Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 113 of 378
Found at i:31446326 original size:27 final size:27
Alignment explanation
Indices: 31446288--31446592 Score: 307
Period size: 27 Copynumber: 11.3 Consensus size: 27
31446278 TTAGTTTACC
* *
31446288 AAATTACTAAAATGCCCTCAATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
*
31446315 AAATTACTAAAATACCC-CTGGTTTGTA
1 AAATTACTAAAATACCCTC-GATTTGTA
* * *
31446342 AAATTACCAAAATACCCT-TAGTTTGTG
1 AAATTACTAAAATACCCTCGA-TTTGTA
* *
31446369 AAATTACCAAAATA-CCTCTGATTTGTG
1 AAATTACTAAAATACCCTC-GATTTGTA
*
31446396 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * * **
31446423 AAATTACCAAAATACCCTTGGTTTAAA
1 AAATTACTAAAATACCCTCGATTTGTA
* *
31446450 AAATTACGAAAATACCC-CTGGTTTGTA
1 AAATTACTAAAATACCCTC-GATTTGTA
* *
31446477 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACTAAAATACCCTC-GATTTGTA
31446504 AAATTACTAAAATACCCTC-AGTTTGTA
1 AAATTACTAAAATACCCTCGA-TTTGTA
* *
31446531 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* *
31446558 AAATTACTGAAATACCCTCGACTTGTAA
1 AAATTACTAAAATACCCTCGATTTGT-A
31446586 AAATTAC
1 AAATTAC
31446593 CAAAGTATCC
Statistics
Matches: 237, Mismatches: 30, Indels: 21
0.82 0.10 0.07
Matches are distributed among these distances:
26 5 0.02
27 217 0.92
28 15 0.06
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTGTA
Found at i:31446354 original size:54 final size:54
Alignment explanation
Indices: 31446288--31446619 Score: 344
Period size: 54 Copynumber: 6.1 Consensus size: 54
31446278 TTAGTTTACC
* * *
31446288 AAATTACTAAAATGCCCTCAATTTGTAAAATTACTAAAATACCCCTGGTTTGTA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTGTA
* * * * * *
31446342 AAATTACCAAAATACCCTTAGTTTGTGAAATTACCAAAATACCTCTGATTTGTG
1 AAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTGTA
* * * * **
31446396 AAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAATACCCTTGGTTTAAA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTGTA
* ** *
31446450 AAATTACGAAAATACCC-CTGGTTTGTAAAATTACCAAAATACCCCTGATTTGTG
1 AAATTACTAAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTGATTTGTA
* ***
31446504 AAATTACTAAAATACCCTCAGTTTGTAAAATTATTGAAATA-CCCTCGATTTGTA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTTGTA
* * * * * * *
31446558 AAATTACTGAAATACCCTCGACTTGTAAAAATTACCAAAGTATCCCGGATTTATA
1 AAATTACTAAAATACCCTCAATTTGT-AAAATTACCAAAATACCCCTGATTTGTA
*
31446613 GAATTAC
1 AAATTAC
31446620 CATTTTATCC
Statistics
Matches: 227, Mismatches: 46, Indels: 9
0.80 0.16 0.03
Matches are distributed among these distances:
53 5 0.02
54 194 0.85
55 25 0.11
56 3 0.01
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (54 bp):
AAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTGTA
Found at i:31446422 original size:81 final size:80
Alignment explanation
Indices: 31446288--31446596 Score: 352
Period size: 81 Copynumber: 3.8 Consensus size: 80
31446278 TTAGTTTACC
* * * **
31446288 AAATTACTAAAATGCCCTCAATTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCT-GATTTGTAAAATTACTAAAATACCCCTGACTTGTAAAATTACCAAA
*
31446353 ATACCCTTAGTTTGTG
65 ATACCCTTAGTTTGTA
*
31446369 AAATTACCAAAATACCTCTGATTTGTGAAATTACTAAAATA-CCCTCGACTTGTAAAATTACCAA
1 AAATTACCAAAATACC-CTGATTTGTAAAATTACTAAAATACCCCT-GACTTGTAAAATTACCAA
* **
31446433 AATACCCTTGGTTTAAA
64 AATACCCTTAGTTTGTA
* * * * * *
31446450 AAATTACGAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACTAAA
1 AAATTACCAAAATA-CCCTGATTTGTAAAATTACTAAAATACCCCTGACTTGTAAAATTACCAAA
*
31446515 ATACCCTCAGTTTGTA
65 ATACCCTTAGTTTGTA
*** *
31446531 AAATTATTGAAATACCCTCGATTTGTAAAATTACTGAAATA-CCCTCGACTTGTAAAAATTACCA
1 AAATTACCAAAATACCCT-GATTTGTAAAATTACTAAAATACCCCT-GACTTGT-AAAATTACCA
31446595 AA
63 AA
31446597 GTATCCCGGA
Statistics
Matches: 191, Mismatches: 30, Indels: 13
0.82 0.13 0.06
Matches are distributed among these distances:
80 12 0.06
81 161 0.84
82 18 0.09
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (80 bp):
AAATTACCAAAATACCCTGATTTGTAAAATTACTAAAATACCCCTGACTTGTAAAATTACCAAAA
TACCCTTAGTTTGTA
Found at i:31446671 original size:27 final size:27
Alignment explanation
Indices: 31446648--31446809 Score: 207
Period size: 27 Copynumber: 6.0 Consensus size: 27
31446638 TAAAATTATT
*
31446648 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
31446675 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
31446702 GAAATACCCCTGTAGAGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * **
31446729 GAAATACCCTTGTAAGGTAGAATTAAT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
31446756 GAAATATCCCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
31446783 GAGATACCCTTGTAGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
31446810 ATTTTGCCCC
Statistics
Matches: 115, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 115 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:31446705 original size:54 final size:54
Alignment explanation
Indices: 31446641--31446808 Score: 255
Period size: 54 Copynumber: 3.1 Consensus size: 54
31446631 CGATTTATAA
* *
31446641 AATTATTGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* *
31446695 AATTACTGAAATACCCCTGTAGAGTAGAATTACCGAAATACCCTTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* * * * *
31446749 AATTAATGAAATATCCCTGTAAGGTAGAATTACCGAGATACCCTTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
31446803 AATTAC
1 AATTAC
31446809 CATTTTGCCC
Statistics
Matches: 102, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 102 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (54 bp):
AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
Found at i:31447048 original size:25 final size:25
Alignment explanation
Indices: 31447014--31447108 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
31447004 AGGAAGTGCT
*
31447014 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
31447039 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
31447064 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
31447089 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
31447109 ATTAAAAGAG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 67 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:31447121 original size:24 final size:24
Alignment explanation
Indices: 31447014--31447144 Score: 129
Period size: 25 Copynumber: 5.2 Consensus size: 24
31447004 AGGAAGTGCT
* *
31447014 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTA-TG
*
31447039 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTA-TG
*
31447064 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTAT-G
*
31447089 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATG
**
31447112 AAAAGAGGCTAGGCCTCCAGTTATATG
1 AAAAG-GGCTTTGCC-CCAGTT-TATG
31447139 ATAAAG
1 A-AAAG
31447145 CAGCTATGCT
Statistics
Matches: 93, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
23 5 0.05
24 11 0.12
25 68 0.73
26 1 0.01
27 4 0.04
28 4 0.04
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATG
Found at i:31449861 original size:18 final size:20
Alignment explanation
Indices: 31449838--31449881 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
31449828 TGTGGCTAGG
31449838 CCGTGT-GATCA-CACACGC
1 CCGTGTGGATCAGCACACGC
* *
31449856 CCGTGTGGCTCAGGACACGC
1 CCGTGTGGATCAGCACACGC
31449876 CCGTGT
1 CCGTGT
31449882 CCTCCACCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 4 0.18
20 12 0.55
ACGTcount: A:0.16, C:0.36, G:0.30, T:0.18
Consensus pattern (20 bp):
CCGTGTGGATCAGCACACGC
Found at i:31451783 original size:96 final size:94
Alignment explanation
Indices: 31451615--31451935 Score: 353
Period size: 96 Copynumber: 3.3 Consensus size: 94
31451605 GGTAAAATGT
** * * *
31451615 TGATGCCATGTCCCGGATATGGTCTTACATTGGCTCTCATACATCAGTGCCGATGCCATGTCCCA
1 TGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA-ATGAG-GCCGATGCCATGTCCCA
31451680 GACATGGTCTTACATTGACACATATAACAATGC
64 GACATGGTCTTACATTGACACATAT-ACAA-GC
* * *
31451713 TGATGCCATGTTCCAAACATGGTCTTACACTGGCTCAT-ATATTGAGGCTGATGCCATGTCCCAG
1 TGATGCCATGTCCCAAACATGGTCTTACACTGGCTC-TCATAATGAGGCCGATGCCATGTCCCAG
* * ** *
31451777 ACATGGTCTTACATTGGCTCGCATAT-TGAGG
65 ACATGGTCTTACATT-G-ACACATATACAAGC
* * *
31451808 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAA
1 T-GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGAGGCCGATGCCATGTCCCAG
*
31451873 ACATGGTCTTACACTAGCACACATAT-CAACGC
65 ACATGGTCTTACA-TTG-ACACATATACAA-GC
31451905 T-AGTGCCATGTCCCAAACATGGTCTTACACT
1 TGA-TGCCATGTCCCAAACATGGTCTTACACT
31451936 AGCACACATA
Statistics
Matches: 189, Mismatches: 26, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
95 4 0.02
96 137 0.72
97 7 0.04
98 40 0.21
99 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (94 bp):
TGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGAGGCCGATGCCATGTCCCAGA
CATGGTCTTACATTGACACATATACAAGC
Found at i:31451877 original size:144 final size:146
Alignment explanation
Indices: 31451615--31451933 Score: 396
Period size: 144 Copynumber: 2.2 Consensus size: 146
31451605 GGTAAAATGT
* * *
31451615 TGATGCCATGTCCCGGATATGGTCTTACATTGGCTCTCATACATCAGTGCCGATGCCATGTCCCA
1 TGATGCCATGTCCCAGACATGGTCTTACATTGGCTCGCATACATCAGTGCCGATGCCATGTCCCA
* * * *
31451680 GACATGGTCTTACATTGACACATATAACAATGCTGATGCCATGTTCCAAACATGGTCTTACACTG
66 GACATGGTCTTACACTGACACATATAACAATGCCGATGCCATGTCCCAAACATGGTCTTACACTA
* * ** *
31451745 GCTCATATATTGAGGC
131 GCACACATATCAACGC
* * *
31451761 TGATGCCATGTCCCAGACATGGTCTTACATTGGCTCGCATA-TTGAG-GTCGATGCCATGTCCCA
1 TGATGCCATGTCCCAGACATGGTCTTACATTGGCTCGCATACATCAGTGCCGATGCCATGTCCCA
* * **
31451824 GACATGGTCTTACACTGGCTC-TCATAA-TGTGGCCGATGCCATGTCCCAAACATGGTCTTACAC
66 GACATGGTCTTACACTGACACAT-ATAACAAT-GCCGATGCCATGTCCCAAACATGGTCTTACAC
31451887 TAGCACACATATCAACGC
129 TAGCACACATATCAACGC
*
31451905 T-AGTGCCATGTCCCAAACATGGTCTTACA
1 TGA-TGCCATGTCCCAGACATGGTCTTACA
31451934 CTAGCACACA
Statistics
Matches: 150, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
143 3 0.02
144 106 0.71
145 3 0.02
146 38 0.25
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (146 bp):
TGATGCCATGTCCCAGACATGGTCTTACATTGGCTCGCATACATCAGTGCCGATGCCATGTCCCA
GACATGGTCTTACACTGACACATATAACAATGCCGATGCCATGTCCCAAACATGGTCTTACACTA
GCACACATATCAACGC
Found at i:31451934 original size:48 final size:48
Alignment explanation
Indices: 31451615--31451948 Score: 289
Period size: 48 Copynumber: 6.9 Consensus size: 48
31451605 GGTAAAATGT
** * * * *
31451615 TGATGCCATGTCCCGGATATGGTCTTACATTGGCTCTCATA-CATCAGTGC
1 TGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCA--AG-GC
* * * * * * *
31451665 CGATGCCATGTCCCAGACATGGTCTTACATTGACACATATAACAATGC
1 TGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCAAGGC
* * * **
31451713 TGATGCCATGTTCCAAACATGGTCTTACACTGGCTCATATATTGAGGC
1 TGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCAAGGC
* * * * **
31451761 TGATGCCATGTCCCAGACATGGTCTTACATTGGCTCGCATATTGAGG-
1 TGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCAAGGC
* * * **
31451808 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGC
1 T-GATGCCATGTCCCAAACATGGTCTTACACTGGCACACAT-ATCAAGGC
* * *
31451857 CGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAACGC
1 TGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCAAGGC
*
