Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold247
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: 4737410
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 20 of 29
Found at i:3020071 original size:52 final size:52
Alignment explanation
Indices: 3019990--3020166 Score: 300
Period size: 52 Copynumber: 3.4 Consensus size: 52
3019980 ATATGAAAAG
* * *
3019990 TTGCCTGCATGTATCGATACAGTTAATAGTGTATCGATACATCTGGGCTAAT
1 TTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAAT
* *
3020042 TTTCCTGCATGTATCCATACATTTTATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAAT
*
3020094 TTGCCTGCATGTATCAATACATTTTATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAAT
3020146 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
3020167 AAGATCAGTG
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 117 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAAT
Found at i:3020177 original size:52 final size:52
Alignment explanation
Indices: 3019990--3020187 Score: 292
Period size: 52 Copynumber: 3.8 Consensus size: 52
3019980 ATATGAAAAG
*
3019990 TTGCCTGCATGTATCGATACAGTTA-ATAGTGTATCGATACATCTGGGCTAAT
1 TTGCCTGCATGTATCGATACA-TTATATAGTGTATCGATACATCTGGGCAAAT
* * *
3020042 TTTCCTGCATGTATCCATACATTTTATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTATATAGTGTATCGATACATCTGGGCAAAT
* *
3020094 TTGCCTGCATGTATCAATACATTTTATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTATATAGTGTATCGATACATCTGGGCAAAT
* *
3020146 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACAT
1 TTGCCTGCATGTATCGATACATTATAT-AGTGTATCGATACAT
3020188 TTGAGTAATG
Statistics
Matches: 134, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
51 4 0.03
52 130 0.97
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTATATAGTGTATCGATACATCTGGGCAAAT
Found at i:3020253 original size:19 final size:18
Alignment explanation
Indices: 3020229--3020326 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
3020219 TAGCTTAAAT
3020229 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
3020248 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
3020261 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
3020274 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
3020293 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
3020313 TGTATCGATACAAA
1 TGTATCGATACAAA
3020327 TCGTTAAAAT
Statistics
Matches: 72, Mismatches: 0, Indels: 14
0.84 0.00 0.16
Matches are distributed among these distances:
13 24 0.33
14 1 0.01
16 2 0.03
18 1 0.01
19 28 0.39
20 16 0.22
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:3020266 original size:13 final size:13
Alignment explanation
Indices: 3020248--3020285 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
3020238 ACAAAACTTA
3020248 TGTATCGATACAT
1 TGTATCGATACAT
3020261 TGTATCGATACAT
1 TGTATCGATACAT
3020274 TGTATCGATACA
1 TGTATCGATACA
3020286 ACACTTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3020315 original size:20 final size:19
Alignment explanation
Indices: 3020274--3020325 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
3020264 ATCGATACAT
3020274 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
3020293 TGTATCGATACAACACTTTA
1 TGTATCGATACAACAC-TTA
3020313 TGTATCGATACAA
1 TGTATCGATACAA
3020326 ATCGTTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:3022241 original size:20 final size:20
Alignment explanation
Indices: 3022213--3022283 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
3022203 TTTTACCCAG
*
3022213 ATGTATCGATATATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
3022233 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
3022253 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
3022273 ATGTATCGATA
1 ATGTATCGATA
3022284 TATTCTGTCT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:3026104 original size:97 final size:97
Alignment explanation
Indices: 3025938--3026133 Score: 356
Period size: 97 Copynumber: 2.0 Consensus size: 97
3025928 CCGCATTTGC
*
3025938 ATAGGGAAATACATCCACTGAATCGAACCCGATTCGCTAAACCCGCAAGGGGCCTAGAATCGGAG
1 ATAGGGAAATACATCCACTGAATCGAACCCGATTCGCTAAACCCGCAAGGGGCCTAGAATCAGAG
3026003 TACCTCGATTGTCCTTACTGGATGAAGGAACG
66 TACCTCGATTGTCCTTACTGGATGAAGGAACG
* *
3026035 ATAGGGAAATACATCCACTGAATCGAACTCGATTCGCTAAACCCGCAAGGGGCTTAGAATCAGAG
1 ATAGGGAAATACATCCACTGAATCGAACCCGATTCGCTAAACCCGCAAGGGGCCTAGAATCAGAG
*
3026100 TACCTCGATTGTCCTTATTGGATGAAGGAACG
66 TACCTCGATTGTCCTTACTGGATGAAGGAACG
3026132 AT
1 AT
3026134 TCGGATACCT
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
97 95 1.00
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (97 bp):
ATAGGGAAATACATCCACTGAATCGAACCCGATTCGCTAAACCCGCAAGGGGCCTAGAATCAGAG
TACCTCGATTGTCCTTACTGGATGAAGGAACG
Found at i:3029464 original size:16 final size:16
Alignment explanation
Indices: 3029445--3029493 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
3029435 AAAAAAGGTC
3029445 AAAA-GCAAAAGCACAA
1 AAAATGCAAAAGCA-AA
*
3029461 AAAATG-AAAAGTAAA
1 AAAATGCAAAAGCAAA
3029476 AAAAGTGCAAAAGCAAA
1 AAAA-TGCAAAAGCAAA
3029493 A
1 A
3029494 TAAAAAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 6 0.21
16 12 0.43
17 10 0.36
ACGTcount: A:0.69, C:0.10, G:0.14, T:0.06
Consensus pattern (16 bp):
AAAATGCAAAAGCAAA
Found at i:3030861 original size:28 final size:27
Alignment explanation
Indices: 3030819--3030900 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
3030809 GTGGCATTTT
*
3030819 TTTTAAAGTCTACAACTCCGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCA-CC
* * *
3030847 TTTTAAAGTCCACAACTACATGGTACC
1 TTTTAAAGTCCACAACTCCGTGGCACC
* *
3030874 CTTTAAAGTCCACAACTCTGTGGCACC
1 TTTTAAAGTCCACAACTCCGTGGCACC
3030901 CACCTTTCAC
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 24 0.53
28 21 0.47
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (27 bp):
TTTTAAAGTCCACAACTCCGTGGCACC
Found at i:3030885 original size:27 final size:28
Alignment explanation
Indices: 3030820--3030890 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
3030810 TGGCATTTTT
* * * *
3030820 TTTAAAGTCTACAACTCCGTGGCATCCT
1 TTTAAAGTCCACAACTACATGGCATCCC
*
3030848 TTTAAAGTCCACAACTACATGGTA-CCC
1 TTTAAAGTCCACAACTACATGGCATCCC
3030875 TTTAAAGTCCACAACT
1 TTTAAAGTCCACAACT
3030891 CTGTGGCACC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
27 18 0.47
28 20 0.53
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.30
Consensus pattern (28 bp):
TTTAAAGTCCACAACTACATGGCATCCC
Found at i:3042095 original size:20 final size:20
Alignment explanation
Indices: 3042065--3042120 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
3042055 AAAAATGCCT
* *
3042065 GAATATATCGATACATTG-A
1 GAATGTATCGATACAATGAA
3042084 GAAATGTATCGATACAATGAA
1 G-AATGTATCGATACAATGAA
3042105 GAATGTATCGATACAA
1 GAATGTATCGATACAA
3042121 ATTGTGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 1 0.03
20 30 0.91
21 2 0.06
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.27
Consensus pattern (20 bp):
GAATGTATCGATACAATGAA
Found at i:3044337 original size:3 final size:3
Alignment explanation
Indices: 3044329--3044360 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
3044319 CTTTGATCCA
*
3044329 ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
3044361 AGTTCCTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:3046076 original size:28 final size:28
Alignment explanation
Indices: 3046036--3046089 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
3046026 GAGGAGTAGC
3046036 ATGGATTTAAGATTTTCATTAAACTAGT
1 ATGGATTTAAGATTTTCATTAAACTAGT
3046064 ATGGATTTAAGATTTTCATTAAACTA
1 ATGGATTTAAGATTTTCATTAAACTA
3046090 ACACTGCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (28 bp):
ATGGATTTAAGATTTTCATTAAACTAGT
Found at i:3048896 original size:28 final size:29
Alignment explanation
Indices: 3048806--3048912 Score: 117
Period size: 31 Copynumber: 3.6 Consensus size: 29
3048796 GACTAGTCAA
* *
3048806 ATTTTAACAAAATATAAAGATTAAGTTCAT
1 ATTTTAA-TAAATATAAAGATTAAATTCAT
* *
3048836 GTTTTTACATAAATATAAAGATTAAATTTAT
1 -ATTTTA-ATAAATATAAAGATTAAATTCAT
*
3048867 ATTTTGATAAATATAAA-ATTAAATTCAT
1 ATTTTAATAAATATAAAGATTAAATTCAT
3048895 ATTTTAATATAAATATAA
1 ATTTT-A-ATAAATATAA
3048913 TTAATACTCT
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
28 15 0.23
29 11 0.17
30 14 0.22
31 24 0.37
32 1 0.02
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.42
Consensus pattern (29 bp):
ATTTTAATAAATATAAAGATTAAATTCAT
Found at i:3048914 original size:28 final size:28
Alignment explanation
Indices: 3048806--3048916 Score: 107
Period size: 28 Copynumber: 3.8 Consensus size: 28
3048796 GACTAGTCAA
* *
3048806 ATTTTAACAAAATATAAAGATTAAGTTCAT
1 ATTTTAA-TAAATATAAA-ATTAAATTCAT
* *
3048836 GTTTTTACATAAATATAAAGATTAAATTTAT
1 -ATTTTA-ATAAATATAAA-ATTAAATTCAT
*
3048867 ATTTTGATAAATATAAAATTAAATTCAT
1 ATTTTAATAAATATAAAATTAAATTCAT
*
3048895 ATTTTAATATAA-ATATAATTAA
1 ATTTTAATA-AATATAAAATTAA
3048917 TACTCTTTAA
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
28 27 0.39
29 13 0.19
30 4 0.06
31 24 0.35
32 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.42
Consensus pattern (28 bp):
ATTTTAATAAATATAAAATTAAATTCAT
Found at i:3049755 original size:53 final size:51
Alignment explanation
Indices: 3049685--3049809 Score: 135
Period size: 53 Copynumber: 2.4 Consensus size: 51
3049675 TTTATTTATA
* * * *
3049685 TTAATTAAAATTTATTATA-TCAATAAATACATAATATAAATTTTTTAAAAAT
1 TTAATTAATATTAATTATATTCAATAAATA-ATAAAAT-AATTATTTAAAAAT
* * *
3049737 TTATATTAATATTAATTATAAATTTAATAAATATTAAAATAATTATTTATAAAT
1 TTA-ATTAATATTAATTAT--ATTCAATAAATAATAAAATAATTATTTAAAAAT
3049791 TTAATTAATATTAATTATA
1 TTAATTAATATTAATTATA
3049810 ATTACTTATA
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
51 1 0.02
52 3 0.05
53 28 0.45
54 15 0.24
55 6 0.10
56 9 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (51 bp):
TTAATTAATATTAATTATATTCAATAAATAATAAAATAATTATTTAAAAAT
Found at i:3049772 original size:22 final size:22
Alignment explanation
Indices: 3049733--3049828 Score: 69
Period size: 22 Copynumber: 4.5 Consensus size: 22
3049723 AATTTTTTAA
*
3049733 AAATTTATATTAATATTAATTAT
1 AAATTTA-ATAAATATTAATTAT
*
3049756 AAATTTAATAAATATTAA-AAT
1 AAATTTAATAAATATTAATTAT
3049777 AATTATTT-ATAAAT-TTAATTA-
1 AA--ATTTAATAAATATTAATTAT
* * *
3049798 ATA-TTAAT-TATAATTACTTAT
1 AAATTTAATAAAT-ATTAATTAT
3049819 AAATTTAATA
1 AAATTTAATA
3049829 GTTATTAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 18
0.70 0.09 0.22
Matches are distributed among these distances:
18 4 0.07
19 3 0.05
20 6 0.11
21 11 0.19
22 22 0.39
23 11 0.19
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATTTAATAAATATTAATTAT
Found at i:3049797 original size:16 final size:16
Alignment explanation
Indices: 3049747--3049827 Score: 62
Period size: 16 Copynumber: 5.1 Consensus size: 16
3049737 TTATATTAAT
*
3049747 ATTAATTATAAATTTA
1 ATTATTTATAAATTTA
*
3049763 ATAAATATTA-AAA--TA
1 AT-TAT-TTATAAATTTA
3049778 ATTATTTATAAATTTA
1 ATTATTTATAAATTTA
* *
3049794 ATTA-ATATTAATTATA
1 ATTATTTATAAATT-TA
*
3049810 ATTACTTATAAATTTA
1 ATTATTTATAAATTTA
3049826 AT
1 AT
3049828 AGTTATTAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
13 3 0.06
14 5 0.10
15 11 0.22
16 18 0.35
17 11 0.22
18 3 0.06
