Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000793.1 Hibiscus syriacus cultivar Beakdansim tig00001535_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: 109224
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Found at i:6944 original size:31 final size:30
Alignment explanation
Indices: 6890--6949 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
6880 AATATAATTT
*
6890 TAAAAAAAATATAAAACTTAGATATTAAAA
1 TAAAAAAAATATAAAACTTAGATACTAAAA
*
6920 TAAAAGAAAA-ATAATAATTTAGATACTAAA
1 TAAAA-AAAATATAA-AACTTAGATACTAAA
6950 CATATAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (30 bp):
TAAAAAAAATATAAAACTTAGATACTAAAA
Found at i:9005 original size:2 final size:2
Alignment explanation
Indices: 8998--9045 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
8988 GAGACCTCAC
8998 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9040 TA TA TA
1 TA TA TA
9046 CTGAAACCTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13398 original size:20 final size:21
Alignment explanation
Indices: 13370--13428 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
13360 ATGGGTAGTA
* **
13370 TATCGATACTCTA-GATGTAG
1 TATCAATACTCTATGATCAAG
* *
13390 TATCAATACCCTATGGTCAAG
1 TATCAATACTCTATGATCAAG
13411 TATCAATACTCCTATGAT
1 TATCAATACT-CTATGAT
13429 TATCAGTACC
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
20 11 0.37
21 13 0.43
22 6 0.20
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (21 bp):
TATCAATACTCTATGATCAAG
Found at i:20957 original size:23 final size:23
Alignment explanation
Indices: 20931--20975 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
20921 CACCACAGCT
*
20931 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
20954 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
20976 ATATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:21193 original size:149 final size:148
Alignment explanation
Indices: 20943--21256 Score: 486
Period size: 149 Copynumber: 2.1 Consensus size: 148
20933 TATAATTGCA
*
20943 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCATATATTA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
* * * * * *
21007 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATATT
65 TTCCTTAAGAATCATATACATATACTAAGGACCAAGTATGTGCCTCA-AAGACCTCACAAATATT
* *
21072 CCACAGAATATATATATATC
129 CCAAAGAATATACATATATC
*
21092 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCCTAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
* *
21157 TCCTTAAGAATCATATACATATACTAAGGACCAAGTATGTGCCTCAAAGACCTCATAAATGTTCC
66 TCCTTAAGAATCATATACATATACTAAGGACCAAGTATGTGCCTCAAAGACCTCACAAATATTCC
*
21222 AAAGAATATACATATGTC
131 AAAGAATATACATATATC
21240 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
21257 CCCTCGACTC
Statistics
Matches: 151, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
148 48 0.32
149 103 0.68
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (148 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCATATACATATACTAAGGACCAAGTATGTGCCTCAAAGACCTCACAAATATTCC
AAAGAATATACATATATC
Found at i:22770 original size:64 final size:63
Alignment explanation
Indices: 22664--22831 Score: 203
Period size: 64 Copynumber: 2.6 Consensus size: 63
22654 CATCTTTTAA
* * * *
22664 TAAAGGTATGCATCGATGCACTACACCATGCATCGACGCATAAATCCTATTCGATG-TTTGTATT
1 TAAAGGCATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCTATTCGATGTTTTATATT
*
22728 TAATAGGGATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTATATT
1 TAA-AGGCATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCTATTCGATGTTTTATATT
** * *
22793 TAAATTCATGCATCGATGCACTGCATGTGCATCGATGCA
1 TAAAGGCATGCATCGATGCACT-CCTATGCATCGATGCA
22832 CCTTAAATAA
Statistics
Matches: 91, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
63 1 0.01
64 61 0.67
65 29 0.32
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (63 bp):
TAAAGGCATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGATGTTTTATATT
Found at i:27993 original size:64 final size:63
Alignment explanation
Indices: 27895--28055 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 63
27885 TAATGAAGGT
* *
27895 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATG-TTTGTATTT-AATGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAAT--
*
27958 GG
62 GC
*
27960 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATTC
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATGC
* *
28024 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
28056 CCTTAAACAA
Statistics
Matches: 86, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
63 1 0.01
64 58 0.67
65 24 0.28
66 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATGC
Found at i:44630 original size:20 final size:20
Alignment explanation
Indices: 44601--44643 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
44591 ATTTCACCAC
*
44601 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
44621 ATGCATCTATATGATCCTAA
1 ATGCAACTATATGATCCTAA
44641 ATG
1 ATG
44644 AGCTTTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:52370 original size:15 final size:15
Alignment explanation
Indices: 52346--52380 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
52336 AATGTCTTTT
52346 AAAAATA-TTTTAAG
1 AAAAATATTTTTAAG
52360 AAAAATCATTTTTAAG
1 AAAAAT-ATTTTTAAG
52376 AAAAA
1 AAAAA
52381 ATCTGGTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 1 0.05
16 12 0.63
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (15 bp):
AAAAATATTTTTAAG
Found at i:53019 original size:2 final size:2
Alignment explanation
Indices: 53014--53052 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
53004 CACACATGAA
53014 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53053 CATGCATGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:54423 original size:135 final size:134
Alignment explanation
Indices: 54204--54544 Score: 422
Period size: 135 Copynumber: 2.5 Consensus size: 134
54194 GGGTGACAAG
* * *
54204 ACTCCTACATAATGA-GAAGATCTAGTCAAGGGATGACA-TTGCTCATACGTGATGAAGATTTCT
1 ACTCCTACATAATGAGGAA-ATTTAGTC-AGTGATGACACTT-CTCATACGTGATGAAGAGTTCT
* * *
