Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 110 of 210
Found at i:32428477 original size:20 final size:20
Alignment explanation
Indices: 32428435--32428478 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
32428425 ATTCTTTAGG
* *
32428435 ATTTTTTTAAAAAAATCATA
1 ATTTTTTGAAAAAAATCAAA
32428455 ATTTTTTGAAAAAATAT-AAA
1 ATTTTTTGAAAAAA-ATCAAA
32428475 ATTT
1 ATTT
32428479 GGAATTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
ATTTTTTGAAAAAAATCAAA
Found at i:32428516 original size:19 final size:19
Alignment explanation
Indices: 32428481--32428543 Score: 83
Period size: 20 Copynumber: 3.3 Consensus size: 19
32428471 TAAAATTTGG
*
32428481 AATTTTATAAA-TATTTTA
1 AATTTTAAAAATTATTTTA
32428499 AATTTTAAAAATTATTTTGA
1 AATTTTAAAAATTATTTT-A
* *
32428519 ATTTTTTAAAATTATTTTA
1 AATTTTAAAAATTATTTTA
32428538 AATTTT
1 AATTTT
32428544 TTTTGTAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
18 10 0.26
19 12 0.31
20 17 0.44
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
AATTTTAAAAATTATTTTA
Found at i:32433964 original size:20 final size:20
Alignment explanation
Indices: 32433939--32433983 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
32433929 TAGAGAGCAT
*
32433939 CGAAGTGCAAATAGAGCCAC
1 CGAAGTGCAAACAGAGCCAC
*
32433959 CGAAGTGCAAACAGAGGCAC
1 CGAAGTGCAAACAGAGCCAC
32433979 CGAAG
1 CGAAG
32433984 CATAATCAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.24, G:0.29, T:0.07
Consensus pattern (20 bp):
CGAAGTGCAAACAGAGCCAC
Found at i:32433993 original size:20 final size:20
Alignment explanation
Indices: 32433970--32434062 Score: 98
Period size: 20 Copynumber: 4.7 Consensus size: 20
32433960 GAAGTGCAAA
32433970 CAGAGGCACCGAAGCATAAT
1 CAGAGGCACCGAAGCATAAT
* * *
32433990 CAGAGGCACTGAACCGTAAT
1 CAGAGGCACCGAAGCATAAT
*
32434010 CAGAGGCACCGAAGCACAAGT
1 CAGAGGCACCGAAGCATAA-T
* ** *
32434031 -AGAGGCACCAAAGTGTAAA
1 CAGAGGCACCGAAGCATAAT
32434050 CAGAGGCACCGAA
1 CAGAGGCACCGAA
32434063 ATGAAAACAG
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
20 57 0.98
21 1 0.02
ACGTcount: A:0.40, C:0.25, G:0.27, T:0.09
Consensus pattern (20 bp):
CAGAGGCACCGAAGCATAAT
Found at i:32434014 original size:40 final size:40
Alignment explanation
Indices: 32433967--32434062 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
32433957 ACCGAAGTGC
* **
32433967 AAACAGAGGCACCGAAGCATAA-TCAGAGGCACTGAACCGT
1 AAACAGAGGCACCGAAGCACAAGT-AGAGGCACCAAACCGT
* **
32434007 AATCAGAGGCACCGAAGCACAAGTAGAGGCACCAAAGTGT
1 AAACAGAGGCACCGAAGCACAAGTAGAGGCACCAAACCGT
32434047 AAACAGAGGCACCGAA
1 AAACAGAGGCACCGAA
32434063 ATGAAAACAG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 47 0.98
41 1 0.02
ACGTcount: A:0.42, C:0.24, G:0.26, T:0.08
Consensus pattern (40 bp):
AAACAGAGGCACCGAAGCACAAGTAGAGGCACCAAACCGT
Found at i:32434070 original size:20 final size:20
Alignment explanation
Indices: 32434031--32434085 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
32434021 AAGCACAAGT
*
32434031 AGAGGCACC-AAAGTGTAAAC
1 AGAGGCACCGAAA-TGAAAAC
32434051 AGAGGCACCGAAATGAAAAC
1 AGAGGCACCGAAATGAAAAC
*
32434071 AGAGGCATCGAAATG
1 AGAGGCACCGAAATG
32434086 CAATCCTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 29 0.91
21 3 0.09
ACGTcount: A:0.45, C:0.18, G:0.27, T:0.09
Consensus pattern (20 bp):
AGAGGCACCGAAATGAAAAC
Found at i:32442905 original size:197 final size:196
Alignment explanation
Indices: 32442570--32442956 Score: 711
Period size: 197 Copynumber: 2.0 Consensus size: 196
32442560 AGGACAACAC
*
32442570 AAGGGAAAAATATTTCACACCATCTATTATGCTAGCAAAACTCTTACAGAGGCTCAAATCAATTA
1 AAGGGAAAAATATTTCACACCATCTATTATGCTAGAAAAACTCTTACAGAGGCTCAAATCAATTA
* *
32442635 TACCACTATAGAGAAAGAATTGTTGGTTGTAGTCTTTACTTTCGACAAGTTTCGTTCTTATCTTG
66 TACCACTATAGAGAAAGAATTGTTGGCTGTAGTCTTTACTTTCGAAAAGTTTCGTTCTTATCTTG
*
32442700 TCGGCGCAAAGGTTGCCATATTTACTGATCACTCGGCATTGAGATATCTTTTTGCGAAGAAGGTT
131 TCGGCGCAAAGGTTGCCAT-TTTACTAATCACTCGGCATTGAGATATCTTTTTGCGAAGAAGGTT
32442765 GT
195 GT
32442767 AAGGGAAAAATATTTCACACCATCTATTATGCTAGAAAAACTCTTACAGAGGCTCAAATCAATTA
1 AAGGGAAAAATATTTCACACCATCTATTATGCTAGAAAAACTCTTACAGAGGCTCAAATCAATTA
32442832 TACCACTATAGAGAAAGAATTGTTGGCTGTAGTCTTTACTTTCGAAAAGTTTCGTTCTTATCTTG
66 TACCACTATAGAGAAAGAATTGTTGGCTGTAGTCTTTACTTTCGAAAAGTTTCGTTCTTATCTTG
* *
32442897 TTGGCGCAAAGGTTGCCATTTTACTAATCACTCGGCGTTGAGATATCTTTTTGCGAAGAA
131 TCGGCGCAAAGGTTGCCATTTTACTAATCACTCGGCATTGAGATATCTTTTTGCGAAGAA
32442957 AGATGCAAAA
Statistics
Matches: 184, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
196 39 0.21
197 145 0.79
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (196 bp):
AAGGGAAAAATATTTCACACCATCTATTATGCTAGAAAAACTCTTACAGAGGCTCAAATCAATTA
TACCACTATAGAGAAAGAATTGTTGGCTGTAGTCTTTACTTTCGAAAAGTTTCGTTCTTATCTTG
TCGGCGCAAAGGTTGCCATTTTACTAATCACTCGGCATTGAGATATCTTTTTGCGAAGAAGGTTG
T
Found at i:32445694 original size:21 final size:21
Alignment explanation
Indices: 32445664--32445721 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
32445654 GCTTTACTTT
32445664 AACCCTTATGGGTTTTCGTTC
1 AACCCTTATGGGTTTTCGTTC
* * * * *
32445685 AGCTCTTATGAGCTTCCGTTC
1 AACCCTTATGGGTTTTCGTTC
*
32445706 AACCCTTAAGGGTTTT
1 AACCCTTATGGGTTTT
32445722 TGTTTAGAAC
Statistics
Matches: 26, Mismatches: 11, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.17, C:0.24, G:0.19, T:0.40
Consensus pattern (21 bp):
AACCCTTATGGGTTTTCGTTC
Found at i:32445710 original size:42 final size:43
Alignment explanation
Indices: 32445608--32445721 Score: 126
Period size: 42 Copynumber: 2.7 Consensus size: 43
32445598 GTTAACTCAC
* * * *
32445608 ATGAGTTTTCGTTTAACCCTAATGGG-TTTCAGTTTAGCTCTT
1 ATGAGCTTACGTTTAACCCTTATGGGTTTTCAGTTCAGCTCTT
*
32445650 TTGAGCTTTAC-TTTAACCCTTATGGGTTTTC-GTTCAGCTCTT
1 ATGAGC-TTACGTTTAACCCTTATGGGTTTTCAGTTCAGCTCTT
* * *
32445692 ATGAGCTTCCGTTCAACCCTTAAGGGTTTT
1 ATGAGCTTACGTTTAACCCTTATGGGTTTT
32445722 TGTTTAGAAC
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
41 3 0.05
42 50 0.83
43 7 0.12
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (43 bp):
ATGAGCTTACGTTTAACCCTTATGGGTTTTCAGTTCAGCTCTT
Found at i:32449143 original size:16 final size:16
Alignment explanation
Indices: 32449122--32449154 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
32449112 TGATAATAAT
*
32449122 TAATATATATTATTTA
1 TAATATATATTAATTA
32449138 TAATATATATTAATTA
1 TAATATATATTAATTA
32449154 T
1 T
32449155 TATAAACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATATATATTAATTA
Found at i:32453330 original size:43 final size:42
Alignment explanation
Indices: 32453218--32453331 Score: 99
Period size: 43 Copynumber: 2.6 Consensus size: 42
32453208 TGTGTTATCG
* * *
32453218 TGTATGACCACGTCTGGGACG-GAGACATCGACTTGTGTTTACG
1 TGTAAGACCACGTCTGGGACGTG-G-CATCGACTTGTGATTACA
* * *
32453261 TGTAAGACC-CTATCTGAGACAGTGGCATCGA-TATGTGATTATA
1 TGTAAGACCAC-GTCTGGGAC-GTGGCATCGACT-TGTGATTACA
32453304 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACG-TGGCAT
32453332 TGTACGAGTT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
42 3 0.05
43 50 0.88
44 3 0.05
45 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTGGCATCGACTTGTGATTACA
Found at i:32460397 original size:43 final size:42
Alignment explanation
Indices: 32460338--32460438 Score: 118
Period size: 43 Copynumber: 2.4 Consensus size: 42
32460328 ATGTGTTATT
*
32460338 GTGTAAGACCACGTCT-GACACGTTTGCATCGACT-TGTGTTTAC
1 GTGTAAGACCACGTCTGGACA-G-TGGCATCGA-TATGTGTTTAC
32460381 GTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATGTGTTTAC
1 GTGTAAGACCAC-GTCT-GGACAGTGGCATCGATATGTGTTTAC
*
32460424 ATGTAAGACCACGTC
1 GTGTAAGACCACGTC
32460439 AGGGACGTTG
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
42 2 0.04
43 43 0.84
44 2 0.04
45 4 0.08
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGACAGTGGCATCGATATGTGTTTAC
Found at i:32460444 original size:43 final size:43
Alignment explanation
Indices: 32460357--32460452 Score: 117
Period size: 43 Copynumber: 2.2 Consensus size: 43
32460347 CACGTCTGAC
* * *
32460357 ACGTTTGCATCGACTTGTGTTTACGTGTAAGACCCTGTCTGGG
1 ACGTTGGCATCGACTTGTGTTTACATGTAAGACCCTGTCAGGG
32460400 ACAG-TGGCATCGA-TATGTGTTTACATGTAAGACCAC-GTCAGGG
1 AC-GTTGGCATCGACT-TGTGTTTACATGTAAGACC-CTGTCAGGG
32460443 ACGTTGGCAT
1 ACGTTGGCAT
32460453 TGTACGAGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
42 2 0.04
43 42 0.91
44 2 0.04
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (43 bp):
ACGTTGGCATCGACTTGTGTTTACATGTAAGACCCTGTCAGGG
Found at i:32465797 original size:12 final size:14
Alignment explanation
Indices: 32465779--32465810 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
32465769 ATGTTGAATT
32465779 TTAATTAA-TTTTA
1 TTAATTAAGTTTTA
32465792 -TAATTAAGTTTTA
1 TTAATTAAGTTTTA
32465805 TTAATT
1 TTAATT
32465811 TTGAGTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.41
13 5 0.29
14 5 0.29
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (14 bp):
TTAATTAAGTTTTA
Found at i:32475726 original size:16 final size:16
Alignment explanation
Indices: 32475705--32475735 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32475695 TTCACTATCA
*
32475705 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
32475721 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
32475736 GCATGCATAG
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:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:32481023 original size:12 final size:12
Alignment explanation
Indices: 32481001--32481034 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
32480991 TATTATTTTA
*
32481001 ATAAGATTTAAT
1 ATAAAATTTAAT
*
32481013 ATTAAATTTAAT
1 ATAAAATTTAAT
32481025 ATAAAATTTA
1 ATAAAATTTA
32481035 TCATTATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (12 bp):
ATAAAATTTAAT
Found at i:32482690 original size:16 final size:16
Alignment explanation
Indices: 32482669--32482736 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
32482659 TTTGGTTCGC
32482669 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
32482685 TGTATTGGATTGGAGG
1 TGTATTGGATTAGAGG
32482701 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
32482717 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
32482733 TGTA
1 TGTA
32482737 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:32482989 original size:16 final size:16
Alignment explanation
Indices: 32482952--32482993 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
32482942 TTAATCATAT
*
32482952 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
32482968 TT-AAATATATTATAA
1 TTAAAATATATTATAA
32482983 TTAAAATATAT
1 TTAAAATATAT
32482994 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:32483000 original size:14 final size:15
Alignment explanation
Indices: 32482961--32483002 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
32482951 TTTAAACATA
*
32482961 ATTATTATTAAATAT
1 ATTATAATTAAATAT
32482976 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
32482990 A-TATAATTTAATA
1 ATTATAATTAAATA
