Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 79 of 211
Found at i:21328875 original size:157 final size:157
Alignment explanation
Indices: 21328674--21328990 Score: 598
Period size: 157 Copynumber: 2.0 Consensus size: 157
21328664 CAGAATACCC
*
21328674 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* *
21328739 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
21328804 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
21328831 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
21328896 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
21328961 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
21328988 TTA
1 TTA
21328991 ATATTCTCAT
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
157 156 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:21328961 original size:16 final size:16
Alignment explanation
Indices: 21328924--21328965 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
21328914 TTAATCATAT
*
21328924 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
21328940 TT-AAATATATTATAA
1 TTAAAATATATTATAA
21328955 TTAAAATATAT
1 TTAAAATATAT
21328966 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:21328972 original size:14 final size:15
Alignment explanation
Indices: 21328933--21328974 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
21328923 TTTAAACATA
*
21328933 ATTATTATTAAATAT
1 ATTATAATTAAATAT
21328948 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
21328962 A-TATAATTTAATA
1 ATTATAATTAAATA
21328975 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:21329024 original size:61 final size:61
Alignment explanation
Indices: 21328959--21329146 Score: 187
Period size: 61 Copynumber: 3.1 Consensus size: 61
21328949 TTATAATTAA
*
21328959 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTCATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTAATATGAATTTACTCAAATCAT
* * *
21329020 AATATATAATACTGTAAAATATAAA-T-TAACATAATTATTATT-AAATAT--A-TTA-T--AAT
1 AATATATAAT--T-T--AATA-AAATTCTTA-ATAATTAATATTCTAATATGAATTTACTCAAAT
* *
21329076 TAA
59 CAT
*
21329079 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTAATATGAATTTACTCAAATCAT
21329140 AATATAT
1 AATATAT
21329147 GATACTATAA
Statistics
Matches: 99, Mismatches: 12, Indels: 32
0.69 0.08 0.22
Matches are distributed among these distances:
53 3 0.03
54 16 0.16
55 6 0.06
56 1 0.01
57 2 0.02
58 3 0.03
59 15 0.15
61 22 0.22
62 3 0.03
63 2 0.02
64 1 0.01
65 6 0.06
66 16 0.16
67 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTAATATGAATTTACTCAAATCAT
Found at i:21329064 original size:120 final size:121
Alignment explanation
Indices: 21328922--21329219 Score: 494
Period size: 120 Copynumber: 2.5 Consensus size: 121
21328912 ATTTAATCAT
*
21328922 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
21328987 ATTAATATTCTCATATGAATTTACTCAAATCATAATATATAATACTGTAAAATATAA
66 ATTAATATTCTCATATGAATTTACTCAAATCATAATATATAATACTATAAAAGA-AA
21329044 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
21329107 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 ATTAATATTCTCATATGAATTTACTCAAATCATAATATATAATACTATAAAAGAAA
* * *
21329163 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
21329220 TAAAATAATT
Statistics
Matches: 167, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
119 3 0.02
120 159 0.95
121 4 0.02
122 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTCATATGAATTTACTCAAATCATAATATATAATACTATAAAAGAAA
Found at i:21329092 original size:14 final size:15
Alignment explanation
Indices: 21329043--21329094 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
21329033 GTAAAATATA
21329043 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
21329058 TATTAAATATATTAT
1 AATTAAATATATTAT
21329073 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
21329086 AATTTAATA
1 AATTAAATA
21329095 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:21331611 original size:19 final size:19
Alignment explanation
Indices: 21331587--21331699 Score: 154
Period size: 19 Copynumber: 5.8 Consensus size: 19
21331577 AATTTTTGAG
*
21331587 GATATGCAATCATAGATAT
1 GATATGCAATCTTAGATAT
**
21331606 GATATGCAATCCAAGATAT
1 GATATGCAATCTTAGATAT
21331625 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
21331646 GATATGCAATCTTAGAGAT
1 GATATGCAATCTTAGATAT
**
21331665 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
21331684 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
21331700 ATATATGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
19 65 0.79
21 17 0.21
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.34
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:21331632 original size:40 final size:40
Alignment explanation
Indices: 21331588--21331694 Score: 164
Period size: 40 Copynumber: 2.7 Consensus size: 40
21331578 ATTTTTGAGG
* *
21331588 ATATGCAATCATAGATATGATATGCAATCCAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGAGATGAT
**
21331628 ATATGCAATCTTAGATATGATATGCAATCTTAGAGATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGAGATGAT
21331668 ATAT--AATCTTAGATATGATATGCAATC
1 ATATGCAATCTTAGATATGATATGCAATC
21331695 TTAGAATATA
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
38 23 0.37
40 40 0.63
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (40 bp):
ATATGCAATCTTAGATATGATATGCAATCCAAGAGATGAT
Found at i:21333140 original size:98 final size:98
Alignment explanation
Indices: 21333007--21333203 Score: 297
Period size: 98 Copynumber: 2.0 Consensus size: 98
21332997 GTAAAAATAA
* * *
21333007 TAAATGAAATATTCCGAGTTTGAGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
21333072 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCCTGGATAAGTGGATGTTCTTTTAAAG
* * * *
21333105 TAAAGGAAATATTCTGAGTTT-AGGATTCTAGAGGAATCGTGTCCTAATGTATTGGGTGTGATTT
1 TAAAGGAAATATTCCGAGTTTGA-GATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTT
*
21333169 CTTAAATCCTGGATGAGTGGATGTTCTTTTAAAG
65 CTTAAATCCTGGATAAGTGGATGTTCTTTTAAAG
21333203 T
1 T
21333204 TTTATTGTAC
Statistics
Matches: 89, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
97 1 0.01
98 88 0.99
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.39
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCCTGGATAAGTGGATGTTCTTTTAAAG
Found at i:21337316 original size:7 final size:7
Alignment explanation
Indices: 21337290--21337342 Score: 58
Period size: 7 Copynumber: 7.9 Consensus size: 7
21337280 ATTTCAAAAA
21337290 AAAAGAGG
1 AAAA-AGG
21337298 AAAAA-G
1 AAAAAGG
21337304 -AAAAGG
1 AAAAAGG
21337310 AAAAAGG
1 AAAAAGG
*
21337317 AAAAAAG
1 AAAAAGG
21337324 AAAAA-G
1 AAAAAGG
*
21337330 AAAAAGT
1 AAAAAGG
21337337 AAAAAG
1 AAAAAG
21337343 AGAAGCCAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
5 4 0.10
6 8 0.20
7 24 0.60
8 4 0.10
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (7 bp):
AAAAAGG
Found at i:21337321 original size:20 final size:20
Alignment explanation
Indices: 21337285--21337346 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
21337275 AAAATATTTC
21337285 AAAAA-AAAAGAGG-AAAAAG
1 AAAAAGAAAA-AGGAAAAAAG
*
21337304 AAAAGGAAAAAGGAAAAAAG
1 AAAAAGAAAAAGGAAAAAAG
*
21337324 AAAAAGAAAAAGTAAAAAGAG
1 AAAAAGAAAAAGGAAAAA-AG
21337345 AA
1 AA
21337347 GCCAAGGTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 7 0.19
20 26 0.70
21 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (20 bp):
AAAAAGAAAAAGGAAAAAAG
Found at i:21337327 original size:6 final size:6
Alignment explanation
Indices: 21337297--21337343 Score: 58
Period size: 6 Copynumber: 7.3 Consensus size: 6
21337287 AAAAAAAGAG
*
21337297 GAAAAA GAAAAG GAAAAA GGAAAAAA GAAAAA GAAAAA GTAAAAA GA
1 GAAAAA GAAAAA GAAAAA -G-AAAAA GAAAAA GAAAAA G-AAAAA GA
21337344 GAAGCCAAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
6 23 0.64
7 8 0.22
8 5 0.14
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (6 bp):
GAAAAA
Found at i:21337343 original size:13 final size:13
Alignment explanation
Indices: 21337285--21337343 Score: 68
Period size: 13 Copynumber: 4.5 Consensus size: 13
21337275 AAAATATTTC
21337285 AAAAA-AAAAGAGG
1 AAAAAGAAAA-AGG
21337298 AAAAAG-AAAAGG
1 AAAAAGAAAAAGG
*
21337310 AAAAAGGAAAAAAG
1 AAAAA-GAAAAAGG
*
21337324 AAAAAGAAAAAGT
1 AAAAAGAAAAAGG
21337337 AAAAAGA
1 AAAAAGA
21337344 GAAGCCAAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
12 8 0.20
13 22 0.55
14 10 0.25
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (13 bp):
AAAAAGAAAAAGG
Found at i:21338738 original size:44 final size:44
Alignment explanation
Indices: 21338558--21338915 Score: 186
Period size: 44 Copynumber: 8.2 Consensus size: 44
21338548 AAAATTGTAG
* * * *
21338558 ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACGGTGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCGA
** * * * *
21338602 ATCTTATCTTTCGAAG-A-TAGTGGGAAGCAGATTTAAGCCA-CCA
1 ATCTTATCTCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACAGCGA
* * * * * * * ** *
21338645 AGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCGA
*
21338689 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCGA
* * *
21338734 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCAGCGA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACAGCGA
* * * *
21338778 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCA-CCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACAGCGA
* * * * * **
21338821 AGCCTTGTCTCCCTGAGCAGTAGCGGAGCAGGTTGAA-A-ATTGTA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCG-A
21338865 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAC-GCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCGA
21338909 ATCTTAT
1 ATCTTAT
21338916 ATTTCCAAGA
Statistics
Matches: 236, Mismatches: 58, Indels: 41
0.70 0.17 0.12
Matches are distributed among these distances:
42 9 0.04
43 21 0.09
44 187 0.79
45 14 0.06
46 5 0.02
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCGA
Found at i:21338856 original size:176 final size:175
Alignment explanation
Indices: 21338600--21338948 Score: 635
Period size: 176 Copynumber: 2.0 Consensus size: 175
21338590 CGAAGACGGT
*
21338600 GAATCTTATCTTTCGAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAG
1 GAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAG
*
21338665 CAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACA
66 CAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC-
*
21338730 GCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAGC
130 GCGAATCTTATATTTCCAAGATAGTGGGAAGCAGATTTAAGCCAGC
21338776 GAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAG
1 GAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAG
* * *
21338841 TAGCGGAGCAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACG
66 CAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
21338906 CGAATCTTATATTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
131 CGAATCTTATATTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
21338949 CCAAGCCTTG
Statistics
Matches: 167, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
175 43 0.26
176 124 0.74
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (175 bp):
GAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAG
CAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
CGAATCTTATATTTCCAAGATAGTGGGAAGCAGATTTAAGCCAGC
Found at i:21338944 original size:131 final size:132
Alignment explanation
Indices: 21338777--21339205 Score: 734
Period size: 132 Copynumber: 3.3 Consensus size: 132
21338767 TAAGCCAGCG
*
21338777 AATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGT
1 AATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGC
* *
21338842 AGCGGAGCAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACG-
66 AGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA
*
21338906 CG
131 CA
*
21338908 AATCTTATATTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGC
1 AATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGC
* *
21338973 AGCGGAGAAGGTTGAAAATTGTAGATCTTAACTCCCTAAGCAGTAGTGGAGCATATCGAAGACGA
66 AGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA
21339038 CA
131 CA
* *
21339040 AATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTTTTCCTGAGCAGC
1 AATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGC
* * *
21339105 AGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGA
66 AGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA
21339170 CA
131 CA
*
21339172 AATCATATCTTTCCAAGATAGTGGGAAGCAGATT
1 AATCTTATCTTTCCAAGATAGTGGGAAGCAGATT
21339206 AAAGTCGACA
Statistics
Matches: 281, Mismatches: 16, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
131 123 0.44
132 158 0.56
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (132 bp):
AATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGC
AGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA
CA
Found at i:21339205 original size:307 final size:307
Alignment explanation
Indices: 21338547--21339181 Score: 827
Period size: 307 Copynumber: 2.1 Consensus size: 307
21338537 ACAGATAAGT
* * * * * * *
21338547 GAAAATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTT
1 GAAAATTGCAAATCATATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGAATCTTATATT
*
21338612 TCGAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGG
66 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGG
* * *
21338677 TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATC
131 TTGAAAATTGTAGATCTTAACTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCAAATCTTATC
* * * *
21338742 TTTCCAAGATAGTGGGAAGCAGATTTAAGCCAGCGAATCTTATCTTTCCAAGATAGTGGGAAGCA
196 TTTCCAAGATAGTGGGAAGCAGATTTAAGCCAGCCAACCTTATCTTTCCAAGACAGTCGGAAGCA
* * * * *
21338807 GATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGCAGGTT
261 GATTGAAG-CACCAAGCCTTATCTCCCTAAGCAGTAGCGGAGCAGATC
* * *
21338855 GAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAC-GCGAATCTTATATT
1 GAAAATTGCAAATCATATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGAATCTTATATT
21338919 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGG
66 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGG
*
21338984 TTGAAAATTGTAGATCTTAACTCCCTAAGCAGTAGTGGAGCATATCGAAGAC-GACAAATCTTAT
131 TTGAAAATTGTAGATCTTAACTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAG-CAAATCTTAT
* *
21339048 CTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA-CCAAGCCTTGT-TTTCCTGAGCAGCAG-CGG
195 CTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAGCCAA-CCTTATCTTTCC-AAG-A-CAGTCGG
* * *** * *
21339110 -AGTAGGTTGAAG-ATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
256 AAGCAGATTGAAGCA-CCAAG-CCTTATCTCCCTAAGCAGTAGCGGAGCAGATC
*
21339162 GAAGA-TGACAAATCATATCT
1 GAAAATTG-CAAATCATATCT
21339182 TTCCAAGATA
Statistics
Matches: 288, Mismatches: 31, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
305 1 0.00
306 13 0.05
307 221 0.77
308 51 0.18
309 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25
Consensus pattern (307 bp):
GAAAATTGCAAATCATATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGAATCTTATATT
TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGG
TTGAAAATTGTAGATCTTAACTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCAAATCTTATC
TTTCCAAGATAGTGGGAAGCAGATTTAAGCCAGCCAACCTTATCTTTCCAAGACAGTCGGAAGCA
GATTGAAGCACCAAGCCTTATCTCCCTAAGCAGTAGCGGAGCAGATC
Found at i:21339250 original size:44 final size:44
Alignment explanation
Indices: 21339198--21339856 Score: 281
Period size: 44 Copynumber: 15.2 Consensus size: 44
21339188 GATAGTGGGA
*
21339198 AGCAGATTAAAGTCGACAATCATATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTAAAGTCGACAATCTTATCTCCCTGAAGTTGCAGTGG
* * * *
21339242 AGCGGATTAAAATC-ATAGATCTTATC-CCTCTGAAGTTGCAG-AG
1 AGCAGATTAAAGTCGACA-ATCTTATCTCC-CTGAAGTTGCAGTGG
*** * *
21339285 AGCAGATCGCA-TC--TAGTCTTATCTCCCTGAAGTTGC-GATGG
1 AGCAGATTAAAGTCGACAATCTTATCTCCCTGAAGTTGCAG-TGG
* * *
21339326 A-CAAGACT-AAGT-AAGCAAGTCTTATC-CTCCTGAAGTTACAGT-G
1 AGC-AGATTAAAGTCGA-CAA-TCTTATCTC-CCTGAAGTTGCAGTGG
* * * *
21339369 AGGCAGACTGAAGAT-GACAAATCTTATCTTCCTGAAGTTGCAGTGA
1 A-GCAGATTAAAG-TCGAC-AATCTTATCTCCCTGAAGTTGCAGTGG
*
21339415 AGCAGATTAAA-TCCGACAATCCTATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTAAAGT-CGACAATCTTATCTCCCTGAAGTTGCAGTGG
* * * * * * *
21339459 AGCGGAATAAAAT-TACAGATCTTATCTCTCTGAAGTTACAG-AG
1 AGCAGATTAAAGTCGACA-ATCTTATCTCCCTGAAGTTGCAGTGG
** * * *
21339502 AGCAGATTGCA-TC--TAGTCTTATCTCCCTGAAGTTGCGGTGG
1 AGCAGATTAAAGTCGACAATCTTATCTCCCTGAAGTTGCAGTGG
* * *
21339543 A-CAAGACT-AAGTATG-CAAGTCTTATC-CTCCTGAAGTTACAGT-G
1 AGC-AGATTAAAGT-CGACAA-TCTTATCTC-CCTGAAGTTGCAGTGG
* * * *
21339586 AGGTAGACTGAAGAT-GGCAAATCTTATCTCCCTGAAGTTGCAGTGG
1 A-GCAGATTAAAG-TCGAC-AATCTTATCTCCCTGAAGTTGCAGTGG
* * * *
21339632 AGCAGATTAAAG-CTGATAATCCTATCTCCTTGAAGTTGCAGTAG
1 AGCAGATTAAAGTC-GACAATCTTATCTCCCTGAAGTTGCAGTGG
* * * * * *
21339676 AGCGGATTAAAATC-ACAGATCTTCTCTCTCTAAAGTTGCAG-AG
1 AGCAGATTAAAGTCGACA-ATCTTATCTCCCTGAAGTTGCAGTGG
* * * * *
21339719 AGCAGATCACA-TC--TAGTCTTATCTCCCTAAAGTTGCAGTGG
1 AGCAGATTAAAGTCGACAATCTTATCTCCCTGAAGTTGCAGTGG
* * * **
21339760 AGTAGACTAAGGAAG-CAAGTCTTATC-CTCCTGAAGTTGCAGT-G
1 AGCAGATTAAAGTCGACAA-TCTTATCTC-CCTGAAGTTGCAGTGG
* * * *
21339803 AGGAAGACTGAAGAT-GGCAAGTCTTATCTCCCTGAAGTTGCAGTGG
1 A-GCAGATTAAAG-TCGACAA-TCTTATCTCCCTGAAGTTGCAGTGG
*
21339849 AGTAGATT
1 AGCAGATT
21339857 GAAGCACTAA
Statistics
Matches: 469, Mismatches: 92, Indels: 107
0.70 0.14 0.16
Matches are distributed among these distances:
39 1 0.00
40 60 0.13
41 26 0.06
42 5 0.01
43 48 0.10
44 213 0.45
45 102 0.22
46 14 0.03
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
AGCAGATTAAAGTCGACAATCTTATCTCCCTGAAGTTGCAGTGG
Found at i:21339263 original size:263 final size:263
Alignment explanation
Indices: 21338777--21339265 Score: 725
Period size: 263 Copynumber: 1.9 Consensus size: 263
21338767 TAAGCCAGCG
*
21338777 AATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGT
1 AATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGC
*
21338842 AGCGGAGCAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGC
66 AGCGGAGCAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGC
* * * * *
21338907 GAATCTTATATTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAG
131 AAATCATATATTTCCAAGATAGTGGGAAGCAGATTAAAGCCACCAAGCCATATCTCCCTGAGCAG
**
21338972 CAGCGGAGAAGGTTGAAAATTGTAGATCTTAACTCCCTAAGCAGTAGTGGAGCATATCGAAGACG
196 CAGCGGAGAAGGTTGAAAATCATAGATCTTAACTCCCTAAGCAGTAGTGGAGCATATCGAAGACG
21339037 ACA
261 ACA
* *
21339040 AATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTTTTCCTGAGCAGC
1 AATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGC
* * *
21339105 AGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGA
66 AGCGGAGCAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG-
* * *
21339170 CAAATCATATCTTTCCAAGATAGTGGGAAGCAGATTAAAGTCGA-CAA-TCATATCTCCCTGAAG
130 CAAATCATATATTTCCAAGATAGTGGGAAGCAGATTAAAG-CCACCAAGCCATATCTCCCTG-AG
** * *
21339233 TTGCAGTGGAG-CGGATT-AAAATCATAGATCTTA
193 CAGCAGCGGAGAAGG-TTGAAAATCATAGATCTTA
21339266 TCCCTCTGAA
Statistics
Matches: 201, Mismatches: 21, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
263 148 0.74
264 51 0.25
265 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (263 bp):
AATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGC
AGCGGAGCAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGC
AAATCATATATTTCCAAGATAGTGGGAAGCAGATTAAAGCCACCAAGCCATATCTCCCTGAGCAG
CAGCGGAGAAGGTTGAAAATCATAGATCTTAACTCCCTAAGCAGTAGTGGAGCATATCGAAGACG
ACA
Found at i:21339434 original size:217 final size:217
Alignment explanation
Indices: 21339196--21339856 Score: 1020
Period size: 217 Copynumber: 3.0 Consensus size: 217
21339186 AAGATAGTGG
* *
21339196 GAAGCAGATTAAAGT-CGACAATCATATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCATAG
1 GAAGCAGATTAAA-TCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAG
*
21339260 ATCTTATCCCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCGATG
65 ATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCGATG
* *
21339325 GACAAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAA
130 GACAAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGAAGACTGAAGATGGCAAA
*
21339390 TCTTATCTTCCTGAAGTTGCAGT
195 TCTTATCTCCCTGAAGTTGCAGT
* *
21339413 GAAGCAGATTAAATCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGAATAAAATTACAGA
1 GAAGCAGATTAAATCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGA
* * *
21339478 TCTTATCTCTCTGAAGTTACAGAGAGCAGATTGCATCTAGTCTTATCTCCCTGAAGTTGCGGTGG
66 TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCGATGG
* *
21339543 ACAAGACTAAGTATGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGTAGACTGAAGATGGCAAAT
131 ACAAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGAAGACTGAAGATGGCAAAT
21339608 CTTATCTCCCTGAAGTTGCAGT
196 CTTATCTCCCTGAAGTTGCAGT
* * * * * *
21339630 GGAGCAGATTAAAGCTGATAATCCTATCTCCTTGAAGTTGCAGTAGAGCGGATTAAAATCACAGA
1 GAAGCAGATTAAATCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGA
* * * *
21339695 TCTTCTCTCTCTAAAGTTGCAGAGAGCAGATCACATCTAGTCTTATCTCCCTAAAGTTGC-AGTG
66 TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCGA-TG
** * * *
21339759 GAGTAGACTAAGGAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGAAGACTGAAGATGGCAAG
130 GACAAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGAAGACTGAAGATGGCAAA
21339824 TCTTATCTCCCTGAAGTTGCAGT
195 TCTTATCTCCCTGAAGTTGCAGT
* *
21339847 GGAGTAGATT
1 GAAGCAGATT
21339857 GAAGCACTAA
Statistics
Matches: 407, Mismatches: 35, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
216 1 0.00
217 406 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (217 bp):
GAAGCAGATTAAATCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGA
TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCGATGG
ACAAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGAAGACTGAAGATGGCAAAT
CTTATCTCCCTGAAGTTGCAGT
Found at i:21340088 original size:19 final size:19
Alignment explanation
Indices: 21340064--21340136 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
21340054 AATTTTTGAG
21340064 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
21340083 GATATGCAATCTTAGAGAT
1 GATATGCAATCTTAGATAT
**
21340102 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
21340121 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
21340137 ATATATGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:21340784 original size:22 final size:22
Alignment explanation
Indices: 21340759--21340801 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
21340749 TATATATATT
21340759 TTTTTAAAAACGAATATTTTCC
1 TTTTTAAAAACGAATATTTTCC
** *
21340781 TTTTTTTAAATGAATATTTTC
1 TTTTTAAAAACGAATATTTTC
21340802 ATATATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (22 bp):
TTTTTAAAAACGAATATTTTCC
Found at i:21341569 original size:98 final size:98
Alignment explanation
Indices: 21341436--21341632 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
21341426 TTAAAAATAA
* *
21341436 TAAAGGAAATATTCCGAGTTTGAGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
21341501 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* * *
21341534 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAATGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
21341599 TTAAATCTTGGATGAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
21341632 T
1 T
21341633 TTTATTGTAC
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:21344781 original size:21 final size:20
Alignment explanation
Indices: 21344752--21344814 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
21344742 TTACTAAGAC
21344752 TTTTT-AAAAATTATAAAATA
1 TTTTTAAAAAATTATAAAA-A
*
21344772 TTTTTAAAAAAATA-AAAAA
1 TTTTTAAAAAATTATAAAAA
* *
21344791 TTATAAAAAAATTATAAAAA
1 TTTTTAAAAAATTATAAAAA
21344811 TTTT
1 TTTT
21344815 AAATGTTATA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 12 0.33
20 17 0.47
21 7 0.19
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TTTTTAAAAAATTATAAAAA
Found at i:21344799 original size:11 final size:10
Alignment explanation
Indices: 21344757--21344810 Score: 58
Period size: 11 Copynumber: 5.4 Consensus size: 10
21344747 AAGACTTTTT
21344757 AAAAATTATA
1 AAAAATTATA
* *
21344767 AAATATTTTTA
1 AAA-AATTATA
21344778 AAAAA--ATA
1 AAAAATTATA
21344786 AAAAATTATAA
1 AAAAATTAT-A
21344797 AAAAATTATA
1 AAAAATTATA
21344807 AAAA
1 AAAA
21344811 TTTTAAATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
8 7 0.19
10 11 0.31
11 18 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAAATTATA
Found at i:21350263 original size:63 final size:62
Alignment explanation
Indices: 21350094--21350252 Score: 176
Period size: 63 Copynumber: 2.5 Consensus size: 62
21350084 TAACTTACTA
* * * ** *
21350094 TTTTTGGATTAAAGG-CACACAGGCGAAGGACACGAGCATGTGTCCAGGCTGGGTAACTTAT
1 TTTTTGGATTTAAGGTCACACAGGCCAGGGACACGAGCATGTGTCCAGGCCAGGTAACTCAT
* * ** * * *
21350155 TGTTTGTATTTTGTGGTCATACAGGCTAGGGACACGAGCATGTGTCCAGGCCATGTAACTCATT
1 TTTTTGGA-TTTAAGGTCACACAGGCCAGGGACACGAGCATGTGTCCAGGCCAGGTAACTCA-T
21350219 TTTTTGGATTTAAGGTCACACAGGCCAGGGACAC
1 TTTTTGGATTTAAGGTCACACAGGCCAGGGACAC
21350253 TGACGTGTGT
Statistics
Matches: 77, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
61 6 0.08
62 4 0.05
63 60 0.78
64 7 0.09
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (62 bp):
TTTTTGGATTTAAGGTCACACAGGCCAGGGACACGAGCATGTGTCCAGGCCAGGTAACTCAT
Found at i:21354530 original size:6 final size:6
Alignment explanation
Indices: 21354497--21354570 Score: 100
Period size: 6 Copynumber: 12.8 Consensus size: 6
21354487 CAAAAATTGC
* **
21354497 ATCTGT ATCTG- ATATGT -TCTAC ATCTGT ATCTGT ATCTGT ATCTGT
1 ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT
21354543 ATCTGT ATCTGT ATCTGT ATCTGT -TCTG
1 ATCTGT ATCTGT ATCTGT ATCTGT ATCTG
21354571 CTCTTTAATT
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
5 10 0.17
6 50 0.83
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.49
Consensus pattern (6 bp):
ATCTGT
Found at i:21356132 original size:50 final size:50
Alignment explanation
Indices: 21356026--21356203 Score: 169
Period size: 50 Copynumber: 3.5 Consensus size: 50
21356016 GGGAATGAGA
* *
21356026 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATTATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGG---CATCGA-G--ATGAGAGG
* *
21356082 TCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGG
** * * * * **
21356132 TCCCCCGTAAGACCATGTTTGGGACTTGGCATGGGCA-CGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGG
* *
21356181 TCCCATGTAAAACCATATCTGGG
1 TCCCATGTAAGACCATGTCTGGG
21356204 GTATGACATT
Statistics
Matches: 103, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
49 27 0.26
50 38 0.37
52 1 0.01
53 4 0.04
56 33 0.32
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGG
Found at i:21364454 original size:13 final size:13
Alignment explanation
Indices: 21364432--21364461 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
21364422 TTTTTTCCTT
21364432 TTAATCTTCTTAG
1 TTAATCTTCTTAG
*
21364445 TTAATTTTCTTAG
1 TTAATCTTCTTAG
21364458 TTAA
1 TTAA
21364462 AATCTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.57
Consensus pattern (13 bp):
TTAATCTTCTTAG
Found at i:21366197 original size:28 final size:28
Alignment explanation
Indices: 21366157--21366211 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
21366147 CCATTGGTAG
21366157 AAGCACTTGAGCAGATGCAAAACTATGA
1 AAGCACTTGAGCAGATGCAAAACTATGA
21366185 AAGCACTTGAGCAGATGCAAAACTATG
1 AAGCACTTGAGCAGATGCAAAACTATG
21366212 TTAAATTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (28 bp):
AAGCACTTGAGCAGATGCAAAACTATGA
Found at i:21379614 original size:15 final size:15
Alignment explanation
Indices: 21379579--21379630 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
21379569 TTAAGAATTT
*
21379579 TATTAAATTAT-ATA
1 TATTTAATTATAATA
21379593 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
21379607 TATTTAATAATAAT-
1 TATTTAATTATAATA
21379621 TATGTTAATT
1 TAT-TTAATT
21379631 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:21379656 original size:120 final size:120
Alignment explanation
Indices: 21379454--21379751 Score: 492
Period size: 120 Copynumber: 2.5 Consensus size: 120
21379444 AATTATTTTA
* * * *
21379454 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTTTCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTTTATTT
*
21379518 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
21379574 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTT-TATTT
* *
21379638 TACAGTATTATATATTATGATTTGAGTAAATTCATATGAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
21379694 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
21379752 ATGATTAAAT
Statistics
Matches: 167, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
119 5 0.03
120 155 0.93
121 4 0.02
122 3 0.02
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTTTATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:21379687 original size:66 final size:62
Alignment explanation
Indices: 21379492--21379690 Score: 166
Period size: 66 Copynumber: 3.2 Consensus size: 62
21379482 AAATATATTT
* *
21379492 AATATTAATTATTTCAAATTTTCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT--AATTTTATTTTA-AGTATTATATATTATGATTTGAGTAAATTCATAT-A
21379557 G
62 G
* * * **
21379558 AATATTAATTATTAAGAATTTTA--TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATATTT
1 AATATTAATTATT--TAATTTTATTTTAAGTATTATATATTATGATTTGAGTAAATTCATATAG
*
21379612 AATAATAATTATGTTAATTTATATTTTACAGTATTATATATTATGATTTGAGTAAATTCATATGA
1 AATATTAATTAT-TTAATTT-TATTTTA-AGTATTATATATTATGATTTGAGTAAATTCATAT-A
21379677 G
62 G
21379678 AATATTAATTATT
1 AATATTAATTATT
21379691 AAGAATTTTA
Statistics
Matches: 103, Mismatches: 14, Indels: 33
0.69 0.09 0.22
Matches are distributed among these distances:
53 5 0.05
54 13 0.13
55 5 0.05
56 4 0.04
57 3 0.03
58 1 0.01
59 11 0.11
60 8 0.08
61 10 0.10
62 1 0.01
63 3 0.03
64 4 0.04
65 5 0.05
66 30 0.29
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.50
Consensus pattern (62 bp):
AATATTAATTATTTAATTTTATTTTAAGTATTATATATTATGATTTGAGTAAATTCATATAG
Found at i:21379729 original size:16 final size:16
Alignment explanation
Indices: 21379708--21379749 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
21379698 TTATTAAATT
*
21379708 ATATATTTTAATTATA
1 ATATATTTTAATAATA
21379724 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
21379739 AT-TATGTTTAA
1 ATATAT-TTTAA
21379750 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:21379734 original size:15 final size:15
Alignment explanation
Indices: 21379699--21379740 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
21379689 TTAAGAATTT
*
21379699 TATTAAATTAT-ATA
1 TATTTAATTATAATA
21379713 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
21379727 TATTTAATAATAAT
1 TATTTAATTATAAT
21379741 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:21379861 original size:157 final size:157
Alignment explanation
Indices: 21379683--21379999 Score: 598
Period size: 157 Copynumber: 2.0 Consensus size: 157