54267 TGGCCATCTTTAGGAAAGATGATAACTTGGTTCCTACGCGATGAAGCCTG-TTGGTTATCAAAGA
63 TGGCCATCTTTAAGAAAGATGATAACTTGGTTCCTACGCAATGAAGAC-GATTGGTTATCAAAGA
*
54331 TTGACATA
127 TTGACACA
*
54339 ACTCCTACATAATGAGGAAATTTAGTCGAGTGATGACACTTCTCACACGTGATGAAGAGTTCTTG
1 ACTCCTACATAATGAGGAAATTTAGTC-AGTGATGACACTTCTCATACGTGATGAAGAGTTCTTG
* * *
54404 GCCATCTTTAAGAATGATGATAACTTGGTTCCTACGCAATGAGGACGATTGGTTATCAAAGGTTG
65 GCCATCTTTAAGAAAGATGATAACTTGGTTCCTACGCAATGAAGACGATTGGTTATCAAAGATTG
54469 ACACA
130 ACACA
* * ** * **
54474 ACTCCTACGTGATGAGGTGA-TCAGGTCAGGTGATGACACGACTCATACGTGATGAAGAGTTC-T
1 ACTCCTACATAATGAGGAAATTTA-GTCA-GTGATGACACTTCTCATACGTGATGAAGAGTTCTT
54537 GGCCATCT
64 GGCCATCT
54545 AAAGGTGATA
Statistics
Matches: 181, Mismatches: 20, Indels: 11
0.85 0.09 0.05
Matches are distributed among these distances:
134 13 0.07
135 163 0.90
136 5 0.03
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (134 bp):
ACTCCTACATAATGAGGAAATTTAGTCAGTGATGACACTTCTCATACGTGATGAAGAGTTCTTGG
CCATCTTTAAGAAAGATGATAACTTGGTTCCTACGCAATGAAGACGATTGGTTATCAAAGATTGA
CACA
Found at i:55670 original size:15 final size:15
Alignment explanation
Indices: 55639--55678 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
55629 TGAACCCTCC
55639 TTTATTTATTTTCCTT
1 TTTATTT-TTTTCCTT
*
55655 TTTATTTTTTTTCTT
1 TTTATTTTTTTCCTT
*
55670 TTTCTTTTT
1 TTTATTTTT
55679 CTTTTTCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTATTTTTTTCCTT
Found at i:55696 original size:6 final size:6
Alignment explanation
Indices: 55662--55686 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
55652 CTTTTTATTT
55662 TTTTTC TTTTTC TTTTTC TTTTTC T
1 TTTTTC TTTTTC TTTTTC TTTTTC T
55687 CTTCTTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTC
Found at i:59201 original size:22 final size:20
Alignment explanation
Indices: 59164--59207 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
59154 GAACCTGTTA
59164 ATGGAAAAAAAATATTTAGCT
1 ATGGAAAAAAAATATTTA-CT
*
59185 ATGGAAAAAAATGTATTTACT
1 ATGGAAAAAAA-ATATTTACT
59206 AT
1 AT
59208 TTACCAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.32
Consensus pattern (20 bp):
ATGGAAAAAAAATATTTACT
Found at i:66843 original size:13 final size:13
Alignment explanation
Indices: 66825--66849 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66815 AATTAAATTG
66825 AAAAAATATATAA
1 AAAAAATATATAA
66838 AAAAAATATATA
1 AAAAAATATATA
66850 CGCATACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAAATATATAA
Found at i:67545 original size:41 final size:41
Alignment explanation
Indices: 67488--67960 Score: 582
Period size: 41 Copynumber: 11.6 Consensus size: 41
67478 AATGGTAACG
*
67488 TTAGCGGCGTTTTTATACAAACGCCGCTATAGACTCGTACT
1 TTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACT
* * * *
67529 TTAGTGGCATTTTTATACAAAATGCCTCTATAGACTCGTATT
1 TTAGTGGCGTTTTTATAC-AAACGCCGCTATAGACTCGTACT
* *
67571 TTAGTGGCGTTTTTATACAAACGCCGCTATAGACGCCTACT
1 TTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACT
* *
67612 TTAGTGGCG-TTTTATATAAACGCCGCTATAGACTTGTACT
1 TTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACT
*
67652 TTAGTGGCGTTTTTATACAAACGCCACTATAGACTCGTACT
1 TTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACT
* * * * * *
67693 TTAGTGGCATTTGTGTTTATAAACGCCGCAATAGGCTTGTACT
1 TTAGTGGCGTTT-T-TATACAAACGCCGCTATAGACTCGTACT
* * *
67736 TTAGTGGCG-TTTTGTACAAACGTCGCTATAGACTCGTACA
1 TTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACT
* * *
67776 TTAGTGGCTTTTTTATACAAACGCCTCTATAGACTCATACT
1 TTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACT
* * * * *
67817 TTAGTGGCGTTTGTGTTTACAAATGCCGCAATAGGCTTGTACT
1 TTAGTGGCGTTT-T-TATACAAACGCCGCTATAGACTCGTACT
* *
67860 TTAGTGGCGTTTTTATACGAACGCCG-TATAGACTCAT-CT
1 TTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACT
*
67899 TTAGTGGCGTTTTT-TACAAGCGCCGCTATAGACTCGT-CT
1 TTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACT
67938 TTAGTGGCGTTTTT-TACAAACGC
1 TTAGTGGCGTTTTTATACAAACGC
67961 TGCAGGTTGT
Statistics
Matches: 366, Mismatches: 58, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
38 9 0.02
39 50 0.14
40 72 0.20
41 130 0.36
42 42 0.11
43 63 0.17
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (41 bp):
TTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACT
Found at i:67768 original size:124 final size:125
Alignment explanation
Indices: 67488--67960 Score: 635
Period size: 124 Copynumber: 3.9 Consensus size: 125
67478 AATGGTAACG
* * *
67488 TTAGCGGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGCATTTTTATACAAAATG
1 TTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATAC-AAACG
* * * * ***
67553 CCTCTATAGACTCGTATTTTAGTGGCGTTT-T-TATACAAACGCCGCTATAGACGCCTACT
65 CCTCTATAGACTCGTACTTTAGTGGCGTTTGTGTTTACAAACGCCGCAATAGGCTTGTACT
* *
67612 TTAGTGGCG-TTTTATATAAACGCCGCTATAGACTTGTACTTTAGTGGCGTTTTTATACAAACGC
1 TTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGC
* * *
67676 CACTATAGACTCGTACTTTAGTGGCATTTGTGTTTATAAACGCCGCAATAGGCTTGTACT
66 CTCTATAGACTCGTACTTTAGTGGCGTTTGTGTTTACAAACGCCGCAATAGGCTTGTACT
* * * *
67736 TTAGTGGCG-TTTTGTACAAACGTCGCTATAGACTCGTACATTAGTGGCTTTTTTATACAAACGC
1 TTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGC
* *
67800 CTCTATAGACTCATACTTTAGTGGCGTTTGTGTTTACAAATGCCGCAATAGGCTTGTACT
66 CTCTATAGACTCGTACTTTAGTGGCGTTTGTGTTTACAAACGCCGCAATAGGCTTGTACT
* * *
67860 TTAGTGGCGTTTTTATACGAACGCCG-TATAGACTCAT-CTTTAGTGGCGTTTTT-TACAAGCGC
1 TTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGC
*
67922 CGCTATAGACTCGT-CTTTAGTGGCG-TT-T-TTTACAAACGC
66 CTCTATAGACTCGTACTTTAGTGGCGTTTGTGTTTACAAACGC
67961 TGCAGGTTGT
Statistics
Matches: 310, Mismatches: 36, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
118 10 0.03
119 1 0.00
120 2 0.01
121 11 0.04
122 51 0.16
123 61 0.20
124 161 0.52
125 13 0.04
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (125 bp):
TTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGC
CTCTATAGACTCGTACTTTAGTGGCGTTTGTGTTTACAAACGCCGCAATAGGCTTGTACT
Found at i:68746 original size:21 final size:21
Alignment explanation
