Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 3 of 160
Found at i:446030 original size:22 final size:23
Alignment explanation
Indices: 446005--446048 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
445995 AATAAATACT
446005 TATTTTTTATAAT-TTAA-ATTTA
1 TATTTTTTA-AATCTTAATATTTA
446027 TATTTTTTAAATCTTAATATTT
1 TATTTTTTAAATCTTAATATTT
446049 GTAATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 3 0.15
22 13 0.65
23 4 0.20
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTTTTTAAATCTTAATATTTA
Found at i:446037 original size:15 final size:17
Alignment explanation
Indices: 446017--446048 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
446007 TTTTTTATAA
446017 TTTAAAT-TT-ATATTT
1 TTTAAATCTTAATATTT
446032 TTTAAATCTTAATATTT
1 TTTAAATCTTAATATTT
446049 GTAATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTAAATCTTAATATTT
Found at i:450746 original size:18 final size:21
Alignment explanation
Indices: 450716--450764 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
450706 TATCAATTTC
*
450716 ATTTTTATTTATTTATTTAATA-
1 ATTTTTATTTA-AT-TTTAATAT
450738 ATTTTTATTTAATTTTAATAT
1 ATTTTTATTTAATTTTAATAT
450759 ATTTTT
1 ATTTTT
450765 TAAAAAATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 7 0.28
21 7 0.28
22 11 0.44
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
ATTTTTATTTAATTTTAATAT
Found at i:450766 original size:22 final size:18
Alignment explanation
Indices: 450723--450764 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
450713 TTCATTTTTA
450723 TTTATTTATTTAATAATT
1 TTTATTTATTTAATAATT
450741 TTTATTTAATTTTAATATATT
1 TTTATTT-A-TTTAATA-ATT
450762 TTT
1 TTT
450765 TAAAAAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.33
19 1 0.05
20 7 0.33
21 6 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTATTTATTTAATAATT
Found at i:460255 original size:152 final size:152
Alignment explanation
Indices: 459979--460277 Score: 598
Period size: 152 Copynumber: 2.0 Consensus size: 152
459969 AAGAATTTAG
459979 TTGGAACTACTGCCTTTTTTCTGTTAATTTGATATGGGAAACTCCCAGATTTAAAAATGGAAATT
1 TTGGAACTACTGCCTTTTTTCTGTTAATTTGATATGGGAAACTCCCAGATTTAAAAATGGAAATT
460044 CTCTTTCAAGAGTCAAATGACATTATAACCCAAACTTAATTCGAGTGTAGCAAAAGAGAAGAAAG
66 CTCTTTCAAGAGTCAAATGACATTATAACCCAAACTTAATTCGAGTGTAGCAAAAGAGAAGAAAG
460109 GGCAGGTTTGGTTTTCCATCAT
131 GGCAGGTTTGGTTTTCCATCAT
460131 TTGGAACTACTGCCTTTTTTCTGTTAATTTGATATGGGAAACTCCCAGATTTAAAAATGGAAATT
1 TTGGAACTACTGCCTTTTTTCTGTTAATTTGATATGGGAAACTCCCAGATTTAAAAATGGAAATT
460196 CTCTTTCAAGAGTCAAATGACATTATAACCCAAACTTAATTCGAGTGTAGCAAAAGAGAAGAAAG
66 CTCTTTCAAGAGTCAAATGACATTATAACCCAAACTTAATTCGAGTGTAGCAAAAGAGAAGAAAG
460261 GGCAGGTTTGGTTTTCC
131 GGCAGGTTTGGTTTTCC
460278 TTTAACTCTA
Statistics
Matches: 147, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
152 147 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (152 bp):
TTGGAACTACTGCCTTTTTTCTGTTAATTTGATATGGGAAACTCCCAGATTTAAAAATGGAAATT
CTCTTTCAAGAGTCAAATGACATTATAACCCAAACTTAATTCGAGTGTAGCAAAAGAGAAGAAAG
GGCAGGTTTGGTTTTCCATCAT
Found at i:488104 original size:20 final size:18
Alignment explanation
Indices: 488081--488122 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
488071 TTGAAACTTT
*
488081 AATTAAAAGTTTGATTTGAA
1 AATTAAAA-TTTGAATT-AA
488101 AATTAAAATTTGAATTAA
1 AATTAAAATTTGAATTAA
488119 AATT
1 AATT
488123 TTTAATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 7 0.33
20 8 0.38
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (18 bp):
AATTAAAATTTGAATTAA
Found at i:499486 original size:20 final size:20
Alignment explanation
Indices: 499457--499494 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
499447 ATGAAAGATT
* *
499457 TATAACATTGTTTCAAAATA
1 TATAAAATTGATTCAAAATA
499477 TATAAAATTGATTCAAAA
1 TATAAAATTGATTCAAAA
499495 CAAACATGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (20 bp):
TATAAAATTGATTCAAAATA
Found at i:500198 original size:48 final size:48
Alignment explanation
Indices: 500142--500240 Score: 189
Period size: 48 Copynumber: 2.1 Consensus size: 48
500132 GTGTTAAAAG
500142 GAGGGTGAATTACCTTGTAAATGTCGAAGAAGCAATTGGAGGATTTTC
1 GAGGGTGAATTACCTTGTAAATGTCGAAGAAGCAATTGGAGGATTTTC
*
500190 GAGGGTGAATTACCTTGTAAATGTCGAAGAAGCGATTGGAGGATTTTC
1 GAGGGTGAATTACCTTGTAAATGTCGAAGAAGCAATTGGAGGATTTTC
500238 GAG
1 GAG
500241 CGAAATGTTG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.30, C:0.10, G:0.31, T:0.28
Consensus pattern (48 bp):
GAGGGTGAATTACCTTGTAAATGTCGAAGAAGCAATTGGAGGATTTTC
Found at i:501464 original size:2 final size:2
Alignment explanation
Indices: 501451--501486 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
501441 TGCAACATCA
*
501451 AT AT AT AA 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
501487 GACCATTAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:518911 original size:18 final size:18
Alignment explanation
Indices: 518875--518940 Score: 51
Period size: 18 Copynumber: 3.7 Consensus size: 18
518865 CCTCGGCTCT
* * *
518875 TCTTCTTCCTCCTCCTCA
1 TCTTCTTCTTCTTCATCA
518893 TCTTCTTCTTCTTCATCA
1 TCTTCTTCTTCTTCATCA
** * * * *
518911 TAATCTACGTCTTCGTCT
1 TCTTCTTCTTCTTCATCA
518929 TCTTCTTCTTCT
1 TCTTCTTCTTCT
518941 CTCTCGTCGT
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.09, C:0.36, G:0.03, T:0.52
Consensus pattern (18 bp):
TCTTCTTCTTCTTCATCA
Found at i:518916 original size:21 final size:21
Alignment explanation
Indices: 518872--518916 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
518862 AAGCCTCGGC
* * *
518872 TCTTCTTCTTCCTCCTCCTCA
1 TCTTCTTCTTCCTCATCATAA
*
518893 TCTTCTTCTTCTTCATCATAA
1 TCTTCTTCTTCCTCATCATAA
518914 TCT
1 TCT
518917 ACGTCTTCGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.11, C:0.38, G:0.00, T:0.51
Consensus pattern (21 bp):
TCTTCTTCTTCCTCATCATAA
Found at i:527613 original size:137 final size:137
Alignment explanation
Indices: 527367--527643 Score: 500
Period size: 137 Copynumber: 2.0 Consensus size: 137
527357 CCAATAAAAG
* *
527367 AGTACACACATATATTGGCAGTTTATCAAAGGGAGAAGAAAACTTGAATACATATGGTTGACCAT
1 AGTACACACATATATTAGCAGTCTATCAAAGGGAGAAGAAAACTTGAATACATATGGTTGACCAT
* *
527432 TATCGACAGGAAACCATAGATGACAGAGAGAACTAATCTTAGGTTTCTTGTTTGAGCCTTCCTCT
66 TATCGACAGGAAACCATAGATGACAGAGACAACTAATCTTAGGTTTCTTGTTTGAGCCTTCATCT
527497 TCTTCTC
131 TCTTCTC
* *
527504 AGTACACACATATATTAGCGGTCTATCAAAGGGAGAAGGAAACTTGAATACATATGGTTGACCAT
1 AGTACACACATATATTAGCAGTCTATCAAAGGGAGAAGAAAACTTGAATACATATGGTTGACCAT
527569 TATCGACAGGAAACCATAGATGACAGAGACAACTAATCTTAGGTTTCTTGTTTGAGCCTTCATCT
66 TATCGACAGGAAACCATAGATGACAGAGACAACTAATCTTAGGTTTCTTGTTTGAGCCTTCATCT
527634 TCTTCTC
131 TCTTCTC
527641 AGT
1 AGT
527644 TCTGTTGAGG
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 134 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (137 bp):
AGTACACACATATATTAGCAGTCTATCAAAGGGAGAAGAAAACTTGAATACATATGGTTGACCAT
TATCGACAGGAAACCATAGATGACAGAGACAACTAATCTTAGGTTTCTTGTTTGAGCCTTCATCT
TCTTCTC
Found at i:528336 original size:75 final size:76
Alignment explanation
Indices: 528210--528356 Score: 260
Period size: 75 Copynumber: 1.9 Consensus size: 76
528200 ACATTATCTA
*
528210 CCTAGAGTATCCAAGACCAAGAAATATAGCTGCTTTTTATTAACTTATATGGGAGGCTAAGTTAG
1 CCTAGAGCATCCAAGACCAAGAAATATAGCTGCTTTTTATTAACTTATATGGGAGGCTAAGTTAG
528275 TATTGGATCCT
66 TATTGGATCCT
* *
528286 CCTAGAGCATCCAAGACCAAG-AATGTAGCTGCTTTTTATTAACTTGTATGGGAGGCTAAGTTAG
1 CCTAGAGCATCCAAGACCAAGAAATATAGCTGCTTTTTATTAACTTATATGGGAGGCTAAGTTAG
528350 TATTGGA
66 TATTGGA
528357 GTTAACAAAT
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
75 48 0.71
76 20 0.29
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.32
Consensus pattern (76 bp):
CCTAGAGCATCCAAGACCAAGAAATATAGCTGCTTTTTATTAACTTATATGGGAGGCTAAGTTAG
TATTGGATCCT
Found at i:542891 original size:2 final size:2
Alignment explanation
Indices: 542884--542908 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
542874 AAATGGATGC
542884 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
542909 GAGTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:553002 original size:29 final size:29
Alignment explanation
Indices: 552949--553024 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
552939 ATAATATATA
552949 AAAAATTATTAA-AAATA-TTATTTATAAT
1 AAAAATT-TTAATAAATATTTATTTATAAT
** *
552977 TCAAA-TTTAATAAATATTTATTTTATTAT
1 AAAAATTTTAATAAATATTTA-TTTATAAT
553006 AAAAATTTTAATAAA-ATTT
1 AAAAATTTTAATAAATATTT
553025 TTATTAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 4 0.10
27 6 0.15
28 6 0.15
29 14 0.36
30 9 0.23
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (29 bp):
AAAAATTTTAATAAATATTTATTTATAAT
Found at i:553015 original size:14 final size:13
Alignment explanation
Indices: 552996--553048 Score: 65
Period size: 12 Copynumber: 4.1 Consensus size: 13
552986 ATAAATATTT
552996 ATTTTATTATAAAA
1 ATTTTA-TATAAAA
553010 ATTTTA-ATAAAA
1 ATTTTATATAAAA
*
553022 TTTTTAT-TAAAA
1 ATTTTATATAAAA
553034 ATGTTTATATAAAA
1 AT-TTTATATAAAA
553048 A
1 A
