Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 26 of 205
Found at i:7925400 original size:12 final size:11
Alignment explanation
Indices: 7925383--7925414 Score: 55
Period size: 12 Copynumber: 2.8 Consensus size: 11
7925373 TCTTTTTCCA
7925383 TTTCTTTTCTT
1 TTTCTTTTCTT
7925394 TTCTCTTTTCTT
1 TT-TCTTTTCTT
7925406 TTTCTTTTC
1 TTTCTTTTC
7925415 CCCTTTGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTCTTTTCTT
Found at i:7936764 original size:20 final size:21
Alignment explanation
Indices: 7936722--7936764 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
7936712 GTTTAACATA
* *
7936722 AATTGAATGTGATTAATGCTT
1 AATTGAATGTGATGAATGATT
*
7936743 AATTGCATGTG-TGAATGATT
1 AATTGAATGTGATGAATGATT
7936763 AA
1 AA
7936765 ATGCTACCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.40
Consensus pattern (21 bp):
AATTGAATGTGATGAATGATT
Found at i:7939287 original size:23 final size:22
Alignment explanation
Indices: 7939220--7939293 Score: 100
Period size: 21 Copynumber: 3.5 Consensus size: 22
7939210 CCTGATCAGT
* *
7939220 ATACGACACA-TAAGTGCCTGA
1 ATACGACACACGAGGTGCCTGA
7939241 A-ACGACACACGAGGTGCCTG-
1 ATACGACACACGAGGTGCCTGA
7939261 ATACGACACACGAGGTGCCTGA
1 ATACGACACACGAGGTGCCTGA
7939283 TATACGACACA
1 -ATACGACACA
7939294 TAAAGTGTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
20 9 0.19
21 28 0.60
23 10 0.21
ACGTcount: A:0.35, C:0.27, G:0.23, T:0.15
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:7940226 original size:14 final size:14
Alignment explanation
Indices: 7940207--7940238 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
7940197 TATTTAAAAT
7940207 ATAATAATAATTTA
1 ATAATAATAATTTA
7940221 ATAATAATAATTTA
1 ATAATAATAATTTA
7940235 ATAA
1 ATAA
7940239 CATTTTTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATAATAATTTA
Found at i:7941973 original size:14 final size:15
Alignment explanation
Indices: 7941954--7941985 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
7941944 CTTAATCGCC
7941954 TTTAATTA-TTAAAA
1 TTTAATTATTTAAAA
7941968 TTTAATTATTTAAAA
1 TTTAATTATTTAAAA
7941983 TTT
1 TTT
7941986 CAAAAATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTAATTATTTAAAA
Found at i:7942101 original size:15 final size:15
Alignment explanation
Indices: 7942081--7942117 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
7942071 TCATCATAAG
*
7942081 TTTTAAATTTTGAAA
1 TTTTAAATTTTAAAA
7942096 TTTTAAATTTTAAAA
1 TTTTAAATTTTAAAA
*
7942111 TATTAAA
1 TTTTAAA
7942118 ATTAATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (15 bp):
TTTTAAATTTTAAAA
Found at i:7945892 original size:26 final size:28
Alignment explanation
Indices: 7945838--7945898 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
7945828 TATTATCAAG
* *
7945838 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
7945866 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
7945892 AATTATA
1 AATTATA
7945899 CAAATTCATG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:7946094 original size:16 final size:16
Alignment explanation
Indices: 7946073--7946114 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
7946063 TTATTAAATT
*
7946073 ATATATTTTAATTATA
1 ATATATTTTAATAATA
7946089 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
7946104 AT-TATGTTTAA
1 ATATAT-TTTAA
7946115 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:7946099 original size:15 final size:15
Alignment explanation
Indices: 7946064--7946105 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
7946054 TTAAGAATTT
*
7946064 TATTAAATTAT-ATA
1 TATTTAATTATAATA
7946078 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
7946092 TATTTAATAATAAT
1 TATTTAATTATAAT
7946106 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:7946351 original size:16 final size:16
Alignment explanation
Indices: 7946330--7946397 Score: 136
Period size: 16 Copynumber: 4.2 Consensus size: 16
7946320 GATTTGCTAT
7946330 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
7946346 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
7946362 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
7946378 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
7946394 TACA
1 TACA
7946398 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.38, C:0.37, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:7957473 original size:43 final size:43
Alignment explanation
Indices: 7957404--7957644 Score: 313
Period size: 43 Copynumber: 5.6 Consensus size: 43
7957394 TTTTAGAAAT
* *
7957404 AAACGACGCTAAAGAACAAGACCTTTAGCGGCACTTTTCCCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCAC
** * * *
7957447 AAACATCGCTATAGAACAAGATCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCAC
*
7957490 AAACGCCGCTAAAGAACAAGACCTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCAC
* **
7957533 AAACACC-CTAAAGAACAAGACCTTTAATGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCAC
* * * **
7957575 AAATGCCGCTATAGAACAAAACCTTTAGCGGCGCTTTTTTCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCAC
* *
7957618 AAACGCCGCTAAAGAACATGACTTTTA
1 AAACGCCGCTAAAGAACAAGACCTTTA
7957645 AAAAAATATT
Statistics
Matches: 168, Mismatches: 29, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
42 37 0.22
43 131 0.78
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:7957591 original size:85 final size:85
Alignment explanation
Indices: 7957404--7957645 Score: 313
Period size: 85 Copynumber: 2.8 Consensus size: 85
7957394 TTTTAGAAAT
* * * * *
7957404 AAACGACGCTAAAGAACAAGACCTTTAGCGGCACTTTTCCCACAAACATCGCTATAGAACAAGAT
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCACAAACA-CCCTAAAGAACAAGAC
* *
7957469 CTTTAGCGGCGCTTTTTCCAC
65 CTTTAACGGCGCTTTTCCCAC
*
7957490 AAACGCCGCTAAAGAACAAGACCTTTAGCGACGCTTTTCCCACAAACACCCTAAAGAACAAGACC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCACAAACACCCTAAAGAACAAGACC
*
7957555 TTTAATGGCGCTTTTCCCAC
66 TTTAACGGCGCTTTTCCCAC
* * * ** * *
7957575 AAATGCCGCTATAGAACAAAACCTTTAGCGGCGCTTTTTTCACAAACGCCGCTAAAGAACATGAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCACAAACACC-CTAAAGAACAAGAC
*
7957640 TTTTAA
65 CTTTAA
7957646 AAAAATATTT
Statistics
Matches: 137, Mismatches: 18, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
85 74 0.54
86 63 0.46
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (85 bp):
AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCACAAACACCCTAAAGAACAAGACC
TTTAACGGCGCTTTTCCCAC
Found at i:7958333 original size:4 final size:4
Alignment explanation
Indices: 7958324--7958366 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
7958314 GGTATATTAG
7958324 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
7958367 TATCTATATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:7961945 original size:7 final size:7
Alignment explanation
Indices: 7961933--7962081 Score: 97
Period size: 7 Copynumber: 21.1 Consensus size: 7
7961923 ACTAGTTAAT
7961933 CTAAACC
1 CTAAACC
7961940 CTAAACC
1 CTAAACC
*
7961947 ATAAA-C
1 CTAAACC
*
7961953 TTAAACC
1 CTAAACC
*
7961960 CTAAAATC
1 CT-AAACC
*
7961968 ATAAACC
1 CTAAACC
* *
7961975 CTTAACG
1 CTAAACC
7961982 C-ATAACC
1 CTA-AACC
7961989 TCTAAACC
1 -CTAAACC
*
7961997 TTAAACC
1 CTAAACC
*
7962004 CT-AGCC
1 CTAAACC
*
7962010 TTTAAACC
1 -CTAAACC
*
7962018 ATAAACC
1 CTAAACC
*
7962025 ATAAACC
1 CTAAACC
*
7962032 ATAAACC
1 CTAAACC
7962039 CTAAACC
1 CTAAACC
*
7962046 GTAAACC
1 CTAAACC
*
7962053 ATAAACC
1 CTAAACC
7962060 CTAAACC
1 CTAAACC
* *
7962067 ATATACC
1 CTAAACC
7962074 CTAAACC
1 CTAAACC
7962081 C
1 C
7962082 AAAATTATTT
Statistics
Matches: 110, Mismatches: 25, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
6 8 0.07
7 88 0.80
8 13 0.12
9 1 0.01
ACGTcount: A:0.45, C:0.34, G:0.02, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:7962078 original size:21 final size:20
Alignment explanation
Indices: 7961934--7962081 Score: 108
Period size: 21 Copynumber: 7.3 Consensus size: 20
7961924 CTAGTTAATC
* *
7961934 TAAACCCTAAACCATAAACT
1 TAAACCCTAAACCATAACCA
7961954 TAAACCCTAAA--AT---CA
1 TAAACCCTAAACCATAACCA
* *
7961969 TAAACCCTTAACGCATAACCTC
1 TAAACCCTAAAC-CATAACC-A
* * * *
7961991 TAAACCTTAAACCCTAGCCTT
1 TAAACCCTAAACCATAACC-A
*
7962012 TAAACCATAAACCATAAACCA
1 TAAACCCTAAACCAT-AACCA
*
7962033 TAAACCCTAAACCGTAAACCA
1 TAAACCCTAAACCAT-AACCA
*
7962054 TAAACCCTAAACCATATACCC
1 TAAACCCTAAACCATA-ACCA
7962075 TAAACCC
1 TAAACCC
7962082 AAAATTATTT
Statistics
Matches: 103, Mismatches: 16, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
15 11 0.11
18 4 0.04
20 12 0.12
21 63 0.61
22 13 0.13
ACGTcount: A:0.45, C:0.33, G:0.02, T:0.20
Consensus pattern (20 bp):
TAAACCCTAAACCATAACCA
Found at i:7969930 original size:9 final size:9
Alignment explanation
Indices: 7969916--7970224 Score: 242
Period size: 9 Copynumber: 35.3 Consensus size: 9
7969906 TACAAGGGTA
7969916 TAAGTTATG
1 TAAGTTATG
7969925 TAAGTTATG
1 TAAGTTATG
7969934 TAAGTTATG
1 TAAGTTATG
*
7969943 TACGTGTATG
1 TAAGT-TATG
7969953 TAAGTTATG
1 TAAGTTATG
*
7969962 TACGTGTA--
1 TAAGT-TATG
*
7969970 TAAATTATG
1 TAAGTTATG
7969979 TAAGTTATG
1 TAAGTTATG
*
7969988 TACGTGTA--
1 TAAGT-TATG
7969996 TAAGTTATG
1 TAAGTTATG
7970005 TAAGTTATG
1 TAAGTTATG
*
7970014 TAAGTTGTG
1 TAAGTTATG
*
7970023 T-A-TTAAG
1 TAAGTTATG
7970030 TAAGTTATG
1 TAAGTTATG
*
7970039 TAAGTTGTG
1 TAAGTTATG
7970048 T-A-TTATG
1 TAAGTTATG
7970055 TAAGTTATG
1 TAAGTTATG
