1 TAATTTTTTTTAATCACAATTAGAA
* *
4460313 TAA-TTTTTTTAATCATAGTTAGAA
1 TAATTTTTTTTAATCACAATTAGAA
*
4460337 TAATTTTTATTAAT
1 TAATTTTTTTTAAT
4460351 ATTTTTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 21 0.64
25 12 0.36
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (25 bp):
TAATTTTTTTTAATCACAATTAGAA
Found at i:4462238 original size:84 final size:83
Alignment explanation
Indices: 4462016--4462239 Score: 234
Period size: 84 Copynumber: 2.7 Consensus size: 83
4462006 GAGATGTGGG
* * * * *
4462016 TGATGGGAGGCTAGCGGAGTCGTTGCAGAAGCCTAGGAGGGTGGCTAATGGAGAAGAAGATAGAG
1 TGATGGGACGCTGGCGGAGTCGTTGCAGAAG-CTAGGAGGGTGGCCAATGGAGATGAAGATAAAG
* *
4462081 GTATTAGAGGAAATGTAGA
65 GTAGTAGAGGAAATGCAGA
* * * * * * *
4462100 TGAAGCGACACTGGCGGAGTCATTGCAAAAGCTGAGGAGGTTGGCCAATGGAGATGAAGGTAAAG
1 TGATGGGACGCTGGCGGAGTCGTTGCAGAAGCT-AGGAGGGTGGCCAATGGAGATGAAGATAAAG
* *
4462165 GT-GTAGGAGGAAATGCGGC
65 GTAGTA-GAGGAAATGCAGA
* * *
4462184 TGATGGGACGCTGGCAGAGTCGTTGCAGAAGTTAAGGAGGGGGGCCAATGGAGATG
1 TGATGGGACGCTGGCGGAGTCGTTGCAGAAGCT-AGGAGGGTGGCCAATGGAGATG
4462240 CAAATGGGAG
Statistics
Matches: 112, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
83 4 0.04
84 108 0.96
ACGTcount: A:0.30, C:0.11, G:0.41, T:0.18
Consensus pattern (83 bp):
TGATGGGACGCTGGCGGAGTCGTTGCAGAAGCTAGGAGGGTGGCCAATGGAGATGAAGATAAAGG
TAGTAGAGGAAATGCAGA
Found at i:4463323 original size:21 final size:21
Alignment explanation
Indices: 4463299--4463352 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
4463289 TTTGAATATC
4463299 TAAAACTTTTTTTAT-ATATTT
1 TAAAACTTTTTTTATGAT-TTT
**
4463320 TAAAGTTATTTTTTATGATTTT
1 TAAAACT-TTTTTTATGATTTT
*
4463342 TATAACTTTTT
1 TAAAACTTTTT
4463353 GACATTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
21 9 0.35
22 15 0.58
23 2 0.08
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.63
Consensus pattern (21 bp):
TAAAACTTTTTTTATGATTTT
Found at i:4464468 original size:8 final size:8
Alignment explanation
Indices: 4464457--4464514 Score: 50
Period size: 8 Copynumber: 7.6 Consensus size: 8
4464447 ATTAAAATTG
4464457 AAAAATAT
1 AAAAATAT
*
4464465 AAAAAAAT
1 AAAAATAT
*
4464473 ACAAA-A-
1 AAAAATAT
*
4464479 AAAAA-AG
1 AAAAATAT
* *
4464486 AAAAAGAG
1 AAAAATAT
4464494 AAAAATAT
1 AAAAATAT
4464502 AAAAATAT
1 AAAAATAT
4464510 AAAAA
1 AAAAA
4464515 CGAAAAAACA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
6 5 0.12
7 6 0.14
8 32 0.74
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.12
Consensus pattern (8 bp):
AAAAATAT
Found at i:4474564 original size:2 final size:2
Alignment explanation
Indices: 4474557--4474593 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4474547 TAATAAATCC
4474557 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4474594 TGTCTAAAAG
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4476300 original size:20 final size:21
Alignment explanation
Indices: 4476275--4476317 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
4476265 TTTACAACAG
4476275 AAAAAAAT-TATATAA-CAAGC
1 AAAAAAATGTA-ATAATCAAGC
4476295 AAAAAAATGTAATAATCAAGC
1 AAAAAAATGTAATAATCAAGC
4476316 AA
1 AA
4476318 GTTTTAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.65, C:0.09, G:0.07, T:0.19
Consensus pattern (21 bp):
AAAAAAATGTAATAATCAAGC
Found at i:4476469 original size:49 final size:49
Alignment explanation
Indices: 4476372--4476469 Score: 110
Period size: 49 Copynumber: 2.0 Consensus size: 49
4476362 ACAATTCCAA
* * *** *
4476372 ATAACTAAATCATAACAAATAAATTTGAATCAAATAAATCCTATAAATC
1 ATAACTAAATCATAACAAATAAATCTAAATCAAATAAATAAAACAAATC
4476421 ATAACTAAATCATAACAAATAAGA-CTAAATCAAAT-AATAAAAACAAATC
1 ATAACTAAATCATAACAAATAA-ATCTAAATCAAATAAAT-AAAACAAATC
4476470 CCTAAAAATC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
48 3 0.07
49 37 0.90
50 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.02, T:0.24
Consensus pattern (49 bp):
ATAACTAAATCATAACAAATAAATCTAAATCAAATAAATAAAACAAATC
Found at i:4477183 original size:23 final size:23
Alignment explanation
Indices: 4477154--4477202 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
4477144 ATGAACAATA
4477154 TATATAAT-TAAAGTACAAAA-ATT
1 TATATAATATAAA-TA-AAAACATT
4477177 TATATAATATAAATAAAAACATT
1 TATATAATATAAATAAAAACATT
4477200 TAT
1 TAT
4477203 CCATAATTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.17
23 16 0.67
24 4 0.17
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (23 bp):
TATATAATATAAATAAAAACATT
Found at i:4478858 original size:21 final size:22
Alignment explanation
Indices: 4478828--4478879 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
4478818 GATATTTTTA
4478828 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
4478848 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
4478870 AATATTTTAT
1 AATATTTTAT
4478880 TAATTTCAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:4479324 original size:16 final size:15
Alignment explanation
Indices: 4479305--4479354 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
4479295 ATTAATTTTA
4479305 ATAAAATATATTTAAT
1 ATAAAATAT-TTTAAT
*
4479321 ATAAAAT-TTTTATT
1 ATAAAATATTTTAAT
*
4479335 AAAAAATATTTTAATT
1 ATAAAATATTTTAA-T
4479351 ATAA
1 ATAA
4479355 TTATAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 11 0.39
15 6 0.21
16 11 0.39
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATAAAATATTTTAAT
Found at i:4479372 original size:21 final size:20
Alignment explanation
Indices: 4479313--4479373 Score: 62
Period size: 16 Copynumber: 3.3 Consensus size: 20
4479303 TAATAAAATA
4479313 TATT-TAATATAA-AATTTT
1 TATTATAATATAATAATTTT
4479331 TATTA-AA-A-AAT-ATTTT
1 TATTATAATATAATAATTTT
*
4479347 AATTATAATTATAATAATTTT
1 TATTATAA-TATAATAATTTT
4479368 TATTAT
1 TATTAT
4479374 TTTTTAATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
16 11 0.32
17 3 0.09
18 6 0.18
19 1 0.03
20 3 0.09
21 10 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TATTATAATATAATAATTTT
Found at i:4492844 original size:2 final size:2
Alignment explanation
Indices: 4492837--4492874 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4492827 TTATCATCTC
4492837 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4492875 TATCTTCCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4501927 original size:9 final size:8
Alignment explanation
Indices: 4501915--4501947 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
4501905 TTATTTTTTT
4501915 AAAATATA
1 AAAATATA
4501923 AAAA-ATA
1 AAAATATA
4501930 TAAAATATA
1 -AAAATATA
4501939 AAAATATA
1 AAAATATA
4501947 A
1 A
4501948 CTTAATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 3 0.13
8 17 0.74
9 3 0.13
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAATATA
Found at i:4501935 original size:16 final size:15
Alignment explanation
Indices: 4501914--4501947 Score: 59
Period size: 15 Copynumber: 2.2 Consensus size: 15
4501904 TTTATTTTTT
4501914 TAAAATATAAAAAATA
1 TAAAATAT-AAAAATA
4501930 TAAAATATAAAAATA
1 TAAAATATAAAAATA
4501945 TAA
1 TAA
4501948 CTTAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAATATAAAAATA
Found at i:4502185 original size:16 final size:17
Alignment explanation
Indices: 4502164--4502195 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4502154 ATATTAAAAA
4502164 AATTAAT-AAACAAATC
1 AATTAATCAAACAAATC
4502180 AATTAATCAAACAAAT
1 AATTAATCAAACAAAT
4502196 AAATAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (17 bp):
AATTAATCAAACAAATC
Found at i:4511237 original size:23 final size:23
Alignment explanation
Indices: 4511203--4511246 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
4511193 AACTGATTGG
4511203 TTAAAATAATTTACAAGCAACCT
1 TTAAAATAATTTACAAGCAACCT
* *
4511226 TTAAAATCATTTTCAAGCAAC
1 TTAAAATAATTTACAAGCAAC
4511247 TAAATAGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (23 bp):