553049 ATATATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
12 17 0.50
13 5 0.15
14 12 0.35
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (13 bp):
ATTTTATATAAAA
Found at i:553055 original size:26 final size:24
Alignment explanation
Indices: 553005--553057 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
552995 TATTTTATTA
** *
553005 TAAAAATTTTAATAAAATTTTTAT
1 TAAAAATTTTAATAAAAAATATAT
553029 TAAAAATGTTTATATAAAAAATATAT
1 TAAAAAT-TTTA-ATAAAAAATATAT
553055 TAA
1 TAA
553058 TTTTTTTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 7 0.29
25 4 0.17
26 13 0.54
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
TAAAAATTTTAATAAAAAATATAT
Found at i:553125 original size:21 final size:19
Alignment explanation
Indices: 553101--553143 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
553091 TAACAAGACC
*
553101 TTTCAATTTATAAATTTTTAT
1 TTTCAATTT-T-AATTTTAAT
553122 TTTCAATTTTAATTTTAAT
1 TTTCAATTTTAATTTTAAT
553141 TTT
1 TTT
553144 AATATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 1 0.05
21 9 0.43
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTCAATTTTAATTTTAAT
Found at i:553135 original size:6 final size:6
Alignment explanation
Indices: 553113--553146 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
553103 TCAATTTATA
*
553113 AATTTT TATTTT CAATTTT AATTTT AATTTT AAT
1 AATTTT AATTTT -AATTTT AATTTT AATTTT AAT
553147 ATTTTTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (6 bp):
AATTTT
Found at i:553141 original size:12 final size:13
Alignment explanation
Indices: 553113--553146 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
553103 TCAATTTATA
*
553113 AATTTTTATTTTC
1 AATTTTAATTTTC
553126 AATTTTAATTTT-
1 AATTTTAATTTTC
553138 AATTTTAAT
1 AATTTTAAT
553147 ATTTTTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (13 bp):
AATTTTAATTTTC
Found at i:553213 original size:3 final size:3
Alignment explanation
Indices: 553205--553241 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
553195 AATCTTCTCT
553205 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
553242 ATATCTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:554110 original size:16 final size:17
Alignment explanation
Indices: 554077--554115 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
554067 TTAATTTGAC
554077 ATTTTTATTATTTATTT
1 ATTTTTATTATTTATTT
* *
554094 ATTTTTGTT-TTTTTTT
1 ATTTTTATTATTTATTT
554110 ATTTTT
1 ATTTTT
554116 CTAATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
ATTTTTATTATTTATTT
Found at i:554186 original size:25 final size:25
Alignment explanation
Indices: 554128--554191 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
554118 AATTTAAAGT
*
554128 TTTAAAAATTAATTTGTTATAACAA
1 TTTAAAAATTAATTTGATATAACAA
554153 TTTAAAAATTAATTT-ATATAATC-A
1 TTTAAAAATTAATTTGATATAA-CAA
*
554177 TTTATTAAATTAATT
1 TTTA-AAAATTAATT
554192 AGTAATTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 10 0.29
25 25 0.71
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (25 bp):
TTTAAAAATTAATTTGATATAACAA
Found at i:555660 original size:48 final size:48
Alignment explanation
Indices: 555587--555681 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
555577 TTGTATACCC
*
555587 ATGCACCATATCTATATAGACCATTTCAATCTCTTCTAGTCCACTCAG
1 ATGCACCATATATATATAGACCATTTCAATCTCTTCTAGTCCACTCAG
* * * *
555635 ATGCACCATATATATATGGATCATTTCAGTCTCTTCTAGTCTACTCA
1 ATGCACCATATATATATAGACCATTTCAATCTCTTCTAGTCCACTCA
555682 CAAACATAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.36
Consensus pattern (48 bp):
ATGCACCATATATATATAGACCATTTCAATCTCTTCTAGTCCACTCAG
Found at i:557230 original size:29 final size:29
Alignment explanation
Indices: 557184--557291 Score: 101
Period size: 29 Copynumber: 3.7 Consensus size: 29
557174 ATAATCTTTT
* *
557184 AAATATCATATTAGATATTTTTAAAATTC
1 AAATATCACATTAAATATTTTTAAAATTC
* ***
557213 AAATATCATATTAAATA-TTTTATCCCTTC
1 AAATATCACATTAAATATTTTTA-AAATTC
* * *
557242 AAATATCACGTTAGATATTTTTAAAATTT
1 AAATATCACATTAAATATTTTTAAAATTC
* *
557271 AAGTAACACATTAAATATTTT
1 AAATATCACATTAAATATTTT
557292 ATTATAATTT
Statistics
Matches: 62, Mismatches: 15, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
28 5 0.08
29 52 0.84
30 5 0.08
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.44
Consensus pattern (29 bp):
AAATATCACATTAAATATTTTTAAAATTC
Found at i:557248 original size:58 final size:58
Alignment explanation
Indices: 557184--557293 Score: 166
Period size: 58 Copynumber: 1.9 Consensus size: 58
557174 ATAATCTTTT
* * *
557184 AAATATCATATTAGATATTTTTAAAATTCAAATATCATATTAAATATTTTATCCCTTC
1 AAATATCACATTAGATATTTTTAAAATTCAAATAACACATTAAATATTTTATCCCTTC
* * *
557242 AAATATCACGTTAGATATTTTTAAAATTTAAGTAACACATTAAATATTTTAT
1 AAATATCACATTAGATATTTTTAAAATTCAAATAACACATTAAATATTTTAT
557294 TATAATTTAG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 46 1.00
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.44
Consensus pattern (58 bp):
AAATATCACATTAGATATTTTTAAAATTCAAATAACACATTAAATATTTTATCCCTTC
Found at i:558951 original size:2 final size:2
Alignment explanation
Indices: 558944--558974 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
558934 TCCATACAAT
558944 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
558975 TATCCAGCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:565130 original size:36 final size:36
Alignment explanation
Indices: 565046--565134 Score: 92
Period size: 36 Copynumber: 2.5 Consensus size: 36
565036 AGTTTTGAAG
* * * * *
565046 AAGAATCAAGCAAAGAGGCACCTAAGGCTTTGGAAG
1 AAGAACCAAGCAATGAGGCACCCAAGGCTTCGGAAA
*
565082 AGGAACGC-AGCAATGAGTGC-CCCAAGGCTTCGGAAA
1 AAGAAC-CAAGCAATGAG-GCACCCAAGGCTTCGGAAA
565118 AAGAACCAAGCAATGAG
1 AAGAACCAAGCAATGAG
565135 ACCTCCAAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
35 1 0.02
36 39 0.91
37 3 0.07
ACGTcount: A:0.40, C:0.20, G:0.28, T:0.11
Consensus pattern (36 bp):
AAGAACCAAGCAATGAGGCACCCAAGGCTTCGGAAA
Found at i:566169 original size:76 final size:74
Alignment explanation
Indices: 566020--566169 Score: 219
Period size: 76 Copynumber: 2.0 Consensus size: 74
566010 ACTAATATAC
* * *
566020 TATGATAGTATATACTTATAAAGAATATATTTTATGTATCTTAGTATATAAATTTTATATATTAC
1 TATGATAGTATATACTCATAAAGAATATATTTTATATATCTTACTATATAAATTTTATATATTAC
*
566085 TAATGAATT
66 TAAGGAATT
* *
566094 TATGATAGTATATACTCATAAAGAATTTATATTTTATATATTTTACTCTATAAATTTTATATATT
1 TATGATAGTATATACTCATAAAGAA--TATATTTTATATATCTTACTATATAAATTTTATATATT
*
566159 ATTAAGGAATT
64 ACTAAGGAATT
566170 AAGTGATATT
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 24 0.36
76 43 0.64
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (74 bp):
TATGATAGTATATACTCATAAAGAATATATTTTATATATCTTACTATATAAATTTTATATATTAC
TAAGGAATT
Found at i:572079 original size:25 final size:25
Alignment explanation
Indices: 572051--572104 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
572041 CATAATAGTA
572051 GCAACCAATGATACTAATTAGAAGG
1 GCAACCAATGATACTAATTAGAAGG
572076 GCAACCAATGATACTAATTAGAAGG
1 GCAACCAATGATACTAATTAGAAGG
572101 GCAA
1 GCAA
572105 TGCTAAGTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.19
Consensus pattern (25 bp):
GCAACCAATGATACTAATTAGAAGG
Found at i:578150 original size:2 final size:2
Alignment explanation
Indices: 578139--578170 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
578129 TTGAAAGCAC
578139 TA TA TA -A 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 T
578171 TGTAAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:583865 original size:22 final size:23
Alignment explanation
Indices: 583821--583865 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
583811 ATAATGGTTT
*
583821 AAATTTCATAAGAGATTTATTTG
1 AAATTTCATAAGAAATTTATTTG
* *
583844 AAATTT-ATTAGAAATTTTTTTG
1 AAATTTCATAAGAAATTTATTTG
583866 GGATTGGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (23 bp):
AAATTTCATAAGAAATTTATTTG
Found at i:596450 original size:22 final size:20
Alignment explanation
Indices: 596431--596476 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
596421 ACAAAATTAT
596431 TTATTTAT-T-TTAAAATAA
1 TTATTTATCTATTAAAATAA
*
596449 TTAATTAATCTATTAAAATAA
1 TT-ATTTATCTATTAAAATAA
*
596470 ATATTTA
1 TTATTTA
596477 CCATTTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
18 2 0.09
19 5 0.23
20 5 0.23
21 10 0.45
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TTATTTATCTATTAAAATAA
Found at i:598626 original size:16 final size:15
Alignment explanation
Indices: 598603--598632 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
598593 ACAATCCGCG
598603 AAACAAACAAAACCA
1 AAACAAACAAAACCA
598618 AAACAAAACAAAACC
1 AAAC-AAACAAAACC
598633 CTAATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.73, C:0.27, G:0.00, T:0.00
Consensus pattern (15 bp):
AAACAAACAAAACCA
Found at i:603393 original size:162 final size:163
Alignment explanation
Indices: 603125--603453 Score: 500
Period size: 162 Copynumber: 2.0 Consensus size: 163
603115 TTTGTTGTTA
* ** *
