Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 120 of 444
Found at i:30924844 original size:27 final size:27
Alignment explanation
Indices: 30924814--30925218 Score: 537
Period size: 27 Copynumber: 15.0 Consensus size: 27
30924804 TTTGTAAAAT
30924814 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* *
30924841 TACCGAAATACCCTTGTAGGATAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
** * *
30924868 TATTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
** * * *
30924895 TACTAAAATACCCCTGTAAGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
* *
30924922 TACCGAAATACCCTTGTAGGTTTGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
30924949 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
30924976 TACCGAAATAACCC-TGTAGGGTAGAAT
1 TACCGAAAT-ACCCTTGTAGGGTAGAAA
30925003 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
30925030 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
30925057 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
30925084 TACCGAAATATCCC-TGTAGGGTAGAAT
1 TACCGAAATA-CCCTTGTAGGGTAGAAA
** * *
30925111 TATTGAAATACCCCTGTAGGATAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
30925138 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * **
30925165 TATCGAAATACCCCTGTAGGGTAGAGT
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * *
30925192 TACCGAGATACCCTCGTGGGGTA-AAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
30925218 T
1 T
30925219 TATCATTTTG
Statistics
Matches: 334, Mismatches: 40, Indels: 9
0.87 0.10 0.02
Matches are distributed among these distances:
26 9 0.03
27 318 0.95
28 7 0.02
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.24
Consensus pattern (27 bp):
TACCGAAATACCCTTGTAGGGTAGAAA
Found at i:30925682 original size:22 final size:22
Alignment explanation
Indices: 30925649--30925713 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
30925639 TTAAAGCCTT
* * *
30925649 CTGATTATGGCTTTGTGTCAAC
1 CTGAATATGGCTCTGTGCCAAC
30925671 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-ATATGGCTCTGTGCCAAC
*
30925693 CTGAATATGGCTGTGTGCCAA
1 CTGAATATGGCTCTGTGCCAA
30925714 ACGTATTTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 35 0.95
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (22 bp):
CTGAATATGGCTCTGTGCCAAC
Found at i:30925902 original size:27 final size:27
Alignment explanation
Indices: 30925872--30925973 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
30925862 ATTCTGTTAA
* *
30925872 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
*
30925899 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
30925926 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* * *
30925953 GTGACTCTGTCACAGTATCTG
1 GTGGCTCTGCCACAATATCTG
30925974 ATAACTGAGC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.12
27 51 0.77
28 7 0.11
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:30926162 original size:31 final size:31
Alignment explanation
Indices: 30926110--30926248 Score: 163
Period size: 31 Copynumber: 4.5 Consensus size: 31
30926100 TTGCATTCAC
*
30926110 ATTCTGATTTTTGATTCTGTTACCTAATACTG
1 ATTCTGA-TTCTGATTCTGTTACCTAATACTG
* *
30926142 ATTCTGATTCTGATTTTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTAATACTG
* * * *
30926173 ATTTTGATTTTGATTATGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTAATACTG
* * *
30926204 ATTCCGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTAATACTG
30926235 ATTCT-AGTTCTGAT
1 ATTCTGA-TTCTGAT
30926249 AATGTTTCTT
Statistics
Matches: 92, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
30 1 0.01
31 84 0.91
32 7 0.08
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTAATACTG
Found at i:30926198 original size:25 final size:24
Alignment explanation
Indices: 30926137--30926206 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
30926127 TGTTACCTAA
*
30926137 TACTGATTCTGATTCTGATTTTGT
1 TACTGATACTGATTCTGATTTTGT
*
30926161 TACCTGATACTGATTTTGATTTTGAT
1 TA-CTGATACTGATTCTGATTTTG-T
* *
30926187 TA-TGTTACCTGATACTGATT
1 TACTGATA-CTGATTCTGATT
30926207 CCGATTCTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
24 6 0.16
25 29 0.76
26 3 0.08
ACGTcount: A:0.21, C:0.13, G:0.16, T:0.50
Consensus pattern (24 bp):
TACTGATACTGATTCTGATTTTGT
Found at i:30926239 original size:6 final size:6
Alignment explanation
Indices: 30926139--30926221 Score: 53
Period size: 6 Copynumber: 13.5 Consensus size: 6
30926129 TTACCTAATA
* * * *
30926139 CTGATT CTGATT CTGATT TTG-TT ACCTGATA CTGATT TTGATT TTGATT
1 CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT CTGATT
* * *
30926188 ATG-TT ACCTGATA CTGATT CCGATT CTGATT CTG
1 CTGATT --CTGATT CTGATT CTGATT CTGATT CTG
30926222 TCACCTAATT
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
5 4 0.07
6 50 0.83
7 4 0.07
8 2 0.03
ACGTcount: A:0.19, C:0.16, G:0.17, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:30927003 original size:7 final size:7
Alignment explanation
Indices: 30926993--30927025 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
30926983 TAAAAGCCCA
30926993 GTTTAGG
1 GTTTAGG
30927000 GTTTAGG
1 GTTTAGG
*
30927007 ATTTAGG
1 GTTTAGG
30927014 GTTTAGG
1 GTTTAGG
30927021 GTTTA
1 GTTTA
30927026 AAGTTTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:30933065 original size:27 final size:26
Alignment explanation
Indices: 30933030--30933141 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
30933020 AGCATGGCTG
*
30933030 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCA
*
30933056 CCAGATACAGATAATCGTGCCAGAGCCA
1 CCAGA-ACAGATAAT-GTGACAGAGCCA
* *
30933084 CCAGAACAGTTATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCA
* * *
30933111 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGACAGAGCCA
30933138 CCAG
1 CCAG
30933142 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.69
28 17 0.23
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGACAGAGCCA
Found at i:30933123 original size:54 final size:54
Alignment explanation
Indices: 30933030--30933141 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
30933020 AGCATGGCTG
*
30933030 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGCCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGCCAGAGCCA
* * * * *
30933084 CCAGAACAGTTATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGCCAGAGCCA
30933138 CCAG
1 CCAG
30933142 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGCCAGAGCCA
Found at i:30940875 original size:26 final size:24
Alignment explanation
Indices: 30940829--30940876 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
30940819 CGATAGGAAA
*
30940829 AAAAAGAAAGCAAAACTGACAAGG
1 AAAAAGAAAGCAAAAATGACAAGG
*
30940853 AAAAAGAAGAGGAAAAATCGACAA
1 AAAAAGAA-AGCAAAAAT-GACAA
30940877 TGTGACAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 7 0.35
26 5 0.25
ACGTcount: A:0.65, C:0.10, G:0.21, T:0.04
Consensus pattern (24 bp):
AAAAAGAAAGCAAAAATGACAAGG
Found at i:30944631 original size:19 final size:19
Alignment explanation
Indices: 30944607--30944645 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
30944597 AGCAAATGAT
30944607 TGTGACTTACTCATAGTTC
1 TGTGACTTACTCATAGTTC
30944626 TGTGACTTACTCATAGTTC
1 TGTGACTTACTCATAGTTC
30944645 T
1 T
30944646 TTTTCTAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.44
Consensus pattern (19 bp):
TGTGACTTACTCATAGTTC
Found at i:30946731 original size:27 final size:26
Alignment explanation
Indices: 30946684--30946850 Score: 199
Period size: 27 Copynumber: 6.3 Consensus size: 26
30946674 CCCTGTTTAG
* **
30946684 AATACCTTGGTTTACAAAATTACCAA
1 AATACCCTGGTTTGTAAAATTACCAA
* **
30946710 AATACCCTCGATCAGTAAAATTACCAA
1 AATACCCT-GGTTTGTAAAATTACCAA
* * *
30946737 AATACCCTGGTCTGTAAAATTGCTAA
1 AATACCCTGGTTTGTAAAATTACCAA
30946763 AATATCCCTGGTTTGTAAAATTACCAA
1 AATA-CCCTGGTTTGTAAAATTACCAA
* *
30946790 AATACCCCTAGTTTGTAAAATTACCTA
1 AATA-CCCTGGTTTGTAAAATTACCAA
30946817 AATACCACTGGTTTGTAAAATTACCAA
1 AATACC-CTGGTTTGTAAAATTACCAA
30946844 AATACCC
1 AATACCC
30946851 CTGTAGGGTA
Statistics
Matches: 120, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
26 28 0.23
27 92 0.77
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.29
Consensus pattern (26 bp):
AATACCCTGGTTTGTAAAATTACCAA
Found at i:30946874 original size:81 final size:81
Alignment explanation
Indices: 30946724--30947038 Score: 322
Period size: 81 Copynumber: 3.9 Consensus size: 81
30946714 CCCTCGATCA
* * * * * ** *
30946724 GTAAAATTACCAAAATA-CCCTGGTCTGTAAAATTGCTAAAATATCCCTGGT-TTGTAAAATTAC
1 GTAAAATTACCTAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCT-GTAGGGTAGAATTAC
**
30946787 CAAAATACCCCTAGT-TT
65 CAAAATACCCCT-GTAGG
*
30946804 GTAAAATTACCTAAATACCACTGGTTTGTAAAATTACCAAAATACCCCTGTAGGGTAGAATTACC
1 GTAAAATTACCTAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGTAGGGTAGAATTACC
*
30946869 GAAATACCCCTGTAGG
66 AAAATACCCCTGTAGG
* * ** *
30946885 GTAGAATTA-CTAAAATACCCCT-GTATGGTGGAATTACCGAAATACCCCTGTAGGGTAGAATTA
1 GTAAAATTACCT-AAATACCCCTGGT-TTGTAAAATTACCAAAATACCCCTGTAGGGTAGAATTA
*
30946948 CCGAAATACCCCTGTAGG
64 CCAAAATACCCCTGTAGG
* * *
30946966 GTAGAATTACCGAAATACCCCTTAGG---GTAGAATTACCAAAATACCCCTGTAGGGTAGAATTA
1 GTAAAATTACCTAAATACCCC-T-GGTTTGTAAAATTACCAAAATACCCCTGTAGGGTAGAATTA
*
30947028 CTAAAATACCC
64 CCAAAATACCC
30947039 TTATAGAGTG
Statistics
Matches: 203, Mismatches: 23, Indels: 18
0.83 0.09 0.07
Matches are distributed among these distances:
80 67 0.33
81 133 0.66
82 2 0.01
84 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (81 bp):
GTAAAATTACCTAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGTAGGGTAGAATTACC
AAAATACCCCTGTAGG
Found at i:30947054 original size:27 final size:27
Alignment explanation
Indices: 30946781--30947038 Score: 333
