Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 337 of 349
Found at i:111587363 original size:119 final size:119
Alignment explanation
Indices: 111587072--111587550 Score: 762
Period size: 119 Copynumber: 4.0 Consensus size: 119
111587062 CTTGAGTCTG
**
111587072 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATGT
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
* * * *
111587137 CAAATCATCTTGGATCTGGCTTCAGTATAAACATCTGAAGATTAGATCTGCCATG
66 CAAATCATCTTGGAT-TTGCTTCAGTATAAACATCTGAAGTTTAGATCTGCTATA
*
111587192 TGTCTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAAT
1 T-T-TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAAT
111587257 ACCAAATCATCTTGGATTTGCTTCAGTATAAACATCTGAAGTTTAGATCTGCTATA
64 ACCAAATCATCTTGGATTTGCTTCAGTATAAACATCTGAAGTTTAGATCTGCTATA
* *
111587313 TTTGAGAACGTCTGAGAGTCAAATATGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
* *
111587378 CAAATCATCTTGGATTTGTTTCAGTATAATCATCTGAAGTTTAGATCTGCTATA
66 CAAATCATCTTGGATTTGCTTCAGTATAAACATCTGAAGTTTAGATCTGCTATA
* * * *
111587432 TCTGATAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
* *
111587497 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAG-CTAGATCTGCTATA
66 CAAATCATCTTGGATTTGCTTCAGTATAAACATCTG-AAGTTTAGATCTGCTATA
111587551 CTGCGGCCTA
Statistics
Matches: 336, Mismatches: 20, Indels: 7
0.93 0.06 0.02
Matches are distributed among these distances:
119 219 0.65
120 5 0.01
121 37 0.11
122 75 0.22
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (119 bp):
TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
CAAATCATCTTGGATTTGCTTCAGTATAAACATCTGAAGTTTAGATCTGCTATA
Found at i:111595373 original size:15 final size:15
Alignment explanation
Indices: 111595335--111595379 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
111595325 ACTTTAAATA
*
111595335 CAAATG-ATGTGATG
1 CAAATGCATGAGATG
111595349 -AAATGCCATGAGATG
1 CAAATG-CATGAGATG
111595364 CAAATGCATGA-ATG
1 CAAATGCATGAGATG
111595378 CA
1 CA
111595380 TAAAGAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.19
14 5 0.19
15 12 0.44
16 5 0.19
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.22
Consensus pattern (15 bp):
CAAATGCATGAGATG
Found at i:111599148 original size:7 final size:7
Alignment explanation
Indices: 111599136--111599161 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
111599126 AAATAGTATT
111599136 TAATATA
1 TAATATA
111599143 TAATATA
1 TAATATA
111599150 TAATATA
1 TAATATA
111599157 TAATA
1 TAATA
111599162 ACAAGAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TAATATA
Found at i:111599379 original size:20 final size:19
Alignment explanation
Indices: 111599341--111599383 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
111599331 ACAATTTACA
111599341 AATTTAAAATAATATATAT
1 AATTTAAAATAATATATAT
111599360 AATTTAAACATAA-ATAATAT
1 AATTTAAA-ATAATAT-ATAT
111599380 AATT
1 AATT
111599384 GGTAATATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTTAAAATAATATATAT
Found at i:111599492 original size:12 final size:13
Alignment explanation
Indices: 111599446--111599495 Score: 50
Period size: 12 Copynumber: 3.9 Consensus size: 13
111599436 CAAGTAAAAC
111599446 ATAATAAATATTAT
1 ATAATAAATA-TAT
111599460 ATAATAAA-ATAT
1 ATAATAAATATAT
***
111599472 ATGGGAAATA-AT
1 ATAATAAATATAT
111599484 ATAATAAATATA
1 ATAATAAATATA
111599496 GCATGTAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
12 17 0.61
13 3 0.11
14 8 0.29
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (13 bp):
ATAATAAATATAT
Found at i:111599564 original size:20 final size:20
Alignment explanation
Indices: 111599534--111599581 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
111599524 AAATAATATG
*
111599534 TATATATAATATATGTAAAAA
1 TATA-ATAATATATATAAAAA
*
111599555 TATAATAATATATATATAAA
1 TATAATAATATATATAAAAA
111599575 TAATAAT
1 T-ATAAT
111599582 TATGAGAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TATAATAATATATATAAAAA
Found at i:111602893 original size:48 final size:48
Alignment explanation
Indices: 111602832--111603054 Score: 214
Period size: 48 Copynumber: 4.8 Consensus size: 48
111602822 TGATATGTGT
* * *
111602832 GCCACTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATAAGA
* * *
111602880 GCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCA--CAT-TACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGATATA--AGA
* *
111602928 GCCAGTGTAAAACCATGT-T-GGACATGGCATCGGCATTGATTGTAAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-TATAAGA
* * **
111602975 --CAGTGTAAGACCATGT-T-GGACATGGCCTCGGCATTGAGACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATAAGA
* *
111603019 GCTAGTGTAAGACCATGTCTGGGACA-AGCATCGGCA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
111603055 ATCCACCCTA
Statistics
Matches: 145, Mismatches: 19, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
44 3 0.02
45 37 0.26
46 30 0.21
47 16 0.11
48 55 0.38
49 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATAAGA
Found at i:111607144 original size:30 final size:30
Alignment explanation
Indices: 111607109--111607166 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
111607099 CACGGCCATG
*
111607109 ACACACGGGCGTGCGG-TCTACCCGTGTGTC
1 ACACACAGGCGTGCGGATC-ACCCGTGTGTC
*
111607139 ACACACAGGCGTGTGGATCACCCGTGTG
1 ACACACAGGCGTGCGGATCACCCGTGTG
111607167 GAAGTGCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.17, C:0.31, G:0.33, T:0.19
Consensus pattern (30 bp):
ACACACAGGCGTGCGGATCACCCGTGTGTC
Found at i:111608971 original size:29 final size:29
Alignment explanation
Indices: 111608938--111609038 Score: 78
Period size: 29 Copynumber: 3.3 Consensus size: 29
111608928 TAATATAAGT
111608938 GACTAAAACGTAACATTTCAAACATAAAG
1 GACTAAAACGTAACATTTCAAACATAAAG
* ***
111608967 GACTAACCACTTCGTAACAAAACGATAACAT-AAG
1 GACTAA--A--ACGTAACATTTC-A-AACATAAAG
* *
111609001 TTACTAAAACGTAACATTTCAAACATAAAT
1 -GACTAAAACGTAACATTTCAAACATAAAG
111609031 GACTAAAA
1 GACTAAAA
111609039 TATAATTTGA
Statistics
Matches: 53, Mismatches: 11, Indels: 16
0.66 0.14 0.20
Matches are distributed among these distances:
29 18 0.34
30 3 0.06
31 9 0.17
33 9 0.17
34 4 0.08
35 10 0.19
ACGTcount: A:0.50, C:0.19, G:0.09, T:0.22
Consensus pattern (29 bp):
GACTAAAACGTAACATTTCAAACATAAAG
Found at i:111608985 original size:64 final size:64
Alignment explanation
Indices: 111608908--111609036 Score: 222
Period size: 64 Copynumber: 2.0 Consensus size: 64
111608898 TAGTAAAGTG
* *
111608908 ACCACTTCTTAACAAAACGATAATATAAGTGACTAAAACGTAACATTTCAAACATAAAGGACTA
1 ACCACTTCGTAACAAAACGATAACATAAGTGACTAAAACGTAACATTTCAAACATAAAGGACTA
* *
111608972 ACCACTTCGTAACAAAACGATAACATAAGTTACTAAAACGTAACATTTCAAACATAAATGACTA
1 ACCACTTCGTAACAAAACGATAACATAAGTGACTAAAACGTAACATTTCAAACATAAAGGACTA
111609036 A
1 A
111609037 AATATAATTT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.49, C:0.19, G:0.09, T:0.23
Consensus pattern (64 bp):
ACCACTTCGTAACAAAACGATAACATAAGTGACTAAAACGTAACATTTCAAACATAAAGGACTA
Found at i:111617056 original size:17 final size:17
Alignment explanation
Indices: 111617021--111617067 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
111617011 GTGATGTTTG
*
111617021 ATAAATTTT-CTTTTAA
1 ATAAATTTTATTTTTAA
*
111617037 AT-AATCTTTATTTTTCA
1 ATAAAT-TTTATTTTTAA
111617054 ATAAATTTTATTTT
1 ATAAATTTTATTTT
111617068 AATTTAAGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 3 0.12
16 5 0.19
17 15 0.58
18 3 0.12
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (17 bp):
ATAAATTTTATTTTTAA
Found at i:111618011 original size:39 final size:39
Alignment explanation
Indices: 111617957--111618034 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
111617947 AAGATATGTT
**
111617957 GGCTGCGGAATTTTGTTTTACATGCATTGCAAATTCTCC
1 GGCTGCGGAATTTTGTTTTACATGCACCGCAAATTCTCC
111617996 GGCTGCGGAATTTTGTTTTACATGCACCGCAAATTCTCC
1 GGCTGCGGAATTTTGTTTTACATGCACCGCAAATTCTCC
111618035 CTCGTCAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (39 bp):
GGCTGCGGAATTTTGTTTTACATGCACCGCAAATTCTCC
Found at i:111619383 original size:13 final size:13
Alignment explanation
Indices: 111619365--111619400 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
111619355 AAAATTCTAG
111619365 TGTCATGCAATCA
1 TGTCATGCAATCA
111619378 TGTCATGCAATCA
1 TGTCATGCAATCA
*
111619391 AGTCATGCAA
1 TGTCATGCAA
111619401 ATCAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (13 bp):
TGTCATGCAATCA
Found at i:111621898 original size:23 final size:22
Alignment explanation
Indices: 111621870--111621913 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
111621860 AATTAAATCA
111621870 CTAAGATTACAAAATCATATCTT
1 CTAAGATTAC-AAATCATATCTT
* *
111621893 CTAAGATTGCATATCATATCT
1 CTAAGATTACAAATCATATCT
111621914 AAGATTGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (22 bp):
CTAAGATTACAAATCATATCTT
Found at i:111621961 original size:14 final size:15
Alignment explanation
Indices: 111621906--111622032 Score: 78
Period size: 18 Copynumber: 7.5 Consensus size: 15
111621896 AGATTGCATA
111621906 TCATATCTAAGATTG
1 TCATATCTAAGATTG
111621921 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
111621939 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
111621956 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
111621975 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
*
111621993 T-ATCATATAAGATTG
1 TCAT-ATCTAAGATTG
111622008 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
111622027 -CATATC
1 TCATATC
111622033 ATTGAAGATT
