Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008733.1 Hibiscus syriacus cultivar Beakdansim tig00111806_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 774200
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:7904 original size:29 final size:30
Alignment explanation
Indices: 7867--7924 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
7857 GATTTAATGA
* * *
7867 GTGATCAAATTATAAA-TTTGTAAAGTTTG
1 GTGACCAAAATATAAACTTTGAAAAGTTTG
7896 GTGACCAAAATATAAACTTTGAAAAGTTT
1 GTGACCAAAATATAAACTTTGAAAAGTTT
7925 AGGGACTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.36
Consensus pattern (30 bp):
GTGACCAAAATATAAACTTTGAAAAGTTTG
Found at i:11022 original size:40 final size:40
Alignment explanation
Indices: 10978--11179 Score: 395
Period size: 40 Copynumber: 5.0 Consensus size: 40
10968 ACCGTAGTGC
10978 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
11018 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
11058 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
11098 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
11138 TACACATAAGGTCGTGTCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
11178 TA
1 TA
11180 TAAACCTGCA
Statistics
Matches: 161, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 161 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:18059 original size:40 final size:40
Alignment explanation
Indices: 18015--18136 Score: 226
Period size: 40 Copynumber: 3.0 Consensus size: 40
18005 ACCGTAGTGC
18015 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
18055 TACACATAAGGTCGTGCCCACCATATACACCGAAGTATAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
18095 TACACATAAGGTCGTGCCCGCCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
18135 TA
1 TA
18137 TAAACCTGCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:20533 original size:18 final size:18
Alignment explanation
Indices: 20512--20575 Score: 83
Period size: 18 Copynumber: 3.6 Consensus size: 18
20502 ATGTATTACA
20512 TGATAATGATATTGATGT
1 TGATAATGATATTGATGT
** **
20530 TGATAATGATAGAGATCA
1 TGATAATGATATTGATGT
20548 TGATAATGATATTGATGT
1 TGATAATGATATTGATGT
*
20566 TGATTATGAT
1 TGATAATGAT
20576 GACATATGTG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.36, C:0.02, G:0.22, T:0.41
Consensus pattern (18 bp):
TGATAATGATATTGATGT
Found at i:25891 original size:29 final size:30
Alignment explanation
Indices: 25857--25913 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
25847 GATTTAATGA
* *
25857 GTGACCAAATTATAAA-TTTGTAAAGTTTG
1 GTGACCAAAGTATAAACTTTGAAAAGTTTG
25886 GTGACCAAAGTATAAACTTTGAAAAGTT
1 GTGACCAAAGTATAAACTTTGAAAAGTT
25914 CAAGGACCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (30 bp):
GTGACCAAAGTATAAACTTTGAAAAGTTTG
Found at i:26618 original size:11 final size:11
Alignment explanation
Indices: 26602--26633 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
26592 ATTTGAGTGA
26602 GAAAAATTATG
1 GAAAAATTATG
26613 GAAAAATTATG
1 GAAAAATTATG
26624 GAAAAATTAT
1 GAAAAATTAT
26634 ATAAGGTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (11 bp):
GAAAAATTATG
Found at i:27679 original size:33 final size:33
Alignment explanation
Indices: 27636--27717 Score: 114
Period size: 33 Copynumber: 2.5 Consensus size: 33
27626 GGGTTATATG
*
27636 ACAAGAATGTTATACAAGGATCTATGAGATCAT
1 ACAAGAATGTTATACAAGGATCTACGAGATCAT
* * *
27669 TCAAGAATGTTACACAATGATCTACGAGATCAT
1 ACAAGAATGTTATACAAGGATCTACGAGATCAT
27702 ACAAGAATG--ATACAAG
1 ACAAGAATGTTATACAAG
27718 TGATGTGAAC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 5 0.12
33 37 0.88
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (33 bp):
ACAAGAATGTTATACAAGGATCTACGAGATCAT
Found at i:27933 original size:21 final size:21
Alignment explanation
Indices: 27907--27948 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
27897 CTTAAGGAGT
27907 AGTCCTCCAGGACATACAAGA
1 AGTCCTCCAGGACATACAAGA
* *
27928 AGTCCTTCGGGACATACAAGA
1 AGTCCTCCAGGACATACAAGA
27949 GTATATAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (21 bp):
AGTCCTCCAGGACATACAAGA
Found at i:28044 original size:21 final size:21
Alignment explanation
Indices: 27960--28046 Score: 75
Period size: 21 Copynumber: 4.1 Consensus size: 21
27950 TATATAGTTC
* * *
27960 TATGTGGTCCTTTGGGATATA
1 TATGTGGTCCTTTGGAACACA
** *
27981 TATGTAATCCTTTGGAACATA
1 TATGTGGTCCTTTGGAACACA
* * *
28002 TATGTGGTTCTTCGGGACACA
1 TATGTGGTCCTTTGGAACACA
* *
28023 TATTTGGTCCTTTGGAATACA
1 TATGTGGTCCTTTGGAACACA
28044 TAT
1 TAT
28047 ATGATTTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.40
Consensus pattern (21 bp):
TATGTGGTCCTTTGGAACACA
Found at i:28076 original size:156 final size:156
Alignment explanation
Indices: 27804--28095 Score: 424
Period size: 156 Copynumber: 1.9 Consensus size: 156
27794 TCAAGGGTTT
27804 TATGTGGTCCTTCGGGATATATATGTAATCCTTTGGAACATACATGCGATTCTTCAGGACACATA
1 TATGTGGTCCTTCGGGATATATATGTAATCCTTTGGAACATACATGCGATTCTTCAGGACACATA
* * * *
27869 TTTGGTTATTTGGAATATATATGTGATTCTTAAGGAGTAGTCCTCCAGGACATACAAGA-AGTCC
66 TTTGGTCATTTGGAATACATATATGATTCTTAAGGAGTAGACCTCCAGGACATACAAGAGA-TCC
27933 TTCGGGACATACAAGAGTATATAGTTC
130 TTCGGGACATACAAGAGTATATAGTTC
* * * * *
27960 TATGTGGTCCTTTGGGATATATATGTAATCCTTTGGAACATATATGTGGTTCTTCGGGACACATA
1 TATGTGGTCCTTCGGGATATATATGTAATCCTTTGGAACATACATGCGATTCTTCAGGACACATA
* * * * * * *
28025 TTTGGTCCTTTGGAATACATATATGATTTTTAAGGAGTGGACCTTCGGGACATATACGAGATCCT
66 TTTGGTCATTTGGAATACATATATGATTCTTAAGGAGTAGACCTCCAGGACATACAAGAGATCCT
28090 TCGGGA
131 TCGGGA
28096 TAATTTTACA
Statistics
Matches: 119, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
156 118 0.99
157 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (156 bp):
TATGTGGTCCTTCGGGATATATATGTAATCCTTTGGAACATACATGCGATTCTTCAGGACACATA
TTTGGTCATTTGGAATACATATATGATTCTTAAGGAGTAGACCTCCAGGACATACAAGAGATCCT
TCGGGACATACAAGAGTATATAGTTC
Found at i:28354 original size:18 final size:18
Alignment explanation
Indices: 28331--28383 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
28321 ATTACATGAT
28331 AATGATATTGATGTTGAG
1 AATGATATTGATGTTGAG
** ** *
28349 AATGATAGAGATCATGAT
1 AATGATATTGATGTTGAG
*
28367 AATTATATTGATGTTGA
1 AATGATATTGATGTTGA
28384 TTATGATGAC
Statistics
Matches: 25, Mismatches: 10, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.38
Consensus pattern (18 bp):
AATGATATTGATGTTGAG
Found at i:30461 original size:15 final size:15
Alignment explanation
Indices: 30451--30553 Score: 118
Period size: 15 Copynumber: 6.5 Consensus size: 15
30441 TAATAAGGTT
30451 ATTTATTATAAAATA
1 ATTTATTATAAAATA
30466 ATTTATTATAAAATA
1 ATTTATTATAAAATA
*
30481 ACTTATTATAAAATA
1 ATTTATTATAAAATA
30496 ATTTATTATAAATATGGA
1 ATTTATTATAAA-AT--A
*
30514 TTGATTTATTTTAAAATA
1 ---ATTTATTATAAAATA
*
30532 ATTTATT-TTAAATA
1 ATTTATTATAAAATA
30546 ATTTATTA
1 ATTTATTA
30554 GTATGGATTG
Statistics
Matches: 77, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
14 13 0.17
15 47 0.61
16 2 0.03
18 2 0.03
20 2 0.03
21 11 0.14
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.50
Consensus pattern (15 bp):
ATTTATTATAAAATA
Found at i:30521 original size:51 final size:47
Alignment explanation
Indices: 30466--30686 Score: 183
Period size: 54 Copynumber: 4.3 Consensus size: 47
30456 TTATAAAATA
*
30466 ATTTATTATAAAATAACTTATTATAAAATAATTTATTATAAATATGGATTG
1 ATTTATTTTAAAATAACTTATT-TAAAATAATTTA-T-T-AATATGGATTG
* * *
30517 ATTTATTTTAAAATAATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAAATAACTTATTTAAAATAATTTATTAATATGGATTG
** *
30564 ATTTATTTTAAAATATGGA-TTGATTTATTTTAAATAATTTATTAGCATGGATTA
1 ATTTATTTTAAAATA---ACTT-ATTTA----AAATAATTTATTAATATGGATTG
* *
30618 ATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAAATA--ACTT-ATTTA----AAATAATTTATTAATATGGATTG
30672 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
30687 TGAATTGAGT
Statistics
Matches: 151, Mismatches: 10, Indels: 15
0.86 0.06 0.09
Matches are distributed among these distances:
47 25 0.17
48 1 0.01
49 3 0.02
50 16 0.11
51 20 0.13
53 2 0.01
54 84 0.56
ACGTcount: A:0.40, C:0.01, G:0.09, T:0.50
Consensus pattern (47 bp):
ATTTATTTTAAAATAACTTATTTAAAATAATTTATTAATATGGATTG
Found at i:30571 original size:22 final size:22
Alignment explanation
Indices: 30555--30597 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
30545 AATTTATTAG
30555 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
30577 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
30598 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:30573 original size:32 final size:32
Alignment explanation
Indices: 30532--30683 Score: 146
Period size: 32 Copynumber: 5.4 Consensus size: 32
30522 TTTTAAAATA
30532 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
30564 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
* *
30586 ATTTATTTTAAATAATTTATTAGCATGGATTA
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
30618 ATTTATTTT-AA-AA--TA-T-G-A---ATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
30640 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
30672 ATTTATTTTAAA
1 ATTTATTTTAAA
30684 ATATGAATTG
Statistics
Matches: 97, Mismatches: 3, Indels: 40
0.69 0.02 0.29
Matches are distributed among these distances:
22 26 0.27
23 6 0.06
24 2 0.02
25 2 0.02
26 6 0.06
27 2 0.02
28 6 0.06
29 2 0.02
30 2 0.02
31 6 0.06
32 37 0.38
ACGTcount: A:0.37, C:0.01, G:0.11, T:0.52
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:30598 original size:54 final size:54
Alignment explanation
Indices: 30532--30700 Score: 302
Period size: 54 Copynumber: 3.1 Consensus size: 54
30522 TTTTAAAATA
*
30532 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTG
* *
30586 ATTTATTTTAAATAATTTATTAGCATGGATTAATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTG
30640 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTG
*
30694 AGTTATT
1 ATTTATT
30701 ATTGTAGTTG
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 109 1.00
ACGTcount: A:0.37, C:0.01, G:0.11, T:0.51
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTG
Found at i:30716 original size:134 final size:134
Alignment explanation
Indices: 30494--31130 Score: 866
Period size: 134 Copynumber: 4.9 Consensus size: 134
30484 TATTATAAAA
* * *