32483003 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:32483076 original size:107 final size:109
Alignment explanation
Indices: 32482950--32483165 Score: 400
Period size: 107 Copynumber: 2.0 Consensus size: 109
32482940 TTTTAATCAT
32482950 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
32483015 ATTAATATTCTTATATGAATTTACTCAAATCATAATATA-GATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATA
32483058 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
32483122 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATA
32483166 CTATAAAATA
Statistics
Matches: 105, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
107 97 0.92
108 8 0.08
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.44
Consensus pattern (109 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATA
Found at i:32483098 original size:16 final size:16
Alignment explanation
Indices: 32483055--32483100 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
32483045 CATAATATAG
*
32483055 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
32483071 ATTATT-AAATATATT
1 ATAATTAAAATATATT
32483086 ATAATTAAAATATAT
1 ATAATTAAAATATAT
32483101 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:32483107 original size:14 final size:15
Alignment explanation
Indices: 32483055--32483109 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
32483045 CATAATATAG
32483055 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
32483071 ATTATTAAATATATT
1 ATAATTAAATATATT
32483086 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
32483099 ATAATTTAATA
1 ATAATTAAATA
32483110 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:32483158 original size:37 final size:35
Alignment explanation
Indices: 32482989--32483158 Score: 100
Period size: 37 Copynumber: 4.7 Consensus size: 35
32482979 ATAATTAAAA
*
32482989 TATATAATTTAATAAAATTCTTAATAATTAATATTCT
1 TATATAATTTAATAAAA-TCATAATAATTAATATT-T
* *
32483026 TATATGAATTTACTCAAATCATAAT-A-TAGATAATTT
1 TATAT-AATTTAATAAAATCATAATAATTA-AT-ATTT
* * * * *
32483062 AACATAATTATTATTAAATAT-ATTATAATTAA-A--A
1 TATATAA-T-TTAATAAA-ATCATAATAATTAATATTT
* *
32483096 TATATAATTTAATAAAATTCTTAATAATCAATATTCT
1 TATATAATTTAATAAAA-TCATAATAATTAATATT-T
*
32483133 TATATGAATTTACTAAAATCATAATA
1 TATAT-AATTTAATAAAATCATAATA
32483159 TATGATACTA
Statistics
Matches: 100, Mismatches: 18, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
31 1 0.01
32 8 0.08
33 9 0.09
34 6 0.06
35 4 0.04
36 9 0.09
37 36 0.36
38 25 0.25
39 2 0.02
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (35 bp):
TATATAATTTAATAAAATCATAATAATTAATATTT
Found at i:32483484 original size:120 final size:120
Alignment explanation
Indices: 32483354--32483656 Score: 554
Period size: 120 Copynumber: 2.5 Consensus size: 120
32483344 TAGAAAAAAA
** *
32483354 CTTAATATTAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAAT
1 CTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAAT
*
32483419 TTAACATAATTATTATTAAATATAATTTAA-AAAATATATATAATTTAATAAAATT
66 TTAAAATAATTATTATTAAATATAATTTAATAAAA-ATATATAATTTAATAAAATT
32483474 CTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAAT
1 CTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAAT
32483539 TTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATT
66 TTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATT
32483594 CTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
1 CTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
32483657 GATTAATAAT
Statistics
Matches: 178, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
120 174 0.98
121 4 0.02
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (120 bp):
CTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAAT
TTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATT
Found at i:32483502 original size:38 final size:37
Alignment explanation
Indices: 32483455--32483638 Score: 140
Period size: 37 Copynumber: 4.7 Consensus size: 37
32483445 TTAAAAAATA
*
32483455 TATATAATTTAATAAAATTCTTAATATTAAATATTCT
1 TATATAATTTAATAAAATTCTTAATATTAAATATTAT
*
32483492 TATATGAATTTAATAAAA-TCATAATA-TATAATACTATAT
1 TATAT-AATTTAATAAAATTCTTAATATTA-AATA-T-TAT
* * * * ** *
32483531 AATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAA
1 TATATAATTT--AATAA-AATTCTT--A-AT-ATTAAATATTAT
*
32483575 TATATAATTTAATAAAATTCTTAATATTAAATATTCT
1 TATATAATTTAATAAAATTCTTAATATTAAATATTAT
*
32483612 TATATGAATTTAATAAAA-TCATAATAT
1 TATAT-AATTTAATAAAATTCTTAATAT
32483639 ATAATACTAT
Statistics
Matches: 114, Mismatches: 19, Indels: 28
0.71 0.12 0.17
Matches are distributed among these distances:
36 2 0.02
37 36 0.32
38 32 0.28
39 7 0.06
40 5 0.04
41 6 0.05
42 7 0.06
44 11 0.10
45 2 0.02
46 5 0.04
47 1 0.01
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (37 bp):
TATATAATTTAATAAAATTCTTAATATTAAATATTAT
Found at i:32499339 original size:25 final size:25
Alignment explanation
Indices: 32499311--32499394 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 25
32499301 TAGATCGTAT
*
32499311 GAGCTTACTATTATTCAGCTCGGAG
1 GAGCTTACCATTATTCAGCTCGGAG
* * *
32499336 GAGCTTACCGTTATTCAGGTCAGAG
1 GAGCTTACCATTATTCAGCTCGGAG
* * *
32499361 GAGCTTACCACTATTCAGCTCGAAA
1 GAGCTTACCATTATTCAGCTCGGAG
32499386 GAGCTTACC
1 GAGCTTACC
32499395 GTTTAAAGCT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
GAGCTTACCATTATTCAGCTCGGAG
Found at i:32503278 original size:19 final size:19
Alignment explanation
Indices: 32503254--32503346 Score: 77
Period size: 19 Copynumber: 5.1 Consensus size: 19
32503244 AATAAATTAC
*
32503254 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
*
32503273 TCATCTTATTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
** * * *
32503292 TGC-T-GGAATAAATT-A-C
1 T-CATCTTAGTTAATTAAGT
32503308 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
*
32503327 TCATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
32503346 T
1 T
32503347 GCTGGAATAT
Statistics
Matches: 56, Mismatches: 13, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
15 1 0.02
16 2 0.04
17 7 0.12
18 7 0.12
19 38 0.68
20 1 0.02
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:32503294 original size:54 final size:54
Alignment explanation
Indices: 32503235--32503355 Score: 215
Period size: 54 Copynumber: 2.2 Consensus size: 54
32503225 ATAAGTATTT
* *
32503235 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTATTTAATTA
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
*
32503289 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTT
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
32503343 AGTTGCTGGAATA
1 AGTTGCTGGAATA
32503356 TTTATTGTTG
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (54 bp):
AGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
Found at i:32503493 original size:11 final size:9
Alignment explanation
Indices: 32503453--32503499 Score: 76
Period size: 9 Copynumber: 5.0 Consensus size: 9
32503443 TATGTGTTAA
32503453 AATGTGTTT
1 AATGTGTTT
32503462 AATGTGTTT
1 AATGTGTTT
32503471 AATGTGTTT
1 AATGTGTTT
32503480 AATGTGTTTTT
1 AATGTG--TTT
32503491 AATGTGTTT
1 AATGTGTTT
32503500 GTTTGTAGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
9 27 0.75
11 9 0.25
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.57
Consensus pattern (9 bp):
AATGTGTTT
Found at i:32504014 original size:15 final size:15
Alignment explanation
Indices: 32503994--32504025 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
32503984 TTCTTGTGGC
32503994 GTCATTCTTGCTTTT
1 GTCATTCTTGCTTTT
32504009 GTCATTCTTGCTTTT
1 GTCATTCTTGCTTTT
32504024 GT
1 GT
32504026 TTAAACTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.19, G:0.16, T:0.59
Consensus pattern (15 bp):
GTCATTCTTGCTTTT
Found at i:32505812 original size:858 final size:857
Alignment explanation
Indices: 32504034--32506068 Score: 3224
Period size: 858 Copynumber: 2.4 Consensus size: 857
32504024 GTTTAAACTA
* *
32504034 AACTTATCACCCTTTGGTGTGGCGTTCATATACCTTTGGTTCCTATCACTTTTGATAGTGGGTCA
1 AACTTATCACCTTTTGGTGTGGCGTTCATATACCTTTGGTTCCTATCACTTTTGATAGTGGTTCA
* * * * *
32504099 AGGTCCTTGCTATTTTCTTTAAACTGTAAATCACCTAAGAGCCATTTTGAGGCTCGAGTCAACAA
66 AGGTCCTTGTTGTTTTCTTTAAACAGTAAATCACCTAAGAGCCATTTTGAGACTCGGGTCAACAA
* * * *
32504164 TCCAATATTGTTGGTTCATTCTCGATCTTAGCTAAATTATCCATTATTTACTTAACCATTTTACC
131 TCCAATATTTTTGGTTCATTCTCGGTCTTAGCCAAATTATTCATTATTTACTTAACCATTTTACC
* * *
32504229 TACTACCATTGTTTGAAGCCATTTATCCTATTTTGTTTCATTTAA-CTGAAACAAATTTATCCTT
196 TACTACCATTATTTGAAGCCATTTATCCTATTTTGTTTCATTTAATC-GAAACGAACTTATCCTT
* * * * * *
32504293 ACTCAATTCACGATTGGGTAATCTAAATGACTCGAATTATACCGAAAGGATTTCGTATCATTTGG
260 ACTCAATTCACGA-TCGGCAATCTAAATAACTCAAATTATACCGAAACGAGTTCGTATCATTTGG
32504358 TATCAGAGCTAGTGAAATTAAAGTGAGTATTGACGTTCATAGCATTACGAGATTGTAAGAGATAA
324 TATCAGAGCTAGTGAAATTAAAGTGAGTATTGACGTTCATAGCATTACGAGATTGTAAGAGATAA
* ** * *
32504423 GAAAAATTTAGTTTCTATTGAGTTCAAAAAGTGCGAAAATCAGCATTCGGGGTACTAATTCATGG
389 AAAAAATCCAGTTTCTATTGAGCTCAAAAAGTGCGAAAATCAGCATTCGGGGTACAAATTCATGG
* *
32504488 ATTAAAAAAAACTAGTTTAGAAATTTCTTCTTGCTGCCCGAAGTCACTTATCCACCCTCCTACCT
454 ATTAAAAAAAACTAGTTCAGAAATTGCTTCTTGCTGCCCGAAGTCACTTATCCACCCTCCTACCT
32504553 TTCGGCCACACTTACATATTTTTCCTTTTCTTGTTTTCTAGCCTACCCTTCGTCCTAACAATATT
519 TTCGGCCACACTTACATATTTTTCCTTTTCTTGTTTTCTAGCCTACCCTTCGTCCTAACAATATT
* * * *
32504618 ACCTACCCATAATTGAACATCATTTTTGCAAGCTAACCCACATCACCTTCTGCTAAGTTAAAATA
584 ACATACCCATAACTGAACATCATTTTTGCAAGCCAACCCACATCACCTTCCGCTAAGTTAAAATA
*
32504683 GTCCATTGCGAACATAGAGAGGCAGATTGAGCAGAAAAGGATAAGAGAGTGGTACGTCTATTCGA
649 GTCCATTGCGAACATAGAGAGGCAGATTGAGCAGAAAAGGACAAGAGAGTGGTACGTCTATTCGA
* * *
32504748 GTGAACAAAAGCCAAGTGAGTGAATTTTCTTTGGAGAGATATAGTGAGGTTTTTGTTTGTGTGAA
714 GTGAACAAAAGCCAAGTGAATGAATTTTCTTTGGAGAGAAATAGT-AGGCTTTTGTTTGTGTGAA
* * *
32504813 CTTAAGATGTTAAGAACTCCGAAAAGAAACCCAAATGAGGGAAGTAGTTTTAAACATATAAGGAA
778 CTTAAGATGTCAAGAACTCCGAAAAGAAACCCAAACGAAGGAAGTAGTTTTAAACATATAAGGAA
32504878 TGTTGGTAGAGGCAG
843 TGTTGGTAGAGGCAG
* *
32504893 AACTTATTACCTTTTGGTGTGGCATTCATATACCTTTGGTTCCTATCACTTTTGATAGTGGTTCA
1 AACTTATCACCTTTTGGTGTGGCGTTCATATACCTTTGGTTCCTATCACTTTTGATAGTGGTTCA
*
32504958 AGGCCCTTGTTGTTTTCTTTAAACAGTAAATCACCTAAGAGCCATTTTGAGACTCGGGTCAACAA
66 AGGTCCTTGTTGTTTTCTTTAAACAGTAAATCACCTAAGAGCCATTTTGAGACTCGGGTCAACAA
** * *
32505023 TCCAATATTTTTTCTTCAGTCTCGGTCTTAGCCAAATTATTCATTATTTACTTAACCATTTTGCC
131 TCCAATATTTTTGGTTCATTCTCGGTCTTAGCCAAATTATTCATTATTTACTTAACCATTTTACC
* *
32505088 TACTACCATTTTTTGAAGCCATTTATCCTATTTTTTTTCATTTAATCGAAACGAACTTATCCTTA
196 TACTACCATTATTTGAAGCCATTTATCCTATTTTGTTTCATTTAATCGAAACGAACTTATCCTTA
* *
32505153 CTCAATTCACGATCGGCAATCTAAATAACTCAAATTATACTGAAACGAGTTCGTATCATTTGGTG
261 CTCAATTCACGATCGGCAATCTAAATAACTCAAATTATACCGAAACGAGTTCGTATCATTTGGTA
* *
32505218 TCAGAGCTAGTGAAATTGAAGTGAGTATTGACGTTCGTAGCATTACGAGATTGTAAGAGATAAAA
326 TCAGAGCTAGTGAAATTAAAGTGAGTATTGACGTTCATAGCATTACGAGATTGTAAGAGATAAAA
* *
32505283 AAAATCCAGTTTCTATTGAGCTCAAAAAGTGTGAAAATCAGCATTTGGGGTACAAAATTCATGGA