Period size: 27 Copynumber: 9.6 Consensus size: 27
30946771 TGGTTTGTAA
** *
30946781 AATTACCAAAATACCCCTAGT-TTGTAA
1 AATTACCAAAATACCCCT-GTAGGGTAG
* * ** *
30946808 AATTACCTAAATACCACTGGT-TTGTAA
1 AATTACCAAAATACCCCT-GTAGGGTAG
30946835 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
30946862 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * *
30946889 AATTACTAAAATACCCCTGTATGGTGG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
30946916 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
30946943 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
30946970 AATTACCGAAATACCCCT-TAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
30946996 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
30947023 AATTACTAAAATACCC
1 AATTACCAAAATACCC
30947039 TTATAGAGTG
Statistics
Matches: 210, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
26 27 0.13
27 183 0.87
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGTAGGGTAG
Found at i:30947074 original size:80 final size:80
Alignment explanation
Indices: 30946835--30947083 Score: 331
Period size: 80 Copynumber: 3.1 Consensus size: 80
30946825 TGGTTTGTAA
*
30946835 AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAA
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTAC-GAAA
* *
30946900 TACCCCTGTATGGTGG
65 TACCCCTGTAGGGTAG
*
30946916 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAA
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTA-CGAAA
30946981 TACCCCT-TAGGGTAG
65 TACCCCTGTAGGGTAG
** * * * * *
30946996 AATTACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACCCTTATAGAGTGGAATTATCGATA
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTA-CGAAA
* * *
30947061 TA-CCTTGTGGGGTAA
65 TACCCCTGTAGGGTAG
30947076 AATTACCA
1 AATTACCA
30947084 TTTTGCCCCT
Statistics
Matches: 150, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
79 3 0.02
80 78 0.52
81 68 0.45
82 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (80 bp):
AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACGAAAT
ACCCCTGTAGGGTAG
Found at i:30947561 original size:22 final size:22
Alignment explanation
Indices: 30947509--30947571 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
30947499 TTAAAGCCTT
* *
30947509 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
30947531 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
30947553 CTGATTATGGCTGTGTGCC
1 CTGATTATGGCTCTGTGCC
30947572 GAACGTATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:30947762 original size:27 final size:27
Alignment explanation
Indices: 30947732--30947833 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
30947722 ATTCTGTTAA
* *
30947732 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
30947759 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* *
30947786 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * **
30947813 GTGACTCTATCACAATATCTG
1 GTGGCTATGCCACAATATCTG
30947834 ATAACTGAGC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.12
27 51 0.77
28 7 0.11
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:30947827 original size:54 final size:53
Alignment explanation
Indices: 30947732--30947833 Score: 132
Period size: 54 Copynumber: 1.9 Consensus size: 53
30947722 ATTCTGTTAA
* * * * *
30947732 GTGGCTTTGCCACATTATCTGTTTCTGGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTATCTGGTGACTATACCAC-AATATCTGTTCTG
* *
30947786 GTGGCTCTGCCACAATATCTGTATCTGGTGACTCTATCACAATATCTG
1 GTGGCTCTGCCACAATATCTGTATCTGGTGACTATACCACAATATCTG
30947834 ATAACTGAGC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 8 0.20
54 33 0.80
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTGTATCTGGTGACTATACCACAATATCTGTTCTG
Found at i:30948008 original size:6 final size:6
Alignment explanation
Indices: 30947970--30948120 Score: 96
Period size: 6 Copynumber: 24.3 Consensus size: 6
30947960 TTGCATTCAC
* * *
30947970 ATTCTG ATTTTTG ATTCTG -TTACCTG ATGCTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
30948020 -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG -TTGCCTG ATACTA ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* *
30948070 ATTCTG ATTCT- ATCACCTA ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
30948119 AT
1 AT
30948121 AATGTTTCTT
Statistics
Matches: 113, Mismatches: 17, Indels: 30
0.71 0.11 0.19
Matches are distributed among these distances:
5 9 0.08
6 82 0.73
7 17 0.15
8 5 0.04
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:30948112 original size:31 final size:31
Alignment explanation
Indices: 30947970--30948111 Score: 194
Period size: 31 Copynumber: 4.5 Consensus size: 31
30947960 TTGCATTCAC
*
30947970 ATTCTGATTTTTGATTCTGTTACCTGATGCTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
30948002 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* *
30948033 ATTCTGATTTTGATTCTGTTGCCTGATACTA
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * * *
30948064 ATTCTGATTCTGATTCTATCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
30948095 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
30948112 AGTTCTGATA
Statistics
Matches: 100, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
31 93 0.93
32 7 0.07
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:30949781 original size:19 final size:19
Alignment explanation
Indices: 30949753--30949796 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
30949743 CTCATTCACA
*
30949753 TCTCTTCTCTCACAATTCT
1 TCTCTCCTCTCACAATTCT
** *
30949772 TCTCTCCTCTTTCAATTTT
1 TCTCTCCTCTCACAATTCT
30949791 TCTCTC
1 TCTCTC
30949797 ATTTTCCCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.11, C:0.36, G:0.00, T:0.52
Consensus pattern (19 bp):
TCTCTCCTCTCACAATTCT
Found at i:30950506 original size:40 final size:40
Alignment explanation
Indices: 30950460--30950564 Score: 95
Period size: 41 Copynumber: 2.6 Consensus size: 40
30950450 TATTATACAT
* *
30950460 TAGCGGCATTTTAT-TGAAAACGCCACAAAAAACTGAGCAA
1 TAGCGGCATTTT-TGTCAAAACGCCACAAAAAACTGAACAA
* * * *
30950500 TAGCGGCGTTTTTGGTCCAAACGCCGCGAAAAACTGAACAA
1 TAGCGGCATTTTT-GTCAAAACGCCACAAAAAACTGAACAA
** **
30950541 TAGCGGTGTTTTTGGAAAAACGCC
1 TAGCGGCATTTTTGTCAAAACGCC
30950565 GCTATTGCTC
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
39 1 0.02
40 19 0.36
41 33 0.62
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (40 bp):
TAGCGGCATTTTTGTCAAAACGCCACAAAAAACTGAACAA
Found at i:30950524 original size:41 final size:41
Alignment explanation
Indices: 30950477--30950555 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
30950467 ATTTTATTGA
*
30950477 AAACGCCACAAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
1 AAACGCCACAAAAAACTGAACAATAGCGGCGTTTTTGGTCC
* * *
30950518 AAACGCCGCGAAAAACTGAACAATAGCGGTGTTTTTGG
1 AAACGCCACAAAAAACTGAACAATAGCGGCGTTTTTGG
30950556 AAAAACGCCG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (41 bp):
AAACGCCACAAAAAACTGAACAATAGCGGCGTTTTTGGTCC
Found at i:30950585 original size:40 final size:40
Alignment explanation
Indices: 30950541--30950771 Score: 293
Period size: 40 Copynumber: 5.7 Consensus size: 40
30950531 AACTGAACAA
* *
30950541 TAGCGGTGTTTTTGGAAAAACGCCGCTATTGCTCAGTTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATTGCTCAGTTTT
* * * *
30950581 TAGCGGTGCTTTT-GAAAAACCGCCGCTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAA-CGCCGCTATTGCTC-AGTTTT
*
30950622 TAGCAGCGCTTTTGGAAAAACGCCGCTATTGCTCAGTTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATTGCTCAGTTTT
* * * * * *
30950662 TAGCGGGGCTTTTGGAAAAACACCACTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATTGCTC-AGTTTT
* *
30950703 TAGCGGCGCTTTTGGAAAAACACCGCTATTACTCAGTTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATTGCTCAGTTTT
30950743 TAGCGGCGCTTTTGGAAAAACGCCGCTAT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTAT
30950772 AGATTGAGGT
Statistics
Matches: 164, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
39 6 0.04
40 90 0.55
41 62 0.38
42 6 0.04
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (40 bp):
TAGCGGCGCTTTTGGAAAAACGCCGCTATTGCTCAGTTTT
Found at i:30950635 original size:81 final size:81
Alignment explanation
Indices: 30950550--30950783 Score: 380
Period size: 81 Copynumber: 2.9 Consensus size: 81
30950540 ATAGCGGTGT
*
30950550 TTTTGGAAAAACGCCGCTATTGCTCAGTTTTTAGCGGTGCTTTT-GAAAAACCGCCGCTATAGAT
1 TTTTGGAAAAACGCCGCTATTGCTCAGTTTTTAGCGGCGCTTTTGGAAAAA-CGCCGCTATAGAT
30950614 CGAGGTTTTAGCAGCGC
65 CGAGGTTTTAGCAGCGC
* * *
30950631 TTTTGGAAAAACGCCGCTATTGCTCAGTTTTTAGCGGGGCTTTTGGAAAAACACCACTATAGATC
1 TTTTGGAAAAACGCCGCTATTGCTCAGTTTTTAGCGGCGCTTTTGGAAAAACGCCGCTATAGATC
*
30950696 GAGGTTTTAGCGGCGC
66 GAGGTTTTAGCAGCGC
* * *
30950712 TTTTGGAAAAACACCGCTATTACTCAGTTTTTAGCGGCGCTTTTGGAAAAACGCCGCTATAGATT
1 TTTTGGAAAAACGCCGCTATTGCTCAGTTTTTAGCGGCGCTTTTGGAAAAACGCCGCTATAGATC
30950777 GAGGTTT
66 GAGGTTT
30950784 AGGGTTTAGA
Statistics
Matches: 142, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
81 136 0.96
82 6 0.04
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (81 bp):
TTTTGGAAAAACGCCGCTATTGCTCAGTTTTTAGCGGCGCTTTTGGAAAAACGCCGCTATAGATC
GAGGTTTTAGCAGCGC
Found at i:30951941 original size:15 final size:14
Alignment explanation
Indices: 30951921--30951969 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 14
30951911 AAATCTTCAA
30951921 AAAAATTGAAAAATT
1 AAAAATT-AAAAATT
30951936 AAAAATTAAAAATT
1 AAAAATTAAAAATT
30951950 AAAAACTTAAAAACTT
1 AAAAA-TTAAAAA-TT
30951966 AAAA
1 AAAA
30951970 TTTTAATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
14 12 0.38
15 14 0.44
16 6 0.19
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.24
Consensus pattern (14 bp):
AAAAATTAAAAATT
Found at i:30951946 original size:6 final size:7