TTAAAATAATTTACAAGCAACCT
Found at i:4514209 original size:2 final size:2
Alignment explanation
Indices: 4514198--4514231 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
4514188 ATTGAGAGTT
4514198 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4514232 AACGATTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4514452 original size:20 final size:21
Alignment explanation
Indices: 4514417--4514456 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
4514407 CCAACCCATA
4514417 TATATATATATTATATTTATT
1 TATATATATATTATATTTATT
*
4514438 TATATA-ATTTTATATTTAT
1 TATATATATATTATATTTAT
4514457 ATTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATATATATATTATATTTATT
Found at i:4518865 original size:108 final size:107
Alignment explanation
Indices: 4518667--4518878 Score: 352
Period size: 108 Copynumber: 2.0 Consensus size: 107
4518657 ATGATCAATT
* * * *
4518667 ATTGATGAAAAGTTCTTCATCGACAAGTAATTGCACAGTCACGGGAAGCAGTTGACTTGGGGTCT
1 ATTGATCAAAAGTTCTTAATCGACAAGTAATTGCACAGTCACGAGAAGCAGTTGACTTGGGGTCA
4518732 TCTTCTACACAAGAACAATAAGCTTGGCCTACCAATAGATAA
66 TCTTCTACACAAGAACAATAAGCTTGGCCTACCAATAGATAA
*
4518774 ATTGATCAAAAGTTCTTAATCGACAAGTAATTGTACAGTCACAGAGAAGCAGTTGACTTGGGGTC
1 ATTGATCAAAAGTTCTTAATCGACAAGTAATTGCACAGTCAC-GAGAAGCAGTTGACTTGGGGTC
* *
4518839 ATCTTCTACACAAGAACAGTATGCTTGGCCTACCAATAGA
65 ATCTTCTACACAAGAACAATAAGCTTGGCCTACCAATAGA
4518879 AAAAGAGTTA
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
107 39 0.40
108 58 0.60
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (107 bp):
ATTGATCAAAAGTTCTTAATCGACAAGTAATTGCACAGTCACGAGAAGCAGTTGACTTGGGGTCA
TCTTCTACACAAGAACAATAAGCTTGGCCTACCAATAGATAA
Found at i:4521078 original size:2 final size:2
Alignment explanation
Indices: 4521060--4521094 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
4521050 ATTAATTCTG
* *
4521060 TA TA TA AA TA TA AA 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 T
4521095 CAAAACTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:4523376 original size:12 final size:12
Alignment explanation
Indices: 4523356--4523407 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
4523346 TGTCAAAATT
*
4523356 AAATCATTAAAA
1 AAATTATTAAAA
4523368 AAATTATTAAAA
1 AAATTATTAAAA
* *
4523380 AAAAT-TTATAA
1 AAATTATTAAAA
*
4523391 AACTTATTTAAAA
1 AAATTA-TTAAAA
4523404 AAAT
1 AAAT
4523408 ATATGACTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
11 8 0.26
12 15 0.48
13 8 0.26
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (12 bp):
AAATTATTAAAA
Found at i:4525258 original size:18 final size:18
Alignment explanation
Indices: 4525237--4525278 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
4525227 ACAGGCCCAA
4525237 CCTCAAGCC-CAGGTGCAG
1 CCTCAA-CCACAGGTGCAG
*
4525255 CCTCAACCACAGGTTCAG
1 CCTCAACCACAGGTGCAG
*
4525273 TCTCAA
1 CCTCAA
4525279 AGTACAGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.26, C:0.38, G:0.19, T:0.17
Consensus pattern (18 bp):
CCTCAACCACAGGTGCAG
Found at i:4534221 original size:16 final size:16
Alignment explanation
Indices: 4534197--4534258 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 16
4534187 TATTTTTTAA
*
4534197 TTATTTAATTATATAT
1 TTATATAATTATATAT
*
4534213 TTATATAATTATATAA
1 TTATATAATTATATAT
*
4534229 TTAAAT-ATT-TATAT
1 TTATATAATTATATAT
*
4534243 TTA-AAAATTA-ATAT
1 TTATATAATTATATAT
4534257 TT
1 TT
4534259 TATTAATTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
13 1 0.03
14 16 0.41
15 3 0.08
16 19 0.49
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATATAATTATATAT
Found at i:4534223 original size:24 final size:24
Alignment explanation
Indices: 4534173--4534242 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
4534163 ATTCTATGAT
* *
4534173 ATTATATAA-AAAATTATTT-TTTA
1 ATTATATAATTAAA-TATTTATATA
* *
4534196 ATTATTTAATTATATATTTATATA
1 ATTATATAATTAAATATTTATATA
4534220 ATTATATAATTAAATATTTATAT
1 ATTATATAATTAAATATTTATAT
4534243 TTAAAAATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
23 13 0.33
24 26 0.67
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
ATTATATAATTAAATATTTATATA
Found at i:4534236 original size:10 final size:8
Alignment explanation
Indices: 4534194--4534242 Score: 62
Period size: 8 Copynumber: 6.1 Consensus size: 8
4534184 AATTATTTTT
*
4534194 TAATTATT
1 TAATTATA
4534202 TAATTATA
1 TAATTATA
*
4534210 TATTTATA
1 TAATTATA
4534218 TAATTATA
1 TAATTATA
*
4534226 TAATTAAA
1 TAATTATA
*
4534234 TATTTATA
1 TAATTATA
4534242 T
1 T
4534243 TTAAAAATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
TAATTATA
Found at i:4534256 original size:14 final size:15
Alignment explanation
Indices: 4534203--4534258 Score: 62
Period size: 14 Copynumber: 3.8 Consensus size: 15
4534193 TTAATTATTT
*
4534203 AATTATATATTTATAT
1 AATTATATATTTA-AA
*
4534219 AATTATATAATTAAA
1 AATTATATATTTAAA
*
4534234 TATT-TATATTTAAA
1 AATTATATATTTAAA
4534248 AATTA-ATATTT
1 AATTATATATTT
4534259 TATTAATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
14 18 0.53
15 4 0.12
16 12 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AATTATATATTTAAA
Found at i:4534359 original size:40 final size:40
Alignment explanation
Indices: 4534301--4534392 Score: 96
Period size: 40 Copynumber: 2.2 Consensus size: 40
4534291 TTTATATAAT
*
4534301 ATTAAATTAAGTTAAATTTGAATATAAAAAATAAAAAAAA
1 ATTAAATTAAGTTAAATTTAAATATAAAAAATAAAAAAAA
* * **
4534341 ATTAAATT-AGATTGAATTTAAATTTAATAAATATAAAATTAA
1 ATTAAATTAAG-TTAAATTTAAATATAA-AAA-ATAAAAAAAA
*
4534383 ATCAAATTAA
1 ATTAAATTAA
4534393 AAAAGAATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
39 2 0.05
40 21 0.50
41 3 0.07
42 15 0.36
43 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (40 bp):
ATTAAATTAAGTTAAATTTAAATATAAAAAATAAAAAAAA
Found at i:4537537 original size:26 final size:26
Alignment explanation
Indices: 4537506--4537557 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
4537496 TTATTTGATT
4537506 GTTTTATGTAAAATTTATTTTTTTCA
1 GTTTTATGTAAAATTTATTTTTTTCA
4537532 GTTTTATGTAAAATTTATTTTTTTCA
1 GTTTTATGTAAAATTTATTTTTTTCA
4537558 AAAAAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.62
Consensus pattern (26 bp):
GTTTTATGTAAAATTTATTTTTTTCA
Found at i:4537631 original size:26 final size:26
Alignment explanation
Indices: 4537576--4537639 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
4537566 TTAATATAAC
*
4537576 TATT-AAA-ATATTAAAATTATTTAT
1 TATTAAAATATATTAAAATTATTAAT
*
4537600 TATTAAAATATATTAAAATTGTTAA-
1 TATTAAAATATATTAAAATTATTAAT
4537625 TATTTAAAATA-ATTA
1 TA-TTAAAATATATTA
4537640 TATTTTAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 4 0.11
25 9 0.26
26 22 0.63
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
TATTAAAATATATTAAAATTATTAAT
Found at i:4537672 original size:18 final size:19
Alignment explanation
Indices: 4537619--4537689 Score: 60
Period size: 19 Copynumber: 3.8 Consensus size: 19
4537609 ATATTAAAAT
4537619 TGTTAATATTTAAAATAAT-
1 TGTTAATA-TTAAAATAATA
* *
4537638 T-AT-ATTTTAATAATAATA
1 TGTTAATATTAA-AATAATA
*
4537656 T-TTGATATTAAAATAATA
1 TGTTAATATTAAAATAATA
*
4537674 TGTTAATATAAAAATA
1 TGTTAATATTAAAATA
4537690 CTTAAAATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
16 4 0.10
17 8 0.19
18 11 0.26
19 19 0.45
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (19 bp):
TGTTAATATTAAAATAATA
Found at i:4537728 original size:23 final size:21
Alignment explanation
Indices: 4537713--4537815 Score: 106
Period size: 23 Copynumber: 4.8 Consensus size: 21
4537703 TATTCATTAT
4537713 TATTTATAATATTTATTAATA
1 TATTTATAATATTTATTAATA
*
4537734 TATTAATATATTATTTATTAATA
1 TATT--TATAATATTTATTAATA
4537757 T-TTTAT--TATTTATTAATA
1 TATTTATAATATTTATTAATA
4537775 TA-TTATAATATTACTTATTAATA
1 TATTTATAATA-T--TTATTAATA
*
4537798 TATTATATATTATTTATT