*
7970064 TAAGTTATC
1 TAAGTTATG
* *
7970073 AAAGTAATG
1 TAAGTTATG
*
7970082 TATGTTATG
1 TAAGTTATG
7970091 TAAG-T-TG
1 TAAGTTATG
7970098 TAAGTTAT-
1 TAAGTTATG
*
7970106 TATGTATTATG
1 TAAG--TTATG
7970117 TAAG-T-TG
1 TAAGTTATG
7970124 TAAGTTAT-
1 TAAGTTATG
*
7970132 TATGTATTATG
1 TAAG--TTATG
7970143 TAAG-T-TG
1 TAAGTTATG
7970150 TAAGTTAT-
1 TAAGTTATG
*
7970158 TATGTATTATG
1 TAAG--TTATG
*
7970169 TAAAGTTTTG
1 T-AAGTTATG
7970179 T-A-TTATG
1 TAAGTTATG
7970186 TAAGTTATG
1 TAAGTTATG
7970195 TAAGTTATG
1 TAAGTTATG
*
7970204 TAGGTTATG
1 TAAGTTATG
*
7970213 TAAGTTTTG
1 TAAGTTATG
7970222 TAA
1 TAA
7970225 TGTACAAGTG
Statistics
Matches: 238, Mismatches: 33, Indels: 58
0.72 0.10 0.18
Matches are distributed among these distances:
7 36 0.15
8 28 0.12
9 136 0.57
10 29 0.12
11 7 0.03
12 2 0.01
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:7969979 original size:17 final size:18
Alignment explanation
Indices: 7969920--7969980 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 18
7969910 AGGGTATAAG
* *
7969920 TTATGTAAGT-TATGTAAG
1 TTATGTACGTGTA-GTAAA
*
7969938 TTATGTACGTGTATGTAAG
1 TTATGTACGTGTA-GTAAA
7969957 TTATGTACGTGTA-TAAA
1 TTATGTACGTGTAGTAAA
7969974 TTATGTA
1 TTATGTA
7969981 AGTTATGTAC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
17 10 0.25
18 9 0.22
19 21 0.52
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.44
Consensus pattern (18 bp):
TTATGTACGTGTAGTAAA
Found at i:7970110 original size:19 final size:19
Alignment explanation
Indices: 7970086--7970163 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 19
7970076 GTAATGTATG
7970086 TTATGTAAGTTGTAAGTTA
1 TTATGTAAGTTGTAAGTTA
*
7970105 TTATGT-ATTATGTAAG---
1 TTATGTAAGT-TGTAAGTTA
* *
7970121 -T-TGTAAGTTATTA-TGTA
1 TTATGTAAGTTGTAAGT-TA
7970138 TTATGTAAGTTGTAAGTTA
1 TTATGTAAGTTGTAAGTTA
7970157 TTATGTA
1 TTATGTA
7970164 TTATGTAAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 18
0.65 0.09 0.26
Matches are distributed among these distances:
14 6 0.14
15 3 0.07
18 3 0.07
19 31 0.70
20 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (19 bp):
TTATGTAAGTTGTAAGTTA
Found at i:7970122 original size:26 final size:26
Alignment explanation
Indices: 7970086--7970200 Score: 173
Period size: 26 Copynumber: 4.4 Consensus size: 26
7970076 GTAATGTATG
7970086 TTATGTAAGTTGTAAGTTATTATGTA
1 TTATGTAAGTTGTAAGTTATTATGTA
7970112 TTATGTAAGTTGTAAGTTATTATGTA
1 TTATGTAAGTTGTAAGTTATTATGTA
7970138 TTATGTAAGTTGTAAGTTATTATGTA
1 TTATGTAAGTTGTAAGTTATTATGTA
*
7970164 TTATGTAAAGTT-T-TG-TATTATGTAA
1 TTATGT-AAGTTGTAAGTTATTATGT-A
7970189 GTTATGTAAGTT
1 -TTATGTAAGTT
7970201 ATGTAGGTTA
Statistics
Matches: 85, Mismatches: 1, Indels: 7
0.91 0.01 0.08
Matches are distributed among these distances:
24 8 0.09
25 7 0.08
26 65 0.76
27 5 0.06
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.50
Consensus pattern (26 bp):
TTATGTAAGTTGTAAGTTATTATGTA
Found at i:7970140 original size:33 final size:33
Alignment explanation
Indices: 7970103--7970202 Score: 87
Period size: 33 Copynumber: 2.9 Consensus size: 33
7970093 AGTTGTAAGT
7970103 TATTATGTATTATGTAAGTTGTAAGTTATTATG
1 TATTATGTATTATGTAAGTTGTAAGTTATTATG
* * *
7970136 TATTATGTAAGT-TGTAAGTTATTA-TGTATTATG
1 TATTATGT-ATTATGTAAGTTGTAAGT-TATTATG
*
7970169 TAAAGTTTTGTATTATGTAAGTTATGTAAGTTAT
1 T--A-TTATGTATTATGTAAG-T-TGTAAGTTAT
7970203 GTAGGTTATG
Statistics
Matches: 51, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
32 1 0.02
33 26 0.51
34 2 0.04
35 3 0.06
36 11 0.22
37 1 0.02
38 6 0.12
39 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (33 bp):
TATTATGTATTATGTAAGTTGTAAGTTATTATG
Found at i:7970170 original size:19 final size:19
Alignment explanation
Indices: 7970096--7970193 Score: 79
Period size: 19 Copynumber: 5.5 Consensus size: 19
7970086 TTATGTAAGT
7970096 TGTAAGTTATTATGTATTA
1 TGTAAGTTATTATGTATTA
* *
7970115 TGTAAGTT-GTAAG--TTA
1 TGTAAGTTATTATGTATTA
* *
7970131 T-TATG-TATTATGTAAGT-
1 TGTAAGTTATTATGT-ATTA
7970148 TGTAAGTTATTATGTATTA
1 TGTAAGTTATTATGTATTA
7970167 TGTAAAG-T-TT-TGTATTA
1 TGT-AAGTTATTATGTATTA
7970184 TGTAAGTTAT
1 TGTAAGTTAT
7970194 GTAAGTTATG
Statistics
Matches: 61, Mismatches: 8, Indels: 21
0.68 0.09 0.23
Matches are distributed among these distances:
14 1 0.02
15 6 0.10
16 7 0.11
17 12 0.20
18 12 0.20
19 20 0.33
20 3 0.05
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (19 bp):
TGTAAGTTATTATGTATTA
Found at i:7970406 original size:13 final size:13
Alignment explanation
Indices: 7970388--7970421 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
7970378 ATATAATTAT
7970388 TAATAATATTTAA
1 TAATAATATTTAA
7970401 TAATAAT-TTTAA
1 TAATAATATTTAA
7970413 T-ATAATATT
1 TAATAATATT
7970422 ATTATTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 5 0.25
12 8 0.40
13 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TAATAATATTTAA
Found at i:7970754 original size:13 final size:13
Alignment explanation
Indices: 7970736--7970806 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
7970726 ATTTATAATT
7970736 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
7970749 ATTTAAGTAACAT
1 ATTTAAGTAATAA
7970762 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
7970775 ATTTAAGTAACAT
1 ATTTAAGTAATAA
7970788 ATTTAAGTAATAA
1 ATTTAAGTAATAA
7970801 ATTTAA
1 ATTTAA
7970807 ACAAATTTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAAGTAATAA
Found at i:7970765 original size:26 final size:26
Alignment explanation
Indices: 7970735--7970806 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
7970725 TATTTATAAT
7970735 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
7970761 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
7970787 TATTTAAGTAATAAATTTAA
1 TATTTAAGTAATAAATTTAA
7970807 ACAAATTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (26 bp):
TATTTAAGTAATAAATTTAAGTAACA
Found at i:7972861 original size:39 final size:39
Alignment explanation
Indices: 7972825--7972904 Score: 124
Period size: 39 Copynumber: 2.1 Consensus size: 39
7972815 CCTAACCCAT
*
7972825 AACCCCTAAATCCCCTTAAACCTTAAAGCATAAACCCTA
1 AACCCCTAAATCCCCTTAAACCCTAAAGCATAAACCCTA
* * *
7972864 AACCCCTAAATCTCCTTAACCCCTAAAGCATAACCCCTA
1 AACCCCTAAATCCCCTTAAACCCTAAAGCATAAACCCTA
7972903 AA
1 AA
7972905 AAATTTATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.40, C:0.38, G:0.03, T:0.20
Consensus pattern (39 bp):
AACCCCTAAATCCCCTTAAACCCTAAAGCATAAACCCTA
Found at i:7973216 original size:17 final size:15
Alignment explanation
Indices: 7973184--7973224 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
7973174 ACCGTTCAAA
7973184 CCCTAAACCCCTAAC
1 CCCTAAACCCCTAAC
7973199 CCCTAAATCCCACTAAC
1 CCCTAAA-CCC-CTAAC
*
7973216 CCTTAAACC
1 CCCTAAACC
7973225 TTAAATCTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 7 0.30
16 5 0.22
17 11 0.48
ACGTcount: A:0.34, C:0.49, G:0.00, T:0.17
Consensus pattern (15 bp):
CCCTAAACCCCTAAC
Found at i:7973593 original size:9 final size:9
Alignment explanation
Indices: 7973579--7973609 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7973569 GTTAAACGAA
7973579 TCGAGTTAT
1 TCGAGTTAT
*
7973588 TCGAGTTAA
1 TCGAGTTAT
7973597 TCGAGTTAT
1 TCGAGTTAT
7973606 TCGA
1 TCGA
7973610 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:7973680 original size:9 final size:9
Alignment explanation
Indices: 7973663--7973699 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
7973653 TGAGTTTTCG
7973663 AATTCGAAT
1 AATTCGAAT
*
7973672 AACTCGAAT
1 AATTCGAAT
7973681 AATTCGAAT
1 AATTCGAAT
7973690 AATTCGAAT
1 AATTCGAAT
7973699 A
1 A
7973700 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:7973947 original size:30 final size:31
Alignment explanation
Indices: 7973913--7973972 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
7973903 AAACCTTTTA
*
7973913 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
7973943 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
7973973 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:7974623 original size:5 final size:5
Alignment explanation
Indices: 7974613--7974638 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
7974603 GAACAAATAT
7974613 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
7974639 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:7975167 original size:113 final size:113
Alignment explanation
Indices: 7974966--7975175 Score: 255
Period size: 113 Copynumber: 1.9 Consensus size: 113
7974956 AAGCTCAGAA
* *
7974966 AAACGGCGTCGTTGAGATTAGGCTTTTTGCGGCGCTTGCTCAAAAACGCCGCTAAAGCCCTGAGC
1 AAACGACGTCGTTGAGATTAGGCTTTTTGCGGCGCTTGCTCAAAAACGCCGCTAAAGACCTGAGC
* *
7975031 ATTAACGGCGCTTTATTAGAAACGCCGCTAAATCCCCGAAAGCTTGGC
66 ATTAACGGCACTTTAGTAGAAACGCCGCTAAATCCCCGAAAGCTTGGC
* * * * *
7975079 AAACGACGTCGTTCG-GATTAGGTTTTTTTCGGCGCTTTCT-ATAAAACGCCGCTAATGATC-GA
1 AAACGACGTCGTT-GAGATTAGGCTTTTTGCGGCGCTTGCTCA-AAAACGCCGCTAAAGACCTGA
* * * *
7975141 TCTTTAGCGGCATTTTAGTAGCAAACGCCGCTAAA
64 GCATTAACGGCACTTTAGTAG-AAACGCCGCTAAA
7975176 GACGCCGCTA
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
112 18 0.22
113 62 0.77
114 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (113 bp):
AAACGACGTCGTTGAGATTAGGCTTTTTGCGGCGCTTGCTCAAAAACGCCGCTAAAGACCTGAGC
ATTAACGGCACTTTAGTAGAAACGCCGCTAAATCCCCGAAAGCTTGGC
Found at i:7976753 original size:36 final size:37
Alignment explanation
Indices: 7976675--7976754 Score: 153
