Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 263 of 335
Found at i:79593860 original size:28 final size:28
Alignment explanation
Indices: 79593791--79593891 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
79593781 GACAAGATTG
* * * *
79593791 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
79593821 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
79593849 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
79593878 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
79593892 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:79599808 original size:32 final size:32
Alignment explanation
Indices: 79599772--79599836 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
79599762 TAGATGCCAC
79599772 TTTTTGTAAATATTTTCAAAAGGCTTCTAGAA
1 TTTTTGTAAATATTTTCAAAAGGCTTCTAGAA
79599804 TTTTTGTAAATATTTTCAAAAGGCTTCTAGAA
1 TTTTTGTAAATATTTTCAAAAGGCTTCTAGAA
79599836 T
1 T
79599837 AAATGTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (32 bp):
TTTTTGTAAATATTTTCAAAAGGCTTCTAGAA
Found at i:79606505 original size:40 final size:40
Alignment explanation
Indices: 79606461--79606596 Score: 218
Period size: 40 Copynumber: 3.4 Consensus size: 40
79606451 TATTTTAATC
* * *
79606461 TCACACACTAAGTGTCATATATAGCCGAAGCTATCTCGAA
1 TCACACACTAAGTGCCATACATAGCCGAAGCTATCTTGAA
79606501 TCACACACTAAGTGCCATACATAGCCGAAGCTATCTTGAA
1 TCACACACTAAGTGCCATACATAGCCGAAGCTATCTTGAA
*
79606541 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTTGAA
1 TCACACACTAAGTGCCATACATAGCCGAAGCTATCTTGAA
**
79606581 TTGCACACTAAGTGCC
1 TCACACACTAAGTGCC
79606597 TTACTTAACT
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 91 1.00
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (40 bp):
TCACACACTAAGTGCCATACATAGCCGAAGCTATCTTGAA
Found at i:79612746 original size:25 final size:25
Alignment explanation
Indices: 79612713--79612760 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
79612703 TTAAATTAAC
79612713 TATTATATATTA-CTTATTTTAAAAT
1 TATTATATA-TACCTTATTTTAAAAT
*
79612738 TATTTTATATACCTTATTTTAAA
1 TATTATATATACCTTATTTTAAA
79612761 CCCATTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (25 bp):
TATTATATATACCTTATTTTAAAAT
Found at i:79617897 original size:3 final size:3
Alignment explanation
Indices: 79617889--79617944 Score: 89
Period size: 3 Copynumber: 19.0 Consensus size: 3
79617879 AGATATTTAC
79617889 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
79617935 TTA TCTA TTA
1 TTA T-TA TTA
79617945 ATTGAGATAA
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.08
3 43 0.86
4 3 0.06
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:79620642 original size:68 final size:67
Alignment explanation
Indices: 79620570--79620719 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
79620560 CATCATGTGT
* * * *
79620570 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
79620632 ATGTAG
62 ATGTAG
** * *
79620638 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
79620703 AG
66 AG
79620705 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
79620720 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:79620675 original size:64 final size:64
Alignment explanation
Indices: 79620594--79620777 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
79620584 AGACATTATG
* *
79620594 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
79620658 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
79620723 AA
63 AA
* * * *
79620725 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
79620778 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:79625064 original size:68 final size:67
Alignment explanation
Indices: 79624992--79625141 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
79624982 CATCATGTGT
* * * *
79624992 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
79625054 ATGTAG
62 ATGTAG
** * *
79625060 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
79625125 AG
66 AG
79625127 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
79625142 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:79625097 original size:64 final size:64
Alignment explanation
Indices: 79625016--79625199 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
79625006 AGACATTATG
* *
79625016 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
79625080 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
79625145 AA
63 AA
* * * *
79625147 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
79625200 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:79627246 original size:27 final size:27
Alignment explanation
Indices: 79627216--79627289 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
79627206 TTAGTTTACC
*
79627216 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* * *
79627243 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTATA
* *
79627270 AAATTATCGAAATACCCCTG
1 AAATTACCAAAATACCCCTG
79627290 TAGGGTAGAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTATA
Found at i:79627301 original size:27 final size:27
Alignment explanation
Indices: 79627271--79627491 Score: 295
Period size: 27 Copynumber: 8.3 Consensus size: 27
79627261 TTGTTTATAA
*
79627271 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
79627298 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
79627325 AGTTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
79627352 AATTACCGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
79627379 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
79627406 AATTACCGGAATACCCCTGTTGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
79627433 AATTA-CTAAATACCCCTGTAGGGT-G
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
79627458 CAATTACCGAGATA-CCTTGTGGGGTAA
1 -AATTACCGAAATACCCCTGTAGGGTAG
79627485 AATTACC
1 AATTACC
79627492 ATTTTGCCCC
Statistics
Matches: 172, Mismatches: 19, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
25 1 0.01
26 37 0.22
27 134 0.78
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:79628201 original size:27 final size:26
Alignment explanation
Indices: 79628164--79628220 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
79628154 ATTATCTGTT
* *
79628164 TCTGTTCTGGTGGCTCTGCCACAATA
1 TCTGTTCTGGTGACTCTACCACAATA
*
79628190 TCTGTATCTGGTGACTCTATCACAATA
1 TCTGT-TCTGGTGACTCTACCACAATA
79628217 TCTG
1 TCTG
79628221 ATAACTGAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (26 bp):
TCTGTTCTGGTGACTCTACCACAATA
Found at i:79628395 original size:6 final size:6
Alignment explanation
Indices: 79628380--79628464 Score: 59
Period size: 6 Copynumber: 13.8 Consensus size: 6
79628370 ATTCTATTAC
* * * *
79628380 CTGATA CTGATT CTGATT TTAATT CTG-TT ACCTGATT CTGATT CT-ATCAC
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGAT--T
*
79628430 CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
79628465 AATGTTTCTT
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
5 5 0.08
6 48 0.76
7 6 0.10
8 4 0.06
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:79628411 original size:31 final size:32
Alignment explanation
Indices: 79628357--79628424 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 32
79628347 TTGCATTCAC
*
79628357 ATTCTGATTTTTTATTCTATTACCTGATACTG
1 ATTCTGATTTTTAATTCTATTACCTGATACTG
* *
79628389 ATTCTGA-TTTTAATTCTGTTACCTGATTCTG
1 ATTCTGATTTTTAATTCTATTACCTGATACTG
79628420 ATTCT
1 ATTCT
79628425 ATCACCTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 26 0.79
32 7 0.21
ACGTcount: A:0.21, C:0.16, G:0.10, T:0.53
Consensus pattern (32 bp):
ATTCTGATTTTTAATTCTATTACCTGATACTG
Found at i:79628423 original size:19 final size:19
Alignment explanation
Indices: 79628401--79628444 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
79628391 TCTGATTTTA
* *
79628401 ATTCTGTTACCTGATTCTG
1 ATTCTGTCACCTAATTCTG
*
79628420 ATTCTATCACCTAATTCTG
1 ATTCTGTCACCTAATTCTG
79628439 ATTCTG
1 ATTCTG
79628445 ATTCTGATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.23, G:0.11, T:0.45
Consensus pattern (19 bp):
ATTCTGTCACCTAATTCTG
Found at i:79630843 original size:20 final size:20
Alignment explanation
Indices: 79630809--79630864 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
79630799 GCCCATGGCT
* * * *
79630809 GGCCCCACGGCCATGTTCTA
1 GGCCACACGGGCATGTCCCA
*
79630829 GGCCACAGGGGCATGTCCCA
1 GGCCACACGGGCATGTCCCA
79630849 GGCCACACGGGCATGT
1 GGCCACACGGGCATGT
79630865 GCCTCTATCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.18, C:0.36, G:0.32, T:0.14
Consensus pattern (20 bp):
GGCCACACGGGCATGTCCCA
Found at i:79634890 original size:40 final size:40
Alignment explanation
Indices: 79634795--79634932 Score: 163
Period size: 40 Copynumber: 3.4 Consensus size: 40
79634785 ACTCGACTTC
* * *
79634795 TCGCCCACTAAGTGCAAATACATAGCTGAAGCTAT-TTTAA
1 TCGCACACTAAGTGC-CATACATAGCTGAAGCTATCTTGAA
* *
79634835 TCTCGCACACTAAGTGCCATATATAGCTGAAGCTATCTTGAG
1 --TCGCACACTAAGTGCCATACATAGCTGAAGCTATCTTGAA
79634877 TCGCACACTAAGTGCCATACATAG-TCGAAGCTATCTTGAA
1 TCGCACACTAAGTGCCATACATAGCT-GAAGCTATCTTGAA
**
79634917 TCATACACTAAGTGCC
1 TCGCACACTAAGTGCC
79634933 TTACTTAACC
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 1 0.01
40 50 0.59
41 17 0.20
42 17 0.20
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATACATAGCTGAAGCTATCTTGAA
Found at i:79639772 original size:17 final size:17
Alignment explanation
Indices: 79639750--79639791 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
79639740 AATAACATAC
79639750 AGTAAGCTTCATAGCTT
1 AGTAAGCTTCATAGCTT
*
79639767 AGTAAGCTTCATAGTTT
1 AGTAAGCTTCATAGCTT
79639784 AGTAAGCT
1 AGTAAGCT
79639792 CGTAAGTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (17 bp):
AGTAAGCTTCATAGCTT
Found at i:79640817 original size:13 final size:13
Alignment explanation
Indices: 79640787--79640811 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79640777 TTTACGAATT
79640787 AAATTTTTTTTTA
1 AAATTTTTTTTTA
79640800 AAATTTTTTTTT
1 AAATTTTTTTTT
79640812 TCAATTCAAC
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
AAATTTTTTTTTA
Found at i:79643509 original size:25 final size:25
Alignment explanation
Indices: 79643481--79643542 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
79643471 TTTCTAACTA
* *
79643481 ATCACTAAATTGATAAAATTTTCCT
1 ATCAATAAATTCATAAAATTTTCCT
** *
79643506 ATCAATATTTTCATACAATTTTCCT
1 ATCAATAAATTCATAAAATTTTCCT
79643531 ATCATATAAATT
1 ATCA-ATAAATT
79643543 TTCAAGCAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 24 0.83
26 5 0.17
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.44
Consensus pattern (25 bp):
ATCAATAAATTCATAAAATTTTCCT
Found at i:79647685 original size:27 final size:27
Alignment explanation
Indices: 79647654--79647804 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
79647644 TTAGTTTACC
*
79647654 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
79647681 AAATTAC-CAAAGTACCCCCAATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
** *
79647708 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
79647735 AAATTACCGAAATACCCTCAATTTGCA
1 AAATTACTGAAATACCCTCGATTTGTA
*
79647762 AAATTATTGAAATACCCTCGATTTTGTA
1 AAATTACTGAAATACCCTCGA-TTTGTA
79647790 AAATTACTGAAATAC
1 AAATTACTGAAATAC
79647805 TCCTATAAGA
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
26 3 0.03
27 77 0.75
28 23 0.22
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:79647736 original size:54 final size:54
Alignment explanation
