Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 229 of 427
Found at i:64803517 original size:34 final size:34
Alignment explanation
Indices: 64803477--64803543 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
64803467 AAATTTAGTG
64803477 TCTGTTGAATTCACTAAATTTGTGGTTAAATTTA
1 TCTGTTGAATTCACTAAATTTGTGGTTAAATTTA
64803511 TCTGTTGAATTCACTAAATTTGTGGTTAAATTT
1 TCTGTTGAATTCACTAAATTTGTGGTTAAATTT
64803544 TCTAACCCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.48
Consensus pattern (34 bp):
TCTGTTGAATTCACTAAATTTGTGGTTAAATTTA
Found at i:64804454 original size:14 final size:14
Alignment explanation
Indices: 64804435--64804463 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
64804425 ACCGTATTTA
64804435 GACAGGTTTGTGGT
1 GACAGGTTTGTGGT
64804449 GACAGGTTTGTGGT
1 GACAGGTTTGTGGT
64804463 G
1 G
64804464 GTATTTATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.45, T:0.34
Consensus pattern (14 bp):
GACAGGTTTGTGGT
Found at i:64812064 original size:19 final size:19
Alignment explanation
Indices: 64812040--64812080 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
64812030 CTTTTCAATA
*
64812040 AAAGGATTTATAATGAATC
1 AAAGGATTTAGAATGAATC
64812059 AAAGGATTTAGAATGAATC
1 AAAGGATTTAGAATGAATC
64812078 AAA
1 AAA
64812081 TGTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.51, C:0.05, G:0.17, T:0.27
Consensus pattern (19 bp):
AAAGGATTTAGAATGAATC
Found at i:64814672 original size:16 final size:16
Alignment explanation
Indices: 64814604--64814676 Score: 53
Period size: 16 Copynumber: 4.3 Consensus size: 16
64814594 AAATCAAATA
64814604 ATATTTAAATAATTTAAT
1 ATATTT-AATAA-TTAAT
64814622 ATAATTATACATAA--AAT
1 AT-ATT-TA-ATAATTAAT
*
64814639 ATATTTTAAT-TTTAAAT
1 ATA-TTTAATAATT-AAT
64814656 ATATTTAATAATTAAT
1 ATATTTAATAATTAAT
64814672 ATATT
1 ATATT
64814677 ATTTATAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 18
0.69 0.03 0.28
Matches are distributed among these distances:
15 2 0.04
16 17 0.38
17 15 0.33
18 2 0.04
19 4 0.09
20 5 0.11
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATTTAATAATTAAT
Found at i:64814752 original size:28 final size:25
Alignment explanation
Indices: 64814647--64814753 Score: 63
Period size: 28 Copynumber: 3.8 Consensus size: 25
64814637 ATATATTTTA
*
64814647 ATTTTAAATATATTTAATA-ATTAATAT
1 ATTTTAAA-A-ATTTAATATAATAA-AT
*
64814674 ATTATTTATAAATTTAATTATACATGAAAT
1 A-T-TTTAAAAATTTAA-TATA-AT-AAAT
* *
64814704 ATTTTAAAATTTTAAAAATAATAAAT
1 ATTTTAAAAATTT-AATATAATAAAT
64814730 AGTGTTTAAATAATTTAATATAAT
1 A-T-TTTAAA-AATTTAATATAAT
64814754 GCTTAAAATT
Statistics
Matches: 63, Mismatches: 7, Indels: 19
0.71 0.08 0.21
Matches are distributed among these distances:
26 5 0.08
27 10 0.16
28 29 0.46
29 13 0.21
30 4 0.06
31 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.47
Consensus pattern (25 bp):
ATTTTAAAAATTTAATATAATAAAT
Found at i:64815591 original size:6 final size:6
Alignment explanation
Indices: 64815582--64815643 Score: 115
Period size: 6 Copynumber: 10.3 Consensus size: 6
64815572 AGAGGTTAGA
*
64815582 GATGGG GATGTG GATGTG GATGTG GATGTG GATGTG GATGTG GATGTG
1 GATGTG GATGTG GATGTG GATGTG GATGTG GATGTG GATGTG GATGTG
64815630 GATGTG GATGTG GA
1 GATGTG GATGTG GA
64815644 GGGAATTATA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.18, C:0.00, G:0.52, T:0.31
Consensus pattern (6 bp):
GATGTG
Found at i:64816857 original size:26 final size:26
Alignment explanation
Indices: 64816828--64816890 Score: 92
Period size: 26 Copynumber: 2.4 Consensus size: 26
64816818 TTTATCGAGG
*
64816828 TTATTAGTTTAT-GATAAATGAATATT
1 TTATTAATTTATCGATAAATGAATA-T
*
64816854 TTATTAATTTATCGATAAATTAATAT
1 TTATTAATTTATCGATAAATGAATAT
64816880 TTATTAATTTA
1 TTATTAATTTA
64816891 GAGAATATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 23 0.68
27 11 0.32
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (26 bp):
TTATTAATTTATCGATAAATGAATAT
Found at i:64823850 original size:24 final size:24
Alignment explanation
Indices: 64823457--64823835 Score: 668
Period size: 24 Copynumber: 15.8 Consensus size: 24
64823447 GAATGTGACT
* *
64823457 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
64823481 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
64823505 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
64823529 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
64823553 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
64823577 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
64823601 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
64823625 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
64823649 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
64823673 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
64823697 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
64823721 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
64823745 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
64823769 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
64823793 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
64823817 ATAGTGAATCGCACACATA
1 ATAGTAAATCGCACACATA
64823836 TCCAAAGCTT
Statistics
Matches: 348, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 348 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:64831305 original size:24 final size:24
Alignment explanation
Indices: 64830912--64831290 Score: 668
Period size: 24 Copynumber: 15.8 Consensus size: 24
64830902 GAATGTGACT
* *
64830912 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
64830936 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
64830960 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
64830984 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
64831008 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
64831032 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
64831056 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
64831080 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
64831104 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
64831128 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
64831152 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
64831176 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
64831200 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
64831224 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
64831248 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
64831272 ATAGTGAATCGCACACATA
1 ATAGTAAATCGCACACATA
64831291 TCCAAAGCTT
Statistics
Matches: 348, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 348 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:64842901 original size:22 final size:22
Alignment explanation
Indices: 64842873--64842917 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
64842863 GGTTCCCACG
*
64842873 TAGCCTCTTCGACTCCATGTCT
1 TAGCCTCTTCAACTCCATGTCT
64842895 TAGCCTCTTCAACTCCATGTCT
1 TAGCCTCTTCAACTCCATGTCT
64842917 T
1 T
64842918 TGCCATAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.16, C:0.36, G:0.11, T:0.38
Consensus pattern (22 bp):
TAGCCTCTTCAACTCCATGTCT
Found at i:64852744 original size:43 final size:42
Alignment explanation
Indices: 64852661--64852779 Score: 125
Period size: 43 Copynumber: 2.8 Consensus size: 42
64852651 TTAGAGTTAC
*
64852661 TGAGATTTACGTGTAAGACCATATCTGAGATATGACATCGATA
1 TGAGA-TTACGTGTAAGACCATAGCTGAGATATGACATCGATA
* *
64852704 TGAGACTT-CGTGTAAGACCATAGCT-AGGCTATTGGCATCGATA
1 TGAGA-TTACGTGTAAGACCATAGCTGA-GATA-TGACATCGATA
* * * *
64852747 CGAGATTACATGTAAGACCATACCTGGGATATG
1 TGAGATTACGTGTAAGACCATAGCTGAGATATG
64852780 GCACTGGTAT
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
41 1 0.02
42 23 0.37
43 39 0.62
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATAGCTGAGATATGACATCGATA
Found at i:64854880 original size:27 final size:27
Alignment explanation
Indices: 64854850--64854902 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
64854840 GGAAGTACTG
64854850 TACTGGTGGCTATGCTACAATTATTGA
1 TACTGGTGGCTATGCTACAATTATTGA
* *
64854877 TACTGGTGGCTTTGCTACATTTATTG
1 TACTGGTGGCTATGCTACAATTATTG
64854903 TTCCTAGCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.42
Consensus pattern (27 bp):
TACTGGTGGCTATGCTACAATTATTGA
Found at i:64855106 original size:28 final size:27
Alignment explanation
Indices: 64855065--64855124 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
64855055 ACTATATTGA
* * *
64855065 TACTATATTGGGCTTAGGCCCACACTG
1 TACTGTATAGGGCTAAGGCCCACACTG
*
64855092 TTACTGTATAGGGCTAAGGCCCAGACTG
1 -TACTGTATAGGGCTAAGGCCCACACTG
64855120 TACTG
1 TACTG
64855125 ATAATGTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.28
Consensus pattern (27 bp):
TACTGTATAGGGCTAAGGCCCACACTG
Found at i:64856141 original size:27 final size:28
Alignment explanation
Indices: 64856104--64856243 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
64856094 AGCATGGCTG
* *
64856104 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
64856130 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
64856158 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
64856185 CCAGAT-CAGATATTTGTGGTAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
64856212 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
64856239 CCAGA
1 CCAGA
64856244 ACGCTTCCTC
Statistics
Matches: 104, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
26 5 0.05
27 82 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:64856375 original size:26 final size:27
Alignment explanation
Indices: 64856346--64856421 Score: 100
Period size: 26 Copynumber: 2.8 Consensus size: 27
64856336 CAAAATTAAC
64856346 CCTAGGGGTATAACAGTAATTTTGC-A