603125 TGAATCATTCATCTCATACTCAAAACACTCCCTTTGCCACCTCCTTTAAAGAGTTTGGATCTTTT
1 TGAATCATTCATCTCATACTCAAAACACTCCATTTGCCAAATCCTTTAAAGAGTGTGGATCTTTT
* *
603190 AACTGTAATAAGTTTATAACATTTGTCTAACAAATTATTTGCAATTACCTATATAAAAATTTCAA
66 AACTGTAATAAATTTATAACATTTGTCTAACAAATTATTTGCAATTACCTATATAAAAATTGCAA
* * *
603255 AAAGATGTTAAATCTAATATTGCAGTCTATACC
131 AAAGATGTTAAATCTAACATTACAATCTATACC
*
603288 TGAATCATTCATCTCATCCTCAAAACAC-CCATTTGCCAAATCCTTTAAAGAGTGTGGATCTTTT
1 TGAATCATTCATCTCATACTCAAAACACTCCATTTGCCAAATCCTTTAAAGAGTGTGGATCTTTT
* * * *
603352 AACTGTAATAAATTTATAACATTTGTCTTACATAA-TATTTGCAATTACCTTTTTAACAATTGCA
66 AACTGTAATAAATTTATAACATTTGTCTAACA-AATTATTTGCAATTACCTATATAAAAATTGCA
*
603416 AAAAGATGTTAAATTTAACATTACAATCTATACC
130 AAAAGATGTTAAATCTAACATTACAATCTATACC
603450 TGAA
1 TGAA
603454 ATCTTCTAGA
Statistics
Matches: 150, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
162 121 0.81
163 29 0.19
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.37
Consensus pattern (163 bp):
TGAATCATTCATCTCATACTCAAAACACTCCATTTGCCAAATCCTTTAAAGAGTGTGGATCTTTT
AACTGTAATAAATTTATAACATTTGTCTAACAAATTATTTGCAATTACCTATATAAAAATTGCAA
AAAGATGTTAAATCTAACATTACAATCTATACC
Found at i:608235 original size:128 final size:129
Alignment explanation
Indices: 608019--608278 Score: 434
Period size: 128 Copynumber: 2.0 Consensus size: 129
608009 TTTTTTAAGA
*
608019 TTTAAACGGTTAGAGAGATAAGTAAAAAATTTTAAAAATAATTTAATTTTTATCTCTTGGATATC
1 TTTAAACGGTTAGAGAGATAAGTAAAAAATTTAAAAAATAATTTAATTTTTATCTCTTGGATATC
* * *
608084 TGACAAAATTTGTGTAAAATTTTTTGAATTTCATTTTGTGTAAGTTGATTTTTTTTATACTAAT
66 TGACAAAAATTGTGTAAAATTTTTTGAATTTCATATTGTGTAAGTTGATTTTTCTTATACTAAT
608148 TTTAAACGGTTAGAGAGATAAGTAAAAAA-TTAAAAAAGTAATTTAA-TTTTATCTCTTGGATAT
1 TTTAAACGGTTAGAGAGATAAGTAAAAAATTTAAAAAA-TAATTTAATTTTTATCTCTTGGATAT
* * *
608211 CTGACAAAAATTGTGTACAATTTTTTTAATTTCATATTGTGTAAGTTGATTTTTCTTATATTAAT
65 CTGACAAAAATTGTGTAAAATTTTTTGAATTTCATATTGTGTAAGTTGATTTTTCTTATACTAAT
608276 TTT
1 TTT
608279 TTTTAAATTA
Statistics
Matches: 123, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
128 86 0.70
129 37 0.30
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.46
Consensus pattern (129 bp):
TTTAAACGGTTAGAGAGATAAGTAAAAAATTTAAAAAATAATTTAATTTTTATCTCTTGGATATC
TGACAAAAATTGTGTAAAATTTTTTGAATTTCATATTGTGTAAGTTGATTTTTCTTATACTAAT
Found at i:611777 original size:127 final size:129
Alignment explanation
Indices: 611539--611783 Score: 320
Period size: 127 Copynumber: 1.9 Consensus size: 129
611529 ATTAAGCCCT
* * * *
611539 CATACCATAATTATAAAAATATCATTTTTTATAATTATTTATTATAATACCTCTCCTATGAAATT
1 CATACCATAATTATAAAAATATCATTTGTAATAATTATTTACTATAATA-CTCTCCTAAGAAATT
* *
611604 ACCAAAATACTTTTTTCATTGCTTGATAAGAAACTAACACCTGATCAAATTGATTATCATACTTA
65 ACCAAAATACTTTTTTCATTGCTTAATAAGAAACTAACAACTGATCAAATTGATTATCATACTTA
* *
611669 CATACCATAATTATTAAAATATCCATTTGTAATAATTATTTACTATAATA-TC-GC-AAGAAATT
1 CATACCATAATTATAAAAATAT-CATTTGTAATAATTATTTACTATAATACTCTCCTAAGAAATT
* * *
611731 ACCAAAATATCTTTTTT-ATTGTTTAATAAGAAATTGACATAC-GATCAAATTGA
65 ACCAAAATA-CTTTTTTCATTGCTTAATAAGAAACTAACA-ACTGATCAAATTGA
611784 CCATTATGTC
Statistics
Matches: 101, Mismatches: 11, Indels: 9
0.83 0.09 0.07
Matches are distributed among these distances:
127 45 0.45
128 9 0.09
129 2 0.02
130 21 0.21
131 24 0.24
ACGTcount: A:0.41, C:0.14, G:0.06, T:0.39
Consensus pattern (129 bp):
CATACCATAATTATAAAAATATCATTTGTAATAATTATTTACTATAATACTCTCCTAAGAAATTA
CCAAAATACTTTTTTCATTGCTTAATAAGAAACTAACAACTGATCAAATTGATTATCATACTTA
Found at i:611806 original size:127 final size:128
Alignment explanation
Indices: 611539--611847 Score: 304
Period size: 127 Copynumber: 2.4 Consensus size: 128
611529 ATTAAGCCCT
* * *
611539 CATACCATAATTATAAAAATATCATTTTTTATAATTATTTATTATAATACCTCTCCTATGAAATT
1 CATACCATAATTATAAAAATATCATTTCTTATAATTATTTACTATAATA--TCTCCTAAGAAATT
* * **
611604 ACCAAAATACTTTTTTCATTGCTTGATAAGAAACTAACACCTGATCAAATTGATTATCATACTTA
64 ACCAAAATACTTTTTTCATTGCTTAATAAGAAACTAACAACTGATCAAATTGACCATCATACTTA
* * * *
611669 CATACCATAATTATTAAAATATCCATTTGTAATAATTATTTACTATAATATC-GC-AAGAAATTA
1 CATACCATAATTATAAAAATAT-CATTTCTTATAATTATTTACTATAATATCTCCTAAGAAATTA
* * * * *
611732 CCAAAATATCTTTTTT-ATTGTTTAATAAGAAATTGACATAC-GATCAAATTGACCATTATGTCT
65 CCAAAATA-CTTTTTTCATTGCTTAATAAGAAACTAACA-ACTGATCAAATTGACCATCAT-ACT
611795 T-
127 TA
* ** ** **
611796 CGTATTATAATTACGAAAATAATTTTTTTCTTATAATTATTTACTATAATAT
1 CATACCATAATTATAAAAAT-A-TCATTTCTTATAATTATTTACTATAATAT
611848 TCTCATACTA
Statistics
Matches: 149, Mismatches: 24, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
127 64 0.43
128 37 0.25
129 3 0.02
130 21 0.14
131 24 0.16
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.41
Consensus pattern (128 bp):
CATACCATAATTATAAAAATATCATTTCTTATAATTATTTACTATAATATCTCCTAAGAAATTAC
CAAAATACTTTTTTCATTGCTTAATAAGAAACTAACAACTGATCAAATTGACCATCATACTTA
Found at i:612745 original size:129 final size:129
Alignment explanation
Indices: 612546--612842 Score: 310
Period size: 129 Copynumber: 2.3 Consensus size: 129
612536 TTTTTTTTAA
* * * * * *
612546 AAAAATACGATAATAGATT-TACTAAATTATATATTAAATTTTAATATAATATAAAATTAATCAC
1 AAAATTACGATAATA-CTTATATTAAATTACATATTAAATCTTAACATAATATAAAATTAATCAC
* * * * *** * * * * *
612610 ACATTAATTTATTAATATATTTTTGTCATTACTTTATAAAAATTTGACATATGATATTTTATTTT
65 ACATTAAATTACTAAAAAACCCTTGCCATTACTTCATAAAAATTTGACATATGAAATTTTACTTG
* * *
612675 AAAATTACGATAATACCTTA-ATTAAATTACATATGAAATCTTAACATAATATAAAATTAATTAT
1 AAAATTACGATAATA-CTTATATTAAATTACATATTAAATCTTAACATAATATAAAATTAATCAC
* * * *
612739 ATATTAAATTACTAAAAAACCCTTGCCATTGCTTCATAAATATTTGACATATGAAATTTTGCTTG
65 ACATTAAATTACTAAAAAACCCTTGCCATTACTTCATAAAAATTTGACATATGAAATTTTACTTG
* * *
612804 AAATTTACTATAATACTTATATTAAATTACTTATTAAAT
1 AAAATTACGATAATACTTATATTAAATTACATATTAAAT
612843 GTTCAATAAC
Statistics
Matches: 136, Mismatches: 30, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
128 4 0.03
129 132 0.97
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.42
Consensus pattern (129 bp):
AAAATTACGATAATACTTATATTAAATTACATATTAAATCTTAACATAATATAAAATTAATCACA
CATTAAATTACTAAAAAACCCTTGCCATTACTTCATAAAAATTTGACATATGAAATTTTACTTG
Found at i:613000 original size:61 final size:61
Alignment explanation
Indices: 612930--613062 Score: 169
Period size: 61 Copynumber: 2.2 Consensus size: 61
612920 GTATACAAAT
* * * * *
612930 TTATTATAAT-GCATTTCTATCATAATTATAAAAATATCTCTCTTTTTATAATTAGCTAAAA
1 TTATTATAATAGCA-TCCTATCATAATTATAAAAATACCTATCCTATTATAATTAGCTAAAA
* * *
612991 TTATTATAATATCATCCTATCATAATTATAAAAATGCCTATCCTATTATAATTAGTTAAAA
1 TTATTATAATAGCATCCTATCATAATTATAAAAATACCTATCCTATTATAATTAGCTAAAA
*
613052 TTACTATAATA
1 TTATTATAATA
613063 CCTTTTATAT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
61 60 0.97
62 2 0.03
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (61 bp):
TTATTATAATAGCATCCTATCATAATTATAAAAATACCTATCCTATTATAATTAGCTAAAA
Found at i:616868 original size:25 final size:25
Alignment explanation
Indices: 616818--616870 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
616808 AAATTAAAAA
*
616818 TTAATTTTAAAATTTTTTAAATATT
1 TTAATTTTAAAATATTTTAAATATT
*
616843 TTAATTTTAAAATAATTTTATA-ATT
1 TTAATTTTAAAAT-ATTTTAAATATT
616868 TTA
1 TTA
616871 CTCAAATAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
TTAATTTTAAAATATTTTAAATATT
Found at i:617488 original size:34 final size:33
Alignment explanation
Indices: 617416--617523 Score: 98
Period size: 34 Copynumber: 3.3 Consensus size: 33
617406 ATATTTTTTA
* *
617416 TATTAATATAAT-A-GTT-AATATTAAATAATAT
1 TATTAATATAATAATTTTGAATATT-AATAATTT
*
617447 TATTAATATAATTATTCTTGAATATTAATAATTT
1 TATTAATATAATAATT-TTGAATATTAATAATTT
* * *
617481 TAATAATA-AATAATTTTTAATATTTTAATAATTA
1 TATTAATATAATAATTTTGAATA--TTAATAATTT
617515 TATTAATAT
1 TATTAATAT
617524 TAAAAAAACA
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
31 12 0.19
32 7 0.11
33 6 0.10
34 32 0.51
35 6 0.10
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (33 bp):
TATTAATATAATAATTTTGAATATTAATAATTT
Found at i:617494 original size:16 final size:16
Alignment explanation
Indices: 617430--617502 Score: 58
Period size: 17 Copynumber: 4.4 Consensus size: 16
617420 AATATAATAG
* *
617430 TTAATATTAAATAATA
1 TTAATAATAAATAATT
* *
617446 TTATTAATATAATTATT
1 TTAATAATA-AATAATT
*
617463 CTTGAAT-ATTAATAATT
1 -TT-AATAATAAATAATT
617480 TTAATAATAAATAATTT
1 TTAATAATAAATAA-TT
617497 TTAATA
1 TTAATA
617503 TTTTAATAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
15 3 0.07
16 16 0.36
17 19 0.43
18 4 0.09
19 2 0.05
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (16 bp):
TTAATAATAAATAATT
Found at i:620832 original size:32 final size:31
Alignment explanation
Indices: 620771--620834 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
620761 GATAATTATG
*
620771 ATTAATAAATGATATTTTAAATATAATATTA
1 ATTAATAAATGATAATTTAAATATAATATTA
* * *
620802 ATTAATAAATTTATAATTTAATTATCATATTA
1 ATTAATAAA-TGATAATTTAAATATAATATTA
620834 A
1 A
620835 AAAAATTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 9 0.32
32 19 0.68