Indices: 79647648--79647804 Score: 199
Period size: 54 Copynumber: 2.9 Consensus size: 54
79647638 AATACTTTAG
* *
79647648 TTTACCAAATTACTGAAATACCCTCGACTTGTAAAATTACC-AAAGTACCCCCAA
1 TTTACAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAA-TACCCCCAA
* ** * *
79647702 TTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTACCGAAATACCCTCAA
1 TTTACAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCCCAA
* * *
79647756 TTTGCAAAATTATTGAAATACCCTCGATTTTGTAAAATTACTGAAATAC
1 TTTACAAAATTACTGAAATACCCTCGA-TTTGTAAAATTACCGAAATAC
79647805 TCCTATAAGA
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
54 64 0.74
55 23 0.26
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (54 bp):
TTTACAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCCCAA
Found at i:79647846 original size:27 final size:27
Alignment explanation
Indices: 79647816--79647931 Score: 160
Period size: 27 Copynumber: 4.3 Consensus size: 27
79647806 CCTATAAGAT
*
79647816 AGAATTACCATTTTACCATCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
** *
79647843 AGAATTACCGCTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
79647870 AGAATTACCATTTTACCCTCAATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
79647897 AGAATTACCGTCTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
79647924 AAAATTAC
1 AGAATTAC
79647932 TGAAATACCC
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.35
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:79647873 original size:54 final size:54
Alignment explanation
Indices: 79647814--79647931 Score: 184
Period size: 54 Copynumber: 2.2 Consensus size: 54
79647804 CTCCTATAAG
*
79647814 ATAGAATTACCATTTTACCATCGATTTACAGAATTACCG-CTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCATCAATTTACAGAATTACCGTC-TTACCCTCGATTT
*
79647868 ATAGAATTACCATTTTACCCTCAATTTACAGAATTACCGTCTTACCCTCGATTT
1 ATAGAATTACCATTTTACCATCAATTTACAGAATTACCGTCTTACCCTCGATTT
* *
79647922 ACAAAATTAC
1 ATAGAATTAC
79647932 TGAAATACCC
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
54 58 0.98
55 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.36
Consensus pattern (54 bp):
ATAGAATTACCATTTTACCATCAATTTACAGAATTACCGTCTTACCCTCGATTT
Found at i:79647940 original size:27 final size:27
Alignment explanation
Indices: 79647648--79647995 Score: 155
Period size: 27 Copynumber: 12.9 Consensus size: 27
79647638 AATACTTTAG
* **
79647648 TTTACCAAATTACTGAAATACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* ** * * *
79647675 CTTGTAAAATTACCAAAGTACCCCCAA
1 TTTACAAAATTACCAAAATACCCTCGA
* * *
79647702 TTTATAAAATTACCCAAATATCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
** * *
79647729 TTTGTAAAATTACCGAAATACCCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
* ***
79647756 TTTGCAAAATTATTGAAATACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
** **
79647783 TTTTGTAAAATTACTGAAATACTCCT--A
1 -TTTACAAAATTACCAAAATAC-CCTCGA
* * *** *
79647810 -TAAGATAGAATTACCATTTTACCATCGA
1 TTTACA-A-AATTACCAAAATACCCTCGA
* ****
79647838 TTTACAGAATTACCGCTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * *** *
79647865 TTTATAGAATTACCATTTTACCCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
* ****
79647892 TTTACAGAATTACCGTCTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
** * *
79647919 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTCGA
*
79647946 TTTACAAAATTACCAAAATACCC-CTA
1 TTTACAAAATTACCAAAATACCCTCGA
*
79647972 GTTTATAAAATTACCAAAATACCC
1 -TTTACAAAATTACCAAAATACCC
79647996 CTAATTTGTG
Statistics
Matches: 251, Mismatches: 62, Indels: 16
0.76 0.19 0.05
Matches are distributed among these distances:
25 2 0.01
26 3 0.01
27 220 0.88
28 20 0.08
29 6 0.02
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTCGA
Found at i:79648009 original size:27 final size:27
Alignment explanation
Indices: 79647918--79648019 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 27
79647908 CTTACCCTCG
* ** * *
79647918 ATTTACAAAATTACTGAAATACCCTTG
1 ATTTATAAAATTACCAAAATACCCCTA
* *
79647945 GTTTACAAAATTACCAAAATACCCCTA
1 ATTTATAAAATTACCAAAATACCCCTA
*
79647972 GTTTATAAAATTACCAAAATACCCCTA
1 ATTTATAAAATTACCAAAATACCCCTA
* * *
79647999 ATTTGTGAAATTACTAAAATA
1 ATTTATAAAATTACCAAAATA
79648020 TCCTTGTAGG
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (27 bp):
ATTTATAAAATTACCAAAATACCCCTA
Found at i:79648037 original size:27 final size:27
Alignment explanation
Indices: 79648015--79648229 Score: 297
Period size: 27 Copynumber: 8.0 Consensus size: 27
79648005 GAAATTACTA
* *
79648015 AAATATCCTTGTAGGGTAGAATTACTG
1 AAATACCCTTGTAGGGTAGAATTACCG
*
79648042 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
*
79648069 AAATACCCTTGTAAGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* * **
79648096 TAATACCCCTGTAGGGTAGAATTATTG
1 AAATACCCTTGTAGGGTAGAATTACCG
79648123 AAATACCCCTT-TAGGGTAGAATTACCG
1 AAATA-CCCTTGTAGGGTAGAATTACCG
*
79648150 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
*
79648177 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* * *
79648204 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCTTGTAGGGTAGAATTACC
79648230 ATTTTGCCCC
Statistics
Matches: 165, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 5 0.03
27 156 0.95
28 4 0.02
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (27 bp):
AAATACCCTTGTAGGGTAGAATTACCG
Found at i:79648655 original size:6 final size:6
Alignment explanation
Indices: 79648624--79648702 Score: 81
Period size: 6 Copynumber: 12.8 Consensus size: 6
79648614 TTGCATTCAC
* *
79648624 ATTCTG ATTTTG ATTCT- ATTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
79648673 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCT
79648703 AGTTTTGTTA
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
5 4 0.07
6 49 0.80
7 5 0.08
8 3 0.05
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:79648659 original size:31 final size:31
Alignment explanation
Indices: 79648624--79648703 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
79648614 TTGCATTCAC
* *
79648624 ATTCTGATTTTGATTCTATTACCTGATACTG
1 ATTCTGATTCTGATTCTATCACCTGATACTG
* *
79648655 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTATCACCTGATACTG
79648686 ATTCTGATTCTGATTCTA
1 ATTCTGATTCTGATTCTA
79648704 GTTTTGTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTATCACCTGATACTG
Found at i:79652797 original size:40 final size:39
Alignment explanation
Indices: 79652752--79652881 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
79652742 CGGAATACAA
79652752 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
79652792 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
79652832 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
79652872 CCGGATATAA
1 CCGGATATAA
79652882 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:79656694 original size:123 final size:123
Alignment explanation
Indices: 79656475--79656813 Score: 606
Period size: 123 Copynumber: 2.8 Consensus size: 123
79656465 GAATTATGTG
79656475 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGCATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGCATGAGTATTTGAATGGTACCCGG
*
79656540 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
*
79656598 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGCATGAGTATTTGAATGGTACCCGG
79656663 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
* * * *
79656721 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGCATGAGTATTTGAATGGTACCCGG
* *
79656786 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
79656814 AATTATATCC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGCATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
Found at i:79657019 original size:40 final size:40
Alignment explanation
Indices: 79656782--79657025 Score: 292
Period size: 40 Copynumber: 6.1 Consensus size: 40
79656772 TGAATGATAC
* * * **
79656782 CCGGGCTAAGT-CCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAA-TACCCGAAGGCATTTGTGCAAGTGGTTATAT
* * * * **
79656822 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTGGTTATAT
**
79656862 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTTTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTGGTTATAT
*
79656902 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTGGTTATAT
*
79656942 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTGGTTATAT
* * * **
79656982 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTGGTTATAT
79657022 CCGG
1 CCGG
79657026 TTGTATTCCG
Statistics
Matches: 181, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 181 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGGGCTAATACCCGAAGGCATTTGTGCAAGTGGTTATAT
Found at i:79672767 original size:20 final size:18
Alignment explanation
Indices: 79672722--79672768 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
79672712 TGGGAAGTAC
79672722 CAAGATATATAATGATTT
1 CAAGATATATAATGATTT
79672740 CAAGATATATAATGATTT
1 CAAGATATATAATGATTT
79672758 CAAGATATATA
1 CAAGATATATA
79672769 GGGACCCAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (18 bp):
CAAGATATATAATGATTT
Found at i:79676670 original size:24 final size:24
Alignment explanation
Indices: 79676618--79676829 Score: 299
Period size: 23 Copynumber: 9.0 Consensus size: 24
79676608 GCTTTATCAT
*
79676618 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
79676643 ATAACTGGGGAAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
79676667 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
79676690 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
79676714 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
79676738 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
79676761 ATAACTAGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
79676784 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
79676807 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
79676830 GCACTTCCTC
Statistics
Matches: 171, Mismatches: 13, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
23 87 0.51
24 72 0.42
25 12 0.07
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:79676694 original size:47 final size:46
Alignment explanation
Indices: 79676639--79676828 Score: 290
Period size: 47 Copynumber: 4.1 Consensus size: 46
79676629 CCTAGCCTCT
* * *
79676639 TTTAATAACTGGGGAAAAAGCCCTTTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
* *
79676686 TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
* *
79676733 TTTTGATAACTGGGGCATAAGCCCTTTAATAACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
79676780 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
79676826 TTT
1 TTT
79676829 TGCACTTCCT
Statistics
Matches: 132, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
46 47 0.36
47 64 0.48
48 21 0.16
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (46 bp):
TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
Found at i:79677281 original size:18 final size:18
Alignment explanation
Indices: 79677236--79677283 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
79677226 GGAGACAAAC
79677236 TAAAATAA-AAAAAGGAA
1 TAAAATAAGAAAAAGGAA
* **
79677253 TTAAA-AAGAAAGGGGAA
1 TAAAATAAGAAAAAGGAA
79677270 TAAAATAAGAAAAA
1 TAAAATAAGAAAAA
79677284 AAAAAAGGGA
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
16 2 0.09
17 15 0.65
18 6 0.26
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (18 bp):
TAAAATAAGAAAAAGGAA
Found at i:79678577 original size:29 final size:29