1 CCTAGGGGTATAACAGTAATTTTGCAA
*
64856372 CCTAGGGGTATAACAGTAATTTTTCATA
1 CCTAGGGGTATAACAGTAATTTTGCA-A
* * *
64856400 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAACAGTAATTT
64856422 AGCTACTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 24 0.55
28 20 0.45
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.36
Consensus pattern (27 bp):
CCTAGGGGTATAACAGTAATTTTGCAA
Found at i:64857870 original size:26 final size:26
Alignment explanation
Indices: 64857834--64857943 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
64857824 CATGAAATTC
64857834 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
64857860 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
64857886 TTATTATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
64857912 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
64857938 TTATCA
1 TTATCA
64857944 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:64858972 original size:20 final size:20
Alignment explanation
Indices: 64858934--64858973 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
64858924 TTGCGAAAGC
*
64858934 CTTGTGATTATTGATATATA
1 CTTGTGATTATTGAAATATA
64858954 CTTGTGATGTA-TGAAATATA
1 CTTGTGAT-TATTGAAATATA
64858974 TGGTAAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (20 bp):
CTTGTGATTATTGAAATATA
Found at i:64863022 original size:16 final size:15
Alignment explanation
Indices: 64862990--64863037 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
64862980 TAAATGATGA
* *
64862990 TATTTTCATCTTTTT
1 TATTTTTATCATTTT
64863005 TATTATTTATCATTTT
1 TATT-TTTATCATTTT
*
64863021 TATTTTTTTCATCTTT
1 TATTTTTATCAT-TTT
64863037 T
1 T
64863038 CAATTTTGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.39
16 17 0.61
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTTTTATCATTTT
Found at i:64879553 original size:41 final size:41
Alignment explanation
Indices: 64879508--64879625 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
64879498 TGAAAGATAA
64879508 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
64879549 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
64879579 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
64879620 ATGTAG
1 ATGTAG
64879626 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:64879564 original size:71 final size:71
Alignment explanation
Indices: 64879476--64879639 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
64879466 GAGATGTATC
64879476 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
64879541 AGGACA
66 AGGACA
64879547 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
64879612 AGGACA
66 AGGACA
64879618 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
64879640 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:64887134 original size:41 final size:41
Alignment explanation
Indices: 64887089--64887206 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
64887079 TGAAAGATAA
64887089 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
64887130 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
64887160 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
64887201 ATGTAG
1 ATGTAG
64887207 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:64887145 original size:71 final size:71
Alignment explanation
Indices: 64887057--64887220 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
64887047 GAGATGTATC
64887057 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
64887122 AGGACA
66 AGGACA
64887128 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
64887193 AGGACA
66 AGGACA
64887199 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
64887221 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:64893404 original size:14 final size:14
Alignment explanation
Indices: 64893385--64893419 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
64893375 CCTCAGACAC
64893385 GGACGTGTGTCCCG
1 GGACGTGTGTCCCG
64893399 GGACGTGTGTCCCG
1 GGACGTGTGTCCCG
64893413 GG-CGTGT
1 GGACGTGT
64893420 AAAGTCTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.06, C:0.26, G:0.46, T:0.23
Consensus pattern (14 bp):
GGACGTGTGTCCCG
Found at i:64911940 original size:42 final size:41
Alignment explanation
Indices: 64911877--64912029 Score: 146
Period size: 42 Copynumber: 3.7 Consensus size: 41
64911867 TAAGATGCCA
* * *
64911877 ATGCCA-AGTCCCAGACGTGGTCTTACATGGGATCTCACATCG
1 ATGCCATA-TCCCAGACATGGTCTTACA-GGAATCTCATATCG
* * * *
64911919 ATGCCATATCCCAGATATGGTCTTATACGAAGTCTCATTTCG
1 ATGCCATATCCCAGACATGGTCTTACAGGAA-TCTCATATCG
* * * *
64911961 ATGCCATGTCCTAGACATGGTCTTACACGAAATCTCATATCA
1 ATGCCATATCCCAGACATGGTCTTACA-GGAATCTCATATCG
* *
64912003 ACGCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGACATGGTCTTACA
64912030 AGATAACACA
Statistics
Matches: 89, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
41 2 0.02
42 84 0.94
43 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (41 bp):
ATGCCATATCCCAGACATGGTCTTACAGGAATCTCATATCG
Found at i:64914694 original size:24 final size:24
Alignment explanation
Indices: 64914667--64914804 Score: 242
Period size: 24 Copynumber: 5.8 Consensus size: 24
64914657 CTTATTATGT
**
64914667 TCGCACACATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
64914691 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
64914715 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
64914739 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
64914763 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
64914787 T-GCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
64914805 TATTTCCAGC
Statistics
Matches: 111, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
23 17 0.15
24 94 0.85
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:64922467 original size:24 final size:24
Alignment explanation
Indices: 64922440--64922578 Score: 251
Period size: 24 Copynumber: 5.8 Consensus size: 24
64922430 CTTATTATGT
**
64922440 TCGCACACATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
64922464 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
64922488 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
64922512 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
64922536 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
64922560 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
64922579 TATTTCCAGC
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 112 1.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:64925784 original size:31 final size:31
Alignment explanation
Indices: 64925677--64925786 Score: 102
Period size: 31 Copynumber: 3.6 Consensus size: 31
64925667 ATAAATATCA
* **
64925677 ACATATTCATACCATGTAATCCTTCGA-ATTT
1 ACATATTCATACCCTGTAATCAATC-ACATTT
* *
64925708 ACATATTCATACCCTGTAAT-AAT-TCATGCGT
1 ACATATTCATACCCTGTAATCAATCACAT--TT
*
64925739 ACATATT-ATACCCTGTAATCGATCACATTT
1 ACATATTCATACCCTGTAATCAATCACATTT
*
64925769 ACATTTTCATACCCTGTA
1 ACATATTCATACCCTGTA
64925787 CAATGTATTA
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
29 2 0.03
30 20 0.31
31 39 0.61
32 3 0.05
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (31 bp):
ACATATTCATACCCTGTAATCAATCACATTT
Found at i:64926812 original size:11 final size:11
Alignment explanation
Indices: 64926796--64926834 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
64926786 TTATATACCA
64926796 TAATTAAGCTT
1 TAATTAAGCTT
*
64926807 TAATTAACCTT
1 TAATTAAGCTT
*
64926818 TAATCAAGC-T
1 TAATTAAGCTT
64926828 TAATTAA
1 TAATTAA
64926835 ATTAATTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 7 0.29
11 17 0.71
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (11 bp):
TAATTAAGCTT
Found at i:64928953 original size:106 final size:106
Alignment explanation
Indices: 64928810--64929046 Score: 411
Period size: 106 Copynumber: 2.2 Consensus size: 106
64928800 GTTGTAGTAA
* *
64928810 GGATTTAGCCCGGACGGATAATCCTTTGATCGTATTTATAAAAGGATATAGCTTGGACGAGTGTT
1 GGATTTAGCCCGGACGG-TAATCCGTTGATCGCATTTATAAAAGGATATAGCTTGGACGAGTGTT
64928875 CCTTTGAATGGTCGAGCCTCCCGAAGAATATTTGTGCATTAT
65 CCTTTGAATGGTCGAGCCTCCCGAAGAATATTTGTGCATTAT
*
64928917 GGATTTAGCCCGGACGGTAATCCGTTGATTGCATTTATAAAAGGATATAGCTTGGACGAGTGTTC
1 GGATTTAGCCCGGACGGTAATCCGTTGATCGCATTTATAAAAGGATATAGCTTGGACGAGTGTTC
*
64928982 CTTTGAATGGTCGAGCCTCTCGAAGAATATTTGTGCATTAT
66 CTTTGAATGGTCGAGCCTCCCGAAGAATATTTGTGCATTAT
*
64929023 AGATTTAGCCCGGACGGGTAATCC
1 GGATTTAGCCCGGAC-GGTAATCC
64929047 AATTAGGATC
Statistics
Matches: 124, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
106 99 0.80
107 25 0.20
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (106 bp):
GGATTTAGCCCGGACGGTAATCCGTTGATCGCATTTATAAAAGGATATAGCTTGGACGAGTGTTC
CTTTGAATGGTCGAGCCTCCCGAAGAATATTTGTGCATTAT
Found at i:64935924 original size:40 final size:37
Alignment explanation
Indices: 64935861--64935992 Score: 164
Period size: 35 Copynumber: 3.6 Consensus size: 37
64935851 GGCAAAGTGT
*
64935861 GAAATGTAGGTATGGTA-TT-ATCCATACTGAGTTGT
1 GAAATGTAGGTATGGTATTTCATCCATACTGAGTTGA
*
64935896 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC--ATCCATACTGAGTTGA
* *
64935936 GAAATGTAGGTATGGCATTTC--CCATACCGAGTTGA
1 GAAATGTAGGTATGGTATTTCATCCATACTGAGTTGA
*
64935971 AAAATGTAGGTATGGTATTTCA
1 GAAATGTAGGTATGGTATTTCA
64935993 ATGAGGAAAA
Statistics
Matches: 84, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
35 48 0.57
36 1 0.01
37 1 0.01
39 2 0.02
40 32 0.38
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (37 bp):
GAAATGTAGGTATGGTATTTCATCCATACTGAGTTGA
Found at i:64943396 original size:40 final size:37
Alignment explanation
Indices: 64943333--64943464 Score: 164
Period size: 35 Copynumber: 3.6 Consensus size: 37
64943323 GGCAAAGTGT
*