31451905 T-AGTGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCA
1 TGA-TGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCA
31451949 TCCAAATGTA
Statistics
Matches: 243, Mismatches: 35, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
47 4 0.02
48 200 0.82
49 3 0.01
50 34 0.14
51 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (48 bp):
TGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCAAGGC
Found at i:31454329 original size:32 final size:33
Alignment explanation
Indices: 31454284--31454362 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
31454274 GCCGAGGTGT
* * *
31454284 GGCCATGTGGGCCACATGGG-TAAATTGAATTG
1 GGCCGTGTCGGCCACATGGGCTAAATCGAATTG
*
31454316 GGCTGTGTCGGCCACATGGGCTAAATCGAATTG
1 GGCCGTGTCGGCCACATGGGCTAAATCGAATTG
*
31454349 GGCCGTGTGGGCCA
1 GGCCGTGTCGGCCA
31454363 TATGAGCATG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
32 17 0.43
33 23 0.57
ACGTcount: A:0.20, C:0.20, G:0.37, T:0.23
Consensus pattern (33 bp):
GGCCGTGTCGGCCACATGGGCTAAATCGAATTG
Found at i:31461769 original size:40 final size:40
Alignment explanation
Indices: 31461725--31461830 Score: 133
Period size: 40 Copynumber: 2.6 Consensus size: 40
31461715 TGCATAACAG
31461725 AGGCACCGAAGTGCAGAA-AGAGGCACAAATGTGCAATCAA
1 AGGCACCGAAGTGCA-AACAGAGGCACAAATGTGCAATCAA
* ***
31461765 AGGCATCGAAGTGCAAACAGAGGCACAAATGTGCAATTTG
1 AGGCACCGAAGTGCAAACAGAGGCACAAATGTGCAATCAA
* * *
31461805 AGGCAGCAAAGTGCAAACAGAAGCAC
1 AGGCACCGAAGTGCAAACAGAGGCAC
31461831 TGTACAAACA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 2 0.03
40 56 0.97
ACGTcount: A:0.42, C:0.20, G:0.27, T:0.11
Consensus pattern (40 bp):
AGGCACCGAAGTGCAAACAGAGGCACAAATGTGCAATCAA
Found at i:31461807 original size:20 final size:20
Alignment explanation
Indices: 31461703--31461825 Score: 72
Period size: 20 Copynumber: 6.0 Consensus size: 20
31461693 ACCACACCAA
* *
31461703 AGGCATCAAAGATGCATAACAG
1 AGGCAGCAAAG-TGCA-ATCAG
* * *
31461725 AGGCACCGAAGTGCAGA-AAG
1 AGGCAGCAAAGTGCA-ATCAG
*
31461745 AGGCA-CAAATGTGCAATCAA
1 AGGCAGCAAA-GTGCAATCAG
* * *
31461765 AGGCATCGAAGTGCAAACAG
1 AGGCAGCAAAGTGCAATCAG
**
31461785 AGGCA-CAAATGTGCAATTTG
1 AGGCAGCAAA-GTGCAATCAG
*
31461805 AGGCAGCAAAGTGCAAACAG
1 AGGCAGCAAAGTGCAATCAG
31461825 A
1 A
31461826 AGCACTGTAC
Statistics
Matches: 79, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
19 7 0.09
20 51 0.65
21 12 0.15
22 9 0.11
ACGTcount: A:0.42, C:0.19, G:0.27, T:0.12
Consensus pattern (20 bp):
AGGCAGCAAAGTGCAATCAG
Found at i:31461808 original size:60 final size:62
Alignment explanation
Indices: 31461700--31461820 Score: 144
Period size: 60 Copynumber: 2.0 Consensus size: 62
31461690 TACACCACAC
*
31461700 CAAAGGCATCAAAGATGCATAACAGAGGCACCGAAGTGCAGAAAGAGGCA-CAAATGTGCAAT
1 CAAAGGCATCAAAGATGCATAACAGAGGCACCAAAGTGCAGAAAGAGGCAGCAAA-GTGCAAT
* **
31461762 CAAAGGCATCGAAG-TGCA-AACAGAGGCA-CAAATGTGCA-ATTTGAGGCAGCAAAGTGCAA
1 CAAAGGCATCAAAGATGCATAACAGAGGCACCAAA-GTGCAGA-AAGAGGCAGCAAAGTGCAA
31461821 ACAGAAGCAC
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
59 4 0.08
60 27 0.52
61 8 0.15
62 13 0.25
ACGTcount: A:0.42, C:0.19, G:0.26, T:0.12
Consensus pattern (62 bp):
CAAAGGCATCAAAGATGCATAACAGAGGCACCAAAGTGCAGAAAGAGGCAGCAAAGTGCAAT
Found at i:31465076 original size:12 final size:12
Alignment explanation
Indices: 31465059--31465084 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31465049 TACACGCCCG
31465059 TGTGCTAGGCCA
1 TGTGCTAGGCCA
31465071 TGTGCTAGGCCA
1 TGTGCTAGGCCA
31465083 TG
1 TG
31465085 CCAGACCTGT
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:0.15, C:0.23, G:0.35, T:0.27
Consensus pattern (12 bp):
TGTGCTAGGCCA
Found at i:31466811 original size:21 final size:20
Alignment explanation
Indices: 31466787--31466825 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
31466777 AAACTTGTAT
31466787 ATCTATCAACAAGCATTCACA
1 ATCTATCAACAAGC-TTCACA
*
31466808 ATCTATCAAGAAGCTTCA
1 ATCTATCAACAAGCTTCA
31466826 AAATACACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.26
Consensus pattern (20 bp):
ATCTATCAACAAGCTTCACA
Found at i:31474183 original size:27 final size:27
Alignment explanation
Indices: 31474165--31474234 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
31474155 ATAGTGAGTC
31474165 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
31474192 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
*
31474220 CACACACTTAGTGCT
1 CGCACACTTAGTGCT
31474235 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 23 0.56
28 18 0.44
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:31482137 original size:28 final size:27
Alignment explanation
Indices: 31482074--31482143 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
31482064 ATAGTGAGTC
31482074 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
31482101 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
31482129 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31482144 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:31484211 original size:28 final size:28
Alignment explanation
Indices: 31484171--31484229 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
31484161 TGAATATTTG
31484171 AAAACACTGTTACACCTTTCAACTGATC
1 AAAACACTGTTACACCTTTCAACTGATC
31484199 AAAACACTGTTACACCTTTCAACTGATC
1 AAAACACTGTTACACCTTTCAACTGATC
31484227 AAA
1 AAA
31484230 CAAATCGTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.39, C:0.27, G:0.07, T:0.27
Consensus pattern (28 bp):
AAAACACTGTTACACCTTTCAACTGATC
Found at i:31485563 original size:36 final size:36
Alignment explanation
Indices: 31485521--31485599 Score: 158
Period size: 36 Copynumber: 2.2 Consensus size: 36
31485511 TATTCATCAA
31485521 TCTCTTTCTTGAATTTCTAGCTTCAGAATTAGCCTT
1 TCTCTTTCTTGAATTTCTAGCTTCAGAATTAGCCTT
31485557 TCTCTTTCTTGAATTTCTAGCTTCAGAATTAGCCTT
1 TCTCTTTCTTGAATTTCTAGCTTCAGAATTAGCCTT
31485593 TCTCTTT
1 TCTCTTT
31485600 TCCTTGCCCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.18, C:0.23, G:0.10, T:0.49
Consensus pattern (36 bp):
TCTCTTTCTTGAATTTCTAGCTTCAGAATTAGCCTT
Found at i:31488632 original size:28 final size:29
Alignment explanation
Indices: 31488600--31488726 Score: 199
Period size: 28 Copynumber: 4.5 Consensus size: 29
31488590 AATGAGATTG
31488600 GCACTAAGTGTGCGAGTTT-AATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
*
31488628 GCACTAAGTGTGCGAGTTT-AATTTTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
*
31488656 GCACTAAGTGTGCGAGTTTGAATTGCATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
31488685 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
1 GCACTAAGTGTGCGAGTTTGAAT-TGTATA
31488713 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
31488727 GACTTACTGT
Statistics
Matches: 93, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
28 61 0.66
29 31 0.33
30 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTGAATTGTATA
Found at i:31488695 original size:57 final size:56
Alignment explanation
Indices: 31488600--31488726 Score: 211
Period size: 57 Copynumber: 2.2 Consensus size: 56
31488590 AATGAGATTG
* *
31488600 GCACTAAGTGTGCGAGTTTAATTGTATAGCACTAAGTGTGCGAGTTT-AATTTTATA
1 GCACTAAGTGTGCGAGTTTAATTGCATAGCACTAAGTGTGCGAGTTTGAATATTA-A
31488656 GCACTAAGTGTGCGAGTTTGAATTGCATAGCACTAAGTGTGCGAGTTTGAATATTAA
1 GCACTAAGTGTGCGAGTTT-AATTGCATAGCACTAAGTGTGCGAGTTTGAATATTAA
31488713 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
31488727 GACTTACTGT
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
56 19 0.28
57 42 0.63
58 6 0.09
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (56 bp):
GCACTAAGTGTGCGAGTTTAATTGCATAGCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:31493608 original size:80 final size:80
Alignment explanation
Indices: 31493449--31493615 Score: 196
Period size: 80 Copynumber: 2.1 Consensus size: 80
31493439 GAATGATACT
* * * *
31493449 CGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAATATATCCGGGCTAAGACCCGAAGGCATTCGT
1 CGGGCTAAGACCCGAAGGCATTTATGCAAGTGAACAAATCCGGGCTAAGACCCGAAGGCATTCGT
*
31493514 GCGAGTTGTCATATC
66 GCGAGTGGTCATATC
* * *
31493529 CGGGCTAAGACCCGAAGGCATTTGTGCAAGAT-ACCAAATCCGGGTTAAGACCCGAAGGCAATT-
1 CGGGCTAAGACCCGAAGGCATTTATGCAAG-TGAACAAATCCGGGCTAAGACCCGAAGGC-ATTC
** *
31493592 GTGCTTGTGGTTATATC
64 GTGCGAGTGGTCATATC
31493609 C-GGCTAA
1 CGGGCTAA
31493616 ATTCCGAAGA
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
79 6 0.08
80 64 0.86
81 4 0.05
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
CGGGCTAAGACCCGAAGGCATTTATGCAAGTGAACAAATCCGGGCTAAGACCCGAAGGCATTCGT
GCGAGTGGTCATATC
Found at i:31493610 original size:40 final size:40
Alignment explanation
Indices: 31493449--31493615 Score: 155
Period size: 40 Copynumber: 4.2 Consensus size: 40
31493439 GAATGATACT
* * *
31493449 CGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAAT-ATATC
1 CGGGCTAAGACCCGAAGGCAATTGTGCTAGTG-ATCATATC
*
31493489 CGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TCATATC
1 CGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATCATATC
* * * *
31493529 CGGGCTAAGACCCGAAGGCATTTGTGCAAGAT-ACCAAATC
1 CGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATCATATC
* * * *
31493569 CGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATC
1 CGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATCATATC
31493609 C-GGCTAA
1 CGGGCTAA
31493616 ATTCCGAAGA
Statistics
Matches: 103, Mismatches: 18, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
39 9 0.09
40 90 0.87
41 4 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATCATATC
Found at i:31495813 original size:46 final size:46
Alignment explanation
Indices: 31495727--31495846 Score: 127
Period size: 46 Copynumber: 2.6 Consensus size: 46
31495717 TGTGCTAGTG
* * *
31495727 TAAGACATGTCTGGGACATGCATCGGCCATATTATAAGAGCCAGTC
1 TAAGACATGTCTGGGACATACATCGGCCATATGAGAAGAGCCAGTC
* * *
31495773 TAAGACATGTCTGGGACATACATTGG-CAT-TGAGACGAGAGCTAGTG
1 TAAGACATGTCTGGGACATACATCGGCCATATGAGA--AGAGCCAGTC
* * *
31495819 TAAAACATGTTTGGGACATGCATCGGCC
1 TAAGACATGTCTGGGACATACATCGGCC
31495847 TCGAGATATA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
44 3 0.05
45 3 0.05
46 54 0.89
47 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (46 bp):
TAAGACATGTCTGGGACATACATCGGCCATATGAGAAGAGCCAGTC
Found at i:31502164 original size:46 final size:46
Alignment explanation
Indices: 31502033--31502165 Score: 169
Period size: 46 Copynumber: 2.9 Consensus size: 46
31502023 TGATATGTGT
** * *
31502033 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-ACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGA-GACGAGA
* *
31502079 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGACGAGA
* * *
31502125 GCTAGTGCAAAACATGTCTGGGACATGCATTGGCCTTGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGA
31502166 TATACAAGCT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
46 74 0.99
47 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGACGAGA
Found at i:31502279 original size:49 final size:49
Alignment explanation
Indices: 31502220--31502349 Score: 145
Period size: 49 Copynumber: 2.7 Consensus size: 49
31502210 GTTGTGTGTT
* * *
31502220 AGTGTAAGACCTGTCTGGGACATGGTATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTATCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * * * * *
31502269 AGTGTAAGACCTATCTAGGAAACGGCATCGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* *
31502318 AGTGTAAGAGCTTTCTGGGACATGGCATCGAC
1 AGTGTAAGACCTATCTGGGACATGGCATCGAC
31502350 TTTGATGTGC
Statistics
Matches: 65, Mismatches: 15, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
48 1 0.02
49 64 0.98
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (49 bp):
AGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:31508023 original size:2 final size:2
Alignment explanation
Indices: 31508016--31508042 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
31508006 GAAGGCTATG
31508016 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
31508043 GTATGAATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:31510595 original size:21 final size:20
Alignment explanation
Indices: 31510548--31510605 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
31510538 ACAAGGTTTG
* *
31510548 CTCACACGGCTATGTGACCT
1 CTCACACGGCCATGTGACCA
*
31510568 TTCCACACGGCCATGTGACCCA
1 CT-CACACGGCCATGTGA-CCA
* *
31510590 CTCACATGGCCTTGTG
1 CTCACACGGCCATGTG
31510606 GCTTATCTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 1 0.03
21 26 0.87
22 3 0.10
ACGTcount: A:0.19, C:0.36, G:0.21, T:0.24
Consensus pattern (20 bp):
CTCACACGGCCATGTGACCA
Found at i:31514334 original size:47 final size:47
Alignment explanation
Indices: 31514265--31514559 Score: 464
Period size: 47 Copynumber: 6.3 Consensus size: 47
31514255 CCCTTCGGGA
* * * *
31514265 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
31514312 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
31514359 CTTATCACATATATACACTTCCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
31514406 CTTATCACATATATATATTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
31514453 CTTATCACATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
31514500 CTTATCACATATATATATTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
31514547 CTTATCACATATA
1 CTTATCACATATA
31514560 CATATCTTGT
Statistics
Matches: 230, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 230 1.00
ACGTcount: A:0.27, C:0.28, G:0.08, T:0.36
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:31518104 original size:40 final size:40
Alignment explanation
Indices: 31518072--31518459 Score: 535
Period size: 40 Copynumber: 9.7 Consensus size: 40
31518062 CCAGCATGAT
* * * * *
31518072 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
31518112 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
31518152 TGCTCTTCGGAATTTATCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* **
31518192 TGCTCTTCGGAACTTATTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
31518232 TGCTCTTCGGGGCTTGGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
31518272 TGCTCTTCGGGGCTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * **
31518312 TGCTCTTCAGAACTTATTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
31518352 TGCTCTTCGGAACTTATCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
31518392 TGCTCTTCGGGGCTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
31518432 TGCTCTTCGGGGCTTAGCCCGGAT-CATC
1 TGCTCTTCGGGACTTAGCCCGGATACATC
31518460 GTCGAGACCT
Statistics
Matches: 318, Mismatches: 30, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
39 4 0.01
40 314 0.99
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:31518582 original size:38 final size:38
Alignment explanation
Indices: 31518513--31518587 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
31518503 GAATTTTAAT
*
31518513 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
*
31518551 CCGGACATAATCTCT-T-CATATTGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGTACATA--GCCAGCGGGTCTTTA
31518588 AACTCGGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 4 0.12
37 1 0.03
38 28 0.85
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.32
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:31520911 original size:47 final size:47
Alignment explanation
Indices: 31520842--31521136 Score: 455
Period size: 47 Copynumber: 6.3 Consensus size: 47
31520832 CCCTTCGGGA
* * * *
31520842 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
31520889 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
31520936 CTTATCACATATATACACTTCCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
31520983 CTTATCACATATATATATTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
31521030 CTTATCACATATATATACTTTCACATTCATCATATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
31521077 CTTATCACATATATATATTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
31521124 CTTATCACATATA
1 CTTATCACATATA
31521137 CATATCTTGT
Statistics
Matches: 228, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 228 1.00
ACGTcount: A:0.27, C:0.28, G:0.08, T:0.36
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:31533809 original size:2 final size:2
Alignment explanation
Indices: 31533802--31533839 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
31533792 ATTTCAATGT
31533802 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
31533840 TATATATGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:31536743 original size:40 final size:40
Alignment explanation
Indices: 31536688--31536871 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
31536678 GAGCATTTGA
*
31536688 ATTATACCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTG
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTG
31536728 ATTATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTG
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTG
* **
31536768 ATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTG
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TG
* * * * *
31536809 -TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTG
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTG
* * *
31536848 GTTATATCC-GGCTAAATTCCGAAG
1 ATTATATCCGGGCTAAGTCCCGAAG
31536872 AAGCTCGGTT
Statistics
Matches: 130, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
39 13 0.10
40 115 0.88
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTG
Found at i:31545198 original size:40 final size:40
Alignment explanation
Indices: 31545113--31545263 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
31545103 AATTGAATGA
* * * **
31545113 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTT
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACATAC
* * *
31545153 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
31545194 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
31545233 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
31545264 ACATGGTTGT
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 77 0.85
41 5 0.05
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:31545277 original size:40 final size:40
Alignment explanation
Indices: 31545153--31545279 Score: 123
Period size: 40 Copynumber: 3.2 Consensus size: 40
31545143 CTGGAAATTT
* * * * *
31545153 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
* * ** *
31545193 CATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CATTC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
*
31545233 TATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTTG
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
31545273 TATCCGG
1 TATCCGG
31545280 TTATGTTCCG
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 67 0.97
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
Found at i:31550441 original size:16 final size:16
Alignment explanation
Indices: 31550422--31550453 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
31550412 TGTTATGAGC
31550422 AAATCAAAATCATGTT
1 AAATCAAAATCATGTT
31550438 AAATCAAAATCATGTT
1 AAATCAAAATCATGTT
31550454 CTTTGTATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (16 bp):
AAATCAAAATCATGTT
Found at i:31550638 original size:40 final size:40
Alignment explanation
Indices: 31550583--31550800 Score: 293
Period size: 40 Copynumber: 5.5 Consensus size: 40
31550573 CGGATGATAA
*
31550583 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-T
*
31550623 CCGGGCTAAGCCCCGAAGGCATTTGTG-TGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTATAT
*
31550663 CCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
* *
31550703 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATCA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAT-AT
* *
31550743 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTA-CTATAT
*
31550783 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
31550801 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
39 19 0.12
40 140 0.86
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
Found at i:31558656 original size:40 final size:40
Alignment explanation
Indices: 31558559--31558773 Score: 307
Period size: 39 Copynumber: 5.5 Consensus size: 40
31558549 CGGATGATAA
* *
31558559 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
31558599 CC-GGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
31558638 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
31558678 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
31558717 CCGGGCTAAGTCCC-AAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
31558756 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
31558774 TACTTGGTTT
Statistics
Matches: 160, Mismatches: 10, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
38 12 0.08
39 97 0.61
40 51 0.32
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:31558693 original size:79 final size:78
Alignment explanation
Indices: 31558555--31558773 Score: 318
Period size: 79 Copynumber: 2.8 Consensus size: 78
31558545 TATTCGGATG
* *
31558555 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGCTAAGCCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-TCCGGCTAAG-TCCGAAGGCA
31558619 TTTGTGCGAGTTACT
64 TTTGTGCGAGTTACT
*
31558634 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCC-GGCTAAGTCCGAAGGCAT
31558699 TTGTGCGAGTTACT
65 TTGTGCGAGTTACT
* * *
31558713 ATAACCGGGCTAAGTCCC-AAGGCATTTGAGCGAG-TAGCTATATCCGGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTA-CTATATCCGGCTAAGT-CCGAAGG
31558774 TACTTGGTTT
Statistics
Matches: 129, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
77 9 0.07
78 29 0.22
79 83 0.64
80 8 0.06
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (78 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCCGGCTAAGTCCGAAGGCATT
TGTGCGAGTTACT
Found at i:31560030 original size:18 final size:19
Alignment explanation
Indices: 31560004--31560046 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
31559994 AGTTATGAAA
*
31560004 ATGAATTATAGATGTGT-C
1 ATGAATTATAGATATGTGC
* *
31560022 ATGATTTATTGATATGTGC
1 ATGAATTATAGATATGTGC
31560041 ATGAAT
1 ATGAAT
31560047 ATTCGGATGA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.42
Consensus pattern (19 bp):
ATGAATTATAGATATGTGC
Found at i:31560164 original size:40 final size:40
Alignment explanation
Indices: 31560060--31560266 Score: 296
Period size: 40 Copynumber: 5.2 Consensus size: 40
31560050 CGGATGATAA
* *
31560060 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
31560100 CCGGGCTAAG-CCCGAAGGAATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
