Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 100 of 175
Found at i:31812054 original size:40 final size:40
Alignment explanation
Indices: 31811960--31812058 Score: 144
Period size: 40 Copynumber: 2.5 Consensus size: 40
31811950 ATGTTTTCTG
*
31811960 AAAAGCATCGCTAATGCTCGATCTATAGCGGCATTTTTCA
1 AAAAGCACCGCTAATGCTCGATCTATAGCGGCATTTTTCA
* ** *
31812000 AAAAGCGCTACTAATGCTTGATCTATAGCGGCATTTTTCA
1 AAAAGCACCGCTAATGCTCGATCTATAGCGGCATTTTTCA
*
31812040 GAAAGCACCGCTAATGCTC
1 AAAAGCACCGCTAATGCTC
31812059 AACCTTTTAC
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (40 bp):
AAAAGCACCGCTAATGCTCGATCTATAGCGGCATTTTTCA
Found at i:31812406 original size:24 final size:24
Alignment explanation
Indices: 31812362--31812408 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
31812352 CCCAACAAAA
* *
31812362 ATCATTTATCCAAATCTAAACAAT
1 ATCATTTATCCAAACCCAAACAAT
*
31812386 ATCATTTATCTAAACCCAAACAA
1 ATCATTTATCCAAACCCAAACAA
31812409 AAATTAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (24 bp):
ATCATTTATCCAAACCCAAACAAT
Found at i:31816463 original size:20 final size:21
Alignment explanation
Indices: 31816419--31816466 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
31816409 GAACATGTTA
31816419 ATTTTTAGTCAATTTTACAATT
1 ATTTTTAGTCAATTTTA-AATT
* *
31816441 ATTTTTAGTGAATTTT-GATT
1 ATTTTTAGTCAATTTTAAATT
31816461 ATTTTT
1 ATTTTT
31816467 GATAGATTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
22 15 0.62
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.60
Consensus pattern (21 bp):
ATTTTTAGTCAATTTTAAATT
Found at i:31825666 original size:19 final size:18
Alignment explanation
Indices: 31825625--31825667 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
31825615 AATTTTTGCC
* *
31825625 ATAAAATAATTAATTTTT
1 ATAAAATAATTAAATTGT
31825643 ATAAAATAATTAAATTGT
1 ATAAAATAATTAAATTGT
31825661 ATTAAAA
1 A-TAAAA
31825668 ATTTGGACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
ATAAAATAATTAAATTGT
Found at i:31830029 original size:26 final size:26
Alignment explanation
Indices: 31829993--31830049 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
31829983 TCAATTTAAG
* *
31829993 TTGGTCAAAGGTCTCTTGAGTTTGAA
1 TTGGTCAAAGGACCCTTGAGTTTGAA
*
31830019 TTGGTCAAAGGACCCTTGAGTTTGAG
1 TTGGTCAAAGGACCCTTGAGTTTGAA
31830045 TTGGT
1 TTGGT
31830050 TAGAGAACCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.21, C:0.12, G:0.30, T:0.37
Consensus pattern (26 bp):
TTGGTCAAAGGACCCTTGAGTTTGAA
Found at i:31833049 original size:13 final size:14
Alignment explanation
Indices: 31833020--31833049 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
31833010 GCCTAAAACA
31833020 TTGAAAATTATTGT
1 TTGAAAATTATTGT
31833034 TTGAAAATTA-TGT
1 TTGAAAATTATTGT
31833047 TTG
1 TTG
31833050 GTCGGTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (14 bp):
TTGAAAATTATTGT
Found at i:31838687 original size:12 final size:12
Alignment explanation
Indices: 31838670--31838698 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
31838660 CTCACACGCT
31838670 CGTGTGCTAGGC
1 CGTGTGCTAGGC
31838682 CGTGTGCTAGGC
1 CGTGTGCTAGGC
31838694 CGTGT
1 CGTGT
31838699 AACTGCCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.24, G:0.41, T:0.28
Consensus pattern (12 bp):
CGTGTGCTAGGC
Found at i:31848569 original size:27 final size:27
Alignment explanation
Indices: 31848492--31848570 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 27
31848482 GCAACCACAT
* * *
31848492 AGAGTACGCCACCAAGGC-ATTCCTTTT
1 AGAGTTCGCCACAAAGGCTATT-CTTTC
* *
31848519 AGAGTTTGCCA-AACAAGCTATTCTTTC
1 AGAGTTCGCCACAA-AGGCTATTCTTTC
31848546 AGAGTTCGCCACAAAGGCTATTCTT
1 AGAGTTCGCCACAAAGGCTATTCTT
31848571 ACTTATCGTG
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.02
27 36 0.86
28 5 0.12
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (27 bp):
AGAGTTCGCCACAAAGGCTATTCTTTC
Found at i:31849385 original size:12 final size:12
Alignment explanation
Indices: 31849356--31849404 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
31849346 TAAGGAATAG
*
31849356 AAAGAGGAAGAA
1 AAAGAAGAAGAA
*
31849368 GAAGAAGAAGAA
1 AAAGAAGAAGAA
*
31849380 AAAGAAAAAGAAA
1 AAAGAAGAAG-AA
*
31849393 AAAAAAGAAGAA
1 AAAGAAGAAGAA
31849405 CCCTTTCATA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
12 20 0.67
13 10 0.33
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAGAAGAAGAA
Found at i:31851405 original size:9 final size:9
Alignment explanation
Indices: 31851385--31851415 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
31851375 AAAATATCAT
31851385 ATTAATTTTA
1 ATTAA-TTTA
31851395 ATTAATTTA
1 ATTAATTTA
31851404 ATTAATTTA
1 ATTAATTTA
31851413 ATT
1 ATT
31851416 TACTTGATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTAATTTA
Found at i:31856850 original size:27 final size:27
Alignment explanation
Indices: 31856820--31857031 Score: 201
Period size: 27 Copynumber: 7.8 Consensus size: 27
31856810 TCATCTCCTA
**
31856820 GGGGTATAACAGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * * *
31856847 GGGGTATTTCGGTCATTTTATCTTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
* * * *
31856874 GGGGTATTTCGGTCATTCTACCCAATA
1 GGGGTATTTCAGTCATTTTACCCTATG
**
31856901 GGGACATTTC-GATCATTTTACCCTATG
1 GGGGTATTTCAG-TCATTTTACCCTATG
*
31856928 GGGGTATTTCAGTTATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
31856955 GGGGATATTTCAGTCATTTTACCTTATA
1 GGGG-TATTTCAGTCATTTTACCCTATG
** * *
31856983 AAGGTATTTCAGTCATTTTACTCTATT
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
31857010 AGGGTATTTTAGTTATTTTACC
1 GGGGTATTTCAGTCATTTTACC
31857032 TATTTTGGGG
Statistics
Matches: 152, Mismatches: 30, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
26 1 0.01
27 128 0.84
28 23 0.15
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTATG
Found at i:31856880 original size:54 final size:54
Alignment explanation
Indices: 31856818--31857032 Score: 223
Period size: 54 Copynumber: 4.0 Consensus size: 54
31856808 ATTCATCTCC
** *
31856818 TAGGGGTATAACAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTATCTTA
1 TAGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCTTA
* * * * ** * *
31856872 TAGGGGTATTTCGGTCATTCTACCCAATAGGGACATTTCGATCATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCTTA
* * *
31856926 TGGGGGTATTTCAGTTATTTTACCCTATGGGGGATATTTCAGTCATTTTACCTTA
1 TAGGGGTATTTCAGTCATTTTACCCTATGGGGG-TATTTCGGTCATTTTACCTTA
** * ** ** *
31856981 TAAAGGTATTTCAGTCATTTTACTCTATTAGGGTATTTTAGTTATTTTACCT
1 TAGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCT
31857033 ATTTTGGGGT
Statistics
Matches: 129, Mismatches: 31, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
54 86 0.67
55 43 0.33
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (54 bp):
TAGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCTTA
Found at i:31857015 original size:82 final size:81
Alignment explanation
Indices: 31856829--31857031 Score: 230
Period size: 82 Copynumber: 2.5 Consensus size: 81
31856819 AGGGGTATAA
* * * * *
31856829 CAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTATCTTATAGGGGTATTTCGGTCATTCTA
1 CAGTCATTTTACCCTATGGGGGTATTTCAGTTATTTTACCCTATAGGGGTATTTCAGTCATTCTA
*
31856894 CCCAATAGGGACATTT
66 CCCAATAAGGACATTT
* *
31856910 C-GATCATTTTACCCTATGGGGGTATTTCAGTTATTTTACCCTATGGGGGATATTTCAGTCATTT
1 CAG-TCATTTTACCCTATGGGGGTATTTCAGTTATTTTACCCTATAGGGG-TATTTCAGTCATTC
** *
31856974 TACCTTATAAAGG-TATTT
64 TACCCAAT-AAGGACATTT
* ** *
31856992 CAGTCATTTTACTCTATTAGGGTATTTTAGTTATTTTACC
1 CAGTCATTTTACCCTATGGGGGTATTTCAGTTATTTTACC
31857032 TATTTTGGGG
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
80 1 0.01
81 42 0.41
82 56 0.54
83 4 0.04
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (81 bp):
CAGTCATTTTACCCTATGGGGGTATTTCAGTTATTTTACCCTATAGGGGTATTTCAGTCATTCTA
CCCAATAAGGACATTT
Found at i:31861934 original size:43 final size:42
Alignment explanation
Indices: 31861886--31862085 Score: 226
Period size: 43 Copynumber: 4.7 Consensus size: 42
31861876 TTTTAGAAAT
*
31861886 AAACGCCGCTATAGATCAGGACCTTTAGCGGCACCTCTTCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGC-CCTTTTCCAC
** * * *
31861929 AAACGCCGCTATAGATTGGGACCTTTAACGGCGCTTTTGCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCCCTTTTCCAC
**
31861971 AAACGCCGCTATAGATCAAGG-CCTTTAGCGGCGTTTTTGCCAC
1 AAACGCCGCTATAGATC-AGGACCTTTAGCGGCCCTTTT-CCAC
* *
31862014 AAACACCGCTATAGATCAAGG-CCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTATAGATC-AGGACCTTTAGCGGC-CCTTTTCCAC
* *
31862057 AAACGCCGCTATAGAACA-AACCTTTAGCG
1 AAACGCCGCTATAGATCAGGACCTTTAGCG
31862086 ACGCTTCTCG
Statistics
Matches: 137, Mismatches: 16, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
42 48 0.35
43 84 0.61
44 5 0.04
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (42 bp):
AAACGCCGCTATAGATCAGGACCTTTAGCGGCCCTTTTCCAC
Found at i:31861996 original size:85 final size:86
Alignment explanation
Indices: 31861886--31862085 Score: 248
Period size: 85 Copynumber: 2.3 Consensus size: 86
31861876 TTTTAGAAAT
* **
31861886 AAACGCCGCTATAGATC-AGGACCTTTAGCGGCACCTCTT-CCACAAACGCCGCTATAGAT-TGG
1 AAACGCCGCTATAGATCAAGG-CCTTTAGCGGC-CCTCTTGCCACAAACACCGCTATAGATCAAG
*
31861948 GACCTTTAACGGCGC-TTTTGCAC
64 G-CCTTTAACGGCGCTTTTTCCAC
** *
31861971 AAACGCCGCTATAGATCAAGGCCTTTAGCGGCGTTTTTGCCACAAACACCGCTATAGATCAAGGC
1 AAACGCCGCTATAGATCAAGGCCTTTAGCGGCCCTCTTGCCACAAACACCGCTATAGATCAAGGC
*
31862036 CTTTAGCGGCGCTTTTTCCAC
66 CTTTAACGGCGCTTTTTCCAC
* *
31862057 AAACGCCGCTATAGAACAA-ACCTTTAGCG
1 AAACGCCGCTATAGATCAAGGCCTTTAGCG
31862086 ACGCTTCTCG
Statistics
Matches: 101, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
84 3 0.03
85 68 0.67
86 30 0.30
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (86 bp):
AAACGCCGCTATAGATCAAGGCCTTTAGCGGCCCTCTTGCCACAAACACCGCTATAGATCAAGGC
CTTTAACGGCGCTTTTTCCAC
Found at i:31863970 original size:7 final size:8
Alignment explanation
Indices: 31863947--31863978 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
31863937 ATCTGACCCT
31863947 TAAATCCC
1 TAAATCCC
31863955 TAAAT-CC
1 TAAATCCC
31863962 T-AATCCC
1 TAAATCCC
31863969 TAAATCCC
1 TAAATCCC
31863977 TA
1 TA
31863979 GCTCTTAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 3 0.14
7 6 0.27
8 13 0.59
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (8 bp):
TAAATCCC
Found at i:31863991 original size:22 final size:22
Alignment explanation
Indices: 31863927--31863993 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 22
31863917 ACTAATTAAT
*
31863927 CTAAA-CCCT-AAT-CTGACCC
1 CTAAATCCCTAAATCCTAACCC
* *
31863946 TTAAATCCCTAAATCCTAATCC
1 CTAAATCCCTAAATCCTAACCC
** *
31863968 CTAAATCCCTAGCTCTTAACCC
1 CTAAATCCCTAAATCCTAACCC
31863990 CTAA
1 CTAA
31863994 CTCTTAATCC
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
19 4 0.11
20 4 0.11
21 3 0.08
22 26 0.70
ACGTcount: A:0.33, C:0.37, G:0.03, T:0.27
Consensus pattern (22 bp):
CTAAATCCCTAAATCCTAACCC
Found at i:31864012 original size:21 final size:21
Alignment explanation
Indices: 31863982--31864031 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
31863972 ATCCCTAGCT
* * * *
31863982 CTTAACCCCTAACTCTTAATC
1 CTTAAACCCTAAATCTCAACC
31864003 CTTAAACCCTAAATCTCAACC
1 CTTAAACCCTAAATCTCAACC
31864024 CTTAAACC
1 CTTAAACC
31864032 ATAATCCCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.38, G:0.00, T:0.28
Consensus pattern (21 bp):
CTTAAACCCTAAATCTCAACC
Found at i:31864059 original size:15 final size:15
Alignment explanation
Indices: 31863949--31864063 Score: 57
Period size: 14 Copynumber: 8.1 Consensus size: 15
31863939 CTGACCCTTA
31863949 AATCCCTAAATCC-T
1 AATCCCTAAATCCAT
*
31863963 AATCCCTAAATCCCT
1 AATCCCTAAATCCAT
* * * * *
31863978 -AGCTCTTAACCCCT
1 AATCCCTAAATCCAT
* * *
31863992 AA-CTCTTAATCCTT
1 AATCCCTAAATCCAT
*
31864006 AAACCCTAAAT-C-T
1 AATCCCTAAATCCAT
31864019 CAA-CCCTTAAA-CCAT
1 -AATCCC-TAAATCCAT