Period size: 37 Copynumber: 2.2 Consensus size: 37
7976665 TGAAATGTTT
7976675 ACTTTTTTCTAAACAACTTGTATAGTTCTTAAAGAGC
1 ACTTTTTTCTAAACAACTTGTATAGTTCTTAAAGAGC
7976712 ACTTTTTTCTAAACAACTTGTATAGTTCTTAAAGAGC
1 ACTTTTTTCTAAACAACTTGTATAGTTCTTAAAGAGC
7976749 -CTTTTT
1 ACTTTTT
7976755 GCATGGTATA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 6 0.14
37 37 0.86
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (37 bp):
ACTTTTTTCTAAACAACTTGTATAGTTCTTAAAGAGC
Found at i:7981545 original size:17 final size:17
Alignment explanation
Indices: 7981525--7981559 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7981515 AATGGCATAG
7981525 AAATAATAT-AAACAAAT
1 AAATAA-ATGAAACAAAT
7981542 AAATAAATGAAACAAAT
1 AAATAAATGAAACAAAT
7981559 A
1 A
7981560 TACATAAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.20
Consensus pattern (17 bp):
AAATAAATGAAACAAAT
Found at i:7981747 original size:13 final size:13
Alignment explanation
Indices: 7981731--7981772 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 13
7981721 AATACACATG
7981731 AATTTATATATAA
1 AATTTATATATAA
*
7981744 AATTTAGATTATAAA
1 AATTTATA-TAT-AA
7981759 AATTTATATA-AA
1 AATTTATATATAA
7981771 AA
1 AA
7981773 AAATACATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 4 0.16
13 7 0.28
14 5 0.20
15 9 0.36
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (13 bp):
AATTTATATATAA
Found at i:7983017 original size:28 final size:28
Alignment explanation
Indices: 7982985--7983042 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
7982975 GTAAACGAAA
7982985 GTAAGCAAAAATGTAGACCTTTAGATTG
1 GTAAGCAAAAATGTAGACCTTTAGATTG
7983013 GTAAGCAAAAATGTAGACCTTTAGATTG
1 GTAAGCAAAAATGTAGACCTTTAGATTG
7983041 GT
1 GT
7983043 TTCTTGCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.29
Consensus pattern (28 bp):
GTAAGCAAAAATGTAGACCTTTAGATTG
Found at i:7984726 original size:13 final size:13
Alignment explanation
Indices: 7984708--7984739 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7984698 AAAATATATT
7984708 TATTAATTAAAAA
1 TATTAATTAAAAA
7984721 TATTAATTAAAAA
1 TATTAATTAAAAA
*
7984734 GATTAA
1 TATTAA
7984740 AAAAAACTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (13 bp):
TATTAATTAAAAA
Found at i:7986702 original size:21 final size:20
Alignment explanation
Indices: 7986678--7986717 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
7986668 AAACTACATT
*
7986678 AAACAAATGGAGAAGTGAGAA
1 AAACAAAGGGAGAAG-GAGAA
*
7986699 AAACAGAGGGAGAAGGAGA
1 AAACAAAGGGAGAAGGAGA
7986718 GGAGAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.55, C:0.05, G:0.35, T:0.05
Consensus pattern (20 bp):
AAACAAAGGGAGAAGGAGAA
Found at i:7989567 original size:29 final size:29
Alignment explanation
Indices: 7989526--7989590 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
7989516 CATATGTATC
*
7989526 TTATTATAT--ATATTTTAT-TTATTTTTA
1 TTATTATATACATATATTATATT-TTTTTA
7989553 -TATATATATACATATATTATATTTTTTTA
1 TTAT-TATATACATATATTATATTTTTTTA
7989582 TTATTATAT
1 TTATTATAT
7989591 TTATGCATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
26 3 0.09
27 5 0.16
29 19 0.59
30 5 0.16
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (29 bp):
TTATTATATACATATATTATATTTTTTTA
Found at i:7989568 original size:31 final size:33
Alignment explanation
Indices: 7989533--7989601 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 33
7989523 ATCTTATTAT
*
7989533 ATATATTTTATTTATTT-TTA-TATATATATAC
1 ATATATTATATTTATTTATTATTATATATATAC
* * *
7989564 ATATATTATATTTTTTTATTATTATATTTATGC
1 ATATATTATATTTATTTATTATTATATATATAC
7989597 ATATA
1 ATATA
7989602 CACGCATATG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 15 0.47
32 3 0.09
33 14 0.44
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (33 bp):
ATATATTATATTTATTTATTATTATATATATAC
Found at i:7993888 original size:20 final size:20
Alignment explanation
Indices: 7993865--7993910 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
7993855 AAGAGAAAAC
7993865 AAAAA-AAAAACAAAAAAGGG
1 AAAAAGAAAAA-AAAAAAGGG
*
7993885 AAAAAGAAGAAAAAAAA--G
1 AAAAAGAAAAAAAAAAAGGG
7993903 AAAAAGAA
1 AAAAAGAA
7993911 CCCCGCTGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 9 0.38
20 11 0.46
21 4 0.17
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAAAAAAAAGGG
Found at i:7993905 original size:18 final size:18
Alignment explanation
Indices: 7993852--7993910 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
7993842 TCAATCCAAA
*
7993852 AAAAAG-AGAAAACAAA-
1 AAAAAGAAGAAAAAAAAG
* **
7993868 AAAAA-AACAAAAAAGGG
1 AAAAAGAAGAAAAAAAAG
7993885 AAAAAGAAGAAAAAAAAG
1 AAAAAGAAGAAAAAAAAG
7993903 AAAAAGAA
1 AAAAAGAA
7993911 CCCCGCTGGG
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
16 11 0.33
17 5 0.15
18 17 0.52
ACGTcount: A:0.81, C:0.03, G:0.15, T:0.00
Consensus pattern (18 bp):
AAAAAGAAGAAAAAAAAG
Found at i:7996087 original size:50 final size:50
Alignment explanation
Indices: 7996015--7996196 Score: 157
Period size: 50 Copynumber: 3.6 Consensus size: 50
7996005 GTAGAGGAAC
** * * *
7996015 AGATTGAAATCACGACGGCGGATCTGATTTCCCCAACATTGCAGTTAAAA
1 AGATTGAAGCCACAACGGCGGATCTGATTTCCCCGACAGTGCAGTTAAAA
* * * * * * * *** **
7996065 AGATTGAAGCCACAACGACGGATCTTACTTCTCTGGCGGTGCAGCGGAGC
1 AGATTGAAGCCACAACGGCGGATCTGATTTCCCCGACAGTGCAGTTAAAA
* * * *
7996115 AGATTGAAGTCACAACGGCAGATCTGATTTCCCCGACAGCGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTGATTTCCCCGACAGTGCAGTTAAAA
* *
7996165 AGATTAAAGCCACAACGGCGGATCTTATTTCC
1 AGATTGAAGCCACAACGGCGGATCTGATTTCC
7996197 TTAGCGGTGC
Statistics
Matches: 95, Mismatches: 37, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
50 95 1.00
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGGATCTGATTTCCCCGACAGTGCAGTTAAAA
Found at i:7996233 original size:100 final size:100
Alignment explanation
Indices: 7995990--7996233 Score: 287
Period size: 100 Copynumber: 2.4 Consensus size: 100
7995980 CGGCTAATCA
* * * * * **
7995990 TACTTCCCTAGCGGTGTAGAGGAACAGATTGAAATCACGACGGCGGATCTGATTTCCCCAACATT
1 TACTTCTCTAGCGGTGCAGCGGAACAGATTGAAGTCACGACGGCAGATCTGATTTCCCCAACAGC
* *
7996055 GCAGTTAAAAAGATTGAAGCCACAACGACGGATCT
66 GCAATTAAAAAGATTAAAGCCACAACGACGGATCT
* * * *
7996090 TACTTCTCTGGCGGTGCAGCGGAGCAGATTGAAGTCACAACGGCAGATCTGATTTCCCCGACAGC
1 TACTTCTCTAGCGGTGCAGCGGAACAGATTGAAGTCACGACGGCAGATCTGATTTCCCCAACAGC
*
7996155 GCAATTAAAAAGATTAAAGCCACAACGGCGGATCT
66 GCAATTAAAAAGATTAAAGCCACAACGACGGATCT
* **
7996190 TATTTC-CTTAGCGGTGCAGTTGAACA-AGTTGAAG-CTACGACGGC
1 TACTTCTC-TAGCGGTGCAGCGGAACAGA-TTGAAGTC-ACGACGGC
7996234 GAATCTTGTT
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
99 3 0.02
100 118 0.98
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (100 bp):
TACTTCTCTAGCGGTGCAGCGGAACAGATTGAAGTCACGACGGCAGATCTGATTTCCCCAACAGC
GCAATTAAAAAGATTAAAGCCACAACGACGGATCT
Found at i:7997680 original size:32 final size:36
Alignment explanation
Indices: 7997623--7997692 Score: 94
Period size: 32 Copynumber: 2.1 Consensus size: 36
7997613 ATATGTATCT
7997623 TATTATATATATTTTATTTATTTATATATATACATA
1 TATTATATATATTTTATTTATTTATATATATACATA
* *
7997659 TATTATAT-T-TTTTA-TTA-TTATATTTATGCATA
1 TATTATATATATTTTATTTATTTATATATATACATA
7997691 TA
1 TA
7997693 CACGCATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 15 0.47
33 3 0.09
34 5 0.16
35 1 0.03
36 8 0.25
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (36 bp):
TATTATATATATTTTATTTATTTATATATATACATA
Found at i:7999526 original size:22 final size:22
Alignment explanation
Indices: 7999464--7999538 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
7999454 ATATCCAAAC
* * *
7999464 AATAACAACAAAATAGCAACAA
1 AATAACAACGAAATAGTAGCAA
* * *
7999486 TATAATAACGAAATGGTAGCAA
1 AATAACAACGAAATAGTAGCAA
*
7999508 AATAACAACGAAATAGTAGCGA
1 AATAACAACGAAATAGTAGCAA
*
7999530 AACAACAAC
1 AATAACAAC
7999539 AAAACATCTT
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.59, C:0.16, G:0.12, T:0.13
Consensus pattern (22 bp):
AATAACAACGAAATAGTAGCAA
Found at i:8001787 original size:20 final size:20
Alignment explanation
Indices: 8001747--8001790 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
8001737 TCATACATGA
*
8001747 AATTTAAAAAAATAATTCTT
1 AATTTAAAAAAATAATACTT
8001767 AATTTAAAGAAAATAA-ACTT
1 AATTTAAA-AAAATAATACTT
8001787 AATT
1 AATT
8001791 ATCTAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (20 bp):
AATTTAAAAAAATAATACTT
Found at i:8002334 original size:16 final size:16
Alignment explanation
Indices: 8002313--8002380 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
8002303 TTTGGTTCGC
8002313 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
8002329 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
8002345 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
*
8002361 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
8002377 TGTA
1 TGTA
8002381 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:8002420 original size:45 final size:41
Alignment explanation
Indices: 8002361--8002470 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 41
8002351 GGATTAGAGG
*
8002361 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * ***
8002403 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
8002446 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
8002471 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:8002633 original size:16 final size:16
Alignment explanation