391 AAAATCCAGTTTCTATTGAGCTCAAAAAGTGCGAAAATCAGCATTCGGGGTAC-AAATTCATGGA
*
32505348 TTAAAAAAAAGCTAGTTCAG-AATTGCTTCTTGCTGTCCGAAGTCACTTATCCACCCTCCTACCA
455 TTAAAAAAAA-CTAGTTCAGAAATTGCTTCTTGCTGCCCGAAGTCACTTATCCACCCTCCTACC-
*
32505412 TTT-GGCCACACTTACATCTTTTTTCCTTTGT-TTGTTTTCTAGCCTACCCTTCGTCCTAACAAT
518 TTTCGGCCACACTTACAT-ATTTTTCCTTT-TCTTGTTTTCTAGCCTACCCTTCGTCCTAACAAT
* * * *
32505475 ATTACATACCCATAACTGAACATCATTTTTGCAAGCCGACCCATATCGCCTTCCGCTAAGTTAAT
581 ATTACATACCCATAACTGAACATCATTTTTGCAAGCCAACCCACATCACCTTCCGCTAAGTTAAA
* *
32505540 ATAGTCCATTGCGAACATAGAGAGGCGGATTGAGCGGAAAAAGG-CAAGAGAGTGGTGA-GTCTA
646 ATAGTCCATTGCGAACATAGAGAGGCAGATTGAGCAG-AAAAGGACAAGAGAGTGGT-ACGTCTA
32505603 TTCGAGTGAACAAAAGCCAAGTGAATGAATTTTCTTTGGAGAGAAATAGT-GGCTTTTGTTTGTG
709 TTCGAGTGAACAAAAGCCAAGTGAATGAATTTTCTTTGGAGAGAAATAGTAGGCTTTTGTTTGTG
* * * *
32505667 TGAACTTAAGATGTCAAGAAGTCCGAAAAGAAACCCAAACGAAGGAAGTGGTTTTCAACCTATAA
774 TGAACTTAAGATGTCAAGAACTCCGAAAAGAAACCCAAACGAAGGAAGTAGTTTTAAACATATAA
* *
32505732 GGAATGTTGGTGGAGGCGG
839 GGAATGTTGGTAGAGGCAG
32505751 AACTTATCACCTTTTGGTGTGGCGTTCATATACCTTTGGTTCCTATCACTTTTGATAGTGGTTCA
1 AACTTATCACCTTTTGGTGTGGCGTTCATATACCTTTGGTTCCTATCACTTTTGATAGTGGTTCA
* *
32505816 AGGTCCTTATTGTTTTCTTTAAACAGTAAATCACCTAAGAGCCATTTTGAGACCCGGGTCAACAA
66 AGGTCCTTGTTGTTTTCTTTAAACAGTAAATCACCTAAGAGCCATTTTGAGACTCGGGTCAACAA
*
32505881 TCCAATATTTTTGGTTCATTCTCGGTCTTAGCCAAATCA-TCTATTATTTACTTAACCATTTTAC
131 TCCAATATTTTTGGTTCATTCTCGGTCTTAGCCAAATTATTC-ATTATTTACTTAACCATTTTAC
*
32505945 CTACTACCATTATTTGAAGCCATTTATCCTA-TTTGTTTCATTTAATCAAAACGAACTTATCCTT
195 CTACTACCATTATTTGAAGCCATTTATCCTATTTTGTTTCATTTAATCGAAACGAACTTATCCTT
* * * *
32506009 ACTCAATTCATGATCGGGCAATCTAAACAACTCAAATTATGCCGAAATGAGTTCGTATCA
260 ACTCAATTCACGATC-GGCAATCTAAATAACTCAAATTATACCGAAACGAGTTCGTATCA
32506069 AATGTATTTC
Statistics
Matches: 1082, Mismatches: 84, Indels: 21
0.91 0.07 0.02
Matches are distributed among these distances:
857 47 0.04
858 494 0.46
859 323 0.30
860 210 0.19
861 8 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (857 bp):
AACTTATCACCTTTTGGTGTGGCGTTCATATACCTTTGGTTCCTATCACTTTTGATAGTGGTTCA
AGGTCCTTGTTGTTTTCTTTAAACAGTAAATCACCTAAGAGCCATTTTGAGACTCGGGTCAACAA
TCCAATATTTTTGGTTCATTCTCGGTCTTAGCCAAATTATTCATTATTTACTTAACCATTTTACC
TACTACCATTATTTGAAGCCATTTATCCTATTTTGTTTCATTTAATCGAAACGAACTTATCCTTA
CTCAATTCACGATCGGCAATCTAAATAACTCAAATTATACCGAAACGAGTTCGTATCATTTGGTA
TCAGAGCTAGTGAAATTAAAGTGAGTATTGACGTTCATAGCATTACGAGATTGTAAGAGATAAAA
AAAATCCAGTTTCTATTGAGCTCAAAAAGTGCGAAAATCAGCATTCGGGGTACAAATTCATGGAT
TAAAAAAAACTAGTTCAGAAATTGCTTCTTGCTGCCCGAAGTCACTTATCCACCCTCCTACCTTT
CGGCCACACTTACATATTTTTCCTTTTCTTGTTTTCTAGCCTACCCTTCGTCCTAACAATATTAC
ATACCCATAACTGAACATCATTTTTGCAAGCCAACCCACATCACCTTCCGCTAAGTTAAAATAGT
CCATTGCGAACATAGAGAGGCAGATTGAGCAGAAAAGGACAAGAGAGTGGTACGTCTATTCGAGT
GAACAAAAGCCAAGTGAATGAATTTTCTTTGGAGAGAAATAGTAGGCTTTTGTTTGTGTGAACTT
AAGATGTCAAGAACTCCGAAAAGAAACCCAAACGAAGGAAGTAGTTTTAAACATATAAGGAATGT
TGGTAGAGGCAG
Found at i:32508871 original size:37 final size:37
Alignment explanation
Indices: 32508802--32508872 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
32508792 GACCCACTAC
*
32508802 TGTGGTGTGTAGGGTGGACGGGCCTATAATAGTCTTT
1 TGTGGTGTGTAGGGTGGACGGGCCTACAATAGTCTTT
* *
32508839 TGTGGTGTGTAGGGTGGATGGGCCTACCATAGTC
1 TGTGGTGTGTAGGGTGGACGGGCCTACAATAGTC
32508873 CAATTGTGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.15, C:0.13, G:0.39, T:0.32
Consensus pattern (37 bp):
TGTGGTGTGTAGGGTGGACGGGCCTACAATAGTCTTT
Found at i:32508891 original size:38 final size:37
Alignment explanation
Indices: 32508802--32508883 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
32508792 GACCCACTAC
* **
32508802 TGTGGTGTGTAGGGTGGACGGGCCTATAATAGTCTTT
1 TGTGGTGTGTAGGGTGGACGGGCCTACAATAGTCAAT
* *
32508839 TGTGGTGTGTAGGGTGGATGGGCCTACCATAGTCCAAT
1 TGTGGTGTGTAGGGTGGACGGGCCTACAATAGT-CAAT
32508877 TGTGGTG
1 TGTGGTG
32508884 AGCAGGGTAG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
37 30 0.77
38 9 0.23
ACGTcount: A:0.16, C:0.12, G:0.39, T:0.33
Consensus pattern (37 bp):
TGTGGTGTGTAGGGTGGACGGGCCTACAATAGTCAAT
Found at i:32511623 original size:17 final size:17
Alignment explanation
Indices: 32511588--32511619 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32511578 AATGAGATAC
32511588 AAATAAATAACGAAAAT
1 AAATAAATAACGAAAAT
32511605 AAATAAATAA-GAAAA
1 AAATAAATAACGAAAA
32511620 ATAATCAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (17 bp):
AAATAAATAACGAAAAT
Found at i:32512731 original size:19 final size:21
Alignment explanation
Indices: 32512689--32512731 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
32512679 ATTTAATCCT
*
32512689 AAATACTGAAAATGCAATATA
1 AAATACTGAAAATGCAATAGA
*
32512710 AAATACT-AAATTGC-ATAGA
1 AAATACTGAAAATGCAATAGA
32512729 AAA
1 AAA
32512732 CAAGCTCCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 6 0.30
21 7 0.35
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.23
Consensus pattern (21 bp):
AAATACTGAAAATGCAATAGA
Found at i:32515647 original size:24 final size:23
Alignment explanation
Indices: 32515592--32515636 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
32515582 GAATCGAGAT
* *
32515592 TTGTC-GCATTTTTCCTTGCAGA
1 TTGTCTGCATTTTTACTAGCAGA
32515614 TTGTCTGCATTTTTACTAGCAGA
1 TTGTCTGCATTTTTACTAGCAGA
32515637 ATTTTTTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (23 bp):
TTGTCTGCATTTTTACTAGCAGA
Found at i:32518949 original size:20 final size:19
Alignment explanation
Indices: 32518856--32518955 Score: 76
Period size: 20 Copynumber: 5.1 Consensus size: 19
32518846 TTGTACGGGA
** *
32518856 TTGCACTTCAATGCCTCTT
1 TTGCACTTCGGTGCCTCTG
* *
32518875 TTACACTTCGGTGTCTCTG
1 TTGCACTTCGGTGCCTCTG
* *
32518894 TTTGCACTTTGGTGCCTCTAA
1 -TTGCACTTCGGTGCCTCT-G
* *
32518915 TTGCACAATC-ATGCCTCTG
1 TTGCAC-TTCGGTGCCTCTG
32518934 TCTGCACTTCGGTGCCTCTG
1 T-TGCACTTCGGTGCCTCTG
32518954 TT
1 TT
32518956 ACACATCTAT
Statistics
Matches: 61, Mismatches: 15, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
19 18 0.30
20 42 0.69
21 1 0.02
ACGTcount: A:0.13, C:0.29, G:0.18, T:0.40
Consensus pattern (19 bp):
TTGCACTTCGGTGCCTCTG
Found at i:32522375 original size:20 final size:21
Alignment explanation
Indices: 32522337--32522378 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
32522327 AAAAGAAGAA
32522337 ATTTAAGAACTAAAAATAAAT
1 ATTTAAGAACTAAAAATAAAT
32522358 ATTTAA-AA-TAATAAATAAAT
1 ATTTAAGAACTAA-AAATAAAT
32522378 A
1 A
32522379 AATAGACGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.15
20 11 0.55
21 6 0.30
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
ATTTAAGAACTAAAAATAAAT
Found at i:32524486 original size:12 final size:12
Alignment explanation
Indices: 32524471--32524520 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
32524461 ACTAATTAGT
*
32524471 TTAATACTATTA
1 TTAATATTATTA
32524483 TTAAT-TTATTA
1 TTAATATTATTA
*
32524494 TTATTATTATTA
1 TTAATATTATTA
*
32524506 TTATTATTATTA
1 TTAATATTATTA
32524518 TTA
1 TTA
32524521 TCTATACTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 9 0.26
12 26 0.74
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (12 bp):
TTAATATTATTA
Found at i:32524494 original size:3 final size:3
Alignment explanation
Indices: 32524478--32524574 Score: 87
Period size: 3 Copynumber: 33.3 Consensus size: 3
32524468 AGTTTAATAC
*
32524478 TAT TAT TAA T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CTA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* ** * *
32524525 TAC TAT TAT TAT TAT TGG TAC TAT TTT TA- TATT TAT T-T TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
32524569 T-T TAT T
1 TAT TAT T
32524575 GTTTTTATCA
Statistics
Matches: 77, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
2 9 0.12
3 64 0.83
4 4 0.05
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:32524967 original size:19 final size:19
Alignment explanation
Indices: 32524943--32524980 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
32524933 AAGGGGAAAA
*
32524943 ACCTATTTTATTATATTTT
1 ACCTATTTTAATATATTTT
32524962 ACCTATTTTAATATATTTT
1 ACCTATTTTAATATATTTT
32524981 GCTTATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (19 bp):
ACCTATTTTAATATATTTT
Found at i:32530095 original size:18 final size:18
Alignment explanation
Indices: 32530072--32530128 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
32530062 AGAACCCCAT
*
32530072 CTGGAGTAATCACTTGGC
1 CTGGAGTAATCACTAGGC
32530090 CTGGAGTAATCACTAGGC
1 CTGGAGTAATCACTAGGC
*
32530108 CGGGAGTAATCACTAGGC
1 CTGGAGTAATCACTAGGC
32530126 CTG
1 CTG
32530129 TTACCCCATC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (18 bp):
CTGGAGTAATCACTAGGC
Found at i:32545563 original size:43 final size:43
Alignment explanation
Indices: 32545447--32545592 Score: 161
Period size: 43 Copynumber: 3.4 Consensus size: 43
32545437 TATTCCCGAT
* * * * *
32545447 ATGGTCTTACACGTTATCACATATCGATGCCACTGTCCCAGAT
1 ATGGTCTTACACGTAATCTCATATAGATGCCAATGTCCCAGAC
* * * * * *
32545490 AGGGTTTTATATG-AA-ATCATATACGATGCCAATGTCCCAAAC
1 ATGGTCTTACACGTAATCTCATATA-GATGCCAATGTCCCAGAC
32545532 ATGGTCTTACACGTAATCTCATATAGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCTCATATAGATGCCAATGTCCCAGAC
*
32545575 ATGGTCTTACACGAAATC
1 ATGGTCTTACACGTAATC
32545593 ACACCTCGGG
Statistics
Matches: 82, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
41 5 0.06
42 25 0.30
43 45 0.55
44 7 0.09
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCTCATATAGATGCCAATGTCCCAGAC
Found at i:32548375 original size:40 final size:40
Alignment explanation
Indices: 32548331--32548450 Score: 240
Period size: 40 Copynumber: 3.0 Consensus size: 40
32548321 GCTAGTCTGC
32548331 TCGATGAAATGGTGTTCACCAGTTGAGTTACGAACTGGGG
1 TCGATGAAATGGTGTTCACCAGTTGAGTTACGAACTGGGG
32548371 TCGATGAAATGGTGTTCACCAGTTGAGTTACGAACTGGGG
1 TCGATGAAATGGTGTTCACCAGTTGAGTTACGAACTGGGG
32548411 TCGATGAAATGGTGTTCACCAGTTGAGTTACGAACTGGGG
1 TCGATGAAATGGTGTTCACCAGTTGAGTTACGAACTGGGG
32548451 GTTCGCCAAT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.28
Consensus pattern (40 bp):
TCGATGAAATGGTGTTCACCAGTTGAGTTACGAACTGGGG
Found at i:32552368 original size:26 final size:27
Alignment explanation
Indices: 32552333--32552394 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
32552323 ATATTTTCTC
*
32552333 AAAATTTTAC-CAGGGGCAAAATCGTA
1 AAAATTTTACTAAGGGGCAAAATCGTA
** *
32552359 AAAATTTTACTAAGGGGTGAAATCGTC
1 AAAATTTTACTAAGGGGCAAAATCGTA
32552386 AAAATTTTA
1 AAAATTTTA
32552395 TCGAGAGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 10 0.32
27 21 0.68
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (27 bp):
AAAATTTTACTAAGGGGCAAAATCGTA
Found at i:32575842 original size:18 final size:18
Alignment explanation
Indices: 32575819--32575856 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
32575809 GATAAGTGAG
32575819 TTAGTATTTTAATATTTA
1 TTAGTATTTTAATATTTA
32575837 TTAGTATTTTAATATTTA
1 TTAGTATTTTAATATTTA
32575855 TT
1 TT