30494 TAATTTATTAT-AAATATGGATTGATTTATTTTAAAATAATTTATT--T-TA-AATAATTTA--T
1 TAATTTATTTTAAAATATGGATTGATTTATTTT-AAATAATTTATTAGTATAGATTGATTTATTT
* *** *
30552 T--AGTATGGATTGATTTA-T-TT-TA-AAATATGGATTGATTTATTTTAAATAATTTATTAGCA
65 TAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTA
30611 TGGAT
130 TGGAT
* *
30616 TAATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
1 TAATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTT
* *
30681 AAAATATGAATTGAGTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTAT
66 AAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTAT
30746 GGAT
131 GGAT
*
30750 TGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTT
1 TAATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTT
* *
30815 AAAATATGGATTGATTTATGATTGTAGTTGTATGGATTGATTTATTTTAAAATATGGATTGATT-
66 AAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTT-AAATA---ATTTATTA
*
30879 -TAT--TT
127 GTATGGAT
* * * *
30884 TAA-ATAATTT--ATTATGGATTGATTTATTTTAAACAATTTATTAGTATAGATTGATTTATTTT
1 TAATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTT
30946 AAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATCTT-TTAGTA
66 AAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAAT-TTATTAGTA
31010 TGGAT
130 TGGAT
* *
31015 TGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
1 TAATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTT
*
31080 AAATTATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAA
66 AAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAA
31131 ATATGGATTG
Statistics
Matches: 455, Mismatches: 35, Indels: 38
0.86 0.07 0.07
Matches are distributed among these distances:
122 22 0.05
123 20 0.04
124 1 0.00
125 1 0.00
126 7 0.02
127 4 0.01
128 3 0.01
129 3 0.01
130 18 0.04
131 101 0.22
132 7 0.02
133 7 0.02
134 247 0.54
135 5 0.01
136 3 0.01
138 6 0.01
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (134 bp):
TAATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTT
AAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTAT
GGAT
Found at i:30736 original size:80 final size:79
Alignment explanation
Indices: 30629--31130 Score: 302
Period size: 80 Copynumber: 6.3 Consensus size: 79
30619 TTTATTTTAA
* *
30629 AATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTG
1 AATATGGATTGATTTATTTTAAATAATTTATT-GTATGGATTGATTTATTTTAAAATATGGATTG
30694 AGTTATT-ATTGTAGTT
65 AGTTATTAATT-TA-TT
*
30710 -GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 AATATGGATTGATTTATTTTAAATAATTTATT-GTATGGATTGATTTATTTTAAAATATGGATTG
*
30774 ATTTATTTTAAATAATTTATT
65 AGTTA---T---TAATTTATT
* * ** ** * *
30795 AGTATAGATTGATTTATTTTAAA-ATATGGATTG-ATTTA-TGATTGTA-GTT---GTATGGATT
1 AATATGGATTGATTTATTTTAAATA-ATTTATTGTATGGATTGATT-TATTTTAAAATATGGATT
* *
30853 GA--T-TTATTTTA-A
64 GAGTTATTAATTTATT
**
30865 AATATGGATTGATTTATTTTAAATAATTTA-T-TATGGATTGATTTATTTTAAACA-ATTTATT-
1 AATATGGATTGATTTATTTTAAATAATTTATTGTATGGATTGATTTATTTTAAA-ATATGGATTG
*
30926 AGTATAGATTGATTTATTTT
65 AGT-T--ATTAATTTA--TT
* **
30946 AAAATATGGATTGATTTA--TT--AT--TGTAGTTGTATGGATTGATTTATTTT-AAATAAT-CT
1 --AATATGGATTGATTTATTTTAAATAATTTA-TTGTATGGATTGATTTATTTTAAAAT-ATGGA
* *
31003 TTTAGTATGGATTGATTTATTTT
62 TTGAGT-T--ATTAATTTA--TT
*
31026 AAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATTATGGAT
1 --AATATGGATTGATTTATTTTAAATAATTTATT-GTATGGATTGATTTATTTTAAAATATGGAT
*
31091 TGATTTATT-ATTGTAGTT
63 TGAGTTATTAATT-TA-TT
*
31109 -GTATGGATTGATTTATTTTAAA
1 AATATGGATTGATTTATTTTAAA
31131 ATATGGATTG
Statistics
Matches: 338, Mismatches: 38, Indels: 91
0.72 0.08 0.19
Matches are distributed among these distances:
69 6 0.02
70 31 0.09
71 7 0.02
72 1 0.00
73 5 0.01
74 1 0.00
75 1 0.00
77 3 0.01
78 8 0.02
79 7 0.02
80 153 0.45
81 2 0.01
82 2 0.01
83 29 0.09
84 12 0.04
85 6 0.02
86 54 0.16
87 10 0.03
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (79 bp):
AATATGGATTGATTTATTTTAAATAATTTATTGTATGGATTGATTTATTTTAAAATATGGATTGA
GTTATTAATTTATT
Found at i:30751 original size:32 final size:32
Alignment explanation
Indices: 30710--30948 Score: 179
Period size: 32 Copynumber: 7.7 Consensus size: 32
30700 TATTGTAGTT
30710 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
30742 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
30765 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
30796 GTATAGATTGATTTATTTTAAAATATGGATTGATT-
1 GTATGGATTGATTTATTTT-AAATA---ATTTATTA
* * * * *
30831 -TAT-GATTGTAGTTGTATGGATTGATTTATTT-TAAA
1 GTATGGATTG-A-TT-TAT--TTTAAATAATTTAT-TA
*
30866 ATATGGATTGATTTATTTTAAATAATTTA-T-
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
30896 -TATGGATTGATTTATTTTAAACAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
30927 GTATAGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
30949 ATATGGATTG
Statistics
Matches: 165, Mismatches: 15, Indels: 54
0.71 0.06 0.23
Matches are distributed among these distances:
22 14 0.08
23 4 0.02
25 1 0.01
26 3 0.02
28 3 0.02
29 28 0.17
30 1 0.01
31 4 0.02
32 60 0.36
33 11 0.07
34 10 0.06
35 4 0.02
36 13 0.08
37 7 0.04
38 2 0.01
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:30768 original size:22 final size:22
Alignment explanation
Indices: 30743--30887 Score: 110
Period size: 22 Copynumber: 6.0 Consensus size: 22
30733 AATTTATTAG
30743 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
30765 TATGGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTT-AA-AA
* * *
30789 TTTATTAGTATAGATTGATTTATTTTAAAA
1 --TA-T-GGATTGATTTA-TT---TTAAAA
***
30819 TATGGATTGATTTATGATTGTAGTTG
1 TATGGATTGATTTAT--TT-TA-AAA
30845 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
30867 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
30888 TAATTTATTA
Statistics
Matches: 97, Mismatches: 12, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
22 39 0.40
23 4 0.04
24 5 0.05
25 3 0.03
26 25 0.26
27 3 0.03
28 10 0.10
29 2 0.02
30 2 0.02
31 2 0.02
32 2 0.02
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:30776 original size:54 final size:54
Alignment explanation
Indices: 30711--31162 Score: 505
Period size: 54 Copynumber: 8.6 Consensus size: 54
30701 ATTGTAGTTG
30711 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
30765 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* *
30819 TATGGATTGATTTA---T-GAT--TGTAGTT-GTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAA
30867 TATGGATTGATTTATTTTAAATAATTTA-T--TATGGATTGATTTATTTTAAACA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA-A
** * ** * * * * * ***
30919 -ATTTATT-AGTATAGATTGATTTATTT-TAAAATATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGA-TTTATTTTAAATAATTTAT-TAGTATGGATTGATTTA-T-TT-TA-AAA
30976 TATGGATTGATTTATTTTAAATAATCTT-TTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAAT-TTATTAGTATGGATTGATTTATTTTAAAA
*
31030 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
31084 TATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAA
31132 TATGGATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTA
31163 TTTTAGTTGT
Statistics
Matches: 334, Mismatches: 35, Indels: 58
0.78 0.08 0.14
Matches are distributed among these distances:
48 78 0.23
49 4 0.01
50 7 0.02
51 39 0.12
52 8 0.02
53 4 0.01
54 151 0.45
55 3 0.01
56 4 0.01
57 3 0.01
58 29 0.09
59 4 0.01
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.52
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:30848 original size:102 final size:101
Alignment explanation
Indices: 30734--31147 Score: 429
Period size: 102 Copynumber: 4.0 Consensus size: 101
30724 ATTTTAAATA
30734 ATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTA
1 ATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATT-GTA
*
30799 TAGATTGATTTATTTTAAAATATGGATTGATTTA-TG
65 TGGATTGATTTATTTTAAAATATGGATTGATTTATTG
30835 ATTGTAGTT-GTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA-T-T
1 ATT-TA-TTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTGT
** **
30897 ATGGATTGATTTATTTTAAACA-ATTTATTAGTATAGATTG
64 ATGGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTG
* ***
30937 ATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATC
1 ATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAATATGGATTGATTTATTTTAAATAAT-
*
31002 TT-TTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATA
57 TTATT-GTATGGATTGATTTATTTTAAAATATGGATTGATTTA---T---TG
* *
31053 ATTTATTAGTATGGATTGATTTATTTTAAATTATGGATTGATTTA--TT--AT--TGTAGTTGTA
1 ATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA-TTGTA
31112 TGGATTGATTTATTTTAAAATATGGATTGATTTATT
65 TGGATTGATTTATTTTAAAATATGGATTGATTTATT
31148 TTAAATAATT
Statistics
Matches: 266, Mismatches: 20, Indels: 59
0.77 0.06 0.17
Matches are distributed among these distances:
96 1 0.00
99 26 0.10
100 2 0.01
101 10 0.04
102 98 0.37
103 4 0.02
104 2 0.01
105 14 0.05
106 3 0.01
107 2 0.01
108 16 0.06
109 27 0.10
110 8 0.03
111 3 0.01
112 41 0.15
113 1 0.00
114 2 0.01
116 6 0.02
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (101 bp):
ATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTGTAT
GGATTGATTTATTTTAAAATATGGATTGATTTATTG
Found at i:30938 original size:265 final size:265
Alignment explanation
Indices: 30631--31163 Score: 978
Period size: 265 Copynumber: 2.0 Consensus size: 265
30621 TATTTTAAAA
* *
30631 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAG
1 TATGAATTGATTTATTTTAAACAATTTATTAGTATAGATTGATTTATTTTAAAATATGAATTGAG
30696 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAAT-TTATTAGTATGGATTGATTTATTT
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATCTT-TTAGTATGGATTGATTTATTT
30760 TAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGA
130 TAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGA
30825 TTGATTTATGATTGTAGTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATA
195 TTGATTTATGATTGTAGTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATA
30890 ATTTAT
260 ATTTAT
* * *
30896 TATGGATTGATTTATTTTAAACAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
1 TATGAATTGATTTATTTTAAACAATTTATTAGTATAGATTGATTTATTTTAAAATATGAATTGAG
30961 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATCTTTTAGTATGGATTGATTTATTTT
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATCTTTTAGTATGGATTGATTTATTTT
* *