Indices: 68703--68795 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
68693 TTTTCCCAAT
** *
68703 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTGGGAAAA
* *
68723 TCGCAACGCAAATTGGGAAAA
1 TCGCAATGCGAATTGGGAAAA
** *
68744 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTGGGAAAA
68764 TCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAATTGGGAAAA
68785 TCGCAATGCGA
1 TCGCAATGCGA
68796 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.18
Consensus pattern (21 bp):
TCGCAATGCGAATTGGGAAAA
Found at i:68809 original size:20 final size:20
Alignment explanation
Indices: 68784--68899 Score: 108
Period size: 20 Copynumber: 5.7 Consensus size: 20
68774 AATTGGGAAA
*
68784 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
68804 ATCGCAATGCGATAAT-ACAAAA
1 ATCGCAACGCGATACTGAC---T
* *
68826 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
68846 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
68866 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
68886 TTCGCAACGCGATA
1 ATCGCAACGCGATA
68900 ATACATAATC
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
22 13 0.16
23 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:68815 original size:41 final size:41
Alignment explanation
Indices: 68703--68795 Score: 168
Period size: 41 Copynumber: 2.3 Consensus size: 41
68693 TTTTCCCAAT
* *
68703 TCGCAATGCGAATAAGTAAATCGCAACGCAAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAATGCGAATTGGGAAAA
68744 TCGCAATGCGAATAAGTAAATCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAATGCGAATTGGGAAAA
68785 TCGCAATGCGA
1 TCGCAATGCGA
68796 TACTGACTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAATGCGAATTGGGAAAA
Found at i:69447 original size:20 final size:20
Alignment explanation
Indices: 69393--69441 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
69383 GCGATTCTCT
**
69393 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
69413 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
69433 TGTTGCGAT
1 CGTTGCGAT
69442 TTTCATATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:70792 original size:18 final size:18
Alignment explanation
Indices: 70771--70815 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
70761 TCCACTTCGG
*
70771 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
70789 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
70807 GAGCCATCA
1 GAGCCATCA
70816 TCTGATCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:71345 original size:19 final size:20
Alignment explanation
Indices: 71291--71357 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
71281 TAGTCTACTT
* *
71291 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
71311 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
71331 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
71350 TCGCAACG
1 TCGCAACG
71358 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:71384 original size:18 final size:18
Alignment explanation
Indices: 71330--71455 Score: 96
Period size: 14 Copynumber: 7.6 Consensus size: 18
71320 GGAAATGGCT
71330 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG-AA
*
71349 ATCGCAA--CGACA--AA
1 ATCGCAATGCGAAATGAA
*
71363 ATCGCAATGTGAAATGAA
1 ATCGCAATGCGAAATGAA
*
71381 ATCGCAA--CGACA--AA
1 ATCGCAATGCGAAATGAA
71395 ATCGCAATGCGAAATGAA
1 ATCGCAATGCGAAATGAA
*
71413 ATCGCAA--CGACA--AA
1 ATCGCAATGCGAAATGAA
**
71427 ATCGCAACCCGAAATGAAA
1 ATCGCAATGCGAAATG-AA
71446 ATCGCAATGC
1 ATCGCAATGC
71456 AATTTGTGTT
Statistics
Matches: 84, Mismatches: 10, Indels: 26
0.70 0.08 0.22
Matches are distributed among these distances:
14 27 0.32
16 18 0.21
17 4 0.05
18 18 0.21
19 17 0.20
ACGTcount: A:0.46, C:0.22, G:0.18, T:0.13
Consensus pattern (18 bp):
ATCGCAATGCGAAATGAA
Found at i:71388 original size:32 final size:33
Alignment explanation
Indices: 71330--71452 Score: 205
Period size: 32 Copynumber: 3.8 Consensus size: 33
71320 GGAAATGGCT
71330 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
71363 ATCGCAATGTGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
71395 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
**
71427 ATCGCAACCCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
71453 TGCAATTTGT
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
32 61 0.72
33 24 0.28
ACGTcount: A:0.47, C:0.22, G:0.18, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:71488 original size:14 final size:14
Alignment explanation
Indices: 71469--71526 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
71459 TTGTGTTTCG
71469 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
71483 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
71499 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
71515 CGTTGCGATTTT
1 CGTTGCGATTTT
71527 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:71505 original size:32 final size:33
Alignment explanation
Indices: 71464--71542 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
71454 GCAATTTGTG
71464 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
71496 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
71529 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
71543 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:71561 original size:20 final size:19
Alignment explanation
Indices: 71527--71582 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
71517 TTGCGATTTT
*
71527 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
71546 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
71566 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
71583 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:73469 original size:14 final size:14
Alignment explanation
Indices: 73450--73485 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
73440 ATTGTTTAAT
73450 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
73464 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
73478 TGATTTGT
1 TGATTTGT
73486 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:73611 original size:14 final size:17
Alignment explanation
