Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004060.1 Hibiscus syriacus cultivar Beakdansim tig00008878_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 76948
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Found at i:6111 original size:63 final size:63
Alignment explanation
Indices: 5983--6104 Score: 183
Period size: 63 Copynumber: 1.9 Consensus size: 63
5973 TCTGCTACAA
* * *
5983 TGGATTCTGGGATTGAGCACCCAAATCAAGCTGTAAATGACAGGGTTGTCGAAGAACAACTCG
1 TGGATACTGAGATTGAGCACCCAAATCAAGCAGTAAATGACAGGGTTGTCGAAGAACAACTCG
**
6046 TGGATACTGAGATTGAGCACCCAAATCAAGCAGTAGGTGA-ATGGGTTGTCGAAGAACAA
1 TGGATACTGAGATTGAGCACCCAAATCAAGCAGTAAATGACA-GGGTTGTCGAAGAACAA
6105 TCCGTGGCTC
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
62 1 0.02
63 52 0.98
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (63 bp):
TGGATACTGAGATTGAGCACCCAAATCAAGCAGTAAATGACAGGGTTGTCGAAGAACAACTCG
Found at i:7485 original size:21 final size:22
Alignment explanation
Indices: 7461--7502 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
7451 GCAACTAACT
7461 TTGGAAAATGTTT-TTTCAAAG
1 TTGGAAAATGTTTCTTTCAAAG
*
7482 TTGGTAAATGTTTCTTTCAAA
1 TTGGAAAATGTTTCTTTCAAA
7503 AATGTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.45
Consensus pattern (22 bp):
TTGGAAAATGTTTCTTTCAAAG
Found at i:17771 original size:173 final size:171
Alignment explanation
Indices: 17458--17772 Score: 427
Period size: 173 Copynumber: 1.8 Consensus size: 171
17448 AAAGTCGAAC
*
17458 TTCTAAGAATGCCGTTTTTTTCTTTAATGTGATAATCAACTAAAATAACCAAAAGTAGCTCAAAA
1 TTCTAAGAATGCCGTTTTTTTCTTTAATGTGATAATCAACTAAAATAACCAAAAATAGCTCAAAA
** * * * * *
17523 TAGATCGTTAAAATTAACCCGAAACATCAAATTGAACAAAATAGAATTGAGTCTGCGAACTCCAA
66 TAGATCAATAAAATTAACCCGAAACATCAAATTAAACAAAAGAGAATAGAGTCTACAAACTCCAA
*
17588 TCGGTCAATCTATATATTTTTAAGAAACTTAAACAGTGAAT
131 TCGATCAATCTATATATTTTTAAGAAACTTAAACAGTGAAT
** * *
17629 TTCTAAG-ATGCCGATTCTTTTCTCTTTAATGTGATAATCAACTAAAATGTCTAAAAATGGCTCA
1 TTCTAAGAATGCCG-TT-TTTT-TCTTTAATGTGATAATCAACTAAAATAACCAAAAATAGCTCA
* * * *
17693 AAATATATCAATAAATTTAACCGGAAATATCAAATTAAACAAAAGAGAATAG-GTACTACAAACT
63 AAATAGATCAATAAAATTAACCCGAAACATCAAATTAAACAAAAGAGAATAGAGT-CTACAAACT
17757 CCAATCGATCAATCTA
127 CCAATCGATCAATCTA
17773 GACCATAGTT
Statistics
Matches: 123, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
170 6 0.05
171 9 0.07
172 6 0.05
173 102 0.83
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.30
Consensus pattern (171 bp):
TTCTAAGAATGCCGTTTTTTTCTTTAATGTGATAATCAACTAAAATAACCAAAAATAGCTCAAAA
TAGATCAATAAAATTAACCCGAAACATCAAATTAAACAAAAGAGAATAGAGTCTACAAACTCCAA
TCGATCAATCTATATATTTTTAAGAAACTTAAACAGTGAAT
Found at i:19033 original size:54 final size:54
Alignment explanation
Indices: 18914--19019 Score: 203
Period size: 54 Copynumber: 2.0 Consensus size: 54
18904 CAAGAGGAAA
*
18914 GAAAATCGTTCAAGTCTTTCCTTAATTAATACTAGGCGTCATCACCTTCGTAAT
1 GAAAATCGTTCAAGTCTTTCCTTAATTAATACTAGGCATCATCACCTTCGTAAT
18968 GAAAATCGTTCAAGTCTTTCCTTAATTAATACTAGGCATCATCACCTTCGTA
1 GAAAATCGTTCAAGTCTTTCCTTAATTAATACTAGGCATCATCACCTTCGTA
19020 CATTTACATG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (54 bp):
GAAAATCGTTCAAGTCTTTCCTTAATTAATACTAGGCATCATCACCTTCGTAAT
Found at i:19912 original size:24 final size:24
Alignment explanation
Indices: 19873--19933 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
19863 TGGTTTAGGA
* * *
19873 GGTGGAGCTGGGGGAGGGCTTGGC
1 GGTGGAGGTGGAGGAGGACTTGGC
*
19897 GGTGGAGGTGGAGGAGGACTTGGT
1 GGTGGAGGTGGAGGAGGACTTGGC
* *
19921 GGGGGTGGTGGAG
1 GGTGGAGGTGGAG
19934 CCGGTGGTGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.11, C:0.07, G:0.64, T:0.18
Consensus pattern (24 bp):
GGTGGAGGTGGAGGAGGACTTGGC
Found at i:19921 original size:21 final size:21
Alignment explanation
Indices: 19897--19964 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
19887 AGGGCTTGGC
19897 GGTGGAGGTGGAGGAGGACTT
1 GGTGGAGGTGGAGGAGGACTT
* * * *
19918 GGTGGGGGTGGTGGA-GCCGGT
1 GGTGGAGGTGGAGGAGGAC-TT
* * *
19939 GGTGGCGCTGGAGGAGGTCTT
1 GGTGGAGGTGGAGGAGGACTT
19960 GGTGG
1 GGTGG
19965 TGGTTTAGGA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
20 2 0.06
21 32 0.89
22 2 0.06
ACGTcount: A:0.10, C:0.09, G:0.60, T:0.21
Consensus pattern (21 bp):
GGTGGAGGTGGAGGAGGACTT
Found at i:19995 original size:30 final size:30
Alignment explanation
Indices: 19959--20264 Score: 177
Period size: 30 Copynumber: 10.1 Consensus size: 30
19949 GAGGAGGTCT
19959 TGGTGGTGGTTTAGGAGGCGGAGCAGGTGG
1 TGGTGGTGGTTTAGGAGGCGGAGCAGGTGG
* * *
19989 TGGTGGTGGTTTAGGAGGCGGAGCTGGAGC
1 TGGTGGTGGTTTAGGAGGCGGAGCAGGTGG
* ** * ** * **
20019 TGGCGGTGGCGGT-GGCGTTGGAGGAGGTCT
1 TGGTGGTGG-TTTAGGAGGCGGAGCAGGTGG
* * * *
20049 TGGTGGCGGTTTAGGAGGTGGAGCTGGAGG
1 TGGTGGTGGTTTAGGAGGCGGAGCAGGTGG
* **
20079 CGGCAGTGGTTTAGGAGGCGGAGCAGGTGG
1 TGGTGGTGGTTTAGGAGGCGGAGCAGGTGG
* * * *
20109 TGGTCGTGGTTTAGGAGGCGGAGCTGGAGA
1 TGGTGGTGGTTTAGGAGGCGGAGCAGGTGG
* * ** * ** * **
20139 TGGAGCTGGCGGT-GGCGTTGGAGGAGGTCT
1 TGGTGGTGG-TTTAGGAGGCGGAGCAGGTGG
* *
20169 TGGTGGCGGTTTAGGA-GCTGGAGCTGGTGG
1 TGGTGGTGGTTTAGGAGGC-GGAGCAGGTGG
* ** *
20199 CGGCAGTGGTTTAGGAGGCGGAGCTGGTGG
1 TGGTGGTGGTTTAGGAGGCGGAGCAGGTGG
*
20229 TGGTGGTGCTGGTTTAGGAGGCGGAGCAGGAGG
1 TGGT-G-G-TGGTTTAGGAGGCGGAGCAGGTGG
20262 TGG
1 TGG
20265 AGCTGGAGGC
Statistics
Matches: 195, Mismatches: 72, Indels: 15
0.69 0.26 0.05
Matches are distributed among these distances:
29 2 0.01
30 163 0.84
31 4 0.02
32 1 0.01
33 25 0.13
ACGTcount: A:0.13, C:0.10, G:0.54, T:0.23
Consensus pattern (30 bp):
TGGTGGTGGTTTAGGAGGCGGAGCAGGTGG
Found at i:20041 original size:90 final size:90
Alignment explanation
Indices: 19939--20102 Score: 256
Period size: 90 Copynumber: 1.8 Consensus size: 90
19929 TGGAGCCGGT
* * * **
19939 GGTGGCGCTGGAGGAGGTCTTGGTGGTGGTTTAGGAGGCGGAGCAGGTGGTGGTGGTGGTTTAGG
1 GGTGGCGCTGGAGGAGGTCTTGGTGGCGGTTTAGGAGGCGGAGCAGGAGGCGGCAGTGGTTTAGG
20004 AGGCGGAGCTGGAGCTGGCGGTGGC
66 AGGCGGAGCTGGAGCTGGCGGTGGC
* * *
20029 GGTGGCGTTGGAGGAGGTCTTGGTGGCGGTTTAGGAGGTGGAGCTGGAGGCGGCAGTGGTTTAGG
1 GGTGGCGCTGGAGGAGGTCTTGGTGGCGGTTTAGGAGGCGGAGCAGGAGGCGGCAGTGGTTTAGG
20094 AGGCGGAGC
66 AGGCGGAGC
20103 AGGTGGTGGT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
90 66 1.00
ACGTcount: A:0.12, C:0.11, G:0.55, T:0.22
Consensus pattern (90 bp):
GGTGGCGCTGGAGGAGGTCTTGGTGGCGGTTTAGGAGGCGGAGCAGGAGGCGGCAGTGGTTTAGG
AGGCGGAGCTGGAGCTGGCGGTGGC
Found at i:20100 original size:120 final size:120
Alignment explanation
Indices: 19964--20270 Score: 506
Period size: 120 Copynumber: 2.5 Consensus size: 120
19954 GGTCTTGGTG
* * *
19964 GTGGTTTAGGAGGCGGAGCAGGTGGTGGTGGTGGTTTAGGAGGCGGAGCTGGAGCTGGCGGTGGC
1 GTGGTTTAGGAGGCGGAGCAGGTGGTGGTGGTGGTTTAGGAGGCGGAGCTGGAGATGGAGCTGGC
*
20029 GGTGGCGTTGGAGGAGGTCTTGGTGGCGGTTTAGGAGGTGGAGCTGGAGGCGGCA
66 GGTGGCGTTGGAGGAGGTCTTGGTGGCGGTTTAGGAGCTGGAGCTGGAGGCGGCA
*
20084 GTGGTTTAGGAGGCGGAGCAGGTGGTGGTCGTGGTTTAGGAGGCGGAGCTGGAGATGGAGCTGGC