Alignment explanation
Indices: 79678543--79678620 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
79678533 GTGACGAGAT
* *
79678543 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
79678572 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
79678601 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
79678621 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:79680093 original size:9 final size:9
Alignment explanation
Indices: 79680079--79680135 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
79680069 ATCTCATGTG
79680079 CATATCATA
1 CATATCATA
*
79680088 CATATCATGTG
1 CATATCA--TA
79680099 CATATCATA
1 CATATCATA
* *
79680108 CATGTCATGTG
1 CATATCA--TA
79680119 CATATCATA
1 CATATCATA
79680128 CATATCAT
1 CATATCAT
79680136 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:79680097 original size:20 final size:20
Alignment explanation
Indices: 79680072--79680137 Score: 123
Period size: 20 Copynumber: 3.3 Consensus size: 20
79680062 TGTTTCAATC
79680072 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
79680092 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
79680112 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
79680132 TCATGT
1 TCATGT
79680138 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:79680102 original size:11 final size:11
Alignment explanation
Indices: 79680072--79680126 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
79680062 TGTTTCAATC
79680072 TCATGTGCATA
1 TCATGTGCATA
*
79680083 TCA--TACATA
1 TCATGTGCATA
79680092 TCATGTGCATA
1 TCATGTGCATA
* *
79680103 TCA--TACATG
1 TCATGTGCATA
79680112 TCATGTGCATA
1 TCATGTGCATA
79680123 TCAT
1 TCAT
79680127 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:79680202 original size:25 final size:25
Alignment explanation
Indices: 79680174--79680221 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
79680164 ATATATAAAC
* *
79680174 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
79680199 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
79680222 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:79681452 original size:27 final size:27
Alignment explanation
Indices: 79681366--79681444 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 27
79681356 TATTCGACAT
*
79681366 TTTACCATACAGGGG-TATTACGGTCAC
1 TTTACCCTACAGGGGCT-TTACGGTCAC
*
79681393 TTTACCCTACAGGGGCTTTACAGTCAC
1 TTTACCCTACAGGGGCTTTACGGTCAC
*
79681420 TTTACCCTATAGGGGCTTTACGGTC
1 TTTACCCTACAGGGGCTTTACGGTC
79681445 TTTTTACCTA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
27 46 0.98
28 1 0.02
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGGTCAC
Found at i:79681619 original size:27 final size:27
Alignment explanation
Indices: 79681491--79681762 Score: 172
Period size: 27 Copynumber: 10.0 Consensus size: 27
79681481 TACAAGAGTG
* * * *
79681491 TTTTGGTAAATCTACAAACCAAAGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
** ** * *
79681518 TTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
* *
79681545 TTTCT-ATAATTTTTAGAAAGTCAAGGGTA
1 TTT-TGGTAA-TTTTACAAA-TCAAGGGTA
* * ** *
79681574 TTTTTGTAACTTTGTAAATCAGGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
**
79681601 TTTTGGTAATTTTACAAATTGAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
* * *
79681628 TTTCGGTAATTTCACAAA-CTAAAGGTA
1 TTTTGGTAATTTTACAAATC-AAGGGTA
*
79681655 TTTTGGTAATTTTACAAA-CTAGGGGTA
1 TTTTGGTAATTTTACAAATC-AAGGGTA
*
79681682 TTTTGGTAATTTTACAAACCAAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
* ** *
79681709 TTTTAGTAATTTTGTAAATCGAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
*** * * *
79681736 AAATAGTAATTCTATAAATCAAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
79681763 AAACAGTAAT
Statistics
Matches: 193, Mismatches: 46, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
27 165 0.85
28 15 0.08
29 13 0.07
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAATCAAGGGTA
Found at i:79681745 original size:54 final size:54
Alignment explanation
Indices: 79681687--79681846 Score: 167
Period size: 54 Copynumber: 3.0 Consensus size: 54
79681677 GGGTATTTTG
* **** * * *
79681687 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
* *
79681741 GTAATTCTATAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
** * * * * *
79681795 GTAATTCTGTAAATCGAGAGTAAAACGGTAATTCTATAAGTCGAGGGTAAAA
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA
79681847 TGATAATTAT
Statistics
Matches: 91, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 91 1.00
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.29
Consensus pattern (54 bp):
GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
Found at i:79681763 original size:27 final size:27
Alignment explanation
Indices: 79681712--79681922 Score: 230
Period size: 27 Copynumber: 7.9 Consensus size: 27
79681702 AAGGGTATTT
*
79681712 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
79681739 TAGTAATTCTATAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
79681766 CAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
79681793 CAGTAATTCTGTAAATCGAGAGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** * *
79681820 CGGTAATTCTATAAGTCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
79681847 T-GATAATTATGTAAATCGGGGGTAAAA
1 TAG-TAATTCTGTAAATCGAGGGTAAAA
* *
79681874 TGGTAATTATGTAAATCG-GGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** *
79681900 CGGTAATT-TGTAAATCGGGGGTA
1 TAGTAATTCTGTAAATCGAGGGTA
79681923 CTTTGGTAAT
Statistics
Matches: 164, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
25 9 0.05
26 21 0.13
27 133 0.81
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:79681772 original size:81 final size:81
Alignment explanation
Indices: 79681687--79681846 Score: 194
Period size: 81 Copynumber: 2.0 Consensus size: 81
79681677 GGGTATTTTG
* **** * * *
79681687 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATA
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGAGTAAAACAGTAATTCTATA
79681752 AATCAAGGGTAAAACA
66 AATCAAGGGTAAAACA
* * * *
79681768 GTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGAGTAAAACGGTAATTCTATA
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGAGTAAAACAGTAATTCTATA
* *
79681833 AGTCGAGGGTAAAA
66 AATCAAGGGTAAAA
79681847 TGATAATTAT
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.29
Consensus pattern (81 bp):
GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGAGTAAAACAGTAATTCTATA
AATCAAGGGTAAAACA
Found at i:79681958 original size:27 final size:26
Alignment explanation
Indices: 79681928--79682017 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 26
79681918 GGGTACTTTG
79681928 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAA-TCGAAGGTATTTCA
*
79681955 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTAC-AATCGAAGGTATTTCA
* * * *
79681982 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAATCGAA-GGTATTTCA
79682009 GTAATTTTA
1 GTAATTTTA
79682018 GTAAACTAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.07
27 48 0.89
28 2 0.04
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (26 bp):
GTAATTTTACAATCGAAGGTATTTCA
Found at i:79681976 original size:54 final size:54
Alignment explanation
Indices: 79681911--79682017 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
79681901 GGTAATTTGT
* * *
79681911 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* * *
79681965 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
79682018 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:79682031 original size:27 final size:27
Alignment explanation
Indices: 79681928--79682032 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
79681918 GGGTACTTTG
* *
79681928 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
79681955 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
79681982 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
79682009 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
79682033 CTAAACAGGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:79685941 original size:2 final size:2
Alignment explanation
Indices: 79685934--79685977 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
79685924 ACCAGAACAG
79685934 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
79685976 AT
1 AT
79685978 GTGGCGAAGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:79686058 original size:27 final size:26
Alignment explanation
Indices: 79686010--79686061 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
79686000 GCAAGGCTGC
*
79686010 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
79686036 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
79686062 TTACAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:79686354 original size:27 final size:27
Alignment explanation
Indices: 79686306--79686528 Score: 259
Period size: 27 Copynumber: 8.3 Consensus size: 27
79686296 GGGGTAAAAT
* * * *
79686306 GGTAATTTTACCCCATAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
79686333 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
79686360 AGTAATAT-TACCCTACAGGGGTATTTT
1 GGTAAT-TCTACCCTACAAGGGTATTTC
* *
79686387 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
79686414 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
79686441 AGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
79686468 GGTAGTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
79686495 GGTATTTCTACCCTACAATGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
79686522 GGTAATT
1 GGTAATT
79686529 TTGTAAATCG
Statistics
Matches: 170, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 168 0.99
28 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:79686430 original size:81 final size:81
Alignment explanation
Indices: 79686322--79686520 Score: 310
Period size: 81 Copynumber: 2.5 Consensus size: 81
79686312 TTTACCCCAT
*
79686322 AAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATAT-TACCCTACAGGGGTATTT
1 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAAT-TCTACCCTACAGGGGTATTT
* *
79686386 TAGTATTTCTACCCTAC
65 CAGTAGTTCTACCCTAC
*
79686403 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCTTACAGGGGTATTTC
1 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTC
*
79686468 GGTAGTTCTACCCTAC
66 AGTAGTTCTACCCTAC
* **
79686484 AAGGGTATTTCGGTATTTCTACCCTACAATGGTATTT
1 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
79686521 CGGTAATTTT
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
80 1 0.01
81 108 0.99
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.37
Consensus pattern (81 bp):
AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTC
AGTAGTTCTACCCTAC
Found at i:79686544 original size:27 final size:26
Alignment explanation
Indices: 79686514--79686601 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 26
79686504 ACCCTACAAT
79686514 GGTATTTCGGTAATTTTGTAAATCGAG
1 GGTATTT-GGTAATTTTGTAAATCGAG
** * *
79686541 GGTAAAATGGCAATTCTGTAAATC-AGG
1 GGT-ATTTGGTAATTTTGTAAATCGA-G
** *
79686568 GGTACTTTGGTAATTTTACAAGTCGAG
1 GGTA-TTTGGTAATTTTGTAAATCGAG
79686595 GGTATTT
1 GGTATTT
79686602 TAATAATTTT
Statistics
Matches: 46, Mismatches: 11, Indels: 9
0.70 0.17 0.14
Matches are distributed among these distances:
26 5 0.11
27 38 0.83
28 3 0.07
ACGTcount: A:0.28, C:0.09, G:0.26, T:0.36
Consensus pattern (26 bp):
GGTATTTGGTAATTTTGTAAATCGAG
Found at i:79686608 original size:27 final size:27