31864034 AATCCCT-AATCCAT
1 AATCCCTAAATCCAT
*
31864048 AATCTCTAAATCCAT
1 AATCCCTAAATCCAT
31864063 A
1 A
31864064 TATAATTATT
Statistics
Matches: 82, Mismatches: 9, Indels: 19
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.07
14 56 0.68
15 20 0.24
ACGTcount: A:0.36, C:0.35, G:0.01, T:0.29
Consensus pattern (15 bp):
AATCCCTAAATCCAT
Found at i:31864267 original size:7 final size:7
Alignment explanation
Indices: 31864238--31864316 Score: 54
Period size: 7 Copynumber: 11.1 Consensus size: 7
31864228 ACTAGTTAAT
31864238 CTAAACC
1 CTAAACC
* *
31864245 TTAAATC
1 CTAAACC
*
31864252 ATAAA-C
1 CTAAACC
31864258 CTAAACC
1 CTAAACC
31864265 CTAAAACC
1 CT-AAACC
*
31864273 ATAAACC
1 CTAAACC
* *
31864280 CTTAACA
1 CTAAACC
31864287 C-ATAACC
1 CTA-AACC
31864294 TCTAAACC
1 -CTAAACC
*
31864302 TTAAACC
1 CTAAACC
31864309 CTAAACC
1 CTAAACC
31864316 C
1 C
31864317 CAACCTTTTA
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
6 5 0.09
7 38 0.69
8 11 0.20
9 1 0.02
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:31864284 original size:36 final size:36
Alignment explanation
Indices: 31864239--31864316 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
31864229 CTAGTTAATC
31864239 TAAA-CCTTAA-ATCATAAAC-CTAAACCCTAAAACCA
1 TAAACCCTTAACA-CATAAACTCTAAA-CCTAAAACCA
* * *
31864274 TAAACCCTTAACACATAACCTCTAAACCTTAAACCC
1 TAAACCCTTAACACATAAACTCTAAACCTAAAACCA
31864310 TAAACCC
1 TAAACCC
31864317 CAACCTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
35 4 0.11
36 27 0.73
37 6 0.16
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (36 bp):
TAAACCCTTAACACATAAACTCTAAACCTAAAACCA
Found at i:31864314 original size:14 final size:14
Alignment explanation
Indices: 31864238--31864364 Score: 71
Period size: 15 Copynumber: 8.9 Consensus size: 14
31864228 ACTAGTTAAT
* *
31864238 CTAAACCTTAAATC
1 CTAAACCATAAACC
*
31864252 ATAAACC-TAAACC
1 CTAAACCATAAACC
31864265 CTAAAACCATAAACC
1 CT-AAACCATAAACC
*
31864280 CTTAACACAT-AACC
1 CTAAAC-CATAAACC
*
31864294 TCTAAACCTTAAACC
1 -CTAAACCATAAACC
**
31864309 CTAAACC-CCAACC
1 CTAAACCATAAACC
* *
31864322 TTTTAAACCATAACCC
1 --CTAAACCATAAACC
*
31864338 CTAAACCCATAATCC
1 CTAAA-CCATAAACC
* *
31864353 ATAAACCTTAAA
1 CTAAACCATAAA
31864365 ATGGTAACAC
Statistics
Matches: 87, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
13 10 0.11
14 36 0.41
15 38 0.44
16 3 0.03
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:31864664 original size:41 final size:41
Alignment explanation
Indices: 31864601--31864968 Score: 569
Period size: 41 Copynumber: 9.0 Consensus size: 41
31864591 ATTTTAAATC
* *
31864601 CCTGAGCATTAGCGGCGTTTTCTAAAAAACGCCGCTAAAG-
1 CCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGA
**
31864641 CCTTGAGCATTAGCGGCGCTTTCTCAAAAAACGCCGCTAAATC
1 CC-TGAGCATTAGCGGCGCTTTCTC-AAAAACGCCGCTAAAGA
*
31864684 CCTGAGCATTAACGGCGCTTTCTCAAAAACGCCGCTAAAGA
1 CCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGA
* *
31864725 CCTTAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAAGA
1 CCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGA
* *
31864766 CCTGAGCATTAGCGGCGCTTTCTCAAAAACGTCGTTAAAGA
1 CCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGA
* * *
31864807 CCTGAGCATTAGCGACGCTTTATCAAAAACGCCGTTAAAGA
1 CCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGA
* *
31864848 CCAGAGCATTAGCGGCGCTTTATCAAAAACGCCGCTAAAGA
1 CCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGA
*
31864889 CCAGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAG-
1 CCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGA
31864929 CCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAG
1 CCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAG
31864969 CCCCGAAAGC
Statistics
Matches: 304, Mismatches: 21, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
40 41 0.13
41 225 0.74
42 36 0.12
43 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (41 bp):
CCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGA
Found at i:31866010 original size:8 final size:7
Alignment explanation
Indices: 31865987--31866020 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
31865977 ATTTACTATT
31865987 AAAA-TA
1 AAAATTA
31865993 AAAATTA
1 AAAATTA
31866000 AAAATTA
1 AAAATTA
31866007 AAAATTA
1 AAAATTA
31866014 AATAATT
1 AA-AATT
31866021 TATTAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 4 0.15
7 18 0.69
8 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAATTA
Found at i:31866031 original size:22 final size:22
Alignment explanation
Indices: 31866006--31866047 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
31865996 ATTAAAAATT
*
31866006 AAAAATTAAATAAT-TTATTAA
1 AAAAAATAAATAATATTATTAA
*
31866027 AAAAAATAAATTATATTATTA
1 AAAAAATAAATAATATTATTA
31866048 TATAACTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAAAATAAATAATATTATTAA
Found at i:31866044 original size:19 final size:18
Alignment explanation
Indices: 31866003--31866040 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
31865993 AAAATTAAAA
31866003 ATTAAAAATTAAATAATTT
1 ATTAAAAA-TAAATAATTT
*
31866022 ATTAAAAA-AAATAAATT
1 ATTAAAAATAAATAATTT
31866039 AT
1 AT
31866041 ATTATTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
19 8 0.44
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTAAAAATAAATAATTT
Found at i:31868860 original size:18 final size:17
Alignment explanation
Indices: 31868830--31868865 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
31868820 TTCATGTTAT
31868830 TATTTATTTATTTTAAA
1 TATTTATTTATTTTAAA
31868847 TATTTATGTTATTTTAAA
1 TATTTAT-TTATTTTAAA
31868865 T
1 T
31868866 TAAATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
TATTTATTTATTTTAAA
Found at i:31869569 original size:9 final size:10
Alignment explanation
Indices: 31869523--31869569 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
31869513 GAAAATTTTT
31869523 AATTTTTTA-
1 AATTTTTTAG
* *
31869532 ACTTTCTTTAT
1 AATTT-TTTAG
31869543 ACATTTTTTAG
1 A-ATTTTTTAG
31869554 AATTTTTTAG
1 AATTTTTTAG
31869564 AATTTT
1 AATTTT
31869570 ATTAAAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 4 0.12
10 19 0.59
11 6 0.19
12 3 0.09
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (10 bp):
AATTTTTTAG
Found at i:31878340 original size:3 final size:3
Alignment explanation
Indices: 31878332--31878389 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
31878322 AAAAGATATT
*
31878332 TTC TTC TTC TTC TTC TTC TTC TTC CTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
31878380 TTC TTC TTC T
1 TTC TTC TTC T
31878390 GTGTTTGATG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:31883848 original size:39 final size:39
Alignment explanation
Indices: 31883804--31883882 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
31883794 CCATTTGCCT
31883804 ATAAATACACACAGATTCAATATAGCAATCGAAAATTAA
1 ATAAATACACACAGATTCAATATAGCAATCGAAAATTAA
31883843 ATAAATACACACAGATTCAATATAGCAATCGAAAATTAA
1 ATAAATACACACAGATTCAATATAGCAATCGAAAATTAA
31883882 A
1 A
31883883 ATGGGTAACG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (39 bp):
ATAAATACACACAGATTCAATATAGCAATCGAAAATTAA
Found at i:31884999 original size:6 final size:7
Alignment explanation
Indices: 31884982--31885008 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
31884972 TTGGTAACCC
31884982 AAAAAAT
1 AAAAAAT
31884989 AAAAAAT
1 AAAAAAT
31884996 AAAAAAT
1 AAAAAAT
31885003 AAAAAA
1 AAAAAA
31885009 GAGGACAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:31885725 original size:15 final size:15
Alignment explanation
Indices: 31885705--31885756 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
31885695 ACTACAAAAC
31885705 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
31885720 ATTTATAATTTTAATAAAT
1 ATTTAT--TATTAAT--AT
*
31885739 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
31885754 ATT
1 ATT
31885757 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 11 0.37
17 11 0.37
19 8 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:31885821 original size:16 final size:16
Alignment explanation
Indices: 31885790--31885826 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
31885780 ATGTGAATAA
31885790 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
31885806 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
31885822 TATTA
1 TATTA
31885827 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:31885893 original size:22 final size:22
Alignment explanation
Indices: 31885838--31885879 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
31885828 AATAAAATTG
*
31885838 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
31885858 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
31885880 TATTAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:31886541 original size:14 final size:14
Alignment explanation
Indices: 31886506--31886533 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31886496 TGATAAATTA
31886506 AAAAATAAGTGTTG
1 AAAAATAAGTGTTG
31886520 AAAAATAAGTGTTG
1 AAAAATAAGTGTTG
31886534 TTATATAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (14 bp):
AAAAATAAGTGTTG
Found at i:31895969 original size:12 final size:13
Alignment explanation
Indices: 31895951--31895992 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
31895941 AGGAAAGATT
31895951 TAATAATAATATA
1 TAATAATAATATA
31895964 -AATAATAACATATA
1 TAATAAT-A-ATATA
31895978 TACATAATAATATA
1 TA-ATAATAATATA
31895992 T
1 T
31895993 TAAAGTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
12 6 0.24
13 1 0.04
14 11 0.44
15 2 0.08
16 5 0.20
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (13 bp):
TAATAATAATATA
Found at i:31895984 original size:16 final size:16
Alignment explanation
Indices: 31895959--31895996 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
31895949 TTTAATAATA
31895959 ATATAAATAATAACAT
1 ATATAAATAATAACAT
* *
31895975 ATATACATAATAATAT
1 ATATAAATAATAACAT
31895991 AT-TAAA
1 ATATAAA
31895997 GTTGAAGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (16 bp):
ATATAAATAATAACAT
Found at i:31896214 original size:18 final size:18
Alignment explanation
Indices: 31896191--31896349 Score: 59
Period size: 18 Copynumber: 8.7 Consensus size: 18
31896181 TGTGAACACT
31896191 TAAAATAATATTATATAA
1 TAAAATAATATTATATAA
**
31896209 TAAAATAAT-GCATATACA
1 TAAAATAATATTATATA-A
31896227 T-AAA-AA-ATTATATAGA
1 TAAAATAATATTATATA-A
*
31896243 T-AAAT-ATATGA-ACTAA
1 TAAAATAATATTATA-TAA
*
31896259 TATAAATAATA--ACACTAA
1 TA-AAATAATATTATA-TAA
* *
31896277 TAATAATAGTAGTAGTAGTAA
1 TAA-AATAATATTA-TA-TAA
*
31896298 TAATAATAATAATA-ATAA
1 TAA-AATAATATTATATAA
*
31896316 TAATAATAATAATAATAATAA
1 TAA-AATAAT-ATTAT-ATAA
*
31896337 TAAATTAATATTA
1 TAAAATAATATTA
31896350 AAGTAATTAT
Statistics
Matches: 110, Mismatches: 15, Indels: 31
0.71 0.10 0.20
Matches are distributed among these distances:
16 16 0.15
17 15 0.14
18 41 0.37
19 9 0.08
20 6 0.05
21 23 0.21
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.33
Consensus pattern (18 bp):
TAAAATAATATTATATAA
Found at i:31896280 original size:3 final size:3
Alignment explanation
Indices: 31896263--31896339 Score: 100
Period size: 3 Copynumber: 25.7 Consensus size: 3
31896253 AACTAATATA
* * * * * *
31896263 AAT AAT AAC ACT AAT AAT AAT AGT AGT AGT AGT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
31896311 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
31896340 ATTAATATTA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:31896351 original size:11 final size:11
Alignment explanation
Indices: 31896263--31896356 Score: 57
Period size: 12 Copynumber: 8.3 Consensus size: 11
31896253 AACTAATATA
*
31896263 AATAATAACACT
1 AATAATAA-AGT
31896275 AATAATAATAGT
1 AATAATAA-AGT
* *
31896287 AGTAGT--AGT
1 AATAATAAAGT
*
31896296 AATAATAATAAT
1 AATAATAA-AGT
*
31896308 AATAATAATAAT
1 AATAATAA-AGT
*
31896320 AATAATAATAAT