21379673 ATGAGAATAT
*
21379683 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
21379748 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
21379813 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
21379840 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
21379905 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
21379970 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
21379997 TAA
1 TAA
21380000 GGGTATTCTG
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
157 156 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:21379880 original size:18 final size:17
Alignment explanation
Indices: 21379852--21379886 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21379842 ATTATTAAGA
*
21379852 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
21379869 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
21379887 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:21379920 original size:75 final size:75
Alignment explanation
Indices: 21379684--21379922 Score: 191
Period size: 75 Copynumber: 3.1 Consensus size: 75
21379674 TGAGAATATT
*
21379684 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
21379749 AATATGATTA
66 AATATGATTA
* ** * * * * *
21379759 AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT
1 AATTATTAAGAATT-TTATT-A-AA--TTA-TATATTTTAATTAA-AATATATTTAATAATAATT
**** * * *
21379821 -TACCAAAACAAAT-TTCTGCT
59 AT-GTTTAA-ATATGAT-T--A
21379841 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
21379906 AATATGATTA
66 AATATGATTA
21379916 AATTATT
1 AATTATT
21379923 TATTATTGAT
Statistics
Matches: 116, Mismatches: 31, Indels: 34
0.64 0.17 0.19
Matches are distributed among these distances:
75 22 0.19
76 16 0.14
77 8 0.07
78 16 0.14
79 16 0.14
80 8 0.07
81 15 0.13
82 15 0.13
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:21380077 original size:39 final size:40
Alignment explanation
Indices: 21380034--21380138 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
21380024 TTCCATTATG
21380034 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
21380073 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
21380118 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
21380139 ACACATCTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:21380132 original size:45 final size:44
Alignment explanation
Indices: 21380032--21380141 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
21380022 TTTTCCATTA
21380032 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
21380071 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
21380116 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
21380142 CATCTATTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:21380141 original size:16 final size:16
Alignment explanation
Indices: 21380120--21380189 Score: 86
Period size: 16 Copynumber: 4.4 Consensus size: 16
21380110 TTGATTTGCT
*
21380120 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
* *
21380136 ATTACACATCTATTCC
1 ATTACACCTCTAATCC
21380152 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
* *
21380168 AATACACTTCTAATCC
1 ATTACACCTCTAATCC
*
21380184 AATACA
1 ATTACA
21380190 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.34, C:0.33, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:21380161 original size:32 final size:32
Alignment explanation
Indices: 21380120--21380189 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
21380110 TTGATTTGCT
* * *
21380120 ATTACACCTCTATTCCATTACACATCTATTCC
1 ATTACACCTCTAATCCAATACACATCTAATCC
*
21380152 ATTACACCTCTAATCCAATACACTTCTAATCC
1 ATTACACCTCTAATCCAATACACATCTAATCC
*
21380184 AATACA
1 ATTACA
21380190 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.34, C:0.33, G:0.00, T:0.33
Consensus pattern (32 bp):
ATTACACCTCTAATCCAATACACATCTAATCC
Found at i:21382672 original size:46 final size:46
Alignment explanation
Indices: 21382559--21382683 Score: 133
Period size: 46 Copynumber: 2.7 Consensus size: 46
21382549 AACCCAAACC
* * * ** * *
21382559 TGTATTCTGGTGTCCGCAACATATACAAGAGCTCGGAACCTATTCT
1 TGTATTCTCGAGTCCACAACATATGTAGGAGCTCGGAACCTATTCA
** * * * *
21382605 TGTATTCTTAAGTTCATAACATATGTAGGAGTTCGGAACTTATTCA
1 TGTATTCTCGAGTCCACAACATATGTAGGAGCTCGGAACCTATTCA
21382651 TGTATTCTCGAGTCCACAACATATGTAGGAGCT
1 TGTATTCTCGAGTCCACAACATATGTAGGAGCT
21382684 TAAAACCTGG
Statistics
Matches: 62, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (46 bp):
TGTATTCTCGAGTCCACAACATATGTAGGAGCTCGGAACCTATTCA
Found at i:21383575 original size:17 final size:18
Alignment explanation
Indices: 21383547--21383581 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
21383537 CTTTGTTTTT
21383547 ATTTTTATTTATTTTAAC
1 ATTTTTATTTATTTTAAC
21383565 ATTTTTA-TTATTTTAAC
1 ATTTTTATTTATTTTAAC
21383582 TTAGTTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTTTATTTATTTTAAC
Found at i:21385229 original size:13 final size:13
Alignment explanation
Indices: 21385187--21385242 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
21385177 TAGATTCTTC
*
21385187 CTAAATATTATTA
1 CTAAATATTATCA
*
21385200 C-AAA-ATAATC-
1 CTAAATATTATCA
21385210 CTAAATATTATCA
1 CTAAATATTATCA
*
21385223 TTAAATATTATCA
1 CTAAATATTATCA
21385236 CTAAATA
1 CTAAATA
21385243 ATTTAAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 1 0.03
11 7 0.20
12 8 0.23
13 19 0.54
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:21392571 original size:27 final size:27
Alignment explanation
Indices: 21392537--21393012 Score: 374
Period size: 27 Copynumber: 17.7 Consensus size: 27
21392527 GCCCAACATA
*
21392537 CCCCGAAGGGTAAAATGATCAAAATAC
1 CCCCGAAGGGTAAAATGATCGAAATAC
* * *
21392564 CCCCGAAGGGTAACATGA-CTAAAATAA
1 CCCCGAAGGGTAAAATGATC-GAAATAC
* *
21392591 CCCCGAAGGGTAAAATAACCGAAATAC
1 CCCCGAAGGGTAAAATGATCGAAATAC
* * *
21392618 CCCCGAATGTTAAAATGATTGAAATAC
1 CCCCGAAGGGTAAAATGATCGAAATAC
* * * *
21392645 CCCCAAAAGGTAAAAT-AACTAAAATAC
1 CCCCGAAGGGTAAAATGATC-GAAATAC
*** * *
21392672 CCTTAAAGGGTAAAATGACCAAAATAC
1 CCCCGAAGGGTAAAATGATCGAAATAC
*
21392699 CCCCGAATGGTAAAATGA-CTGAAATAC
1 CCCCGAAGGGTAAAATGATC-GAAATAC
*
21392726 CCCCGAAAGGTAAAATGATCGAAATAC
1 CCCCGAAGGGTAAAATGATCGAAATAC
** **
21392753 CTTC-TTGGGTAAAATGA-CTGAAATAC
1 CCCCGAAGGGTAAAATGATC-GAAATAC
** * *
21392779 CTTCGAAGGGTAAAATGACCAAAATAC
1 CCCCGAAGGGTAAAATGATCGAAATAC
* *
21392806 CCCCAAAGGGTAAAATGATTGAAATAC
1 CCCCGAAGGGTAAAATGATCGAAATAC
* * *
21392833 CCCCGAAAGGTAAAAT-AACTAAAATAC
1 CCCCGAAGGGTAAAATGATC-GAAATAC
* * *
21392860 CCTCGAAAGATAAAATGATCGAAATA-
1 CCCCGAAGGGTAAAATGATCGAAATAC
21392886 CCCCGAAAGGGTAAAATGATCGAAATAC
1 CCCCG-AAGGGTAAAATGATCGAAATAC
* * * * *
21392914 CCCCAAAGGTTAAAACGATTGAAATAA
1 CCCCGAAGGGTAAAATGATCGAAATAC
** * * *
21392941 CCCTAAAGGGTAAAATAACCAAAATAC
1 CCCCGAAGGGTAAAATGATCGAAATAC
*** *
21392968 CCTTAAAGGGTAAAATGACCGAAATA-
1 CCCCGAAGGGTAAAATGATCGAAATAC
*
21392994 CCCCTATAGGGTAAAATGA
1 CCCCGA-AGGGTAAAATGA
21393013 CTGTTATACC
Statistics
Matches: 363, Mismatches: 72, Indels: 28
0.78 0.16 0.06
Matches are distributed among these distances:
25 1 0.00
26 32 0.09
27 319 0.88
28 11 0.03
ACGTcount: A:0.45, C:0.20, G:0.17, T:0.18
Consensus pattern (27 bp):
CCCCGAAGGGTAAAATGATCGAAATAC
Found at i:21393367 original size:28 final size:28
Alignment explanation
Indices: 21393326--21393392 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
21393316 TTATATTATT
* **
21393326 ACACTGTTATTGTATTGGGCTAAGGACC
1 ACACTGTTACTGTATCAGGCTAAGGACC
* *
21393354 ACATTGTTACTGTATCAGGCTAAGGCCC
1 ACACTGTTACTGTATCAGGCTAAGGACC
21393382 ACACTG-TACTG
1 ACACTGTTACTG
21393393 ATACTAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 5 0.15
28 28 0.85
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (28 bp):
ACACTGTTACTGTATCAGGCTAAGGACC
Found at i:21398740 original size:34 final size:34
Alignment explanation
Indices: 21398697--21398764 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
21398687 GCATTTTTGA
* *
21398697 CACTGTACTGAGATGGGCTAAGACCCAA-ACTGT
1 CACTGTACTGAAAAGGGCTAAGACCCAAGACTGT
* *
21398730 CACTGATACTGAAAAGGGCTTAGGCCCAAGACTGT
1 CACTG-TACTGAAAAGGGCTAAGACCCAAGACTGT
21398765 TCAACTATGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 5 0.17
34 19 0.66
35 5 0.17
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.21
Consensus pattern (34 bp):
CACTGTACTGAAAAGGGCTAAGACCCAAGACTGT
Found at i:21399441 original size:26 final size:26
Alignment explanation
Indices: 21399405--21399466 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
21399395 CTTGTAAGTG
* *
21399405 TTCTAAAACTGATACATGCTATGATA
1 TTCTGAAACTGATACATGCTATGAGA
* *
21399431 TTCTGAAACTGATATATGTTATGAGA
1 TTCTGAAACTGATACATGCTATGAGA
21399457 TTCTGAAACT
1 TTCTGAAACT
21399467 ACTGTAGGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (26 bp):
TTCTGAAACTGATACATGCTATGAGA
Found at i:21411215 original size:11 final size:12
Alignment explanation
Indices: 21411201--21411233 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
21411191 AAAATCTTTC
21411201 AAAAAAAACAA-
1 AAAAAAAACAAG
21411212 AAAAAAAACAAG
1 AAAAAAAACAAG
21411224 AAAGAAAAAC
1 AAA-AAAAAC
21411234 CTGGTAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
12 3 0.15
13 6 0.30
ACGTcount: A:0.85, C:0.09, G:0.06, T:0.00
Consensus pattern (12 bp):
AAAAAAAACAAG
Found at i:21414318 original size:29 final size:30
Alignment explanation
Indices: 21414264--21414322 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
21414254 AAGTTGAATC
*
21414264 AAATCAAAATTTAATGTATACAATTGCACA
1 AAATCAAAATTTAATATATACAATTGCACA
21414294 AAATCAAAATTT-ATATATA-ATATTGCACA
1 AAATCAAAATTTAATATATACA-ATTGCACA
21414323 TTAGACTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 1 0.04
29 14 0.52
30 12 0.44
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (30 bp):
AAATCAAAATTTAATATATACAATTGCACA
Found at i:21422035 original size:13 final size:13
Alignment explanation
Indices: 21422017--21422044 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
21422007 AAAGTGTTAG
21422017 TTTAATGTAAAAT
1 TTTAATGTAAAAT
21422030 TTTAATGTAAAAT
1 TTTAATGTAAAAT
21422043 TT
1 TT
21422045 GACTTGATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (13 bp):
TTTAATGTAAAAT
Found at i:21426753 original size:25 final size:25
Alignment explanation
Indices: 21426736--21426795 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