Alignment explanation
Indices: 79686567--79686691 Score: 110
Period size: 27 Copynumber: 4.6 Consensus size: 27
79686557 TGTAAATCAG
* *
79686567 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTAGTAATTTTACAAGTCGA
* *
79686594 GGGTATTTTAATAATTTTACAGGTCGA
1 GGGTATTTTAGTAATTTTACAAGTCGA
* * * *
79686621 AGGTATTTCAGTAATTTCACAAATC-A
1 GGGTATTTTAGTAATTTTACAAGTCGA
* * *
79686647 GGGGTATTTTGGTAATTTTACAA-ACTA
1 -GGGTATTTTAGTAATTTTACAAGTCGA
*
79686674 GGGGTATTTTGGTAATTT
1 -GGGTATTTTAGTAATTT
79686692 GGTAAACTAA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 2 0.02
27 79 0.98
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAGTCGA
Found at i:79690821 original size:7 final size:7
Alignment explanation
Indices: 79690811--79690835 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
79690801 AGAATGATGA
79690811 ATGAGGG
1 ATGAGGG
79690818 ATGAGGG
1 ATGAGGG
79690825 ATGAGGG
1 ATGAGGG
79690832 ATGA
1 ATGA
79690836 TTGAAAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.52, T:0.16
Consensus pattern (7 bp):
ATGAGGG
Found at i:79692598 original size:39 final size:39
Alignment explanation
Indices: 79692542--79692717 Score: 273
Period size: 39 Copynumber: 4.5 Consensus size: 39
79692532 ACAAAGCATG
*
79692542 CGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
79692583 CGGGACTTAGCCCGGATATAACGCCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
79692622 CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
79692661 CAGGACTTAGCCCGGATAT-ATACTAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
79692699 CGGGACTTAGCCCGGATAT
1 CGGGACTTAGCCCGGATAT
79692718 TTTTCCAGCA
Statistics
Matches: 126, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
38 34 0.27
39 84 0.67
40 2 0.02
41 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:79692824 original size:38 final size:39
Alignment explanation
Indices: 79692710--79692840 Score: 185
Period size: 39 Copynumber: 3.4 Consensus size: 39
79692700 GGGACTTAGC
* * *
79692710 CCGGATATTTTTCCAGCACT-TAGCCTGCGGACTTTAAGT
1 CCGGATATATTTCCAGCA-TAAAGCCTGCGGACTTCAAGT
*
79692749 CTGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
1 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
*
79692788 CCGAATATATTTCCAGCATAAAG-CTGCGGACTTCAAGT
1 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
*
79692826 CCGGATATTTTTCCA
1 CCGGATATATTTCCA
79692841 ATACCATGCA
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
38 29 0.35
39 54 0.65
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
Found at i:79698365 original size:39 final size:39
Alignment explanation
Indices: 79698309--79698521 Score: 324
Period size: 39 Copynumber: 5.5 Consensus size: 39
79698299 ACAAAGCATG
79698309 CGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTT
**
79698350 CGGGACTTAGCCCGGATATAACGCCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
**
79698389 CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
79698428 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* * *
79698467 CAGGACTTAGCCCGGATATAATA-C--TATGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
79698503 CGGGACTTAGCCCGGATAT
1 CGGGACTTAGCCCGGATAT
79698522 TTTTCTAGCA
Statistics
Matches: 162, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
36 28 0.17
38 1 0.01
39 125 0.77
40 2 0.01
41 6 0.04
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.21
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
Found at i:79698559 original size:39 final size:38
Alignment explanation
Indices: 79698515--79698606 Score: 121
Period size: 39 Copynumber: 2.4 Consensus size: 38
79698505 GGACTTAGCC
* ** *
79698515 CGGATATTTTTCTAGCATTTAGCCTGCGGACTTTAAGTT
1 CGGATATTTTTCCAGCATAAAGCCTGCGGACTTCAAG-T
*
79698554 CGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
1 CGGATATTTTTCCAGCATAAAGCCTGCGGACTTCAAGT
79698592 CTGGATATTTTTCCA
1 C-GGATATTTTTCCA
79698607 ATACCATGCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 2 0.04
39 44 0.96
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.36
Consensus pattern (38 bp):
CGGATATTTTTCCAGCATAAAGCCTGCGGACTTCAAGT
Found at i:79702949 original size:40 final size:40
Alignment explanation
Indices: 79702871--79702949 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
79702861 ATGATTACAT
*
79702871 GTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTA
1 GTAAGACCATGTCTGGGACATTGGCATTGTAATGTGATTA
79702911 GTAAGACCATGTCTGGGACATTGGCATTGTTAAT-TGATT
1 GTAAGACCATGTCTGGGACATTGGCATTG-TAATGTGATT
79702950 TCGTGCAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
40 34 0.92
41 3 0.08
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.35
Consensus pattern (40 bp):
GTAAGACCATGTCTGGGACATTGGCATTGTAATGTGATTA
Found at i:79704123 original size:14 final size:14
Alignment explanation
Indices: 79704104--79704131 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
79704094 GTAGATATGT
79704104 GAGATTGATGATTG
1 GAGATTGATGATTG
79704118 GAGATTGATGATTG
1 GAGATTGATGATTG
79704132 TGGCATATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.36, T:0.36
Consensus pattern (14 bp):
GAGATTGATGATTG
Found at i:79710548 original size:40 final size:40
Alignment explanation
Indices: 79710502--79710733 Score: 210
Period size: 40 Copynumber: 6.1 Consensus size: 40
79710492 CGGAATTTAA
** *
79710502 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
79710542 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
79710582 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
79710621 CCGGGAT-TAGTAACTCGCACAAATGCCTTC-GGA--T---
1 CC-GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
79710655 -----T-TAGTAACTCACACAAATGCCTT-TGGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
79710689 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
79710729 CCGGA
1 CCGGA
79710734 CATCATTCGA
Statistics
Matches: 160, Mismatches: 14, Indels: 36
0.76 0.07 0.17
Matches are distributed among these distances:
28 25 0.16
31 1 0.01
37 1 0.01
38 2 0.01
39 31 0.19
40 90 0.56
41 10 0.06
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:79710663 original size:28 final size:29
Alignment explanation
Indices: 79710627--79710688 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 29
79710617 TAGCCCGGGA
*
79710627 TTAGTAACTCGCACAAATGCCTTCGGAT-
1 TTAGTAACTCACACAAATGCCTTCGGATC
*
79710655 TTAGTAACTCACACAAATGCCTTTGGATC
1 TTAGTAACTCACACAAATGCCTTCGGATC
79710684 TTAGT
1 TTAGT
79710689 CCGGATATAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 26 0.84
29 5 0.16
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (29 bp):
TTAGTAACTCACACAAATGCCTTCGGATC
Found at i:79716991 original size:47 final size:47
Alignment explanation
Indices: 79716928--79717415 Score: 805
Period size: 47 Copynumber: 10.4 Consensus size: 47
79716918 CTCTTCGGGA
* *
79716928 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
79716975 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
79717022 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
79717069 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
79717116 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
79717163 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
79717210 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
79717257 CTTATCATATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
79717304 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
79717351 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
79717398 CTTATCACATATACACAC
1 CTTATCACATATATACAC
79717416 CTTGTACATC
Statistics
Matches: 410, Mismatches: 31, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 410 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:79723704 original size:31 final size:31
Alignment explanation
Indices: 79723661--79723739 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
79723651 TTTAGCGGTT
*
79723661 ACTGGGCTGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
79723692 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
79723723 ATTGGGCCGAAACCTTT
1 ACTGGGCCGAAGCCTTT
79723740 ACTGTAAACA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:79723985 original size:25 final size:26
Alignment explanation
Indices: 79723956--79724052 Score: 162
Period size: 26 Copynumber: 3.8 Consensus size: 26
79723946 CTCTTTTAAT
*
79723956 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
79723981 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAGTA
79724006 AACTGGGGCATAAGCCCTTTTCAGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
79724032 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
79724053 GCACTTCCTC
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
25 33 0.49
26 35 0.51
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAGTA
Found at i:79724026 original size:51 final size:49
Alignment explanation
Indices: 79723943--79724052 Score: 168
Period size: 51 Copynumber: 2.2 Consensus size: 49
79723933 TTGGAGGCCT
*
79723943 AGCCTCTTTTAATAACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCAAAGCCCTTTTCAGTAAACTGGGGCATA
79723992 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCAGTAAACTGGGGCATA
1 AGCCCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCAGTAAACTGGGGCATA
79724044 AGCCCTTTT
1 AGCCCTTTT
79724053 GCACTTCCTC
Statistics
Matches: 56, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
48 5 0.09
49 7 0.12
50 10 0.18
51 24 0.43
52 10 0.18
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (49 bp):
AGCCCTTTTAATAACTGGGGCAAAGCCCTTTTCAGTAAACTGGGGCATA
Found at i:79724027 original size:26 final size:25
Alignment explanation
Indices: 79723943--79724052 Score: 152
Period size: 26 Copynumber: 4.4 Consensus size: 25
79723933 TTGGAGGCCT
79723943 AGCCTCTTTT-AAT-AACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAA
**
79723967 AGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
79723992 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCA-A
*
79724018 AGCCCTTTTCAGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCA-A
79724044 AGCCCTTTT
1 AGCCCTTTT
79724053 GCACTTCCTC
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
23 5 0.06
24 5 0.06
25 33 0.42
26 35 0.45
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTCAATAAACTGGGGCAA
Found at i:79724113 original size:15 final size:16
Alignment explanation
Indices: 79724086--79724115 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
79724076 ACCCAACCCA
79724086 ATGCAACATGTCATGT
1 ATGCAACATGTCATGT
79724102 ATGCAA-ATGTCATG
1 ATGCAACATGTCATG
79724116 CCCATATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (16 bp):
ATGCAACATGTCATGT
Found at i:79724880 original size:27 final size:26
Alignment explanation
Indices: 79724850--79724927 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
79724840 GGGCACATTC
79724850 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
*
79724877 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAGGGG-TATTACG
* *
79724904 GTCTTTTTACCTAATAGGGGTATT
1 GTCATTTTACCT-ACAGGGGTATT
79724928 TTAGTCACTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 4 0.09
27 36 0.84
28 3 0.07
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:79725248 original size:26 final size:27
Alignment explanation
Indices: 79724945--79725304 Score: 246
Period size: 27 Copynumber: 13.3 Consensus size: 27
79724935 CTTCATCCTA
* * * *
79724945 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