1 GTGGTTTAGGAGGCGGAGCAGGTGGTGGTGGTGGTTTAGGAGGCGGAGCTGGAGATGGAGCTGGC
*
20149 GGTGGCGTTGGAGGAGGTCTTGGTGGCGGTTTAGGAGCTGGAGCTGGTGGCGGCA
66 GGTGGCGTTGGAGGAGGTCTTGGTGGCGGTTTAGGAGCTGGAGCTGGAGGCGGCA
* * *
20204 GTGGTTTAGGAGGCGGAGCTGGTGGTGGTGGTGCTGGTTTAGGAGGCGGAGCAGGAGGTGGAGCT
1 GTGGTTTAGGAGGCGGAGCAGGTGGTGGT-G-G-TGGTTTAGGAGGCGGAGCTGGAGATGGAGCT
20269 GG
63 GG
20271 AGGCGGAGCA
Statistics
Matches: 174, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
120 142 0.82
122 1 0.01
123 31 0.18
ACGTcount: A:0.13, C:0.11, G:0.54, T:0.22
Consensus pattern (120 bp):
GTGGTTTAGGAGGCGGAGCAGGTGGTGGTGGTGGTTTAGGAGGCGGAGCTGGAGATGGAGCTGGC
GGTGGCGTTGGAGGAGGTCTTGGTGGCGGTTTAGGAGCTGGAGCTGGAGGCGGCA
Found at i:20233 original size:60 final size:59
Alignment explanation
Indices: 19964--20261 Score: 226
Period size: 60 Copynumber: 4.9 Consensus size: 59
19954 GGTCTTGGTG
* *
19964 GTGGTTTAGGAGGCGGAGCAGGTGGTGGTGGTGGTTTAGGAGGCGGAGCTGGA-GCTGGCG
1 GTGGTTTAGGAGGCGGAGCAGGTGGTGGTGGCGGTTTAGGA-GCGGAGCTGGAGGC-GGCA
** * ** * ** *
20024 GTGGCGGT-GGCGTTGGAGGAGGTCTTGGTGGCGGTTTAGGAGGTGGAGCTGGAGGCGGCA
1 GTGG-TTTAGGAGGCGGAGCAGGTGGTGGTGGCGGTTTAGGA-GCGGAGCTGGAGGCGGCA
* * **
20084 GTGGTTTAGGAGGCGGAGCAGGTGGTGGTCGTGGTTTAGGAGGCGGAGCTGGAGATGG-A
1 GTGGTTTAGGAGGCGGAGCAGGTGGTGGTGGCGGTTTAGGA-GCGGAGCTGGAGGCGGCA
** * ** * ** *
20143 GCTGGCGGT-GGCGTTGGAGGAGGTCTTGGTGGCGGTTTAGGAGCTGGAGCTGGTGGCGGCA
1 G-TGG-TTTAGGAGGCGGAGCAGGTGGTGGTGGCGGTTTAGGAGC-GGAGCTGGAGGCGGCA
* *
20204 GTGGTTTAGGAGGCGGAGCTGGTGGTGGTGGTGCTGGTTTAGGAGGCGGAGCAGGAGG
1 GTGGTTTAGGAGGCGGAGCAGGTGGTGGT-G-GC-GGTTTAGGA-GCGGAGCTGGAGG
20262 TGGAGCTGGA
Statistics
Matches: 178, Mismatches: 48, Indels: 21
0.72 0.19 0.09
Matches are distributed among these distances:
59 6 0.03
60 143 0.80
61 7 0.04
62 2 0.01
63 18 0.10
64 2 0.01
ACGTcount: A:0.13, C:0.11, G:0.54, T:0.22
Consensus pattern (59 bp):
GTGGTTTAGGAGGCGGAGCAGGTGGTGGTGGCGGTTTAGGAGCGGAGCTGGAGGCGGCA
Found at i:20259 original size:12 final size:12
Alignment explanation
Indices: 20244--20282 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
20234 GTGCTGGTTT
20244 AGGAGGCGGAGC
1 AGGAGGCGGAGC
*
20256 AGGAGGTGGAGC
1 AGGAGGCGGAGC
*
20268 TGGAGGCGGAGC
1 AGGAGGCGGAGC
20280 AGG
1 AGG
20283 TGGAGGTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.23, C:0.13, G:0.59, T:0.05
Consensus pattern (12 bp):
AGGAGGCGGAGC
Found at i:20311 original size:120 final size:117
Alignment explanation
Indices: 19964--20311 Score: 421
Period size: 120 Copynumber: 2.9 Consensus size: 117
19954 GGTCTTGGTG
* * *
19964 GTGGTTTAGGAGGCGGAGCAGGTGGTGGTGGTGGTTTAGGAGGCGGAGCTGGAGCTGGCGGTGGC
1 GTGGTTTAGGAGGCGGAGCAGGTGGTGGTGGTGGTTTAGGAGGCGGAGCTGGAGATGGAGCTGGC
**
20029 GGTGGCGTTGGAGGAGGTCTTGGTGGCGGTTTAGGAGGTGGAGCTGGAGGCGGCA
66 GGTGGCGTTGGAGGAGGTCTTGGTGGCGG--T-GCTGGTGGAGCTGGAGGCGGCA
*
20084 GTGGTTTAGGAGGCGGAGCAGGTGGTGGTCGTGGTTTAGGAGGCGGAGCTGGAGATGGAGCTGGC
1 GTGGTTTAGGAGGCGGAGCAGGTGGTGGTGGTGGTTTAGGAGGCGGAGCTGGAGATGGAGCTGGC
* *
20149 GGTGGCGTTGGAGGAGGTCTTGGTGGCGGT-TTAGGAGCTGGAGCTGGTGGCGGCA
66 GGTGGCGTTGGAGGAGGTCTTGGTGGCGGTGCT--G-G-TGGAGCTGGAGGCGGCA
* * *
20204 GTGGTTTAGGAGGCGGAGCTGGTGGTGGTGGTGCTGGTTTAGGAGGCGGAGCAGGAGGTGGAGCT
1 GTGGTTTAGGAGGCGGAGCAGGTGGTGGT-G-G-TGGTTTAGGAGGCGGAGCTGGAGATGGAGCT
* * * ** * *
20269 GGAGGCGGAGCAGGTGGAGGT-TTCGGAGGCGGTGCTGGTGGAG
63 GGCGGTGGCGTTGGAGGAGGTCTT-GGTGGCGGTGCTGGTGGAG
20312 GAATTGGGGG
Statistics
Matches: 200, Mismatches: 19, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
118 2 0.01
119 1 0.00
120 139 0.69
121 1 0.00
122 4 0.02
123 52 0.26
124 1 0.00
ACGTcount: A:0.13, C:0.11, G:0.54, T:0.22
Consensus pattern (117 bp):
GTGGTTTAGGAGGCGGAGCAGGTGGTGGTGGTGGTTTAGGAGGCGGAGCTGGAGATGGAGCTGGC
GGTGGCGTTGGAGGAGGTCTTGGTGGCGGTGCTGGTGGAGCTGGAGGCGGCA
Found at i:24975 original size:30 final size:30
Alignment explanation
Indices: 24919--25007 Score: 144
Period size: 30 Copynumber: 3.0 Consensus size: 30
24909 CCCGAAGGAC
* *
24919 CTATCCAGAGGTCACACAGA-CCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
24948 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
24978 CTGTCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
25008 ACTGTCCATA
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 18 0.32
30 38 0.68
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:25043 original size:31 final size:31
Alignment explanation
Indices: 25003--25103 Score: 132
Period size: 31 Copynumber: 3.2 Consensus size: 31
24993 AAAGATCCTC
*
25003 GGTAAACTGTCCATATGTTCCTTAGAACATA
1 GGTAAACTGTCCATATGTTCCATAGAACATA
* * *
25034 GGTATACTGTCCATATGTCTCGAAAG-ACATA
1 GGTAAACTGTCCATATGT-TCCATAGAACATA
*
25065 GGTAAAACTGTCCATATGTTCCGTAGAACATA
1 GGT-AAACTGTCCATATGTTCCATAGAACATA
25097 GGTAAAC
1 GGTAAAC
25104 CCTCGACTCT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
31 33 0.56
32 26 0.44
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (31 bp):
GGTAAACTGTCCATATGTTCCATAGAACATA
Found at i:28350 original size:24 final size:24
Alignment explanation
Indices: 28321--28367 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
28311 AATATTAAAA
*
28321 TATAAAGATA-AAATACAATACATG
1 TATAAAGAAATAAATA-AATACATG
*
28345 TATAAATAAATAAATAAATACAT
1 TATAAAGAAATAAATAAATACAT
28368 ACATATAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (24 bp):
TATAAAGAAATAAATAAATACATG
Found at i:28761 original size:16 final size:18
Alignment explanation
Indices: 28736--28768 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
28726 ATTTAAATAT
28736 AAAATATTTT-AGTTTTA
1 AAAATATTTTAAGTTTTA
28753 AAAAT-TTTTAAGTTTT
1 AAAATATTTTAAGTTTT
28769 TATCCACACG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (18 bp):
AAAATATTTTAAGTTTTA
Found at i:29079 original size:15 final size:15
Alignment explanation
Indices: 29059--29088 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
29049 GTAAAGCGTC
*
29059 CAATAATAATAAAAT
1 CAATAAAAATAAAAT
29074 CAATAAAAATAAAAT
1 CAATAAAAATAAAAT
29089 ATTTCTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (15 bp):
CAATAAAAATAAAAT
Found at i:30374 original size:20 final size:20
Alignment explanation
Indices: 30349--30400 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
30339 TAGTTGAAAA
30349 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
30369 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
30389 TCGTC-TTGCGAT
1 TCG-CGTTGCGAT
30401 AGTCTACAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.44
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:30532 original size:6 final size:6
Alignment explanation
Indices: 30521--30551 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
30511 GACATGTATT
30521 ACCACG ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG A
30552 GACGGACGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:31128 original size:41 final size:42
Alignment explanation
Indices: 31047--31143 Score: 126
Period size: 41 Copynumber: 2.3 Consensus size: 42
31037 GGGTCGTGGT
*
31047 CACTATCGCAACGTATTTGTAAACTATCGCAACAACAACTGTA