64943333 GAAATGTAGGTATGGTA-TT-ATCCATACTGAGTTGT
1 GAAATGTAGGTATGGTATTTCATCCATACTGAGTTGA
*
64943368 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC--ATCCATACTGAGTTGA
* *
64943408 GAAATGTAGGTATGGCATTTC--CCATACCGAGTTGA
1 GAAATGTAGGTATGGTATTTCATCCATACTGAGTTGA
*
64943443 AAAATGTAGGTATGGTATTTCA
1 GAAATGTAGGTATGGTATTTCA
64943465 ATGAGGAAAA
Statistics
Matches: 84, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
35 48 0.57
36 1 0.01
37 1 0.01
39 2 0.02
40 32 0.38
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (37 bp):
GAAATGTAGGTATGGTATTTCATCCATACTGAGTTGA
Found at i:64948508 original size:20 final size:20
Alignment explanation
Indices: 64948483--64948531 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
64948473 AGTCCATAAA
64948483 ATCACATTTCATAACCCAAT
1 ATCACATTTCATAACCCAAT
*
64948503 ATCACATTTCATAACTCAAT
1 ATCACATTTCATAACCCAAT
64948523 ATCACATTT
1 ATCACATTT
64948532 TCTTCAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.35
Consensus pattern (20 bp):
ATCACATTTCATAACCCAAT
Found at i:64951649 original size:24 final size:24
Alignment explanation
Indices: 64951621--64951678 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
64951611 CAACCAATTT
*
64951621 CCATACCAAATTCTACCAAAATGA
1 CCATACCAAATTCTACAAAAATGA
64951645 CCATACCAAATTCTACAAAAATGA
1 CCATACCAAATTCTACAAAAATGA
64951669 CCATACCAAA
1 CCATACCAAA
64951679 ATCATATTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.48, C:0.29, G:0.03, T:0.19
Consensus pattern (24 bp):
CCATACCAAATTCTACAAAAATGA
Found at i:64952382 original size:29 final size:29
Alignment explanation
Indices: 64952341--64952476 Score: 132
Period size: 29 Copynumber: 4.7 Consensus size: 29
64952331 ACGATGGTTG
* * *
64952341 TCACAATCTCTTTTCATAGTTGATGGTCA
1 TCACCATCCCTTTTCATAATTGATGGTCA
* * *
64952370 TCACCACCCCTTTTCATAATTGATAGCCGA
1 TCACCATCCCTTTTCATAATTGATGGTC-A
* * *
64952400 -AACTATCCCTTTTCATAATTCGATGGTCG
1 TCACCATCCCTTTTCATAATT-GATGGTCA
* * *
64952429 TCACCATCCC-TTTCATAGTTAATGGTCG
1 TCACCATCCCTTTTCATAATTGATGGTCA
64952457 TCACCATCCCTTTTCATAAT
1 TCACCATCCCTTTTCATAAT
64952477 CAAGAGCCGA
Statistics
Matches: 86, Mismatches: 17, Indels: 8
0.77 0.15 0.07
Matches are distributed among these distances:
28 17 0.20
29 56 0.65
30 13 0.15
ACGTcount: A:0.24, C:0.28, G:0.11, T:0.37
Consensus pattern (29 bp):
TCACCATCCCTTTTCATAATTGATGGTCA
Found at i:64952455 original size:87 final size:88
Alignment explanation
Indices: 64952332--64952498 Score: 237
Period size: 87 Copynumber: 1.9 Consensus size: 88
64952322 AGTGTAATCA
* * * ** *
64952332 CGATGGTTGTCACAATCTCTTTTCATAGTTGATGGTCATCACCACCCCTTTTCATAATTGATAGC
1 CGATGGTCGTCACAATCTCCTTTCATAGTTAATGGTCATCACCACCCCTTTTCATAATCAAGAGC
64952397 CGAAACTATCCCTTTTCATAATT
66 CGAAACTATCCCTTTTCATAATT
* * *
64952420 CGATGGTCGTCACCATC-CCTTTCATAGTTAATGGTCGTCACCATCCCTTTTCATAATCAAGAGC
1 CGATGGTCGTCACAATCTCCTTTCATAGTTAATGGTCATCACCACCCCTTTTCATAATCAAGAGC
*
64952484 CGAAGCTATCCCTTT
66 CGAAACTATCCCTTT
64952499 GCATTTGGTT
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
87 54 0.78
88 15 0.22
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.35
Consensus pattern (88 bp):
CGATGGTCGTCACAATCTCCTTTCATAGTTAATGGTCATCACCACCCCTTTTCATAATCAAGAGC
CGAAACTATCCCTTTTCATAATT
Found at i:64952466 original size:58 final size:58
Alignment explanation
Indices: 64952334--64952476 Score: 153
Period size: 58 Copynumber: 2.5 Consensus size: 58
64952324 TGTAATCACG
* * * *
64952334 ATGGTTGTCACAATCTCTTTTCATAGTTGATGGTCATCACCACCCCTTTTCATAATTG
1 ATGGTCGTCACAATCCCTTTTCATAATTGATGGTCATCACCACCCCTTTTCATAATTA
* * ** * * * *
64952392 ATAGCCGAAACTATCCCTTTTCATAATTCGATGGTCGTCACCATCCC-TTTCATAGTTA
1 ATGGTCGTCACAATCCCTTTTCATAATT-GATGGTCATCACCACCCCTTTTCATAATTA
*
64952450 ATGGTCGTCACCATCCCTTTTCATAAT
1 ATGGTCGTCACAATCCCTTTTCATAAT
64952477 CAAGAGCCGA
Statistics
Matches: 67, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
58 51 0.76
59 16 0.24
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.37
Consensus pattern (58 bp):
ATGGTCGTCACAATCCCTTTTCATAATTGATGGTCATCACCACCCCTTTTCATAATTA
Found at i:64956136 original size:6 final size:6
Alignment explanation
Indices: 64956106--64956214 Score: 62
Period size: 6 Copynumber: 17.8 Consensus size: 6
64956096 AAGAAACATT
* * * * *
64956106 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATCAG- GTGACAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
64956155 ATCAGA ATCAGA ATCAGA ATCAAA ATTAG- GTGACAGA ATTAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
*
64956204 ATCAGT ATCAG
1 ATCAGA ATCAG
64956215 GTAACAGAAT
Statistics
Matches: 77, Mismatches: 18, Indels: 16
0.69 0.16 0.14
Matches are distributed among these distances:
5 3 0.04
6 67 0.87
7 5 0.06
8 2 0.03
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:64956168 original size:37 final size:37
Alignment explanation
Indices: 64956117--64956214 Score: 124
Period size: 37 Copynumber: 2.6 Consensus size: 37
64956107 TCAGAACTAG
* * *
64956117 AATCAAAATGAGAATTAGAATCAGAATCAGGTGACAA
1 AATCAGAATCAGAATCAGAATCAGAATCAGGTGACAA
* * *
64956154 AATCAGAATCAGAATCAGAATCAAAATTAGGTGACAG
1 AATCAGAATCAGAATCAGAATCAGAATCAGGTGACAA
* *
64956191 AATTAGAATCAGAATCAGTATCAG
1 AATCAGAATCAGAATCAGAATCAG
64956215 GTAACAGAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.20
Consensus pattern (37 bp):
AATCAGAATCAGAATCAGAATCAGAATCAGGTGACAA
Found at i:64956222 original size:31 final size:31
Alignment explanation
Indices: 64956127--64956224 Score: 94
Period size: 31 Copynumber: 3.2 Consensus size: 31
64956117 AATCAAAATG
*
64956127 AGAATTAGAATCAGAATCAGGTGA-CA--AAATC
1 AGAATTAGAATCAGAATCA-GT-ATCAGGTAA-C
* ** * *
64956158 AGAATCAGAATCAGAATCAAAATTAGGTGAC
1 AGAATTAGAATCAGAATCAGTATCAGGTAAC
64956189 AGAATTAGAATCAGAATCAGTATCAGGTAAC
1 AGAATTAGAATCAGAATCAGTATCAGGTAAC
64956220 AGAAT
1 AGAAT
64956225 GTGAATGCAA
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
29 1 0.02
30 1 0.02
31 50 0.94
32 1 0.02
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.20
Consensus pattern (31 bp):
AGAATTAGAATCAGAATCAGTATCAGGTAAC
Found at i:64956496 original size:67 final size:67
Alignment explanation
Indices: 64956411--64956585 Score: 289
Period size: 67 Copynumber: 2.6 Consensus size: 67
64956401 ATATATATAT
* * * *
64956411 ATATATGTGGCGAAGCCACCAAATTACAGCAAGGCTGCTAGATATTGTGACGAAGTCACCAGAAC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCAAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
64956476 AG
66 AG
*
64956478 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCAAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
64956543 AG
66 AG
64956545 ATATATGTGGCGAGGCCACCAGATTGCAGCGAA-GCTGCCAG
1 ATATATGTGGCGAGGCCACCAGATTGCAGC-AAGGCTGCCAG
64956586 GACGCTTCCT
Statistics
Matches: 101, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
67 100 0.99
68 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.18
Consensus pattern (67 bp):
ATATATGTGGCGAGGCCACCAGATTGCAGCAAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
AG
Found at i:64956497 original size:27 final size:26
Alignment explanation
Indices: 64956450--64956500 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
64956440 CAAGGCTGCT
*
64956450 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
64956476 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
64956501 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:64956564 original size:27 final size:26
Alignment explanation
Indices: 64956516--64956567 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
64956506 GCGAGGCTGC
*
64956516 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
64956542 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
64956568 TTGCAGCGAA
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:64957034 original size:27 final size:27
Alignment explanation
Indices: 64956803--64957020 Score: 274
Period size: 27 Copynumber: 8.1 Consensus size: 27
64956793 AACACCCTAG
* *
64956803 GGGTAAAATGGGAATTTTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * * *
64956830 AGGTAAAACGGTAATTCTGTAAATCAA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* ** *
64956857 GAGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
64956884 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
64956911 GGATAAAATAGTAATTTTGCAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
64956938 GGGTAAGATGGTAATTTTGTAAATCGT
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
64956965 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
64956992 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
64957019 GG
1 GG
64957021 ATATTTTGGT
Statistics
Matches: 164, Mismatches: 27, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 164 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (27 bp):
GGGTAAAATGGTAATTTTGTAAATCGA
Found at i:64957053 original size:27 final size:27
Alignment explanation
Indices: 64957029--64957099 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
64957019 GGATATTTTG
*
64957029 GTAATTCTATCCTACAGGGGCATTTCA
1 GTAATTCTAACCTACAGGGGCATTTCA
* * *
64957056 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTAACCTACAGGGGCATTTCA
*
64957083 GTAATGCTAACCTACAG
1 GTAATTCTAACCTACAG
64957100 ATATGAGATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (27 bp):
GTAATTCTAACCTACAGGGGCATTTCA
Found at i:64958961 original size:6 final size:6
Alignment explanation
Indices: 64958952--64959061 Score: 82
Period size: 6 Copynumber: 17.8 Consensus size: 6
64958942 AATTAAAATG
*
64958952 AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
* * * * *
64959001 AAAATT AG-GTGAC AGAATT AGAATC AGAATC AGTATC AGGTAA-C AGAATC