1 TATT-TATAATATTTATT
4537816 TATAAATAAA
Statistics
Matches: 70, Mismatches: 2, Indels: 19
0.77 0.02 0.21
Matches are distributed among these distances:
18 17 0.24
20 5 0.07
21 5 0.07
22 7 0.10
23 28 0.40
24 2 0.03
25 6 0.09
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTTATAATATTTATTAATA
Found at i:4537742 original size:18 final size:17
Alignment explanation
Indices: 4537709--4537809 Score: 73
Period size: 18 Copynumber: 5.8 Consensus size: 17
4537699 AAATTATTCA
*
4537709 TTATTATTTA-TAATAT
1 TTATTATATATTAATAT
4537725 TTATTAATATATTAATA-
1 TTATT-ATATATTAATAT
*
4537742 -TATTATTTATTAATATT
1 TTATTATATATTAATA-T
*
4537759 TTATTATTTATTAATAT
1 TTATTATATATTAATAT
* *
4537776 ATTATAATATTACTTATTAAT
1 -TTATTATA-TA-TTAAT-AT
*
4537797 ATATTATATATTA
1 TTATTATATATTA
4537810 TTTATTTATA
Statistics
Matches: 69, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
15 10 0.14
16 9 0.13
17 5 0.07
18 29 0.42
19 4 0.06
20 10 0.14
21 2 0.03
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATTATATATTAATAT
Found at i:4537752 original size:15 final size:15
Alignment explanation
Indices: 4537710--4537815 Score: 83
Period size: 15 Copynumber: 6.7 Consensus size: 15
4537700 AATTATTCAT
4537710 TATTATTTA-TAATA
1 TATTATTTATTAATA
*
4537724 TTTATTAATATATTAATA
1 --TATT-ATTTATTAATA
4537742 TATTATTTATTAATA
1 TATTATTTATTAATA
4537757 TTTTATTATTTATTAATA
1 ---TATTATTTATTAATA
* *
4537775 TATTATAATATTACT-
1 TATTAT-TTATTAATA
*
4537790 TATTAATATATT-ATA
1 TATT-ATTTATTAATA
4537805 TATTATTTATT
1 TATTATTTATT
4537816 TATAAATAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
14 7 0.09
15 29 0.38
16 16 0.21
17 4 0.05
18 20 0.26
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (15 bp):
TATTATTTATTAATA
Found at i:4537771 original size:33 final size:32
Alignment explanation
Indices: 4537702--4537814 Score: 126
Period size: 33 Copynumber: 3.6 Consensus size: 32
4537692 TAAAATAAAA
*
4537702 TTATTCAT-TATTATTTATAATATTTATTAAT
1 TTATTAATATATTATTTATAATATTTATTAAT
*
4537733 ATATTAATATATTATTTATTAATATTTTATT-AT
1 TTATTAATATATTATTTA-TAATA-TTTATTAAT
* * *
4537766 TTATTAATATATTA-TAATATTACTTATTAAT
1 TTATTAATATATTATTTATAATATTTATTAAT
*
4537797 ATATT-ATATATTATTTAT
1 TTATTAATATATTATTTAT
4537815 TTATAAATAA
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
30 13 0.19
31 19 0.28
32 11 0.16
33 20 0.29
34 6 0.09
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (32 bp):
TTATTAATATATTATTTATAATATTTATTAAT
Found at i:4537773 original size:41 final size:41
Alignment explanation
Indices: 4537696--4537808 Score: 138
Period size: 41 Copynumber: 2.7 Consensus size: 41
4537686 AATACTTAAA
* * * *
4537696 ATAAAATTATTCATTATTATTTATAATATTTATTAATATATT
1 ATAATATTATTTATTAATATTT-TATTATTTATTAATATATT
4537738 A-ATATATTATTTATTAATATTTTATTATTTATTAATATATT
1 ATA-ATATTATTTATTAATATTTTATTATTTATTAATATATT
* *
4537779 ATAATATTACTTATTAATATATTATATATT
1 ATAATATTATTTATTAATATTTTAT-TATT
4537809 ATTTATTTAT
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
41 40 0.65
42 22 0.35
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (41 bp):
ATAATATTATTTATTAATATTTTATTATTTATTAATATATT
Found at i:4538005 original size:12 final size:13
Alignment explanation
Indices: 4537982--4538006 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4537972 TAAAAATACG
4537982 AAAATTATTTTTA
1 AAAATTATTTTTA
4537995 AAAATTATTTTT
1 AAAATTATTTTT
4538007 CACCAAACAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AAAATTATTTTTA
Found at i:4540672 original size:26 final size:26
Alignment explanation
Indices: 4540623--4540679 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
4540613 TTCTTTGGGA
* *
4540623 ATAGACAAGATGATTAGAAGGTGAGG
1 ATAGACAAGATGATTAGAAAGTGAAG
4540649 ATAGACAAGATGATTCA-AAAGTGAAG
1 ATAGACAAGATGATT-AGAAAGTGAAG
4540675 ATAGA
1 ATAGA
4540680 AACTGAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 27 0.96
27 1 0.04
ACGTcount: A:0.47, C:0.05, G:0.28, T:0.19
Consensus pattern (26 bp):
ATAGACAAGATGATTAGAAAGTGAAG
Found at i:4545350 original size:8 final size:8
Alignment explanation
Indices: 4545337--4545387 Score: 57
Period size: 8 Copynumber: 6.1 Consensus size: 8
4545327 CTTTCCCCAA
4545337 ATATACAT
1 ATATACAT
4545345 ATATACAT
1 ATATACAT
*
4545353 ACATACAT
1 ATATACAT
*
4545361 ACATATATAT
1 --ATATACAT
*
4545371 ATATATAT
1 ATATACAT
4545379 ATATACAT
1 ATATACAT
4545387 A
1 A
4545388 AATAACATAG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
8 31 0.84
10 6 0.16
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (8 bp):
ATATACAT
Found at i:4545356 original size:12 final size:12
Alignment explanation
Indices: 4545339--4545387 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
4545329 TTCCCCAAAT
4545339 ATACATATATAC
1 ATACATATATAC
*
4545351 ATACATACATAC
1 ATACATATATAC
*
4545363 AT--ATATATAT
1 ATACATATATAC
*
4545373 ATATATATATAC
1 ATACATATATAC
4545385 ATA
1 ATA
4545388 AATAACATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
10 8 0.26
12 23 0.74
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (12 bp):
ATACATATATAC
Found at i:4555154 original size:12 final size:12
Alignment explanation
Indices: 4555137--4555161 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4555127 TAATACTTTT
4555137 TTTATTATTTAA
1 TTTATTATTTAA
4555149 TTTATTATTTAA
1 TTTATTATTTAA
4555161 T
1 T
4555162 AATATATATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTATTATTTAA
Found at i:4555611 original size:16 final size:16
Alignment explanation
Indices: 4555587--4555640 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
4555577 TATTTTATAT
* *
4555587 ATATATTTATATAATA
1 ATATTTTTAAATAATA
* *
4555603 ATATTTTTAAATATTT
1 ATATTTTTAAATAATA
*
4555619 ATA-TTTTAAAAAATA
1 ATATTTTTAAATAATA
4555634 ATATTTT
1 ATATTTT
4555641 ATTAATTTCA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
15 12 0.40
16 18 0.60
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATATTTTTAAATAATA
Found at i:4555637 original size:15 final size:15
Alignment explanation
Indices: 4555599--4555641 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
4555589 ATATTTATAT
*
4555599 AATAATATTTTTAAAT
1 AATAATA-TTTTAAAA
* *
4555615 ATTTATATTTTAAAA
1 AATAATATTTTAAAA
4555630 AATAATATTTTA
1 AATAATATTTTA
4555642 TTAATTTCAG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
AATAATATTTTAAAA
Found at i:4558028 original size:11 final size:12
Alignment explanation
Indices: 4558006--4558044 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
4557996 ACTTTCAATT
4558006 TTAAAAAGAATA
1 TTAAAAAGAATA
4558018 TTAAAAA-AATA
1 TTAAAAAGAATA
* *
4558029 CTAAAAAGAAAA
1 TTAAAAAGAATA
4558041 TTAA
1 TTAA
4558045 TGAATAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (12 bp):
TTAAAAAGAATA
Found at i:4559479 original size:25 final size:22
Alignment explanation
Indices: 4559448--4559500 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
4559438 AAAATTTAGA
*
4559448 AAAATTACAAAAACTTTAAAAAAT
1 AAAATTA-AAAAA-TATAAAAAAT
*
4559472 AATAATTAAAAAATATATAAAAT
1 AA-AATTAAAAAATATAAAAAAT
4559495 AAAATT
1 AAAATT
4559501 TTTAAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 4 0.15
23 10 0.38
24 7 0.27
25 5 0.19
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (22 bp):
AAAATTAAAAAATATAAAAAAT
Found at i:4559482 original size:14 final size:15
Alignment explanation
Indices: 4559463--4559491 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4559453 TACAAAAACT
4559463 TTAAAAAATA-ATAA
1 TTAAAAAATATATAA
4559477 TTAAAAAATATATAA
1 TTAAAAAATATATAA
4559492 AATAAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TTAAAAAATATATAA
Found at i:4559714 original size:48 final size:48
Alignment explanation
Indices: 4559662--4559759 Score: 133
Period size: 48 Copynumber: 2.0 Consensus size: 48
4559652 TATTCCAAAG