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTATTTATAAATTTA
Found at i:3049819 original size:32 final size:31
Alignment explanation
Indices: 3049747--3049842 Score: 122
Period size: 31 Copynumber: 3.1 Consensus size: 31
3049737 TTATATTAAT
3049747 ATTAATTATAAATTTAATAAATATTAAAATA
1 ATTAATTATAAATTTAATAAATATTAAAATA
* * *
3049778 ATTATTTATAAATTTAATTAATATTAATTATA
1 ATTAATTATAAATTTAATAAATATTAA-AATA
* **
3049810 ATTACTTATAAATTTAATAGTTATTAAAA-A
1 ATTAATTATAAATTTAATAAATATTAAAATA
3049840 ATT
1 ATT
3049843 TAAAATTTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
30 4 0.07
31 26 0.46
32 26 0.46
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (31 bp):
ATTAATTATAAATTTAATAAATATTAAAATA
Found at i:3049837 original size:16 final size:16
Alignment explanation
Indices: 3049751--3049837 Score: 60
Period size: 16 Copynumber: 5.6 Consensus size: 16
3049741 ATTAATATTA
*
3049751 ATTA-TAAATTTAATA
1 ATTATTAAATTTAATT
* *
3049766 AATATTAAA-ATAATT
1 ATTATTAAATTTAATT
3049781 ATT-TATAAATTTAATT
1 ATTAT-TAAATTTAATT
*
3049797 AATATT-AATTATAATT
1 ATTATTAAATT-TAATT
3049813 ACTTA-TAAATTTAA-T
1 A-TTATTAAATTTAATT
3049828 AGTTATTAAA
1 A-TTATTAAA
3049838 AAATTTAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
14 1 0.02
15 22 0.39
16 26 0.46
17 7 0.12
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (16 bp):
ATTATTAAATTTAATT
Found at i:3049919 original size:19 final size:19
Alignment explanation
Indices: 3049884--3049921 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
3049874 TTTATATTTA
*
3049884 TTTTTTATATTTAATAAAT
1 TTTTTTAAATTTAATAAAT
3049903 TTTTTTAAATATT-ATAAAT
1 TTTTTTAAAT-TTAATAAAT
3049922 AATTGATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTTTAAATTTAATAAAT
Found at i:3050029 original size:14 final size:15
Alignment explanation
Indices: 3050003--3050037 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
3049993 ATTAATTTTA
3050003 TTAAATCTAATAAAT
1 TTAAATCTAATAAAT
3050018 TTAAAT-TAATAAAT
1 TTAAATCTAATAAAT
*
3050032 TAAAAT
1 TTAAAT
3050038 AATTAATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (15 bp):
TTAAATCTAATAAAT
Found at i:3050592 original size:16 final size:16
Alignment explanation
Indices: 3050571--3050619 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
3050561 ATTTAAGCTC
3050571 AAATTTT-ATTTAATAA
1 AAATTTTAATTTAA-AA
3050587 AAATTTTAAATTTAAAA
1 AAATTTT-AATTTAAAA
* *
3050604 AAATTTAAACTTAAAA
1 AAATTTTAATTTAAAA
3050620 TAGTTAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 15 0.52
17 8 0.28
18 6 0.21
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATTTTAATTTAAAA
Found at i:3050607 original size:17 final size:16
Alignment explanation
Indices: 3050578--3050619 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
3050568 CTCAAATTTT
3050578 ATTTAATAAAAATTTTAA
1 ATTTAA-AAAAA-TTTAA
3050596 ATTTAAAAAAATTTAA
1 ATTTAAAAAAATTTAA
*
3050612 ACTTAAAA
1 ATTTAAAA
3050620 TAGTTAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.52
17 5 0.22
18 6 0.26
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTTAAAAAAATTTAA
Found at i:3050745 original size:24 final size:24
Alignment explanation
Indices: 3050704--3050780 Score: 75
Period size: 24 Copynumber: 3.1 Consensus size: 24
3050694 AAGAATTATT
*
3050704 AAATTATAATTAAATAATTTTTTTAA
1 AAATT-TAATT-ATTAATTTTTTTAA
*
3050730 AAATTTAATTATTAATTTTATTTTA
1 AAATTTAATTATTAATTTT-TTTAA
* * *
3050755 ATATTT-TTTATTAATTTATTTAA
1 AAATTTAATTATTAATTTTTTTAA
3050778 AAA
1 AAA
3050781 AATAAAATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
23 6 0.14
24 18 0.42
25 14 0.33
26 5 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
AAATTTAATTATTAATTTTTTTAA
Found at i:3051488 original size:17 final size:17
Alignment explanation
Indices: 3051463--3051498 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
3051453 TAAACATGTC
*
3051463 ATTTTTAAAAGTATTAT
1 ATTTATAAAAGTATTAT
*
3051480 ATTTATAAAATTATTAT
1 ATTTATAAAAGTATTAT
3051497 AT
1 AT
3051499 CATCTCATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTATAAAAGTATTAT
Found at i:3051871 original size:29 final size:31
Alignment explanation
Indices: 3051804--3051878 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 31
3051794 CCTTTTGATG
*
3051804 TTAACAAATATTAATATTAATATAAAAATATA
1 TTAA-AAATATTAATAGTAATATAAAAATATA
*
3051836 TTTAAAATATT-ATAGT-ATATAAAAAT-TA
1 TTAAAAATATTAATAGTAATATAAAAATATA
*
3051864 CTTAAAAATAATAAT
1 -TTAAAAATATTAAT
3051879 TTATTTTTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
28 2 0.05
29 19 0.51
30 6 0.16
31 7 0.19
32 3 0.08
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (31 bp):
TTAAAAATATTAATAGTAATATAAAAATATA
Found at i:3056191 original size:2 final size:2
Alignment explanation
Indices: 3056184--3056209 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3056174 ACTTTATTTC
3056184 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
3056210 GTAAATAATA
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:3059086 original size:20 final size:20
Alignment explanation
Indices: 3059058--3059131 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 20
3059048 TTTTACCCAG
3059058 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
3059078 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
3059098 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
3059118 ATGTATCGATACAT
1 ATGTATCGATACAT
3059132 CTAGTTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:3062508 original size:74 final size:75
Alignment explanation
Indices: 3062387--3062543 Score: 262
Period size: 74 Copynumber: 2.1 Consensus size: 75
3062377 CAGATGTATT
3062387 GATACAAAGATCAATATATCGATACAATGTATCGATACATTTCCTTGGCAGTAGCTTTGTAGCGA
1 GATACAAAGATCAATATATCGATACAATGTATCGATACATTTCCTTGGCAGTAGCTTTGTAGCGA
3062452 T-ATTATATC
66 TAATTATATC
* * *
3062461 GATACAATGATCAATGTATTGATACAATGTATCGATACATTTCCTTGGCAGTAGCTTTGTAGCGA
1 GATACAAAGATCAATATATCGATACAATGTATCGATACATTTCCTTGGCAGTAGCTTTGTAGCGA
*
3062526 TACATTGTATC
66 TA-ATTATATC
3062537 GATACAA
1 GATACAA
3062544 CACTTATGTA
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
74 63 0.82
76 14 0.18
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (75 bp):
GATACAAAGATCAATATATCGATACAATGTATCGATACATTTCCTTGGCAGTAGCTTTGTAGCGA
TAATTATATC
Found at i:3063223 original size:23 final size:24
Alignment explanation
Indices: 3063197--3063241 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
3063187 GGATAAAATG
3063197 GGGAGGAG-GGTCGAAAAAAAAAA
1 GGGAGGAGAGGTCGAAAAAAAAAA
**
3063220 GGGAGGAGAGGTTTAAAAAAAA
1 GGGAGGAGAGGTCGAAAAAAAA
3063242 CTAAAGTGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.51, C:0.02, G:0.38, T:0.09
Consensus pattern (24 bp):
GGGAGGAGAGGTCGAAAAAAAAAA
Found at i:3063668 original size:13 final size:13
Alignment explanation
Indices: 3063639--3063674 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
3063629 GAAGATGAAG
*
3063639 AAGAAAGAAAGAAA
1 AAGAAA-AAAAAAA
3063653 AAGAAAAAAAAAA
1 AAGAAAAAAAAAA
3063666 AAGAAAAAA
1 AAGAAAAAA
3063675 TATGAAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAAAAA
Found at i:3070163 original size:36 final size:36
Alignment explanation
Indices: 3070086--3070163 Score: 97
Period size: 35 Copynumber: 2.2 Consensus size: 36
3070076 CCTTTAAATG
*
3070086 ACAAAAAAAGTCAAAAGCAAAAGCAAAAAGAAAAGA
1 ACAAAAAAAGTCAAAAGCAAAAGCAAAAAGAAAACA
* **
3070122 A-AAAAAAAGTGCAAAAGCAAAA-TAAAAAGGGAACA
1 ACAAAAAAAGT-CAAAAGCAAAAGCAAAAAGAAAACA
3070157 ACAAAAA
1 ACAAAAA
3070164 TAAAAAACGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 19 0.53
36 17 0.47
ACGTcount: A:0.72, C:0.10, G:0.14, T:0.04
Consensus pattern (36 bp):
ACAAAAAAAGTCAAAAGCAAAAGCAAAAAGAAAACA
Found at i:3071500 original size:27 final size:27
Alignment explanation
Indices: 3071463--3072201 Score: 1174
Period size: 27 Copynumber: 27.0 Consensus size: 27
3071453 GTGGCATTTT
* *
3071463 CTTTTAAAGTCCACAACTCTGTGGCA-T
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
3071490 CTTTTAAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
3071518 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
3071546 CTTTTTAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
3071573 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
3071600 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
3071628 CTTTTAAGTCCACAACTCCGTGGAATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
3071656 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
3071683 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
3071710 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
3071738 CTTTTAAGTCCACAACTCCGTGGAATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
3071766 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
3071793 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
3071820 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
3071847 TTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
3071874 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
3071901 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
3071929 CTTTTAAGACCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
3071956 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* **
3071983 CTTTTAAGTCCACAACTCCGTAGCATT
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
3072010 CTTTTAGGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
3072037 CTTTTAAGTCCACAACTCCGTGGTACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
3072064 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
3072091 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
3072118 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
3072146 CTTTTAAGTCCACAACTCTGTAGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
3072173 CTTTTAAAATCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
3072201 C
1 C
3072202 ATTTCAAAGC
Statistics
Matches: 668, Mismatches: 38, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
27 463 0.69
28 205 0.31
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.28
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:3071569 original size:82 final size:81
Alignment explanation
Indices: 3071463--3072201 Score: 1174
Period size: 82 Copynumber: 9.0 Consensus size: 81
3071453 GTGGCATTTT
* * *
3071463 CTTTTAAAGTCCACAACTCTGTGGCA-TCTTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAAG
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTT-AAG
3071527 TCCACAACTCCGTGGCACC
63 TCCACAACTCCGTGGCACC
*
3071546 CTTTTTAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
3071611 ACAACTCCGTGGCATCC
66 ACAACTCCGTGGCA-CC
* *
3071628 CTTTTAAGTCCACAACTCCGTGGAATCTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
3071693 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* *
3071710 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGAATCTCTTTTAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGT
3071775 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
*
3071793 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
3071858 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
*
3071874 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGAC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