Statistics
Matches: 96, Mismatches: 5, Indels: 20
0.79 0.04 0.17
Matches are distributed among these distances:
14 8 0.08
15 11 0.11
17 16 0.17
18 31 0.32
19 28 0.29
20 2 0.02
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:111621965 original size:54 final size:54
Alignment explanation
Indices: 111621892--111622034 Score: 263
Period size: 54 Copynumber: 2.7 Consensus size: 54
111621882 AATCATATCT
111621892 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
111621946 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
111622000 --TAAGATTGCATATCATATCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCAT
111622035 TGAAGATTAT
Statistics
Matches: 88, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
52 29 0.33
53 5 0.06
54 54 0.61
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:111622014 original size:71 final size:71
Alignment explanation
Indices: 111621885--111622035 Score: 229
Period size: 71 Copynumber: 2.1 Consensus size: 71
111621875 ATTACAAAAT
111621885 CATATC-TTCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATCT
1 CATATCATTCTAAGATTGCATATCATATCTAAGATTGCAATCATA-CTAAGATTGTATCATATCT
111621949 AAGATTG
65 AAGATTG
*
111621956 CATATCATATCTAAGATTGCA-ATCATATCTAAGATTG-TATCATA-TAAGATTGCATATCATAT
1 CATATCAT-TCTAAGATTGCATATCATATCTAAGATTGCAATCATACTAAGATTG--TATCATAT
111622018 CTAAGATTG
63 CTAAGATTG
111622027 CATATCATT
1 CATATCATT
111622036 GAAGATTATA
Statistics
Matches: 75, Mismatches: 1, Indels: 9
0.88 0.01 0.11
Matches are distributed among these distances:
69 8 0.11
70 1 0.01
71 37 0.49
72 17 0.23
73 12 0.16
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (71 bp):
CATATCATTCTAAGATTGCATATCATATCTAAGATTGCAATCATACTAAGATTGTATCATATCTA
AGATTG
Found at i:111622042 original size:17 final size:19
Alignment explanation
Indices: 111621892--111622034 Score: 230
Period size: 19 Copynumber: 7.9 Consensus size: 19
111621882 AATCATATCT
111621892 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
111621911 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
111621929 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
111621946 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
111621965 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
111621983 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
111622000 --TAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
111622017 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
111622035 TGAAGATTAT
Statistics
Matches: 116, Mismatches: 0, Indels: 16
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.07
17 29 0.25
18 32 0.28
19 47 0.41
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:111622555 original size:44 final size:45
Alignment explanation
Indices: 111622389--111622579 Score: 249
Period size: 45 Copynumber: 4.3 Consensus size: 45
111622379 CGATATCTAC
*
111622389 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
* * *
111622434 TATCTTCGATCTGCTTCCCGTTTAATACAGAGACACCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
* * *
111622479 TATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGC
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
* * * * *
111622524 T-TCTTCAATCTGTTCCCCGTCTAATATAGAGATGTCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
* *
111622568 CATCTTGGATCT
1 TATCTTCGATCT
111622580 ACTTCGATGT
Statistics
Matches: 126, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
44 37 0.29
45 89 0.71
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.34
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
Found at i:111622728 original size:78 final size:78
Alignment explanation
Indices: 111622596--111623122 Score: 803
Period size: 78 Copynumber: 6.8 Consensus size: 78
111622586 ATGTAAACAC
* * * *
111622596 ATGAAGGTCAGATCTGCTGTGTCTTTGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
111622661 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * *
111622674 ATAAAGGTCCA-ATCTATTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
*
111622738 TTGGATCTACTTCA
65 TTGGATCTGCTTCA
* * *
111622752 ATAAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
111622817 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * *
111622830 ATGAAGGTCCA-ATCTGTTTTGTCTTCGATCTGCTCCTCGCCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
111622894 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
*
111622908 ATGAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
111622973 TGGATCTGCTTCA
66 TGGATCTGCTTCA
*
111622986 ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGCCTAAATACAGAGATGCCAAATCAT
1 ATGAAGGT-CAGATCTGTTATGTCTTCGATCTGCTCCCCGTCT-AATACAGAGATGCCAAATCAT
111623050 CTTGGATCTGCTTCA
64 CTTGGATCTGCTTCA
* * **
111623065 ATGAAGGTCAGATCTGCTATGTCTTCGATCT-CT-CCCGTCGAATATGGAGATGCCAAAT
1 ATGAAGGTCAGATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAAT
111623123 ATGTTTCTTC
Statistics
Matches: 414, Mismatches: 28, Indels: 16
0.90 0.06 0.03
Matches are distributed among these distances:
76 16 0.04
77 9 0.02
78 320 0.77
79 69 0.17
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:111622883 original size:156 final size:156
Alignment explanation
Indices: 111622596--111623122 Score: 914
Period size: 156 Copynumber: 3.4 Consensus size: 156
111622586 ATGTAAACAC
* *
111622596 ATGAAGGTCAGATCTGCTGTGTCTTTGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
* *
111622661 TGGATCTGCTTCAATAAAGGTCCAATCTATTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGA
66 TGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGA
*
111622726 TGCCAAATCATCTTGGATCTACTTCA
131 TGCCAAATCATCTTGGATCTGCTTCA
*
111622752 ATAAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
* *
111622817 TGGATCTGCTTCAATGAAGGTCCAATCTGTTTTGTCTTCGATCTGCTCCTCGCCTAATACAGAGA
66 TGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGA
111622882 TGCCAAATCATCTTGGATCTGCTTCA
131 TGCCAAATCATCTTGGATCTGCTTCA
*
111622908 ATGAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
111622973 TGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGCCTAAATACAGAG
66 TGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGCCT-AATACAGAG
111623038 ATGCCAAATCATCTTGGATCTGCTTCA
130 ATGCCAAATCATCTTGGATCTGCTTCA
* * **
111623065 ATGAAGGTCAGATCTGCTATGTCTTCGATCT-CT-CCCGTCGAATATGGAGATGCCAAAT
1 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAAT
111623123 ATGTTTCTTC
Statistics
Matches: 353, Mismatches: 17, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
155 22 0.06
156 266 0.75
157 65 0.18
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (156 bp):
ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGA
TGCCAAATCATCTTGGATCTGCTTCA
Found at i:111631369 original size:17 final size:18
Alignment explanation
Indices: 111631337--111631370 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
111631327 GATATGATAC
*
111631337 TAAAATTATTTAAAAAAT
1 TAAAATTATATAAAAAAT
111631355 TAAAA-TATATAAAAAA
1 TAAAATTATATAAAAAA
111631371 ATCAGGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAATTATATAAAAAAT
Found at i:111631661 original size:22 final size:21
Alignment explanation
Indices: 111631626--111631755 Score: 68
Period size: 19 Copynumber: 6.7 Consensus size: 21
111631616 AAAAGGTATC
* *
111631626 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
111631647 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
111631670 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
111631689 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
**
111631707 T--GTATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
111631724 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
111631743 TGC-AATCATATCT
1 TACAAATCATATCT
111631756 AAGATTGTAT
Statistics
Matches: 94, Mismatches: 8, Indels: 15
0.80 0.07 0.13
Matches are distributed among these distances:
17 15 0.16
18 21 0.22
19 29 0.31
20 1 0.01
21 3 0.03
22 15 0.16
23 10 0.11
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:111631669 original size:23 final size:22
Alignment explanation
Indices: 111631626--111631683 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
111631616 AAAAGGTATC
* *
111631626 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
111631647 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
111631670 TGCATATCATATCT
1 TACAAATCATATCT
111631684 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:111631718 original size:35 final size:36
Alignment explanation
Indices: 111631662--111631787 Score: 193
Period size: 35 Copynumber: 3.5 Consensus size: 36
111631652 AATCATATCT
111631662 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGC-TATCATATCTAAGATTGCAATCATA
111631699 TCTAAGATTG-TATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGCTATCATATCTAAGATTGCA-ATCATA
* *
111631735 TCTAAGATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATATCTAAGATTGCAATCATA
111631770 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
111631788 TGAAGATTAT
Statistics
Matches: 83, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
35 36 0.43
36 21 0.25
37 26 0.31
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGCTATCATATCTAAGATTGCAATCATA
Found at i:111631730 original size:54 final size:54
Alignment explanation
Indices: 111631662--111631787 Score: 252
Period size: 54 Copynumber: 2.3 Consensus size: 54
111631652 AATCATATCT
111631662 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
111631716 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
