Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 354 of 433
Found at i:111459636 original size:16 final size:15
Alignment explanation
Indices: 111459615--111459656 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
111459605 AAGGTTGATA
111459615 ATAATTAATATATATT
1 ATAATTAATATA-ATT
*
111459631 ATAATTGATATAATT
1 ATAATTAATATAATT
111459646 ATATATTAATA
1 ATA-ATTAATA
111459657 ATTATTATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
ATAATTAATATAATT
Found at i:111466971 original size:14 final size:14
Alignment explanation
Indices: 111466952--111466982 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
111466942 TCTCCTTGGC
*
111466952 CGGTTCGGTTCACT
1 CGGTTCGGTTCAAT
111466966 CGGTTCGGTTCAAT
1 CGGTTCGGTTCAAT
111466980 CGG
1 CGG
111466983 ACCATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.26, G:0.32, T:0.32
Consensus pattern (14 bp):
CGGTTCGGTTCAAT
Found at i:111470604 original size:45 final size:45
Alignment explanation
Indices: 111470540--111470630 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
111470530 GTTGATAGAG
111470540 AAATTTTTGTAAGTCTCTGTATTGATAATCCAGTTTTCTTATATC
1 AAATTTTTGTAAGTCTCTGTATTGATAATCCAGTTTTCTTATATC
111470585 AAATTTTTGTAAGTCTCTGTATTGATAATCCAGTTTTCTTATATC
1 AAATTTTTGTAAGTCTCTGTATTGATAATCCAGTTTTCTTATATC
111470630 A
1 A
111470631 TCAGTAAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.27, C:0.13, G:0.11, T:0.48
Consensus pattern (45 bp):
AAATTTTTGTAAGTCTCTGTATTGATAATCCAGTTTTCTTATATC
Found at i:111473839 original size:125 final size:123
Alignment explanation
Indices: 111473652--111473972 Score: 355
Period size: 125 Copynumber: 2.6 Consensus size: 123
111473642 TAACAAAACG
* *
111473652 AAATGTGTAACCCAAAATATATTATATATGGATTA-TTTGAACTTTTAATAAAT-AGTAAAACAC
1 AAATGTGTAACACAAAATATATTATATATGAATTATTTTG-AC-TTTAATAAATCA-TAAAACAC
* * * * * *
111473715 ACTGTTTAATAATTCATGAGAATTGATTTATTAATGATTTAAAAAAATATAAGTACCTGAAA
63 ACTGTTTAATAATCCATCAAAATTCATTTATTAACG-TTTAAAAAAATATAAATACCTGAAA
*
111473777 AAATGTGTCTGACACAAAATATATTATATATGAATTATTTTGAC-TTAATAAATCATAAAACACA
1 AAATGTG--TAACACAAAATATATTATATATGAATTATTTTGACTTTAATAAATCATAAAACACA
* * * ** * * *
111473841 -TAGTTCAGTAATCCATCAAAATTCTTTTATTCCCGTTTAAATAAATATAAATACTTGAAG
64 CT-GTTTAATAATCCATCAAAATTCATTTATTAACGTTTAAAAAAATATAAATACCTGAAA
* *
111473901 AAATGTGTAACACAAAATATATTATATATGAA-TATTTTGACTTTTAAAAAACCATAAAACACAC
1 AAATGTGTAACACAAAATATATTATATATGAATTATTTTGAC-TTTAATAAATCATAAAACACAC
111473965 TGATTTAA
65 TG-TTTAA
111473973 AAAAATATAT
Statistics
Matches: 165, Mismatches: 22, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
121 9 0.05
122 24 0.15
123 19 0.12
124 33 0.20
125 48 0.29
126 1 0.01
127 27 0.16
128 4 0.02
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.36
Consensus pattern (123 bp):
AAATGTGTAACACAAAATATATTATATATGAATTATTTTGACTTTAATAAATCATAAAACACACT
GTTTAATAATCCATCAAAATTCATTTATTAACGTTTAAAAAAATATAAATACCTGAAA
Found at i:111474148 original size:221 final size:217
Alignment explanation
Indices: 111473749--111474185 Score: 648
Period size: 220 Copynumber: 2.0 Consensus size: 217
111473739 GATTTATTAA
* *
111473749 TGATTTAAAAAAATATAAGTACCTGAAAAAATGTGTCTGACACAAAATATATTATATATGAATTA
1 TGATTTAAAAAAATATAAGTACATGAAAAAATGTGTATGACACAAAATATATTATATATGAATTA
* *
111473814 TTTTGACTTAATAAATCATAAAACACATAGTTCAGTAATCCATCAAAATTCTTTTATTCCCGTTT
66 TTTTGACTTAATAAATCATAAAACACATAGTTCAATAATCCATCAAAATTCGTTTATTCCCGTTT
111473879 AAATAAATATAAATACTTGAAGAAATGTGTAACACAAAATATATTATATATGAA-TATTTTGACT
131 AAATAAATATAAATACTTGAAGAAATGTGTAACACAAAATATATTATATATGAATTATTTTGACT
*
111473943 TTTAAAAAACCATAAAACACAC
196 TTCAAAAAACCATAAAACACAC
* *
111473965 TGATTTAAAAAAATATATAAGTACAT-AAAGAGATGTGTAT-ACCATAAAATATATTATATATGA
1 TGATTT-AAAAAA-ATATAAGTACATGAAA-AAATGTGTATGA-CACAAAATATATTATATATGA
* * *
111474028 ATTATTTTGACTTTTGATAAATCATAAAACACATAGTTCAATAATCCATCAAATTTGGTTTATTC
62 ATTATTTTGAC--TTAATAAATCATAAAACACATAGTTCAATAATCCATCAAAATTCGTTTATTC
* *
111474093 CTGATTT-AATAAAATATAAGTACTTGAAGAAATGTGTAACACAAAATATATTATATATGAATTA
125 CCG-TTTAAAT-AAATATAAATACTTGAAGAAATGTGTAACACAAAATATATTATATATGAATTA
* *
111474157 TTTTGACTTTCAATAAACTATAAAACACA
188 TTTTGACTTTCAAAAAACCATAAAACACA
111474186 TTATTTAGTA
Statistics
Matches: 198, Mismatches: 14, Indels: 12
0.88 0.06 0.05
Matches are distributed among these distances:
216 6 0.03
217 10 0.05
218 50 0.25
220 52 0.26
221 52 0.26
222 28 0.14
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (217 bp):
TGATTTAAAAAAATATAAGTACATGAAAAAATGTGTATGACACAAAATATATTATATATGAATTA
TTTTGACTTAATAAATCATAAAACACATAGTTCAATAATCCATCAAAATTCGTTTATTCCCGTTT
AAATAAATATAAATACTTGAAGAAATGTGTAACACAAAATATATTATATATGAATTATTTTGACT
TTCAAAAAACCATAAAACACAC
Found at i:111474525 original size:16 final size:16
Alignment explanation
Indices: 111474506--111474543 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
111474496 ATATATATTT
111474506 GAAAAAAAAATTCAAA
1 GAAAAAAAAATTCAAA
* *
111474522 GAAAAAAAATTTTAAA
1 GAAAAAAAAATTCAAA
111474538 -AAAAAA
1 GAAAAAA
111474544 GATACTTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (16 bp):
GAAAAAAAAATTCAAA
Found at i:111474639 original size:38 final size:40
Alignment explanation
Indices: 111474590--111474668 Score: 101
Period size: 38 Copynumber: 2.0 Consensus size: 40
111474580 GGTCCTAAAA
*
111474590 ATATTATTTTAGAAAATTCT-AAAATTTTAACTT-TTTTAT
1 ATATTATTTTAG-AAATTCTAAAAATTTTAAATTGTTTTAT
* *
111474629 ATATT-TTTTAGAATTTTTAAAAATTTTAAATTGTTTTAT
1 ATATTATTTTAGAAATTCTAAAAATTTTAAATTGTTTTAT
111474668 A
1 A
111474669 AAATATGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 5 0.14
38 18 0.51
39 12 0.34
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.56
Consensus pattern (40 bp):
ATATTATTTTAGAAATTCTAAAAATTTTAAATTGTTTTAT
Found at i:111474672 original size:20 final size:19
Alignment explanation
Indices: 111474609--111474672 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
111474599 TAGAAAATTC
*
111474609 TAAAATTTTAACTTTTTTA
1 TAAAATTTTAAATTTTTTA
**
111474628 TATATTTTTTAGAA-TTTTTA
1 TA-AAATTTTA-AATTTTTTA
111474648 -AAAATTTTAAATTGTTTTA
1 TAAAATTTTAAATT-TTTTA
111474667 TAAAAT
1 TAAAAT
111474673 ATGAATGTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
17 2 0.06
18 7 0.20
19 8 0.23
20 17 0.49
21 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (19 bp):
TAAAATTTTAAATTTTTTA
Found at i:111479291 original size:21 final size:21
Alignment explanation
Indices: 111479248--111479291 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
111479238 AACGAAATTT
111479248 TTATCTTAGTTTCTGGTCACAA
1 TTATCTTAGTTTC-GGTCACAA
111479270 TTATCTTAGTTTC-GTCCACAA
1 TTATCTTAGTTTCGGT-CACAA
111479291 T
1 T
111479292 AAGGAATTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 2 0.10
21 6 0.29
22 13 0.62
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.45
Consensus pattern (21 bp):
TTATCTTAGTTTCGGTCACAA
Found at i:111481890 original size:30 final size:31
Alignment explanation
Indices: 111481854--111481925 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
111481844 GGTTTCATTT
* *
111481854 CAGTCACTCAAC-TTTTAAAAAA-TAATAAAA
1 CAGTCACT-AACGTTATAAAAAAGTAACAAAA
*
111481884 CAGTCACTAACGTTATAAAAAAGTGACAAAA
1 CAGTCACTAACGTTATAAAAAAGTAACAAAA
*
111481915 CAGTCATTAAC
1 CAGTCACTAAC
111481926 TAACGGTTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 3 0.08
30 17 0.47
31 16 0.44
ACGTcount: A:0.50, C:0.18, G:0.08, T:0.24
Consensus pattern (31 bp):
CAGTCACTAACGTTATAAAAAAGTAACAAAA
Found at i:111481924 original size:146 final size:146
Alignment explanation
Indices: 111481641--111481917 Score: 491
Period size: 146 Copynumber: 1.9 Consensus size: 146
111481631 ATTTTATTTT
*
111481641 GGGTATATTACACCAACAGTCACTCAACTTTAGGGTAACTAACAAAATAGTCACCTAGGTTTCAT
1 GGGTAAATTACACCAACAGTCACTCAACTTTAGGGTAACTAACAAAATAGTCACCTAGGTTTCAT
* *
111481706 TTCAGTCACTCAACTTTTGAAAAATAACAAAACAGTCACTAACGTTATAAAAAAGTGAGAAAACA
66 TTCAGTCACTCAACTTTTAAAAAATAACAAAACAGTCACTAACGTTATAAAAAAGTGACAAAACA
111481771 GATATTAAAAATAAAA
131 GATATTAAAAATAAAA
* * *
111481787 GGGTAAATTGCACCAATAGTCACTCAACTTTAGGGTAGCTAACAAAATAGTCACCTAGGTTTCAT
1 GGGTAAATTACACCAACAGTCACTCAACTTTAGGGTAACTAACAAAATAGTCACCTAGGTTTCAT
*
111481852 TTCAGTCACTCAACTTTTAAAAAATAATAAAACAGTCACTAACGTTATAAAAAAGTGACAAAACA
66 TTCAGTCACTCAACTTTTAAAAAATAACAAAACAGTCACTAACGTTATAAAAAAGTGACAAAACA
111481917 G
131 G
111481918 TCATTAACTA
Statistics
Matches: 124, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
146 124 1.00
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.26
Consensus pattern (146 bp):
GGGTAAATTACACCAACAGTCACTCAACTTTAGGGTAACTAACAAAATAGTCACCTAGGTTTCAT
TTCAGTCACTCAACTTTTAAAAAATAACAAAACAGTCACTAACGTTATAAAAAAGTGACAAAACA
GATATTAAAAATAAAA
Found at i:111482981 original size:21 final size:21
Alignment explanation
Indices: 111482955--111482995 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
111482945 CCATGTGGCA
111482955 AGTTAACTGGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
*
111482976 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
111482996 GGTTCTGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:111483095 original size:30 final size:31
Alignment explanation
Indices: 111483026--111483097 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
111483016 GGAAACCATT
* *
111483026 AGTTAGTGACTGTTTTGTCACTTTTTTATAA
1 AGTTAGTGACTATTTTGTCACTTTTTCATAA
* *
111483057 CGTTAGTGACTATTTTGTTA-TTTTTCA-AA
1 AGTTAGTGACTATTTTGTCACTTTTTCATAA
111483086 AGTTGAGTGACT
1 AGTT-AGTGACT
111483098 GAAATGAAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 5 0.14
30 13 0.37
31 17 0.49
ACGTcount: A:0.24, C:0.10, G:0.18, T:0.49
Consensus pattern (31 bp):
AGTTAGTGACTATTTTGTCACTTTTTCATAA
Found at i:111484327 original size:30 final size:30
Alignment explanation
Indices: 111484293--111484355 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
111484283 ACTTATTTTA
111484293 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* * *
111484323 TTGTTAATTTTTTTATTATTTTAGAGGTAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
111484353 TTG
1 TTG
111484356 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:111486182 original size:85 final size:85
Alignment explanation
Indices: 111486034--111486218 Score: 248
Period size: 85 Copynumber: 2.2 Consensus size: 85
111486024 AACACTCCAC
** * * *
111486034 ATACTTGTGTTGTTATAGGTATGTCACAGGATCATCTCAAATTTGATTCTAACATTATCTCTAAT
1 ATACTTGTGTTGTTGCAGGCATGCCACAAGATCATCTCAAATTTGATTCTAACATTATCTCTAAT
*
111486099 ATTGTCTTACGTATGATGAA
66 ATTGTCTTACATATGATGAA
* * *
111486119 ATACTTGTGTTGTTGCAGGCATGCCACAAGATCATC-CTAAA-TTGAATTCTGACCTTATTTCTA
1 ATACTTGTGTTGTTGCAGGCATGCCACAAGATCATCTC-AAATTTG-ATTCTAACATTATCTCTA
*
111486182 ATATTGTCTTACATATGGTGAA
64 ATATTGTCTTACATATGATGAA
111486204 ATACTTGTGTTGTTG
1 ATACTTGTGTTGTTG
111486219 TAAAGAAAGA
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
84 4 0.05
85 84 0.95
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.41
Consensus pattern (85 bp):
ATACTTGTGTTGTTGCAGGCATGCCACAAGATCATCTCAAATTTGATTCTAACATTATCTCTAAT