32575857 TAACGTCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (18 bp):
TTAGTATTTTAATATTTA
Found at i:32578823 original size:17 final size:18
Alignment explanation
Indices: 32578785--32578825 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
32578775 TTGAATGTAA
*
32578785 AAATGAAGTGAAATATGT
1 AAATGAAGTGAAATATGG
*
32578803 AAATGAA-TGATATATGG
1 AAATGAAGTGAAATATGG
32578820 AAATGA
1 AAATGA
32578826 TACGGAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.51, C:0.00, G:0.22, T:0.27
Consensus pattern (18 bp):
AAATGAAGTGAAATATGG
Found at i:32580598 original size:15 final size:15
Alignment explanation
Indices: 32580578--32580613 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
32580568 GAATTAGGGT
*
32580578 TACAAAGCATTACTG
1 TACAAAGCATTACTA
32580593 TACAAAGCATTACTA
1 TACAAAGCATTACTA
32580608 TACAAA
1 TACAAA
32580614 CCAAAACGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.47, C:0.19, G:0.08, T:0.25
Consensus pattern (15 bp):
TACAAAGCATTACTA
Found at i:32583356 original size:28 final size:29
Alignment explanation
Indices: 32583300--32583357 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
32583290 GGTGCAAGGG
*
32583300 ACACACGGCTAGACCACATGCCCATGTGTC
1 ACACACGGCTAGACCACACGCCCA-GTGTC
32583330 ACACACGGCTGAGA-CACACGCCC-GTGTC
1 ACACACGGCT-AGACCACACGCCCAGTGTC
32583358 TCTGCTCGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 5 0.19
30 18 0.69
31 3 0.12
ACGTcount: A:0.26, C:0.38, G:0.22, T:0.14
Consensus pattern (29 bp):
ACACACGGCTAGACCACACGCCCAGTGTC
Found at i:32584207 original size:43 final size:43
Alignment explanation
Indices: 32584147--32584252 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 43
32584137 CAGAAACCTG
* * * *
32584147 TAAGGGTTGAACAGAAGCTTATAATAACTGAACGAAAACCCAA
1 TAAGGGTTAAACAGAAGCTCAAAAGAACTGAACGAAAACCCAA
* ** *
32584190 TAAGGGTTAAACTGAAGCTCAAAAGAGTTGAGCGAAAACCCAA
1 TAAGGGTTAAACAGAAGCTCAAAAGAACTGAACGAAAACCCAA
* *
32584233 T-AGGGTTAAACCGAAACTCA
1 TAAGGGTTAAACAGAAGCTCA
32584253 TATGAGTTAA
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
42 17 0.32
43 36 0.68
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (43 bp):
TAAGGGTTAAACAGAAGCTCAAAAGAACTGAACGAAAACCCAA
Found at i:32584961 original size:22 final size:22
Alignment explanation
Indices: 32584933--32584975 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
32584923 AGCCTGGCTA
32584933 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTC
32584955 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
32584976 GAACAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTC
Found at i:32597910 original size:50 final size:50
Alignment explanation
Indices: 32597814--32597911 Score: 124
Period size: 50 Copynumber: 2.0 Consensus size: 50
32597804 GAAGAAGGAG
* * * * **
32597814 AAGGGACCAAGGTGAAAACCTGCAAAGGGAGCCTTGATTCCTAAAAAAAA
1 AAGGGACCAAAGTAAAAACCCGCAAAGGGAGCCTTGAGTCAAAAAAAAAA
* *
32597864 AAGGGACCAAAGTAAAAACCCGCAAAGGGTGCTTTGAGTCAAAAAAAA
1 AAGGGACCAAAGTAAAAACCCGCAAAGGGAGCCTTGAGTCAAAAAAAA
32597912 TAAACCAAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.13
Consensus pattern (50 bp):
AAGGGACCAAAGTAAAAACCCGCAAAGGGAGCCTTGAGTCAAAAAAAAAA
Found at i:32599074 original size:22 final size:22
Alignment explanation
Indices: 32599049--32599122 Score: 55
Period size: 22 Copynumber: 3.2 Consensus size: 22
32599039 CAAAAAATGA
32599049 CATTCTGCATTCATGCAAACAT
1 CATTCTGCATTCATGCAAACAT
* *
32599071 CA-T-T-CATATCGTTGTCAAAAAAT
1 CATTCTGCAT-TC-ATG-C-AAACAT
32599094 GACATTCTGCATTCATGCAAACAT
1 --CATTCTGCATTCATGCAAACAT
32599118 CATTC
1 CATTC
32599123 ATACATACCT
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
19 3 0.08
20 3 0.08
21 3 0.08
22 8 0.21
23 5 0.13
24 5 0.13
25 3 0.08
26 3 0.08
27 3 0.08
28 3 0.08
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.32
Consensus pattern (22 bp):
CATTCTGCATTCATGCAAACAT
Found at i:32599100 original size:47 final size:47
Alignment explanation
Indices: 32599031--32599125 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
32599021 ATAAAGAAAA
32599031 ATCGTTGTCAAAAAATGACATTCTGCATTCATGCAAACATCATTCAT
1 ATCGTTGTCAAAAAATGACATTCTGCATTCATGCAAACATCATTCAT
32599078 ATCGTTGTCAAAAAATGACATTCTGCATTCATGCAAACATCATTCAT
1 ATCGTTGTCAAAAAATGACATTCTGCATTCATGCAAACATCATTCAT
32599125 A
1 A
32599126 CATACCTAGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (47 bp):
ATCGTTGTCAAAAAATGACATTCTGCATTCATGCAAACATCATTCAT
Found at i:32599114 original size:25 final size:25
Alignment explanation
Indices: 32599039--32599114 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
32599029 AAATCGTTGT
32599039 CAAAAAATGACATTCTGCATTCATG
1 CAAAAAATGACATTCTGCATTCATG
* *
32599064 C-AAACAT--CA-T-T-CATATCGTTG
1 CAAAAAATGACATTCTGCAT-TC-ATG
32599085 TCAAAAAATGACATTCTGCATTCATG
1 -CAAAAAATGACATTCTGCATTCATG
32599111 CAAA
1 CAAA
32599115 CATCATTCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 18
0.63 0.07 0.30
Matches are distributed among these distances:
19 3 0.08
20 3 0.08
21 3 0.08
22 3 0.08
23 5 0.13
24 5 0.13
25 7 0.18
26 3 0.08
27 3 0.08
28 3 0.08
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (25 bp):
CAAAAAATGACATTCTGCATTCATG
Found at i:32599316 original size:44 final size:44
Alignment explanation
Indices: 32599250--32599588 Score: 421
Period size: 44 Copynumber: 7.7 Consensus size: 44
32599240 AAACTATAAA
* * *
32599250 TCCTAGCTCTCTGAACAACAGTGGAATAGGTGGAAGACTGAAAG
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGAAAG
**
32599294 TCCTAGCTCCCTGAACAGCAGTGGAATAGGCAGAAGATTGTAAA-
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG-AAAG
* * * *
32599338 TCCTAGCTCCCTGACCAGCAGTGGAATAGGAGGAAAACTGAAAG
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGAAAG
* * * **
32599382 TGCTAGCTCCTTGAACAGCAGTGGAATAGGCGGAAGATTCTAAG
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGAAAG
* * *
32599426 TCCTAGCTCCCTGACCAGTAGTGGAATAGGTGGAAGACTGAAAG
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGAAAG
* *
32599470 TCCTAACTCCCTGAACAGCAGTGGAATAGGCGGAAGATTGTAAA-
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG-AAAG
* * *
32599514 TCCTAGCTCCCTGACCAGCAGTGGAATAGGTAGAAGATTGTAAG
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGAAAG
* * *
32599558 TCCTAGCTCCCTGAGCAGCTGTGGAGTAGGT
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGT
32599589 TGACAATTAC
Statistics
Matches: 252, Mismatches: 39, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
43 5 0.02
44 241 0.96
45 6 0.02
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.21
Consensus pattern (44 bp):
TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGAAAG
Found at i:32599397 original size:88 final size:88
Alignment explanation
Indices: 32599246--32599587 Score: 506
Period size: 88 Copynumber: 3.9 Consensus size: 88
32599236 GGTGAAACTA
* * * *
32599246 TAAATCCTAGCTCTCTGAACAACAGTGGAATAGGTGGAAGACTGAAAGTCCTAGCTCCCTGAACA
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGAGGAAGACTGAAAGTCCTAGCTCCCTGAACA
*
32599311 GCAGTGGAATAGGCAGAAGATTG
66 GCAGTGGAATAGGCGGAAGATTG
* * *
32599334 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGAGGAAAACTGAAAGTGCTAGCTCCTTGAACA
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGAGGAAGACTGAAAGTCCTAGCTCCCTGAACA
*
32599399 GCAGTGGAATAGGCGGAAGATTC
66 GCAGTGGAATAGGCGGAAGATTG
* * * *
32599422 TAAGTCCTAGCTCCCTGACCAGTAGTGGAATAGGTGGAAGACTGAAAGTCCTAACTCCCTGAACA
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGAGGAAGACTGAAAGTCCTAGCTCCCTGAACA
32599487 GCAGTGGAATAGGCGGAAGATTG
66 GCAGTGGAATAGGCGGAAGATTG
* * *
32599510 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGTA-GAAGATTGTAAGTCCTAGCTCCCTGAGC
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGG-AGGAAGACTGAAAGTCCTAGCTCCCTGAAC
* *
32599574 AGCTGTGGAGTAGG
65 AGCAGTGGAATAGG
32599588 TTGACAATTA
Statistics
Matches: 227, Mismatches: 26, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
88 227 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.21
Consensus pattern (88 bp):
TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGAGGAAGACTGAAAGTCCTAGCTCCCTGAACA
GCAGTGGAATAGGCGGAAGATTG
Found at i:32599647 original size:44 final size:44
Alignment explanation
Indices: 32599599--32599829 Score: 155
Period size: 44 Copynumber: 5.2 Consensus size: 44
32599589 TGACAATTAC
** *
32599599 AGATCTTATCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGT
1 AGATCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGA
* * * * * * * * *
32599643 AGATCTTGCCTTCCTAC-ATCGACAGTGAAGCAGATCGAAGACACA
1 AGATCTTGCCTCCCT-CGGTTG-TAGTGGAGCAGGTTGAAGATAGA
* *
32599688 AG-CCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGC
1 AGATCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGA
* * * * * * * * *
32599731 AGATCTTGCCTTCC-CGCATCGACAGTGAAGCAGATCGAAGACACA
1 AGATCTTGCCTCCCTCG-GTTG-TAGTGGAGCAGGTTGAAGATAGA
* * *
32599776 AG-CCTTGCCTCCCTCGGTTGTAGTGGAGCAGGCTGAAGATAGC
1 AGATCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGA
*
32599819 AGGTCTTGCCT
1 AGATCTTGCCT
32599830 TCCTGCGTCG
Statistics
Matches: 132, Mismatches: 47, Indels: 16
0.68 0.24 0.08
Matches are distributed among these distances:
43 38 0.29
44 55 0.42
45 39 0.30
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (44 bp):
AGATCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGA
Found at i:32599683 original size:45 final size:44
Alignment explanation
Indices: 32599634--32599771 Score: 118
Period size: 45 Copynumber: 3.1 Consensus size: 44
32599624 GGAGCAGGTT
*
32599634 GAAGATAGTAGATCTTGCCTTCCTACATCGACAGTGAAGCAGATC
1 GAAGATAGAAGATCTTGCCTTCCT-CATCGACAGTGAAGCAGATC
* * * * * * * * * *
32599679 GAAGACACAAG-CCTTGCCTCCCTCGGTTG-TAGTGGAGCAGGTT
1 GAAGATAGAAGATCTTGCCTTCCTC-ATCGACAGTGAAGCAGATC
* *
32599722 GAAGATAGCAGATCTTGCCTTCCCGCATCGACAGTGAAGCAGATC
1 GAAGATAGAAGATCTTGCCTT-CCTCATCGACAGTGAAGCAGATC
32599767 GAAGA
1 GAAGA
32599772 CACAAGCCTT
Statistics
Matches: 66, Mismatches: 23, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
43 19 0.29
44 21 0.32
45 26 0.39
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (44 bp):
GAAGATAGAAGATCTTGCCTTCCTCATCGACAGTGAAGCAGATC
Found at i:32599722 original size:88 final size:88
Alignment explanation
Indices: 32599608--32599858 Score: 421
Period size: 88 Copynumber: 2.9 Consensus size: 88
32599598 CAGATCTTAT
* *
32599608 CTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTACATCGACAGTGAAG
1 CTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAG
32599673 CAGATCGAAGACACAAGCCTTGC
66 CAGATCGAAGACACAAGCCTTGC
*
32599696 CTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCCGCATCGACAGTGAAG
1 CTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAG
32599761 CAGATCGAAGACACAAGCCTTGC
66 CAGATCGAAGACACAAGCCTTGC
* * * * *
32599784 CTCCCTCGGTTGTAGTGGAGCAGGCTGAAGATAGCAGGTCTTGCCTTCCTGCGTCGATACTGAAG
1 CTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAG
*
32599849 TAGATCGAAG
66 CAGATCGAAG
32599859 CCAATGGTCC
Statistics