31026 AAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATTATGGAT
131 AAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGAT
*
31091 TGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAA
196 TGATTTATGATTGTAGTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAA
31156 TTTAT
261 TTTAT
31161 TAT
1 TAT
31164 TTTAGTTGTA
Statistics
Matches: 259, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
265 257 0.99
266 2 0.01
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.52
Consensus pattern (265 bp):
TATGAATTGATTTATTTTAAACAATTTATTAGTATAGATTGATTTATTTTAAAATATGAATTGAG
TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATCTTTTAGTATGGATTGATTTATTTT
AAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGAT
TGATTTATGATTGTAGTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAA
TTTAT
Found at i:31034 original size:22 final size:22
Alignment explanation
Indices: 31008--31152 Score: 101
Period size: 22 Copynumber: 6.0 Consensus size: 22
30998 AATCTTTTAG
31008 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
31030 TATGGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTT-AA-AA
* * * *
31054 TTTATTAGTATGGATTGATTTATTTTAAAT
1 --TA-T-GGATTGATTTA-TT---TTAAAA
***
31084 TATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTA-T-TT-TA-AAA
31110 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
31132 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
31153 TAATTTATTA
Statistics
Matches: 97, Mismatches: 13, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
22 39 0.40
23 4 0.04
24 5 0.05
25 3 0.03
26 26 0.27
27 3 0.03
28 10 0.10
29 2 0.02
30 1 0.01
31 2 0.02
32 2 0.02
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:31165 original size:21 final size:22
Alignment explanation
Indices: 31062--31152 Score: 110
Period size: 22 Copynumber: 4.0 Consensus size: 22
31052 AATTTATTAG
*
31062 TATGGATTGATTTATTTTAAAT
1 TATGGATTGATTTATTTTAAAA
***
31084 TATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTA-T-TT-TA-AAA
31110 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
31132 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
31153 TAATTTATTA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
22 35 0.59
23 3 0.05
24 4 0.07
25 3 0.05
26 14 0.24
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:31204 original size:23 final size:23
Alignment explanation
Indices: 31177--31220 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
31167 AGTTGTATGG
31177 ATTATTTAAATT-TCAGTATTGTA
1 ATTATTT-AATTCTCAGTATTGTA
31200 ATTATTTAATTCTCAGTATTG
1 ATTATTTAATTCTCAGTATTG
31221 CAAAACTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.32, C:0.07, G:0.09, T:0.52
Consensus pattern (23 bp):
ATTATTTAATTCTCAGTATTGTA
Found at i:33260 original size:14 final size:14
Alignment explanation
Indices: 33241--33285 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
33231 CATTCGATTA
33241 TATGTTCGTTCATT
1 TATGTTCGTTCATT
33255 TATGTTCG----TT
1 TATGTTCGTTCATT
33265 TATGTTCGTTCATT
1 TATGTTCGTTCATT
33279 TATGTTC
1 TATGTTC
33286 AAACAGAGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 10 0.37
14 17 0.63
ACGTcount: A:0.13, C:0.13, G:0.16, T:0.58
Consensus pattern (14 bp):
TATGTTCGTTCATT
Found at i:33567 original size:13 final size:13
Alignment explanation
Indices: 33551--33587 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
33541 GTGTTTGTGT
* *
33551 TGTTCGTTTATTG
1 TGTTTGTTTATTA
33564 TGTTTGTTTATTA
1 TGTTTGTTTATTA
33577 TGTTTGTTTAT
1 TGTTTGTTTAT
33588 AAACGTTCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.11, C:0.03, G:0.19, T:0.68
Consensus pattern (13 bp):
TGTTTGTTTATTA
Found at i:33581 original size:22 final size:22
Alignment explanation
Indices: 33531--33581 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
33521 TTTGAATAAG
* *
33531 TTTGTTTTTTGTGTTTGTGTTG
1 TTTGTTTATTGTGTTTGTGTTA
*
33553 TTCGTTTATTGTGTTTGT-TTA
1 TTTGTTTATTGTGTTTGTGTTA
33574 TTATGTTT
1 TT-TGTTT
33582 GTTTATAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.06, C:0.02, G:0.22, T:0.71
Consensus pattern (22 bp):
TTTGTTTATTGTGTTTGTGTTA
Found at i:33605 original size:10 final size:10
Alignment explanation
Indices: 33592--33621 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
33582 GTTTATAAAC
33592 GTTCGTTTAT
1 GTTCGTTTAT
33602 GTTCGTTTAT
1 GTTCGTTTAT
33612 GTTCGTTTAT
1 GTTCGTTTAT
33622 CATTTAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.10, C:0.10, G:0.20, T:0.60
Consensus pattern (10 bp):
GTTCGTTTAT
Found at i:36900 original size:18 final size:19
Alignment explanation
Indices: 36865--36901 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
36855 CACGGAATGT
36865 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
36885 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
36902 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:43617 original size:23 final size:23
Alignment explanation
Indices: 43572--43618 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
43562 ATTTTATGAA
*
43572 AATATATTAATTTAAATATAAAT
1 AATATATTAATTTAAATAGAAAT
* **
43595 AATATATTTATTTATTTAGAAAT
1 AATATATTAATTTAAATAGAAAT
43618 A
1 A
43619 TCATAAAAGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
AATATATTAATTTAAATAGAAAT
Found at i:43722 original size:18 final size:19
Alignment explanation
Indices: 43687--43735 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
43677 ATATTAAAGC
43687 ATTTATTAAAATAGATATA
1 ATTTATTAAAATAGATATA
43706 ATTTA-TAAAAGTA-ATAT-
1 ATTTATTAAAA-TAGATATA
43723 A-TTATTCAAAATA
1 ATTTATT-AAAATA
43736 TCAAAAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
16 3 0.11
17 4 0.15
18 13 0.48
19 7 0.26
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (19 bp):
ATTTATTAAAATAGATATA
Found at i:44061 original size:16 final size:16
Alignment explanation
Indices: 44040--44073 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
44030 AGTAATGATA
44040 AAATAAT-ATTATAAAT
1 AAATAATGATTA-AAAT
44056 AAATAATGATTAAAAT
1 AAATAATGATTAAAAT
44072 AA
1 AA
44074 GAGAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
AAATAATGATTAAAAT
Found at i:45576 original size:39 final size:39
Alignment explanation
Indices: 45515--45591 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
45505 ACCTGGCAGT
* *
45515 GCTGGAAGCTGTTGCAACTGATGCGTGGAGGGGCTGCTC
1 GCTGGAAGCTGCTGCAAATGATGCGTGGAGGGGCTGCTC
* *
45554 GCTGGAAGCTGCTGGAAATGATGTGTGGAGGGGCTGCT
1 GCTGGAAGCTGCTGCAAATGATGCGTGGAGGGGCTGCT
45592 GGATGAAGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.17, C:0.17, G:0.43, T:0.23
Consensus pattern (39 bp):
GCTGGAAGCTGCTGCAAATGATGCGTGGAGGGGCTGCTC
Found at i:46150 original size:139 final size:139
Alignment explanation
Indices: 45839--46184 Score: 473
Period size: 139 Copynumber: 2.5 Consensus size: 139
45829 CTAGCAAAAA
* *
45839 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTTTTCAGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
* * * * * *
45904 C-TCCTTCTGGAAATGTTGATCTTCAAAAGAGGGATTTGTTGATTCAACTCCATATGTGATGAAT
66 CTTCCTTCTGAAAATATTGATCCTCAAAAGAGGGATTTGTTCATTCAACTCCATAGGAGATGAAT
* *
45968 TAAGGTAAG
131 CAAGGCAAG
* * *
45977 GTTGAATAAATTCTGCTTATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
* * * *
46042 CTTCC-TCTGAAAATATTGATCCTCAAATGA-GGTTCTTCTTTCATTCAATTCCATAGGAGATGA
66 CTTCCTTCTGAAAATATTGATCCTCAAAAGAGGGAT-TT-GTTCATTCAACTCCATAGGAGATGA
*
46105 ATCAATGCAAG
129 ATCAAGGCAAG
* *
46116 GTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
46181 CTTC
66 CTTC
46185 ACCTAGAAAT
Statistics
Matches: 182, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
137 3 0.02
138 84 0.46
139 95 0.52
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.40
Consensus pattern (139 bp):
GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
CTTCCTTCTGAAAATATTGATCCTCAAAAGAGGGATTTGTTCATTCAACTCCATAGGAGATGAAT
CAAGGCAAG
Found at i:46334 original size:124 final size:123
Alignment explanation
Indices: 46113--46553 Score: 455
Period size: 124 Copynumber: 3.7 Consensus size: 123
46103 GAATCAATGC
*
46113 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
* * * * * * *
46178 GAAC-TTCACCTAGAAATAGCTCTGCTGCTCTATCTCTTTTTG-GAAATGGAGTCAAGGAA
66 GAACTTTC-TCTGGAAATAGCTCTGCTGATCTATCTCCTTCTGTG--ATAGAGTCAAGCAA
** *
46237 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTCTTCCTCTTCAGATAAGCTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
* * * * *
46302 GAACTTTCTCTGGAAA-AGTTGGTGTTGATCTATCTCCTTCTGTGATAGATTCATGCAA
66 GAACTTTCTCTGGAAATAGCT-CTGCTGATCTATCTCCTTCTGTGATAGAGTCAAGCAA
* * *
46360 AAGGTTGAACAAGCTCTTCTAATTATGAACTTTTTCTTCCTCTTCAGATAAATTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
* * ** * **
46425 GAACTTTCTCTGG-CA-A----TGCTGATCCA--T-C--GGGTGAT-GAATTTGAGCAA
66 GAACTTTCTCTGGAAATAGCTCTGCTGATCTATCTCCTTCTGTGATAG-AGTCAAGCAA
* * *
46472 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTCCTTCCTCTTTAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
*
46537 GAACTCT-TCTGGAAATA
66 GAACTTTCTCTGGAAATA
46554 TTGAAAACAT
Statistics
Matches: 273, Mismatches: 38, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
111 6 0.02
112 78 0.29
113 1 0.00
114 1 0.00
115 1 0.00
117 8 0.03
122 2 0.01
123 85 0.31
124 87 0.32
125 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (123 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
GAACTTTCTCTGGAAATAGCTCTGCTGATCTATCTCCTTCTGTGATAGAGTCAAGCAA
Found at i:46726 original size:73 final size:73
Alignment explanation
Indices: 46602--46886 Score: 453
Period size: 73 Copynumber: 3.8 Consensus size: 73
46592 AAGGTCTTAT
* *
46602 CATCTTGCACTGTAGGGCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTT
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTT
46667 TTTGAAAA
66 TTTGAAAA
* * *
46675 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTATAAGATCAAAAAGCTTCTGAAGGCTT
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTT
*
46740 TTTGAGAA
66 TTTGAAAA
*
46748 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGTTTTAAGATCAAAAAGCTCCCGAAGGCTT
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTT
46813 TTTGAAAA
66 TTTGAAAA
* *
46821 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGGTTTTGAAAACATCAAAAAGCTCCCGAAG