1 AATAATAA-AGT
*
31896332 AATAATAAATT
1 AATAATAAAGT
*
31896343 AATATTAAAGT
1 AATAATAAAGT
31896354 AAT
1 AAT
31896357 TATTTTAGTA
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
9 7 0.10
11 14 0.20
12 48 0.70
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (11 bp):
AATAATAAAGT
Found at i:31897827 original size:50 final size:49
Alignment explanation
Indices: 31897773--31897933 Score: 153
Period size: 50 Copynumber: 3.2 Consensus size: 49
31897763 ATGATGTCGA
31897773 GGAAGCAAGATTCACTGTTGTGGCTTCAATCTTTTCCACTACACCGCCTG
1 GGAAGCAAGATTCACTGTTGTGGCTT-AATCTTTTCCACTACACCGCCTG
* * * ** * *
31897823 GGAAGTAAGATTCACTGTTGTAGCTTTAATCCTTTT-AACTACAATGTCGG
1 GGAAGCAAGATTCACTGTTGTGGC-TTAAT-CTTTTCCACTACACCGCCTG
** * * *
31897873 GGAAGCAAGATTCACCATTGTGGCGTTAATCTGTTCCACTGCACCGCTTG
1 GGAAGCAAGATTCACTGTTGTGGC-TTAATCTTTTCCACTACACCGCCTG
* *
31897923 AGAAGTAAGAT
1 GGAAGCAAGAT
31897934 CTGTAATTAT
Statistics
Matches: 86, Mismatches: 22, Indels: 6
0.75 0.19 0.05
Matches are distributed among these distances:
49 4 0.05
50 75 0.87
51 7 0.08
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (49 bp):
GGAAGCAAGATTCACTGTTGTGGCTTAATCTTTTCCACTACACCGCCTG
Found at i:31898151 original size:44 final size:44
Alignment explanation
Indices: 31898031--31898153 Score: 158
Period size: 44 Copynumber: 2.8 Consensus size: 44
31898021 CCTTTATTTT
* * *
31898031 AATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* * * *
31898075 AATCTGCTCCGCTGTAATCTCAAGGAGGTAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
*
31898119 AATCTGCTCCACTGCAA-CATCAGGGAGATAAGATT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATT
31898154 CACCATTTTC
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
43 1 0.01
44 66 0.99
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
Found at i:31898770 original size:120 final size:125
Alignment explanation
Indices: 31898549--31898846 Score: 360
Period size: 120 Copynumber: 2.4 Consensus size: 125
31898539 AGATTCCATT
* ** * * *
31898549 TTCGAT-TAGCTCCACTACTGCTTAATGAGATAAGATCTGA-AA-TTCTTCAATCTATTCCACTG
1 TTCGATCT-GCTCCGCTACTGCTTAGGGAGACAAGATCT-ATAATTTC-CCAACCTATTCCACTG
* *
31898611 CTGACCAGGGATATAGGACTTGTGGCTTAAATCTACTTCCTTACACTTGAAGAT-AA-GA-T-
63 CTGACCAGGGATATAGGACTTGTGGCTTAAATCTACTTCCTTACACGTGAAGATAAACCACTC
*
31898670 TT-GATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTATAATTTCCCAACCTATTCCACTGCTG
1 TTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTATAATTTCCCAACCTATTCCACTGCTG
* *
31898734 ACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCGTGAAGATAAAATCCACCGTC
66 ACCAGGGATATAGGACTTGTGGCTTAAATCTACTTCCTTACACGTGAAGAT-AAA-CCA-C-TC
* *
31898798 TTCGATCTGCTCCGTTACTGCTTAGGGAGACAAGATCTGTAATTTCCCA
1 TTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTATAATTTCCCA
31898847 GATCTGTTCT
Statistics
Matches: 151, Mismatches: 14, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
119 1 0.01
120 95 0.63
121 6 0.04
122 2 0.01
124 1 0.01
127 1 0.01
128 2 0.01
129 43 0.28
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (125 bp):
TTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTATAATTTCCCAACCTATTCCACTGCTG
ACCAGGGATATAGGACTTGTGGCTTAAATCTACTTCCTTACACGTGAAGATAAACCACTC
Found at i:31900083 original size:8 final size:7
Alignment explanation
Indices: 31900073--31900113 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
31900063 TATTTTTACT
31900073 TTTTTCA
1 TTTTTCA
31900080 TTTTTTCA
1 -TTTTTCA
31900088 TTTTTCA
1 TTTTTCA
31900095 -TTTTCA
1 TTTTTCA
31900101 TTTTTCA
1 TTTTTCA
31900108 TCTTTT
1 T-TTTT
31900114 TTTTACTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.19
7 14 0.45
8 11 0.35
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Found at i:31900084 original size:15 final size:15
Alignment explanation
Indices: 31900064--31900113 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
31900054 TAGCCTCTCT
*
31900064 ATTTTTACTTTTTTC
1 ATTTTTACATTTTTC
*
31900079 ATTTTTTCATTTTTC
1 ATTTTTACATTTTTC
31900094 A-TTTT-CATTTTTC
1 ATTTTTACATTTTTC
31900107 ATCTTTT
1 AT-TTTT
31900114 TTTTACTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 9 0.29
14 4 0.13
15 18 0.58
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (15 bp):
ATTTTTACATTTTTC
Found at i:31900100 original size:13 final size:13
Alignment explanation
Indices: 31900082--31900108 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
31900072 TTTTTTCATT
31900082 TTTTCATTTTTCA
1 TTTTCATTTTTCA
31900095 TTTTCATTTTTCA
1 TTTTCATTTTTCA
31900108 T
1 T
31900109 CTTTTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:31900100 original size:21 final size:21
Alignment explanation
Indices: 31900074--31900113 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
31900064 ATTTTTACTT
31900074 TTTTCATTTTTTCAT-TTTTCA
1 TTTTCA-TTTTTCATCTTTTCA
31900095 TTTTCATTTTTCATCTTTT
1 TTTTCATTTTTCATCTTTT
31900114 TTTTACTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTCATTTTTCATCTTTTCA
Found at i:31900989 original size:8 final size:8
Alignment explanation
Indices: 31900972--31901014 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
31900962 TTCATCTAGA
*
31900972 TTTTCCTC
1 TTTTCTTC
31900980 TTTTCTTC
1 TTTTCTTC
31900988 TTTTCTT-
1 TTTTCTTC
*
31900995 TTTTCTTT
1 TTTTCTTC
*
31901003 TTTTCTTA
1 TTTTCTTC
31901011 TTTT
1 TTTT
31901015 ATTTTATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
7 7 0.22
8 25 0.78
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTCTTC
Found at i:31900999 original size:23 final size:23
Alignment explanation
Indices: 31900972--31901019 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
31900962 TTCATCTAGA
* *
31900972 TTTTCCTCTTTTCTTCTTTTCTT
1 TTTTCCTCTTTTCTTATTTTATT
* *
31900995 TTTTCTTTTTTTCTTATTTTATT
1 TTTTCCTCTTTTCTTATTTTATT
31901018 TT
1 TT
31901020 ATTTTTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTTCCTCTTTTCTTATTTTATT
Found at i:31901000 original size:15 final size:16
Alignment explanation
Indices: 31900980--31901014 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
31900970 GATTTTCCTC
31900980 TTTTCTTCTTTTCTT-
1 TTTTCTTCTTTTCTTA
*
31900995 TTTTCTTTTTTTCTTA
1 TTTTCTTCTTTTCTTA
31901011 TTTT
1 TTTT
31901015 ATTTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTCTTCTTTTCTTA
Found at i:31901026 original size:23 final size:23
Alignment explanation
Indices: 31900980--31901027 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
31900970 GATTTTCCTC
* *
31900980 TTTTCTTCTTTTCTTTTTTCTTT
1 TTTTCTTATTTTATTTTTTCTTT
*
31901003 TTTTCTTATTTTATTTTAT-TTT
1 TTTTCTTATTTTATTTTTTCTTT
31901025 TTT
1 TTT
31901028 ATTTTTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.83
Consensus pattern (23 bp):
TTTTCTTATTTTATTTTTTCTTT
Found at i:31901035 original size:21 final size:21
Alignment explanation
Indices: 31900995--31901035 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
31900985 TTCTTTTCTT
* *
31900995 TTTTCTTTTTTTCTTATTTTA
1 TTTTATTTTTTTATTATTTTA
*
31901016 TTTTATTTTTTTATTTTTTT
1 TTTTATTTTTTTATTATTTT
31901036 TGAATTGGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (21 bp):
TTTTATTTTTTTATTATTTTA
Found at i:31906037 original size:12 final size:13
Alignment explanation
Indices: 31906019--31906060 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
31906009 AGGAAAGATT
31906019 TAATAATAATATA
1 TAATAATAATATA
31906032 -AATAATAACATATA
1 TAATAAT-A-ATATA
31906046 TACATAATAATATA
1 TA-ATAATAATATA
31906060 T
1 T
31906061 TAAAGTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
12 6 0.24
13 1 0.04
14 11 0.44
15 2 0.08
16 5 0.20
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (13 bp):
TAATAATAATATA
Found at i:31906052 original size:16 final size:16
Alignment explanation
Indices: 31906027--31906064 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
31906017 TTTAATAATA
31906027 ATATAAATAATAACAT
1 ATATAAATAATAACAT
* *
31906043 ATATACATAATAATAT
1 ATATAAATAATAACAT
31906059 AT-TAAA
1 ATATAAA
31906065 GTTGAAGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (16 bp):
ATATAAATAATAACAT
Found at i:31906277 original size:18 final size:17
Alignment explanation
Indices: 31906254--31906407 Score: 75
Period size: 18 Copynumber: 8.5 Consensus size: 17
31906244 TGTTAACACT
31906254 TAAAATAATATTATATAA
1 TAAAATAATATTA-ATAA
31906272 TAAAATAATGCATATACATAA
1 TAAAATAAT--AT-TA-ATAA
*
31906293 -AAAATTATA-TAGATAAA
1 TAAAATAATATTA-AT-AA
*
31906310 TATATGAACTAATATAAATAA
1 TA-A--AA-TAATATTAATAA
* *
31906331 TAACACTAATAATAATAA
1 TAA-AATAATATTAATAA
*
31906349 T--AATAATAATAATAA
1 TAAAATAATATTAATAA
*
31906364 TAATAATAATAATAATAA
1 TAA-AATAATATTAATAA
*
31906382 TAAAGATAA-ATTAATAT
1 TAAA-ATAATATTAATAA
*
31906399 TAAAGTAAT
1 TAAAATAAT
31906408 TATTTTAGTA
Statistics
Matches: 108, Mismatches: 13, Indels: 31
0.71 0.09 0.20
Matches are distributed among these distances:
15 14 0.13
16 7 0.06
17 13 0.12
18 43 0.40
19 2 0.02
20 10 0.09
21 12 0.11
22 6 0.06
23 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (17 bp):
TAAAATAATATTAATAA
Found at i:31906343 original size:3 final size:3
Alignment explanation
Indices: 31906326--31906384 Score: 100
Period size: 3 Copynumber: 19.7 Consensus size: 3
31906316 AACTAATATA
* *
31906326 AAT AAT AAC ACT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
31906374 AAT AAT AAT AA
1 AAT AAT AAT AA
31906385 AGATAAATTA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:31912185 original size:38 final size:38
Alignment explanation
Indices: 31912137--31912216 Score: 133
Period size: 38 Copynumber: 2.1 Consensus size: 38
31912127 TAAGGGATTT
* *
31912137 GGATGGGAGTGGTTGGATGGTTTTAGGAGAGATTTGTG
1 GGATGGGAGTGGTTGGACGGTTTTAGGAGAGATTTGAG
*
31912175 GGATGGGAGTGGTTGTACGGTTTTAGGAGAGATTTGAG
1 GGATGGGAGTGGTTGGACGGTTTTAGGAGAGATTTGAG
31912213 GGAT
1 GGAT
31912217 TTTGGGAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.20, C:0.01, G:0.46, T:0.33
Consensus pattern (38 bp):
GGATGGGAGTGGTTGGACGGTTTTAGGAGAGATTTGAG
Found at i:31913630 original size:18 final size:20
Alignment explanation
Indices: 31913593--31913634 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
31913583 GTAGGACCTG
31913593 TATACTGTATAATCTGTTAC
1 TATACTGTATAATCTGTTAC
*
31913613 TATACTG-ATTAT-TGTTAC
1 TATACTGTATAATCTGTTAC
31913631 TATA
1 TATA
31913635 ATGGGTCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 4 0.19
20 7 0.33
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.48
Consensus pattern (20 bp):
TATACTGTATAATCTGTTAC
Found at i:31917424 original size:28 final size:28
Alignment explanation
Indices: 31917384--31917481 Score: 160
Period size: 28 Copynumber: 3.5 Consensus size: 28
31917374 TACTAAGTTT
31917384 GCACACTTAGTGCTTAATAATCAATCTC
1 GCACACTTAGTGCTTAATAATCAATCTC
31917412 GCACACTTAGTGCTTAATAATCAATCTC
1 GCACACTTAGTGCTTAATAATCAATCTC
* * * *
31917440 GCACACTTAGTGCTTTACAATTAAACTC
1 GCACACTTAGTGCTTAATAATCAATCTC
31917468 GCACACTTAGTGCT
1 GCACACTTAGTGCT
31917482 AATCTCATTA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 66 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.32
Consensus pattern (28 bp):
GCACACTTAGTGCTTAATAATCAATCTC
Found at i:31923040 original size:30 final size:30
Alignment explanation
Indices: 31923005--31923067 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
31922995 AAGAAAATAA
31923005 TGATTGTGACGATCAAAAAGAAAGATGAGC
1 TGATTGTGACGATCAAAAAGAAAGATGAGC
*
31923035 TGATTGTGACGATTAAAAAGAAAGATGAGC
1 TGATTGTGACGATCAAAAAGAAAGATGAGC
31923065 TGA
1 TGA
31923068 ACGAAGAGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.43, C:0.08, G:0.27, T:0.22
Consensus pattern (30 bp):
TGATTGTGACGATCAAAAAGAAAGATGAGC
Found at i:31926831 original size:19 final size:21
Alignment explanation
Indices: 31926807--31926851 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
31926797 CATTTCTCTT
*
31926807 TTTCTATTCATTC-C-ATTCA