3071939 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
* ** *
3071956 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTAGCATTCTTTTAGGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
3072021 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
* *
3072037 CTTTTAAGTCCACAACTCCGTGGTACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
3072102 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
* * * * *
3072118 CTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAACTCTGTAGCACCCTTTTAAAAT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
*
3072183 CCACAACTCTGTGGCACC
64 CCACAACTCCGTGGCACC
3072201 C
1 C
3072202 ATTTCAAAGC
Statistics
Matches: 612, Mismatches: 37, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
81 221 0.36
82 255 0.42
83 136 0.22
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.28
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACC
Found at i:3072239 original size:32 final size:32
Alignment explanation
Indices: 3072184--3073553 Score: 2375
Period size: 32 Copynumber: 42.8 Consensus size: 32
3072174 TTTTAAAATC
* *
3072184 CACAACTCTGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3072215 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3072247 CACAAGTCGGTGGCAACCCATTTTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3072279 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3072311 TACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3072343 CACAAGTCGGTGGCAA-TCATTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCA-TTTCAAAGCCCA
**
3072375 CACAAGTCGGTGGCAACCTTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3072407 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3072439 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
3072471 CACAAGTCGGTGGCAAACCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3072503 CACAAGTCAGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3072535 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3072567 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3072599 CACAAGTCGGTGGCGACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3072631 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3072663 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3072695 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3072727 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3072759 CACAAGTCGGTGGCACCCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3072791 CACAAGTCGGTGGCACCCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3072823 CACAAGTCGGTGGCTACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3072855 CATAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3072887 CACAAGTCGATGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3072919 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3072951 CACAAGTCGGTGGCGACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3072983 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3073015 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3073047 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
3073079 CACAAGTCGGTGGCAAACCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3073111 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3073143 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3073175 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3073207 CACAAGTCGGTGGCGACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3073239 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3073271 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3073303 CACAAGTCGGTGGAAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3073335 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3073367 CACAAGTCGGTGGCACCCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3073399 CACAAGTCGGTGGCTACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3073431 CATAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
3073463 CACAAGTCGATGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3073495 CACAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** ** *
3073527 TGCAAGTTAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
3073554 TCACTATTTT
Statistics
Matches: 1269, Mismatches: 67, Indels: 5
0.95 0.05 0.00
Matches are distributed among these distances:
31 14 0.01
32 1255 0.99
ACGTcount: A:0.31, C:0.34, G:0.19, T:0.17
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:3074849 original size:16 final size:17
Alignment explanation
Indices: 3074818--3074852 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
3074808 AAGGAAGATG
*
3074818 AAGAAGAAAGAAAGAAA
1 AAGAAGAAAAAAAGAAA
3074835 AAGAA-AAAAAAAGAAA
1 AAGAAGAAAAAAAGAAA
3074851 AA
1 AA
3074853 ATATGAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAAGAAAAAAAGAAA
Found at i:3074860 original size:10 final size:10
Alignment explanation
Indices: 3074824--3074853 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
3074814 GATGAAGAAG
*
3074824 AAAGAAAGAA
1 AAAGAAAAAA
3074834 AAAGAAAAAA
1 AAAGAAAAAA
3074844 AAAGAAAAAA
1 AAAGAAAAAA
3074854 TATGAAATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:3075410 original size:22 final size:24
Alignment explanation
Indices: 3075385--3075434 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
3075375 AGAAAAGTTC
* *
3075385 AAAATTTATGTTT-TTT-TTTTAA
1 AAAATTGATCTTTATTTGTTTTAA
3075407 AAAA-TGATCTTTATTTGTTTTAA
1 AAAATTGATCTTTATTTGTTTTAA
3075430 AAAAT
1 AAAAT
3075435 AAAAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 6 0.26
22 7 0.30
23 10 0.43
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (24 bp):
AAAATTGATCTTTATTTGTTTTAA
Found at i:3091299 original size:31 final size:31
Alignment explanation
Indices: 3091239--3091304 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 31
3091229 TGCATGCAAG
*
3091239 GCAATATAGCATGCAATCATGGGAGACACAT
1 GCAATATAGCATGCAATCATGGGAGACACAA
*
3091270 GCAATGTAGCATGCAATCATGGG-GAACACAA
1 GCAATATAGCATGCAATCATGGGAG-ACACAA
3091301 GCAA
1 GCAA
3091305 ATGGAGCTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 1 0.03
31 31 0.97
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (31 bp):
GCAATATAGCATGCAATCATGGGAGACACAA
Found at i:3092157 original size:3 final size:3
Alignment explanation
Indices: 3092149--3092235 Score: 149
Period size: 3 Copynumber: 28.7 Consensus size: 3
3092139 TTAGGTGCAA
3092149 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3092197 AAT AAT AAT AAT AAT AAT AAT AA- AAT AAAT AAAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AA
3092236 AAAAATGAAA
Statistics
Matches: 82, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.02
3 73 0.89
4 7 0.09
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3099917 original size:15 final size:16
Alignment explanation
Indices: 3099892--3099929 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
3099882 TGTTTTAGTG
3099892 ACGATGAAATC-CTTCT
1 ACGA-GAAATCACTTCT
*
3099908 AGGAGAAATCACTTCT
1 ACGAGAAATCACTTCT
3099924 ACGAGA
1 ACGAGA
3099930 GCTTTGCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (16 bp):
ACGAGAAATCACTTCT
Found at i:3105637 original size:43 final size:43
Alignment explanation
Indices: 3105556--3106411 Score: 896
Period size: 43 Copynumber: 20.2 Consensus size: 43
3105546 ATTAAACTTC
**
3105556 TGGAGACTTTCCT-TCCCTTAGTCTGCCTGTCGATTTTGACCT
1 TGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACCT
** * * *
3105598 TGGAGACTTTTTTATCCCTTACTCTACCTATCGGCTTTGACCT
1 TGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACCT
* *
3105641 TGGAGACTTT-CTTTCCTTTAGTCTGCCTGTCGGCTTTGACCT
1 TGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACCT
** *
3105683 TGGAGACTTTCCT-TCCCTTAGTCTGCCTGTCAACTTTGACCC
1 TGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACCT
* * * * * *
3105725 TGGAGACTTTCCT-TCCCTTAGTTTGCTTCTTGACTTTGACCC
1 TGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACCT
* * *
3105767 TAGAGACTTTCCT-TCCCTTAGTCCGCCTGTCGGCTTTGACTT
1 TGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACCT
*** *
3105809 TGGAGACTTTCCTATCCCTTAGTCTATTTGTCGACTTTGACCT
1 TGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACCT
* * *
3105852 TGGAGACTTTCTTATCCCTTAG--T--CTGTCGACTTTAACCT
1 TGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACCT
* * *
3105891 TGGAGACTTTTCTATCCCTTAGTCTGCCCGTCGGCTTTGACCC
1 TGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACCT
*
3105934 TAGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACCT
1 TGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACCT
* * * * * * *
3105977 TGGAGACTTTTCT-TCCTTTAGTCTACCTCTCGGCTCTAACCG
1 TGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACCT
* * * *
3106019 TAGAGACTTTCCTATCCTTTAGTCTGCCTATCAGCTTTGA-CT
1 TGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACCT
* * * * * *
3106061 CTAGAGATTTTCCT-TCCCTTAGTCTACTTGTCAGCTTTGACCC
1 -TGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACCT
* * * *
3106104 TAGAGAGTTTCCT-TGCCCTTAGTCTGCCTGTCAGCTTTGACCC
1 TGGAGACTTTCCTAT-CCCTTAGTCTGCCTGTCGGCTTTGACCT
* * ** * *
3106147 TGGAGACCTTCCTATCCTTTAGTCTGTTTGTCAGCTTTGACCC
1 TGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACCT
* * * *
3106190 TAGAGACTTTTCT-TCCCTTAGTCTACCTGTCGGCTTTGACTT
1 TGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACCT
* * *
3106232 TGGAGACTTTCCT-TGCCCTTAGTTTGCCTGTCAGCTTTGACCC
1 TGGAGACTTTCCTAT-CCCTTAGTCTGCCTGTCGGCTTTGACCT
* *
3106275 TGGAGACTTTCCTATCCCTTAGTTTGCCTGTCGGCTTTGACCC
1 TGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACCT
* * *
3106318 TGGAGACTTTCCTATCCCTTAGTCCGCCTGTCAGCTTTGACCC
1 TGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACCT
* * * *
3106361 TGGAGACTTTTCTATCCCTCAGTTTACCTGTCGGCTTTGACCT
1 TGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACCT
*
3106404 TGAAGACT
1 TGGAGACT
3106412 GCCTCATCTA
Statistics
Matches: 689, Mismatches: 111, Indels: 27
0.83 0.13 0.03
Matches are distributed among these distances:
39 34 0.05
41 2 0.00
42 258 0.37
43 393 0.57
44 2 0.00
ACGTcount: A:0.14, C:0.29, G:0.18, T:0.39
Consensus pattern (43 bp):
TGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACCT
Found at i:3106028 original size:85 final size:85
Alignment explanation
Indices: 3105556--3106411 Score: 929
Period size: 85 Copynumber: 10.1 Consensus size: 85
3105546 ATTAAACTTC
** * * ** *
3105556 TGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGATTTTGACCTTGGAGACTTTTTTATCCCTTACT
1 TGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTATCCCTTAGT
* *
3105621 CTACCTATCGGCTTTGACCT
66 CTGCCTGTCGGCTTTGACCT
* * * *
3105641 TGGAGACTTTCTTTCCTTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCCT-TCCCTTAGT
1 TGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTATCCCTTAGT
** *
3105705 CTGCCTGTCAACTTTGACCC
66 CTGCCTGTCGGCTTTGACCT
* * * * *
3105725 TGGAGACTTTCCTTCCCTTAGTTTGCTTCTTGACTTTGACCCTAGAGACTTTCCT-TCCCTTAGT
1 TGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTATCCCTTAGT
* *
3105789 CCGCCTGTCGGCTTTGACTT
66 CTGCCTGTCGGCTTTGACCT
*** * * * *
3105809 TGGAGACTTTCCTATCCCTTAGTCTATTTGTCGACTTTGACCTTGGAGACTTTCTTATCCCTTAG
1 TGGAGACTTTCCT-TCCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTATCCCTTAG
* *
3105874 --T--CTGTCGACTTTAACCT
65 TCTGCCTGTCGGCTTTGACCT
* *
3105891 TGGAGACTTTTCTATCCCTTAGTCTGCCCGTCGGCTTTGACCCTAGAGACTTTCCTATCCCTTAG
1 TGGAGACTTTCCT-TCCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTATCCCTTAG
3105956 TCTGCCTGTCGGCTTTGACCT
65 TCTGCCTGTCGGCTTTGACCT
* * * * * * * *
3105977 TGGAGACTTTTCTTCCTTTAGTCTACCTCTCGGCTCTAACCGTAGAGACTTTCCTATCCTTTAGT
1 TGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTATCCCTTAGT
* *
3106042 CTGCCTATCAGCTTTGA-CT
66 CTGCCTGTCGGCTTTGACCT
* * * * * *
3106061 CTAGAGATTTTCCTTCCCTTAGTCTACTTGTCAGCTTTGACCCTAGAGAGTTTCCT-TGCCCTTA
1 -TGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTAT-CCCTTA
* *
3106125 GTCTGCCTGTCAGCTTTGACCC
64 GTCTGCCTGTCGGCTTTGACCT
* * ** * *
3106147 TGGAGACCTTCCTATCCTTTAGTCTGTTTGTCAGCTTTGACCCTAGAGACTTTTCT-TCCCTTAG
1 TGGAGACTTTCCT-TCCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTATCCCTTAG
* *
3106211 TCTACCTGTCGGCTTTGACTT
65 TCTGCCTGTCGGCTTTGACCT
* * *
3106232 TGGAGACTTTCCTTGCCCTTAGTTTGCCTGTCAGCTTTGACCCTGGAGACTTTCCTATCCCTTAG
1 TGGAGACTTTCCTT-CCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTATCCCTTAG
* *
3106297 TTTGCCTGTCGGCTTTGACCC
65 TCTGCCTGTCGGCTTTGACCT
* * * * *
3106318 TGGAGACTTTCCTATCCCTTAGTCCGCCTGTCAGCTTTGACCCTGGAGACTTTTCTATCCCTCAG
1 TGGAGACTTTCCT-TCCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTATCCCTTAG
* *
3106383 TTTACCTGTCGGCTTTGACCT
65 TCTGCCTGTCGGCTTTGACCT
*
3106404 TGAAGACT
1 TGGAGACT
3106412 GCCTCATCTA
Statistics
Matches: 655, Mismatches: 103, Indels: 25
0.84 0.13 0.03
Matches are distributed among these distances:
82 69 0.11
84 111 0.17
85 290 0.44
86 184 0.28
87 1 0.00
ACGTcount: A:0.14, C:0.29, G:0.18, T:0.39
Consensus pattern (85 bp):
TGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTATCCCTTAGT
CTGCCTGTCGGCTTTGACCT
Found at i:3107074 original size:31 final size:31
Alignment explanation
Indices: 3107014--3107079 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
3107004 TGCATGCAAG
*
3107014 GCAATATAGCATGCAATCATGGGAGACACAT
1 GCAATATAGCATGCAATCATGGGAGACACAA
* *
3107045 GCAATGTAGTATGCAATCATGGG-GAACACAA
1 GCAATATAGCATGCAATCATGGGAG-ACACAA
3107076 GCAA
1 GCAA
3107080 ATGGAACTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.18
Consensus pattern (31 bp):
GCAATATAGCATGCAATCATGGGAGACACAA
Found at i:3107954 original size:3 final size:3
Alignment explanation
Indices: 3107946--3107974 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3107936 CAAAGCAAAA
3107946 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3107975 ATAAGAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3118760 original size:3 final size:3
Alignment explanation
Indices: 3118747--3118784 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
3118737 TGCAATTTAG
*
3118747 TGA TGGA TGA TGA TGA TGA TGA TAA TGA TGA TGA TGA T
1 TGA T-GA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
3118785 ACGTCTTCCG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:3121944 original size:21 final size:22
Alignment explanation
Indices: 3121920--3121972 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
3121910 AATTATGTAT
3121920 TATTTTTAAT-TTTGAAAAAGA
1 TATTTTTAATATTTGAAAAAGA
* *
3121941 TA-TTTTAATATTTTAAAAATA
1 TATTTTTAATATTTGAAAAAGA
3121962 -ATTTTT-ATATT
1 TATTTTTAATATT
3121973 ACATTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (22 bp):
TATTTTTAATATTTGAAAAAGA
Found at i:3121965 original size:20 final size:21
Alignment explanation
Indices: 3121923--3121972 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
3121913 TATGTATTAT
3121923 TTTTAAT-TTTGAAAAAGATA
1 TTTTAATATTTGAAAAAGATA
* *
3121943 TTTTAATATTTTAAAAATA-A
1 TTTTAATATTTGAAAAAGATA
*
3121963 TTTTTATATT
1 TTTTAATATT
3121973 ACATTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (21 bp):
TTTTAATATTTGAAAAAGATA
Found at i:3131096 original size:52 final size:52
Alignment explanation
Indices: 3131011--3131135 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
3131001 ATATGAAAAG
* *
3131011 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
3131063 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
3131115 TTTCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
3131136 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:3131148 original size:52 final size:51
Alignment explanation
Indices: 3131011--3131155 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
3131001 ATATGAAAAG
*
3131011 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
3131063 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
3131115 TTTCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
3131156 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 82 0.98
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:3131162 original size:13 final size:13
Alignment explanation
Indices: 3131144--3131168 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3131134 CAAAGATCAG
3131144 TGTATCGATACAA
1 TGTATCGATACAA
3131157 TGTATCGATACA
1 TGTATCGATACA
3131169 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3131246 original size:33 final size:33
Alignment explanation
Indices: 3131209--3131274 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
3131199 AGTAGCTTAA
3131209 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
3131242 ATTGTATCGATACAATACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
3131275 TGTAGACACC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:3131249 original size:13 final size:13
Alignment explanation
Indices: 3131231--3131255 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3131221 CAAAAAAATA
3131231 TGTATCGATACAT
1 TGTATCGATACAT
3131244 TGTATCGATACA
1 TGTATCGATACA
3131256 ATACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3131442 original size:21 final size:21
Alignment explanation
Indices: 3131416--3131471 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
3131406 AAATTATCCA
3131416 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
3131437 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
3131458 AATGTATCGATACA
1 AATGTATCGATACA
3131472 GGGTCCCAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:3131531 original size:19 final size:19
Alignment explanation
Indices: 3131507--3131574 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
3131497 AATTCAACAA
*
3131507 TTTGTATTGATACATAAGT
1 TTTGTATCGATACATAAGT
3131526 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
3131541 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
3131558 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
3131575 TTAGCTACTA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 27 0.64
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:3131546 original size:13 final size:13
Alignment explanation
Indices: 3131528--3131552 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3131518 ACATAAGTTT
3131528 TGTATCGATACAA
1 TGTATCGATACAA
3131541 TGTATCGATACA
1 TGTATCGATACA
3131553 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3131551 original size:32 final size:32
Alignment explanation
Indices: 3131509--3131571 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
3131499 TTCAACAATT
* *
3131509 TGTATTGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
3131541 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
3131572 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:3131632 original size:13 final size:13
Alignment explanation
Indices: 3131614--3131639 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3131604 CATTTTTCTG
3131614 TGTATCGATACAT
1 TGTATCGATACAT
3131627 TGTATCGATACAT
1 TGTATCGATACAT
3131640 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3131636 original size:33 final size:33
Alignment explanation
Indices: 3131594--3131660 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3131584 ACCAAGGAAA
***
3131594 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
3131627 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
3131660 T
1 T
3131661 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:3132192 original size:15 final size:16
Alignment explanation
Indices: 3132172--3132201 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3132162 AATCCTTTAG
3132172 CAAAAA-AAAAAAAAC
1 CAAAAACAAAAAAAAC
3132187 CAAAAACAAAAAAAA
1 CAAAAACAAAAAAAA
3132202 ACACTATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (16 bp):
CAAAAACAAAAAAAAC
Found at i:3134070 original size:51 final size:51
Alignment explanation
Indices: 3134010--3134129 Score: 177
Period size: 51 Copynumber: 2.4 Consensus size: 51
3134000 AATTCTCCAC
* * * * *
3134010 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTTTAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACTAATTTCTCAT
*
3134061 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACTGATTTCTCAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACTAATTTCTCAT
*
3134112 AATTGGGGATACTCCAAC
1 AATCGGGGATACTCCAAC
3134130 CCCGTTATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (51 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACTAATTTCTCAT
Found at i:3134267 original size:80 final size:80
Alignment explanation
Indices: 3134103--3134270 Score: 185
Period size: 80 Copynumber: 2.1 Consensus size: 80
3134093 CAAAAAACTG
* * * * * * *
3134103 ATTTCTCATAATTGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTT
1 ATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTCAAGGGAACACTCCAATCCCCATTATT
* * * * * **
3134168 CTTTTCTAATCATCG
66 ATCTCCAAAACATAA
*
3134183 ATTTCTCACAATCGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAA-CCCCATTATT
1 ATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTCAAGGGAACACTCCAATCCCCATTATT
3134247 ATCTCCAAAACATTAA
66 ATCTCCAAAACA-TAA
3134263 ATTTCTCA
1 ATTTCTCA
3134271 TCGGGAAATA
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
79 15 0.21
80 57 0.79
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.33
Consensus pattern (80 bp):
ATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTCAAGGGAACACTCCAATCCCCATTATT
ATCTCCAAAACATAA
Found at i:3137421 original size:20 final size:20
Alignment explanation
Indices: 3137393--3137431 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3137383 CTATGCATCG
*
3137393 ATACAATGTATTGATACAAC
1 ATACAATGTATCGATACAAC
*
3137413 ATACCATGTATCGATACAA
1 ATACAATGTATCGATACAA
3137432 ATAGTGGTGG
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:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (20 bp):
ATACAATGTATCGATACAAC
Found at i:3141862 original size:13 final size:13
Alignment explanation
Indices: 3141844--3141868 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3141834 CAAAGATCAG
3141844 TGTATCGATACAA
1 TGTATCGATACAA
3141857 TGTATCGATACA
1 TGTATCGATACA
3141869 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3141946 original size:33 final size:33
Alignment explanation
Indices: 3141909--3141975 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3141899 AGTAGCTTAA
3141909 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
3141942 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
3141975 A
1 A
3141976 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:3141949 original size:13 final size:13
