Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 117 of 362
Found at i:38478136 original size:48 final size:48
Alignment explanation
Indices: 38477939--38478132 Score: 237
Period size: 48 Copynumber: 4.0 Consensus size: 48
38477929 TACATGAATC
* * * * * *
38477939 CACATATCATTGTCGATGCCATGTCCCATACATGATCTAACACTGGCA
1 CACATATCATCGCCGATGCCATGTCCCAAACATGGTCTTACACAGGCA
*
38477987 CACATATCATCGCCGATTCCATGTCCCAAACATGGTCTTACACTA-GCA
1 CACATATCATCGCCGATGCCATGTCCCAAACATGGTCTTACAC-AGGCA
* * *
38478035 CACATATCATCGTCGATGCCATGTCCCACACATGGTCTTACACAGGAA
1 CACATATCATCGCCGATGCCATGTCCCAAACATGGTCTTACACAGGCA
** * * *
38478083 CATTTATCATCACCGATGCCATATCCCAGACATGGTCTTACACAGGCA
1 CACATATCATCGCCGATGCCATGTCCCAAACATGGTCTTACACAGGCA
38478131 CA
1 CA
38478133 TTTAGCACGG
Statistics
Matches: 126, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
47 1 0.01
48 125 0.99
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.25
Consensus pattern (48 bp):
CACATATCATCGCCGATGCCATGTCCCAAACATGGTCTTACACAGGCA
Found at i:38491866 original size:19 final size:20
Alignment explanation
Indices: 38491830--38491884 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
38491820 AATTAAAATT
38491830 CATAATGTTTA-TATTTT-TAA
1 CATAAT-TTTATTATTTTAT-A
38491850 CATAATTTTATTATTTTATA
1 CATAATTTTATTATTTTATA
*
38491870 -AT-ATTTAATTATTTT
1 CATAATTTTATTATTTT
38491885 TTGACAAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 12 0.38
19 6 0.19
20 13 0.41
21 1 0.03
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (20 bp):
CATAATTTTATTATTTTATA
Found at i:38491880 original size:18 final size:16
Alignment explanation
Indices: 38491851--38491884 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
38491841 TATTTTTAAC
38491851 ATAATTTTATTATTTT
1 ATAATTTTATTATTTT
38491867 ATAATATTTAATTATTTT
1 ATAAT-TTT-ATTATTTT
38491885 TTGACAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 3 0.19
18 8 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATAATTTTATTATTTT
Found at i:38496725 original size:35 final size:35
Alignment explanation
Indices: 38496686--38496758 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
38496676 ACACATTCTT
*
38496686 TATTCTCGTCAGATCAATCTCACATAAATAATATA
1 TATTCTCGTCAAATCAATCTCACATAAATAATATA
*
38496721 TATTCTCGTTAAATCAATCTCACATAAATAATATA
1 TATTCTCGTCAAATCAATCTCACATAAATAATATA
38496756 TAT
1 TAT
38496759 ATCACATACC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.41, C:0.18, G:0.04, T:0.37
Consensus pattern (35 bp):
TATTCTCGTCAAATCAATCTCACATAAATAATATA
Found at i:38496775 original size:39 final size:35
Alignment explanation
Indices: 38496698--38496765 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
38496688 TTCTCGTCAG
* *
38496698 ATCAATCTCACATAAATAATATATATTCTCGTTAA
1 ATCAATCTCACATAAATAATATATATTCACATTAA
38496733 ATCAATCTCACATAAATAATATATATATCACAT
1 ATCAATCTCACATAAATAATATATAT-TCACAT
38496766 ACCTGAATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 26 0.87
36 4 0.13
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.35
Consensus pattern (35 bp):
ATCAATCTCACATAAATAATATATATTCACATTAA
Found at i:38500779 original size:57 final size:58
Alignment explanation
Indices: 38500707--38500817 Score: 161
Period size: 57 Copynumber: 1.9 Consensus size: 58
38500697 GTGCCCACTG
*
38500707 ACCGATCTCGAACACATAGTGCTCGGTTGAA-GAACTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGAACACATAGTGCTCGGTTAAAGGAACTCGCACACACAGTGCCTCAATT
* * * * *
38500764 ACCGATCTCGCACACATAGTGCTTGGTTAAAGGAATTTGCACACATAGTGCCTC
1 ACCGATCTCGAACACATAGTGCTCGGTTAAAGGAACTCGCACACACAGTGCCTC
38500818 TAATCATTCG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 28 0.60
58 19 0.40
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (58 bp):
ACCGATCTCGAACACATAGTGCTCGGTTAAAGGAACTCGCACACACAGTGCCTCAATT
Found at i:38501032 original size:43 final size:43
Alignment explanation
Indices: 38500971--38501071 Score: 148
Period size: 43 Copynumber: 2.3 Consensus size: 43
38500961 CCTTACTCGA
** * *
38500971 ATCACCGGCATTAAGCCTGCTAGGCACGAAGACCCGAATATAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGACCCAAATACAC
* *
38501014 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGACCCAAATACAC
38501057 ATCACCGGCACGAAG
1 ATCACCGGCACGAAG
38501072 GCCCAAATAC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.33, C:0.32, G:0.23, T:0.13
Consensus pattern (43 bp):
ATCACCGGCACGAAGCCTGCTAGGCACGAAGACCCAAATACAC
Found at i:38501074 original size:27 final size:27
Alignment explanation
Indices: 38501036--38501098 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
38501026 AAGCCTGCTA
*
38501036 GGCACGAAGGCCCAAATACATATCACC
1 GGCACGAAGGCCCAAATACACATCACC
*
38501063 GGCACGAAGGCCCAAATACACATCATC
1 GGCACGAAGGCCCAAATACACATCACC
*
38501090 GGCATGAAG
1 GGCACGAAG
38501099 CCTGCTAGGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.37, C:0.30, G:0.22, T:0.11
Consensus pattern (27 bp):
GGCACGAAGGCCCAAATACACATCACC
Found at i:38501110 original size:43 final size:43
Alignment explanation
Indices: 38501063--38501216 Score: 254
Period size: 43 Copynumber: 3.6 Consensus size: 43
38501053 ACATATCACC
* *
38501063 GGCACGAAGGCCCAAATACACATCATCGGCATGAAGCCTGCTA
1 GGCACGAAGGCCCGAATACACATCATCGGCACGAAGCCTGCTA
* *
38501106 GGCACGAAGGCCCGAATACACATCATTGGCACGGAGCCTGCTA
1 GGCACGAAGGCCCGAATACACATCATCGGCACGAAGCCTGCTA
38501149 GGCACGAAGGCCCGAATACACATCATCGGCACGAAGCCTGCTA
1 GGCACGAAGGCCCGAATACACATCATCGGCACGAAGCCTGCTA
* *
38501192 GGCACGAAGGCCCCAATAGACATCA
1 GGCACGAAGGCCCGAATACACATCA
38501217 CCGAGTTTCA
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.31, C:0.31, G:0.25, T:0.12
Consensus pattern (43 bp):
GGCACGAAGGCCCGAATACACATCATCGGCACGAAGCCTGCTA
Found at i:38501138 original size:70 final size:70
Alignment explanation
Indices: 38500993--38501130 Score: 213
Period size: 70 Copynumber: 2.0 Consensus size: 70
38500983 AAGCCTGCTA
* * *
38500993 GGCACGAAGACCCGAATATACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATACATA
1 GGCACGAAGACCCAAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATACACA
38501058 TCACC
66 TCACC
* * * *
38501063 GGCACGAAGGCCCAAATACACATCATCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 GGCACGAAGACCCAAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATACACA
38501128 TCA
66 TCA
38501131 TTGGCACGGA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 61 1.00
ACGTcount: A:0.34, C:0.32, G:0.22, T:0.12
Consensus pattern (70 bp):
GGCACGAAGACCCAAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATACACA
TCACC
Found at i:38501179 original size:113 final size:113
Alignment explanation
Indices: 38500971--38501184 Score: 338
Period size: 113 Copynumber: 1.9 Consensus size: 113
38500961 CCTTACTCGA
* *
38500971 ATCACCGGCATTAAGCCTGCTAGGCACGAAGACCCGAATATACATCACCGGCACGAAGCCTGCTA
1 ATCACCGGCATGAAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACGAAGCCTGCTA
*
38501036 GGCACGAAGGCCCAAATACATATCACCGGCACGAAGGCCCAAATACAC
66 GGCACGAAGGCCCAAATACACATCACCGGCACGAAGGCCCAAATACAC
* * ** *
38501084 ATCATCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCATTGGCACGGAGCCTGCTA
1 ATCACCGGCATGAAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACGAAGCCTGCTA
* *
38501149 GGCACGAAGGCCCGAATACACATCATCGGCACGAAG
66 GGCACGAAGGCCCAAATACACATCACCGGCACGAAG
38501185 CCTGCTAGGC
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
113 91 1.00
ACGTcount: A:0.32, C:0.31, G:0.24, T:0.13
Consensus pattern (113 bp):
ATCACCGGCATGAAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACGAAGCCTGCTA
GGCACGAAGGCCCAAATACACATCACCGGCACGAAGGCCCAAATACAC
Found at i:38502656 original size:35 final size:35
Alignment explanation
Indices: 38502617--38502689 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
38502607 ACACATTCTT
38502617 TATTCTCGTCAGATCAATCTCACATAAATAATATA
1 TATTCTCGTCAGATCAATCTCACATAAATAATATA
38502652 TATTCTCGTCAGATCAATCTCACATAAATAATATA
1 TATTCTCGTCAGATCAATCTCACATAAATAATATA
38502687 TAT
1 TAT
38502690 ATCACATACC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (35 bp):
TATTCTCGTCAGATCAATCTCACATAAATAATATA
Found at i:38507404 original size:62 final size:62
Alignment explanation
Indices: 38507307--38507431 Score: 232
Period size: 62 Copynumber: 2.0 Consensus size: 62
38507297 CTTCGCATGG
* *
38507307 CCTAAGTACCTTAGCCAGATTGGCTAAGCAATCATCGTACGTATCTCCAAACGCTGAAAAGT
1 CCTAAGCACCTTAGCCAAATTGGCTAAGCAATCATCGTACGTATCTCCAAACGCTGAAAAGT
38507369 CCTAAGCACCTTAGCCAAATTGGCTAAGCAATCATCGTACGTATCTCCAAACGCTGAAAAGT
1 CCTAAGCACCTTAGCCAAATTGGCTAAGCAATCATCGTACGTATCTCCAAACGCTGAAAAGT
38507431 C
1 C
38507432 ATCCATGAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (62 bp):
CCTAAGCACCTTAGCCAAATTGGCTAAGCAATCATCGTACGTATCTCCAAACGCTGAAAAGT
Found at i:38522983 original size:31 final size:31
Alignment explanation
Indices: 38522943--38523015 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
38522933 ACTAACAAGA
* * **
38522943 GAGTAACTAAACTATTCAATTTTGAAAAGGT
1 GAGTGACTAAAATATTCAATTTCAAAAAGGT
* * *
38522974 GAGTGACTAAAATGTTTAATTTCAAAAAGTT
1 GAGTGACTAAAATATTCAATTTCAAAAAGGT
38523005 GAGTGACTAAA
1 GAGTGACTAAA
38523016 TGAAAAAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (31 bp):
GAGTGACTAAAATATTCAATTTCAAAAAGGT
Found at i:38523995 original size:27 final size:27
Alignment explanation
Indices: 38523965--38524076 Score: 82
Period size: 27 Copynumber: 4.1 Consensus size: 27
38523955 CATACGAACT
*
38523965 ATTCCTTCAACGTTCGCCATATTTACC
1 ATTCCTTCAAAGTTCGCCATATTTACC
* * **
38523992 ATTCCTTCAAAGTTTGTCATATTTAAA
1 ATTCCTTCAAAGTTCGCCATATTTACC
* * *
38524019 ATTCTTTTAGAGTTCGCCATACTTT-CC
1 ATTCCTTCAAAGTTCGCCATA-TTTACC
* * * ***
38524046 ATTCTTTTAGAGTTTTTCATATTTACC
1 ATTCCTTCAAAGTTCGCCATATTTACC
38524073 ATTC
1 ATTC
38524077 TTCCCTTTCT
Statistics
Matches: 68, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
26 3 0.04
27 62 0.91
28 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.08, T:0.46
Consensus pattern (27 bp):
ATTCCTTCAAAGTTCGCCATATTTACC
Found at i:38524077 original size:27 final size:27
Alignment explanation
Indices: 38523982--38524078 Score: 106
Period size: 27 Copynumber: 3.6 Consensus size: 27
38523972 CAACGTTCGC
* * *