1 AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
*
64959051 AAAATC AGAAT
1 AGAATC AGAAT
64959062 GTGAATGCAA
Statistics
Matches: 81, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
5 4 0.05
6 66 0.81
7 8 0.10
8 3 0.04
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:64958989 original size:31 final size:31
Alignment explanation
Indices: 64958952--64959061 Score: 130
Period size: 31 Copynumber: 3.4 Consensus size: 31
64958942 AATTAAAATG
64958952 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
64958983 AGAATCAGAATCAGAATCAAAATTAGGTGACAGAATT
1 AGAATCAGAATCAGAATC------AGGTGACAGAATC
* *
64959020 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
64959051 AAAATCAGAAT
1 AGAATCAGAAT
64959062 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
31 39 0.57
37 29 0.43
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:64958993 original size:37 final size:37
Alignment explanation
Indices: 64958952--64959039 Score: 140
Period size: 37 Copynumber: 2.4 Consensus size: 37
64958942 AATTAAAATG
64958952 AGAATCAGAATCAGAATCAGGTGACAGAATCAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATCAGAATC
* * *
64958989 AGAATCAGAATCAAAATTAGGTGACAGAATTAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATCAGAATC
*
64959026 AGAATCAGTATCAG
1 AGAATCAGAATCAG
64959040 GTAACAGAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.19
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATCAGAATC
Found at i:64959061 original size:37 final size:37
Alignment explanation
Indices: 64958940--64959061 Score: 130
Period size: 37 Copynumber: 3.5 Consensus size: 37
64958930 TATCAGAACT
* * *
64958940 AGAATTAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
* * * *
64958977 AGAATCAGAATCAGAATCAGAATCAAAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
*
64959014 AGAAT-----T-AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
64959045 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
64959062 GTGAATGCAA
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
31 26 0.37
32 1 0.01
36 1 0.01
37 42 0.60
ACGTcount: A:0.49, C:0.12, G:0.19, T:0.20
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:64959325 original size:67 final size:67
Alignment explanation
Indices: 64959240--64959389 Score: 246
Period size: 67 Copynumber: 2.2 Consensus size: 67
64959230 GAATAGATGT
* *
64959240 ATATATGTGGCGAAGCCACCAAATTGCAGCGAGGCTGCTAGATATTGTGACGAAGTCACCAGAAC
1 ATATATGTGGCGAGGCCACCAAATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
64959305 AA
66 AA
* * *
64959307 ATATATGTGGCGAGGCCACTAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAT
1 ATATATGTGGCGAGGCCACCAAATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
*
64959372 AG
66 AA
64959374 ATATATGTGGCGAGGC
1 ATATATGTGGCGAGGC
64959390 TGCCAGAACT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 77 1.00
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (67 bp):
ATATATGTGGCGAGGCCACCAAATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
AA
Found at i:64959828 original size:54 final size:53
Alignment explanation
Indices: 64959611--64959826 Score: 315
Period size: 54 Copynumber: 4.0 Consensus size: 53
64959601 TTAACACCCT
*
64959611 AAGGATAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
1 AAGG-TAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
*
64959665 AAGAGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
1 AAG-GTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
* * * *
64959719 AAGGATAAAATAGTAATTTTGTAAATCGAGAGTAAGACGGTAATTTTGTAAATC
1 AAGG-TAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
* * *
64959773 GAAGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATC
1 -AAGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
64959827 GAGGGTATTT
Statistics
Matches: 149, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
53 1 0.01
54 143 0.96
55 5 0.03
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (53 bp):
AAGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
Found at i:64959842 original size:27 final size:27
Alignment explanation
Indices: 64959616--64959833 Score: 274
Period size: 27 Copynumber: 8.1 Consensus size: 27
64959606 ACCCTAAGGA
* *
64959616 TAAAATGGTAATTTTATAAATCGAGGG
1 TAAAACGGTAATTTTGTAAATCGAGGG
* * *
64959643 TAAAACGGTAATTCTGTAAATCAAGAG
1 TAAAACGGTAATTTTGTAAATCGAGGG
** * *
64959670 TAAAATAGTAATTCTATAAATCGAGGG
1 TAAAACGGTAATTTTGTAAATCGAGGG
* * *
64959697 TAAAACGGTAATTCTGTAAATCAAGGA
1 TAAAACGGTAATTTTGTAAATCGAGGG
** *
64959724 TAAAATAGTAATTTTGTAAATCGAGAG
1 TAAAACGGTAATTTTGTAAATCGAGGG
* *
64959751 TAAGACGGTAATTTTGTAAATCGAAGG
1 TAAAACGGTAATTTTGTAAATCGAGGG
*
64959778 TAAAACAGTAATTTTGTAAATCGAGGG
1 TAAAACGGTAATTTTGTAAATCGAGGG
64959805 TAAAACGGTAATTTTGTAAATCGAGGG
1 TAAAACGGTAATTTTGTAAATCGAGGG
64959832 TA
1 TA
64959834 TTTTGGTAAG
Statistics
Matches: 161, Mismatches: 30, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 161 1.00
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (27 bp):
TAAAACGGTAATTTTGTAAATCGAGGG
Found at i:64959869 original size:27 final size:27
Alignment explanation
Indices: 64959839--64959896 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
64959829 GGGTATTTTG
* *
64959839 GTAAGTCTATCC-TATAGGGGCATTTCA
1 GTAAGTCTA-CCTTAAAAGGGCATTTCA
* *
64959866 GTAATTCTACCTTAAAAGGGTATTTCA
1 GTAAGTCTACCTTAAAAGGGCATTTCA
64959893 GTAA
1 GTAA
64959897 TGCTAGCATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (27 bp):
GTAAGTCTACCTTAAAAGGGCATTTCA
Found at i:64965074 original size:108 final size:109
Alignment explanation
Indices: 64964876--64965075 Score: 298
Period size: 108 Copynumber: 1.8 Consensus size: 109
64964866 TTTAAGGATA
* *
64964876 CCATGTAAGACCATGCCAAGGCATGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGAC
1 CCATGTAAGACCATGCCAAGGCATGCAATTGGTAAGGTTTCTAAGACAAGGAAACCATGTAAGAC
* *
64964941 CATGTCAATACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
64964985 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGACAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCAT-GCAATTGGTAAGGTTTC-TAAGACAAGGAAACCATGTAAG
*
64965047 ACCATGTCAAGACATGGCAATGGTAAGTT
64 ACCATGTCAAGACATGGCAATGATAAGTT
64965076 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
107 3 0.04
108 46 0.56
109 31 0.38
110 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (109 bp):
CCATGTAAGACCATGCCAAGGCATGCAATTGGTAAGGTTTCTAAGACAAGGAAACCATGTAAGAC
CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:64965112 original size:49 final size:52
Alignment explanation
Indices: 64964869--64965122 Score: 185
Period size: 53 Copynumber: 4.8 Consensus size: 52
64964859 ATTAGGGTTT
* * * * *
64964869 AAGGATACCATGTAAGACCATGCCAAGGCAT-GCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCACGTAAGACCATGACAAGACATGGCAA-TGGTAA-G-TTATAAGAC
* * * * * * * *
64964923 AAGGAAATCATGTAAGACCATGTCAATACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCACGTAAGACCATGACAAGACATGGCAATGGTAAG-T--TATAAGAC
* * * * * *
64964978 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGAC
1 -AAGGATACCACGTAAGACCATGACAAGACATGGCAATGGTAAGTT-ATAAGAC
* * *
64965031 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT-TCA-A-
1 AAGGATACCACGTAAGACCATGACAAGACATGGCAATGGTAAGTTATAAGAC
* *
64965080 AAGGATACCACGTAAGACCATGACAAGTCATGGAAATGGTAAG
1 AAGGATACCACGTAAGACCATGACAAGACATGGCAATGGTAAG
64965123 GTACCTGCAT
Statistics
Matches: 167, Mismatches: 27, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
49 39 0.23
50 1 0.01
51 2 0.01
52 5 0.03
53 44 0.26
54 32 0.19
55 40 0.24
56 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (52 bp):
AAGGATACCACGTAAGACCATGACAAGACATGGCAATGGTAAGTTATAAGAC
Found at i:64965311 original size:16 final size:16
Alignment explanation
Indices: 64965290--64965320 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
64965280 ATAAATTTGA
64965290 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
64965306 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
64965321 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:64972527 original size:55 final size:53
Alignment explanation
Indices: 64972440--64972649 Score: 235
Period size: 55 Copynumber: 3.9 Consensus size: 53
64972430 ATTAGGGTTT
* *
64972440 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGAAACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCTAAGGC
* * * *
64972495 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGAAACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGC
** * *
64972550 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGAAACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGC
* * *
64972603 AAGGAAACCATGTAAGACCATGTCAAGACATGGAAATGGTAAGTTTC
1 AAGGAAACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC
64972650 GAACGGATAC
Statistics
Matches: 128, Mismatches: 21, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
52 5 0.04
53 40 0.31
54 11 0.09
55 68 0.53
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGAAACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:64972646 original size:108 final size:110
Alignment explanation
Indices: 64972447--64972647 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
64972437 TTTAAGGATA
*
64972447 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
* *
64972512 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGAAATGATAAGTTACTATAAGGCAAAGGTC
*
64972557 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGAAACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
64972619 ACCATGTCAAGACATGGAAATGGTAAGTT
65 ACCATGTCAAGACATGGAAATGATAAGTT
64972648 TCGAACGGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.56
109 7 0.08
110 27 0.32