1 CACTATCGCAACGAATTTGTAAAC-ATCGCAACAACAACTGTA
* *
31090 CACTATCGCAACGAATTTAG-AAA-ATCGCATCGACAACTGTA
1 CACTATCGCAACGAATTT-GTAAACATCGCAACAACAACTGTA
*
31131 GACTATCGCAACG
1 CACTATCGCAACG
31144 TGAAATGGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
41 28 0.57
43 20 0.41
44 1 0.02
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (42 bp):
CACTATCGCAACGAATTTGTAAACATCGCAACAACAACTGTA
Found at i:31138 original size:22 final size:22
Alignment explanation
Indices: 31064--31143 Score: 76
Period size: 22 Copynumber: 3.8 Consensus size: 22
31054 GCAACGTATT
* *
31064 TGTAAACTATCGCAACAACAAC
1 TGTAGACTATCGCAACGACAAC
*
31086 TGTACACTATCGCAACG--AA-
1 TGTAGACTATCGCAACGACAAC
* ** *
31105 TTTAGAAAATCGCATCGACAAC
1 TGTAGACTATCGCAACGACAAC
31127 TGTAGACTATCGCAACG
1 TGTAGACTATCGCAACG
31144 TGAAATGGAA
Statistics
Matches: 44, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
19 12 0.27
20 2 0.05
21 2 0.05
22 28 0.64
ACGTcount: A:0.39, C:0.25, G:0.15, T:0.21
Consensus pattern (22 bp):
TGTAGACTATCGCAACGACAAC
Found at i:31195 original size:21 final size:21
Alignment explanation
Indices: 31132--31195 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 21
31122 ACAACTGTAG
* *
31132 ACTATCGCAACGTGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * ** *
31153 A-AAGCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
31173 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
31194 AC
1 AC
31196 GCGAATTTGC
Statistics
Matches: 30, Mismatches: 12, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:32773 original size:168 final size:160
Alignment explanation
Indices: 32487--32816 Score: 473
Period size: 168 Copynumber: 2.0 Consensus size: 160
32477 AAGTTCTTCA
32487 TTGTATTCCAAGGGTCCTTGGATGCTTTTAGAGCCAAGTATGAATGATATATATATATGATCTTG
1 TTGTATTCCAAGGGTCCTTGGATGCTTTTAGAGCCAAGTATGAATGATATATATATATGATCTTG
* * ** *
32552 AAGATAACTAGTTATTGGTTTCGTGTCGTGTTTTCGAGTTTTCGAGATAGATGGATTTTAGTGCG
66 AAGATAACTAGCTATCGGTTGAGTGTCATGTTTTCGAGTTTTCGAGATAGATGGATTTTAGTGCG
*
32617 GCATTGTGAGGCTGTCCACTGCAAGTTGCC
131 GCACTGTGAGGCTGTCCACTGCAAGTTGCC
*
32647 TTGTATTCCAAGGGTCTTTGGATGCTTTTAGAGCCAAGTATGAATGATATATTGATATATATATA
1 TTGTATTCCAAGGGTCCTTGGATGCTTTTAGAGCCAAG--T--ATG--A-A-TGATATATATATA
32712 TGATCTTGAAGATAACTAGCTATCGGTTGAGTGTCATAGTTTT-GAGTTTTCGAGATAGATGGAT
58 TGATCTTGAAGATAACTAGCTATCGGTTGAGTGTCAT-GTTTTCGAGTTTTCGAGATAGATGGAT
* ** *
32776 TTTAGTGGGGCACTGTGTTGTTGTCCACTGCAAGTTGCC
122 TTTAGTGCGGCACTGTGAGGCTGTCCACTGCAAGTTGCC
32815 TT
1 TT
32817 TAATGCCAAA
Statistics
Matches: 150, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
160 37 0.25
162 1 0.01
164 3 0.02
166 1 0.01
167 1 0.01
168 102 0.68
169 5 0.03
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.38
Consensus pattern (160 bp):
TTGTATTCCAAGGGTCCTTGGATGCTTTTAGAGCCAAGTATGAATGATATATATATATGATCTTG
AAGATAACTAGCTATCGGTTGAGTGTCATGTTTTCGAGTTTTCGAGATAGATGGATTTTAGTGCG
GCACTGTGAGGCTGTCCACTGCAAGTTGCC
Found at i:34890 original size:40 final size:42
Alignment explanation
Indices: 34843--34921 Score: 117
Period size: 40 Copynumber: 1.9 Consensus size: 42
34833 TGAAAAAATA
34843 ATTATTAAAACACAATTA-T-TATAAAAAAATATAAATAATG
1 ATTATTAAAACACAATTATTGTATAAAAAAATATAAATAATG
* * *
34883 ATTATTAAAACATAATTATTGTATACAAATATATAAATA
1 ATTATTAAAACACAATTATTGTATAAAAAAATATAAATA
34922 TCTACCAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 17 0.50
41 1 0.03
42 16 0.47
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (42 bp):
ATTATTAAAACACAATTATTGTATAAAAAAATATAAATAATG
Found at i:34900 original size:14 final size:13
Alignment explanation
Indices: 34836--34902 Score: 57
Period size: 14 Copynumber: 5.0 Consensus size: 13
34826 TTGATCTTGA
34836 AAAAATAATTATT
1 AAAAATAATTATT
*
34849 AAAACACAATTATT
1 AAAA-ATAATTATT
*
34863 ATAAAA-AAATA-T
1 A-AAAATAATTATT
*
34875 AAATAATGATTATT
1 AAA-AATAATTATT
34889 AAAACATAATTATT
1 AAAA-ATAATTATT
34903 GTATACAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
11 2 0.05
12 4 0.09
13 12 0.28
14 22 0.51
15 3 0.07
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (13 bp):
AAAAATAATTATT
Found at i:37152 original size:49 final size:49
Alignment explanation
Indices: 37080--37179 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
37070 TTTTCATAGT
37080 ACAAATATAGGATACCACAATACGATACATTACAATTCCAATAAAAAGG
1 ACAAATATAGGATACCACAATACGATACATTACAATTCCAATAAAAAGG
*
37129 ACAAATATCGGATACCACAATACGATACATTACAATTCCAATAAAAAGG
1 ACAAATATAGGATACCACAATACGATACATTACAATTCCAATAAAAAGG
37178 AC
1 AC
37180 GACATTGTTG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.50, C:0.20, G:0.10, T:0.20
Consensus pattern (49 bp):
ACAAATATAGGATACCACAATACGATACATTACAATTCCAATAAAAAGG
Found at i:37721 original size:20 final size:20
Alignment explanation
Indices: 37627--37995 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
37617 GATTTTCCAT
* ** *
37627 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
37647 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
37667 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
37687 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
37707 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
37727 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
37747 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
37767 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
37787 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
37807 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
37827 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
37847 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
37867 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
37887 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
37907 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
37927 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
37947 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
37967 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
37987 AATCACAAC
1 AATCGCAAC
37996 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:38707 original size:24 final size:24
Alignment explanation
Indices: 38668--38714 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
38658 AAATTTGGTC
38668 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
38692 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
38715 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:40815 original size:19 final size:19
Alignment explanation
Indices: 40793--41080 Score: 320
Period size: 19 Copynumber: 16.4 Consensus size: 19
40783 CGGAAAATAC
*
40793 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
40812 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
40826 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
40846 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
40860 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
40879 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