** ** *
79724972 CAAGGGTATTTCAGTAATTTTGTTAAAC
1 CAAGGGTATTTTGGTAATTTT-ACAAAT
* *** *
79725000 CAATGGTATTTCCATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTACAAA-T
* **
79725029 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
*
79725056 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
79725083 CAAAGGTATTTCT-GTAATTTCACAAA-
1 CAAGGGTATTT-TGGTAATTTTACAAAT
*
79725109 CCAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTACAAAT
*
79725136 CTAGGGGTATTTTGGTAATTTTACAAAT
1 C-AAGGGTATTTTGGTAATTTTACAAAT
* * *
79725164 TAAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
79725191 CAAGGGTATTTTAGCAATTTTACAGA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* **
79725217 CTAGGGTATTTTGGT-ATTTTACTGAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * ** *
79725243 CGAGGGTATTTTGGTAACTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * **
79725270 CGAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
79725297 CGAGGGTA
1 CAAGGGTA
79725305 AATAGTAATT
Statistics
Matches: 267, Mismatches: 54, Indels: 24
0.77 0.16 0.07
Matches are distributed among these distances:
25 9 0.03
26 30 0.11
27 182 0.68
28 29 0.11
29 17 0.06
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:79725276 original size:79 final size:80
Alignment explanation
Indices: 79725057--79725290 Score: 294
Period size: 81 Copynumber: 2.9 Consensus size: 80
79725047 TTTGTAAATC
* *
79725057 AGGGGTATTTTGGTAATTTTACAAATCAAAGGTATTTCTGTAA-TTTCACAAACCAGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAACTTT-ACAAACCAG-GGTATTT
*
79725121 TGGTAATTTTACAAACT
64 TAGTAATTTTACAAACT
* *
79725138 AGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAACTTTACAAACC-AGGGTATTTT
* *
79725203 AGCAATTTTACAGACT
65 AGTAATTTTACAAACT
** * * **
79725219 A-GGGTATTTTGGT-ATTTTACTGATCGAGGGTATTTTGGTAACTTTGTAAACCGAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAACTTTACAAACC-AGGGTATTTT
79725282 AGTAATTTT
65 AGTAATTTT
79725291 GTAAATCGAG
Statistics
Matches: 135, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 49 0.36
80 12 0.09
81 69 0.51
82 5 0.04
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (80 bp):
AGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAACTTTACAAACCAGGGTATTTTA
GTAATTTTACAAACT
Found at i:79725365 original size:27 final size:27
Alignment explanation
Indices: 79725283--79725409 Score: 154
Period size: 26 Copynumber: 4.8 Consensus size: 27
79725273 GGGTATTTTA
*
79725283 GTAATTTTGTAAATCGAGGGTAAATA--
1 GTAATTCTGTAAATCGAGGGTAAA-ACG
* * *
79725309 GTAATTTTGTAAAT-AAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
79725335 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
79725362 GTAATTCTGTAAATCGAGGG-AAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
79725388 ATAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
79725410 CTTTGGTAAT
Statistics
Matches: 89, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
24 1 0.01
25 8 0.09
26 50 0.56
27 30 0.34
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:79725373 original size:53 final size:52
Alignment explanation
Indices: 79725282--79725409 Score: 163
Period size: 53 Copynumber: 2.4 Consensus size: 52
79725272 AGGGTATTTT
* * *
79725282 AGTAATTTTGTAAATCGAGGGTAAATAGTAATTTTGTAAAT-AAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAATAGTAATTCTGTAAATCAAGGG-AAAAC
*
79725334 AGTAATTCTATAAATCGAGGGTAAA-ACGGTAATTCTGTAAATCGAGGGAAAAC
1 AGTAATTCTATAAATCGAGGGTAAATA--GTAATTCTGTAAATCAAGGGAAAAC
79725387 -GATAATTCTATAAATCGAGGGTA
1 AG-TAATTCTATAAATCGAGGGTA
79725410 CTTTGGTAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
51 1 0.01
52 24 0.35
53 39 0.57
54 4 0.06
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (52 bp):
AGTAATTCTATAAATCGAGGGTAAATAGTAATTCTGTAAATCAAGGGAAAAC
Found at i:79727713 original size:31 final size:30
Alignment explanation
Indices: 79727636--79727748 Score: 138
Period size: 31 Copynumber: 3.7 Consensus size: 30
79727626 TTAGTCTTGA
** *
79727636 CATATACTGGGCCGAAGCC-TTTCATTTAG
1 CATATACTGGGCCGAAGCCTTTTCATAAAT
** *
79727665 CGGATACTGGGCTGAAGCCTTTTCATAAAT
1 CATATACTGGGCCGAAGCCTTTTCATAAAT
79727695 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
*
79727726 CATATCATTGGGCCGAAGCCTTT
1 CATAT-ACTGGGCCGAAGCCTTT
79727749 ACTGTAAACG
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
29 16 0.22
30 10 0.14
31 46 0.64
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (30 bp):
CATATACTGGGCCGAAGCCTTTTCATAAAT
Found at i:79727995 original size:25 final size:26
Alignment explanation
Indices: 79727954--79728063 Score: 147
Period size: 25 Copynumber: 4.3 Consensus size: 26
79727944 CTGGAGGCCT
79727954 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
79727978 AGCCCTTTTCTGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
79728003 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
79728029 AACCTTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
79728055 AGCCCTTTT
1 AGCCCTTTT
79728064 GCACTTCCTC
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.07
24 5 0.07
25 33 0.44
26 32 0.43
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:79728958 original size:27 final size:27
Alignment explanation
Indices: 79728863--79728949 Score: 122
Period size: 27 Copynumber: 3.2 Consensus size: 27
79728853 CATTCGTCAT
* * *
79728863 TTTACCATATAGGGG-TATTACGGTCAC
1 TTTACCCTACAGGGGCT-TTACGGTCTC
79728890 TTTACCCTACAGGGGCTTTACGGTCTC
1 TTTACCCTACAGGGGCTTTACGGTCTC
*
79728917 TTTACCCTACAGGGGCTTTACGGTCTT
1 TTTACCCTACAGGGGCTTTACGGTCTC
79728944 TTTACC
1 TTTACC
79728950 TAATAGGGGT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGGTCTC
Found at i:79729035 original size:28 final size:29
Alignment explanation
Indices: 79729001--79729085 Score: 86
Period size: 28 Copynumber: 3.0 Consensus size: 29
79728991 GTAAATCTAC
*
79729001 AAACCAAGGGTATTTCAGTAATTTTGT-T
1 AAACCAAGGGTATTTCAGTAATTTTGTAG
*
79729029 AAACCAATGGTATTTCCA-TAATTTT-TAG
1 AAACCAAGGGTATTT-CAGTAATTTTGTAG
* * *
79729057 AAAGTCAAGGGTATTTCTGTAACTTTGTA
1 AAA-CCAAGGGTATTTCAGTAATTTTGTA
79729086 AATTAGGGGT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
27 1 0.02
28 25 0.54
29 18 0.39
30 2 0.04
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (29 bp):
AAACCAAGGGTATTTCAGTAATTTTGTAG
Found at i:79729178 original size:81 final size:81
Alignment explanation
Indices: 79729089--79729324 Score: 298
Period size: 81 Copynumber: 2.9 Consensus size: 81
79729079 CTTTGTAAAT
*
79729089 TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTCACAAACC-AGTGGTATT
1 TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAG-GGTATT
* *
79729153 TTGGTAATTTTACAAAC
65 TTAGCAATTTTACAAAC
* *
79729170 TAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTT
1 TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTT
*
79729235 TAGCAATTTTACAGAC
66 TAGCAATTTTACAAAC
* ** * * ** *
79729251 TA-GGGTATTTTGGTTATTTTACTGATCGAGGGTATTTTGGTAACTTT-GTAAACCGAGGGTATT
1 TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAA-TTTCACAAACCAAGGGTATT
*
79729314 TTAGTAATTTT
65 TTAGCAATTTT
79729325 GTAAATCGAG
Statistics
Matches: 137, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
80 58 0.42
81 77 0.56
82 2 0.01
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (81 bp):
TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTT
TAGCAATTTTACAAAC
Found at i:79729228 original size:27 final size:27
Alignment explanation
Indices: 79728986--79729324 Score: 227
Period size: 27 Copynumber: 12.5 Consensus size: 27
79728976 CCTACAAGGG
* *
79728986 TTTTGGTAAATCTACAAACCAAGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
** ** *
79729013 TTTCAGTAATTTTGTTAAACCAATGGTA
1 TTTTGGTAATTTT-ACAAACCAAGGGTA
*** * *
79729041 TTTCCATAATTTTTAGAAAGTCAAGGGTA
1 TTTTGGTAA-TTTTACAAA-CCAAGGGTA
* ** ** *
79729070 TTTCT-GTAACTTTGTAAATTAGGGGTA
1 TTT-TGGTAATTTTACAAACCAAGGGTA
***
79729097 TTTTGGTAATTTTACAAATTGAGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
*
79729124 TTTCT-GTAATTTCACAAACC-AGTGGTA
1 TTT-TGGTAATTTTACAAACCAAG-GGTA
* *
79729151 TTTTGGTAATTTTACAAACTAGGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
**
79729178 TTTTGGTAATTTTACAAATTAAGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
*
79729205 TTTCGGTAATTTTACAAACCAAGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
* * * *
79729232 TTTTAGCAATTTTACAGA-CTAGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
* ** * *
79729258 TTTTGGTTATTTTACTGATCGAGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
* ** *
79729285 TTTTGGTAACTTTGTAAACCGAGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
*
79729312 TTTTAGTAATTTT
1 TTTTGGTAATTTT
79729325 GTAAATCGAG
Statistics
Matches: 247, Mismatches: 55, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
26 25 0.10
27 176 0.71
28 29 0.12
29 17 0.07
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAACCAAGGGTA
Found at i:79729345 original size:27 final size:27
Alignment explanation
Indices: 79729275--79729416 Score: 124
Period size: 27 Copynumber: 5.3 Consensus size: 27
79729265 TATTTTACTG
** * *
79729275 ATCGAGGGTATTTTGGTAACTTTGTAA
1 ATCGAGGGTATAATAGTAATTTTGTAA
* **
79729302 ACCGAGGGTATTTTAGTAATTTTGTAA
1 ATCGAGGGTATAATAGTAATTTTGTAA
79729329 ATCGAGGGTATAATAGTAATTTTGTAA
1 ATCGAGGGTATAATAGTAATTTTGTAA
* * * * *
79729356 AT-AAGGGTAAAACAGTAATTCTATAA
1 ATCGAGGGTATAATAGTAATTTTGTAA
* ** * *
79729382 ATCGAGGGTAAAACGGTAGTTCTGTAA
1 ATCGAGGGTATAATAGTAATTTTGTAA
79729409 ATCGAGGG
1 ATCGAGGG
79729417 GAAAACGATA
Statistics
Matches: 99, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 21 0.21
27 78 0.79
ACGTcount: A:0.35, C:0.08, G:0.25, T:0.33
Consensus pattern (27 bp):
ATCGAGGGTATAATAGTAATTTTGTAA
Found at i:79729384 original size:53 final size:54
Alignment explanation
Indices: 79729316--79729445 Score: 156
Period size: 53 Copynumber: 2.4 Consensus size: 54
79729306 AGGGTATTTT
* * * * * *
79729316 AGTAATTTTGTAAATCGAGGGTATAATAGTAATTTTGTAAAT-AAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGGAAAAC
* * *
79729369 AGTAATTCTATAAATCGAGGGTAAAACGGTAGTTCTGTAAATCGAGGGGAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGGAAAAC
79729423 -GATAATTCTATAAATCGAGGGTA
1 AG-TAATTCTATAAATCGAGGGTA
79729446 CTTTGGTAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
53 36 0.55
54 30 0.45
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (54 bp):
AGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGGAAAAC
Found at i:79729421 original size:27 final size:27
Alignment explanation
Indices: 79729316--79729445 Score: 147
Period size: 27 Copynumber: 4.9 Consensus size: 27
79729306 AGGGTATTTT
* * *
79729316 AGTAATTTTGTAAATCGAGGGTATAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
79729343 AGTAATTTTGTAAAT-AAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
79729369 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
79729396 GGTAGTTCTGTAAATCGAGGGGAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
79729423 -GATAATTCTATAAATCGAGGGTA
1 AG-TAATTCTGTAAATCGAGGGTA
79729446 CTTTGGTAAT
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 22 0.25
27 66 0.75
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:79731759 original size:31 final size:31
Alignment explanation
Indices: 79731716--79731794 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
79731706 ATTTACGGTT
*
79731716 ACTGGGCTGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