1 TTTCTATTCAATCACAATTCA
31926826 TTTCTATTCAATCACAATTCA
1 TTTCTATTCAATCACAATTCA
31926847 TTTCT
1 TTTCT
31926852 GGTTTCAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.52
20 1 0.04
21 10 0.43
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTCTATTCAATCACAATTCA
Found at i:31934999 original size:17 final size:17
Alignment explanation
Indices: 31934982--31935014 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
31934972 ATAATATTAT
31934982 TTTAA-TAAATTTAATA
1 TTTAATTAAATTTAATA
*
31934998 TTTAATTTAATTTAATA
1 TTTAATTAAATTTAATA
31935015 CTTATCTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTAATTAAATTTAATA
Found at i:31936297 original size:18 final size:17
Alignment explanation
Indices: 31936255--31936298 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
31936245 TGTCGTTCGT
31936255 TTTCAAAACATTATTCA
1 TTTCAAAACATTATTCA
* *
31936272 TTTACAAATCATTTTTCAA
1 TTT-CAAAACATTATTC-A
31936291 TTTCAAAA
1 TTTCAAAA
31936299 TGTTTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 15 0.68
19 4 0.18
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (17 bp):
TTTCAAAACATTATTCA
Found at i:31938455 original size:13 final size:13
Alignment explanation
Indices: 31938439--31938504 Score: 96
Period size: 13 Copynumber: 5.1 Consensus size: 13
31938429 AGTTTGACAA
*
31938439 TGCTTTTGAAAAA
1 TGCTTTTGAAAAG
31938452 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
31938465 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
31938478 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
31938491 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
31938504 T
1 T
31938505 TTGGTTTAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 46 1.00
ACGTcount: A:0.30, C:0.08, G:0.26, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:31938501 original size:26 final size:26
Alignment explanation
Indices: 31938431--31938504 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 26
31938421 TTAGGGCAAG
* *
31938431 TTTGACAA-TGCTTTTGAAAAATGCT
1 TTTGAAAAGTGCTTTTGAAAAGTGCT
* *
31938456 TTTGAAAAGTGCTGTGGAAAAGTGCT
1 TTTGAAAAGTGCTTTTGAAAAGTGCT
*
31938482 TTTGAGAAGTGCTTTTGAAAAGT
1 TTTGAAAAGTGCTTTTGAAAAGT
31938505 TTGGTTTAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
25 7 0.17
26 34 0.83
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TTTGAAAAGTGCTTTTGAAAAGTGCT
Found at i:31950958 original size:44 final size:44
Alignment explanation
Indices: 31950905--31951338 Score: 203
Period size: 44 Copynumber: 9.9 Consensus size: 44
31950895 AGTATAGTGT
* * *
31950905 CTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGG
1 CTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCTCTAG
* * * ** *
31950949 CTTCAATCTGCTTCAAC-GTAATCTCGGGGAGATAAGATCTGAAATT
1 CTTCAATCTAC-TCCACTGTAATCTCAGGGAGATAAGATCT-CTA-G
* * *
31950995 CTTCAGTCTACTCCACTGTAACCTTAGGGAGATAAGA-C-CT-G
1 CTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCTCTAG
* * * * * * * *
31951036 ATGCGATCTACTCTATTGTAACCTCAGAGAGATAAGATC-CTAAA
1 CTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCTCT-AG
* * ** * * *
31951080 TTTTAATCCGCTCCAGTGTAA-CTTCAGAGAGATAGGAT-TACTAG
1 CTTCAATCTACTCCACTGTAATC-TCAGGGAGATAAGATCT-CTAG
* * * * * **
31951124 CTTCAATCTGCTCCGCTATAATCTCAAGGAGATAAGATCTGAATTT
1 CTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCT--CTAG
**
31951170 CTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGA-CT-T-G
1 CTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCTCTAG
* * * * * *
31951211 ATGT-GATCTACTCTACTGTAACCTCAGAGAGATAAGATCT-TAAA
1 CT-TCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCTCT-AG
* * * * * *
31951255 TTTTAATCCACTCCACTGTAA-CTTCAGAGAGATAGGAT-TACTAA
1 CTTCAATCTACTCCACTGTAATC-TCAGGGAGATAAGATCT-CTAG
* * *
31951299 CTTCAATCTGCTCCGCTGTAATCTCAGGGAGACAAGATCT
1 CTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCT
31951339 GAAATTCTTC
Statistics
Matches: 294, Mismatches: 73, Indels: 45
0.71 0.18 0.11
Matches are distributed among these distances:
41 59 0.20
42 8 0.03
43 4 0.01
44 147 0.50
45 17 0.06
46 59 0.20
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (44 bp):
CTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCTCTAG
Found at i:31951112 original size:85 final size:85
Alignment explanation
Indices: 31950977--31951288 Score: 265
Period size: 87 Copynumber: 3.6 Consensus size: 85
31950967 TAATCTCGGG
* * *
31950977 GAGATAAGAT-CTGAAATTCTTCAGTCTACTCCACTGTAACCTT-AGGGAGATAAGACCTGATGC
1 GAGATAAGATCCT-AAATT-TT-AATCCACTCCACTGTAA-CTTCAGAGAGATAAGACCTGATGC
*
31951040 GATCTACTCTATTGTAACCTCAGA
62 GATCTACTCTACTGTAACCTCAGA
* * * * * * *
31951064 GAGATAAGATCCTAAATTTTAATCCGCTCCAGTGTAACTTCAGAGAGATAGGATTACTAGCTTCA
1 GAGATAAGATCCTAAATTTTAATCCACTCCACTGTAACTTCAGAGAGATAAGA--CCT-GATGCG
* ** * *
31951129 ATCTGCTCCGCTATAATCTCA-A
63 ATCTACTCTACTGTAACCTCAGA
* ** * * *
31951151 GGAGATAAGAT-CTGAATTTCTTCGGTCTACTCCACTGTAA-TCTCAGGGAGATAAGACTTGATG
1 -GAGATAAGATCCT-AAATT-TT-AATCCACTCCACTGTAACT-TCAGAGAGATAAGACCTGATG
*
31951214 TGATCTACTCTACTGTAACCTCAGA
61 CGATCTACTCTACTGTAACCTCAGA
*
31951239 GAGATAAGATCTTAAATTTTAATCCACTCCACTGTAACTTCAGAGAGATA
1 GAGATAAGATCCTAAATTTTAATCCACTCCACTGTAACTTCAGAGAGATA
31951289 GGATTACTAA
Statistics
Matches: 171, Mismatches: 41, Indels: 28
0.71 0.17 0.12
Matches are distributed among these distances:
84 3 0.02
85 47 0.27
86 5 0.03
87 52 0.30
88 37 0.22
89 3 0.02
90 24 0.14
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.30
Consensus pattern (85 bp):
GAGATAAGATCCTAAATTTTAATCCACTCCACTGTAACTTCAGAGAGATAAGACCTGATGCGATC
TACTCTACTGTAACCTCAGA
Found at i:31951336 original size:88 final size:88
Alignment explanation
Indices: 31951052--31951344 Score: 294
Period size: 88 Copynumber: 3.3 Consensus size: 88
31951042 TCTACTCTAT
* *
31951052 TGTAACCTCAGAGAGATAAGATCCT-AAATTTTAATCCGCTCCAGTGTAACTTCAGAGAGATAGG
1 TGTAACCTCAGAGAGATAAGAT-CTGAAATTTTAATCCACTCCACTGTAACTTCAGAGAGATAGG
*
31951116 ATTACTAGCTTCAATCTGCTCCGC
65 ATTACTAACTTCAATCTGCTCCGC
* * * ** * *
31951140 TATAATCTCA-AGGAGATAAGATCTGAATTTCTTCGGTCTACTCCACTGTAA-TCTCAGGGAGAT
1 TGTAACCTCAGA-GAGATAAGATCTGAAATT-TT-AATCCACTCCACTGTAACT-TCAGAGAGAT
* * * * * **
31951203 AAGACT--TGA-TGT-GATCTACTCTAC
62 AGGATTACTAACT-TCAATCTGCTCCGC
*
31951227 TGTAACCTCAGAGAGATAAGATCTTAAATTTTAATCCACTCCACTGTAACTTCAGAGAGATAGGA
1 TGTAACCTCAGAGAGATAAGATCTGAAATTTTAATCCACTCCACTGTAACTTCAGAGAGATAGGA
31951292 TTACTAACTTCAATCTGCTCCGC
66 TTACTAACTTCAATCTGCTCCGC
* * *
31951315 TGTAATCTCAGGGAGACAAGATCTGAAATT
1 TGTAACCTCAGAGAGATAAGATCTGAAATT
31951345 CTTCGATCTG
Statistics
Matches: 157, Mismatches: 36, Indels: 24
0.72 0.17 0.11
Matches are distributed among these distances:
85 27 0.17
86 3 0.02
87 39 0.25
88 60 0.38
89 3 0.02
90 25 0.16
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.30
Consensus pattern (88 bp):
TGTAACCTCAGAGAGATAAGATCTGAAATTTTAATCCACTCCACTGTAACTTCAGAGAGATAGGA
TTACTAACTTCAATCTGCTCCGC
Found at i:31951349 original size:175 final size:175
Alignment explanation
Indices: 31950949--31951349 Score: 633
Period size: 175 Copynumber: 2.3 Consensus size: 175
31950939 AGATCTCTGG
** * *
31950949 CTTCAATCTGCTTCAAC-GTAATCTCGGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACTG
1 CTTCAATCTGC-TCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTG
* *
31951013 TAACCTTAGGGAGATAAGACCTGATGCGATCTACTCTATTGTAACCTCAGAGAGATAAGATCCTA
65 TAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTA
* * *
31951078 AATTTTAATCCGCTCCAGTGTAACTTCAGAGAGATAGGATTACTAG
130 AATTTTAATCCACTCCACTGTAACTTCAGAGAGATAGGATTACTAA
* * *
31951124 CTTCAATCTGCTCCGCTATAATCTCAAGGAGATAAGATCTGAATTTCTTCGGTCTACTCCACTGT
1 CTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGT
* * * *
31951189 AATCTCAGGGAGATAAGACTTGATGTGATCTACTCTACTGTAACCTCAGAGAGATAAGATCTTAA
66 AACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTAA
31951254 ATTTTAATCCACTCCACTGTAACTTCAGAGAGATAGGATTACTAA
131 ATTTTAATCCACTCCACTGTAACTTCAGAGAGATAGGATTACTAA
*
31951299 CTTCAATCTGCTCCGCTGTAATCTCAGGGAGACAAGATCTGAAATTCTTCG
1 CTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
31951350 ATCTGTTTTG
Statistics
Matches: 205, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
174 3 0.01
175 202 0.99
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (175 bp):
CTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGT
AACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTAA
ATTTTAATCCACTCCACTGTAACTTCAGAGAGATAGGATTACTAA
Found at i:31966127 original size:16 final size:17
Alignment explanation
Indices: 31966090--31966127 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
31966080 TCAATTCAGC
*
31966090 ATTTAAAATTCAAAAAT
1 ATTTAAAATTAAAAAAT
*
31966107 ATTTAAATTTAAAAAAT
1 ATTTAAAATTAAAAAAT
31966124 -TTTA
1 ATTTA
31966128 TGTACTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTAAAATTAAAAAAT
Found at i:31984651 original size:94 final size:94
Alignment explanation
Indices: 31984448--31986146 Score: 1930
Period size: 94 Copynumber: 18.1 Consensus size: 94
31984438 TCTTATCTCT
* * * * *
31984448 CTGAAGTTGCAGTGGGTCCGATTGAAGATACCATAACAAATCTTATCTCCCTGAAGTTGCAGTGC
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
*
31984513 A-CAAGATGAAACTACAAATCCTATACCC
66 AGCAAGATGAAGCTACAAATCCTATACCC
* * * * * * * ** *
31984541 CTAAAGTTGTAGTGGGTCGGATTGACGTTACCATAGCAAATCTTATCTCGCTAAAGTTATAATGG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
31984606 AGCAAGATGAAGCTACAAAAT-CTATACCC
66 AGCAAGATGAAGCTAC-AAATCCTATACCC
* * ** * *
31984635 CTGAAGTTACAGTGGGTCGGATTGAAGTTACCATAG-GAAATCTTA-CGTCATTGAAATTGTAGT
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCG-AATCTTATC-TCCCTGAAGTTGCAGT
*
31984698 GGAGCAAGATGAAGCTACAAATCTTATACCC
64 GGAGCAAGATGAAGCTACAAATCCTATACCC
* * * * * * *
31984729 CTAAAGTTGTAGTGGATCGGATTGAAGTTACCATAGCAAATCTAATCTCCCTAAAGTTAG-AGTG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTT-GCAGTG
* *
31984793 GAACAAGATGAAGCTACAAAACCTATACCC
65 GAGCAAGATGAAGCTACAAATCCTATACCC
* * *
31984823 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCA-AGCAAATCTTATCTCCATGAA-TTTCTAGTG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGC-AGTG
*
31984886 GAGCAAGATGAAACTACAAATCCTATACCC
65 GAGCAAGATGAAGCTACAAATCCTATACCC
* * * * * * *
31984916 CTGAAGATGTAGTGGGTCAGATTTAAGTTACCATAGTGAATCTTATCTCCCTTAAGTTGTA-AGG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
* *
31984980 AGGAAGATAAAGCTACAAATCCTATACCC
66 AGCAAGATGAAGCTACAAATCCTATACCC
** * * * * * * *
31985009 CTGAA-TTAAAGTAGGTTAGATTAAAGTTGCCATAGCGAATCTCATCTCACTGAAGTTGTAGTGG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
* *
31985073 AACAAGATGAAACTACAAATCCTATACCC
66 AGCAAGATGAAGCTACAAATCCTATACCC
* ** *
31985102 CTGAAGTTGCAGTGGTTCAGATTGAAGTTACCATAGCGAATCTTATCTTACTGAAGTTGTAGTGG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
* *
31985167 AGTAAGATGAAGCAACAAATCCTATACCC
66 AGCAAGATGAAGCTACAAATCCTATACCC
*
31985196 CTGAAGTTGCAGTGGGTTAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
*
31985261 AGCAAGATAAAGCTACAAATCCTATACCC
66 AGCAAGATGAAGCTACAAATCCTATACCC
* * * * * * * * *
31985290 TTGAAGTTGGAGTGGGCCGGATTGAAGCTACAATAGCAAATCTTGTCTCTCTGAAGTTGCAGTGG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
* * * *
31985355 AGTAAGATAAAGCTACCAATTCTATACCC
66 AGCAAGATGAAGCTACAAATCCTATACCC
* * * * * * * *
31985384 TTGAAGTTCCAGTAGGTCAGATTGAAATTA-CAGTAGCGAGTCCTATCTCCATGAAGTTACAGTG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCA-TAGCGAATCTTATCTCCCTGAAGTTGCAGTG
*
31985448 AAGCAAGATGAAGCTACAAATCCTATACCC
65 GAGCAAGATGAAGCTACAAATCCTATACCC
* * * ** * * * *
31985478 C-GAAAGTTACAATAGGTTGGATTAAAGTTACCATAGCGAATCTTATCTCCCTAAAGTTGCAATA
1 CTG-AAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTG
* *
31985542 GAGCAAGATAAAGCTACAAATCCTAAACCC
65 GAGCAAGATGAAGCTACAAATCCTATACCC
* * * *
31985572 CTGAAGTTGCAGTGGGTCAGATTGAAGCTACAATAGCAAATCTTATCTCCCTAAAGTTGCAGTGG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