40898 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
40912 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
40931 AATCG-AA-CCGACAT---
1 AATCGCAATGCGAAATGAA
*
40945 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
40964 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
40983 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
41002 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
41021 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
41035 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
41054 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
41073 AATCGCAA
1 AATCGCAA
41081 CGAGATAATC
Statistics
Matches: 230, Mismatches: 13, Indels: 52
0.78 0.04 0.18
Matches are distributed among these distances:
14 45 0.20
15 4 0.02
16 16 0.07
17 15 0.07
18 5 0.02
19 132 0.57
20 13 0.06
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:40845 original size:34 final size:33
Alignment explanation
Indices: 40793--40882 Score: 128
Period size: 34 Copynumber: 2.7 Consensus size: 33
40783 CGGAAAATAC
*
40793 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCCCAACGA-GAA
* *
40826 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCCCAACGAGAA
40860 AATCGCAATGCGAAATGAAAATC
1 AATCGCAATGCGAAATGAAAATC
40883 GCAATGCGAA
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
33 22 0.42
34 29 0.56
35 1 0.02
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.13
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCCCAACGAGAA
Found at i:40880 original size:33 final size:33
Alignment explanation
Indices: 40793--41061 Score: 180
Period size: 33 Copynumber: 7.8 Consensus size: 33
40783 CGGAAAATAC
* *
40793 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAA
*
40826 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGAGAA
40860 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
* * *
40898 AATCGCAA--CG--A-GAGAATCGCAATGCG-A
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA
* ** *
40925 AAT-GAAAAT-CGAACCGACATAATCGCAATGCGAAATTAA
1 AATCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAA
*
40964 AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
41002 AATCGCAATGCGAAATGAAAATCGCAACGA-AA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA
41034 GAATCGCAATGCGAAATGAAAATCGCAA
1 -AATCGCAATGCGAAATGAAAATCGCAA
41062 TGCGAAATGA
Statistics
Matches: 195, Mismatches: 18, Indels: 46
0.75 0.07 0.18
Matches are distributed among these distances:
26 1 0.01
27 6 0.03
28 3 0.02
31 3 0.02
32 2 0.01
33 71 0.36
34 31 0.16
35 4 0.02
36 4 0.02
37 1 0.01
38 54 0.28
39 8 0.04
40 7 0.04
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAA
Found at i:40908 original size:52 final size:55
Alignment explanation
Indices: 40821--41102 Score: 291
Period size: 52 Copynumber: 5.4 Consensus size: 55
40811 AAATCCCAAC
*
40821 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CG-A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
*
40874 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CG-A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
* * * *
40926 ATGAAAATCG-AA-CCGACAT---AATCGCAATGCGAAATTAAAATCGCAATACGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
40978 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
41033 A-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
*
41083 A-GATAATCGCAATGCGAAAT
1 ATGAAAATCGCAATGCGAAAT
41103 TATAAACGCA
Statistics
Matches: 209, Mismatches: 8, Indels: 25
0.86 0.03 0.10
Matches are distributed among these distances:
47 8 0.04
49 2 0.01
50 7 0.03
51 3 0.01
52 134 0.64
53 18 0.09
54 6 0.03
55 5 0.02
57 26 0.12
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (55 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
Found at i:41091 original size:33 final size:36
Alignment explanation
Indices: 40821--41102 Score: 262
Period size: 33 Copynumber: 8.1 Consensus size: 36
40811 AAATCCCAAC
40821 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA--CG--
1 ATGAAAATCGCAA-GC-G-AATGAAAATCGCAATGCGAA
*
40856 A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
*
40893 ATGAAAATCGCAA-CG-A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
*
40926 ATGAAAATCG-AACCGACAT---AATCGCAATGCGAA
1 ATGAAAATCGCAAGCGA-ATGAAAATCGCAATGCGAA
* *
40959 ATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
40997 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAA
1 ATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
41033 A-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
*
41068 ATGAAAATCGCAA-CG-A-GATAATCGCAATGCGAA
1 ATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
41101 AT
1 AT
41103 TATAAACGCA
Statistics
Matches: 219, Mismatches: 8, Indels: 42
0.81 0.03 0.16
Matches are distributed among these distances:
32 2 0.01
33 112 0.51
34 17 0.08
35 14 0.06
36 11 0.05
37 1 0.00
38 62 0.28
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (36 bp):
ATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
Found at i:41118 original size:71 final size:71
Alignment explanation
Indices: 40879--41118 Score: 259
Period size: 71 Copynumber: 3.4 Consensus size: 71
40869 GCGAAATGAA
* *
40879 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCG-AA
1 AATCGCAATGCGAAATTAAAA-CGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
*
40938 CCGACAT
65 CCGAGAT
*
40945 AATCGCAATGCGAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATTAAAA-CGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
* *
41010 TGCGAAATGAA
65 -CCG--A-GAT
* *
41021 AATCGCAA--CGAAA--GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-
1 AATCGCAATGCGAAATTAAAACGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAC
41081 CGAGAT
66 CGAGAT
*
41087 AATCGCAATGCGAAATTATAAACGCATTGCGA
1 AATCGCAATGCGAAATTA-AAACGCAATGCGA
41119 TTTTCATTTC
Statistics
Matches: 147, Mismatches: 12, Indels: 25
0.80 0.07 0.14
Matches are distributed among these distances:
66 36 0.24
67 1 0.01
68 7 0.05
69 2 0.01
70 1 0.01
71 79 0.54
72 4 0.03
73 2 0.01
74 5 0.03
75 1 0.01
76 9 0.06
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (71 bp):
AATCGCAATGCGAAATTAAAACGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAC
CGAGAT
Found at i:41218 original size:19 final size:19
Alignment explanation
Indices: 41109--41210 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
41099 AAATTATAAA
41109 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
41128 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
41148 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
41164 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
41181 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
41200 CGCATTGCGAT
1 CGCATTGCGAT
41211 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:41336 original size:14 final size:14
Alignment explanation
Indices: 41317--41353 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
41307 CATCAATTAC