ATTGTCTTACATATGATGAA
Found at i:111493925 original size:21 final size:20
Alignment explanation
Indices: 111493862--111493919 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
111493852 TTTATTTATT
*
111493862 TTAATTTTTAATTTTTAAATT-
1 TTAAATTTTAA-TTTT-AATTA
*
111493883 TGAAATTTTAATTTTAATTA
1 TTAAATTTTAATTTTAATTA
111493903 TTAAATTATTAAGTTTT
1 TTAAATT-TTAA-TTTT
111493920 GATATTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 4 0.13
20 10 0.32
21 13 0.42
22 4 0.13
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.60
Consensus pattern (20 bp):
TTAAATTTTAATTTTAATTA
Found at i:111499023 original size:47 final size:47
Alignment explanation
Indices: 111498970--111499061 Score: 184
Period size: 47 Copynumber: 2.0 Consensus size: 47
111498960 ACAATTAGGG
111498970 TTTTCATACTTATAGGGTTCACATATATGTATATAAGTAAGGATTGA
1 TTTTCATACTTATAGGGTTCACATATATGTATATAAGTAAGGATTGA
111499017 TTTTCATACTTATAGGGTTCACATATATGTATATAAGTAAGGATT
1 TTTTCATACTTATAGGGTTCACATATATGTATATAAGTAAGGATT
111499062 CACATACGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (47 bp):
TTTTCATACTTATAGGGTTCACATATATGTATATAAGTAAGGATTGA
Found at i:111505065 original size:21 final size:21
Alignment explanation
Indices: 111505036--111505088 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
111505026 AACAGAGTCG
*
111505036 GTGTCGCAACACGGAAT-CCT
1 GTGTAGCAACACGGAATCCCT
111505056 AGTGTAGCAACACGGAATCCCT
1 -GTGTAGCAACACGGAATCCCT
*
111505078 GTGTTGCAACA
1 GTGTAGCAACA
111505089 TCACATCCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.21
Consensus pattern (21 bp):
GTGTAGCAACACGGAATCCCT
Found at i:111505228 original size:30 final size:30
Alignment explanation
Indices: 111505188--111505244 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
111505178 CATAACAGTA
* * *
111505188 ATTTTTTACAGGGTCACCGGACTCGGTAGC
1 ATTTTCTACAGGGTCACCAGACCCGGTAGC
111505218 ATTTTCTACAGGGTCACCAGACCCGGT
1 ATTTTCTACAGGGTCACCAGACCCGGT
111505245 CTCGTAAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (30 bp):
ATTTTCTACAGGGTCACCAGACCCGGTAGC
Found at i:111516763 original size:29 final size:28
Alignment explanation
Indices: 111516729--111516889 Score: 151
Period size: 29 Copynumber: 5.6 Consensus size: 28
111516719 TACTCGATCA
* *
111516729 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
* ** *
111516758 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTTAAGCT
* *
111516787 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
* ** *
111516816 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTTAAGCT
*
111516845 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCATATATTT-AAGCT
*
111516874 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
111516890 ATCTCGTCAC
Statistics
Matches: 104, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
28 3 0.03
29 100 0.96
30 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.24
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTAAGCT
Found at i:111516889 original size:58 final size:58
Alignment explanation
Indices: 111516729--111516861 Score: 266
Period size: 58 Copynumber: 2.3 Consensus size: 58
111516719 TACTCGATCA
111516729 CGCACACTTAGTGCCATGTGATTTAAGCCCGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATGTGATTTAAGCCCGCACACATAGTGCCATATAGTCCAAACT
111516787 CGCACACTTAGTGCCATGTGATTTAAGCCCGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATGTGATTTAAGCCCGCACACATAGTGCCATATAGTCCAAACT
111516845 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
111516862 ACATTTCAAG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 75 1.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (58 bp):
CGCACACTTAGTGCCATGTGATTTAAGCCCGCACACATAGTGCCATATAGTCCAAACT
Found at i:111524813 original size:29 final size:27
Alignment explanation
Indices: 111524777--111524910 Score: 108
Period size: 29 Copynumber: 4.7 Consensus size: 27
111524767 AATACTCGAT
111524777 CACGCACACTTAGTGCCATGATTTATTAG
1 CACGCACACTTAGTGCCATGATTTA--AG
111524806 CACGCACACTTAGTGCCATGTGATTTAAG
1 CACGCACACTTAGTGCCA--TGATTTAAG
* * * *
111524835 CCCGCACACATAGTGCCAT-ATAGTCCAAA
1 CACGCACACTTAGTGCCATGAT--T-TAAG
* *
111524864 CTCGCACACTTAGTGCCATACATTTCAAG
1 CACGCACACTTAGTGCCAT-GATTT-AAG
* *
111524893 CTCGCACACTCAGTGCCA
1 CACGCACACTTAGTGCCA
111524911 ATCTCGTCAC
Statistics
Matches: 88, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
26 2 0.02
27 1 0.01
28 1 0.01
29 75 0.85
31 9 0.10
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (27 bp):
CACGCACACTTAGTGCCATGATTTAAG
Found at i:111527817 original size:40 final size:40
Alignment explanation
Indices: 111527762--111527846 Score: 170
Period size: 40 Copynumber: 2.1 Consensus size: 40
111527752 TTAAGGTCGC
111527762 ATTAAAGTTTCGTTAAGAAATTTTGATGTTCAATTAGTTA
1 ATTAAAGTTTCGTTAAGAAATTTTGATGTTCAATTAGTTA
111527802 ATTAAAGTTTCGTTAAGAAATTTTGATGTTCAATTAGTTA
1 ATTAAAGTTTCGTTAAGAAATTTTGATGTTCAATTAGTTA
111527842 ATTAA
1 ATTAA
111527847 GTAAAAAGGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (40 bp):
ATTAAAGTTTCGTTAAGAAATTTTGATGTTCAATTAGTTA
Found at i:111531167 original size:40 final size:40
Alignment explanation
Indices: 111531041--111531220 Score: 200
Period size: 40 Copynumber: 4.5 Consensus size: 40
111531031 CGAATGGTAT
* * * *
111531041 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
*
111531082 CCGGGTTAAGTCCCGAAGGCATTTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCA-TTTGTGCGAGTTACTAAAA
* *
111531123 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * * *
111531163 CCGGGTAAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
111531203 CCGGG-CAATGTCCCGAAG
1 CCGGGTTAA-GTCCCGAAG
111531221 ACAATCGAGC
Statistics
Matches: 119, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 61 0.51
41 49 0.41
42 7 0.06
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:111531219 original size:80 final size:80
Alignment explanation
Indices: 111531041--111531260 Score: 201
Period size: 80 Copynumber: 2.7 Consensus size: 80
111531031 CGAATGGTAT
* * * * * * *
111531041 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAACCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGC-AAGTCCCGAAGGCATTCGTGC-AAGTCACTAAATCCGGGTAAATTCCCGAAGGCATAT
* *
111531106 TGTGCGAGTTACCAAAA
64 TGTGCGAATCACCAAAA
* * *
111531123 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTAAATTCCCGAAGGCA-ATT
1 CCGGG-CAAGTCCCGAAGGCATTCGTGCAAGTCACTAAATCCGGGTAAATTCCCGAAGGCATATT
* *
111531187 GTGCGAATCACTATAA
65 GTGCGAATCACCAAAA
* * * * * * *
111531203 CCGGGCAATGTCCCGAAGACAATCGAGCTAGTCGCTATATCCGGTTAAATT-CCGAAGG
1 CCGGGCAA-GTCCCGAAGGCATTCGTGCAAGTCACTAAATCCGGGTAAATTCCCGAAGG
111531261 TACGTGATTC
Statistics
Matches: 114, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
79 9 0.08
80 53 0.46
81 28 0.25
82 24 0.21
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (80 bp):
CCGGGCAAGTCCCGAAGGCATTCGTGCAAGTCACTAAATCCGGGTAAATTCCCGAAGGCATATTG
TGCGAATCACCAAAA
Found at i:111534662 original size:26 final size:26
Alignment explanation
Indices: 111534615--111534666 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
111534605 CATATTTGGC
*
111534615 CATAACATATATAAATTCTAACATTT
1 CATAACACATATAAATTCTAACATTT
111534641 CATAACAGCATATAAATT-TAACATTT
1 CATAACA-CATATAAATTCTAACATTT
111534667 AATTACCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (26 bp):
CATAACACATATAAATTCTAACATTT
Found at i:111537996 original size:24 final size:25
Alignment explanation
Indices: 111537950--111537997 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
111537940 TTTTATTATT
* *
111537950 ATACATTTTATTTATAAATTATATC
1 ATACATTATATTTATAAAATATATC
111537975 ATACATTATATTT-TAAAATATAT
1 ATACATTATATTTATAAAATATAT
111537998 ATTATTCCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (25 bp):
ATACATTATATTTATAAAATATATC
Found at i:111538180 original size:23 final size:21
Alignment explanation
Indices: 111538139--111538191 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
111538129 TATATGATAG
*
111538139 TATTTATATTTCATTATATTT
1 TATTTATATTTCATTATATTA
111538160 TATTTATATATT-ATTACATATTA
1 TATTTATAT-TTCATT--ATATTA
111538183 TATTT-TATT
1 TATTTATATT
111538192 ATATATTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
21 13 0.46
22 5 0.18
23 10 0.36
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTTATATTTCATTATATTA
Found at i:111538185 original size:17 final size:17
Alignment explanation
Indices: 111538163--111538200 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
111538153 TATATTTTAT
111538163 TTATATATTATTACATA
1 TTATATATTATTACATA
* *
111538180 TTATATTTTATTATATA
1 TTATATATTATTACATA
111538197 TTAT
1 TTAT
111538201 TCTTTATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATATATTATTACATA
Found at i:111538191 original size:10 final size:10
Alignment explanation
Indices: 111538142--111538201 Score: 54
Period size: 10 Copynumber: 6.2 Consensus size: 10
111538132 ATGATAGTAT
*
111538142 TTATATTTCA
1 TTATATTTTA
111538152 TTATATTTTA
1 TTATATTTTA
*
111538162 TTTATATATTA
1 -TTATATTTTA
*
111538173 TTACA---TA
1 TTATATTTTA
111538180 TTATATTTTA
1 TTATATTTTA
*
111538190 TTATATATTA
1 TTATATTTTA
111538200 TT
1 TT
111538202 CTTTATAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
7 6 0.15
10 26 0.63
11 9 0.22
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (10 bp):
TTATATTTTA
Found at i:111538206 original size:17 final size:16
Alignment explanation
Indices: 111538170--111538233 Score: 65
Period size: 17 Copynumber: 3.9 Consensus size: 16
111538160 TATTTATATA
*
111538170 TTATTACATATTATATT
1 TTATTATATATTAT-TT
111538187 TTATTATATATTATTCT
1 TTATTATATATTATT-T
* * **
111538204 TTATAATATCTTCCTT
1 TTATTATATATTATTT
111538220 TTATTATATATTAT
1 TTATTATATATTAT
111538234 ATTATATACA
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
16 12 0.32
17 25 0.68
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATTATATATTATTT
Found at i:111538241 original size:2 final size:2
Alignment explanation
Indices: 111538224--111538277 Score: 53
Period size: 2 Copynumber: 28.5 Consensus size: 2
111538214 TTCCTTTTAT
*
111538224 TA TA TA T- TA TA T- TA TA TA CA T- TA TA TA TA TA TA TA TA GTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
*
111538264 -A TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA T
111538278 TACTTATCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
1 4 0.09
2 37 0.86
3 2 0.05
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:111538246 original size:21 final size:19
Alignment explanation
Indices: 111538222--111538260 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
111538212 TCTTCCTTTT
111538222 ATTATATATTATATTATATAC
1 ATTATATA-TATA-TATATAC
111538243 ATTATATATATATATATA
1 ATTATATATATATATATA
111538261 GTAATATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 4 0.22
21 8 0.44
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTATATATATATATATAC
Found at i:111542944 original size:46 final size:46
Alignment explanation
Indices: 111542889--111543069 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