Indices: 73602--73664 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 17
73592 ATCGCAACGA
73602 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAA-GCG-AAT
73621 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAA-GCG-AAT
73640 GAAAATCGCAA-CG-A-
1 GAAAATCGCAAGCGAAT
73654 GAAAATCGCAA
1 GAAAATCGCAA
73665 TGTGATTTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.25
15 1 0.02
17 2 0.05
19 30 0.68
ACGTcount: A:0.49, C:0.17, G:0.21, T:0.13
Consensus pattern (17 bp):
GAAAATCGCAAGCGAAT
Found at i:73657 original size:19 final size:19
Alignment explanation
Indices: 73602--73650 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
73592 ATCGCAACGA
73602 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
73621 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
73640 GAAAATCGCAA
1 GAAAATCGCAA
73651 CGAGAAAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.49, C:0.16, G:0.20, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:73701 original size:20 final size:20
Alignment explanation
Indices: 73676--73731 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
73666 GTGATTTTCA
*
73676 TTTCGCATTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
73696 TTTCGCGTTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
*
73716 TTTCGCGTTGCAATAG
1 TTTCGCGTTGCGATAG
73732 TCAAATGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGCCAT
Found at i:74792 original size:24 final size:24
Alignment explanation
Indices: 74765--74818 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
74755 GTATTCGAAA
* *
74765 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
74789 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
74813 TTTGAT
1 TTTGAT
74819 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:77331 original size:19 final size:19
Alignment explanation
Indices: 77309--77439 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
77299 GGAAATTACT
77309 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
77328 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
77342 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
77361 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
77375 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
77394 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
77408 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
77427 ATCGCAACGCGAA
1 ATCGCAATGCGAA
77440 TTTAATTTTG
Statistics
Matches: 84, Mismatches: 13, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
14 27 0.32
15 3 0.04
16 6 0.07
17 6 0.07
18 3 0.04
19 39 0.46
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:77351 original size:33 final size:33
Alignment explanation
Indices: 77309--77435 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
77299 GGAAATTACT
77309 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
77342 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
77374 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
77408 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
77436 CGAATTTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
32 1 0.01
33 83 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:77416 original size:66 final size:66
Alignment explanation
Indices: 77310--77442 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
77300 GAAATTACTA
*
77310 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
77375 T
66 T
*
77376 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
77441 T
66 T
77442 T
1 T
77443 AATTTTGCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:77469 original size:14 final size:14
Alignment explanation
Indices: 77450--77506 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
77440 TTTAATTTTG
77450 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
77464 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
77483 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
77497 CGTTGCGATT
1 CGTTGCGATT
77507 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:77486 original size:19 final size:19
Alignment explanation
Indices: 77464--77524 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
77454 GCGATTCTCT
77464 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
77483 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
77497 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
77516 CATTGCGAT
1 CGTTGCGAT
77525 AGTACTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 10 0.29
16 3 0.09
17 3 0.09
19 18 0.53
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:77491 original size:33 final size:33
Alignment explanation
Indices: 77435--77524 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
77425 AAATCGCAAC
* * *
77435 GCGAATTTAATTTTGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
77468 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
*
77501 GCGATTTTCATTTCGCATTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
77525 AGTACTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.44
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
Found at i:77649 original size:14 final size:14
Alignment explanation
Indices: 77630--77666 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
77620 ACATCAATTA
77630 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
77644 ACAAATCACCTTTT
1 ACAAATCAACTTTT
77658 ACAAATCAA
1 ACAAATCAA
77667 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:78654 original size:20 final size:19
Alignment explanation
Indices: 78629--78761 Score: 79
Period size: 19 Copynumber: 7.4 Consensus size: 19
78619 TGAAATGAAA
*
78629 AATCGCAACGAGATAATGAG
1 AATCGCAACGAGA-AATGAC
*
78649 AATCGCAACGCGGAAATGAC
1 AATCGCAACG-AGAAATGAC
*
78669 TATCGCAACGAG--A-G--
1 AATCGCAACGAGAAATGAC
*
78683 AATCGCAACGCGAAATGAC
1 AATCGCAACGAGAAATGAC
* * *
78702 TATCGCGATGAG--A-G--
1 AATCGCAACGAGAAATGAC
* *
78716 AATCGCAACGCGAAATGAA
1 AATCGCAACGAGAAATGAC
* *
78735 AATCGCAACGCGAAATGAA
1 AATCGCAACGAGAAATGAC
78754 AATCGCAA
1 AATCGCAA
78762 TGCGATTTTT
Statistics
Matches: 88, Mismatches: 14, Indels: 23
0.70 0.11 0.18