* *
31985637 AGCAAGATAAAGCTACAAATCCTATACTC
66 AGCAAGATGAAGCTACAAATCCTATACCC
* * * * * *
31985666 CTTAAGTTGTAGTGGGTCAGATTGAAGCTACAATAGTGAATCTTATCTCCCTGAAGTTGCAGTAG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
*
31985731 AGCAAGATGAAGCTACAAATCCTATACTC
66 AGCAAGATGAAGCTACAAATCCTATACCC
* * * * * *
31985760 CTGAATTTGCAGTGGGTCAGATTGAAGCTACAATAGCGAATATTATCTCCCTAAAGTTGCAGTAG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
31985825 AGCAAGATGAAGCTACAAATCCTATACCC
66 AGCAAGATGAAGCTACAAATCCTATACCC
* * * ** * *
31985854 CTGAAGTTGCAGTTGGT-TGAATTGAAATTATAATAGCGAATCTTATCTCACTGAAGTTGTAGTG
1 CTGAAGTTGCAGTGGGTCAG-ATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTG
* * * *
31985918 GAACAAGATAAAGTTATAAATCCTATACCC
65 GAGCAAGATGAAGCTACAAATCCTATACCC
* * ** *
31985948 CTGAAGTTGTAGTGGGTCAGATTGAAGCTAAAATAGCGAATCTTATCTCCTTGAAGTTGCAGTGG
1 CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
31986013 AGCAAGATGAAGCTACAAATCCTATACCC
66 AGCAAGATGAAGCTACAAATCCTATACCC
* * ** * * * * * *
31986042 CTGAAGTTGCAGTGGGT-TGAAATGAAACTACAATGGCGAATCTTATCTCCTTAAAGTTGTAGTT
1 CTGAAGTTGCAGTGGGTCAG-ATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTG
*
31986106 GCGCAAGATGAAGCTACAAATCCTATACCC
65 GAGCAAGATGAAGCTACAAATCCTATACCC
*
31986136 TTGAAGTTGCA
1 CTGAAGTTGCA
31986147 ATGGAGCAAG
Statistics
Matches: 1370, Mismatches: 215, Indels: 41
0.84 0.13 0.03
Matches are distributed among these distances:
92 46 0.03
93 207 0.15
94 1105 0.81
95 12 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (94 bp):
CTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGG
AGCAAGATGAAGCTACAAATCCTATACCC
Found at i:31984739 original size:44 final size:44
Alignment explanation
Indices: 31984686--31986161 Score: 277
Period size: 44 Copynumber: 31.6 Consensus size: 44
31984676 CTTACGTCAT
*
31984686 TGAAATTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACCCC
1 TGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACCCC
* * * *
31984730 TAAAGTTGTAGTGGATC-GGATTGAAGTTACCATAGCAAATCTAAT-CTCCC
1 TGAAGTTGTAGTGGAGCAAGA-TGAAG----C-TA-CAAATCTTATAC-CCC
* * * *
31984780 TAAAGTTAG-AGTGGAACAAGATGAAGCTACAAAACCTATACCCC
1 TGAAGTT-GTAGTGGAGCAAGATGAAGCTACAAATCTTATACCCC
* * *
31984824 TGAAGTTGCAGTGG-GTC-AGATTGAAGTTACCAAGCAAATCTTAT-CTCCA
1 TGAAGTTGTAGTGGAG-CAAGA-TGAAG----CTA-CAAATCTTATAC-CCC
* * * *
31984873 TGAATTTCTAGTGGAGCAAGATGAAACTACAAATCCTATACCCC
1 TGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACCCC
* * *
31984917 TGAAGATGTAGTGG-GTC-AGATTTAAGTTACCATAGTGAATCTTAT-CTCCC
1 TGAAGTTGTAGTGGAG-CAAGA-TGAAGCTA-C--A---AATCTTATAC-CCC
* * * * *
31984967 TTAAGTTGTA-AGGAGGAAGATAAAGCTACAAATCCTATACCCC
1 TGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACCCC
** * ** * * * *
31985010 TGAA-TTAAAGTAG-GTTAGATTAAAGTTGCCATAGCGAATCTCAT-CTCAC
1 TGAAGTTGTAGTGGAGCAAGA-TGAA---G-C-TA-CAAATCTTATAC-CCC
* * *
31985059 TGAAGTTGTAGTGGAACAAGATGAAACTACAAATCCTATACCCC
1 TGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACCCC
* ** * **
31985103 TGAAGTTGCAGTGGTTC-AGATTGAAGTTACCATAGCGAATCTTAT-CTTAC
1 TGAAGTTGTAGTGGAGCAAGA-TGAAG----C-TA-CAAATCTTATAC-CCC
* * *
31985153 TGAAGTTGTAGTGGAGTAAGATGAAGCAACAAATCCTATACCCC
1 TGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACCCC
* ** *
31985197 TGAAGTTGCAGTGG-GTTAGATTGAAGTTACCATAGCGAATCTTAT-CTCCC
1 TGAAGTTGTAGTGGAGCAAGA-TGAAG----C-TA-CAAATCTTATAC-CCC
* * * *
31985247 TGAAGTTGCAGTGGAGCAAGATAAAGCTACAAATCCTATACCCT
1 TGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACCCC
* ** * *
31985291 TGAAGTTGGAGTGG-GCCGGATTGAAGCTACAATAGCAAATCTTGT-CTCTC
1 TGAAGTTGTAGTGGAGCAAGA-TGAAG---C--TA-CAAATCTTATAC-CCC
* * * * *
31985341 TGAAGTTGCAGTGGAGTAAGATAAAGCTACCAAT-TCTATACCCT
1 TGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCT-TATACCCC
** * ** * *
31985385 TGAAGTTCCAGTAGG-TC-AGATTGAAATTACAGTAGCGAGTCCTAT-CTCCA
1 TGAAGTTGTAGT-GGAGCAAGA-TGAAGCTACA--A---A-TCTTATAC-CCC
** * *
31985435 TGAAGTTACAGTGAAGCAAGATGAAGCTACAAATCCTATACCCC
1 TGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACCCC
* ** * * *
31985479 -GAAAGTTACAATAGGTTGGATTAA-A-GTTACCATAGCGAATCTTAT-CTCCC
1 TG-AAGTT---GTA-G-TGGAGCAAGATG-AAGC-TA-CAAATCTTATAC-CCC
* * * * * * *
31985529 TAAAGTTGCAATAGAGCAAGATAAAGCTACAAATCCTAAACCCC
1 TGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACCCC
*
31985573 TGAAGTTGCAGTGG-GTC-AGATTGAAGCTACAATAGCAAATCTTAT-CTCCC
1 TGAAGTTGTAGTGGAG-CAAGA-TGAAG---C--TA-CAAATCTTATAC-CCC
* * * * *
31985623 TAAAGTTGCAGTGGAGCAAGATAAAGCTACAAATCCTATACTCC
1 TGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACCCC
*
31985667 TTAAGTTGTAGTGG-GTC-AGATTGAAGCTACAATAGTGAATCTTAT-CTCCC
1 TGAAGTTGTAGTGGAG-CAAGA-TGAAGCTAC---A---AATCTTATAC-CCC
* * * *
31985717 TGAAGTTGCAGTAGAGCAAGATGAAGCTACAAATCCTATACTCC
1 TGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACCCC
* * * *
31985761 TGAATTTGCAGTGG-GTC-AGATTGAAGCTACAATAGCGAATATTATCTCCC
1 TGAAGTTGTAGTGGAG-CAAGA-TGAAGCTACAA-ATC--TTA-TA-C-CCC
* * * *
31985811 TAAAGTTGCAGTAGAGCAAGATGAAGCTACAAATCCTATACCCC
1 TGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACCCC
* * * * * *
31985855 TGAAGTTGCAGTTGGTTG-AATTGAAATTATA-ATAGCGAATCTTAT-CTCAC
1 TGAAGTTGTAG-TGG-AGCAA--G--ATGA-AGCTA-CAAATCTTATAC-CCC
* * * * *
31985905 TGAAGTTGTAGTGGAACAAGATAAAGTTATAAATCCTATACCCC
1 TGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACCCC
* *
31985949 TGAAGTTGTAGTGG-GTC-AGATTGAAGCTAAAATAGCGAATCTTAT-CTCCT
1 TGAAGTTGTAGTGGAG-CAAGA-TGAAGC-----TA-CAAATCTTATAC-CCC
* *
31985999 TGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCC
1 TGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACCCC
* * * *
31986043 TGAAGTTGCAGTGG-GTTGAA-ATGAAACTACAATGGCGAATCTTAT-CTCCT
1 TGAAGTTGTAGTGGAG--CAAGATGAAGCTAC-A-----AATCTTATAC-CCC
* * * * *
31986093 TAAAGTTGTAGTTGCGCAAGATGAAGCTACAAATCCTATACCCT
1 TGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACCCC
* *
31986137 TGAAGTTGCAATGGAGCAAGATGAA
1 TGAAGTTGTAGTGGAGCAAGATGAA
31986162 AATGTGACAC
Statistics
Matches: 1043, Mismatches: 214, Indels: 350
0.65 0.13 0.22
Matches are distributed among these distances:
42 7 0.01
43 61 0.06
44 389 0.37
45 54 0.05
46 13 0.01
47 18 0.02
48 17 0.02
49 95 0.09
50 353 0.34
51 36 0.03
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (44 bp):
TGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACCCC
Found at i:31985178 original size:50 final size:50
Alignment explanation
Indices: 31985032--31986024 Score: 235
Period size: 50 Copynumber: 21.1 Consensus size: 50
31985022 GGTTAGATTA
* * * * **
31985032 AAGTTGCCATAGCGAATCTCATCTCACTGAAGTTGTAGTGGAACAAGATG
1 AAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATG
* * * *
31985082 AA---A-C-TA-CAAATCCTATAC-CCCTGAAGTTGCAGTGG-TTCAGATTG
1 AAGTTACCATAGCGAATCTTAT-CTCCCTGAAGTTGCAGTGGAGTAAGA-TG
** *
31985126 AAGTTACCATAGCGAATCTTATCTTACTGAAGTTGTAGTGGAGTAAGATG
1 AAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATG
* * *
31985176 AAG----CA-A-CAAATCCTATAC-CCCTGAAGTTGCAGTGG-GTTAGATTG
1 AAGTTACCATAGCGAATCTTAT-CTCCCTGAAGTTGCAGTGGAGTAAGA-TG
*
31985220 AAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGAT-
1 AAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATG
* * * * * ***
31985269 AA---AGC-TA-CAAATCCTATAC-CCTTGAAGTTGGAGTGG-GCCGGATTG
1 AAGTTACCATAGCGAATCTTAT-CTCCCTGAAGTTGCAGTGGAGTAAGA-TG
* * * * * *
31985314 AAGCTACAATAGCAAATCTTGTCTCTCTGAAGTTGCAGTGGAGTAAGATA
1 AAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATG
* * * * * *
31985364 AAGCTACC--A---ATTC-TATAC-CCTTGAAGTTCCAGTAG-GTCAGATTG
1 AAGTTACCATAGCGAATCTTAT-CTCCCTGAAGTTGCAGTGGAGTAAGA-TG
* * * * * * *
31985408 AAATTA-CAGTAGCGAGTCCTATCTCCATGAAGTTACAGTGAAGCAAGATG
1 AAGTTACCA-TAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATG
* * * * * ** *
31985458 AAG----C-TA-CAAATCCTATAC-CCC-GAAAGTTACAATAG-GTTGGATTA
1 AAGTTACCATAGCGAATCTTAT-CTCCCTG-AAGTTGCAGTGGAGTAAGA-TG
* * * *
31985502 AAGTTACCATAGCGAATCTTATCTCCCTAAAGTTGCAATAGAGCAAGAT-
1 AAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATG
* * * * *
31985551 AA---AGC-TA-CAAATCCTAAAC-CCCTGAAGTTGCAGTGG-GTCAGATTG
1 AAGTTACCATAGCGAAT-CTTATCTCCCTGAAGTTGCAGTGGAGTAAGA-TG
* * * * *
31985596 AAGCTACAATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGAT-
1 AAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATG
* * * * * *
31985645 AA---AGC-TA-CAAATCCTATACT-CCTTAAGTTGTAGTGG-GTCAGATTG
1 AAGTTACCATAGCGAATCTTAT-CTCCCTGAAGTTGCAGTGGAGTAAGA-TG
* * * * *
31985690 AAGCTACAATAGTGAATCTTATCTCCCTGAAGTTGCAGTAGAGCAAGATG
1 AAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATG
* * * *
31985740 AAG----C-TA-CAAATCCTATACT-CCTGAATTTGCAGTGG-GTCAGATTG
1 AAGTTACCATAGCGAATCTTAT-CTCCCTGAAGTTGCAGTGGAGTAAGA-TG
* * * * * *
31985784 AAGCTACAATAGCGAATATTATCTCCCTAAAGTTGCAGTAGAGCAAGATG
1 AAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATG
* * * *
31985834 AAG----C-TA-CAAATCCTATAC-CCCTGAAGTTGCAGTTGG-TTGAA-TTG
1 AAGTTACCATAGCGAATCTTAT-CTCCCTGAAGTTGCAG-TGGAGT-AAGATG
* ** * * ** *
31985878 AAATTATAATAGCGAATCTTATCTCACTGAAGTTGTAGTGGAACAAGATA
1 AAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATG
* * *
31985928 AAGTT---ATA---AATCCTATAC-CCCTGAAGTTGTAGTGG-GTCAGATTG
1 AAGTTACCATAGCGAATCTTAT-CTCCCTGAAGTTGCAGTGGAGTAAGA-TG
* ** * *
31985972 AAGCTAAAATAGCGAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAGATG
1 AAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATG
31986022 AAG
1 AAG
31986025 CTACAAATCC
Statistics
Matches: 676, Mismatches: 162, Indels: 210
0.65 0.15 0.20
Matches are distributed among these distances:
43 37 0.05
44 241 0.36
45 43 0.06
46 9 0.01
47 8 0.01
48 8 0.01
49 44 0.07
50 252 0.37
51 34 0.05
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATG
Found at i:31990557 original size:17 final size:17
Alignment explanation
Indices: 31990535--31990571 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
31990525 TAATTTAAAT
*
31990535 AATTAAATATTTTTCTC
1 AATTAAATAATTTTCTC
31990552 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
31990569 AAT
1 AAT
31990572 CTAATTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:31990854 original size:24 final size:23
Alignment explanation
Indices: 31990816--31990862 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
31990806 TTTATGTTCA
31990816 TTTGATTTAACATGCAATTCATT
1 TTTGATTTAACATGCAATTCATT
*
31990839 TTTGGTTTCAACATGCAATTCATT
1 TTTGATTT-AACATGCAATTCATT
31990863 CATTGGTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.47
Consensus pattern (23 bp):
TTTGATTTAACATGCAATTCATT
Found at i:31997453 original size:30 final size:30
Alignment explanation
Indices: 31997345--31997451 Score: 126
Period size: 30 Copynumber: 3.6 Consensus size: 30
31997335 CATTACTTGA
* * *
31997345 TGTCATCTCGGATTGCCCGGCAATGATCAC
1 TGTCATCCCGGGTTGCCCGGCAAAGATCAC
* *
31997375 TGTCATCCTGGGTTGCCCAGCAACA-ATCAC
1 TGTCATCCCGGGTTGCCCGGCAA-AGATCAC
* * *
31997405 TATCATCCCGGGTTGCCTGGTAAAGATCAC
1 TGTCATCCCGGGTTGCCCGGCAAAGATCAC
31997435 TGTCATCCCGGGTTGCC
1 TGTCATCCCGGGTTGCC
31997452 TGACAACGAT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 1 0.02
30 63 0.98
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (30 bp):
TGTCATCCCGGGTTGCCCGGCAAAGATCAC
Found at i:32014571 original size:192 final size:192
Alignment explanation
Indices: 32014244--32014633 Score: 771
Period size: 192 Copynumber: 2.0 Consensus size: 192
32014234 TAGATTTCAT
32014244 TTTTTTCACTTAGGTACAAAAATATTGCTTTGTATTTAGATTTCTCTTTATATTCCTTAATATAT
1 TTTTTTCACTTAGGTACAAAAATATTGCTTTGTATTTAGATTTCTCTTTATATTCCTTAATATAT
*
32014309 TAAAGCTTTGTTGACTTTTAAAAATGTAAAAATCCTAACTTTAGCTGTGATTTCTTCTCCATTGT
66 TAAAGCTTTGTTGACTTCTAAAAATGTAAAAATCCTAACTTTAGCTGTGATTTCTTCTCCATTGT
32014374 TGCTATTATAATCTTCTCCAAAAAAAACTCACCAAGAGTCCCTAAGATTTTCCTAACCTTGC
131 TGCTATTATAATCTTCTCCAAAAAAAACTCACCAAGAGTCCCTAAGATTTTCCTAACCTTGC