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (31 bp):
ATTAATAAATGATAATTTAAATATAATATTA
Found at i:620851 original size:17 final size:18
Alignment explanation
Indices: 620831--620865 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
620821 AATTATCATA
*
620831 TTAAAAAA-ATTTTAAAT
1 TTAAAAAATATATTAAAT
620848 TTAAAAAATATATTAAAT
1 TTAAAAAATATATTAAAT
620866 ATTTTATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAAAAAATATATTAAAT
Found at i:623509 original size:12 final size:12
Alignment explanation
Indices: 623491--623520 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
623481 ATCAATGAAT
623491 AAATTATTTTAA
1 AAATTATTTTAA
*
623503 TAATTATTTTAA
1 AAATTATTTTAA
623515 AAATTA
1 AAATTA
623521 ATATTTACTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AAATTATTTTAA
Found at i:623551 original size:25 final size:24
Alignment explanation
Indices: 623523--623577 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
623513 AAAAATTAAT
623523 ATTTACTCATTAATTAAT-TATCATA
1 ATTTACTCATTAA-TAATATAT-ATA
* *
623548 ATTTAATTCATTGATAATATATATA
1 ATTT-ACTCATTAATAATATATATA
623573 ATTTA
1 ATTTA
623578 TATATTAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 1 0.04
25 15 0.58
26 10 0.38
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (24 bp):
ATTTACTCATTAATAATATATATA
Found at i:633573 original size:90 final size:90
Alignment explanation
Indices: 633376--633588 Score: 302
Period size: 90 Copynumber: 2.4 Consensus size: 90
633366 TTTCAATTGA
* * * * *
633376 TCCAGTATATGGGAATCGGCTTCCATATCTTTGAATTTATCCAACATGGATTCCATATCCTCAAT
1 TCCAGTCTATGGGACTCGGCCTCCATATCCTTGAATTTATCCAACATGGATTCCATATCCCCAAT
633441 TTCTCCATACTTGGATTTCATTAGT
66 TTCTCCATACTTGGATTTCATTAGT
* * *
633466 TCCAGTCTATGGCACTCGGCCTCCATATCCTTGAATTTATCCAAGATGGATTCCATTTCCCCAAT
1 TCCAGTCTATGGGACTCGGCCTCCATATCCTTGAATTTATCCAACATGGATTCCATATCCCCAAT
633531 TTCTCCATACTTGGATTTCATTAGT
66 TTCTCCATACTTGGATTTCATTAGT
* * * *
633556 TTCAGTTTCTGGGACTCGACCTCCA-ATTCCTTG
1 TCCAGTCTATGGGACTCGGCCTCCATA-TCCTTG
633589 TCATTCACAT
Statistics
Matches: 109, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
89 1 0.01
90 108 0.99
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.38
Consensus pattern (90 bp):
TCCAGTCTATGGGACTCGGCCTCCATATCCTTGAATTTATCCAACATGGATTCCATATCCCCAAT
TTCTCCATACTTGGATTTCATTAGT
Found at i:634394 original size:3 final size:3
Alignment explanation
Indices: 634386--634429 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
634376 TTAGGATTAC
*
634386 CTT CTT CTT CTT CTT CTT CTT CTT CCT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
634430 CCTAGCGAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:637422 original size:21 final size:21
Alignment explanation
Indices: 637384--637423 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
637374 GAGATATATT
*
637384 TTTTATTTTATTTTTATTAAA
1 TTTTATTTTATTTATATTAAA
637405 TTTTATTATT-TTTATATTA
1 TTTTATT-TTATTTATATTA
637424 TATTATTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTATTTTATTTATATTAAA
Found at i:637427 original size:16 final size:16
Alignment explanation
Indices: 637380--637430 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
637370 AATCGAGATA
637380 TATTTTT-TATTTTAT
1 TATTTTTATATTTTAT
*
637395 T-TTTATTAAATTTTAT
1 TATTT-TTATATTTTAT
*
637411 TATTTTTATATTATAT
1 TATTTTTATATTTTAT
637427 TATT
1 TATT
637431 GTATTATGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 3 0.10
15 3 0.10
16 21 0.70
17 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TATTTTTATATTTTAT
Found at i:637785 original size:22 final size:21
Alignment explanation
Indices: 637760--637837 Score: 54
Period size: 22 Copynumber: 3.5 Consensus size: 21
637750 TATTTTTTTA
637760 ATAAATAATATTTTAATTAAAT
1 ATAAATAATATTTT-ATTAAAT
637782 ATAAA-AATGATTATT-TTAAAT
1 ATAAATAAT-ATT-TTATTAAAT
*
637803 -TAATTAAATATTTTTATTTAAAAT
1 ATAAAT-AATA-TTTTA-TT-AAAT
*
637827 ATTAATAATAT
1 ATAAATAATAT
637838 ATATATACAA
Statistics
Matches: 44, Mismatches: 3, Indels: 17
0.69 0.05 0.27
Matches are distributed among these distances:
20 3 0.07
21 12 0.27
22 13 0.30
23 5 0.11
24 8 0.18
25 3 0.07
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (21 bp):
ATAAATAATATTTTATTAAAT
Found at i:640977 original size:28 final size:29
Alignment explanation
Indices: 640920--640977 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
640910 CAGAAAAAAA
* *
640920 TAAAAATAAAAAGAAAGAAAAACCTCTTC
1 TAAAAATAAAAAGAAAGAAAAAACTATTC
640949 TAAAGAATAAAAA-AAA-AAAAAACTATTC
1 TAAA-AATAAAAAGAAAGAAAAAACTATTC
640977 T
1 T
640978 CAGGTGAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 11 0.42
29 7 0.27
30 8 0.31
ACGTcount: A:0.66, C:0.10, G:0.05, T:0.19
Consensus pattern (29 bp):
TAAAAATAAAAAGAAAGAAAAAACTATTC
Found at i:645542 original size:18 final size:18
Alignment explanation
Indices: 645518--645561 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
645508 AATTTGACTT
*
645518 TTATTTTGTA-TTTTATA
1 TTATTTTTTATTTTTATA
*
645535 TTATTTTTTATTTTTATT
1 TTATTTTTTATTTTTATA
645553 TTATTTTTT
1 TTATTTTTT
645562 TCCTTTGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (18 bp):
TTATTTTTTATTTTTATA
Found at i:645560 original size:12 final size:12
Alignment explanation
Indices: 645516--645561 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
645506 CCAATTTGAC
*
645516 TTTTATTTTGTA
1 TTTTATTTTTTA
*
645528 TTTTATATTATT-
1 TTTTAT-TTTTTA
645540 TTTTA-TTTTTA
1 TTTTATTTTTTA
645551 TTTTATTTTTT
1 TTTTATTTTTT
645562 TCCTTTGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
10 4 0.14
11 5 0.18
12 16 0.57
13 3 0.11
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:645685 original size:3 final size:3
Alignment explanation
Indices: 645677--645718 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
645667 AGTTATATCT
*
645677 TTA TTA TTA -TA TTA TAA TTGA TTTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT-A -TTA TTA TTA TTA TTA TTA TT
645719 TTTTATCTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 28 0.82
4 2 0.06
5 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:645702 original size:19 final size:18
Alignment explanation
Indices: 645680--645724 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
645670 TATATCTTTA
645680 TTATTATATTATAATTGAT
1 TTATTATATTATAATT-AT
*
645699 TTATTATTATTATTATTAT
1 TTATTA-TATTATAATTAT
*
645718 TTTTTAT
1 TTATTAT
645725 CTTGTAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.04
19 13 0.57
20 9 0.39
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TTATTATATTATAATTAT
Found at i:645807 original size:20 final size:20
Alignment explanation
Indices: 645778--645824 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
645768 TGTTAATTTC
*
645778 TTTTTATTCGTTTATCTGAT
1 TTTTTTTTCGTTTATCTGAT
645798 TTTTTTTTCGTTTATCTGAT
1 TTTTTTTTCGTTTATCTGAT
645818 TTCTTTT
1 TT-TTTT
645825 GTTTTTCTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.11, C:0.11, G:0.09, T:0.70
Consensus pattern (20 bp):
TTTTTTTTCGTTTATCTGAT
Found at i:646652 original size:4 final size:4
Alignment explanation
Indices: 646643--646672 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
646633 TTCCAAGTTT
646643 TTTA TTTA TTTA TTTA TTTA -TTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
646673 TTATTAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:646714 original size:11 final size:11
Alignment explanation
Indices: 646700--646796 Score: 69
Period size: 11 Copynumber: 8.8 Consensus size: 11
646690 TTTAATATTC
*
646700 TTTTATCTTTA
1 TTTTATTTTTA
646711 TTTTATTTTTA
1 TTTTATTTTTA
646722 TTTT-TGTTTTA
1 TTTTAT-TTTTA
* *
646733 CTTT-TCTTTA
1 TTTTATTTTTA
646743 TTTTTATTTTTA
1 -TTTTATTTTTA
646755 --TT-TTTTTA
1 TTTTATTTTTA
*
646763 TTTTCACTTTTA
1 TTTT-ATTTTTA
*
646775 TTTTGTTTTATTA
1 TTTT-ATTT-TTA
646788 TTTTATTTT
1 TTTTATTTT
646797 CTTTAAATAA
Statistics
Matches: 68, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
8 6 0.09
9 2 0.03
10 7 0.10
11 27 0.40
12 19 0.28
13 7 0.10
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.78
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:646717 original size:5 final size:5
Alignment explanation
Indices: 646686--646796 Score: 61
Period size: 5 Copynumber: 21.6 Consensus size: 5
646676 TTAGATTAGG
* * * *
646686 TTTAT TTAAT ATTCT TTTAT CTTTAT TTTATT TTTATT TTTGT TTTACT
1 TTTAT TTTAT TTTAT TTTAT -TTTAT TTTA-T TTTA-T TTTAT TTTA-T
* *
646735 TTT-C TTTATT TTTAT TTT-T ATTT-T TTTAT TTTCACT TTTAT TTTGT
1 TTTAT TTTA-T TTTAT TTTAT -TTTAT TTTAT TTT-A-T TTTAT TTTAT
646781 TTTA- -TTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTT
646797 CTTTAAATAA
Statistics
Matches: 83, Mismatches: 12, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
3 3 0.04
4 7 0.08
5 44 0.53
6 25 0.30
7 4 0.05
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:646720 original size:6 final size:6
Alignment explanation
Indices: 646700--646796 Score: 65
Period size: 6 Copynumber: 15.5 Consensus size: 6