Alignment explanation
Indices: 30951921--30951969 Score: 71
Period size: 8 Copynumber: 6.6 Consensus size: 7
30951911 AAATCTTCAA
30951921 AAAAATT
1 AAAAATT
30951928 GAAAAATT
1 -AAAAATT
30951936 AAAAATT
1 AAAAATT
30951943 AAAAATT
1 AAAAATT
30951950 AAAAACTT
1 AAAAA-TT
30951958 AAAAACTT
1 AAAAA-TT
30951966 AAAA
1 AAAA
30951970 TTTTAATATT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
7 19 0.47
8 21 0.52
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.24
Consensus pattern (7 bp):
AAAAATT
Found at i:30951971 original size:22 final size:22
Alignment explanation
Indices: 30951921--30951969 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
30951911 AAATCTTCAA
30951921 AAAAATTGAAAAATTAAAAATT
1 AAAAATTGAAAAATTAAAAATT
30951943 AAAAATT-AAAAACTTAAAAACTT
1 AAAAATTGAAAAA-TTAAAAA-TT
30951966 AAAA
1 AAAA
30951970 TTTTAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 5 0.20
22 14 0.56
23 6 0.24
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.24
Consensus pattern (22 bp):
AAAAATTGAAAAATTAAAAATT
Found at i:30956782 original size:21 final size:21
Alignment explanation
Indices: 30956756--30956798 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
30956746 CAAGGGAACA
30956756 AGCAGTTCAAGATCTGGAGGT
1 AGCAGTTCAAGATCTGGAGGT
30956777 AGCAGTTCAAGATCTGGAGGT
1 AGCAGTTCAAGATCTGGAGGT
30956798 A
1 A
30956799 AGGTATGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.23
Consensus pattern (21 bp):
AGCAGTTCAAGATCTGGAGGT
Found at i:30959003 original size:25 final size:26
Alignment explanation
Indices: 30958966--30959035 Score: 108
Period size: 25 Copynumber: 2.8 Consensus size: 26
30958956 CTCTTTTAAT
30958966 AACTGGGGCAAAGCCCTTTTT-GATA
1 AACTGGGGCAAAGCCCTTTTTCGATA
* *
30958991 AATTGGGGCAAAG-CCTTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTCGATA
30959016 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
30959036 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
24 7 0.17
25 27 0.68
26 6 0.15
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTTCGATA
Found at i:30959269 original size:27 final size:27
Alignment explanation
Indices: 30959239--30959401 Score: 186
Period size: 27 Copynumber: 6.0 Consensus size: 27
30959229 AAAGAAAAAT
* *
30959239 GGTAATTTTACGCC-ACAAGGGTATCTC
1 GGTAATTCTAC-CCTACAAGGGTATTTC
* *
30959266 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
30959293 GGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
30959320 GGTAATTCTACCCCACATGGGGTATTTT
1 GGTAATTCTACCCTACA-AGGGTATTTC
* *
30959348 AGTAATTCTACCCTACAGGGGTATTT-
1 GGTAATTCTACCCTACAAGGGTATTTC
*
30959374 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
30959401 G
1 G
30959402 ATATTTTACA
Statistics
Matches: 119, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
26 27 0.23
27 69 0.58
28 23 0.19
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:30959322 original size:54 final size:54
Alignment explanation
Indices: 30959253--30959407 Score: 213
Period size: 54 Copynumber: 2.9 Consensus size: 54
30959243 ATTTTACGCC
* *
30959253 ACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCT
* * ** *
30959307 ATAAGGGTATTTCGGTAATTCTACCCCACATGGGGTATTTTAGTAATTCTACCCT
1 ACAAGGGTATTTCGGTAATTCTACCCTACA-GGGGTATTTCGGTATTTCTACCCT
* *
30959362 ACAGGGGTATTT-GGTAATTCTACCCTACAGGGGTATTTCGATATTT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTT
30959408 TACAAATCGA
Statistics
Matches: 86, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
53 13 0.15
54 42 0.49
55 31 0.36
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (54 bp):
ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCT
Found at i:30959423 original size:26 final size:26
Alignment explanation
Indices: 30959394--30959467 Score: 121
Period size: 26 Copynumber: 2.8 Consensus size: 26
30959384 CCCTACAGGG
30959394 GTATTTCGATATTTTACAAATCGAGA
1 GTATTTCGATATTTTACAAATCGAGA
30959420 GTATTTCGATATTTTACAAATCGAGA
1 GTATTTCGATATTTTACAAATCGAGA
* *
30959446 GTATTTTGATAATTTCACAAAT
1 GTATTTCGAT-ATTTTACAAAT
30959468 TAGGGGTAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
26 35 0.78
27 10 0.22
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.41
Consensus pattern (26 bp):
GTATTTCGATATTTTACAAATCGAGA
Found at i:30959480 original size:27 final size:26
Alignment explanation
Indices: 30959364--30959570 Score: 118
Period size: 27 Copynumber: 7.8 Consensus size: 26
30959354 TCTACCCTAC
* * **
30959364 AGGGGTATTTGGTAATTCTACCCTAC-
1 AGGGGTATTTGATAATTTTA-CAAACT
30959390 AGGGGTATTTCGAT-ATTTTACAAA-T
1 AGGGGTATTT-GATAATTTTACAAACT
* *
30959415 CGAGAGTATTTCGAT-ATTTTACAAA-T
1 AG-GGGTATTT-GATAATTTTACAAACT
* * * *
30959441 CGAGAGTATTTTGATAATTTCACAAATT
1 AG-GGGTA-TTTGATAATTTTACAAACT
* *
30959469 AGGGGTAGTTTGGTAATTTTATAAACT
1 AGGGGTA-TTTGATAATTTTACAAACT
* * *
30959496 AGTGGTATTTTGGTAATTTTACAAACC
1 AGGGGTA-TTTGATAATTTTACAAACT
* *
30959523 AGGGGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTGA-TAATTTTACAAACT
* *
30959550 ATGGGTATTTTGGTAATTTTA
1 AGGGGTA-TTTGATAATTTTA
30959571 TTAATCGAGG
Statistics
Matches: 149, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
25 3 0.02
26 51 0.34
27 90 0.60
28 5 0.03
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (26 bp):
AGGGGTATTTGATAATTTTACAAACT
Found at i:30959531 original size:81 final size:81
Alignment explanation
Indices: 30959430--30959622 Score: 228
Period size: 81 Copynumber: 2.4 Consensus size: 81
30959420 GTATTTCGAT
* * * **
30959430 ATTTTACAAATCGAGAGTATTTT-GATAATTTCACAAATTAGGGGTAGTTTGGTAATTTTA-TAA
1 ATTTTACAAACCAAGGGTATTTTAG-TAATTTCACAAACCAGGGGTAGTTTGGTAATTTTATTAA
*
30959493 ACTAGTGGTATTTTGGTA
65 ACGAG-GGTATTTTGGTA
* * * * *
30959511 ATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCATGGGTATTTTGGTAATTTTATTAAT
1 ATTTTACAAACCAAGGGTATTTTAGTAATTTCACAAACCAGGGGTAGTTTGGTAATTTTATTAAA
30959576 CGAGGGTATTTTGGTA
66 CGAGGGTATTTTGGTA
** *
30959592 ATTTTGTAAACCAAGGGTATTTCAGTAATTT
1 ATTTTACAAACCAAGGGTATTTTAGTAATTT
30959623 TGTAAATTGA
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
81 88 0.93
82 7 0.07
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (81 bp):
ATTTTACAAACCAAGGGTATTTTAGTAATTTCACAAACCAGGGGTAGTTTGGTAATTTTATTAAA
CGAGGGTATTTTGGTA
Found at i:30959557 original size:54 final size:53
Alignment explanation
Indices: 30959446--30959623 Score: 196
Period size: 54 Copynumber: 3.3 Consensus size: 53
30959436 CAAATCGAGA
* * * * *
30959446 GTATTTTGATAATTTCACAAATTAGGGGTAGTTTGGTAATTTTATAAACTAGTG
1 GTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTATAAACCAG-G
* * *
30959500 GTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCATGG
1 GTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTATAAACCA-GG
** *
30959554 GTATTTTGGTAATTTTATTAATC-GAGGGTATTTTGGTAATTTTGTAAACCAAGG
1 GTATTTTGGTAATTTTACAAATCAG-GGGTATTTTGGTAATTTTATAAACC-AGG
**
30959608 GTATTTCAGTAATTTT
1 GTATTTTGGTAATTTT
30959624 GTAAATTGAG
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
53 1 0.01
54 102 0.97
55 2 0.02
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (53 bp):
GTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTATAAACCAGG
Found at i:30959624 original size:27 final size:27
Alignment explanation
Indices: 30959471--30959628 Score: 174
Period size: 27 Copynumber: 5.9 Consensus size: 27
30959461 CACAAATTAG
* *
30959471 GGGTAGTTTGGTAATTTTATAAA-CTA
1 GGGTATTTTGGTAATTTTATAAACCAA
* *
30959497 GTGGTATTTTGGTAATTTTACAAACCAG
1 G-GGTATTTTGGTAATTTTATAAACCAA
* * *
30959525 GGGTATTTTAGTAATTTTACAAACCAT
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
30959552 GGGTATTTTGGTAATTTTATTAATCGA
1 GGGTATTTTGGTAATTTTATAAACCAA
*
30959579 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
** *
30959606 GGGTATTTCAGTAATTTTGTAAA
1 GGGTATTTTGGTAATTTTATAAA
30959629 TTGAGGGTAA
Statistics
Matches: 112, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 109 0.97
28 2 0.02
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:30959635 original size:27 final size:27
Alignment explanation
Indices: 30959392--30959925 Score: 145
Period size: 27 Copynumber: 19.9 Consensus size: 27
30959382 TACCCTACAG
* **
30959392 GGGTATTTCGAT-ATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTGTAAATCGA
* * **
30959418 GAGTATTTCGAT-ATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTGTAAATCGA
* * * *** *
30959444 GAGTATTTTGATAATTTCACAAAT-TA
1 GGGTATTTCGGTAATTTTGTAAATCGA
* *
30959470 GGGGTAGTTT-GGTAATTTTATAAA-CTA
1 -GGGTA-TTTCGGTAATTTTGTAAATCGA
* ** *
30959497 GTGGTATTTTGGTAATTTTACAAA-CCA
1 G-GGTATTTCGGTAATTTTGTAAATCGA
** ** *
30959524 GGGGTATTTTAGTAATTTTACAAA-CCA
1 -GGGTATTTCGGTAATTTTGTAAATCGA
* * *
30959551 TGGGTATTTTGGTAATTTTATTAATCGA
1 -GGGTATTTCGGTAATTTTGTAAATCGA
* * *
30959579 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCGGTAATTTTGTAAATCGA
* *
30959606 GGGTATTTCAGTAATTTTGTAAATTGA
1 GGGTATTTCGGTAATTTTGTAAATCGA
*** * *
30959633 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTATTTCGGTAATTTTGTAAATCGA
*** * *
30959660 GGGTAAAACGGTAATTCTGTAAATTGA
1 GGGTATTTCGGTAATTTTGTAAATCGA
** * * *
30959687 GGGTAAAAT-GGTAATTCTATAAATCAA
1 GGGT-ATTTCGGTAATTTTGTAAATCGA
*** * * *
30959714 GGGTAAAACGATAATTCTATAAATCGA
1 GGGTATTTCGGTAATTTTGTAAATCGA
** * *
30959741 GGGTAAAAT-GGTAATTCTATAAATCGA
1 GGGT-ATTTCGGTAATTTTGTAAATCGA
* *** * *
30959768 GAGTAAAACGGTAATTCTATAAATCGA
1 GGGTATTTCGGTAATTTTGTAAATCGA
*** * *
30959795 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTATTTCGGTAATTTTGTAAATCGA
** * *
30959822 GGGTAAAAT-GGTAACTCTGTAAATCGA
1 GGGT-ATTTCGGTAATTTTGTAAATCGA
*** *
30959849 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTATTTCGGTAATTTTGTAAATCGA
* ** *
30959876 TGGTACTTT-GGTAATTTTACAAATTGA