31560139 CCGAGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
31560179 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
31560219 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
31560259 CC-GGCTAA
1 CCGGGCTAA
31560267 ATTACTTGGT
Statistics
Matches: 151, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 41 0.27
40 110 0.73
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:31568828 original size:47 final size:47
Alignment explanation
Indices: 31568739--31568858 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 47
31568729 TCGAGACGTA
* *
31568739 AGCCAGTGCAAGA-CATGTCTGGGACATGCGTTGGCTACGAGATGAT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGCGTTGACTACGAGAT-ATG
* * * *
31568785 AGTCAGTGTAAGACCATGTCTAGGACATGGCTTTGACT-TGAGATATG
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCGTTGACTACGAGATATG
*
31568832 AGCCAGTGTAAGACCATTTCTGGGACA
1 AGCCAGTGTAAGACCATGTCTGGGACA
31568859 AGGCATCGAA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
46 13 0.21
47 42 0.68
48 7 0.11
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGCGTTGACTACGAGATATG
Found at i:31570027 original size:21 final size:20
Alignment explanation
Indices: 31570003--31570041 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
31569993 GTCAAAATGG
*
31570003 TCACACGGGCGTGTTGCCCTT
1 TCACACGGGCATG-TGCCCTT
*
31570024 TCACTCGGGCATGTGCCC
1 TCACACGGGCATGTGCCC
31570042 CTGTGTCAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.10, C:0.36, G:0.28, T:0.26
Consensus pattern (20 bp):
TCACACGGGCATGTGCCCTT
Found at i:31575427 original size:47 final size:47
Alignment explanation
Indices: 31575332--31575453 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 47
31575322 CGATAAGTAT
* * * *
31575332 CTATATGATGGCCCATAGCCAAATCAAGGTAACTTATCCCAGAGTAC
1 CTATATCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAGAATAC
* *
31575379 CTATATCATGGCCCGTAGCCAAATCAAGGTAACTCCTCTCTA-AATAC
1 CTATATCATGGCCCGTAGCCAAATCAAGGTAACTCATC-CCAGAATAC
* * * *
31575426 CTATAACTTGGCCCGTGGCTAAATCAAG
1 CTATATCATGGCCCGTAGCCAAATCAAG
31575454 ATATTATTCG
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
47 62 0.97
48 2 0.03
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (47 bp):
CTATATCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAGAATAC
Found at i:31578710 original size:34 final size:32
Alignment explanation
Indices: 31578657--31578753 Score: 104
Period size: 34 Copynumber: 2.9 Consensus size: 32
31578647 ATGCATTTTG
* *
31578657 GATACTGTACTGAAATGGGCTAAGGCCCATATT
1 GATACTGTACTG-ATTGGGCTAAGGCCCACATT
31578690 GATACTGTTACTGTATTGGGCTAAGGCCCACATT
1 GATACTG-TACTG-ATTGGGCTAAGGCCCACATT
* * *
31578724 GATATTGCGACTGATATGGGCTTAGGCCCA
1 GATACTG-TACTGAT-TGGGCTAAGGCCCA
31578754 GAATGTTCAA
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
33 9 0.16
34 46 0.84
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (32 bp):
GATACTGTACTGATTGGGCTAAGGCCCACATT
Found at i:31580902 original size:24 final size:24
Alignment explanation
Indices: 31580875--31581051 Score: 291
Period size: 24 Copynumber: 7.4 Consensus size: 24
31580865 TATTATGTTT
31580875 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
* *
31580899 GCACACATAGTGCTACAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
31580923 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
* *
31580947 GCACACATAGTGCTACAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
*
31580971 GCACACATAGTGCCATAGTAAATA
1 GCACACATAGTGCCATAGTAAATC
* *
31580995 GCACACATAGTGCTACAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
31581019 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
31581043 GCACACATA
1 GCACACATA
31581052 ATTTTTTTTG
Statistics
Matches: 139, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 139 1.00
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.20
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAATC
Found at i:31580927 original size:48 final size:48
Alignment explanation
Indices: 31580875--31581051 Score: 345
Period size: 48 Copynumber: 3.7 Consensus size: 48
31580865 TATTATGTTT
31580875 GCACACATAGTGCCATAGTAAATCGCACACATAGTGCTACAGTAAATC
1 GCACACATAGTGCCATAGTAAATCGCACACATAGTGCTACAGTAAATC
31580923 GCACACATAGTGCCATAGTAAATCGCACACATAGTGCTACAGTAAATC
1 GCACACATAGTGCCATAGTAAATCGCACACATAGTGCTACAGTAAATC
*
31580971 GCACACATAGTGCCATAGTAAATAGCACACATAGTGCTACAGTAAATC
1 GCACACATAGTGCCATAGTAAATCGCACACATAGTGCTACAGTAAATC
31581019 GCACACATAGTGCCATAGTAAATCGCACACATA
1 GCACACATAGTGCCATAGTAAATCGCACACATA
31581052 ATTTTTTTTG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 127 1.00
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.20
Consensus pattern (48 bp):
GCACACATAGTGCCATAGTAAATCGCACACATAGTGCTACAGTAAATC
Found at i:31588719 original size:24 final size:24
Alignment explanation
Indices: 31588692--31588816 Score: 205
Period size: 24 Copynumber: 5.2 Consensus size: 24
31588682 TATTATGTTT
31588692 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
* *
31588716 GCACACATAGTGCTACAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
31588740 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
* * *
31588764 GCACACATACTGCTACAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
31588788 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
31588812 GCACA
1 GCACA
31588817 GATAATTTTT
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 91 1.00
ACGTcount: A:0.38, C:0.26, G:0.16, T:0.20
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAATC
Found at i:31588744 original size:48 final size:48
Alignment explanation
Indices: 31588692--31588816 Score: 241
Period size: 48 Copynumber: 2.6 Consensus size: 48
31588682 TATTATGTTT
*
31588692 GCACACATAGTGCCATAGTAAATCGCACACATAGTGCTACAGTAAATC
1 GCACACATAGTGCCATAGTAAATCGCACACATACTGCTACAGTAAATC
31588740 GCACACATAGTGCCATAGTAAATCGCACACATACTGCTACAGTAAATC
1 GCACACATAGTGCCATAGTAAATCGCACACATACTGCTACAGTAAATC
31588788 GCACACATAGTGCCATAGTAAATCGCACA
1 GCACACATAGTGCCATAGTAAATCGCACA
31588817 GATAATTTTT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 76 1.00
ACGTcount: A:0.38, C:0.26, G:0.16, T:0.20
Consensus pattern (48 bp):
GCACACATAGTGCCATAGTAAATCGCACACATACTGCTACAGTAAATC
Found at i:31595787 original size:112 final size:112
Alignment explanation
Indices: 31595585--31595804 Score: 422
Period size: 112 Copynumber: 2.0 Consensus size: 112
31595575 ATCATTGTTG
*
31595585 TTAGGTTAACAAGTTTTATAAAGTGATTTTGAGTAAAAATGTCAATTTTGGACCAAACTATATAA
1 TTAGATTAACAAGTTTTATAAAGTGATTTTGAGTAAAAATGTCAATTTTGGACCAAACTATATAA
*
31595650 GGTGGAAATTTAGTGGTTAAAATGTGAAATAAATTGAAAATATGGTC
66 GGTGGAAATTGAGTGGTTAAAATGTGAAATAAATTGAAAATATGGTC
31595697 TTAGATTAACAAGTTTTATAAAGTGATTTTGAGTAAAAATGTCAATTTTGGACCAAACTATATAA
1 TTAGATTAACAAGTTTTATAAAGTGATTTTGAGTAAAAATGTCAATTTTGGACCAAACTATATAA
31595762 GGTGGAAATTGAGTGGTTAAAATGTGAAATAAATTGAAAATAT
66 GGTGGAAATTGAGTGGTTAAAATGTGAAATAAATTGAAAATAT
31595805 AGGTTGATAG
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
112 106 1.00
ACGTcount: A:0.41, C:0.05, G:0.19, T:0.35
Consensus pattern (112 bp):
TTAGATTAACAAGTTTTATAAAGTGATTTTGAGTAAAAATGTCAATTTTGGACCAAACTATATAA
GGTGGAAATTGAGTGGTTAAAATGTGAAATAAATTGAAAATATGGTC
Found at i:31596358 original size:28 final size:27
Alignment explanation
Indices: 31596287--31596359 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 27
31596277 TATGTATATG
* *
31596287 GCACTTAGTGTGCGAAATATTAAGAAT
1 GCACTTAGTGTGCGAGATATTAAGTAT
*
31596314 AGAACTT-GATGTGCGAGATATTAAGTAT
1 -GCACTTAG-TGTGCGAGATATTAAGTAT
*
31596342 GTCACTTAGTGTACGAGA
1 G-CACTTAGTGTGCGAGA
31596360 CATCGAAGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
27 2 0.05
28 34 0.92
29 1 0.03
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (27 bp):
GCACTTAGTGTGCGAGATATTAAGTAT
Found at i:31598729 original size:37 final size:37
Alignment explanation
Indices: 31598679--31598861 Score: 187
Period size: 37 Copynumber: 4.8 Consensus size: 37
31598669 TACATGTGGT
* * *
31598679 GCGTGTAAGACCATAGTTAGGCTATGGCATCGTAATA
1 GCGTGTAAGACCATAGCTGGGCTATGGCATCGTGATA
31598716 GCGTGTAAGACCATAGCTGGGCTATGGCATCGTGAT-
1 GCGTGTAAGACCATAGCTGGGCTATGGCATCGTGATA
* *
31598752 GACATGTAAGACCATAGCTGGGCTATGGCATTGTGATA
1 G-CGTGTAAGACCATAGCTGGGCTATGGCATCGTGATA
31598790 -CGTGTAAGACCAT-GTCTGGGAC-ATGGCATCGAT-ATGA
1 GCGTGTAAGACCATAG-CTGGG-CTATGGCATCG-TGAT-A
* *
31598827 GATCCTGTGTAAGACCATATCTGGGATATGGCATC
1 G---C-GTGTAAGACCATAGCTGGGCTATGGCATC
31598862 AGCATCGATA
Statistics
Matches: 124, Mismatches: 9, Indels: 21
0.81 0.06 0.14
Matches are distributed among these distances:
35 1 0.01
36 28 0.23
37 69 0.56
41 1 0.01
42 25 0.20
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (37 bp):
GCGTGTAAGACCATAGCTGGGCTATGGCATCGTGATA
Found at i:31598838 original size:42 final size:42
Alignment explanation
Indices: 31598791--31599115 Score: 235
Period size: 48 Copynumber: 7.3 Consensus size: 42
31598781 ATTGTGATAC
* *
31598791 GTGTAAGACCATGTCTGGGACATGGCATCGATATGAGATCCT
1 GTGTAAGACCATATCTGGGACATGGCATCGATATGAGATCTT
*
31598833 GTGTAAGACCATATCTGGGATATGGCATCAGCATCGATATGAGATCTT
1 GTGTAAGACCATATCTGGG--A---CAT-GGCATCGATATGAGATCTT
*
31598881 GTGTAAGACCATATCTAGGGTATGGCATCAGCATCGATATGAGATCTT
1 GTGTAAGACCATATCT-GGG-A---CAT-GGCATCGATATGAGATCTT
* *
31598929 GTGTAAGACCATATCTAGGATATGACATCAGCATCGATATGAGAT-TAC
1 GTGTAAGACCATATCT-GG----GACAT-GGCATCGATATGAGATCT-T
* * * *
31598977 GTGTAAGACCATATCTGAGATATGGCTTCGGTATGAGAT-TT
1 GTGTAAGACCATATCTGGGACATGGCATCGATATGAGATCTT
** * *** *
31599018 CGTGTAAGACTGTGTCTGGGATGCGGCATCGATATGTGAT-TT
1 -GTGTAAGACCATATCTGGGACATGGCATCGATATGAGATCTT
* * * *
31599060 CGTATAAGACCATGTCTAGGACATGGCATCGATGTGAGA-CTTT
1 -GTGTAAGACCATATCTGGGACATGGCATCGATATGAGATC-TT
31599103 GTGTAAGACCATA
1 GTGTAAGACCATA
31599116 GTTGGACTAT
Statistics
Matches: 238, Mismatches: 30, Indels: 30
0.80 0.10 0.10
Matches are distributed among these distances:
42 105 0.44
43 6 0.03
44 1 0.00
47 5 0.02
48 116 0.49
49 3 0.01
51 1 0.00
52 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGACATGGCATCGATATGAGATCTT
Found at i:31598886 original size:48 final size:48
Alignment explanation
Indices: 31598815--31599002 Score: 299
Period size: 48 Copynumber: 3.9 Consensus size: 48
31598805 CTGGGACATG
*
31598815 GCATCGATATGAGATCCTGTGTAAGACCATATCTGGGATATGGCATCA
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGGCATCA
31598863 GCATCGATATGAGATCTTGTGTAAGACCATATCTAGGG-TATGGCATCA
1 GCATCGATATGAGATCTTGTGTAAGACCATATCT-GGGATATGGCATCA
* *
31598911 GCATCGATATGAGATCTTGTGTAAGACCATATCTAGGATATGACATCA
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGGCATCA
* *
31598959 GCATCGATATGAGAT-TACGTGTAAGACCATATCTGAGATATGGC
1 GCATCGATATGAGATCT-TGTGTAAGACCATATCTGGGATATGGC
31599003 TTCGGTATGA
Statistics
Matches: 130, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
47 3 0.02
48 124 0.95
49 3 0.02
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (48 bp):
GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGGCATCA
Found at i:31609298 original size:26 final size:26
Alignment explanation
Indices: 31609269--31609331 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
31609259 CTAATCTATA
31609269 AAATGACTGTTATACCCCTATAAGGT
1 AAATGACTGTTATACCCCTATAAGGT