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGA-GGCTTT---AAGATCAAAAAGCTCCCGAAG
46886 G
62 G
46887 TGGAAATAGT
Statistics
Matches: 196, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
73 169 0.86
74 6 0.03
77 21 0.11
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (73 bp):
CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTT
TTTGAAAA
Found at i:47577 original size:22 final size:22
Alignment explanation
Indices: 47552--47606 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
47542 GATAAAGCTT
*
47552 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATATA
*
47574 TCATCTTTAAAAAGAGAATATA
1 TCATCTTTGAAAAGAGAATATA
47596 TCATCTTTGAA
1 TCATCTTTGAA
47607 GAATGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATATA
Found at i:56626 original size:28 final size:26
Alignment explanation
Indices: 56571--56628 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 26
56561 AAACATTAAT
*
56571 AAAATAATATACATATAAATATTATG
1 AAAATAATATACATATAAAAATTATG
* *
56597 AAAATAATAGGTATATATAAAAATTTTG
1 AAAATAATA--TACATATAAAAATTATG
56625 AAAA
1 AAAA
56629 GAAAAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 9 0.33
28 18 0.67
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.33
Consensus pattern (26 bp):
AAAATAATATACATATAAAAATTATG
Found at i:57264 original size:18 final size:19
Alignment explanation
Indices: 57229--57277 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
57219 ATATTAAAGC
57229 ATTTATTAAAATAGATATA
1 ATTTATTAAAATAGATATA
57248 ATTTA-TAAAAGTA-ATAT-
1 ATTTATTAAAA-TAGATATA
57265 A-TTATTTAAAATA
1 ATTTA-TTAAAATA
57278 TCAGAAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
16 3 0.11
17 3 0.11
18 14 0.52
19 7 0.26
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (19 bp):
ATTTATTAAAATAGATATA
Found at i:57603 original size:16 final size:16
Alignment explanation
Indices: 57582--57615 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
57572 AGTAATGATA
57582 AAATAAT-ATTATAAAT
1 AAATAATGATTA-AAAT
57598 AAATAATGATTAAAAT
1 AAATAATGATTAAAAT
57614 AA
1 AA
57616 GAGAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
AAATAATGATTAAAAT
Found at i:60636 original size:13 final size:13
Alignment explanation
Indices: 60618--60644 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
60608 ACATTCACGT
60618 AGTGAAGGACATA
1 AGTGAAGGACATA
60631 AGTGAAGGACATA
1 AGTGAAGGACATA
60644 A
1 A
60645 TAATATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.30, T:0.15
Consensus pattern (13 bp):
AGTGAAGGACATA
Found at i:61026 original size:104 final size:104
Alignment explanation
Indices: 60841--61033 Score: 352
Period size: 104 Copynumber: 1.9 Consensus size: 104
60831 AATATATATA
60841 AAACTTAAAGATAGACGTAATAAATCAAAGAAAATTCAAATTTTAGAATGAGTACAATATTCTCA
1 AAACTTAAAGATAGACGTAATAAATCAAAGAAAATTCAAATTTTAGAATGAGTACAATATTCTCA
60906 ATTGGAAGCATGGGCAGAATTTCATGAGAGTCAAGGCTC
66 ATTGGAAGCATGGGCAGAATTTCATGAGAGTCAAGGCTC
* *
60945 AAACTTAAAGATAGACGTAATCAATTAAAGAAAATTCAAATTTTAGAATGAGTACAATATTCTCA
1 AAACTTAAAGATAGACGTAATAAATCAAAGAAAATTCAAATTTTAGAATGAGTACAATATTCTCA
61010 ATTGGAAGCA-GTGGCAGAATTTCA
66 ATTGGAAGCATG-GGCAGAATTTCA
61034 CGAGCGCTAA
Statistics
Matches: 86, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
103 1 0.01
104 85 0.99
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (104 bp):
AAACTTAAAGATAGACGTAATAAATCAAAGAAAATTCAAATTTTAGAATGAGTACAATATTCTCA
ATTGGAAGCATGGGCAGAATTTCATGAGAGTCAAGGCTC
Found at i:66626 original size:39 final size:39
Alignment explanation
Indices: 66572--66650 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
66562 TCCCTTCTGC
66572 TGAGTTGTTCGAATTTCTATACAAATCTAATTGTAATTA
1 TGAGTTGTTCGAATTTCTATACAAATCTAATTGTAATTA
66611 TGAGTTGTTCGAATTTCTATACAAATCTAATTGTAATTA
1 TGAGTTGTTCGAATTTCTATACAAATCTAATTGTAATTA
66650 T
1 T
66651 TTATAGTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (39 bp):
TGAGTTGTTCGAATTTCTATACAAATCTAATTGTAATTA
Found at i:67074 original size:14 final size:15
Alignment explanation
Indices: 67048--67077 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
67038 ATAATTAAAG
67048 AAAAAATAGATAGAT
1 AAAAAATAGATAGAT
67063 AAAAAATA-ATAGAT
1 AAAAAATAGATAGAT
67077 A
1 A
67078 GATGAGAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (15 bp):
AAAAAATAGATAGAT
Found at i:67089 original size:11 final size:11
Alignment explanation
Indices: 67073--67106 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
67063 AAAAAATAAT
*
67073 AGATAGATGAG
1 AGATAGAAGAG
67084 AGATAGAAGAG
1 AGATAGAAGAG
67095 AGATAGAAGAG
1 AGATAGAAGAG
67106 A
1 A
67107 AAGAAACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.35, T:0.12
Consensus pattern (11 bp):
AGATAGAAGAG
Found at i:73184 original size:19 final size:20
Alignment explanation
Indices: 73160--73204 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
73150 AAATGTCTTT
73160 AAAAAAT-AATTTTAAGGA-A
1 AAAAAATCAATTTTAA-GACA
*
73179 AAAAAATCATTTTTAAGACA
1 AAAAAATCAATTTTAAGACA
73199 AAAAAA
1 AAAAAA
73205 CTAGTCTGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.24
Consensus pattern (20 bp):
AAAAAATCAATTTTAAGACA
Found at i:73504 original size:5 final size:5
Alignment explanation
Indices: 73490--73525 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
73480 TTTCATAACG
* *
73490 ATAAA ATAAA CTAAA ATGAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
73526 GTGAAATAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:73515 original size:20 final size:21
Alignment explanation
Indices: 73490--73533 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
73480 TTTCATAACG
*
73490 ATAAAATAAACTAAAA-TGAA
1 ATAAAATAAAATAAAAGTGAA
73510 ATAAAATAAAATAAAAGTGAA
1 ATAAAATAAAATAAAAGTGAA
73531 ATA
1 ATA
73534 GATGATAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.20
Consensus pattern (21 bp):
ATAAAATAAAATAAAAGTGAA
Found at i:75167 original size:3 final size:3
Alignment explanation
Indices: 75159--75208 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
75149 GTAATAAGAT
*
75159 TAA TAA TAA TAA TAA TAA T-A TAGA TAA TAA -AA TAT TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
75202 TTAA TAA
1 -TAA TAA
75209 CGTTTTTCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
2 6 0.15
3 28 0.70
4 6 0.15
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:76002 original size:91 final size:91
Alignment explanation
Indices: 75845--76017 Score: 258
Period size: 91 Copynumber: 1.9 Consensus size: 91
75835 AAGTGTTGAA
* * * *
75845 TTGAACAAGTTCTTCTCATTATGAATTTCTTCTCTCTTGTTGGATGAGTTCTTCTCATTATAAAC
1 TTGAACAAGTTATTCTCATTATGAACTTCTTCTCTCTCGTTAGATGAGTTCTTCTCATTATAAAC
75910 TCTCCACTAGAAATGTTAATGCAAGG
66 TCTCCACTAGAAATGTTAATGCAAGG
* *
75936 TTGAACAAGTTATTCTTATTATGAACTTCTTCT-TCCTCGTTAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAGTTATTCTCATTATGAACTTCTTCTCT-CTCGTTAGATGAGTTCTTCTCATTATAAA
* *
76000 CTCTTCACTGGAAATGTT
65 CTCTCCACTAGAAATGTT
76018 GATCCACCTC
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
90 1 0.01
91 72 0.99
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.42
Consensus pattern (91 bp):
TTGAACAAGTTATTCTCATTATGAACTTCTTCTCTCTCGTTAGATGAGTTCTTCTCATTATAAAC
TCTCCACTAGAAATGTTAATGCAAGG
Found at i:76160 original size:117 final size:117
Alignment explanation
Indices: 75931--76344 Score: 485
Period size: 117 Copynumber: 3.6 Consensus size: 117
75921 AATGTTAATG
* * * *
75931 CAAGGTTGAACAAGTTATTCTTATTATGAACTTCTTCTTCCTCGTTAGATGAGTTCTTCTCATTA
1 CAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAGTTCTTCTCATTA
* * *
75996 TGAACTCTTCACTGGAAATGTTGATCCACCTCATTCTGTGATAGAATCGAAC
66 TGAACTCTTCACTGAAAATGTCGATCCACCTCATTCTGTGATAGAATCAAAC
* *
76048 CAAGGTTGAACAAGTTCTTATCATTATGAACTTCTTCTTCCTCATTGGATGAGTTATTCTCATTA
1 CAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAGTTCTTCTCATTA
* * * * * *
76113 TGAACTTTTCACTGAAAATGTCGATCTATCTCTTTCTTTGATGGAATCAAAC
66 TGAACTCTTCACTGAAAATGTCGATCCACCTCATTCTGTGATAGAATCAAAC
76165 CAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAGTTCTTCTCATTA
1 CAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAGTTCTTCTCATTA
* * * * * * * * * **
76230 TGAACTCTT--CTGGAAATGTTGGTTCACCTCCTTCTGCGGTGGACT-TGA-
66 TGAACTCTTCACTGAAAATGTCGATCCACCTCATTCTGTGATAGAATCAAAC
*
76278 -AA-G--GAACAAGTTCTTCTCATTATGAA-TT-TTC-TCCT--TTAGGACGAGTTCTTCTCATT
1 CAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATT-GGATGAGTTCTTCTCATT
76334 ATGAACTCTTC
65 ATGAACTCTTC
76345 TGGAAATATT
Statistics
Matches: 263, Mismatches: 32, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
104 2 0.01
105 27 0.10
106 4 0.02
107 3 0.01
108 2 0.01
109 23 0.09
111 1 0.00
112 2 0.01
114 1 0.00
115 25 0.10
117 173 0.66
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (117 bp):
CAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAGTTCTTCTCATTA
TGAACTCTTCACTGAAAATGTCGATCCACCTCATTCTGTGATAGAATCAAAC
Found at i:76358 original size:105 final size:105
Alignment explanation
Indices: 76172--76449 Score: 423
Period size: 105 Copynumber: 2.6 Consensus size: 105
76162 AACCAAGGTT
*
76172 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATT-GGATGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAA-TT-TTC-TCCT--TTAGGACGAGTTCTTCTCATTATGAACT
* *
76236 CTTCTGGAAATGTTGGTTCACCTCCTTCTGCGGTGGACTTGAAAG
61 CTTCTGGAAATATTGGTTCACCTCCTTCTGCGGTGAACTTGAAAG
76281 GAACAAGTTCTTCTCATTATGAATTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCT
1 GAACAAGTTCTTCTCATTATGAATTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCT
** *
76346 GGAAATATTGGTTCACCTCCTTCTTTGGTGAATTTGAAAG
66 GGAAATATTGGTTCACCTCCTTCTGCGGTGAACTTGAAAG
* * *
76386 GAACAAGTTTTTCTCATTATGAACTTTCTCCTTTAAGACGAGTTCTTCTCATTATGAACTCTTC
1 GAACAAGTTCTTCTCATTATGAATTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTC
76450 ATTAGAAATG
Statistics
Matches: 159, Mismatches: 9, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
104 2 0.01
105 125 0.79
106 4 0.03
107 3 0.02
108 2 0.01
109 23 0.14
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (105 bp):
GAACAAGTTCTTCTCATTATGAATTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCT
GGAAATATTGGTTCACCTCCTTCTGCGGTGAACTTGAAAG
Found at i:76591 original size:96 final size:96
Alignment explanation
Indices: 76426--76637 Score: 336