Matches: 153, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 153 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (88 bp):
CTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAG
CAGATCGAAGACACAAGCCTTGC
Found at i:32602901 original size:43 final size:42
Alignment explanation
Indices: 32602828--32602935 Score: 107
Period size: 43 Copynumber: 2.6 Consensus size: 42
32602818 ATAAGTGCTA
* * *
32602828 AACAAAAACCC-ATAAGGGTTGAATGAAAGCTCATTAAAG-CTG
1 AACAGAAACCCAATAAGGGTTAAATGAAAGCT--TAAAAGACTG
32602870 AACAGAAACCCAATAAGGGTTAAACTG-AAGCTTAAAAGATCTG
1 AACAGAAACCCAATAAGGGTTAAA-TGAAAGCTTAAAAGA-CTG
* *
32602913 AACGGAAACCCAAT-AGGATTAAA
1 AACAGAAACCCAATAAGGGTTAAA
32602936 ATATGAGTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
41 5 0.09
42 18 0.32
43 32 0.56
44 2 0.04
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.18
Consensus pattern (42 bp):
AACAGAAACCCAATAAGGGTTAAATGAAAGCTTAAAAGACTG
Found at i:32608816 original size:7 final size:7
Alignment explanation
Indices: 32608804--32608829 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
32608794 TCTCCAAAAC
32608804 AAAAATG
1 AAAAATG
32608811 AAAAATG
1 AAAAATG
32608818 AAAAATG
1 AAAAATG
32608825 AAAAA
1 AAAAA
32608830 GACCTGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:32608824 original size:57 final size:57
Alignment explanation
Indices: 32608715--32608824 Score: 141
Period size: 57 Copynumber: 1.9 Consensus size: 57
32608705 AAATAAAAAA
* * ** *
32608715 CATTTGAAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAATGGATAAATGGAAT
1 CATTTGAAAATGAATATCGTTTTCTCCAAAACAAAAATGAAAATGGAAAAATGGAAT
* *
32608772 CATTTGGAAATGAATGTCGTTTTCTCCAAAACAAAAATGAAAAAT-GAAAAATG
1 CATTTGAAAATGAATATCGTTTTCTCCAAAACAAAAATG-AAAATGGAAAAATG
32608825 AAAAAGACCT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
57 40 0.89
58 5 0.11
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.29
Consensus pattern (57 bp):
CATTTGAAAATGAATATCGTTTTCTCCAAAACAAAAATGAAAATGGAAAAATGGAAT
Found at i:32617507 original size:24 final size:24
Alignment explanation
Indices: 32617423--32617504 Score: 119
Period size: 24 Copynumber: 3.4 Consensus size: 24
32617413 CCATGCTTAG
32617423 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
* * *
32617447 AATCAGTCAAACCAATCACAGAGA
1 AATCAGTCATACAAATCACAGACA
**
32617471 AATCAGTCATTTAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
32617495 AATCAGTCAT
1 AATCAGTCAT
32617505 TTACAATATG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.48, C:0.23, G:0.10, T:0.20
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:32617518 original size:24 final size:25
Alignment explanation
Indices: 32617423--32617533 Score: 108
Period size: 24 Copynumber: 4.6 Consensus size: 25
32617413 CCATGCTTAG
32617423 AATCAGTCA--TACAAATCACAGACA
1 AATCAGTCATTTAC-AATCACAGACA
* *
32617447 AATCAGTCA--AACCAATCACAGAGA
1 AATCAGTCATTTA-CAATCACAGACA
32617471 AATCAGTCATTTA-AATCACAGACA
1 AATCAGTCATTTACAATCACAGACA
**
32617495 AATCAGTCATTTACAAT-ATGGACA
1 AATCAGTCATTTACAATCACAGACA
* *
32617519 AATTAATCATTTACA
1 AATCAGTCATTTACA
32617534 CTCGAGGGGC
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
24 70 0.93
25 4 0.05
26 1 0.01
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.23
Consensus pattern (25 bp):
AATCAGTCATTTACAATCACAGACA
Found at i:32617607 original size:27 final size:27
Alignment explanation
Indices: 32617570--32617720 Score: 142
Period size: 27 Copynumber: 5.6 Consensus size: 27
32617560 CTCTAAAGGC
* *
32617570 ATTACGGTCATTTTACCTTATAGGGGT
1 ATTACGATCATTTTACCCTATAGGGGT
* * * *
32617597 ATTTCAATCATTTAACCCAATAGGGGT
1 ATTACGATCATTTTACCCTATAGGGGT
* *
32617624 ATTACGGTCATTTTACCCTATAGGGGC
1 ATTACGATCATTTTACCCTATAGGGGT
* *
32617651 ATTACGATCATTTCACCCTCT-GAGGGT
1 ATTACGATCATTTTACCCTATAG-GGGT
* ** * *
32617678 TTTTTGGTCATTTTACCCTACAGGGGT
1 ATTACGATCATTTTACCCTATAGGGGT
*
32617705 ATTACGGTCATTTTAC
1 ATTACGATCATTTTAC
32617721 AAATATTGGG
Statistics
Matches: 96, Mismatches: 26, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
26 1 0.01
27 94 0.98
28 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (27 bp):
ATTACGATCATTTTACCCTATAGGGGT
Found at i:32617652 original size:81 final size:81
Alignment explanation
Indices: 32617567--32617720 Score: 193
Period size: 81 Copynumber: 1.9 Consensus size: 81
32617557 ACCCTCTAAA
* * * *
32617567 GGCATTACGGTCATTTTACCTTAT-AGGGGTATTTCAATCATTTAACCCAATAGGGGTATTACGG
1 GGCATTACGATCATTTCACCCTATGA-GGGTATTTCAATCATTTAACCCAACAGGGGTATTACGG
32617631 TCATTTTACCCTATAGG
65 TCATTTTACCCTATAGG
* * *** * *
32617648 GGCATTACGATCATTTCACCCTCTGAGGGTTTTTTGGTCATTTTACCCTACAGGGGTATTACGGT
1 GGCATTACGATCATTTCACCCTATGAGGGTATTTCAATCATTTAACCCAACAGGGGTATTACGGT
32617713 CATTTTAC
66 CATTTTAC
32617721 AAATATTGGG
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
81 60 0.98
82 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (81 bp):
GGCATTACGATCATTTCACCCTATGAGGGTATTTCAATCATTTAACCCAACAGGGGTATTACGGT
CATTTTACCCTATAGG
Found at i:32617687 original size:54 final size:54
Alignment explanation
Indices: 32617570--32617717 Score: 172
Period size: 54 Copynumber: 2.7 Consensus size: 54
32617560 CTCTAAAGGC
* * *
32617570 ATTACGGTCATTTTACCTTATAGGGGTATTTCAATCATTTAACCCAATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGTATTACGATCATTTAACCCAATAGGGGT
* * **
32617624 ATTACGGTCATTTTACCCTATAGGGGCATTACGATCATTTCACCCTCT-GAGGGT
1 ATTACGGTCATTTTACCCTATAGGGGTATTACGATCATTTAACCCAATAG-GGGT
* ** * *
32617678 TTTTTGGTCATTTTACCCTACAGGGGTATTACGGTCATTT
1 ATTACGGTCATTTTACCCTATAGGGGTATTACGATCATTT
32617718 TACAAATATT
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
53 1 0.01
54 79 0.99
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.38
Consensus pattern (54 bp):
ATTACGGTCATTTTACCCTATAGGGGTATTACGATCATTTAACCCAATAGGGGT
Found at i:32618090 original size:19 final size:17
Alignment explanation
Indices: 32618050--32618092 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
32618040 TTTATCTGTG
32618050 TGGCCCACAAGCCCACT
1 TGGCCCACAAGCCCACT
* *
32618067 AGGCCCACACAGCCCATTT
1 TGGCCCACA-AGCCCA-CT
32618086 TGGCCCA
1 TGGCCCA
32618093 ACGAGGCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 8 0.38
18 6 0.29
19 7 0.33
ACGTcount: A:0.23, C:0.44, G:0.19, T:0.14
Consensus pattern (17 bp):
TGGCCCACAAGCCCACT
Found at i:32621126 original size:24 final size:24
Alignment explanation
Indices: 32621095--32621177 Score: 112
Period size: 24 Copynumber: 3.5 Consensus size: 24
32621085 GTCATGCTCA
*
32621095 AAATTAGTTATACAAATCACAGAC
1 AAATTAGTCATACAAATCACAGAC
* *
32621119 AAATTAGTCATACCAATCACAAAC
1 AAATTAGTCATACAAATCACAGAC
**
32621143 AAATTAGTCATTTAAATCACAGAC
1 AAATTAGTCATACAAATCACAGAC
*
32621167 AAATCAGTCAT
1 AAATTAGTCAT
32621178 TTACAACACG
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.48, C:0.19, G:0.07, T:0.25
Consensus pattern (24 bp):
AAATTAGTCATACAAATCACAGAC
Found at i:32621205 original size:24 final size:25
Alignment explanation
Indices: 32621109--32621206 Score: 114
Period size: 24 Copynumber: 4.0 Consensus size: 25
32621099 TAGTTATACA
*
32621109 AATCACAGACAAATTAGTCA--TACC
1 AATCACAGACAAATCAGTCATTTA-C
* *
32621133 AATCACAAACAAATTAGTCATTTA-
1 AATCACAGACAAATCAGTCATTTAC
32621157 AATCACAGACAAATCAGTCATTTAC
1 AATCACAGACAAATCAGTCATTTAC
* *
32621182 AA-CACGGACAAATCAATCATTTAC
1 AATCACAGACAAATCAGTCATTTAC
32621206 A
1 A
32621207 CTCAAAGGGA
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
24 62 0.94
25 2 0.03
26 2 0.03
ACGTcount: A:0.47, C:0.22, G:0.07, T:0.23
Consensus pattern (25 bp):
AATCACAGACAAATCAGTCATTTAC
Found at i:32621257 original size:27 final size:27
Alignment explanation
Indices: 32621227--32621393 Score: 106
Period size: 27 Copynumber: 6.2 Consensus size: 27
32621217 AAAATAGTCA
32621227 TTTACCCT-CTAGGGGCATTACGGTTAT
1 TTTACCCTAC-AGGGGCATTACGGTTAT
* * ** *
32621254 TTTACCTTACAGGGGTATTTTGGTCAT
1 TTTACCCTACAGGGGCATTACGGTTAT
* ** *
32621281 TTAACCCTATGGGGGTATTACGGTTAT
1 TTTACCCTACAGGGGCATTACGGTTAT
**
32621308 TTTACCCTACAATGGCATTAC-GTTCAT
1 TTTACCCTACAGGGGCATTACGGTT-AT
* ** **
32621335 TTTACCCTA-TGAGGGTTTTTTGGTTAT
1 TTTACCCTACAG-GGGCATTACGGTTAT
** * *
32621362 TTTACCCTACAGGGATATTATGGTCAT
1 TTTACCCTACAGGGGCATTACGGTTAT
32621389 TTTAC
1 TTTAC
32621394 AAATATTAGG
Statistics
Matches: 105, Mismatches: 30, Indels: 10
0.72 0.21 0.07
Matches are distributed among these distances:
26 3 0.03
27 97 0.92
28 5 0.05
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (27 bp):
TTTACCCTACAGGGGCATTACGGTTAT
Found at i:32621304 original size:54 final size:53
Alignment explanation
Indices: 32621223--32621390 Score: 183
Period size: 54 Copynumber: 3.1 Consensus size: 53
32621213 GGGAAAAATA
* * * * *
32621223 GTCATTTACCCTCTAGGGGCATTACGGTTATTTTACCTTACAGGGGTATTTTG
1 GTCATTTACCCTATGGGGGTATTACGGTTATTTTACCCTACAGGGGTATTATG
** * *
32621276 GTCATTTAACCCTATGGGGGTATTACGGTTATTTTACCCTACAATGGCATTACG
1 GTCATTT-ACCCTATGGGGGTATTACGGTTATTTTACCCTACAGGGGTATTATG
* * * ** *
32621330 TTCATTTTACCCTATGAGGGTTTTTTGGTTATTTTACCCTACAGGGATATTATG
1 GTCA-TTTACCCTATGGGGGTATTACGGTTATTTTACCCTACAGGGGTATTATG
32621384 GTCATTT
1 GTCATTT
32621391 TACAAATATT
Statistics
Matches: 93, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
53 10 0.11
54 80 0.86
55 3 0.03
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (53 bp):
GTCATTTACCCTATGGGGGTATTACGGTTATTTTACCCTACAGGGGTATTATG
Found at i:32621325 original size:81 final size:81
Alignment explanation
Indices: 32621240--32621393 Score: 186
Period size: 81 Copynumber: 1.9 Consensus size: 81
32621230 ACCCTCTAGG
* ** *
32621240 GGCATTACGGTT-ATTTTACCTTACAG-GGGTATTTTGGTCATTTAACCCTATGGGGGTATTACG
1 GGCATTAC-GTTCATTTTACCCTA-AGAGGGTATTTTGGTCATTTAACCCTACAGGGATATTACG
*
32621303 GTTATTTTACCCTACAAT
64 GTCATTTTACCCTACAAT
* * * * *
32621321 GGCATTACGTTCATTTTACCCTATGAGGGTTTTTTGGTTATTTTACCCTACAGGGATATTATGGT
1 GGCATTACGTTCATTTTACCCTAAGAGGGTATTTTGGTCATTTAACCCTACAGGGATATTACGGT
32621386 CATTTTAC
66 CATTTTAC
32621394 AAATATTAGG
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
80 4 0.07
81 57 0.93
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (81 bp):
GGCATTACGTTCATTTTACCCTAAGAGGGTATTTTGGTCATTTAACCCTACAGGGATATTACGGT
CATTTTACCCTACAAT
Found at i:32622996 original size:50 final size:50
Alignment explanation
Indices: 32622924--32623159 Score: 258
Period size: 50 Copynumber: 4.6 Consensus size: 50
32622914 TACTACCAAT
* * ** * *
32622924 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCAC
* **
32622974 GCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG-CCAGC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCA-C
*
32623024 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCAC
* * * * *
32623074 GCCATGTCCCAGACATGGTCTTACATGGAACCTCTTATAATCTCAATGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTC---TCATCTC---GGTGCCCAC
*
32623130 GCCATGTCCCATACATGGTCTTACATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
32623160 TCTCATTCCC
Statistics