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGAAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:64974068 original size:40 final size:40
Alignment explanation
Indices: 64974023--64974190 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
64974013 CGGAATATAA
64974023 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
64974063 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
64974103 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
64974143 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
64974183 CCGGATAT
1 CCGGATAT
64974191 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:64974173 original size:80 final size:80
Alignment explanation
Indices: 64974039--64974188 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
64974029 ATAATCACGT
*
64974039 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
64974103 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
64974119 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
64974182 CCCGGAT
64 CCCGGAT
64974189 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:64982071 original size:40 final size:40
Alignment explanation
Indices: 64982026--64982193 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
64982016 CGGAATATAA
64982026 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
64982066 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
64982106 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
64982146 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
64982186 CCGGATAT
1 CCGGATAT
64982194 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:64982176 original size:80 final size:80
Alignment explanation
Indices: 64982042--64982191 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
64982032 ATAATCACGT
*
64982042 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
64982106 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
64982122 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
64982185 CCCGGAT
64 CCCGGAT
64982192 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:64991405 original size:53 final size:53
Alignment explanation
Indices: 64991231--64991438 Score: 222
Period size: 55 Copynumber: 3.8 Consensus size: 53
64991221 ATTAGGGTGT
*
64991231 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-G-TTCATAAGGC
* * * * * * **
64991286 AAGGAAATCATGTAAGAACATGTCAATACATGCCATTAATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * *
64991341 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* *
64991394 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
64991439 TCAAAAGGAT
Statistics
Matches: 123, Mismatches: 25, Indels: 12
0.77 0.16 0.08
Matches are distributed among these distances:
52 6 0.05
53 44 0.36
54 7 0.06
55 62 0.50
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:64994738 original size:27 final size:27
Alignment explanation
Indices: 64994681--64994745 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
64994671 AAAATGAGTA
* *
64994681 TTTCAGTAATTTCATAAACTAGTGGTAT
1 TTTC-GTAATTTCACAAACTAGGGGTAT
*
64994709 TTTCGTAATTTTACAAACTAGGGGTAT
1 TTTCGTAATTTCACAAACTAGGGGTAT
*
64994736 TTTGGTAATT
1 TTTCGTAATT
64994746 CTACCCTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
27 29 0.88
28 4 0.12
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.45
Consensus pattern (27 bp):
TTTCGTAATTTCACAAACTAGGGGTAT
Found at i:64994813 original size:27 final size:27
Alignment explanation
Indices: 64994777--64994868 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
64994767 GTAATTTCAC
*
64994777 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTTTGTA
* *
64994804 AATCTAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTTTGTA
* * * *
64994831 AATCAAGGGTAAAACAGTGATTCTATA
1 AATCGAGGGTAAAACAGTAATTTTGTA
64994858 AATCGAGGGTA
1 AATCGAGGGTA
64994869 CTTGGGTAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTTTGTA
Found at i:65006871 original size:42 final size:42
Alignment explanation
Indices: 65006750--65006871 Score: 111
Period size: 43 Copynumber: 2.9 Consensus size: 42
65006740 TACCGTACCA
* **
65006750 ATGCCATATCCCAAATATGGTCTTACATGTAATCTTGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
* ** * ** * *
65006792 ACGTTAATAGCTTAGCTATGGTCTTACACG-AAGTCTCATATCG
1 ATG-CCATATCCCAGATATGGTCTTACATGTAA-TCTCATATCG
*
65006835 ATGCCATATCCCAGATATTGTCTTACATGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
65006872 GTAACCCTAA
Statistics
Matches: 57, Mismatches: 20, Indels: 6
0.69 0.24 0.07
Matches are distributed among these distances:
42 27 0.47
43 30 0.53
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
Found at i:65007973 original size:13 final size:13
Alignment explanation
Indices: 65007955--65007980 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65007945 GCCCAAACGT
65007955 CAAAATTTTCAAA
1 CAAAATTTTCAAA
65007968 CAAAATTTTCAAA
1 CAAAATTTTCAAA
65007981 AAATTATTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
CAAAATTTTCAAA
Found at i:65010221 original size:40 final size:40
Alignment explanation
Indices: 65010166--65010273 Score: 189
Period size: 40 Copynumber: 2.7 Consensus size: 40
65010156 TGGAAAAAAA
*
65010166 TATAACCGGGTTAAGTCCTGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
65010206 TATAACCGGGTTAAGTCCCGAAGGAATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
65010246 TATAACCGGATTAAGTCCCGAAGGCATT
1 TATAACCGGGTTAAGTCCCGAAGGCATT
65010274 TGTTGTAACA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:65011685 original size:40 final size:39
Alignment explanation
Indices: 65011636--65011878 Score: 267
Period size: 40 Copynumber: 6.1 Consensus size: 39
65011626 CAGAATTTAA
** *
65011636 CCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGC
* *
65011676 CCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
* * *
65011716 CCGG-TATAATAACTCGCACAAACGCGTTCGGGACTTAGC
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
*
65011755 CCGGATATAGTAGCTCGCACGAATGCCTTCGGGACTTAGC
1 CCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGC
*
65011795 CCGGATATAGTAGCTCGCACGAATGCCTTCGGGACTTAGC
1 CCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGC
* * * *
65011835 CCGGA-ATTAGCCACTAGCTCAAATG-CTCTCAGGACTTAGC
1 CCGGATA-TAG-TACTCGCACAAATGCCT-TCGGGACTTAGC
65011875 CCGG
1 CCGG
65011879 TTATCATCCG
Statistics
Matches: 179, Mismatches: 18, Indels: 12
0.86 0.09 0.06
Matches are distributed among these distances:
39 40 0.22
40 138 0.77
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (39 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:65011860 original size:80 final size:78
Alignment explanation
Indices: 65011655--65011879 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 78
65011645 GCTACTCGTT
* * *
65011655 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAG-AACTAGCACAAATGCCTTCGGGACTTAGCCCGG
65011720 TATAATAACTCGCA
65 TATAATAACTCGCA
* * * * *
65011734 CAAACGCGTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAG-AACTAGCACAAATGCCTTCGGGACTTAGCCCGG
* *
65011799 ATATAGTAGCTCGCA
65 -TATAATAACTCGCA
* * * *
65011814 CGAATGCCTTCGGGACTTAGCCCGGA-ATTAGCCACTAGCTCAAATG-CTCTCAGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAG-AACTAGCACAAATGCCT-TCGGGACTTAGCCC
65011877 GGT
63 GGT
65011880 TATCATCCGA
Statistics
Matches: 124, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
79 62 0.50
80 62 0.50
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGAACTAGCACAAATGCCTTCGGGACTTAGCCCGGT
ATAATAACTCGCA
Found at i:65012703 original size:2 final size:2
Alignment explanation
Indices: 65012696--65012729 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
65012686 TGCAAACATA
65012696 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
65012730 GTGCAAGAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65017285 original size:19 final size:19
Alignment explanation
Indices: 65017248--65017286 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
65017238 ATGATTGAAC
* *
65017248 ACAAAAATTTTTAATTTGG
1 ACAAAAATTTGTAACTTGG
*
65017267 ACAAAAATTTGTAGCTTGG
1 ACAAAAATTTGTAACTTGG
65017286 A
1 A
65017287 AATGTATGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (19 bp):
ACAAAAATTTGTAACTTGG
Found at i:65024779 original size:24 final size:24
Alignment explanation
Indices: 65024752--65024982 Score: 408
Period size: 24 Copynumber: 9.6 Consensus size: 24
65024742 TTATGTTCGT
**
65024752 ACACATAGTGCCATAGCGAATCGC
1 ACACATAGTGCCATAGTAAATCGC
65024776 ACACATAGTGCCATAGTAAATCGC
1 ACACATAGTGCCATAGTAAATCGC
65024800 ACACATAGTGCCATAGTAAATCGC
1 ACACATAGTGCCATAGTAAATCGC
65024824 ACACATAGTGCCATAGTAAATCGC
1 ACACATAGTGCCATAGTAAATCGC
*
65024848 ACACATAGTGCCATAGTGAATCGC
1 ACACATAGTGCCATAGTAAATCGC
65024872 ACACATAGTGCCATAGTAAATCGC
1 ACACATAGTGCCATAGTAAATCGC
*
65024896 ACACATAGTGCCATAGTAAATCGT
1 ACACATAGTGCCATAGTAAATCGC
65024920 ACACATAGTGCCATAGTAAATCGC
1 ACACATAGTGCCATAGTAAATCGC
* *
65024944 ACGCATAGTGCCATAGTGAATCGC
1 ACACATAGTGCCATAGTAAATCGC
65024968 ACACATAGTGCCATA
1 ACACATAGTGCCATA
65024983 TATTTCCAGC
Statistics
Matches: 198, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 198 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ACACATAGTGCCATAGTAAATCGC
Found at i:65038430 original size:14 final size:15
Alignment explanation
Indices: 65038411--65038446 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
65038401 GCAAGAGGTA
65038411 TTTTC-AATTTCTGT
1 TTTTCAAATTTCTGT
65038425 TTTTCAAATTTCTG-
1 TTTTCAAATTTCTGT
65038439 TTTTCAAA
1 TTTTCAAA
65038447 AATCGACTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.22, C:0.14, G:0.06, T:0.58
Consensus pattern (15 bp):
TTTTCAAATTTCTGT
Found at i:65038563 original size:88 final size:87