Period size: 96 Copynumber: 2.2 Consensus size: 96
76416 CTTTAAGACG
*
76426 AGTTCTTCTCATTATGAACTCTTCATTAGAAATGTCGATCCCTCAAGCGAGGTGTCACTGATTCA
1 AGTTCTTCTCATTATGAACTCTTCATTAGAAATGTCGATCCCTCAAGCGAGGTGTCACTAATTCA
*
76491 AAATGTCGTGAATCGAAG-GATAAGTCAAACA
66 AAATGTCATGAATCG-AGTGATAAGTCAAACA
* *
76522 AGTTCTTCTCATTATGAACTCTTCATTAGAAATGTCGATCTCTCAAGCGAGGTGTCACTAATTCG
1 AGTTCTTCTCATTATGAACTCTTCATTAGAAATGTCGATCCCTCAAGCGAGGTGTCACTAATTCA
* * *
76587 AAATGTTATGAATCGAGTGATAGGTCGAACA
66 AAATGTCATGAATCGAGTGATAAGTCAAACA
*
76618 AGCTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
76638 TGTTCTCCCT
Statistics
Matches: 107, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
95 2 0.02
96 105 0.98
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (96 bp):
AGTTCTTCTCATTATGAACTCTTCATTAGAAATGTCGATCCCTCAAGCGAGGTGTCACTAATTCA
AAATGTCATGAATCGAGTGATAAGTCAAACA
Found at i:77057 original size:73 final size:73
Alignment explanation
Indices: 76953--77199 Score: 334
Period size: 73 Copynumber: 3.4 Consensus size: 73
76943 AGAGAAGCAC
* * *
76953 TCTCAAGTGGGATAAATTTTG-TTCTGAAGGAAAATTGTCTCAAGCAAGACGAAGTAGGTTTTAA
1 TCTCAAGTGAGATAAATTTTGTTTC-AAAGGAAAACTGTCTCAAGCAAGACGAAGTAGGTTTTAA
77017 GAAAAACCA
65 GAAAAACCA
*
77026 TCTCAAGTGAGATAAATTTTGTTTCAAAGGAAAACTGTCTCAAGCCAGACGAAGTAGGTTTTAAG
1 TCTCAAGTGAGATAAATTTTGTTTCAAAGGAAAACTGTCTCAAGCAAGACGAAGTAGGTTTTAAG
77091 AAAAACCA
66 AAAAACCA
** * * ** * *
77099 TCTCAAGTGAGATTCATTTTGTTTCAAGGGAAAGCTGTCTCAAGTGAGACGAACTTGGTTTTAAG
1 TCTCAAGTGAGATAAATTTTGTTTCAAAGGAAAACTGTCTCAAGCAAGACGAAGTAGGTTTTAAG
77164 AAAAACCA
66 AAAAACCA
* * *
77172 TCTCAAGGGAGACAAAACTTTGTTTCAA
1 TCTCAAGTGAGA-TAAATTTTGTTTCAA
77200 GAGAAACTGT
Statistics
Matches: 155, Mismatches: 17, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
73 141 0.91
74 14 0.09
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.28
Consensus pattern (73 bp):
TCTCAAGTGAGATAAATTTTGTTTCAAAGGAAAACTGTCTCAAGCAAGACGAAGTAGGTTTTAAG
AAAAACCA
Found at i:77067 original size:37 final size:37
Alignment explanation
Indices: 77026--77147 Score: 102
Period size: 37 Copynumber: 3.3 Consensus size: 37
77016 AGAAAAACCA
77026 TCTCAAGTGAGATAAATTTTGTTTCAAAGGAAAACTG
1 TCTCAAGTGAGATAAATTTTGTTTCAAAGGAAAACTG
** ** * ** * * **
77063 TCTCAAGCCAGACGAAGTAGGTTT-TAAGAAAAACCA
1 TCTCAAGTGAGATAAATTTTGTTTCAAAGGAAAACTG
** * *
77099 TCTCAAGTGAGATTCATTTTGTTTCAAGGGAAAGCTG
1 TCTCAAGTGAGATAAATTTTGTTTCAAAGGAAAACTG
77136 TCTCAAGTGAGA
1 TCTCAAGTGAGA
77148 CGAACTTGGT
Statistics
Matches: 59, Mismatches: 25, Indels: 2
0.69 0.29 0.02
Matches are distributed among these distances:
36 24 0.41
37 35 0.59
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (37 bp):
TCTCAAGTGAGATAAATTTTGTTTCAAAGGAAAACTG
Found at i:77184 original size:36 final size:36
Alignment explanation
Indices: 76990--77184 Score: 138
Period size: 36 Copynumber: 5.4 Consensus size: 36
76980 AGGAAAATTG
** *
76990 TCTCAAGCAAGACGAAGTAGGTTTTAAGAAAAACCA
1 TCTCAAGTGAGACGAAGTTGGTTTTAAGAAAAACCA
** * * * * **
77026 TCTCAAGTGAGATAAATTTTGTTTCAAAGGAAAACTG
1 TCTCAAGTGAGACGAAGTTGGTTT-TAAGAAAAACCA
** *
77063 TCTCAAGCCAGACGAAGTAGGTTTTAAGAAAAACCA
1 TCTCAAGTGAGACGAAGTTGGTTTTAAGAAAAACCA
*** * * * * * **
77099 TCTCAAGTGAGATTCATTTTGTTTCAAGGGAAAGCTG
1 TCTCAAGTGAGACGAAGTTGGTTTTAA-GAAAAACCA
*
77136 TCTCAAGTGAGACGAACTTGGTTTTAAGAAAAACCA
1 TCTCAAGTGAGACGAAGTTGGTTTTAAGAAAAACCA
*
77172 TCTCAAGGGAGAC
1 TCTCAAGTGAGAC
77185 AAAACTTTGT
Statistics
Matches: 111, Mismatches: 46, Indels: 4
0.69 0.29 0.02
Matches are distributed among these distances:
36 60 0.54
37 51 0.46
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (36 bp):
TCTCAAGTGAGACGAAGTTGGTTTTAAGAAAAACCA
Found at i:77224 original size:28 final size:29
Alignment explanation
Indices: 77185--77242 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 29
77175 CAAGGGAGAC
*
77185 AAAACTTTGTTTCAAGAGAAACTGTATCA
1 AAAACTTTGTTTCAAGAGAAACTATATCA
77214 AAAAC-TTGTTTCAAGAGAAACTATATCA
1 AAAACTTTGTTTCAAGAGAAACTATATCA
77242 A
1 A
77243 GGGAGACAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 23 0.82
29 5 0.18
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (29 bp):
AAAACTTTGTTTCAAGAGAAACTATATCA
Found at i:77260 original size:36 final size:36
Alignment explanation
Indices: 77214--77282 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
77204 AACTGTATCA
77214 AAAACTTGTTTCAA-GAGAAACTATATCAAGGGAGAC
1 AAAACTTGTTTCAATG-GAAACTATATCAAGGGAGAC
* * *
77250 AAAATTTGTTTCAATGGAAACTGTCTCAAGGGA
1 AAAACTTGTTTCAATGGAAACTATATCAAGGGA
77283 AACTATCTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
36 28 0.97
37 1 0.03
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (36 bp):
AAAACTTGTTTCAATGGAAACTATATCAAGGGAGAC
Found at i:77270 original size:64 final size:66
Alignment explanation
Indices: 77150--77278 Score: 183
Period size: 65 Copynumber: 2.0 Consensus size: 66
77140 AAGTGAGACG
* *
77150 AACTTGGTTTTAAGAAAAACCATCTCAAGGGAGACAAAACTTTGTTTCAAGAGAAACTGTATCAA
1 AACTTGGTTTCAAGAAAAACCATATCAAGGGAGACAAAACTTTGTTTCAAGAGAAACTGTATCAA
77215 A
66 A
* * *
77216 AACTT-GTTTCAAGAGAAACTATATCAAGGGAGACAAAA-TTTGTTTCAATG-GAAACTGTCTCA
1 AACTTGGTTTCAAGAAAAACCATATCAAGGGAGACAAAACTTTGTTTCAA-GAGAAACTGTATCA
77278 A
65 A
77279 GGGAAACTAT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
64 22 0.39
65 30 0.53
66 5 0.09
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (66 bp):
AACTTGGTTTCAAGAAAAACCATATCAAGGGAGACAAAACTTTGTTTCAAGAGAAACTGTATCAA
A
Found at i:77300 original size:51 final size:51
Alignment explanation
Indices: 77214--77333 Score: 152
Period size: 51 Copynumber: 2.3 Consensus size: 51
77204 AACTGTATCA
* *
77214 AAAACTTGTTTCAAGAGAAACTATATCAAGGGAGACAAAATTTGTTTCAATGG
1 AAAAC-TGTCTCAAGAGAAACTATATCAAGAGAGACAAAATTTGTTTCAA-GG
* * * *
77267 -AAACTGTCTCAAGGGAAACTATCTCATGAGAGACAAAATTTGTTTTAAGG
1 AAAACTGTCTCAAGAGAAACTATATCAAGAGAGACAAAATTTGTTTCAAGG
*
77317 AAAACTATCTCAAGAGA
1 AAAACTGTCTCAAGAGA
77334 GACAAAATTT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
50 2 0.03
51 52 0.90
52 4 0.07
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (51 bp):
AAAACTGTCTCAAGAGAAACTATATCAAGAGAGACAAAATTTGTTTCAAGG
Found at i:77326 original size:36 final size:36
Alignment explanation
Indices: 77275--77413 Score: 197
Period size: 36 Copynumber: 3.9 Consensus size: 36
77265 GGAAACTGTC
*
77275 TCAAGGGAAACTATCTCATGAGAGACAAAATTTGTT
1 TCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTT
* *
77311 TTAAGGAAAACTATCTCAAGAGAGACAAAATTTGTT
1 TCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTT
* ** *
77347 TCGAGGGAAACTGCCTCAAGAGAGACAAAATTTATT
1 TCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTT
* *
77383 TCAAGGGAAACTATCTCAAGCGAGATAAAAT
1 TCAAGGGAAACTATCTCAAGAGAGACAAAAT
77414 CTTCTGTTTC
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 89 1.00
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.24
Consensus pattern (36 bp):
TCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTT
Found at i:77446 original size:40 final size:40
Alignment explanation
Indices: 77404--77601 Score: 319
Period size: 40 Copynumber: 5.0 Consensus size: 40
77394 TATCTCAAGC
* *
77404 GAGATAAAATCTTCTGTTTCAATGAAAAACAATCTTGAGC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
77444 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATATTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
77484 GAGATAAAATCTTCAT-TTTCAAGGAAAAATAATCTTGAGT
1 GAGATAAAATCTTC-TGTTTCAAGGAAAAACAATCTTGAGT
*
77524 GAGATAAAATCTTCTGTTTCAA-GAAAAACCAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAA-CAATCTTGAGT
77564 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGA
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGA
77602 TCGCATTGTT
Statistics
Matches: 147, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
39 7 0.05
40 133 0.90
41 7 0.05
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (40 bp):
GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
Found at i:79273 original size:127 final size:126
Alignment explanation
Indices: 79048--79280 Score: 315
Period size: 127 Copynumber: 1.8 Consensus size: 126
79038 AGTAGAGTCA
* * *
79048 AGAGGGAGTCTACCTACCAAGGAGATGATCCAGACATTTGTCTGCTGAGGTAACATGTTGGACTC
1 AGAGAGAGTCTACCTACCAAGGAGACGATCCAGACATTTGTCTGCTGAGGTAACAAGTTGGACTC
* * * *
79113 GAGACAATTCAACGCTGAAGCCAATAGTTGAAGATCACGAATAGGAGATGAAGTAGGAGCT
66 GAGACAATTCAACGCCGAAACCAACAGTGGAAGATCACGAATAGGAGATGAAGTAGGAGCT
* * * * **
79174 AGAGAGAGTCTATCTACCAAGTAGACGATCCATG-CATTTTTCCTGTTGAGGTAGTAAGTTGGAC
1 AGAGAGAGTCTACCTACCAAGGAGACGATCCA-GACATTTGT-CTGCTGAGGTAACAAGTTGGAC
*
79238 TCGAGACAATTCGACGCCGAAACCAACAGTGGAAGATCACGAA
64 TCGAGACAATTCAACGCCGAAACCAACAGTGGAAGATCACGAA
79281 CCAGCTCGAA
Statistics
Matches: 91, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
126 34 0.37
127 57 0.63
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (126 bp):
AGAGAGAGTCTACCTACCAAGGAGACGATCCAGACATTTGTCTGCTGAGGTAACAAGTTGGACTC
GAGACAATTCAACGCCGAAACCAACAGTGGAAGATCACGAATAGGAGATGAAGTAGGAGCT
Found at i:80721 original size:6 final size:6
Alignment explanation
Indices: 80682--80751 Score: 54
Period size: 6 Copynumber: 11.7 Consensus size: 6
80672 AAAGAAAGCT
* * *
80682 AAAAG- AAAGGA AAAA-A ACAAAGAA AAAAGT AAAAGA AAAAGC AAAAGA
1 AAAAGA AAAAGA AAAAGA A-AAAG-A AAAAGA AAAAGA AAAAGA AAAAGA
* * *
80730 AAAAGC AAAAGC AAAGGA AAAA
1 AAAAGA AAAAGA AAAAGA AAAA
80752 AGACAAGAAG
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
5 6 0.12
6 39 0.76
7 4 0.08
8 2 0.04
ACGTcount: A:0.76, C:0.06, G:0.17, T:0.01
Consensus pattern (6 bp):
AAAAGA
Found at i:80727 original size:18 final size:18
Alignment explanation
Indices: 80706--80751 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
80696 AAACAAAGAA
*
80706 AAAAGTAAAAGAAAAAGC
1 AAAAGAAAAAGAAAAAGC
*
80724 AAAAGAAAAAGCAAAAGC
1 AAAAGAAAAAGAAAAAGC
*
80742 AAAGGAAAAA
1 AAAAGAAAAA
80752 AGACAAGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.74, C:0.07, G:0.17, T:0.02
Consensus pattern (18 bp):
AAAAGAAAAAGAAAAAGC
Found at i:80751 original size:12 final size:12
Alignment explanation
Indices: 80659--80738 Score: 65
Period size: 12 Copynumber: 6.7 Consensus size: 12
80649 ATATTAAATC
80659 AAAGCAAAGAGAA
1 AAAGCAAAG-GAA