1 GGGTA-TTTCGGTAATTTTGTAAATCGA
* * * *
30959903 AGGCATTTCAGTAATTTGGTAAA
1 GGGTATTTCGGTAATTTTGTAAA
30959926 CTAAAGTATT
Statistics
Matches: 429, Mismatches: 63, Indels: 31
0.82 0.12 0.06
Matches are distributed among these distances:
26 53 0.12
27 361 0.84
28 15 0.03
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.35
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTGTAAATCGA
Found at i:30959889 original size:54 final size:54
Alignment explanation
Indices: 30959616--30959880 Score: 386
Period size: 54 Copynumber: 4.9 Consensus size: 54
30959606 GGGTATTTCA
* * * *
30959616 GTAATTTTGTAAATTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
* * *
30959670 GTAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
* * * *
30959724 ATAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGAGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
* *
30959778 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
* * *
30959832 GTAACTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGATGGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
30959881 CTTTGGTAAT
Statistics
Matches: 193, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 193 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
Found at i:30959891 original size:81 final size:81
Alignment explanation
Indices: 30959561--30959880 Score: 397
Period size: 81 Copynumber: 4.0 Consensus size: 81
30959551 TGGGTATTTT
* * *** * * * *** * * *
30959561 GGTAATTTTATTAATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGT
1 GGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT
*
30959626 AAATTGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* * * * *
30959642 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAATGGTAATTCTAT
1 GGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT
*
30959707 AAATCAAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* * *
30959723 GATAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGAGTAAAACGGTAATTCTAT
1 GGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT
30959788 AAATCGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* *
30959804 GGTAATTCTATAAATCGAGGGTAAAATGGTAACTCTGTAAATCGAGGGTAAAACGGTAATTCTGT
1 GGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT
*
30959869 AAATCGATGGTA
66 AAATCGAGGGTA
30959881 CTTTGGTAAT
Statistics
Matches: 203, Mismatches: 36, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 203 1.00
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (81 bp):
GGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT
AAATCGAGGGTAAAAC
Found at i:30962557 original size:27 final size:27
Alignment explanation
Indices: 30962528--30962661 Score: 189
Period size: 27 Copynumber: 5.0 Consensus size: 27
30962518 GGGGAAAAAT
* *
30962528 GGTAATTTTACCCCACAAGGGTATCTT-
1 GGTAATTCTACCCTACAAGGGTAT-TTC
*
30962555 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
30962582 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
30962609 GGTAATTCTGCCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
30962636 AGTAATTCTACCCTACAAGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
30962662 TGATAATTTG
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
26 2 0.02
27 93 0.98
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:30962669 original size:54 final size:54
Alignment explanation
Indices: 30962529--30962669 Score: 210
Period size: 54 Copynumber: 2.6 Consensus size: 54
30962519 GGGAAAAATG
* * * *
30962529 GTAATTTTACCCCACAAGGGTATCTTGGTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCA
* * *
30962583 GTATTTCTACCCTACAAGGGTATTTCGGTAATTCTGCCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCA
*
30962637 GTAATTCTACCCTACAAGGGTATTTTGATAATT
1 GTAATTCTACCCTACAAGGGTATTTTGGTAATT
30962670 TGCAAATCTA
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 77 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:30962712 original size:27 final size:27
Alignment explanation
Indices: 30962654--30962804 Score: 148
Period size: 27 Copynumber: 5.6 Consensus size: 27
30962644 TACCCTACAA
* *
30962654 GGGTATTTTGATAATTTGCA-AATCTA-
1 GGGTATTTTGATAATTT-CACAAACCAG
* * *
30962680 GAGTATTTCGATAATTTCACAAATCAG
1 GGGTATTTTGATAATTTCACAAACCAG
*
30962707 GGGTATTTT-AGTAATTTCACAAGCCAG
1 GGGTATTTTGA-TAATTTCACAAACCAG
* * *
30962734 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGATAATTTCACAAACCAG
*
30962761 GGGTATTTT-AGTAATTTTACAAACCAG
1 GGGTATTTTGA-TAATTTCACAAACCAG
*
30962788 GGGTATTTTGGTAATTT
1 GGGTATTTTGATAATTT
30962805 TACTGATCGA
Statistics
Matches: 103, Mismatches: 16, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
25 2 0.02
26 19 0.18
27 82 0.80
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGATAATTTCACAAACCAG
Found at i:30962794 original size:81 final size:81
Alignment explanation
Indices: 30962653--30962859 Score: 222
Period size: 81 Copynumber: 2.6 Consensus size: 81
30962643 CTACCCTACA
* * * * * * *
30962653 AGGGTATTTTGATAA-TTTGCAAATCTAGAGTATTTC-GATAATTTCACAAATCAGGGGTATTTT
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAG-TAATTTTACAAACCAGGGGTATTTT
30962716 AGTAATTTCAC-AAGCC
65 AGTAATTTCACTAAGCC
* * *
30962732 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTT
1 A-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACCAGGGGTATTTT
* * * * *
30962797 GGTAATTTTACTGATCG
65 AGTAATTTCACTAAGCC
**
30962814 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTT
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTT
30962860 GTAAATTGAG
Statistics
Matches: 104, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
79 1 0.01
80 13 0.12
81 86 0.83
82 4 0.04
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.40
Consensus pattern (81 bp):
AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACCAGGGGTATTTTA
GTAATTTCACTAAGCC
Found at i:30962864 original size:27 final size:27
Alignment explanation
Indices: 30962691--30962859 Score: 187
Period size: 27 Copynumber: 6.3 Consensus size: 27
30962681 AGTATTTCGA
* *
30962691 TAATTTCACAAATCAGGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTAG
* * *
30962718 TAATTTCACAAGCCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTAG
*
30962745 TAATTTTACAAACTAGGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTAG
*
30962772 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTAG
** * *
30962799 TAATTTTACTGATC-GAGGGTATTTTGG
1 TAATTTTACAAACCAG-GGGTATTTTAG
** * *
30962826 TAATTTTGTAAACCAAGGGTATTTCAG
1 TAATTTTACAAACCAGGGGTATTTTAG
30962853 TAATTTT
1 TAATTTT
30962860 GTAAATTGAG
Statistics
Matches: 120, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.01
27 119 0.99
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
TAATTTTACAAACCAGGGGTATTTTAG
Found at i:30962871 original size:27 final size:27
Alignment explanation
Indices: 30962824--30963036 Score: 255
Period size: 27 Copynumber: 7.9 Consensus size: 27
30962814 AGGGTATTTT
* * ***
30962824 GGTAATTTTGTAAACCAAGGGTATTTC
1 GGTAATTTTGTAAATCGAGGGTAAAAC
* *
30962851 AGTAATTTTGTAAATTGAGGGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAAC
* * *
30962878 AGTAATTCTGTAAATCGAGGGTAAAGC
1 GGTAATTTTGTAAATCGAGGGTAAAAC
*
30962905 GGTAATTCTGTAAATCGAGGGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAAC
*
30962932 GGTAATTTTGTAAATCAAGGGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAAC
* * *
30962959 GATAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAAC
* *
30962986 GGTAATTTTGTGAATCGAGGGTAAAAAT
1 GGTAATTTTGTAAATCGAGGGT-AAAAC
*
30963014 GGTAATTCTGTAAATCGAGGGTA
1 GGTAATTTTGTAAATCGAGGGTA
30963037 CTTTGGTAAT
Statistics
Matches: 160, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
27 136 0.85
28 24 0.15
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.30
Consensus pattern (27 bp):
GGTAATTTTGTAAATCGAGGGTAAAAC
Found at i:30962873 original size:54 final size:54
Alignment explanation
Indices: 30962627--30962859 Score: 165
Period size: 54 Copynumber: 4.3 Consensus size: 54
30962617 TGCCCTACAG
* * * * *
30962627 GGGTATTTCAGTAATTCTACCCT-A-CAAGGGTATTTT-GATAA-TTTGCAAATCTA
1 GGGTATTTCAGTAATTTTA--CTAATCGAGGGTATTTTAG-TAATTTTACAAACCAA
* * * * * *
30962680 GAGTATTTC-GATAATTTCACAAATC-AGGGGTATTTTAGTAATTTCACAAGCCAG
1 GGGTATTTCAG-TAATTTTACTAATCGA-GGGTATTTTAGTAATTTTACAAACCAA
** * * *
30962734 GGGTATTTTGGTAATTTTAC-AAACTAGGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTACTAATCGA-GGGTATTTTAGTAATTTTACAAACCAA
** * * **
30962788 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCAGTAATTTTACTAATCGAGGGTATTTTAGTAATTTTACAAACCAA
30962842 GGGTATTTCAGTAATTTT
1 GGGTATTTCAGTAATTTT
30962860 GTAAATTGAG
Statistics
Matches: 146, Mismatches: 25, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
51 1 0.01
52 3 0.02
53 30 0.21
54 108 0.74
55 4 0.03
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACTAATCGAGGGTATTTTAGTAATTTTACAAACCAA
Found at i:30966553 original size:10 final size:10
Alignment explanation
Indices: 30966540--30966586 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
30966530 TAAATAATAT
*
30966540 TATTATATCA
1 TATTATATTA
*
30966550 TATTTTAAATTA
1 TATTAT-A-TTA
30966562 TATTA-ATTA
1 TATTATATTA
30966571 TATTATATTA
1 TATTATATTA
30966581 TATTAT
1 TATTAT
30966587 TATAAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
9 8 0.26
10 16 0.52
11 1 0.03
12 6 0.19
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (10 bp):
TATTATATTA
Found at i:30966566 original size:5 final size:5
Alignment explanation
Indices: 30966558--30966586 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
30966548 CATATTTTAA
30966558 ATTAT ATTA- ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
30966587 TATAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:30966578 original size:26 final size:25