Indices: 8002596--8002637 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
8002586 TTAATCATAT
*
8002596 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
8002612 TT-AAATATATTATAA
1 TTAAAATATATTATAA
8002627 TTAAAATATAT
1 TTAAAATATAT
8002638 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:8002644 original size:14 final size:15
Alignment explanation
Indices: 8002605--8002646 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
8002595 TTTAAACATA
*
8002605 ATTATTATTAAATAT
1 ATTATAATTAAATAT
8002620 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
8002634 A-TATAATTTAATA
1 ATTATAATTAAATA
8002647 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:8002874 original size:16 final size:16
Alignment explanation
Indices: 8002831--8002876 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
8002821 ACTATAAAAG
*
8002831 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
8002847 ATTATT-AAATATATT
1 ATAATTAAAATATATT
8002862 ATAATTAAAATATAT
1 ATAATTAAAATATAT
8002877 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:8002883 original size:14 final size:15
Alignment explanation
Indices: 8002831--8002885 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
8002821 ACTATAAAAG
8002831 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
8002847 ATTATTAAATATATT
1 ATAATTAAATATATT
8002862 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
8002875 ATAATTTAATA
1 ATAATTAAATA
8002886 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:8002898 original size:120 final size:120
Alignment explanation
Indices: 8002594--8002981 Score: 667
Period size: 120 Copynumber: 3.2 Consensus size: 120
8002584 ATTTAATCAT
8002594 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
8002659 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGT-
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGTA
* *
8002713 ATTTAAACATAATTTTTAGTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
8002778 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAG-TA
8002834 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
8002898 ATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACTATAAAATGTA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAA-GTA
* *
8002954 ATTTGAA-ATAATTAATATTAAATA-ATTA
1 ATTTAAACATAATTATTATTAAATATATTA
8002982 ATGTTGACAA
Statistics
Matches: 257, Mismatches: 8, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
119 119 0.46
120 131 0.51
121 7 0.03
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (120 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGTA
Found at i:8011185 original size:14 final size:15
Alignment explanation
Indices: 8011166--8011203 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
8011156 TTTTCCAGTT
*
8011166 TTTTTTGCCTA-AAA
1 TTTTTTGCATACAAA
*
8011180 TTTTTTGTATACAAA
1 TTTTTTGCATACAAA
8011195 TTTTTTGCA
1 TTTTTTGCA
8011204 CACCTAATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.26, C:0.11, G:0.08, T:0.55
Consensus pattern (15 bp):
TTTTTTGCATACAAA
Found at i:8016654 original size:13 final size:14
Alignment explanation
Indices: 8016633--8016661 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
8016623 AATGATTAAA
8016633 AAATATAATTAACT
1 AAATATAATTAACT
8016647 AAAT-TAATTAACT
1 AAATATAATTAACT
8016660 AA
1 AA
8016662 TGAACACAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATATAATTAACT
Found at i:8017777 original size:16 final size:17
Alignment explanation
Indices: 8017756--8017793 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
8017746 ATGATTTTGA
8017756 AAAATATTT-AATATAT
1 AAAATATTTAAATATAT
8017772 AAAATATTTAAATATAT
1 AAAATATTTAAATATAT
*
8017789 CAAAT
1 AAAAT
8017794 GAACTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATATTTAAATATAT
Found at i:8019342 original size:94 final size:93
Alignment explanation
Indices: 8019165--8019442 Score: 378
Period size: 94 Copynumber: 3.0 Consensus size: 93
8019155 AGCAACGAAC
* * * * *
8019165 ATGTAACACCCTTAACCCATATCAGTCGCCGGAATAAAGTTACAGAGCATTACCAGACAAATGGA
1 ATGTAACACCC-TAACCCGTATCCGTCGCCAGAATAAGGTTACAGAGCATTACCAGACAAACGGA
*
8019230 ATAATAAACCATTCAAATCATACATCCAA
65 ATAGTAAACCATTCAAATCATACATCCAA
* * *
8019259 ATGTAACATCCCTAACCCGTATCCGTCGTCAGAATAAGGTTACGGAGCATTACTAGGACAAACGG
1 ATGTAACA-CCCTAACCCGTATCCGTCGCCAGAATAAGGTTACAGAGCATTACCA-GACAAACGG
8019324 AATAGTAAACCATT-AAATCATACATCCAA
64 AATAGTAAACCATTCAAATCATACATCCAA
* * * * * *
8019353 ATGTAACACCCCTAACTCGTATACGTCGCCAAAACAAGGTTATAGAGCATTACCAGACAAACAGA
1 ATGTAACA-CCCTAACCCGTATCCGTCGCCAGAATAAGGTTACAGAGCATTACCAGACAAACGGA
8019418 ATAGTAAACCATTCAAATCATACAT
65 ATAGTAAACCATTCAAATCATACAT
8019443 AAATACAAAC
Statistics
Matches: 162, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
93 22 0.14
94 116 0.72
95 24 0.15
ACGTcount: A:0.41, C:0.24, G:0.13, T:0.22
Consensus pattern (93 bp):
ATGTAACACCCTAACCCGTATCCGTCGCCAGAATAAGGTTACAGAGCATTACCAGACAAACGGAA
TAGTAAACCATTCAAATCATACATCCAA
Found at i:8020820 original size:33 final size:33
Alignment explanation
Indices: 8020745--8020864 Score: 156
Period size: 33 Copynumber: 3.7 Consensus size: 33
8020735 ATACTCACTC
* *
8020745 GAGCCAATCCATCCATCACACCAATG--C-TAA
1 GAGCTAATCCAACCATCACACCAATGCTCATAA
*
8020775 GATCTAATCCAACCATCACACCAATGCTCATAA
1 GAGCTAATCCAACCATCACACCAATGCTCATAA
* *
8020808 GAGCTAAACCAACCATGACACCAATGCTCATAA
1 GAGCTAATCCAACCATCACACCAATGCTCATAA
* *
8020841 GAGCTAATCCAACTAGCACACCAA
1 GAGCTAATCCAACCATCACACCAA
8020865 ATAGAGAGTA
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
30 23 0.30
32 1 0.01
33 53 0.69
ACGTcount: A:0.40, C:0.33, G:0.10, T:0.17
Consensus pattern (33 bp):
GAGCTAATCCAACCATCACACCAATGCTCATAA
Found at i:8026599 original size:42 final size:43
Alignment explanation
Indices: 8026547--8026669 Score: 139
Period size: 42 Copynumber: 3.0 Consensus size: 43
8026537 TGCTAAACAG
*
8026547 AAACCC-ATAAGGGTTGAAC-GAAAGCTCATAAGAGCTAACGA
1 AAACCCAATAAGGGTTAAACTGAAAGCTCATAAGAGCTAACGA
* * * *
8026588 AAACCTAATAAGGGTTAAACTG-AAGCTCAAAAGAGCTGAATGG
1 AAACCCAATAAGGGTTAAACTGAAAGCTCATAAGAGCT-AACGA
* *
8026631 AAACCCAAT-AGGGTTAAACTGAAA-CTCATATGAGTTAAC
1 AAACCCAATAAGGGTTAAACTGAAAGCTCATAAGAGCTAAC
8026670 TGAAGCTTAT
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
41 7 0.10
42 47 0.69
43 14 0.21
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.19
Consensus pattern (43 bp):
AAACCCAATAAGGGTTAAACTGAAAGCTCATAAGAGCTAACGA
Found at i:8030217 original size:23 final size:23
Alignment explanation
Indices: 8030191--8030257 Score: 54
Period size: 23 Copynumber: 3.1 Consensus size: 23
8030181 AGTCACAAAT
8030191 GTTATTCAATCAGACAGAATACA
1 GTTATTCAATCAGACAGAATACA
* **
8030214 GTTAAAT-AATCTTACA-AAT---
1 GTT-ATTCAATCAGACAGAATACA
*
8030233 GTTATTCAATTAGACAGAATACA
1 GTTATTCAATCAGACAGAATACA
8030256 GT
1 GT
8030258 CAAATAATCT
Statistics
Matches: 31, Mismatches: 7, Indels: 12
0.62 0.14 0.24
Matches are distributed among these distances:
18 2 0.06
19 9 0.29
20 3 0.10
22 3 0.10
23 12 0.39
24 2 0.06
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.31
Consensus pattern (23 bp):
GTTATTCAATCAGACAGAATACA
Found at i:8030232 original size:42 final size:42
Alignment explanation
Indices: 8030185--8030271 Score: 156
Period size: 42 Copynumber: 2.1 Consensus size: 42
8030175 ACACTCAGTC
*
8030185 ACAAATGTTATTCAATCAGACAGAATACAGTTAAATAATCTT
1 ACAAATGTTATTCAATCAGACAGAATACAGTCAAATAATCTT
*
8030227 ACAAATGTTATTCAATTAGACAGAATACAGTCAAATAATCTT
1 ACAAATGTTATTCAATCAGACAGAATACAGTCAAATAATCTT
8030269 ACA
1 ACA
8030272 CCCAGTCACT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.30
Consensus pattern (42 bp):
ACAAATGTTATTCAATCAGACAGAATACAGTCAAATAATCTT
Found at i:8035191 original size:23 final size:23
Alignment explanation
Indices: 8035156--8035200 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
8035146 TTATAATTTT
*
8035156 TTTGTAATAAATT-ATTTTTTAG
1 TTTGTAATAAATTCATTGTTTAG
*
8035178 TTTGTTATGAAATTCATTGTTTA
1 TTTGTAAT-AAATTCATTGTTTA
8035201 AATATATGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 5 0.26
24 7 0.37
ACGTcount: A:0.29, C:0.02, G:0.11, T:0.58
Consensus pattern (23 bp):
TTTGTAATAAATTCATTGTTTAG
Found at i:8046665 original size:25 final size:26
Alignment explanation
Indices: 8046630--8046689 Score: 95
Period size: 25 Copynumber: 2.3 Consensus size: 26
8046620 CCCATAACTT
8046630 GTGTGAGCAGACCCATTTCACAGCTC
1 GTGTGAGCAGACCCATTTCACAGCTC
* *
8046656 -TGTGAGCAGACTCATTTCATAGCTC
1 GTGTGAGCAGACCCATTTCACAGCTC
8046681 GTGTGAGCA
1 GTGTGAGCA
8046690 ACGATGTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 23 0.74
26 8 0.26
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (26 bp):
GTGTGAGCAGACCCATTTCACAGCTC
Found at i:8050111 original size:15 final size:14
Alignment explanation
Indices: 8050088--8050118 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
8050078 ATGCAAATTA
8050088 AAAAGAAAAGAAAG
1 AAAAGAAAAGAAAG
8050102 AAAAGAAAAAGAAAG
1 AAAAG-AAAAGAAAG
8050117 AA
1 AA
8050119 GAAAGGAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAGAAAG
Found at i:8051870 original size:6 final size:6
Alignment explanation
Indices: 8051859--8051906 Score: 96
Period size: 6 Copynumber: 8.0 Consensus size: 6
8051849 CAATGCTTGT
8051859 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
8051907 ATATAAGTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
TATGTG