111542879 TAGGATGGTT
111542889 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
111542935 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
111542981 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
111543028 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
111543070 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:111543050 original size:93 final size:93
Alignment explanation
Indices: 111542891--111543061 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
111542881 GGATGGTTGA
* *
111542891 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
111542956 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
111542984 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
111543049 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
111543062 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:111546058 original size:15 final size:15
Alignment explanation
Indices: 111546019--111546097 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
111546009 GTATCTTGGG
*
111546019 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
111546034 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
111546049 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
111546063 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
111546078 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
111546092 TTTCTT
1 TTTCTT
111546098 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:111546082 original size:29 final size:29
Alignment explanation
Indices: 111546010--111546096 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
111546000 CATAGTATCG
* * * *
111546010 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
111546040 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
111546069 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
111546097 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:111548523 original size:46 final size:46
Alignment explanation
Indices: 111548468--111548648 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
111548458 TAGGATGGTT
111548468 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
111548514 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
111548560 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
111548607 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
111548649 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:111548629 original size:93 final size:93
Alignment explanation
Indices: 111548470--111548640 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
111548460 GGATGGTTGA
* *
111548470 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
111548535 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
111548563 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
111548628 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
111548641 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:111559123 original size:220 final size:219
Alignment explanation
Indices: 111558736--111559172 Score: 680
Period size: 220 Copynumber: 2.0 Consensus size: 219
111558726 AGATCTGACC
* * * * * *
111558736 TTCAAGTGTTTATGTTGAAGCAGGTCCAAGATGATTTGGCATCTCTGTATTGTCAGATAGCAAAT
1 TTCAAGTGTTTACGCTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTGTCAGAGAACAAAT
*
111558801 CGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGTAGATCTAAC
66 CGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAAC
* * *
111558866 TTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTTA-CA-AGGAG
131 CTTCGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATCCTTGCATTTATCAGA-GAG
111558929 CAGATCGAAGACATAACAGATTTGGAT
195 CAGATCGAAG--ATAACAGATTTGGAT
* * *
111558956 TTCACGTGTTTACGCTGAAGTAGATCTAAGATGATTTGGCATCTCTATATTGTCAGAGAACAAAT
1 TTCAAGTGTTTACGCTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTGTCAGAGAACAAAT
111559021 CGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAAC
66 CGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAAC
** *
111559086 CTTCGGATGTTTTTGCATCGAAGCAGATCTAAGATGATTTGGCATCCTTGCATTTATCAGAGAGC
131 CTTCGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATCCTTGCATTTATCAGAGAGC
*
111559151 AGATTGAAGATAACAGATTTGG
196 AGATCGAAGATAACAGATTTGG
111559173 CATCTCTGTA
Statistics
Matches: 198, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
219 13 0.07
220 170 0.86
221 14 0.07
222 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.29
Consensus pattern (219 bp):
TTCAAGTGTTTACGCTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTGTCAGAGAACAAAT
CGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAAC
CTTCGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATCCTTGCATTTATCAGAGAGC
AGATCGAAGATAACAGATTTGGAT
Found at i:111559196 original size:44 final size:44
Alignment explanation
Indices: 111559142--111559261 Score: 204
Period size: 44 Copynumber: 2.7 Consensus size: 44
111559132 CTTGCATTTA
*
111559142 TCAGAGAGCAGATTGAAGATAACAGATTTGGCATCTCTGTATTG
1 TCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTG
*
111559186 TCAGAGAGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTG
1 TCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTG
* *
111559230 TCAGAGAGCGGATCGAAGATAACAGATCTGGC
1 TCAGAGAGCAGATCGAAGATAACAGATTTGGC
111559262 GTTCCTGAGT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 71 1.00
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (44 bp):
TCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTG
Found at i:111560835 original size:25 final size:25
Alignment explanation
Indices: 111560807--111560866 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
111560797 TATATTATTT
*
111560807 TTATATTATACATTTTATTTATA-AA
1 TTATATTATACATTATATTT-TACAA
*
111560832 TTATATCATACATTATATTTTACAA
1 TTATATTATACATTATATTTTACAA
111560857 TATATATTAT
1 T-TATATTAT
111560867 TCCTTACATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.07
25 21 0.70
26 7 0.23
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (25 bp):
TTATATTATACATTATATTTTACAA
Found at i:111560855 original size:12 final size:12
Alignment explanation
Indices: 111560785--111560866 Score: 67
Period size: 12 Copynumber: 6.7 Consensus size: 12
111560775 TTTTATTATA
*
111560785 TATATTATCCAT
1 TATATTATACAT
**
111560797 TATATTAT-TTT
1 TATATTATACAT
111560808 TATATTATACAT
1 TATATTATACAT
* *
111560820 TTTATTTATAAAT
1 TATA-TTATACAT
*
111560833 TATATCATACAT
1 TATATTATACAT
*
111560845 TATATTTTACAAT
1 TATATTATAC-AT
111560858 ATATATTAT
1 -TATATTAT
111560867 TCCTTACATT
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
11 9 0.17
12 26 0.48
13 12 0.22
14 7 0.13
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (12 bp):
TATATTATACAT
Found at i:111561040 original size:21 final size:21
Alignment explanation
Indices: 111561004--111561065 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
111560994 TATATGATAG
111561004 TATTTATAT-TTCATTATATTT
1 TATTTATATATT-ATTATATTT
* *
111561025 TATTTATATATTATTACATAT
1 TATTTATATATTATTATATTT
111561046 TATATT-T-TATTATATATATT
1 TAT-TTATATATTAT-TATATT
111561066 CTTTATAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 6 0.18
21 24 0.71
22 4 0.12
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (21 bp):
TATTTATATATTATTATATTT
Found at i:111561050 original size:17 final size:17
Alignment explanation
Indices: 111561028--111561062 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
111561018 TATATTTTAT
111561028 TTATATATTATTACATA
1 TTATATATTATTACATA
* *
111561045 TTATATTTTATTATATA
1 TTATATATTATTACATA
111561062 T
1 T
111561063 ATTCTTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATATATTATTACATA
Found at i:111561056 original size:10 final size:10
Alignment explanation
Indices: 111561007--111561060 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
111560997 ATGATAGTAT
*
111561007 TTATATTTCA
1 TTATATTTTA
111561017 TTATATTTTA
1 TTATATTTTA
*
111561027 TTTATATATTA
1 -TTATATTTTA
*
111561038 TTACA---TA
1 TTATATTTTA
111561045 TTATATTTTA
1 TTATATTTTA
111561055 TTATAT
1 TTATAT
111561061 ATATTCTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
7 6 0.17
10 21 0.58
11 9 0.25
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (10 bp):
TTATATTTTA
Found at i:111561071 original size:23 final size:23
Alignment explanation
Indices: 111561004--111561072 Score: 70
Period size: 28 Copynumber: 2.9 Consensus size: 23
111560994 TATATGATAG
*
111561004 TATT-TATAT-TTCATTATATTT
1 TATTATATATATTCTTTATATTT
111561025 TATTTATATATTATTACATATTATATTT
1 TA-TTATATA-TATT-C-T-TTATATTT
111561053 TATTATATATATTCTTTATA
1 TATTATATATATTCTTTATA
111561073 ATATCTTCCT
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
21 2 0.05
22 2 0.05
23 9 0.22
24 2 0.05
25 3 0.08
26 5 0.12
27 7 0.17
28 10 0.25
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (23 bp):
TATTATATATATTCTTTATATTT
Found at i:111561102 original size:12 final size:12
Alignment explanation
Indices: 111561085--111561137 Score: 52
Period size: 14 Copynumber: 4.0 Consensus size: 12
111561075 ATCTTCCTTT
111561085 TATTATATATTA
1 TATTATATATTA
*
111561097 TATTATATACATTT
1 TATTATAT--ATTA
111561111 TATATATATATATA
1 TAT-TATATAT-TA
111561125 TATTTATATATTA
1 TA-TTATATATTA
111561138 CTTATCATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
12 8 0.24
13 4 0.12
14 16 0.47
15 6 0.18
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTATATATTA
Found at i:111567158 original size:57 final size:57
Alignment explanation
Indices: 111567095--111567209 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 57
111567085 AAGGAAGAGG
* * *
111567095 AAAATGATCCTTTTTTGTTGTATCGTTTAGCTTTCTGTAATCAATTCATACCTTCCA
1 AAAATGATCCTTTTTTGTCGCATCATTTAGCTTTCTGTAATCAATTCATACCTTCCA
111567152 AAAATGATCCTTTTTTGTCGCATCATTTAGCTTTCTGTAATCAATTCATACCTTCCA
1 AAAATGATCCTTTTTTGTCGCATCATTTAGCTTTCTGTAATCAATTCATACCTTCCA
111567209 A
1 A
111567210 CCATTGACTG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.43
Consensus pattern (57 bp):
AAAATGATCCTTTTTTGTCGCATCATTTAGCTTTCTGTAATCAATTCATACCTTCCA
Found at i:111572251 original size:18 final size:18
Alignment explanation
Indices: 111572228--111572266 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
111572218 GGTGTATGAG
*
111572228 CCACACAGGCGTGTGGAC
1 CCACACAGGCATGTGGAC
* *
111572246 CCACACTGGCATGTGGGC
1 CCACACAGGCATGTGGAC
111572264 CCA
1 CCA
111572267 TAATACTGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.36, G:0.31, T:0.13
Consensus pattern (18 bp):
CCACACAGGCATGTGGAC
Found at i:111581808 original size:40 final size:39
Alignment explanation
Indices: 111581687--111581841 Score: 175
Period size: 39 Copynumber: 3.9 Consensus size: 39
111581677 TGTGTATGAA
* * *
111581687 TGTGCGAATTGTGATATCCGGGCTAAGCCCAAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
111581726 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
111581765 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
111581805 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
111581842 GTTTGAACGA
Statistics