111631770 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
111631788 TGAAGATTAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:111631731 original size:14 final size:15
Alignment explanation
Indices: 111631676--111631785 Score: 87
Period size: 17 Copynumber: 6.5 Consensus size: 15
111631666 AGATTGCATA
111631676 TCATATCTAAGATTG
1 TCATATCTAAGATTG
111631691 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
111631709 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
111631726 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
111631745 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
111631763 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
111631780 -CATATC
1 TCATATC
111631786 ATTGAAGATT
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.07
17 32 0.37
18 31 0.36
19 17 0.20
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:111631795 original size:17 final size:19
Alignment explanation
Indices: 111631662--111631787 Score: 210
Period size: 19 Copynumber: 6.9 Consensus size: 19
111631652 AATCATATCT
111631662 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
111631681 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
111631699 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
111631716 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
111631735 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
111631753 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
111631770 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
111631788 TGAAGATTAT
Statistics
Matches: 101, Mismatches: 0, Indels: 12
0.89 0.00 0.11
Matches are distributed among these distances:
17 32 0.32
18 32 0.32
19 37 0.37
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:111636030 original size:30 final size:30
Alignment explanation
Indices: 111635996--111636053 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
111635986 CATGGACTGG
*
111635996 CACATGGGCGTATGGCCAGCCCGTGTGGCT
1 CACATGGGCATATGGCCAGCCCGTGTGGCT
* *
111636026 CACATGGGCATGTGGCCTGCCCGTGTGG
1 CACATGGGCATATGGCCAGCCCGTGTGG
111636054 AAATGCCCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.12, C:0.29, G:0.38, T:0.21
Consensus pattern (30 bp):
CACATGGGCATATGGCCAGCCCGTGTGGCT
Found at i:111638139 original size:20 final size:21
Alignment explanation
Indices: 111638105--111638153 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
111638095 ATTAATTAGT
*
111638105 AAAATAAAAATAAATAATATA
1 AAAATAAAAATAAATAAAATA
*
111638126 AAAATTAAAA-AAATAAAAT-
1 AAAATAAAAATAAATAAAATA
111638145 AAAATAAAA
1 AAAATAAAA
111638154 TTGGGGTGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 8 0.32
20 8 0.32
21 9 0.36
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (21 bp):
AAAATAAAAATAAATAAAATA
Found at i:111638143 original size:5 final size:5
Alignment explanation
Indices: 111638104--111638154 Score: 52
Period size: 5 Copynumber: 10.2 Consensus size: 5
111638094 AATTAATTAG
* *
111638104 TAAAA TAAAA -ATAAA TAATA TAAAAA TTAAA -AAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TA-AAA TAAAA T-AAAA TAAAA TAAAA TAAAA TAAAA TAAAA
111638154 T
1 T
111638155 TGGGGTGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
4 4 0.11
5 29 0.76
6 5 0.13
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (5 bp):
TAAAA
Found at i:111643663 original size:7 final size:7
Alignment explanation
Indices: 111643651--111643677 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
111643641 TTTTCTTCAC
111643651 TTGAAAG
1 TTGAAAG
111643658 TTGAAAG
1 TTGAAAG
111643665 TTGAAAG
1 TTGAAAG
111643672 TTGAAA
1 TTGAAA
111643678 CCCTTCTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.30
Consensus pattern (7 bp):
TTGAAAG
Found at i:111646817 original size:22 final size:25
Alignment explanation
Indices: 111646781--111646832 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 25
111646771 CAAAAGTAAC
111646781 TATTTAATAGTTTACC-TT-TTTTA
1 TATTTAATAGTTTACCTTTATTTTA
111646804 TATTTAA-AGTTTACCTTTATTTTA
1 TATTTAATAGTTTACCTTTATTTTA
111646828 TATTT
1 TATTT
111646833 GGATTTTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 8 0.30
23 9 0.33
24 10 0.37
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.62
Consensus pattern (25 bp):
TATTTAATAGTTTACCTTTATTTTA
Found at i:111658555 original size:22 final size:22
Alignment explanation
Indices: 111658530--111658572 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
111658520 TAAATTAATT
111658530 TAATTTTGAAATCAATTCTATG
1 TAATTTTGAAATCAATTCTATG
*
111658552 TAATTTTGAAATCTATTCTAT
1 TAATTTTGAAATCAATTCTAT
111658573 TAGATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (22 bp):
TAATTTTGAAATCAATTCTATG
Found at i:111658734 original size:9 final size:10
Alignment explanation
Indices: 111658707--111658735 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
111658697 AATAATATCA
111658707 TTTAGAAAAT
1 TTTAGAAAAT
111658717 TTTAGAAAAT
1 TTTAGAAAAT
111658727 TTTA-AAAAT
1 TTTAGAAAAT
111658736 AATTTAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.26
10 14 0.74
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
TTTAGAAAAT
Found at i:111667743 original size:45 final size:45
Alignment explanation
Indices: 111667679--111667768 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
111667669 TATTCTCCTC
*
111667679 ACTAATTTGGGTAGAAATATTCCTGGTTAAAACTAGTGAGGAAAA
1 ACTAATTTGGGTAGAAATATTCCTAGTTAAAACTAGTGAGGAAAA
111667724 ACTAATTTGGGTAGAAATATTCCTAGTTAAAACTAGTGAGGAAAA
1 ACTAATTTGGGTAGAAATATTCCTAGTTAAAACTAGTGAGGAAAA
111667769 TGCTTGGATC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (45 bp):
ACTAATTTGGGTAGAAATATTCCTAGTTAAAACTAGTGAGGAAAA
Found at i:111669400 original size:98 final size:97
Alignment explanation
Indices: 111669223--111669475 Score: 298
Period size: 98 Copynumber: 2.6 Consensus size: 97
111669213 ATTTGTATAC
* * *
111669223 AAAATACGAGTTTTTTAAAAAAAAATTTTGGTGCTGGCCTGTCAATGGCTGGCACCAAGTACCAA
1 AAAATACGAG--TTTTAAAAAAAAATTTAGGTGCTGGCCTGCCAATGGCCGGCACCAAGTACCAA
*
111669288 CAAAAATCAATTTTTTTTAAAAAAATTTTACTGTCCG
64 AAAAAATCAATTTTTTTTAAAAAAA--TTACTG-CCG
*
111669325 AAAATACGAGTTTTAAAAAAAAA-TTAGGTGCT-GTCTGCCAATGGCCGGCACCAAGTA-CAAAA
1 AAAATACGAGTTTTAAAAAAAAATTTAGGTGCTGGCCTGCCAATGGCCGGCACCAAGTACCAAAA
* *
111669387 AAAATCAATTTTTTTTTAAAAAAATTGCTGCTG
66 AAAATCAA-TTTTTTTTAAAAAAATTACTGCCG
* * * * *
111669420 AAAATACAAGTTTTAAAAAAAAAATTT-GAGTGTTGGCCTGTCAATAGACGGCACCA
1 AAAATACGAGTTTT-AAAAAAAAATTTAG-GTGCTGGCCTGCCAATGGCCGGCACCA
111669476 GATACGAGTT
Statistics
Matches: 133, Mismatches: 13, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
95 15 0.11
96 15 0.11
97 18 0.14
98 54 0.41
99 8 0.06
100 13 0.10
102 10 0.08
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (97 bp):
AAAATACGAGTTTTAAAAAAAAATTTAGGTGCTGGCCTGCCAATGGCCGGCACCAAGTACCAAAA
AAAATCAATTTTTTTTAAAAAAATTACTGCCG
Found at i:111678881 original size:54 final size:53
Alignment explanation
Indices: 111678823--111678928 Score: 194
Period size: 54 Copynumber: 2.0 Consensus size: 53
111678813 TCAGTCAGAG
111678823 TATATGCTTCCTAATAGGGAATTTTGATATCTTATGATACATCTTAATTCAAAT
1 TATATGCTTCCTAATAGGGAATTTTGATATCTTA-GATACATCTTAATTCAAAT
*
111678877 TATATGCTTCCTAATAGGGGATTTTGATATCTTAGATACATCTTAATTCAAA
1 TATATGCTTCCTAATAGGGAATTTTGATATCTTAGATACATCTTAATTCAAA
111678929 AGTAAAAGAA
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
53 18 0.35
54 33 0.65
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (53 bp):
TATATGCTTCCTAATAGGGAATTTTGATATCTTAGATACATCTTAATTCAAAT
Found at i:111687785 original size:19 final size:19
Alignment explanation
Indices: 111687761--111687804 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
111687751 AATTCTGATA
111687761 AAATCTCATA-AATATTGGT
1 AAATCT-ATAGAATATTGGT
*
111687780 AAATCTATAGGAATTTTGGT
1 AAATCTATA-GAATATTGGT
111687800 AAATC
1 AAATC
111687805 GTTAGATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 6 0.27
20 13 0.59
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (19 bp):
AAATCTATAGAATATTGGT
Found at i:111687863 original size:20 final size:20
Alignment explanation
Indices: 111687838--111687881 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
111687828 AGAAATATTG
* *
111687838 GTAAATCGTTAAATATTTTA
1 GTAAATCCTTAAAAATTTTA
*
111687858 GTAAATCCTTAAAAATTTTG
1 GTAAATCCTTAAAAATTTTA
111687878 GTAA
1 GTAA
111687882 TTATTAAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (20 bp):
GTAAATCCTTAAAAATTTTA
Found at i:111687879 original size:40 final size:40
Alignment explanation
Indices: 111687791--111687881 Score: 110
Period size: 40 Copynumber: 2.3 Consensus size: 40
111687781 AATCTATAGG
* * * *
111687791 AATTTTGGTAAATCGTTAGATATATAAATAAGTTCTTAGA
1 AATTTTGGTAAATCGTTAAATATATAAATAAATCCTTAAA
* * * *
111687831 AATATTGGTAAATCGTTAAATATTTTAGTAAATCCTTAAA
1 AATTTTGGTAAATCGTTAAATATATAAATAAATCCTTAAA
111687871 AATTTTGGTAA
1 AATTTTGGTAA
111687882 TTATTAAAAC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (40 bp):
AATTTTGGTAAATCGTTAAATATATAAATAAATCCTTAAA
Found at i:111687997 original size:20 final size:20
Alignment explanation
Indices: 111687974--111688024 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
111687964 GATAAAATGA
111687974 TAGAAATTTTGGT-AATTCTT
1 TAGAAATTTTGGTAAATTC-T
*
111687994 TAGAAATGTTGGTAAATTCT
1 TAGAAATTTTGGTAAATTCT
*
111688014 TAGATATTTTG
1 TAGAAATTTTG
111688025 ATAAGTGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (20 bp):