Found at i:8053356 original size:5 final size:5
Alignment explanation
Indices: 8053346--8053371 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8053336 GAACAAATAT
8053346 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
8053372 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:8058104 original size:2 final size:2
Alignment explanation
Indices: 8058097--8058127 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
8058087 CGCACGACAC
*
8058097 AG AG AG AG TG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
8058128 CTTTCGCGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.48, T:0.03
Consensus pattern (2 bp):
AG
Found at i:8062882 original size:136 final size:136
Alignment explanation
Indices: 8062638--8062909 Score: 472
Period size: 136 Copynumber: 2.0 Consensus size: 136
8062628 ATGTGTATCT
* * *
8062638 AATGCACCACAAAAGTGAAACCTTTGATAAATTTCAAGAGTTTCGTGATGAAGTGGAAAAATAAT
1 AATGCACCACAAAAGCGAAACCTTTGATAAATTTCAAAAGTTTCGTGAGGAAGTGGAAAAATAAT
* * *
8062703 TAGGTTTATCCATAAATAATCTTCGGTCTGACCGAGGTGGAGAATACTTGCTCGACAAGTTCTTA
66 TAGGTATATCCATAAAGAATCTTCGGCCTGACCGAGGTGGAGAATACTTGCTCGACAAGTTCTTA
8062768 GGATAC
131 GGATAC
*
8062774 AATGCACCACAAAAGCGAAACCTTTGATAAATTTCAAAAGTTTCGTGCGGAAGTGGAAAAATAAT
1 AATGCACCACAAAAGCGAAACCTTTGATAAATTTCAAAAGTTTCGTGAGGAAGTGGAAAAATAAT
*
8062839 TAGGTATATCCATAAAGAATCTTCGGCCTGACCGAGGTGGAGAATACTTGTTCGACAAGTTCTTA
66 TAGGTATATCCATAAAGAATCTTCGGCCTGACCGAGGTGGAGAATACTTGCTCGACAAGTTCTTA
8062904 GGATAC
131 GGATAC
8062910 CTCAAAGAGA
Statistics
Matches: 128, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
136 128 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (136 bp):
AATGCACCACAAAAGCGAAACCTTTGATAAATTTCAAAAGTTTCGTGAGGAAGTGGAAAAATAAT
TAGGTATATCCATAAAGAATCTTCGGCCTGACCGAGGTGGAGAATACTTGCTCGACAAGTTCTTA
GGATAC
Found at i:8063926 original size:23 final size:23
Alignment explanation
Indices: 8063900--8063950 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
8063890 CATTTCTAAT
8063900 CCATTC-AAAACATACCAATTCAA
1 CCATTCAAAAACATACCAA-TCAA
* *
8063923 CCATCCAAAAACATATCAATCAA
1 CCATTCAAAAACATACCAATCAA
8063946 CCATT
1 CCATT
8063951 TCTTTCCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (23 bp):
CCATTCAAAAACATACCAATCAA
Found at i:8064845 original size:46 final size:45
Alignment explanation
Indices: 8064766--8064910 Score: 159
Period size: 46 Copynumber: 3.2 Consensus size: 45
8064756 TCCCATCCAC
* * *
8064766 GGTCTTATTTATTT-TCGGCATGA-TCCCATAGTGTCTTTCAACAAT
1 GGTCTTATTCATTTCTCGTCAT-ATTGCCATAGTGTCTTTCAAC-AT
*
8064811 GGTCTTATTCATTTCTCGTCATATTGCCATAGTGTATTTCAATCAT
1 GGTCTTATTCATTTCTCGTCATATTGCCATAGTGTCTTTCAA-CAT
** * * *
8064857 TATCTTATTCATTTCCCGTCATGTTGTCATAGTGTCTTTCAACTAT
1 GGTCTTATTCATTTCTCGTCATATTGCCATAGTGTCTTTCAAC-AT
8064903 GGTCTTAT
1 GGTCTTAT
8064911 ACATCTGAAT
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
45 15 0.18
46 68 0.81
47 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.14, T:0.46
Consensus pattern (45 bp):
GGTCTTATTCATTTCTCGTCATATTGCCATAGTGTCTTTCAACAT
Found at i:8064948 original size:45 final size:45
Alignment explanation
Indices: 8064890--8065046 Score: 185
Period size: 45 Copynumber: 3.5 Consensus size: 45
8064880 TTGTCATAGT
8064890 GTCTTTCAA-CTATGGTCTTA-TACATCTGAATCGTGATGCCATAGA-
1 GTCTTT-AAGCTATGGTCTTACT-CATCTGAATCGTGATGCCATA-AC
* * * *
8064935 GTCTTTAAGCTATGGTCTTACTCATTTAAATTGTGATGCCATAAT
1 GTCTTTAAGCTATGGTCTTACTCATCTGAATCGTGATGCCATAAC
* * * *
8064980 GTCTTTTAGCTATGGTCTTACTCGTCAGAATCATGATGCCATAAC
1 GTCTTTAAGCTATGGTCTTACTCATCTGAATCGTGATGCCATAAC
*
8065025 GTCTTTCAGCTATGGTCTTACT
1 GTCTTTAAGCTATGGTCTTACT
8065047 TGTTTCTGGT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
44 3 0.03
45 93 0.96
46 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (45 bp):
GTCTTTAAGCTATGGTCTTACTCATCTGAATCGTGATGCCATAAC
Found at i:8065067 original size:45 final size:45
Alignment explanation
Indices: 8065034--8065134 Score: 166
Period size: 45 Copynumber: 2.2 Consensus size: 45
8065024 CGTCTTTCAG
* *
8065034 CTATGGTCTTACTTGTTTCTGGTATGGTACCATAGTGCCTTACCA
1 CTATGGTCTTACTCGTTTCTGGTATGGTACCATAGTGTCTTACCA
* *
8065079 CTATGGTCTTACTCGTTTTTGGTATGGTGCCATAGTGTCTTACCA
1 CTATGGTCTTACTCGTTTCTGGTATGGTACCATAGTGTCTTACCA
8065124 CTATGGTCTTA
1 CTATGGTCTTA
8065135 TTTATTTACT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.42
Consensus pattern (45 bp):
CTATGGTCTTACTCGTTTCTGGTATGGTACCATAGTGTCTTACCA
Found at i:8065067 original size:90 final size:89
Alignment explanation
Indices: 8064884--8065094 Score: 210
Period size: 90 Copynumber: 2.3 Consensus size: 89
8064874 GTCATGTTGT
* * *
8064884 CATAGTGTCTTTCAACTATGGTCTTA-TACATCTGAATCGTGATGCCATAGAGTCTTTAAGCTAT
1 CATAGTGTCTTTC-ACTATGGTCTTACT-CGTCAGAATCATGATGCCATAGAGTCTTTAAGCTAT
* * *
8064948 GGTCTTACTCATTTAAATTGTGATGC
64 GGTCTTACTCATTTAAAGTATGATAC
* * *
8064974 CATAATGTCTTTTAGCTATGGTCTTACTCGTCAGAATCATGATGCCATA-ACGTCTTTCAGCTAT
1 CATAGTGTCTTTCA-CTATGGTCTTACTCGTCAGAATCATGATGCCATAGA-GTCTTTAAGCTAT
** *** *
8065038 GGTCTTACTTGTTTCTGGTATGGTAC
64 GGTCTTACTCATTTAAAGTATGATAC
* *
8065064 CATAGTGCCTTACCACTATGGTCTTACTCGT
1 CATAGTGTCTT-TCACTATGGTCTTACTCGT
8065095 TTTTGGTATG
Statistics
Matches: 98, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
89 2 0.02
90 94 0.96
91 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (89 bp):
CATAGTGTCTTTCACTATGGTCTTACTCGTCAGAATCATGATGCCATAGAGTCTTTAAGCTATGG
TCTTACTCATTTAAAGTATGATAC
Found at i:8066071 original size:24 final size:24
Alignment explanation
Indices: 8066025--8066090 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 24
8066015 GCGCAACACC
* *
8066025 TTTTTTATATTAAAATATTTTTTG
1 TTTTTTATAATAAAATATTTTTTA
8066049 TTTTTTA-AATAAAATATTATTTTA
1 TTTTTTATAATAAAATATT-TTTTA
*
8066073 -TTTTTATTA-AAAATATTT
1 TTTTTTATAATAAAATATTT
8066091 AAATATATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
22 1 0.03
23 24 0.65
24 12 0.32
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
TTTTTTATAATAAAATATTTTTTA
Found at i:8066083 original size:26 final size:23
Alignment explanation
Indices: 8066025--8066077 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 23
8066015 GCGCAACACC
*
8066025 TTTTTTATATTAAAATATTTTTTG
1 TTTTTTA-AATAAAATATTTTTTG
*
8066049 TTTTTTAAATAAAATATTATTTTA
1 TTTTTTAAATAAAATATT-TTTTG
8066073 TTTTT
1 TTTTT
8066078 ATTAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
TTTTTTAAATAAAATATTTTTTG
Found at i:8075225 original size:24 final size:24
Alignment explanation
Indices: 8075175--8075219 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
8075165 AAATTTTAAA
*
8075175 TTAGGGTATTAGGTTTTTAATTGT
1 TTAGGGTATTAGGTGTTTAATTGT
*
8075199 TTAGGGTTTTAGG-GTTTAATT
1 TTAGGGTATTAGGTGTTTAATT
8075220 TTTTTAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (24 bp):
TTAGGGTATTAGGTGTTTAATTGT
Found at i:8079801 original size:14 final size:16
Alignment explanation
Indices: 8079766--8079805 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
8079756 AAATTCTGAC
8079766 AAATATATAACAATTAT
1 AAATATAT-ACAATTAT
8079783 AAATATATA-AATT-T
1 AAATATATACAATTAT
8079797 AAATATATA
1 AAATATATA
8079806 TATAAAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.43
15 4 0.17
16 1 0.04
17 8 0.35
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATATACAATTAT
Found at i:8079861 original size:8 final size:9
Alignment explanation
Indices: 8079835--8079882 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
8079825 TTACACACGT
8079835 AAATACATA
1 AAATACATA
*
8079844 AAATAGATA
1 AAATACATA
8079853 AAATA-ATA
1 AAATACATA
8079861 AAATA-AT-
1 AAATACATA
8079868 AAATACATA
1 AAATACATA
8079877 ACAATA
1 A-AATA
8079883 AGAATTTTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
7 5 0.14
8 12 0.34
9 14 0.40
10 4 0.11
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (9 bp):
AAATACATA
Found at i:8079861 original size:17 final size:17
Alignment explanation
Indices: 8079835--8079883 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
8079825 TTACACACGT
8079835 AAATACATAAAATAGATA
1 AAATACATAAAATA-ATA
8079853 AAATA-ATAAAATAAT-
1 AAATACATAAAATAATA
8079868 AAATACATAACAATAA
1 AAATACATAA-AATAA
8079884 GAATTTTCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.17
16 6 0.21
17 13 0.45
18 5 0.17
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.22
Consensus pattern (17 bp):
AAATACATAAAATAATA
Found at i:8095918 original size:15 final size:16
Alignment explanation
Indices: 8095888--8095929 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
8095878 AAAATTCTAA
8095888 AAAATATATAACAA-TT
1 AAAATATAT-ACAATTT
8095904 ATAAATATATA-AATTT
1 A-AAATATATACAATTT
8095920 AAAATATATA
1 AAAATATATA
8095930 TAAACACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 11 0.46
16 5 0.21
17 8 0.33
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATATATACAATTT
Found at i:8095930 original size:17 final size:16
Alignment explanation
Indices: 8095887--8095933 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
8095877 GAAAATTCTA
*
8095887 AAAAATATATAACAATT
1 AAAAATATATAA-ATTT
*
8095904 ATAAATATATAAATTT
1 AAAAATATATAAATTT
8095920 AAAATATATATAAA
1 AAAA-ATATATAAA
8095934 CACATAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 6 0.23
17 20 0.77
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAAATATATAAATTT
Found at i:8108399 original size:48 final size:47