21426726 CAGCTCGAGA
*
21426736 GAGCTTACTGATATTCAGTTCGCAT
1 GAGCTTACTGATATTCAGCTCGCAT
*
21426761 GAGCTTA-TCGATATTCAGCTCGTAT
1 GAGCTTACT-GATATTCAGCTCGCAT
21426786 GAGCTTACTG
1 GAGCTTACTG
21426796 TTTACAGCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 1 0.03
25 29 0.94
26 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (25 bp):
GAGCTTACTGATATTCAGCTCGCAT
Found at i:21429174 original size:43 final size:42
Alignment explanation
Indices: 21429126--21429264 Score: 174
Period size: 43 Copynumber: 3.3 Consensus size: 42
21429116 TGTGATTTCG
21429126 TGTAAGACCATGTCTAGGACATTGGCATCAATATGAGATTACA
1 TGTAAGACCATGTCTAGGACATTGGCATC-ATATGAGATTACA
* *
21429169 TGTAAGACCATGTCTAGGACATTGGCATCGTAT-ATGATTTCA
1 TGTAAGACCATGTCTAGGACATTGGCATCATATGA-GATTACA
* * * *
21429211 TATAAGA-CACTGTCTAGGACAGTGGCATCGATATGTGATAACA
1 TGTAAGACCA-TGTCTAGGACATTGGCATC-ATATGAGATTACA
21429254 TGTAAGACCAT
1 TGTAAGACCAT
21429265 ATCTTGGATA
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
41 3 0.04
42 33 0.40
43 44 0.54
44 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACATTGGCATCATATGAGATTACA
Found at i:21436751 original size:43 final size:43
Alignment explanation
Indices: 21436703--21436849 Score: 183
Period size: 43 Copynumber: 3.4 Consensus size: 43
21436693 TGTGATTTCG
21436703 TGTAAGACCATGTCTAGGACATTGGCATCGATATGAGATTACA
1 TGTAAGACCATGTCTAGGACATTGGCATCGATATGAGATTACA
* *
21436746 TGTAAGACCGTGTCTAGGACATTGGCATCG-TAT-ATGATTTCA
1 TGTAAGACCATGTCTAGGACATTGGCATCGATATGA-GATTACA
* * * * *
21436788 TATAAGA-CACTGTCTGGGACAGTGGCATCGATATGTGATAACA
1 TGTAAGACCA-TGTCTAGGACATTGGCATCGATATGAGATTACA
*
21436831 TGTAAGACCATATCTAGGA
1 TGTAAGACCATGTCTAGGA
21436850 TATGGCTTTG
Statistics
Matches: 87, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
41 2 0.02
42 33 0.38
43 50 0.57
44 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACATTGGCATCGATATGAGATTACA
Found at i:21442659 original size:29 final size:28
Alignment explanation
Indices: 21442611--21442685 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 28
21442601 AAGAATAAGA
* *
21442611 AATTTCATTAGGTTACTTTAGGTTAATT
1 AATTTCATTAGATTAATTTAGGTTAATT
21442639 AATTTCCATTAGATTAATTTAGGTTAATT
1 AATTT-CATTAGATTAATTTAGGTTAATT
* *
21442668 AATTTAATTAGTTTAATT
1 AATTTCATTAGATTAATT
21442686 AATATTTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 16 0.38
29 26 0.62
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.51
Consensus pattern (28 bp):
AATTTCATTAGATTAATTTAGGTTAATT
Found at i:21442670 original size:14 final size:14
Alignment explanation
Indices: 21442627--21442673 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
21442617 ATTAGGTTAC
21442627 TTTAGGTTAATTAA
1 TTTAGGTTAATTAA
***
21442641 TTTCCATTAGATTAA
1 TTTAGGTTA-ATTAA
21442656 TTTAGGTTAATTAA
1 TTTAGGTTAATTAA
21442670 TTTA
1 TTTA
21442674 ATTAGTTTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (14 bp):
TTTAGGTTAATTAA
Found at i:21442683 original size:18 final size:19
Alignment explanation
Indices: 21442652--21442688 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
21442642 TTCCATTAGA
21442652 TTAATTTAGGTTAATTAAT
1 TTAATTTAGGTTAATTAAT
*
21442671 TTAA-TTAGTTTAATTAAT
1 TTAATTTAGGTTAATTAAT
21442689 ATTTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
TTAATTTAGGTTAATTAAT
Found at i:21455441 original size:25 final size:25
Alignment explanation
Indices: 21455325--21455443 Score: 107
Period size: 25 Copynumber: 4.8 Consensus size: 25
21455315 TCCTGTACAT
21455325 GTATGCTCAT-ACGAGCTGT-GAATCG
1 GTATGCTC-TCACGAGCTGTAG-ATCG
* * *
21455350 GTATGCTCACTCGAGCTATAGATCG
1 GTATGCTCTCACGAGCTGTAGATCG
* * * * *
21455375 GTATGCTCTTACAAGCGGTAAATCA
1 GTATGCTCTCACGAGCTGTAGATCG
* *
21455400 ATATACTCTCACGAGCTGTAGATCG
1 GTATGCTCTCACGAGCTGTAGATCG
*
21455425 GTATGCTCTCACAAGCTGT
1 GTATGCTCTCACGAGCTGT
21455444 GGGTCAGAAT
Statistics
Matches: 71, Mismatches: 21, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
25 70 0.99
26 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTGTAGATCG
Found at i:21475818 original size:30 final size:30
Alignment explanation
Indices: 21475782--21475871 Score: 139
Period size: 30 Copynumber: 3.0 Consensus size: 30
21475772 TATTAGTATA
*
21475782 GTGTGGGCCTTAGCCCATTACAGTAACAGT
1 GTGTGGGCCTTAGCCCAATACAGTAACAGT
21475812 GTGTGGGCCTTAGCCCAATACAGTAACAGT
1 GTGTGGGCCTTAGCCCAATACAGTAACAGT
*
21475842 G-G-GGGCCTTAGCCCAATACAATAATCAGT
1 GTGTGGGCCTTAGCCCAATACAGTAA-CAGT
21475871 G
1 G
21475872 CAATGTAGAA
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
28 21 0.37
29 6 0.11
30 30 0.53
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (30 bp):
GTGTGGGCCTTAGCCCAATACAGTAACAGT
Found at i:21476369 original size:81 final size:81
Alignment explanation
Indices: 21476201--21476359 Score: 234
Period size: 81 Copynumber: 2.0 Consensus size: 81
21476191 GGTATAACAT
* * *
21476201 TCATTTTACCCTATAGGGGTATTTTAGTCATTTTACCTATCAAAGGTATTTTGGTCATTTTACCC
1 TCATTTTACCCTATAAGGGTATTTGAGTCATTTTACCTATCAAAGGTATTTTGGTCATTTTACCA
*
21476266 TTCGAGGGTATTTCAA
66 TTCAAGGGTATTTCAA
21476282 TCATTTTACCCT-TCAAGGGTATTTCGA-TCATTTTACCCT-TCAAAGGTATTTTGGTCATTTTA
1 TCATTTTACCCTAT-AAGGGTATTT-GAGTCATTTTA-CCTATCAAAGGTATTTTGGTCATTTTA
21476344 CCATTCAAGGGTATTT
63 CCATTCAAGGGTATTT
21476360 TGGTTATTTT
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
80 1 0.01
81 66 0.93
82 4 0.06
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.43
Consensus pattern (81 bp):
TCATTTTACCCTATAAGGGTATTTGAGTCATTTTACCTATCAAAGGTATTTTGGTCATTTTACCA
TTCAAGGGTATTTCAA
Found at i:21476374 original size:27 final size:27
Alignment explanation
Indices: 21476201--21476369 Score: 198
Period size: 27 Copynumber: 6.3 Consensus size: 27
21476191 GGTATAACAT
* *
21476201 TCATTTTACCCTAT-AGGGGTATTTTAG
1 TCATTTTACCCT-TCAAGGGTATTTTGG
*
21476228 TCATTTTA-CCTATCAAAGGTATTTTGG
1 TCATTTTACCCT-TCAAGGGTATTTTGG
* ***
21476255 TCATTTTACCCTTCGAGGGTATTTCAA
1 TCATTTTACCCTTCAAGGGTATTTTGG
* *
21476282 TCATTTTACCCTTCAAGGGTATTTCGA
1 TCATTTTACCCTTCAAGGGTATTTTGG
*
21476309 TCATTTTACCCTTCAAAGGTATTTTGG
1 TCATTTTACCCTTCAAGGGTATTTTGG
*
21476336 TCATTTTACCATTCAAGGGTATTTTGG
1 TCATTTTACCCTTCAAGGGTATTTTGG
*
21476363 TTATTTT
1 TCATTTT
21476370 CCCATGAATC
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 5 0.04
27 116 0.94
28 3 0.02
ACGTcount: A:0.22, C:0.17, G:0.15, T:0.45
Consensus pattern (27 bp):
TCATTTTACCCTTCAAGGGTATTTTGG
Found at i:21482660 original size:20 final size:21
Alignment explanation
Indices: 21482622--21482661 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
21482612 TAACCTTCAA
*
21482622 AAAAATTCAAGATTGTTTTCC
1 AAAAATTCAAGATTATTTTCC
*
21482643 AAAAATTCTAGA-TATTTTC
1 AAAAATTCAAGATTATTTTC
21482662 AAACCCATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (21 bp):
AAAAATTCAAGATTATTTTCC
Found at i:21486805 original size:21 final size:21
Alignment explanation
Indices: 21486760--21486805 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
21486750 TTTTGCTATT
* *
21486760 GTTG-ATTATAATTCCCTTGT
1 GTTGAATTATAATTACCTTGA
*
21486780 CTTGAATTATAATTACCTTGA
1 GTTGAATTATAATTACCTTGA
21486801 GTTGA
1 GTTGA
21486806 TATATTCCTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (21 bp):
GTTGAATTATAATTACCTTGA
Found at i:21495165 original size:13 final size:12
Alignment explanation
Indices: 21495146--21495175 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
21495136 TAACAATAGT
21495146 AAAAGAAAAGAA
1 AAAAGAAAAGAA
21495158 AGAAAGAAAAGAA
1 A-AAAGAAAAGAA
21495171 AAAAG
1 AAAAG
21495176 GAGAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAGAA
Found at i:21501183 original size:25 final size:25
Alignment explanation
Indices: 21501155--21501212 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
21501145 CATCACATGA
21501155 GAGCATACCGA-TCTACAGCTCG-AC
1 GAGCATACCGATTC-ACAGCTCGTAC
* *
21501179 TGAGCATACTGATTCATAGCTCGTAC
1 -GAGCATACCGATTCACAGCTCGTAC
21501205 GAGCATAC
1 GAGCATAC
21501213 ATGAATAGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (25 bp):
GAGCATACCGATTCACAGCTCGTAC
Found at i:21505041 original size:12 final size:12
Alignment explanation
Indices: 21505026--21505057 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
21505016 AATTTTTCTG
21505026 AGTTTCTGATTT
1 AGTTTCTGATTT
21505038 AG-TTCTGATTT
1 AGTTTCTGATTT
21505049 -GTTTCTGAT
1 AGTTTCTGAT
21505058 GCATATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.05
11 16 0.84
12 2 0.11
ACGTcount: A:0.16, C:0.09, G:0.19, T:0.56
Consensus pattern (12 bp):
AGTTTCTGATTT
Found at i:21506488 original size:28 final size:28
Alignment explanation
Indices: 21506456--21506510 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
21506446 AGAGATCGCC
21506456 TAGAGAAATCTGAGAAAGAGAAAGCTCT
1 TAGAGAAATCTGAGAAAGAGAAAGCTCT
*
21506484 TAGAGAAATTTGAGAAAGAGAAAGCTC
1 TAGAGAAATCTGAGAAAGAGAAAGCTC
21506511 AAACCACGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.47, C:0.09, G:0.25, T:0.18
Consensus pattern (28 bp):
TAGAGAAATCTGAGAAAGAGAAAGCTCT
Found at i:21511281 original size:25 final size:25
Alignment explanation
Indices: 21511223--21511282 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
21511213 GTCATTAGGG
* * *
21511223 TTACCAAT-TTCAGCTCTTCTGAGC
1 TTACCATTATTCAGCTCGTATGAGC
* *
21511247 TTATCGTTATTCAGCTCGTATGAGC
1 TTACCATTATTCAGCTCGTATGAGC
21511272 TTACCATTATT
1 TTACCATTATT
21511283 TACCTCGAAG
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
24 5 0.18
25 23 0.82
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (25 bp):
TTACCATTATTCAGCTCGTATGAGC
Found at i:21511289 original size:25 final size:25
Alignment explanation
Indices: 21511242--21511289 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
21511232 TCAGCTCTTC
* * *
21511242 TGAGCTTATCGTTATTCAGCTCGTA
1 TGAGCTTACCATTATTCACCTCGTA
*
21511267 TGAGCTTACCATTATTTACCTCG
1 TGAGCTTACCATTATTCACCTCG
21511290 AAGAAGTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.40
Consensus pattern (25 bp):
TGAGCTTACCATTATTCACCTCGTA
Found at i:21519152 original size:179 final size:179
Alignment explanation
Indices: 21518852--21519211 Score: 720
Period size: 179 Copynumber: 2.0 Consensus size: 179
21518842 CCTAAGAATA
21518852 ATATGATTATTCTTAAAAGATCCTTAGTCAAGTATTATTGTTGGATAGGACAACAATAATGCATT
1 ATATGATTATTCTTAAAAGATCCTTAGTCAAGTATTATTGTTGGATAGGACAACAATAATGCATT