TAGAAATTTTGGTAAATTCT
Found at i:111688112 original size:20 final size:20
Alignment explanation
Indices: 111688083--111688234 Score: 55
Period size: 20 Copynumber: 7.7 Consensus size: 20
111688073 AGAAAATTTG
*
111688083 AAAATATTGGTAAAATCTTA
1 AAAATTTTGGTAAAATCTTA
* *
111688103 AAAATTTTGGTGAAGT-TTCA
1 AAAATTTTGGTAAAATCTT-A
* **
111688123 TAAATATTT-GTAAAATGATA
1 AAAAT-TTTGGTAAAATCTTA
* * *
111688143 GAAATTTTGAT-AACTCGTTA
1 AAAATTTTGGTAAAATC-TTA
* *
111688163 AATATTTTGAT-AAATCCTTA
1 AAAATTTTGGTAAAAT-CTTA
* *
111688183 GAAATTTTAGT-AAATCGTTA
1 AAAATTTTGGTAAAATC-TTA
* * * *
111688203 AATATATTGATAAAA-CATA
1 AAAATTTTGGTAAAATCTTA
*
111688222 GAAATTTTGGTAA
1 AAAATTTTGGTAA
111688235 TTGTTAAGAC
Statistics
Matches: 95, Mismatches: 29, Indels: 17
0.67 0.21 0.12
Matches are distributed among these distances:
19 20 0.21
20 67 0.71
21 8 0.08
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.39
Consensus pattern (20 bp):
AAAATTTTGGTAAAATCTTA
Found at i:111688185 original size:40 final size:40
Alignment explanation
Indices: 111688123--111688234 Score: 126
Period size: 40 Copynumber: 2.9 Consensus size: 40
111688113 TGAAGTTTCA
* *
111688123 TAAATAT-TTG-TAAAATGATAGAAATTTTGA-TAACTCGT
1 TAAATATATTGATAAAA-CATAGAAATTTTGAGTAAATCGT
* * *
111688161 TAAATATTTTGATAAATCCTTAGAAATTTT-AGTAAATCGT
1 TAAATATATTGATAAA-ACATAGAAATTTTGAGTAAATCGT
111688201 TAAATATATTGATAAAACATAGAAATTTTG-GTAA
1 TAAATATATTGATAAAACATAGAAATTTTGAGTAA
111688235 TTGTTAAGAC
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
38 7 0.11
39 19 0.31
40 36 0.58
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (40 bp):
TAAATATATTGATAAAACATAGAAATTTTGAGTAAATCGT
Found at i:111693055 original size:16 final size:16
Alignment explanation
Indices: 111693004--111693059 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
111692994 GTAGTTTTTT
111693004 TTTAAATTTATTTT-G
1 TTTAAATTTATTTTAG
*
111693019 ATTTAAATTT-TATTA-
1 -TTTAAATTTATTTTAG
*
111693034 TTTAGATTTATTTTAG
1 TTTAAATTTATTTTAG
*
111693050 TTTAGATTTA
1 TTTAAATTTA
111693060 GAGATATCTC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 8 0.24
15 7 0.21
16 19 0.56
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (16 bp):
TTTAAATTTATTTTAG
Found at i:111701175 original size:16 final size:17
Alignment explanation
Indices: 111701154--111701197 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
111701144 AATATAACCC
111701154 AAAATAAAAAAT-AAAA
1 AAAATAAAAAATGAAAA
*
111701170 AAAATAAAAAATGAAGA
1 AAAATAAAAAATGAAAA
*
111701187 AAAAGAAAAAA
1 AAAATAAAAAA
111701198 ACCTAACCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.84, C:0.00, G:0.07, T:0.09
Consensus pattern (17 bp):
AAAATAAAAAATGAAAA
Found at i:111702397 original size:19 final size:19
Alignment explanation
Indices: 111702373--111702411 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
111702363 TGAGATTGCC
111702373 AACCTATTTGCCTGAAATT
1 AACCTATTTGCCTGAAATT
111702392 AACCTATTTGCCTGAAATT
1 AACCTATTTGCCTGAAATT
111702411 A
1 A
111702412 TTCATTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (19 bp):
AACCTATTTGCCTGAAATT
Found at i:111708957 original size:42 final size:43
Alignment explanation
Indices: 111708899--111708994 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 43
111708889 GATTTATGTA
* ** *
111708899 TAAGACCATGTTTGGGACATTGGCATCG-TATCTG-ATTTCATG
1 TAAGACCATGTATGGGACAGAGGCATCGATAT-TGAATTACATG
*
111708941 TAAGACCCTGTATGGGACAGAGGCATCGATATTGAATTACATG
1 TAAGACCATGTATGGGACAGAGGCATCGATATTGAATTACATG
111708984 TAAGACCATGT
1 TAAGACCATGT
111708995 CCGGGACGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 26 0.57
43 20 0.43
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (43 bp):
TAAGACCATGTATGGGACAGAGGCATCGATATTGAATTACATG
Found at i:111711712 original size:5 final size:5
Alignment explanation
Indices: 111711676--111711732 Score: 51
Period size: 5 Copynumber: 10.6 Consensus size: 5
111711666 AACCTAAAGT
* * *
111711676 AATAA AATCA AATCA AATAAA AATAAA TAATAA AATAAA AATAA AACAA
1 AATAA AATAA AATAA AAT-AA AAT-AA -AATAA AAT-AA AATAA AATAA
111711725 AATAA AAT
1 AATAA AAT
111711733 CTTTCTATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
5 28 0.62
6 14 0.31
7 3 0.07
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:111712395 original size:18 final size:18
Alignment explanation
Indices: 111712372--111712408 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
111712362 ATTAACATAT
111712372 TCACATTTGAACATGCTA
1 TCACATTTGAACATGCTA
111712390 TCACATTTGAACATGCTA
1 TCACATTTGAACATGCTA
111712408 T
1 T
111712409 AATAATAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (18 bp):
TCACATTTGAACATGCTA
Found at i:111713404 original size:21 final size:20
Alignment explanation
Indices: 111713364--111713404 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
111713354 ATTTTTTTCT
*
111713364 TAAAATTAAAGATAAATTAA
1 TAAAATTAAACATAAATTAA
*
111713384 TAAAATTAAGACATTAATTAA
1 TAAAATTAA-ACATAAATTAA
111713405 AAGAAACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (20 bp):
TAAAATTAAACATAAATTAA
Found at i:111715843 original size:24 final size:25
Alignment explanation
Indices: 111715786--111715851 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 25
111715776 AAAAAAACTT
*
111715786 TATTTA-TATATTATTATTTACCTA
1 TATTTATTATATTATTATTTACATA
111715810 TATCTATATTATATT-TTA-TTACATAA
1 TAT-T-TATTATATTATTATTTACAT-A
*
111715836 TATTTATTATACTATT
1 TATTTATTATATTATT
111715852 TTATATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
24 11 0.31
25 9 0.26
26 9 0.26
27 6 0.17
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (25 bp):
TATTTATTATATTATTATTTACATA
Found at i:111715874 original size:23 final size:23
Alignment explanation
Indices: 111715839--111715910 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 23
111715829 TACATAATAT
*
111715839 TTATTATACTATTTTATATTTTA
1 TTATTATATTATTTTATATTTTA
* * *
111715862 TTATTATTTTATTTTACACTTTA
1 TTATTATATTATTTTATATTTTA
* *
111715885 ATA-TATGTTATTTTATATTATTA
1 TTATTATATTATTTTATATT-TTA
111715908 TTA
1 TTA
111715911 CATCATATTT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
22 13 0.33
23 26 0.67
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (23 bp):
TTATTATATTATTTTATATTTTA
Found at i:111726925 original size:68 final size:69
Alignment explanation
Indices: 111726794--111726931 Score: 181
Period size: 68 Copynumber: 2.0 Consensus size: 69
111726784 TCCCACCTTT
* * * *
111726794 TCTTTTAAATGGCATCAAAACATTTCCAAGATACCAATCAAGTCCAAAAGATATCAACCAATAAG
1 TCTTTCAAATGGCATCAAAACATGTCCAAGATACCAATCAAGTCCAAAAGAAAACAACCAATAAG
111726859 CCAA
66 CCAA
* * * *
111726863 TCTTTCAAATGGCATCAAAAC-TAGT-CAATATACTAGTCAAGTCCAACAGAAAACAACCAATAA
1 TCTTTCAAATGGCATCAAAACAT-GTCCAAGATACCAATCAAGTCCAAAAGAAAACAACCAATAA
111726926 GCCAA
65 GCCAA
111726931 T
1 T
111726932 AGTCTGTTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
68 39 0.65
69 21 0.35
ACGTcount: A:0.45, C:0.23, G:0.09, T:0.22
Consensus pattern (69 bp):
TCTTTCAAATGGCATCAAAACATGTCCAAGATACCAATCAAGTCCAAAAGAAAACAACCAATAAG
CCAA
Found at i:111729390 original size:33 final size:33
Alignment explanation
Indices: 111729351--111729423 Score: 130
Period size: 33 Copynumber: 2.2 Consensus size: 33
111729341 ATTTAAAATT
*
111729351 TTTCATTTTAACTTATTAAACTATTCAAAAAAA
1 TTTCATTTTAACTTATCAAACTATTCAAAAAAA
111729384 TTTCATTTTAACTTATCAAACTATTCAAAAAAA
1 TTTCATTTTAACTTATCAAACTATTCAAAAAAA
111729417 TTT-ATTT
1 TTTCATTT
111729424 GTGCCTCAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
32 4 0.10
33 35 0.90
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (33 bp):
TTTCATTTTAACTTATCAAACTATTCAAAAAAA
Found at i:111731336 original size:57 final size:55
Alignment explanation
Indices: 111731224--111731337 Score: 131
Period size: 57 Copynumber: 2.0 Consensus size: 55
111731214 CCTGCAGAGA
** *
111731224 AGTTGAACACCTTTTAGTTTGCTTATGTATTTTTTTTCCACCATTTGGTTTATTCTT
1 AGTTGAACACCTTTTAGTTTGCTTATGTA--TTTTTTCCACCATTACGTTCATTCTT
* *
111731281 AGTTGAACTCCTTTTAGTAGTCTGCTTATGTA-TTTTTCCTCCATTACGTTCATTCTT
1 AGTTGAACACCTTTTAGT--T-TGCTTATGTATTTTTTCCACCATTACGTTCATTCTT
111731338 GGTCAAACAC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
57 38 0.78
59 1 0.02
60 10 0.20
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.52
Consensus pattern (55 bp):
AGTTGAACACCTTTTAGTTTGCTTATGTATTTTTTCCACCATTACGTTCATTCTT
Found at i:111734929 original size:11 final size:11
Alignment explanation
Indices: 111734915--111734954 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
111734905 ATAAATAATT
111734915 TAAAAATTATC
1 TAAAAATTATC
* *
111734926 TAAAAAATAATT
1 T-AAAAATTATC
111734938 TAAAAATTATC
1 TAAAAATTATC
111734949 TAAAAA
1 TAAAAA
111734955 ATATAATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAAAATTATC
Found at i:111734933 original size:12 final size:12
Alignment explanation
Indices: 111734916--111734956 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
111734906 TAAATAATTT
111734916 AAAAATTATCTA
1 AAAAATTATCTA
* *
111734928 AAAAATAAT-TT
1 AAAAATTATCTA
111734939 AAAAATTATCTA
1 AAAAATTATCTA
111734951 AAAAAT
1 AAAAAT
111734957 ATAATTTTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAAATTATCTA
Found at i:111734937 original size:23 final size:23
Alignment explanation
Indices: 111734907--111734957 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
111734897 GAAAAAATAT
111734907 AAATAATTTAAAAATTATCTAAA