79731747 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
79731778 ATTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
79731795 ACTGTAAACG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:79732040 original size:25 final size:26
Alignment explanation
Indices: 79731999--79732106 Score: 147
Period size: 25 Copynumber: 4.3 Consensus size: 26
79731989 CTGGAGGCCT
79731999 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
79732023 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
79732048 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
79732074 A--CCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
79732098 AGCCCTTTT
1 AGCCCTTTT
79732107 GCACTTCCTC
Statistics
Matches: 75, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
23 5 0.07
24 29 0.39
25 33 0.44
26 8 0.11
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:79732062 original size:49 final size:49
Alignment explanation
Indices: 79731999--79732106 Score: 141
Period size: 49 Copynumber: 2.2 Consensus size: 49
79731989 CTGGAGGCCT
**
79731999 AGCCTCTTTTAAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCC-CTTTTAATAAACTGGGGCATAA--CCTTTTCAATAAACTGGGGCATA
79732048 AGCCCTTTTCAATAAACTGGGGCATAACCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTT-AATAAACTGGGGCATAACCTTTTCAATAAACTGGGGCATA
79732098 AGCCCTTTT
1 AGCCCTTTT
79732107 GCACTTCCTC
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
48 5 0.09
49 26 0.49
50 20 0.38
51 2 0.04
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (49 bp):
AGCCCTTTTAATAAACTGGGGCATAACCTTTTCAATAAACTGGGGCATA
Found at i:79733000 original size:27 final size:27
Alignment explanation
Indices: 79732905--79732991 Score: 131
Period size: 27 Copynumber: 3.2 Consensus size: 27
79732895 CATTCGTCAT
* *
79732905 TTTACCATACAGGGG-TATTACGGTCAC
1 TTTACCCTACAGGGGCT-TTACGGTCTC
79732932 TTTACCCTACAGGGGCTTTACGGTCTC
1 TTTACCCTACAGGGGCTTTACGGTCTC
*
79732959 TTTACCCTACAGGGGCTTTACGGTCTT
1 TTTACCCTACAGGGGCTTTACGGTCTC
79732986 TTTACC
1 TTTACC
79732992 TAATAGGGGT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.34
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGGTCTC
Found at i:79733075 original size:27 final size:27
Alignment explanation
Indices: 79733022--79733378 Score: 206
Period size: 27 Copynumber: 13.3 Consensus size: 27
79733012 TTTCATCCTA
* * * *
79733022 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
** *
79733049 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *** * *
79733076 CAATGGTATTTCCATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTATAAA-C
* * *
79733105 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAC
* * *
79733132 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * * *
79733159 TGAGGGTA-TTTCGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
79733185 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* * * *
79733212 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
79733239 TAAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
79733266 CAAGGGTATTTTAGCAATTTTACAGA-
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
79733292 CTAGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTA-TAAAC
* *
79733319 CGAGGGTATTTTGGTAA-TTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
79733345 CGAGGGTA-TTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
79733371 CGAGGGTA
1 CAAGGGTA
79733379 AATAGTAATT
Statistics
Matches: 266, Mismatches: 53, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
25 10 0.04
26 69 0.26
27 160 0.60
28 14 0.05
29 13 0.05
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:79733198 original size:53 final size:53
Alignment explanation
Indices: 79733021--79733378 Score: 233
Period size: 53 Copynumber: 6.7 Consensus size: 53
79733011 ATTTCATCCT
* * * * ** **
79733021 ACAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAA
1 ACAAGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTGGTAATTTTACAA
* *** * * *
79733074 ACCAATGGTATTTCCATAATTTTTAGAAAGTCAAGGGTATTTCT-GTAACTTTGTA-AA
1 A-CAAGGGTATTTTGGTAA-TTTTACAAA-CCGAGGGTATTT-TGGTAA-TTT-TACAA
* * ** * *
79733131 TCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTA-TTTCGTAATTTCACAA
1 ACAAGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTGGTAATTTTACAA
* *
79733183 ACCAGTGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAA
1 ACAAG-GGTATTTTGGTAATTTTACAAACCGA-GGGTATTTTGGTAATTTTACAA
* * * * * *
79733237 ATTAAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAG
1 A-CAAGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTGGTAATTTTACAA
* ** *
79733291 ACTAGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTGTA-AA
1 ACAAGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTGGTAATTT-TACAA
* * * ** *
79733344 CCGAGGGTA-TTTAGTAATTTTGTAAATCGAGGGTA
1 ACAAGGGTATTTTGGTAATTTTACAAACCGAGGGTA
79733379 AATAGTAATT
Statistics
Matches: 239, Mismatches: 52, Indels: 29
0.75 0.16 0.09
Matches are distributed among these distances:
51 1 0.00
52 30 0.13
53 80 0.33
54 77 0.32
55 18 0.08
56 27 0.11
57 5 0.02
58 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (53 bp):
ACAAGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTGGTAATTTTACAA
Found at i:79733225 original size:80 final size:80
Alignment explanation
Indices: 79733133--79733364 Score: 292
Period size: 80 Copynumber: 2.9 Consensus size: 80
79733123 TTTGTAAATC
79733133 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGTAATTTCACAAACC-AGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGTAATTTCACAAACCAAG-GGTATTTT
* *
79733197 GGTAATTTTACAAACT
65 AGCAATTTTACAAACT
* *
79733213 AGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTC-GTAATTTCACAAACCAAGGGTATTTT
*
79733278 AGCAATTTTACAGACT
65 AGCAATTTTACAAACT
** * * ** *
79733294 A-GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTT-GTAAACCGAGGGTA-TTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTA-TTTCGTAATTTCACAAACCAAGGGTATTTT
*
79733356 AGTAATTTT
65 AGCAATTTT
79733365 GTAAATCGAG
Statistics
Matches: 135, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
78 11 0.08
79 11 0.08
80 72 0.53
81 39 0.29
82 2 0.01
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.41
Consensus pattern (80 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGTAATTTCACAAACCAAGGGTATTTTA
GCAATTTTACAAACT
Found at i:79733410 original size:25 final size:26
Alignment explanation
Indices: 79733332--79733478 Score: 137
Period size: 25 Copynumber: 5.8 Consensus size: 26
79733322 GGGTATTTTG
* ***
79733332 GTAATTTGTAAACCGAGGGT-ATTTA
1 GTAATTTGTAAATCGAGGGTAAAACA
*
79733357 GTAATTTTGTAAATCGAGGGT-AAATA
1 GTAA-TTTGTAAATCGAGGGTAAAACA
*
79733383 GTAATTTGTAAAT-AAGGGTAAAACA
1 GTAATTTGTAAATCGAGGGTAAAACA
* *
79733408 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATT-TGTAAATCGAGGGTAAAACA
79733435 GT-ATTTGTAAATCGAGGG--AAAC-
1 GTAATTTGTAAATCGAGGGTAAAACA
*
79733457 GTAATTCTATAAATCGAGGGTA
1 GTAATT-TGTAAATCGAGGGTA
79733479 CTTTGGTAAT
Statistics
Matches: 104, Mismatches: 10, Indels: 15
0.81 0.08 0.12
Matches are distributed among these distances:
22 2 0.02
23 7 0.07
24 17 0.16
25 35 0.34
26 31 0.30
27 12 0.12
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (26 bp):
GTAATTTGTAAATCGAGGGTAAAACA
Found at i:79733411 original size:51 final size:49
Alignment explanation
Indices: 79733356--79733478 Score: 153
Period size: 51 Copynumber: 2.5 Consensus size: 49
79733346 GAGGGTATTT
* *
79733356 AGTAATTTTGTAAATCGAGGGTAAATA-GTAATTTGTAAAT-AAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAA-ACGT-ATTTGTAAATCAAGGG--AAAC
*
79733407 AGTAATTCTATAAATCGAGGGTAAAACGGTATTTGTAAATCGAGGGAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC-GTATTTGTAAATCAAGGGAAAC
79733457 -GTAATTCTATAAATCGAGGGTA
1 AGTAATTCTATAAATCGAGGGTA
79733479 CTTTGGTAAT
Statistics
Matches: 66, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
49 22 0.33
50 5 0.08
51 33 0.50
52 6 0.09
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.29
Consensus pattern (49 bp):
AGTAATTCTATAAATCGAGGGTAAAACGTATTTGTAAATCAAGGGAAAC
Found at i:79735769 original size:31 final size:31
Alignment explanation
Indices: 79735734--79735812 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
79735724 TTTAACGGAT
*
79735734 ACTGGGCTGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
79735765 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
79735796 ATTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
79735813 ACTGTAAACG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:79736056 original size:25 final size:26
Alignment explanation
Indices: 79736028--79736145 Score: 133
Period size: 25 Copynumber: 4.8 Consensus size: 26
79736018 CTCTTTTAAT
*
79736028 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
79736053 AACTGGGGCA-AAG-CCTTTT-AATA
1 AACTGGGGCATAAGCCCTTTTCGATA
** *
79736076 AACAAGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
79736102 AACT-GGGCATAAG-CCTTTTC-AAA
1 AACTGGGGCATAAGCCCTTTTCGATA
79736125 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
79736146 GCACTTCCTC
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
23 15 0.19
24 25 0.32
25 34 0.43
26 5 0.06
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGATA
Found at i:79736091 original size:49 final size:49
Alignment explanation
Indices: 79736020--79736145 Score: 188
Period size: 49 Copynumber: 2.6 Consensus size: 49
79736010 GGCCTAGCCT
79736020 CTTTTAAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGC
1 CTTTTAATAAACTGGGGCATAAGCCCTTTTCGGTAAACT-GGGCATAAGC
**
79736067 CTTTTAATAAACAAGGGCATAAGCCCTTTTCGGTAAACTGGGCATAAGC
1 CTTTTAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGCATAAGC
79736116 CTTTTCAA-AAACTGGGGCATAAGCCCTTTT
1 CTTTT-AATAAACTGGGGCATAAGCCCTTTT
79736146 GCACTTCCTC
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
47 8 0.11
48 13 0.18
49 48 0.68
50 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (49 bp):
CTTTTAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGCATAAGC
Found at i:79737031 original size:26 final size:27
Alignment explanation
Indices: 79736937--79737022 Score: 122
Period size: 27 Copynumber: 3.2 Consensus size: 27
79736927 CATTCGTCAT
* *
79736937 TTTACCATACAGGGG-TATTACGGTCAC
1 TTTACCCTACAGGGGCT-TTACGGTCTC
79736964 TTTACCCTACAGGGGCTTTACGGTCTC
1 TTTACCCTACAGGGGCTTTACGGTCTC
*
79736991 TTTACCCTACAGGGGCTTTA-GGTCTT
1 TTTACCCTACAGGGGCTTTACGGTCTC
79737017 TTTACC
1 TTTACC
79737023 TAATAGGGGT
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 11 0.20
27 43 0.78
28 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.35
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGGTCTC
Found at i:79737333 original size:26 final size:27
Alignment explanation
Indices: 79737167--79737409 Score: 257
Period size: 27 Copynumber: 9.2 Consensus size: 27
79737157 TGTAAATCAG
*
79737167 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAATCGA
* * *
79737194 --GTA-TTTCGTAATTTCACAAA-CCA
1 GGGTATTTTGGTAATTTTACAAATCGA
*
79737217 GTGGTATTTTGGTAATTTTACAAA-CTA
1 G-GGTATTTTGGTAATTTTACAAATCGA
*
79737244 GGGGTATTTTGGTAATTTTACAAATTGA
1 -GGGTATTTTGGTAATTTTACAAATCGA
* *
79737272 GGGTATTTCGGTAATTTTACAAACCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
* * * *
79737299 GGGTATTTTAGCAATTTTACAGA-CTA
1 GGGTATTTTGGTAATTTTACAAATCGA
**
79737325 GGGTATTTTGGTAATTTTACTGATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
*