Matches: 98, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 57 0.58
40 41 0.42
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:111601160 original size:11 final size:11
Alignment explanation
Indices: 111601144--111601173 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
111601134 TTATGTTTGG
111601144 ATTTAGTTGAA
1 ATTTAGTTGAA
*
111601155 ATTTAGTTGAG
1 ATTTAGTTGAA
111601166 ATTTAGTT
1 ATTTAGTT
111601174 AGAACTAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (11 bp):
ATTTAGTTGAA
Found at i:111607559 original size:20 final size:20
Alignment explanation
Indices: 111607534--111607575 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
111607524 TCTGTTATTT
* *
111607534 TTTGACGTATAAATGGTAAA
1 TTTGACATATAAATGGAAAA
111607554 TTTGACATATAAATGGAAAA
1 TTTGACATATAAATGGAAAA
111607574 TT
1 TT
111607576 AAGTATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.36
Consensus pattern (20 bp):
TTTGACATATAAATGGAAAA
Found at i:111621956 original size:22 final size:22
Alignment explanation
Indices: 111621907--111621948 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
111621897 AAAAATGTTG
*
111621907 CTATTTTTTTATTGTTTTGCCA
1 CTATTTTTTTATTATTTTGCCA
111621929 CTATTTTTTTATTATTTTGC
1 CTATTTTTTTATTATTTTGC
111621949 TATCATTTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.12, G:0.07, T:0.67
Consensus pattern (22 bp):
CTATTTTTTTATTATTTTGCCA
Found at i:111625650 original size:2 final size:2
Alignment explanation
Indices: 111625645--111625671 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
111625635 TCAAAAAATG
111625645 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
111625672 TATGTGCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:111626398 original size:15 final size:17
Alignment explanation
Indices: 111626364--111626406 Score: 63
Period size: 15 Copynumber: 2.6 Consensus size: 17
111626354 GAGGTTAGGT
*
111626364 TTTTTTCTTTTTCTTCA
1 TTTTTTATTTTTCTTCA
111626381 TTTTTTATTTTT-TT-A
1 TTTTTTATTTTTCTTCA
111626396 TTTTTTATTTT
1 TTTTTTATTTT
111626407 GGGTTGTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 12 0.48
16 2 0.08
17 11 0.44
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTTATTTTTCTTCA
Found at i:111626746 original size:44 final size:44
Alignment explanation
Indices: 111626697--111627409 Score: 1100
Period size: 44 Copynumber: 16.4 Consensus size: 44
111626687 CCCTGTCTAA
* *
111626697 TACAGAGACGCCAAATCCGTTATCTTCGATCTACTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
111626741 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCAC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
111626785 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
111626829 TACAAAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
111626873 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
111626917 TACACAGATGCCAAATC----ATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
111626957 TACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTTCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
111627001 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
111627045 TACAGAGAAGCCAAATCTGCTATCTTCGATCTGCTCTCTGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * * *
111627089 TATAGAGACGTCAAATCTGTTATCTTCGATCTACTCTCCGCTGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
111627133 TATAGAAATGCCAAATC----ATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
111627173 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
111627217 TACAGAGATGCCAAATCTGTTATCTTCGACCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
111627261 TACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCCGTCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
111627305 TACAGAGATGCCAAATTTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* **
111627349 TACAGAGACACCAAATCTGTTATCTTCGATCTGCTCTCTTCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
111627393 TACAGAGACGCCAAATC
1 TACAGAGACGCCAAATC
111627410 ATCTTGGATT
Statistics
Matches: 614, Mismatches: 47, Indels: 16
0.91 0.07 0.02
Matches are distributed among these distances:
40 75 0.12
44 539 0.88
ACGTcount: A:0.22, C:0.33, G:0.17, T:0.28
Consensus pattern (44 bp):
TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
Found at i:111627098 original size:216 final size:216
Alignment explanation
Indices: 111626718--111627409 Score: 1105
Period size: 216 Copynumber: 3.2 Consensus size: 216
111626708 CAAATCCGTT
*
111626718 ATCTTCGATCTACTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
1 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
* *
111626783 ACTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAAAGACGCCAAATCTG
66 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTG
111626848 TTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCG
131 TTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCG
*
111626913 CCGCTACACAGATGCCAAATC
196 CCGCTACAGAGATGCCAAATC
* * *
111626934 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTTCGCC
1 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
*
111626999 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGAAGCCAAATCTG
66 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTG
* * * *
111627064 CTATCTTCGATCTGCTCTCTGCCGCTATAGAGACGTCAAATCTGTTATCTTCGATCTACTCTCCG
131 TTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCG
* * *
111627129 CTGCTATAGAAATGCCAAATC
196 CCGCTACAGAGATGCCAAATC
*
111627150 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
1 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
* * *
111627215 GCTACAGAGATGCCAAATCTGTTATCTTCGACCTGCTCTCCGCCGCTACAGAGACGCCAAATCTA
66 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTG
* * * *
111627280 TTATCTTCGATCTGCTCTCCGTCGCTACAGAGATGCCAAATTTGTTATCTTCGATCTGCTCTCCG
131 TTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCG
**
111627345 CCGCTACAGAGACACCAAATC
196 CCGCTACAGAGATGCCAAATC
**
111627366 TGTTATCTTCGATCTGCTCTCTTCCGCTACAGAGACGCCAAATC
1 ----ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC
111627410 ATCTTGGATT
Statistics
Matches: 435, Mismatches: 37, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
216 398 0.91
220 37 0.09
ACGTcount: A:0.22, C:0.33, G:0.17, T:0.29
Consensus pattern (216 bp):
ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTG
TTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCG
CCGCTACAGAGATGCCAAATC
Found at i:111627735 original size:61 final size:64
Alignment explanation
Indices: 111627616--111627738 Score: 182
Period size: 61 Copynumber: 2.0 Consensus size: 64
111627606 TCATGTATCC
111627616 ATGCTTATGCCAAATAATTAGGATGGTATGATTGAAATGAATCAAATACTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATGGTATGATTGAAATGAATCAAATACTCCTAACTAAATGTG
* **
111627680 ATGCTTTATGTCAAATAATTAGGAT-GT-T-A-TGAAATGAATCAAATGTTCCTAACTAAATG
1 ATGC-TTATGCCAAATAATTAGGATGGTATGATTGAAATGAATCAAATACTCCTAACTAAATG
111627739 AATGGTTGTG
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
61 28 0.51
62 1 0.02
63 1 0.02
64 6 0.11
65 19 0.35
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.33
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGGTATGATTGAAATGAATCAAATACTCCTAACTAAATGTG
Found at i:111640515 original size:19 final size:19
Alignment explanation
Indices: 111640491--111640529 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
111640481 ATATATATGT
111640491 ATAAAATAA-AGAAAATAAA
1 ATAAAATAACA-AAAATAAA
111640510 ATAAAATAACAAAAATAAA
1 ATAAAATAACAAAAATAAA
111640529 A
1 A
111640530 AATGAACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (19 bp):
ATAAAATAACAAAAATAAA
Found at i:111640816 original size:15 final size:17
Alignment explanation
Indices: 111640782--111640824 Score: 63
Period size: 15 Copynumber: 2.6 Consensus size: 17
111640772 GATGTTAGAT
*
111640782 TTTTTTCTTTTTCTTCA
1 TTTTTTATTTTTCTTCA
111640799 TTTTTTATTTTT-TT-A
1 TTTTTTATTTTTCTTCA
111640814 TTTTTTATTTT
1 TTTTTTATTTT
111640825 AGGTTGTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 12 0.48
16 2 0.08
17 11 0.44
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTTATTTTTCTTCA
Found at i:111646008 original size:9 final size:9
Alignment explanation
Indices: 111645994--111646023 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
111645984 TCTACTCACT
111645994 CTCCCTCCC
1 CTCCCTCCC
111646003 CTCCCTCCC
1 CTCCCTCCC
111646012 CTCCCCTCCC
1 CT-CCCTCCC
111646022 CT
1 CT
111646024 TCATGCCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.00, C:0.77, G:0.00, T:0.23
Consensus pattern (9 bp):
CTCCCTCCC
Found at i:111647371 original size:3 final size:3
Alignment explanation
Indices: 111647363--111647450 Score: 106
Period size: 3 Copynumber: 29.0 Consensus size: 3
111647353 AAATAGCTTA
*
111647363 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
111647411 GAT AAT GAT AAT GAT AAT ATT AAT -AT AAAT AAT AAGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AA-T AAT
111647451 CTAAAACTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
2 2 0.03
3 65 0.90
4 5 0.07
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:111647561 original size:2 final size:2
Alignment explanation
Indices: 111647554--111647582 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
111647544 AAATGATGTA
111647554 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 A
111647583 ATGGAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:111647749 original size:3 final size:3
Alignment explanation
Indices: 111647743--111647952 Score: 121
Period size: 3 Copynumber: 69.7 Consensus size: 3
111647733 GTTTTAAAAA
* * *
111647743 AAT AAT AAT AAT AAT TAT AAAT AAT AAT AAT AAT AAT AGT AAT AAA
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
111647789 AAGGT AA- AA- AAT AAT AA- AAT AAT AAA AAT ACT ATT ACGTT ACT ACT
1 AA--T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT AAT
* * * *
111647835 AAT AAT AAT AA- AA- AAG AA- AAC AAT AAT -AT TAT ATAG AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * *
111647877 AGT AA- AAGT AAT AAAT AAT AAT AAT AAT AAT AAT AGT AAT AAA AAT
1 AAT AAT AA-T AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
111647923 AAT AAT AAT ATAT AAC AAT AAT AAA AAT AA
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AA
111647953 CATTCTCCTC
Statistics
Matches: 166, Mismatches: 26, Indels: 30
0.75 0.12 0.14
Matches are distributed among these distances:
2 16 0.10
3 133 0.80
4 12 0.07
5 5 0.03
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:111647894 original size:34 final size:34
Alignment explanation
Indices: 111647851--111647945 Score: 106
Period size: 34 Copynumber: 2.8 Consensus size: 34
111647841 AATAAAAAAG
* * *
111647851 AAAACAATAATATTATAT-AGAATAATAGTAA-A
1 AAAATAATAATAATATATAACAATAATAGTAATA
* *
111647883 AGTAATAAATAATAATA-ATAATAATAATAGTAATA
1 A-AAAT-AATAATAATATATAACAATAATAGTAATA
111647918 AAAATAATAATAATATATAACAATAATA
1 AAAATAATAATAATATATAACAATAATA
111647946 AAAATAACAT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
32 1 0.02
33 14 0.27
34 35 0.67
35 2 0.04