1 AAATAATTTAAAAATTATCTAAA
111734930 AAATAATTTAAAAATTATCTAAA
1 AAATAATTTAAAAATTATCTAAA
111734953 AAATA
1 AAATA
111734958 TAATTTTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (23 bp):
AAATAATTTAAAAATTATCTAAA
Found at i:111737208 original size:176 final size:176
Alignment explanation
Indices: 111736846--111737252 Score: 437
Period size: 178 Copynumber: 2.3 Consensus size: 176
111736836 AATCGTTAAT
* * *
111736846 CGTTTAGGCTTCATTGAGCTCTGTTTATGGACTCAACACTGAAAACCATTCTCCTAACATGGCAA
1 CGTTTGGGCTTCATTGAGCTCTGTTTATAGACTCAACACTGAAAACCATTCTCCTAACATGACAA
* * * * *
111736911 AACTGATCATTCAATGAGTCTTTACACCGCCACAAAGAAAGCCAGTGAGGAAATCGCTTATTACT
66 AACTGATAATCCAATGAGTATTTACACCGCCACAAAGAAAGCCAATGAGGAAATCGCTCATTACT
111736976 TATAACCATATCCAAAGCATTTCCCTCACTAGACTCAACCATCAAC
131 TATAACCATATCCAAAGCATTTCCCTCACTAGACTCAACCATCAAC
* * * * *
111737022 CGTTTGGGCTTCTTTGATCTCTGTTTTATAGACTCAACATTGAAAACCCATTGT-TTGAACATGA
1 CGTTTGGGCTTCATTGAGCTCTG-TTTATAGACTCAACACTGAAAA-CCATTCTCCT-AACATGA
* ** * *
111737086 CAAAATTGATAATCCAATGAGTATTTACGTCGCCACAAA-AAAGGTCAATGAGGAAATTGCTCA-
63 CAAAACTGATAATCCAATGAGTATTTACACCGCCACAAAGAAA-GCCAATGAGGAAATCGCTCAT
* * * *** *
111737149 TACTTATAACCATATCC-ATGCATTTCCCTTGA-TGGACTCAATTGTCAAT
127 TACTTATAACCATATCCAAAGCATTTCCC-TCACTAGACTCAACCATCAAC
* * * * * * *
111737198 TGTTTGGGCTTCATCGAGCTCCGTTTATGGACTCGACACCGAAAGCCCATTCTCC
1 CGTTTGGGCTTCATTGAGCTCTGTTTATAGACTCAACACTGAAA-ACCATTCTCC
111737253 GAATGTGACA
Statistics
Matches: 187, Mismatches: 37, Indels: 14
0.79 0.16 0.06
Matches are distributed among these distances:
175 23 0.12
176 60 0.32
177 43 0.23
178 61 0.33
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (176 bp):
CGTTTGGGCTTCATTGAGCTCTGTTTATAGACTCAACACTGAAAACCATTCTCCTAACATGACAA
AACTGATAATCCAATGAGTATTTACACCGCCACAAAGAAAGCCAATGAGGAAATCGCTCATTACT
TATAACCATATCCAAAGCATTTCCCTCACTAGACTCAACCATCAAC
Found at i:111739576 original size:51 final size:51
Alignment explanation
Indices: 111739448--111739576 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
111739438 GACCATGACA
* * *
111739448 ACAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGAACAAGTG
1 ACAAGTGAAAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAATG
*
111739499 A-AAGTGATAAA-TGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGA-AAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAATG
*
111739549 ACAAGTGAAAAGTGGTAGCTTCGGCTAC
1 ACAAGTGAAAAGTGATAGCTTCGGCTAC
111739577 TTGATTAGTG
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
50 46 0.66
51 24 0.34
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGAAAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAATG
Found at i:111739590 original size:31 final size:31
Alignment explanation
Indices: 111739547--111739700 Score: 209
Period size: 31 Copynumber: 5.0 Consensus size: 31
111739537 CAAGGACAAA
* *
111739547 TGACAAGTGAAAAGTGGTAGCTTCGGCTACT
1 TGACCAGTGAAAAGTGGTAGCTTCGGCTACC
**
111739578 TGATTAGTGAAAAGTGGTAGCTTCGGCTACC
1 TGACCAGTGAAAAGTGGTAGCTTCGGCTACC
*
111739609 TAACCAGTGAAAAGTGGTAGCTTCGGCTACC
1 TGACCAGTGAAAAGTGGTAGCTTCGGCTACC
*
111739640 TGACCAGTGAAAAATGGTAGCTTCGGCTACC
1 TGACCAGTGAAAAGTGGTAGCTTCGGCTACC
** * * *
111739671 TGATTAGTGAATAGTGGTATCTTAGGCTAC
1 TGACCAGTGAAAAGTGGTAGCTTCGGCTAC
111739701 AAGTGACAAG
Statistics
Matches: 109, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 109 1.00
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
TGACCAGTGAAAAGTGGTAGCTTCGGCTACC
Found at i:111741307 original size:31 final size:31
Alignment explanation
Indices: 111741272--111741336 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
111741262 GTAATAAAAT
* * * *
111741272 AGTCATTAAAGTATTTAAAATTTTTTATTTA
1 AGTCAATAAACTATTCAAAAGTTTTTATTTA
*
111741303 AGTCAATAAACTATTCGAAAGTTTTTATTTA
1 AGTCAATAAACTATTCAAAAGTTTTTATTTA
111741334 AGT
1 AGT
111741337 TAACATGTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.46
Consensus pattern (31 bp):
AGTCAATAAACTATTCAAAAGTTTTTATTTA
Found at i:111746585 original size:13 final size:14
Alignment explanation
Indices: 111746567--111746613 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
111746557 TTTTATTTTT
111746567 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
111746580 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
*
111746595 ATTTTAAATAATATT
1 ATTTT-AATAATATA
111746610 ATTT
1 ATTT
111746614 ACATATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 10 0.36
14 1 0.04
15 12 0.43
16 5 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:111746593 original size:16 final size:16
Alignment explanation
Indices: 111746571--111746607 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
111746561 ATTTTTATTT
111746571 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
111746588 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
111746603 TAATA
1 TAATA
111746608 TTATTTACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:111747664 original size:16 final size:17
Alignment explanation
Indices: 111747643--111747682 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
111747633 ATATATATTA
111747643 TATATTATTAATT-GAT
1 TATATTATTAATTAGAT
*
111747659 TATATTA-TAATTATAT
1 TATATTATTAATTAGAT
111747675 TATATTAT
1 TATATTAT
111747683 GAAACAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TATATTATTAATTAGAT
Found at i:111747973 original size:33 final size:30
Alignment explanation
Indices: 111747913--111747973 Score: 77
Period size: 33 Copynumber: 1.9 Consensus size: 30
111747903 TACAATTGTA
*
111747913 ATATTTTTATTTAATTATTTAAGTAAATAG
1 ATATTTTTATTTAATTATTAAAGTAAATAG
*
111747943 ATATTTATTATTTATTATTATTAAATTAAAT
1 ATATTT-TTATTTA--ATTATTAAAGTAAAT
111747974 TAAAGACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 6 0.23
31 7 0.27
33 13 0.50
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (30 bp):
ATATTTTTATTTAATTATTAAAGTAAATAG
Found at i:111748260 original size:13 final size:15
Alignment explanation
Indices: 111748231--111748272 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
111748221 GTTTATATAT
111748231 ATATATAAAGTGAATAA
1 ATATATAAA--GAATAA
111748248 A-ATA-AAAGAATAA
1 ATATATAAAGAATAA
111748261 ATATATAAAGAA
1 ATATATAAAGAA
111748273 AGAAAGAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 7 0.30
14 3 0.13
15 9 0.39
16 3 0.13
17 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.24
Consensus pattern (15 bp):
ATATATAAAGAATAA
Found at i:111749115 original size:44 final size:44
Alignment explanation
Indices: 111749015--111749106 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
111749005 TGTTCAGGGA
* *
111749015 TACTTCGACCTT-GAGTCGATGAGGCACTATAAGTGTCGTATTGT
1 TACTTCGA-CTTCGAGTCGATGAGGCACTATAAGTGTCATACTGT
**
111749059 TACTTCGACTTCGAGTCGATGAGGCACCT-TGTGTGTCATACTGT
1 TACTTCGACTTCGAGTCGATGAGGCA-CTATAAGTGTCATACTGT
111749103 TACT
1 TACT
111749107 GTTACTTCGG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 3 0.07
44 37 0.88
45 2 0.05
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (44 bp):
TACTTCGACTTCGAGTCGATGAGGCACTATAAGTGTCATACTGT
Found at i:111749195 original size:47 final size:47
Alignment explanation
Indices: 111749077--111749195 Score: 105
Period size: 47 Copynumber: 2.5 Consensus size: 47
111749067 CTTCGAGTCG
* * ** * **
111749077 ATGAGGCACCTTGTGTGTCATACTGTTACTGTTACTTCGGTTTAATCTG
1 ATGAGGCA-C-TGAGTGCCATACTGTTACTGTTACTTCGGTCAAAGCCA
* * * *
111749126 ATGAGGTACTAAGTACCGTACTGTTACTGTTTACTTCGG-CAAAGCCA
1 ATGAGGCACTGAGTGCCATACTGTTACTG-TTACTTCGGTCAAAGCCA
111749173 ATGAGGCACTGAGTGCCATACTG
1 ATGAGGCACTGAGTGCCATACTG
111749196 GTGTGTTGGT
Statistics
Matches: 54, Mismatches: 15, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
47 37 0.69
48 10 0.19
49 7 0.13
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (47 bp):
ATGAGGCACTGAGTGCCATACTGTTACTGTTACTTCGGTCAAAGCCA
Found at i:111750477 original size:29 final size:28
Alignment explanation
Indices: 111750420--111750487 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 28
111750410 AAAATAAAAA
* * *
111750420 AATATATTTTTAATTTAATTTTTAATTT
1 AATATATTTTTAAATTAAATTTAAATTT
111750448 -ATATATTTTTATAATTAAATTTAAATTTT
1 AATATATTTTTA-AATTAAATTTAAA-TTT
*
111750477 AAAATATTTTT
1 AATATATTTTT
111750488 TATTATTGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 11 0.33
28 10 0.30
29 3 0.09
30 9 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
AATATATTTTTAAATTAAATTTAAATTT
Found at i:111763795 original size:18 final size:18
Alignment explanation
Indices: 111763774--111763834 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
111763764 TTCTATTTCA
111763774 ATTTTAATTTTGATTCT-G
1 ATTTTAATTTTGATT-TAG
*
111763792 A-TTTAGATTTAGATTTAG
1 ATTTTA-ATTTTGATTTAG
*
111763810 ATTTCAATTTTGATTTCA-
1 ATTTTAATTTTGATTT-AG
111763828 ATTTTAA
1 ATTTTAA
111763835 AACACTAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 5 0.14
18 26 0.74
19 4 0.11
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.56
Consensus pattern (18 bp):
ATTTTAATTTTGATTTAG
Found at i:111763819 original size:12 final size:12
Alignment explanation
Indices: 111763792--111763831 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
111763782 TTTGATTCTG
111763792 ATTTAGATTT-A
1 ATTTAGATTTCA
111763803 GATTTAGATTTCA
1 -ATTTAGATTTCA
*
111763816 ATTTTGATTTCA
1 ATTTAGATTTCA
111763828 ATTT
1 ATTT
111763832 TAAAACACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 25 0.96
13 1 0.04
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (12 bp):