32014436 TTTTTTCACTTAGGTACAAAAATATTGCTTTGTATTTAGATTTCTCTTTATATTCCTTAATATAT
1 TTTTTTCACTTAGGTACAAAAATATTGCTTTGTATTTAGATTTCTCTTTATATTCCTTAATATAT
32014501 TAAAGCTTTGTTGACTTCTAAAAATGTAAAAATCCTAACTTTAGCTGTGATTTCTTCTCCATTGT
66 TAAAGCTTTGTTGACTTCTAAAAATGTAAAAATCCTAACTTTAGCTGTGATTTCTTCTCCATTGT
32014566 TGCTATTATAATCTTCTCCAAAAAAAACTCACCAAGAGTCCCTAAGATTTTCCTAACCTTGC
131 TGCTATTATAATCTTCTCCAAAAAAAACTCACCAAGAGTCCCTAAGATTTTCCTAACCTTGC
32014628 TTTTTT
1 TTTTTT
32014634 ATGTTTTCTT
Statistics
Matches: 197, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
192 197 1.00
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.43
Consensus pattern (192 bp):
TTTTTTCACTTAGGTACAAAAATATTGCTTTGTATTTAGATTTCTCTTTATATTCCTTAATATAT
TAAAGCTTTGTTGACTTCTAAAAATGTAAAAATCCTAACTTTAGCTGTGATTTCTTCTCCATTGT
TGCTATTATAATCTTCTCCAAAAAAAACTCACCAAGAGTCCCTAAGATTTTCCTAACCTTGC
Found at i:32023017 original size:29 final size:29
Alignment explanation
Indices: 32022974--32023050 Score: 118
Period size: 29 Copynumber: 2.7 Consensus size: 29
32022964 TATCGACGCT
* *
32022974 CATCGAATATAAAAAGGGATGGTTACGAC
1 CATCGAATATGAAAAGGGATGGTTACAAC
* *
32023003 CATCGAATATGAAAATGGATGGTTTCAAC
1 CATCGAATATGAAAAGGGATGGTTACAAC
32023032 CATCGAATATGAAAAGGGA
1 CATCGAATATGAAAAGGGA
32023051 CGAATATGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (29 bp):
CATCGAATATGAAAAGGGATGGTTACAAC
Found at i:32023056 original size:16 final size:16
Alignment explanation
Indices: 32023035--32023066 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
32023025 TTTCAACCAT
32023035 CGAATATGAAAAGGGA
1 CGAATATGAAAAGGGA
32023051 CGAATATGAAAAGGGA
1 CGAATATGAAAAGGGA
32023067 TGGTGACGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.31, T:0.12
Consensus pattern (16 bp):
CGAATATGAAAAGGGA
Found at i:32023066 original size:74 final size:74
Alignment explanation
Indices: 32022977--32023124 Score: 224
Period size: 74 Copynumber: 2.0 Consensus size: 74
32022967 CGACGCTCAT
* * * * *
32022977 CGAATATAAAAAGGGATGGTTACGACCATCGAATATGAAAATGGATGGTTTCAACCATCGAATAT
1 CGAATATAAAAAGGGATGGTGACGACCATAGAATATAAAAAGGGATAGTTTCAACCATCGAATAT
32023042 GAAAAGGGA
66 GAAAAGGGA
* **
32023051 CGAATATGAAAAGGGATGGTGACGACCATAGAATATAAAAAGGGATAGTTTTGACCATCGAATAT
1 CGAATATAAAAAGGGATGGTGACGACCATAGAATATAAAAAGGGATAGTTTCAACCATCGAATAT
32023116 GAAAAGGGA
66 GAAAAGGGA
32023125 TGGTGACGAC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 66 1.00
ACGTcount: A:0.43, C:0.11, G:0.26, T:0.21
Consensus pattern (74 bp):
CGAATATAAAAAGGGATGGTGACGACCATAGAATATAAAAAGGGATAGTTTCAACCATCGAATAT
GAAAAGGGA
Found at i:32023070 original size:45 final size:45
Alignment explanation
Indices: 32023006--32023095 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
32022996 TTACGACCAT
* ** * *
32023006 CGAATATGAAAATGGATGGTTTCAACCATCGAATATGAAAAGGGA
1 CGAATATGAAAAGGGATGGTGACAACCATAGAATATAAAAAGGGA
*
32023051 CGAATATGAAAAGGGATGGTGACGACCATAGAATATAAAAAGGGA
1 CGAATATGAAAAGGGATGGTGACAACCATAGAATATAAAAAGGGA
32023096 TAGTTTTGAC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.44, C:0.10, G:0.27, T:0.19
Consensus pattern (45 bp):
CGAATATGAAAAGGGATGGTGACAACCATAGAATATAAAAAGGGA
Found at i:32023143 original size:58 final size:58
Alignment explanation
Indices: 32023051--32023168 Score: 209
Period size: 58 Copynumber: 2.0 Consensus size: 58
32023041 TGAAAAGGGA
32023051 CGAATATGAAAAGGGATGGTGACGACCATAGAATATAAAAAGGGATAGTTTTGACCAT
1 CGAATATGAAAAGGGATGGTGACGACCATAGAATATAAAAAGGGATAGTTTTGACCAT
* * *
32023109 CGAATATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTTTTGACCAT
1 CGAATATGAAAAGGGATGGTGACGACCATAGAATATAAAAAGGGATAGTTTTGACCAT
32023167 CG
1 CG
32023169 TTTAGCACAC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.22
Consensus pattern (58 bp):
CGAATATGAAAAGGGATGGTGACGACCATAGAATATAAAAAGGGATAGTTTTGACCAT
Found at i:32023168 original size:29 final size:29
Alignment explanation
Indices: 32023051--32023157 Score: 160
Period size: 29 Copynumber: 3.7 Consensus size: 29
32023041 TGAAAAGGGA
32023051 CGAATATGAAAAGGGATGGTGACGACCAT
1 CGAATATGAAAAGGGATGGTGACGACCAT
* * * ***
32023080 AGAATATAAAAAGGGATAGTTTTGACCAT
1 CGAATATGAAAAGGGATGGTGACGACCAT
32023109 CGAATATGAAAAGGGATGGTGACGACCAT
1 CGAATATGAAAAGGGATGGTGACGACCAT
32023138 CGAATATGAAAAGGGATGGT
1 CGAATATGAAAAGGGATGGT
32023158 TTTGACCATC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.40, C:0.10, G:0.29, T:0.21
Consensus pattern (29 bp):
CGAATATGAAAAGGGATGGTGACGACCAT
Found at i:32030650 original size:154 final size:150
Alignment explanation
Indices: 32030373--32030655 Score: 320
Period size: 154 Copynumber: 1.8 Consensus size: 150
32030363 GAAAATAACG
* * * *
32030373 TTCAGTTGGAAGCATTTTAGTACTTTTGCTAACAGTGCATCTTGCTTGGAGCATTTTTCCTTTAG
1 TTCAGTTGGAAGCATTTTAGTACTTTTGCTAACAGTACATCCTGCTTGGAGCATTTTTCCTCTAC
* *** * * **
32030438 AAACCTCATCCCGGGAATCCTGGGATATTTTTTTCAAAACTATCTCATCAAATTTATTTTCTCAG
66 AAACCTCAACCC--G-ATCCTAAAATATTTTCTTCAAAACCATCTCATCAAAAATATTTTCTCAG
32030503 AAGTAGCAGTACTGAAAAGGGCA
128 AAGTAGCAGTACTGAAAAGGGCA
* *
32030526 TTCAGTTGGAAGCGTTTTCAGTACTTTTGTTAACAGTACATCCTGCTTGGAGCATTTTTCCTCTA
1 TTCAGTTGGAAGCATTTT-AGTACTTTTGCTAACAGTACATCCTGCTTGGAGCATTTTTCCTCTA
*
32030591 CAAACCTCAACCC-ATCTCGTTAAAACTA-TTTCTTCAAAACCCATC-CTTCCAAAAATATTTTC
65 CAAACCTCAACCCGATC-C--TAAAA-TATTTTCTTCAAAA-CCATCTCAT-CAAAAATATTTTC
32030653 TCA
124 TCA
32030656 AAATCCATCC
Statistics
Matches: 108, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
150 3 0.03
151 1 0.01
153 31 0.29
154 73 0.68
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (150 bp):
TTCAGTTGGAAGCATTTTAGTACTTTTGCTAACAGTACATCCTGCTTGGAGCATTTTTCCTCTAC
AAACCTCAACCCGATCCTAAAATATTTTCTTCAAAACCATCTCATCAAAAATATTTTCTCAGAAG
TAGCAGTACTGAAAAGGGCA
Found at i:32031890 original size:18 final size:18
Alignment explanation
Indices: 32031867--32031929 Score: 81
Period size: 18 Copynumber: 3.4 Consensus size: 18
32031857 TTATATGATT
32031867 TAAAAAATAATTTTTATA
1 TAAAAAATAATTTTTATA
* * * *
32031885 TAAAAAATTATGTATGATT
1 TAAAAAATAAT-TTTTATA
32031904 TAAAAAATAATTTTTATA
1 TAAAAAATAATTTTTATA
32031922 TAAAAAAT
1 TAAAAAAT
32031930 TATGTTATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
18 22 0.61
19 14 0.39
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
TAAAAAATAATTTTTATA
Found at i:32031893 original size:37 final size:37
Alignment explanation
Indices: 32031847--32031932 Score: 145
Period size: 37 Copynumber: 2.3 Consensus size: 37
32031837 ATAAATAAAA
* *
32031847 ATAATAAATTTTATATGATTTAAAAAATAATTTTTAT
1 ATAAAAAATTATATATGATTTAAAAAATAATTTTTAT
*
32031884 ATAAAAAATTATGTATGATTTAAAAAATAATTTTTAT
1 ATAAAAAATTATATATGATTTAAAAAATAATTTTTAT
32031921 ATAAAAAATTAT
1 ATAAAAAATTAT
32031933 GTTATTTTCA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (37 bp):
ATAAAAAATTATATATGATTTAAAAAATAATTTTTAT
Found at i:32031933 original size:37 final size:37
Alignment explanation
Indices: 32031860--32031934 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
32031850 ATAAATTTTA
32031860 TATGATTTAAAAAATAATTTTTATATAAAAAATTATG
1 TATGATTTAAAAAATAATTTTTATATAAAAAATTATG
32031897 TATGATTTAAAAAATAATTTTTATATAAAAAATTATG
1 TATGATTTAAAAAATAATTTTTATATAAAAAATTATG
32031934 T
1 T
32031935 TATTTTCATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (37 bp):
TATGATTTAAAAAATAATTTTTATATAAAAAATTATG
Found at i:32044080 original size:61 final size:61
Alignment explanation
Indices: 32043962--32044081 Score: 136
Period size: 61 Copynumber: 2.0 Consensus size: 61
32043952 TATCTACAAA
* * * * *
32043962 ATTAATTTGATAAAAATAAAGTTAAATAATTACAACATCTAAGTATAAATAGTATTTAAAC
1 ATTAATTAGATAAAAATAAACTTAAATAAGTACAACATCTAAGTACAAATAGCATTTAAAC
* * *
32044023 ATTAATTAGGTAAAAA-AAACTTAAATAAGTATAATATCTAA-TACAAATCGAGCATTTAA
1 ATTAATTAGATAAAAATAAACTTAAATAAGTACAACATCTAAGTACAAAT--AGCATTTAA
32044082 CTTATTTTGC
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
59 6 0.12
60 21 0.43
61 22 0.45
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (61 bp):
ATTAATTAGATAAAAATAAACTTAAATAAGTACAACATCTAAGTACAAATAGCATTTAAAC
Found at i:32046959 original size:20 final size:21
Alignment explanation
Indices: 32046934--32046982 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
32046924 AATTATTTTT
32046934 TTATTTTAT-ATTT-TTATAAA
1 TTATTTTATAATTTATTAT-AA
*
32046954 TTATTTT-TAATTTATTGTAA
1 TTATTTTATAATTTATTATAA
32046974 TTATTTTAT
1 TTATTTTAT
32046983 TTGTTTGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 1 0.04
20 20 0.80
21 4 0.16
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TTATTTTATAATTTATTATAA
Found at i:32047572 original size:17 final size:18
Alignment explanation
Indices: 32047537--32047589 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
32047527 AAGGGTTAAT
32047537 TTTAATTTTTTAATATTA
1 TTTAATTTTTTAATATTA
*
32047555 TTTAATTTTTTCAT-TTA
1 TTTAATTTTTTAATATTA
* *
32047572 TGTAATTTAATTAATATT
1 TTTAATTT-TTTAATATT
32047590 TTTTTATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 10 0.34
18 17 0.59
19 2 0.07
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTAATTTTTTAATATTA
Found at i:32048102 original size:14 final size:14
Alignment explanation
Indices: 32048077--32048116 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
32048067 TAACACTAAT
32048077 CCTAAACCAT-AAC
1 CCTAAACCATAAAC
32048090 CCTAAACCCATAAAC
1 CCTAAA-CCATAAAC
*
32048105 CCTAAGCCATAA
1 CCTAAACCATAA
32048117 CATACAAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 6 0.25
14 10 0.42
15 8 0.33
ACGTcount: A:0.45, C:0.38, G:0.03, T:0.15
Consensus pattern (14 bp):
CCTAAACCATAAAC
Found at i:32051143 original size:9 final size:10
Alignment explanation
Indices: 32051123--32051152 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
32051113 AATTATTTTG
32051123 TATTTGGTTT
1 TATTTGGTTT
32051133 TATTT-GTTT
1 TATTTGGTTT
32051142 TATTTGGTTT
1 TATTTGGTTT
32051152 T
1 T
32051153 GGCATTGAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.10, C:0.00, G:0.17, T:0.73
Consensus pattern (10 bp):
TATTTGGTTT
Found at i:32051608 original size:44 final size:45
Alignment explanation
Indices: 32051560--32051762 Score: 200
Period size: 44 Copynumber: 4.6 Consensus size: 45
32051550 TTTAATCCGT
* * *
32051560 TCCACTGTAACTTCAGGAAGA-AAGGA-TTAGTAGCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAA-GACTTAGTAGCTTCAATCTGC
* * * * * *
32051604 TCCACTACAACATCAGGGAGATAAGACTCACTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTAGTAGCTTCAATCTGC
* * *
32051649 TCCACTGTAACTTCAGGGAGATAAGACTTA-TATCTTCAATTTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTAGTAGCTTCAATCTGC
* *
32051693 CCCACTGCAACTTCAAGGG-GATAAGA-TTAGTGGCTTCAATCTGC
1 TCCACTGCAACTTC-AGGGAGATAAGACTTAGTAGCTTCAATCTGC
* * *
32051737 TCTACTACAACTTTAGGGAGATAAGA
1 TCCACTGCAACTTCAGGGAGATAAGA
32051763 TTCATCATTG
Statistics
Matches: 132, Mismatches: 22, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
43 7 0.05
44 78 0.59
45 47 0.36
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTAGTAGCTTCAATCTGC
Found at i:32051717 original size:89 final size:88
Alignment explanation
Indices: 32051560--32051764 Score: 209
Period size: 89 Copynumber: 2.3 Consensus size: 88
32051550 TTTAATCCGT
* * *
32051560 TCCACTGTAACTTCAGGAAGA-AAGGATTAGTAGCTTCAGTCTGCTCCACTACAACATCAGGGAG
1 TCCACTGTAACTTCAGGGAGATAA-GATTAGTAGCTTCAATCTGCCCCACTACAACATCAGGGAG
* *
32051624 ATAAGACTCACTATCTTCAGTCTGC
65 ATAAGA-TCACTAGCTTCAATCTGC
* * * *
32051649 TCCACTGTAACTTCAGGGAGATAAGACTTA-TATCTTCAATTTGCCCCACTGCAACTTCAAGGG-
1 TCCACTGTAACTTCAGGGAGATAAGA-TTAGTAGCTTCAATCTGCCCCACTACAACATC-AGGGA
* * *
32051712 GATAAGATTAGTGGCTTCAATCTGC
64 GATAAGATCACTAGCTTCAATCTGC
* ** *
32051737 TCTACTACAACTTTAGGGAGATAAGATT
1 TCCACTGTAACTTCAGGGAGATAAGATT
32051765 CATCATTGTA
Statistics
Matches: 97, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
87 2 0.02
88 35 0.36
89 51 0.53
90 9 0.09
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.28