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (34 bp):
AAAATAATAATAATATATAACAATAATAGTAATA
Found at i:111648941 original size:132 final size:132
Alignment explanation
Indices: 111648703--111649275 Score: 647
Period size: 132 Copynumber: 4.4 Consensus size: 132
111648693 ATATACTCTG
* * * * * * *
111648703 CTACTGCTGAGAGAGATAAGATCTATAATCTTCGGCCTG-TTCACTGCTACTCAAAGAGATAAGG
1 CTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTGCTCAAGGAGATAAGG
* * * * *
111648767 CTAGTCGCTTACATCTGCTTCCCTACTACC-CTGGGAAAATAAGATTCGCCGTCTTTGATTTGCT
66 CTAGTGGCTTAAATCTGCTTCCCTACTACCTC-GGGAAGATAAGATTCGCCGTCTTCGATCTGCT
111648831 CCA
130 CCA
*
111648834 CTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCAATGCTGCTCAAGGAGATAAGG
1 CTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTGCTCAAGGAGATAAGG
* * ** * *
111648899 CTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAATATAAGATTCGTTGTCTTTGATCTACTC
66 CTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCGTCTTCGATCTGCTC
111648964 CA
131 CA
* * ** *
111648966 CTACTACTTAGGGAGATAAGACCTACAATCTTCAGCCTGCT-CACTGTTGCTC-AGAGAGATAAG
1 CTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTGCTCAAG-GAGATAAG
* * * *
111649029 TCTAGTGGCTTAAATTTGCTTCCCTACTACCTCAGGAAGATAAGATTCACCGTCTTCGATCTGCT
65 GCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCGTCTTCGATCTGCT
*
111649094 GCA
130 CCA
** * *
111649097 CTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGTTTGCTCCACTGCTGCTTAAGGAGATCAGG
1 CTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTGCTCAAGGAGATAAGG
* * ** ** *
111649162 CTGGTGGCTTAAATCTGC-TCCATTGT-CGCTATATGG-AGATAAGATTTGCCGTCTTCGATCTG
66 CTAGTGGCTTAAATCTGCTTCCCTACTAC-C--TCGGGAAGATAAGATTCGCCGTCTTCGATCTG
*
111649224 TTCCA
128 CTCCA
* * * *
111649229 CTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTGCTCTACTG
1 CTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTG
111649276 TAACTTCAGG
Statistics
Matches: 376, Mismatches: 58, Indels: 15
0.84 0.13 0.03
Matches are distributed among these distances:
130 3 0.01
131 150 0.40
132 217 0.58
133 6 0.02
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (132 bp):
CTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTGCTCAAGGAGATAAGG
CTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCGTCTTCGATCTGCTC
CA
Found at i:111649129 original size:44 final size:43
Alignment explanation
Indices: 111648817--111649253 Score: 140
Period size: 44 Copynumber: 10.0 Consensus size: 43
111648807 AAGATTCGCC
* *
111648817 GTCTTTGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
* * * * * * *
111648860 AATCTTC-AGCCTGCTCCAATGCTGCTCAAGGAGATAAG-GCTGGT
1 -GTCTTCGA-TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GT
* ** * * * *
111648904 GGCTTAAATCTGCTTCC-CTACTACCTCGGGAATATAAGAT-TCGTT
1 GTCTTCGATCTGC-TCCACTACTGCTTAGGG-AGATAAGATCT-G-T
* * * * **
111648949 GTCTTTGATCTACTCCACTACTACTTAGGGAGATAAGACCTACA
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GT
* * ** * *
111648993 ATCTTC-AGCCTGCT-CACTGTTGCTCAGAGAGATAAG-TCTAGT
1 GTCTTCGA-TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GT
* ** * * * * ***
111649035 GGCTTAAATTTGCTTCC-CTACTACCTCAGGAAGATAAGATTCACC
1 GTCTTCGATCTGC-TCCACTACT-GCTTAGGGAGATAAGA-TCTGT
*
111649080 GTCTTCGATCTGCTGCACTACTGCTTAGGGAGATAAGATCTGT
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
* * * * * *
111649123 AATCTTC-AGTTTGCTCCACTGCTGCTTAAGGAGATCAG-GCTGGT
1 -GTCTTCGA-TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GT
* ** ** * * *
111649167 GGCTTAAATCTGCTCCA-TTGTCGCTATATGGAGATAAGATTTGCC
1 GTCTTCGATCTGCTCCACTACT-GCT-TAGGGAGATAAGATCTG-T
*
111649212 GTCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTG
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
111649254 CAATTTTCAG
Statistics
Matches: 271, Mismatches: 96, Indels: 52
0.65 0.23 0.12
Matches are distributed among these distances:
42 11 0.04
43 58 0.21
44 145 0.54
45 53 0.20
46 4 0.01
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.32
Consensus pattern (43 bp):
GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
Found at i:111649206 original size:263 final size:263
Alignment explanation
Indices: 111648688--111649276 Score: 709
Period size: 263 Copynumber: 2.2 Consensus size: 263
111648678 AGATTTGTAG
* ** * * * * * * *
111648688 CTTCGATATACTCTGCTACTGCTGAGAGAGATAAGATCTATAATCTTCGGCCTGTTCACTGCTAC
1 CTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCACTGTTAC
* * *
111648753 TCAAAGAGATAAGGCTAGTCGCTTACATCTGCTTCCCTACTACCCTGGGAAAATAAGATTCGCCG
66 TCAAAGAGATAAGGCTAGTCGCTTAAATCTGCTTCCCTACTACCCTAGGAAAATAAGATTCACCG
* *
111648818 TCTTTGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCAATGCT
131 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCAATGCT
* * * *
111648883 GCTCAAGGAGATAAGGCTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAATATAAGATTCGT
196 GCTCAAGGAGATAAGGCTGGTGGCTTAAATCTGCTTCCATACTACCTAGGGAAGATAAGATTCGC
*
111648948 TGT
261 CGT
* * *
111648951 CTTTGATCTACTCCACTACTACTTAGGGAGATAAGACCTACAATCTTCAGCCTGCTCACTGTTGC
1 CTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCACTGTTAC
* * * * *
111649016 TCAGAGAGATAAGTCTAGTGGCTTAAATTTGCTTCCCTACTA-CCTCAGGAAGATAAGATTCACC
66 TCAAAGAGATAAGGCTAGTCGCTTAAATCTGCTTCCCTACTACCCT-AGGAAAATAAGATTCACC
* ** *
111649080 GTCTTCGATCTGCTGCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGTTTGCTCCACTGC
130 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCAATGC
* * ** *
111649145 TGCTTAAGGAGATCAGGCTGGTGGCTTAAATCTGC-TCCATTGT-CGCTATATGG-AGATAAGAT
195 TGCTCAAGGAGATAAGGCTGGTGGCTTAAATCTGCTTCCATACTAC-C--TAGGGAAGATAAGAT
*
111649207 TTGCCGT
257 TCGCCGT
** * * * *
111649214 CTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTGCTCTACTGT
1 CTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTC-ACTGT
111649277 AACTTCAGGG
Statistics
Matches: 275, Mismatches: 46, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
261 1 0.00
262 9 0.03
263 257 0.93
264 8 0.03
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (263 bp):
CTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCACTGTTAC
TCAAAGAGATAAGGCTAGTCGCTTAAATCTGCTTCCCTACTACCCTAGGAAAATAAGATTCACCG
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCAATGCT
GCTCAAGGAGATAAGGCTGGTGGCTTAAATCTGCTTCCATACTACCTAGGGAAGATAAGATTCGC
CGT
Found at i:111649293 original size:45 final size:44
Alignment explanation
Indices: 111649238--111649336 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
111649228 ACTACTGCTT
* ** *
111649238 AGGGAGATAAGA-TCTGCAATTTTCAGTCTGCTCTACTGTAACTTC
1 AGGGAGATAAGACT-TG-AATCTTCAACCTGCTCTACTGCAACTTC
* *
111649283 AGGGAGATAAGACTTGTATCTTGAACCTGCTCTACTGCAACTTC
1 AGGGAGATAAGACTTGAATCTTCAACCTGCTCTACTGCAACTTC
111649327 AGGGAGATAA
1 AGGGAGATAA
111649337 TGCTGGTTGC
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 32 0.68
45 14 0.30
46 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
AGGGAGATAAGACTTGAATCTTCAACCTGCTCTACTGCAACTTC
Found at i:111649357 original size:44 final size:44
Alignment explanation
Indices: 111649264--111649360 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
111649254 CAATTTTCAG
* * *
111649264 TCTGCTCTACTGTAACTTCAGGGAGATAAGACTTGTATCTTGAA
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGACTGGTATCTTAAA
*
111649308 CCTGCTCTACTGCAACTTCAGGGAGATAATG-CTGGT-TGCTTAAA
1 TCTGCTCTACTGCAACTTCAGGGAGATAA-GACTGGTAT-CTTAAA
111649352 TCTGCTCTA
1 TCTGCTCTA
111649361 TTGCCGCTAC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
43 1 0.02
44 44 0.96
45 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.33
Consensus pattern (44 bp):
TCTGCTCTACTGCAACTTCAGGGAGATAAGACTGGTATCTTAAA
Found at i:111649423 original size:88 final size:88
Alignment explanation
Indices: 111649108--111649425 Score: 220
Period size: 88 Copynumber: 3.6 Consensus size: 88
111649098 TACTGCTTAG
* ** * * * * *
111649108 GGAGATAAGATCTGTAATCTTC-AGTTTGCTCCACTGCTGCTTAA-GGAGATCAGGCTGGTGGCT
1 GGAGATAAGATTTGTCGTCTTCGA-TCTGCTCCACTACTACTTAAGGGAGAT-AAGCTGGTTGCT
* *
111649171 TAAATCTGCTCCATTGTCGCTATAT
64 TAAATCTGCTCTATTGTCGCTACAT
* * * *
111649196 GGAGATAAGATTTGCCGTCTTCGATCTGTTCCACTACTGCTT-AGGGAGATAAGATCTGCAATT-
1 GGAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTACTTAAGGGAGATAAG--CTG--GTTG
* * * ** * *
111649259 -TTCAGTCTGCTCTACTGTAACTTCAG
62 CTTAAATCTGCTCTATTGTCGCTACAT
* * * * * * *
111649285 GGAGATAAGACTTGT-ATCTT-GAACCTGCTCTACTGCAACTTCAGGGAGATAATGCTGGTTGCT
1 GGAGATAAGATTTGTCGTCTTCG-ATCTGCTCCACTACTACTTAAGGGAGATAA-GCTGGTTGCT
*
111649348 TAAATCTGCTCTATTGCCGCTACAT
64 TAAATCTGCTCTATTGTCGCTACAT
* * *
111649373 AGAGATAAGATTTGTCGTTTTCGATCTGCTCCACTACTACTT-AGGAAGATAAG
1 GGAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTACTTAAGGGAGATAAG
111649426 ATCTGTGAAT
Statistics
Matches: 171, Mismatches: 46, Indels: 27
0.70 0.19 0.11
Matches are distributed among these distances:
86 2 0.01
87 5 0.03
88 99 0.58
89 62 0.36
90 2 0.01
91 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (88 bp):
GGAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTACTTAAGGGAGATAAGCTGGTTGCTTA
AATCTGCTCTATTGTCGCTACAT
Found at i:111649872 original size:46 final size:46
Alignment explanation
Indices: 111649766--111649876 Score: 132
Period size: 46 Copynumber: 2.4 Consensus size: 46
111649756 GGGAGATAAA
* * * *
111649766 ATTTGTAGTTTCTTCTATCTATCCCACTGCAACTAAGGGGTATAGG
1 ATTTGTAGCTTCTTCAATCTATCCCACTACAACTAAGGGATATAGG
* * * * *
111649812 ATTTGTATCATCTTCAATTTATCCCACTATAACTCAGGGATATAGG
1 ATTTGTAGCTTCTTCAATCTATCCCACTACAACTAAGGGATATAGG
*
111649858 ATTTGTGGCTTCTTCAATC
1 ATTTGTAGCTTCTTCAATC
111649877 AATTGATCTG
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (46 bp):
ATTTGTAGCTTCTTCAATCTATCCCACTACAACTAAGGGATATAGG
Found at i:111650662 original size:13 final size:13
Alignment explanation
Indices: 111650644--111650668 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
111650634 GGCCTCTCCT
111650644 TTTTCTTTTTTTC
1 TTTTCTTTTTTTC
111650657 TTTTCTTTTTTT
1 TTTTCTTTTTTT
111650669 GTGTTTTTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:111650675 original size:22 final size:24
Alignment explanation
Indices: 111650649--111650693 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
111650639 CTCCTTTTTC
*
111650649 TTTTTTTCTT-TTCTTTTTTTGTG
1 TTTTTTCCTTCTTCTTTTTTTGTG
111650672 TTTTTTCCTTCTTCTTTTTTTG
1 TTTTTTCCTTCTTCTTTTTTTG
111650694 AAACTTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.00, C:0.13, G:0.07, T:0.80
Consensus pattern (24 bp):
TTTTTTCCTTCTTCTTTTTTTGTG
Found at i:111654486 original size:230 final size:233
Alignment explanation
Indices: 111654079--111654530 Score: 754
Period size: 230 Copynumber: 1.9 Consensus size: 233
111654069 GATGTAATGC
* * *
111654079 AATGCTAATGCATGGAATGAATGCAAAAAAAAAGAAGAAAGAAAAGCGTTGATTTTGAATTCAAT
1 AATGCTAATGCATGGAATGAATACAAAAAAAAAGAAG-AAGAAAAGCGTTGATTCTGAATACAAT
111654144 TCTATTAGAACAACTTTTCTAGAAAACAAATTCATTTACATAAAACGAATTACATATGCGGCCCT
65 TCTATTAGAACAACTTTTCTAGAAAACAAATTCATTTACATAAAACGAATTACATATGCGGCCCT
*