ATTTAGATTTCA
Found at i:111763832 original size:12 final size:12
Alignment explanation
Indices: 111763774--111763832 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
111763764 TTCTATTTCA
*
111763774 ATTTTAATTTTG
1 ATTTCAATTTTG
* *
111763786 A-TTCTGATTTAG
1 ATTTC-AATTTTG
*
111763798 ATTT-AGATTTAG
1 ATTTCA-ATTTTG
111763810 ATTTCAATTTTG
1 ATTTCAATTTTG
111763822 ATTTCAATTTT
1 ATTTCAATTTT
111763833 AAAACACTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
11 2 0.05
12 33 0.87
13 3 0.08
ACGTcount: A:0.27, C:0.05, G:0.10, T:0.58
Consensus pattern (12 bp):
ATTTCAATTTTG
Found at i:111764017 original size:48 final size:47
Alignment explanation
Indices: 111763958--111764125 Score: 255
Period size: 47 Copynumber: 3.6 Consensus size: 47
111763948 GCCATGTGCA
* * * * *
111763958 TGATGTTTATTGTTTGTTTCTGCCATTGTATGAATGCCATTATCAAAT
1 TGATGTGTATTGTGTATATCTGCCATTGTATGAATG-CATTATCAAAC
*
111764006 TGATGTGTATTGTGTATATCTGCCATTGTATGAATACATTATCAAAC
1 TGATGTGTATTGTGTATATCTGCCATTGTATGAATGCATTATCAAAC
*
111764053 TGATGTGTATTGTGTATATCTACCATTGTATGAATGCATTATCAAAC
1 TGATGTGTATTGTGTATATCTGCCATTGTATGAATGCATTATCAAAC
*
111764100 TGATGTTTATTGTGTATATCTGCCAT
1 TGATGTGTATTGTGTATATCTGCCAT
111764126 GATGTTTATT
Statistics
Matches: 110, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
47 79 0.72
48 31 0.28
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.44
Consensus pattern (47 bp):
TGATGTGTATTGTGTATATCTGCCATTGTATGAATGCATTATCAAAC
Found at i:111764128 original size:25 final size:25
Alignment explanation
Indices: 111764100--111764150 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
111764090 ATTATCAAAC
*
111764100 TGATGTTTATTGTGTATATCTGCCA
1 TGATGTTTATTGTGTATATCTACCA
111764125 TGATGTTTATTGTGTATATCTACCA
1 TGATGTTTATTGTGTATATCTACCA
111764150 T
1 T
111764151 TATCAAACTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.49
Consensus pattern (25 bp):
TGATGTTTATTGTGTATATCTACCA
Found at i:111764460 original size:15 final size:15
Alignment explanation
Indices: 111764421--111764464 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
111764411 GAAGAAAACA
* *
111764421 TGTCTGGTAATGACG
1 TGTCTGGTAGTGATG
*
111764436 TGCCTGGTAGTGATG
1 TGTCTGGTAGTGATG
111764451 TGTCTGGTAGTGAT
1 TGTCTGGTAGTGAT
111764465 AGTGATGCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.16, C:0.11, G:0.36, T:0.36
Consensus pattern (15 bp):
TGTCTGGTAGTGATG
Found at i:111766241 original size:40 final size:42
Alignment explanation
Indices: 111766108--111766241 Score: 150
Period size: 42 Copynumber: 3.2 Consensus size: 42
111766098 TTGCTGATCA
* *
111766108 CATGCACTGATTGTTGGAAAGCTATTGCCT-TTTTTTAATATG
1 CATGCAATGATTGTT-GAAAGCTGTTGCCTATTTTTTAATATG
* * *
111766150 TATGCAATGATTGTTGAAAAGCTGTTGTCTA-TTTTCAATATG
1 CATGCAATGATTGTTG-AAAGCTGTTGCCTATTTTTTAATATG
**
111766192 CATGCAATGATTGTTG-GTG-TGTTGCCTATTTTTTAATATG
1 CATGCAATGATTGTTGAAAGCTGTTGCCTATTTTTTAATATG
*
111766232 CATACAATGA
1 CATGCAATGA
111766242 GTTTTTTTAT
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
39 8 0.10
40 20 0.26
41 1 0.01
42 49 0.63
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (42 bp):
CATGCAATGATTGTTGAAAGCTGTTGCCTATTTTTTAATATG
Found at i:111766275 original size:26 final size:26
Alignment explanation
Indices: 111766218--111766275 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
111766208 GTGTGTTGCC
* *
111766218 TATTTTTTAATATGCATACAATGAGT
1 TATTTTATAATATGCATACAATGACT
* ** *
111766244 TTTTTTATAATATGCATGTAGTGACT
1 TATTTTATAATATGCATACAATGACT
111766270 TATTTT
1 TATTTT
111766276 TTAGGGGTGT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.52
Consensus pattern (26 bp):
TATTTTATAATATGCATACAATGACT
Found at i:111766989 original size:21 final size:21
Alignment explanation
Indices: 111766956--111767009 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
111766946 CTCAACAAGG
* * *
111766956 TGCCCCAAGTCAGTTACCTAC
1 TGCCCTAACTCAGATACCTAC
111766977 TGCCCTAACTCAGATACCTAC
1 TGCCCTAACTCAGATACCTAC
*
111766998 TGTCCTAACTCA
1 TGCCCTAACTCA
111767010 TCAAGAAGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.26, C:0.37, G:0.11, T:0.26
Consensus pattern (21 bp):
TGCCCTAACTCAGATACCTAC
Found at i:111767437 original size:23 final size:24
Alignment explanation
Indices: 111767398--111767453 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
111767388 TATCCATGCT
*
111767398 ATTTGT-TATCCAACTGTTAAGTA
1 ATTTGTATATCCAACTGTTAAGCA
*
111767421 ATTTGTATAT-CATCTGTTAAGCA
1 ATTTGTATATCCAACTGTTAAGCA
*
111767444 ATTTGCATAT
1 ATTTGTATAT
111767454 AAATTGTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 26 0.90
24 3 0.10
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (24 bp):
ATTTGTATATCCAACTGTTAAGCA
Found at i:111767963 original size:38 final size:38
Alignment explanation
Indices: 111767912--111767988 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
111767902 CCAGCTGAAA
111767912 AACCAACATGGTTTTCGAAATGCACTGCCGAATTTCTT
1 AACCAACATGGTTTTCGAAATGCACTGCCGAATTTCTT
*
111767950 AACCAACATGGTTTTCGAAATGCATTGCCGAATTTCTT
1 AACCAACATGGTTTTCGAAATGCACTGCCGAATTTCTT
111767988 A
1 A
111767989 CACCTAGAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (38 bp):
AACCAACATGGTTTTCGAAATGCACTGCCGAATTTCTT
Found at i:111768111 original size:12 final size:12
Alignment explanation
Indices: 111768108--111768143 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
111768098 TTCTCTTTCT
111768108 TCTT-CTTCTTC
1 TCTTCCTTCTTC
111768119 TCTTCCTTCTTC
1 TCTTCCTTCTTC
111768131 TCTTCCTTCTTC
1 TCTTCCTTCTTC
111768143 T
1 T
111768144 TTTTCTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 4 0.17
12 20 0.83
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (12 bp):
TCTTCCTTCTTC
Found at i:111768112 original size:3 final size:3
Alignment explanation
Indices: 111768104--111768155 Score: 54
Period size: 3 Copynumber: 17.3 Consensus size: 3
111768094 CCTCTTCTCT
*
111768104 TTC TTC TTC TTC TTC -TC TTCC TTC TTC -TC TTCC TTC TTC TTT TTC
1 TTC TTC TTC TTC TTC TTC TT-C TTC TTC TTC TT-C TTC TTC TTC TTC
*
111768149 TTT TTC T
1 TTC TTC T
111768156 CAAACCCTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.10
3 31 0.76
4 6 0.15
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:111773369 original size:29 final size:30
Alignment explanation
Indices: 111773311--111773413 Score: 109
Period size: 31 Copynumber: 3.4 Consensus size: 30
111773301 ATTGTACATG
* * *
111773311 AATTTTAATTTAATATATAATTTGATATAT-A
1 AATTTTAATTTGATGTA-AATAT-ATATATAA
*
111773342 AATTTTAATTTGATGTAATTATATATATAA
1 AATTTTAATTTGATGTAAATATATATATAA
* *
111773372 AATTTTAATTATGATTTAAATATATATATGA
1 AATTTTAATT-TGATGTAAATATATATATAA
*
111773403 AACTTTAATTT
1 AATTTTAATTT
111773414 TGATTCAATC
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
29 6 0.10
30 15 0.24
31 41 0.66
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (30 bp):
AATTTTAATTTGATGTAAATATATATATAA
Found at i:111780460 original size:25 final size:27
Alignment explanation
Indices: 111780402--111780463 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 27
111780392 AATAATTAAT
*
111780402 TAAATTTT-ATAATTCTAAATTTATTA
1 TAAATTTTAATAATTCTAAATTTATAA
*
111780428 TAATATTTTAATAATTCTAGATTTA-AA
1 TAA-ATTTTAATAATTCTAAATTTATAA
111780455 T-AATTTTAA
1 TAAATTTTAA
111780464 AACAATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 7 0.22
26 4 0.12
27 7 0.22
28 14 0.44
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (27 bp):
TAAATTTTAATAATTCTAAATTTATAA
Found at i:111782747 original size:18 final size:16
Alignment explanation
Indices: 111782716--111782749 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
111782706 TTAAAAACAA
111782716 AATTAAACAAATTTAT
1 AATTAAACAAATTTAT
111782732 AATTAATACTAAATTTAT
1 AATTAA-AC-AAATTTAT
111782750 TCTATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 2 0.12
18 8 0.50
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
AATTAAACAAATTTAT
Found at i:111786333 original size:9 final size:9
Alignment explanation
Indices: 111786319--111786425 Score: 69
Period size: 8 Copynumber: 11.9 Consensus size: 9
111786309 CTTAAATTTT
111786319 TAAAAAATA
1 TAAAAAATA
111786328 TAAAAAAATTA
1 T-AAAAAA-TA
*
111786339 TAAAAATATT
1 TAAAAA-ATA
111786349 TAAAAAATA
1 TAAAAAATA
*
111786358 TATAAAAACA
1 TA-AAAAATA
*
111786368 AAAAAAAT-
1 TAAAAAATA
* *
111786376 TAAAAATTT
1 TAAAAAATA
* ** *
111786385 TAGAATTTT
1 TAAAAAATA
111786394 TAAAAAATA
1 TAAAAAATA
111786403 T-AAAAATA
1 TAAAAAATA
111786411 T-AAAAATA
1 TAAAAAATA
111786419 -AAAAAAT
1 TAAAAAAT
111786426 TTATTTAAGA
Statistics
Matches: 79, Mismatches: 13, Indels: 13
0.75 0.12 0.12
Matches are distributed among these distances:
8 27 0.34
9 23 0.29
10 25 0.32
11 4 0.05
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (9 bp):
TAAAAAATA
Found at i:111786336 original size:21 final size:21
Alignment explanation
Indices: 111786319--111786365 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
111786309 CTTAAATTTT
111786319 TAAAAA-ATATAAAAAAATTA
1 TAAAAATATATAAAAAAATTA
*
111786339 TAAAAATAT-TTAAAAAATATA
1 TAAAAATATATAAAAAAAT-TA
111786360 TAAAAA
1 TAAAAA
111786366 CAAAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAAAATATATAAAAAAATTA
Found at i:111786345 original size:19 final size:19
Alignment explanation
Indices: 111786321--111786381 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
111786311 TAAATTTTTA
111786321 AAAAATATAAAAAAATTAT
1 AAAAATATAAAAAAATTAT
*