Alignment explanation
Indices: 65038405--65038568 Score: 249
Period size: 88 Copynumber: 1.9 Consensus size: 87
65038395 CATATTGCAA
* * **
65038405 GAGGTATTTTCAATTTCTGTTTTTCAAATTTCTGTTTTCAAAAATCGACTCATATTGCGAGAGGT
1 GAGGTAATTTCAATTTCTGTTTTTCAAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAAT
65038470 GAGTTGAGCCTCAGGACACGCT
66 GAGTTGAGCCTCAGGACACGCT
* *
65038492 GAGGTAATTTCAATTTTTGTTTTTCAAA-TTCTGTTTTCTTCAAAATCAACTCATATTGCGAGAA
1 GAGGTAATTTCAATTTCTGTTTTTCAAATTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAA
65038556 ATGAGTTGAGCCT
64 ATGAGTTGAGCCT
65038569 TTTTAATTTC
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
86 10 0.14
87 26 0.38
88 33 0.48
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (87 bp):
GAGGTAATTTCAATTTCTGTTTTTCAAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAAT
GAGTTGAGCCTCAGGACACGCT
Found at i:65038598 original size:55 final size:55
Alignment explanation
Indices: 65038511--65038733 Score: 385
Period size: 55 Copynumber: 4.0 Consensus size: 55
65038501 TCAATTTTTG
*
65038511 TTTTTCAAATTCTGTTTTCTTCA-AAATCAACTCATATTGCGAGAAATGAGTTGAGCC
1 TTTTT-AATTTCTG-TTT-TTCAGAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
**
65038568 TTTTTAATTTCTGTTTTTCAGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTTAATTTCTGTTTTTCAGAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
65038623 TTTTTAATTTCTGTTTTTCAGAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
1 TTTTTAATTTCTGTTTTTCAGAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
65038678 TTTTTAATTTCTGTTTTTCAGAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
1 TTTTTAATTTCTGTTTTTCAGAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
65038733 T
1 T
65038734 CGGGGCACGC
Statistics
Matches: 160, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
54 4 0.03
55 144 0.90
56 7 0.04
57 5 0.03
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (55 bp):
TTTTTAATTTCTGTTTTTCAGAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
Found at i:65038822 original size:73 final size:73
Alignment explanation
Indices: 65038678--65038823 Score: 159
Period size: 73 Copynumber: 2.0 Consensus size: 73
65038668 GAGTTGAGCC
* * * * ** *
65038678 TTTTTAATTTCTGTTTTTCAGAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACG
1 TTTTAAATATCTGTTTGTCAGAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACG
65038743 CCGAGGTA
66 CCGAGGTA
* ** * *
65038751 TTTTAAATATCTGTTTGTCA-AAACTCAACTCATATTATGAGAGGTGAGTTGAGCCTCAATATAC
1 TTTTAAATATCTGTTTGTCAGAAA-TCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACAC
*
65038815 GCTGAGGTA
65 GCCGAGGTA
65038824 ATTTCAATTT
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
72 3 0.05
73 56 0.95
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (73 bp):
TTTTAAATATCTGTTTGTCAGAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACG
CCGAGGTA
Found at i:65038923 original size:54 final size:54
Alignment explanation
Indices: 65038838--65038945 Score: 182
Period size: 54 Copynumber: 2.0 Consensus size: 54
65038828 CAATTTTGTC
*
65038838 TTTAATTTCTATTTTTCAAAAATCAACTCATATTGTGAA-AGGTGAGTTGAGCCT
1 TTTAATTTCTATTTTTCAAAAATCAACTCATATTG-CAAGAGGTGAGTTGAGCCT
*
65038892 TTTAATTTCTATTTTTCAAAAATCAATTCATATTGCAAGAGGTGAGTTGAGCCT
1 TTTAATTTCTATTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
65038946 CGAGACATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
53 2 0.04
54 49 0.96
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (54 bp):
TTTAATTTCTATTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
Found at i:65040110 original size:15 final size:14
Alignment explanation
Indices: 65040090--65040119 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
65040080 ACCAAGGTGA
65040090 TTTTCTTTTTTCTTT
1 TTTTCTTTTTT-TTT
65040105 TTTTCTTTTTTTTT
1 TTTTCTTTTTTTTT
65040119 T
1 T
65040120 CTCTTCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTCTTTTTTTTT
Found at i:65040183 original size:13 final size:14
Alignment explanation
Indices: 65040165--65040202 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
65040155 TATACATACT
*
65040165 AAATAATATAAT-A
1 AAATAATAAAATGA
65040178 AAATAATAAAATGA
1 AAATAATAAAATGA
*
65040192 AAATAACAAAA
1 AAATAATAAAA
65040203 AAAAGAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (14 bp):
AAATAATAAAATGA
Found at i:65040833 original size:18 final size:17
Alignment explanation
Indices: 65040798--65040855 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 17
65040788 ATTAAATTTG
65040798 TAATATTAAT-TTTATT
1 TAATATTAATATTTATT
*
65040814 TAATATTAATATTATGTT
1 TAATATTAATATT-TATT
* *
65040832 TACTATTATTATTT-TT
1 TAATATTAATATTTATT
*
65040848 AAATATTA
1 TAATATTA
65040856 GTGTACTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 18 0.51
17 3 0.09
18 14 0.40
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (17 bp):
TAATATTAATATTTATT
Found at i:65044127 original size:42 final size:42
Alignment explanation
Indices: 65044079--65044339 Score: 344
Period size: 42 Copynumber: 6.2 Consensus size: 42
65044069 TCCCAGGTAC
* * * * * *
65044079 GGTCTTAGACGAAATCAAATACGCTGCTGATGTACCAGACAT
1 GGTCTTACACGAAATCAGATATGATGCCGATGTCCCAGACAT
* * * *
65044121 GGTCTTAGACAAAATCAGATATGATACCAATGTCCCAGACAT
1 GGTCTTACACGAAATCAGATATGATGCCGATGTCCCAGACAT
* *
65044163 GGTCTTACATGAAATTAGATATGATGCCGATGTCCCAGACAT
1 GGTCTTACACGAAATCAGATATGATGCCGATGTCCCAGACAT
* *
65044205 GGTCTTACACGAAATCAGATATGAGGCCGATGTCCTAGACAT
1 GGTCTTACACGAAATCAGATATGATGCCGATGTCCCAGACAT
*
65044247 GGTCTTACACGAAATCAGATATGATGCC-ATGTCCCAAACAT
1 GGTCTTACACGAAATCAGATATGATGCCGATGTCCCAGACAT
* *
65044288 TGTCTTACATGAAATCAGATATGATGCCGATGTCCCAGACAT
1 GGTCTTACACGAAATCAGATATGATGCCGATGTCCCAGACAT
**
65044330 TTTCTTACAC
1 GGTCTTACAC
65044340 ATAAATCTCA
Statistics
Matches: 192, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
41 37 0.19
42 155 0.81
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGAAATCAGATATGATGCCGATGTCCCAGACAT
Found at i:65044329 original size:125 final size:126
Alignment explanation
Indices: 65044079--65044339 Score: 373
Period size: 125 Copynumber: 2.1 Consensus size: 126
65044069 TCCCAGGTAC
* ** * *
65044079 GGTCTTAGACGAAATCAAATACGCTGCTGATGTACCAGACATGGTCTTAGACAAAATCAGATATG
1 GGTCTTACACGAAATCAAATACGAGGCCGATGTACCAGACATGGTCTTACACAAAATCAGATATG
* *
65044144 ATACCAATGTCCCAGACATGGTCTTACATGAAATTAGATATGATGCCGATGTCCCAGACAT
66 ATACCAATGTCCCAAACATGGTCTTACATGAAATCAGATATGATGCCGATGTCCCAGACAT
* * *
65044205 GGTCTTACACGAAATCAGATATGAGGCCGATGT-CCTAGACATGGTCTTACACGAAATCAGATAT
1 GGTCTTACACGAAATCAAATACGAGGCCGATGTACC-AGACATGGTCTTACACAAAATCAGATAT
* *
65044269 GATGCC-ATGTCCCAAACATTGTCTTACATGAAATCAGATATGATGCCGATGTCCCAGACAT
65 GATACCAATGTCCCAAACATGGTCTTACATGAAATCAGATATGATGCCGATGTCCCAGACAT
**
65044330 TTTCTTACAC
1 GGTCTTACAC
65044340 ATAAATCTCA
Statistics
Matches: 120, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
125 62 0.52
126 58 0.48
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (126 bp):
GGTCTTACACGAAATCAAATACGAGGCCGATGTACCAGACATGGTCTTACACAAAATCAGATATG
ATACCAATGTCCCAAACATGGTCTTACATGAAATCAGATATGATGCCGATGTCCCAGACAT
Found at i:65050505 original size:20 final size:20
Alignment explanation
Indices: 65050455--65050506 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
65050445 TTGGAGAGTC
*
65050455 ACACGCCTGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
* *
65050475 ACATGCTCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
65050495 ACACGCCCGTGT
1 ACACGCCCGTGT
65050507 CCTCAGCCCG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.12, C:0.27, G:0.37, T:0.25
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTTGGG
Found at i:65052699 original size:31 final size:31
Alignment explanation
Indices: 65052661--65052724 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
65052651 CCTTTTCATA
*
65052661 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGACGAAGCCT
** *
65052692 TTTCATATTTCATATTATTGGGACGAAGCCT
1 TTTCATATTTCATAACACTGGGACGAAGCCT
65052723 TT
1 TT
65052725 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGACGAAGCCT
Found at i:65052973 original size:22 final size:23
Alignment explanation
Indices: 65052917--65053052 Score: 181
Period size: 23 Copynumber: 6.0 Consensus size: 23
65052907 GCTTTATCAT
*
65052917 ATAACTGGAGGCCT-AGCCTCTTTA
1 ATAACTGG-GGCATAAGCC-CTTTA
65052941 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCC-TTTA
*
65052964 ACAACT-GGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTA
65052986 ATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTA
*
65053009 ATAAC-AGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTA
*
65053031 ATTACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
65053053 TACACTTCCT
Statistics
Matches: 101, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
22 35 0.35
23 58 0.57
24 8 0.08
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (23 bp):
ATAACTGGGGCATAAGCCCTTTA
Found at i:65052986 original size:45 final size:46
Alignment explanation
Indices: 65052931--65053054 Score: 198
Period size: 45 Copynumber: 2.7 Consensus size: 46
65052921 CTGGAGGCCT
*
65052931 AGCCTCTTTAATAACTGGGGCA-AAGCCCTTTTAACAACTGGGCATA
1 AGCC-CTTTAATAACTGGGGCATAAGCCCTTTTAACAACAGGGCATA
*
65052977 AGCCCTTTAATAACTGGGGCATAAGCCC-TTTAATAACAGGGCATA
1 AGCCCTTTAATAACTGGGGCATAAGCCCTTTTAACAACAGGGCATA
*
65053022 AGCCCTTTAATTACTGGGGCATAAGCCCTTTTA
1 AGCCCTTTAATAACTGGGGCATAAGCCCTTTTA
65053055 CACTTCCTCC
Statistics
Matches: 73, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
45 59 0.81
46 14 0.19
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (46 bp):
AGCCCTTTAATAACTGGGGCATAAGCCCTTTTAACAACAGGGCATA
Found at i:65053128 original size:20 final size:20