646690 TTTAATATTC
* * *
646700 TTTTAT CTTTA- TTTTAT TTTTAT TTTTGT TTTACTTT TCTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT--TAT T-TTTAT TTTTAT
* *
646750 TTTTATTT TTTTAT TTTCAC TTTTAT TTTGT-T TTATTA- TTTTAT TTT
1 TTTTA--T TTTTAT TTTTAT TTTTAT TTT-TAT TT-TTAT TTTTAT TTT
646797 CTTTAAATAA
Statistics
Matches: 72, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
5 7 0.10
6 49 0.68
7 5 0.07
8 9 0.12
9 2 0.03
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:646744 original size:21 final size:20
Alignment explanation
Indices: 646695--646801 Score: 82
Period size: 20 Copynumber: 5.5 Consensus size: 20
646685 GTTTATTTAA
* *
646695 TATTCTTTTATCTTTA-TTT
1 TATTTTTTTATTTTTAGTTT
646714 TA--TTTTTATTTTT-GTTT
1 TATTTTTTTATTTTTAGTTT
*
646731 TACTTTTCTTTATTTTTATTTT
1 TA-TTTT-TTTATTTTTAGTTT
* *
646753 TATTTTTTTATTTTCACTTT
1 TATTTTTTTATTTTTAGTTT
* *
646773 TATTTTGTT-TTATTA-TTT
1 TATTTTTTTATTTTTAGTTT
646791 TATTTTCTTTA
1 TATTTT-TTTA
646802 AATAAAATCC
Statistics
Matches: 71, Mismatches: 9, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
17 14 0.20
18 9 0.13
19 8 0.11
20 22 0.31
21 13 0.18
22 5 0.07
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.77
Consensus pattern (20 bp):
TATTTTTTTATTTTTAGTTT
Found at i:646751 original size:59 final size:59
Alignment explanation
Indices: 646686--646801 Score: 141
Period size: 59 Copynumber: 2.0 Consensus size: 59
646676 TTAGATTAGG
*
646686 TTTATTTAATATTCTTTTATCTTT-A-TTTTATTTT-TATTT-TTGTTTTACTTTTCTTTATT
1 TTTATTT-ATATTCTTTTAT-TTTCACTTTTATTTTGT-TTTATTATTTTA-TTTTCTTTATT
* *
646745 TTTATTTTTATTTTTTTATTTTCACTTTTATTTTGTTTTATTATTTTATTTTCTTTA
1 TTTATTTATATTCTTTTATTTTCACTTTTATTTTGTTTTATTATTTTATTTTCTTTA
646802 AATAAAATCC
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
57 3 0.06
58 11 0.22
59 28 0.56
60 8 0.16
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (59 bp):
TTTATTTATATTCTTTTATTTTCACTTTTATTTTGTTTTATTATTTTATTTTCTTTATT
Found at i:646873 original size:58 final size:58
Alignment explanation
Indices: 646811--647441 Score: 636
Period size: 58 Copynumber: 10.7 Consensus size: 58
646801 AAATAAAATC
646811 CAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
1 CAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
* * *
646869 CAAAAAAA-AGTTTTTTAGGG--AAAGTTGAAAGTATCAATTTCTC-TAGAAATTAAAGTTT
1 CAAAAAAATA--TTTTT-GGGAAAAAGTTGAAAGTATCAATTTTTCTTA-AAAATAAATTTT
* *
646927 CCAAAAAATATTTTTGGGGAAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTT
1 CAAAAAAATATTTTT-GGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
** ** ** *
646986 C-AAAAAAGGTTTTTGAGG-AAAAGTTGAAAGTATCAATTTCCCTCGAAATTAAAGTTTT
1 CAAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTT
* * *
647044 CAAAAAAATATTTTTTGGGGAAAAGTTGAAGGTATCAATTTTCCTTAAAAATAAATTTT
1 CAAAAAAATA-TTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
* * *
647103 CAAAAAAA-GTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAA-AAATTTT
1 CAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCT-TAAA--AATAAATTTT
* * * **
647162 TAAAAAAATATTTTTGGAAAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTAA
1 CAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
* * * * ** * *
647220 AAAAAAAAGATTTTTGAGG-AAAAGTTGAAAATATCAATTTTCCTCGAAATTAAAAGTTTC
1 CAAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAA-TTTT
*
647280 CAAAAAAATATTTTT-GGAGAAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAATTTT
1 CAAAAAAATATTTTTGGGA-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
* * ** * *
647338 CAAAAAAAATAAAATTTTGAGG-AAAAGTTGAAAGTATTAATTTTTCTCGAAATTAAAGTTT
1 C-AAAAAAAT--ATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
* ** *
647399 CAAAATAATATTTTTGAAAAAAAGTTGAAAGTATCATTTTTTC
1 CAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTC
647442 CTGCACAAGA
Statistics
Matches: 473, Mismatches: 71, Indels: 58
0.79 0.12 0.10
Matches are distributed among these distances:
57 73 0.15
58 147 0.31
59 90 0.19
60 122 0.26
61 39 0.08
63 2 0.00
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (58 bp):
CAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
Found at i:646959 original size:117 final size:116
Alignment explanation
Indices: 646813--647441 Score: 840
Period size: 117 Copynumber: 5.4 Consensus size: 116
646803 ATAAAATCCA
646813 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAA
1 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAA
* * *
646878 GTTTTTTAGGGAAAGTTGAAAGTATCAATTTCTCTAGAAATTAAAGTTTCC
66 GTTTTTGAGGAAAAGTTGAAAGTATCAATTTCTCTCGAAATTAAAGTTTCC
*
646929 AAAAAATATTTTTGGGGAAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTC-AAAAAA
1 AAAAAATATTTTT-GGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAA
* * *
646993 GGTTTTTGAGGAAAAGTTGAAAGTATCAATTTCCCTCGAAATTAAAGTTTTCA
65 AGTTTTTGAGGAAAAGTTGAAAGTATCAATTTCTCTCGAAATTAAAG-TTTCC
* * *
647046 AAAAAATATTTTTTGGGGAAAAGTTGAAGGTATCAATTTTCCTTAAAAATAAATTTTC-AAAAAA
1 AAAAAATA-TTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAA
* * * **
647110 AGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAAATTTTTA
65 AGTTTTTGAGGAAAAGTTGAAAGTATCAATTTCTCTCGAAATT--AAAGTTTCC
* * **
647164 AAAAAATATTTTTGGAAAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAA-TTAAAAAAAAAA
1 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAA
*
647228 GATTTTTGAGGAAAAGTTGAAAATATCAATTT-TCCTCGAAATTAAAAGTTTCC
66 G-TTTTTGAGGAAAAGTTGAAAGTATCAATTTCT-CTCGAAATT-AAAGTTTCC
*
647281 AAAAAAATATTTTT-GGAGAAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAATTTTCAAAAAA
1 -AAAAAATATTTTTGGGA-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAA
* *
647345 AA-TAAAATTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTCGAAATTAAAGTTT-C
64 AAGT----TTTTGAGGAAAAGTTGAAAGTATCAATTTCTCTCGAAATTAAAGTTTCC
** *
647400 AAAATAATATTTTTGAAAAAAAGTTGAAAGTATCATTTTTTC
1 AAAA-AATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTC
647442 CTGCACAAGA
Statistics
Matches: 455, Mismatches: 40, Indels: 33
0.86 0.08 0.06
Matches are distributed among these distances:
116 63 0.14
117 198 0.44
118 104 0.23
119 45 0.10
120 8 0.02
121 36 0.08
122 1 0.00
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (116 bp):
AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAA
GTTTTTGAGGAAAAGTTGAAAGTATCAATTTCTCTCGAAATTAAAGTTTCC
Found at i:647484 original size:10 final size:10
Alignment explanation
Indices: 647471--647496 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
647461 CTTTTCTTCC
647471 TTTTTTTATT
1 TTTTTTTATT
647481 TTTTTTTATT
1 TTTTTTTATT
647491 TTTTTT
1 TTTTTT
647497 GTTTATGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:648347 original size:21 final size:21
Alignment explanation
Indices: 648321--648365 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
648311 TTGATGATCC
*
648321 TCAGCTCATTTAACTCACTCT
1 TCAGCTCATTCAACTCACTCT
648342 TCAGCTCATTCAACTCACTCT
1 TCAGCTCATTCAACTCACTCT
648363 TCA
1 TCA
648366 TTTGCACACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.36, G:0.04, T:0.36
Consensus pattern (21 bp):
TCAGCTCATTCAACTCACTCT
Found at i:652133 original size:20 final size:20
Alignment explanation
Indices: 652110--652147 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
652100 CAAATCAAAT
652110 TATATATTTTAAAATTTTTA
1 TATATATTTTAAAATTTTTA
*
652130 TATATTTTTTAAAATTTT
1 TATATATTTTAAAATTTT
652148 ATAAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TATATATTTTAAAATTTTTA
Found at i:652224 original size:17 final size:17
Alignment explanation
Indices: 652202--652250 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
652192 ATTAAAATTT
652202 TATATTAAAATAATATA
1 TATATTAAAATAATATA
652219 TATATTAAAATAAT-TA
1 TATATTAAAATAATATA
* *
652235 AAAATTAAAAATAATA
1 TATATT-AAAATAATA
652251 AATCAAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 6 0.21
17 22 0.79
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TATATTAAAATAATATA
Found at i:652839 original size:31 final size:31
Alignment explanation
Indices: 652804--652862 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
652794 AAAAATCTTA
*
652804 TTTATTAATAAAATGATATCATTTAATTGAT
1 TTTATTAATAAAATAATATCATTTAATTGAT
*
652835 TTTATTAATAAAATAATATTATTTAATT
1 TTTATTAATAAAATAATATCATTTAATT
652863 TATTAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (31 bp):
TTTATTAATAAAATAATATCATTTAATTGAT
Found at i:658970 original size:17 final size:17
Alignment explanation
Indices: 658945--658981 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
658935 CTTTCATGAT
*
658945 ACAATTCAATTAATTTG
1 ACAACTCAATTAATTTG
658962 ACAACTCAATTAATTTG
1 ACAACTCAATTAATTTG
658979 ACA
1 ACA
658982 TCTGTGTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.35
Consensus pattern (17 bp):
ACAACTCAATTAATTTG
Found at i:661388 original size:19 final size:19
Alignment explanation
Indices: 661353--661390 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
661343 GCAAAAATAC
661353 TAAAAAAAACACATAAAAA
1 TAAAAAAAACACATAAAAA
*