4559662 ATTAAAAAAAAAAATTTTAAATAGACCCAAATGATGAAAAATTTAGAA
1 ATTAAAAAAAAAAATTTTAAATAGACCCAAATGATGAAAAATTTAGAA
* * * * ** *
4559710 ATTAAAAAGAAAATTTTTAAATTGGCTTAAATGGTGAAAAATTTAGAA
1 ATTAAAAAAAAAAATTTTAAATAGACCCAAATGATGAAAAATTTAGAA
4559758 AT
1 AT
4559760 AAATAATTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.55, C:0.04, G:0.11, T:0.30
Consensus pattern (48 bp):
ATTAAAAAAAAAAATTTTAAATAGACCCAAATGATGAAAAATTTAGAA
Found at i:4560540 original size:19 final size:20
Alignment explanation
Indices: 4560493--4560544 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
4560483 AAAAAACCTA
*
4560493 GAAAATTCTCAGA-TTTCGAT
1 GAAAATTTTCA-ATTTTCGAT
4560513 GAAAATTTTCAATTTTCGAT
1 GAAAATTTTCAATTTTCGAT
*
4560533 G-AACTTTTCAAT
1 GAAAATTTTCAAT
4560545 GCCGATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
GAAAATTTTCAATTTTCGAT
Found at i:4561155 original size:25 final size:25
Alignment explanation
Indices: 4561127--4561175 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
4561117 ATAATTATCC
4561127 AATTATAAAATTTTTA-AAAATTTCA
1 AATTAT-AAATTTTTATAAAATTTCA
*
4561152 AATTGTAAATTTTTATAAAATTTC
1 AATTATAAATTTTTATAAAATTTC
4561176 TAGATGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (25 bp):
AATTATAAATTTTTATAAAATTTCA
Found at i:4561604 original size:53 final size:53
Alignment explanation
Indices: 4561506--4561609 Score: 127
Period size: 53 Copynumber: 2.0 Consensus size: 53
4561496 AAAATTTTTT
* * * ****
4561506 TTTCTAAATAGGCCCAAATGGTTAAAAATTTAGAAATTTCGAAAAAGAAAATA
1 TTTCTAAATAGACCCAAATAGTGAAAAATTTAGAAATAAAAAAAAAGAAAATA
* *
4561559 TTTCTAAATTGACCCAAATAGTGAAAAATTTAGAAATAAAAAAAAATAAAA
1 TTTCTAAATAGACCCAAATAGTGAAAAATTTAGAAATAAAAAAAAAGAAAA
4561610 AAAAATTTTA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
53 42 1.00
ACGTcount: A:0.54, C:0.09, G:0.11, T:0.27
Consensus pattern (53 bp):
TTTCTAAATAGACCCAAATAGTGAAAAATTTAGAAATAAAAAAAAAGAAAATA
Found at i:4561657 original size:55 final size:58
Alignment explanation
Indices: 4561548--4561661 Score: 135
Period size: 55 Copynumber: 2.0 Consensus size: 58
4561538 GAAATTTCGA
* *
4561548 AAAAGAAAATATTTCTAAATTGACCCAAATAGTGAAAAATTTAGAAATAAAAAAAAAT
1 AAAAGAAAATATTTCTAAATAGACCCAAATAGTGAAAAATTTAAAAATAAAAAAAAAT
* * * *
4561606 AAAA-AAAA-ATTT-TAAATAGGCCCAAATGGTGGAGAATTTAAAAATTCAAAAAAAAA
1 AAAAGAAAATATTTCTAAATAGACCCAAATAGTGAAAAATTTAAAAA-T-AAAAAAAAA
4561662 ATTTATAATC
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
55 26 0.54
56 5 0.10
57 13 0.27
58 4 0.08
ACGTcount: A:0.60, C:0.07, G:0.11, T:0.23
Consensus pattern (58 bp):
AAAAGAAAATATTTCTAAATAGACCCAAATAGTGAAAAATTTAAAAATAAAAAAAAAT
Found at i:4566760 original size:21 final size:21
Alignment explanation
Indices: 4566736--4566798 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
4566726 TCTTTGGATG
4566736 AAGTTTTAAATAAGAATCTTT
1 AAGTTTTAAATAAGAATCTTT
* * * *
4566757 AAGTCTCAAATGAGAATTTTT
1 AAGTTTTAAATAAGAATCTTT
*
4566778 TAGTTTTAAATAAGAATCTTT
1 AAGTTTTAAATAAGAATCTTT
4566799 GAGATGTAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (21 bp):
AAGTTTTAAATAAGAATCTTT
Found at i:4567307 original size:41 final size:41
Alignment explanation
Indices: 4567250--4567587 Score: 337
Period size: 41 Copynumber: 8.3 Consensus size: 41
4567240 GAGTTTTGAG
4567250 GAGCCTTTTATTTTTCAAAATCGTT-ATGCCTCTATTTAGAA
1 GAGCCTTTTATTTTTCAAAATCGTTGA-GCCTCTATTTAGAA
* ** *
4567291 GAGCCTTTTATTTTTCAAAGTTATT-ATGCCTCTATTTAGAG
1 GAGCCTTTTATTTTTCAAAATCGTTGA-GCCTCTATTTAGAA
* * * * * *
4567332 GAGTCTTTTATTTTTTAAAATTGTTGTGCCTTTATTTAGAG
1 GAGCCTTTTATTTTTCAAAATCGTTGAGCCTCTATTTAGAA
* * *
4567373 GAGCTTTTTATTTTTCAAAATCGTTGAACCTCTATTTAGAT
1 GAGCCTTTTATTTTTCAAAATCGTTGAGCCTCTATTTAGAA
* * * * * *
4567414 GAG--TTTTTTTTTTCAAAGTCATTGAGCCTTTGTTTAAAA
1 GAGCCTTTTATTTTTCAAAATCGTTGAGCCTCTATTTAGAA
* *
4567453 GAGCCTTTTATTTTTCAAAATTGTTGAGCCTCTAATTA-AA
1 GAGCCTTTTATTTTTCAAAATCGTTGAGCCTCTATTTAGAA
* *
4567493 TGAGCCTTTTATTTTTCAAAGTCGTTGAGCCTTTATTTAGAA
1 -GAGCCTTTTATTTTTCAAAATCGTTGAGCCTCTATTTAGAA
* * ** * * *
4567535 GAACCTTTTA-TTTTCAAAGTAATTGAGTCTTTATTTAGAT
1 GAGCCTTTTATTTTTCAAAATCGTTGAGCCTCTATTTAGAA
4567575 GAGCCTTTTATTT
1 GAGCCTTTTATTT
4567588 ATTTTTTCAA
Statistics
Matches: 248, Mismatches: 43, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
39 31 0.12
40 37 0.15
41 178 0.72
42 2 0.01
ACGTcount: A:0.26, C:0.13, G:0.14, T:0.47
Consensus pattern (41 bp):
GAGCCTTTTATTTTTCAAAATCGTTGAGCCTCTATTTAGAA
Found at i:4567384 original size:82 final size:82
Alignment explanation
Indices: 4567250--4567587 Score: 389
Period size: 82 Copynumber: 4.2 Consensus size: 82
4567240 GAGTTTTGAG
* *
4567250 GAGCCTTTTATTTTTCAAAATCGTT-ATGCCTCTATTTAGAAGAGCCTTTTATTTTTCAAAGTTA
1 GAGCCTTTTATTTTTCAAAATCGTTGA-GCCTTTATTTAGAAGAGCCTTTTATTTTTCAAAATTA
*
4567314 TT-ATGCCTCTATTTAGAG
65 TTGA-GCCTCTATTTAGAT
* * * * * * **
4567332 GAGTCTTTTATTTTTTAAAATTGTTGTGCCTTTATTTAGAGGAGCTTTTTATTTTTCAAAATCGT
1 GAGCCTTTTATTTTTCAAAATCGTTGAGCCTTTATTTAGAAGAGCCTTTTATTTTTCAAAATTAT
*
4567397 TGAACCTCTATTTAGAT
66 TGAGCCTCTATTTAGAT
* * * * * *
4567414 GAG--TTTTTTTTTTCAAAGTCATTGAGCCTTTGTTTAAAAGAGCCTTTTATTTTTCAAAATTGT
1 GAGCCTTTTATTTTTCAAAATCGTTGAGCCTTTATTTAGAAGAGCCTTTTATTTTTCAAAATTAT
* *
4567477 TGAGCCTCTAATTAAAT
66 TGAGCCTCTATTTAGAT
* * * *
4567494 GAGCCTTTTATTTTTCAAAGTCGTTGAGCCTTTATTTAGAAGAACCTTTTA-TTTTCAAAGTAAT
1 GAGCCTTTTATTTTTCAAAATCGTTGAGCCTTTATTTAGAAGAGCCTTTTATTTTTCAAAATTAT
* *
4567558 TGAGTCTTTATTTAGAT
66 TGAGCCTCTATTTAGAT
4567575 GAGCCTTTTATTT
1 GAGCCTTTTATTT
4567588 ATTTTTTCAA
Statistics
Matches: 214, Mismatches: 38, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
80 66 0.31
81 36 0.17
82 111 0.52
83 1 0.00
ACGTcount: A:0.26, C:0.13, G:0.14, T:0.47
Consensus pattern (82 bp):
GAGCCTTTTATTTTTCAAAATCGTTGAGCCTTTATTTAGAAGAGCCTTTTATTTTTCAAAATTAT
TGAGCCTCTATTTAGAT
Found at i:4567959 original size:6 final size:6
Alignment explanation
Indices: 4567939--4568000 Score: 51
Period size: 6 Copynumber: 10.7 Consensus size: 6
4567929 ATTTATGGGC
* * *
4567939 TTTATT TTT-TAT TTTATT TTTATT CTTATT TTTATG TTGATCT TTTA--
1 TTTATT TTTAT-T TTTATT TTTATT TTTATT TTTATT TTTAT-T TTTATT
4567986 TTTA-T TTTATT TTTA
1 TTTATT TTTATT TTTA
4568001 GTTGATAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
4 4 0.09
5 5 0.11
6 32 0.71
7 4 0.09
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:4568913 original size:13 final size:13
Alignment explanation
Indices: 4568875--4568916 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
4568865 TATTTTTTGA
4568875 TTTTTTTTAGTA-
1 TTTTTTTTAGTAT
**
4568887 TTTCATTTATGTAT
1 TTTTTTTTA-GTAT
4568901 TTTTTTTTAGTAT
1 TTTTTTTTAGTAT
4568914 TTT
1 TTT
4568917 GCATGATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 7 0.29
13 10 0.42
14 7 0.29
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.74
Consensus pattern (13 bp):
TTTTTTTTAGTAT
Found at i:4569161 original size:18 final size:18
Alignment explanation
Indices: 4569123--4569163 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4569113 ATTTTCAAAC
* **
4569123 AAAAAAATTAAAAAACCT
1 AAAAAAATAAAAAAAAAT
4569141 AAAAAAATAAAAAAAAAT
1 AAAAAAATAAAAAAAAAT
4569159 AAAAA
1 AAAAA
4569164 GTTTTAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.83, C:0.05, G:0.00, T:0.12
Consensus pattern (18 bp):
AAAAAAATAAAAAAAAAT
Found at i:4574561 original size:21 final size:22
Alignment explanation
Indices: 4574509--4574570 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
4574499 TCGGATCCGA
*
4574509 TTTAAAATTAATAAAATATTATT
1 TTTAAAAAT-ATAAAATATTATT
4574532 TTTAAAAATATAAAATATTATT
1 TTTAAAAATATAAAATATTATT
*
4574554 TTT-TAAATAT-AAATATT
1 TTTAAAAATATAAAATATT
4574571 TAAAAATATC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 7 0.19
21 6 0.16
22 16 0.43