Alignment explanation
Indices: 30966529--30966579 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
30966519 TGGTTAAATA
30966529 TTAAATAATATTATTATATCATATT
1 TTAAATAATATTATTATATCATATT
* *
30966554 TTAAATTATATTAATTATATTATATT
1 TTAAATAATATT-ATTATATCATATT
30966580 ATATTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
TTAAATAATATTATTATATCATATT
Found at i:30967100 original size:3 final size:3
Alignment explanation
Indices: 30967092--30967132 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
30967082 ATTTATCATA
* *
30967092 ATT ATT ATT ATA ATGT ATT ATA ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT A
30967133 ACTAATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 31 0.94
4 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:30967141 original size:28 final size:28
Alignment explanation
Indices: 30967092--30967147 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
30967082 ATTTATCATA
* *
30967092 ATTATTATTATAATGTATTATAATTATT
1 ATTATTATTATAATCTAATATAATTATT
*
30967120 ATTATTATTATTAA-CTAATATATTTATT
1 ATTATTATTA-TAATCTAATATAATTATT
30967148 TATATAAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 21 0.88
29 3 0.12
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (28 bp):
ATTATTATTATAATCTAATATAATTATT
Found at i:30970973 original size:99 final size:100
Alignment explanation
Indices: 30970802--30971002 Score: 323
Period size: 99 Copynumber: 2.0 Consensus size: 100
30970792 TAACGCTTTT
* * * *
30970802 GCTTTGTACCTTAGTGAAATAAAGATGTATTGTGACTTGCGAGAATTGTATTAGTGGCTAGGGAT
1 GCTTTGCACCTTAGTGAAATAAAGATGTATTGTGACCTACGAGAATTGTATTAGTGGCCAGGGAT
*
30970867 GCAGAAAGATATAGTTGAA-TGTTAGTAAATCCCC
66 GAAGAAAGATATAGTTGAATTGTTAGTAAATCCCC
*
30970901 GCTTTGCACCTTGGTGAAATAAAGATGTATTGTGACCTACGAGAATTGTATTAGTGGCCAGGGAT
1 GCTTTGCACCTTAGTGAAATAAAGATGTATTGTGACCTACGAGAATTGTATTAGTGGCCAGGGAT
*
30970966 GAAGAAAGATATAGTTGAATTTGTTAGTAAATGCCC
66 GAAGAAAGATATAGTTGAA-TTGTTAGTAAATCCCC
30971002 G
1 G
30971003 ACTTGTCAGT
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
99 78 0.84
101 15 0.16
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.31
Consensus pattern (100 bp):
GCTTTGCACCTTAGTGAAATAAAGATGTATTGTGACCTACGAGAATTGTATTAGTGGCCAGGGAT
GAAGAAAGATATAGTTGAATTGTTAGTAAATCCCC
Found at i:30972465 original size:5 final size:5
Alignment explanation
Indices: 30972450--30972515 Score: 66
Period size: 5 Copynumber: 13.4 Consensus size: 5
30972440 TGTTGGTTAA
* * *
30972450 ATATT AAATT ATA-T -TATT ATATCAT ATTTT AAATT ATATT A-ATT ATATT
1 ATATT ATATT ATATT ATATT ATAT--T ATATT ATATT ATATT ATATT ATATT
30972499 ATATT ATATT ATATT AT
1 ATATT ATATT ATATT AT
30972516 TATAAATAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
3 2 0.04
4 6 0.12
5 38 0.76
7 4 0.08
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:30973034 original size:3 final size:3
Alignment explanation
Indices: 30973020--30973059 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
30973010 AAATAGATAT
* *
30973020 TTA TTA TAA TTA TTA TTA TAA TGTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
30973060 ACTAATATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 30 0.94
4 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:30975751 original size:38 final size:38
Alignment explanation
Indices: 30975668--30975821 Score: 184
Period size: 38 Copynumber: 4.0 Consensus size: 38
30975658 GAATCCAGTC
* * *
30975668 ACCAGCACAAAACCTGCGGGACTTTAAGCTCAG-ATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-C-CCGTATATAAT
* * * *
30975708 ACCAGCACTAGGCCTGCAGGATTTAACCCATATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGTATATAAT
* *
30975746 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGTATATAAT
*
30975784 ACCAGCACGAAGCGTGCGGGATTTAACCCGTATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGTATATAAT
30975822 TCTAGCATAT
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
37 1 0.01
38 75 0.77
39 5 0.05
40 17 0.17
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.21
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGTATATAAT
Found at i:30975806 original size:76 final size:78
Alignment explanation
Indices: 30975668--30975857 Score: 204
Period size: 76 Copynumber: 2.5 Consensus size: 78
30975658 GAATCCAGTC
* * *
30975668 ACCAGCACAAAACCTGCGGGACTTTAAGCTCAGATATAATACCAGCACTAGGCCTGCAGGATTTA
1 ACCAGCACAAAACCTGCGGGACTTTAAGCCCAGATATAATACCAGCACGAAGCCTGCAGGATTTA
30975733 ACCCATATATAAT
66 ACCCATATATAAT
* * * * * *
30975746 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATATTACCAGCACGAAGCGTGCGGGATTTA
1 ACCAGCACAAAACCTGCGGGACTTTAAGCCCAGATATAATACCAGCACGAAGCCTGCAGGATTTA
*
30975809 ACCCGTATATAAT
66 ACCCATATATAAT
* * * * * * * *
30975822 TCTAGCATATAGCCTGCGGGTCCTTAAGCCCGGATA
1 ACCAGCACAAAACCTGCGGGACTTTAAGCCCAGATA
30975858 CACATCAAAT
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
76 57 0.61
77 9 0.10
78 27 0.29
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (78 bp):
ACCAGCACAAAACCTGCGGGACTTTAAGCCCAGATATAATACCAGCACGAAGCCTGCAGGATTTA
ACCCATATATAAT
Found at i:30975840 original size:38 final size:38
Alignment explanation
Indices: 30975669--30975841 Score: 163
Period size: 38 Copynumber: 4.5 Consensus size: 38
30975659 AATCCAGTCA
* * * *
30975669 CCAGCACAAAACCTGCGGGACTTTAAGCTCAG-ATATAATA
1 CCAGCACGAAGCCTGCGGGA-TTTAA-C-CCGTATATAATT
* * * * *
30975709 CCAGCACTAGGCCTGCAGGATTTAACCCATATATAATA
1 CCAGCACGAAGCCTGCGGGATTTAACCCGTATATAATT
*
30975747 CCAGCACGAAGCCTGCGGGATTTAACCCGGATAT-ATT
1 CCAGCACGAAGCCTGCGGGATTTAACCCGTATATAATT
*
30975784 ACCAGCACGAAGCGTGCGGGATTTAACCCGTATATAATT
1 -CCAGCACGAAGCCTGCGGGATTTAACCCGTATATAATT
* *
30975823 CTAGCA-TATAGCCTGCGGG
1 CCAGCACGA-AGCCTGCGGG
30975842 TCCTTAAGCC
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
37 4 0.04
38 84 0.75
39 8 0.07
40 16 0.14
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.22
Consensus pattern (38 bp):
CCAGCACGAAGCCTGCGGGATTTAACCCGTATATAATT
Found at i:30978708 original size:18 final size:18
Alignment explanation
Indices: 30978685--30978726 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
30978675 GGTAAGACCG
30978685 AATTTTCTCCTAA-ATTCT
1 AATTTTCTCCTAATATT-T
* *
30978703 AATTTTGTTCTAATATTT
1 AATTTTCTCCTAATATTT
30978721 AATTTT
1 AATTTT
30978727 TTAATTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.29, C:0.12, G:0.02, T:0.57
Consensus pattern (18 bp):
AATTTTCTCCTAATATTT
Found at i:30979894 original size:28 final size:28
Alignment explanation
Indices: 30979843--30979928 Score: 140
Period size: 27 Copynumber: 3.1 Consensus size: 28
30979833 CATGGCTGCT
*
30979843 AGAAACAGATA-TTGTGGCAAAGCCACC
1 AGAAACAGATATTTGTGGCAGAGCCACC
30979870 AGAAACAGATATTTGTGGCAGAGCCACC
1 AGAAACAGATATTTGTGGCAGAGCCACC
*
30979898 AG-ATCAGATATTTGTGGCAGAGCCACC
1 AGAAACAGATATTTGTGGCAGAGCCACC
30979925 AGAA
1 AGAA
30979929 CGCTTCCTCC
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
27 37 0.67
28 18 0.33
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.17
Consensus pattern (28 bp):
AGAAACAGATATTTGTGGCAGAGCCACC
Found at i:30980942 original size:25 final size:22
Alignment explanation
Indices: 30980888--30980942 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 22
30980878 TTTCGGCCAG
30980888 AGAAGAAAAGAAGGAGAAAAGA
1 AGAAGAAAAGAAGGAGAAAAGA
* *
30980910 AAATAGAAGAAGAGAGGAGAAGAGA
1 AGA-AGAA-AAGA-AGGAGAAAAGA
30980935 AGGAAGAA
1 A-GAAGAA
30980943 TTCGGCACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.08
23 4 0.15
24 4 0.15
25 15 0.58
26 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.02
Consensus pattern (22 bp):
AGAAGAAAAGAAGGAGAAAAGA
Found at i:30984181 original size:30 final size:30
Alignment explanation
Indices: 30984139--30984196 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
30984129 ATTTTAGGAT
30984139 TTATTTTCATTTATCTGTAATTATCTTTAA
1 TTATTTTCATTTATCTGTAATTATCTTTAA
* *
30984169 TTATCTTT-ATTTATTTGTATTTATCTTT
1 TTAT-TTTCATTTATCTGTAATTATCTTT
30984197 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.22, C:0.09, G:0.03, T:0.66
Consensus pattern (30 bp):
TTATTTTCATTTATCTGTAATTATCTTTAA
Found at i:30984182 original size:20 final size:20
Alignment explanation
Indices: 30984147--30984196 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
30984137 ATTTATTTTC
*
30984147 ATTTATCTGTAATTATCTT-T
1 ATTTATCTTTAATTAT-TTGT
* *
30984167 AATTATCTTTATTTATTTGT
1 ATTTATCTTTAATTATTTGT
30984187 ATTTATCTTT
1 ATTTATCTTT
30984197 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.24, C:0.08, G:0.04, T:0.64
Consensus pattern (20 bp):
ATTTATCTTTAATTATTTGT
Found at i:30987690 original size:20 final size:19
Alignment explanation
Indices: 30987653--30987694 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
30987643 GCAACCCAAT
*
30987653 TTTATTTATTTTTATTATTA
1 TTTATTAATTTTTATTA-TA
30987673 TTTATTAATTATTT-TTATA
1 TTTATTAATT-TTTATTATA
30987692 TTT
1 TTT
30987695 TGGATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 5 0.25
20 12 0.60
21 3 0.15
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTATTAATTTTTATTATA
Found at i:30990488 original size:26 final size:26
Alignment explanation
Indices: 30990459--30990539 Score: 101
Period size: 26 Copynumber: 3.1 Consensus size: 26
30990449 TTGGCCACAT
* *
30990459 ATACTTATACAGGCAGCTTTGCTGCG
1 ATACTTATACTGGCAGCTTTGTTGCG
30990485 ATAC-TATTACTGGCAGCTTTGTTGCG
1 ATACTTA-TACTGGCAGCTTTGTTGCG
* * *
30990511 TTACTGATACTGGCAGCTTTATTGCG
1 ATACTTATACTGGCAGCTTTGTTGCG
30990537 ATA
1 ATA
30990540 TTGGTGTGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
25 2 0.04
26 44 0.94
27 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (26 bp):
ATACTTATACTGGCAGCTTTGTTGCG
Found at i:30991926 original size:96 final size:97