**
80672 AAAG-AAAGCTA
1 AAAGCAAAGGAA
80683 AAAG-AAAGGAAA
1 AAAGCAAAGG-AA
* *
80695 AAAACAAAGAAA
1 AAAGCAAAGGAA
* *
80707 AAAGTAAAAGAA
1 AAAGCAAAGGAA
*
80719 AAAGCAAAAGAA
1 AAAGCAAAGGAA
80731 AAAGCAAA
1 AAAGCAAA
80739 AGCAAAGGAA
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
11 9 0.17
12 37 0.69
13 8 0.15
ACGTcount: A:0.74, C:0.06, G:0.17, T:0.03
Consensus pattern (12 bp):
AAAGCAAAGGAA
Found at i:81086 original size:39 final size:39
Alignment explanation
Indices: 81034--81363 Score: 436
Period size: 39 Copynumber: 8.6 Consensus size: 39
81024 CGTACATTAA
* *
81034 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAGCAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAG
81073 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAG
* * * *
81112 AAGATTTTGTCTCACTTGAGATAGTTTCCCTTGAAATAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAG
*
81151 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAG
* * ** *
81190 AAGATTTTATGTCACTTGAGATAGTTTCCCTCGAAGTAT
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAG
81229 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAG
*
81268 AAGATTTTATCTCGCTTGAGATTGTTTCCCTCGAAAC--
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAG
* * * * **
81305 AA-ATTTTGTCTCGCTTGAGAAAGTCT-CATTTAATACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAA-ACAG
*
81343 AAGA-TTTATCTCACTTGAGAT
1 AAGATTTTATCTCGCTTGAGAT
81364 TGATTTTCTT
Statistics
Matches: 256, Mismatches: 31, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
35 4 0.02
36 22 0.09
37 2 0.01
38 16 0.06
39 212 0.83
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.36
Consensus pattern (39 bp):
AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAG
Found at i:81247 original size:117 final size:117
Alignment explanation
Indices: 81034--81670 Score: 438
Period size: 117 Copynumber: 5.4 Consensus size: 117
81024 CGTACATTAA
* *
81034 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAGCAAAAGATTTTATCTCGCTTGAGATAGTT
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAAAAGATTTTATCTCACTTGAGATAGTT
* * *
81099 TCCCTCGAAACAGAAGATTTTGTCTCACTTGAGATAGTTTCCCTTGAAATAG
66 TCCCTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTTCCCTCGAAACAG
* * *
81151 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAGAAGATTTTATGTCACTTGAGATAGTT
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAAAAGATTTTATCTCACTTGAGATAGTT
** * *
81216 TCCCTCGAAGTATAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAG
66 TCCCTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTTCCCTCGAAACAG
* * * * *
81268 AAGATTTTATCTCGCTTGAGATTGTTTCCCTCGAAAC--AA-ATTTTGTCTCGCTTGAGAAAGTC
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAAAAGATTTTATCTCACTTGAGATAGTT
* ** * * **
81330 T-CATTTAATACAGAAGA-TTTATCTCACTTGAGATTGATTT-TCTTAAAACAG
66 TCCCTCGAA-ACAGAAGATTTTATCTCACTTGAGATAG-TTTCCCTCGAAACAG
* * * ** * * * ** * ** *
81381 -A-CTTCGT-T-TCGCTTGAGACAGTTTTACTCGAAAGAATATATTTCGTTTCACTCAAGATTGT
1 AAGATT-TTATCTCGCTTGAGATAGTTTCCCTCGAAACAAAAGATTTTATCTCACTTGAGATAGT
** * * * * * * * ** *
81442 TTTTCT-TAAA-A-TAGACTTTGTCTCGCTTAAGACAGTTTTTACTTGAGATTGTTTTTAAAACA
65 TTCCCTCGAAACAGAAGATTTTATCTCACTTGAGATAG--TTT-C----CCTCG------AAACA
*
81504 T
117 G
* * * * *
81505 AAGATTTTATCTCGCTTGAGATAATTTACCTCGAAACAGAATATTTTATCTCGCTTGAGATAGTT
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAAAAGATTTTATCTCACTTGAGATAGTT
* * *
81570 TCCCTCGAAACATAAGATTTTATCTCTA-TTGAGATAGTTTTCCTCGAAATAG
66 TCCCTCGAAACAGAAGATTTTATCTC-ACTTGAGATAGTTTCCCTCGAAACAG
* * * ** *
81622 AATATTTTATGTCGTTTGAGATAGTTTTGCTCGAAAAAAAAGATTTTAT
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAAAAGATTTTAT
81671 AAGAAACTAA
Statistics
Matches: 392, Mismatches: 99, Indels: 58
0.71 0.18 0.11
Matches are distributed among these distances:
110 24 0.06
111 18 0.05
112 7 0.02
113 48 0.12
114 28 0.07
115 2 0.01
117 184 0.47
118 2 0.01
123 2 0.01
124 5 0.01
125 2 0.01
126 3 0.01
127 43 0.11
128 6 0.02
129 1 0.00
130 17 0.04
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.38
Consensus pattern (117 bp):
AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAAAAGATTTTATCTCACTTGAGATAGTT
TCCCTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTTCCCTCGAAACAG
Found at i:81551 original size:39 final size:39
Alignment explanation
Indices: 81499--81670 Score: 200
Period size: 39 Copynumber: 4.4 Consensus size: 39
81489 ATTGTTTTTA
* *
81499 AAACATAAGATTTTATCTCGCTTGAGATAATTTACCTCG
1 AAACAGAAGATTTTATCTCGCTTGAGATAGTTTACCTCG
* *
81538 AAACAGAATATTTTATCTCGCTTGAGATAGTTTCCCTCG
1 AAACAGAAGATTTTATCTCGCTTGAGATAGTTTACCTCG
* ** *
81577 AAACATAAGATTTTATCTCTATTGAGATAGTTTTCCTCG
1 AAACAGAAGATTTTATCTCGCTTGAGATAGTTTACCTCG
* * * * **
81616 AAATAGAATATTTTATGTCGTTTGAGATAGTTTTGCTCG
1 AAACAGAAGATTTTATCTCGCTTGAGATAGTTTACCTCG
* *
81655 AAAAAAAAGATTTTAT
1 AAACAGAAGATTTTAT
81671 AAGAAACTAA
Statistics
Matches: 114, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 114 1.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (39 bp):
AAACAGAAGATTTTATCTCGCTTGAGATAGTTTACCTCG
Found at i:81628 original size:78 final size:78
Alignment explanation
Indices: 81499--81670 Score: 245
Period size: 78 Copynumber: 2.2 Consensus size: 78
81489 ATTGTTTTTA
*
81499 AAACATAAGATTTTATCTCGCTTGAGATAATTTACCTCGAAACAGAATATTTTATCTCGCTTGAG
1 AAACATAAGATTTTATCTCGATTGAGATAATTTACCTCGAAACAGAATATTTTATCTCGCTTGAG
81564 ATAGTTTCCCTCG
66 ATAGTTTCCCTCG
* * * * * *
81577 AAACATAAGATTTTATCTCTATTGAGATAGTTTTCCTCGAAATAGAATATTTTATGTCGTTTGAG
1 AAACATAAGATTTTATCTCGATTGAGATAATTTACCTCGAAACAGAATATTTTATCTCGCTTGAG
**
81642 ATAGTTTTGCTCG
66 ATAGTTTCCCTCG
* *
81655 AAAAAAAAGATTTTAT
1 AAACATAAGATTTTAT
81671 AAGAAACTAA
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 83 1.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (78 bp):
AAACATAAGATTTTATCTCGATTGAGATAATTTACCTCGAAACAGAATATTTTATCTCGCTTGAG
ATAGTTTCCCTCG
Found at i:81760 original size:42 final size:42
Alignment explanation
Indices: 81702--81814 Score: 133
Period size: 42 Copynumber: 2.7 Consensus size: 42
81692 AGGTTTTCTT
*
81702 GATGAGTAAG-TCCTTCGGGCCATCAATAAGTCTTTCGAGCAT
1 GATGA-TAAGATCCTTCGGGCCATCAATAAGTCTTTCGAGCAA
* * *
81744 GATGCTTAA-ATCCTTCGGGTCATCTATAAGTCTTTCGAGCAA
1 GATG-ATAAGATCCTTCGGGCCATCAATAAGTCTTTCGAGCAA
* *
81786 GATGATAAGA-CCTTCAGGCCATCCATAAG
1 GATGATAAGATCCTTCGGGCCATCAATAAG
81815 ACCTTCGGGC
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
41 19 0.32
42 41 0.68
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (42 bp):
GATGATAAGATCCTTCGGGCCATCAATAAGTCTTTCGAGCAA
Found at i:83454 original size:5 final size:5
Alignment explanation
Indices: 83444--83503 Score: 56
Period size: 5 Copynumber: 12.2 Consensus size: 5
83434 TAGGTCCTAA
*
83444 TATTT TATTT TATTT TATTT TATTT T-TTGT TGTTT T-TGTT GT-TTT
1 TATTT TATTT TATTT TATTT TATTT TATT-T TATTT TAT-TT -TATTT
83489 TATTT T-TTT TATTT T
1 TATTT TATTT TATTT T
83504 TATTAAATGT
Statistics
Matches: 49, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
4 8 0.16
5 37 0.76
6 4 0.08
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.82
Consensus pattern (5 bp):
TATTT
Found at i:83497 original size:9 final size:9
Alignment explanation
Indices: 83446--83504 Score: 55
Period size: 9 Copynumber: 6.1 Consensus size: 9
83436 GGTCCTAATA
83446 TTTTATTTT
1 TTTTATTTT
83455 ATTTTATTTT
1 -TTTTATTTT
*
83465 ATTTTTTGTTGT
1 -TTTTAT-TT-T
* *
83477 TTTTGTTGT
1 TTTTATTTT
83486 TTTTATTTT
1 TTTTATTTT
83495 TTTTATTTT
1 TTTTATTTT
83504 T
1 T
83505 ATTAAATGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
9 18 0.43
10 16 0.38
11 7 0.17
12 1 0.02
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (9 bp):
TTTTATTTT
Found at i:83504 original size:15 final size:16
Alignment explanation
Indices: 83444--83507 Score: 64
Period size: 15 Copynumber: 4.2 Consensus size: 16
83434 TAGGTCCTAA
83444 TATTTTATTTTA-TTT
1 TATTTTATTTTATTTT
*
83459 TATTTTATTTT-TTGT
1 TATTTTATTTTATTTT
* * *
83474 TGTTTT-TGTTGTTTT
1 TATTTTATTTTATTTT
83489 TATTTT-TTTTATTTT
1 TATTTTATTTTATTTT
83504 TATT
1 TATT
83508 AAATGTTTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
14 3 0.08
15 37 0.93
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.81
Consensus pattern (16 bp):
TATTTTATTTTATTTT
Found at i:87852 original size:20 final size:20
Alignment explanation
Indices: 87827--87866 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
87817 ATGCCTGCAC
87827 TTTAAAATAATATTTACTGT
1 TTTAAAATAATATTTACTGT
87847 TTTAAAATAATATTTACTGT
1 TTTAAAATAATATTTACTGT
87867 CATATATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTAAAATAATATTTACTGT
Found at i:88833 original size:14 final size:13
Alignment explanation
Indices: 88802--88833 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
88792 TGTAATTCGT
88802 TTTTCGGAAAATG
1 TTTTCGGAAAATG
88815 TTTTCTGGAAAATG
1 TTTTC-GGAAAATG
88829 TTTTC
1 TTTTC
88834 CCGTGTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.25, C:0.09, G:0.19, T:0.47
Consensus pattern (13 bp):
TTTTCGGAAAATG
Found at i:89127 original size:12 final size:12
Alignment explanation
Indices: 89098--89135 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
89088 AATTACTAAA
89098 ATATTTAA-AAT
1 ATATTTAATAAT
*
89109 ATATTTATTAAT
1 ATATTTAATAAT
*
89121 ATTTTTAATAAT
1 ATATTTAATAAT
89133 ATA
1 ATA
89136 ATATTATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATATTTAATAAT
Found at i:89144 original size:22 final size:23
Alignment explanation
Indices: 89101--89160 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 23
89091 TACTAAAATA
*
89101 TTTAA-AATATATTTATTAATATT
1 TTTAATAATATA-ATATTAATATT
89124 TTTAATAATATAATATT-ATATT
1 TTTAATAATATAATATTAATATT
*
89146 TTTAATATTATAATA
1 TTTAATAATATAATA
89161 AAATAATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 19 0.56
23 9 0.26
24 6 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTAATAATATAATATTAATATT
Found at i:89196 original size:23 final size:23
Alignment explanation
Indices: 89150--89197 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
89140 TATATTTTTA
*
89150 ATATTATAATAAAATAATTAATT
1 ATATTATAATAAAATAAATAATT
*
89173 ATATTATAATAATATAAGAT-ATT
1 ATATTATAATAAAATAA-ATAATT
89196 AT
1 AT