41317 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
41331 ACAAATCATCTTTT
1 ACAAATCAACTTTT
41345 ACAAATCAA
1 ACAAATCAA
41354 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:43289 original size:19 final size:19
Alignment explanation
Indices: 43249--43377 Score: 98
Period size: 19 Copynumber: 7.3 Consensus size: 19
43239 TAGTTTACTT
* *
43249 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
43269 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
43288 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
43307 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
* **
43321 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
43340 TCGCAA--CG-AA--AGAA
1 TCGCAACGCGAAACCAAAA
43354 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
43373 TCGCA
1 TCGCA
43378 GTTGCGATTT
Statistics
Matches: 89, Mismatches: 10, Indels: 21
0.74 0.08 0.17
Matches are distributed among these distances:
14 18 0.20
15 1 0.01
16 6 0.07
17 6 0.07
18 1 0.01
19 44 0.49
20 13 0.15
ACGTcount: A:0.47, C:0.26, G:0.18, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:43324 original size:14 final size:14
Alignment explanation
Indices: 43305--43361 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
43295 GCGAAATGAA
*
43305 AATCGCAACGACAG
1 AATCGCAACGAAAG
43319 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
43336 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
43352 AATCGCAACG
1 AATCGCAACG
43362 CGAAACCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:43332 original size:33 final size:33
Alignment explanation
Indices: 43286--43377 Score: 148
Period size: 33 Copynumber: 2.8 Consensus size: 33
43276 GCGAAACCAA
*
43286 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
43319 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
**
43352 AATCGCAACGCGAAACCAAAATCGCA
1 AATCGCAACGCGAAATGAAAATCGCA
43378 GTTGCGATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.47, C:0.24, G:0.20, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:43561 original size:92 final size:93
Alignment explanation
Indices: 43448--43917 Score: 894
Period size: 92 Copynumber: 5.1 Consensus size: 93
43438 TTGAATGGAT
43448 AAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
43512 AGTTTAGCATAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
43540 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
43605 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
43633 AAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
43697 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
43725 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGATTACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
43789 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
43817 AAATTTACTTTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
43881 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
43909 AAATTTACT
1 AAATTTACT
43918 AAGCAATCTA
Statistics
Matches: 372, Mismatches: 3, Indels: 6
0.98 0.01 0.02
Matches are distributed among these distances:
91 22 0.06
92 244 0.66
93 106 0.28
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:45659 original size:33 final size:33
Alignment explanation
Indices: 45614--45727 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
45604 TCTTTTGGTT
45614 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
45647 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
45680 GAAATG-AAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
45712 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
45728 TGCGATTTTG
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
32 31 0.41
33 45 0.59
ACGTcount: A:0.45, C:0.21, G:0.25, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:45660 original size:19 final size:18
Alignment explanation
Indices: 45621--45732 Score: 95
Period size: 14 Copynumber: 6.8 Consensus size: 18
45611 GTTGAAATGA
45621 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
45636 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
45653 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
45669 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
45686 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
*
45701 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
45718 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
45733 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 24
0.74 0.04 0.22
Matches are distributed among these distances:
14 24 0.30
15 1 0.01
16 18 0.23
17 8 0.10
18 8 0.10
19 20 0.25
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:45763 original size:14 final size:14
Alignment explanation
Indices: 45744--45798 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
45734 TTTGGTTTCG
45744 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
45758 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
45777 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
45791 CGTTGCGA
1 CGTTGCGA
45799 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:45961 original size:32 final size:32
Alignment explanation
Indices: 45922--45990 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
45912 ACTAACTTGA
*
45922 AAATCGCAACGAGAGAATAGCAACGCGAAATG
1 AAATCGCAACGACAGAATAGCAACGCGAAATG
* *
45954 AAATCGCAACGACAGAATCGTAACGCGAAATG
1 AAATCGCAACGACAGAATAGCAACGCGAAATG
45986 AAATC
1 AAATC
45991 TAAGTGAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (32 bp):
AAATCGCAACGACAGAATAGCAACGCGAAATG
Found at i:45964 original size:18 final size:18
Alignment explanation
Indices: 45941--45990 Score: 54
Period size: 16 Copynumber: 3.0 Consensus size: 18
45931 CGAGAGAATA
45941 GCAACGCGAAATGAAATC
1 GCAACGCGAAATGAAATC
*
45959 GCAA--CGACA-G-AATC
1 GCAACGCGAAATGAAATC
*
45973 GTAACGCGAAATGAAATC
1 GCAACGCGAAATGAAATC
45991 TAAGTGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 8
0.69 0.08 0.22
Matches are distributed among these distances:
14 7 0.28
15 1 0.04
16 8 0.32
17 1 0.04
18 8 0.32
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (18 bp):
GCAACGCGAAATGAAATC
Found at i:46223 original size:22 final size:22
Alignment explanation
Indices: 46171--46225 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
46161 TGGTTGTGAG
**
46171 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
46193 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
46215 GGATTTCTTCG
1 GGATTTCTTCG
46226 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:46396 original size:20 final size:20
Alignment explanation
Indices: 46371--46564 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
46361 CTTTAAATAT
46371 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
46391 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
46413 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
46432 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
46452 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