Alignment explanation
Indices: 30991759--30991939 Score: 247
Period size: 96 Copynumber: 1.9 Consensus size: 97
30991749 TTAAGAATGA
* * * ** *
30991759 GTTGGGCTGAGAAACTGGGGTAAGGTGCTTGGCTGTCATCTCTTTTCGCATCAAAATTTTCGATA
1 GTTGGGCTGAGAAACCGGGGTAAGGTGCTTGGCTGTCATCTCTCTTCACATCAAAAGGTTCAATA
*
30991824 TGTTCTTAAG-AAAAATAAAAATTATGAATAT
66 TATTCTTAAGCAAAAATAAAAATTATGAATAT
* * **
30991855 GTTGGGCTGAGTAACCGGGGTAGGGTGCTTGGCTGTCATCTCTCTTCATGTCAAAAGGTTCAATA
1 GTTGGGCTGAGAAACCGGGGTAAGGTGCTTGGCTGTCATCTCTCTTCACATCAAAAGGTTCAATA
*
30991920 TATTCTTAAGCAACAATAAA
66 TATTCTTAAGCAAAAATAAA
30991940 TAAATAAATA
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
96 64 0.89
97 8 0.11
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (97 bp):
GTTGGGCTGAGAAACCGGGGTAAGGTGCTTGGCTGTCATCTCTCTTCACATCAAAAGGTTCAATA
TATTCTTAAGCAAAAATAAAAATTATGAATAT
Found at i:30991965 original size:16 final size:17
Alignment explanation
Indices: 30991934--30991974 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
30991924 CTTAAGCAAC
30991934 AATAAATAAATAAATAA
1 AATAAATAAATAAATAA
* *
30991951 ATTAAA-AAATTAATAA
1 AATAAATAAATAAATAA
30991967 AATAAATA
1 AATAAATA
30991975 GAAAAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AATAAATAAATAAATAA
Found at i:30992619 original size:10 final size:10
Alignment explanation
Indices: 30992604--30992653 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
30992594 TAATTTTAGG
30992604 ATTTAT-TTT
1 ATTTATCTTT
30992613 CATTTATCTTT
1 -ATTTATCTTT
*
30992624 AATTATCTTT
1 ATTTATCTTT
30992634 ATTTAT-TTGT
1 ATTTATCTT-T
30992644 ATTTATCTTT
1 ATTTATCTTT
30992654 TAGAATTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:30994909 original size:22 final size:22
Alignment explanation
Indices: 30994883--30994927 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
30994873 ATTATATGTA
30994883 TTAATTCATAATATAA-TTAATT
1 TTAATTCAT-ATATAATTTAATT
* *
30994905 TTAATTTATATCTAATTTAATT
1 TTAATTCATATATAATTTAATT
30994927 T
1 T
30994928 GAGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTCATATATAATTTAATT
Found at i:31002295 original size:46 final size:45
Alignment explanation
Indices: 31002245--31002420 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
31002235 TATTTGGGCA
31002245 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
31002291 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
31002338 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
31002384 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31002421 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:31002400 original size:93 final size:93
Alignment explanation
Indices: 31002241--31002412 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
31002231 TGGATATTTG
* *
31002241 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
31002306 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
31002334 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
31002399 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
31002413 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:31005329 original size:15 final size:15
Alignment explanation
Indices: 31005309--31005377 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
31005299 GTATCTTGGG
31005309 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
31005324 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
31005339 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
31005354 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
31005369 TTTCTTTAT
1 TTTCTTTAT
31005378 TCAGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:31005378 original size:30 final size:30
Alignment explanation
Indices: 31005300--31005379 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
31005290 CATAGTATCG
* * *
31005300 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
* *
31005330 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATCTCTC
31005360 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
31005380 AGTTTTCTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 1 0.02
30 41 0.95
31 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:31011350 original size:50 final size:50
Alignment explanation
Indices: 31011250--31011360 Score: 138
Period size: 50 Copynumber: 2.2 Consensus size: 50
31011240 AAAACATTCA
31011250 AGAAATGATTATGTTTTTTTCCAAAATGAAAATTGAGAAAATGGAATCATTT
1 AGAAATGA--ATGTTTTTTTCCAAAATGAAAATTGAGAAAATGGAATCATTT
*
31011302 GGAAATGAATGTGTTTTTTCTCAAAATGAAAA-TGAG-AAAT-GAATTCATTT
1 AGAAATGAATGT-TTTTTTC-CAAAATGAAAATTGAGAAAATGGAA-TCATTT
*
31011352 ACAAATGAA
1 AGAAATGAA
31011361 CAAGGACTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
49 3 0.06
50 21 0.40
51 11 0.21
52 18 0.34
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.34
Consensus pattern (50 bp):
AGAAATGAATGTTTTTTTCCAAAATGAAAATTGAGAAAATGGAATCATTT
Found at i:31020569 original size:48 final size:48
Alignment explanation
Indices: 31020332--31020596 Score: 163
Period size: 47 Copynumber: 5.6 Consensus size: 48
31020322 AGCTCCCGTA
* * * * * *
31020332 TAAGACCATATCTGGGATATGGCTTTGGCAGTGA-CATGTGAT-CCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCA-TCATTATGTGGTCCCATG
* * *
31020379 TAAGACCATGTCTAGGACATGGCTTTGGCATCATTATGTGAT-CCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCATTATGTGGTCCCATG
*** * * ** * * *
31020426 TAAGACCATGTCCAAGCCATGGCATTGGCATCATAAT-AAGACATCGTG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCATTATGTGGTC-CCATG
* * ** * * *
31020474 TAAGA-CAAGAGCTGGGTTAT--CA---ACTTCAATATGTGTGATCCCATG
1 TAAGACCATG-TCTGGGACATGGCATTGGCATCATTATGTG-G-TCCCATG
31020519 TAAGACCATGTCTGGGACATGGCATTGGCATCATTATGTGGTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCATTATGTGGTCCCATG
* *
31020567 TAAGACCATATCTGGGATATGGCATTGGCA
1 TAAGACCATGTCTGGGACATGGCATTGGCA
31020597 CCCTACCTTC
Statistics
Matches: 164, Mismatches: 41, Indels: 25
0.71 0.18 0.11
Matches are distributed among these distances:
43 6 0.04
45 16 0.10
46 8 0.05
47 76 0.46
48 47 0.29
49 1 0.01
50 10 0.06
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATTGGCATCATTATGTGGTCCCATG
Found at i:31025416 original size:69 final size:70
Alignment explanation
Indices: 31025327--31025510 Score: 253
Period size: 69 Copynumber: 2.6 Consensus size: 70
31025317 CGACTATCAG
* * * *
31025327 TGGGTGCAAAACATCATCGATTCGTTTGACTAGTGTTGGGCACATCCATCATCGGTTATCCGACT
1 TGGGTGCAAAACATCGTCGATTCGTTCGACTAGTGTTGGGCACATCCATCATCGGTTACCCAACT
31025392 AGCGC
66 AGCGC
* * * * *
31025397 TTGG-GCAAAACATTGTCGATTCATTCGACAAGTGTTGGGCACATCCATTATCGGTTACCCAACT
1 TGGGTGCAAAACATCGTCGATTCGTTCGACTAGTGTTGGGCACATCCATCATCGGTTACCCAACT
*
31025461 AGTGC
66 AGCGC
* *
31025466 TGGGTGCAAAACATCGTCAATTCGTTCGACTAGTGTTGAGCACAT
1 TGGGTGCAAAACATCGTCGATTCGTTCGACTAGTGTTGGGCACAT
31025511 TAGTATAATT
Statistics
Matches: 97, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
69 59 0.61
70 38 0.39
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (70 bp):
TGGGTGCAAAACATCGTCGATTCGTTCGACTAGTGTTGGGCACATCCATCATCGGTTACCCAACT
AGCGC
Found at i:31027288 original size:24 final size:24
Alignment explanation
Indices: 31027256--31027326 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
31027246 CTGTGAGGAG
31027256 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
31027280 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
31027304 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
31027327 GGAAATCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.35, C:0.01, G:0.38, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:31027338 original size:48 final size:48
Alignment explanation
Indices: 31027256--31027349 Score: 111
Period size: 48 Copynumber: 1.9 Consensus size: 48
31027246 CTGTGAGGAG
** * *
31027256 AGGATTTAGGAGTTGATAAGGGATAGGATTTAGGAGTTGAT-AAGGGAT
1 AGGATTTAGGAGCAGATAAGGGA-AGGATCTAGGAGCTGATCAAGGGAT
31027304 AGGATTTAGGAGCAGATAAGGG-AGGAAATCTAGGAGCTGATCAAGG
1 AGGATTTAGGAGCAGATAAGGGAAGG--ATCTAGGAGCTGATCAAGG
31027350 AACAAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
46 3 0.08
48 32 0.82
49 4 0.10
ACGTcount: A:0.35, C:0.04, G:0.37, T:0.23
Consensus pattern (48 bp):
AGGATTTAGGAGCAGATAAGGGAAGGATCTAGGAGCTGATCAAGGGAT
Found at i:31028803 original size:27 final size:26
Alignment explanation
Indices: 31028744--31028855 Score: 116
Period size: 27 Copynumber: 4.1 Consensus size: 26
31028734 GGAAGCGTCT
* *
31028744 TGGTGGCTATGCCACAAATTATCTGATC
1 TGGTGGCTCTGCCAC--ATTATCTGTTC
31028772 TGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACAT-TATCTGTTC
* * *
31028799 CGGTGGTTCTGCAACGATTATCTGTATC
1 TGGTGGCTCTGCCAC-ATTATCTGT-TC
* *
31028827 TGGTGACTCTGTCACATTATCTGTTC
1 TGGTGGCTCTGCCACATTATCTGTTC
31028853 TGG
1 TGG
31028856 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.10
27 36 0.51
28 28 0.39
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGTTC
Found at i:31034832 original size:17 final size:17
Alignment explanation
Indices: 31034810--31034843 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
31034800 TTGTTAGCTA
*
31034810 ATATATGCTAATTGTTG
1 ATATATGCAAATTGTTG
*
31034827 ATATATTCAAATTGTTG
1 ATATATGCAAATTGTTG
31034844 GATTATAACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (17 bp):
ATATATGCAAATTGTTG
Found at i:31039880 original size:17 final size:17
Alignment explanation
Indices: 31039858--31039891 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
31039848 TTGTTAGCTA
*
31039858 ATATATGCTAATTGTTG
1 ATATATGCAAATTGTTG
*
31039875 ATATATTCAAATTGTTG
1 ATATATGCAAATTGTTG
31039892 GATTATAATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (17 bp):
ATATATGCAAATTGTTG
Found at i:31041674 original size:50 final size:49
Alignment explanation