Matches are distributed among these distances:
14 18 0.20
16 4 0.05
17 4 0.05
19 36 0.41
20 24 0.27
21 2 0.02
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.13
Consensus pattern (19 bp):
AATCGCAACGAGAAATGAC
Found at i:78703 original size:33 final size:33
Alignment explanation
Indices: 78646--78744 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 33
78636 ACGAGATAAT
78646 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
* *
78680 GAGAATCGCAACGCGAAATGACTATCGCGATGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
78713 GAGAATCGCAACGCGAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
78745 CGAAATGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.22, G:0.26, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:78738 original size:19 final size:19
Alignment explanation
Indices: 78716--78766 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
78706 GCGATGAGAG
78716 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
78735 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
78754 AATCGCAATGCGA
1 AATCGCAACGCGA
78767 TTTTTGTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:78784 original size:19 final size:19
Alignment explanation
Indices: 78762--78828 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
78752 AAAATCGCAA
*
78762 TGCGATTTTTGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
* *
78781 TGCGTTTTTTATTTCTCGT
1 TGCGATTTTTATTTCGCGT
**
78800 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
78820 TGCGATTTT
1 TGCGATTTT
78829 CATTCTCGAA
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
19 27 0.71
20 11 0.29
ACGTcount: A:0.09, C:0.16, G:0.22, T:0.52
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:79364 original size:20 final size:20
Alignment explanation
Indices: 79339--79411 Score: 128
Period size: 20 Copynumber: 3.6 Consensus size: 20
79329 GCGCTATGTA
79339 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
79359 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
79379 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
79399 TATCTCGTTGCGA
1 AATCGCGTTGCGA
79412 TTTTGTATTA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:79445 original size:20 final size:20
Alignment explanation
Indices: 79420--79473 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
79410 GATTTTGTAT
79420 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
79440 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
79460 TATCGCATTGCGAT
1 TATCGCATTGCGAT
79474 TTTTCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:79445 original size:61 final size:61
Alignment explanation
Indices: 79360--79476 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
79350 GAAAGTCAGA
* * * * *
79360 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
* * *
79421 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
79477 TCCAATTCGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:79473 original size:40 final size:40
Alignment explanation
Indices: 79340--79472 Score: 142
Period size: 40 Copynumber: 3.3 Consensus size: 40
79330 CGCTATGTAA
* * * *
79340 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGAAAGTCAGTATCGCGTTGCGATAGTCAGT
* * * *
79380 ATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGAAAGTCAGTATCGCGTTGCGA--TAGTCAGT
* * *
79421 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGAAAGTCAGTATCGCGTTGCGATAGTCAGT
79461 ATCGCATTGCGA
1 ATCGCATTGCGA
79473 TTTTTCCAAT
Statistics
Matches: 77, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.04
40 44 0.57
41 28 0.36
42 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (40 bp):
ATCGCATTGCGAAAGTCAGTATCGCGTTGCGATAGTCAGT
Found at i:79492 original size:61 final size:61
Alignment explanation
Indices: 79360--79494 Score: 157
Period size: 61 Copynumber: 2.2 Consensus size: 61
79350 GAAAGTCAGA
* * * * * *
79360 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTAAT
* * *
79421 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT-TCCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGT--AAT
79483 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
79495 TTACTTATTC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
60 1 0.02
61 59 0.95
62 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTAAT
Found at i:79614 original size:20 final size:20
Alignment explanation
Indices: 79591--79636 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
79581 CAACGTGAAT
*
79591 TTGCGATAATAGAGATCGCG
1 TTGCGATAATAGAGATCGCA
* *
79611 TTGCGA-ATTAGCGATCGCA
1 TTGCGATAATAGAGATCGCA
79630 TTGCGAT
1 TTGCGAT
79637 TTTGTTGGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (20 bp):
TTGCGATAATAGAGATCGCA
Found at i:82256 original size:59 final size:59
Alignment explanation
Indices: 82162--82275 Score: 210
Period size: 59 Copynumber: 1.9 Consensus size: 59
82152 CGTCACTGAC
* *
82162 CATTTAAAACCATCTTGGTTAAATTTATAGTGAACTTTTTATTCATTACTGCTATGTAT
1 CATTTAAAACCATATTGGTTAAATTTATAGCGAACTTTTTATTCATTACTGCTATGTAT
82221 CATTTAAAACCATATTGGTTAAATTTATAGCGAACTTTTTATTCATTACTGCTAT
1 CATTTAAAACCATATTGGTTAAATTTATAGCGAACTTTTTATTCATTACTGCTAT
82276 TCTTTGTACA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.45
Consensus pattern (59 bp):
CATTTAAAACCATATTGGTTAAATTTATAGCGAACTTTTTATTCATTACTGCTATGTAT
Found at i:83231 original size:43 final size:43
Alignment explanation
Indices: 83126--83409 Score: 342
Period size: 43 Copynumber: 6.7 Consensus size: 43
83116 ATGGTAATTA
* *
83126 GCGGTGTTTGT-TCCAAAACCGCCGCTACAGATCTGACCTTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTACAGATCTGACCTTTT
*
83168 GC--CGTTTGTATCCAAAAACGCCGCTACAGATCTAACCTTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTACAGATCTGACCTTTT
* * *
83209 GCGGCGTTTGTATCCAAAAACGCCTCTACAGATCTGACGTTTC
1 GCGGCGTTTGTATCCAAAAACGCCGCTACAGATCTGACCTTTT
* * *
83252 GCGGCGTTTGTATACAAAATCGCCGCTATAGATCTGACCTTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTACAGATCTGACCTTTT
* * * *
83295 GTGGCGTTTGTATACAAAAACGTCGCTATAGATCTGACCTTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTACAGATCTGACCTTTT
* * * *