Consensus pattern (88 bp):
TCCACTGTAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCCCCACTACAACATCAGGGAGA
TAAGATCACTAGCTTCAATCTGC
Found at i:32051863 original size:50 final size:49
Alignment explanation
Indices: 32051803--32052243 Score: 357
Period size: 50 Copynumber: 8.8 Consensus size: 49
32051793 GCACTGTCAG
* * *
32051803 GGAAATAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCATTGTCGA
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG-CGA
* * ** * * *
32051853 GGAAGGAAGATTCGCCGTTGTAGCTTCAATCTGTCCT-ACTGCACCGCCA
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCT-TTTTAATTGCACTGCGA
* * * * *
32051902 GGAAAGTAAGATTCACTGTTGTGGCTTCAATCTTTTTAATTGTAATGTCGG
1 GG-AAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG-CGA
** * * * ** * *
32051953 GGAAACAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACTGCTA
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTGCGA
* *
32052002 GGGAATTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGA
1 -GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG-CGA
* * * * * * * *
32052053 GGAAGCAAGATTCACCGTTGTAGCTTCAATATGTTCT-ACTGCACAGCCA
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCT-TTTTAATTGCACTGCGA
* * *
32052102 GAGAAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTTAATTGCAATGTCGG
1 G-GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG-CGA
* * *** * * *
32052153 GGAAGCAAGATTCGCCGTTGTAGCTTCAAT-TTGTCCCACTGCACCGCCA
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTT-TTTAATTGCACTGCGA
32052202 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTG
1 -GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTG
32052244 TAACCTCAGG
Statistics
Matches: 294, Mismatches: 84, Indels: 26
0.73 0.21 0.06
Matches are distributed among these distances:
49 16 0.05
50 264 0.90
51 14 0.05
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (49 bp):
GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTGCGA
Found at i:32051874 original size:100 final size:100
Alignment explanation
Indices: 32051770--32052243 Score: 652
Period size: 100 Copynumber: 4.7 Consensus size: 100
32051760 AGATTCATCA
* * *
32051770 TTGTAGCTTCAATTCGTTCCACTGCACTGTCAGGGAAATAAGATTCACCGTTGTGGCTTCAATCT
1 TTGTAGCTTCAATTCGTTCCACTGCACCGCCAGGGAAATAAGATTCGCCGTTGTGGCTTCAATCT
* *
32051835 TTTTAATTGCATTGTCGAGGAAGGAAGATTCGCCG
66 TTTTAATTGCAATGTCGAGGAAGCAAGATTCGCCG
* *
32051870 TTGTAGCTTCAA-TC-TGTCCTACTGCACCGCCA-GGAAAGTAAGATTCACTGTTGTGGCTTCAA
1 TTGTAGCTTCAATTCGT-TCC-ACTGCACCGCCAGGGAAA-TAAGATTCGCCGTTGTGGCTTCAA
* * * *
32051932 TCTTTTTAATTGTAATGTCGGGGAAACAAGATTCGCCA
63 TCTTTTTAATTGCAATGTCGAGGAAGCAAGATTCGCCG
* * *
32051970 TTGTAGCTTCAA-TCTGTTCCACTGCACTGCTAGGGAATTAAGATTCGCCGTTGTGGCTTCAATC
1 TTGTAGCTTCAATTC-GTTCCACTGCACCGCCAGGGAAATAAGATTCGCCGTTGTGGCTTCAATC
*
32052034 TTTTTAATTGCAATGTCGAGGAAGCAAGATTCACCG
65 TTTTTAATTGCAATGTCGAGGAAGCAAGATTCGCCG
* * * * *
32052070 TTGTAGCTTCAATAT-GTTCTACTGCACAGCCAGAGAAGTAAGATTCGCCGTTGTGGCTTTAATC
1 TTGTAGCTTCAAT-TCGTTCCACTGCACCGCCAGGGAAATAAGATTCGCCGTTGTGGCTTCAATC
*
32052134 TTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCG
65 TTTTTAATTGCAATGTCGAGGAAGCAAGATTCGCCG
* * *
32052170 TTGTAGCTTCAATTTGTCCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCT
1 TTGTAGCTTCAATTCGTTCCACTGCACCGCCAGGGAAATAAGATTCGCCGTTGTGGCTTCAATCT
32052235 TTTTAATTG
66 TTTTAATTG
32052244 TAACCTCAGG
Statistics
Matches: 333, Mismatches: 32, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
98 1 0.00
99 11 0.03
100 312 0.94
101 7 0.02
102 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (100 bp):
TTGTAGCTTCAATTCGTTCCACTGCACCGCCAGGGAAATAAGATTCGCCGTTGTGGCTTCAATCT
TTTTAATTGCAATGTCGAGGAAGCAAGATTCGCCG
Found at i:32052065 original size:200 final size:199
Alignment explanation
Indices: 32051759--32052243 Score: 731
Period size: 200 Copynumber: 2.4 Consensus size: 199
32051749 TTAGGGAGAT
** *
32051759 AAGATTCATCATTGTAGCTTCAATTCGTTCCACTGCACTG-TCAGGGAAATAAGATTCACCGTTG
1 AAGATTCGCCATTGTAGCTTCAATT-GTTCCACTGCACTGCT-AGGGAAATAAGATTCGCCGTTG
* * * *
32051823 TGGCTTCAATCTTTTTAATTGCATTGTCGAGGAAGGAAGATTCGCCGTTGTAGCTTCAATCTGTC
64 TGGCTTCAATCTTTTTAATTGCAATGTCGAGGAAGCAAGATTCACCGTTGTAGCTTCAATATGTC
* * *
32051888 CTACTGCACCGCCAG-GAAAGTAAGATTCACTGTTGTGGCTTCAATCTTTTTAATTGTAATGTCG
129 CTACTGCACAGCCAGAG-AAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCG
32051952 GGGAAAC
193 GGGAAAC
*
32051959 AAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACTGCTAGGGAATTAAGATTCGCCGTTGT
1 AAGATTCGCCATTGTAGCTTCAAT-TGTTCCACTGCACTGCTAGGGAAATAAGATTCGCCGTTGT
*
32052024 GGCTTCAATCTTTTTAATTGCAATGTCGAGGAAGCAAGATTCACCGTTGTAGCTTCAATATGTTC
65 GGCTTCAATCTTTTTAATTGCAATGTCGAGGAAGCAAGATTCACCGTTGTAGCTTCAATATGTCC
* *
32052089 TACTGCACAGCCAGAGAAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTTAATTGCAATGTCGGG
130 TACTGCACAGCCAGAGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGG
*
32052154 GAAGC
195 GAAAC
* * * * *
32052159 AAGATTCGCCGTTGTAGCTTCAATTTGTCCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGT
1 AAGATTCGCCATTGTAGCTTCAA-TTGTTCCACTGCACTGCTAGGGAAATAAGATTCGCCGTTGT
32052224 GGCTTCAATCTTTTTAATTG
65 GGCTTCAATCTTTTTAATTG
32052244 TAACCTCAGG
Statistics
Matches: 261, Mismatches: 20, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
200 257 0.98
201 4 0.02
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.33
Consensus pattern (199 bp):
AAGATTCGCCATTGTAGCTTCAATTGTTCCACTGCACTGCTAGGGAAATAAGATTCGCCGTTGTG
GCTTCAATCTTTTTAATTGCAATGTCGAGGAAGCAAGATTCACCGTTGTAGCTTCAATATGTCCT
ACTGCACAGCCAGAGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGG
AAAC
Found at i:32053073 original size:16 final size:16
Alignment explanation
Indices: 32053023--32053076 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
32053013 TGGCCTCTCC
* *
32053023 TTTTTCTTTTTCTTAT
1 TTTTTATTTTTTTTAT
*
32053039 TTTCTT-TTTTTTGTA-
1 TTT-TTATTTTTTTTAT
32053054 TTTTTATTTTTTTTAT
1 TTTTTATTTTTTTTAT
32053070 TTTTTAT
1 TTTTTAT
32053077 GAAACATTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
14 2 0.06
15 11 0.34
16 17 0.53
17 2 0.06
ACGTcount: A:0.09, C:0.06, G:0.02, T:0.83
Consensus pattern (16 bp):
TTTTTATTTTTTTTAT
Found at i:32053074 original size:17 final size:17
Alignment explanation
Indices: 32053038--32053076 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
32053028 CTTTTTCTTA
* *
32053038 TTTTCTTTTTTTTGTAT
1 TTTTATTTTTTTTATAT
32053055 TTTTATTTTTTTTAT-T
1 TTTTATTTTTTTTATAT
32053071 TTTTAT
1 TTTTAT
32053077 GAAACATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.10, C:0.03, G:0.03, T:0.85
Consensus pattern (17 bp):
TTTTATTTTTTTTATAT
Found at i:32056285 original size:20 final size:19
Alignment explanation
Indices: 32056260--32056298 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
32056250 ATTAGAACAA
32056260 CTTTACTAGAAAACAAATAT
1 CTTTAC-AGAAAACAAATAT
* *
32056280 CTTTACATAAAACGAATAT
1 CTTTACAGAAAACAAATAT
32056299 ATATACGACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (19 bp):
CTTTACAGAAAACAAATAT
Found at i:32060681 original size:10 final size:10
Alignment explanation
Indices: 32060658--32060691 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
32060648 TAAATGTATT
32060658 ATTTTT-AT-
1 ATTTTTAATA
32060666 ATTTTTAATA
1 ATTTTTAATA
32060676 ATTTTTAATA
1 ATTTTTAATA
32060686 ATTTTT
1 ATTTTT
32060692 CAAATATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 6 0.25
9 2 0.08
10 16 0.67
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:32063582 original size:4 final size:4
Alignment explanation
Indices: 32063573--32063615 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
32063563 TTAGAAATCT
32063573 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
32063616 TTTGCATGCA
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:32066793 original size:2 final size:2
Alignment explanation
Indices: 32066786--32066813 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
32066776 TTTGATTGAC
32066786 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
32066814 TGTATTAGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:32070552 original size:6 final size:7
Alignment explanation
Indices: 32070535--32070582 Score: 69
Period size: 7 Copynumber: 6.9 Consensus size: 7
32070525 AATTAAACAA
32070535 AAAAATC
1 AAAAATC
32070542 AAAAATC
1 AAAAATC
32070549 AAAAATC
1 AAAAATC
*
32070556 AAAAATG
1 AAAAATC
*
32070563 AAAAATG
1 AAAAATC
*
32070570 AAAAATG
1 AAAAATC
32070577 AAAAAT
1 AAAAAT
32070583 ATTTTTGGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.15
Consensus pattern (7 bp):
AAAAATC
Found at i:32070554 original size:14 final size:14
Alignment explanation
Indices: 32070535--32070582 Score: 78
Period size: 14 Copynumber: 3.4 Consensus size: 14
32070525 AATTAAACAA
*
32070535 AAAAATCAAAAATC
1 AAAAATCAAAAATG
32070549 AAAAATCAAAAATG
1 AAAAATCAAAAATG
*
32070563 AAAAATGAAAAATG
1 AAAAATCAAAAATG
32070577 AAAAAT
1 AAAAAT
32070583 ATTTTTGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.15
Consensus pattern (14 bp):
AAAAATCAAAAATG
Found at i:32081841 original size:20 final size:18
Alignment explanation
Indices: 32081794--32081900 Score: 60
Period size: 19 Copynumber: 5.8 Consensus size: 18
32081784 TAAGATAAAC
32081794 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
32081811 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
32081831 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
*
32081850 ATTAAGA-TAAGTATTAAAT
1 ATTAA-ATTAA-TATTTAAT
* *
32081869 -TTAATTTAATATTAAACT
1 ATTAAATTAATATTTAA-T
*
32081887 ATTAAAATAATATT
1 ATTAAATTAATATT
32081901 ATATTTGGAA
Statistics
Matches: 69, Mismatches: 11, Indels: 18
0.70 0.11 0.18
Matches are distributed among these distances:
17 15 0.22
18 9 0.13
19 27 0.39
20 18 0.26
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:32090737 original size:20 final size:20
Alignment explanation
Indices: 32090720--32090757 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32090710 GACGTTCATC
*
32090720 TATCATATATTCATTTCACA
1 TATCACATATTCATTTCACA
*
32090740 TATCACATTTTCATTTCA
1 TATCACATATTCATTTCA
32090758 AATGTCTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (20 bp):
TATCACATATTCATTTCACA
Found at i:32090798 original size:14 final size:13
Alignment explanation
Indices: 32090778--32090842 Score: 69
Period size: 13 Copynumber: 4.8 Consensus size: 13
32090768 CCAATGTTCC
*
32090778 ATTTCATATATCT
1 ATTTCATATAACT
*
32090791 ATTTTCATATATCT
1 A-TTTCATATAACT
*
32090805 GA-TTCATATAACC
1 -ATTTCATATAACT
32090818 ATTTCATATAACT
1 ATTTCATATAACT
32090831 ATTTCCATATAA
1 ATTT-CATATAA
32090843 AAAATTTGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
12 1 0.02
13 24 0.53
14 19 0.42
15 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.02, T:0.46
Consensus pattern (13 bp):
ATTTCATATAACT
Found at i:32097070 original size:15 final size:16
Alignment explanation
Indices: 32097041--32097082 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
32097031 CATAAGATCC
*
32097041 TTTTTGCATTCATTGT
1 TTTTTGCATTAATTGT
*
32097057 TTTTTGC-TTAATTGA
1 TTTTTGCATTAATTGT
*
32097072 TCTTTGCATTA
1 TTTTTGCATTA
32097083 TACATTACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.17, C:0.12, G:0.12, T:0.60
Consensus pattern (16 bp):
TTTTTGCATTAATTGT
Found at i:32108036 original size:44 final size:44
Alignment explanation
Indices: 32107919--32108735 Score: 638
Period size: 44 Copynumber: 18.5 Consensus size: 44
32107909 TCACAGATAA
* * * * *
32107919 CAGATCCTGTCTTCATATATTGGTAG-GAAGTGGATCGAAG-ATG
1 CAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGAAAG
* * * *
32107962 CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATTGAAGAAAG
1 CAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGAAAG
* * * *
32108007 CAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCGAAGAAAG
* * * * * *
32108051 CAGATCCTGTCTTCCTATATCGGTAGCT-AAGTGGATCGAA-CATG