46472 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
46492 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
46512 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
46532 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
46552 CGCGTTGCGATTT
1 CGCGTTGCGATTT
46565 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:46558 original size:60 final size:60
Alignment explanation
Indices: 46371--46564 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
46361 CTTTAAATAT
**
46371 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
46432 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
46492 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
46552 CGCGTTGCGATTT
1 CGCGTTGCGATTT
46565 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:46581 original size:21 final size:20
Alignment explanation
Indices: 46557--46633 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
46547 ATATTCGCGT
46557 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
46578 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
46598 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
46620 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
46634 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:46644 original size:20 final size:20
Alignment explanation
Indices: 46619--46670 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
46609 AAGAATCGCG
*
46619 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
46639 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
46659 TTGCGATTCTGG
1 TTGCGATTCTGG
46671 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:48593 original size:77 final size:74
Alignment explanation
Indices: 48382--48641 Score: 246
Period size: 77 Copynumber: 3.5 Consensus size: 74
48372 CATATTTGAA
*
48382 TATAATTTATAATATTTTTTTATATATTTTTAAATTTTGTTAATGTGAAAAATAATTCTTAATTC
1 TATAATTTATAATA-TTTTTTATATATTTTTAATTTTTGTTAATG-GAAAAATAATTCTTAATT-
*
48447 TTATTTATTAAA
63 TTATTTATTAAC
* * * ***** *
48459 AATAATTTA-CA-ACTTTTTATATA-TTTTAA-AAAAATTAATAGAAGAAATAATTCTTAATTTG
1 TATAATTTATAATATTTTTTATATATTTTTAATTTTTGTTAATGGAA-AAATAATTCTTAATTT-
*
48520 TATGTATTAAC
64 TATTTATTAAC
* **
48531 TATAATTTATAATATTTTTTTATATATTTTTAATTTTTGTTAATGGAATAAACAATGATTAATTT
1 TATAATTTATAATA-TTTTTTATATATTTTTAATTTTTGTTAATGGAA-AAATAATTCTTAA-TT
48596 TTATTTATTAAC
63 TTATTTATTAAC
* *
48608 CATAATTTAT-ACA-TTTTTATATATTTTT-ATTTTT
1 TATAATTTATAATATTTTTTATATATTTTTAATTTTT
48642 CATAACTGTT
Statistics
Matches: 148, Mismatches: 27, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
71 4 0.03
72 37 0.25
73 13 0.09
74 26 0.18
75 11 0.07
76 9 0.06
77 45 0.30
78 3 0.02
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (74 bp):
TATAATTTATAATATTTTTTATATATTTTTAATTTTTGTTAATGGAAAAATAATTCTTAATTTTA
TTTATTAAC
Found at i:51254 original size:18 final size:19
Alignment explanation
Indices: 51231--51272 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
51221 ATAGGAGGAA
51231 TTCAAGCTAATGAAGAA-C
1 TTCAAGCTAATGAAGAATC
*
51249 TTCAAGCTAATGTAGAATC
1 TTCAAGCTAATGAAGAATC
51268 TTCAA
1 TTCAA
51273 ATCTAGACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (19 bp):
TTCAAGCTAATGAAGAATC
Found at i:52415 original size:7 final size:7
Alignment explanation
Indices: 52403--52437 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
52393 TCTTCTCTAT
52403 CTCTAAC
1 CTCTAAC
52410 CTCTAAC
1 CTCTAAC
52417 CTCTAAC
1 CTCTAAC
52424 CTCTAAC
1 CTCTAAC
52431 CTCTAAC
1 CTCTAAC
52438 TCACACTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.43, G:0.00, T:0.29
Consensus pattern (7 bp):
CTCTAAC
Found at i:54329 original size:11 final size:11
Alignment explanation
Indices: 54306--54345 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
54296 GATATTTCGG
54306 TTAAATAT-T-
1 TTAAATATATA
54315 TTAAATATATA
1 TTAAATATATA
54326 TT-AATATATA
1 TTAAATATATA
*
54336 ATAAATATAT
1 TTAAATATAT
54346 GTCATATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 8 0.30
10 10 0.37
11 9 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TTAAATATATA
Found at i:54988 original size:141 final size:141
Alignment explanation
Indices: 54734--55017 Score: 568
Period size: 141 Copynumber: 2.0 Consensus size: 141
54724 ATTTTATATT
54734 GATATATCTAATAATAACTCATTCGACTAGACTTAGAGTTTGTTCGTTAAATGTAGGCACATTAA
1 GATATATCTAATAATAACTCATTCGACTAGACTTAGAGTTTGTTCGTTAAATGTAGGCACATTAA
54799 ATGCTAGGCTGCTGGAGCTGACCGACGTACTTAGTAATAGGAAAATAGATTTTGCATGTATTCAG
66 ATGCTAGGCTGCTGGAGCTGACCGACGTACTTAGTAATAGGAAAATAGATTTTGCATGTATTCAG
54864 GAGACTAGGTG
131 GAGACTAGGTG
54875 GATATATCTAATAATAACTCATTCGACTAGACTTAGAGTTTGTTCGTTAAATGTAGGCACATTAA
1 GATATATCTAATAATAACTCATTCGACTAGACTTAGAGTTTGTTCGTTAAATGTAGGCACATTAA
54940 ATGCTAGGCTGCTGGAGCTGACCGACGTACTTAGTAATAGGAAAATAGATTTTGCATGTATTCAG
66 ATGCTAGGCTGCTGGAGCTGACCGACGTACTTAGTAATAGGAAAATAGATTTTGCATGTATTCAG
55005 GAGACTAGGTG
131 GAGACTAGGTG
55016 GA
1 GA
55018 AAGGGGCTCG
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
141 143 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (141 bp):
GATATATCTAATAATAACTCATTCGACTAGACTTAGAGTTTGTTCGTTAAATGTAGGCACATTAA
ATGCTAGGCTGCTGGAGCTGACCGACGTACTTAGTAATAGGAAAATAGATTTTGCATGTATTCAG
GAGACTAGGTG
Found at i:58266 original size:2 final size:2
Alignment explanation
Indices: 58259--58295 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
58249 TAACTCATTC
58259 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
58296 ACTTTTGTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:59741 original size:6 final size:6
Alignment explanation
Indices: 59730--59880 Score: 284
Period size: 6 Copynumber: 25.2 Consensus size: 6
59720 CTTTCGAACT
59730 GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA
1 GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA
59778 GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA
1 GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA
* *
59826 GTAGGA GTAGGA GTAGGC GTAGGA GTAGGC GTAGGA GTAGGA GTAGGA
1 GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA
59874 GTAGGA G
1 GTAGGA G
59881 CTGTTTTGTA
Statistics
Matches: 141, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 141 1.00
ACGTcount: A:0.32, C:0.01, G:0.50, T:0.17
Consensus pattern (6 bp):
GTAGGA
Found at i:62140 original size:18 final size:19
Alignment explanation
Indices: 62117--62154 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
62107 TATAATATAT
*
62117 TAAATAATA-ATTTAAATA
1 TAAATAAAATATTTAAATA
62135 TAAATAAAATATTTAAATA
1 TAAATAAAATATTTAAATA
62154 T
1 T
62155 TTTTATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAATAAAATATTTAAATA
Found at i:64461 original size:3 final size:3
Alignment explanation
Indices: 64453--64477 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
64443 GAATAGGGTT
64453 TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG T
64478 GTTTGATGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:69587 original size:7 final size:7