83338 GCGGCGTTTGT-TTCAAAAACGCTGCTATAGATCTTGACTTTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTACAGATC-TGACCTTTT
* * *
83381 GCGGCGTTTTTATTTCACAAACGCCGCTA
1 GCGGCGTTTGTA-TCCAAAAACGCCGCTA
83410 ACATTAACGG
Statistics
Matches: 212, Mismatches: 24, Indels: 9
0.87 0.10 0.04
Matches are distributed among these distances:
40 6 0.03
41 31 0.15
42 21 0.10
43 140 0.66
45 14 0.07
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (43 bp):
GCGGCGTTTGTATCCAAAAACGCCGCTACAGATCTGACCTTTT
Found at i:87887 original size:30 final size:30
Alignment explanation
Indices: 87820--87888 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
87810 CCCGAAGGAC
* * *
87820 CTATCCAGAGGTTATAAAGATCATCGGTAA
1 CTATCCATAGGTCATAAAGATCATCGGCAA
*
87850 CTATCCATAGGTCATAAAGATCCTCGGCAA
1 CTATCCATAGGTCATAAAGATCATCGGCAA
*
87880 CTGTCCATA
1 CTATCCATA
87889 TGTTCCTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (30 bp):
CTATCCATAGGTCATAAAGATCATCGGCAA
Found at i:92386 original size:30 final size:30
Alignment explanation
Indices: 92350--92406 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
92340 CCCAAAGGAC
92350 CTATCCAGAGGTCATAAAGATCCTTGGTAA
1 CTATCCAGAGGTCATAAAGATCCTTGGTAA
92380 CTATCCAGAGGTCATAAAGATCCTTGG
1 CTATCCAGAGGTCATAAAGATCCTTGG
92407 CAATTGTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTTGGTAA
Found at i:92449 original size:31 final size:31
Alignment explanation
Indices: 92411--92504 Score: 93
Period size: 31 Copynumber: 3.0 Consensus size: 31
92401 CCTTGGCAAT
*
92411 TGTCCATATGTTCCTTATAACATAGGTATAC
1 TGTCCATATGTTCCTTAAAACATAGGTATAC
* * *
92442 TGTCCATATG-T-CTCGAAAGATATAGGTAATTC
1 TGTCCATATGTTCCT-TAAA-ACATAGGT-ATAC
* *
92474 TGTCCATATGTTCCGTAGAACATAGGTATAC
1 TGTCCATATGTTCCTTAAAACATAGGTATAC
92505 CCTCGACTCT
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
29 2 0.04
30 3 0.06
31 20 0.41
32 20 0.41
33 3 0.06
34 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (31 bp):
TGTCCATATGTTCCTTAAAACATAGGTATAC
Found at i:92499 original size:32 final size:32
Alignment explanation
Indices: 92411--92501 Score: 98
Period size: 32 Copynumber: 2.9 Consensus size: 32
92401 CCTTGGCAAT
* *
92411 TGTCCATATGTTCCTTATAACATAGGT-ATAC
1 TGTCCATATGTTCCGTAAAACATAGGTAATAC
* *
92442 TGTCCATATG-TCTCG-AAAGATATAGGTAATTC
1 TGTCCATATGTTC-CGTAAA-ACATAGGTAATAC
*
92474 TGTCCATATGTTCCGTAGAACATAGGTA
1 TGTCCATATGTTCCGTAAAACATAGGTA
92502 TACCCTCGAC
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
30 4 0.08
31 18 0.37
32 23 0.47
33 4 0.08
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTCCATATGTTCCGTAAAACATAGGTAATAC
Found at i:98269 original size:59 final size:60
Alignment explanation
Indices: 98216--98351 Score: 168
Period size: 60 Copynumber: 2.3 Consensus size: 60
98206 ATGAAATTGT
* *
98216 AATATTTAAAAGTTTGGA-GACCAA-TTAGAAAGGGAGTCATAGTTTAGGGATGAAAGTAG
1 AATATTCAAAAGTTT-AATGACCAATTTAGAAAGGGAGTCATAGTTTAGGGATGAAAGTAG
* * * * * *
98275 AATGTTCAAAAGTTTAATGACTAATTTAGAATGTGAGTCATAGTTTATGGATGAAAATAG
1 AATATTCAAAAGTTTAATGACCAATTTAGAAAGGGAGTCATAGTTTAGGGATGAAAGTAG
*
98335 AATATTCAAAATTTTAA
1 AATATTCAAAAGTTTAA
98352 GGATCGATTT
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
58 1 0.02
59 18 0.28
60 46 0.71
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (60 bp):
AATATTCAAAAGTTTAATGACCAATTTAGAAAGGGAGTCATAGTTTAGGGATGAAAGTAG
Found at i:100482 original size:15 final size:15
Alignment explanation
Indices: 100462--100493 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
100452 TTTAGGATAG
100462 AATAATCAATAAAAA
1 AATAATCAATAAAAA
*
100477 AATAATTAATAAAAA
1 AATAATCAATAAAAA
100492 AA
1 AA
100494 ATCAGATTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (15 bp):
AATAATCAATAAAAA
Found at i:100916 original size:64 final size:64
Alignment explanation
Indices: 100837--100966 Score: 215
Period size: 64 Copynumber: 2.0 Consensus size: 64
100827 TATGTTATAT
* *
100837 TATTTAACCGGAAATATTATCAAGTACAATAATATATTGGGTAACGCTTATATAATAAAATAGG
1 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATAAAATAGG
* **
100901 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGG
1 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATAAAATAGG
100965 TA
1 TA
100967 GCGTTTATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (64 bp):
TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATAAAATAGG
Found at i:101343 original size:198 final size:195
Alignment explanation
Indices: 100998--101694 Score: 791
Period size: 198 Copynumber: 3.5 Consensus size: 195
100988 ATAAGTAAAT
*
100998 CGGTATATTTATACCGGTAACATTACAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
1 CGGTATATTTATACCGGTTACATTACAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
* * * * * *
101063 TTTTGGATCGATACTTTTTATAAATGTATCGACA-TTATATGCGTTCACCCTTTTGGGCGTTTAT
66 TTTGGGATCGATAC-TTTTAAAAATGTATCGACACTT-TATGCGTGCACCCGTTTGGGCATTCAT
*
101127 TCTGGA-AAAAAGTATCGACACAACATTAA-AGAGTGTCGACACATTATGTAGACATATTCTCCA
129 TCTGGACAAAAA-TATCGACACAA-ATTAACA-AGTGTCGATACATTATGTAGACATATT-TCCA
101190 TAAAAC
190 TAAAAC
** * * * *
101196 CGGTATAAATATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTTGATGTT
1 CGGTATATTTATACCGGTTACATTACAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
* * *
101261 TTTGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGAGTGCGCCCGTCT-GGCATTCATT
66 TTTGGGATCGATAC-TTTTAAAAATGTATCGACACTTTATGCGTGCACCCGTTTGGGCATTCATT
* * * *
101325 ATGGACAAAATATATCGACACAAATTTAATAAGTGTCGATACTTTATG-ATGACCTATTTTCTCA
130 CTGGACAAAA-ATATCGACACAAA-TTAACAAGTGTCGATACATTATGTA-GACATA-TTTC-CA
101389 TAAAAC
190 TAAAAC
* * ** *
101395 TGATATATTTATACCGGTTACATTGTAAATTTACATATTACATTATAATTATCGGTTTCGAT-TT
1 CGGTATATTTATACCGGTTACATTACAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
*
101459 TATTGGGATCGATACTTTTAATAATTGTATCGACACTTTATGCGTGCACCCCGTTTGGGCATTCA
66 T-TTGGGATCGATACTTTTAA-AAATGTATCGACACTTTATGCGTGCA-CCCGTTTGGGCATTCA
* * * *
101524 TTCTGGACAATAAGTATCGACACAAATTACACAAGTGTCGATACATTATGTTA-ACTTGTTTTC-
128 TTCTGGACAA-AAATATCGACACAAATTA-ACAAGTGTCGATACATTATG-TAGACATATTTCCA
101587 TAATTAAC
190 TAA--AAC