23 8 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTAAAAATATAAAATATTATT
Found at i:4576727 original size:23 final size:23
Alignment explanation
Indices: 4576697--4576740 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
4576687 TTACTGTAAG
*
4576697 CTCATAAA-AAGTAATTCTCTTGA
1 CTCATAAATAA-TAATACTCTTGA
4576720 CTCATAAATAATAATACTCTT
1 CTCATAAATAATAATACTCTT
4576741 TATTTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (23 bp):
CTCATAAATAATAATACTCTTGA
Found at i:4576940 original size:14 final size:15
Alignment explanation
Indices: 4576907--4576946 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
4576897 TATCATATAA
*
4576907 ATAAATTTTTTAAAT
1 ATAAATATTTTAAAT
*
4576922 ATAAATATTTT-ACT
1 ATAAATATTTTAAAT
4576936 ATAAATATTTT
1 ATAAATATTTT
4576947 TTTAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
ATAAATATTTTAAAT
Found at i:4586863 original size:31 final size:31
Alignment explanation
Indices: 4586823--4586884 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
4586813 CACTTGTTAA
*
4586823 AGATTATCATAGCTTTGATATTATTTATTAG
1 AGATCATCATAGCTTTGATATTATTTATTAG
* *
4586854 AGATCATCATAGTTTTGATATTATTTGTTAG
1 AGATCATCATAGCTTTGATATTATTTATTAG
4586885 GTAAAAACCC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (31 bp):
AGATCATCATAGCTTTGATATTATTTATTAG
Found at i:4588152 original size:8 final size:8
Alignment explanation
Indices: 4588139--4588166 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
4588129 TTAATTATTT
4588139 TTATATAA
1 TTATATAA
4588147 TTATATAA
1 TTATATAA
4588155 TTATATAA
1 TTATATAA
4588163 TTAT
1 TTAT
4588167 GCTTCTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TTATATAA
Found at i:4588670 original size:18 final size:20
Alignment explanation
Indices: 4588647--4588689 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
4588637 ATGTATAATA
4588647 TAAATTT-T-TAATTTTTAT
1 TAAATTTATATAATTTTTAT
4588665 TAAATTTAATATAATTTTTAT
1 TAAATTT-ATATAATTTTTAT
4588686 TAAA
1 TAAA
4588690 ATATTAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.32
20 1 0.05
21 14 0.64
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TAAATTTATATAATTTTTAT
Found at i:4589372 original size:362 final size:360
Alignment explanation
Indices: 4588665--4589387 Score: 1374
Period size: 362 Copynumber: 2.0 Consensus size: 360
4588655 TAATTTTTAT
*
4588665 TAAATTTAATATAATTTTTATTAAAATATTAAATATATCTCTTAATATTTTTTTGCATTGTATCA
1 TAAATTTAATATAATTTTTATTAAAATATTAAATATATCTCTCAATATTTTTTTGCATTGTATCA
4588730 TAGACTTGATGATTCATGTATTAATATTATATAAAACACTTAAATTCATACATTTATATTTTATT
66 TAGACTTGATGATTCATGTATTAATATTATATAAAACACTTAAATTCATACATTTATATTTTATT
4588795 TCATACAAAAATTACGTATCATAATTTATATTGACATAAAAATATAAAATATATTTTTTTGTTTT
131 TCATACAAAAATTACGTATCATAATTTATATTGACATAAAAATATAAAATATATTTTTTTGTTTT
*
4588860 GTTAAATCTATATATAATTACTATTAAAATTTTAATTCTTGTTATTTCATATTTTATTTTTGTAT
196 GTTAAATCTATATATAATTACTATTAAAATTTTAATTCTTGTTATTTCATATTTTATTTTTATAT
4588925 CATATTAATATCATGTCACTATGTTATGTTTTAAATTGATAGATTTATATTTAATATTGAAAAAT
261 CATATTAATATCATGTCACTATGTTATGTTTTAAATTGATAGATTTATATTTAATATTGAAAAAT
4588990 AATACAAATACTCAACAAAGATAATACAATTATAC
326 AATACAAATACTCAACAAAGATAATACAATTATAC
* *
4589025 TAAATTTAATATAATTTTTATTAAAATTTTAAATTATATTTCTCAATATTTTTTTGCATTGTATC
1 TAAATTTAATATAATTTTTATTAAAATATTAAA-TATATCTCTCAATATTTTTTTGCATTGTATC
*
4589090 ATAGACTTGATGATTCATGTATTAATATTATATAAAACACTTAAATTCATATATTTATATTTTAT
65 ATAGACTTGATGATTCATGTATTAATATTATATAAAACACTTAAATTCATACATTTATATTTTAT
4589155 TTCATACAAAAATTACGTATCATAATTTATATTGACATAAAAATATAAAATATATATTTTTTGTT
130 TTCATACAAAAATTACGTATCATAATTTATATTGACATAAAAATATAAAATATAT-TTTTTTGTT
4589220 TTGTTAAATCTATATATAATTACTATTAAAATTTTAATTCTTGTTATTTCATATTTTATTTTTAT
194 TTGTTAAATCTATATATAATTACTATTAAAATTTTAATTCTTGTTATTTCATATTTTATTTTTAT
*
4589285 ATCATATTAATATCATGTCATTATGTTATGTTTTAAATTGATAGATTTATATTTAATATTGAAAA
259 ATCATATTAATATCATGTCACTATGTTATGTTTTAAATTGATAGATTTATATTTAATATTGAAAA
4589350 ATAATACAAATACTCAACAAAGATAATACAATTATAC
324 ATAATACAAATACTCAACAAAGATAATACAATTATAC
4589387 T
1 T
4589388 TACAGACCAT
Statistics
Matches: 355, Mismatches: 6, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
360 32 0.09
361 148 0.42
362 175 0.49
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (360 bp):
TAAATTTAATATAATTTTTATTAAAATATTAAATATATCTCTCAATATTTTTTTGCATTGTATCA
TAGACTTGATGATTCATGTATTAATATTATATAAAACACTTAAATTCATACATTTATATTTTATT
TCATACAAAAATTACGTATCATAATTTATATTGACATAAAAATATAAAATATATTTTTTTGTTTT
GTTAAATCTATATATAATTACTATTAAAATTTTAATTCTTGTTATTTCATATTTTATTTTTATAT
CATATTAATATCATGTCACTATGTTATGTTTTAAATTGATAGATTTATATTTAATATTGAAAAAT
AATACAAATACTCAACAAAGATAATACAATTATAC
Found at i:4621462 original size:43 final size:43
Alignment explanation
Indices: 4621414--4621501 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
4621404 CATTTTCATA
*
4621414 TAAGTAAGAAATCTTGTATGGTGACTAAGGAAGAGCAACTAAC
1 TAAGTAAGAAATCTTATATGGTGACTAAGGAAGAGCAACTAAC
*
4621457 TAAGTAAGAAATCTTATCTGGTGACTAAGGAAGAGCAACTAAC
1 TAAGTAAGAAATCTTATATGGTGACTAAGGAAGAGCAACTAAC
4621500 TA
1 TA
4621502 TGTCTAGTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.24
Consensus pattern (43 bp):
TAAGTAAGAAATCTTATATGGTGACTAAGGAAGAGCAACTAAC
Found at i:4630664 original size:11 final size:11
Alignment explanation
Indices: 4630650--4630675 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4630640 AATTATTTTT
4630650 ATTTTTAATTA
1 ATTTTTAATTA
4630661 ATTTTTAATTA
1 ATTTTTAATTA
4630672 ATTT
1 ATTT
4630676 AAAATTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTTTTAATTA
Found at i:4631154 original size:20 final size:19
Alignment explanation
Indices: 4631129--4631171 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 19
4631119 AAAAATCAAA
4631129 TTATATAT-TTTTATTAATTT
1 TTATATATATTTTA--AATTT
4631149 TTATATATATTTTAAATTT
1 TTATATATATTTTAAATTT
4631168 TTAT
1 TTAT
4631172 CAAAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.41
20 8 0.36
21 5 0.23
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATATATATTTTAAATTT
Found at i:4631221 original size:20 final size:23
Alignment explanation
Indices: 4631190--4631247 Score: 75
Period size: 21 Copynumber: 2.6 Consensus size: 23
4631180 ATAATTATTT
* *
4631190 TATATCAAAATTTATTTAAATAA
1 TATATAAAAATTTATTAAAATAA
*
4631213 -AT-TAAAATTTTATTAAAATAA
1 TATATAAAAATTTATTAAAATAA
4631234 TATATAAAAATTTA
1 TATATAAAAATTTA
4631248 AATTTTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 16 0.55
22 4 0.14
23 9 0.31
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TATATAAAAATTTATTAAAATAA
Found at i:4633105 original size:14 final size:14
Alignment explanation
Indices: 4633065--4633105 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
4633055 ATCAATTTCA
*
4633065 ATTAAATTTATTCGT
1 ATTAAATTTATT-TT
4633080 A-TAAATTT-TTTT
1 ATTAAATTTATTTT
4633092 ATTAAATTTATTTT
1 ATTAAATTTATTTT
4633106 TAATTGCGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
12 2 0.09
13 9 0.39
14 11 0.48
15 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (14 bp):
ATTAAATTTATTTT
Found at i:4639201 original size:1 final size:1
Alignment explanation
Indices: 4639197--4639223 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
4639187 TTTAGTGGTG
4639197 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
4639224 ACGTTTAGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4647199 original size:61 final size:62
Alignment explanation
Indices: 4647083--4647201 Score: 156
Period size: 61 Copynumber: 1.9 Consensus size: 62
4647073 AAACACCTTT
* * *
4647083 AATAATTTTTTTGTAAAAATTTTTTGGGATTATTAAAGATGTTTTCGGTACAAAACGCATTC
1 AATAATTTTTTTGTAAAAATTTTTTGGGATTATTAAAGATCTTTTCAGTAAAAAACGCATTC
4647145 AATAATTTTTTCT-T-AAAATTTTTT-GGATTATTAAAGGCATCTTTT-AGTAAAAAACGC
1 AATAATTTTTT-TGTAAAAATTTTTTGGGATTATTAAA-G-ATCTTTTCAGTAAAAAACGC