Alignment explanation
Indices: 69556--69605 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
69546 TGAAATGAAA
69556 ATAATA-
1 ATAATAT
*
69562 ATAATAC
1 ATAATAT
*
69569 ATACTA-
1 ATAATAT
69575 ATAATAT
1 ATAATAT
69582 ATAATAT
1 ATAATAT
69589 A-AACTAT
1 ATAA-TAT
69596 ATAATAT
1 ATAATAT
69603 ATA
1 ATA
69606 TATTTCAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
6 13 0.34
7 23 0.61
8 2 0.05
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (7 bp):
ATAATAT
Found at i:69916 original size:36 final size:36
Alignment explanation
Indices: 69589--69962 Score: 217
Period size: 38 Copynumber: 10.4 Consensus size: 36
69579 TATATAATAT
* * *
69589 AAACTATATAATATATATA-TTTCAAAAATTTTTTTTA
1 AAACTATATATTATATATATTTTC-AAAA-TGTTTTCA
* ** *
69626 AAACTATATA-T-TATAT-TCTT-AAAA-AATTCCA
1 AAACTATATATTATATATATTTTCAAAATGTTTTCA
* *
69657 AAACTATATATTATATA-GTTTTCAAAAATGATTT-A
1 AAACTATATATTATATATATTTTC-AAAATGTTTTCA
* * ** *
69692 AAAATAT-TA-TATA-AGA-TTAAAAATATGTTTTTA
1 AAACTATATATTATATATATTTTCAAA-ATGTTTTCA
*
69725 AAACTATATATTATATA-ATTTTTCAAAAATGTTTTTTTTAAA
1 AAACTATATATTATATATA-TTTTC-AAAATG----TTTT-CA
*
69767 AAACTATATATTATATATATTTTCAAAATGATTTCA
1 AAACTATATATTATATATATTTTCAAAATGTTTTCA
69803 AAAC--TATA-TATATATATTTTC-AAATGCATTTTCAA
1 AAACTATATATTATATATATTTTCAAAATG--TTTTC-A
* * * *
69838 AAACTATACATTATATATGTTTTCAAAATTTTTTTAAA
1 AAACTATATATTATATATATTTTCAAAA-TGTTTT-CA
* * *
69876 AAACTATATACTATATATATTTTCGAAATGTTTTCG
1 AAACTATATATTATATATATTTTCAAAATGTTTTCA
* * * **
69912 AAACTATATAGTACATATATTTTAAAAACATTTTCA
1 AAACTATATATTATATATATTTTCAAAATGTTTTCA
*
69948 AAAAT-TATATTATAT
1 AAACTATATATTATAT
69963 TGCTATAAAA
Statistics
Matches: 265, Mismatches: 41, Indels: 64
0.72 0.11 0.17
Matches are distributed among these distances:
31 16 0.06
32 15 0.06
33 35 0.13
34 12 0.05
35 36 0.14
36 43 0.16
37 26 0.10
38 44 0.17
39 3 0.01
40 1 0.00
41 10 0.04
42 23 0.09
43 1 0.00
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.44
Consensus pattern (36 bp):
AAACTATATATTATATATATTTTCAAAATGTTTTCA
Found at i:69960 original size:109 final size:111
Alignment explanation
Indices: 69656--69962 Score: 332
Period size: 109 Copynumber: 2.8 Consensus size: 111
69646 AAAAAATTCC
* **
69656 AAAACTATATA-T-TATATAGTTTTCAAAAATGATTT-AAAAATAT-TATATA-AGATT-AAAAA
1 AAAACTATATACTATATATA-TTTTC-AAAATGATTTCAAAACTATATATATATATTTTCAAAAA
* **
69715 TATGTTTTTAAAACTATATATTATATAATTTTTCAAAAATGTTTTTTTTAA
64 CAT-TTTCAAAAACTATATATTATATAATTTTTCAAAAA--TTTTTTTTAA
* **
69766 AAAACTATATATTATATATATTTTCAAAATGATTTCAAAACTATATATATATATTTTCAAATGCA
1 AAAACTATATACTATATATATTTTCAAAATGATTTCAAAACTATATATATATATTTTCAAAAACA
*
69831 TTTTCAAAAACTATACATTATAT-ATGTTTTC-AAAA-TTTTTTTAA
66 TTTTCAAAAACTATATATTATATAAT-TTTTCAAAAATTTTTTTTAA
* * *
69875 AAAACTATATACTATATATATTTTCGAAATGTTTTCGAAACTATATAGTACATATATTTT-AAAA
1 AAAACTATATACTATATATATTTTCAAAATGATTTCAAAACTATATA-T--ATATATTTTCAAAA
69939 ACATTTTCAAAAA-T-TATATTATAT
63 ACATTTTCAAAAACTATATATTATAT
69963 TGCTATAAAA
Statistics
Matches: 171, Mismatches: 16, Indels: 21
0.82 0.08 0.10
Matches are distributed among these distances:
109 61 0.36
110 23 0.13
111 28 0.16
112 27 0.16
113 27 0.16
114 5 0.03
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (111 bp):
AAAACTATATACTATATATATTTTCAAAATGATTTCAAAACTATATATATATATTTTCAAAAACA
TTTTCAAAAACTATATATTATATAATTTTTCAAAAATTTTTTTTAA
Found at i:70884 original size:165 final size:165
Alignment explanation
Indices: 70583--71585 Score: 1030
Period size: 165 Copynumber: 6.1 Consensus size: 165
70573 TCGAGGGTTT
* * ** * * * *
70583 TTGGCAGATAGCCCTTCTCGACTTAAGCCATGCTGCAAATGATGTG-CTTTAGAGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCCTTGGAGCTGAGCGTAG
* * * * * * *
70647 TCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
66 TCGAACTCAAAGGTC-TTTGG---CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
70712 GCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
127 GCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
* * *
70751 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGTAAATGATATGCCCTCGGAGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCCTTGGAGCTGAGCGTAG
* *
70816 TCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAATGATGTGCCG
66 TCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCG
70881 TTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
131 TTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
* ** * * * * * *
70916 CTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAA
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCCTTGGAGCTGAGCGTAG
* * * * *
70981 TCGAACTTAAGGGTCTTTGGCAGATAGCTCTTCTTGACTTAAGCTATACTGCAAAT--TGTGCC-
66 TCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCG
71043 TTGGAGCTGAGCGTAGTCGAACTCAAAGGTC---T-
131 TT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
* * * * * * * *
71075 TTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAATGATGTGTCGTT-GAGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCCTTGGAGCTGAGCGTAG
* * * * * * * * * *
71139 TCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGTTAT
66 TCGAACTCAAAGGTC-TTTG---GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
* * * * * *
71204 GCTCTTTAAGCTGAGTGTAATCGAACTTAAGGGTC---T-
127 GC-CGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
* * * * * * *
71240 TTGGCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTG-CCTTGGAGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCCTTGGAGCTGAGCGTAG
*
71304 TCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAATGATGTGCCG
66 TCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCG
71369 TTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
131 TTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
* ** * * * ** * *
71404 CTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTTAAGCTGAGTGTAA
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCCTTGGAGCTGAGCGTAG
* * * *
71469 TCGAACTTAAGGGTCTTTGGCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCC-
66 TCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCG
* * *
71533 TTGGAGCTGAGCGTAGTCAAACTCGAAGGTC-TTGG
131 TT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
* *
71568 TGGGCAGATAGCCCTTCT
1 TTGGCAGATAACCCTTCT
71586 GGCCTTGAGC
Statistics
Matches: 695, Mismatches: 123, Indels: 38
0.81 0.14 0.04
Matches are distributed among these distances:
158 23 0.03
159 41 0.06
160 27 0.04
161 33 0.05
162 29 0.04
163 35 0.05
164 62 0.09
165 370 0.53
166 2 0.00
168 43 0.06
169 30 0.04
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (165 bp):
TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCCTTGGAGCTGAGCGTAG
TCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCG
TTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
Found at i:71433 original size:245 final size:245
Alignment explanation
Indices: 70558--71585 Score: 1623
Period size: 245 Copynumber: 4.2 Consensus size: 245
70548 ACCTCGAAGT