* *** * **
101595 CGGTATATTTATACTGGTTACATTGTTAATTTACCTATTACATTATCATTATTTGTTTCGATGTT
1 CGGTATATTTATACCGGTTACATTACAAATTTACCTATTACATTATAATTATCGGTTTCGATG-T
101660 TTTTGGG-TCGATACTTTTAGAAAATGTATCGACAC
65 TTTTGGGATCGATACTTTTA-AAAATGTATCGACAC
101695 ATATTTAGGT
Statistics
Matches: 427, Mismatches: 51, Indels: 40
0.82 0.10 0.08
Matches are distributed among these distances:
197 14 0.03
198 155 0.36
199 102 0.24
200 94 0.22
201 56 0.13
202 5 0.01
203 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (195 bp):
CGGTATATTTATACCGGTTACATTACAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
TTTGGGATCGATACTTTTAAAAATGTATCGACACTTTATGCGTGCACCCGTTTGGGCATTCATTC
TGGACAAAAATATCGACACAAATTAACAAGTGTCGATACATTATGTAGACATATTTCCATAAAAC
Found at i:105275 original size:21 final size:21
Alignment explanation
Indices: 105237--105276 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
105227 CATTCTGGCA
* *
105237 AAAAGTATCGACACATCATTT
1 AAAAGTATCGAAAAATCATTT
*
105258 AAAAGTGTCGAAAAATCAT
1 AAAAGTATCGAAAAATCAT
105277 GTAGACCTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.25
Consensus pattern (21 bp):
AAAAGTATCGAAAAATCATTT
Found at i:105392 original size:199 final size:197
Alignment explanation
Indices: 105040--106205 Score: 1149
Period size: 199 Copynumber: 5.8 Consensus size: 197
105030 TGTTATTTAC
* * * ** * * *
105040 AAGTATCGACACAAATCTTAAACGTG-CTGATACATTATGTTCACCAATTTTCTCATAAAACCGG
1 AAGTATCGACACACAT-TTAAAAGTGTC-GACACATTATGTAGACCTATTCTCACATAAAACCGG
* * * ** * *
105104 TACATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAATTTTGATTTTTTT
64 TATATTTATACCGGTTACATTATAAAATTACCTATTACATTATAATTATCGGTTTCGA-TGTTTT
* * * *
105169 GGGATCGATACTTTTTATAAATGTACCGACACTTTCTGCGTTCACCCTTTTGGGCATTCATTCTG
128 GGGATCGATACTGTTTAAAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTG
105234 GCAAA
193 GCAAA
* * * * ** *
105239 AAGTATCGACACATCATTTAAAAGTGTCGAAAAATCATGTAGACCTATTATGGCATAAAACCAGT
1 AAGTATCGACACA-CATTTAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAACCGGT
* * * * *
105304 ATATTTATACCGGTTATATTACAAAATTACCTATTATATTATTATTATGGGTTTCGATGTTTTAG
65 ATATTTATACCGGTTACATTATAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTTT-G
* * * * * *
105369 GGATCGATACTGTTTAAAAATGTATCGACACTTTATGGGCTCAACCTTTTTGG-ATTTTCCTTGT
129 GGATCGATACTGTTTAAAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCA--TTCATTCT
*
105433 GGACCAA
192 GG-CAAA
* * * * * ** * * *
105440 AAGTATCGATACAAATCTAAAACGTCTCGATACATTATGTTCACCTATTTTCTCAAAAAACCCGG
1 AAGTATCGACACACATTTAAAA-GTGTCGACACATTATGTAGACCTATTCTCACATAAAA-CCGG
* * * *
105505 TACATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTG
64 TATATTTATACCGGTTACATTATAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTTTG
* * * *
105570 GGATCAATACCT-TTTATAAATGTATTGACACTTTATGCGTTCACCCTTTTGGGCATTCACTCTG
129 GGATCGATA-CTGTTTAAAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTG
105634 GCAAA
193 GCAAA
* * * * * **
105639 ACGTATCGACACAACATTCAAAAGTGTCGACACATTATGTAGAACTATTCTAATATAAAACAAGT
1 AAGTATCGACAC-ACATTTAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAACCGGT
* * * * *
105704 ATATTTATACCGATTATATTACAAAATTATCTATTACATTATATTTAT-GGATTTCGATGTTTCT
65 ATATTTATACCGGTTACATTATAAAATTACCTATTACATTATAATTATCGG-TTTCGATGTTT-T
* ** * * * *
105768 GGGATCGATACTGTTTAAAAATGTATCGACACTTTATGGGAGCACCTTTTTTGG-ATTTTCCTTG
128 GGGATCGATACTGTTTAAAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCA--TTCATTC
105832 TGG-ATGAA
191 TGGCA--AA
* * * * * * * *
105840 AAGTATCGACACAAATTCTACAAGTGTCGATACATTATGTATATCTATTTTCTCAAAAAACCGGT
1 AAGTATCGACACACATT-TAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAACCGGT
* * * *
105905 TTATTTATACCGGTTACATTATAAATTTACCTATTACATTATAATTATCGGTTTAGATGTTTTTA
65 ATATTTATACCGGTTACATTATAAAATTACCTATTACATTATAATTATCGGTTTCGATG-TTTTG
* * *
105970 GGATCGATACTGTTTATAATTGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTATGG
129 GGATCGATACTGTTTAAAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTGG
106035 CAAA
194 CAAA
* * *
106039 AGGTATCGGCACAACA-TTAACAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAACTGG
1 AAGTATCGACAC-ACATTTAA-AAGTGTCGACACATTATGTAGACCTATTCTCACATAAAACCGG
* * * * * * *
106103 TATATTTATATCGGTTATATTATAAAATTACATATTACATTATATTTATTGATTTTTGATGTTTC
64 TATATTTATACCGGTTACATTATAAAATTACCTATTACATTATAATTATCG-GTTTCGATGTTT-
* *
106168 TGGGATCGATACTTTTTAAAACTGTATCGACACTTTAT
127 TGGGATCGATACTGTTTAAAAATGTATCGACACTTTAT
106206 AGGAAACTTT
Statistics
Matches: 778, Mismatches: 162, Indels: 53
0.78 0.16 0.05
Matches are distributed among these distances:
197 2 0.00
198 64 0.08
199 321 0.41
200 94 0.12
201 230 0.30
202 67 0.09
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.38
Consensus pattern (197 bp):
AAGTATCGACACACATTTAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAACCGGTA
TATTTATACCGGTTACATTATAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTTTGGG
ATCGATACTGTTTAAAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTGGCA
AA
Found at i:105780 original size:400 final size:397
Alignment explanation
Indices: 105040--106205 Score: 1644
Period size: 400 Copynumber: 2.9 Consensus size: 397
105030 TGTTATTTAC
* * *
105040 AAGTATCGACACAAATCTTAAACGTGCT-GATACATTATGTTCACCAATTTTCTCATAAAACCGG
1 AAGTATCGACACAAATCTAAAACGT-CTCGATACATTATGTTCACCTATTTTCTCAAAAAACCGG
** * *
105104 TACATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAATTTTGATTTTTTT
65 TACATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTAGA-TGTTTT
* * *
105169 GGGATCGATACTTTTTATAAATGTACCGACACTTTCTGCGTTCACCCTTTTGGGCATTCATTCTG
129 GGGATCGATACCTTTTATAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTG
* * * * * **
105234 GCAAAAAGTATCGACACATCATTTAAAAGTGTCGAAAAATCATGTAGACCTATTATGGCATAAAA
194 GCAAAAAGTATCGACACAACA-TTAAAAGTGTCGACACATTATGTAGACCTATTCTAACATAAAA
* * *
105299 CCAGTATATTTATACCGGTTATATTACAAAATTACCTATTATATTAT-TATTATGGGTTTCGATG
258 CAAGTATATTTATACCGGTTATATTACAAAATTA-CTATTACATTATAT-TTATGGATTTCGATG
**
105363 TTT-TAGGGATCGATACTGTTTAAAAATGTATCGACACTTTATGGGCTCAACC-TTTTTGGATTT