* * * * *
31609295 AAATGACGGATATACCCCTGTACGTT
1 AAATGACTGTTATACCCCTATAAGGT
*
31609321 ATATGACTGTT
1 AAATGACTGTT
31609332 GAGCATGCCA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (26 bp):
AAATGACTGTTATACCCCTATAAGGT
Found at i:31609625 original size:33 final size:34
Alignment explanation
Indices: 31609588--31609684 Score: 97
Period size: 34 Copynumber: 2.9 Consensus size: 34
31609578 ATACATTTTG
*
31609588 GATACTGT-ACTGAAATGGGCTAAGGCCCACATT
1 GATACTGTGACTGAAATGGACTAAGGCCCACATT
* * *
31609621 GATACTGTGACTGTATTGGACTAAGGCCCACACT
1 GATACTGTGACTGAAATGGACTAAGGCCCACATT
* * * * * *
31609655 GCTATTGCGACTGATATGGTCTTAGGCCCA
1 GATACTGTGACTGAAATGGACTAAGGCCCA
31609685 GACTGTTCAA
Statistics
Matches: 51, Mismatches: 12, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
33 8 0.16
34 43 0.84
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.27
Consensus pattern (34 bp):
GATACTGTGACTGAAATGGACTAAGGCCCACATT
Found at i:31611055 original size:29 final size:31
Alignment explanation
Indices: 31611014--31611072 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
31611004 TTGAATTTAA
* *
31611014 TATCTCCACATTT-ATCTATTAGAATAAATAC
1 TATCTCCACATTTCATCCATCA-AATAAATAC
31611045 TATCT-CA-ATTTCATCCATCAAATAAATA
1 TATCTCCACATTTCATCCATCAAATAAATA
31611073 GATGCACATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 12 0.48
30 8 0.32
31 5 0.20
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.37
Consensus pattern (31 bp):
TATCTCCACATTTCATCCATCAAATAAATAC
Found at i:31617882 original size:28 final size:28
Alignment explanation
Indices: 31617851--31617953 Score: 120
Period size: 28 Copynumber: 3.6 Consensus size: 28
31617841 GGCTCACTAG
*
31617851 GCCCAATCCCATTTATATGGCCCATCCA
1 GCCCAATCACATTTATATGGCCCATCCA
* *
31617879 GCCCAATTCACGTTCATATGGCCCAT-CA
1 GCCCAA-TCACATTTATATGGCCCATCCA
* *
31617907 GGCCCAATCTCATTTATATGGCCCATCCG
1 -GCCCAATCACATTTATATGGCCCATCCA
31617936 GCCCAAATCACA-TTATAT
1 GCCC-AATCACATTTATAT
31617954 TCATGCTCAC
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
28 34 0.54
29 29 0.46
ACGTcount: A:0.26, C:0.35, G:0.13, T:0.26
Consensus pattern (28 bp):
GCCCAATCACATTTATATGGCCCATCCA
Found at i:31617910 original size:57 final size:57
Alignment explanation
Indices: 31617836--31617946 Score: 170
Period size: 57 Copynumber: 1.9 Consensus size: 57
31617826 TGCATACATG
* *
31617836 CATATGGCTCACTAGGCCCAATCCCATTTATATGGCCCATCCAGCCCAATTCACGTT
1 CATATGGCCCACTAGGCCCAATCCCATTTATATGGCCCATCCAGCCCAAATCACGTT
* *
31617893 CATATGGCCCA-TCAGGCCCAATCTCATTTATATGGCCCATCCGGCCCAAATCAC
1 CATATGGCCCACT-AGGCCCAATCCCATTTATATGGCCCATCCAGCCCAAATCAC
31617947 ATTATATTCA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
56 1 0.02
57 48 0.98
ACGTcount: A:0.25, C:0.36, G:0.14, T:0.24
Consensus pattern (57 bp):
CATATGGCCCACTAGGCCCAATCCCATTTATATGGCCCATCCAGCCCAAATCACGTT
Found at i:31623427 original size:49 final size:49
Alignment explanation
Indices: 31623355--31623638 Score: 327
Period size: 49 Copynumber: 5.7 Consensus size: 49
31623345 CGAAGCTATT
* *
31623355 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
* * * * *
31623404 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATTATC
* ** *
31623455 AGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTAT-
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
* * * * *
31623503 TCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTC
1 T-GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATTATC
* *
31623555 GGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
* * *
31623604 CGGTACACGTAGTAGCCTGCACTTAGTATTACACA
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACA
31623639 CGTGAACTCA
Statistics
Matches: 193, Mismatches: 36, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
49 111 0.58
50 4 0.02
51 78 0.40
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
Found at i:31623474 original size:100 final size:100
Alignment explanation
Indices: 31623356--31623643 Score: 506
Period size: 100 Copynumber: 2.9 Consensus size: 100
31623346 GAAGCTATTT
*
31623356 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCC
31623421 TGCACTTAGTACTACACACGTGATCACAGTTTTCA
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCA
* *
31623456 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTAT-TCGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCT-GGTACACGTAGTAGC
*
31623520 CTGCACTTAGTACTACACACGTGATCACAGTTTTCG
65 CTGCACTTAGTACTACACACGTGATCACAGTTTTCA
*
31623556 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCC
*
31623621 TGCACTTAGTATTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
31623644 ACTCACAATA
Statistics
Matches: 178, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
99 1 0.01
100 177 0.99
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCA
Found at i:31643127 original size:14 final size:14
Alignment explanation
Indices: 31643108--31643134 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31643098 ATACTTGATT
31643108 TGTTCTTAATTATG
1 TGTTCTTAATTATG
31643122 TGTTCTTAATTAT
1 TGTTCTTAATTAT
31643135 TGCTTTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:31643573 original size:13 final size:13
Alignment explanation
Indices: 31643555--31643580 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31643545 CTATGCATTC
31643555 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
31643568 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
31643581 AGCAAATCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:31650496 original size:27 final size:27
Alignment explanation
Indices: 31650442--31650496 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
31650432 AATATAATAT
*
31650442 AATTATAAAATAATTAAATTGTAGTTA
1 AATTATAAAATAATTAAATTGTAATTA
* *
31650469 AATTATTAAAAT-ATTTAATTTTAATTA
1 AATTA-TAAAATAATTAAATTGTAATTA
31650496 A
1 A
31650497 TTTTATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (27 bp):
AATTATAAAATAATTAAATTGTAATTA
Found at i:31653452 original size:25 final size:25
Alignment explanation
Indices: 31653424--31653518 Score: 93
Period size: 25 Copynumber: 3.8 Consensus size: 25
31653414 CATTCTGACC
31653424 TACAGCTCATGTGAGCATACCGATT
1 TACAGCTCATGTGAGCATACCGATT
* * *
31653449 TACAGCTCATGAGAGCATACTGATC
1 TACAGCTCATGTGAGCATACCGATT
** *
31653474 TGTAGCTCGA-ATGAGCATACCGATT
1 TACAGCTC-ATGTGAGCATACCGATT
* * *
31653499 CACAGCTCGTTTGAGCATAC
1 TACAGCTCATGTGAGCATAC
31653519 ATGTACAAGT
Statistics
Matches: 54, Mismatches: 14, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
25 53 0.98
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.26
Consensus pattern (25 bp):
TACAGCTCATGTGAGCATACCGATT
Found at i:31661200 original size:25 final size:25
Alignment explanation
Indices: 31661166--31661214 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
31661156 ATTTTGACCC
*
31661166 ACAGCTCATGTGAGCATACCGATTT
1 ACAGCTCATGAGAGCATACCGATTT
*
31661191 ACAGTTCATGAGAGCATACCGATT
1 ACAGCTCATGAGAGCATACCGATT
31661215 CACAACTCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (25 bp):
ACAGCTCATGAGAGCATACCGATTT
Found at i:31661230 original size:25 final size:26
Alignment explanation
Indices: 31661165--31661234 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 26
31661155 CATTTTGACC
*
31661165 CACAGCTCATG-TGAGCATACCGATT
1 CACAACTCATGATGAGCATACCGATT
* **
31661190 TACAGTTCATGA-GAGCATACCGATT
1 CACAACTCATGATGAGCATACCGATT
*
31661215 CACAACTCGT-ATGAGCATAC
1 CACAACTCATGATGAGCATAC
31661235 ATGTACCGGA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (26 bp):
CACAACTCATGATGAGCATACCGATT
Found at i:31665096 original size:47 final size:44
Alignment explanation
Indices: 31664984--31665111 Score: 143
Period size: 47 Copynumber: 2.8 Consensus size: 44
31664974 CCACTTGTGT
*
31664984 GAGCTAGTGTAAGACATGTCTGGGACATGCATAGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGG-C-CATTATGA
* *
31665030 GAGCCAGTGTAAGACCATGTCTGAGACATGGCATCGG-CATTGA-GA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATT-ATGA
31665075 CGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCG
1 -GA--GCTAGTGTAAGACATGTCTGGGACATGCATCG
31665112 ACTATGAGAT
Statistics
Matches: 71, Mismatches: 5, Indels: 12
0.81 0.06 0.14
Matches are distributed among these distances:
45 6 0.08
46 22 0.31
47 26 0.37
48 17 0.24
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATTATGA
Found at i:31665414 original size:13 final size:13
Alignment explanation
Indices: 31665396--31665420 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31665386 TGGCCGTATG
31665396 AAGGACACGAGCC
1 AAGGACACGAGCC
31665409 AAGGACACGAGC
1 AAGGACACGAGC
31665421 GTGTGCCAGG
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:0.40, C:0.28, G:0.32, T:0.00
Consensus pattern (13 bp):
AAGGACACGAGCC
Found at i:31667629 original size:24 final size:23
Alignment explanation
Indices: 31667594--31667645 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
31667584 ATAAATCGGT
31667594 AAAAGCTAAAATGCCAAAAAGCC
1 AAAAGCTAAAATGCCAAAAAGCC
* *
31667617 GAAAAGCTGAAATGCCGAAAAGCC
1 -AAAAGCTAAAATGCCAAAAAGCC
31667641 AAAAG
1 AAAAG
31667646 TTGGGCTACG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.54, C:0.19, G:0.19, T:0.08
Consensus pattern (23 bp):
AAAAGCTAAAATGCCAAAAAGCC
Found at i:31667788 original size:29 final size:29
Alignment explanation
Indices: 31667746--31667825 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 29
31667736 GGTTGATTTG
* *
31667746 GGCCTAATGGGCCATATGAATGTGAATTA
1 GGCCTAATGGGCCATATGAATATGAACTA
*
31667775 GGCCTAATGGGCCATAAGAATATGAACTA
1 GGCCTAATGGGCCATATGAATATGAACTA
*
31667804 GGCC-AGATGGGCCATTTGAATA
1 GGCCTA-ATGGGCCATATGAATA
31667826 AGATTGGGCC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
28 1 0.02
29 44 0.98
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.24
Consensus pattern (29 bp):
GGCCTAATGGGCCATATGAATATGAACTA
Found at i:31670849 original size:43 final size:42
Alignment explanation
Indices: 31670788--31670998 Score: 350
Period size: 43 Copynumber: 4.9 Consensus size: 42
31670778 GCTGGTATTA
31670788 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTA-TGCCGGTGATGTG
*
31670831 TATTCGGGCCTTCGTGCCTAGTAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTA-TGCCGGTGATGTG
31670874 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTT-ATGCCGGTGATGTG
*
31670917 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGTCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTT-ATGCCGGTGATGTG
*
31670960 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGC-TTATGCCGGTGA
31670999 AATGATATGT
Statistics
Matches: 161, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
43 159 0.99
44 2 0.01
ACGTcount: A:0.12, C:0.24, G:0.34, T:0.30
Consensus pattern (42 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTATGCCGGTGATGTG
Found at i:31671382 original size:45 final size:45
Alignment explanation
Indices: 31671313--31671399 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
31671303 TGTTGACTTG
* *
31671313 ATTATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGAT
1 ATTATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAGAT
**
31671358 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
1 ATTATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGA
31671400 ACTGATATCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (45 bp):
ATTATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAGAT
Found at i:31675137 original size:40 final size:39
Alignment explanation
Indices: 31675072--31675155 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 39
31675062 TATATATATA
** *
31675072 TAGCCGAAGCTATCTCAAATTGCACAC-CTAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAACCGCACACTC-AGTACCA-TTT
* *
31675112 TAGCCGAAGCTATTTCGAACCGCACACTCAGTACCATTT
1 TAGCCGAAGCTATCTCAAACCGCACACTCAGTACCATTT
31675151 TAGCC
1 TAGCC
31675156 AATAAGTCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
39 8 0.21
40 29 0.76
41 1 0.03
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.26
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAACCGCACACTCAGTACCATTT
Found at i:31683586 original size:38 final size:38
Alignment explanation
Indices: 31683543--31683703 Score: 178
Period size: 38 Copynumber: 4.0 Consensus size: 38
31683533 TTTCAAATTA
*
31683543 ACATGTATAACCGTGGCATATCCACTTAGCAGCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
31683581 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
* *
31683622 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTG
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* *
31683666 ACAAGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
31683704 TTTTCATTCC
Statistics
Matches: 103, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
38 62 0.60
39 1 0.01
40 3 0.03
41 2 0.02
42 1 0.01
43 1 0.01
44 1 0.01
45 3 0.03
46 1 0.01
47 28 0.27
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:31687577 original size:29 final size:29
Alignment explanation
Indices: 31687549--31687651 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
31687539 CCTCCGAGCT
** * * *
31687549 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
31687578 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
31687607 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
31687636 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
31687652 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:31695616 original size:29 final size:29
Alignment explanation
Indices: 31695575--31695677 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
31695565 CTCCGAAGCT
** * * *
31695575 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
31695604 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
31695633 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
31695662 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
31695678 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:31705097 original size:29 final size:29
Alignment explanation
Indices: 31705007--31705166 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
31704997 ACTCGATTTC
* * **
31705007 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
31705036 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
31705064 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
31705094 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
31705123 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
31705152 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
31705167 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:31710972 original size:23 final size:23
Alignment explanation
Indices: 31710946--31710992 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
31710936 TAGAATTTCC
* *
31710946 TTTTATATCATATTGTTTTCAAA
1 TTTTATATCATATTATGTTCAAA
* *
31710969 TTTTGTATGATATTATGTTCAAA
1 TTTTATATCATATTATGTTCAAA
31710992 T
1 T
31710993 ACTTTTTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (23 bp):
TTTTATATCATATTATGTTCAAA
Found at i:31711211 original size:17 final size:17
Alignment explanation
Indices: 31711189--31711221 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
31711179 TTTCATATAT
*
31711189 TATTATCTTTATGTATG
1 TATTATCTATATGTATG
31711206 TATTATCTATATGTAT
1 TATTATCTATATGTAT
31711222 CATTAATCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.06, G:0.09, T:0.58
Consensus pattern (17 bp):
TATTATCTATATGTATG
Found at i:31715783 original size:29 final size:29
Alignment explanation
Indices: 31715728--31715842 Score: 126
Period size: 29 Copynumber: 4.0 Consensus size: 29
31715718 GTGAGCATGA
* * *
31715728 ATATGAATGTGA-CTGGGCCTAAAGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
31715756 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * *
31715785 ATATACATGTGATTTGGGCCAAATGGGTC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * * *
31715814 ATATGAATAT-AATTGGGCTTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
31715842 A
1 A
31715843 GATACAGGTA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 26 0.36
29 47 0.64
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.29
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:31721437 original size:48 final size:48
Alignment explanation
Indices: 31721306--31721634 Score: 572
Period size: 48 Copynumber: 6.9 Consensus size: 48
31721296 AATATATATG
31721306 TGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
1 TGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
*
31721354 TATGTGGTAAAG-CGAATGGCTAATGTGAAATATGTATGAGATATGTA
1 TGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
31721401 TGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
1 TGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
*
31721449 TGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTGTA
1 TGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
*
31721497 TATGTGGTAAAG-CGAATGGCTAATGTGAAATATGTATGAGATATGTA
1 TGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
*
31721544 TGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
1 TGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
** * *
31721592 TACGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
31721635 GTGTGTATAT
Statistics
Matches: 269, Mismatches: 10, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 91 0.34
48 178 0.66
ACGTcount: A:0.33, C:0.06, G:0.30, T:0.31
Consensus pattern (48 bp):
TGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
Found at i:31721513 original size:95 final size:96
Alignment explanation
Indices: 31721308--31721634 Score: 577
Period size: 95 Copynumber: 3.4 Consensus size: 96
31721298 TATATATGTG
*
31721308 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG-CGAATG
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATGTGTGGTAAAGCCGAATG
*
31721372 GCTAATGTGAAATATGTATGAGATATGTATG
66 GCTAATGTGAAATATGTATGAGATATGTATA
31721403 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATGTGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATGTGTGGTAAAGCCGAATG
*
31721468 GCTAATGTGAAATATGTATGAGATGTGTATA
66 GCTAATGTGAAATATGTATGAGATATGTATA
31721499 TGTGGTAAAG-CGAATGGCTAATGTGAAATATGTATGAGATATGTATGTGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATGTGTGGTAAAGCCGAATG
*
31721563 GCTAGTGTGAAATATGTATGAGATATGTATA
66 GCTAATGTGAAATATGTATGAGATATGTATA
* * *
31721594 CGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
31721635 GTGTGTATAT
Statistics
Matches: 222, Mismatches: 8, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
95 149 0.67
96 73 0.33
ACGTcount: A:0.34, C:0.06, G:0.30, T:0.31
Consensus pattern (96 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATGTGTGGTAAAGCCGAATG
GCTAATGTGAAATATGTATGAGATATGTATA
Found at i:31721564 original size:143 final size:143
Alignment explanation
Indices: 31721306--31721638 Score: 612
Period size: 143 Copynumber: 2.3 Consensus size: 143
31721296 AATATATATG
*
31721306 TGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCGAAT
1 TGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTGTATATGTGGTAAAGCGAAT
31721371 GGCTAATGTGAAATATGTATGAGATATGTATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATG
66 GGCTAATGTGAAATATGTATGAGATATGTATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATG
31721436 TATGAGATATGTA
131 TATGAGATATGTA
31721449 TGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTGTATATGTGGTAAAGCGAAT
1 TGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTGTATATGTGGTAAAGCGAAT
*
31721514 GGCTAATGTGAAATATGTATGAGATATGTATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
66 GGCTAATGTGAAATATGTATGAGATATGTATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATG
31721579 TATGAGATATGTA
131 TATGAGATATGTA
** * *
31721592 TACGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGATGTGT
1 TGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTGT
31721639 GTATATTGTG
Statistics
Matches: 184, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
143 184 1.00
ACGTcount: A:0.33, C:0.06, G:0.30, T:0.31
Consensus pattern (143 bp):
TGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTGTATATGTGGTAAAGCGAAT
GGCTAATGTGAAATATGTATGAGATATGTATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATG
TATGAGATATGTA
Found at i:31721829 original size:37 final size:37
Alignment explanation
Indices: 31721774--31721949 Score: 282
Period size: 37 Copynumber: 4.8 Consensus size: 37
31721764 GGAAATATAT
*
31721774 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
31721811 TCTGGGTAAGACCTGATGACTATGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
31721848 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
31721885 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
31721922 T-CGGGTAAGACCTGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
31721950 GGACTATTCG
Statistics
Matches: 129, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
36 25 0.19
37 104 0.81
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:31725792 original size:16 final size:16
Alignment explanation
Indices: 31725760--31725820 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
31725750 TGTAACGCCT
*
31725760 CAAAAATCTCGAAATC
1 CAAAAATCCCGAAATC
*
31725776 CAAAAATCCCGAGATC
1 CAAAAATCCCGAAATC
** *
31725792 CTGAAATCCTGAAATC
1 CAAAAATCCCGAAATC
**
31725808 CTGAAATCCCGAA
1 CAAAAATCCCGAA
31725821 TTTTATTTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.43, C:0.28, G:0.11, T:0.18
Consensus pattern (16 bp):
CAAAAATCCCGAAATC
Found at i:31725800 original size:8 final size:8
Alignment explanation
Indices: 31725779--31725816 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
31725769 CGAAATCCAA
*
31725779 AAATCCCG
1 AAATCCTG
*
31725787 AGATCCTG
1 AAATCCTG
31725795 AAATCCTG
1 AAATCCTG
31725803 AAATCCTG
1 AAATCCTG
31725811 AAATCC
1 AAATCC
31725817 CGAATTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.37, C:0.29, G:0.13, T:0.21
Consensus pattern (8 bp):
AAATCCTG
Found at i:31725816 original size:24 final size:24
Alignment explanation
Indices: 31725770--31725816 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
31725760 CAAAAATCTC
*
31725770 GAAATCCAAAAATCCCGAGATCCT
1 GAAATCCAAAAATCCCGAAATCCT
** *
31725794 GAAATCCTGAAATCCTGAAATCC
1 GAAATCCAAAAATCCCGAAATCC
31725817 CGAATTTTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (24 bp):
GAAATCCAAAAATCCCGAAATCCT
Found at i:31725996 original size:16 final size:16
Alignment explanation
Indices: 31725975--31726013 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