111654209 ACCTTCATATTCCAGGCGAAGACACCGATCCTTTCCTTCTTAAAAGTCAAATCTCGCAAACTT-T
130 ACCTTCATATTCCAGGCGAAGACACCAATCCTTTCCTTCTTAAAAGTCAAATCTCGCAAACTTCT
*
111654273 CAATAGATGTCTCCACTAGCTCTTTTTTACAAAAGGATGA
195 -AATAGATGTCTCCACTAGCTCCTTTTTACAAAAGGATGA
*
111654313 AATGCTAATGCATGGAATGAATAC-AAAAAAAAGAAG-A-AAAGGCGTTGATTCTGAATACAATT
1 AATGCTAATGCATGGAATGAATACAAAAAAAAAGAAGAAGAAAAGCGTTGATTCTGAATACAATT
*
111654375 CTATTAGAACAACTTTTCTAGAAAATAAATTTC-TTTACAT-AAACGAATTACATATGCGGCCCT
66 CTATTAGAACAACTTTTCTAGAAAACAAA-TTCATTTACATAAAACGAATTACATATGCGGCCCT
*
111654438 GCCTTCATATTCCAGGCGAAGACACCAATCCCTTTCCTTCTTAAAAGTCAAATCTCGCAAACTTC
130 ACCTTCATATTCCAGGCGAAGACACCAAT-CCTTTCCTTCTTAAAAGTCAAATCTCGCAAACTTC
111654503 TAATAGATGTCTCCACTAGCTCCTTTTT
194 TAATAGATGTCTCCACTAGCTCCTTTTT
111654531 GCTTGATCTA
Statistics
Matches: 207, Mismatches: 8, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
229 50 0.24
230 117 0.57
231 5 0.02
233 12 0.06
234 23 0.11
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.29
Consensus pattern (233 bp):
AATGCTAATGCATGGAATGAATACAAAAAAAAAGAAGAAGAAAAGCGTTGATTCTGAATACAATT
CTATTAGAACAACTTTTCTAGAAAACAAATTCATTTACATAAAACGAATTACATATGCGGCCCTA
CCTTCATATTCCAGGCGAAGACACCAATCCTTTCCTTCTTAAAAGTCAAATCTCGCAAACTTCTA
ATAGATGTCTCCACTAGCTCCTTTTTACAAAAGGATGA
Found at i:111656257 original size:3 final size:3
Alignment explanation
Indices: 111656249--111656310 Score: 99
Period size: 3 Copynumber: 20.7 Consensus size: 3
111656239 AATAGCTTAA
*
111656249 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
111656297 AAT -AT AAAT AAT AA
1 AAT AAT -AAT AAT AA
111656311 AATCTAAAGC
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
2 2 0.04
3 51 0.93
4 2 0.04
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:111656424 original size:2 final size:2
Alignment explanation
Indices: 111656417--111656447 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
111656407 AAATGATGTA
111656417 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
111656448 ATGGAATAAT
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:111660446 original size:41 final size:41
Alignment explanation
Indices: 111660389--111660472 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
111660379 TTGGTGTAAT
111660389 TTGGATTGGAGATTTCGGTCAATCTAATATATACCGGAAAA
1 TTGGATTGGAGATTTCGGTCAATCTAATATATACCGGAAAA
111660430 TTGGATTGGAGATTTCGGTCAATCTAATATATACCGGAAAA
1 TTGGATTGGAGATTTCGGTCAATCTAATATATACCGGAAAA
111660471 TT
1 TT
111660473 CTATGACAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (41 bp):
TTGGATTGGAGATTTCGGTCAATCTAATATATACCGGAAAA
Found at i:111667460 original size:47 final size:48
Alignment explanation
Indices: 111667390--111667662 Score: 260
Period size: 46 Copynumber: 5.8 Consensus size: 48
111667380 AGGTAAGGTA
*
111667390 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTC-AAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCGAAG
* * * *
111667437 TCGATGCCATGTCCCAAACATGGTCTTACACTGACT-ATCATCTCGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-CATCTCGAAG
* * *
111667485 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCGAAG
* * * * *
111667531 CCGATG-CATGTCCTAGACAT-GTCTTACACTAGCTCCCGTCTC-AATA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCGAA-G
* * * * **
111667577 CCGATGCCATGTCCCAGACATGGTCTTAAACTGGTTCTCATAAT-GTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-CTCGAAG
* *
111667625 CCGATG-CATGTCCTAGACAT-GTCTTACACTAGCTCACA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACA
111667663 CTCAAATGAC
Statistics
Matches: 186, Mismatches: 32, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 79 0.42
47 78 0.42
48 27 0.15
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCGAAG
Found at i:111667527 original size:46 final size:48
Alignment explanation
Indices: 111667390--111667654 Score: 239
Period size: 47 Copynumber: 5.7 Consensus size: 48
111667380 AGGTAAGGTA
* * *
111667390 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTC-AAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTAG
* * *
111667437 TCGATGCCATGTCCCAAACATGGTCTTACACTGAC-TATCATCTCGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-CATCTCGTAG
*
111667485 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCG-AGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTA-G
* * ** * *
111667531 CCGATG-CATGTCCTAGACAT-GTCTTACACTAGCTCCCGTCTCAATA-
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTC-GTAG
* * * *
111667577 CCGATGCCATGTCCCAGACATGGTCTTAAACTGG-TTCTCATAAT-GTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTT-ACAT-CTCGTAG
*
111667625 CCGATG-CATGTCCTAGACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
111667655 AGCTCACACT
Statistics
Matches: 181, Mismatches: 26, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
45 1 0.01
46 73 0.40
47 80 0.44
48 26 0.14
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTAG
Found at i:111667636 original size:94 final size:92
Alignment explanation
Indices: 111667388--111667659 Score: 288
Period size: 94 Copynumber: 2.9 Consensus size: 92
111667378 GTAGGTAAGG
* * *
111667388 TACCGATGCCATGTCCCAGACATGGTCTTACACTGG--CTCATATCTCAAGTCGATGCCATGTCC
1 TACCGATGCCATGTCCCAGACATGGTCTTACACTGGTTCTCATATGT--GGCCGATG-CATGTCC
* * ** *
111667451 CAAACATGGTCTTACACT-GACTATCATCTCG
63 TAGACAT-GTCTTACACTAG-CTCCCATCTCA
* *
111667482 TAGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTC-T-CGAGGCCGATGCATGTC
1 TA-CCGATGCCATGTCCCAGACATGGTCTTACACTGG-TT-C-TCATATGTGGCCGATGCATGTC
*
111667543 CTAGACATGTCTTACACTAGCTCCCGTCTCAA
62 CTAGACATGTCTTACACTAGCTCCCATCTC-A
*
111667575 TACCGATGCCATGTCCCAGACATGGTCTTAAACTGGTTCTCATAATGTGGCCGATGCATGTCCTA
1 TACCGATGCCATGTCCCAGACATGGTCTTACACTGGTTCTCAT-ATGTGGCCGATGCATGTCCTA
111667640 GACATGTCTTACACTAGCTC
65 GACATGTCTTACACTAGCTC
111667660 ACACTCAAAT
Statistics
Matches: 151, Mismatches: 14, Indels: 26
0.79 0.07 0.14
Matches are distributed among these distances:
91 2 0.01
92 25 0.17
93 43 0.28
94 71 0.47
95 6 0.04
97 2 0.01
98 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (92 bp):
TACCGATGCCATGTCCCAGACATGGTCTTACACTGGTTCTCATATGTGGCCGATGCATGTCCTAG
ACATGTCTTACACTAGCTCCCATCTCA
Found at i:111667649 original size:140 final size:141
Alignment explanation
Indices: 111667390--111667654 Score: 358
Period size: 140 Copynumber: 1.9 Consensus size: 141
111667380 AGGTAAGGTA
* *
111667390 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAAA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGTCGATGCCATGTCCCAAA
* *
111667455 CATGGTCTTACACTGACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTT
66 CATGGTCTTAAACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTT
111667520 ACGTCTCGAGG
131 ACGTCTCGAGG
* * *
111667531 CCGATG-CATGTCCTAGACAT-GTCTTACACTAGCTCCCGTCTCAA-TACCGATGCCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGT--CGATGCCATGTCCCA
* ** * * *
111667593 GACATGGTCTTAAACTGGTTCTCATAAT-GTGGCCGATGCATGTCCTAGACATGTCTTACACT
64 AACATGGTCTTAAACTGACTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTACACT
111667655 AGCTCACACT
Statistics
Matches: 108, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
138 1 0.01
139 20 0.19
140 80 0.74
141 7 0.06
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (141 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGTCGATGCCATGTCCCAAA
CATGGTCTTAAACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTT
ACGTCTCGAGG
Found at i:111673468 original size:47 final size:46
Alignment explanation
Indices: 111673362--111673627 Score: 195
Period size: 47 Copynumber: 5.7 Consensus size: 46
111673352 TAGGTAAGGT
* *
111673362 GCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCA-TATCTTCA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCT-ATTATCTTGA
* * * *
111673409 GTCAATGCCATGTACCAAACATGGTCTTACACTGGCTATTATCTTGTA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTATTATCTTG-A
* *
111673457 GCCGATG-CATGTCCCAGACATGTCTTATACTGGCT-TATGTCTTGA
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTAT-TATCTTGA
* * * ** **
111673502 GGCCGATG-CATGCCCCAGACATGTCTTACACTAGCTCTCGTCTCAA
1 -GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTATTATCTTGA
* * * * *
111673548 TGTCGATGCCATGTCCCAGACATCATCTTA-AGCTGGCTCTCATAATGTG-
1 -GCCGATGCCATGTCCCAGACAT-GTCTTACA-CTGGCTATTAT-CT-TGA
*
111673597 GCCGATG-CATGTCCTAGACATGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGTCTTACACT
111673628 AGCTCACACT
Statistics
Matches: 178, Mismatches: 30, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
45 2 0.01
46 70 0.39
47 79 0.44
48 26 0.15
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTATTATCTTGA
Found at i:111673524 original size:93 final size:94
Alignment explanation
Indices: 111673362--111673533 Score: 215
Period size: 93 Copynumber: 1.8 Consensus size: 94
111673352 TAGGTAAGGT
* *
111673362 GCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCATATCTTCAGTCAATGCCATGTACCAA
1 GCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCATATCTTCAGCCAATGCCATGCACCAA
111673427 ACATGGTCTTACACTGGCTATTATCTTGTA
66 ACAT-GTCTTACACTGGCTATTATCTTGTA
* * * * * * *
111673457 GCCGATG-CATGTCCCAGACAT-GTCTTATACTGGCTTATGTCTTGAGGCCGATG-CATGCCCCA
1 GCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCATATCTTCA-GCCAATGCCATGCACCA
*
111673519 GACATGTCTTACACT
65 AACATGTCTTACACT
111673534 AGCTCTCGTC
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
92 10 0.15
93 31 0.47
94 18 0.27
95 7 0.11
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (94 bp):
GCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCATATCTTCAGCCAATGCCATGCACCAA
ACATGTCTTACACTGGCTATTATCTTGTA
Found at i:111680774 original size:30 final size:30
Alignment explanation
Indices: 111680720--111680777 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
111680710 CACGGCCATG
* *
111680720 ACACACGGGCATGTGGTCTGCCCGTGTGTC
1 ACACACGGGCATGTGGGCTACCCGTGTGTC
111680750 ACACACGGGCATGTGGAGC-ACCCGTGTG
1 ACACACGGGCATGTGG-GCTACCCGTGTG
111680778 GAAGTGCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.17, C:0.29, G:0.34, T:0.19
Consensus pattern (30 bp):
ACACACGGGCATGTGGGCTACCCGTGTGTC
Found at i:111682394 original size:45 final size:45
Alignment explanation
Indices: 111682329--111682419 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
111682319 ATGTACAAAG
111682329 ATATATAATATTAATATAAGCATAATATCAAAAGAAATGGAGAAA
1 ATATATAATATTAATATAAGCATAATATCAAAAGAAATGGAGAAA
*
111682374 ATATATAATATTAATGTAAGCATAATATCAAAAGAAATGGAGAAA
1 ATATATAATATTAATATAAGCATAATATCAAAAGAAATGGAGAAA
111682419 A
1 A
111682420 GCGAAACTAC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.57, C:0.04, G:0.12, T:0.26
Consensus pattern (45 bp):
ATATATAATATTAATATAAGCATAATATCAAAAGAAATGGAGAAA
Found at i:111682634 original size:11 final size:11
Alignment explanation
Indices: 111682616--111682670 Score: 58
Period size: 12 Copynumber: 4.8 Consensus size: 11
111682606 CTTCAAAAAT
111682616 AAATAAAA-GA
1 AAATAAAATGA
111682626 AAGATAAAATGA
1 AA-ATAAAATGA
*
111682638 AAATAAAGATAA
1 AAATAAA-ATGA
*
111682650 AAATAAAAATAA
1 AAAT-AAAATGA