Matches: 159, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
49 3 0.02
50 113 0.71
51 2 0.01
53 6 0.04
56 35 0.22
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCAC
Found at i:32629123 original size:45 final size:44
Alignment explanation
Indices: 32628965--32629137 Score: 134
Period size: 45 Copynumber: 3.8 Consensus size: 44
32628955 ATACGCCTAA
* * *** *
32628965 AATGAGTAAGACCATAACTGAAAGATGCTATGACATCATGATA-
1 AATGACTAAGACCATAGCTGAAAGACATTATGGCATCATGATAC
* ** *
32629008 AAGGTGATTTAAGACCATAGCTGAAAGATGTTATGACATCATGATATC
1 AA--TGA-CTAAGACCATAGCTGAAAGACATTATGGCATCATGATA-C
* * * * *
32629056 AATGAGTAAAACCGTAGTTGAAAGACATTATGGCATCATGGTA-
1 AATGACTAAGACCATAGCTGAAAGACATTATGGCATCATGATAC
*
32629099 AATAGGACTAAGACCATAGCTGAAAGACACTATGGCATC
1 AAT--GACTAAGACCATAGCTGAAAGACATTATGGCATC
32629138 CTTTGATAGT
Statistics
Matches: 107, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
43 5 0.05
45 62 0.58
46 38 0.36
48 2 0.02
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.24
Consensus pattern (44 bp):
AATGACTAAGACCATAGCTGAAAGACATTATGGCATCATGATAC
Found at i:32633762 original size:32 final size:32
Alignment explanation
Indices: 32633692--32633919 Score: 208
Period size: 32 Copynumber: 7.2 Consensus size: 32
32633682 TGACTACAAC
* * * *
32633692 CCATAAGT-ACAGTAATGTGATTGGCACAAAG
1 CCATCAGTAACAGTGATATGATCGGCACAAAG
*
32633723 CCATCAGTAGCAGTGATATGATCGGCACAAAG
1 CCATCAGTAACAGTGATATGATCGGCACAAAG
* * * * **
32633755 TCGTCAGTAACGGTAACGTGATCGGCACAAAG
1 CCATCAGTAACAGTGATATGATCGGCACAAAG
* * *
32633787 CCATCAGTAGCAGTGATATGATCGGTACACAG
1 CCATCAGTAACAGTGATATGATCGGCACAAAG
* * *
32633819 CCATTAGTAACAGTGAAATGATCGGCACACAG
1 CCATCAGTAACAGTGATATGATCGGCACAAAG
* * * *
32633851 CCATCGGTAACGGTAATATGATCGGCAGAAAG
1 CCATCAGTAACAGTGATATGATCGGCACAAAG
** **
32633883 CCATCAGTAATGGT-ACTATGATAAGCACAAAG
1 CCATCAGTAACAGTGA-TATGATCGGCACAAAG
32633915 CCATC
1 CCATC
32633920 GGTAGCATCG
Statistics
Matches: 158, Mismatches: 37, Indels: 3
0.80 0.19 0.02
Matches are distributed among these distances:
31 8 0.05
32 150 0.95
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (32 bp):
CCATCAGTAACAGTGATATGATCGGCACAAAG
Found at i:32633809 original size:64 final size:64
Alignment explanation
Indices: 32633709--32633926 Score: 242
Period size: 64 Copynumber: 3.4 Consensus size: 64
32633699 TACAGTAATG
* * * *
32633709 TGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACAAAGTCGTCAGTAACGGTAACG
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACAAAGCCATCAGTAACGGTAACA
* * * *
32633773 TGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGTACACAGCCATTAGTAACAGTGAA-A
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACAAAGCCATCAGTAACGGT-AACA
* * * * * * *
32633837 TGATCGGCACACAGCCATCGGTAACGGTAATATGATCGGCAGAAAGCCATCAGTAATGGT-ACTA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACAAAGCCATCAGTAACGGTAAC-A
** *
32633901 TGATAAGCACAAAGCCATCGGTAGCA
1 TGATCGGCACAAAGCCATCAGTAGCA
32633927 TCGCAACAAA
Statistics
Matches: 127, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
62 1 0.01
64 124 0.98
65 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (64 bp):
TGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACAAAGCCATCAGTAACGGTAACA
Found at i:32633917 original size:96 final size:96
Alignment explanation
Indices: 32633715--32633919 Score: 241
Period size: 96 Copynumber: 2.1 Consensus size: 96
32633705 AATGTGATTG
* * * * *
32633715 GCACAAAGCCATCAGTAGCAGTGATATGATCGGCACAAAGTCGTCAGTAACGGTAACGTGATCGG
1 GCACAAAGCCATCAGTAACAGTGAAATGATCGGCACAAAGCCATCAGTAACGGTAACATGATCGG
* **
32633780 CACAAAGCCATCAGTAGCAGTGATATGATCG
66 CACAAAGCCATCAGTAACAGTGATATGATAA
* * * * * *
32633811 GTACACAGCCATTAGTAACAGTGAAATGATCGGCACACAGCCATCGGTAACGGTAATATGATCGG
1 GCACAAAGCCATCAGTAACAGTGAAATGATCGGCACAAAGCCATCAGTAACGGTAACATGATCGG
* **
32633876 CAGAAAGCCATCAGTAATGGT-ACTATGATAA
66 CACAAAGCCATCAGTAACAGTGA-TATGATAA
32633907 GCACAAAGCCATC
1 GCACAAAGCCATC
32633920 GGTAGCATCG
Statistics
Matches: 88, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
95 1 0.01
96 87 0.99
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (96 bp):
GCACAAAGCCATCAGTAACAGTGAAATGATCGGCACAAAGCCATCAGTAACGGTAACATGATCGG
CACAAAGCCATCAGTAACAGTGATATGATAA
Found at i:32646530 original size:22 final size:22
Alignment explanation
Indices: 32646501--32646545 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
32646491 GAACATTAAG
32646501 TTTAACACATTAC-ATACCAAC
1 TTTAACACATTACAATACCAAC
*
32646522 TTTAGACACATTACAATTCCAAC
1 TTTA-ACACATTACAATACCAAC
32646545 T
1 T
32646546 AGAACATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
22 9 0.43
23 8 0.38
ACGTcount: A:0.40, C:0.27, G:0.02, T:0.31
Consensus pattern (22 bp):
TTTAACACATTACAATACCAAC
Found at i:32648078 original size:45 final size:44
Alignment explanation
Indices: 32648006--32648174 Score: 160
Period size: 45 Copynumber: 3.8 Consensus size: 44
32647996 GTTATACACC
*
32648006 TAAAATGAGTAAGACCATAACTGAAAGATGCTATGAAATCATGA
1 TAAAATGAGTAAGACCATAGCTGAAAGATGCTATGAAATCATGA
* * * * **
32648050 TAAAGATGAGTAAGACCACAGCTTAAAGATGTTGTGGCATCATGA
1 TAAA-ATGAGTAAGACCATAGCTGAAAGATGCTATGAAATCATGA
* * **
32648095 TATAAATGAGTAAGACCATGGCTGAAAGACGCTATGGCATCAT-A
1 TA-AAATGAGTAAGACCATAGCTGAAAGATGCTATGAAATCATGA
* * * *
32648139 GTGAACAGGACTAAGACCATAGCTGAAAGAGGCTAT
1 -T-AAAATGAGTAAGACCATAGCTGAAAGATGCTAT
32648175 AGTATACTTT
Statistics
Matches: 103, Mismatches: 18, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
44 5 0.05
45 95 0.92
46 3 0.03
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (44 bp):
TAAAATGAGTAAGACCATAGCTGAAAGATGCTATGAAATCATGA
Found at i:32648341 original size:27 final size:27
Alignment explanation
Indices: 32648247--32648350 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
32648237 CATCATAGAA
* *
32648247 AGTTCAACGAGACATTAAATACGAGAT
1 AGTTCTACGAGACATTAAACACGAGAT
* ** *
32648274 -GTTCTGACGAGACGTTAAATGCGGGAT
1 AGTTCT-ACGAGACATTAAACACGAGAT
* *
32648301 AG-TCTAATGGGACATTAAACACGAGAT
1 AGTTCT-ACGAGACATTAAACACGAGAT
*
32648328 AGTTC-ACTGAGACAATAAACACG
1 AGTTCTAC-GAGACATTAAACACG
32648351 GGGAATTTAG
Statistics
Matches: 59, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
26 5 0.08
27 51 0.86
28 3 0.05
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.22
Consensus pattern (27 bp):
AGTTCTACGAGACATTAAACACGAGAT
Found at i:32657227 original size:32 final size:32
Alignment explanation
Indices: 32657188--32657312 Score: 160
Period size: 32 Copynumber: 3.9 Consensus size: 32
32657178 CACAAGTACA
* ***
32657188 GTAATATGATTGGCACAAAGCCATCAGTAGTA
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
* * * *
32657220 GTGATATGACCGGTACACAGCCATCAGTAACG
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
*
32657252 GTAATATGATCGGCACAAAGCCATCAATAACG
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
*
32657284 GTAATATGATCAGCACAAAGCCATCAGTA
1 GTAATATGATCGGCACAAAGCCATCAGTA
32657313 GCATCGCAGC
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 78 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (32 bp):
GTAATATGATCGGCACAAAGCCATCAGTAACG
Found at i:32657709 original size:81 final size:81
Alignment explanation
Indices: 32657562--32657750 Score: 206
Period size: 81 Copynumber: 2.3 Consensus size: 81
32657552 GGGGAAAAAT
* * *
32657562 AGTCA-TTTACCCTCTAGAGGCATTACGGTCATTTTACCATATAGGAGTATTTTAGTCATTTAAC
1 AGTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCATATAGCAGTATTTTAGTCATTTAAC
** *
32657626 CCTATGGGGGTATTAC
66 CCTACAGAGGTATTAC
* * * *
32657642 -GATTATTTTACCCTATAGGGGCGTTACGGTCATTTTACCCTAT-GACAGT-TTTTCAGTTATTT
1 AG-TCATTTTACCCTATAGGGGCATTACGGTCATTTTACCATATAG-CAGTATTTT-AGTCATTT
*
32657704 TACCCTACAGAGGTATTAC
63 AACCCTACAGAGGTATTAC
* *
32657723 AGTCATTTTACCTTACAGGGGCATTACG
1 AGTCATTTTACCCTATAGGGGCATTACG
32657751 ATGGTATATC
Statistics
Matches: 89, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
79 1 0.01
80 7 0.08
81 80 0.90
82 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (81 bp):
AGTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCATATAGCAGTATTTTAGTCATTTAAC
CCTACAGAGGTATTAC
Found at i:32657725 original size:27 final size:27
Alignment explanation
Indices: 32657562--32657749 Score: 89
Period size: 27 Copynumber: 7.0 Consensus size: 27
32657552 GGGGAAAAAT
*
32657562 AGTCA-TTTACCCT-CTAGAGGCATTAC
1 AGTCATTTTACCCTAC-AGAGGTATTAC
* * * **
32657588 GGTCATTTTACCATATAG-GAGTATTTT
1 AGTCATTTTACCCTACAGAG-GTATTAC
* ** *
32657615 AGTCATTTAACCCTATGGGGGTATTAC
1 AGTCATTTTACCCTACAGAGGTATTAC
* * * **
32657642 -GATTATTTTACCCTATAGGGGCGTTAC
1 AG-TCATTTTACCCTACAGAGGTATTAC
* * * * *
32657669 GGTCATTTTACCCTA-TGACAGTTTTTC
1 AGTCATTTTACCCTACAGA-GGTATTAC
*
32657696 AGTTATTTTACCCTACAGAGGTATTAC
1 AGTCATTTTACCCTACAGAGGTATTAC
* * *
32657723 AGTCATTTTACCTTACAGGGGCATTAC
1 AGTCATTTTACCCTACAGAGGTATTAC
32657750 GATGGTATAT
Statistics
Matches: 120, Mismatches: 34, Indels: 15
0.71 0.20 0.09
Matches are distributed among these distances:
26 7 0.06
27 109 0.91
28 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
AGTCATTTTACCCTACAGAGGTATTAC
Found at i:32657797 original size:27 final size:26
Alignment explanation
Indices: 32657753--32657822 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 26
32657743 GCATTACGAT
* *
32657753 GGTATATCGGTCTATTTACCC-TACAAG
1 GGTATTTCGGTAT-TTTACCCAT-CAAG
* *
32657780 GGTATTTTGGTTATTTTACCCATCGAG
1 GGTATTTCGG-TATTTTACCCATCAAG
32657807 GGTATTTCGGTATTTT
1 GGTATTTCGGTATTTT
32657823 TACAAATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
26 6 0.17
27 27 0.75
28 3 0.08
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (26 bp):
GGTATTTCGGTATTTTACCCATCAAG
Found at i:32661468 original size:32 final size:32
Alignment explanation
Indices: 32661407--32661514 Score: 137
Period size: 32 Copynumber: 3.4 Consensus size: 32
32661397 AAATGGCTAC
* *
32661407 AAGCCATAAGTA-CAGTAATATGATTGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
* *
32661438 AAGCCATCAGTAGCAGTGATATGACCGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
* * * *
32661470 CAGCCATCAGCAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
32661502 AAGCCATCAGTAG
1 AAGCCATCAGTAG
32661515 TATCGCAGCA
Statistics
Matches: 63, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
31 11 0.17
32 52 0.83
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (32 bp):
AAGCCATCAGTAGCAGTAATATGATCGGCACA
Found at i:32661684 original size:11 final size:11
Alignment explanation
Indices: 32661668--32661710 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
32661658 AATCAATCAT
32661668 ACAAATCACAG
1 ACAAATCACAG
*
32661679 ACAAATCAATCAT
1 ACAAATC-A-CAG
*
32661692 ACCAATCACAG
1 ACAAATCACAG
32661703 ACAAATCA
1 ACAAATCA
32661711 ATCATTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 16 0.62
12 2 0.08
13 8 0.31
ACGTcount: A:0.53, C:0.28, G:0.05, T:0.14
Consensus pattern (11 bp):
ACAAATCACAG
Found at i:32661685 original size:24 final size:24