38523982 CATATTTACCATTCCTTCAAAGTTTGT
1 CATATTTACCATTCTTTTAGAGTTTGT
** * *
38524009 CATATTTAAAATTCTTTTAGAGTTCGC
1 CATATTTACCATTCTTTTAGAGTTTGT
*
38524036 CATACTTT-CCATTCTTTTAGAGTTTTT
1 CATA-TTTACCATTCTTTTAGAGTTTGT
38524063 CATATTTACCATTCTT
1 CATATTTACCATTCTT
38524079 CCCTTTCTGG
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
26 3 0.05
27 50 0.89
28 3 0.05
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.48
Consensus pattern (27 bp):
CATATTTACCATTCTTTTAGAGTTTGT
Found at i:38524204 original size:27 final size:27
Alignment explanation
Indices: 38524152--38524246 Score: 102
Period size: 27 Copynumber: 3.5 Consensus size: 27
38524142 ATGCACCATG
* *
38524152 AAGGCATTCC-TTTCCATAGATCACCACA
1 AAGGC-TTCCATTT-CATAAATTACCACA
* * *
38524180 AAGGCTTCTATTTCATATATTACCATA
1 AAGGCTTCCATTTCATAAATTACCACA
**
38524207 AAGGCTTCCATTTCATAAATTGTCACA
1 AAGGCTTCCATTTCATAAATTACCACA
38524234 AAGGCTTCCATTT
1 AAGGCTTCCATTT
38524247 TTCCAATGTG
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
27 49 0.86
28 8 0.14
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (27 bp):
AAGGCTTCCATTTCATAAATTACCACA
Found at i:38529492 original size:42 final size:42
Alignment explanation
Indices: 38529437--38529525 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
38529427 TCGAGCAAAG
* **
38529437 ACACGGGCATGTGTCTCAGCCGTGTGTGCTACATGGCCTAAA
1 ACACGAGCATGTGTCTCAGCCGTGTGTGCTACACAGCCTAAA
* * ** *
38529479 ACACGAGCGTGTGTCTCGGTTGTGTGTGCTACACAGCCTAGA
1 ACACGAGCATGTGTCTCAGCCGTGTGTGCTACACAGCCTAAA
38529521 ACACG
1 ACACG
38529526 GGCACATGTC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.21, C:0.26, G:0.29, T:0.24
Consensus pattern (42 bp):
ACACGAGCATGTGTCTCAGCCGTGTGTGCTACACAGCCTAAA
Found at i:38529536 original size:42 final size:42
Alignment explanation
Indices: 38529458--38529546 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
38529448 TGTCTCAGCC
** ***
38529458 GTGTGTGCTACATGGCCTAAAACACGAGCGTGTGTCTCGGTT
1 GTGTGTGCTACACAGCCTAAAACACGAGCACATGTCTCGGTT
* * *
38529500 GTGTGTGCTACACAGCCTAGAACACGGGCACATGTCTTGGTT
1 GTGTGTGCTACACAGCCTAAAACACGAGCACATGTCTCGGTT
38529542 GTGTG
1 GTGTG
38529547 AAACTTGCAC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.28
Consensus pattern (42 bp):
GTGTGTGCTACACAGCCTAAAACACGAGCACATGTCTCGGTT
Found at i:38538893 original size:48 final size:48
Alignment explanation
Indices: 38538841--38539165 Score: 300
Period size: 50 Copynumber: 6.7 Consensus size: 48
38538831 TAAGAGCCAA
* * *
38538841 TGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGATGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAAAGCTAG
* *
38538889 TGTAAGACCATGTCTAGGACATGGCATCGACCA-CGAGATATGAAAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCG-GCATCGAG--ATGAAAGCTAG
* ** * * *
38538939 TGTAAGACCATGTCTGGGACATGGCATCAGC-TTAATATG--TGTTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAAAGCTAG
* *
38538984 TGTAAGACCATGTCTGGGACATGGCATCGGCACCGACAGATGAAAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCG--AGATGAAAGCTAG
* * * *
38539034 TGTAAGACCATGTCTGGGGCATGACATCGGCCTCGATATATGAAAG-TCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCG--AGATGAAAGCT-AG
* * * * * ** *
38539084 TGTAAGACCATGTCTGGGACATGGCATTGACTTTGATATGTGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAAAGCTAG
* *
38539132 TGTAAGACCATGTCTGGGACATGGCGTCAGCATC
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATC
38539166 TTACCCTATT
Statistics
Matches: 225, Mismatches: 41, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
45 34 0.15
47 3 0.01
48 73 0.32
49 4 0.02
50 111 0.49
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAAAGCTAG
Found at i:38539062 original size:145 final size:145
Alignment explanation
Indices: 38538835--38539156 Score: 427
Period size: 145 Copynumber: 2.2 Consensus size: 145
38538825 ACATTATAAG
* * ** * *
38538835 AGCCAATGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGATGAGAGCTAGTGTAAGACCAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAGATGAAAGCCAGTGTAAGACCAT
*
38538900 GTCTAGGACATGGCATCGACCACGAGATATGAAAG-CTAGTGTAAGACCATGTCTGGGACATGGC
66 GTCTAGGACATGACATCGACCACGAGATATGAAAGTC-AGTGTAAGACCATGTCTGGGACATGGC
38538964 ATCAG-C-TTAATATGT
130 AT-AGACTTTAATATGT
**
38538979 -GTTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGACAGATGAAAGCCAGTGTAAGACC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCG--AGATGAAAGCCAGTGTAAGACC
* * * * *
38539043 ATGTCTGGGGCATGACATCGGCCTCGATATATGAAAGTCAGTGTAAGACCATGTCTGGGACATGG
64 ATGTCTAGGACATGACATCGACCACGAGATATGAAAGTCAGTGTAAGACCATGTCTGGGACATGG
* *
38539108 CATTGACTTTGATATGT
129 CATAGACTTTAATATGT
38539125 GAGCCAGTGTAAGACCATGTCTGGGACATGGC
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGC
38539157 GTCAGCATCT
Statistics
Matches: 153, Mismatches: 18, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
143 34 0.22
144 1 0.01
145 81 0.53
146 9 0.06
148 28 0.18
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (145 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAGATGAAAGCCAGTGTAAGACCAT
GTCTAGGACATGACATCGACCACGAGATATGAAAGTCAGTGTAAGACCATGTCTGGGACATGGCA
TAGACTTTAATATGT
Found at i:38541989 original size:30 final size:30
Alignment explanation
Indices: 38541944--38542003 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
38541934 ATTTAATATG
38541944 AACTTTGGCAAAATTACA-TTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTT-CCCCTA
* *
38541974 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTTCCCCTA
38542004 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTTCCCCTA
Found at i:38548840 original size:30 final size:30
Alignment explanation
Indices: 38548795--38548854 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
38548785 ATTTAATATG
38548795 AACTTTGGCAAAATTACA-TTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTT-CCCCTA
* *
38548825 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTTCCCCTA
38548855 GGCTCAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTTCCCCTA
Found at i:38554634 original size:50 final size:50
Alignment explanation
Indices: 38554526--38554805 Score: 274
Period size: 50 Copynumber: 5.7 Consensus size: 50
38554516 TGACATGCGT
** *
38554526 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATTTGCCAC-AT-TATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAGA
* * * * *
38554572 GCCAGTGTAAGACTATGTATGGGATATGGCATCGGCCTCGAGATATG-GAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAG-A
*
38554622 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGATAGATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGATATATGAGA
* * *
38554672 GCCAATGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAGA
* * * * * *
38554722 G-TCAGTGTAATACCATGTCTGGGACATGGCATCGACTTTGATGT-TTA-A
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAGA
* *
38554770 GCTATTGTAAGACCATGT-TCGGGACATGGCGTCGGC
1 GCTAGTGTAAGACCATGTCT-GGGACATGGCATCGGC
38554806 ATCTTACCCT
Statistics
Matches: 192, Mismatches: 31, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
46 11 0.06
47 12 0.06
48 37 0.19
49 6 0.03
50 124 0.65
51 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (50 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAGA
Found at i:38554805 original size:148 final size:146
Alignment explanation
Indices: 38554531--38554806 Score: 344
Period size: 148 Copynumber: 1.9 Consensus size: 146
38554521 TGCGTGCTAG
** *
38554531 TGTAAGACATGTCTGGGACATGCATTTGCCACATTATGAGAGCCAGTGTAAGACTATGTATGGGA
1 TGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTATGGGA
* *
38554596 TATGGCATCGGCCTCGAGATATGGAAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACC
66 CATGGCATCGACCTCGAGATATGGAAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACC
38554661 GATAGATGAGAGCCAA
131 GATAGATGAGAGCCAA
* * * *
38554677 TGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATATGAGAGTCAGTGTAATACCATGTCT
1 TGTAAGA-CATGTCTGGGACAT-GCATCAGCCAC-AT-TATGAGAGCCAGTGTAAGACCATGTAT
* * * * *
38554742 GGGACATGGCATCGACTTTGATG-T-T-TAAGCTATTGTAAGACCATGT-TCGGGACATGGCGTC
62 GGGACATGGCATCGACCTCGA-GATATGGAAGCTAGTGTAAGACCATGTCT-GGGACATGGCATC
38554803 GGCA
125 GGCA
38554807 TCTTACCCTA
Statistics
Matches: 110, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
146 7 0.06
147 15 0.14
148 43 0.39
149 3 0.03
150 41 0.37
151 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (146 bp):
TGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTATGGGA
CATGGCATCGACCTCGAGATATGGAAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACC
GATAGATGAGAGCCAA
Found at i:38559941 original size:63 final size:67
Alignment explanation
Indices: 38559873--38560008 Score: 158
Period size: 67 Copynumber: 2.1 Consensus size: 67
38559863 CTAACTTAAA
* * *
38559873 TAAATGAAC-TAACACTTATGCATC-AT-TTATTTC-AGCAACTAGTTTAATTAAGAG-AAGCA-
1 TAAATGAACTTAA-ACTCATGCATCAATAATATTTCTAGCAACTAGATTAATTAAGAGCAA-CAC
38559932 TTAT
64 TTAT
* *
38559936 TAAATGAACTTTAACTCATGCATCAATAAATATTTCTAGGAACTAGATTAATTAAGAGCAACACT
1 TAAATGAACTTAAACTCATGCATCAAT-AATATTTCTAGCAACTAGATTAATTAAGAGCAACACT
38560001 TAT
65 TAT
38560004 TAAAT
1 TAAAT
38560009 AAAGTTTAAC
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
63 19 0.31
64 4 0.07
66 6 0.10
67 21 0.34
68 11 0.18
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (67 bp):
TAAATGAACTTAAACTCATGCATCAATAATATTTCTAGCAACTAGATTAATTAAGAGCAACACTT
AT
Found at i:38561536 original size:24 final size:24
Alignment explanation
Indices: 38561437--38561537 Score: 157
Period size: 24 Copynumber: 4.2 Consensus size: 24
38561427 AAGTCTGTCA
*
38561437 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
38561461 GGATAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
38561485 GGATAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
38561509 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
38561533 GGAGA
1 GGAGA
38561538 ACAGTGTTGG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 73 1.00
ACGTcount: A:0.33, C:0.02, G:0.41, T:0.25
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:38563035 original size:27 final size:26
Alignment explanation
Indices: 38562947--38563051 Score: 111