79737352 GGGTA-TTTGGTAATTTTATAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
* **
79737378 GGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
79737405 GGGTA
1 GGGTA
79737410 AAATAGTAAT
Statistics
Matches: 182, Mismatches: 26, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
23 1 0.01
24 15 0.08
25 3 0.02
26 48 0.26
27 113 0.62
28 2 0.01
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCGA
Found at i:79737353 original size:53 final size:52
Alignment explanation
Indices: 79737167--79737409 Score: 249
Period size: 53 Copynumber: 4.6 Consensus size: 52
79737157 TGTAAATCAG
* * * *
79737167 GGGTATTTTGGTAATTTTACAAATTGA--GTATTTCGTAATTTCACAAACCA
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTGGTAATTTTACAAACTA
* *
79737217 GTGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAATTGA
1 G-GGTATTTTGGTAATTTTACAAATCGA-GGGTA-TTTGGTAATTTTACAAACT-A
* * * * *
79737272 GGGTATTTCGGTAATTTTACAAACCGAGGGTATTTTAGCAATTTTACAGACTA
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTA-TTTGGTAATTTTACAAACTA
** * *
79737325 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTGGTAATTTTATAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTGGTAATTTTACAAA-CTA
* **
79737378 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTA
79737410 AAATAGTAAT
Statistics
Matches: 159, Mismatches: 26, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
50 2 0.01
51 22 0.14
52 13 0.08
53 61 0.38
54 57 0.36
55 4 0.03
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (52 bp):
GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTGGTAATTTTACAAACTA
Found at i:79737400 original size:27 final size:27
Alignment explanation
Indices: 79737139--79737529 Score: 230
Period size: 27 Copynumber: 14.7 Consensus size: 27
79737129 TAGAAAGTCA
* *
79737139 AGGGTATTTCT-GTAACTTTGTAAATC-
1 AGGGTATTT-TGGTAATTTTATAAATCG
* *
79737165 AGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTTGGTAATTTTATAAATCG
* * * *
79737193 A--GTA-TTTCGTAATTTCACAAA-CC
1 AGGGTATTTTGGTAATTTTATAAATCG
* *
79737216 AGTGGTATTTTGGTAATTTTACAAA-CT
1 AG-GGTATTTTGGTAATTTTATAAATCG
* *
79737243 AGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTTGGTAATTTTATAAATCG
* * *
79737271 AGGGTATTTCGGTAATTTTACAAACCG
1 AGGGTATTTTGGTAATTTTATAAATCG
* * * * *
79737298 AGGGTATTTTAGCAATTTTACAGA-CT
1 AGGGTATTTTGGTAATTTTATAAATCG
*
79737324 AGGGTATTTTGGTAATTTTACT-GATCG
1 AGGGTATTTTGGTAATTTTA-TAAATCG
79737351 AGGGTA-TTTGGTAATTTTATAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
* *
79737377 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
*** * * *
79737404 AGGGTAAAATAGTAA-TTTGTAAATCA
1 AGGGTATTTTGGTAATTTTATAAATCG
***** *
79737430 AGGGTAAAACAGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
*** * *
79737457 AGGGTAAAATGGTAATTCTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
**** * *
79737484 AGGG-AAAACGATAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
*
79737510 AGGGTACTTTGGTAATTTTA
1 AGGGTATTTTGGTAATTTTA
79737530 CAATTTGAAG
Statistics
Matches: 302, Mismatches: 48, Indels: 29
0.80 0.13 0.08
Matches are distributed among these distances:
23 1 0.00
24 15 0.05
25 4 0.01
26 96 0.32
27 183 0.61
28 3 0.01
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAATCG
Found at i:79737419 original size:80 final size:79
Alignment explanation
Indices: 79737255--79737560 Score: 215
Period size: 80 Copynumber: 3.8 Consensus size: 79
79737245 GGGTATTTTG
* * * * **
79737255 GTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCGAGGGTATTTTAGCAATTTTACA
1 GTAATTTTA-TAATCGAGGGTATTT-GGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGTA
* * *** *
79737320 GA-CTAGGGTATTTTG
64 AATCGAGGGTAAAATA
* *
79737335 GTAATTTTACTGATCGAGGGTATTTGGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTGTAA
1 GTAATTTTA-TAATCGAGGGTATTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGTAA
79737400 ATCGAGGGTAAAATA
65 ATCGAGGGTAAAATA
* **** * * *** * *
79737415 GTAATTTGTA-AATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTA
1 GTAATTT-TATAATCGAGGGT-ATTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGTA
*
79737479 AATCGAGGG-AAAA-C
64 AATCGAGGGTAAAATA
* * * * * *
79737493 GATAATTCTATAAATCGAGGGTACTTTGGTAATTTTACAATTTGAAGGTATTTCAGTAATTTGGT
1 G-TAATTTTAT-AATCGAGGGTA-TTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGT
79737558 AAA
63 AAA
79737561 CTAAAGTATT
Statistics
Matches: 174, Mismatches: 45, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
78 3 0.02
79 53 0.30
80 116 0.67
81 2 0.01
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (79 bp):
GTAATTTTATAATCGAGGGTATTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGTAAA
TCGAGGGTAAAATA
Found at i:79737427 original size:53 final size:53
Alignment explanation
Indices: 79737387--79737515 Score: 190
Period size: 53 Copynumber: 2.4 Consensus size: 53
79737377 AGGGTATTTT
* * *
79737387 AGTAATTTTGTAAATCGAGGGTAAAATAGTAATTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAATAGTAATTTGTAAATCGAGGGTAAAAC
*
79737440 AGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGG-AAAAC
1 AGTAATTCTATAAATCGAGGGTAAAATAGTAATT-TGTAAATCGAGGGTAAAAC
79737493 -GATAATTCTATAAATCGAGGGTA
1 AG-TAATTCTATAAATCGAGGGTA
79737516 CTTTGGTAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
52 1 0.01
53 57 0.81
54 12 0.17
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.29
Consensus pattern (53 bp):
AGTAATTCTATAAATCGAGGGTAAAATAGTAATTTGTAAATCGAGGGTAAAAC
Found at i:79739803 original size:31 final size:31
Alignment explanation
Indices: 79739760--79739838 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
79739750 TTTAGCGGTT
*
79739760 ACTGGGCTGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
79739791 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
79739822 ATTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
79739839 ACTGTAAACG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:79740128 original size:26 final size:26
Alignment explanation
Indices: 79740044--79740179 Score: 163
Period size: 26 Copynumber: 5.3 Consensus size: 26
79740034 ATGGAGGCCT
79740044 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
79740068 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
79740093 AGCCCGTTTCAATAAACAGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
79740119 AGCCCTTTTCAGTAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
79740145 AGCCTTTTTCAATAAACTGAGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
79740171 AGCCCTTTT
1 AGCCCTTTT
79740180 GCACTTCCTC
Statistics
Matches: 94, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 31 0.33
26 53 0.56
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:79741192 original size:27 final size:27
Alignment explanation
Indices: 79741152--79741402 Score: 287
Period size: 27 Copynumber: 9.4 Consensus size: 27
79741142 GTAACTTTGT
79741152 AAATC-AGGGTATTTTGGTAATTTTAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
* *
79741178 AAATCGAGGGTATTTCGGTAATTTCAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
* *
79741205 AAA-CCAGTGGTATTTTGGTAATTATA-
1 AAATCGAG-GGTATTTTGGTAATTTTAC
*
79741231 AAA-CTAGGGTATTTTGGTAATTTTAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
* * *
79741257 AAATTGAGGGTATTTCGATAATTTTAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
* * *
79741284 AAACCAAGGGTATTTTAGTAATTTTAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
*
79741311 AAA-CTAGGGTATTTTGGTAATTTTAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
** **
79741337 TGATCGAGGGTATTTTGGTAATTTTGT
1 AAATCGAGGGTATTTTGGTAATTTTAC
* **
79741364 AAATCGAGGGTATTTTAGTAATTTTGT
1 AAATCGAGGGTATTTTGGTAATTTTAC
79741391 AAATCGAGGGTA
1 AAATCGAGGGTA
79741403 AAACAGTAAT
Statistics
Matches: 192, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
25 17 0.09
26 39 0.20
27 136 0.71
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
AAATCGAGGGTATTTTGGTAATTTTAC
Found at i:79741220 original size:54 final size:53
Alignment explanation
Indices: 79741047--79741402 Score: 266
Period size: 54 Copynumber: 6.6 Consensus size: 53
79741037 TCATCCTACA
* * * * * **
79741047 AGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTTAAACC
1 AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTT-ACAAACC
* *** * * * ** *
79741101 AATGGTATTTCCATAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAATC
1 -AGGGTATTTTGGTAA-TTTTACAAA-TCAAGGGTATTTCGGTAATTTTACAAACC
* *
79741157 AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTCACAAACC
1 AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAACC
* * * **
79741210 AGTGGTATTTTGGTAATTATA-AAA-CTAGGGTATTTTGGTAATTTTACAAATTG
1 AG-GGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAA-CC
* * * ** *
79741263 AGGGTATTTCGATAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACT
1 AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAACC
** * * ** *
79741316 AGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAA-CC
* ** *
79741370 AGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 AGGGTATTTTGGTAATTTTACAAATCAAGGGTA
79741403 AAACAGTAAT
Statistics
Matches: 241, Mismatches: 53, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
52 38 0.16
53 74 0.31
54 78 0.32
55 21 0.09
56 11 0.05
57 19 0.08
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (53 bp):
AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAACC
Found at i:79741359 original size:80 final size:78
Alignment explanation
Indices: 79741131--79741388 Score: 331
Period size: 80 Copynumber: 3.2 Consensus size: 78
79741121 TAGAAAGTCA
*
79741131 AGGGTATTTCT-GTAACTTTGTAAATC-AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTC
1 AGGGTATTT-TAGTAA-TTT-TAAAACTAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTC
*
79741194 GGTAATTTCACAAACC
63 GGTAATTTTACAAACC
* * * *
79741210 AGTGGTATTTTGGTAATTATAAAACTAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGA
1 AG-GGTATTTTAGTAATTTTAAAACTAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGG
79741275 TAATTTTACAAACC
65 TAATTTTACAAACC
** *
79741289 AAGGGTATTTTAGTAATTTTACAAACTAGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTG
1 -AGGGTATTTTAGTAATTTTA-AAACTAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCG
** *
79741354 GTAATTTTGTAAATCG
64 GTAATTTTACAAA-CC
79741370 AGGGTATTTTAGTAATTTT
1 AGGGTATTTTAGTAATTTT
79741389 GTAAATCGAG
Statistics
Matches: 158, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
78 5 0.03
79 71 0.45
80 81 0.51
81 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (78 bp):
AGGGTATTTTAGTAATTTTAAAACTAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGT
AATTTTACAAACC
Found at i:79741518 original size:27 final size:27
Alignment explanation
Indices: 79741131--79741524 Score: 280
Period size: 27 Copynumber: 14.7 Consensus size: 27
79741121 TAGAAAGTCA
* *
79741131 AGGGTATTTCT-GTAACTTTGTAAATC-
1 AGGGTATTT-TGGTAATTTTATAAATCG
*
79741157 AGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
* * * *
79741184 AGGGTATTTCGGTAATTTCACAAA-CC
1 AGGGTATTTTGGTAATTTTATAAATCG
* *
79741210 AGTGGTATTTTGGTAA--TTATAAAACT
1 AG-GGTATTTTGGTAATTTTATAAATCG
* *
79741236 AGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTTGGTAATTTTATAAATCG
* * * * *
79741263 AGGGTATTTCGATAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTATAAATCG
* * *
79741290 AGGGTATTTTAGTAATTTTACAAA-CT
1 AGGGTATTTTGGTAATTTTATAAATCG
*
79741316 AGGGTATTTTGGTAATTTTACT-GATCG