21518917 AAGACTAACATGTAGTTGATTGATGATAAAGAGTTATCATTGATATGGAATATCAGAATCGATGC
66 AAGACTAACATGTAGTTGATTGATGATAAAGAGTTATCATTGATATGGAATATCAGAATCGATGC
21518982 ATGAATATGTGTGTTAGAGAACAACATATTGGACTGACCCATTATGAGT
131 ATGAATATGTGTGTTAGAGAACAACATATTGGACTGACCCATTATGAGT
21519031 ATATGATTATTCTTAAAAGATCCTTAGTCAAGTATTATTGTTGGATAGGACAACAATAATGCATT
1 ATATGATTATTCTTAAAAGATCCTTAGTCAAGTATTATTGTTGGATAGGACAACAATAATGCATT
21519096 AAGACTAACATGTAGTTGATTGATGATAAAGAGTTATCATTGATATGGAATATCAGAATCGATGC
66 AAGACTAACATGTAGTTGATTGATGATAAAGAGTTATCATTGATATGGAATATCAGAATCGATGC
21519161 ATGAATATGTGTGTTAGAGAACAACATATTGGACTGACCCATTATGAGT
131 ATGAATATGTGTGTTAGAGAACAACATATTGGACTGACCCATTATGAGT
21519210 AT
1 AT
21519212 GTTTCTTGGA
Statistics
Matches: 181, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
179 181 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (179 bp):
ATATGATTATTCTTAAAAGATCCTTAGTCAAGTATTATTGTTGGATAGGACAACAATAATGCATT
AAGACTAACATGTAGTTGATTGATGATAAAGAGTTATCATTGATATGGAATATCAGAATCGATGC
ATGAATATGTGTGTTAGAGAACAACATATTGGACTGACCCATTATGAGT
Found at i:21525589 original size:41 final size:41
Alignment explanation
Indices: 21525544--21525675 Score: 131
Period size: 41 Copynumber: 3.2 Consensus size: 41
21525534 GAGTGTAAAT
* * *
21525544 AGGGGCATGTGTATGCAATTCAAGGGTATC-ATAGTACAAAC
1 AGGGGCACGTATATGCAATTCAAGGGTACCGA-AGTACAAAC
* * * *
21525585 AGGGGCACGTATGTGCAATTTAGGGGTACCGAAGTACAAAT
1 AGGGGCACGTATATGCAATTCAAGGGTACCGAAGTACAAAC
* * * * * *
21525626 AGGGGCACTTATGTACAATTTAGGGGTACCGAAGCACAAAC
1 AGGGGCACGTATATGCAATTCAAGGGTACCGAAGTACAAAC
21525667 AGGGGCACG
1 AGGGGCACG
21525676 AATGTGCACT
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 77 0.99
42 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (41 bp):
AGGGGCACGTATATGCAATTCAAGGGTACCGAAGTACAAAC
Found at i:21525609 original size:21 final size:21
Alignment explanation
Indices: 21525585--21525651 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
21525575 TAGTACAAAC
*
21525585 AGGGGCACGTATGTGCAATTT
1 AGGGGCACGTATGTACAATTT
* * *
21525606 AGGGGTACCG-AAGTACAA-AT
1 AGGGGCA-CGTATGTACAATTT
*
21525626 AGGGGCACTTATGTACAATTT
1 AGGGGCACGTATGTACAATTT
21525647 AGGGG
1 AGGGG
21525652 TACCGAAGCA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
19 1 0.03
20 14 0.40
21 18 0.51
22 2 0.06
ACGTcount: A:0.30, C:0.13, G:0.33, T:0.24
Consensus pattern (21 bp):
AGGGGCACGTATGTACAATTT
Found at i:21525630 original size:20 final size:20
Alignment explanation
Indices: 21525605--21525671 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
21525595 ATGTGCAATT
21525605 TAGGGGTACCGAAGTACAAA
1 TAGGGGTACCGAAGTACAAA
* ** * *
21525625 TAGGGGCACTTATGTACAATT
1 TAGGGGTACCGAAGTACAA-A
*
21525646 TAGGGGTACCGAAGCACAAA
1 TAGGGGTACCGAAGTACAAA
*
21525666 CAGGGG
1 TAGGGG
21525672 CACGAATGTG
Statistics
Matches: 34, Mismatches: 12, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
20 20 0.59
21 14 0.41
ACGTcount: A:0.34, C:0.16, G:0.31, T:0.18
Consensus pattern (20 bp):
TAGGGGTACCGAAGTACAAA
Found at i:21525664 original size:21 final size:21
Alignment explanation
Indices: 21525600--21525664 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
21525590 CACGTATGTG
21525600 CAATTTAGGGGTACCGAAGTA
1 CAATTTAGGGGTACCGAAGTA
* * ** *
21525621 CAA-ATAGGGGCACTTATGTA
1 CAATTTAGGGGTACCGAAGTA
*
21525641 CAATTTAGGGGTACCGAAGCA
1 CAATTTAGGGGTACCGAAGTA
21525662 CAA
1 CAA
21525665 ACAGGGGCAC
Statistics
Matches: 32, Mismatches: 11, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (21 bp):
CAATTTAGGGGTACCGAAGTA
Found at i:21527666 original size:27 final size:26
Alignment explanation
Indices: 21527636--21527708 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 26
21527626 AGTCGGCCAC
21527636 AAAGGCTTCCATGTTATGGATCACCAA
1 AAAGGCTTCCAT-TTATGGATCACCAA
* * *
21527663 AAAGGCTTCCATTTCTTAGATCACCAC
1 AAAGGCTTCCATTT-ATGGATCACCAA
*
21527690 AAAGGTTTCCATTTTATGG
1 AAAGGCTTCCA-TTTATGG
21527709 GGTGTTCACA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
26 2 0.05
27 33 0.87
28 3 0.08
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (26 bp):
AAAGGCTTCCATTTATGGATCACCAA
Found at i:21529918 original size:6 final size:6
Alignment explanation
Indices: 21529902--21529933 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
21529892 TACCCTATCA
21529902 AAAGAAG AAAGAG AAAGAG AAAGAG AAAGAG A
1 AAAG-AG AAAGAG AAAGAG AAAGAG AAAGAG A
21529934 GGAGGAGGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 21 0.84
7 4 0.16
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (6 bp):
AAAGAG
Found at i:21534306 original size:18 final size:19
Alignment explanation
Indices: 21534285--21534320 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
21534275 TCAAGTCTAG
21534285 TTAGATTT-TAATTTTAAA
1 TTAGATTTATAATTTTAAA
*
21534303 TTAGATTTATATTTTTAA
1 TTAGATTTATAATTTTAA
21534321 TTCAATTAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (19 bp):
TTAGATTTATAATTTTAAA
Found at i:21534357 original size:98 final size:98
Alignment explanation
Indices: 21534169--21534395 Score: 287
Period size: 98 Copynumber: 2.3 Consensus size: 98
21534159 GTCCTAGCCA
* * *
21534169 TTAGA-TTTTAAGTTTAGCTAGATTTTAAGGTTAAATTGGATTTTAGATTTTAAATCCAATTAGA
1 TTAGATTTTTAAGTCTAGTTAGATTTTAAGGTTAAATTAGATTTTAGATTTTAAATCCAATTAGA
* *
21534233 TTGTAAGTTTAAATTTTAGGATTAAATTAGATT
66 TTATAAGTTTAAATTCTAGGATTAAATTAGATT
** * * *
21534266 TTAGATTTTTCAAGTCTAGTTAGATTTTAATTTTAAATTAGA-TTTATATTTTTAATTCAATTAG
1 TTAGATTTTT-AAGTCTAGTTAGATTTTAAGGTTAAATTAGATTTTAGATTTTAAATCCAATTAG
* *
21534330 GTTATAAGTTTAAATTCTAGGTTTAAATTAGATT
65 ATTATAAGTTTAAATTCTAGGATTAAATTAGATT
* *
21534364 TTATATTTTTTTAAGTGTAGTTAGATTTTAAG
1 TTAGA--TTTTTAAGTCTAGTTAGATTTTAAG
21534396 TTAGAAATCT
Statistics
Matches: 111, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
97 5 0.05
98 57 0.51
99 44 0.40
100 5 0.05
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.50
Consensus pattern (98 bp):
TTAGATTTTTAAGTCTAGTTAGATTTTAAGGTTAAATTAGATTTTAGATTTTAAATCCAATTAGA
TTATAAGTTTAAATTCTAGGATTAAATTAGATT
Found at i:21534607 original size:18 final size:17
Alignment explanation
Indices: 21534566--21534604 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
21534556 ATTTTTCAAA
*
21534566 ATTTTAAGTTTAATTAG
1 ATTTTAAGCTTAATTAG
21534583 ATTTTAAGCTTAACTT-G
1 ATTTTAAGCTTAA-TTAG
21534600 ATTTT
1 ATTTT
21534605 TAATAGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.54
Consensus pattern (17 bp):
ATTTTAAGCTTAATTAG
Found at i:21541115 original size:9 final size:9
Alignment explanation
Indices: 21541098--21541161 Score: 110
Period size: 9 Copynumber: 7.1 Consensus size: 9
21541088 TGAGTTTTCG
21541098 AATTCGAAT
1 AATTCGAAT
*
21541107 AACTCGAAT
1 AATTCGAAT
21541116 AATTCGAAT
1 AATTCGAAT
21541125 AATTCGAAT
1 AATTCGAAT
*
21541134 AACTCGAAT
1 AATTCGAAT
21541143 AATTCGAAT
1 AATTCGAAT
21541152 AATTCGAAT
1 AATTCGAAT
21541161 A
1 A
21541162 TCAAACTATA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:21541131 original size:27 final size:27
Alignment explanation
Indices: 21541098--21541161 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
21541088 TGAGTTTTCG
21541098 AATTCGAATAACTCGAATAATTCGAAT
1 AATTCGAATAACTCGAATAATTCGAAT
21541125 AATTCGAATAACTCGAATAATTCGAAT
1 AATTCGAATAACTCGAATAATTCGAAT
21541152 AATTCGAATA
1 AATTCGAATA
21541162 TCAAACTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (27 bp):
AATTCGAATAACTCGAATAATTCGAAT
Found at i:21542558 original size:20 final size:19
Alignment explanation
Indices: 21542477--21542560 Score: 60
Period size: 20 Copynumber: 4.3 Consensus size: 19
21542467 AAATTAAGAT
* *
21542477 AAAATGATTTTAACGAAGGC
1 AAAATGATTTAAAC-AAGTC
* * *
21542497 AAAATGATTTCAACCAATTT
1 AAAATGATTT-AAACAAGTC
* * * *
21542517 AAAATCATTTTAAGATGTC
1 AAAATGATTTAAACAAGTC
21542536 AAAATGATTTCAAACAAGTC
1 AAAATGATTT-AAACAAGTC
21542556 AAAAT
1 AAAAT
21542561 TGCTCTAGGC
Statistics
Matches: 46, Mismatches: 16, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
19 12 0.26
20 32 0.70
21 2 0.04
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.30
Consensus pattern (19 bp):
AAAATGATTTAAACAAGTC
Found at i:21542560 original size:39 final size:40
Alignment explanation
Indices: 21542477--21542560 Score: 107
Period size: 39 Copynumber: 2.1 Consensus size: 40
21542467 AAATTAAGAT
* * * *
21542477 AAAATGATTTTAACGAAGGCAAAATGATTTCAACCAATTT
1 AAAATCATTTTAACGAAGGCAAAATGATTTCAAACAAGTC
* *
21542517 AAAATCATTTTAA-GATGTCAAAATGATTTCAAACAAGTC
1 AAAATCATTTTAACGAAGGCAAAATGATTTCAAACAAGTC
21542556 AAAAT
1 AAAAT
21542561 TGCTCTAGGC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
39 26 0.68
40 12 0.32
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.30
Consensus pattern (40 bp):
AAAATCATTTTAACGAAGGCAAAATGATTTCAAACAAGTC
Found at i:21550676 original size:20 final size:20
Alignment explanation
Indices: 21550651--21550703 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
21550641 GGTAATTTGG
**
21550651 TATCGATACCACTTTAAAAA
1 TATCGATACCACTGGAAAAA
21550671 TATCGATACTCA-TGGAAAAA
1 TATCGATAC-CACTGGAAAAA
*
21550691 TATCAATACCACT
1 TATCGATACCACT
21550704 AGGTTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (20 bp):
TATCGATACCACTGGAAAAA
Found at i:21552773 original size:20 final size:20
Alignment explanation
Indices: 21552744--21552797 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
21552734 AAATCAAGAT
*
21552744 AAAATTATTTTAACCAAGTC
1 AAAATCATTTTAACCAAGTC
* * * *
21552764 ATAATGATTTCAACCAAGTT
1 AAAATCATTTTAACCAAGTC
21552784 AAAATCATTTTAAC
1 AAAATCATTTTAAC
21552798 ACATCAAAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (20 bp):
AAAATCATTTTAACCAAGTC
Found at i:21552822 original size:40 final size:40
Alignment explanation
Indices: 21552738--21552824 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
21552728 ATTTTAAAAT
* * * *
21552738 CAAGATAAAATTATTTTAACCAAGTCATAATGATTTCAAC
1 CAAGTTAAAATCATTTTAACCAAGTCAAAATGATTTCAAA
21552778 CAAGTTAAAATCATTTTAA-CACA-TCAAAATGATTTCCAAA
1 CAAGTTAAAATCATTTTAACCA-AGTCAAAATGATTT-CAAA
21552818 CAAGTTA
1 CAAGTTA
21552825 GAATTACTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
39 13 0.32
40 28 0.68
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.31
Consensus pattern (40 bp):
CAAGTTAAAATCATTTTAACCAAGTCAAAATGATTTCAAA
Found at i:21564478 original size:20 final size:20