Period size: 27 Copynumber: 3.9 Consensus size: 26
38562937 AAGTGTCCTA
* * * *
38562947 GTGGCTATGCCATATTTATTTGATCTG
1 GTGGCTCTGCCACA-TTATCTGTTCTG
*
38562974 GTGGCACTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGTTCTG
38563001 GTGGCTCTGCCACAATTATCTGTTCTG
1 GTGGCTCTGCCAC-ATTATCTGTTCTG
* **
38563028 GTGACTCTGTAACATTATCTGTTC
1 GTGGCTCTGCCACATTATCTGTTC
38563052 AGGCAGCAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 12 0.18
27 53 0.79
28 2 0.03
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.39
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGTTCTG
Found at i:38569421 original size:24 final size:24
Alignment explanation
Indices: 38569323--38569422 Score: 139
Period size: 24 Copynumber: 4.2 Consensus size: 24
38569313 AGTCTGTCAA
*
38569323 GAGAGGATTTAGGAGTTGATAAGG
1 GAGAGGATTTAGGAGCTGATAAGG
* *
38569347 GATAGGATTTAGGAGTTGATAAGG
1 GAGAGGATTTAGGAGCTGATAAGG
*
38569371 GATAGGATTTCA-GAGCTGATAAGG
1 GAGAGGATTT-AGGAGCTGATAAGG
*
38569395 GAGAGGATTTAGGAGCTGATTAGG
1 GAGAGGATTTAGGAGCTGATAAGG
38569419 GAGA
1 GAGA
38569423 ACAGTGTTGG
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
23 1 0.01
24 68 0.97
25 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.39, T:0.25
Consensus pattern (24 bp):
GAGAGGATTTAGGAGCTGATAAGG
Found at i:38570849 original size:27 final size:27
Alignment explanation
Indices: 38570810--38570910 Score: 143
Period size: 27 Copynumber: 3.8 Consensus size: 27
38570800 ACATGGGTTA
* *
38570810 TGCCACATTTATCTGATCTGGTGGCTC
1 TGCCACATATATCTGTTCTGGTGGCTC
38570837 TGCCACATATATCTGTTCTGGTGGCTC
1 TGCCACATATATCTGTTCTGGTGGCTC
*
38570864 TGCCACA-ATTATCTGTTCTGGTGACTC
1 TGCCACATA-TATCTGTTCTGGTGGCTC
*
38570891 TGTCACAT-TATCTGTTCTGG
1 TGCCACATATATCTGTTCTGG
38570911 CAGCAATGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
26 13 0.19
27 55 0.81
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.39
Consensus pattern (27 bp):
TGCCACATATATCTGTTCTGGTGGCTC
Found at i:38574159 original size:12 final size:12
Alignment explanation
Indices: 38574108--38574159 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
38574098 CTAATTTCAA
38574108 TTTTTTTCGAAT
1 TTTTTTTCGAAT
* *
38574120 ATTTTTTCCAAAT
1 -TTTTTTTCGAAT
* *
38574133 TCTTTTTCGATT
1 TTTTTTTCGAAT
*
38574145 TTTTTTTTGAAT
1 TTTTTTTCGAAT
38574157 TTT
1 TTT
38574160 GAACTTTTTT
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
12 20 0.67
13 10 0.33
ACGTcount: A:0.17, C:0.10, G:0.06, T:0.67
Consensus pattern (12 bp):
TTTTTTTCGAAT
Found at i:38576498 original size:21 final size:22
Alignment explanation
Indices: 38576472--38576514 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
38576462 CTCTAGGACA
*
38576472 GGCGTG-CCCTAGGGTCACACG
1 GGCGTGTCCCTAGGATCACACG
*
38576493 GGCGTGTCCCTTGGATCACACG
1 GGCGTGTCCCTAGGATCACACG
38576515 AGCCTGTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.14, C:0.33, G:0.35, T:0.19
Consensus pattern (22 bp):
GGCGTGTCCCTAGGATCACACG
Found at i:38579409 original size:21 final size:22
Alignment explanation
Indices: 38579375--38579417 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
38579365 TAAGTAAAAC
38579375 AAAGCCATTTTTTTTACTTCAT
1 AAAGCCATTTTTTTTACTTCAT
38579397 AAAGCCA-TTTTTTTACTTCAT
1 AAAGCCATTTTTTTTACTTCAT
38579418 TCATATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.28, C:0.19, G:0.05, T:0.49
Consensus pattern (22 bp):
AAAGCCATTTTTTTTACTTCAT
Found at i:38585028 original size:18 final size:18
Alignment explanation
Indices: 38585005--38585043 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
38584995 GTAAATAGCT
*
38585005 TAAAATAGATTTTAAAAA
1 TAAAATAGAGTTTAAAAA
* *
38585023 TAAAATCGAGTTTGAAAA
1 TAAAATAGAGTTTAAAAA
38585041 TAA
1 TAA
38585044 TTGAGAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.03, G:0.10, T:0.31
Consensus pattern (18 bp):
TAAAATAGAGTTTAAAAA
Found at i:38587955 original size:21 final size:21
Alignment explanation
Indices: 38587931--38587999 Score: 50
Period size: 21 Copynumber: 3.1 Consensus size: 21
38587921 TGATCTGAAC
38587931 TCATTGATTTGTGGTCTGAGT
1 TCATTGATTTGTGGTCTGAGT
* * *
38587952 TCATCAT-ATATGTGACATCTGAGC
1 TCAT--TGATTTGTG--GTCTGAGT
* *
38587976 TCATTGAATTGTGGTCTTAGT
1 TCATTGATTTGTGGTCTGAGT
38587997 TCA
1 TCA
38588000 GGATGTATGT
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
21 12 0.34
22 7 0.20
23 6 0.17
24 10 0.29
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (21 bp):
TCATTGATTTGTGGTCTGAGT
Found at i:38587979 original size:45 final size:45
Alignment explanation
Indices: 38587923--38588013 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
38587913 GAACTATGTG
* *
38587923 ATCTGAACTCATTGATTTGTGGTCTGAGTTCATCATATATGTGAC
1 ATCTGAACTCATTGAATTGTGGTCTGAGTTCAGCATATATGTGAC
* * * *
38587968 ATCTGAGCTCATTGAATTGTGGTCTTAGTTCAGGATGTATGTGAC
1 ATCTGAACTCATTGAATTGTGGTCTGAGTTCAGCATATATGTGAC
38588013 A
1 A
38588014 CATGTTTTGG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.38
Consensus pattern (45 bp):
ATCTGAACTCATTGAATTGTGGTCTGAGTTCAGCATATATGTGAC
Found at i:38592570 original size:18 final size:18
Alignment explanation
Indices: 38592543--38592583 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
38592533 GCACAATGTG
* *
38592543 TTAATTTGGTGATCTGCA
1 TTAATATGGTGAACTGCA
*
38592561 TTAATATGGTGAACTGTA
1 TTAATATGGTGAACTGCA
38592579 TTAAT
1 TTAAT
38592584 TTTCCAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (18 bp):
TTAATATGGTGAACTGCA
Found at i:38593660 original size:37 final size:37
Alignment explanation
Indices: 38593591--38593695 Score: 111
Period size: 37 Copynumber: 2.8 Consensus size: 37
38593581 TTTGTAAAGT
* * * **
38593591 AATAGCAAACAATTTCACATGTTAATTAATTTAGTAC
1 AATAACAAACAATTTCACATATCAATTAATTTAACAC
* * *
38593628 AATGACAAACAATTTCACATATCAATTTATTTAACAT
1 AATAACAAACAATTTCACATATCAATTAATTTAACAC
* * *
38593665 AATAACAAACAATCTCGCATATCAATCAATT
1 AATAACAAACAATTTCACATATCAATTAATT
38593696 CAATACGGTT
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (37 bp):
AATAACAAACAATTTCACATATCAATTAATTTAACAC
Found at i:38596213 original size:36 final size:36
Alignment explanation
Indices: 38596166--38596288 Score: 108
Period size: 36 Copynumber: 3.5 Consensus size: 36
38596156 TTGGTTATCT
* *
38596166 GACTAGAGCTGGGCTCAATAATTTGTCGATTCGTTC
1 GACTAGTGCTGGGCACAATAATTTGTCGATTCGTTC
* * * * *
38596202 GACTAGTGCTGGGCAGAACT-A-TCGTCGGTT-ATCC
1 GACTAGTGCTGGGCACAA-TAATTTGTCGATTCGTTC
** * * *
38596236 GGTTAGTGCTGAGCACAATAATTTTTCAATTCGTTC
1 GACTAGTGCTGGGCACAATAATTTGTCGATTCGTTC
38596272 GACTAGTGCTGGGCACA
1 GACTAGTGCTGGGCACA
38596289 CCAATGATTT
Statistics
Matches: 63, Mismatches: 20, Indels: 8
0.69 0.22 0.09
Matches are distributed among these distances:
33 1 0.02
34 17 0.27
35 12 0.19
36 32 0.51
37 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (36 bp):
GACTAGTGCTGGGCACAATAATTTGTCGATTCGTTC
Found at i:38597176 original size:28 final size:28
Alignment explanation
Indices: 38597145--38597207 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 28
38597135 TCTCAGCTGT
*
38597145 GTGTGACACACGGCTAGGCGACATAGCC
1 GTGTGACACACAGCTAGGCGACATAGCC
* * *
38597173 GTGTATGACACACAGTTAGGCGACATGGCT
1 GTG--TGACACACAGCTAGGCGACATAGCC
38597203 GTGTG
1 GTGTG
38597208 TTTATTATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 5 0.17
30 24 0.83
ACGTcount: A:0.24, C:0.22, G:0.33, T:0.21
Consensus pattern (28 bp):
GTGTGACACACAGCTAGGCGACATAGCC
Found at i:38600788 original size:18 final size:18
Alignment explanation
Indices: 38600760--38600812 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
38600750 TTGGCCAATT
*
38600760 CAGTAACAGTAAACAGTG
1 CAGTAATAGTAAACAGTG
*
38600778 TAGTAATAGTAAACAGTG
1 CAGTAATAGTAAACAGTG
38600796 CAGT-ATCAGTAAACAGT
1 CAGTAAT-AGTAAACAGT
38600813 ATGCAAGTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
17 2 0.06
18 29 0.94
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (18 bp):
CAGTAATAGTAAACAGTG
Found at i:38605276 original size:24 final size:24
Alignment explanation
Indices: 38605248--38605299 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
38605238 CCCATTTTTT
*
38605248 CCTCCCCTAATCTCTCCTAAAATC
1 CCTCCCCAAATCTCTCCTAAAATC
* * *
38605272 CCTCCTCAAATCTCTCTTCAAATC
1 CCTCCCCAAATCTCTCCTAAAATC
38605296 CCTC
1 CCTC
38605300 AACTGATCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.23, C:0.46, G:0.00, T:0.31
Consensus pattern (24 bp):
CCTCCCCAAATCTCTCCTAAAATC
Found at i:38605292 original size:12 final size:12
Alignment explanation
Indices: 38605256--38605295 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
38605246 TTCCTCCCCT
*
38605256 AATCTCTCCTAA
1 AATCTCTCCTCA
*
38605268 AATCCCTCCTCA
1 AATCTCTCCTCA
*
38605280 AATCTCTCTTCA
1 AATCTCTCCTCA
38605292 AATC
1 AATC
38605296 CCTCAACTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.30, C:0.38, G:0.00, T:0.33
Consensus pattern (12 bp):
AATCTCTCCTCA
Found at i:38609423 original size:13 final size:13
Alignment explanation
Indices: 38609407--38609440 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
38609397 CACACGACCA
*
38609407 TGTAACACAGCCG
1 TGTAACACAACCG
38609420 TGTAACACAACCG
1 TGTAACACAACCG
38609433 TGTAACAC
1 TGTAACAC
38609441 GCCCATGTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.18
Consensus pattern (13 bp):
TGTAACACAACCG
Found at i:38612044 original size:46 final size:46
Alignment explanation
Indices: 38611991--38612127 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
38611981 TATATATACG
* * * *
38611991 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
38612037 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTATCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
38612083 TAACTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
38612128 ATACATGTTC
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:38612161 original size:47 final size:47
Alignment explanation
Indices: 38612101--38612321 Score: 370
Period size: 47 Copynumber: 4.7 Consensus size: 47
38612091 ACACATTTCG
* * * **
38612101 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *
38612148 CATTGGCCATTCGGCCTTATCTCATATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