Alignment explanation
Indices: 8108343--8108435 Score: 143
Period size: 48 Copynumber: 2.0 Consensus size: 47
8108333 CCTTCGGAAC
* *
8108343 CATGATTCATGTTCTTCCTGGAGCATCACTTTCCA-CTAGGTGGCTTTG
1 CATGATTCATATGCTTCCTGGAGCATCAC-TTCCAGC-AGGTGGCTTTG
8108391 CATGATTCATATGCTTCCTGGAGCATCACTTCCAGCAGGTGGCTT
1 CATGATTCATATGCTTCCTGGAGCATCACTTCCAGCAGGTGGCTT
8108436 GCGATTCAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
47 14 0.33
48 28 0.67
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (47 bp):
CATGATTCATATGCTTCCTGGAGCATCACTTCCAGCAGGTGGCTTTG
Found at i:8110459 original size:6 final size:6
Alignment explanation
Indices: 8110448--8110474 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
8110438 CAGCACTAAG
8110448 TTGTGC TTGTGC TTGTGC TTGTGC TTG
1 TTGTGC TTGTGC TTGTGC TTGTGC TTG
8110475 CGAGAATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.33, T:0.52
Consensus pattern (6 bp):
TTGTGC
Found at i:8115216 original size:30 final size:27
Alignment explanation
Indices: 8115170--8115231 Score: 67
Period size: 30 Copynumber: 2.3 Consensus size: 27
8115160 GTTTTTTGGG
8115170 TTTAA-TTCTTCTATTTTAATTAAGTATTA
1 TTTAATTTCTTCTATTTT-A-TAA-TATTA
8115199 TTTAATTTCTT-TAATTTTATAATATTA
1 TTTAATTTCTTCT-ATTTTATAATATTA
8115226 -TTAATT
1 TTTAATT
8115232 AATCTAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
26 6 0.19
27 5 0.16
28 3 0.10
29 7 0.23
30 10 0.32
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (27 bp):
TTTAATTTCTTCTATTTTATAATATTA
Found at i:8116082 original size:21 final size:21
Alignment explanation
Indices: 8116058--8116105 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
8116048 ATAGTTTATC
*
8116058 TTAGTTATATCGATAACTA-TT
1 TTAGTTAAAT-GATAACTAGTT
* *
8116079 TTAGATAAATGTTAACTAGTT
1 TTAGTTAAATGATAACTAGTT
8116100 TTAGTT
1 TTAGTT
8116106 CTTTTTCTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (21 bp):
TTAGTTAAATGATAACTAGTT
Found at i:8119404 original size:29 final size:29
Alignment explanation
Indices: 8119343--8119405 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
8119333 ATCTATATTT
**
8119343 AGATAATTATACATAGAATGTATAAGTTT
1 AGATAATTATACATAGAATGTATAAGTAA
* *
8119372 AGATTATTATACATAGAATGTCCTAA-TAA
1 AGATAATTATACATAGAATGT-ATAAGTAA
8119401 AGATA
1 AGATA
8119406 TCAAGAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 25 0.89
30 3 0.11
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (29 bp):
AGATAATTATACATAGAATGTATAAGTAA
Found at i:8121486 original size:22 final size:22
Alignment explanation
Indices: 8121461--8121552 Score: 64
Period size: 22 Copynumber: 4.0 Consensus size: 22
8121451 AGAATATTTA
*
8121461 ATATTAAGAATTTTATTAAATT
1 ATATTAATAATTTTATTAAATT
8121483 ATATTTAATAATAATTTTTATTAAA-T
1 ATA--T--TAATAA-TTTTATTAAATT
* *
8121509 ATAATTAA-ATTATTTATT-ATTT
1 AT-ATTAATAAT-TTTATTAAATT
*
8121531 ATATTAATAATCTTATTAAATT
1 ATATTAATAATTTTATTAAATT
8121553 TTAATAACAA
Statistics
Matches: 54, Mismatches: 6, Indels: 20
0.68 0.08 0.25
Matches are distributed among these distances:
21 12 0.22
22 18 0.33
23 3 0.06
24 1 0.02
25 1 0.02
26 8 0.15
27 11 0.20
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (22 bp):
ATATTAATAATTTTATTAAATT
Found at i:8131869 original size:11 final size:11
Alignment explanation
Indices: 8131846--8131888 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
8131836 AACAAATCTT
8131846 CTCTCATATTTC
1 CTCTCA-ATTTC
8131858 CTCTCAATTTC
1 CTCTCAATTTC
*
8131869 CTTTCAATTT-
1 CTCTCAATTTC
8131879 -TCTCAATTTC
1 CTCTCAATTTC
8131889 TTTCCAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 8 0.29
11 14 0.50
12 6 0.21
ACGTcount: A:0.19, C:0.30, G:0.00, T:0.51
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:8131901 original size:20 final size:20
Alignment explanation
Indices: 8131859--8131903 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
8131849 TCATATTTCC
**
8131859 TCTCAATTTCCTTTCAATTT
1 TCTCAATTTCCTTTCAAAAT
8131879 TCTCAATTT-CTTTCCAAAAT
1 TCTCAATTTCCTTT-CAAAAT
8131899 TCTCA
1 TCTCA
8131904 TAAATCCATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (20 bp):
TCTCAATTTCCTTTCAAAAT
Found at i:8131945 original size:51 final size:51
Alignment explanation
Indices: 8131870--8131990 Score: 158
Period size: 51 Copynumber: 2.4 Consensus size: 51
8131860 CTCAATTTCC
* * *
8131870 TTTCAATTT--TCTCAATTTCTTTCCAAAATTCTCAT-AAATCCATATTTAA
1 TTTCAATTTCCTCTCAATTTCATTCCAAAAATCTC-TCAAAGCCATATTTAA
* *
8131919 TTTCAATTTCCTTTCAATTTCATTCCAAAAATCTCTCAAAGCTATATTTAA
1 TTTCAATTTCCTCTCAATTTCATTCCAAAAATCTCTCAAAGCCATATTTAA
*
8131970 TTTCAATTTGCTCTCAATTTC
1 TTTCAATTTCCTCTCAATTTC
8131991 CTTTTTAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
49 9 0.15
50 1 0.02
51 52 0.84
ACGTcount: A:0.31, C:0.21, G:0.02, T:0.46
Consensus pattern (51 bp):
TTTCAATTTCCTCTCAATTTCATTCCAAAAATCTCTCAAAGCCATATTTAA
Found at i:8133672 original size:18 final size:18
Alignment explanation
Indices: 8133645--8133682 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
8133635 CAGGTGCGTT
*
8133645 TCCTATCCCTTACATGTA
1 TCCTAACCCTTACATGTA
*
8133663 TCCTAACCCTTATATGTA
1 TCCTAACCCTTACATGTA
8133681 TC
1 TC
8133683 ATCATATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.32, G:0.05, T:0.39
Consensus pattern (18 bp):
TCCTAACCCTTACATGTA
Found at i:8133752 original size:25 final size:25
Alignment explanation
Indices: 8133724--8134057 Score: 228
Period size: 25 Copynumber: 13.9 Consensus size: 25
8133714 TGAATATTTT
8133724 GAAGTTTATTTGATGTAATAAAATA
1 GAAGTTTATTTGATGTAATAAAATA
*
8133749 GAAGTTT-TATTGATGTAAAAAAATTA
1 GAAGTTTAT-TTGATGTAATAAAA-TA
* ** *
8133775 -AA-TTTTTTTGA-GT--T-ATTTT
1 GAAGTTTATTTGATGTAATAAAATA
8133794 G-A-TATTATTTGATGTAATAAAATA
1 GAAGT-TTATTTGATGTAATAAAATA
*
8133818 GAAGTTT-TATTGATGTAATAAAAATT
1 GAAGTTTAT-TTGATGTAAT-AAAATA
* * ** *
8133844 GAAATTTTTTTGA-GT--T-ATTTT
1 GAAGTTTATTTGATGTAATAAAATA
8133865 G-A-TATTATTTGATGTAATAAAATA
1 GAAGT-TTATTTGATGTAATAAAATA
8133889 GAAGTTTATTTGATGTAATAAAATA
1 GAAGTTTATTTGATGTAATAAAATA
* *
8133914 GAAGTTTATATGAAGTAATAAAATA
1 GAAGTTTATTTGATGTAATAAAATA
* *
8133939 GAAGTTT-TACTGATGTAATAAAAATT
1 GAAGTTTAT-TTGATGTAAT-AAAATA
* * * ** *
8133965 TAAATTTTTTTGA-GT--T-ATTTT
1 GAAGTTTATTTGATGTAATAAAATA
8133986 G-A-TATTATTTGATGTAATAAAATA
1 GAAGT-TTATTTGATGTAATAAAATA
*
8134010 GAAGTGTATTTGATGTAATAAAATA
1 GAAGTTTATTTGATGTAATAAAATA
8134035 GAAGTTTATTTGATGTAATAAAA
1 GAAGTTTATTTGATGTAATAAAA
8134058 ATTGAAAACC
Statistics
Matches: 244, Mismatches: 34, Indels: 62
0.72 0.10 0.18
Matches are distributed among these distances:
19 5 0.02
20 24 0.10
21 13 0.05
23 7 0.03
24 19 0.08
25 141 0.58
26 33 0.14
27 2 0.01
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (25 bp):
GAAGTTTATTTGATGTAATAAAATA
Found at i:8133882 original size:71 final size:70
Alignment explanation
Indices: 8133729--8133911 Score: 334
Period size: 71 Copynumber: 2.6 Consensus size: 70
8133719 ATTTTGAAGT
8133729 TTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAA-AAAAATTAAATTTTTTTGAGTTATTT
1 TTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTAAATTTTTTTGAGTTATTT
8133793 TGATA
66 TGATA
8133798 TTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTGAAATTTTTTTGAGTTATT
1 TTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATT-AAATTTTTTTGAGTTATT
8133863 TTGATA
65 TTGATA
8133869 TTATTTGATGTAATAAAATAGAAG-TTTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAATAGAAGTTTTA-TTGATGTAATAAAA
8133912 TAGAAGTTTA
Statistics
Matches: 111, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
69 38 0.34
70 11 0.10
71 62 0.56
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (70 bp):
TTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTAAATTTTTTTGAGTTATTT
TGATA
Found at i:8133941 original size:121 final size:121
Alignment explanation
Indices: 8133798--8134057 Score: 475
Period size: 121 Copynumber: 2.1 Consensus size: 121
8133788 TATTTTGATA
*
8133798 TTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTGAAATTTTTTTGAGTTATT
1 TTATTTGATGTAATAAAATAGAAGTTTTACTGATGTAATAAAAATTGAAATTTTTTTGAGTTATT
*
8133863 TTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAGT
66 TTGATATTATTTGATGTAATAAAATAGAAGTGTATTTGATGTAATAAAATAGAAGT
* * *
8133919 TTATATGAAGTAATAAAATAGAAGTTTTACTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
1 TTATTTGATGTAATAAAATAGAAGTTTTACTGATGTAATAAAAATTGAAATTTTTTTGAGTTATT
8133984 TTGATATTATTTGATGTAATAAAATAGAAGTGTATTTGATGTAATAAAATAGAAGT
66 TTGATATTATTTGATGTAATAAAATAGAAGTGTATTTGATGTAATAAAATAGAAGT
8134040 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
8134058 ATTGAAAACC
Statistics
Matches: 132, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 132 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.43
Consensus pattern (121 bp):
TTATTTGATGTAATAAAATAGAAGTTTTACTGATGTAATAAAAATTGAAATTTTTTTGAGTTATT
TTGATATTATTTGATGTAATAAAATAGAAGTGTATTTGATGTAATAAAATAGAAGT
Found at i:8134088 original size:23 final size:23
Alignment explanation
Indices: 8134062--8134151 Score: 144
Period size: 23 Copynumber: 3.9 Consensus size: 23
8134052 ATAAAAATTG
*
8134062 AAAACCCTAACTTAATTAAGTTA
1 AAAACCCTAACCTAATTAAGTTA
*
8134085 AAAACCCTAACCTAATTAAATTA
1 AAAACCCTAACCTAATTAAGTTA
* *
8134108 AAAACCCTAACCTATTTAAGTTG
1 AAAACCCTAACCTAATTAAGTTA
8134131 AAAACCCTAACCTAATTAAGT
1 AAAACCCTAACCTAATTAAGT
8134152 GCAGCTAGTA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.47, C:0.21, G:0.04, T:0.28