1 CAGATCTTGTCTTCCTATATTGG-CG-TGAAGTAGATCGAAGAAAG
* * * * * * * *
32108095 TAGTTCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAAAAAA
1 CAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGAAAG
* * * *
32108140 CAGATCTTGGCTTCATGTATTGGCGTGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCGAAGAAAG
* * * * *
32108184 CAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAG-ATG
1 CAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGAAAG
* * *
32108228 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGAAAG
* * *
32108273 CAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAA-
1 CAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCGAAGA-AAG
* * * * * *
32108317 CAGATCCTGTCTTCCTATATT--TGT-AGCGAAGATCGAA-TATG
1 CAGATCTTGTCTTCCTATATTGGCGTGA-AGTAGATCGAAGAAAG
* * * *
32108358 CAGATCTTGTCTTCCCATACTGGTGGTGAAATAGATCGAAGAAAG
1 CAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGAAAG
* *
32108403 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAA-
1 CAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCGAAGA-AAG
* * * *
32108447 CAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAG-ATG
1 CAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGAAAG
* * * *
32108491 CAGATCTTGTCTTCCCATACTGGTGGTGAAGTGGATCGAAGAAAG
1 CAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGAAAG
* * * *
32108536 CAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATTGAAGATAA-
1 CAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCGAAGA-AAG
* * * * * * *
32108580 CAGATCCTGTCTTCCTATATTGGTAGCGAATTGGATTGAAG-ATG
1 CAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGAAAG
* * *
32108624 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGAAAG
* * * *
32108669 CAGATCTTGTCTTCATGTATTGGCGTGAAGTGGATC-AAAAATAG
1 CAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCGAAGAA-AG
* *
32108713 CAGATCCTGTCTTCTTATATTGG
1 CAGATCTTGTCTTCCTATATTGG
32108736 TAGTGAGGCA
Statistics
Matches: 610, Mismatches: 139, Indels: 49
0.76 0.17 0.06
Matches are distributed among these distances:
40 1 0.00
41 19 0.03
42 10 0.02
43 27 0.04
44 369 0.60
45 183 0.30
46 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (44 bp):
CAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCGAAGAAAG
Found at i:32108115 original size:133 final size:133
Alignment explanation
Indices: 32107913--32108738 Score: 1327
Period size: 133 Copynumber: 6.2 Consensus size: 133
32107903 CATGTTTCAC
*
32107913 AGATAACAGATCCTGTCTTCATATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCC
1 AGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* * *
32107977 CATACTGGTGGTGAAGTAGATTGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGAT
66 CATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
32108042 CGA
131 CGA
* * * * * *
32108045 AGATAGCAGATCCTGTCTTCCTATATCGGTAGCTAAGTGGATCGAACATGTAGTTCTTGTCTTCC
1 AGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* * *
32108110 CATACTGGTGGCGAAGTAGATCGAAAAAAACAGATCTTGGCTTCATGTATTGGCGTGAAGTAGAT
66 CATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
32108175 CGA
131 CGA
*
32108178 AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
1 AGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* *
32108243 CATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGAT
66 CATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
32108308 CGA
131 CGA
* *
32108311 AGATAACAGATCCTGTCTTCCTATATTTGTAGCGAA---GATCGAATATGCAGATCTTGTCTTCC
1 AGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* *
32108373 CATACTGGTGGTGAAATAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
66 CATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
32108438 CGA
131 CGA
*
32108441 AGATAACAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
1 AGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* * *
32108506 CATACTGGTGGTGAAGTGGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
66 CATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
*
32108571 TGA
131 CGA
* *
32108574 AGATAACAGATCCTGTCTTCCTATATTGGTAGCGAATTGGATTGAAGATGCAGATCTTGTCTTCC
1 AGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* *
32108639 CATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTGGAT
66 CATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
*
32108704 CAA
131 CGA
* * *
32108707 AAATAGCAGATCCTGTCTTCTTATATTGGTAG
1 AGATAACAGATCCTGTCTTCCTATATTGGTAG
32108739 TGAGGCAGAC
Statistics
Matches: 640, Mismatches: 50, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
130 123 0.19
132 29 0.05
133 488 0.76
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (133 bp):
AGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
CATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
CGA
Found at i:32108683 original size:396 final size:396
Alignment explanation
Indices: 32107913--32108738 Score: 1359
Period size: 396 Copynumber: 2.1 Consensus size: 396
32107903 CATGTTTCAC
32107913 AGATAACAGATCCTGTCTTCATATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCC
1 AGATAACAGATCCTGTCTTCATATATTGGTAGGAA--GGATCGAAGATGCAGATCTTGTCTTCCC
* *
32107978 ATACTGGTGGTGAAGTAGATTGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATC
64 ATACTGGTGGTGAAATAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATC
* * *
32108043 GAAGATAGCAGATCCTGTCTTCCTATATCGGTAGCTAAGTGGATCGAACATGTAGTTCTTGTCTT
129 GAAGATAACAGATCCTGTCTTCCTATATCGGTAGCTAAGTGGATCGAACATGCAGATCTTGTCTT
*
32108108 CCCATACTGGTGGCGAAGTAGATCGAAAAAAACAGATCTTGGCTTCATGTATTGGCGTGAAGTAG
194 CCCATACTGGTGGCGAAGTAGATCGAAAAAAACAAATCTTGGCTTCATGTATTGGCGTGAAGTAG
*
32108173 ATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGT
259 ATCGAAGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGT
32108238 CTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAG
324 CTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAG
*
32108303 TAGATCGA
389 TAGATCAA
* * *
32108311 AGATAACAGATCCTGTCTTCCTATATTTGTAGCGAA-GATCGAATATGCAGATCTTGTCTTCCCA
1 AGATAACAGATCCTGTCTTCATATATTGGTAG-GAAGGATCGAAGATGCAGATCTTGTCTTCCCA
*
32108375 TACTGGTGGTGAAATAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
65 TACTGGTGGTGAAATAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCG
* *
32108440 AAGATAACAGATCCTGTCTTCCTATATTGGTAG-TGAAGTGGATCGAAGATGCAGATCTTGTCTT
130 AAGATAACAGATCCTGTCTTCCTATATCGGTAGCT-AAGTGGATCGAACATGCAGATCTTGTCTT
* * * * *
32108504 CCCATACTGGTGGTGAAGTGGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAG
194 CCCATACTGGTGGCGAAGTAGATCGAAAAAAACAAATCTTGGCTTCATGTATTGGCGTGAAGTAG
* * *
32108569 ATTGAAGATAACAGATCCTGTCTTCCTATATTGGTAGCGAATTGGATTGAAGATGCAGATCTTGT
259 ATCGAAGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGT
*
32108634 CTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAG
324 CTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAG
*
32108699 TGGATCAA
389 TAGATCAA
* * *
32108707 AAATAGCAGATCCTGTCTTCTTATATTGGTAG
1 AGATAACAGATCCTGTCTTCATATATTGGTAG
32108739 TGAGGCAGAC
Statistics
Matches: 398, Mismatches: 28, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
395 1 0.00
396 364 0.91
398 30 0.08
399 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (396 bp):
AGATAACAGATCCTGTCTTCATATATTGGTAGGAAGGATCGAAGATGCAGATCTTGTCTTCCCAT
ACTGGTGGTGAAATAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGA
AGATAACAGATCCTGTCTTCCTATATCGGTAGCTAAGTGGATCGAACATGCAGATCTTGTCTTCC
CATACTGGTGGCGAAGTAGATCGAAAAAAACAAATCTTGGCTTCATGTATTGGCGTGAAGTAGAT
CGAAGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCT
TCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
GATCAA
Found at i:32117744 original size:21 final size:21
Alignment explanation
Indices: 32117696--32117749 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
32117686 TTAAAAACCC
*
32117696 AATGGTACCGATATTTTTATA
1 AATGGTATCGATATTTTTATA
* * *
32117717 AA-AGTATTGATATTTTTTTA
1 AATGGTATCGATATTTTTATA
32117737 AATGGTATCGATA
1 AATGGTATCGATA
32117750 CCTAATTACA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (21 bp):
AATGGTATCGATATTTTTATA
Found at i:32125085 original size:14 final size:15
Alignment explanation
Indices: 32125068--32125096 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32125058 GAGTATAGTA
32125068 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
32125082 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
32125097 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:32125412 original size:15 final size:16
Alignment explanation
Indices: 32125385--32125414 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
32125375 ATGAGTATTG
32125385 TAAATATTTTAAAAAA
1 TAAATATTTTAAAAAA
32125401 TAAATA-TTTAAAAA
1 TAAATATTTTAAAAA
32125415 GAGAGATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TAAATATTTTAAAAAA
Found at i:32132609 original size:36 final size:36
Alignment explanation
Indices: 32132562--32132639 Score: 129
Period size: 36 Copynumber: 2.2 Consensus size: 36
32132552 TTTGTATGAA
* *
32132562 CTTACTAAGCCTTTGATATGATTACTGTTGTCTTCC
1 CTTACTAAGCCTTTGATATGATTACCGTTGTCCTCC
*
32132598 CTTACTAAGCCTTTGATATGCTTACCGTTGTCCTCC
1 CTTACTAAGCCTTTGATATGATTACCGTTGTCCTCC
32132634 CTTACT
1 CTTACT
32132640 TGTAGATTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.18, C:0.27, G:0.13, T:0.42
Consensus pattern (36 bp):
CTTACTAAGCCTTTGATATGATTACCGTTGTCCTCC
Found at i:32134501 original size:11 final size:13
Alignment explanation
Indices: 32134485--32134518 Score: 54
Period size: 11 Copynumber: 2.8 Consensus size: 13
32134475 AATTTCACAG
32134485 AAAAATTTCG-T-
1 AAAAATTTCGTTC
32134496 AAAAATTTCGTTC
1 AAAAATTTCGTTC
32134509 AAAAATTTCG
1 AAAAATTTCG
32134519 ACGTTTGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 1 0.05
13 10 0.48
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (13 bp):
AAAAATTTCGTTC
Found at i:32135722 original size:26 final size:26
Alignment explanation
Indices: 32135687--32135738 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
32135677 AAATGTGAAG
*
32135687 GGGGTTGCTAAGTGTTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
32135713 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
32135739 ATCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.15, C:0.21, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:32135758 original size:101 final size:102
Alignment explanation
Indices: 32135582--32135806 Score: 380
Period size: 101 Copynumber: 2.2 Consensus size: 102
32135572 ATTGAATATA
*
32135582 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * *
32135647 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
66 GGTTGCTAAGTACTGATCCCACCATATCTTAAATGTG
* *
32135684 AAGGGGGTTGCTAAGTGTTGATT-CCCCGAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
32135748 GGTTGCTAAGTACTGATCCCACCATATCTTAAATGTG
66 GGTTGCTAAGTACTGATCCCACCATATCTTAAATGTG
*
32135785 AAAGGGGTTGCTAAGTGCTGAT
1 AAGGGGGTTGCTAAGTGCTGAT
32135807 ATCCGACTCA
Statistics
Matches: 115, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
101 93 0.81
102 22 0.19
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (102 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
GGTTGCTAAGTACTGATCCCACCATATCTTAAATGTG
Found at i:32141493 original size:42 final size:42
Alignment explanation
Indices: 32141407--32141526 Score: 134
Period size: 42 Copynumber: 2.8 Consensus size: 42
32141397 AGCTCGTACA
* * ** *
32141407 ATGCCATATCCCAGATAAGGTCTTACATGTTATAATATACCG
1 ATGCCATGTCCCAGATAAGGTCTTACACGAAATCATATACCG
*
32141449 ATGCCACTGTCCCAGATAGGGTCTTACACGAAATCATATA-CG
1 ATGCCA-TGTCCCAGATAAGGTCTTACACGAAATCATATACCG
* * *
32141491 ATGCCAATGTCCCAGACATGGTCTTACACAAAATCA
1 ATGCC-ATGTCCCAGATAAGGTCTTACACGAAATCA
32141527 CACCTCGGAA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 39 0.58
43 28 0.42
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (42 bp):
ATGCCATGTCCCAGATAAGGTCTTACACGAAATCATATACCG
Done.