111786340 AAAAATATTTAAAAAATATAT
1 AAAAATA-TAAAAAAAT-TAT
*
111786361 AAAAACA-AAAAAAATTA-
1 AAAAATATAAAAAAATTAT
111786378 AAAA
1 AAAA
111786382 TTTTAGAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 4 0.11
18 2 0.05
19 14 0.38
20 8 0.22
21 9 0.24
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAAATATAAAAAAATTAT
Found at i:111786374 original size:30 final size:30
Alignment explanation
Indices: 111786312--111786375 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
111786302 AAATTCTCTT
* ** *
111786312 AAATTTTTAAAAAATATAAAAAAATTATAA
1 AAATATTTAAAAAATATAAAAAAACAAAAA
*
111786342 AAATATTTAAAAAATATATAAAAACAAAAA
1 AAATATTTAAAAAATATAAAAAAACAAAAA
111786372 AAAT
1 AAAT
111786376 TAAAAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (30 bp):
AAATATTTAAAAAATATAAAAAAACAAAAA
Found at i:111786956 original size:22 final size:22
Alignment explanation
Indices: 111786928--111786971 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
111786918 AAAAAAAAAG
* *
111786928 TTTGTTGTTTTCTTACTTTTTT
1 TTTGTTGTTTTCTCACTGTTTT
111786950 TTTGTTGTTTTCTCACTGTTTT
1 TTTGTTGTTTTCTCACTGTTTT
111786972 GCTGTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.05, C:0.11, G:0.11, T:0.73
Consensus pattern (22 bp):
TTTGTTGTTTTCTCACTGTTTT
Found at i:111786977 original size:22 final size:22
Alignment explanation
Indices: 111786930--111786977 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
111786920 AAAAAAAGTT
* * **
111786930 TGTTGTTTTCTTACTTTTTTTT
1 TGTTGTTTTCTCACTGTTTTGC
111786952 TGTTGTTTTCTCACTGTTTTGC
1 TGTTGTTTTCTCACTGTTTTGC
111786974 TGTT
1 TGTT
111786978 ATTTCACTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.04, C:0.12, G:0.15, T:0.69
Consensus pattern (22 bp):
TGTTGTTTTCTCACTGTTTTGC
Found at i:111787442 original size:11 final size:11
Alignment explanation
Indices: 111787403--111787444 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 11
111787393 TTAAGGGTTA
111787403 AATTTGTTTTAT
1 AATTT-TTTTAT
111787415 AATTTTTTCTAT
1 AATTTTTT-TAT
111787427 AATTTTTTTAT
1 AATTTTTTTAT
*
111787438 GATTTTT
1 AATTTTT
111787445 AATATTTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 12 0.43
12 16 0.57
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (11 bp):
AATTTTTTTAT
Found at i:111787490 original size:27 final size:27
Alignment explanation
Indices: 111787451--111787505 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
111787441 TTTTAATATT
111787451 TTTCAAATATTTTTAATAATTTTATAG
1 TTTCAAATATTTTTAATAATTTTATAG
* * **
111787478 TTTCAATTTTTTTTTGTAATTTTATAG
1 TTTCAAATATTTTTAATAATTTTATAG
111787505 T
1 T
111787506 ATGTTACGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.04, G:0.05, T:0.62
Consensus pattern (27 bp):
TTTCAAATATTTTTAATAATTTTATAG
Found at i:111789205 original size:12 final size:12
Alignment explanation
Indices: 111789190--111789226 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
111789180 GAATAAAGAG
*
111789190 AAAGGAAAAGGA
1 AAAGGCAAAGGA
*
111789202 AAAGGCAAAGGC
1 AAAGGCAAAGGA
111789214 AAAGGCAAAGGA
1 AAAGGCAAAGGA
111789226 A
1 A
111789227 TGCTTAGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.59, C:0.08, G:0.32, T:0.00
Consensus pattern (12 bp):
AAAGGCAAAGGA
Found at i:111789211 original size:18 final size:18
Alignment explanation
Indices: 111789190--111789224 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
111789180 GAATAAAGAG
111789190 AAAGGAAAAGGAAAAGGC
1 AAAGGAAAAGGAAAAGGC
* *
111789208 AAAGGCAAAGGCAAAGG
1 AAAGGAAAAGGAAAAGG
111789225 AATGCTTAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.09, G:0.34, T:0.00
Consensus pattern (18 bp):
AAAGGAAAAGGAAAAGGC
Found at i:111790107 original size:10 final size:10
Alignment explanation
Indices: 111790092--111790116 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
111790082 ACTTTTCATT
111790092 ATTATAAATC
1 ATTATAAATC
111790102 ATTATAAATC
1 ATTATAAATC
111790112 ATTAT
1 ATTAT
111790117 TATATCAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (10 bp):
ATTATAAATC
Found at i:111790198 original size:22 final size:21
Alignment explanation
Indices: 111790177--111790217 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
111790167 TTAAACATTA
111790177 ATTTAATAAAAAAT-AATTATT
1 ATTT-ATAAAAAATAAATTATT
*
111790198 ATTTATATAAAATAAATTAT
1 ATTTATAAAAAATAAATTAT
111790218 ATTATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTTATAAAAAATAAATTATT
Found at i:111790220 original size:20 final size:20
Alignment explanation
Indices: 111790173--111790220 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
111790163 TTAATTAAAC
111790173 ATTA-ATTTAATAAAAAATA
1 ATTATATTTAATAAAAAATA
*
111790192 ATTATTATTT-ATATAAAATAA
1 ATTA-TATTTAATAAAAAAT-A
111790213 ATTATATT
1 ATTATATT
111790221 ATTATTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.16
20 12 0.48
21 9 0.36
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTATATTTAATAAAAAATA
Found at i:111795583 original size:31 final size:30
Alignment explanation
Indices: 111795525--111795605 Score: 112
Period size: 31 Copynumber: 2.7 Consensus size: 30
111795515 AAGTTGTGGG
*
111795525 TTTAGTC-TCTATAC-TTTTATTTGATCAAT
1 TTTAGTCAT-TATACTTTTTAATTGATCAAT
111795554 TTTAGTCATTATACTTTTTGAATTGATCAAT
1 TTTAGTCATTATACTTTTT-AATTGATCAAT
*
111795585 TTTAGTCATTGTACTTTTTAA
1 TTTAGTCATTATACTTTTTAA
111795606 AATTTGAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
29 12 0.26
30 7 0.15
31 28 0.60
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.54
Consensus pattern (30 bp):
TTTAGTCATTATACTTTTTAATTGATCAAT
Found at i:111799219 original size:29 final size:30
Alignment explanation
Indices: 111799159--111799222 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
111799149 ATGTTTATGA
* *
111799159 TTTTAAAATTTTAAAAGAATTAAATTAAAT
1 TTTTAAAATTTTAAAAGAATCAAAATAAAT
* * *
111799189 TTTTAAAATTTTTATAG-ATCAAAATATAT
1 TTTTAAAATTTTAAAAGAATCAAAATAAAT
111799218 TTTTA
1 TTTTA
111799223 TCATTAAACT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 14 0.48
30 15 0.52
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (30 bp):
TTTTAAAATTTTAAAAGAATCAAAATAAAT
Found at i:111800568 original size:2 final size:2
Alignment explanation
Indices: 111800561--111800589 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
111800551 ATGTGTCTCC
111800561 GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
111800590 AGAGAGAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:111800594 original size:2 final size:2
Alignment explanation
Indices: 111800589--111800615 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
111800579 GTGTGTGTGT
111800589 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
111800616 GGACTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:111801741 original size:6 final size:6
Alignment explanation
Indices: 111801730--111801758 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
111801720 TACATGTAAT
111801730 ATGTTG ATGTTG ATGTTG ATGTTG ATGTT
1 ATGTTG ATGTTG ATGTTG ATGTTG ATGTT
111801759 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.52
Consensus pattern (6 bp):
ATGTTG
Found at i:111805464 original size:5 final size:5
Alignment explanation
Indices: 111805440--111805503 Score: 60
Period size: 5 Copynumber: 12.6 Consensus size: 5
111805430 TTCTTTTGTT
* *
111805440 ATATA TATATA ATAATA ATATA ATATA ATGTA ATATTA ATAT- A-ACA
1 ATATA -ATATA AT-ATA ATATA ATATA ATATA ATA-TA ATATA ATATA
*
111805486 ATATA ATATA TTATA ATA
1 ATATA ATATA ATATA ATA
111805504 AAAATATTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
3 1 0.02
4 2 0.04
5 30 0.62
6 15 0.31
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:111805479 original size:21 final size:22
Alignment explanation
Indices: 111805440--111805483 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
111805430 TTCTTTTGTT
111805440 ATATATATATAATAATAATATA
1 ATATATATATAATAATAATATA
* *
111805462 ATATA-ATGTAATATTAATATA
1 ATATATATATAATAATAATATA
111805483 A
1 A
111805484 CAATATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
ATATATATATAATAATAATATA
Found at i:111805509 original size:29 final size:29
Alignment explanation
Indices: 111805451--111805510 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
111805441 TATATATATA
* * **
111805451 ATAATAATATAATATAATGTAATATTAAT
1 ATAACAATATAATATAATATAATAAAAAT
*
111805480 ATAACAATATAATATATTATAATAAAAAT
1 ATAACAATATAATATAATATAATAAAAAT
111805509 AT
1 AT
111805511 TAACTAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (29 bp):
ATAACAATATAATATAATATAATAAAAAT
Found at i:111806149 original size:29 final size:29
Alignment explanation
Indices: 111806107--111806163 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
111806097 GGTAGAAGAG
111806107 TAAGGCAAATAAATAAGAAGCAATAACAT
1 TAAGGCAAATAAATAAGAAGCAATAACAT
111806136 TAAGGCAAATAAATAAGAAGCAATAACA
1 TAAGGCAAATAAATAAGAAGCAATAACA
111806164 CTAAATTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.60, C:0.11, G:0.14, T:0.16
Consensus pattern (29 bp):
TAAGGCAAATAAATAAGAAGCAATAACAT
Found at i:111806158 original size:15 final size:15
Alignment explanation
Indices: 111806111--111806158 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
111806101 GAAGAGTAAG
111806111 GCAAATAAATAAGAA
1 GCAAATAAATAAGAA
111806126 GC-AATAACATTAAG--
1 GCAAATAA-A-TAAGAA
111806140 GCAAATAAATAAGAA
1 GCAAATAAATAAGAA
111806155 GCAA
1 GCAA
111806159 TAACACTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