Alignment explanation
Indices: 3141931--3141955 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3141921 CAAAAAAATA
3141931 TGTATCGATACAT
1 TGTATCGATACAT
3141944 TGTATCGATACA
1 TGTATCGATACA
3141956 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3149012 original size:23 final size:23
Alignment explanation
Indices: 3148985--3149028 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
3148975 CTTCTCAATC
*
3148985 TCTTAAAAAATTATACCCCAAAT
1 TCTTAAAAAATTATAACCCAAAT
* *
3149008 TCTTAAGAGATTATAACCCAA
1 TCTTAAAAAATTATAACCCAA
3149029 GGTTGAATGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (23 bp):
TCTTAAAAAATTATAACCCAAAT
Found at i:3152770 original size:20 final size:20
Alignment explanation
Indices: 3152717--3152773 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
3152707 GTAAAAAGAC
*
3152717 AAAATATATCGATATATTGA
1 AAAATATATCGATACATTGA
* *
3152737 AGAATGTATCGATACATTGA
1 AAAATATATCGATACATTGA
*
3152757 AAAATATATTGATACAT
1 AAAATATATCGATACAT
3152774 CTGGGTAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.33
Consensus pattern (20 bp):
AAAATATATCGATACATTGA
Found at i:3155778 original size:96 final size:96
Alignment explanation
Indices: 3155656--3155849 Score: 370
Period size: 96 Copynumber: 2.0 Consensus size: 96
3155646 ATATAAAGAG
*
3155656 TAAGACCATGAAATTAGTTATTTAGCCTTATGAGAAATAATTAATTTTGTAAATGGTTAAAAGAT
1 TAAGACCATGAAATTAGTTATTTAGCCCTATGAGAAATAATTAATTTTGTAAATGGTTAAAAGAT
3155721 AAAACAATATAGTATCAAAGTTAAATTTTCC
66 AAAACAATATAGTATCAAAGTTAAATTTTCC
3155752 TAAGACCATGAAATTAGTTATTTAGCCCTATGAGAAATAATTAATTTTGTAAATGGTTAAAAGAT
1 TAAGACCATGAAATTAGTTATTTAGCCCTATGAGAAATAATTAATTTTGTAAATGGTTAAAAGAT
*
3155817 AATACAATATAGTATCAAAGTTAAATTTTCC
66 AAAACAATATAGTATCAAAGTTAAATTTTCC
3155848 TA
1 TA
3155850 GGCCCACAGT
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (96 bp):
TAAGACCATGAAATTAGTTATTTAGCCCTATGAGAAATAATTAATTTTGTAAATGGTTAAAAGAT
AAAACAATATAGTATCAAAGTTAAATTTTCC
Found at i:3156549 original size:18 final size:16
Alignment explanation
Indices: 3156509--3156552 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 16
3156499 TTTGGGATCA
*
3156509 TTTTTTAAATTAAGAT
1 TTTTTTAAATTAAAAT
3156525 TTGTTTTAAACCTTAAAAT
1 TT-TTTTAAA--TTAAAAT
3156544 TTTTTTAAA
1 TTTTTTAAA
3156553 AAAAATTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 2 0.08
17 7 0.29
18 7 0.29
19 8 0.33
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (16 bp):
TTTTTTAAATTAAAAT
Found at i:3162012 original size:22 final size:22
Alignment explanation
Indices: 3161971--3162014 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
3161961 TTTATTTAAA
3161971 ATTATTTAAAATAATATAAAAT
1 ATTATTTAAAATAATATAAAAT
3161993 ATTATATTAATAA-AAT-TAAAAT
1 ATTAT-TTAA-AATAATATAAAAT
3162015 TATAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 11 0.55
23 7 0.35
24 2 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTATTTAAAATAATATAAAAT
Found at i:3162028 original size:18 final size:18
Alignment explanation
Indices: 3161966--3162028 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 18
3161956 TAATTTTTAT
3161966 TTAAAATTATTTAAAATAATA
1 TTAAAATTA--TAAAATAA-A
* *
3161987 TAAAATATTATATTAATAAAA
1 TTAAA-ATTATA-AAAT-AAA
3162008 TTAAAATTATAAAATAAA
1 TTAAAATTATAAAATAAA
3162026 TTA
1 TTA
3162029 TTTTTAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
18 6 0.17
19 3 0.09
20 8 0.23
21 12 0.34
22 6 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAAAATTATAAAATAAA
Found at i:3162029 original size:32 final size:28
Alignment explanation
Indices: 3161976--3162046 Score: 70
Period size: 30 Copynumber: 2.3 Consensus size: 28
3161966 TTAAAATTAT
3161976 TTAAAATAATATAAAATATTATATTAATAAAA
1 TTAAAAT--TATAAAATATTAT-TT-ATAAAA
*
3162008 TTAAAATTATAAAATAAATTATTTTTAAAA
1 TTAAAATTATAAAAT--ATTATTTATAAAA
3162038 TTCAAAATT
1 TT-AAAATT
3162047 CAAACAACTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
30 15 0.43
31 8 0.23
32 12 0.34
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (28 bp):
TTAAAATTATAAAATATTATTTATAAAA
Found at i:3167720 original size:75 final size:75
Alignment explanation
Indices: 3167631--3167783 Score: 297
Period size: 75 Copynumber: 2.0 Consensus size: 75
3167621 TTAAGAGAGG
*
3167631 TGAAGCAAATTGTTGCTTGTTTGTTTTCTAGTGACAACTTTGCAATTTAGTGATGGATGATTATG
1 TGAAGCAAATTGTTGCTTGTTTGTTTTCTAGTGACAACTTTGCAATTTAGTGATGGATGATGATG
3167696 AAGATGATGA
66 AAGATGATGA
3167706 TGAAGCAAATTGTTGCTTGTTTGTTTTCTAGTGACAACTTTGCAATTTAGTGATGGATGATGATG
1 TGAAGCAAATTGTTGCTTGTTTGTTTTCTAGTGACAACTTTGCAATTTAGTGATGGATGATGATG
3167771 AAGATGATGA
66 AAGATGATGA
3167781 TGA
1 TGA
3167784 TACGTCTTCC
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.28, C:0.08, G:0.25, T:0.39
Consensus pattern (75 bp):
TGAAGCAAATTGTTGCTTGTTTGTTTTCTAGTGACAACTTTGCAATTTAGTGATGGATGATGATG
AAGATGATGA
Found at i:3170990 original size:26 final size:25
Alignment explanation
Indices: 3170950--3171020 Score: 70
Period size: 28 Copynumber: 2.6 Consensus size: 25
3170940 CTTTAAGAAG
*
3170950 ATTTTTATATTTTTTATAATTATTTTA
1 ATTTTT-TATTTTATAT-ATTATTTTA
*
3170977 ATTATTTTCATTTTATTATTTTATTTTA
1 ATT-TTTT-ATTTTA-TATATTATTTTA
*
3171005 GTTTTTTATTTTATAT
1 ATTTTTTATTTTATAT
3171021 CTCTTAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
25 3 0.08
26 6 0.16
27 8 0.21
28 18 0.47
29 3 0.08
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.72
Consensus pattern (25 bp):
ATTTTTTATTTTATATATTATTTTA
Found at i:3171004 original size:13 final size:13
Alignment explanation
Indices: 3170969--3171018 Score: 66
Period size: 13 Copynumber: 3.7 Consensus size: 13
3170959 TTTTTTATAA
3170969 TTATTTTAATTATT
1 TTATTTT-ATTATT
3170983 TTCATTTTATTATT
1 TT-ATTTTATTATT
3170997 TTATTTTAGTT-TT
1 TTATTTTA-TTATT
3171010 TTATTTTAT
1 TTATTTTAT
3171019 ATCTCTTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.03
13 16 0.47
14 12 0.35
15 5 0.15
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (13 bp):
TTATTTTATTATT
Found at i:3171015 original size:18 final size:19
Alignment explanation
Indices: 3170978--3171018 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
3170968 ATTATTTTAA
3170978 TTATTTTCATTTTATTATT
1 TTATTTTCATTTTATTATT
3170997 TTATTTT-AGTTTT-TTATT
1 TTATTTTCA-TTTTATTATT
3171015 TTAT
1 TTAT
3171019 ATCTCTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (19 bp):
TTATTTTCATTTTATTATT
Found at i:3175207 original size:32 final size:34
Alignment explanation
Indices: 3175162--3175254 Score: 102
Period size: 36 Copynumber: 2.8 Consensus size: 34
3175152 TAACACTATC
3175162 TTTC-AAGGCTAAGATAGAA-ATCTCCCTATC-T
1 TTTCAAAGGCTAAGATAGAACATCTCCCTATCTT
** *
3175193 TTTCACGGGCTAAGATAGAACCTCTCTCCCTATCTT
1 TTTCAAAGGCTAAGATAGAA-C-ATCTCCCTATCTT
* *
3175229 TTTCAAAAGCTAAGATAGAACCTCTC
1 TTTCAAAGGCTAAGATAGAACATCTC
3175255 AATAACTTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
31 4 0.08
32 13 0.25
34 5 0.10
35 11 0.22
36 18 0.35
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (34 bp):
TTTCAAAGGCTAAGATAGAACATCTCCCTATCTT
Found at i:3175228 original size:35 final size:36
Alignment explanation
Indices: 3175182--3175254 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
3175172 AAGATAGAAA
***
3175182 TCTCCCTATC-TTTTCACGGGCTAAGATAGAACCTC
1 TCTCCCTATCTTTTTCAAAAGCTAAGATAGAACCTC
3175217 TCTCCCTATCTTTTTCAAAAGCTAAGATAGAACCTC
1 TCTCCCTATCTTTTTCAAAAGCTAAGATAGAACCTC
3175253 TC
1 TC
3175255 AATAACTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 10 0.29
36 24 0.71
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (36 bp):
TCTCCCTATCTTTTTCAAAAGCTAAGATAGAACCTC
Found at i:3175717 original size:20 final size:20
Alignment explanation
Indices: 3175692--3175734 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
3175682 CGTTGGACTC
*
3175692 AATGTATCGATACTATTCAT
1 AATGTATCGATACAATTCAT
3175712 AATGTATCGATACAATTCAT
1 AATGTATCGATACAATTCAT
3175732 AAT
1 AAT
3175735 ATGAACAGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (20 bp):
AATGTATCGATACAATTCAT
Found at i:3175750 original size:10 final size:10
Alignment explanation
Indices: 3175735--3175787 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
3175725 AATTCATAAT
3175735 ATGAACAGTG
1 ATGAACAGTG
3175745 ATGAACAGTG
1 ATGAACAGTG
* * *
3175755 ATGTATCAATAC
1 ATG-AACAGT-G
3175767 ATGAACAGTG
1 ATGAACAGTG
*
3175777 AAGAACAGTG
1 ATGAACAGTG
3175787 A
1 A
3175788 AAATGAGATT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
10 23 0.68
11 8 0.24
12 3 0.09
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.21
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:3177461 original size:13 final size:13
Alignment explanation
Indices: 3177443--3177467 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3177433 ACATTAAAAT
3177443 TGTATCGATACAG
1 TGTATCGATACAG
3177456 TGTATCGATACA
1 TGTATCGATACA
3177468 ATTTTTTTTG
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:3178663 original size:21 final size:21
Alignment explanation
Indices: 3178625--3178668 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
3178615 TCTTTTCTCC
* *
3178625 TCTAATTCATTTATTTTCTTT
1 TCTAATTCACTTAATTTCTTT
*
3178646 TCTAATTTACTTAATTTCTTT
1 TCTAATTCACTTAATTTCTTT
3178667 TC
1 TC
3178669 AAGAATATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (21 bp):
TCTAATTCACTTAATTTCTTT
Found at i:3180209 original size:28 final size:28
Alignment explanation
Indices: 3180175--3180249 Score: 123
Period size: 28 Copynumber: 2.7 Consensus size: 28
3180165 AAAATAAAAT
* *
3180175 CGGGGTTGGAGTATCCTCTCAAAAATAA
1 CGGGGTTGGAGTATCCCCGCAAAAATAA
*
3180203 CGGGGTTGGAGTATCCCCGCGAAAATAA
1 CGGGGTTGGAGTATCCCCGCAAAAATAA
3180231 CGGGGTTGGAGTATCCCCG
1 CGGGGTTGGAGTATCCCCG
3180250 ATTGTGAGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.21
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGCAAAAATAA
Found at i:3180286 original size:79 final size:79
Alignment explanation
Indices: 3180203--3180379 Score: 309
Period size: 79 Copynumber: 2.2 Consensus size: 79
3180193 TCAAAAATAA
3180203 CGGGGTTGGAGTATCCCCGCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCGCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
*
3180268 TTTAGGAATAAAAT
66 TTTAGGAATAAAAC
* * *
3180282 CGGGGTTTGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCGCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
*
3180347 TTTAGGAATAAAGC
66 TTTAGGAATAAAAC
3180361 CGGGGTTGGAGTATCCCCG
1 CGGGGTTGGAGTATCCCCG
3180380 ATTGTGAGAA
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 91 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
TTTAGGAATAAAAC
Found at i:3180383 original size:51 final size:51
Alignment explanation
Indices: 3180310--3180429 Score: 204
Period size: 51 Copynumber: 2.4 Consensus size: 51
3180300 TCGAAAATAA
* * *
3180310 CGGGGTTGGAGTATCCCTGATTGTGAGAAATCAATATTTTAGGAATAAAGC
1 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAAC
*
3180361 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAAC
3180412 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
3180430 TCGGAAATAA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAAC
Found at i:3180383 original size:130 final size:130
Alignment explanation