38612195 CATTGGCCATTCGGCCTTAGCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
38612242 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
38612289 CATTGGCCATTCGGCCTTATCACACATACGCAT
1 CATTGGCCATTCGGCCTTATCACACATACGCAT
38612322 CACCCAAACA
Statistics
Matches: 165, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 165 1.00
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.30
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:38612244 original size:23 final size:23
Alignment explanation
Indices: 38612217--38612291 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
38612207 GGCCTTAGCA
38612217 CACATACGCATGTTCACATTCAT
1 CACATACGCATGTTCACATTCAT
** * *
38612240 CACATTGGCCA--TTCGGCCTT-AT
1 CACATACG-CATGTTC-ACATTCAT
38612262 CACACATACGCATGTTCACATTCAT
1 --CACATACGCATGTTCACATTCAT
38612287 CACAT
1 CACAT
38612292 TGGCCATTCG
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 5 0.14
23 16 0.43
24 11 0.30
25 5 0.14
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.29
Consensus pattern (23 bp):
CACATACGCATGTTCACATTCAT
Found at i:38614739 original size:22 final size:20
Alignment explanation
Indices: 38614685--38614737 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
38614675 TAGGCTGAGG
*
38614685 ACACGGGCGTGTGCCAAGTC
1 ACACAGGCGTGTGCCAAGTC
38614705 ACACAGGCGTGTGCCAAGTC
1 ACACAGGCGTGTGCCAAGTC
38614725 ACACAGGCGTGTG
1 ACACAGGCGTGTG
38614738 TGACCATACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.28, G:0.34, T:0.15
Consensus pattern (20 bp):
ACACAGGCGTGTGCCAAGTC
Found at i:38620925 original size:20 final size:20
Alignment explanation
Indices: 38620897--38620934 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38620887 GTAGGAACTA
38620897 TGTGATCTGAGCTCATGAGT
1 TGTGATCTGAGCTCATGAGT
* *
38620917 TGTGGTCTGAGTTCATGA
1 TGTGATCTGAGCTCATGA
38620935 TATATGTGAC
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:0.18, C:0.13, G:0.32, T:0.37
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGAGT
Found at i:38623573 original size:28 final size:28
Alignment explanation
Indices: 38623541--38623596 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
38623531 ATTCAAGGGT
38623541 ACCCATTAGGGCACTTAACTAAGAAACA
1 ACCCATTAGGGCACTTAACTAAGAAACA
38623569 ACCCATTAGGGCACTTAACTAAGAAACA
1 ACCCATTAGGGCACTTAACTAAGAAACA
38623597 CTCTCTCGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.25, G:0.14, T:0.18
Consensus pattern (28 bp):
ACCCATTAGGGCACTTAACTAAGAAACA
Found at i:38624334 original size:20 final size:20
Alignment explanation
Indices: 38624305--38624349 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
38624295 AGCACATGTA
*
38624305 TTCATAAAATTTTACAATTT
1 TTCATAAAATTTTACAACTT
* *
38624325 TTCATCAAATTTTACTACTT
1 TTCATAAAATTTTACAACTT
38624345 TTCAT
1 TTCAT
38624350 TTTAGTCACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:38625478 original size:11 final size:11
Alignment explanation
Indices: 38625462--38625487 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
38625452 CGAAGCCCAC
38625462 ATCACAATAAT
1 ATCACAATAAT
38625473 ATCACAATAAT
1 ATCACAATAAT
38625484 ATCA
1 ATCA
38625488 TACATGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:38625951 original size:27 final size:27
Alignment explanation
Indices: 38625910--38625986 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 27
38625900 AGGGAAAAAT
* *
38625910 GTCATTTTACCCTACAGGGGTATGTCA
1 GTCATTTTACACTACAAGGGTATGTCA
* * *
38625937 GTCATTTTACACTACAAGCGTATTTCG
1 GTCATTTTACACTACAAGGGTATGTCA
*
38625964 GTAATTTTACACTACAAGGGTAT
1 GTCATTTTACACTACAAGGGTAT
38625987 TTCGATAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACACTACAAGGGTATGTCA
Found at i:38625987 original size:27 final size:27
Alignment explanation
Indices: 38625951--38626213 Score: 253
Period size: 27 Copynumber: 9.7 Consensus size: 27
38625941 TTTTACACTA
* *
38625951 CAAGCGTATTTCGGTAATTTTAC-ACT
1 CAAGGGTATTTCGGTAATTTTACAAAT
*
38625977 ACAAGGGTATTTCGATAATTTTACAAAT
1 -CAAGGGTATTTCGGTAATTTTACAAAT
** *
38626005 CGGGGGTGTTTCGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
*
38626032 CAAGGGTATTTCGATAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
38626059 CGAGGGTATTTCGATAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* **
38626086 -AGAGGGTGTTTCTATAATTTTACAAAT
1 CA-AGGGTATTTCGGTAATTTTACAAAT
* ** *
38626113 CGATGGGTATTTTAGTAATTTCAC-AAT
1 C-AAGGGTATTTCGGTAATTTTACAAAT
* * *
38626140 CGAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * *
38626167 CGAGGGTACTTCGGTAATTTTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAT
* **
38626194 CGAGGGTATTTTAGTAATTT
1 CAAGGGTATTTCGGTAATTT
38626214 CTCTTTATTA
Statistics
Matches: 200, Mismatches: 31, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
26 18 0.09
27 164 0.82
28 17 0.09
29 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAT
Found at i:38626025 original size:81 final size:80
Alignment explanation
Indices: 38625951--38626213 Score: 294
Period size: 81 Copynumber: 3.2 Consensus size: 80
38625941 TTTTACACTA
* * *
38625951 CAAGCGTATTTCGGTAATTTTACACTACAAGGGTATTTCGATAATTTTACAAATCGGGGGTGTTT
1 CAAGGGTATTTCGGTAATTTTACA-TACGAGGGTATTTCGATAATTTTACAAATCGAGGGTGTTT
38626016 CGGTAATTTTACAAAT
65 CGGTAATTTTACAAAT
* * *
38626032 CAAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATAGAGGGTGTTT
1 CAAGGGTATTTCGGTAATTTTACATA-CGAGGGTATTTCGATAATTTTACAAATCGAGGGTGTTT
**
38626097 CTATAATTTTACAAAT
65 CGGTAATTTTACAAAT
* ** * * * * **
38626113 CGATGGGTATTTTAGTAATTTCACA-ATCGAGGGTATTTTGGTAATTTTACAAACCGAGGGTACT
1 C-AAGGGTATTTCGGTAATTTTACATA-CGAGGGTATTTCGATAATTTTACAAATCGAGGGTGTT
*
38626177 TCGGTAATTTTACAAAC
64 TCGGTAATTTTACAAAT
* **
38626194 CGAGGGTATTTTAGTAATTT
1 CAAGGGTATTTCGGTAATTT
38626214 CTCTTTATTA
Statistics
Matches: 156, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
80 18 0.12
81 120 0.77
82 18 0.12
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.38
Consensus pattern (80 bp):
CAAGGGTATTTCGGTAATTTTACATACGAGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTC
GGTAATTTTACAAAT
Found at i:38626198 original size:54 final size:54
Alignment explanation
Indices: 38625956--38626213 Score: 299
Period size: 54 Copynumber: 4.8 Consensus size: 54
38625946 CACTACAAGC
* * * *
38625956 GTATTTCGGTAATTTTAC-ACTACAAGGGTATTTCGATAATTTTACAAATCGGGG
1 GTATTTCGGTAATTTTACAAAT-CGAGGGTATTTTGATAATTTTACAAATCGAGG
* * *
38626010 GTGTTTCGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCGAGG
1 GTATTTCGGTAATTTTACAAATCGAGGGTATTTTGATAATTTTACAAATCGAGG
* * *
38626064 GTATTTCGATAATTTTACAAATAGAGGGTGTTTCT-ATAATTTTACAAATCGATGG
1 GTATTTCGGTAATTTTACAAATCGAGGGTATTT-TGATAATTTTACAAATCGA-GG
** * * *
38626119 GTATTTTAGTAATTTCAC-AATCGAGGGTATTTTGGTAATTTTACAAACCGAGG
1 GTATTTCGGTAATTTTACAAATCGAGGGTATTTTGATAATTTTACAAATCGAGG
* *
38626172 GTACTTCGGTAATTTTACAAACCGAGGGTATTTT-AGTAATTT
1 GTATTTCGGTAATTTTACAAATCGAGGGTATTTTGA-TAATTT
38626214 CTCTTTATTA
Statistics
Matches: 175, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
53 17 0.10
54 140 0.80
55 18 0.10
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (54 bp):
GTATTTCGGTAATTTTACAAATCGAGGGTATTTTGATAATTTTACAAATCGAGG
Found at i:38626564 original size:28 final size:28
Alignment explanation
Indices: 38626528--38626591 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
38626518 CGGCCCCTTT
* *
38626528 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACCTTCACATGGCCCATC
*
38626556 AGGCCCAATCACCTTCATATGGCCCATC
1 AGGCCCAATCACCTTCACATGGCCCATC
38626584 AGGCCCAA
1 AGGCCCAA
38626592 CTACTTCCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.25, C:0.39, G:0.17, T:0.19
Consensus pattern (28 bp):
AGGCCCAATCACCTTCACATGGCCCATC
Found at i:38636718 original size:28 final size:28
Alignment explanation
Indices: 38636678--38636734 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
38636668 AGCTTGACTA
38636678 TGGCCGAACTAGGTTTTCTTTTCTTTTT
1 TGGCCGAACTAGGTTTTCTTTTCTTTTT
38636706 TGGCCGAACTAGGTTTTCTTTTCTTTTT
1 TGGCCGAACTAGGTTTTCTTTTCTTTTT
38636734 T
1 T
38636735 CCTTTCTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.11, C:0.18, G:0.18, T:0.54
Consensus pattern (28 bp):
TGGCCGAACTAGGTTTTCTTTTCTTTTT
Found at i:38638204 original size:24 final size:23
Alignment explanation
Indices: 38638157--38638205 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
38638147 CCAATTTTAT
* *
38638157 TTTTATTTTTATTTTGTTATATG
1 TTTTATTTTTATTTTCTTACATG
*
38638180 TTTTATTTTTTATTTTCTTGCATG
1 TTTTA-TTTTTATTTTCTTACATG
38638204 TT
1 TT
38638206 AATAAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.14, C:0.04, G:0.08, T:0.73
Consensus pattern (23 bp):
TTTTATTTTTATTTTCTTACATG
Found at i:38641332 original size:20 final size:22
Alignment explanation
Indices: 38641288--38641333 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
38641278 TATAAACTAT
* *
38641288 ATTTCTTAATTAATTTTTTACA
1 ATTTCTTAATTAATTTTTCAAA
38641310 ATTT-TTAATT-ATTTTTCAAA
1 ATTTCTTAATTAATTTTTCAAA
38641330 ATTT
1 ATTT
38641334 AGAACAGGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
21 6 0.27
22 4 0.18
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.61
Consensus pattern (22 bp):
ATTTCTTAATTAATTTTTCAAA
Found at i:38656499 original size:42 final size:43
Alignment explanation
Indices: 38656420--38656521 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
38656410 TCCCGGACGT
* **
38656420 GGTCTTACATGTAATTCAATATCGATGCCTCTATCCCAGACAA
1 GGTCTTACATGTAAATCAATATCGATGCCAATATCCCAGACAA
* *
38656463 GGTCTTACATG-AAATCAGATAT-GATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAAATCA-ATATCGATGCCAATATCCCAGACAA
* *
38656505 GGTCTTATACGTAAATC
1 GGTCTTACATGTAAATC
38656522 TCAATCAAGG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 30 0.60
43 20 0.40
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (43 bp):
GGTCTTACATGTAAATCAATATCGATGCCAATATCCCAGACAA
Found at i:38663500 original size:13 final size:13
Alignment explanation
Indices: 38663482--38663545 Score: 83
Period size: 13 Copynumber: 4.9 Consensus size: 13
38663472 AGTTTGGCAA
*
38663482 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
*
38663495 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