661372 TAAATAAAAATAC-TAAAAA
1 TAAA-AAAAACACATAAAAA
661391 AAACCAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (19 bp):
TAAAAAAAACACATAAAAA
Found at i:661787 original size:9 final size:8
Alignment explanation
Indices: 661771--661798 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
661761 ACTCAACACC
661771 TATTTTTT
1 TATTTTTT
661779 TATTTTTT
1 TATTTTTT
661787 TATTTTTT
1 TATTTTTT
661795 TATT
1 TATT
661799 AGCAAAACTC
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:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
TATTTTTT
Found at i:665274 original size:63 final size:63
Alignment explanation
Indices: 665204--665473 Score: 246
Period size: 63 Copynumber: 4.3 Consensus size: 63
665194 TAATCTCATC
* * *
665204 TAATTTTTTAGAGAGGATTATTAAAAGTATTTTTTGTCCAAAAACATATTCAATAATCCCTTT
1 TAATTTTTTAGAGAGGATTATTAAAAGCATTTTTTGGCCAAAAACACATTCAATAATCCCTTT
* * * ** * * * *
665267 TAATTTTTTAGAGTGGATTATTGAAGGCA-TTTCAGGCAAAAAACGCCTTCAATAATCCCTTC
1 TAATTTTTTAGAGAGGATTATTAAAAGCATTTTTTGGCCAAAAACACATTCAATAATCCCTTT
* * ** * * * *
665329 CAATTTTTTAGAGGGGATTATTAATTGCATTTTTTGGCCAAAAATACCTTAAATAATCTCTTT
1 TAATTTTTTAGAGAGGATTATTAAAAGCATTTTTTGGCCAAAAACACATTCAATAATCCCTTT
* * * * *
665392 TTATTTTTTATGAGAGGATTATTAAAAGC-GTTTTT---AAAAAATACCTTCAATAATCCCTTT
1 TAATTTTTTA-GAGAGGATTATTAAAAGCATTTTTTGGCCAAAAACACATTCAATAATCCCTTT
*
665452 CAATTTTTTATGAG-GGATTATT
1 TAATTTTTTA-GAGAGGATTATT
665474 GAAGGTGTTT
Statistics
Matches: 169, Mismatches: 36, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
59 8 0.05
60 34 0.20
62 49 0.29
63 63 0.37
64 15 0.09
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (63 bp):
TAATTTTTTAGAGAGGATTATTAAAAGCATTTTTTGGCCAAAAACACATTCAATAATCCCTTT
Found at i:665322 original size:62 final size:62
Alignment explanation
Indices: 665252--665508 Score: 238
Period size: 62 Copynumber: 4.2 Consensus size: 62
665242 CAAAAACATA
* **
665252 TTCAATAATCCCTTTTAATTTTTTA-GAGTGGATTATTGAAGGCATTTCAGGCAAAAAACGCC
1 TTCAATAATCCCTTTCAATTTTTTATGAG-GGATTATTGAAGGCATTTCAGGCAAAAAATACC
* * ** *
665314 TTCAATAATCCCTTCCAATTTTTTA-GAGGGGATTATT-AATTGCATTTTTTGGCCAAAAATACC
1 TTCAATAATCCCTTTCAATTTTTTATGA-GGGATTATTGAA-GGCA-TTTCAGGCAAAAAATACC
* * ** * * * **
665377 TTAAATAATCTCTTTTTATTTTTTATGAGAGGATTATTAAAAGCGTTT---TTAAAAAATACC
1 TTCAATAATCCCTTTCAATTTTTTATGAG-GGATTATTGAAGGCATTTCAGGCAAAAAATACC
** *
665437 TTCAATAATCCCTTTCAATTTTTTATGAGGGATTATTGAAGGTGTTTCAGGTAAAAAATACC
1 TTCAATAATCCCTTTCAATTTTTTATGAGGGATTATTGAAGGCATTTCAGGCAAAAAATACC
*
665499 TTGAATAATC
1 TTCAATAATC
665509 TGCTAATAAA
Statistics
Matches: 159, Mismatches: 27, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
59 15 0.09
60 34 0.21
61 2 0.01
62 56 0.35
63 38 0.24
64 12 0.08
65 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (62 bp):
TTCAATAATCCCTTTCAATTTTTTATGAGGGATTATTGAAGGCATTTCAGGCAAAAAATACC
Found at i:665855 original size:41 final size:41
Alignment explanation
Indices: 665810--665889 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
665800 TCAAAAATAC
** * * *
665810 CTTCAATAATTTTTTACAATTTTTTAGGGGAATTATTGACA
1 CTTCAATAATCCTCTACAATTTTTTAGGAGAACTATTGACA
665851 CTTCAATAATCCTCTACAATTTTTTAGGAGAACTATTGA
1 CTTCAATAATCCTCTACAATTTTTTAGGAGAACTATTGA
665890 ATGCATTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (41 bp):
CTTCAATAATCCTCTACAATTTTTTAGGAGAACTATTGACA
Found at i:667352 original size:20 final size:20
Alignment explanation
Indices: 667329--667367 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
667319 TTTATTTATT
*
667329 ATTTTTATATTATGTTTAAA
1 ATTTTCATATTATGTTTAAA
*
667349 ATTTTCATATTTTGTTTAA
1 ATTTTCATATTATGTTTAA
667368 GGTTCAAACT
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:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (20 bp):
ATTTTCATATTATGTTTAAA
Found at i:667653 original size:28 final size:27
Alignment explanation
Indices: 667596--667651 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 27
667586 ACATTCTAAC
* *
667596 ATTAATTAATAAATTTATAATTTAAAA
1 ATTAATTAAAAAATTTAAAATTTAAAA
667623 ATTACATTAAAAATATTTAAAATTTAAAA
1 ATTA-ATTAAAAA-ATTTAAAATTTAAAA
667652 TTCAAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.16
28 7 0.28
29 14 0.56
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (27 bp):
ATTAATTAAAAAATTTAAAATTTAAAA
Found at i:678713 original size:2 final size:2
Alignment explanation
Indices: 678706--678737 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
678696 AGAAAATGTC
*
678706 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
678738 GTACATGCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:682096 original size:2 final size:2
Alignment explanation
Indices: 682089--682121 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
682079 CATAGAACAA
*
682089 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
682122 GTGTGTGCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:686404 original size:33 final size:34
Alignment explanation
Indices: 686365--686435 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 34
686355 TATTTGCCTT
*
686365 AATTTA-TATATGCCACATTATCAT-TCTTAATGC
1 AATTTATTATATGCCACAGTATCATCT-TTAATGC
* *
686398 AATTTATTTATATGCCCCAGTGTCATCTTTAATGC
1 AATTTA-TTATATGCCACAGTATCATCTTTAATGC
686433 AAT
1 AAT
686436 CTGCATCAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 6 0.19
35 25 0.78
36 1 0.03
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.42
Consensus pattern (34 bp):
AATTTATTATATGCCACAGTATCATCTTTAATGC
Found at i:691160 original size:6 final size:6
Alignment explanation
Indices: 691149--691177 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
691139 ATTGCTTGCA
691149 GCAGCC GCAGCC GCAGCC GCAGCC GCAGC
1 GCAGCC GCAGCC GCAGCC GCAGCC GCAGC
691178 TGCTGCTGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.48, G:0.34, T:0.00
Consensus pattern (6 bp):
GCAGCC
Found at i:691731 original size:3 final size:3
Alignment explanation
Indices: 691725--691763 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
691715 TCCTCCTCCT
* * *
691725 CCA CCA CCA CCA CCA CCA CCA CCA ACA TCA CCA TCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
691764 TCACAAGCAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.36, C:0.59, G:0.00, T:0.05
Consensus pattern (3 bp):
CCA
Found at i:691765 original size:12 final size:12
Alignment explanation
Indices: 691729--691767 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
691719 CCTCCTCCAC
*
691729 CACCACCACCAC
1 CACCACCACCAT
*
691741 CACCACCAACAT
1 CACCACCACCAT
*
691753 CACCATCACCAT
1 CACCACCACCAT
691765 CAC
1 CAC
691768 AAGCACTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.36, C:0.56, G:0.00, T:0.08
Consensus pattern (12 bp):
CACCACCACCAT
Found at i:693202 original size:2 final size:2
Alignment explanation
Indices: 693195--693219 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
693185 ATTCTGTGAC
693195 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 T
693220 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:705726 original size:2 final size:2
Alignment explanation
Indices: 705719--705752 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
705709 TTATTTTCAA
* *
705719 AT AT AT AT AT AT AT AT AT AA AT AT AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
705753 GCAACTTTGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:713497 original size:2 final size:2
Alignment explanation
Indices: 713490--713525 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
713480 AACTTTAGTG
713490 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
713526 CATCTTCCAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:713621 original size:47 final size:49
Alignment explanation
Indices: 713570--713670 Score: 134
Period size: 47 Copynumber: 2.1 Consensus size: 49
713560 TTTGGGAGTT
* *
713570 TATCCATTCGACAATAGTATTGAT-AAAGAT-AAAGGAAAATGATATGA
1 TATCCATTCGACAATAATATTGATCAAAAATAAAAGGAAAATGATATGA
* *
713617 TATCCATTCGATAATAATATTGATCACAAAAATAAAAGGAAAATGATGTGA
1 TATCCATTCGACAATAATATTGAT--CAAAAATAAAAGGAAAATGATATGA
713668 TAT
1 TAT
713671 TTAATTTAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
47 22 0.48
50 5 0.11
51 19 0.41
ACGTcount: A:0.48, C:0.09, G:0.15, T:0.29
Consensus pattern (49 bp):
TATCCATTCGACAATAATATTGATCAAAAATAAAAGGAAAATGATATGA
Found at i:719240 original size:2 final size:2
Alignment explanation
Indices: 719233--719258 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
719223 CAAAGTGGCA
719233 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
719259 TGTAGTTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:719479 original size:24 final size:25
Alignment explanation
Indices: 719435--719482 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
719425 AAATTTAAAT
*
719435 CTCAATATTTATAATTTTTTTTATC
1 CTCAATATTTATAATTCTTTTTATC
719460 CTCAA-ATTT-TAATCTCTTTTTAT
1 CTCAATATTTATAAT-TCTTTTTAT
719483 TTAAAACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 12 0.57
25 5 0.24
ACGTcount: A:0.27, C:0.15, G:0.00, T:0.58