Alignment explanation
Indices: 65053103--65053169 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
65053093 TTATGATTAC
65053103 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
65053123 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
65053143 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
65053163 ACCATGT
1 ATCATGT
65053170 TTATTAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:65053134 original size:11 final size:11
Alignment explanation
Indices: 65053103--65053158 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
65053093 TTATGATTAC
65053103 ATCATGTGCAT
1 ATCATGTGCAT
*
65053114 ATCA--TACAT
1 ATCATGTGCAT
65053123 ATCATGTGCAT
1 ATCATGTGCAT
*
65053134 ATCA--TACAT
1 ATCATGTGCAT
*
65053143 GTCATGTGCAT
1 ATCATGTGCAT
65053154 ATCAT
1 ATCAT
65053159 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:65053238 original size:25 final size:25
Alignment explanation
Indices: 65053206--65053253 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
65053196 ATACATAAAC
* * *
65053206 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
65053231 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
65053254 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:65060798 original size:31 final size:31
Alignment explanation
Indices: 65060755--65060818 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
65060745 CCTTTTCATA
* *
65060755 TTTCGTATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACAGGGCCGAAGCCT
**
65060786 TTTCATATTTCATATTACAGGGCCGAAGCCT
1 TTTCATATTTCATAACACAGGGCCGAAGCCT
65060817 TT
1 TT
65060819 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (31 bp):
TTTCATATTTCATAACACAGGGCCGAAGCCT
Found at i:65061062 original size:24 final size:24
Alignment explanation
Indices: 65061026--65061130 Score: 178
Period size: 23 Copynumber: 4.4 Consensus size: 24
65061016 TTGGAGGCCT
*
65061026 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
65061051 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
65061075 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
65061098 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
65061121 AGCCCTTTTA
1 AGCCCTTTTA
65061131 CACTTCTTCC
Statistics
Matches: 78, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
23 46 0.59
24 28 0.36
25 4 0.05
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:65061245 original size:20 final size:20
Alignment explanation
Indices: 65061179--65061239 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
65061169 TTATGATTAC
*
65061179 ATCATGTGCATATCACACAT
1 ATCATGTGCATATCATACAT
65061199 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
65061219 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
65061239 A
1 A
65061240 CTATGTTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:65063580 original size:28 final size:26
Alignment explanation
Indices: 65063549--65063611 Score: 99
Period size: 28 Copynumber: 2.3 Consensus size: 26
65063539 GATTACTAGA
*
65063549 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACC--T
65063577 ATACCCCTATGTATGCAAAATGACCT
1 ATACCCCTATGTATGCAAAATGACCT
65063603 ATACCCCTA
1 ATACCCCTA
65063612 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 10 0.29
28 24 0.71
ACGTcount: A:0.35, C:0.29, G:0.08, T:0.29
Consensus pattern (26 bp):
ATACCCCTATGTATGCAAAATGACCT
Found at i:65063816 original size:28 final size:27
Alignment explanation
Indices: 65063717--65063805 Score: 126
Period size: 27 Copynumber: 3.2 Consensus size: 27
65063707 AGGAAGCGTC
65063717 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
65063745 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
65063772 CTGGTGGCACTGCCACAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATATCTGT-T
65063800 CTGGTG
1 CTGGTG
65063806 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
27 32 0.58
28 23 0.42
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.33
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:65063817 original size:55 final size:55
Alignment explanation
Indices: 65063717--65063830 Score: 144
Period size: 55 Copynumber: 2.1 Consensus size: 55
65063707 AGGAAGCGTC
*
65063717 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGACCCTGCCACAT-TATCTGTAT
* * *
65063772 CTGGTGGC-ACTGCCACAAA-TATCTGTATCTGGTGACTCTGTCACATTTTCTGTAT
1 CTGGTGGCTA-TGCCACAAATTATCTGT-TCTGGTGACCCTGCCACATTATCTGTAT
65063827 CTGG
1 CTGG
65063831 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
54 14 0.27
55 38 0.73
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGACCCTGCCACATTATCTGTAT
Found at i:65071446 original size:28 final size:28
Alignment explanation
Indices: 65071414--65071478 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
65071404 ATTTACTAGA
*
65071414 ATACCCCTATGTATGCAAAATTACCAT-T
1 ATACCCCTATGTATGCAAAATGACC-TCT
65071442 ATACCCCTATGTATGCAAAATGACCTCT
1 ATACCCCTATGTATGCAAAATGACCTCT
65071470 ATACCCCTA
1 ATACCCCTA
65071479 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCTCT
Found at i:65071641 original size:27 final size:27
Alignment explanation
Indices: 65071583--65071672 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
65071573 GAGGAAAGAC
65071583 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
65071611 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
65071638 CTGGTGGCACTGCCACAACATATCTGTAT
1 CTGGTGGCACTGCCACAA-ATATCTGT-T
65071667 CTGGTG
1 CTGGTG
65071673 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:65079128 original size:18 final size:18
Alignment explanation
Indices: 65079107--65079141 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
65079097 TTTATTGTAA
* *
65079107 TTTACTTTTTGTTTTTAG
1 TTTAATTTTTCTTTTTAG
65079125 TTTAATTTTTCTTTTTA
1 TTTAATTTTTCTTTTTA
65079142 AATTTTTTCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.74
Consensus pattern (18 bp):
TTTAATTTTTCTTTTTAG
Found at i:65079159 original size:14 final size:14
Alignment explanation
Indices: 65079125--65079159 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
65079115 TTGTTTTTAG
65079125 TTTAA-TTTTTCTT
1 TTTAATTTTTTCTT
65079138 TTTAAATTTTTTCTT
1 TTT-AATTTTTTCTT
65079153 TTTAATT
1 TTTAATT
65079160 GCTTCGGTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 3 0.15
14 6 0.30
15 11 0.55
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTAATTTTTTCTT
Found at i:65087261 original size:55 final size:55
Alignment explanation
Indices: 65087171--65087274 Score: 129
Period size: 55 Copynumber: 1.9 Consensus size: 55
65087161 GCCAAAACAA
* * *
65087171 CACGGGCGTGCAACACGCCTGTGTGGAAGAACCGTGGGCGAACTTGTTAAAATAG
1 CACGGGCGTACAACACGCCCGTGTGGAAGAACCGTGGGCGAACCTGTTAAAATAG
* * * *
65087226 CACGGGCGTACGACACGCCCGTGT-GTAGCACCCGTGGTCGAACCTGTTA
1 CACGGGCGTACAACACGCCCGTGTGGAAG-AACCGTGGGCGAACCTGTTA
65087275 GATTGACACC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 3 0.07
55 38 0.93
ACGTcount: A:0.23, C:0.27, G:0.32, T:0.18
Consensus pattern (55 bp):
CACGGGCGTACAACACGCCCGTGTGGAAGAACCGTGGGCGAACCTGTTAAAATAG
Found at i:65089452 original size:40 final size:40
Alignment explanation
Indices: 65089367--65089517 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
65089357 AATTGAATGA
* * * **
65089367 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
65089407 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
65089448 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
65089487 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
65089518 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:65089531 original size:40 final size:40
Alignment explanation
Indices: 65089404--65089533 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
65089394 ATGCTGGAAA
* * *
65089404 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
65089444 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
65089484 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
65089524 TTATATCCGG
1 TTATATCCGG
65089534 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:65089757 original size:23 final size:23
Alignment explanation
Indices: 65089731--65089776 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
65089721 TATATAATGA
65089731 TGAAGTGTGAAGTAA-GAATGATG
1 TGAA-TGTGAAGTAATGAATGATG
* *
65089754 TGAATGTGTATTAATGAATGATG
1 TGAATGTGAAGTAATGAATGATG
65089777 CATTTGGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (23 bp):
TGAATGTGAAGTAATGAATGATG
Found at i:65097430 original size:40 final size:40
Alignment explanation
Indices: 65097364--65097514 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
65097354 AAATTGAATG
* * *
65097364 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
65097403 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
65097443 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
65097483 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
65097515 ACGTTTATAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:65104124 original size:40 final size:39
Alignment explanation
Indices: 65103959--65104142 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
65103949 AAATTGAATG
* * *
65103959 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
65103999 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
65104039 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
65104079 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
65104118 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
65104143 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:65104167 original size:80 final size:81
Alignment explanation
Indices: 65103999--65104187 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
65103989 GCTGGAAATT