31725965 ATGTATCGGC
31725975 AAAAGCCGAAATG-CA
1 AAAAGCCGAAATGCCA
31725990 GAAAAGCCGAAATGCCA
1 -AAAAGCCGAAATGCCA
31726007 AAAAGCC
1 AAAAGCC
31726014 AAAAGTTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 20 0.91
17 2 0.09
ACGTcount: A:0.51, C:0.23, G:0.21, T:0.05
Consensus pattern (16 bp):
AAAAGCCGAAATGCCA
Found at i:31726158 original size:18 final size:18
Alignment explanation
Indices: 31726135--31726169 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
31726125 TATGGGCCGG
31726135 AATGGGCCCGATGGGCTA
1 AATGGGCCCGATGGGCTA
31726153 AATGGGCCCGATGGGCT
1 AATGGGCCCGATGGGCT
31726170 GTTGGTCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.20, C:0.23, G:0.40, T:0.17
Consensus pattern (18 bp):
AATGGGCCCGATGGGCTA
Found at i:31726316 original size:28 final size:29
Alignment explanation
Indices: 31726255--31726322 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 29
31726245 GTGACTCGGT
* *
31726255 CTAACGGGCCATATAAATGTCATTTGGGC
1 CTAATGGGCCATATAAATATCATTTGGGC
* *
31726284 CTAATGGGCCATATGAATATGA-TTGGGC
1 CTAATGGGCCATATAAATATCATTTGGGC
*
31726312 TTAATGGGCCA
1 CTAATGGGCCA
31726323 GATACAGGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 16 0.47
29 18 0.53
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (29 bp):
CTAATGGGCCATATAAATATCATTTGGGC
Found at i:31732101 original size:14 final size:14
Alignment explanation
Indices: 31732059--31732101 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
31732049 AAGGTTCATT
31732059 TTATTTTATACATA
1 TTATTTTATACATA
* *
31732073 TTA-TTAATAATATA
1 TTATTTTAT-ACATA
31732087 TTATTTTATACATA
1 TTATTTTATACATA
31732101 T
1 T
31732102 GTTTTCCCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
13 4 0.17
14 15 0.65
15 4 0.17
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (14 bp):
TTATTTTATACATA
Found at i:31733176 original size:131 final size:131
Alignment explanation
Indices: 31732997--31733352 Score: 432
Period size: 131 Copynumber: 2.7 Consensus size: 131
31732987 TCATTCATTC
*
31732997 AAAAATTCTTCAAAACGAAGACGAGATTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTG
1 AAAAATTCTTCAAAACGAAGACGAGATTCGATGTTT-GCAATTTGCGGAATCGTGCCCTAACGTG
* *
31733062 TTGGGTTGCAATTTCATGTTTGCTCAAAATAATCGAATA-CCACTTCAAAATTTCACTT-ATGTC
65 TTGGGTTGCAATTTCACGTTTGCTCAAAATAATCGAATATCC-CTTCAAAATTTCA-TTCATATC
31733125 TT-T
128 TTCT
* * * * *
31733128 TAAAATTCTTGAAAACGGAGACGAGATTCGATATTTAGCAATTTGCGGAATCGTGCCCTAACATG
1 AAAAATTCTTCAAAACGAAGACGAGATTCGATGTTT-GCAATTTGCGGAATCGTGCCCTAACGTG
* *
31733193 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAGTATCCCTTCAAAATTTCATTCATATCTT
65 TTGGGTTGCAATTTCACGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATATCTT
31733258 CT
130 CT
* * * * * * * * *
31733260 AAAAATTATTTAAAACGAAGGCAATATTCGGTGTTTGACAATTTG-AGAATAGTGCCCTATCGTG
1 AAAAATTCTTCAAAACGAAGACGAGATTCGATGTTTG-CAATTTGCGGAATCGTGCCCTAACGTG
** * *
31733324 TTGGGTTGTGATTTCTCATTTGCTCAAAA
65 TTGGGTTGCAATTTCACGTTTGCTCAAAA
31733353 CGATTGAACA
Statistics
Matches: 193, Mismatches: 28, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
130 2 0.01
131 154 0.80
132 37 0.19
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (131 bp):
AAAAATTCTTCAAAACGAAGACGAGATTCGATGTTTGCAATTTGCGGAATCGTGCCCTAACGTGT
TGGGTTGCAATTTCACGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATATCTTC
T
Found at i:31740237 original size:14 final size:14
Alignment explanation
Indices: 31740218--31740253 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
31740208 TGATGCCTCC
31740218 TTTGCATTCATGCA
1 TTTGCATTCATGCA
31740232 TTTGCATTCATGCA
1 TTTGCATTCATGCA
31740246 TTTGCATT
1 TTTGCATT
31740254 ACATTACATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (14 bp):
TTTGCATTCATGCA
Found at i:31743962 original size:14 final size:13
Alignment explanation
Indices: 31743933--31743977 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
31743923 AGTGGGTGGA
31743933 AATAATATT-A-T
1 AATAATATTAAGT
31743944 AATAATATTAAAGT
1 AATAATATT-AAGT
*
31743958 TATAATA-TAAGT
1 AATAATATTAAGT
31743970 AATAATAT
1 AATAATAT
31743978 GTATATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 9 0.32
12 10 0.36
13 2 0.07
14 7 0.25
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
AATAATATTAAGT
Found at i:31744959 original size:40 final size:41
Alignment explanation
Indices: 31744885--31744961 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
31744875 ATAGGGATAT
*
31744885 TCGGGCTTTTATCCTAGCAAGCTTTATGCTGGTGAATGTAA
1 TCGGGCTTTTATCCTAGCAAGCTTTATGCCGGTGAATGTAA
*
31744926 TCGGGC-TTTATGCCTAGC-AG-GTTATTGCCGGTGAAT
1 TCGGGCTTTTAT-CCTAGCAAGCTTTA-TGCCGGTGAAT
31744962 AATATCAGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
39 3 0.09
40 17 0.53
41 12 0.38
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.35
Consensus pattern (41 bp):
TCGGGCTTTTATCCTAGCAAGCTTTATGCCGGTGAATGTAA
Found at i:31745302 original size:50 final size:51
Alignment explanation
Indices: 31745121--31745302 Score: 149
Period size: 50 Copynumber: 3.6 Consensus size: 51
31745111 ATCTTGTATT
* * *
31745121 TATTCGGCCACATAGGTATGTACATATGTGACGTTATA-TTGAATCTTGAA
1 TATTCGGCCATATAGGTATGCACATATGTGATGTTATATTTGAATCTTGAA
* * * * * *
31745171 TATTTGACCATGA-AGGTATGCACAAAAGTGATATTATATTTGAAT-TTGTA
1 TATTCGGCCAT-ATAGGTATGCACATATGTGATGTTATATTTGAATCTTGAA
* * * * * * *
31745221 TATTCAGCCATAT-GAGTAAGTACTTAGGTGATGTTAAATTTG-ATCTTGCA
1 TATTCGGCCATATAG-GTATGCACATATGTGATGTTATATTTGAATCTTGAA
* *
31745271 TATTTGGCCATATAGGTATGCACATTTGTGAT
1 TATTCGGCCATATAGGTATGCACATATGTGAT
31745303 ATTGTCTTTG
Statistics
Matches: 99, Mismatches: 27, Indels: 12
0.72 0.20 0.09
Matches are distributed among these distances:
49 4 0.04
50 87 0.88
51 8 0.08
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.38
Consensus pattern (51 bp):
TATTCGGCCATATAGGTATGCACATATGTGATGTTATATTTGAATCTTGAA
Found at i:31745380 original size:2 final size:2
Alignment explanation
Indices: 31745373--31745397 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
31745363 GATTCATGAG
31745373 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
31745398 TTGAATGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:31747545 original size:40 final size:39
Alignment explanation
Indices: 31747496--31747652 Score: 201
Period size: 39 Copynumber: 4.0 Consensus size: 39
31747486 AAATCCAATC
* *
31747496 ACCACCAC-AAAGCATGCGGGACTTTAAGCCCGGATATAAT
1 ACCAGCACGAAAGCCTGCGGGAC-TT-AGCCCGGATATAAT
*
31747536 ACCAGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAAC
1 ACCAGCACGAAAGCCTGCGGGAC-TTAGCCCGGATATAAT
* * *
31747575 ACCAGCACGAATGCCTTCGGGACTTAGCTCGGATATAAT
1 ACCAGCACGAAAGCCTGCGGGACTTAGCCCGGATATAAT
* *
31747614 ACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAAT
1 ACCAGCACGAAAGCCTGCGGGACTTAGCCCGGATATAAT
31747653 TCTCCATTAT
Statistics
Matches: 108, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
39 73 0.68
40 35 0.32
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (39 bp):
ACCAGCACGAAAGCCTGCGGGACTTAGCCCGGATATAAT
Found at i:31747652 original size:39 final size:40
Alignment explanation
Indices: 31747512--31747652 Score: 216
Period size: 39 Copynumber: 3.6 Consensus size: 40
31747502 ACAAAGCATG
* *
31747512 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGACTTT-AGCCCGGATATAATACCAGCACGAATGCCTT
*
31747552 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTTAGCCCGGATATAATACCAGCACGAATGCCTT
*
31747592 CGGGAC-TTAGCTCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTTAGCCCGGATATAATACCAGCACGAATGCCTT
31747631 CGGGAC-TTAGCCCGGATATAAT
1 CGGGACTTTAGCCCGGATATAAT
31747653 TCTCCATTAT
Statistics
Matches: 94, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 73 0.78
40 21 0.22
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (40 bp):
CGGGACTTTAGCCCGGATATAATACCAGCACGAATGCCTT
Found at i:31763442 original size:84 final size:78
Alignment explanation
Indices: 31763298--31763511 Score: 329
Period size: 84 Copynumber: 2.7 Consensus size: 78
31763288 GCGGACTTTA
* *
31763298 AGCCCAGATATAATACCAGCACGAATGCCTTCGGGACTTAACCCGGATATAACACTAGCACGAAT
1 AGCCCAGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAAT
31763363 GCCTTCGGGACTTAGCCTT
66 GCCTTCGGG----A--CTT
*
31763382 AGCCCAGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCAGATATAACACCAGCACGAAT
1 AGCCCAGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAAT
31763447 GCCTTCGGGACTT
66 GCCTTCGGGACTT
* *
31763460 AGCCCAGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCTGGATATAA
1 AGCCCAGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
31763512 TTCTCCATTA
Statistics
Matches: 124, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
78 52 0.42
80 1 0.01
84 71 0.57
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.20
Consensus pattern (78 bp):
AGCCCAGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAAT
GCCTTCGGGACTT
Found at i:31763500 original size:39 final size:39
Alignment explanation
Indices: 31763298--31763511 Score: 311
Period size: 39 Copynumber: 5.3 Consensus size: 39
31763288 GCGGACTTTA
*
31763298 AGCCCAGATATAATACCAGCACGAATGCCTTCGGGACTT
1 AGCCCAGATATAACACCAGCACGAATGCCTTCGGGACTT
* * *
31763337 AACCCGGATATAACACTAGCACGAATGCCTTCGGGACTTAGCCTT
1 AGCCCAGATATAACACCAGCACGAATGCCTTCGGG----A--CTT
*
31763382 AGCCCAGATATAATACCAGCACGAATGCCTTCGGGACTT
1 AGCCCAGATATAACACCAGCACGAATGCCTTCGGGACTT
31763421 AGCCCAGATATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCCAGATATAACACCAGCACGAATGCCTTCGGGACTT
31763460 AGCCCAGATATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCCAGATATAACACCAGCACGAATGCCTTCGGGACTT
**
31763499 AGCCTGGATATAA
1 AGCCCAGATATAA
31763512 TTCTCCATTA
Statistics
Matches: 158, Mismatches: 11, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
39 122 0.77
41 1 0.01
43 1 0.01
45 34 0.22
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.20
Consensus pattern (39 bp):
AGCCCAGATATAACACCAGCACGAATGCCTTCGGGACTT
Found at i:31769973 original size:79 final size:78
Alignment explanation
Indices: 31769825--31769973 Score: 219
Period size: 79 Copynumber: 1.9 Consensus size: 78
31769815 TGTGATTTTC
** * **
31769825 TCAAAAAAAAAAAAAAGGCCAAAGTGAAAACCCGCAAAGGGTGCTTTGAGACCTAATAAAAATGG
1 TCAAAAAAAAAAAAAAGGCCAAAGTGAAAACCCGCAAAGGGCACTTTCAGACCTAATAAAAATAA
31769890 AAAAGGACCAAAG
66 AAAAGGACCAAAG
*
31769903 TCAAAAAAAAAAAAATGGGCCAAAGTGAAAACCCGCAAAGGGCACTTTCAGA-CTCAATAAAAAT
1 TCAAAAAAAAAAAAA-AGGCCAAAGTGAAAACCCGCAAAGGGCACTTTCAGACCT-AATAAAAAT
31769967 AAAAAAG
64 AAAAAAG
31769974 AAAAAAGAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
78 17 0.27
79 46 0.73
ACGTcount: A:0.54, C:0.16, G:0.18, T:0.12
Consensus pattern (78 bp):
TCAAAAAAAAAAAAAAGGCCAAAGTGAAAACCCGCAAAGGGCACTTTCAGACCTAATAAAAATAA
AAAAGGACCAAAG
Found at i:31771408 original size:89 final size:89
Alignment explanation
Indices: 31771244--31771409 Score: 192
Period size: 89 Copynumber: 1.9 Consensus size: 89
31771234 CGAAAGAGGT
* * * ** *
31771244 GAATCTTATCTCCATGTATCAGTAATGGAGCAGATTTAAGCCCCAAGATTTATTTCCCTGAAGTT
1 GAATCTTATCTCCATGTATCAGCAATGGAGCAAATTTAAGCCCCAAGACTTAGCTCCCTGAAGTA
*
31771309 GCAGCGGAGCAGATAAAAAATGGC
66 GCAGCAGAGCAGATAAAAAATGGC
* * * * *
31771333 GAATCTTATCTCTATGTATCAGCAATGGAGTAAATTTAAGCCACC-AGCCTTAGCTCTCTGAGGT