Consensus pattern (25 bp):
CTCAATATTTATAATTCTTTTTATC
Found at i:722031 original size:2 final size:2
Alignment explanation
Indices: 722024--722065 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
722014 GTTGTGTCCG
722024 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
722065 A
1 A
722066 GGCTGTGACC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:732113 original size:29 final size:29
Alignment explanation
Indices: 732058--732113 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
732048 AGCATAGATA
* *
732058 ATAAGAGCGAGGAAGACTTTTGGTGTTTG
1 ATAAGAGCGAGGAAGACTTTCGATGTTTG
732087 ATAAGAG-GTAGGAAGACTTTCGATGTT
1 ATAAGAGCG-AGGAAGACTTTCGATGTT
732114 GATCATTTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 23 0.96
ACGTcount: A:0.30, C:0.07, G:0.32, T:0.30
Consensus pattern (29 bp):
ATAAGAGCGAGGAAGACTTTCGATGTTTG
Found at i:740288 original size:1 final size:1
Alignment explanation
Indices: 740282--740306 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
740272 ATTGTGAGAG
740282 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
740307 GCTTATTCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:742595 original size:7 final size:7
Alignment explanation
Indices: 742579--742610 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
742569 TTTAGCATCC
742579 AAAGGAG
1 AAAGGAG
*
742586 AAAAGAG
1 AAAGGAG
742593 AAAGGAG
1 AAAGGAG
742600 AAAGGAG
1 AAAGGAG
742607 AAAG
1 AAAG
742611 TTTGCTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (7 bp):
AAAGGAG
Found at i:746832 original size:21 final size:21
Alignment explanation
Indices: 746795--746854 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
746785 TAAAAATTAA
746795 ATAATATATTTTATATTTA-AT
1 ATAATA-ATTTTATATTTAGAT
* *
746816 ATATTGA-TTTATATATTAGAT
1 ATAATAATTTTATAT-TTAGAT
746837 ATAATAATTTTTATATTT
1 ATAATAA-TTTTATATTT
746855 TATACAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
19 7 0.23
20 4 0.13
21 11 0.35
22 2 0.06
23 7 0.23
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
ATAATAATTTTATATTTAGAT
Found at i:747727 original size:18 final size:20
Alignment explanation
Indices: 747704--747744 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
747694 TTGAAGAGGG
*
747704 AAATTAATG-AAG-AAAGAA
1 AAATTAAAGAAAGTAAAGAA
747722 AAATTAAAGAAAGTAAAGAA
1 AAATTAAAGAAAGTAAAGAA
747742 AAA
1 AAA
747745 AAATTTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 3 0.15
20 9 0.45
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (20 bp):
AAATTAAAGAAAGTAAAGAA
Found at i:754428 original size:3 final size:3
Alignment explanation
Indices: 754422--754449 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
754412 GATGATAAAA
754422 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
754450 GTAGGGCAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:757894 original size:35 final size:35
Alignment explanation
Indices: 757838--757907 Score: 81
Period size: 35 Copynumber: 2.0 Consensus size: 35
757828 TATGAAATAT
* * *
757838 TTTCAACTCAAACAAATACATA-TCAATGTGCACTC
1 TTTCAACACAAACAAACACATACTC-ATATGCACTC
757873 TTTCAACAC-AACTAAACACATACTCATATGCACTC
1 TTTCAACACAAAC-AAACACATACTCATATGCACTC
757908 ATACATTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
34 3 0.10
35 25 0.83
36 2 0.07
ACGTcount: A:0.40, C:0.29, G:0.04, T:0.27
Consensus pattern (35 bp):
TTTCAACACAAACAAACACATACTCATATGCACTC
Found at i:761763 original size:2 final size:2
Alignment explanation
Indices: 761758--761802 Score: 74
Period size: 2 Copynumber: 22.5 Consensus size: 2
761748 TTCATGTGTG
761758 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TGA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
761800 TA T
1 TA T
761803 TGAAATGTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.02
2 38 0.93
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:764743 original size:18 final size:18
Alignment explanation
Indices: 764703--764744 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
764693 ACAACAAATC
*
764703 ATAATTATTAATTTTGTT
1 ATAATTATTAACTTTGTT
*
764721 ATAATTATTTACTTT-TT
1 ATAATTATTAACTTTGTT
764738 ATTAATT
1 A-TAATT
764745 CTTATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (18 bp):
ATAATTATTAACTTTGTT
Found at i:765842 original size:2 final size:2
Alignment explanation
Indices: 765826--765860 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
765816 TTTTGTATGT
765826 TA TA -A TA TA -A 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
765861 TAGATGTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:768512 original size:12 final size:12
Alignment explanation
Indices: 768495--768533 Score: 57
Period size: 11 Copynumber: 3.5 Consensus size: 12
768485 ATGTAATAAA
768495 AAATATATTTTT
1 AAATATATTTTT
768507 -AA-ATATTTTT
1 AAATATATTTTT
768517 AAATATA-TTTT
1 AAATATATTTTT
768528 AAATAT
1 AAATAT
768534 TAATATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 8 0.32
11 14 0.56
12 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
AAATATATTTTT
Found at i:768514 original size:10 final size:10
Alignment explanation
Indices: 768499--768534 Score: 63
Period size: 10 Copynumber: 3.5 Consensus size: 10
768489 AATAAAAAAT
768499 ATATTTTTAA
1 ATATTTTTAA
768509 ATATTTTTAA
1 ATATTTTTAA
768519 ATATATTTTAA
1 ATAT-TTTTAA
768530 ATATT
1 ATATT
768535 AATATTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
ATATTTTTAA
Found at i:768527 original size:11 final size:11
Alignment explanation
Indices: 768495--768533 Score: 62
Period size: 10 Copynumber: 3.5 Consensus size: 11
768485 ATGTAATAAA
768495 AAATATATTTTT
1 AAATATA-TTTT
768507 AAATAT-TTTT
1 AAATATATTTT
768517 AAATATATTTT
1 AAATATATTTT
768528 AAATAT
1 AAATAT
768534 TAATATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.38
11 10 0.38
12 6 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
AAATATATTTT
Found at i:770917 original size:26 final size:26
Alignment explanation
Indices: 770869--770932 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
770859 AGAAACTACC
* * * *
770869 AAAGCTCAAAGCGACGTCGTTTCAAT
1 AAAGATCAAAACGACGTCATTTCAAA
*
770895 AAAGATCAAAACGATGTCATTTCAAA
1 AAAGATCAAAACGACGTCATTTCAAA
770921 AAAGATCAAAAC
1 AAAGATCAAAAC
770933 AACGCTATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.47, C:0.19, G:0.14, T:0.20
Consensus pattern (26 bp):
AAAGATCAAAACGACGTCATTTCAAA
Found at i:777484 original size:35 final size:35
Alignment explanation
Indices: 777438--777524 Score: 138
Period size: 35 Copynumber: 2.5 Consensus size: 35
777428 ATTTTTTTTT
* *
777438 AAAAGATATTTGCATTTCATGTGCATCATTTTAAA
1 AAAAGATATTTGTATTTCATGTGCATCATTTCAAA
* *
777473 AAAAGACATTTGTATTTCATGTGCATCATTTCAGA
1 AAAAGATATTTGTATTTCATGTGCATCATTTCAAA
777508 AAAAGATATTTGTATTT
1 AAAAGATATTTGTATTT
777525 GCATCCTTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (35 bp):
AAAAGATATTTGTATTTCATGTGCATCATTTCAAA
Found at i:777891 original size:42 final size:42
Alignment explanation
Indices: 777832--777955 Score: 117
Period size: 42 Copynumber: 2.8 Consensus size: 42
777822 AAAAATCATT
* *
777832 TGCATTTTCTTGGTGGTGATATTCGAGTATTAAGA-TTTGAA-C
1 TGCATCTTCTTAGTGGTGATATTCGAGT-TTAA-ATTTTGAATC
* *
777874 TGCATCTTCTTAGTGGTGATATCCGAGTTTAAATTTTGAATT
1 TGCATCTTCTTAGTGGTGATATTCGAGTTTAAATTTTGAATC
777916 TGCATTTGCATTCTCTCAGTGGTGATATTCGAGTCTTAAA
1 TGCA--T-C-TTCT-T-AGTGGTGATATTCGAGT-TTAAA
777956 GCTTGAATTA
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
40 1 0.01
41 10 0.15
42 29 0.43
44 1 0.01
45 1 0.01
46 4 0.06
47 1 0.01
48 16 0.24
49 5 0.07
ACGTcount: A:0.23, C:0.13, G:0.21, T:0.43
Consensus pattern (42 bp):
TGCATCTTCTTAGTGGTGATATTCGAGTTTAAATTTTGAATC
Found at i:778153 original size:147 final size:147
Alignment explanation
Indices: 777886--778384 Score: 601
Period size: 147 Copynumber: 3.4 Consensus size: 147
777876 CATCTTCTTA
* * * * *
777886 GTGGTGATATCCGAGTTTAAATTTTGAATTTGCATTTGCATTCTCTCAGTGGTGATATTCGAGTC
1 GTGGTGATATTCGAGTTTAAAGTTTGAATTTGCATTTGCATTCTCTCGGTGGTGATATCCGAGTA
* * *
777951 TTAAAGCTTGAATTACATTTTCTCGATGGTGATATTCT-AGTTCCTTTCGATAGCGATATCTGAA
66 TTAAAGCTTGAATTACATTTTTTCGATGGTGATATT-TGAGTTCCCTTCGATAGCGATATCCGAA
* **
778015 GAAATTTATATATTCTCG
130 GACATTTGCATATTCTCG
* * * *
778033 GTGGTAATATTTGAGTTTAAAGTTTGAATTTGTATTTGTATT-TCCTCGGTGGTGATATCCGAGT
1 GTGGTGATATTCGAGTTTAAAGTTTGAATTTGCATTTGCATTCT-CTCGGTGGTGATATCCGAGT
** ** * *
778097 ATTAAAGCTTGAATTGTATTTTTTTTATTGTGACATTTGAGTTCCCTTC-AGTAGCGATATCCGA
65 ATTAAAGCTTGAATTACATTTTTTCGATGGTGATATTTGAGTTCCCTTCGA-TAGCGATATCCGA
* *
778161 AGTCATTTGCATCTTCTCG
129 AGACATTTGCATATTCTCG
* * * * *
778180 GTGATGATATTCGAGTTTAAATTTTGAATTTGTATTTGCATTCTCTCGGTGATGATATCTGAGTA
1 GTGGTGATATTCGAGTTTAAAGTTTGAATTTGCATTTGCATTCTCTCGGTGGTGATATCCGAGTA
* * * *
778245 TTAAAGCTTGAATTACATTTTTTCGATGGTGATATTCGAATTCCCTTCGATGGTGATATCCGAAG
66 TTAAAGCTTGAATTACATTTTTTCGATGGTGATATTTGAGTTCCCTTCGATAGCGATATCCGAAG
* *
778310 ACATTTGGATATTCTCA
131 ACATTTGCATATTCTCG
* * *