38663508 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
38663521 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
38663534 TGCTTTTGAAAA
1 TGCTTTTGAAAA
38663546 ATTTGGTTTA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:38663511 original size:26 final size:26
Alignment explanation
Indices: 38663482--38663546 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
38663472 AGTTTGGCAA
38663482 TGCTTTTAAAAAGTGCTTTTGAGAAG
1 TGCTTTTAAAAAGTGCTTTTGAGAAG
* **
38663508 TGCTGTGGAAAAGTGCTTTTGAGAAG
1 TGCTTTTAAAAAGTGCTTTTGAGAAG
38663534 TGCTTTTGAAAAA
1 TGCTTTT-AAAAA
38663547 TTTGGTTTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 28 0.88
27 4 0.12
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.35
Consensus pattern (26 bp):
TGCTTTTAAAAAGTGCTTTTGAGAAG
Found at i:38663894 original size:21 final size:20
Alignment explanation
Indices: 38663855--38663894 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
38663845 TTGTAATTAG
*
38663855 TATTTTAAAAAATATTTTTT
1 TATTTTAAAAAATAATTTTT
*
38663875 TATTTTAAATTAATAATTTT
1 TATTTTAAA-AAATAATTTT
38663895 AACACATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTTAAAAAATAATTTTT
Found at i:38667374 original size:23 final size:23
Alignment explanation
Indices: 38667332--38667375 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
38667322 AAATGGAAAC
*
38667332 GCCAAAGTGCTAATAACAAGAGT
1 GCCAAAGTACTAATAACAAGAGT
* *
38667355 GCCAAAGTACTCATATCAAGA
1 GCCAAAGTACTAATAACAAGA
38667376 ATCCCTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.18
Consensus pattern (23 bp):
GCCAAAGTACTAATAACAAGAGT
Found at i:38667812 original size:139 final size:140
Alignment explanation
Indices: 38667562--38667839 Score: 436
Period size: 139 Copynumber: 2.0 Consensus size: 140
38667552 TAACATAATT
* *
38667562 TAATAGAAATCTCACTTCATGTATTATGCCAATATCATTTTTGTCATAAATATGGTTTTTAGCCA
1 TAATAGAAACCTCACTTCATGTATTATGCCAATATAATTTTTGTCATAAATATGGTTTTTAGCCA
38667627 TTTTGTAACACCTCAAACCCAGCATAGACATTATGGCCAGATCTGAAGGTGTCACCAT-AAATCA
66 TTTTGTAACACCTCAAACCCAGCATAGACATTATGGCCAGATCTGAAGGTGTCACCATAAAATCA
38667691 ATTGAAAACA
131 ATTGAAAACA
*
38667701 TAATAGAAACCTCTCTTCATGTATTATGCCAATATAATTTCTT-TCATAAATATGGTTTTTAGCC
1 TAATAGAAACCTCACTTCATGTATTATGCCAATATAATTT-TTGTCATAAATATGGTTTTTAGCC
* * * * * *
38667765 ATTTTGTAACACC-CTATACCCGGCCTAGACGTTATGGTCAGATCTGAAGGTGTTACCATAAAAT
65 ATTTTGTAACACCTC-AAACCCAGCATAGACATTATGGCCAGATCTGAAGGTGTCACCATAAAAT
38667829 CAATTGAAAAC
129 CAATTGAAAAC
38667840 CCAGAATTCG
Statistics
Matches: 127, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
138 1 0.01
139 109 0.86
140 17 0.13
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.33
Consensus pattern (140 bp):
TAATAGAAACCTCACTTCATGTATTATGCCAATATAATTTTTGTCATAAATATGGTTTTTAGCCA
TTTTGTAACACCTCAAACCCAGCATAGACATTATGGCCAGATCTGAAGGTGTCACCATAAAATCA
ATTGAAAACA
Found at i:38672934 original size:46 final size:45
Alignment explanation
Indices: 38672804--38673069 Score: 139
Period size: 46 Copynumber: 5.6 Consensus size: 45
38672794 TGTGTGAGCT
* * * * * * *
38672804 AGTGTAAGA-CATGTCTGGGACATGCATCGGCCACAATATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGCATCAGCCTCGAGACG-TAG-C
* *
38672850 AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGACGTAAGC
1 AGTGTAAGACCATGTTTGGGACATGCATCAGCCTCGAGACGT-AGC
* * * *
38672896 TAGTGTAA-AACATGTTTGGGACATGCATCAG-TTGCGAGATGTATC
1 -AGTGTAAGACCATGTTTGGGACATGCATCAGCCT-CGAGACGTAGC
* * *
38672941 AGTGTAAGACCACGTTTGGGACATGACATCAG-CACG-GTTATGTGAGATC
1 AGTGTAAGACCATGTTTGGGACATG-CATCAGCCTCGAG--ACGT-AG--C
** * * *
38672990 TAGTGTAAGACCATGTCCGAGACATGGCAT-TGACCTCGAAGATGATAGCC
1 -AGTGTAAGACCATGTTTGGGACAT-GCATCAG-CCTCG-AGACG-TAG-C
38673040 AGTGTAAGACCATGTTTGGGACATGGCATC
1 AGTGTAAGACCATGTTTGGGACAT-GCATC
38673070 GGCACCCCCA
Statistics
Matches: 175, Mismatches: 26, Indels: 34
0.74 0.11 0.14
Matches are distributed among these distances:
44 8 0.05
45 20 0.11
46 47 0.27
47 37 0.21
49 28 0.16
50 24 0.14
51 9 0.05
52 1 0.01
53 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACCATGTTTGGGACATGCATCAGCCTCGAGACGTAGC
Found at i:38676344 original size:19 final size:17
Alignment explanation
Indices: 38676303--38676351 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
38676293 CTTTTACAAA
38676303 TATAATTTATTTTTATAT
1 TATAA-TTATTTTTATAT
*
38676321 CATAATTATTTTTAAATAT
1 TATAATTATTTTT--ATAT
*
38676340 TATAATAATTTT
1 TATAATTATTTT
38676352 GTATGAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 8 0.31
18 4 0.15
19 14 0.54
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
TATAATTATTTTTATAT
Found at i:38678959 original size:49 final size:49
Alignment explanation
Indices: 38678902--38679001 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
38678892 ACTATGAGAA
* *
38678902 ATACCGTGATGACTATTACATAATAATCCAAGAAGCATTCTCATGGTAT
1 ATACCGTGATAACTATTACATAATAATCCAAGAAGCATTATCATGGTAT
38678951 ATACCGTGATAACTATTACATAATAATCCAAGAAGCATTATCATGGTAT
1 ATACCGTGATAACTATTACATAATAATCCAAGAAGCATTATCATGGTAT
38679000 AT
1 AT
38679002 TGTTCTTTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (49 bp):
ATACCGTGATAACTATTACATAATAATCCAAGAAGCATTATCATGGTAT
Found at i:38680910 original size:6 final size:6
Alignment explanation
Indices: 38680899--38680928 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
38680889 CAGAATTGTA
38680899 TGCCAT TGCCAT TGCCAT TGCCAT TGCCAT
1 TGCCAT TGCCAT TGCCAT TGCCAT TGCCAT
38680929 GCTGGTGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (6 bp):
TGCCAT
Found at i:38685630 original size:12 final size:13
Alignment explanation
Indices: 38685613--38685649 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
38685603 GAACCGGACA
38685613 CGAACCGAA-CTC
1 CGAACCGAAGCTC
38685625 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
38685637 CGAACCGTAGCTC
1 CGAACCGAAGCTC
38685650 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:38689227 original size:33 final size:32
Alignment explanation
Indices: 38689183--38689244 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
38689173 AAATGAAGAT
38689183 ATAATTAATAATAAATACTTGAAAT-TAGTATAA
1 ATAATTAATAATAAATA-TT-AAATATAGTATAA
*
38689216 ATAATTTATAATAAATATTAAATATAGTA
1 ATAATTAATAATAAATATTAAATATAGTA
38689245 GGTAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 4 0.15
32 7 0.26
33 16 0.59
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (32 bp):
ATAATTAATAATAAATATTAAATATAGTATAA
Found at i:38689886 original size:29 final size:29
Alignment explanation
Indices: 38689845--38689900 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
38689835 TTTTTTAATA
38689845 AAAAAGAGATTATCAAATTATAAATCCTT
1 AAAAAGAGATTATCAAATTATAAATCCTT
38689874 AAAAAGAGATTATCAAATTATAAATCC
1 AAAAAGAGATTATCAAATTATAAATCC
38689901 AAAATAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.29
Consensus pattern (29 bp):
AAAAAGAGATTATCAAATTATAAATCCTT
Found at i:38692745 original size:16 final size:15
Alignment explanation
Indices: 38692723--38692779 Score: 55
Period size: 16 Copynumber: 3.8 Consensus size: 15
38692713 AATTGGTTGA
38692723 AAAAATTATTTAATT
1 AAAAATTATTTAATT
* *
38692738 GGAAAATTAATTAATT
1 -AAAAATTATTTAATT
*
38692754 AAAAATAATTTAA-T
1 AAAAATTATTTAATT
38692768 AAATAA-TATTTA
1 AAA-AATTATTTA
38692780 TTTTTAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
14 9 0.26
15 12 0.35
16 13 0.38
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (15 bp):
AAAAATTATTTAATT
Found at i:38695662 original size:25 final size:25
Alignment explanation
Indices: 38695625--38695672 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
38695615 TTGTAAATAA
38695625 GAAAAATATCTTTAGA-AATTTTTT
1 GAAAAATATCTTTAGAGAATTTTTT
*
38695649 GAAATAATTTCTTTAGAGAATTTT
1 GAAA-AATATCTTTAGAGAATTTT
38695673 CTCTCTACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 11 0.52
26 6 0.29
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (25 bp):
GAAAAATATCTTTAGAGAATTTTTT
Found at i:38698825 original size:3 final size:3
Alignment explanation
Indices: 38698817--38698841 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
38698807 CAACCCCCTT
38698817 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
38698842 TTTATTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:38706990 original size:18 final size:19
Alignment explanation
Indices: 38706969--38707010 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
38706959 AGTTTTCATT
38706969 TATGTTATTTAATTTA-AA
1 TATGTTATTTAATTTACAA
*
38706987 TATG-TATTTATTTTACAA
1 TATGTTATTTAATTTACAA
38707005 -ATGTTA
1 TATGTTA
38707011 GGATTTGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (19 bp):
TATGTTATTTAATTTACAA
Found at i:38709201 original size:30 final size:30
Alignment explanation
Indices: 38709165--38709260 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
38709155 AGTTTTGGAG
38709165 TAAATTTACATGAGGCTTTAAGTACTACAC
1 TAAATTTACATGAGGCTTTAAGTACTACAC
* **
38709195 TAAATTT-CAAT-ATAGCTTTTCACCTA-TACAC
1 TAAATTTAC-ATGA-GGC-TTT-AAGTACTACAC
38709226 TAAA-TTACATGAGGCTTTAAGTACTACAC
1 TAAATTTACATGAGGCTTTAAGTACTACAC
*
38709255 TTAATT
1 TAAATT
38709261 CATCCGGGTA
Statistics
Matches: 51, Mismatches: 7, Indels: 16
0.69 0.09 0.22
Matches are distributed among these distances:
28 3 0.06
29 13 0.25
30 18 0.35
31 14 0.27
32 3 0.06
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (30 bp):
TAAATTTACATGAGGCTTTAAGTACTACAC
Found at i:38709528 original size:331 final size:331
Alignment explanation
Indices: 38708926--38709553 Score: 1024
Period size: 331 Copynumber: 1.9 Consensus size: 331
38708916 GTACATATTC
* * * *
38708926 AATTCATCCGGGTAGTACTAAGATGTATTGTGACTAAAAACAGATGTGCCAGTGGCTGGGAATAA
1 AATTCATCCGGGTAGTACTAAGATGTATTGTGACTAAAAACAAATGTACCAATGGCTGAGAATAA
* * *
38708991 AATAGGAAATTTTTTACTTTGTAGCTAAATGTTTGGTATGTTAGCAAGTGAAAGCCGAACATCAG
66 AATAGGAAATTTTTGACTTTGTAGCTAAATGTTTGGTATGTTAGAAAGTGAAAGCCAAACATCAG
* *
38709056 GTTCCATTTGGTTTGTTACAGTTATAAATTTATGAGATTGTTAGATTGCACAGTGTACCATTGTC
131 GTTCCATTTGGTTTGTTACAGTTATAAATTTATGAGATTGTTAGATTACACAGTGTACCACTGTC
* * *
38709121 CATTATTTCTGATCGCGATCTGAGGTTTACTTCTAGTTTTGGAGTAAATTTACATGAGGCTTTAA