13 4 0.14
14 8 0.29
15 12 0.43
16 4 0.14
ACGTcount: A:0.60, C:0.10, G:0.15, T:0.15
Consensus pattern (15 bp):
GCAAATAAATAAGAA
Found at i:111806160 original size:14 final size:14
Alignment explanation
Indices: 111806114--111806161 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
111806104 GAGTAAGGCA
111806114 AATAAATAAGAAGC
1 AATAAATAAGAAGC
111806128 AATAACATTAAG--GC
1 AATAA-A-TAAGAAGC
111806142 AAATAAATAAGAAGC
1 -AATAAATAAGAAGC
111806157 AATAA
1 AATAA
111806162 CACTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
13 4 0.14
14 13 0.45
15 8 0.28
16 4 0.14
ACGTcount: A:0.62, C:0.08, G:0.12, T:0.17
Consensus pattern (14 bp):
AATAAATAAGAAGC
Found at i:111808566 original size:3 final size:3
Alignment explanation
Indices: 111808558--111808834 Score: 89
Period size: 3 Copynumber: 91.7 Consensus size: 3
111808548 GGGGAAAAAT
* *
111808558 ATA ATA AT- ATA A-A AGTA GTA ATA ATA ATA ATA A-A TATA GTA ATA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
* * * *
111808602 ATA ATA GTA ATA A-A A-A AT- AGA ACA ACAA ATA ATA ATA ATA CATTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA -A-TA
* * * * * *
111808647 ATA AAA ATA ATA AGA AT- GTG TTA ATA ATA ATA A-A TTA ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
111808692 ATGA ATAA ATAA ATA A-A CACA AAA ATA A-A AT- ATA ATT ATA ATA GTA
1 AT-A AT-A AT-A ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
111808738 ATA TTA ACA A-A ATA ATA ATA ATA CATTA ATA AAA ATA ATA AGA ATGCG
1 ATA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA AT--A
* *
111808786 TTA ATA ATA A-A TTA ATGA ATTA ATA ATA A-A ATGA ATAA ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A A-TA ATA ATA ATA AT-A AT-A ATA ATA ATA
111808833 AT
1 AT
111808835 GTGATAAAGC
Statistics
Matches: 205, Mismatches: 41, Indels: 56
0.68 0.14 0.19
Matches are distributed among these distances:
2 24 0.12
3 146 0.71
4 29 0.14
5 6 0.03
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:111808657 original size:23 final size:23
Alignment explanation
Indices: 111808628--111808834 Score: 89
Period size: 23 Copynumber: 8.6 Consensus size: 23
111808618 ATAGAACAAC
111808628 AAATAATAATAATACATTAATAA
1 AAATAATAATAATACATTAATAA
* ***
111808651 AAATAATAAGAATGTGTTAATAA
1 AAATAATAATAATACATTAATAA
* * *
111808674 TAATAAATTAATAATAAAATGAATAA
1 AAAT-AA-TAATAAT-ACATTAATAA
* * **
111808700 ATA-AAT-A-AACACAAAAATAA
1 AAATAATAATAATACATTAATAA
* * * *
111808720 AATATAATTATAATAGTAATATTAACA
1 AA-ATAATAATAATA-CATTAAT-A-A
111808747 AAATAATAATAATACATTAATAA
1 AAATAATAATAATACATTAATAA
* * *
111808770 AAATAATAAGAATGCGTTAATAA
1 AAATAATAATAATACATTAATAA
*
111808793 TAAATTAATGAATTAATA-ATAAAATGAA
1 -AAA-TAAT-AA-TAATACAT-TAAT-AA
111808821 TAAATAATAATAAT
1 -AAATAATAATAAT
111808835 GTGATAAAGC
Statistics
Matches: 136, Mismatches: 32, Indels: 30
0.69 0.16 0.15
Matches are distributed among these distances:
20 8 0.06
21 3 0.02
22 4 0.03
23 45 0.33
24 11 0.08
25 22 0.16
26 24 0.18
27 13 0.10
28 6 0.04
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (23 bp):
AAATAATAATAATACATTAATAA
Found at i:111808791 original size:34 final size:35
Alignment explanation
Indices: 111808753--111808818 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
111808743 AACAAAATAA
*
111808753 TAATAATACATTAAT-AA-AAATAATAAGAATGCGT
1 TAATAATAAATTAATGAATAAATAATAA-AATGCGT
*
111808787 TAATAATAAATTAATGAATTAATAATAAAATG
1 TAATAATAAATTAATGAATAAATAATAAAATG
111808819 AATAAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 14 0.50
35 6 0.21
36 8 0.29
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.32
Consensus pattern (35 bp):
TAATAATAAATTAATGAATAAATAATAAAATGCGT
Found at i:111808808 original size:19 final size:18
Alignment explanation
Indices: 111808786--111808833 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
111808776 TAAGAATGCG
*
111808786 TTAATAATAAATTAATGAA
1 TTAATAATAAATGAAT-AA
111808805 TTAATAATAAAATGAATAA
1 TTAATAAT-AAATGAATAA
*
111808824 ATAATAATAA
1 TTAATAATAA
111808834 TGTGATAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 2 0.08
19 17 0.65
20 7 0.27
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (18 bp):
TTAATAATAAATGAATAA
Found at i:111808818 original size:16 final size:17
Alignment explanation
Indices: 111808771--111808835 Score: 69
Period size: 16 Copynumber: 3.8 Consensus size: 17
111808761 CATTAATAAA
* **
111808771 AATAATAAGAATGCGTT
1 AATAATAATAATGAATT
111808788 AATAATAAATTAATGAATT
1 AATAAT-AA-TAATGAATT
*
111808807 AATAATAA-AATGAATA
1 AATAATAATAATGAATT
111808823 AATAATAATAATG
1 AATAATAATAATG
111808836 TGATAAAGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
16 15 0.37
17 10 0.24
18 4 0.10
19 12 0.29
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (17 bp):
AATAATAATAATGAATT
Found at i:111810152 original size:87 final size:87
Alignment explanation
Indices: 111809995--111810286 Score: 379
Period size: 87 Copynumber: 3.3 Consensus size: 87
111809985 TTAAAATCTG
* * * * * *
111809995 TAGCATGTTACCCTACTACTTTAGGGATTTAGGGCCCATCACCTTCAATCTATTTCCCTACTGCT
1 TAGCCTGTTACCCTACTAC-TTAGGGATTTAAGGCCCTTCATCTTCGATCTGTTTCCCTACTGCT
111810060 TAGGGTGATAAGATCTGTAAATT
65 TAGGGTGATAAGATCTGTAAATT
* * * * *
111810083 TAGCCTATTACCCTACTACTTAGGGGTTTAAGGCCCTTCGTCTTCGATTTGTTTCCCTACTGCTG
1 TAGCCTGTTACCCTACTACTTAGGGATTTAAGGCCCTTCATCTTCGATCTGTTTCCCTACTGCTT
111810148 AGGGTGATAAGATCTGTAAATT
66 AGGGTGATAAGATCTGTAAATT
* * * *
111810170 TAGCTTGTTACCCTACTGCTTAGGGATTTAAGGCCCTTCATCGTCGATCTG-CTCCACTACTGCT
1 TAGCCTGTTACCCTACTACTTAGGGATTTAAGGCCCTTCATCTTCGATCTGTTTCC-CTACTGCT
* * *
111810234 TAGGGGGTTAAAATCTGTAAATT
65 TAGGGTGATAAGATCTGTAAATT
* *
111810257 TAGCCTGTTACCCTACTATTTAGGGGTTTA
1 TAGCCTGTTACCCTACTACTTAGGGATTTA
111810287 GATCTATAAA
Statistics
Matches: 176, Mismatches: 27, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
86 3 0.02
87 156 0.89
88 17 0.10
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (87 bp):
TAGCCTGTTACCCTACTACTTAGGGATTTAAGGCCCTTCATCTTCGATCTGTTTCCCTACTGCTT
AGGGTGATAAGATCTGTAAATT
Found at i:111810270 original size:174 final size:169
Alignment explanation
Indices: 111809912--111810286 Score: 459
Period size: 174 Copynumber: 2.2 Consensus size: 169
111809902 ATTTGTAATT
*
111809912 TTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCCCTTTCGATCTGTTTCCCTACTGC
1 TTTAGCCTGTTACCCTACTACTTAGGGGTTTAAGGCCCATCCCTTTCGATCTGTTTCCCTACTGC
* * * *
111809977 TTAGGGGGTTAAAATCTGTAGCATGTTACCCTACTACTTTAGGGATTTAGGGCCCATCACCTTCA
66 TGAGGGGGATAAAATCTGTAGCATGTTACCCTACTACTTTAGGGATTTAAGGCCCATCACCGTCA
** * *
111810042 ATCTATTTCCCTACTGCTTAGGGTGATAAGATCTGTAAA
131 ATCTAGCTCCCTACTGCTTAGGGGGATAAAATCTGTAAA
* * * *
111810081 TTTAGCCTATTACCCTACTACTTAGGGGTTTAAGGCCC-TTCGTCTTCGATTTGTTTCCCTACTG
1 TTTAGCCTGTTACCCTACTACTTAGGGGTTTAAGGCCCATCCCT-TTCGATCTGTTTCCCTACTG
* * * * *
111810145 CTGAGGGTGATAAGATCTGTAAATTTAGCTTGTTACCCTACTGC-TTAGGGATTTAAGGCCCTTC
65 CTGAGGGGGATAAAATCTG------TAGCATGTTACCCTACTACTTTAGGGATTTAAGGCCCATC
* * *
111810209 ATCGTCGATCT-GCTCCACTACTGCTTAGGGGGTTAAAATCTGTAAA
124 ACCGTCAATCTAGCTCC-CTACTGCTTAGGGGGATAAAATCTGTAAA
*
111810255 TTTAGCCTGTTACCCTACTATTTAGGGGTTTA
1 TTTAGCCTGTTACCCTACTACTTAGGGGTTTA
111810287 GATCTATAAA
Statistics
Matches: 175, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
168 3 0.02
169 70 0.40
173 3 0.02
174 82 0.47
175 17 0.10
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (169 bp):
TTTAGCCTGTTACCCTACTACTTAGGGGTTTAAGGCCCATCCCTTTCGATCTGTTTCCCTACTGC
TGAGGGGGATAAAATCTGTAGCATGTTACCCTACTACTTTAGGGATTTAAGGCCCATCACCGTCA
ATCTAGCTCCCTACTGCTTAGGGGGATAAAATCTGTAAA
Found at i:111810297 original size:42 final size:42
Alignment explanation
Indices: 111810226--111810327 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 42
111810216 ATCTGCTCCA
* * * *
111810226 CTACTGCTTAGGGGGTTAAAATCTGTAAATTTAGCCTGTTACC
1 CTACTACTTA-GGGGTTTAAATCTATAAATTCAGCCTGTTACC
* * *
111810269 CTACTATTTAGGGGTTTAGATCTATAAATTCAGCCTGTTATC
1 CTACTACTTAGGGGTTTAAATCTATAAATTCAGCCTGTTACC
*
111810311 CTACTGCTTAGGGGTTT
1 CTACTACTTAGGGGTTT
111810328 GAGGCCCATC
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 42 0.84
43 8 0.16
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.38
Consensus pattern (42 bp):
CTACTACTTAGGGGTTTAAATCTATAAATTCAGCCTGTTACC
Found at i:111810314 original size:129 final size:128
Alignment explanation
Indices: 111810157--111810414 Score: 399
Period size: 129 Copynumber: 2.0 Consensus size: 128
111810147 GAGGGTGATA
* * * *
111810157 AGATCTGTAAATTTAGCTTGTTACCCTACTGCTTAGGGATTTAAGGCCCTTCATCGTCGATCTGC
1 AGATCTATAAATTCAGCCTGTTACCCTACTGCTTAGGGATTTAAGGCCCATCATCGTCGATCTGC
*
111810222 TCCACTACTGCTTAGGGGGTTAAAATCTGTAAATTTAGCCTGTTACCCTACTATTTAGGGGTTT
66 TCCACTACTGCTTA-GGGGTTAAAATCTGTAAATTTAGCCTGTTACCCTACTACTTAGGGGTTT
* * * *
111810286 AGATCTATAAATTCAGCCTGTTATCCTACTGCTTAGGGGTTTGAGGCCCATCGTCGTCGATCTGC
1 AGATCTATAAATTCAGCCTGTTACCCTACTGCTTAGGGATTTAAGGCCCATCATCGTCGATCTGC
* * *
111810351 TCCACTACTGCTTAGGGGTTAAGATTTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTT
66 TCCACTACTGCTTAGGGGTTAAAATCTGTAAATTTAGCCTGTTACCCTACTACTTAGGGGTTT
111810414 A
1 A
111810415 AGTACCATCA
Statistics
Matches: 117, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
128 46 0.39
129 71 0.61
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (128 bp):
AGATCTATAAATTCAGCCTGTTACCCTACTGCTTAGGGATTTAAGGCCCATCATCGTCGATCTGC
TCCACTACTGCTTAGGGGTTAAAATCTGTAAATTTAGCCTGTTACCCTACTACTTAGGGGTTT
Done.