Consensus pattern (23 bp):
AAAACCCTAACCTAATTAAGTTA
Found at i:8136289 original size:125 final size:125
Alignment explanation
Indices: 8136101--8136341 Score: 378
Period size: 125 Copynumber: 1.9 Consensus size: 125
8136091 CCCAAACAGG
*
8136101 CTACTGTAGCAAAAGCGCGTCCCCAAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
* *
8136166 CTAGAAGCGAATTTATACTATTTGCTCAGAAACGTTAAAAAAATTTTATTTCATCCATAAC
66 CTAGAAGCGAATTTATACTATTTGCTCAGAAACGTCAAAAAAA-ATTATTTCATCCATAAC
* * *
8136227 CTACTGTAGTAAGAGCGCGTCCACGAGGGCGCGA-TTTCA-AAATTTCTTCTCAAATAGCATCCT
1 CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTTCACAAA-TTCTTCTCAAATAGCATCCT
* *
8136290 GCTAGAAGCGATTTTATACTATTTGCTCAGAAAGGTCAAAAAAAATTATTTC
65 GCTAGAAGCGAATTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTC
8136342 TTCCCGGACC
Statistics
Matches: 106, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
124 10 0.09
125 66 0.62
126 30 0.28
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
CTAGAAGCGAATTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCATCCATAAC
Found at i:8140834 original size:29 final size:29
Alignment explanation
Indices: 8140801--8140863 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 29
8140791 ATTGAAACTT
*
8140801 AATTTTTAAATTTAAAAATA-GAAGGA-TAA
1 AATTTTTAAA-ATAAAAATATG-AGGACTAA
8140830 AATTTTTTAAAATAAAAATATGAGGACTAA
1 AA-TTTTTAAAATAAAAATATGAGGACTAA
8140860 AATT
1 AATT
8140864 CCTTATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
29 16 0.53
30 14 0.47
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.35
Consensus pattern (29 bp):
AATTTTTAAAATAAAAATATGAGGACTAA
Found at i:8140839 original size:30 final size:30
Alignment explanation
Indices: 8140803--8140863 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 30
8140793 TGAAACTTAA
*
8140803 TTTTTAAATTTAAAAATA-GAAGGA-TAAAAT
1 TTTTTAAA-ATAAAAATATG-AGGACTAAAAT
8140833 TTTTTAAAATAAAAATATGAGGACTAAAAT
1 TTTTTAAAATAAAAATATGAGGACTAAAAT
8140863 T
1 T
8140864 CCTTATAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 12 0.43
30 16 0.57
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.36
Consensus pattern (30 bp):
TTTTTAAAATAAAAATATGAGGACTAAAAT
Found at i:8141361 original size:22 final size:22
Alignment explanation
Indices: 8141331--8141408 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
8141321 ATTTTCTCTC
*
8141331 AATTCCTCTCAATTTCTTTCCAA
1 AATT-CTCTCAATTTCCTTCCAA
**
8141354 AATTCTCTCAATTTCCTTAAAA
1 AATTCTCTCAATTTCCTTCCAA
*
8141376 AATTCTCTTAATTTCCTTCCAA
1 AATTCTCTCAATTTCCTTCCAA
8141398 AATTCTCTCAA
1 AATTCTCTCAA
8141409 ATCCATATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 44 0.92
23 4 0.08
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTCTCTCAATTTCCTTCCAA
Found at i:8141626 original size:14 final size:15
Alignment explanation
Indices: 8141595--8141625 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8141585 TTTTTAAATA
8141595 TTATTTAAGAATTTT
1 TTATTTAAGAATTTT
*
8141610 TTATTTATGAATTTT
1 TTATTTAAGAATTTT
8141625 T
1 T
8141626 AGATAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TTATTTAAGAATTTT
Found at i:8144316 original size:29 final size:29
Alignment explanation
Indices: 8144248--8144950 Score: 987
Period size: 29 Copynumber: 23.9 Consensus size: 29
8144238 GTTTATTCCT
* * *
8144248 AACCTTAACCCTAACCAAACTTTATT-AA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* * *
8144276 AACACTAACCCTAACCAAACTCAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
8144305 AACCCTAACCCTAACCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* *
8144334 AACCCTAACCTTAACCAAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* *
8144363 AACCCTAGCCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
8144392 AACCCTAACCCTAACCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
** *
8144421 AACCCTAACATTAACCTAACTCAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* *
8144450 AACCCTAACCCTAACCAAACTTTATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* *
8144479 AACACTAACCCTAACCAAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
8144508 AACCCTAACCCTAACCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
*
8144537 AA-CCTAAACCCTAACCTAATTTAATTAAA
1 AACCCT-AACCCTAACCTAACTTAATTAAA
*
8144566 AACCCTAACCCTAACCTAACTCAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* *
8144595 AACCCTAACCCTAACCAAACTCAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* *
8144624 AACACTCTAACCCTAACCAAACTCAATTAAA
1 AAC-C-CTAACCCTAACCTAACTTAATTAAA
* *
8144655 AACTCTAACCCTAAACTAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
*
8144684 AACCCTAACACTAACCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
*
8144713 AACCCTAAACCCTAACCTAATTTAATTAAA
1 AACCCT-AACCCTAACCTAACTTAATTAAA
*
8144743 AACCCTAACCCTAACCTAATTTAATTAAAAACCA
1 AACCCTAACCCTAACCTAACTTAATT---AA--A
*
8144777 TAACCCTAACCCTAACCAAACTTAATTAAA
1 -AACCCTAACCCTAACCTAACTTAATTAAA
8144807 AACCCTAACCCTAACCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
8144836 AACCCTAACCCTAACCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* *
8144865 AACCCTAAACCCTAACCTAATTTAATTTAA
1 AACCCT-AACCCTAACCTAACTTAATTAAA
*
8144895 AACCCTAACCCTAACCAAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
*
8144924 AACCCTAACCCTAACCCTAACTCAATT
1 AACCCTAACCCTAA-CCTAACTTAATT
8144951 GATAATTTCA
Statistics
Matches: 611, Mismatches: 50, Indels: 26
0.89 0.07 0.04
Matches are distributed among these distances:
28 25 0.04
29 460 0.75
30 69 0.11
31 28 0.05
32 4 0.01
34 1 0.00
35 24 0.04
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (29 bp):
AACCCTAACCCTAACCTAACTTAATTAAA
Found at i:8145284 original size:37 final size:37
Alignment explanation
Indices: 8144949--8145285 Score: 602
Period size: 37 Copynumber: 9.1 Consensus size: 37
8144939 CCTAACTCAA
8144949 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
1 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
* *
8144986 TTCATAATTTCACTAACCATTAATTATTTTATATAAT
1 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
*
8145023 TTCATAATTTCACTAACCATTAATAATTTTATATAAT
1 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
*
8145060 TTCATAATTTCACTAACCATTAATAATTTTATATAAT
1 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
8145097 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
1 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
*
8145134 TTCATAATTTCACTAACCATTAATAATTTTATATAAT
1 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
*
8145171 TTGATAATTTAACTAACCATTAATAATTTTATATAAT
1 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
8145208 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
1 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
* *
8145245 TTGATAATTTTACTAACCATTAGTAATTTTATATAAT
1 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
8145282 TTGA
1 TTGA
8145286 GTTAATACAA
Statistics
Matches: 290, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 290 1.00
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (37 bp):
TTGATAATTTCACTAACCATTAATAATTTTATATAAT
Found at i:8148452 original size:123 final size:124
Alignment explanation
Indices: 8148160--8148503 Score: 564
Period size: 123 Copynumber: 2.8 Consensus size: 124
8148150 CCCAAACATG
* *
8148160 CTACTGTAGCAAAAGCGCGCCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGTATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
8148225 TAGAAGCGATTTTATACTATTTGGTCAGAAAAGTCAAAAAAAAATTATTTCTTACATGAC
66 TAAAAGCGATTTTATACTATTTGCTCAGAAAAGT-AAAAAAAAATTATTTCTTACATGAC
* * *
8148285 CTACTGTAGCAAAAGCGCATCCACGAGGCCGCGATTCCATAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
** *
8148350 TAAAAGCGATTTTATACTATTTGCTTTGAAAAGT-AAAAAAAATTATTTCTTACGTGAC
66 TAAAAGCGATTTTATACTATTTGCTCAGAAAAGTAAAAAAAAATTATTTCTTACATGAC
* *
8148408 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTTTTCTCAAATAACATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
8148473 TAAAAGCGATTTTATACTATTTGCTCAGAAA
66 TAAAAGCGATTTTATACTATTTGCTCAGAAA
8148504 CATCAACTCG
Statistics
Matches: 202, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
123 112 0.55
125 90 0.45
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAAAAGCGATTTTATACTATTTGCTCAGAAAAGTAAAAAAAAATTATTTCTTACATGAC
Found at i:8149419 original size:9 final size:9
Alignment explanation
Indices: 8149405--8149445 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
8149395 TTTGGTTAAA
8149405 AATTAACCG
1 AATTAACCG
*
8149414 AATTAACTG
1 AATTAACCG
8149423 AATTAACCG
1 AATTAACCG
**
8149432 AATTGCCCG
1 AATTAACCG
8149441 AATTA
1 AATTA
8149446 CCCAAATTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:8149738 original size:39 final size:39
Alignment explanation
Indices: 8149652--8149758 Score: 162
Period size: 39 Copynumber: 2.8 Consensus size: 39
8149642 TACTTAGAGT
*
8149652 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAACTGAG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAACTGAG
* * *
8149690 TAGATTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAACTGAG
*
8149729 TAGACTTTAGTTTTAGATTTATTGGGTTGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGG
8149759 ATTGGTAATT
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
38 26 0.42
39 36 0.58
ACGTcount: A:0.20, C:0.03, G:0.27, T:0.50
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAACTGAG
Found at i:8149775 original size:12 final size:12
Alignment explanation
Indices: 8149755--8149788 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
8149745 ATTTATTGGG
*
8149755 TTGGATTGGTAA
1 TTGGGTTGGTAA
8149767 TTGGGTTGGGTAA
1 TTGGGTT-GGTAA
8149780 TTGGGTTGG
1 TTGGGTTGG
8149789 GTTAGATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.15, C:0.00, G:0.44, T:0.41
Consensus pattern (12 bp):
TTGGGTTGGTAA
Found at i:8149780 original size:13 final size:13
Alignment explanation
Indices: 8149762--8149790 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
8149752 GGGTTGGATT
8149762 GGTAATTGGGTTG
1 GGTAATTGGGTTG
8149775 GGTAATTGGGTTG
1 GGTAATTGGGTTG
8149788 GGT
1 GGT
8149791 TAGATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.48, T:0.38
Consensus pattern (13 bp):
GGTAATTGGGTTG
Found at i:8150867 original size:23 final size:23
Alignment explanation
Indices: 8150837--8150880 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
8150827 ATTGTATATT
* *
8150837 TTTTTCTCTTCTTCTTCTTCTTC
1 TTTTTCTCATCTCCTTCTTCTTC
8150860 TTTTTCTCATCTCCTTCTTCT
1 TTTTTCTCATCTCCTTCTTCT
8150881 ACTGCCCAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTTTCTCATCTCCTTCTTCTTC
Found at i:8153905 original size:110 final size:107
Alignment explanation
Indices: 8153639--8154067 Score: 662
Period size: 108 Copynumber: 4.0 Consensus size: 107
8153629 AAGATATAAG
* * *
8153639 AGGATATTTGGCTATTTAGTCCAACGAG-AAATTGAAACCCAGCACATTAGGGCACGTTTTCTCG
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCG
*
8153703 AATTTTCAAACGCAAAACATTGCCTTATTTTGAAATTTTAAA
66 AATTTTCAAACGCAAAACATTACCTTATTTTGAAATTTTAAA
* *
8153745 AGGATATTCGGCTATTTGGTCGAACGAGAAAAATCGAATCCCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAG-AAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
* * *
8153810 GAATTTCCAAACGCAGAACATTGCCTTATTTTTGAAATTTTTAAA
65 GAATTTTCAAACGCAAAACATTACCTTA-TTTTGAAA-TTTTAAA
*
8153855 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCAGGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAG-AAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
*
8153920 AAATTTTCAAACGCAAAACATTACCTTATTTTGAAATTTTAAA
65 GAATTTTCAAACGCAAAACATTACCTTATTTTGAAATTTTAAA
* ** *
8153963 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCTAGCACATTAGGAAACGTTTCCTCG
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCG
* *
8154028 AATTTTCAAACGCAACACATTACCTTATTTTAAAATTTTA
66 AATTTTCAAACGCAAAACATTACCTTATTTTGAAATTTTA
8154068 TTCCAAAAAA
Statistics
Matches: 297, Mismatches: 22, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
106 25 0.08
107 69 0.23
108 94 0.32
109 16 0.05
110 93 0.31
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (107 bp):
AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCG
AATTTTCAAACGCAAAACATTACCTTATTTTGAAATTTTAAA
Found at i:8157237 original size:21 final size:21
Alignment explanation
Indices: 8157199--8157238 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8157189 CTAAGTGGCA
* *
8157199 AGTTAATTGACCATGTCAGCT
1 AGTTAACTGACCACGTCAGCT
*
8157220 AGTTAACTGGCCACGTCAG
1 AGTTAACTGACCACGTCAG
8157239 TTGTCCCGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.28
Consensus pattern (21 bp):
AGTTAACTGACCACGTCAGCT
Found at i:8159273 original size:20 final size:20
Alignment explanation
Indices: 8159250--8159288 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8159240 TTGCACACGA
*
8159250 GTGTGTAGACCTCCACACAG
1 GTGTGTAGACATCCACACAG
*
8159270 GTGTGTATACATCCACACA
1 GTGTGTAGACATCCACACA
8159289 ACCTAGGCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (20 bp):
GTGTGTAGACATCCACACAG
Found at i:8160975 original size:15 final size:15
Alignment explanation
Indices: 8160957--8160986 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8160947 TATTTAATTC
*
8160957 CAATCAATTTGATTT
1 CAATAAATTTGATTT
8160972 CAATAAATTTGATTT
1 CAATAAATTTGATTT
8160987 AATTTTTAGT
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:0.37, C:0.10, G:0.07, T:0.47
Consensus pattern (15 bp):
CAATAAATTTGATTT
Found at i:8161769 original size:81 final size:81
Alignment explanation
Indices: 8161608--8161769 Score: 198
Period size: 81 Copynumber: 2.0 Consensus size: 81
8161598 TAGCTTTCTA
* * * * *
8161608 TTTGGGCGCCGCTAATTCTCTGGCCTTTAGCGGCGTTTTTAACTAAGCGACGCTAATGGTTGGCC
1 TTTGGGCGCCGCTAATACTCTGGCCTTTAGAGGCGCTTTTAACTAAGCGACGCTAATGATTGACC
*
8161673 TTTAGTGGCGTTTTTT
66 TTTAGCGGCGTTTTTT
* * *** * *
8161689 TTTGTGCGCCGCTAATACTGTGGCCTTTAGAGGCGCTTTTGTGTAAGCGCCGCTAATGCATTTAC
1 TTTGGGCGCCGCTAATACTCTGGCCTTTAGAGGCGCTTTTAACTAAGCGACGCTAATG-ATTGAC
8161754 CTTTAGCGGCGTTTTT
65 CTTTAGCGGCGTTTTT
8161770 GCCGAAGCGC
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
81 49 0.73
82 18 0.27
ACGTcount: A:0.14, C:0.22, G:0.27, T:0.38
Consensus pattern (81 bp):
TTTGGGCGCCGCTAATACTCTGGCCTTTAGAGGCGCTTTTAACTAAGCGACGCTAATGATTGACC
TTTAGCGGCGTTTTTT
Found at i:8161770 original size:41 final size:40
Alignment explanation
Indices: 8161613--8161786 Score: 152
Period size: 41 Copynumber: 4.3 Consensus size: 40
8161603 TTCTATTTGG
* ***
8161613 GCGCCGCTAATTCTCTGGCCTTTAGCGGCGTTTTTAACTAA
1 GCGCCGCTAATGCT-TGGCCTTTAGCGGCGTTTTTGTGTAA
* * * * * **
8161654 GCGACGCTAATGGTTGGCCTTTAGTGGCGTTTTTTTTTGT
1 GCGCCGCTAATGCTTGGCCTTTAGCGGCGTTTTTGTGTAA
* * *
8161694 GCGCCGCTAATACTGTGGCCTTTAGAGGCGCTTTTGTGTAA
1 GCGCCGCTAATGCT-TGGCCTTTAGCGGCGTTTTTGTGTAA
** *
8161735 GCGCCGCTAATGCATTTACCTTTAGCGGCGTTTTTGCCG-AA
1 GCGCCGCTAATGC-TTGGCCTTTAGCGGCGTTTTTG-TGTAA
8161776 GCGCCGCTAAT
1 GCGCCGCTAAT
8161787 AGTAAAAAAA
Statistics
Matches: 106, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
40 31 0.29
41 73 0.69
42 2 0.02
ACGTcount: A:0.16, C:0.24, G:0.26, T:0.34
Consensus pattern (40 bp):
GCGCCGCTAATGCTTGGCCTTTAGCGGCGTTTTTGTGTAA
Found at i:8162291 original size:14 final size:14
Alignment explanation
Indices: 8162272--8162339 Score: 61
Period size: 14 Copynumber: 4.9 Consensus size: 14
8162262 TACGTGGTAT
8162272 AGATTTAAGGTTTG
1 AGATTTAAGGTTTG
8162286 AGATTTAAGG-TT-
1 AGATTTAAGGTTTG
* *
8162298 A-ATTTAGGGGTTAG
1 AGATTTA-AGGTTTG
*
8162312 AGGTTTAAGGGTTTG
1 AGATTTAA-GGTTTG
*
8162327 AAATTTAAGGTTT
1 AGATTTAAGGTTT
8162340 CAACGGTCAT
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
11 5 0.12
12 3 0.07
13 3 0.07
14 16 0.38
15 15 0.36
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.41
Consensus pattern (14 bp):
AGATTTAAGGTTTG
Found at i:8166230 original size:13 final size:13
Alignment explanation
Indices: 8166214--8166251 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
8166204 TTTTTTTTGT
8166214 TATATTTTAGTTG
1 TATATTTTAGTTG
8166227 TATATTTTAGTTG
1 TATATTTTAGTTG
8166240 TATATTTTAGTT
1 TATATTTTAGTT
8166252 TTAATTACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.13, T:0.63
Consensus pattern (13 bp):
TATATTTTAGTTG
Found at i:8166759 original size:21 final size:21
Alignment explanation
Indices: 8166730--8166782 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
8166720 ACATCTTTGA
* *
8166730 TATATATATTTATATACAGTTT
1 TATATATATTTAT-TAAAATTT
8166752 TA-ATATATTTATTAAAATTT
1 TATATATATTTATTAAAATTT
8166772 TATATATATTT
1 TATATATATTT
8166783 GAAAAGCTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 8 0.29
21 18 0.64
22 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TATATATATTTATTAAAATTT
Found at i:8166931 original size:20 final size:21
Alignment explanation
Indices: 8166899--8166937 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
8166889 ATATAAAACT
8166899 TACATACATACATAACTTACA
1 TACATACATACATAACTTACA
8166920 TACATA-ATACATAACTTA
1 TACATACATACATAACTTA
8166938 TATAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.31
Consensus pattern (21 bp):
TACATACATACATAACTTACA
Found at i:8166979 original size:55 final size:55
Alignment explanation
Indices: 8166813--8166980 Score: 155
Period size: 55 Copynumber: 3.0 Consensus size: 55
8166803 CATAATTTAC
** * * * *
8166813 ATACATAAAATATAT-AAATTTTTATATAAACTTACACAACACATAACTTAC---
1 ATACATAACTTATATAAAATTTTTATAAAAACTTACATAATACATTACTTACATA
* * *
8166864 ATACATAACTTAAACCAAAATTTTTATATAAAACTTACATACATACATAACTTACATACATA
1 ATACATAACTTATA-TAAAATTTTTATA-AAAACTTACATA-ATAC---A-TTACTTACATA
*
8166926 ATACATAACTTATATAAAATTTTTATACAAACTTACATAATACATTACTTACATA
1 ATACATAACTTATATAAAATTTTTATAAAAACTTACATAATACATTACTTACATA
8166981 TTAACTTACA
Statistics
Matches: 93, Mismatches: 13, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
51 11 0.12
53 11 0.12
54 10 0.11
55 13 0.14
56 1 0.01
58 1 0.01
59 10 0.11
60 11 0.12
61 12 0.13
62 13 0.14
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (55 bp):
ATACATAACTTATATAAAATTTTTATAAAAACTTACATAATACATTACTTACATA
Found at i:8166993 original size:60 final size:62
Alignment explanation
Indices: 8166864--8166980 Score: 177
Period size: 59 Copynumber: 1.9 Consensus size: 62
8166854 CATAACTTAC
*
8166864 ATACATAACTTAAACCAAAATTTTTATATAAAACTTACATACATACATAACTTACATACATA
1 ATACATAACTTATACCAAAATTTTTATATAAAACTTACATACATACATAACTTACATACATA
* * *
8166926 ATACATAACTTATA-TAAAATTTTTATA-CAAACTTACATA-ATACATTACTTACATA
1 ATACATAACTTATACCAAAATTTTTATATAAAACTTACATACATACATAACTTACATA
8166981 TTAACTTACA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 15 0.29
60 11 0.22
61 12 0.24
62 13 0.25
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (62 bp):
ATACATAACTTATACCAAAATTTTTATATAAAACTTACATACATACATAACTTACATACATA
Done.