111682662 AAATAAAAT
1 AAATAAAAT
111682671 AGATGGACTC
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
10 2 0.05
11 16 0.40
12 19 0.47
13 3 0.08
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.16
Consensus pattern (11 bp):
AAATAAAATGA
Found at i:111682645 original size:17 final size:16
Alignment explanation
Indices: 111682616--111682671 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 16
111682606 CTTCAAAAAT
*
111682616 AAATAAAAGAAAGATA
1 AAATAAAATAAAGATA
111682632 AAATGAAAATAAAGATAA
1 AAAT-AAAATAAAGAT-A
*
111682650 AAATAAAAATAAAAATA
1 AAAT-AAAATAAAGATA
111682667 AAATA
1 AAATA
111682672 GATGGACTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
16 5 0.14
17 15 0.43
18 15 0.43
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (16 bp):
AAATAAAATAAAGATA
Found at i:111682649 original size:6 final size:6
Alignment explanation
Indices: 111682631--111682669 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
111682621 AAAGAAAGAT
* *
111682631 AAAATG AAAATA AAGATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
111682670 TAGATGGACT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:111682652 original size:12 final size:11
Alignment explanation
Indices: 111682616--111682671 Score: 67
Period size: 11 Copynumber: 4.9 Consensus size: 11
111682606 CTTCAAAAAT
*
111682616 AAATAAAAGAA
1 AAATAAAATAA
* *
111682627 AGATAAAATGA
1 AAATAAAATAA
111682638 AAATAAAGATAA
1 AAATAAA-ATAA
111682650 AAATAAAAATAA
1 AAAT-AAAATAA
111682662 AAATAAAATA
1 AAATAAAATA
111682672 GATGGACTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
11 20 0.53
12 15 0.39
13 3 0.08
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:111689195 original size:30 final size:30
Alignment explanation
Indices: 111689142--111689199 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
111689132 CACGGCCATG
*
111689142 ACACACGGGCATGTGGTCTACCCGTGTGTC
1 ACACACGGGCATGTGGGCTACCCGTGTGTC
*
111689172 ACACACGGGCGTGTGGAGC-ACCCGTGTG
1 ACACACGGGCATGTGG-GCTACCCGTGTG
111689200 GAAGTGCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.17, C:0.29, G:0.34, T:0.19
Consensus pattern (30 bp):
ACACACGGGCATGTGGGCTACCCGTGTGTC
Found at i:111695119 original size:15 final size:15
Alignment explanation
Indices: 111695101--111695131 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
111695091 AAACTCGTAC
111695101 AAACCAAATTCACAT
1 AAACCAAATTCACAT
*
111695116 AAACCAAATTCGCAT
1 AAACCAAATTCACAT
111695131 A
1 A
111695132 CATGAATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.26, G:0.03, T:0.19
Consensus pattern (15 bp):
AAACCAAATTCACAT
Found at i:111695702 original size:86 final size:84
Alignment explanation
Indices: 111695549--111695704 Score: 190
Period size: 86 Copynumber: 1.8 Consensus size: 84
111695539 ATATCGCACA
* * * * * *
111695549 ATGCCAACGTCCCAGACGTGGCCTTACATGTAATCATATATCGATGCCACTGTCCTAGACAGGGT
1 ATGCCAACGTCCCAGACATGGCCTTACATGTAAACATATATCGATACCAATGTACTAGACAGAGT
111695614 CTTACACAAAACAAATACG
66 CTTACACAAAACAAATACG
* *
111695633 ATGCCAATGTCCCAGACATGGTCTTAC-TCGTAACCACATATATCGATACCAATGTACTAGAC-G
1 ATGCCAACGTCCCAGACATGGCCTTACAT-GTAA--ACATATATCGATACCAATGTACTAGACAG
111695696 TAGTCTTAC
63 -AGTCTTAC
111695705 TTGTACACAT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
83 1 0.02
84 28 0.47
85 1 0.02
86 30 0.50
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGCCTTACATGTAAACATATATCGATACCAATGTACTAGACAGAGT
CTTACACAAAACAAATACG
Found at i:111695758 original size:56 final size:56
Alignment explanation
Indices: 111695672--111695777 Score: 149
Period size: 56 Copynumber: 1.9 Consensus size: 56
111695662 GTAACCACAT
* * * *
111695672 ATATCGATACCAATGTACTAGACGTAGTCTTACTTGTACACATATATCGAAATCAC
1 ATATCGATACCAACGTACTAAACGTAGTCTTACTCGCACACATATATCGAAATCAC
* * *
111695728 ATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGA
1 ATATCGATACCAACGTACTAAACGTAGTCTTACTCGCACACATATATCGA
111695778 TGCCATGGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 43 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (56 bp):
ATATCGATACCAACGTACTAAACGTAGTCTTACTCGCACACATATATCGAAATCAC
Found at i:111699348 original size:22 final size:21
Alignment explanation
Indices: 111699318--111699383 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
111699308 TACAAATTAA
111699318 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
111699340 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
111699361 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
111699380 ATCT
1 ATCT
111699384 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:111699370 original size:19 final size:19
Alignment explanation
Indices: 111699335--111699432 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
111699325 AGATTACAAG
111699335 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
111699356 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
111699375 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
111699392 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
111699411 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
111699430 ATC
1 ATC
111699433 CTTAAAGATT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:111699399 original size:36 final size:37
Alignment explanation
Indices: 111699335--111699432 Score: 153
Period size: 36 Copynumber: 2.6 Consensus size: 37
111699325 AGATTACAAG
111699335 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
111699375 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
111699411 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
111699433 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
36 36 0.64
38 11 0.20
39 1 0.02
40 8 0.14
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:111700164 original size:132 final size:132
Alignment explanation
Indices: 111700010--111700984 Score: 1608
Period size: 132 Copynumber: 7.4 Consensus size: 132
111700000 ATGGAGATGC
* ** *
111700010 CAGATCTGTTATCTTCGATTTGTTCCCTATAAACACAACGATACCAAATCTGCTATCTTCAACTT
1 CAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
* * * *
111700075 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTTGCTATAAGCATAGGAAT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAATCACAGGAAT
111700140 GT
131 GT
111700142 CAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
1 CAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
*
111700207 GTTCCCCATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAATCACAGGAAT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAATCACAGGAAT
111700272 GT
131 GT
* *
111700274 CAGATCTGCTATCTTCGATTTGTTCCTTCTAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
1 CAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
*
111700339 GTTCCCTATAAACACAGGAATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAATCACAGGAAT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAATCACAGGAAT
111700404 GT
131 GT
* * * *
111700406 CAGACCTGCTATCTTCGATTTATTCCCTATAAACAGAGGGATGCCAAATCTGCTATGTTCAACTT
1 CAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
* * * * *
111700471 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGTTTCCCTGTAATAACAAGAGT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAATCACAGGAAT
111700536 GT
131 GT
* *
111700538 TAGATCTGCTATCTTTGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
1 CAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
* * * * *
111700603 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTTGATCTGCTTTGCTATAAGCATAGGAAT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAATCACAGGAAT
111700668 GT
131 GT
*
111700670 CAGATCTGCTATCTTCGATTTGTTACCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
1 CAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
*
111700735 GTTCCCCATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAATCACAGGAAT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAATCACAGGAAT
111700800 GT
131 GT
* *
111700802 CAGATCTGCTATCTTCGATTTGTTCCTTCTAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
1 CAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
* * *
111700867 GTTCCCTATAAACACAGGAATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAATCACAGGAAT
*
111700932 AT
131 GT
* *
111700934 CAGATCTGCCATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCT
1 CAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCT
111700985 TATTTCTCTG
Statistics
Matches: 781, Mismatches: 62, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 781 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (132 bp):
CAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAATCACAGGAAT
GT
Found at i:111707542 original size:22 final size:21
Alignment explanation
Indices: 111707512--111707577 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
111707502 TACAAATTAA
111707512 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
111707534 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
111707555 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
111707574 ATCT
1 ATCT
111707578 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:111707564 original size:19 final size:19
Alignment explanation
Indices: 111707529--111707626 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
111707519 AGATTACAAG
111707529 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
111707550 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
111707569 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
111707586 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
111707605 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
111707624 ATC
1 ATC
111707627 CTTAAAGATT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:111707593 original size:36 final size:37
Alignment explanation
Indices: 111707529--111707626 Score: 153
Period size: 36 Copynumber: 2.6 Consensus size: 37
111707519 AGATTACAAG
111707529 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
111707569 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
111707605 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
111707627 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
36 36 0.64
38 11 0.20
39 1 0.02
40 8 0.14
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:111710745 original size:24 final size:24
Alignment explanation
Indices: 111710718--111710765 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
111710708 AGTTACACGG
111710718 GTGATTTTGAACCTCTAAGTATAT
1 GTGATTTTGAACCTCTAAGTATAT
111710742 GTGATTTTGAACCTCTAAGTATAT
1 GTGATTTTGAACCTCTAAGTATAT
111710766 TGTTACTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (24 bp):
GTGATTTTGAACCTCTAAGTATAT
Found at i:111713902 original size:30 final size:30
Alignment explanation
Indices: 111713861--111713920 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
111713851 GAGTCCCACT
111713861 TTGCCTCTATTATTTGCAAAATCAAACCAA
1 TTGCCTCTATTATTTGCAAAATCAAACCAA
*
111713891 TTGCCTTTATTATTTGCAAAATCAAACCAA
1 TTGCCTCTATTATTTGCAAAATCAAACCAA
111713921 GTTACCTACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.35