Indices: 31041560--31041748 Score: 227
Period size: 50 Copynumber: 3.8 Consensus size: 49
31041550 TGAGGTCGCA
* * *
31041560 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT-GGTCACG
* * * **
31041611 TGTGTAGTCCTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT-GGTCACG
* *
31041661 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACG
* *
31041710 TGTGTAGTACTAAGTACAAGCTACTAT-TCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGT-GTACCAGATA
31041749 GCTTTGGCTA
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
48 1 0.01
49 40 0.34
50 44 0.37
51 33 0.28
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACG
Found at i:31045740 original size:28 final size:28
Alignment explanation
Indices: 31045708--31045806 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
31045698 GCAATAAGCC
*
31045708 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
31045736 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
31045764 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
31045793 CGCACACTTAGTGC
1 CGCACACTTAGTGC
31045807 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:31053417 original size:28 final size:28
Alignment explanation
Indices: 31053385--31053483 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
31053375 GCAATAAGCC
*
31053385 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
31053413 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
31053441 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
31053470 CGCACACTTAGTGC
1 CGCACACTTAGTGC
31053484 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:31056085 original size:37 final size:37
Alignment explanation
Indices: 31056044--31056114 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
31056034 GGAAAATACT
*
31056044 CAAGTGAACAAAAGCATTG-TGAGGGTTAAAAGCAAAA
1 CAAGTGAACAAAAGCATGGAT-AGGGTTAAAAGCAAAA
* * *
31056081 CAAGTGGATAAAAGCATGGATATGGTTAAAAGCA
1 CAAGTGAACAAAAGCATGGATAGGGTTAAAAGCA
31056115 TTGGGAGAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 28 0.97
38 1 0.03
ACGTcount: A:0.46, C:0.10, G:0.25, T:0.18
Consensus pattern (37 bp):
CAAGTGAACAAAAGCATGGATAGGGTTAAAAGCAAAA
Found at i:31060467 original size:40 final size:40
Alignment explanation
Indices: 31060408--31060589 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
31060398 TATTCGAATG
31060408 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
31060448 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
31060488 ATATCCGGGCCAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
31060528 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
31060568 ATATCC-GGCTAAATCCCAAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
31060590 TACTTGAGTT
Statistics
Matches: 130, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 13 0.10
40 115 0.88
41 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:31062757 original size:19 final size:19
Alignment explanation
Indices: 31062733--31062770 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
31062723 GGCCGAACCT
*
31062733 GGCGTGTCAGAAAGAAGTG
1 GGCGTGTCACAAAGAAGTG
31062752 GGCGTGTCACAAAGAAGTG
1 GGCGTGTCACAAAGAAGTG
31062771 TTTTTCGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.13, G:0.39, T:0.16
Consensus pattern (19 bp):
GGCGTGTCACAAAGAAGTG
Found at i:31064191 original size:29 final size:28
Alignment explanation
Indices: 31064129--31064201 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
31064119 ACTAGGCCCA
* *
31064129 AGGCCCAATCTCATTCATATGGCCTATT
1 AGGCCCAATCACATTCATATGGCCCATT
31064157 AGGCCCAAATCACATTCATATGGCCCATCT
1 AGGCCC-AATCACATTCATATGGCCCAT-T
31064187 A-GCCCGAATCA-ATTC
1 AGGCCC-AATCACATTC
31064202 CAAGCCATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
28 10 0.25
29 28 0.70
30 2 0.05
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.26
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATT
Found at i:31064431 original size:8 final size:8
Alignment explanation
Indices: 31064418--31064452 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
31064408 ACTTTTAGCT
31064418 TTTCGGCA
1 TTTCGGCA
*
31064426 TTTCGGCT
1 TTTCGGCA
31064434 TTTCGGCA
1 TTTCGGCA
*
31064442 TTTCGGGA
1 TTTCGGCA
31064450 TTT
1 TTT
31064453 GCCGATCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.09, C:0.20, G:0.26, T:0.46
Consensus pattern (8 bp):
TTTCGGCA
Found at i:31064436 original size:16 final size:16
Alignment explanation
Indices: 31064415--31064447 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
31064405 CAGACTTTTA
31064415 GCTTTTCGGCATTTCG
1 GCTTTTCGGCATTTCG
31064431 GCTTTTCGGCATTTCG
1 GCTTTTCGGCATTTCG
31064447 G
1 G
31064448 GATTTGCCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.24, G:0.27, T:0.42
Consensus pattern (16 bp):
GCTTTTCGGCATTTCG
Found at i:31066398 original size:24 final size:25
Alignment explanation
Indices: 31066363--31066412 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 25
31066353 ATCATTTTAA
31066363 TATTAAATTAATA-ACATATTTATCT
1 TATTAAATTAATAGA-ATATTTATCT
31066388 TATTAAA-TAATAGAATATTTATCT
1 TATTAAATTAATAGAATATTTATCT
31066412 T
1 T
31066413 CAAGATAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (25 bp):
TATTAAATTAATAGAATATTTATCT
Found at i:31068198 original size:45 final size:45
Alignment explanation
Indices: 31068134--31068223 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
31068124 TGAAGCTTGA
*
31068134 GATAGTGCTATCGTTTTATTATTTCGTTCCCTAAGGATTCGAATT
1 GATAGTGCTATCGTTTTATTATTTCGATCCCTAAGGATTCGAATT
*
31068179 GATAGTGCTATCGTTTTATTATTTCGATCCCTAAGGATTTGAATT
1 GATAGTGCTATCGTTTTATTATTTCGATCCCTAAGGATTCGAATT
31068224 CCAAGAATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.44
Consensus pattern (45 bp):
GATAGTGCTATCGTTTTATTATTTCGATCCCTAAGGATTCGAATT
Found at i:31071260 original size:12 final size:13
Alignment explanation
Indices: 31071243--31071280 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
31071233 ATCCTGGAAT
31071243 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
31071255 ATTAAGAACACATA
1 ATTAAGAACA-AGA
31071269 ATTAAGAACAAG
1 ATTAAGAACAAG
31071281 TAAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:31074405 original size:25 final size:26
Alignment explanation
Indices: 31074371--31074422 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
31074361 AGTTGTAAAT
31074371 TAGAAAAATCTCTCTAGA-AATTTTC
1 TAGAAAAATCTCTCTAGAGAATTTTC
* *
31074396 TAGAATAATCTCTTTAGAGAATTTTC
1 TAGAAAAATCTCTCTAGAGAATTTTC
31074422 T
1 T
31074423 CTCTACAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (26 bp):
TAGAAAAATCTCTCTAGAGAATTTTC
Found at i:31080793 original size:20 final size:20
Alignment explanation
Indices: 31080768--31080918 Score: 93
Period size: 19 Copynumber: 7.8 Consensus size: 20
31080758 TATAATGATA
*
31080768 CCCCTGATCGTACTTACGTG
1 CCCCTGATTGTACTTACGTG
*
31080788 CCCCTG-TTGTACTT-CGGTA
1 CCCCTGATTGTACTTAC-GTG
*** *
31080807 CCCCTGATCACACTTACGTT
1 CCCCTGATTGTACTTACGTG
31080827 CCCCTG-TTGTACTT-CG-G
1 CCCCTGATTGTACTTACGTG
* * *
31080844 CACCCCTGATTGCACATAGGTG
1 --CCCCTGATTGTACTTACGTG
*
31080866 CCCCT-ATTGTACTT-CGATA
1 CCCCTGATTGTACTTACG-TG
* * *
31080885 CCCCTGATCGCACTTATGTG
1 CCCCTGATTGTACTTACGTG
31080905 CCCCTG-TTGTACTT
1 CCCCTGATTGTACTT
31080919 TGGTACCCCT
Statistics
Matches: 97, Mismatches: 23, Indels: 23
0.68 0.16 0.16
Matches are distributed among these distances:
18 4 0.04
19 45 0.46
20 44 0.45
21 3 0.03
22 1 0.01
ACGTcount: A:0.15, C:0.34, G:0.18, T:0.32
Consensus pattern (20 bp):
CCCCTGATTGTACTTACGTG
Found at i:31080822 original size:39 final size:39
Alignment explanation
Indices: 31080766--31080977 Score: 271
Period size: 39 Copynumber: 5.4 Consensus size: 39
31080756 TATATAATGA
*
31080766 TACCCCTGATCGTACTTACGTGCCCCTGTTGTACTTCGG
1 TACCCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGG
* *
31080805 TACCCCTGATCACACTTACGTTCCCCTGTTGTACTTCGG
1 TACCCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGG
* * * * * *
31080844 CACCCCTGATTGCACATAGGTGCCCCTATTGTACTTCGA
1 TACCCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGG
* *
31080883 TACCCCTGATCGCACTTATGTGCCCCTGTTGTACTTTGG
1 TACCCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGG
* * * *
31080922 TACCCCTAATCGCAATTATGTGCCCCTATTGTACTTCGG
1 TACCCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGG
* *
31080961 TATCCTTGATCGCACTT
1 TACCCCTGATCGCACTT
31080978 TTGTGTCGTG
Statistics
Matches: 147, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 147 1.00
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (39 bp):
TACCCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGG
Found at i:31085350 original size:18 final size:17
Alignment explanation
Indices: 31085318--31085351 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
31085308 AGTTAATAGT
*
31085318 AATAATTAAATTTATTA
1 AATAAATAAATTTATTA
31085335 AATAAATAATATTTATT
1 AATAAATAA-ATTTATT
31085352 TTGGAAACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATAAATAAATTTATTA
Found at i:31088591 original size:22 final size:22
Alignment explanation
Indices: 31088551--31088592 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
31088541 ACCATGTGGC
*
31088551 TAGCCGTGTGACTGGTAAGGTG
1 TAGCCGTGTGACTGATAAGGTG
31088573 TAGCCGTGTGGACT-ATAAGG
1 TAGCCGTGT-GACTGATAAGG
31088593 GCTAAGCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.21, C:0.14, G:0.38, T:0.26
Consensus pattern (22 bp):
TAGCCGTGTGACTGATAAGGTG
Found at i:31092497 original size:17 final size:18
Alignment explanation
Indices: 31092475--31092510 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
31092465 TTTTTTATTT
31092475 TTAAATAAAA-AATAAAA
1 TTAAATAAAAGAATAAAA
31092492 TTAAATAAAAGAATAAAA
1 TTAAATAAAAGAATAAAA