4647202 CTTTAATTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
60 11 0.22
61 21 0.41
62 18 0.35
63 1 0.02
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.44
Consensus pattern (62 bp):
AATAATTTTTTTGTAAAAATTTTTTGGGATTATTAAAGATCTTTTCAGTAAAAAACGCATTC
Found at i:4647471 original size:185 final size:185
Alignment explanation
Indices: 4647135--4648950 Score: 1564
Period size: 186 Copynumber: 9.9 Consensus size: 185
4647125 TTTCGGTACA
* * * *
4647135 AAACGCATTCAATAATTTTTTCTTAAAATTTTTTG-GATTATTAAAGGCATCTTTTAGTAAAAAA
1 AAACGCCTTCAATAA--TTTTCTTAAAATTTTTTGAGATTATTAAAGGCGTCTTCTAGTGAAAAA
* * * *
4647199 CGCCTTTAATTTTTTACAACTCAAATTTTAA-ACGATTAGTGAAGGCGTTTATTCTAGAAAAATG
64 CGCCTTCAATTTTTCACAACTCAAATTTTAAGACGTTTAGTGAAGGCGTTTATTCTAGAAAAATA
* * * * *
4647263 CCTTTACTAATTCCTTCTAATTTACGTATATAATTATTGAAGGCGTTTTTTTAGAAC
129 CCTTCACTAATTTCTTCTAATTTACGTACATAATTATTGAAGGCATTTTTTGAGAAC
* * *
4647320 AAACACCTTTAATAATTTGT-TTAAAATTTTTTTTG-GA-TATTAAAGACGTCTTCTAGTGAAAA
1 AAACGCCTTCAATAATTT-TCTTAAAA--TTTTTTGAGATTATTAAAGGCGTCTTCTAGTGAAAA
* * * **
4647382 ACGCATTCAATATTCCACAACTCAAATTTTAAGACGTTTAGCAAAGGCGTTTATTCTAGAAAAAT
63 ACGCCTTCAATTTTTCACAACTCAAATTTTAAGACGTTTAGTGAAGGCGTTTATTCTAGAAAAAT
* * * * *
4647447 ACCTTTATTAATTTC-TCATAATTTACGTACATAATTTTTGAAGGCGTTTTATGAGAAC
128 ACCTTCACTAATTTCTTC-TAATTTACGTACATAATTATTGAAGGCATTTTTTGAGAAC
* * * * *
4647505 AAATGCTTTCAATAATTTTTTCTTAAAA-TTTTTAAGATTATTAAAGGTGTCTT-TCAATGAAAA
1 AAACGCCTTCAATAA--TTTTCTTAAAATTTTTTGAGATTATTAAAGGCGTCTTCT-AGTGAAAA
* * * * * *
4647568 ATGCCTTCAA-TTTTCACAAATCAAATTTTAAGATGGTTAGTAAAGGCGTTTATTCTAAAAAAAT
63 ACGCCTTCAATTTTTCACAACTCAAATTTTAAGACGTTTAGTGAAGGCGTTTATTCTAGAAAAAT
* * * *
4647632 ACCTTCACTAATTT-TTCTTAATTTACATACATAATTATTAAAGGCATTTTATGAGAAT
128 ACCTTCACTAATTTCTTC-TAATTTACGTACATAATTATTGAAGGCATTTTTTGAGAAC
** * *
4647690 AAACGCCTTCAATAATTTT-TTTTAA-TTTTTGAGATTATTAAAGGCAT-TTTTCAGTG-AAAAC
1 AAACGCCTTCAATAATTTTCTTAAAATTTTTTGAGATTATTAAAGGCGTCTTCT-AGTGAAAAAC
* *
4647751 TGCCTTCAATTTTTCACAACTCAAATTTTAAGACATTTAGTGAAGGCGTTTATTCTAGAAAAACA
65 -GCCTTCAATTTTTCACAACTCAAATTTTAAGACGTTTAGTGAAGGCGTTTATTCTAGAAAAATA
** ** * * **
4647816 TATTCACTAA-TTCTTTCTAATTTATATACATAATTTTTTTAA-AAATTTTTTTGAG-A-
129 CCTTCACTAATTTC-TTCTAATTTACGTACATAA-TTATTGAAGGCA-TTTTTTGAGAAC
** ** * *** * * * * *
4647872 TTA----TT-AA-AGGTGT-TT----TTCAGTGA-A--A--AACGCCTTCAATACT-G-AAAAAC
1 AAACGCCTTCAATAATTTTCTTAAAATTTTTTGAGATTATTAAAGGCGTC--TTCTAGTGAAAA-
* * ** * * * *
4647919 GC-CTTCA-ATTGTTCACAACTCAAATTTTAAGATGTTTAATGAAGGCGTTTATTCTAGAAAAAC
63 ACGCCTTCAATTTTTCACAACTCAAATTTTAAGACGTTTAGTGAAGGCGTTTATTCTAGAAAAAT
* * * * * *
4647982 ACATTCACTAATTTC-TCATAATTTATGTACTTAATTATTGAAAGCGTTTTATGAGAAC
128 ACCTTCACTAATTTCTTC-TAATTTACGTACATAATTATTGAAGGCATTTTTTGAGAAC
* * * *
4648040 AAATGCCTTCAATAATTTTCTCCTAAAA-TTTTTGAGATTATTAAAAGCGTCTTCCAATGAAAAA
1 AAACGCCTTCAATAATTTTCT--TAAAATTTTTTGAGATTATTAAAGGCGTCTTCTAGTGAAAAA
* * * * * * * * *
4648104 CACTTTCAATTTTTTATAACTC--A--CTAAGACATTTAGTAAAGGCATTTATTCTAGAAAAACA
64 CGCCTTCAATTTTTCACAACTCAAATTTTAAGACGTTTAGTGAAGGCGTTTATTCTAGAAAAATA
* * *
4648165 CCTTCATTAATTTCTTCTAATTTACGTACATAATTATTGAAGGCGTTTTTTAAGAAC
129 CCTTCACTAATTTCTTCTAATTTACGTACATAATTATTGAAGGCATTTTTTGAGAAC
* * * * * *
4648222 AAATGCCATCAATAATTTCTTCTTAAAATTTTTAGA-ATTATTAAAGGCGTATTCCAATGAAAAA
1 AAACGCCTTCAATAA-TT-TTCTTAAAATTTTTTGAGATTATTAAAGGCGTCTTCTAGTGAAAAA
* * * * * * *
4648286 TGCCTTTAATTTTTCACAACTCAAATTTTAAGATGTTTTGTGAAGGCATTTATTTTAGAAAAACA
64 CGCCTTCAATTTTTCACAACTCAAATTTTAAGACGTTTAGTGAAGGCGTTTATTCTAGAAAAATA
* *
4648351 CTTTCACTAA-TTCTTCATAATTTACGTACATAATTATTGAAGGCATTTTATGAGAAC
129 CCTTCACTAATTTCTTC-TAATTTACGTACATAATTATTGAAGGCATTTTTTGAGAAC
* *
4648408 AAACGCCTTCAATAATTTTCTCCTAAAA-TTTTTGAGGTTATTAAAGGCATCTT-TCAGTGAAAA
1 AAACGCCTTCAATAATTTTCT--TAAAATTTTTTGAGATTATTAAAGGCGTCTTCT-AGTGAAAA
* * * * *
4648471 ATGCTTTCAATTTTTCACCACTTAAATTTTAAGACGTTTAGTGAAGGTGTTTATTCTAGAAAAAT
63 ACGCCTTCAATTTTTCACAACTCAAATTTTAAGACGTTTAGTGAAGGCGTTTATTCTAGAAAAAT
* * * * * *
4648536 GCCTTCACTAATTTTTTCTAATTTATGTACATAATTATTGAAGGTATTTTTTAAGAAT
128 ACCTTCACTAATTTCTTCTAATTTACGTACATAATTATTGAAGGCATTTTTTGAGAAC
* * * *
4648594 AAACACCTTCAATAATTTTCTCTTAAAA-TTTTTGAGATTATTAAAAGTGTCTT-TCAGTAAAAA
1 AAACGCCTTCAATAA-TTT-TCTTAAAATTTTTTGAGATTATTAAAGGCGTCTTCT-AGTGAAAA
* * * *
4648657 ATGCCTTCAATTTTTTACAACTCAAATTTTAAGATAG-TTAGTGAAGGCATTTATTCTAGAAAAA
63 ACGCCTTCAATTTTTCACAACTCAAATTTTAAGA-CGTTTAGTGAAGGCGTTTATTCTAGAAAAA
* * * * *
4648721 TACATTCACGAATTCCTTCTAATTTACGTACATAATTATTGAAGGCCCATTTTTTTAGAAT
127 TACCTTCACTAATTTCTTCTAATTTACGTACATAATTATTGAAGG--CATTTTTTGAGAAC
* * * * *
4648782 AAATGCCTTTAATAATATTTTTTTAAAA-TTTTTGAGATTATTAAAAGCGTATTCTAGTGAAAAA
1 AAACGCCTTCAAT-A-ATTTTCTTAAAATTTTTTGAGATTATTAAAGGCGTCTTCTAGTGAAAAA
* * * **
4648846 CG-CTTCAATATTTCACTACTCAAATTTTAAAACAG-TTAGTGAAGGTATTTATTCTAGAAAAAT
64 CGCCTTCAATTTTTCACAACTCAAATTTTAAGAC-GTTTAGTGAAGGCGTTTATTCTAGAAAAAT
*
4648909 ACCTTCACTAA-TTCTTTTTAATTTACGTACATAATTATTGAA
128 ACCTTCACTAATTTC-TTCTAATTTACGTACATAATTATTGAA
4648951 TGTGGTTTTC
Statistics
Matches: 1332, Mismatches: 223, Indels: 150
0.78 0.13 0.09
Matches are distributed among these distances:
166 16 0.01
167 77 0.06
168 11 0.01
169 4 0.00
170 2 0.00
171 2 0.00
172 3 0.00
173 6 0.00
174 3 0.00
175 1 0.00
176 5 0.00
177 3 0.00
178 2 0.00
180 4 0.00
181 7 0.01
182 179 0.13
183 99 0.07
184 84 0.06
185 247 0.19
186 400 0.30
187 107 0.08
188 64 0.05
189 5 0.00
190 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (185 bp):
AAACGCCTTCAATAATTTTCTTAAAATTTTTTGAGATTATTAAAGGCGTCTTCTAGTGAAAAACG
CCTTCAATTTTTCACAACTCAAATTTTAAGACGTTTAGTGAAGGCGTTTATTCTAGAAAAATACC
TTCACTAATTTCTTCTAATTTACGTACATAATTATTGAAGGCATTTTTTGAGAAC
Found at i:4648385 original size:535 final size:540
Alignment explanation
Indices: 4647376--4648950 Score: 1709
Period size: 535 Copynumber: 2.9 Consensus size: 540
4647366 CGTCTTCTAG
* **
4647376 TGAAAAACGCATTCAATATTCCACAACTCAAATTTTAAGACGTTTAGCAAAGGCGTTTATTCTAG
1 TGAAAAACGCATTCAAT-TTTCACAACTCAAATTTTAAGACGTTTAGTGAAGGCGTTTATTCTAG
* * * *
4647441 AAAAATACCTTTATTAATTTCTCATAATTTACGTACATAATTTTTGAAGGCGTTTTATGAGAACA
65 AAAAATACCTTCACTAATTTCTCATAATTTATGTACATAATTATTGAAGGCGTTTTATGAGAACA
* * * *
4647506 AATGCTTTCAATAATTTTTTCTTAAAATTTTTAAGATTATTAAAGGTGTCTTTCAATGAAAAATG
130 AATGCCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAAGTGTCTTTCAATGAAAAATG
* * * * *
4647571 CCTTCAA-TTTTCACAAATCAAATTTTAAGATGGTTAGTAAAGGCGTTTATTCTAAAAAAATACC
195 CCTTCAATTTTTTACAACTC-AA-TTTAAGATAGTTAGTAAAGGCATTTATTCTAGAAAAATACC
* * * * *
4647635 TTCACTAATTT-TTCTTAATTTACATACATAATTATTAAAGGCATTTTATGAGAATAAACGCCTT
258 TTCACTAATTTCTTC-TAATTTACGTACATAATTATTGAAGGCATTTTTTAAGAATAAATGCCTT
* * * * *
4647699 CAATAATTTTTTT-TAATTTTTGAGATTATTAAAGGCATTTTTCAGTGAAAACTGCCTTCAATTT
322 CAATAATTTTTTTAAAATTTTTGAGATTATTAAAGGCGTATTCCAGTGAAAAATGCCTTCAATTT
*
4647763 TTCACAACTCAAATTTTAAGACA-TTTAGTGAAGGCGTTTATTCTAGAAAAACA-TATTCACTAA
387 TTCACAACTCAAATTTTAAGA-AGTTTAGTGAAGGCATTTATTCTAGAAAAACACT-TTCACTAA
** * * * * ** *
4647826 TTCTTTCTAATTTATATACATAATTTTTTTAA-AAATTTTTTTGAG-A-TT-ATTAA-AGGT-GT
450 TTC-TTCTAATTTACGTACATAATTTATTGAAGAAA-TTTTATGAGAACTTCAATAATACCTAAT
*
4647885 TTTTCA-GTGA-AAAACGCCTTCAAT-AC
513 TTTTCAGGTGATAAAA-GCCATCAATCAC
* * *
4647911 TGAAAAACGCCTTCAATTGTTCACAACTCAAATTTTAAGATGTTTAATGAAGGCGTTTATTCTAG
1 TGAAAAACGCATTCAATT-TTCACAACTCAAATTTTAAGACGTTTAGTGAAGGCGTTTATTCTAG
* * * *
4647976 AAAAACACATTCACTAATTTCTCATAATTTATGTACTTAATTATTGAAAGCGTTTTATGAGAACA
65 AAAAATACCTTCACTAATTTCTCATAATTTATGTACATAATTATTGAAGGCGTTTTATGAGAACA
* * * **
4648041 AATGCCTTCAATAATTTTCTCCTAAAATTTTTGAGATTATTAAAAGCGTCTTCCAATGAAAAACA
130 AATGCCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAAGTGTCTTTCAATGAAAAATG
* * * * * *
4648106 CTTTCAATTTTTTATAACTC-A-CTAAGACATTTAGTAAAGGCATTTATTCTAGAAAAACACCTT