196 CATTATTTCTAATCGCAATCTGAGGTTTACTTCCAGTTTTGGAGTAAATTTACATGAGGCTTTAA
38709186 GTACTACACTAAATTTCAATATAGCTTTTCACCTATACACTAAATTACATGAGGCTTTAAGTACT
261 GTACTACACTAAATTTCAATATAGCTTTTCACCTATACACTAAATTACATGAGGCTTTAAGTACT
38709251 ACACTT
326 ACACTT
* * *
38709257 AATTCATCCGGGTAGTACTAAGATGTATTGTGACTGAAAACAAATGTACTAATGGCTGAGAATGA
1 AATTCATCCGGGTAGTACTAAGATGTATTGTGACTAAAAACAAATGTACCAATGGCTGAGAATAA
* * * * *
38709322 AATAGGAAATTTTTGACTTTGTAGCTAAGTGTTTGGTATTTTAGAAAGTGAAAGTCAAAGAT-TG
66 AATAGGAAATTTTTGACTTTGTAGCTAAATGTTTGGTATGTTAGAAAGTGAAAGCCAAACATCAG
* **
38709386 TGTTCCATTTGGTTTGTTACAGTTATACATTTATGAGATTGTTAGATTACATGGTGTACCACTGT
131 -GTTCCATTTGGTTTGTTACAGTTATAAATTTATGAGATTGTTAGATTACACAGTGTACCACTGT
38709451 CCATTATTTCTAATCGCAATCTGAGGTTTACTTCCAGTTTTGGAGTAAATTTACATGAGGCTTTA
195 CCATTATTTCTAATCGCAATCTGAGGTTTACTTCCAGTTTTGGAGTAAATTTACATGAGGCTTTA
*
38709516 AGTATTACACTAAATTTCAATATAGCTTTTCACCTATA
260 AGTACTACACTAAATTTCAATATAGCTTTTCACCTATA
38709554 GACAGAAGAC
Statistics
Matches: 272, Mismatches: 24, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
330 1 0.00
331 271 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.37
Consensus pattern (331 bp):
AATTCATCCGGGTAGTACTAAGATGTATTGTGACTAAAAACAAATGTACCAATGGCTGAGAATAA
AATAGGAAATTTTTGACTTTGTAGCTAAATGTTTGGTATGTTAGAAAGTGAAAGCCAAACATCAG
GTTCCATTTGGTTTGTTACAGTTATAAATTTATGAGATTGTTAGATTACACAGTGTACCACTGTC
CATTATTTCTAATCGCAATCTGAGGTTTACTTCCAGTTTTGGAGTAAATTTACATGAGGCTTTAA
GTACTACACTAAATTTCAATATAGCTTTTCACCTATACACTAAATTACATGAGGCTTTAAGTACT
ACACTT
Found at i:38713547 original size:40 final size:40
Alignment explanation
Indices: 38713468--38713644 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
38713458 CGGATGATAA
* * ** *
38713468 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGATGCTATAT
* * * * *
38713508 CCGGGCTATGTCCCAAAGGCATTTATGCTA-ATGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGATG-CTATAT
* *
38713548 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGATGCTATAT
* * *
38713588 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGATGCTATAT
38713628 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
38713645 ATACTTGGGT
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 98 0.84
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGATGCTATAT
Found at i:38713607 original size:80 final size:80
Alignment explanation
Indices: 38713468--38713644 Score: 234
Period size: 80 Copynumber: 2.2 Consensus size: 80
38713458 CGGATGATAA
* * * *
38713468 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCAAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCAAAGGCATTTA
*
38713533 TGCTA-ATGATTATAT
66 TGCGAGATG-TTATAT
* * *
38713548 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCAAAGGCATTTA
*
38713613 TGCGAGTTGTTATAT
66 TGCGAGATGTTATAT
38713628 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
38713645 ATACTTGGGT
Statistics
Matches: 86, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
78 1 0.01
79 13 0.15
80 70 0.81
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCAAAGGCATTTA
TGCGAGATGTTATAT
Found at i:38713913 original size:22 final size:22
Alignment explanation
Indices: 38713873--38713914 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
38713863 GAATGTGCAT
*
38713873 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
38713895 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
38713915 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:38721533 original size:40 final size:40
Alignment explanation
Indices: 38721454--38721630 Score: 189
Period size: 40 Copynumber: 4.5 Consensus size: 40
38721444 CGGATGATAA
* * ** *
38721454 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGATGCTATAT
* * * *
38721494 CCGGGCTATGTCCCGAAGGCATTTATGCTA-ATGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGATG-CTATAT
* *
38721534 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGATGCTATAT
* * *
38721574 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGATGCTATAT
38721614 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
38721631 ATACTTGGGT
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 100 0.85
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGATGCTATAT
Found at i:38721592 original size:80 final size:80
Alignment explanation
Indices: 38721454--38721630 Score: 243
Period size: 80 Copynumber: 2.2 Consensus size: 80
38721444 CGGATGATAA
* * * *
38721454 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
*
38721519 TGCTA-ATGATTATAT
66 TGCGAGATG-TTATAT
* *
38721534 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
*
38721599 TGCGAGTTGTTATAT
66 TGCGAGATGTTATAT
38721614 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
38721631 ATACTTGGGT
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
78 1 0.01
79 13 0.15
80 71 0.82
81 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
TGCGAGATGTTATAT
Found at i:38721899 original size:22 final size:22
Alignment explanation
Indices: 38721859--38721900 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
38721849 GAATGTGCAT
*
38721859 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
38721881 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
38721901 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:38725527 original size:60 final size:60
Alignment explanation
Indices: 38725461--38725579 Score: 220
Period size: 60 Copynumber: 2.0 Consensus size: 60
38725451 ATAATTTAAA
*
38725461 AAGTTCTTGAAAATTATTGGGCTTTAGAAATATTTATAAAAAAGATTTTAAAATTTTATT
1 AAGTTCTTGAAAATTATTGGGCTTTAGAAATATTTATAAAAAAGATTTTAAAAATTTATT
*
38725521 AAGTTCTTGAAAGTTATTGGGCTTTAGAAATATTTATAAAAAAGATTTTAAAAATTTAT
1 AAGTTCTTGAAAATTATTGGGCTTTAGAAATATTTATAAAAAAGATTTTAAAAATTTAT
38725580 CTAATAAAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.42
Consensus pattern (60 bp):
AAGTTCTTGAAAATTATTGGGCTTTAGAAATATTTATAAAAAAGATTTTAAAAATTTATT
Found at i:38726139 original size:10 final size:9
Alignment explanation
Indices: 38726046--38726139 Score: 66
Period size: 9 Copynumber: 9.9 Consensus size: 9
38726036 ATATTTTTTA
38726046 TATAAAAAT
1 TATAAAAAT
*
38726055 TATTAAAAT
1 TATAAAAAT
* *
38726064 GATAAAATT
1 TATAAAAAT
38726073 TATAAAAAAAT
1 TAT--AAAAAT
*
38726084 TATTAAAAT
1 TATAAAAAT
38726093 T-TAAAAATTT
1 TATAAAAA--T
38726103 ATATAAAAAAT
1 -TAT-AAAAAT
*
38726114 TACAAAAA-
1 TATAAAAAT
38726122 TATAAAAAT
1 TATAAAAAT
38726131 TATAGAAAA
1 TATA-AAAA
38726140 AGAATATTAA
Statistics
Matches: 66, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
8 12 0.18
9 31 0.47
10 7 0.11
11 10 0.15
12 1 0.02
13 5 0.08
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (9 bp):
TATAAAAAT
Found at i:38726153 original size:30 final size:28
Alignment explanation
Indices: 38726043--38726167 Score: 126
Period size: 29 Copynumber: 4.3 Consensus size: 28
38726033 TTGATATTTT
* *
38726043 TTATATAAAAATTATTAAAATGATAAAAT
1 TTATAAAAAAATTATTAAAAT-ATAAAAA
*
38726072 TTATAAAAAAATTATTAAAATTTAAAAA
1 TTATAAAAAAATTATTAAAATATAAAAA
**
38726100 TTTATATAAAAAATTACAAAAATATAAAAA
1 -TTATA-AAAAAATTATTAAAATATAAAAA
*
38726130 TTATAGAAAAAGAATATTAAAATA-ACAAAA
1 TTATA-AAAAA-ATTATTAAAATATA-AAAA
*
38726160 TTAGAAAA
1 TTATAAAA
38726168 TAGTATAGAA
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
28 5 0.06
29 39 0.48
30 37 0.46
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (28 bp):
TTATAAAAAAATTATTAAAATATAAAAA
Found at i:38726569 original size:27 final size:25
Alignment explanation
Indices: 38726532--38726590 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 25
38726522 AAAATTGTAA
* *
38726532 ATATTTTAAATTTTATATAAATTTT
1 ATATTTTAAATTCTAAATAAATTTT
*
38726557 ATTATTTTAAAATTCTAAATAATTTTT
1 A-TATTTT-AAATTCTAAATAAATTTT
38726584 ATATTTT
1 ATATTTT
38726591 CTATTATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.03
26 12 0.41
27 16 0.55
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
ATATTTTAAATTCTAAATAAATTTT
Found at i:38726580 original size:26 final size:26
Alignment explanation
Indices: 38726532--38726590 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
38726522 AAAATTGTAA
* *
38726532 ATATTTTAAATTTTATATAAA-TTTT
1 ATATTTTAAATTCTAAATAAATTTTT
38726557 ATTATTTTAAAATTCTAAAT-AATTTTT
1 A-TATTTT-AAATTCTAAATAAATTTTT
38726584 ATATTTT
1 ATATTTT
38726591 CTATTATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 1 0.03
26 14 0.48
27 14 0.48
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (26 bp):
ATATTTTAAATTCTAAATAAATTTTT
Found at i:38726612 original size:21 final size:21
Alignment explanation
Indices: 38726575--38726614 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
38726565 AAAATTCTAA
*
38726575 ATAATTTTTATATTTTCTATT
1 ATAATTTTTATACTTTCTATT
38726596 ATAA-TTTTATGACTTTCTA
1 ATAATTTTTAT-ACTTTCTA
38726615 ATGATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (21 bp):
ATAATTTTTATACTTTCTATT
Found at i:38734274 original size:23 final size:22
Alignment explanation
Indices: 38734242--38734285 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
38734232 AAAAAATTAA
*
38734242 ATATTAAATTATATTTTATATTT
1 ATATTAAATTACATTTT-TATTT
*
38734265 ATATTGAATTACATTTTTATT
1 ATATTAAATTACATTTTTATT
38734286 ATAATTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
ATATTAAATTACATTTTTATTT
Found at i:38735071 original size:9 final size:9
Alignment explanation
Indices: 38735057--38735081 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
38735047 TTAGTGTTCA
38735057 AATTGATAG
1 AATTGATAG
38735066 AATTGATAG
1 AATTGATAG
38735075 AATTGAT
1 AATTGAT
38735082 TAAAAAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (9 bp):
AATTGATAG
Found at i:38741772 original size:30 final size:30
Alignment explanation
Indices: 38741736--38742023 Score: 142
Period size: 30 Copynumber: 9.7 Consensus size: 30
38741726 GGTTGTTTCC
*
38741736 ATCCCTTTCCATAGTTCGATAGCCGAAGCT
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCT
* * * *
38741766 ATCCCTTTTCATAGTTCGATGGTCGCCA-CC
1 ATCCCTTTTCATAGTTCGATAGCCG-AAGCT
* * ** * *
38741796 ATCCCTTTTCATTGTT-GATGGTTGCCATC-
1 ATCCCTTTTCATAGTTCGATAGCCG-AAGCT
* * * * *
38741825 ATCCCTTTTCATAATTAGATAACCAAAACT