31092510 T
1 T
31092511 GTTATTTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (18 bp):
TTAAATAAAAGAATAAAA
Found at i:31092633 original size:3 final size:3
Alignment explanation
Indices: 31092625--31092663 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
31092615 AGGATTATTG
31092625 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
31092664 AATGTAGAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:31095143 original size:13 final size:13
Alignment explanation
Indices: 31095125--31095149 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31095115 TTGGCAATAT
31095125 TTTTAAAAAGTAC
1 TTTTAAAAAGTAC
31095138 TTTTAAAAAGTA
1 TTTTAAAAAGTA
31095150 TTCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (13 bp):
TTTTAAAAAGTAC
Found at i:31095717 original size:56 final size:56
Alignment explanation
Indices: 31095631--31095758 Score: 247
Period size: 56 Copynumber: 2.3 Consensus size: 56
31095621 TGTGGGAGAG
31095631 GAAAAGCTAAAAATTTTAGCTTCACATTTTCATAAGTGTTTTTCAAAAGCACTTCT
1 GAAAAGCTAAAAATTTTAGCTTCACATTTTCATAAGTGTTTTTCAAAAGCACTTCT
31095687 GAAAAGCTAAAAATTTTAGCTTCACATTTTCATAAGTGTTTTTCAAAAGCACTTCT
1 GAAAAGCTAAAAATTTTAGCTTCACATTTTCATAAGTGTTTTTCAAAAGCACTTCT
*
31095743 GAAAAGCCAAAAATTT
1 GAAAAGCTAAAAATTT
31095759 CAGCCAAAAG
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 71 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (56 bp):
GAAAAGCTAAAAATTTTAGCTTCACATTTTCATAAGTGTTTTTCAAAAGCACTTCT
Found at i:31099496 original size:24 final size:22
Alignment explanation
Indices: 31099454--31099497 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
31099444 TTCACTTTAC
31099454 TTTTCAATAACAAATATTCAAA
1 TTTTCAATAACAAATATTCAAA
*
31099476 TTTTACAATAATCACATATTCA
1 TTTT-CAATAA-CAAATATTCA
31099498 TATCAATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 6 0.32
24 9 0.47
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTTCAATAACAAATATTCAAA
Found at i:31106124 original size:12 final size:12
Alignment explanation
Indices: 31106107--31106132 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31106097 AATATTAGAA
31106107 AATGAAGGAAAG
1 AATGAAGGAAAG
31106119 AATGAAGGAAAG
1 AATGAAGGAAAG
31106131 AA
1 AA
31106133 AGAATATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.08
Consensus pattern (12 bp):
AATGAAGGAAAG
Found at i:31111411 original size:18 final size:18
Alignment explanation
Indices: 31111377--31111411 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31111367 AAATAAACAC
**
31111377 ATAACTATTCATTTAATT
1 ATAACTATTCAAATAATT
31111395 ATAACTATTCAAATAAT
1 ATAACTATTCAAATAAT
31111412 ATTATTTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (18 bp):
ATAACTATTCAAATAATT
Found at i:31114089 original size:2 final size:2
Alignment explanation
Indices: 31114072--31114111 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
31114062 TATAATTATG
*
31114072 AT AT GT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
31114112 GGTTATGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31115834 original size:2 final size:2
Alignment explanation
Indices: 31115827--31115868 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
31115817 GTGACTACTT
31115827 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31115869 GTTCTAGTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31116258 original size:18 final size:18
Alignment explanation
Indices: 31116235--31116274 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
31116225 TGTCACACAG
31116235 CTGTATGGATAATTTTTA
1 CTGTATGGATAATTTTTA
31116253 CTGTATGGATAATTTTTA
1 CTGTATGGATAATTTTTA
31116271 CTGT
1 CTGT
31116275 GATTTGAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.25, C:0.07, G:0.17, T:0.50
Consensus pattern (18 bp):
CTGTATGGATAATTTTTA
Found at i:31120435 original size:28 final size:29
Alignment explanation
Indices: 31120399--31120456 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
31120389 AAATGGAAAA
* *
31120399 TTTTAAATTTTTACT-TATTTTTATAATT
1 TTTTAAATTTCTACTATATTTTTAAAATT
* *
31120427 TTTTTAATTTCTATTATATTTTTAAAATT
1 TTTTAAATTTCTACTATATTTTTAAAATT
31120456 T
1 T
31120457 GAAATTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.67
Consensus pattern (29 bp):
TTTTAAATTTCTACTATATTTTTAAAATT
Found at i:31120500 original size:41 final size:42
Alignment explanation
Indices: 31120424--31120502 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
31120414 TATTTTTATA
* *
31120424 ATTTTTTTAATTTCTATTATATTTTTAAAATTTGAAATTTTT
1 ATTTTTATAATTTCTATTATATTTTTAAAACTTGAAATTTTT
31120466 ATTTTTATAATTT-TA-TA-ATTATTTAATAACTTGAAAT
1 ATTTTTATAATTTCTATTATATT-TTTAA-AACTTGAAAT
31120503 GTAAGATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
39 3 0.09
40 7 0.21
41 11 0.33
42 12 0.36
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (42 bp):
ATTTTTATAATTTCTATTATATTTTTAAAACTTGAAATTTTT
Found at i:31120617 original size:2 final size:2
Alignment explanation
Indices: 31120610--31120653 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
31120600 AGGTTAAATT
31120610 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31120652 TA
1 TA
31120654 AGACACACAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31122129 original size:23 final size:23
Alignment explanation
Indices: 31122047--31122133 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
31122037 CCTGATCAGT
*
31122047 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
31122069 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
31122089 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
* *
31122112 ATATGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
31122134 TCGGTAAAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.63
22 1 0.02
23 18 0.33
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:31122528 original size:15 final size:15
Alignment explanation
Indices: 31122503--31122560 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
31122493 TCATATATAT
31122503 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
31122519 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
31122534 AATAATTTCAATCAA
1 TATAAATTCAATCAA
31122549 TATAAATTCAAT
1 TATAAATTCAAT
31122561 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:31128460 original size:23 final size:23
Alignment explanation
Indices: 31128378--31128464 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
31128368 CCTGATCAGT
*
31128378 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
31128400 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
31128420 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
* *
31128443 ATATGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
31128465 TCGTAAAGCC
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.63
22 1 0.02
23 18 0.33
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:31133063 original size:15 final size:15
Alignment explanation
Indices: 31133043--31133099 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
31133033 CGATGAATTT
31133043 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
31133058 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
31133073 ATTGAATTTATATTG
1 ATTGAATTTATATTG
31133088 ATTGAA-TTATAT
1 ATTGAATTTATAT
31133100 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:31133497 original size:23 final size:23
Alignment explanation
Indices: 31133471--31133557 Score: 74
Period size: 21 Copynumber: 4.0 Consensus size: 23
31133461 GCTTTACCGA
* *
31133471 TCAGGCACTTTATGTGTCATATT
1 TCAGGCACCTCATGTGTCATATT
* *
31133494 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCATATT
* *
31133515 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCATATT
* *
31133537 T-AGGCACTTTATGTGTCATAT
1 TCAGGCACCTCATGTGTCATAT
31133558 ACTGATCAGG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
21 34 0.64
22 2 0.04
23 17 0.32
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCATATT
Found at i:31133518 original size:21 final size:21
Alignment explanation
Indices: 31133494--31133543 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
31133484 GTGTCATATT
31133494 TCAGGCACCTCGTGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
*
31133515 TCAGGCACCTCGTGTGTCGTT
1 TCAGGCACCTCGTGTGTCGTA
*
31133536 TTAGGCAC
1 TCAGGCAC
31133544 TTTATGTGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.14, C:0.28, G:0.28, T:0.30
Consensus pattern (21 bp):
TCAGGCACCTCGTGTGTCGTA
Found at i:31135520 original size:14 final size:15
Alignment explanation
Indices: 31135491--31135529 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
31135481 GTTAGCGAAC
*
31135491 AAAATAAATTAATTAT
1 AAAATAAA-AAATTAT
31135507 -AAATAAAAAATTAT
1 AAAATAAAAAATTAT
31135521 AAAATAAAA
1 AAAATAAAA
31135530 TATGAACAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATAAAAAATTAT
Found at i:31137101 original size:15 final size:14
Alignment explanation
Indices: 31137067--31137108 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
31137057 GAGATGTATC
31137067 AAAAATAAA-AAAT
1 AAAAATAAATAAAT
31137080 AAAAATAAATAATAT
1 AAAAATAAATAA-AT
* *
31137095 AATAATACATAAAT
1 AAAAATAAATAAAT
31137109 GAAATTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.36
14 4 0.16
15 12 0.48
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (14 bp):
AAAAATAAATAAAT
Found at i:31137765 original size:21 final size:21
Alignment explanation
Indices: 31137738--31137786 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
31137728 GAACCTTTAG
31137738 AAAACCCAAATCCCTTTTTTT
1 AAAACCCAAATCCCTTTTTTT
*
31137759 TAAACCCAAATCCCTTTTTTT
1 AAAACCCAAATCCCTTTTTTT
31137780 AAAACCC
1 AAAACCC
31137787 CTTTTCCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAACCCAAATCCCTTTTTTT
Done.