195 CCTTCAATTTTTTACAACTCAATTTAAGATAGTTAGTAAAGGCATTTATTCTAGAAAAATACCTT
* * * *
4648169 CATTAATTTCTTCTAATTTACGTACATAATTATTGAAGGCGTTTTTTAAGAACAAATGCCATCAA
260 CACTAATTTCTTCTAATTTACGTACATAATTATTGAAGGCATTTTTTAAGAATAAATGCCTTCAA
* *
4648234 TAATTTCTTCTTAAAATTTTT-AGAATTATTAAAGGCGTATTCCAATGAAAAATGCCTTTAATTT
325 TAATTT-TT-TTAAAATTTTTGAG-ATTATTAAAGGCGTATTCCAGTGAAAAATGCCTTCAATTT
* * *
4648298 TTCACAACTCAAATTTTAAGATGTTTTGTGAAGGCATTTATTTTAGAAAAACACTTTCACTAATT
387 TTCACAACTCAAATTTTAAGAAGTTTAGTGAAGGCATTTATTCTAGAAAAACACTTTCACTAATT
**
4648363 CTTCATAATTTACGTACATAA-TTATTGAAGGCATTTTATGAGAACAAACGCCTTCAATAATTTT
452 CTTC-TAATTTACGTACATAATTTATTGAAGAAATTTTATGAG----AA---CTTCAATAA---T
* * * * * ** *
4648427 CTCCTAAAATTTTTGAGGTTATTAAAGGCATCTTTCAG
506 -ACCT--AATTTTTCAGGTGATAAAAGCCATCAATCAC
* * * * *
4648465 TGAAAAATGCTTTCAATTTTTCACCACTTAAATTTTAAGACGTTTAGTGAAGGTGTTTATTCTAG
1 TGAAAAACGCATTCAA-TTTTCACAACTCAAATTTTAAGACGTTTAGTGAAGGCGTTTATTCTAG
* * ** * * *
4648530 AAAAATGCCTTCACTAATTTTTTC-TAATTTATGTACATAATTATTGAAGGTATTTTTTAAGAAT
65 AAAAATACCTTCACTAA-TTTCTCATAATTTATGTACATAATTATTGAAGGCGTTTTATGAGAAC
** * *
4648594 AAACACCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAAGTGTCTTTCAGTAAAAAAT
129 AAATGCCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAAGTGTCTTTCAATGAAAAAT
*
4648659 GCCTTCAATTTTTTACAACTCAAATTTTAAGATAGTTAGTGAAGGCATTTATTCTAGAAAAATAC
194 GCCTTCAATTTTTTACAACTC-AA-TTTAAGATAGTTAGTAAAGGCATTTATTCTAGAAAAATAC
* * * *
4648724 ATTCACGAATTCCTTCTAATTTACGTACATAATTATTGAAGGCCCATTTTTTTAGAATAAATGCC
257 CTTCACTAATTTCTTCTAATTTACGTACATAATTATTGAAGG--CATTTTTTAAGAATAAATGCC
* * * *
4648789 TTTAATAATATTTTTTTAAAATTTTTGAGATTATTAAAAGCGTATTCTAGTGAAAAACG-CTTCA
320 TTCAAT-A-ATTTTTTTAAAATTTTTGAGATTATTAAAGGCGTATTCCAGTGAAAAATGCCTTCA
* * * * * *
4648853 ATATTTCACTACTCAAATTTTAAAACAG-TTAGTGAAGGTATTTATTCTAGAAAAATACCTTCAC
383 ATTTTTCACAACTCAAATTTTAAGA-AGTTTAGTGAAGGCATTTATTCTAGAAAAACACTTTCAC
*
4648917 TAATTCTTTTTAATTTACGTACATAA-TTATTGAA
447 TAATTC-TTCTAATTTACGTACATAATTTATTGAA
4648951 TGTGGTTTTC
Statistics
Matches: 863, Mismatches: 132, Indels: 66
0.81 0.12 0.06
Matches are distributed among these distances:
532 93 0.11
533 5 0.01
534 23 0.03
535 291 0.34
536 10 0.01
539 1 0.00
543 2 0.00
544 4 0.00
549 1 0.00
552 6 0.01
553 8 0.01
554 181 0.21
555 7 0.01
556 1 0.00
558 72 0.08
559 87 0.10
560 62 0.07
561 5 0.01
562 4 0.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.40
Consensus pattern (540 bp):
TGAAAAACGCATTCAATTTTCACAACTCAAATTTTAAGACGTTTAGTGAAGGCGTTTATTCTAGA
AAAATACCTTCACTAATTTCTCATAATTTATGTACATAATTATTGAAGGCGTTTTATGAGAACAA
ATGCCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAAGTGTCTTTCAATGAAAAATGC
CTTCAATTTTTTACAACTCAATTTAAGATAGTTAGTAAAGGCATTTATTCTAGAAAAATACCTTC
ACTAATTTCTTCTAATTTACGTACATAATTATTGAAGGCATTTTTTAAGAATAAATGCCTTCAAT
AATTTTTTTAAAATTTTTGAGATTATTAAAGGCGTATTCCAGTGAAAAATGCCTTCAATTTTTCA
CAACTCAAATTTTAAGAAGTTTAGTGAAGGCATTTATTCTAGAAAAACACTTTCACTAATTCTTC
TAATTTACGTACATAATTTATTGAAGAAATTTTATGAGAACTTCAATAATACCTAATTTTTCAGG
TGATAAAAGCCATCAATCAC
Found at i:4649483 original size:18 final size:18
Alignment explanation
Indices: 4649460--4649501 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
4649450 GATTTACTGA
4649460 TTGTTGTGTGATATTGTT
1 TTGTTGTGTGATATTGTT
4649478 TTGTTGTGTGATATTGTT
1 TTGTTGTGTGATATTGTT
4649496 TTGTTG
1 TTGTTG
4649502 AATGGTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.10, C:0.00, G:0.29, T:0.62
Consensus pattern (18 bp):
TTGTTGTGTGATATTGTT
Found at i:4649510 original size:18 final size:18
Alignment explanation
Indices: 4649468--4649512 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
4649458 GATTGTTGTG
**
4649468 TGATATTGTTTTGTTGTG
1 TGATATTGTTTTGTTGAA
4649486 TGATATTGTTTTGTTGAA
1 TGATATTGTTTTGTTGAA
*
4649504 TGGTATTGT
1 TGATATTGT
4649513 ATAATATTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.27, T:0.58
Consensus pattern (18 bp):
TGATATTGTTTTGTTGAA
Found at i:4652834 original size:35 final size:35
Alignment explanation
Indices: 4652772--4652841 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
4652762 ATATATAAAC
**
4652772 CAAATGTTTTCTGGACATAATTATACAACTGACTT
1 CAAATGTTTTCTGGACATAAACATACAACTGACTT
* *
4652807 CAAATGTTTTCT-GAGCATAAACCTACAATTGACTT
1 CAAATGTTTTCTGGA-CATAAACATACAACTGACTT
4652842 GACATGTACA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 2 0.07
35 28 0.93
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (35 bp):
CAAATGTTTTCTGGACATAAACATACAACTGACTT
Found at i:4655884 original size:16 final size:16
Alignment explanation
Indices: 4655863--4655926 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 16
4655853 ACATTATAAT
4655863 TAATATATTAATAAAA
1 TAATATATTAATAAAA
*
4655879 TAATATTTTATTATATAAA
1 TAATATATTA--ATA-AAA
* *
4655898 TATTTTATTAAT-AAA
1 TAATATATTAATAAAA
4655913 TAATA-AGTTAATAA
1 TAATATA-TTAATAA
4655927 TATTATTATA
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
14 1 0.03
15 11 0.30
16 10 0.27
17 2 0.05
18 3 0.08
19 10 0.27
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
TAATATATTAATAAAA
Found at i:4655911 original size:15 final size:16
Alignment explanation
Indices: 4655880--4655914 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
4655870 TTAATAAAAT
4655880 AATATTTTATTATATA
1 AATATTTTATTATATA
4655896 AATATTTTATTA-ATA
1 AATATTTTATTATATA
4655911 AATA
1 AATA
4655915 ATAAGTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
AATATTTTATTATATA
Found at i:4655965 original size:37 final size:35
Alignment explanation
Indices: 4655868--4655965 Score: 103
Period size: 35 Copynumber: 2.7 Consensus size: 35
4655858 ATAATTAATA
*
4655868 TATTAATAAAATAATATTTTATT-ATATAAATATTT
1 TATTAAT-AAATAATATTATATTAATATAAATATTT
* *
4655903 TATTAATAAATAATAAGTTA-A-TAATATTATTATATT
1 TATTAATAAATAAT-A-TTATATTAATATAAATAT-TT
4655939 TATTACATAAATAATATTATATTAATA
1 TATTA-ATAAATAATATTATATTAATA
4655966 AATAAATAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
34 8 0.15
35 20 0.38
36 11 0.21
37 14 0.26
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (35 bp):
TATTAATAAATAATATTATATTAATATAAATATTT
Found at i:4656347 original size:11 final size:11
Alignment explanation
Indices: 4656331--4656356 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4656321 TTGAAAAAAG
4656331 TTTAATTATTT
1 TTTAATTATTT
4656342 TTTAATTATTT
1 TTTAATTATTT
4656353 TTTA
1 TTTA
4656357 TTTTAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTAATTATTT
Found at i:4657074 original size:18 final size:18
Alignment explanation
Indices: 4657051--4657089 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
4657041 CTCTTAAAAT
*
4657051 AAATAAACACATAATACA
1 AAATAAACACAAAATACA
*
4657069 AAATAAATACAAAATACA
1 AAATAAACACAAAATACA
4657087 AAA
1 AAA
4657090 AAATAAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.72, C:0.13, G:0.00, T:0.15
Consensus pattern (18 bp):
AAATAAACACAAAATACA
Found at i:4658412 original size:44 final size:41
Alignment explanation
Indices: 4658278--4658623 Score: 128
Period size: 41 Copynumber: 8.2 Consensus size: 41
4658268 AAAACTCCCC
* * *
4658278 TAAACAAAGGCTCATA--ACTTTGAAAAAATGAAATGTTCTTT
1 TAAACAGAGGCTCA-ACGACTTTGAAAAAATAAAATGCTC-TT
* *
4658319 TAAACAGAGGCTTAACGACTTTG-AAAAATAGAAA-GCTTCTC
1 TAAACAGAGGCTCAACGACTTTGAAAAAATA-AAATGC-TCTT
* *
4658360 TAACCAGAGGCTCAATGACTTTTTGAAAAAATAAAATGCTCATT
1 TAAACAGAGGCTCAACGAC--TTTGAAAAAATAAAATGCTC-TT
* * * * *
4658404 TAATCAGAGGCAT-AACAACTTTTTAAAAATAAAAAATAAAAAGCTCCTC
1 TAAACAGAGGC-TCAACGAC--TTT-----GAAAAAATAAAATGCT-CTT
* * *
4658453 TAATCAGAGGCAT-AACAACTTTG-AAAAAT-AAATGCTCCTC
1 TAAACAGAGGC-TCAACGACTTTGAAAAAATAAAATGCT-CTT
* *
4658493 TAAACAGAGGCTCCATA-G-CTTTGGAAAAATAAAA-GCTTCTC
1 TAAACAGAGGCT-CA-ACGACTTTGAAAAAATAAAATGC-TCTT
* * * * *
4658534 TAAACAGAGGCACCACAATTTTG-AAAAATAAATAAT-C-CTC