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCT
* ** *
38741855 ATCCTTTTTCATTTTTCGATAACCGAAGCT
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCT
* * *
38741885 ATCCTTTTTAATAGTTCGATAGTCGAAGCT
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCT
* * * * *
38741915 ATCCCTTTTCATAATTCAATGGTC-ATCA-CC
1 ATCCCTTTTCATAGTTCGATAGCCGA--AGCT
* * * * * *
38741945 ATCCTTTTTCATTGTT-GATGGTCGTCA-CC
1 ATCCCTTTTCATAGTTCGATAGCCG-AAGCT
* *
38741974 ATCCCTTTTCATATTTTGATAGCCGAAGCT
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCT
38742004 ATCCCTTTTCACTAG-TCGAT
1 ATCCCTTTTCA-TAGTTCGAT
38742024 GATCGTCGAT
Statistics
Matches: 200, Mismatches: 47, Indels: 22
0.74 0.17 0.08
Matches are distributed among these distances:
29 50 0.25
30 146 0.73
31 4 0.02
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.39
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTCGATAGCCGAAGCT
Found at i:38741952 original size:29 final size:29
Alignment explanation
Indices: 38741915--38741986 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
38741905 AGTCGAAGCT
38741915 ATCCCTTTTCATAATTCAATGGTCATCACC
1 ATCCCTTTTCATAATT-AATGGTCATCACC
* ** * *
38741945 ATCCTTTTTCATTGTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTAATGGTCATCACC
38741974 ATCCCTTTTCATA
1 ATCCCTTTTCATA
38741987 TTTTGATAGC
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
29 22 0.63
30 13 0.37
ACGTcount: A:0.21, C:0.28, G:0.10, T:0.42
Consensus pattern (29 bp):
ATCCCTTTTCATAATTAATGGTCATCACC
Found at i:38742023 original size:149 final size:149
Alignment explanation
Indices: 38741746--38742023 Score: 394
Period size: 149 Copynumber: 1.9 Consensus size: 149
38741736 ATCCCTTTCC
* * *
38741746 ATAGTTCGATAGCCGAAGCTATCCCTTTTCATAGTTCGATGGTCGCCACCATCCCTTTTCATTGT
1 ATAGTTCGATAGCCGAAGCTATCCCTTTTCATAATTCAATGGTCACCACCATCCCTTTTCATTGT
* * * * **
38741811 TGATGGTTGCCATCATCCCTTTTCATAATTAGATAACCAAAACTATCCTTTTTCATTTTTCGATA
66 TGATGGTCGCCACCATCCCTTTTCATAATTAGATAACCAAAACTATCCCTTTTCACTAGTCGATA
38741876 ACCGAAGCTATCCTTTTTA
131 ACCGAAGCTATCCTTTTTA
* * *
38741895 ATAGTTCGATAGTCGAAGCTATCCCTTTTCATAATTCAATGGTCATCACCATCCTTTTTCATTGT
1 ATAGTTCGATAGCCGAAGCTATCCCTTTTCATAATTCAATGGTCACCACCATCCCTTTTCATTGT
* * * * * *
38741960 TGATGGTCGTCACCATCCCTTTTCATATTTTGATAGCCGAAGCTATCCCTTTTCACTAGTCGAT
66 TGATGGTCGCCACCATCCCTTTTCATAATTAGATAACCAAAACTATCCCTTTTCACTAGTCGAT
38742024 GATCGTCGAT
Statistics
Matches: 111, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
149 111 1.00
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.38
Consensus pattern (149 bp):
ATAGTTCGATAGCCGAAGCTATCCCTTTTCATAATTCAATGGTCACCACCATCCCTTTTCATTGT
TGATGGTCGCCACCATCCCTTTTCATAATTAGATAACCAAAACTATCCCTTTTCACTAGTCGATA
ACCGAAGCTATCCTTTTTA
Found at i:38742821 original size:12 final size:13
Alignment explanation
Indices: 38742799--38742830 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
38742789 TTGTTTTTGT
38742799 TTTACTTTATTTA
1 TTTACTTTATTTA
38742812 TTTA-TTTATTTA
1 TTTACTTTATTTA
38742824 TTTACTT
1 TTTACTT
38742831 AATTAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTACTTTATTTA
Found at i:38743390 original size:21 final size:20
Alignment explanation
Indices: 38743359--38743398 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
38743349 CCCATGAAAC
38743359 AGGGCACACGC-CTGTGTGGA
1 AGGGCACACGCTC-GTGTGGA
38743379 AGGGCAACACGCTCGTGTGG
1 AGGGC-ACACGCTCGTGTGG
38743399 TCATTATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 12 0.67
22 1 0.06
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (20 bp):
AGGGCACACGCTCGTGTGGA
Found at i:38750402 original size:45 final size:44
Alignment explanation
Indices: 38750337--38750465 Score: 176
Period size: 45 Copynumber: 2.9 Consensus size: 44
38750327 TCGTACAGTA
38750337 ATATTCGGGCCTTTCAGCCTAGCAGGCTACAATGCCGGTGAAAT-
1 ATATTCGGGCC-TTCAGCCTAGCAGGCTACAATGCCGGTGAAATG
38750381 ACTATTCGGGCCTTCGAGCCTAGCAGGCTACAATGCCGGTGAAATG
1 A-TATTCGGGCCTTC-AGCCTAGCAGGCTACAATGCCGGTGAAATG
* *
38750427 ATA-TCGGG-CTTCAAGCCTAGCAGGCGA-AATGTCGGTGAA
1 ATATTCGGGCCTTC-AGCCTAGCAGGCTACAATGCCGGTGAA
38750466 TGAACTCGGG
Statistics
Matches: 79, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
42 11 0.14
43 17 0.22
44 9 0.11
45 41 0.52
46 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (44 bp):
ATATTCGGGCCTTCAGCCTAGCAGGCTACAATGCCGGTGAAATG
Found at i:38750487 original size:41 final size:41
Alignment explanation
Indices: 38750354--38750505 Score: 137
Period size: 41 Copynumber: 3.6 Consensus size: 41
38750344 GGCCTTTCAG
** *
38750354 CCTAGCAGGCTACAATGCCGGTGAAAT-ACTATTCGGGCCTTCGAG
1 CCTAGCAGGCTA-AATGCCGGTG-AATGA-TA-TCGGG-CTTAAAA
* *
38750399 CCTAGCAGGCTACAATGCCGGTGAAATGATATCGGGCTTCAAG
1 CCTAGCAGGCTA-AATGCCGGTG-AATGATATCGGGCTTAAAA
* * *
38750442 CCTAGCAGGCGAAATGTCGGTGAATGA-ACTCGGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGAATGATA-TCGGGCTTAAAA
*
38750483 CCTAGTAGGCTAAATGCCGGTGA
1 CCTAGCAGGCTAAATGCCGGTGA
38750506 TTTGATTTAA
Statistics
Matches: 96, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
40 1 0.01
41 34 0.35
42 9 0.09
43 17 0.18
44 5 0.05
45 29 0.30
46 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (41 bp):
CCTAGCAGGCTAAATGCCGGTGAATGATATCGGGCTTAAAA
Found at i:38751023 original size:16 final size:18
Alignment explanation
Indices: 38750992--38751024 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
38750982 AACTCGTCAC
38750992 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
38751010 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
38751025 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:38755549 original size:49 final size:49
Alignment explanation
Indices: 38755460--38755682 Score: 172
Period size: 49 Copynumber: 4.7 Consensus size: 49
38755450 GGGTTAAGAC
* * * *
38755460 GCCGGTGCCATGTCCCGGACACGGTCTTACACTAGCTTTCATATAGCGAG
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTGGATTTCATATAGCGAG
* * * *
38755510 GCCGATGCCATGTCCCAGACAAGTCTTACACTGGATTTCATCTATCGAT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGATTTCATATAGCGAG
* * * * * *
38755559 GTCGATGCCATGTCCTAGACAGGTCTTACACT-GA---CACACAAC-AA
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGATTTCATATAGCGAG
** * * * * * * *
38755603 GTTGACGCCATGTCTCAGACAGGTCTTACACTAGCTTGT-ATATCGTGGG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGATT-TCATATAGCGAG
38755652 GCCGATG-CATGTCCCAGACAGGTCTTACACT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACT
38755683 ACCTCTCGTC
Statistics
Matches: 135, Mismatches: 32, Indels: 14
0.75 0.18 0.08
Matches are distributed among these distances:
44 29 0.21
45 5 0.04
48 27 0.20
49 55 0.41
50 19 0.14
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTGGATTTCATATAGCGAG
Found at i:38755776 original size:46 final size:47
Alignment explanation
Indices: 38755468--38755786 Score: 192
Period size: 46 Copynumber: 6.8 Consensus size: 47
38755458 ACGCCGGTGC
* * *
38755468 CATGTCCCGGACACGGTCTTACACTAGCTTTCATATAGC-GAGGCCGATG
1 CATGTCCCAGACA-GGTCTTACACTAGCTCTCATAT--CTGTGGCCGATG
* * * * *
38755517 CCATGTCCCAGACAAGTCTTACACTGGATTTCATCTATC-GAT-GTCGATG
1 -CATGTCCCAGACAGGTCTTACACTAGCTCTCA--TATCTG-TGGCCGATG
* * * * * * *
38755566 CCATGTCCTAGACAGGTCTTACACT-GACACACA-A-CAAGTTGACG--C
1 -CATGTCCCAGACAGGTCTTACACTAG-CTCTCATATC-TGTGGCCGATG
* * *
38755611 CATGTCTCAGACAGGTCTTACACTAGCT-TGTATATCGTGGGGCCGATG
1 CATGTCCCAGACAGGTCTTACACTAGCTCT-CATATC-TGTGGCCGATG
* * * **
38755659 CATGTCCCAGACAGGTCTTACACTACCTCTCGTCTCAAT-GCCGATG
1 CATGTCCCAGACAGGTCTTACACTAGCTCTCATATCTGTGGCCGATG
* **
38755705 CATGTCCCAGACATGTCTTACACTAGCTCTCATAT-TGTGGCTAATG
1 CATGTCCCAGACAGGTCTTACACTAGCTCTCATATCTGTGGCCGATG
* * *
38755751 CATGTCCCAGACATGTCTTACACTAGCACACATATC
1 CATGTCCCAGACAGGTCTTACACTAGCTCTCATATC
38755787 ACCGATTATC
Statistics
Matches: 210, Mismatches: 43, Indels: 35
0.73 0.15 0.12
Matches are distributed among these distances:
44 24 0.11
45 4 0.02
46 83 0.40
47 4 0.02
48 30 0.14
49 50 0.24
50 12 0.06
51 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACAGGTCTTACACTAGCTCTCATATCTGTGGCCGATG
Found at i:38762631 original size:46 final size:44
Alignment explanation
Indices: 38762559--38762783 Score: 141
Period size: 46 Copynumber: 4.8 Consensus size: 44
38762549 GGTTAATTGA
* * * *
38762559 GTGCTAGTGTAAGATATGTCTAGGACATGCATCGGCCT-CGAGAT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACAAGAT
* *
38762603 GTAAGCCAGTGTATGACATGTCTGGGACATGTATCGGCTACAAGAT
1 GT--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGAT
* * * * *
38762649 GTGTCAGTGTAAGACCATGTCTGGGACATGGCTTCAGC-ACGGATAT
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC-AAGAT
* ** *
38762695 GTGAGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCAACTTA-ATGGAT
1 GT----GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TACA-AGAT
*
38762746 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
38762784 ATTATACCTT
Statistics
Matches: 146, Mismatches: 22, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
44 12 0.08
45 18 0.12
46 45 0.31
47 33 0.23
50 34 0.23
51 3 0.02
52 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (44 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGAT
Found at i:38762715 original size:50 final size:47
Alignment explanation
Indices: 38762646--38762780 Score: 182
Period size: 47 Copynumber: 2.8 Consensus size: 47
38762636 TCGGCTACAA
* *
38762646 GATGTGTCAGTGTAAGACCATGTCTGGGACATGGCTTCAGCACGGATATG
1 GATGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCA--ACGGA-ATG
**
38762696 TGA-GAGTCAGTGTAAGACCATGTCTGGGACATGGCATCAACTTAATG
1 -GATGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCAACGGAATG
*
38762743 GATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GATGAGTCAGTGTAAGACCATGTCTGGGACATGGCATC
38762781 GGCATTATAC
Statistics
Matches: 78, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
46 2 0.03
47 37 0.47
48 3 0.04
50 34 0.44
51 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
GATGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCAACGGAATG
Found at i:38785078 original size:28 final size:28
Alignment explanation
Indices: 38785023--38785078 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