* * * *
65103999 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
65104064 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
65104080 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
65104143 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
65104159 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
65104188 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:65105736 original size:40 final size:41
Alignment explanation
Indices: 65105691--65105791 Score: 154
Period size: 40 Copynumber: 2.5 Consensus size: 41
65105681 AGACTAAGAT
*
65105691 CCGAAGGCAATT-GTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCAATTCGTGCGGGTTATTATAACCGGGTAAAGTC
*
65105731 TCGAAGGC-ATTCGTGCGGGTTATTATAACCGGGTAAAGTC
1 CCGAAGGCAATTCGTGCGGGTTATTATAACCGGGTAAAGTC
*
65105771 CCGAAGGC-ATTCGTGCTGGTT
1 CCGAAGGCAATTCGTGCGGGTT
65105792 GTTACATCCG
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
39 3 0.05
40 53 0.95
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.28
Consensus pattern (41 bp):
CCGAAGGCAATTCGTGCGGGTTATTATAACCGGGTAAAGTC
Found at i:65111138 original size:13 final size:13
Alignment explanation
Indices: 65111106--65111140 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
65111096 ATTCACAAAG
65111106 AAATTAAAAATAC
1 AAATTAAAAATAC
65111119 AATATTAAAAATAC
1 AA-ATTAAAAATAC
*
65111133 TAATTAAA
1 AAATTAAA
65111141 TATTAAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATTAAAAATAC
Found at i:65119351 original size:15 final size:15
Alignment explanation
Indices: 65119331--65119365 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
65119321 CAGACGTCGT
*
65119331 AACTCGGTCGAATTG
1 AACTCGGTCAAATTG
65119346 AACTCGGTCAAATTG
1 AACTCGGTCAAATTG
65119361 AACTC
1 AACTC
65119366 AGAAGTGCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (15 bp):
AACTCGGTCAAATTG
Found at i:65130729 original size:47 final size:47
Alignment explanation
Indices: 65130523--65130834 Score: 286
Period size: 47 Copynumber: 6.7 Consensus size: 47
65130513 TGTGTGAGCT
* * *
65130523 AGTGTAAGA-CATGTCTGGGACATGCATCGGCCA-TATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTACTA-GATGATAGCC
* ** * * *
65130569 AATGTAAGACCATGTCTGATACATGGCATCGGC-ATTGAGATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTACT-AGATGATAGCC
* *
65130617 AGTGTAAGA-AATGT-TAGGGACATGCATCGCCT-CTAGATG-TAAGCC
1 AGTGTAAGACCATGTCT-GGGACATGCATCGGCTACTAGATGAT-AGCC
* *
65130662 AGTGTAAGA-CATGTCTGGGACATACATCGGCTACTAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTACTAGATGATAGCC
* *
65130708 AGTATAAGACCATGTCTGGGACATGCATCGGCTACGAGATGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTACTAGATGATAGCC
* * **
65130755 AGTGTAAGGCCATATCTGGGACATGGCATCAACT--TGAGAT-ATGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTACT-AGATGAT-AGCC
*
65130802 AGTGTAAGACCATGCCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGC
65130835 ACCTTACCCA
Statistics
Matches: 220, Mismatches: 32, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
45 35 0.16
46 38 0.17
47 114 0.52
48 32 0.15
49 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCTACTAGATGATAGCC
Found at i:65131136 original size:24 final size:24
Alignment explanation
Indices: 65131108--65131155 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
65131098 CAACTTACTA
65131108 AGCTTTTATACTTACTCCCTTTCC
1 AGCTTTTATACTTACTCCCTTTCC
*
65131132 AGCTTTTATGCTTACTCCCTTTCC
1 AGCTTTTATACTTACTCCCTTTCC
65131156 TTTCCATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.15, C:0.33, G:0.06, T:0.46
Consensus pattern (24 bp):
AGCTTTTATACTTACTCCCTTTCC
Found at i:65133461 original size:40 final size:39
Alignment explanation
Indices: 65133406--65133610 Score: 254
Period size: 40 Copynumber: 5.2 Consensus size: 39
65133396 TGAATGATAC
* * *
65133406 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG-TTATAT
*
65133446 CCGGGCTAAGACCCGAAGGCATTTGTACGAGTTGTTAT-T
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
*
65133485 CCGGGTTAAGACCCGAAGGCATTTGTGCGA-TGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGTTATAT
* *
65133523 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* * **
65133563 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGT-GTTATAT
65133603 CC-GGCTAA
1 CCGGGCTAA
65133611 ATTCCGAAGA
Statistics
Matches: 144, Mismatches: 16, Indels: 11
0.84 0.09 0.06
Matches are distributed among these distances:
37 6 0.04
38 30 0.21
39 35 0.24
40 71 0.49
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGTTATAT
Found at i:65133534 original size:77 final size:80
Alignment explanation
Indices: 65133402--65133610 Score: 291
Period size: 77 Copynumber: 2.7 Consensus size: 80
65133392 CATTTGAATG
* * * *
65133402 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
*
65133467 TTTGTACGAGTTGTT
66 TTTGTACGAGTTGCT
*
65133482 AT-TCCGGGTTAAGACCCGAAGGCATTTGTGCGA-TG-TTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
*
65133544 TTTGTGCGAGTTGCT
66 TTTGTACGAGTTGCT
* ** *
65133559 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAA
65133611 ATTCCGAAGA
Statistics
Matches: 115, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
77 42 0.37
78 29 0.25
79 34 0.30
80 10 0.09
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
TTTGTACGAGTTGCT
Found at i:65141441 original size:40 final size:39
Alignment explanation
Indices: 65141386--65141591 Score: 256
Period size: 40 Copynumber: 5.2 Consensus size: 39
65141376 TGAATGATAC
* *
65141386 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTG-TTATAT
*
65141426 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGTTATAT
*
65141466 CCGGGTTAAGACCCGAAGGCATTTGTG-TGAG-GTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCT-AGTGTTATAT
* * *
65141504 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGTTATAT
* * *
65141544 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGT-GTTATAT
65141584 CC-GGCTAA
1 CCGGGCTAA
65141592 ATTCCGAAGA
Statistics
Matches: 144, Mismatches: 16, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
38 35 0.24
39 6 0.04
40 101 0.70
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGTTATAT
Found at i:65141517 original size:78 final size:79
Alignment explanation
Indices: 65141382--65141591 Score: 309
Period size: 78 Copynumber: 2.7 Consensus size: 79
65141372 CATTTGAATG
* * *
65141382 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCT-AGTGATTATATCCGGGCTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTGAG-G-TTATATCCGGGCTAAGACCCGAAGGC
*
65141446 ATTTGTGCGAGTTGTT
64 ATTTGTGCGAGTTGCT
*
65141462 ATATCCGGGTTAAGACCCGAAGGCATTTGTG-TGAGGTTATATCCGGGCTAAGACCCGAAGGCAT
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTGAGGTTATATCCGGGCTAAGACCCGAAGGCAT
65141526 TTGTGCGAGTTGCT
66 TTGTGCGAGTTGCT
* *
65141540 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGC-TGAGGTTATATCCGGGCTAA
65141592 ATTCCGAAGA
Statistics
Matches: 119, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
78 70 0.59
79 8 0.07
80 41 0.34
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (79 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTGAGGTTATATCCGGGCTAAGACCCGAAGGCAT
TTGTGCGAGTTGCT
Found at i:65151981 original size:40 final size:40
Alignment explanation
Indices: 65151936--65152102 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
65151926 CGGAATATAA
65151936 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
65151976 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
65152016 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
65152056 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
65152095 CCGGATAT
1 CCGGATAT
65152103 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:65158845 original size:41 final size:41
Alignment explanation
Indices: 65158800--65158917 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
65158790 TGAAAGATAA
65158800 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
65158841 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
65158871 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
65158912 ATGTAG
1 ATGTAG
65158918 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:65158856 original size:71 final size:71
Alignment explanation
Indices: 65158768--65158931 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
65158758 GAGATGTATC
65158768 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
65158833 AGGACA
66 AGGACA
65158839 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
65158904 AGGACA
66 AGGACA
65158910 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
65158932 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:65162134 original size:29 final size:28
Alignment explanation
Indices: 65162101--65162199 Score: 74
Period size: 29 Copynumber: 3.5 Consensus size: 28
65162091 ATGATTAGAG
*
65162101 GCACTGTGTGTGCAAATTCTTTTAACTGA
1 GCACTATGTGTGCAAATTC-TTTAACTGA
* ** *
65162130 GCACTATGCGTGCGAAA-TCAATAATTGA
1 GCACTATGTGTGC-AAATTCTTTAACTGA
* * * * *
65162158 GGCACTGTGTGTGCGAGTTCTTCAACCGA
1 -GCACTATGTGTGCAAATTCTTTAACTGA
65162187 GCACTATGTGTGC
1 GCACTATGTGTGC
65162200 GAGATCGGTC
Statistics
Matches: 52, Mismatches: 15, Indels: 7
0.70 0.20 0.09
Matches are distributed among these distances:
28 19 0.37
29 30 0.58
30 3 0.06
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (28 bp):
GCACTATGTGTGCAAATTCTTTAACTGA
Found at i:65165287 original size:2 final size:2
Alignment explanation
Indices: 65165276--65165316 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
65165266 TGAAATTCGA
*
65165276 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65165316 A
1 A
65165317 AAGTGATGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Done.