89198 TTTTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
ATATTATAATAAAATAAATAATT
Found at i:89212 original size:60 final size:57
Alignment explanation
Indices: 89127--89274 Score: 144
Period size: 60 Copynumber: 2.5 Consensus size: 57
89117 TAATATTTTT
*
89127 AATAATATAATATTATAT-TTTTAATATTATAATAAAATAATTA-ATTATATTATAATAAT-
1 AATAATATTAT-TTATATATTTTAATATTATAATAAAAT--TTATA-TATATT-TAATAATG
* *
89186 -ATAAGATATTATTTTTTTATTTTAATAAATATATAATAAAATTTATATATATTTAATAATG
1 AAT-A-ATATTATTTATATATTTTAAT--AT-TATAATAAAATTTATATATATTTAATAATG
89247 AATAATATTATTTATATA-TTTAATATTA
1 AATAATATTATTTATATATTTTAATATTA
89275 ATATAATAAT
Statistics
Matches: 75, Mismatches: 5, Indels: 21
0.74 0.05 0.21
Matches are distributed among these distances:
56 2 0.03
57 2 0.03
58 2 0.03
59 11 0.15
60 32 0.43
61 10 0.13
62 5 0.07
63 11 0.15
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (57 bp):
AATAATATTATTTATATATTTTAATATTATAATAAAATTTATATATATTTAATAATG
Found at i:89222 original size:55 final size:53
Alignment explanation
Indices: 89105--89232 Score: 124
Period size: 52 Copynumber: 2.4 Consensus size: 53
89095 AAAATATTTA
* *
89105 AAATATATTTATTAATATTTTTAATAATATAATATTATATTTTTAATATTATAAT
1 AAATATA-TAATTAATATTTATAATAATATAATATTATATTTTT-ATATTATAAT
*
89160 -AA-A-ATAATTAATTATATTATAATAATATAAGATATTAT-TTTTT-TATTTTAAT
1 AAATATATAATTAA-TAT-TTATAATAATAT-A-ATATTATATTTTTATATTATAAT
*
89212 AAATATATAA-TAAAATTTATA
1 AAATATATAATTAATATTTATA
89233 TATATTTAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
51 6 0.10
52 17 0.27
53 16 0.26
54 12 0.19
55 11 0.18
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (53 bp):
AAATATATAATTAATATTTATAATAATATAATATTATATTTTTATATTATAAT
Found at i:89260 original size:30 final size:30
Alignment explanation
Indices: 89128--89271 Score: 95
Period size: 30 Copynumber: 4.8 Consensus size: 30
89118 AATATTTTTA
* *
89128 ATAATATAATATTATAT-TTTTAAT-ATTAT
1 ATAATATTAT-TTATATATTTTAATAAATAT
* * * *
89157 AATAAAATAATTAATTATATTATAAT-AATAT
1 -ATAATATTATTTA-TATATTTTAATAAATAT
* *
89188 A-AGATATTATTTTTTTATTTTAATAAATAT
1 ATA-ATATTATTTATATATTTTAATAAATAT
**
89218 ATAATAAAATTTATATATATTTAAT-AATGA-
1 ATAATATTATTTATATAT-TTTAATAAAT-AT
89248 ATAATATTATTTATATA-TTTAATA
1 ATAATATTATTTATATATTTTAATA
89272 TTAATATAAT
Statistics
Matches: 90, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
28 6 0.07
29 12 0.13
30 54 0.60
31 18 0.20
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (30 bp):
ATAATATTATTTATATATTTTAATAAATAT
Found at i:89300 original size:19 final size:18
Alignment explanation
Indices: 89230--89302 Score: 58
Period size: 19 Copynumber: 3.8 Consensus size: 18
89220 AATAAAATTT
*
89230 ATATATATTTAATAATGAATA
1 ATAT-TATTTAATAAT--CTA
*
89251 ATATTATTT-ATATATTTA
1 ATATTATTTAATA-ATCTA
*
89269 ATATTAATATAATAATCTA
1 ATATT-ATTTAATAATCTA
89288 ATATTATTTTAATAA
1 ATATTA-TTTAATAA
89303 AGATATTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
18 8 0.18
19 22 0.50
20 10 0.23
21 4 0.09
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (18 bp):
ATATTATTTAATAATCTA
Found at i:89679 original size:13 final size:14
Alignment explanation
Indices: 89645--89679 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
89635 AAATGTAATT
*
89645 CATTTTACGGAAAA
1 CATTTTTCGGAAAA
89659 CATTTTTCGGAAAA
1 CATTTTTCGGAAAA
89673 C-TTTTTC
1 CATTTTTC
89680 TAGAAATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.40
Consensus pattern (14 bp):
CATTTTTCGGAAAA
Found at i:89729 original size:15 final size:15
Alignment explanation
Indices: 89687--89730 Score: 63
Period size: 14 Copynumber: 3.0 Consensus size: 15
89677 TTCTAGAAAT
89687 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
**
89702 G-AATTCAAATTCCA
1 GTAATTCATTTTCCA
89716 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
89731 AAAAACCAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:89921 original size:20 final size:20
Alignment explanation
Indices: 89898--89988 Score: 85
Period size: 21 Copynumber: 4.4 Consensus size: 20
89888 GAACTCTAAT
*
89898 TTCGCAACAGAGTTTCCAAA
1 TTCGCAACCGAGTTTCCAAA
* *
89918 TTCGCAACCCGAATTTCCCAGA
1 TTCGCAA-CCGAGTTT-CCAAA
**
89940 TTCGCAACTC-AGTTTTGAAA
1 TTCGCAAC-CGAGTTTCCAAA
*
89960 TTCGCAACGCGATTTTCCAAA
1 TTCGCAAC-CGAGTTTCCAAA
89981 TTCGCAAC
1 TTCGCAAC
89989 GCGAATATGT
Statistics
Matches: 56, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
20 18 0.32
21 26 0.46
22 12 0.21
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (20 bp):
TTCGCAACCGAGTTTCCAAA
Found at i:89934 original size:21 final size:21
Alignment explanation
Indices: 89874--89994 Score: 95
Period size: 20 Copynumber: 5.9 Consensus size: 21
89864 AAATAACCAA
* *
89874 CAAATTCACAACGCGAA-CTC
1 CAAATTCGCAACGCGAATTTC
* * * *
89894 TAATTTCGCAAC-AGAGTTTC
1 CAAATTCGCAACGCGAATTTC
*
89914 CAAATTCGCAACCCGAATTTCC
1 CAAATTCGCAACGCGAATTT-C
* * * *
89936 CAGATTCGCAACTC-AGTTTT
1 CAAATTCGCAACGCGAATTTC
* *
89956 GAAATTCGCAACGCGATTTTC
1 CAAATTCGCAACGCGAATTTC
89977 CAAATTCGCAACGCGAAT
1 CAAATTCGCAACGCGAAT
89995 ATGTAATTCG
Statistics
Matches: 76, Mismatches: 21, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
19 2 0.03
20 32 0.42
21 29 0.38
22 13 0.17
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (21 bp):
CAAATTCGCAACGCGAATTTC
Found at i:89946 original size:42 final size:41
Alignment explanation
Indices: 89898--89988 Score: 110
Period size: 42 Copynumber: 2.2 Consensus size: 41
89888 GAACTCTAAT
* *
89898 TTCGCAACAGAGTTTCCAAATTCGCAACCCGAATTTCCCAGA
1 TTCGCAACACAGTTTCCAAATTCGCAACCCG-ATTTCCCAAA
* ** * *
89940 TTCGCAACTCAGTTTTGAAATTCGCAACGCGATTTTCCAAA
1 TTCGCAACACAGTTTCCAAATTCGCAACCCGATTTCCCAAA
89981 TTCGCAAC
1 TTCGCAAC
89989 GCGAATATGT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 16 0.38
42 26 0.62
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (41 bp):
TTCGCAACACAGTTTCCAAATTCGCAACCCGATTTCCCAAA
Found at i:90569 original size:20 final size:20
Alignment explanation
Indices: 90546--90584 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
90536 TTTGAAACTT
*
90546 AAATTCGCAACACGAAAATG
1 AAATTCACAACACGAAAATG
90566 AAATTCACAACACGAAAAT
1 AAATTCACAACACGAAAAT
90585 CGCAACGCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.21, G:0.10, T:0.15
Consensus pattern (20 bp):
AAATTCACAACACGAAAATG
Found at i:90645 original size:20 final size:21
Alignment explanation
Indices: 90622--90665 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
90612 CGATTTTGAC
90622 TTTCGCGTTGCAAATTTAA-T
1 TTTCGCGTTGCAAATTTAAGT
* *
90642 TTTCGTGTTGCGAATTTAAGT
1 TTTCGCGTTGCAAATTTAAGT
90663 TTT
1 TTT
90666 AAAAACTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.20, C:0.11, G:0.18, T:0.50
Consensus pattern (21 bp):
TTTCGCGTTGCAAATTTAAGT
Found at i:92213 original size:42 final size:42
Alignment explanation
Indices: 92154--92253 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
92144 TACCCCCACT
* *
92154 TCGAGAGCCATCACCTGATCGAGCCGATTCTACAGCTCGACA
1 TCGAGAGCCATCACCTGATCGAGCCGATTATACACCTCGACA
* *
92196 TCGAGGGCCATTACCTGATCGAGCCGATTATACACCTCGACA
1 TCGAGAGCCATCACCTGATCGAGCCGATTATACACCTCGACA
*
92238 CCGAGAGCCATCACCT
1 TCGAGAGCCATCACCT
92254 ATTCCATCAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.26, C:0.34, G:0.21, T:0.19
Consensus pattern (42 bp):
TCGAGAGCCATCACCTGATCGAGCCGATTATACACCTCGACA
Found at i:92414 original size:42 final size:43
Alignment explanation
Indices: 92368--92466 Score: 107
Period size: 42 Copynumber: 2.3 Consensus size: 43
92358 GTTAGGGGAG
* *
92368 TTACGTGATGAGGTAA-GTGCTTTGCGTGATGAGGT-CGGTACT
1 TTACGTGATGAGGTAAGGTGCATGGCGTGATGAGGTACGGT-CT
* *
92410 TTACGTGACGA--CAATGGTGCATGGCGTGATGAGGTACGGTCT
1 TTACGTGATGAGGTAA-GGTGCATGGCGTGATGAGGTACGGTCT
*
92452 TTACGTGGTGAGGTA
1 TTACGTGATGAGGTA
92467 GTTGTTTTAC
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
40 2 0.04
42 38 0.84
43 4 0.09
44 1 0.02
ACGTcount: A:0.20, C:0.13, G:0.36, T:0.30
Consensus pattern (43 bp):
TTACGTGATGAGGTAAGGTGCATGGCGTGATGAGGTACGGTCT
Found at i:92458 original size:21 final size:22
Alignment explanation
Indices: 92368--92525 Score: 80
Period size: 21 Copynumber: 7.5 Consensus size: 22
92358 GTTAGGGGAG
*
92368 TTACGTGATGAGGTA-AGTGCT
1 TTACGTGATGAGGTACGGTGCT
* *
92389 TTGCGTGATGAGGT-CGGTACT
1 TTACGTGATGAGGTACGGTGCT
* ** * *
92410 TTACGTGACGA-CAATGGTGCA
1 TTACGTGATGAGGTACGGTGCT
**
92431 TGGCGTGATGAGGTACGGT-CT
1 TTACGTGATGAGGTACGGTGCT
* * *
92452 TTACGTGGTGAGGTA-GTTGTT
1 TTACGTGATGAGGTACGGTGCT
* ** *
92473 TTACGCGATGA-CAATGGTGCT
1 TTACGTGATGAGGTACGGTGCT
* *
92494 TTACGTGGTGAGGTATC--TACT
1 TTACGTGATGAGGTA-CGGTGCT
92515 TTACGTGATGA
1 TTACGTGATGA
92526 TGTAACCGCT
Statistics
Matches: 95, Mismatches: 35, Indels: 14
0.66 0.24 0.10
Matches are distributed among these distances:
20 3 0.03
21 87 0.92
22 5 0.05
ACGTcount: A:0.20, C:0.13, G:0.34, T:0.33
Consensus pattern (22 bp):
TTACGTGATGAGGTACGGTGCT
Found at i:92661 original size:4 final size:4
Alignment explanation
Indices: 92652--92701 Score: 64
Period size: 4 Copynumber: 12.5 Consensus size: 4
92642 TTTTTCGACA
* * * *
92652 TTAT TTAT TTAT TTAT TTAT TTAT TTAC TGAT TTAT GTAT TAAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
92700 TT
1 TT
92702 TTAGCGGCCC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (4 bp):
TTAT
Found at i:92875 original size:21 final size:21
Alignment explanation
Indices: 92846--92917 Score: 101
Period size: 21 Copynumber: 3.4 Consensus size: 21
92836 ATTCACCTAT
92846 CATCGTTCAAGAGGCCCTTCC
1 CATCGTTCAAGAGGCCCTTCC
* *
92867 CATCATTCAAGAGGCCCCTCC
1 CATCGTTCAAGAGGCCCTTCC
*
92888 AATCGTTCAAGAGGCCCCTT-C
1 CATCGTTCAAGAGG-CCCTTCC
92909 CATCGTTCA
1 CATCGTTCA
92918 GGATCTACCT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
21 40 0.91
22 4 0.09
ACGTcount: A:0.22, C:0.38, G:0.17, T:0.24
Consensus pattern (21 bp):
CATCGTTCAAGAGGCCCTTCC
Found at i:94587 original size:20 final size:20
Alignment explanation
Indices: 94541--94589 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
94531 TTTTGCGTGT
* *
94541 CGAATTCGATTTTCGTGTTG
1 CGAATTTGATTTTCGTATTG
94561 CGAATTTGATTTTCGTATTG
1 CGAATTTGATTTTCGTATTG
94581 CGAATTTGA
1 CGAATTTGA
94590 GTATCGCGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.20, C:0.12, G:0.22, T:0.45