Indices: 3180231--3180508 Score: 502
Period size: 130 Copynumber: 2.1 Consensus size: 130
3180221 GCGAAAATAA
* *
3180231 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGGAATAAAATCGGGGTTTGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTAT
* *
3180296 CCCCTCGAAAATAACGGGGTTGGAGTATCCCTGATTGTGAGAAATCAATATTTTAGGAATAAAGC
66 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAGC
3180361 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTAT
*
3180426 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAGC
66 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAGC
*
3180491 CGGGGTTGGAGCATCCCC
1 CGGGGTTGGAGTATCCCC
3180509 TCAGAAATAA
Statistics
Matches: 142, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
130 142 1.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (130 bp):
CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTAT
CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAGC
Found at i:3180441 original size:237 final size:237
Alignment explanation
Indices: 3180026--3180458 Score: 608
Period size: 237 Copynumber: 1.8 Consensus size: 237
3180016 CAAGAAATTT
*
3180026 AATATTTTGGACATAATAACGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCTC
1 AATATTTTGGACATAATAACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTC
* * * *
3180091 GATTGTGAAAAATCGATGATTTAGAAATAAGGCAAGGGTTGAAGTGTCCCCGATTATAGAAAATT
66 GATTGTGAAAAATCAATGATTTAGAAATAAAGCAAGGGTTGAAGTATCCCCGATTATAGAAAATC
** * *
3180156 GGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCTCTCAAAAATAACGGGGTTGGAGTATCCCC
131 AATATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCC
3180221 GCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATC
196 GCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATC
*
3180263 AATATTTTAGGA-ATAA-AATCGGGGTTTGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCC
1 AATATTTT-GGACATAATAA-CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCC
* * ** * *
3180326 -CTGATTGTGAGAAATCAAT-ATTTTAGGAATAAAGCCGGGGTTGGAGTATCCCCGATTGT-GAG
64 TC-GATTGTGAAAAATCAATGA-TTTAGAAATAAAGCAAGGGTTGAAGTATCCCCGATTATAGA-
**
3180388 AAATCAATATTTT-AGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGT
126 AAATCAATATTTTGA-AAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGT
3180452 ATCCCCG
190 ATCCCCG
3180459 ATTATGAGAA
Statistics
Matches: 172, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
236 7 0.04
237 162 0.94
238 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (237 bp):
AATATTTTGGACATAATAACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTC
GATTGTGAAAAATCAATGATTTAGAAATAAAGCAAGGGTTGAAGTATCCCCGATTATAGAAAATC
AATATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCC
GCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATC
Found at i:3180445 original size:79 final size:79
Alignment explanation
Indices: 3180361--3180587 Score: 332
Period size: 79 Copynumber: 2.9 Consensus size: 79
3180351 GGAATAAAGC
*
3180361 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTAT
*
3180426 CCCCTCGGAAATAA
66 CCCCTCAGAAATAA
* ** *
3180440 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGCAT
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTAT
3180505 CCCCTCAGAAATAA
66 CCCCTCAGAAATAA
*** *
3180519 CGGGGTTGGAGTATCCCCGATTAT-AGAAAATTGGTGTTTT-GAAAATAAAATCGGGGTTGGAGT
1 CGGGGTTGGAGTATCCCCGATTATGAG-AAATCAATATTTTAG-AAATAAAATCGGGGTTGGAGT
3180582 ATCCCC
64 ATCCCC
3180588 GATTGTGGAA
Statistics
Matches: 132, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
78 3 0.02
79 129 0.98
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.26
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTAT
CCCCTCAGAAATAA
Found at i:3180461 original size:209 final size:209
Alignment explanation
Indices: 3180203--3180638 Score: 601
Period size: 209 Copynumber: 2.1 Consensus size: 209
3180193 TCAAAAATAA
*
3180203 CGGGGTTGGAGTATCCCCGCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCGCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
* * * *
3180268 TTTAGGAATAAAATCGGGGTTTGAGTATCCCCTC-GAAAATAACGGGGTTGGAGTATCCCTGATT
66 TTTAGGAATAAAACCGGGGTTGGAGCATCCCCTCAG-AAATAACGGGGTTGGAGTATCCCCGATT
* * *
3180332 GT-GAGAAATCAATATTTT-AGGAATAAAGCCGGGGTTGGAGTATCCCCGATTGT-GAGAAATCA
130 ATAGA-AAATCAATATTTTGA-AAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGA-AAATCA
* *
3180394 ATATTTTAGAAATAAAAT
192 ATATTTCAAAAATAAAAT
* *
3180412 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCGCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
*
3180477 TTTAGGAATAAAGCCGGGGTTGGAGCATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTA
66 TTTAGGAATAAAACCGGGGTTGGAGCATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTA
*** * * * * *
3180542 TAGAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGT
131 TAGAAAATCAATATTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAATCAATAT
3180607 TTCAAAAATAAAAT
196 TTCAAAAATAAAAT
* *
3180621 CGGAGTTTGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
3180639 AATTGTGAAA
Statistics
Matches: 200, Mismatches: 23, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
209 194 0.97
210 6 0.03
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (209 bp):
CGGGGTTGGAGTATCCCCGCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
TTTAGGAATAAAACCGGGGTTGGAGCATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTA
TAGAAAATCAATATTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAATCAATAT
TTCAAAAATAAAAT
Found at i:3180644 original size:51 final size:51
Alignment explanation
Indices: 3180523--3180652 Score: 179
Period size: 51 Copynumber: 2.5 Consensus size: 51
3180513 AAATAACGGG
* * * ** *
3180523 GTTGGAGTATCCCCGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTCAAAAATAAAATCGGA
3180574 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTCAAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTCAAAAATAAAATCGGA
* * *
3180625 GTTTGAGTATCCCCAATTGTGAAAAATT
1 GTTGGAGTATCCCCGATTGTGGAAAATT
3180653 GGGAAACTTA
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 70 1.00
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTCAAAAATAAAATCGGA
Found at i:3184914 original size:41 final size:41
Alignment explanation
Indices: 3184869--3184996 Score: 97
Period size: 41 Copynumber: 3.1 Consensus size: 41
3184859 GTGATTTGGC
3184869 GATCATATCATCCATGTACACCTCTATTTCCTTGTGCATAA
1 GATCATATCATCCATGTACACCTCTATTTCCTTGTGCATAA
* * ** * **
3184910 GATCATCAGCAAT--ATGTTCA-CTCTCCTT--TAGTG-ATTTGGC
1 GATCAT-ATC-ATCCATGTACACCTCTATTTCCTTGTGCA--T-AA
*
3184950 GATCATATCATCCACGTACACCTCTATTTCCTTGTGCATAA
1 GATCATATCATCCATGTACACCTCTATTTCCTTGTGCATAA
3184991 GATCAT
1 GATCAT
3184997 GGAACAATAT
Statistics
Matches: 61, Mismatches: 15, Indels: 22
0.62 0.15 0.22
Matches are distributed among these distances:
37 1 0.02
38 6 0.10
39 3 0.05
40 17 0.28
41 24 0.39
42 3 0.05
43 6 0.10
44 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (41 bp):
GATCATATCATCCATGTACACCTCTATTTCCTTGTGCATAA
Found at i:3184935 original size:81 final size:81
Alignment explanation
Indices: 3184833--3184996 Score: 319
Period size: 81 Copynumber: 2.0 Consensus size: 81
3184823 GTTTTCGCAA
*
3184833 ATCAGCAATATGTTCACTCTCCTTTAGTGATTTGGCGATCATATCATCCATGTACACCTCTATTT
1 ATCAGCAATATGTTCACTCTCCTTTAGTGATTTGGCGATCATATCATCCACGTACACCTCTATTT
3184898 CCTTGTGCATAAGATC
66 CCTTGTGCATAAGATC
3184914 ATCAGCAATATGTTCACTCTCCTTTAGTGATTTGGCGATCATATCATCCACGTACACCTCTATTT
1 ATCAGCAATATGTTCACTCTCCTTTAGTGATTTGGCGATCATATCATCCACGTACACCTCTATTT
3184979 CCTTGTGCATAAGATC
66 CCTTGTGCATAAGATC
3184995 AT
1 AT
3184997 GGAACAATAT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (81 bp):
ATCAGCAATATGTTCACTCTCCTTTAGTGATTTGGCGATCATATCATCCACGTACACCTCTATTT
CCTTGTGCATAAGATC
Found at i:3184955 original size:40 final size:40
Alignment explanation
Indices: 3184833--3184955 Score: 94
Period size: 40 Copynumber: 3.0 Consensus size: 40
3184823 GTTTTCGCAA
3184833 ATCAGCAATATGTTCACTCTCCTTTAGTGATTTGGCGATC
1 ATCAGCAATATGTTCACTCTCCTTTAGTGATTTGGCGATC
* * ** * **
3184873 AT-ATC-ATCCATGTACACCTCTATTTCCTTGTGCA--T-AAGATC
1 ATCAGCAAT--ATGTTCA-CTCTCCTT--TAGTG-ATTTGGCGATC
3184914 ATCAGCAATATGTTCACTCTCCTTTAGTGATTTGGCGATC
1 ATCAGCAATATGTTCACTCTCCTTTAGTGATTTGGCGATC
3184954 AT
1 AT
3184956 ATCATCCACG
Statistics
Matches: 58, Mismatches: 14, Indels: 22
0.62 0.15 0.23
Matches are distributed among these distances:
37 1 0.02
38 6 0.10
39 3 0.05
40 20 0.34
41 18 0.31
42 3 0.05
43 6 0.10
44 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (40 bp):
ATCAGCAATATGTTCACTCTCCTTTAGTGATTTGGCGATC
Found at i:3194884 original size:28 final size:28
Alignment explanation
Indices: 3194848--3194919 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
3194838 ATAAAATCGA
3194848 GGTTGGAGTATCCCC-TCAAAAATAACGG
1 GGTTGGAGTATCCCCGT-AAAAATAACGG
* *
3194876 GGTTAGAGTATCCCCGTGAAAATAACGG
1 GGTTGGAGTATCCCCGTAAAAATAACGG
3194904 GGTTGGAGTATCCCCG
1 GGTTGGAGTATCCCCG
3194920 ATTGTGAGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 39 0.98
29 1 0.03
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (28 bp):
GGTTGGAGTATCCCCGTAAAAATAACGG
Found at i:3194957 original size:79 final size:80
Alignment explanation
Indices: 3194873--3195049 Score: 286
Period size: 79 Copynumber: 2.2 Consensus size: 80
3194863 TCAAAAATAA
* * *
3194873 CGGGGTTAGAGTATCCCCGTGA-AAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATA
1 CGGGGTTGGAGTATCCCCGTCAGAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATA
*
3194937 TTTTAGGAATAAAAT
66 TTTTAGGAATAAAAC
*
3194952 CGGGGTTGGAGTATCCCC-TCAGAAATAATAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATA
1 CGGGGTTGGAGTATCCCCGTCAGAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATA
*
3195016 TTTTAGGAATAAAGC
66 TTTTAGGAATAAAAC
3195031 CGGGGTTGGAGTATCCCCG
1 CGGGGTTGGAGTATCCCCG
3195050 ATTGTGAGAA
Statistics
Matches: 90, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
78 2 0.02
79 88 0.98
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (80 bp):
CGGGGTTGGAGTATCCCCGTCAGAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATA
TTTTAGGAATAAAAC
Found at i:3195048 original size:51 final size:51
Alignment explanation
Indices: 3194982--3195099 Score: 209
Period size: 51 Copynumber: 2.3 Consensus size: 51
3194972 AGAAATAATA
* *
3194982 GGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGGAATAAAGCCG
1 GGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAACCG
*
3195033 GGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAATCG
1 GGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAACCG
3195084 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
3195100 TCGGAAATAA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAACCG
Found at i:3195059 original size:130 final size:130
Alignment explanation
Indices: 3194901--3195178 Score: 493
Period size: 130 Copynumber: 2.1 Consensus size: 130
3194891 GTGAAAATAA
*
3194901 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGGAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTAT
* *
3194966 CCCCTCAGAAATAATAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGGAATAAAGC
66 CCCCTCAGAAATAATAGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGC
3195031 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTAT
* *
3195096 CCCCTCGGAAATAATGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGC
66 CCCCTCAGAAATAATAGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGC
* *
3195161 AGGGGTTGGAGCATCCCC
1 CGGGGTTGGAGTATCCCC
3195179 TCGAAAATAA
Statistics
Matches: 141, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
130 141 1.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (130 bp):
CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTAT
CCCCTCAGAAATAATAGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGC
Found at i:3195115 original size:79 final size:79
Alignment explanation
Indices: 3195031--3195217 Score: 306
Period size: 79 Copynumber: 2.4 Consensus size: 79
3195021 GGAATAAAGC
* * *
3195031 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAATC-GGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAAT-AAAGCAGGGGTTGGAGCA
*
3195095 TCCCCTCGGAAATAA
65 TCCCCTCGAAAATAA
*
3195110 TGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCAGGGGTTGGAGCAT
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCAGGGGTTGGAGCAT
3195175 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
3195189 CGGGGTTGGAGTATCCCCGATTAT-AGAAA
1 CGGGGTTGGAGTATCCCCGATTATGAGAAA
3195218 ATTGGTGTTT
Statistics
Matches: 101, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
78 9 0.09
79 92 0.91
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.26
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCAGGGGTTGGAGCAT
CCCCTCGAAAATAA
Found at i:3195124 original size:237 final size:238
Alignment explanation
Indices: 3194687--3195128 Score: 590
Period size: 237 Copynumber: 1.9 Consensus size: 238
3194677 ATCTCCTGAC
* * * *
3194687 GAGAAATTTAATATTTTGGAGATAATAACGGGGTTTGAGTATCCCCTCGGAAATAACGGGGTTGG
1 GAGAAATTCAATATTTTGGAGATAATAACGGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGG
* * *
3194752 AGTATCCTCGATTGTGAAAAATCAATGATTTAGAAATAAGGCAAGGGTTGAAGTGTCCCCGATTA
66 AGTATCCCCGATTGTGAAAAATCAATGATTTAGAAATAAAGCAAGGGTTGAAGTATCCCCGATTA
*** *
3194817 TAGAAAATTGGTGTTTTGAAAATAAAATCGAGGTTGGAGTATCCCCTCAAAAATAACGGGGTTAG
131 TAGAAAATCAATATTTTGAAAATAAAATCGAGGTTGGAGTATCCCCTCAAAAATAACGGGGTTAG
3194882 AGTATCCCCGTGAAAATAACGGGGTTGGAGTATCCCCGATTGT
196 AGTATCCCCGTGAAAATAACGGGGTTGGAGTATCCCCGATTGT
*
3194925 GAGAAA-TCAATATTTTAGGA-ATAA-AATCGGGGTTGGAGTATCCCCTCAGAAATAATAGGGTT
1 GAGAAATTCAATATTTT-GGAGATAATAA-CGGGGTTGGAGTATCCCCTCAGAAATAACAGGGTT
* * ** *
3194987 GGAGTATCCCCGATTGTGAGAAATCAAT-ATTTTAGGAATAAAGCCGGGGTTGGAGTATCCCCGA
64 GGAGTATCCCCGATTGTGAAAAATCAATGA-TTTAGAAATAAAGCAAGGGTTGAAGTATCCCCGA
* * ** *
3195051 TTGT-GAGAAATCAATATTTT-AGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAATGGG
128 TTATAGA-AAATCAATATTTTGA-AAATAAAATCGAGGTTGGAGTATCCCCTCAAAAATAACGGG
*
3195114 GTTGGAGTATCCCCG
191 GTTAGAGTATCCCCG
3195129 ATTATGAGAA
Statistics
Matches: 176, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
236 6 0.03
237 161 0.91
238 9 0.05
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (238 bp):
GAGAAATTCAATATTTTGGAGATAATAACGGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGG
AGTATCCCCGATTGTGAAAAATCAATGATTTAGAAATAAAGCAAGGGTTGAAGTATCCCCGATTA
TAGAAAATCAATATTTTGAAAATAAAATCGAGGTTGGAGTATCCCCTCAAAAATAACGGGGTTAG
AGTATCCCCGTGAAAATAACGGGGTTGGAGTATCCCCGATTGT
Found at i:3195139 original size:209 final size:209
Alignment explanation
Indices: 3194873--3195307 Score: 553
Period size: 209 Copynumber: 2.1 Consensus size: 209
3194863 TCAAAAATAA
* *
3194873 CGGGGTTAGAGTATCCCCGTGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCGTGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
* * * *
3194938 TTTAGGAATAAAATC-GGGGTTGGAGTATCCCCTC-AGAAATAATAGGGTTGGAGTATCCCCGAT
66 TTTAGAAAT-AAAGCAGGGGTTGGAGCATCCCCTCGA-AAATAACAGGGTTGGAGTATCCCCGAT
* * * *
3195001 TGT-GAGAAATCAATATTTT-AGGAATAAAGCCGGGGTTGGAGTATCCCCGATTGTGAGAAATCA
129 TATAGA-AAATCAATATTTTGA-AAATAAAACCGAGGTTGGAGTATCCCCGATTGTG-GAAA--A
3195064 ATA-T-TTTAG-AAATAAAAT
189 ATAGTGTTTAGAAAATAAAAT
* *
3195082 CGGGGTTGGAGTATCCCC-TCGGAAATAATGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA
1 CGGGGTTGGAGTATCCCCGT-GAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA
*
3195146 TTTTAGAAATAAAGCAGGGGTTGGAGCATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATT
65 TTTTAGAAATAAAGCAGGGGTTGGAGCATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATT
*** * *
3195211 ATAGAAAATTGGTGTTTTGAAAATAAAACCGAGGTTGGAGTATCCCCGATTGTGGAAAATTAGTG
130 ATAGAAAATCAATATTTTGAAAATAAAACCGAGGTTGGAGTATCCCCGATTGTGGAAAAATAGTG
*
3195276 TTTCGAAAATAAAAT
195 TTTAGAAAATAAAAT
* *
3195291 CTGAGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
3195308 TAATTATGAA
Statistics
Matches: 197, Mismatches: 21, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
206 3 0.02
207 1 0.01
208 13 0.07
209 176 0.89
210 4 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.27
Consensus pattern (209 bp):
CGGGGTTGGAGTATCCCCGTGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
TTTAGAAATAAAGCAGGGGTTGGAGCATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTA
TAGAAAATCAATATTTTGAAAATAAAACCGAGGTTGGAGTATCCCCGATTGTGGAAAAATAGTGT
TTAGAAAATAAAAT
Found at i:3195235 original size:79 final size:78
Alignment explanation
Indices: 3195031--3195257 Score: 305
Period size: 79 Copynumber: 2.9 Consensus size: 78
3195021 GGAATAAAGC
*
3195031 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAA-CGGGGTTGGAGTAT
*
3195096 CCCCTCGGAAATAA
65 CCCCTCGAAAATAA
* * *
3195110 TGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCAGGGGTTGGAGCAT
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAAC-GGGGTTGGAGTAT
3195175 CCCCTCGAAAATAA
65 CCCCTCGAAAATAA
*** * *
3195189 CGGGGTTGGAGTATCCCCGATTAT-AGAAAATTGGTGTTTT-GAAAATAAAACCGAGGTTGGAGT
1 CGGGGTTGGAGTATCCCCGATTATGAG-AAATCAATATTTTAG-AAATAAAA-CGGGGTTGGAGT
3195252 ATCCCC
63 ATCCCC
3195258 GATTGTGGAA
Statistics
Matches: 131, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
78 4 0.03
79 126 0.96
80 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.26
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAACGGGGTTGGAGTATC
CCCTCGAAAATAA
Found at i:3195254 original size:51 final size:52
Alignment explanation
Indices: 3195192--3195307 Score: 173
Period size: 51 Copynumber: 2.3 Consensus size: 52
3195182 AAAATAACGG
* *
3195192 GGTTGGAGTATCCCCGATTATAGAAAATTGGTGTTTTGAAAATAAAA-CCGA
1 GGTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTCGAAAATAAAATCCGA
* * *
3195243 GGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTCGAAAATAAAATCTGA
1 GGTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTCGAAAATAAAATCCGA
3195295 -GTTGGAGTATCCC
1 GGTTGGAGTATCCC
3195308 TAATTATGAA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 56 0.95
52 3 0.05
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTCGAAAATAAAATCCGA
Found at i:3195321 original size:51 final size:51
Alignment explanation
Indices: 3195192--3195322 Score: 167
Period size: 51 Copynumber: 2.6 Consensus size: 51
3195182 AAAATAACGG
* *
3195192 GGTTGGAGTATCCCCGATTAT-AGAAAATTGGTGTTTTGAAAATAAAACCGA
1 GGTTGGAGTATCCCCGATTATGA-AAAATTAGTGTTTCGAAAATAAAACCGA
* * *
3195243 GGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTCGAAAATAAAATCTGA
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTCGAAAATAAAA-CCGA
**
3195295 -GTTGGAGTATCCCTAATTATGAAAAATT
1 GGTTGGAGTATCCCCGATTATGAAAAATT
3195323 GAGAAACTTA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
51 66 0.96
52 3 0.04
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTCGAAAATAAAACCGA
Found at i:3197700 original size:13 final size:13
Alignment explanation
Indices: 3197682--3197707 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3197672 ACAAAGATCG
3197682 ATGTATCGATACA
1 ATGTATCGATACA
3197695 ATGTATCGATACA
1 ATGTATCGATACA
3197708 TTCTACAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3197785 original size:21 final size:20
Alignment explanation
Indices: 3197755--3197794 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
3197745 TTTGTAGCGA
3197755 TACACTGTATCGATACATTC
1 TACACTGTATCGATACATTC
3197775 TACACATGTATCGATACATT
1 TACAC-TGTATCGATACATT
3197795 TACTGTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.35
Consensus pattern (20 bp):
TACACTGTATCGATACATTC
Found at i:3197889 original size:155 final size:155
Alignment explanation
Indices: 3197696--3198041 Score: 692
Period size: 155 Copynumber: 2.2 Consensus size: 155
3197686 ATCGATACAA
3197696 TGTATCGATACATTCTACAAATGTATCGATACATTTCCTTGGCAGTAGCTTTGTAGCGATACACT
1 TGTATCGATACATTCTACAAATGTATCGATACATTTCCTTGGCAGTAGCTTTGTAGCGATACACT
3197761 GTATCGATACATTCTACACATGTATCGATACATTTACTGTTTGTATCGATACAAATTATTGGAAT
66 GTATCGATACATTCTACACATGTATCGATACATTTACTGTTTGTATCGATACAAATTATTGGAAT
3197826 TCAAAATTTTTGACCATTGGGACCT
131 TCAAAATTTTTGACCATTGGGACCT
3197851 TGTATCGATACATTCTACAAATGTATCGATACATTTCCTTGGCAGTAGCTTTGTAGCGATACACT
1 TGTATCGATACATTCTACAAATGTATCGATACATTTCCTTGGCAGTAGCTTTGTAGCGATACACT
3197916 GTATCGATACATTCTACACATGTATCGATACATTTACTGTTTGTATCGATACAAATTATTGGAAT
66 GTATCGATACATTCTACACATGTATCGATACATTTACTGTTTGTATCGATACAAATTATTGGAAT
3197981 TCAAAATTTTTGACCATTGGGACCT
131 TCAAAATTTTTGACCATTGGGACCT
3198006 TGTATCGATACATTCTACAAATGTATCGATACATTT
1 TGTATCGATACATTCTACAAATGTATCGATACATTT
3198042 GGACAAAAAT
Statistics
Matches: 191, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
155 191 1.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (155 bp):
TGTATCGATACATTCTACAAATGTATCGATACATTTCCTTGGCAGTAGCTTTGTAGCGATACACT
GTATCGATACATTCTACACATGTATCGATACATTTACTGTTTGTATCGATACAAATTATTGGAAT
TCAAAATTTTTGACCATTGGGACCT
Found at i:3197940 original size:21 final size:20
Alignment explanation
Indices: 3197910--3197949 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
3197900 TTTGTAGCGA
3197910 TACACTGTATCGATACATTC
1 TACACTGTATCGATACATTC
3197930 TACACATGTATCGATACATT
1 TACAC-TGTATCGATACATT
3197950 TACTGTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.35
Consensus pattern (20 bp):
TACACTGTATCGATACATTC
Found at i:3199424 original size:30 final size:31
Alignment explanation
Indices: 3199390--3199484 Score: 95
Period size: 36 Copynumber: 2.9 Consensus size: 31
3199380 CTTACAACAC
3199390 TATC-TTTCA-AGGCTAAGATAGAAACCTCCT
1 TATCTTTTCACAGGCTAAGATAG-AACCTCCT
*
3199420 TATCTTTTCACGGGCTAAGATAGAACCTCTCT
1 TATCTTTTCACAGGCTAAGATAGAACCTC-CT
* *
3199452 CCCTATCTTTTTCAAAAGCTAAGATAGAACCTC
1 ---TATC-TTTTCACAGGCTAAGATAGAACCTC
3199485 TCAATCACTT
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
30 4 0.07
31 11 0.20
32 13 0.24
35 4 0.07
36 22 0.41
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.32
Consensus pattern (31 bp):
TATCTTTTCACAGGCTAAGATAGAACCTCCT
Found at i:3199972 original size:10 final size:10
Alignment explanation
Indices: 3199957--3200041 Score: 66
Period size: 10 Copynumber: 8.1 Consensus size: 10
3199947 GTATCGATAC
3199957 ATGAACAGTG
1 ATGAACAGTG
3199967 ATGAACAGTG
1 ATGAACAGTG
* *
3199977 ATGTATC-GATAC
1 ATG-AACAG-T-G
3199989 ATGAACAGTG
1 ATGAACAGTG
3199999 ATGAACAGTG
1 ATGAACAGTG
* *
3200009 ATGTATC-GATAC
1 ATG-AACAG-T-G
3200021 ATGAACAGTG
1 ATGAACAGTG
3200031 ATGAACAGTG
1 ATGAACAGTG
3200041 A
1 A
3200042 AAATGAGATT
Statistics