* * * * * *
70558 TGAGTGTAATCGAACTCGAGGGTTTTTGGCAGATAGCCCTTCTCGACTTAAGCCATGCTGCAAAT
1 TGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAAT
* * * *
70623 GATGTG-CTTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAG
66 GATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAG
* * * * * * * *
70687 CCTTGAGTTATGCTGTAAATGATGTG-CCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
130 CCTTGAGTTATGCTGTAAATGTTATGCCCTTTAAGCTGAGTGTAATCGAACTTAAGGGTC---T-
* * * * * * * * * *
70751 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGTAAATGATATGCCCTCGGAGC
191 TTGGCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTG-CCTTGGAGC
70807 TGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAAT
1 TGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAAT
70872 GATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAGC
66 GATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAGC
*
70937 CTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGC
131 CTTGAGTTATGCTGTAAATGTTATGCCCTTTAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGC
*
71002 AGATAGCTCTTCTTGACTTAAGCTATACTGCAAAT--TGTGCCTTGGAGC
196 AGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGC
*
71050 TGAGCGTAGTCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAAT
1 TGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAAT
*
71115 GATGTGTCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAGC
66 GATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAGC
* *
71180 CTTGAGTTATGTTGTAAATGTTATGCTCTTTAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGC
131 CTTGAGTTATGCTGTAAATGTTATGCCCTTTAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGC
71245 AGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGC
196 AGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGC
*
71295 TGAGCGTAGTCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAAT
1 TGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAAT
71360 GATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAGC
66 GATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAGC
71425 CTTGAGTTATGCTGTAAATGTTATGCCCTTTAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGC
131 CTTGAGTTATGCTGTAAATGTTATGCCCTTTAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGC
71490 AGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGC
196 AGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGC
*
71540 TGAGCGTAGTCAAACTCGAAGGTCTTGGTGGGCAGATAGCCCTTCT
1 TGAGCGTAGTCGAACTCGAAGGTCTT--T-GGCAGATAGCCCTTCT
71586 GGCCTTGAGC
Statistics
Matches: 732, Mismatches: 40, Indels: 15
0.93 0.05 0.02
Matches are distributed among these distances:
243 232 0.32
244 3 0.00
245 279 0.38
246 32 0.04
247 2 0.00
248 16 0.02
249 139 0.19
250 29 0.04
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (245 bp):
TGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAAT
GATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAGC
CTTGAGTTATGCTGTAAATGTTATGCCCTTTAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGC
AGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGC
Found at i:71487 original size:488 final size:491
Alignment explanation
Indices: 70558--71585 Score: 1643
Period size: 488 Copynumber: 2.1 Consensus size: 491
70548 ACCTCGAAGT
* * * * *
70558 TGAGTGTAATCGAACTCGAGGGTTTTTGGCAGATAGCCCTTCTCGACTTAAGCCATGCTGCAAAT
1 TGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCCATGCTGCAAAT
* * * *
70623 GATGTGCTTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGC
66 GATGTGCGTTAGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAGC
* * *
70688 CTTGAGTTATGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTT
131 CTTGAGTTATGCTGTAAATGATATGCCGTTAAGCTGAGCGTAATCGAACTCAAAGGTC--TTGTT
* * * *
70753 GGCAGACAACCCTTCTAGACTTAAGTTGTGCTGTAAATGATATGCCCTCGGAGCTGAGCGTAGTC
194 GGCAGACAACCCTTCTAGACTTAAGCTATACTGCAAATGATATGCCCTCGGAGCTGAGCGTAGTC
*
70818 GAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAATGATGTGCCGTT
259 GAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAATGATGTGCCGTT
70883 GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATG
324 GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATG
70948 CTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGCAGATAGCTCTT
389 CTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGCAGATAGCTCTT
*
71013 CTTGACTTAAGCTATACTGCAAAT-TGTGCCTTGGAGC
454 CTCGACTTAAGCTATACTGCAAATATGTGCCTTGGAGC
* *
71050 TGAGCGTAGTCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAAT
1 TGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCCATGCTGCAAAT
71115 GATGTGTCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAG
66 GATGTG-CGTTAGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAG
* * * * * *
71179 CCTTGAGTTATGTTGTAAATGTTATGCTCTTTAAGCTGAGTGTAATCGAACTTAAGGGTC-T-TT
130 CCTTGAGTTATGCTGTAAATGATATGC-CGTTAAGCTGAGCGTAATCGAACTCAAAGGTCTTGTT
* * * * * *
71242 GGCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTC
194 GGCAGACAACCCTTCTAGACTTAAGCTATACTGCAAATGATATGCCCTCGGAGCTGAGCGTAGTC
71306 GAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAATGATGTGCCGTT
259 GAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAATGATGTGCCGTT
71371 GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATG
324 GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATG
*
71436 CTGTAAATGTTATGCCCTTTAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGCAGATAGCTCTT
389 CTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGCAGATAGCTCTT
71501 CTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGC
454 CTCGACTTAAGCTATACTGCAAAT-ATGTGCCTTGGAGC
*
71540 TGAGCGTAGTCAAACTCGAAGGTCTTGGTGGGCAGATAGCCCTTCT
1 TGAGCGTAGTCGAACTCGAAGGTCTT--T-GGCAGATAGCCCTTCT
71586 GGCCTTGAGC
Statistics
Matches: 494, Mismatches: 35, Indels: 13
0.91 0.06 0.02
Matches are distributed among these distances:
488 235 0.48
489 37 0.07
490 38 0.08
492 139 0.28
493 45 0.09
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (491 bp):
TGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCCATGCTGCAAAT
GATGTGCGTTAGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAGC
CTTGAGTTATGCTGTAAATGATATGCCGTTAAGCTGAGCGTAATCGAACTCAAAGGTCTTGTTGG
CAGACAACCCTTCTAGACTTAAGCTATACTGCAAATGATATGCCCTCGGAGCTGAGCGTAGTCGA
ACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAATGATGTGCCGTTGA
GCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATGCT
GTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGCAGATAGCTCTTCT
CGACTTAAGCTATACTGCAAATATGTGCCTTGGAGC
Found at i:74649 original size:17 final size:18
Alignment explanation
Indices: 74617--74659 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
74607 AGTTAATGTG
74617 AATGCAAAGAAAATAACA
1 AATGCAAAGAAAATAACA
*
74635 AATGCAAAG-AAATAAGA
1 AATGCAAAGAAAATAACA
74652 AATGCAAA
1 AATGCAAA
74660 ATGTCTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.65, C:0.09, G:0.14, T:0.12
Consensus pattern (18 bp):
AATGCAAAGAAAATAACA
Done.