1 GAATCTTATCTCCATGTATCAGCAATGGAGCAAATTTAAGCC-CCAAGACTTAGCTCCCTGAAGT
31771397 AGCAAG-AGAGCAG
65 AGC-AGCAGAGCAG
31771410 GTTGAAGAAT
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
89 59 0.94
90 4 0.06
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (89 bp):
GAATCTTATCTCCATGTATCAGCAATGGAGCAAATTTAAGCCCCAAGACTTAGCTCCCTGAAGTA
GCAGCAGAGCAGATAAAAAATGGC
Found at i:31771764 original size:263 final size:263
Alignment explanation
Indices: 31771058--31771813 Score: 969
Period size: 263 Copynumber: 2.9 Consensus size: 263
31771048 AAGTTACAAT
* * *
31771058 GGAGCAGATTGAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGTGGATTTAAGCCACCA
1 GGAGCAGATAGAAGATGGCAAATCTTATCTCCATGTATCGACAATGGAGTAGATTTAAGCCACCA
* *
31771123 GCCTTATCTCTCTGAGGTAACAAGAGAGTAGGTTGAAGA--A-TC-T-TC--CTGAGGTAGCAAG
66 GCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATGAGTCTTATCTTCTGAGGTAGCAAG
* *
31771181 GAAGCAGACTGGATG-TTGAAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGAGGTG
131 GAAGCAGACT-GAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGAGGCG
* * * **
31771245 AATCTTATCTCCATGTATC-AGTAATGGAGCAGATTTAAGCCCCAAGATTTATTTCCCTGAAGTT
195 AATCCTATCTCCATGTATCGA-CAATGGAGCAGATTTAAGCCCCAAGATTTATATCCCTGAAGCA
31771309 GCAGC
259 GCAGC
* * * * *
31771314 GGAGCAGATAAAAAATGGCGAATCTTATCTCTATGTATC-AGCAATGGAGTAAATTTAAGCCACC
1 GGAGCAGATAGAAGATGGCAAATCTTATCTCCATGTATCGA-CAATGGAGTAGATTTAAGCCACC
* * *
31771378 AGCCTTAGCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCCGAGGTAGG
65 AGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAG-ATGAGTCTTATCTT-CTGAGGTAGC
* * * *
31771443 AAGGAAGTAGACTGAAGATTGAAGATCTTACCTCCCTAGGCAGTAGCGGAGAAGATCGAAAGAGG
128 AAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGAGG
31771508 CGAATCCTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCCCAAGATTTATATCCCT-AAGC
193 CGAATCCTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCCCAAGATTTATATCCCTGAAGC
* *
31771572 AGTAGG
258 AGCAGC
* ** * * **
31771578 GGAGCAGATCGAAGATGGTTAATCTTATCTCCATGTATCGACAATGGAGCAGATTTTA-CCACTG
1 GGAGCAGATAGAAGATGGCAAATCTTATCTCCATGTATCGACAATGGAGTAGATTTAAGCCACCA
* * * *
31771642 GCCTTATCTCTTTGAGGTAGCAAAAGAACAGGTTGAAGATTGAGTCTTATCTTTCTGAAGTAGCA
66 GCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA-TGAGTCTTATC-TTCTGAGGTAGCA
* * * *
31771707 AGAAAGCAGACTGAAGATTAAAGATCTTATCTCCCAAAGCAGTAGTGGAGCAGATCGAAAGAGGC
129 AGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGAGGC
* * *
31771772 GAATCGTATCTCCATATATCGACAATGGAGCAGATTTTAGCC
194 GAATCCTATCTCCATGTATCGACAATGGAGCAGATTTAAGCC
31771814 ACTAGCTTTA
Statistics
Matches: 430, Mismatches: 55, Indels: 23
0.85 0.11 0.05
Matches are distributed among these distances:
256 91 0.21
257 1 0.00
259 1 0.00
260 2 0.00
261 1 0.00
262 3 0.01
263 153 0.36
264 58 0.13
265 119 0.28
266 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (263 bp):
GGAGCAGATAGAAGATGGCAAATCTTATCTCCATGTATCGACAATGGAGTAGATTTAAGCCACCA
GCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATGAGTCTTATCTTCTGAGGTAGCAAG
GAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGAGGCGA
ATCCTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCCCAAGATTTATATCCCTGAAGCAGC
AGC
Found at i:31773765 original size:17 final size:17
Alignment explanation
Indices: 31773743--31773775 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
31773733 TTTCATTTAT
*
31773743 TATTATCTTTATGTATG
1 TATTATCTATATGTATG
31773760 TATTATCTATATGTAT
1 TATTATCTATATGTAT
31773776 CATTAATCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.06, G:0.09, T:0.58
Consensus pattern (17 bp):
TATTATCTATATGTATG
Found at i:31781361 original size:40 final size:40
Alignment explanation
Indices: 31781259--31781410 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
31781249 AAATTGAATG
* * * * * *
31781259 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
31781299 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
31781339 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* *
31781379 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
31781411 AAATCGTGAC
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.03
40 91 0.95
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:31798962 original size:42 final size:42
Alignment explanation
Indices: 31798887--31798982 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 42
31798877 TAAGATTATG
** *
31798887 TGTAAGACCATATCTGGGATATGGAATCTATATGAGACTTCA
1 TGTAAGACCATATCTACGATATGGAATCGATATGAGACTTCA
* * * *
31798929 TGTAAGACCATATCTACGATCTTGCATCGATATGAGACTTCG
1 TGTAAGACCATATCTACGATATGGAATCGATATGAGACTTCA
*
31798971 TGTCAGACCATA
1 TGTAAGACCATA
31798983 ACTGGGCTAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTACGATATGGAATCGATATGAGACTTCA
Found at i:31799812 original size:38 final size:38
Alignment explanation
Indices: 31799770--31799846 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
31799760 TCACATGGCC
*
31799770 TGGCCCAAATTCCCACACGTCCGTGTAGACTACCCGTG
1 TGGCCCAAATTCCCACACGTCCATGTAGACTACCCGTG
* *
31799808 TGGCCCAAATTCCCACACGTTCATGTGGACTACCCGTG
1 TGGCCCAAATTCCCACACGTCCATGTAGACTACCCGTG
31799846 T
1 T
31799847 AGTACCACAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.21, C:0.35, G:0.21, T:0.23
Consensus pattern (38 bp):
TGGCCCAAATTCCCACACGTCCATGTAGACTACCCGTG
Found at i:31813970 original size:47 final size:48
Alignment explanation
Indices: 31813916--31814183 Score: 207
Period size: 47 Copynumber: 5.7 Consensus size: 48
31813906 TCTTGTGTGT
31813916 CAGTGTAAGACATGTCTGGGACATGGCATCGGCATAGAGATGAGTA-C
1 CAGTGTAAGACATGTCTGGGACATGGCATCGGCATAGAGATGAGTAGC
* * * *
31813963 CAGTGTAAGACATGTTTGGGACAT-GCGTCGGCCTCGATGATGA-TAGC
1 CAGTGTAAGACATGTCTGGGACATGGCATCGGCATAGA-GATGAGTAGC
* * * *
31814010 CAGTGTAAGACGTGTCTGGGACA-CGCATCTG-ATA-AGA-GTTGT-GC
1 CAGTGTAAGACATGTCTGGGACATGGCATCGGCATAGAGATG-AGTAGC
* * * * *
31814054 TAGTGTAAGACATGTCTGGGACAT-GCATCAGCACGTATATACGAG-AGC
1 CAGTGTAAGACATGTCTGGGACATGGCATCGGCA--TAGAGATGAGTAGC
* * * * * *
31814102 TAGTATAAGACCATGTTTGGGACATGGCATCGGCCTTGATGAT-ACTAGC
1 CAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATAGA-GATGAGTAGC
* *
31814151 TAGTGTAAGACCATGTTTGGGACATGGCATCGG
1 CAGTGTAAGA-CATGTCTGGGACATGGCATCGG
31814184 TAACTTATCC
Statistics
Matches: 179, Mismatches: 26, Indels: 30
0.76 0.11 0.13
Matches are distributed among these distances:
43 1 0.01
44 31 0.17
45 3 0.02
46 13 0.07
47 57 0.32
48 17 0.09
49 50 0.28
50 7 0.04
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
CAGTGTAAGACATGTCTGGGACATGGCATCGGCATAGAGATGAGTAGC
Found at i:31814125 original size:49 final size:49
Alignment explanation
Indices: 31814052--31814181 Score: 160
Period size: 49 Copynumber: 2.7 Consensus size: 49
31814042 TAAGAGTTGT
*
31814052 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACGT-AT-ATACGAGA
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGC-CGTGATGATAC--GA
* * * *
31814100 GCTAGTATAAGACCATGTTTGGGACATGGCATCGGCCTTGATGATACTA
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCGTGATGATACGA
31814149 GCTAGTGTAAGACCATGTTTGGGACATGGCATC
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATC
31814182 GGTAACTTAT
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
48 11 0.15
49 48 0.67
50 9 0.12
51 4 0.06
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (49 bp):
GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCGTGATGATACGA
Found at i:31816974 original size:50 final size:51
Alignment explanation
Indices: 31816896--31817024 Score: 181
Period size: 50 Copynumber: 2.5 Consensus size: 51
31816886 GACCATGGCA
* *
31816896 ACAAGTGATAAGTGATAGCTTCGCCTACAGTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
31816947 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
31816997 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
31817025 CTGATCAGTG
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 43 0.61
51 27 0.39
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:31817038 original size:31 final size:31
Alignment explanation
Indices: 31817000--31817148 Score: 219
Period size: 31 Copynumber: 4.8 Consensus size: 31
31816990 ACAAATGACA
*
31817000 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
**
31817031 AGTGAAAAGTGGTAGCTTCTACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
31817062 AATGAAAAGTGGTAGTTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
31817093 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
31817124 AGT-AAATAGTGGTAGCTTCGGCTAC
1 AGTGAAA-AGTGGTAGCTTCGGCTAC
31817149 AAGTGACAAG
Statistics
Matches: 105, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
30 3 0.03
31 102 0.97
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:31817240 original size:47 final size:47
Alignment explanation
Indices: 31817171--31817295 Score: 162
Period size: 47 Copynumber: 2.7 Consensus size: 47
31817161 CAAGTGATTT
*
31817171 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGCTA
* * * * *
31817218 CTGTATAAGACAATATCTGGGATATGGCATCAGTGAGATATGTGGTT
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGCTA
* * *
31817265 C-GTGTAAGACCATAGCTGGGCTATGGCATCG
1 CTGTATAAGACCATATCTGGGATATGGCATCG
31817296 ATATATGAAT
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
46 25 0.37
47 42 0.63
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (47 bp):
CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGCTA
Found at i:31817321 original size:42 final size:43
Alignment explanation
Indices: 31817266--31817380 Score: 162
Period size: 42 Copynumber: 2.7 Consensus size: 43
31817256 TATGTGGTTC
*
31817266 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* *
31817308 GTGTAAGACCATAGCTGGGTTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
31817350 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
31817381 GAAAACAAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
41 1 0.02
42 62 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:31819737 original size:46 final size:46
Alignment explanation
Indices: 31819686--31819853 Score: 160
Period size: 46 Copynumber: 3.6 Consensus size: 46
31819676 TCTTGTAGCT
*
31819686 GATGCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATATCGAGGCC
* * * * * *
31819732 GATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTTTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATCGAGGCC
* * * * * *
31819778 GATTCCATGTCCCAGTCATGGTATTACATTGGCTCTCATAAT-GTGGCT
1 GA-TGCATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-ATCGAGGCC
*
31819826 GATGCATGTCCCAGATATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
31819854 AGCACACAAT
Statistics
Matches: 95, Mismatches: 23, Indels: 8
0.75 0.18 0.06
Matches are distributed among these distances:
46 48 0.51
47 27 0.28
48 19 0.20
49 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATCGAGGCC
Found at i:31822668 original size:18 final size:18
Alignment explanation
Indices: 31822645--31822682 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
31822635 GTAAAGAAAA
31822645 CAAAATTTAAAGAATGCT
1 CAAAATTTAAAGAATGCT
31822663 CAAAATTTAAAGAATGCT
1 CAAAATTTAAAGAATGCT
31822681 CA
1 CA
31822683 TCTTTCTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.13, G:0.11, T:0.26
Consensus pattern (18 bp):
CAAAATTTAAAGAATGCT
Done.