Alignment explanation
Indices: 21564453--21564505 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
21564443 GGTAATTTGG
**
21564453 TATCGATACCACTTTAAAAA
1 TATCGATACCACTGGAAAAA
21564473 TATCGATACTCA-TGGAAAAA
1 TATCGATAC-CACTGGAAAAA
*
21564493 TATCAATACCACT
1 TATCGATACCACT
21564506 AGGTTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (20 bp):
TATCGATACCACTGGAAAAA
Found at i:21566571 original size:20 final size:20
Alignment explanation
Indices: 21566542--21566595 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
21566532 AAATCAAGAT
*
21566542 AAAATTATTTTAACCAAGTC
1 AAAATCATTTTAACCAAGTC
* * * *
21566562 ATAATGATTTCAACCAAGTT
1 AAAATCATTTTAACCAAGTC
21566582 AAAATCATTTTAAC
1 AAAATCATTTTAAC
21566596 ACATCAAAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (20 bp):
AAAATCATTTTAACCAAGTC
Found at i:21566620 original size:40 final size:40
Alignment explanation
Indices: 21566536--21566622 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
21566526 ATTTTAAAAT
* * * *
21566536 CAAGATAAAATTATTTTAACCAAGTCATAATGATTTCAAC
1 CAAGTTAAAATCATTTTAACCAAGTCAAAATGATTTCAAA
21566576 CAAGTTAAAATCATTTTAA-CACA-TCAAAATGATTTCCAAA
1 CAAGTTAAAATCATTTTAACCA-AGTCAAAATGATTT-CAAA
21566616 CAAGTTA
1 CAAGTTA
21566623 GAATTACTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
39 13 0.32
40 28 0.68
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.31
Consensus pattern (40 bp):
CAAGTTAAAATCATTTTAACCAAGTCAAAATGATTTCAAA
Found at i:21576551 original size:33 final size:33
Alignment explanation
Indices: 21576509--21576598 Score: 110
Period size: 33 Copynumber: 2.7 Consensus size: 33
21576499 TCATGATGCC
* * * *
21576509 AAGCATTATTATGGGGATGGACCCTTCCTATTT
1 AAGCATTATTATCGAGATGAACCCGTCCTATTT
*
21576542 AAGCATTATTATCGAGATGAATCCGTCCTATTT
1 AAGCATTATTATCGAGATGAACCCGTCCTATTT
*
21576575 AAGCATTATTA-CTAGGATGAACCC
1 AAGCATTATTATCGA-GATGAACCC
21576599 TTCATGATGC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
32 2 0.04
33 47 0.96
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (33 bp):
AAGCATTATTATCGAGATGAACCCGTCCTATTT
Found at i:21586387 original size:15 final size:15
Alignment explanation
Indices: 21586367--21586402 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
21586357 TAGGGAAGGG
*
21586367 AATGATCCTGGTCTA
1 AATGATCATGGTCTA
*
21586382 AATGATCATGGTCTC
1 AATGATCATGGTCTA
21586397 AATGAT
1 AATGAT
21586403 GATCCAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (15 bp):
AATGATCATGGTCTA
Found at i:21588910 original size:27 final size:27
Alignment explanation
Indices: 21588880--21588970 Score: 110
Period size: 27 Copynumber: 3.4 Consensus size: 27
21588870 TATCTTGTCT
** *
21588880 GCCTTTGTGGTGTACTCTGCATAAATA
1 GCCTTTGTGGCATACTCTGTATAAATA
* *
21588907 GCCTTTGTGGCATACTCTGTATGAATT
1 GCCTTTGTGGCATACTCTGTATAAATA
*
21588934 GCCTTTGTGGCATACTCTGTATAGATA
1 GCCTTTGTGGCATACTCTGTATAAATA
* *
21588961 ACTTTTGTGG
1 GCCTTTGTGG
21588971 TGAACTCTCA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.40
Consensus pattern (27 bp):
GCCTTTGTGGCATACTCTGTATAAATA
Found at i:21588950 original size:54 final size:54
Alignment explanation
Indices: 21588879--21589005 Score: 132
Period size: 54 Copynumber: 2.4 Consensus size: 54
21588869 GTATCTTGTC
** * *
21588879 TGCCTTTGTGGTGTACTCTGCATAAATAGCCTTTGTGG-CATACTCTGTA-TGAAT
1 TGCCTTTGTGGCATACTCTGCATAAATAACCTTTGTGGTCA-ACTCT-CACTGAAT
* * * * *
21588933 TGCCTTTGTGGCATACTCTGTATAGATAACTTTTGTGGTGAACTCTCACTGGAT
1 TGCCTTTGTGGCATACTCTGCATAAATAACCTTTGTGGTCAACTCTCACTGAAT
*
21588987 TTCCTTTGTGGCATACTCT
1 TGCCTTTGTGGCATACTCT
21589006 AAATAGATCA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
53 1 0.02
54 59 0.97
55 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.40
Consensus pattern (54 bp):
TGCCTTTGTGGCATACTCTGCATAAATAACCTTTGTGGTCAACTCTCACTGAAT
Found at i:21589004 original size:27 final size:27
Alignment explanation
Indices: 21588908--21589029 Score: 95
Period size: 27 Copynumber: 4.5 Consensus size: 27
21588898 GCATAAATAG
* *
21588908 CCTTTGTGGCATACTCTGTATGAATTG
1 CCTTTGTGGCATACTCTGTATGGATTA
* *
21588935 CCTTTGTGGCATACTCTGTATAGATAA
1 CCTTTGTGGCATACTCTGTATGGATTA
* * * *
21588962 CTTTTGTGGTGA-ACTCT-CACTGGATTT
1 CCTTTGTGG-CATACTCTGTA-TGGATTA
** * *
21588989 CCTTTGTGGCATACTCTAAATAGATCA
1 CCTTTGTGGCATACTCTGTATGGATTA
*
21589016 CCTTGGTGGCATAC
1 CCTTTGTGGCATAC
21589030 CTTACACGAT
Statistics
Matches: 74, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
26 2 0.03
27 70 0.95
28 2 0.03
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.38
Consensus pattern (27 bp):
CCTTTGTGGCATACTCTGTATGGATTA
Found at i:21604612 original size:26 final size:26
Alignment explanation
Indices: 21604559--21604612 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
21604549 TCAGTACAGT
* * *
21604559 GTGGGCCTTAGCCCATTATGGTAACA
1 GTGGGCCTAAGCCCAATATAGTAACA
*
21604585 GTGGGCCTAAGCCCAATATAGTATCA
1 GTGGGCCTAAGCCCAATATAGTAACA
21604611 GT
1 GT
21604613 ATGGTGCATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (26 bp):
GTGGGCCTAAGCCCAATATAGTAACA
Found at i:21604788 original size:26 final size:26
Alignment explanation
Indices: 21604759--21604827 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 26
21604749 CAGCAGAGCT
21604759 ACCAGTACAAT-ATATGTGGCAAAGCA
1 ACCAGTACAATAAT-TGTGGCAAAGCA
* *
21604785 ACCAGTAACAGTAATTGTGGCAAAGCC
1 ACCAGT-ACAATAATTGTGGCAAAGCA
*
21604812 ACCAGTATCAGTAATT
1 ACCAGTA-CAATAATT
21604828 CCTCCATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
26 7 0.18
27 29 0.76
28 2 0.05
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (26 bp):
ACCAGTACAATAATTGTGGCAAAGCA
Found at i:21604806 original size:27 final size:27
Alignment explanation
Indices: 21604773--21604827 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
21604763 GTACAATATA
21604773 TGTGGCAAAGCAACCAGTAACAGTAAT
1 TGTGGCAAAGCAACCAGTAACAGTAAT
* *
21604800 TGTGGCAAAGCCACCAGTATCAGTAAT
1 TGTGGCAAAGCAACCAGTAACAGTAAT
21604827 T
1 T
21604828 CCTCCATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TGTGGCAAAGCAACCAGTAACAGTAAT
Found at i:21605063 original size:26 final size:26
Alignment explanation
Indices: 21605032--21605118 Score: 122
Period size: 26 Copynumber: 3.3 Consensus size: 26
21605022 ACCCTTCGGG
*
21605032 GATAATTTACCGATTGAGGGTATTTT
1 GATAATTTACCGATTGAGGGTATTTC
* *
21605058 GGTAATTTA-CGTATTGAGAGTATTTC
1 GATAATTTACCG-ATTGAGGGTATTTC
*
21605084 GATAATTTACCCATTGAGGGTATTTC
1 GATAATTTACCGATTGAGGGTATTTC
21605110 GATAATTTA
1 GATAATTTA
21605119 GGCCCATTAC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
25 2 0.04
26 50 0.94
27 1 0.02
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (26 bp):
GATAATTTACCGATTGAGGGTATTTC
Found at i:21611645 original size:27 final size:27
Alignment explanation
Indices: 21611590--21611651 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 27
21611580 AAAGAAAATG
*
21611590 AAAATACCAAAGGCCTTTTTAGTCAAAA
1 AAAATACCAAAGGCCTTATTAG-CAAAA
*
21611618 AAAATACCAAAGGCCTTATTA-CATAA
1 AAAATACCAAAGGCCTTATTAGCAAAA
*
21611644 AAATTACC
1 AAAATACC
21611652 CCAAAGTACA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 11 0.35
28 20 0.65
ACGTcount: A:0.48, C:0.19, G:0.08, T:0.24
Consensus pattern (27 bp):
AAAATACCAAAGGCCTTATTAGCAAAA
Found at i:21612318 original size:26 final size:26
Alignment explanation
Indices: 21612274--21612470 Score: 286
Period size: 26 Copynumber: 7.5 Consensus size: 26
21612264 TACCCTTTGG
* *
21612274 GGGTATTTTAGTAATTTTACCCTTCGA
1 GGGTATTTTGGTAA-TTTACCCATCGA
* * *
21612301 GGGTTTTTTGCTAATTTACCCATTGA
1 GGGTATTTTGGTAATTTACCCATCGA
*
21612327 GGTTATTTTGGTAATTTACCCATCGA
1 GGGTATTTTGGTAATTTACCCATCGA
21612353 GGGTATTTTGGTAATTTACCCATCGA
1 GGGTATTTTGGTAATTTACCCATCGA
* *
21612379 GGGTATCTTGGTAATTTACCCATTGA
1 GGGTATTTTGGTAATTTACCCATCGA
*
21612405 GGGTATTTCGGTAATTTACCCATCGA
1 GGGTATTTTGGTAATTTACCCATCGA
*
21612431 GGGTATTTCGGTAATTTACCCATCGA
1 GGGTATTTTGGTAATTTACCCATCGA
*
21612457 GGGTATTTCGGTAA
1 GGGTATTTTGGTAA
21612471 CTTAGACCCA
Statistics
Matches: 155, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
26 144 0.93
27 11 0.07
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.40
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTACCCATCGA
Found at i:21618361 original size:24 final size:24
Alignment explanation
Indices: 21618296--21618414 Score: 161
Period size: 25 Copynumber: 4.9 Consensus size: 24
21618286 GCATCCCCGA
21618296 AACAATGGAAAGGTTGAAAAGGAT
1 AACAATGGAAAGGTTGAAAAGGAT
*
21618320 AACAAATGGAGAA-TTTGAAAAGGAT
1 AAC-AATGGA-AAGGTTGAAAAGGAT
21618345 AACAATGGAAAGGTTGAAAAGGAT
1 AACAATGGAAAGGTTGAAAAGGAT
*
21618369 AACAAATGGAGAA-GTTGAAAATGAT
1 AAC-AATGGA-AAGGTTGAAAAGGAT
*
21618394 AACAATGGAAAGATTGAAAAG
1 AACAATGGAAAGGTTGAAAAG
21618415 TATAGCAAGG
Statistics
Matches: 84, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
23 4 0.05
24 36 0.43
25 40 0.48
26 4 0.05
ACGTcount: A:0.52, C:0.04, G:0.26, T:0.18
Consensus pattern (24 bp):
AACAATGGAAAGGTTGAAAAGGAT
Found at i:21618368 original size:49 final size:49
Alignment explanation
Indices: 21618296--21618414 Score: 211
Period size: 49 Copynumber: 2.4 Consensus size: 49
21618286 GCATCCCCGA
*
21618296 AACAATGGAAAGGTTGAAAAGGATAACAAATGGAGAATTTGAAAAGGAT
1 AACAATGGAAAGGTTGAAAAGGATAACAAATGGAGAAGTTGAAAAGGAT
*
21618345 AACAATGGAAAGGTTGAAAAGGATAACAAATGGAGAAGTTGAAAATGAT
1 AACAATGGAAAGGTTGAAAAGGATAACAAATGGAGAAGTTGAAAAGGAT
*
21618394 AACAATGGAAAGATTGAAAAG
1 AACAATGGAAAGGTTGAAAAG
21618415 TATAGCAAGG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 67 1.00
ACGTcount: A:0.52, C:0.04, G:0.26, T:0.18
Consensus pattern (49 bp):
AACAATGGAAAGGTTGAAAAGGATAACAAATGGAGAAGTTGAAAAGGAT
Found at i:21620164 original size:51 final size:49
Alignment explanation
Indices: 21620043--21620224 Score: 211
Period size: 51 Copynumber: 3.6 Consensus size: 49
21620033 TCGATGCACG
* * * * * *
21620043 TAGTAGCCTTCACATAGTACTACACACGTGATCAAACTTTTCAGTTCACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAAAC-CTTCGGTACACA
21620093 TAGTAGCCTGCACATAGTACTACACACGTGACCAAAGCCTTCCGGTACACA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAAA-CCTT-CGGTACACA
* * * *
21620144 TAGTAGCCTGCACATAGTACTACACATGTGACCATTATCTATCGATACACA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-AACCT-TCGGTACACA
* *
21620195 TAGTAGTCTGCACTTAGTACTACACACGTG