Consensus pattern (20 bp):
CGAATTTGATTTTCGTATTG
Found at i:97350 original size:12 final size:12
Alignment explanation
Indices: 97329--97362 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
97319 GGTTGTGGGT
*
97329 TTTGAGATTGTG
1 TTTGATATTGTG
97341 TTTGATATTGTG
1 TTTGATATTGTG
*
97353 TTTGGTATTG
1 TTTGATATTG
97363 GAAATATGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:98254 original size:21 final size:21
Alignment explanation
Indices: 98230--98284 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
98220 TGAGATTCGC
98230 GTTGCGAATTTGAAATACCGT
1 GTTGCGAATTTGAAATACCGT
**
98251 GTTGCGAATTTGAAATTTCGT
1 GTTGCGAATTTGAAATACCGT
* *
98272 GTTGTGAACTTGA
1 GTTGCGAATTTGA
98285 CTTTATAAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.38
Consensus pattern (21 bp):
GTTGCGAATTTGAAATACCGT
Found at i:98460 original size:24 final size:24
Alignment explanation
Indices: 98428--98475 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
98418 TCAGTTATGT
98428 TTTTTGTTATGATTTTATGAATTC
1 TTTTTGTTATGATTTTATGAATTC
98452 TTTTTGTTATGATTTTATGAATTC
1 TTTTTGTTATGATTTTATGAATTC
98476 ATTAATTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.04, G:0.12, T:0.62
Consensus pattern (24 bp):
TTTTTGTTATGATTTTATGAATTC
Found at i:100254 original size:16 final size:16
Alignment explanation
Indices: 100230--100269 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
100220 TTTTATAAAG
* *
100230 TTAATATAAAATTATT
1 TTAAAATAAAATAATT
100246 TTAAAATAAAATAATT
1 TTAAAATAAAATAATT
*
100262 TTATAATA
1 TTAAAATA
100270 TTTATTTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATAAAATAATT
Found at i:101348 original size:21 final size:21
Alignment explanation
Indices: 101322--101366 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
101312 GATTTCTGGG
* *
101322 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
101343 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
101364 CAA
1 CAA
101367 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:103172 original size:99 final size:102
Alignment explanation
Indices: 103035--103236 Score: 320
Period size: 99 Copynumber: 2.0 Consensus size: 102
103025 GGGTCTACGC
*
103035 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCATTCGGGACATATA-GTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
* * * *
103100 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
65 CCCTAGCATATATATATGATTCTTAAGAAATGATATGT
103138 GGTCATTC-GGACATATA-TA-TCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATC
1 GGTCATTCGGGACATATAGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATC
*
103200 CCTAGTATATATATATGATTCTTAAGAAATGATATGT
66 CCTAGCATATATATATGATTCTTAAGAAATGATATGT
103237 AGTCCTTATG
Statistics
Matches: 93, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
99 75 0.81
100 2 0.02
102 9 0.10
103 7 0.08
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (102 bp):
GGTCATTCGGGACATATAGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATC
CCTAGCATATATATATGATTCTTAAGAAATGATATGT
Found at i:103293 original size:23 final size:23
Alignment explanation
Indices: 103260--103327 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
103250 ATTATTATAT
103260 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
103283 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
103306 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
103328 AGCTGTGGTG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:112253 original size:81 final size:81
Alignment explanation
Indices: 112113--112274 Score: 270
Period size: 81 Copynumber: 2.0 Consensus size: 81
112103 AATGGACGAC
* * *
112113 TCCAGGCATCACAATGAATCAACTGCACAGACAAGCCTCGCAGAAAGAGATTTGGGTCAGAATAC
1 TCCAGGCATCACAATAAATCAACTGCACAGACAAGCCTCGCAGAAAGAGATTCGAGTCAGAATAC
112178 TACAGACGATATTGAG
66 TACAGACGATATTGAG
* *
112194 TCCAGGCATCACAATAAATCAACTGCACAGACAAGCCTCGTAGGAAGAGATTCGAGTCAGAATAC
1 TCCAGGCATCACAATAAATCAACTGCACAGACAAGCCTCGCAGAAAGAGATTCGAGTCAGAATAC
*
112259 TACAGAGGATATTGAG
66 TACAGACGATATTGAG
112275 CTGTTGGGCT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.19
Consensus pattern (81 bp):
TCCAGGCATCACAATAAATCAACTGCACAGACAAGCCTCGCAGAAAGAGATTCGAGTCAGAATAC
TACAGACGATATTGAG
Found at i:113259 original size:31 final size:30
Alignment explanation
Indices: 113221--113279 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
113211 AAATTACATA
*
113221 TTTGATCACTCATCTATTTTTGTTTTTAAGC
1 TTTGATCACTCAACTATTTTT-TTTTTAAGC
* *
113252 TTTGATCATTTAACTATTTTTTTTTTAA
1 TTTGATCACTCAACTATTTTTTTTTTAA
113280 AATCATGTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.22, C:0.12, G:0.07, T:0.59
Consensus pattern (30 bp):
TTTGATCACTCAACTATTTTTTTTTTAAGC
Found at i:117328 original size:13 final size:13
Alignment explanation
Indices: 117305--117343 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
117295 ATCCTAATGG
117305 ACAAT-TTTGAAA
1 ACAATGTTTGAAA
*
117317 ACTATGTTTGAAA
1 ACAATGTTTGAAA
117330 ACAATGTTTGAAA
1 ACAATGTTTGAAA
117343 A
1 A
117344 TTAATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (13 bp):
ACAATGTTTGAAA
Found at i:117880 original size:22 final size:23
Alignment explanation
Indices: 117832--117888 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
117822 CGATTCCCTT
* *
117832 AAGGGGGAATCAGTACCCATTCA
1 AAGGGGGAATCGGTACCCATGCA
117855 AAGGGGGAATCGGTACCCATGC-
1 AAGGGGGAATCGGTACCCATGCA
*
117877 AAGGGGGTATCG
1 AAGGGGGAATCG
117889 ATTTCTAGCG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
22 11 0.35
23 20 0.65
ACGTcount: A:0.30, C:0.19, G:0.35, T:0.16
Consensus pattern (23 bp):
AAGGGGGAATCGGTACCCATGCA
Found at i:119222 original size:24 final size:24
Alignment explanation
Indices: 119195--119242 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
119185 TTTTTCAAAT
119195 AAAAAATTTGACAATCTTTCATAC
1 AAAAAATTTGACAATCTTTCATAC
* *
119219 AAAATATTTGACAGTCTTTCATAC
1 AAAAAATTTGACAATCTTTCATAC
119243 CAAGCTCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.35
Consensus pattern (24 bp):
AAAAAATTTGACAATCTTTCATAC
Found at i:126166 original size:6 final size:6
Alignment explanation
Indices: 126155--126191 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
126145 TAGGAATAAC
126155 CACCTT CACCTT CACCTT CACCTT CACCTT CACCTT C
1 CACCTT CACCTT CACCTT CACCTT CACCTT CACCTT C
126192 TCTTGGCTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.51, G:0.00, T:0.32
Consensus pattern (6 bp):
CACCTT
Found at i:128948 original size:18 final size:18
Alignment explanation
Indices: 128907--128946 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
128897 TTAATATTTT
128907 GTATTT-AATTTATTTAA
1 GTATTTAAATTTATTTAA
128924 GTATTTAAATTTATTTAA
1 GTATTTAAATTTATTTAA
128942 -TATTT
1 GTATTT
128947 TACTTATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (18 bp):
GTATTTAAATTTATTTAA
Found at i:131035 original size:3 final size:3
Alignment explanation
Indices: 131014--131048 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
131004 ACCTACTCAG
* *
131014 GAC GAC GAT GAC GAT GAC GAC GAC GAC GAC GAC GA
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GA
131049 TGATGGTGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.34, C:0.26, G:0.34, T:0.06
Consensus pattern (3 bp):
GAC
Found at i:135536 original size:21 final size:21
Alignment explanation
Indices: 135510--135549 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
135500 CAGAACCCCA
*
135510 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
135531 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
135550 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:135578 original size:19 final size:20
Alignment explanation
Indices: 135532--135591 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 20
135522 TTCCCCTGTG
135532 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TC-AA
135555 GGGGGAATCGGTTCCCTC-A
1 GGGGGAATCGGTTCCCTCAA
* *
135574 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
135592 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 17 0.49
21 2 0.06
22 3 0.09
23 13 0.37
ACGTcount: A:0.17, C:0.27, G:0.35, T:0.22
Consensus pattern (20 bp):
GGGGGAATCGGTTCCCTCAA
Found at i:139434 original size:22 final size:21
Alignment explanation
Indices: 139392--139431 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
139382 GAGTTTGTTT
*
139392 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
139413 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
139432 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:141545 original size:22 final size:23
Alignment explanation
Indices: 141503--141546 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
141493 TTTGAATTGG
141503 TTTGAAATACTTTGTAAAATTAT
1 TTTGAAATACTTTGTAAAATTAT
**
141526 TTTGAAATTGTTT-TAAAATTA
1 TTTGAAATACTTTGTAAAATTA
141547 AAACTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.50
Consensus pattern (23 bp):
TTTGAAATACTTTGTAAAATTAT
Found at i:146054 original size:15 final size:16
Alignment explanation
Indices: 146034--146065 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
146024 GTTCAAATAC
146034 ATGAAATAAAA-TAAA
1 ATGAAATAAAATTAAA
146049 ATGAAATAAAATTAAA
1 ATGAAATAAAATTAAA
146065 A
1 A
146066 ATTACCAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (16 bp):
ATGAAATAAAATTAAA
Found at i:152291 original size:23 final size:24
Alignment explanation
Indices: 152264--152309 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
152254 CAAAAATTTC
*
152264 TTTTTCAAAACTTTCAAT-TTTTA
1 TTTTTCAAAACTTTAAATCTTTTA
* *
152287 TTTTTGAAAGCTTTAAATCTTTT
1 TTTTTCAAAACTTTAAATCTTTT
152310 TTCAAAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.28, C:0.11, G:0.04, T:0.57
Consensus pattern (24 bp):
TTTTTCAAAACTTTAAATCTTTTA
Found at i:152351 original size:20 final size:20
Alignment explanation
Indices: 152308--152355 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
152298 TTTAAATCTT
* *
152308 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATTCCATTTTGC
152328 TTTTCAAAA-TCCATTTTAGC
1 TTTTCAAAATTCCATTTT-GC
152348 TTTT-AAAA
1 TTTTCAAAA
152356 GAAAATCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.50
Consensus pattern (20 bp):
TTTTCAAAATTCCATTTTGC
Done.