Consensus pattern (30 bp):
TTGCCTCTATTATTTGCAAAATCAAACCAA
Found at i:111717075 original size:23 final size:25
Alignment explanation
Indices: 111717049--111717095 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
111717039 TATCATTCAT
*
111717049 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
111717072 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
111717096 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:111717415 original size:46 final size:46
Alignment explanation
Indices: 111717355--111717582 Score: 368
Period size: 46 Copynumber: 5.0 Consensus size: 46
111717345 TTTGACGTGA
* * * * * *
111717355 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*
111717401 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
111717447 TGCCATGGTATCTTTCAATCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
111717493 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
111717539 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
111717583 AGAGCACACT
Statistics
Matches: 171, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
45 3 0.02
46 168 0.98
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:111723722 original size:25 final size:25
Alignment explanation
Indices: 111723694--111723743 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
111723684 ATAGAAGCAA
111723694 AGTACCAAGAACTTACCTTCAATTT
1 AGTACCAAGAACTTACCTTCAATTT
111723719 AGTACCAAGAACTTACCTTCAATTT
1 AGTACCAAGAACTTACCTTCAATTT
111723744 TTCCTTCTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (25 bp):
AGTACCAAGAACTTACCTTCAATTT
Found at i:111723994 original size:32 final size:32
Alignment explanation
Indices: 111723957--111724049 Score: 177
Period size: 32 Copynumber: 2.9 Consensus size: 32
111723947 AATGCTTATC
111723957 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
*
111723989 ATGCCCATCATTCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
111724021 ATGCCCATCATCCATTAACTATTAAAATG
1 ATGCCCATCATCCATTAACTATTAAAATG
111724050 GTAAAATGCA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 59 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:111725529 original size:28 final size:28
Alignment explanation
Indices: 111725464--111725564 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
111725454 ATAGTGAATC
*
111725464 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
111725493 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
111725521 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
111725551 CGCACACTTAGTGC
1 CGCACACTTAGTGC
111725565 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:111731571 original size:49 final size:49
Alignment explanation
Indices: 111731499--111731597 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
111731489 TTAAGACATT
111731499 CATCGGGTGTGCATGACAGTTCATCTAACACTCTAATGGTGTTATCGAG
1 CATCGGGTGTGCATGACAGTTCATCTAACACTCTAATGGTGTTATCGAG
111731548 CATCGGGTGTGCATGACAGTTCATCTAACACTCTAATGGTGTTATCGAG
1 CATCGGGTGTGCATGACAGTTCATCTAACACTCTAATGGTGTTATCGAG
111731597 C
1 C
111731598 CAGAACTCGG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (49 bp):
CATCGGGTGTGCATGACAGTTCATCTAACACTCTAATGGTGTTATCGAG
Found at i:111732685 original size:29 final size:27
Alignment explanation
Indices: 111732651--111732753 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
111732641 TACTCGATCA
*
111732651 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
* ** *
111732680 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
*
111732709 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
*
111732738 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
111732754 ATCTCGTCAT
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:111740708 original size:29 final size:28
Alignment explanation
Indices: 111740676--111740749 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
111740666 GATTTAAGCC
*
111740676 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACAC-TAGTGCCATACAGTCCAAACT
* * *
111740705 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACAC-TAGTGCCATACAGTCCAAACT
111740734 CGCACACTCAGTGCCA
1 CGCACACT-AGTGCCA
111740750 ATCTCGTCAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 1 0.03
29 38 0.97
ACGTcount: A:0.30, C:0.34, G:0.15, T:0.22
Consensus pattern (28 bp):
CGCACACTAGTGCCATACAGTCCAAACT
Found at i:111745806 original size:19 final size:21
Alignment explanation
Indices: 111745778--111745821 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
111745768 TACATTTTAT
111745778 TTATAAATTTTA-T-TATATA
1 TTATAAATTTTACTATATATA
*
111745797 TTATATATTTTACTATATATA
1 TTATAAATTTTACTATATATA
111745818 TTAT
1 TTAT
111745822 TCTTTGCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.50
20 1 0.05
21 10 0.45
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATAAATTTTACTATATATA
Found at i:111746016 original size:25 final size:25
Alignment explanation
Indices: 111745952--111746017 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
111745942 ATATTTATCG
* *
111745952 TATTATT-TATATTTCATTATATTTTA
1 TATTATTATATA-TT-ATTACATATTA
*
111745978 T-TTA-TATATTTTATTACATATTA
1 TATTATTATATATTATTACATATTA
111746001 TATTATTATATATTATT
1 TATTATTATATATTATT
111746018 CCCTATATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
23 10 0.30
24 6 0.18
25 16 0.48
26 1 0.03
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (25 bp):
TATTATTATATATTATTACATATTA
Found at i:111757141 original size:7 final size:7
Alignment explanation
Indices: 111757129--111757164 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
111757119 AGACTTTGAA
111757129 AAAAAAT
1 AAAAAAT
111757136 AAAAAAAT
1 -AAAAAAT
111757144 AAAAAAT
1 AAAAAAT
111757151 -AAAAAT
1 AAAAAAT
111757157 AAAAAAT
1 AAAAAAT
111757164 A
1 A
111757165 GAGAGGCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 6 0.22
7 14 0.52
8 7 0.26
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAAAT
Found at i:111757154 original size:13 final size:13
Alignment explanation
Indices: 111757138--111757164 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
111757128 AAAAAAATAA
111757138 AAAAATAAAAAAT
1 AAAAATAAAAAAT
111757151 AAAAATAAAAAAT
1 AAAAATAAAAAAT
111757164 A
1 A
111757165 GAGAGGCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:111758049 original size:44 final size:44
Alignment explanation
Indices: 111757999--111758492 Score: 605
Period size: 44 Copynumber: 11.2 Consensus size: 44
111757989 TCACCGGTGA
* *
111757999 CAGATTTGGCGTCTCTGTGTTGTCAGAGAGCAGATCAAAAATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAG
* * *
111758043 CAGATTTGGCGTCTCTATATTGTCAGAGAGCAGATCGAAGATGG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAG
* *
111758087 AAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAG
* *
111758131 CTA-ATTTGGCGTCTCTGTGTTGTCAGAGAGCAGATCAAAAATAG
1 C-AGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAG
*
111758175 CAGATTTGGCGTCTCTATATTGTCAGAGAGCAGATCAAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAG
* * * * * *
111758219 CTGATTTGGCATTTCTGTATGGTCAGAGAGCATATCAACGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAG
* * * * *
111758263 CAGATTTGGCATCTCTGTGTTGTCAGGGAACAGATCGAAGAT-G
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAG
* * * *
111758306 ACAGATTTGGCGTCTCTGTATTATTAGAGAGCAGATAAAAAATAG
1 -CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAG
* * * * *
111758351 CTGATTTGGCATCTTTGTATGGTCAGAGAGCAGATCAACGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAG
* * * * * *
111758395 CAAATATGGCATCTCTGTGTTGTCAGAGAACAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAG
* * *
111758439 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAGGATAA
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAG
111758483 CAGATTTGGC
1 CAGATTTGGC
111758493 ATTCCGGAGT
Statistics
Matches: 381, Mismatches: 65, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
43 2 0.01
44 377 0.99
45 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (44 bp):
CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAG
Found at i:111758225 original size:132 final size:131
Alignment explanation
Indices: 111758002--111758494 Score: 666
Period size: 132 Copynumber: 3.7 Consensus size: 131
111757992 CCGGTGACAG
* *
111758002 ATTTGGCGTCTCTGTGTTGTCAGAGAGCAGATCAAAAATAGCAGATTTGGCGTCTCTATATTGTC
1 ATTTGGCATCTCTGTGTTGTCAGAGAACAGATCAAAAATAGCAGATTTGGCGTCTCTATATTGTC
* * * * *
111758067 AGAGAGCAGATCGAAGATGGAAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA-GATAG
66 AGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATGGTCAGAGAGCAGATC-AACGATAG
111758131 CTA
130 C-A
* *
111758134 ATTTGGCGTCTCTGTGTTGTCAGAGAGCAGATCAAAAATAGCAGATTTGGCGTCTCTATATTGTC
1 ATTTGGCATCTCTGTGTTGTCAGAGAACAGATCAAAAATAGCAGATTTGGCGTCTCTATATTGTC
* * *
111758199 AGAGAGCAGATCAAAGATAGCTGATTTGGCATTTCTGTATGGTCAGAGAGCATATCAACGATAGC
66 AGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATGGTCAGAGAGCAGATCAACGATAGC
111758264 A
131 A
* * * * *
111758265 GATTTGGCATCTCTGTGTTGTCAGGGAACAGATCGAAGAT-GACAGATTTGGCGTCTCTGTATTA
1 -ATTTGGCATCTCTGTGTTGTCAGAGAACAGATCAAAAATAG-CAGATTTGGCGTCTCTATATTG
* * * * *
111758329 TTAGAGAGCAGATAAAAAATAGCTGATTTGGCATCTTTGTATGGTCAGAGAGCAGATCAACGATA
64 TCAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATGGTCAGAGAGCAGATCAACGATA
111758394 GCAA
129 GC-A
* * * *
111758398 ATATGGCATCTCTGTGTTGTCAGAGAACAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTC
1 ATTTGGCATCTCTGTGTTGTCAGAGAACAGATCAAAAATAGCAGATTTGGCGTCTCTATATTGTC
* * *
111758463 AGAGAGCAGATCGAGGATAACAGATTTGGCAT
66 AGAGAGCAGATCAAAGATAGCAGATTTGGCAT
111758495 TCCGGAGTTT
Statistics
Matches: 325, Mismatches: 31, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
131 4 0.01
132 319 0.98
133 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (131 bp):
ATTTGGCATCTCTGTGTTGTCAGAGAACAGATCAAAAATAGCAGATTTGGCGTCTCTATATTGTC
AGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATGGTCAGAGAGCAGATCAACGATAGC
A
Found at i:111760153 original size:19 final size:21
Alignment explanation
Indices: 111760125--111760168 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
111760115 TACATTTTAT
111760125 TTATAAATTTTA-T-TATATA
1 TTATAAATTTTACTATATATA
*
111760144 TTATATATTTTACTATATATA
1 TTATAAATTTTACTATATATA
111760165 TTAT
1 TTAT
111760169 TCTTTGCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.50
20 1 0.05
21 10 0.45
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATAAATTTTACTATATATA
Found at i:111760362 original size:25 final size:25
Alignment explanation
Indices: 111760298--111760363 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
111760288 ATATTTATCG
* *
111760298 TATTATT-TATATTTCATTATATTTTA
1 TATTATTATATA-TT-ATTACATATTA
*
111760324 T-TTA-TATATTTTATTACATATTA
1 TATTATTATATATTATTACATATTA
111760347 TATTATTATATATTATT
1 TATTATTATATATTATT
111760364 CCCTATATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
23 10 0.30
24 6 0.18
25 16 0.48
26 1 0.03
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (25 bp):
TATTATTATATATTATTACATATTA
Done.