1 TAGTAGCCTGCACATAGTACTACACACGTG
21620225 TTTATAGGCA
Statistics
Matches: 115, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
50 36 0.31
51 77 0.67
52 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCAAACCTTCGGTACACA
Found at i:21621738 original size:51 final size:50
Alignment explanation
Indices: 21621662--21621845 Score: 197
Period size: 51 Copynumber: 3.6 Consensus size: 50
21621652 TATAAACACG
* * * ** *
21621662 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATCGTTAGATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAGAT-TTGGTCACA
* * *
21621713 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAGGCTTTGGTCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAA-GATTTGGTCACA
** * * * *
21621764 TGTGTAGTACTATGTGCAGGCTACTAATTGAACCGGAAAATTTGATCACC
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAGATTTGGTCACA
* *
21621814 TGTGTAGTACTATGTGAAGACTACTACGTGTA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTA
21621846 TCGAATGATA
Statistics
Matches: 111, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
50 35 0.32
51 74 0.67
52 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAGATTTGGTCACA
Found at i:21628725 original size:23 final size:23
Alignment explanation
Indices: 21628694--21628744 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
21628684 ACCTACTTTC
* *
21628694 TTACTATAGTAATTTTCGGGGTA
1 TTACAATAGTAATTTTCGGGATA
21628717 TTACAATAGTAATTTTCGGGATA
1 TTACAATAGTAATTTTCGGGATA
21628740 TTACA
1 TTACA
21628745 GCCTTAGTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (23 bp):
TTACAATAGTAATTTTCGGGATA
Found at i:21632999 original size:50 final size:51
Alignment explanation
Indices: 21632934--21633074 Score: 178
Period size: 50 Copynumber: 2.8 Consensus size: 51
21632924 TTATTATCAT
* * *
21632934 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCA-AA-CTTT
1 TCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAATC-TA
* * * *
21632984 TCGGTTCACGTAGTAGCCTGCACATAGTACTACACATGTGACCATTATCTA
1 TCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAATCTA
* *
21633035 TCGATACACGTAGTAGTCTGCACTTAGTACTACACACGTG
1 TCGATACACGTAGTAGCCTGCACATAGTACTACACACGTG
21633075 TTTATAGGTA
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
50 39 0.51
51 37 0.48
52 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (51 bp):
TCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAATCTA
Found at i:21633057 original size:51 final size:51
Alignment explanation
Indices: 21632901--21633070 Score: 184
Period size: 51 Copynumber: 3.4 Consensus size: 51
21632891 TTCGGTGGTT
* * * *
21632901 TGCACATAGTACCACCCATGTAATTATTATC-ATTCGATACACGTAGTAGCC
1 TGCACATAGTACTACACATGTGATCATTATCTA-TCGATACACGTAGTAGCC
* * * * * *
21632952 TTCACATAGTACTACACACGTGATCA--AACTTTTCGGTTCACGTAGTAGCC
1 TGCACATAGTACTACACATGTGATCATTATC-TATCGATACACGTAGTAGCC
* *
21633002 TGCACATAGTACTACACATGTGACCATTATCTATCGATACACGTAGTAGTC
1 TGCACATAGTACTACACATGTGATCATTATCTATCGATACACGTAGTAGCC
*
21633053 TGCACTTAGTACTACACA
1 TGCACATAGTACTACACA
21633071 CGTGTTTATA
Statistics
Matches: 96, Mismatches: 19, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
49 2 0.02
50 39 0.41
51 53 0.55
52 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (51 bp):
TGCACATAGTACTACACATGTGATCATTATCTATCGATACACGTAGTAGCC
Found at i:21638618 original size:12 final size:11
Alignment explanation
Indices: 21638601--21638647 Score: 58
Period size: 12 Copynumber: 4.0 Consensus size: 11
21638591 TTAAGTTAAA
*
21638601 TAAAATATATGT
1 TAAAAT-TAAGT
21638613 TAAAATTAAGT
1 TAAAATTAAGT
21638624 TAATAATTAAGT
1 TAA-AATTAAGT
21638636 TAAAATGTAAGT
1 TAAAAT-TAAGT
21638648 ACATAAAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 10 0.31
12 22 0.69
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (11 bp):
TAAAATTAAGT
Found at i:21639515 original size:45 final size:44
Alignment explanation
Indices: 21639421--21639538 Score: 121
Period size: 45 Copynumber: 2.6 Consensus size: 44
21639411 CATTGTTTGA
* * * *
21639421 GAAAAGGAAAAGACCATTATTGAAAGAAATCATGGTATTATAATC
1 GAAAA-GAAAAGACCATGATTGAAAGATATCATGGCACTATAATC
* *
21639466 GAAAAGAAAAATACCATGATTGAAAGATATCATGGCACTA-AATTT
1 GAAAAG-AAAAGACCATGATTGAAAGATATCATGGCACTATAA-TC
* * *
21639511 GAAAAGGAAAGACCAAGGTTGAAAGATA
1 GAAAAGAAAAGACCATGATTGAAAGATA
21639539 CTATGACATC
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
44 21 0.34
45 40 0.66
ACGTcount: A:0.50, C:0.09, G:0.19, T:0.21
Consensus pattern (44 bp):
GAAAAGAAAAGACCATGATTGAAAGATATCATGGCACTATAATC
Found at i:21642124 original size:20 final size:20
Alignment explanation
Indices: 21642099--21642137 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
21642089 TACTTTCTTA
21642099 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
21642119 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
21642138 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:21642126 original size:12 final size:12
Alignment explanation
Indices: 21642088--21642138 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
21642078 ATCATGATCT
* *
21642088 TTACTTTCTTAT
1 TTACTTGCTTAC
*
21642100 TTACTTACTCT-C
1 TTACTTGCT-TAC
*
21642112 TTACTTGTTTAC
1 TTACTTGCTTAC
21642124 TTACTTGCTTAC
1 TTACTTGCTTAC
21642136 TTA
1 TTA
21642139 AATAACTCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
11 1 0.03
12 30 0.94
13 1 0.03
ACGTcount: A:0.18, C:0.22, G:0.04, T:0.57
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:21642489 original size:50 final size:50
Alignment explanation
Indices: 21642430--21642534 Score: 129
Period size: 50 Copynumber: 2.1 Consensus size: 50
21642420 ATGAGAGTTT
* * * *
21642430 TCATATCGGTGCCCATGCCATGTCCAAGACATGGTCTTACGGGGGACCTC
1 TCATATCGGTACCAACGCCATGTCCAAGACATGGTCCTACGGGGGACCTC
* * * * *
21642480 TCATCTCGGTACCAACGCCATGTCCCAGACATGGTCCTATGTGGGACCTT
1 TCATATCGGTACCAACGCCATGTCCAAGACATGGTCCTACGGGGGACCTC
21642530 TCATA
1 TCATA
21642535 ACCTCAATAA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TCATATCGGTACCAACGCCATGTCCAAGACATGGTCCTACGGGGGACCTC
Found at i:21649939 original size:62 final size:62
Alignment explanation
Indices: 21649873--21649991 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 62
21649863 AGACACACGT
* *
21649873 CCGTGTCCCTACCCGTGTAGCT-TTATACCACGAACAGTGAGGTACACGGCCTGGGCATACAC
1 CCGTGTCCCTACCCGTGT-GCTCTTATACCACAAACAGTGAGGTACAAGGCCTGGGCATACAC
** * * *
21649935 CCGTGTCCCTGGCCGTGTGGTCTTGTACCACAAACAGTGAGTTACAAGGCCTGGGCA
1 CCGTGTCCCTACCCGTGTGCTCTTATACCACAAACAGTGAGGTACAAGGCCTGGGCA
21649992 CATGCCCCTG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
61 2 0.04
62 47 0.96
ACGTcount: A:0.21, C:0.30, G:0.27, T:0.22
Consensus pattern (62 bp):
CCGTGTCCCTACCCGTGTGCTCTTATACCACAAACAGTGAGGTACAAGGCCTGGGCATACAC
Found at i:21650004 original size:62 final size:62
Alignment explanation
Indices: 21649898--21650014 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 62
21649888 TGTAGCTTTA
* * * *
21649898 TACCACGAACAGTGAGGTACACGGCCTGGGCATACACCCGTGTCCCTGGCCGTGTGGTCTTG
1 TACCACAAACAGTGAGGTACAAGGCCTGGGCACACACCCCTGTCCCTGGCCGTGTGGTCTTG
* ** *
21649960 TACCACAAACAGTGAGTTACAAGGCCTGGGCACATGCCCCTGTCCCTGGCTGTGT
1 TACCACAAACAGTGAGGTACAAGGCCTGGGCACACACCCCTGTCCCTGGCCGTGT
21650015 CAACTCTACA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 47 1.00
ACGTcount: A:0.20, C:0.31, G:0.28, T:0.21
Consensus pattern (62 bp):
TACCACAAACAGTGAGGTACAAGGCCTGGGCACACACCCCTGTCCCTGGCCGTGTGGTCTTG
Found at i:21653198 original size:19 final size:20
Alignment explanation
Indices: 21653150--21653212 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 20
21653140 ATTCATCATA
21653150 TTAA-TATTTTTAACATAAT
1 TTAATTATTTTTAACATAAT
21653169 TTAATTA-TTTTATA-AT-AT
1 TTAATTATTTTTA-ACATAAT
*
21653187 TTAATTATTTTTTGACAATAAT
1 TTAATTA-TTTTTAAC-ATAAT
21653209 TTAA
1 TTAA
21653213 CCGAAATAGC
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
18 9 0.25
19 12 0.33
20 7 0.19
21 2 0.06
22 6 0.17
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAATTATTTTTAACATAAT
Found at i:21653486 original size:21 final size:21
Alignment explanation
Indices: 21653462--21653502 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21653452 TCATAATAGA
21653462 ATTCAATAACATA-TCACATAT
1 ATTCAAT-ACATACTCACATAT
*
21653483 ATTCCATACATACTCACATA
1 ATTCAATACATACTCACATA
21653503 ATTTCCATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (21 bp):
ATTCAATACATACTCACATAT
Found at i:21653508 original size:21 final size:20
Alignment explanation
Indices: 21653470--21653511 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
21653460 GAATTCAATA
21653470 ACATATCACATATATTCCAT
1 ACATATCACATATATTCCAT
21653490 ACATACTCACATA-ATTTCCAT
1 ACATA-TCACATATA-TTCCAT
21653511 A
1 A
21653512 GCACATAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.33
Consensus pattern (20 bp):
ACATATCACATATATTCCAT
Found at i:21657395 original size:111 final size:112
Alignment explanation
Indices: 21657217--21657442 Score: 418
Period size: 111 Copynumber: 2.0 Consensus size: 112
21657207 CGCAAAAAAA
21657217 AAATCATGCATTATATATGATATATTTTTTTATCATATATAATTTATGACATGATATTTCAGACA
1 AAATCATGCATTATATATGA-ATATTTTTTTATCATATATAATTTATGACATGATATTTCAGACA
21657282 TAGCTAAGTTATTGAAAGAAAATAATTATTTTTTCTCAAATCCGTATT
65 TAGCTAAGTTATTGAAAGAAAATAATTATTTTTTCTCAAATCCGTATT
* *
21657330 AAATCATGCATTATCTATG-ATATTTTTTTGTCATATATAATTTATGACATGATATTTCAGACAT
1 AAATCATGCATTATATATGAATATTTTTTTATCATATATAATTTATGACATGATATTTCAGACAT
21657394 AGCTAAGTTATTGAAAGAAAATAATTATTTTTTCTCAAATCCGTATT
66 AGCTAAGTTATTGAAAGAAAATAATTATTTTTTCTCAAATCCGTATT
21657441 AA
1 AA
21657443 TAATTTATTA
Statistics
Matches: 111, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
111 93 0.84
113 18 0.16
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (112 bp):
AAATCATGCATTATATATGAATATTTTTTTATCATATATAATTTATGACATGATATTTCAGACAT
AGCTAAGTTATTGAAAGAAAATAATTATTTTTTCTCAAATCCGTATT
Found at i:21659171 original size:23 final size:22
Alignment explanation
Indices: 21659127--21659171 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
21659117 GATAAAAACT
*
21659127 AAACCCCAAAATTTGAAAACAA
1 AAACCCCAAAACTTGAAAACAA
21659149 AAACCCTCAAAACTT-AAACACAA
1 AAACCC-CAAAACTTGAAA-ACAA
21659172 TATTATCTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.58, C:0.27, G:0.02, T:0.13
Consensus pattern (22 bp):
AAACCCCAAAACTTGAAAACAA
Done.