Alignment explanation
Indices: 32661658--32661739 Score: 119
Period size: 24 Copynumber: 3.4 Consensus size: 24
32661648 TCATGCTCAG
32661658 AATCAATCATACAAATCACAGACA
1 AATCAATCATACAAATCACAGACA
*
32661682 AATCAATCATACCAATCACAGACA
1 AATCAATCATACAAATCACAGACA
** *
32661706 AATCAATCATTTAAATCATAGACA
1 AATCAATCATACAAATCACAGACA
*
32661730 AATCAGTCAT
1 AATCAATCAT
32661740 TTACACTCGA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.50, C:0.23, G:0.05, T:0.22
Consensus pattern (24 bp):
AATCAATCATACAAATCACAGACA
Found at i:32661780 original size:26 final size:27
Alignment explanation
Indices: 32661729--32661781 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
32661719 AATCATAGAC
*
32661729 AAATCAGTCATTTACACTCGAGGGGCA
1 AAATCAGTCATTTACACTCAAGGGGCA
* *
32661756 AAAT-AGTCATTTACCCTCAATGGGCA
1 AAATCAGTCATTTACACTCAAGGGGCA
32661782 TTACGATCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.25
Consensus pattern (27 bp):
AAATCAGTCATTTACACTCAAGGGGCA
Found at i:32661862 original size:81 final size:81
Alignment explanation
Indices: 32661761--32662011 Score: 228
Period size: 81 Copynumber: 3.1 Consensus size: 81
32661751 GGGCAAAATA
* *
32661761 GTCA-TTTACCCTCAATGGGCATTACGATCATTTTACCTTA-TAGGGGTATTTCAGTCATTTAAC
1 GTCATTTTACCCTCAATGGGCATTACGATCATTTTACCCTACTA-GGGTATTTCAATCATTTAAC
*
32661824 CCTATGAAGGTATTAT-G
65 CCTACGAAGGTATT-TCG
* *
32661841 GTCATTTTACCTTACAA-GGGCATTACGATCATTTTACCCTACTAGGGTATTTCAATCATTTTAC
1 GTCATTTTACCCT-CAATGGGCATTACGATCATTTTACCCTACTAGGGTATTTCAATCATTTAAC
*
32661905 CCTACGAGGGTATTTCG
65 CCTACGAAGGTATTTCG
* * * * * * * * ** *
32661922 ATCATTTTACCCATTAA-GGGTATTTCAATAAATTTACCC-ATCGAGGGTATTTCGGTCATTTTA
1 GTCATTTTACCC-TCAATGGGCATTACGATCATTTTACCCTA-CTAGGGTATTTCAATCATTTAA
* *
32661985 CCC-ATCGAGGGTATTTCA
64 CCCTA-CGAAGGTATTTCG
32662003 GTCATTTTA
1 GTCATTTTA
32662012 TCCATCGAGT
Statistics
Matches: 145, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
80 7 0.05
81 132 0.91
82 6 0.04
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (81 bp):
GTCATTTTACCCTCAATGGGCATTACGATCATTTTACCCTACTAGGGTATTTCAATCATTTAACC
CTACGAAGGTATTTCG
Found at i:32662083 original size:27 final size:27
Alignment explanation
Indices: 32661804--32662093 Score: 266
Period size: 27 Copynumber: 10.7 Consensus size: 27
32661794 TACCTTATAG
* *
32661804 GGGTATTTCAGTCATTTAACCCTAT-GA
1 GGGTATTTCGGTCATTTTACCC-ATCGA
* * *
32661831 AGGTATTAT-GGTCATTTTA-CCTTACAA
1 GGGTATT-TCGGTCATTTTACCCAT-CGA
* * * *
32661858 GGGCATTACGATCATTTTACCC-TACTA
1 GGGTATTTCGGTCATTTTACCCAT-CGA
**
32661885 GGGTATTTCAATCATTTTACCC-TACGA
1 GGGTATTTCGGTCATTTTACCCAT-CGA
* **
32661912 GGGTATTTCGATCATTTTACCCATTAA
1 GGGTATTTCGGTCATTTTACCCATCGA
** * *
32661939 GGGTATTTCAATAAATTTACCCATCGA
1 GGGTATTTCGGTCATTTTACCCATCGA
32661966 GGGTATTTCGGTCATTTTACCCATCGA
1 GGGTATTTCGGTCATTTTACCCATCGA
* *
32661993 GGGTATTTCAGTCATTTTATCCATCGA
1 GGGTATTTCGGTCATTTTACCCATCGA
* * *
32662020 GTGTATTTTGGTAATTTTACCCATCGA
1 GGGTATTTCGGTCATTTTACCCATCGA
*
32662047 GGGTATTTCGGTCATTATACCCATCGA
1 GGGTATTTCGGTCATTTTACCCATCGA
* *
32662074 GGGTATTTCGATAATTTTAC
1 GGGTATTTCGGTCATTTTAC
32662094 AAATATTGGG
Statistics
Matches: 217, Mismatches: 40, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
25 1 0.00
26 2 0.01
27 210 0.97
28 4 0.02
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTTACCCATCGA
Found at i:32663590 original size:142 final size:142
Alignment explanation
Indices: 32663415--32663698 Score: 505
Period size: 142 Copynumber: 2.0 Consensus size: 142
32663405 AGTAGTGGAA
32663415 ATTTTGATCACTTCACTAGCTAAAACGCAAACCCGAAAGGAACCCCGAATGGTAGAAAAATCTCA
1 ATTTTGATCACTTCACTAGCTAAAACGCAAACCCGAAAGGAACCCCGAATGGTAGAAAAATCTCA
*
32663480 AAGAACATTCGGCACCTTCCTTTCAACCCTCTCAAAACCGAACAAAAAATTGCCTTGTGCCAAAA
66 AAGAACATTCGGCACCTTCCTTTCAACCCTCTCAAAACCAAACAAAAAATTGCCTTGTGCCAAAA
32663545 ATGCTCCATTCC
131 ATGCTCCATTCC
**
32663557 ATTTTGATCACTTCACTAGCTAAAACGCAAACCCGAAAGGAACCCTTAATGGTAGAAAAATCTCA
1 ATTTTGATCACTTCACTAGCTAAAACGCAAACCCGAAAGGAACCCCGAATGGTAGAAAAATCTCA
* * *
32663622 AAGAACATTCGGTACCTTCCTTTCAACCCTCTCAAAACCAAACAAAGAATTGCCTTGTGCCGAAA
66 AAGAACATTCGGCACCTTCCTTTCAACCCTCTCAAAACCAAACAAAAAATTGCCTTGTGCCAAAA
*
32663687 ATGCTTCATTCC
131 ATGCTCCATTCC
32663699 TTTCCCCTTA
Statistics
Matches: 135, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
142 135 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (142 bp):
ATTTTGATCACTTCACTAGCTAAAACGCAAACCCGAAAGGAACCCCGAATGGTAGAAAAATCTCA
AAGAACATTCGGCACCTTCCTTTCAACCCTCTCAAAACCAAACAAAAAATTGCCTTGTGCCAAAA
ATGCTCCATTCC
Found at i:32669931 original size:40 final size:40
Alignment explanation
Indices: 32669882--32670021 Score: 117
Period size: 40 Copynumber: 3.5 Consensus size: 40
32669872 AACACACCAG
*
32669882 TTTGGCACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
** * * **
32669922 TTTGACACCCAGTTTCTCATTGGCTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
* * ** *
32669960 TTAG-CACCTAGTGCCTCATCAAAT-ATATCTAAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAAT-TC-GAAGTAATAA
*
32670000 TTTGACACCCAGTGTCTCATCG
1 TTTGACACCCAGTGCCTCATCG
32670022 ACTCGAAGTT
Statistics
Matches: 73, Mismatches: 22, Indels: 9
0.70 0.21 0.09
Matches are distributed among these distances:
36 1 0.01
37 14 0.19
38 9 0.12
39 2 0.03
40 33 0.45
41 14 0.19
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
Found at i:32670960 original size:25 final size:23
Alignment explanation
Indices: 32670904--32670960 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
32670894 TGCTTTCTCA
* *
32670904 TTTCTTTTTTTCTCTTTTTCCTT
1 TTTCTTTTCTTCTCTGTTTCCTT
*
32670927 TTTCGTTTTGCTTCTCTGTTTCTTT
1 TTTC-TTTT-CTTCTCTGTTTCCTT
32670952 CTTTCTTTT
1 -TTTCTTTT
32670961 TCTATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 4 0.14
24 4 0.14
25 16 0.57
26 4 0.14
ACGTcount: A:0.00, C:0.21, G:0.05, T:0.74
Consensus pattern (23 bp):
TTTCTTTTCTTCTCTGTTTCCTT
Found at i:32670998 original size:8 final size:8
Alignment explanation
Indices: 32670985--32671047 Score: 51
Period size: 8 Copynumber: 8.0 Consensus size: 8
32670975 TCTTATCATT
32670985 ATAATATA
1 ATAATATA
32670993 ATAATATA
1 ATAATATA
*
32671001 TATACT-TA
1 -ATAATATA
32671009 ATAAT-TA
1 ATAATATA
*
32671016 A-GATATA
1 ATAATATA
*
32671023 ATATTATA
1 ATAATATA
*
32671031 ATATTATA
1 ATAATATA
32671039 ATATATATA
1 ATA-ATATA
32671048 TATTTTAGCT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
6 2 0.04
7 10 0.22
8 25 0.56
9 8 0.18
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (8 bp):
ATAATATA
Found at i:32679591 original size:15 final size:17
Alignment explanation
Indices: 32679559--32679591 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
32679549 AATTCTTTGC
32679559 TCAAAAACCATCTTTAT
1 TCAAAAACCATCTTTAT
32679576 TCAAAAA-CAT-TTTAT
1 TCAAAAACCATCTTTAT
32679591 T
1 T
32679592 TGTTTTATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (17 bp):
TCAAAAACCATCTTTAT
Found at i:32685489 original size:47 final size:47
Alignment explanation
Indices: 32685438--32685528 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 47
32685428 ATTGCTGTCC
*
32685438 GTTTTCTGGA-TTTTCTTTTGTAAGGCTATAGGCCTGTTTCTTTTTTT
1 GTTTTCTGGATTTTTCTTTTGTAAGGCCATAGGCCTGTTT-TTTTTTT
32685485 GTTTTCTGGATTTTTCTTTTGTAAGGCCATAGGCCTGTTTTTTT
1 GTTTTCTGGATTTTTCTTTTGTAAGGCCATAGGCCTGTTTTTTT
32685529 ATTTTCTTGT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
47 14 0.33
48 28 0.67
ACGTcount: A:0.11, C:0.13, G:0.20, T:0.56
Consensus pattern (47 bp):
GTTTTCTGGATTTTTCTTTTGTAAGGCCATAGGCCTGTTTTTTTTTT
Found at i:32686471 original size:5 final size:5
Alignment explanation
Indices: 32686461--32686487 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
32686451 TAATTTTTAA
32686461 TTCTT TTCTT TTCTT TTCTT TTCTT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TT
32686488 ACATTATTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:32687605 original size:3 final size:3
Alignment explanation
Indices: 32687597--32687624 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
32687587 AGATGAATCT
32687597 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
32687625 ATTCTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:32691595 original size:25 final size:28
Alignment explanation
Indices: 32691567--32691621 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
32691557 TATATATTAT
*
32691567 ATATATAAAT-AATT-A-TATTTATTTA
1 ATATAAAAATAAATTGAGTATTTATTTA
32691592 ATATAAAAATAAATTGAGGTATTTATTTA
1 ATATAAAAATAAATTGA-GTATTTATTTA
32691621 A
1 A
32691622 AAGTGTATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 9 0.36
26 4 0.16
27 1 0.04
29 11 0.44
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.45
Consensus pattern (28 bp):
ATATAAAAATAAATTGAGTATTTATTTA
Found at i:32691596 original size:29 final size:29
Alignment explanation
Indices: 32691550--32691605 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
32691540 AAATTATTAT
* * *
32691550 TTATATTTATATATTATATATATAAATAA
1 TTATATTTATATAATATAAAAATAAATAA
*
32691579 TTATATTTATTTAATATAAAAATAAAT
1 TTATATTTATATAATATAAAAATAAAT
32691606 TGAGGTATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
TTATATTTATATAATATAAAAATAAATAA
Found at i:32692526 original size:3 final size:3
Alignment explanation
Indices: 32692518--32692546 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
32692508 ATATCATTAG
32692518 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
32692547 AATTTTATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:32693168 original size:68 final size:69
Alignment explanation
Indices: 32693037--32693186 Score: 212
Period size: 68 Copynumber: 2.2 Consensus size: 69
32693027 GTTAGTAACT
* * * * * * *
32693037 TTAAAGTGAATTATTTTTATTTTTATCACTTTTTTTCTTTTAATTTAGTTATTATTGTTAAAATA
1 TTAAATTG-ATTATTTTTATTTTGATCACATTTATTCTTTTAATTTAATTACTACTGTTAAAATA
32693102 ATTGA
65 ATTGA
32693107 TTAAATTGATTATTTTTATTTTGATCACATTTATT-TTTTAATTTAATTACTACTGTTAAAATAA
1 TTAAATTGATTATTTTTATTTTGATCACATTTATTCTTTTAATTTAATTACTACTGTTAAAATAA
32693171 TTGA
66 TTGA
*
32693175 TCAAATTGATTA
1 TTAAATTGATTA
32693187 CAATGCCATT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
68 41 0.57
69 24 0.33
70 7 0.10
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (69 bp):
TTAAATTGATTATTTTTATTTTGATCACATTTATTCTTTTAATTTAATTACTACTGTTAAAATAA
TTGA
Found at i:32693281 original size:22 final size:23
Alignment explanation
Indices: 32693242--32693284 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
32693232 AGTTCCTTTC
32693242 TTTTATTTCTTTCCTTTTCCTAT
1 TTTTATTTCTTTCCTTTTCCTAT
*
32693265 TTTTATTTCTTT-TTTTTCCT
1 TTTTATTTCTTTCCTTTTCCT
32693285 CTAAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTATTTCTTTCCTTTTCCTAT
Found at i:32699462 original size:16 final size:15
Alignment explanation
Indices: 32699441--32699495 Score: 69
Period size: 16 Copynumber: 3.7 Consensus size: 15
32699431 TTTTTTTAAG
32699441 TATATTATTATGTAAA
1 TATATTA-TATGTAAA
*