1 AGGGTATTTTGGTAATTTTA-TAAATCG
*
79741343 AGGGTATTTTGGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
* *
79741370 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
***** * * *
79741397 AGGGTAAAACAGTAATTCTGTAAATCA
1 AGGGTATTTTGGTAATTTTATAAATCG
*** * *
79741424 AGGGTAAAATAGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
**** * *
79741451 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
**** *
79741478 AGGGTAAAACGGTAATTGTATAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
*
79741505 AGGGTACTTTGGTAATTTTA
1 AGGGTATTTTGGTAATTTTA
79741525 CAATTTGAAG
Statistics
Matches: 310, Mismatches: 49, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
25 19 0.06
26 49 0.16
27 242 0.78
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.37
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAATCG
Found at i:79741547 original size:81 final size:81
Alignment explanation
Indices: 79741339--79741548 Score: 231
Period size: 81 Copynumber: 2.6 Consensus size: 81
79741329 AATTTTACTG
* * * *
79741339 ATCGAGGGTATTTTGGTAATTTTGTAAATCGAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAA
1 ATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTATTTCAGTAATTCTGTAAATCGAGGGTAA
*
79741404 AACAGTAATTCTGTAA
66 AACAGTAATTCTATAA
* ** * * *** *
79741420 ATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAA
1 ATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTATTTCAGTAATTCTGTAAATCGAGGGTAA
* *
79741485 AACGGTAATTGTATAA
66 AACAGTAATTCTATAA
* * * * *
79741501 ATCGAGGGTACTTTGGTAATTTTACAATTTGAAGGTATTTCAGTAATT
1 ATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTATTTCAGTAATT
79741549 TGGTAAACTA
Statistics
Matches: 99, Mismatches: 30, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
81 99 1.00
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (81 bp):
ATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTATTTCAGTAATTCTGTAAATCGAGGGTAA
AACAGTAATTCTATAA
Found at i:79744834 original size:47 final size:46
Alignment explanation
Indices: 79744781--79744884 Score: 154
Period size: 47 Copynumber: 2.2 Consensus size: 46
79744771 TTTAGGATTT
* * *
79744781 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGAGATAAGG-CGAATGGCC
**
79744828 AATGTGATGAATGTGAATGTGCATATATGAGATAAGGCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGAGATAAGGCGAATGGCC
79744874 AATGTGATGAA
1 AATGTGATGAA
79744885 CGTGTGGCGA
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
46 20 0.38
47 32 0.62
ACGTcount: A:0.34, C:0.10, G:0.31, T:0.26
Consensus pattern (46 bp):
AATGTGATGAATGTGAACATGCATATATGAGATAAGGCGAATGGCC
Found at i:79744835 original size:22 final size:21
Alignment explanation
Indices: 79744808--79744881 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 21
79744798 CATGCATATG
79744808 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGG-CGAATGGCCAA
* * *
79744830 TGTGATGAATGTGAATGTGCATATA
1 TGTGAT-AAGGCGAATG-GC-CA-A
*
79744855 TGAGATAAGGCGAATGGCCAA
1 TGTGATAAGGCGAATGGCCAA
79744876 TGTGAT
1 TGTGAT
79744882 GAACGTGTGG
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
21 6 0.15
22 12 0.30
23 7 0.17
24 9 0.22
25 6 0.15
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.26
Consensus pattern (21 bp):
TGTGATAAGGCGAATGGCCAA
Found at i:79746521 original size:40 final size:40
Alignment explanation
Indices: 79746466--79746868 Score: 463
Period size: 40 Copynumber: 10.1 Consensus size: 40
79746456 GAGAATTGAG
* * *
79746466 AGTGATATACCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGTTATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCT
* * *
79746506 AGTGATATACCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGTTATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCT
* * * *
79746546 AGTGATATAACCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGTTATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCT
* * *
79746586 AGTGATATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGTTATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCT
* * * *
79746626 AGAGTTATATCAGGGTTAAGTCCCGAAGGGCATTCGTGCC
1 AGTGTTATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCT
* *
79746666 GGTGTTATATCCGAGCTAAGTCCCGAA-GGCATTCGTG-T
1 AGTGTTATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCT
* * * *
79746704 CGGTGTTATATCCAGGCTAAATCCCGAAGGGTATTCGTGC-
1 -AGTGTTATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCT
* *
79746744 CGATGTTATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCC
1 AG-TGTTATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCT
* * * *
79746785 GGTGTTATATCAGGGCTAAATCCCGAAGGGTATTCGTGC-
1 AGTGTTATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCT
* * *
79746824 CGATGTTATATCCGGGCTAAGTCCCAAAGGGCATTCGTGCC
1 AG-TGTTATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCT
79746865 AGTG
1 AGTG
79746869 ATGTGTATTC
Statistics
Matches: 322, Mismatches: 34, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
39 36 0.11
40 284 0.88
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGTTATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCT
Found at i:79746835 original size:199 final size:200
Alignment explanation
Indices: 79746471--79746864 Score: 499
Period size: 199 Copynumber: 2.0 Consensus size: 200
79746461 TTGAGAGTGA
* * *
79746471 TATACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATACCCGGGCTAAGTCCCGAAGAG
1 TATACCCGAGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATACCCAGGCTAAATCCCGAAGAG
* * * *
79746536 CATTCGTGCTAGTGATATAACCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATATATCCGGG
66 CATTCGTGCGAGTGATATAACCGGGCTAAGTCCCGAAGAGCATTCGTGCCAGTGATATATCAGGG
* * * *
79746601 CTAAGTCTCGAAGAGCATTCGTGCTAGAGTTATATCAGGGTTAAGTCCCGAAGGGCATTCGTGCC
131 CTAAATCCCGAAGAGCATTCGTGCTAGAGTTATATCAGGGCTAAGTCCCAAAGGGCATTCGTGCC
79746666 GGTGT
196 GGTGT
* * * * *
79746671 TATATCCGAGCTAAGTCCCGAAG-GCATTCGTG-TCGGTGTTATATCCAGGCTAAATCCCGAAGG
1 TATACCCGAGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGATATACCCAGGCTAAATCCCGAAGA
* * * * * *
79746734 GTATTCGTGCCGA-TGTTATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTATATCAG
65 GCATTCGTG-CGAGTGATATAACCGGGCTAAGTCCCGAAGAGCATTCGTGCCAGTGATATATCAG
* * * *
79746798 GGCTAAATCCCGAAGGGTATTCGTGC-CGATGTTATATCCGGGCTAAGTCCCAAAGGGCATTCGT
129 GGCTAAATCCCGAAGAGCATTCGTGCTAGA-GTTATATCAGGGCTAAGTCCCAAAGGGCATTCGT
79746862 GCC
193 GCC
79746865 AGTGATGTGT
Statistics
Matches: 165, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
198 3 0.02
199 139 0.84
200 23 0.14
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (200 bp):
TATACCCGAGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATACCCAGGCTAAATCCCGAAGAG
CATTCGTGCGAGTGATATAACCGGGCTAAGTCCCGAAGAGCATTCGTGCCAGTGATATATCAGGG
CTAAATCCCGAAGAGCATTCGTGCTAGAGTTATATCAGGGCTAAGTCCCAAAGGGCATTCGTGCC
GGTGT
Found at i:79751032 original size:47 final size:47
Alignment explanation
Indices: 79750979--79751083 Score: 156
Period size: 47 Copynumber: 2.2 Consensus size: 47
79750969 TTTAGGATTT
* * * *
79750979 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGAGATAAGGCAGAATGGCC
**
79751026 AATGTGATGAATGTGAATGTGCATATATGAGATAAGGCAGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGAGATAAGGCAGAATGGCC
79751073 AATGTGATGAA
1 AATGTGATGAA
79751084 CGTGTGGCGA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGAGATAAGGCAGAATGGCC
Found at i:79751033 original size:22 final size:22
Alignment explanation
Indices: 79751006--79751080 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
79750996 CATGCATATG
*
79751006 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
* * *
79751028 TGTGATGAATG-TGAATGTGCATATA
1 TGTGAT-AAGGCAGAATG-GC-CA-A
*
79751053 TGAGATAAGGCAGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
79751075 TGTGAT
1 TGTGAT
79751081 GAACGTGTGG
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 17 0.43
23 6 0.15
24 6 0.15
25 11 0.28
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCAGAATGGCCAA
Found at i:79757277 original size:47 final size:47
Alignment explanation
Indices: 79757223--79757415 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
79757213 TTAGGATTTT
** * **
79757223 ATGTGATGAATGTGAATGTGTATATATAAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
79757270 ATGTGATGAATGTGAACATGCATA-ATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
79757316 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * ** *
79757363 ATGTGGTGAATGTGAACATGCATATATGTGGTAAACCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
79757410 ATGTGA
1 ATGTGA
79757416 AATATATATA
Statistics
Matches: 130, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
46 43 0.33
47 87 0.67
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:79757321 original size:22 final size:22
Alignment explanation
Indices: 79757252--79757322 Score: 65
Period size: 22 Copynumber: 3.1 Consensus size: 22
79757242 GTATATATAA
79757252 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
79757274 GATGAATG-TGAACAT-GCATAATGT
1 GAT-AAGGCCG-A-ATGGC-CAATGT
79757298 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
79757320 GAT
1 GAT
79757323 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
22 14 0.38
23 12 0.32
24 11 0.30
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.23
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:79757328 original size:93 final size:94
Alignment explanation
Indices: 79757223--79757415 Score: 271
Period size: 93 Copynumber: 2.1 Consensus size: 94
79757213 TTAGGATTTT
** *
79757223 ATGTGATGAATGTGAATGTGTATATATAAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATAAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
**
79757288 TGCATA-ATGTGATAAGGCCGAATGGCCA
66 TGCATATATGTGATAAACCCGAATGGCCA
* * ** *
79757316 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATAAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
79757381 TGCATATATGTGGTAAACCCGAATGGCTA
66 TGCATATATGTGATAAACCCGAATGGCCA
79757410 ATGTGA
1 ATGTGA
79757416 AATATATATA
Statistics
Matches: 87, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
93 63 0.72
94 24 0.28
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.26
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGCATATATAAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATATATGTGATAAACCCGAATGGCCA
Found at i:79757371 original size:25 final size:25
Alignment explanation
Indices: 79757296--79757371 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
79757286 CATGCATAAT
79757296 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
79757321 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
79757343 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
79757368 GTGA
1 GTGA
79757372 ATGTGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:79757765 original size:37 final size:37
Alignment explanation
Indices: 79757622--79757764 Score: 232
Period size: 37 Copynumber: 3.9 Consensus size: 37
79757612 AAATATATTT
79757622 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
*
79757659 CGGGTAAGACCCGATGACTATGTGTGGAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
* * *
79757696 CGGGTAAGACCCGATGACTACGTGCGAAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
* *
79757733 CGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 CGGGTAAGACCCGATGACTACGTGTGGAGATT
79757765 TCGTCTGAGC
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
Done.