38785013 ACAGGGTTTT
* *
38785023 TCACACGGCTTGACACATGCCCGTGTCCC
1 TCACACGGCATGACACA-GCCCATGTCCC
38785052 TCACACGGCCATGACAC-GCCCATGTCC
1 TCACACGG-CATGACACAGCCCATGTCC
38785079 TGGCCCGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 9 0.38
29 8 0.33
30 7 0.29
ACGTcount: A:0.20, C:0.43, G:0.20, T:0.18
Consensus pattern (28 bp):
TCACACGGCATGACACAGCCCATGTCCC
Found at i:38787908 original size:93 final size:93
Alignment explanation
Indices: 38787749--38787919 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
38787739 GCCCCTAAGT
* * * *
38787749 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
38787814 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
38787842 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
38787907 CGAGTTCGGATGC
66 CGAGTTCGGATGC
38787920 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:38787909 original size:46 final size:46
Alignment explanation
Indices: 38787744--38787913 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
38787734 AACCCGCCCC
* * * * * *
38787744 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
* * * *
38787790 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GAC-ATTTGCATCCA
* *
38787838 TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
38787883 TAAGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
38787914 GGATGCTCAA
Statistics
Matches: 101, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 3 0.03
46 54 0.53
47 26 0.26
48 2 0.02
49 3 0.03
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
Found at i:38794161 original size:21 final size:21
Alignment explanation
Indices: 38794137--38794181 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
38794127 CTACTAGTAG
*
38794137 AACT-GGGAGTTCTACCGATAC
1 AACTCGGG-GTTCTACCAATAC
*
38794158 AACTCTGGGTTCTACCAATAC
1 AACTCGGGGTTCTACCAATAC
38794179 AAC
1 AAC
38794182 GCAGACTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (21 bp):
AACTCGGGGTTCTACCAATAC
Found at i:38794749 original size:20 final size:20
Alignment explanation
Indices: 38794724--38794791 Score: 136
Period size: 20 Copynumber: 3.4 Consensus size: 20
38794714 TTTAAGAGCC
38794724 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
38794744 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
38794764 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
38794784 ACACGCCC
1 ACACGCCC
38794792 CTGTAGGTAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.12, C:0.34, G:0.37, T:0.18
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTTGGG
Found at i:38796043 original size:42 final size:42
Alignment explanation
Indices: 38795931--38796134 Score: 230
Period size: 42 Copynumber: 4.8 Consensus size: 42
38795921 TACCATACCA
* * *
38795931 ATGCCATATCCCAGATATGGTCTTACATG-GGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAG-TCTCATATCG
* * * *
38795973 ATGCCAACAGCCCAGCTATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
** *
38796016 ATGCCATATCTTAGATATGGTCTTACACGTAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
* * *
38796058 ATGCCATATCCCAAATATGGTCTTATACGTAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
* * * *
38796100 ATGCTATATCCCAGTTATGGTCCTACATGTAGTCT
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCT
38796135 TAGTAACCCT
Statistics
Matches: 137, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
42 102 0.74
43 34 0.25
44 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
Found at i:38803159 original size:43 final size:43
Alignment explanation
Indices: 38803067--38803226 Score: 128
Period size: 43 Copynumber: 3.7 Consensus size: 43
38803057 ATTAACGAGT
**
38803067 TGTGATTATATGTAAGACCATGTCTGGGAAATTGGCACCATTA
1 TGTGATTACGTGTAAGACCATGTCTGGGAAATTGGCACCATTA
* * *
38803110 TGTGATTACGTGTAAGACCATGTCTGGGACATT-GCAATCGTTA
1 TGTGATTACGTGTAAGACCATGTCTGGGAAATTGGC-ACCATTA
* * * ** *
38803153 TTTGATTTCGTGTGAGACCATAGT-TGGGCTATTGGCATCGA-TA
1 TGTGATTACGTGTAAGACCAT-GTCTGGGAAATTGGCA-CCATTA
* * *
38803196 TGTGATATAACATGTAAGACTATATCTGGGA
1 TGTGAT-T-ACGTGTAAGACCATGTCTGGGA
38803227 TATGGCATTG
Statistics
Matches: 90, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
42 2 0.02
43 68 0.76
44 6 0.07
45 14 0.16
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.34
Consensus pattern (43 bp):
TGTGATTACGTGTAAGACCATGTCTGGGAAATTGGCACCATTA
Found at i:38805295 original size:18 final size:18
Alignment explanation
Indices: 38805272--38805310 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
38805262 AACCCTAGGT
38805272 AAGAGAAAAGAAACTTTC
1 AAGAGAAAAGAAACTTTC
38805290 AAGAGAAAAGAAACTTTC
1 AAGAGAAAAGAAACTTTC
38805308 AAG
1 AAG
38805311 GCCTAATTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.10, G:0.18, T:0.15
Consensus pattern (18 bp):
AAGAGAAAAGAAACTTTC
Found at i:38818883 original size:27 final size:27
Alignment explanation
Indices: 38818845--38818937 Score: 150
Period size: 27 Copynumber: 3.4 Consensus size: 27
38818835 TTAAGATCCC
38818845 GATTTGTAAAATTATCGAAATACCCCT
1 GATTTGTAAAATTATCGAAATACCCCT
*
38818872 GATTTGTGAAATTATCGAAATACCCCT
1 GATTTGTAAAATTATCGAAATACCCCT
* *
38818899 AATTTGTAAAATTATCGAAATACCCCC
1 GATTTGTAAAATTATCGAAATACCCCT
*
38818926 GATTTATAAAAT
1 GATTTGTAAAAT
38818938 GACTATAATT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (27 bp):
GATTTGTAAAATTATCGAAATACCCCT
Found at i:38818962 original size:27 final size:27
Alignment explanation
Indices: 38818932--38819129 Score: 184
Period size: 27 Copynumber: 7.3 Consensus size: 27
38818922 CCCCGATTTA
** *
38818932 TAAAATGACTATAATTA-CCCTGTAGCG
1 TAAAATGACCGTAA-TACCCCTGTAGGG
* * *
38818959 TAAAATGGCTGTAATACCCCTATAGGG
1 TAAAATGACCGTAATACCCCTGTAGGG
* *
38818986 TAAAATAACCGTATTACCCCTGTAGGG
1 TAAAATGACCGTAATACCCCTGTAGGG
38819013 TAAAATGACCGTAATACCCCTGTAGGG
1 TAAAATGACCGTAATACCCCTGTAGGG
* *
38819040 TAAAATGACCAG-AATACCCTTATAGGG
1 TAAAATGACC-GTAATACCCCTGTAGGG
** * *
38819067 TACGATTACCGTAATACCCCTATAGGG
1 TAAAATGACCGTAATACCCCTGTAGGG
* * ** **
38819094 TAAAATAATCGTAATACCATTGTTTGG
1 TAAAATGACCGTAATACCCCTGTAGGG
38819121 TAAAATGAC
1 TAAAATGAC
38819130 GATTATGCCC
Statistics
Matches: 140, Mismatches: 28, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
26 3 0.02
27 136 0.97
28 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (27 bp):
TAAAATGACCGTAATACCCCTGTAGGG
Found at i:38819017 original size:81 final size:81
Alignment explanation
Indices: 38818932--38819099 Score: 205
Period size: 81 Copynumber: 2.1 Consensus size: 81
38818922 CCCCGATTTA
* * *
38818932 TAAAATGACTATAATTA-CCCTGTAGCGTAAAATG-GCTGTAATACCCCTATAGGGTAAAATAAC
1 TAAAATGACCATAA-TACCCCTGTAGCGTAAAATGACCAG-AATACCCCTATAGGGTAAAATAAC
* *
38818995 CGTATTACCCCTGTAGGG
64 CGTAATACCCCTATAGGG
* * * ** *
38819013 TAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCAGAATACCCTTATAGGGTACGATTACCG
1 TAAAATGACCATAATACCCCTGTAGCGTAAAATGACCAGAATACCCCTATAGGGTAAAATAACCG
38819078 TAATACCCCTATAGGG
66 TAATACCCCTATAGGG
38819094 TAAAAT
1 TAAAAT
38819100 AATCGTAATA
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
80 2 0.03
81 70 0.95
82 2 0.03
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (81 bp):
TAAAATGACCATAATACCCCTGTAGCGTAAAATGACCAGAATACCCCTATAGGGTAAAATAACCG
TAATACCCCTATAGGG
Found at i:38819107 original size:81 final size:82
Alignment explanation
Indices: 38818949--38819129 Score: 213
Period size: 81 Copynumber: 2.2 Consensus size: 82
38818939 ACTATAATTA
* * * * *
38818949 CCCTGTAGCGTAAAATG-GCTGTAATACCCCTATAGGGTAAAATAACCGTATTACCCCTGTAGGG
1 CCCTGTAGGGTAAAATGACCAGTAATACCCCTATAGGGTAAAATAACCGTAATACCCCTATAGGG
*
38819013 TAAAATGACCGTAATAC
66 TAAAATAACCGTAATAC
* ** *
38819030 CCCTGTAGGGTAAAATGACCAG-AATACCCTTATAGGGTACGATTACCGTAATACCCCTATAGGG
1 CCCTGTAGGGTAAAATGACCAGTAATACCCCTATAGGGTAAAATAACCGTAATACCCCTATAGGG
*
38819094 TAAAATAATCGTAATAC
66 TAAAATAACCGTAATAC
** **
38819111 CATTGTTTGGTAAAATGAC
1 CCCTGTAGGGTAAAATGAC
38819130 GATTATGCCC
Statistics
Matches: 84, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 82 0.98
82 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.26
Consensus pattern (82 bp):
CCCTGTAGGGTAAAATGACCAGTAATACCCCTATAGGGTAAAATAACCGTAATACCCCTATAGGG
TAAAATAACCGTAATAC
Found at i:38819382 original size:26 final size:26
Alignment explanation
Indices: 38819344--38819400 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
38819334 TTTGCCACAT
* *
38819344 TTATTGTTTCTGGTAGCTATGCTGCG
1 TTATTATTACTGGTAGCTATGCTGCG
*
38819370 TTATTATTACTGGTAGCTTTGCTGCG
1 TTATTATTACTGGTAGCTATGCTGCG
*
38819396 ATATT
1 TTATT
38819401 GGTGTGCTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.16, C:0.14, G:0.23, T:0.47
Consensus pattern (26 bp):
TTATTATTACTGGTAGCTATGCTGCG
Found at i:38823741 original size:40 final size:40
Alignment explanation
Indices: 38823648--38823864 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
38823638 AAGCCAAGTA
* * *
38823648 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
38823686 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
38823726 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
38823766 CCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
38823806 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
38823846 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
38823865 TTATCATCCA
Statistics
Matches: 162, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
38 12 0.07
39 18 0.11
40 132 0.81
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:38826206 original size:27 final size:27
Alignment explanation
Indices: 38826163--38826273 Score: 100
Period size: 27 Copynumber: 4.1 Consensus size: 27
38826153 GGTCGTTAAG
*
38826163 ACCCC-AATTTTTAAAATTACCGAAAT
1 ACCCCTAATTTGTAAAATTACCGAAAT
*
38826189 ACCCCTAATTTGTGAAATTACCGAAAT
1 ACCCCTAATTTGTAAAATTACCGAAAT
* * * * **
38826216 GCCTCTGATTTGTATAATTACAAAAAT
1 ACCCCTAATTTGTAAAATTACCGAAAT
** *
38826243 ACCCCCGATTTGTAAAATAACC-ATAAT
1 ACCCCTAATTTGTAAAATTACCGA-AAT
38826270 ACCC
1 ACCC
38826274 TTATAGGGTA
Statistics
Matches: 68, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
26 6 0.09
27 62 0.91
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (27 bp):
ACCCCTAATTTGTAAAATTACCGAAAT
Done.