32699457 TATATTATAT-T-AT
1 TATATTATATGTAAA
32699470 TATATTATATGTAAA
1 TATATTATATGTAAA
32699485 TTATATTATAT
1 -TATATTATAT
32699496 TATTATATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 11 0.32
14 2 0.06
15 4 0.12
16 17 0.50
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (15 bp):
TATATTATATGTAAA
Found at i:32699489 original size:29 final size:29
Alignment explanation
Indices: 32699441--32699504 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
32699431 TTTTTTTAAG
32699441 TATATTATTATGTAAATATATTATATTAT
1 TATATTATTATGTAAATATATTATATTAT
32699470 TATATTA-TATGTAAATTATATTATATTAT
1 TATATTATTATGTAAA-TATATTATATTAT
32699499 TATATT
1 TATATT
32699505 TTAAATAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 8 0.24
29 26 0.76
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (29 bp):
TATATTATTATGTAAATATATTATATTAT
Found at i:32699504 original size:5 final size:5
Alignment explanation
Indices: 32699457--32699498 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
32699447 ATTATGTAAA
*
32699457 TATAT TATA- T-TAT TATAT TATAT GTAAAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT -TATAT TATAT TATAT TAT
32699499 TATATTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 2 0.06
4 2 0.06
5 24 0.75
6 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:32699513 original size:29 final size:28
Alignment explanation
Indices: 32699453--32699513 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
32699443 TATTATTATG
**
32699453 TAAATATATTATATTATTATATTATATG
1 TAAATATATTATATTATTATATTATAAA
*
32699481 TAAATTATATTATATTATTATATTTTAAA
1 TAAA-TATATTATATTATTATATTATAAA
32699510 TAAA
1 TAAA
32699514 CAAAATTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 4 0.14
29 25 0.86
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (28 bp):
TAAATATATTATATTATTATATTATAAA
Found at i:32701024 original size:39 final size:39
Alignment explanation
Indices: 32700969--32701059 Score: 139
Period size: 39 Copynumber: 2.3 Consensus size: 39
32700959 TACTGTTACC
* *
32700969 GTTACTGTTACAGATTC-AGCACTTTGTGTGTTGAATACT
1 GTTACTGTTACTGATTCGA-CACTTTGTGTGTCGAATACT
*
32701008 GTTACTGTTACTGATTCGATACTTTGTGTGTCGAATACT
1 GTTACTGTTACTGATTCGACACTTTGTGTGTCGAATACT
32701047 GTTACTGTTACTG
1 GTTACTGTTACTG
32701060 TTACCGTTAC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
39 47 0.98
40 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.43
Consensus pattern (39 bp):
GTTACTGTTACTGATTCGACACTTTGTGTGTCGAATACT
Found at i:32701059 original size:51 final size:51
Alignment explanation
Indices: 32701004--32701123 Score: 168
Period size: 51 Copynumber: 2.3 Consensus size: 51
32700994 GTGTGTTGAA
* * *
32701004 TACTGTTACTGTTACTGATTCGATACTTTGTGTGTCGAATACTGTTACTGT
1 TACTGTTACTGTTACTGATTCGACACTTTGTGTGTCGAACACTGTTACCGT
* * *
32701055 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAACACTGTTACCGT
1 TACTGTTACTGTTACTGATTCGACACTTTGTGTGTCGAACACTGTTACCGT
*
32701106 TACTGATTAATGTTACTG
1 TACTG-TTACTGTTACTG
32701124 GTGTGTTTGG
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
51 50 0.85
52 9 0.15
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (51 bp):
TACTGTTACTGTTACTGATTCGACACTTTGTGTGTCGAACACTGTTACCGT
Found at i:32701108 original size:90 final size:90
Alignment explanation
Indices: 32700944--32701113 Score: 259
Period size: 90 Copynumber: 1.9 Consensus size: 90
32700934 CAGGCACGTA
* * * *
32700944 TGTGCCGACTACTGTTACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATACTG
1 TGTGCCGAATACTGTTACTGTTACCGTTACCGTTACAGATTCAGCACTTTGTGTGTCGAACACTG
*
32701009 TTACTGTTACTGATTCGATACTTTG
66 TTACCGTTACTGATTCGATACTTTG
* * * *
32701034 TGTGTCGAATACTGTTACTGTTACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAACACTG
1 TGTGCCGAATACTGTTACTGTTACCGTTACCGTTACAGATTCAGCACTTTGTGTGTCGAACACTG
32701099 TTACCGTTACTGATT
66 TTACCGTTACTGATT
32701114 AATGTTACTG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
90 71 1.00
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.40
Consensus pattern (90 bp):
TGTGCCGAATACTGTTACTGTTACCGTTACCGTTACAGATTCAGCACTTTGTGTGTCGAACACTG
TTACCGTTACTGATTCGATACTTTG
Found at i:32705386 original size:23 final size:23
Alignment explanation
Indices: 32705329--32705389 Score: 113
Period size: 23 Copynumber: 2.7 Consensus size: 23
32705319 AGTTAGAAAT
*
32705329 GTGAAGAGACTAGAATATGAAGA
1 GTGAAGAGACTTGAATATGAAGA
32705352 GTGAAGAGACTTGAATATGAAGA
1 GTGAAGAGACTTGAATATGAAGA
32705375 GTGAAGAGACTTGAA
1 GTGAAGAGACTTGAA
32705390 GATAAAAAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.44, C:0.05, G:0.31, T:0.20
Consensus pattern (23 bp):
GTGAAGAGACTTGAATATGAAGA
Found at i:32706846 original size:404 final size:397
Alignment explanation
Indices: 32706098--32706901 Score: 1232
Period size: 404 Copynumber: 2.0 Consensus size: 397
32706088 GCTAACGTGA
* * *
32706098 AAACCAAAATGGAGAGTAAAAATTGGGAAAGGAAAGAAGAAAACGAGAAAACTTGGAAGTGGGAA
1 AAACCAAAATAGAGAGTAAAAATTGGGAAAGAAAAGAAGAAAACGAAAAAACTTGGAAGTGGGAA
*
32706163 AATAAGACGGTAAGAGAAGGAGGCTTTTGGGAAAATTTTCAAAAAAGAATTTTAGAAAAACTACC
66 AATAAGACGATAAGAGAAGGAGGCTTTTGGGAAAATTTTCAAAAAAGAATTTTAGAAAAACTACC
*
32706228 CATATCCCCACTAAATCTAGTTAGTTATTCTTACCAAATTTCCCTTAAAATTCAAATTCAACACA
131 CATATCCCCACTAAATCTAGTTAGTTATTCTTACCAAATTTCCCTCAAAATTCAAATTCAACACA
* * ** *
32706293 ACTTGTATCCCCTTTGGTGACACAGACAGAGAAAAACAATAAGAATTTTGTTTTGCACGCTCAAG
196 ACTTCTACCCCCTTTGGCAACACAGACAGAGAAAAACAATAAGAATTTTGTTTTGCACACTCAAG
* * * *
32706358 ATTTGAACACAATACCTTTGAGTAAATTAAAGCCTTACTACTGAACCAACAAATTCATGTTTGTC
261 ATTTGAACACAATAACTTTGAGTAAATTAAAGCCTTACCACTAAACCAACAAACTCATGTTTGTC
* * **
32706423 AATAAACACTTAGAATTTAAAATAAGTCAACTCTTCTAAGTTAGAGGTTGGGACAAAAGTAATAA
326 AACAAACACTTAAAATTTAAAATAAACCAACTCTTCTAAGTTAGAGGTTGGG----AAGTAATAA
32706488 AAATTTAAAGG
387 AAATTTAAAGG
* * *
32706499 AAACCAAAATAGAGAGTAAAAATTGGGAAAGAAAATAAGAAAATGAAAAAATTTGGAAGTGGGAA
1 AAACCAAAATAGAGAGTAAAAATTGGGAAAGAAAAGAAGAAAACGAAAAAACTTGGAAGTGGGAA
* * *
32706564 AATAAGACGATAAGAGAGGGAGGCTTTTGGGAAATTTTTCAAAAAAAAATAATTTTAGAAAAACT
66 AATAAGACGATAAGAGAAGGAGGCTTTTGGGAAAATTTTC---AAAAAAGAATTTTAGAAAAACT
*
32706629 ACCCATATCCCCACTAAATCTAGTTAGTTATTCTTACCAAATTTTCCC-CAGAATTCAAATTCAA
128 ACCCATATCCCCACTAAATCTAGTTAGTTATTCTTACCAAA-TTTCCCTCAAAATTCAAATTCAA
*
32706693 CCCAACTTCTACCCCCTTTGGCAACACAGACAGAGAAAAACAATAAGAATTTTGTTTTGCACACT
192 CACAACTTCTACCCCCTTTGGCAACACAGACAGAGAAAAACAATAAGAATTTTGTTTTGCACACT
* * * *
32706758 CAAGATTTGAACACAATAACTTTGATTAAATTAAAGCCTTACCATTAAACCAGCAAACTCATTTT
257 CAAGATTTGAACACAATAACTTTGAGTAAATTAAAGCCTTACCACTAAACCAACAAACTCATGTT
* *
32706823 TGTCAACCAACACTTAAAATTTAAAATAAACCAACTCTTCTAGGTTAGAGGTTGGGAAGTAATAA
322 TGTCAACAAACACTTAAAATTTAAAATAAACCAACTCTTCTAAGTTAGAGGTTGGGAAGTAATAA
*
32706888 AAATTTAAGGG
387 AAATTTAAAGG
32706899 AAA
1 AAA
32706902 ATATTTGAAT
Statistics
Matches: 366, Mismatches: 33, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
400 22 0.06
401 96 0.26
404 242 0.66
405 6 0.02
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.26
Consensus pattern (397 bp):
AAACCAAAATAGAGAGTAAAAATTGGGAAAGAAAAGAAGAAAACGAAAAAACTTGGAAGTGGGAA
AATAAGACGATAAGAGAAGGAGGCTTTTGGGAAAATTTTCAAAAAAGAATTTTAGAAAAACTACC
CATATCCCCACTAAATCTAGTTAGTTATTCTTACCAAATTTCCCTCAAAATTCAAATTCAACACA
ACTTCTACCCCCTTTGGCAACACAGACAGAGAAAAACAATAAGAATTTTGTTTTGCACACTCAAG
ATTTGAACACAATAACTTTGAGTAAATTAAAGCCTTACCACTAAACCAACAAACTCATGTTTGTC
AACAAACACTTAAAATTTAAAATAAACCAACTCTTCTAAGTTAGAGGTTGGGAAGTAATAAAAAT
TTAAAGG
Found at i:32707197 original size:20 final size:21
Alignment explanation
Indices: 32707159--32707200 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
32707149 CAGCTTGTTG
*
32707159 AGCTCAATTCAGCTTGTTTCC
1 AGCTCAATTCAGCTCGTTTCC
*
32707180 AGCTCAA-TGAGCTCGTTTCC
1 AGCTCAATTCAGCTCGTTTCC
32707200 A
1 A
32707201 TCTTTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (21 bp):
AGCTCAATTCAGCTCGTTTCC
Found at i:32709943 original size:40 final size:41
Alignment explanation
Indices: 32709910--32710052 Score: 126
Period size: 43 Copynumber: 3.4 Consensus size: 41
32709900 TTAAAATGAT
32709910 TAAA-GTTTATAAAAATTATAAAAAAATTAATTAAAAACCA
1 TAAACGTTTATAAAAATTATAAAAAAATTAATTAAAAACCA
* * *
32709950 TAAACTTTTATAAAAATTATAAAAAATAATTTACTAAAAACCA
1 TAAACGTTTATAAAAATTAT-AAAAA-AATTAATTAAAAACCA
** * * * * *
32709993 TAAAAAATGTATAAAAATAATTATTAAAAATGAGTTAAAAACCA
1 T-AAACGTTTATAAAAATTA-TA-AAAAAATTAATTAAAAACCA
**
32710037 TAAAATTTTATAAAAA
1 TAAACGTTTATAAAAA
32710053 AAATTATTAA
Statistics
Matches: 83, Mismatches: 14, Indels: 9
0.78 0.13 0.08
Matches are distributed among these distances:
40 4 0.05
41 14 0.17
42 5 0.06
43 28 0.34
44 28 0.34
45 4 0.05
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.31
Consensus pattern (41 bp):
TAAACGTTTATAAAAATTATAAAAAAATTAATTAAAAACCA
Found at i:32710228 original size:20 final size:21
Alignment explanation
Indices: 32710192--32710244 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
32710182 TTAAAAATTG
* *
32710192 TATAATTTTAAT-GATTTT-T
1 TATAATTTTTATAAATTTTGT
32710211 TATAATTTTTATAAATTTTGT
1 TATAATTTTTATAAATTTTGT
*
32710232 TAT-GTTTTTATAA
1 TATAATTTTTATAA
32710245 TTCTAGTCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 11 0.38
20 14 0.48
21 4 0.14
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (21 bp):
TATAATTTTTATAAATTTTGT
Found at i:32710229 original size:19 final size:19
Alignment explanation
Indices: 32710130--32710229 Score: 51
Period size: 19 Copynumber: 5.2 Consensus size: 19
32710120 AATAAATTAT
* *
32710130 TTTTTATAAATGTTATAAA
1 TTTTTATAATTTTTATAAA
** *
32710149 TTTTTATTTTTATTTTATTAA
1 TTTTTA-TAAT-TTTTATAAA
* *
32710170 TATCTAATAA-TTTTA-AAA
1 T-TTTTATAATTTTTATAAA
* * * * *
32710188 ATTGTATAATTTTAATGAT
1 TTTTTATAATTTTTATAAA
32710207 TTTTTATAATTTTTATAAA
1 TTTTTATAATTTTTATAAA
32710226 TTTT
1 TTTT
32710230 GTTATGTTTT
Statistics
Matches: 54, Mismatches: 22, Indels: 10
0.63 0.26 0.12
Matches are distributed among these distances:
17 5 0.09
18 6 0.11
19 30 0.56
20 1 0.02
21 9 0.17
22 3 0.06
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (19 bp):
TTTTTATAATTTTTATAAA
Found at i:32714942 original size:2 final size:2
Alignment explanation
Indices: 32714935--32714965 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
32714925 AATCTAATTG
32714935 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32714966 CATACATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32716332 original size:25 final size:27
Alignment explanation
Indices: 32716304--32716371 Score: 97
Period size: 25 Copynumber: 2.6 Consensus size: 27
32716294 AAAATTGGTA
32716304 AGACATTTTCCATTCT-TCTCT-A-AGC
1 AGACATTTTCCATTCTCT-TCTAACAGC
32716329 AGACATTTTCCATTCTCTTCTAAGCAGC
1 AGACATTTTCCATTCTCTTCTAA-CAGC
32716357 AGACATTTTCCATTC
1 AGACATTTTCCATTC
32716372 CTCAAAGCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
25 19 0.49
26 2 0.05
28 18 0.46
ACGTcount: A:0.25, C:0.28, G:0.09, T:0.38
Consensus pattern (27 bp):
AGACATTTTCCATTCTCTTCTAACAGC
Done.