321 TTTCT-GGGATCGATACTGTTTAAAAATGTATCGACACTTTATGGGAGC-ACCTTTTTTGGATTT
105426 TCCTTGTGGACCAA
384 TCCTTGTGGACCAA
*
105440 AAGTATCGATACAAATCTAAAACGTCTCGATACATTATGTTCACCTATTTTCTCAAAAAACCCGG
1 AAGTATCGACACAAATCTAAAACGTCTCGATACATTATGTTCACCTATTTTCTCAAAAAA-CCGG
* *
105505 TACATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTG
65 TACATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTAGATGTTTTG
* * *
105570 GGATCAATACCTTTTATAAATGTATTGACACTTTATGCGTTCACCCTTTTGGGCATTCACTCTGG
130 GGATCGATACCTTTTATAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTGG
* * *
105635 CAAAACGTATCGACACAACATTCAAAAGTGTCGACACATTATGTAGAACTATTCTAATATAAAAC
195 CAAAAAGTATCGACACAACATT-AAAAGTGTCGACACATTATGTAGACCTATTCTAACATAAAAC
*
105700 AAGTATATTTATACCGATTATATTACAAAATTATCTATTACATTATATTTATGGATTTCGATGTT
259 AAGTATATTTATACCGGTTATATTACAAAATTA-CTATTACATTATATTTATGGATTTCGATGTT
105765 TCTGGGATCGATACTGTTTAAAAATGTATCGACACTTTATGGGAGCACCTTTTTTGGATTTTCCT
323 TCTGGGATCGATACTGTTTAAAAATGTATCGACACTTTATGGGAGCACCTTTTTTGGATTTTCCT
**
105830 TGTGGATGAA
388 TGTGGACCAA
* * *
105840 AAGTATCGACACAAATTCTACAA-GTGTCGATACATTATGTAT-ATCTATTTTCTCAAAAAACCG
1 AAGTATCGACACAAA-TCTAAAACGTCTCGATACATTATGT-TCACCTATTTTCTCAAAAAACCG
** *
105903 GTTTATTTATACCGGTTACATTATAAATTTACCTATTACATTATAATTATCGGTTTAGATGTTTT
64 GTACATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTAGATG-TTT
* * *
105968 TAGGATCGATA-CTGTTTATAATTGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTA
128 TGGGATCGATACCT-TTTATAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTC
* * *
106032 TGGCAAAAGGTATCGGCACAACATTAACAAGTGTCGACACATTATGTAGACCTATTCTCACATAA
192 TGGCAAAAAGTATCGACACAACATTAA-AAGTGTCGACACATTATGTAGACCTATTCTAACATAA
** * * * *
106097 AACTGGTATATTTATATCGGTTATATTATAAAATTACATATTACATTATATTTATTGATTTTTGA
256 AACAAGTATATTTATACCGGTTATATTACAAAATTAC-TATTACATTATATTTATGGA-TTTCGA
* *
106162 TGTTTCTGGGATCGATACTTTTTAAAACTGTATCGACACTTTAT
319 TGTTTCTGGGATCGATACTGTTTAAAAATGTATCGACACTTTAT
106206 AGGAAACTTT
Statistics
Matches: 690, Mismatches: 63, Indels: 25
0.89 0.08 0.03
Matches are distributed among these distances:
399 71 0.10
400 505 0.73
401 114 0.17
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.38
Consensus pattern (397 bp):
AAGTATCGACACAAATCTAAAACGTCTCGATACATTATGTTCACCTATTTTCTCAAAAAACCGGT
ACATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTAGATGTTTTGG
GATCGATACCTTTTATAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTGGC
AAAAAGTATCGACACAACATTAAAAGTGTCGACACATTATGTAGACCTATTCTAACATAAAACAA
GTATATTTATACCGGTTATATTACAAAATTACTATTACATTATATTTATGGATTTCGATGTTTCT
GGGATCGATACTGTTTAAAAATGTATCGACACTTTATGGGAGCACCTTTTTTGGATTTTCCTTGT
GGACCAA
Found at i:106247 original size:15 final size:15
Alignment explanation
Indices: 106209--106247 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
106199 ACTTTATAGG
* *
106209 AAACTTTAAGTTTGA
1 AAACTTTATGTATGA
106224 AAACTTTATGTATGA
1 AAACTTTATGTATGA
106239 AAACTTTAT
1 AAACTTTAT
106248 TGTGAAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (15 bp):
AAACTTTATGTATGA
Found at i:106532 original size:25 final size:25
Alignment explanation
Indices: 106502--106554 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
106492 GTACACAAGA
106502 AATTTATACATAACAATGTTCAAAT
1 AATTTATACATAACAATGTTCAAAT
106527 AATTTATACATAACAATGTTCAAAT
1 AATTTATACATAACAATGTTCAAAT
106552 AAT
1 AAT
106555 GTACCCACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (25 bp):
AATTTATACATAACAATGTTCAAAT
Found at i:106566 original size:25 final size:25
Alignment explanation
Indices: 106513--106567 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
106503 ATTTATACAT
* * *
106513 AACAATGTTCAAATAATTTATACAT
1 AACAATGTTCAAATAATGTACACAC
*
106538 AACAATGTTCAAATAATGTACCCAC
1 AACAATGTTCAAATAATGTACACAC
106563 AACAA
1 AACAA
106568 AAATAATCCG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.27
Consensus pattern (25 bp):
AACAATGTTCAAATAATGTACACAC
Found at i:107400 original size:18 final size:17
Alignment explanation
Indices: 107346--107394 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
107336 TTTGACCCTT
* *
107346 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
107364 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
107382 AGTGCATTCGATG
1 AGTGCA-TCGATG
107395 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:107499 original size:65 final size:65
Alignment explanation
Indices: 107365--107525 Score: 211
Period size: 65 Copynumber: 2.5 Consensus size: 65
107355 GTGCACTAAG
*
107365 AGTGCATCGATGCATCAAGTGCATTCGATG-TTTCAAAATAGCCAAAATGCATCGATGCATGGCT
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCAAAATGCATCGATGCATGGCT
* ** *
107429 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGATGCATGG-
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCAAAATGCATCGATGCATGGC
107492 T
65 T
* * *
107493 ATGTGCACCGTTGCATGAAATGCATTCGATGTT
1 A-GTGCATCGATGCATCAAATGCATTCGATGTT
107526 CAATTTAATT
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
64 31 0.36
65 52 0.60
66 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (65 bp):
AGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCAAAATGCATCGATGCATGGCT
Found at i:107564 original size:65 final size:62
Alignment explanation
Indices: 107366--107575 Score: 194
Period size: 65 Copynumber: 3.3 Consensus size: 62
107356 TGCACTAAGA
* * *
107366 GTGCATCGATGCATCAAGTGCATTCGATGTTTCA-AAATAGC-CAAAATGCATCGATGCATGGCT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-ATCTC--AGTGCATCGATGCATGG-T
*
107429 A
62 T
107430 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGGT-T
* * * **
107495 GTGCACCGTTGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTGCATCGATGCATGGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGG-T
107558 T
62 T
*
107559 GGTGCATCGGTGCATCA
1 -GTGCATCGATGCATCA
107576 CTTTGATAAA
Statistics
Matches: 124, Mismatches: 12, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
62 3 0.02
63 3 0.02
64 51 0.41
65 62 0.50
66 4 0.03
67 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (62 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGGTT
Done.