1 TAAACAGAGGCTCAACGACTTTGAAAAAAT-AA-AATGCTCTT
* * * * *
4658574 TAAATAGAGGCACCACAACTTTG-AAAAATAAAATGCTCCTC
1 TAAACAGAGGCTCAACGACTTTGAAAAAATAAAATGCT-CTT
4658615 TAAACAGAG
1 TAAACAGAG
4658624 ATACCACAAC
Statistics
Matches: 249, Mismatches: 26, Indels: 60
0.74 0.08 0.18
Matches are distributed among these distances:
38 3 0.01
39 5 0.02
40 63 0.25
41 82 0.33
42 19 0.08
43 9 0.04
44 29 0.12
45 1 0.00
47 3 0.01
49 34 0.14
50 1 0.00
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (41 bp):
TAAACAGAGGCTCAACGACTTTGAAAAAATAAAATGCTCTT
Found at i:4658484 original size:48 final size:49
Alignment explanation
Indices: 4658385--4658484 Score: 157
Period size: 49 Copynumber: 2.1 Consensus size: 49
4658375 TGACTTTTTG
* * *
4658385 AAAAAATAAAATGCTCATTTAATCAGAGGCATAACAACTTTTTAAAAAT
1 AAAAAATAAAAAGCTCATCTAATCAGAGGCATAACAACTTTTGAAAAAT
*
4658434 AAAAAATAAAAAGCTCCTCTAATCAGAGGCATAACAAC-TTTGAAAAAT
1 AAAAAATAAAAAGCTCATCTAATCAGAGGCATAACAACTTTTGAAAAAT
4658482 AAA
1 AAA
4658485 TGCTCCTCTA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 12 0.26
49 35 0.74
ACGTcount: A:0.53, C:0.14, G:0.09, T:0.24
Consensus pattern (49 bp):
AAAAAATAAAAAGCTCATCTAATCAGAGGCATAACAACTTTTGAAAAAT
Found at i:4658535 original size:81 final size:81
Alignment explanation
Indices: 4658435--4658768 Score: 376
Period size: 81 Copynumber: 4.1 Consensus size: 81
4658425 TTTAAAAATA
* *
4658435 AAAAATAAAAAGCTCCTCTAATCAGAGGCATA-ACAACTTTGAAAAATAAATGCTCCTCTAAACA
1 AAAAAT-AAAAGCTCCTCTAAACAGAGGCATACACAACTTTGAAAAATAAATACTCCTCTAAACA
* * *
4658499 GAGGCTCCATAGCTTTGG
65 GAGGCACCACAACTTT-G
* * * * *
4658517 AAAAATAAAAGCTTCTCTAAACAGAGGCA-CCACAATTTTGAAAAATAAATAATCCTCTAAATAG
1 AAAAATAAAAGCTCCTCTAAACAGAGGCATACACAACTTTGAAAAATAAATACTCCTCTAAACAG
4658581 AGGCACCACAACTTTG
66 AGGCACCACAACTTTG
* ** *
4658597 AAAAATAAAATGCTCCTCTAAACAGA-G-ATACCACAACTTTGGAAAA-AAATACTTTTTTAAAC
1 AAAAATAAAA-GCTCCTCTAAACAGAGGCATA-CACAACTTTGAAAAATAAATACTCCTCTAAAC
*
4658659 AGAGGCACCATAACTTT-
64 AGAGGCACCACAACTTTG
* * * * *
4658676 AGAAAATAAATGTTCCTCTAAACAAAGGCA-ACACAACTTTGAAAAATAAAATGCTCATCTAAAC
1 A-AAAATAAAAGCTCCTCTAAACAGAGGCATACACAACTTTGAAAAAT-AAATACTCCTCTAAAC
*
4658740 AAAGGCACCACAACTTTG
64 AGAGGCACCACAACTTTG
4658758 AAAAATAAAAG
1 AAAAATAAAAG
4658769 GCTCATTGAC
Statistics
Matches: 211, Mismatches: 31, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
79 29 0.14
80 49 0.23
81 126 0.60
82 7 0.03
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.22
Consensus pattern (81 bp):
AAAAATAAAAGCTCCTCTAAACAGAGGCATACACAACTTTGAAAAATAAATACTCCTCTAAACAG
AGGCACCACAACTTTG
Found at i:4658774 original size:41 final size:41
Alignment explanation
Indices: 4658435--4658772 Score: 375
Period size: 41 Copynumber: 8.4 Consensus size: 41
4658425 TTTAAAAATA
* * **
4658435 AAAAATAAAAAGCTCCTCTAATCAGAGGCATAACAACTTTG
1 AAAAATAAAATGCTCCTCTAAACAGAGGCACCACAACTTTG
* * *
4658476 AAAAAT-AAATGCTCCTCTAAACAGAGGCTCCATAGCTTTGG
1 AAAAATAAAATGCTCCTCTAAACAGAGGCACCACAACTTT-G
* *
4658517 AAAAATAAAA-GCTTCTCTAAACAGAGGCACCACAATTTTG
1 AAAAATAAAATGCTCCTCTAAACAGAGGCACCACAACTTTG
** *
4658557 AAAAAT-AAATAATCCTCTAAATAGAGGCACCACAACTTTG
1 AAAAATAAAATGCTCCTCTAAACAGAGGCACCACAACTTTG
**
4658597 AAAAATAAAATGCTCCTCTAAACAGAGATACCACAACTTTG
1 AAAAATAAAATGCTCCTCTAAACAGAGGCACCACAACTTTG
* * ** * *
4658638 -GAAA-AAAATACTTTTTTAAACAGAGGCACCATAACTTT-
1 AAAAATAAAATGCTCCTCTAAACAGAGGCACCACAACTTTG
* * *
4658676 AGAAAAT-AAATGTTCCTCTAAACAAAGGCAACACAACTTTG
1 A-AAAATAAAATGCTCCTCTAAACAGAGGCACCACAACTTTG
* *
4658717 AAAAATAAAATGCTCATCTAAACAAAGGCACCACAACTTTG
1 AAAAATAAAATGCTCCTCTAAACAGAGGCACCACAACTTTG
*
4658758 AAAAATAAAAGGCTC
1 AAAAATAAAATGCTC
4658773 ATTGACAATC
Statistics
Matches: 245, Mismatches: 43, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
39 30 0.12
40 100 0.41
41 112 0.46
42 3 0.01
ACGTcount: A:0.46, C:0.20, G:0.12, T:0.22
Consensus pattern (41 bp):
AAAAATAAAATGCTCCTCTAAACAGAGGCACCACAACTTTG
Found at i:4659567 original size:63 final size:62
Alignment explanation
Indices: 4659443--4659606 Score: 170
Period size: 63 Copynumber: 2.6 Consensus size: 62
4659433 CACCATTTTG
* * * * * *
4659443 AGCTTCTTAGCACTAGCCATCTCAAAATAAATTTTATCTTCTATCGCTTGATCATCGCTCAT
1 AGCTTCTTAGCACTAGCCATTTCAGAATAAATTTTATCTTCTATCACTTAATCACCACTCAT
*
4659505 AAGCTTCTTAGCACTAGCCATTTCAGAATAAATTTCGT-TTTTC-ATCACTTAATCACCACTCAT
1 -AGCTTCTTAGCACTAGCCATTTCAGAATAAATTT--TATCTTCTATCACTTAATCACCACTCAT
* * * * *
4659568 AGATTTTTTAGCATTAACCATTTCAGAATAAATTCTATC
1 AG-CTTCTTAGCACTAGCCATTTCAGAATAAATTTTATC
4659607 CACTGAGCTA
Statistics
Matches: 84, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
61 1 0.01
62 3 0.04
63 75 0.89
64 4 0.05
65 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (62 bp):
AGCTTCTTAGCACTAGCCATTTCAGAATAAATTTTATCTTCTATCACTTAATCACCACTCAT
Found at i:4660319 original size:7 final size:7
Alignment explanation
Indices: 4660309--4660359 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
4660299 CCTTTTCATT
4660309 TTTTTTA
1 TTTTTTA
4660316 TTTTTTA
1 TTTTTTA
4660323 TTTTTT-
1 TTTTTTA
* *
4660329 GTTTTTG
1 TTTTTTA
4660336 TTTTTTA
1 TTTTTTA
4660343 TTTTCTT-
1 TTTT-TTA
4660350 TTCTTTTA
1 TT-TTTTA
4660358 TT
1 TT
4660360 CTTTCACCCG
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
6 5 0.14
7 26 0.70
8 6 0.16
ACGTcount: A:0.08, C:0.04, G:0.04, T:0.84
Consensus pattern (7 bp):
TTTTTTA
Found at i:4665617 original size:31 final size:31
Alignment explanation
Indices: 4665557--4665620 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
4665547 AAATTCTAGG
* * *
4665557 AAGCTTGTCGAAAAATTCAACCAGTGCTGAA
1 AAGCTAGTCAAAAAATTCAACCAGGGCTGAA
**
4665588 AAGCTAGTCAAAAAATTCAATTAGGGCTGAA
1 AAGCTAGTCAAAAAATTCAACCAGGGCTGAA
4665619 AA
1 AA
4665621 ATTTCTCGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.22
Consensus pattern (31 bp):
AAGCTAGTCAAAAAATTCAACCAGGGCTGAA
Found at i:4665648 original size:11 final size:11
Alignment explanation
Indices: 4665632--4665661 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
4665622 TTTCTCGAAA
4665632 TCTAAAAATTT
1 TCTAAAAATTT
4665643 TCTAAAAATTT
1 TCTAAAAATTT
*
4665654 TCCAAAAA
1 TCTAAAAA
4665662 AAAAAGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (11 bp):
TCTAAAAATTT
Found at i:4666180 original size:15 final size:15
Alignment explanation
Indices: 4666154--4666231 Score: 60
Period size: 15 Copynumber: 5.5 Consensus size: 15
4666144 TTTAGATTAA
*
4666154 TAATATATTATTTAT
1 TAATATAATATTTAT
* *
4666169 TTATATAATATTAAT
1 TAATATAATATTTAT
*
4666184 TAATATTATATTTA-
1 TAATATAATATTTAT
4666198 TAA-ATAATA--TAT
1 TAATATAATATTTAT
4666210 TAATA-AATGATATTA-
1 TAATATAAT-AT-TTAT
4666225 TAATATA
1 TAATATA
4666232 TTAAAATTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
11 2 0.04
12 6 0.12
13 7 0.14
14 3 0.06
15 28 0.57
16 3 0.06
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (15 bp):
TAATATAATATTTAT
Found at i:4666195 original size:26 final size:25
Alignment explanation
Indices: 4666162--4666214 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
4666152 AATAATATAT
*
4666162 TATTTATTTATATAATATTA-ATTAA
1 TATTTATTTATA-AATAATATATTAA
4666187 TATTATATTTATAAATAATATATTAA
1 TATT-TATTTATAAATAATATATTAA
4666213 TA
1 TA
4666215 AATGATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
TATTTATTTATAAATAATATATTAA
Found at i:4672998 original size:28 final size:28
Alignment explanation
Indices: 4672973--4673028 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
4672963 TACTTATTTG
4672973 AAGTAAATAATAAAACTAGATATATTAA
1 AAGTAAATAATAAAACTAGATATATTAA
* * *
4673001 AAGTGAATAATAAAATTAGATATGTTAA
1 AAGTAAATAATAAAACTAGATATATTAA
4673029 TTTTTATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.57, C:0.02, G:0.11, T:0.30
Consensus pattern (28 bp):
AAGTAAATAATAAAACTAGATATATTAA
Done.