778327 ATGGTGATATCCGAGTTTAAAGTTTGAATTTGCATTTGCATT-TCCTCGATGGTGATAT
1 GTGGTGATATTCGAGTTTAAAGTTTGAATTTGCATTTGCATTCT-CTCGGTGGTGATAT
778385 TTGAATTACA
Statistics
Matches: 295, Mismatches: 51, Indels: 12
0.82 0.14 0.03
Matches are distributed among these distances:
146 4 0.01
147 289 0.98
148 2 0.01
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.42
Consensus pattern (147 bp):
GTGGTGATATTCGAGTTTAAAGTTTGAATTTGCATTTGCATTCTCTCGGTGGTGATATCCGAGTA
TTAAAGCTTGAATTACATTTTTTCGATGGTGATATTTGAGTTCCCTTCGATAGCGATATCCGAAG
ACATTTGCATATTCTCG
Found at i:778585 original size:49 final size:49
Alignment explanation
Indices: 778511--778888 Score: 413
Period size: 50 Copynumber: 7.6 Consensus size: 49
778501 CGAAGTTATT
778511 TTTTTCAAGATGAAAA--TTTAAAATTGTTGAGCCTCTGCTGAGATGAGC
1 TTTTTCAAGAT-AAAATTTTTAAAATTGTTGAGCCTCTGCTGAGATGAGC
* * * * *
778559 CTTTTCAAGATAAAATTTTTAAAATTGTTAAACCTCTGCTTAGAGGAGC
1 TTTTTCAAGATAAAATTTTTAAAATTGTTGAGCCTCTGCTGAGATGAGC
* * *
778608 TTTTTCAAGATAAAATTTTTAAAGTTGTTGAGCCTTTGCTAGGATGAGGAGC
1 TTTTTCAAGATAAAATTTTTAAAATTGTTGAGCCTCTGCT--GA-GATGAGC
* * * *
778660 TTTTTCAAGATAGAATTTTTAAAATCGTTGAGCATCTGCTGAAATGAGCC
1 TTTTTCAAGATAAAATTTTTAAAATTGTTGAGCCTCTGCTGAGATGAG-C
* * * * *
778710 TTTTTCAAGATATAATTTTTAAAATCGTTGAGCATCTGTTGAAATGAGC
1 TTTTTCAAGATAAAATTTTTAAAATTGTTGAGCCTCTGCTGAGATGAGC
* * * * *
778759 TTTTTTCAAGATATAATTTTTAAAGTCGTTGAGCATCTGCTAAGA-GAAGC
1 -TTTTTCAAGATAAAATTTTTAAAATTGTTGAGCCTCTGCTGAGATG-AGC
*
778809 ATTTTTCAAGATAAAATTTTTAAAAGTTGTTGAGCCTCTGCTGAGAAT-AAC
1 -TTTTTCAAGATAAAATTTTTAAAA-TTGTTGAGCCTCTGCTGAG-ATGAGC
* *
778860 TTTTTCAAGATAGAATTTTTAAAGTTGTT
1 TTTTTCAAGATAAAATTTTTAAAATTGTT
778889 TTCAAGATAA
Statistics
Matches: 286, Mismatches: 33, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
47 4 0.01
48 10 0.03
49 74 0.26
50 136 0.48
51 19 0.07
52 43 0.15
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (49 bp):
TTTTTCAAGATAAAATTTTTAAAATTGTTGAGCCTCTGCTGAGATGAGC
Found at i:778905 original size:27 final size:26
Alignment explanation
Indices: 778861--778912 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
778851 GAGAATAACT
* *
778861 TTTTCAAGATAGAATTTTTAAAGTTG
1 TTTTCAAGATAAAATTTTAAAAGTTG
778887 TTTTCAAGATAAAATTTTTAAAAGTT
1 TTTTCAAGATAAAA-TTTTAAAAGTT
778913 ATTGAGCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (26 bp):
TTTTCAAGATAAAATTTTAAAAGTTG
Found at i:778937 original size:76 final size:76
Alignment explanation
Indices: 778811--778962 Score: 261
Period size: 76 Copynumber: 2.0 Consensus size: 76
778801 AGAGAAGCAT
* *
778811 TTTTCAAGATAAAATTTTTAAAAGTTGTTGAGCCTCTGCTGAGAATAACTTTTTCAAGATAGAAT
1 TTTTCAAGATAAAATTTTTAAAAGTTATTGAGCCTCTGCTAAGAATAACTTTTTCAAGATAGAAT
778876 TTTTAAAGTTG
66 TTTTAAAGTTG
*
778887 TTTTCAAGATAAAATTTTTAAAAGTTATTGAGCTTCTGCTAAGAGA-AACTTTTTCAAGATAGAA
1 TTTTCAAGATAAAATTTTTAAAAGTTATTGAGCCTCTGCTAAGA-ATAACTTTTTCAAGATAGAA
778951 TTTTTAAAGTTG
65 TTTTTAAAGTTG
778963 AGCCCTCTGT
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
76 71 0.99
77 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.41
Consensus pattern (76 bp):
TTTTCAAGATAAAATTTTTAAAAGTTATTGAGCCTCTGCTAAGAATAACTTTTTCAAGATAGAAT
TTTTAAAGTTG
Found at i:780242 original size:28 final size:28
Alignment explanation
Indices: 780210--780275 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
780200 CTGACCCTGG
* * *
780210 ACCGTCGAACCAATTAGACTGCAACTGA
1 ACCGTCGAACCAACTAGACCGAAACTGA
*
780238 ACCGTCGAGCCAACTAGACCGAAACTGA
1 ACCGTCGAACCAACTAGACCGAAACTGA
**
780266 GTCGTCGAAC
1 ACCGTCGAAC
780276 TGAACGGATT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.30, G:0.21, T:0.15
Consensus pattern (28 bp):
ACCGTCGAACCAACTAGACCGAAACTGA
Found at i:781913 original size:184 final size:184
Alignment explanation
Indices: 781604--782149 Score: 1049
Period size: 184 Copynumber: 3.0 Consensus size: 184
781594 TGACTATAAA
781604 GAATAAGTTTAA-CTTGTTTAGACGTTATTCTTTTATGATCATTCGATTCGGACAACATTTCGGT
1 GAATAAG-TTAACCTTGTTTAGACGTTATTCTTTTATGATCATTCGATTCGGACAACATTTCGGT
781668 TTCTTTTTTTACGGAATATGGCGTTAGTTATTGCACATAATATCTTTTTGGTTCTTAAATAGTTC
65 TTCTTTTTTTACGGAATATGGCGTTAGTTATTGCACATAATATCTTTTTGGTTCTTAAATAGTTC
*
781733 TATCTCCAATACCTGTTTGTTTAATGAAGTTAATGAAACTATTAATGGATGTGAC
130 TATCTCCAATACCTGTTTGTTTAATGAAGTTAATGAAACTATTAATGGATATGAC
781788 GAATAAGTTAACCTTGTTTAGACGTTATTCTTTTATGATCATTCGATTCGGACAACATTTCGGTT
1 GAATAAGTTAACCTTGTTTAGACGTTATTCTTTTATGATCATTCGATTCGGACAACATTTCGGTT
781853 TCTTTTTTTACGGAATATGGCGTTAGTTATTGCACATAATATCTTTTTGGTTCTTAAATAGTTCT
66 TCTTTTTTTACGGAATATGGCGTTAGTTATTGCACATAATATCTTTTTGGTTCTTAAATAGTTCT
781918 ATCTCCAATACCTGTTTGTTTAATGAAGTTAATGAAACTATTAATGGATATGAC
131 ATCTCCAATACCTGTTTGTTTAATGAAGTTAATGAAACTATTAATGGATATGAC
781972 GAATAAGTTAACCTTGTTTAGACGTTATTCTTTTATGATCATTCGATTCGGACAACATTTCGGTT
1 GAATAAGTTAACCTTGTTTAGACGTTATTCTTTTATGATCATTCGATTCGGACAACATTTCGGTT
* *
782037 TCTTTTTTTACGGAATATGGCGTTAGTTATTGCACATAATATCCTTTTGGTTCTTAAATAATTCT
66 TCTTTTTTTACGGAATATGGCGTTAGTTATTGCACATAATATCTTTTTGGTTCTTAAATAGTTCT
782102 ATCTCCAATACCTGTTTGTTTAATGAAGTTAATGAAACTATTAATGGA
131 ATCTCCAATACCTGTTTGTTTAATGAAGTTAATGAAACTATTAATGGA
782150 AGTATCTTTT
Statistics
Matches: 358, Mismatches: 3, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
183 4 0.01
184 354 0.99
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.43
Consensus pattern (184 bp):
GAATAAGTTAACCTTGTTTAGACGTTATTCTTTTATGATCATTCGATTCGGACAACATTTCGGTT
TCTTTTTTTACGGAATATGGCGTTAGTTATTGCACATAATATCTTTTTGGTTCTTAAATAGTTCT
ATCTCCAATACCTGTTTGTTTAATGAAGTTAATGAAACTATTAATGGATATGAC
Found at i:782713 original size:21 final size:20
Alignment explanation
Indices: 782669--782713 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
782659 TTGTTCTGTT
* **
782669 TTCTCTGTTTTTTTTTTTTT
1 TTCTCTGTTTTTTTCTTTGA
782689 TTCTCTTGTTTTTTTCTTTGA
1 TTCTC-TGTTTTTTTCTTTGA
782710 TTCT
1 TTCT
782714 TGCTTCAAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.02, C:0.13, G:0.07, T:0.78
Consensus pattern (20 bp):
TTCTCTGTTTTTTTCTTTGA
Found at i:796089 original size:21 final size:20
Alignment explanation
Indices: 796065--796107 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
796055 AACCTGACCC
*
796065 AACCAAAAGAGAAATGACAGG
1 AACCAAAAG-GAAATAACAGG
* *
796086 AACCTAAAGGAATTAACAGG
1 AACCAAAAGGAAATAACAGG
796106 AA
1 AA
796108 ATTTGTCATC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.56, C:0.14, G:0.21, T:0.09
Consensus pattern (20 bp):
AACCAAAAGGAAATAACAGG
Found at i:804469 original size:14 final size:14
Alignment explanation
Indices: 804438--804472 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
804428 ACATTTTAAA
*
804438 AATTTTAAAAATAT
1 AATTTTAAAAAAAT
804452 -ATTTTAAAAAAAT
1 AATTTTAAAAAAAT
804465 AATTTTAA
1 AATTTTAA
804473 GATATTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTTTAAAAAAAT
Found at i:805023 original size:29 final size:29
Alignment explanation
Indices: 804991--805137 Score: 91
Period size: 30 Copynumber: 4.9 Consensus size: 29
804981 ATATTTTATT
*
804991 TAAATAAATTTTTATATTTTTA-TTATACA
1 TAAATAAATTTTTA-ATTTTAATTTATACA
* **
805020 TAAATAAACTTTTAATTTTAATTTATATT
1 TAAATAAATTTTTAATTTTAATTTATACA
* * * * *
805049 TAAATAAATAATTGAAATTTAATTTGTA-T
1 TAAATAAAT-TTTTAATTTTAATTTATACA
* * **
805078 TCAAATATATTTTTAATCATTAATTTATATT
1 T-AAATAAATTTTTAAT-TTTAATTTATACA
* *
805109 TAAATAAAAATTTTTAATATAAATTTATA
1 TAAAT--AAATTTTTAATTTTAATTTATA
805138 TTTTATTTGA
Statistics
Matches: 94, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
28 6 0.06
29 32 0.34
30 34 0.36
31 12 0.13
32 10 0.11
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (29 bp):
TAAATAAATTTTTAATTTTAATTTATACA
Found at i:805140 original size:19 final size:19
Alignment explanation
Indices: 805083--805141 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 19
805073 TGTATTCAAA
*
805083 TATATTTTTAATCATTAATT
1 TATATTTTTAAT-ATAAATT
805103 TATA--TTTAA-ATAAA--
1 TATATTTTTAATATAAATT
805117 -A-ATTTTTAATATAAATT
1 TATATTTTTAATATAAATT
805134 TATATTTT
1 TATATTTT
805142 ATTTGAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 15
0.66 0.02 0.32
Matches are distributed among these distances:
12 1 0.03
13 1 0.03
14 5 0.16
15 5 0.16
16 4 0.13
18 6 0.19
19 5 0.16
20 4 0.13
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTTTTAATATAAATT
Found at i:808140 original size:9 final size:9
Alignment explanation
Indices: 808079--808151 Score: 54
Period size: 9 Copynumber: 8.7 Consensus size: 9
808069 ATGCTTATTT
808079 TATATTAAA
1 TATATTAAA
*
808088 TACATATAAA
1 TATAT-TAAA
808098 -ATA-TAAA
1 TATATTAAA
808105 -A-ATT-AA
1 TATATTAAA
808111 TATATTATAA
1 TATATTA-AA
808121 T-TATGTAAA
1 TATAT-TAAA
808130 TATATTAAA
1 TATATTAAA
808139 TATA-T-AA
1 TATATTAAA
808146 TATATT
1 TATATT
808152 TTTTATTTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 19
0.72 0.03 0.26
Matches are distributed among these distances:
6 3 0.06
7 13 0.25
8 5 0.09
9 20 0.38
10 12 0.23
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (9 bp):
TATATTAAA
Done.