Matches: 59, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
10 39 0.66
11 12 0.20
12 8 0.14
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.24
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:3199986 original size:32 final size:32
Alignment explanation
Indices: 3199945--3200041 Score: 194
Period size: 32 Copynumber: 3.0 Consensus size: 32
3199935 ACTATTCATA
3199945 ATGTATCGATACATGAACAGTGATGAACAGTG
1 ATGTATCGATACATGAACAGTGATGAACAGTG
3199977 ATGTATCGATACATGAACAGTGATGAACAGTG
1 ATGTATCGATACATGAACAGTGATGAACAGTG
3200009 ATGTATCGATACATGAACAGTGATGAACAGTG
1 ATGTATCGATACATGAACAGTGATGAACAGTG
3200041 A
1 A
3200042 AAATGAGATT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 65 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (32 bp):
ATGTATCGATACATGAACAGTGATGAACAGTG
Found at i:3201884 original size:79 final size:78
Alignment explanation
Indices: 3201770--3202029 Score: 371
Period size: 79 Copynumber: 3.3 Consensus size: 78
3201760 TAGAGATAAC
* *
3201770 AACGGGGCTAGAGTATCCCCGATTATGAAAAATTAAAGTTTTAGAAATAAAACCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTAAAGTTTTAGAAATAAAACCGGGGTTGGAGT
3201835 ATCCCTTCGGAAAT
66 ATCCC-TCGGAAAT
* * *
3201849 AACGGGGTTGGAGTATCCTCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGAGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTAAAGTTTTAGAAATAAAACCGGGGTTGGAGT
*
3201914 ATCCC-CGCAGAAAC
66 ATCCCTCG--GAAAT
* *
3201928 AACGGGGTTGGAGTATCCCCGATTACGAGAAATTAATA-TTTTAGAAATAAAACCGGGGTTGGAG
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTAA-AGTTTTAGAAATAAAACCGGGGTTGGAG
*
3201992 TATTCCCTCGAAAAT
65 TA-TCCCTCGGAAAT
*
3202007 AATGGGGTTGGAGTATCCCCGAT
1 AACGGGGTTGGAGTATCCCCGAT
3202030 GATTAACGGG
Statistics
Matches: 162, Mismatches: 14, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
77 2 0.01
79 154 0.95
80 4 0.02
81 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (78 bp):
AACGGGGTTGGAGTATCCCCGATTATGAAAAATTAAAGTTTTAGAAATAAAACCGGGGTTGGAGT
ATCCCTCGGAAAT
Found at i:3202040 original size:27 final size:27
Alignment explanation
Indices: 3201981--3202056 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
3201971 GAAATAAAAC
3201981 CGGGGTTGGAGTATTCCCTCGA-AAATAA
1 CGGGGTTGGAGTA-TCCC-CGATAAATAA
* * *
3202009 TGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATAAATAA
3202036 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
3202057 TGTGAAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 3 0.07
27 28 0.65
28 12 0.28
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.26
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGATAAATAA
Found at i:3203491 original size:28 final size:28
Alignment explanation
Indices: 3203451--3203525 Score: 132
Period size: 28 Copynumber: 2.7 Consensus size: 28
3203441 CTCATTTTCG
3203451 TCCATGCTTTCATTTTTATGCCCATCAT
1 TCCATGCTTTCATTTTTATGCCCATCAT
*
3203479 TCCATGCTTTCATTTTTTTGCCCATCAT
1 TCCATGCTTTCATTTTTATGCCCATCAT
*
3203507 TCCATGCCTTCATTTTTAT
1 TCCATGCTTTCATTTTTAT
3203526 ATTTCATGCC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.16, C:0.28, G:0.07, T:0.49
Consensus pattern (28 bp):
TCCATGCTTTCATTTTTATGCCCATCAT
Found at i:3203543 original size:35 final size:35
Alignment explanation
Indices: 3203497--3203770 Score: 512
Period size: 35 Copynumber: 7.8 Consensus size: 35
3203487 TTCATTTTTT
*
3203497 TGCCCATCATTCCATGCCTTCATTTTTATATTTCA
1 TGCCCATCATTCCATGCCTTCATTTTTATATTCCA
3203532 TGCCCATCATTCCATGCCTTCATTTTTATATTCCA
1 TGCCCATCATTCCATGCCTTCATTTTTATATTCCA
3203567 TGCCCATCATTCCATGCCTTCATTTTTATATTCCA
1 TGCCCATCATTCCATGCCTTCATTTTTATATTCCA
*
3203602 TGCGCATCATTCCATGCCTTCATTTTTATATTCCA
1 TGCCCATCATTCCATGCCTTCATTTTTATATTCCA
*
3203637 TGCCCATCATTCCATGCCTTCACTTTTATATTCCA
1 TGCCCATCATTCCATGCCTTCATTTTTATATTCCA
3203672 TGCCCATCATTCCATGCCTTCATTTTTATATTCCA
1 TGCCCATCATTCCATGCCTTCATTTTTATATTCCA
3203707 TGCCCATCATTCCATGCCTTCATTTTTATATTCCA
1 TGCCCATCATTCCATGCCTTCATTTTTATATTCCA
*
3203742 TGCCCATAATTCCATGCCTTCATTTTTAT
1 TGCCCATCATTCCATGCCTTCATTTTTAT
3203771 TATTATTTTT
Statistics
Matches: 233, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 233 1.00
ACGTcount: A:0.20, C:0.31, G:0.06, T:0.43
Consensus pattern (35 bp):
TGCCCATCATTCCATGCCTTCATTTTTATATTCCA
Found at i:3203671 original size:21 final size:20
Alignment explanation
Indices: 3203505--3203771 Score: 98
Period size: 14 Copynumber: 15.2 Consensus size: 20
3203495 TTTGCCCATC
3203505 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTTCA-TTTTAT
* *
3203526 ATTTCATGCC--CA---T-C
1 ATTCCATGCCTTCATTTTAT
3203540 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTTCA-TTTTAT
*
3203561 ATTCCATGCC--CA---T-C
1 ATTCCATGCCTTCATTTTAT
3203575 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTTCA-TTTTAT
* *
3203596 ATTCCATG-C-GCA---T-C
1 ATTCCATGCCTTCATTTTAT
3203610 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTTCA-TTTTAT
*
3203631 ATTCCATGCC--CA---T-C
1 ATTCCATGCCTTCATTTTAT
3203645 ATTCCATGCCTTCACTTTTAT
1 ATTCCATGCCTTCA-TTTTAT
*
3203666 ATTCCATGCC--CA---T-C
1 ATTCCATGCCTTCATTTTAT
3203680 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTTCA-TTTTAT
*
3203701 ATTCCATGCC--CA---T-C
1 ATTCCATGCCTTCATTTTAT
3203715 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTTCA-TTTTAT
3203736 ATTCCATGCC--CA---TA-
1 ATTCCATGCCTTCATTTTAT
3203750 ATTCCATGCCTTCATTTT-T
1 ATTCCATGCCTTCATTTTAT
3203769 ATT
1 ATT
3203772 ATTATTTTTT
Statistics
Matches: 182, Mismatches: 16, Indels: 98
0.61 0.05 0.33
Matches are distributed among these distances:
14 67 0.37
15 9 0.05
16 14 0.08
19 18 0.10
20 7 0.04
21 67 0.37
ACGTcount: A:0.20, C:0.30, G:0.06, T:0.44
Consensus pattern (20 bp):
ATTCCATGCCTTCATTTTAT
Found at i:3203794 original size:13 final size:13
Alignment explanation
Indices: 3203763--3203813 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
3203753 CCATGCCTTC
*
3203763 ATTTTTATTATTA
1 ATTTTTATTTTTA
*
3203776 TTTTTTTATTTTTA
1 -ATTTTTATTTTTA
*
3203790 A-TTTTAATTTTA
1 ATTTTTATTTTTA
3203802 ATTTTTGATTTT
1 ATTTTT-ATTTT
3203814 CACTTATTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
12 11 0.37
13 4 0.13
14 15 0.50
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (13 bp):
ATTTTTATTTTTA
Found at i:3204284 original size:40 final size:41
Alignment explanation
Indices: 3204238--3204339 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 41
3204228 CACTTTTTTC
* *
3204238 GAGGACAAAGAAAAAGAGGATGAA-ATAG-GTCCTGCTCCTT
1 GAGGACAAAGAAAAAGAGGA-AAAGAAAGTGTCCTGCTCCTT
* * *
3204278 GAGGACAAAGGAAAAGAAGAAAAGGAAAGTGTCCTGCTTCTT
1 GAGGACAAAGAAAAAGAGGAAAA-GAAAGTGTCCTGCTCCTT
3204320 GAGGACAAAGTGAAAAAGAG
1 GAGGACAAA--GAAAAAGAG
3204340 TACGTCTCAT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
39 2 0.04
40 18 0.36
41 3 0.06
42 20 0.40
44 7 0.14
ACGTcount: A:0.44, C:0.12, G:0.29, T:0.15
Consensus pattern (41 bp):
GAGGACAAAGAAAAAGAGGAAAAGAAAGTGTCCTGCTCCTT
Found at i:3204562 original size:61 final size:59
Alignment explanation
Indices: 3204472--3206035 Score: 1650
Period size: 60 Copynumber: 26.4 Consensus size: 59
3204462 AAAGAAGTGT
* * * * *
3204472 GTCCTACTCTTTGAGGACAGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGAC-TAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGC
* * * * * *
3204533 ATTCTGCTCTTTGAGGACTGGAAGATGCCACCAACTAGTGTGGGATTTGCAAAA-AGAAA-GC
1 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT--AAAAGA-AAAGGC
* * ** * *
3204594 ATCCTACTCTTTGAGGACTGAAAATTGCCACCAACTTGTATGGGCTTTAAAAGGAGAAGGC
1 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGC
* * * * *
3204655 ATCCTGCTCTTTAAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCATAGAGAAA-GC
1 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGA-AAAGGC
* * * *
3204716 ATCTTGCTCTTTGAGGACTGGAAA-ATGCCACTAACTTGTGTGGGCTTT-----AAAAGGC
1 GTCCTGCTCTTTGAGGACT--AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
*
3204771 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
1 GTCCTGCTCTTTGAGGACTA--AAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGC
* *
3204832 ATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGC
* * * *
3204892 GTCCTACTTTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAGAGGT
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGC
* * *
3204952 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAGAGGT
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGC
* **
3205012 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGTT
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-AAAAGGC
* *
3205073 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAGAGGT
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGC
* * * *
3205133 GTCATGCTCTTTGAGGACTAAAAGTGCCACCAA-TTCGTGTGGGCTTTAAAAAGAAAAAAAGT
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTT-GTGTGGGCTTT-AAAAG--AAAAGGC
*
3205195 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-AAAAGGC
* * * *
3205256 GTCCTGCTTTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAAAGT
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG--AAAAGGC
* * *
3205318 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAAAGT
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG--AAAAGGC
* * *
3205380 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAGAGGT
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGC
* * * *
3205440 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGACTTTAAAAAAAAAAGGT
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGC
* * * *
3205500 TTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAGATGT
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGC
* * *
3205560 GTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTT-----AAAAGGA
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
3205614 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGC
1 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
* * **
3205669 GTCCTGCTCTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGC
1 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGC
* * *
3205730 GTCTTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGAGCTTTAAAAG---A--C
1 GTCCTGCTCTTTGAGGACT--AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
* *
3205786 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTCGTGT-GGCTTT----G-AAAGGA
1 GTCCTGCTCTTTGAGGACTA--AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
*
3205840 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGC
*
3205901 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG---A--C
1 GTCCTGCTCTTTGAGGACT--AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
*
3205957 GTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT----G-AAAGGC
1 GTCCTGCTCTTTGAGGACT--AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
*
3206012 GTCCTGCTTTTTGAGGACTAAAGG
1 GTCCTGCTCTTTGAGGACTAAAGG
3206036 GTGAAAGGAG
Statistics
Matches: 1331, Mismatches: 109, Indels: 133
0.85 0.07 0.08
Matches are distributed among these distances:
50 1 0.00
51 1 0.00
52 1 0.00
53 7 0.01
54 66 0.05
55 188 0.14
56 45 0.03
58 2 0.00
59 16 0.01
60 391 0.29
61 376 0.28
62 236 0.18
63 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (59 bp):
GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
Done.