Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, whole genome shotgun sequence
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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 60 of 113
Found at i:14708776 original size:25 final size:24
Alignment explanation
Indices: 14708665--14708776 Score: 93
Period size: 25 Copynumber: 4.5 Consensus size: 24
14708655 GCACTTCCCA
* * *
14708665 AACCTTTAGCTCTTTCCACATCTCA
1 AACCTTCAGCTCTTT-CACATTTCG
* *
14708690 AACTTTCAGCTCTTTCACATCTCG
1 AACCTTCAGCTCTTTCACATTTCG
*
14708714 AACCTTCGGCTCTTTCCACATCTT-G
1 AACCTTCAGCTCTTT-CACAT-TTCG
* *
14708739 AATCTTC-GACTCTTCTCACGTTTCG
1 AACCTTCAG-CTCTT-TCACATTTCG
14708764 AACCTTCAGCTCT
1 AACCTTCAGCTCT
14708777 GATACCACTT
Statistics
Matches: 72, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
24 24 0.33
25 45 0.62
26 3 0.04
ACGTcount: A:0.20, C:0.35, G:0.09, T:0.37
Consensus pattern (24 bp):
AACCTTCAGCTCTTTCACATTTCG
Found at i:14709396 original size:52 final size:52
Alignment explanation
Indices: 14709310--14709466 Score: 244
Period size: 52 Copynumber: 3.0 Consensus size: 52
14709300 TATAACCATA
* * * *
14709310 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCTTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
14709362 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
* *
14709414 CAAACTTGCCTATTAAGAATCCTCTTT-CTTTTGGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCC-CTTTCCTTTTAGAATTCTTCTCTTGCAAGT
14709466 C
1 C
14709467 TTCTTGTCCA
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
52 94 0.96
53 4 0.04
ACGTcount: A:0.24, C:0.25, G:0.10, T:0.40
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
Found at i:14709507 original size:11 final size:11
Alignment explanation
Indices: 14709491--14709530 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
14709481 GCAATATCTG
14709491 ACAAATCCCAA
1 ACAAATCCCAA
* *
14709502 ACAAATCTCTA
1 ACAAATCCCAA
14709513 ACAAATCCCAA
1 ACAAATCCCAA
14709524 ACAAATC
1 ACAAATC
14709531 TCTTACGGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.15
Consensus pattern (11 bp):
ACAAATCCCAA
Found at i:14709516 original size:22 final size:22
Alignment explanation
Indices: 14709491--14709533 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
14709481 GCAATATCTG
14709491 ACAAATCCCAAACAAATCTCTA
1 ACAAATCCCAAACAAATCTCTA
14709513 ACAAATCCCAAACAAATCTCT
1 ACAAATCCCAAACAAATCTCT
14709534 TACGGGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.19
Consensus pattern (22 bp):
ACAAATCCCAAACAAATCTCTA
Found at i:14711002 original size:21 final size:21
Alignment explanation
Indices: 14710977--14711022 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
14710967 AATGTTTTTG
*
14710977 TTTTTTATATTATTTAATATA-A
1 TTTTTAATA-TATTTAA-ATAGA
14710999 TTTTTAATATATTTAAATAGA
1 TTTTTAATATATTTAAATAGA
14711020 TTT
1 TTT
14711023 AAGTATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 11 0.50
22 8 0.36
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTTTAATATATTTAAATAGA
Found at i:14711095 original size:22 final size:22
Alignment explanation
Indices: 14711053--14711106 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
14711043 ATTTTATAAA
*
14711053 AATTTAAAATATATATAAATT-
1 AATTAAAAATATATATAAATTC
*
14711074 AA-TAAAAATATATAATTCAATTC
1 AATTAAAAATATAT-A-TAAATTC
14711097 AATTAAAAAT
1 AATTAAAAAT
14711107 TTTTTTTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 10 0.37
21 3 0.11
22 5 0.19
23 2 0.07
24 7 0.26
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
AATTAAAAATATATATAAATTC
Found at i:14711943 original size:6 final size:6
Alignment explanation
Indices: 14711911--14711935 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14711901 TTTCCAAACT
14711911 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
14711936 ATGAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:14712475 original size:61 final size:61
Alignment explanation
Indices: 14712404--14712523 Score: 170
Period size: 61 Copynumber: 2.0 Consensus size: 61
14712394 ATATGTTAAC
*
14712404 TAATACTTAAGTTATGATT-AGAAATATAATTAATCGAGTTCAAGTCGATATAATATTAAAT
1 TAATACTTAAGTTATGATTAAG-AATATAATTAATCGAATTCAAGTCGATATAATATTAAAT
* * * * *
14712465 TAATATTTAAGTTATGATTAAGAATATAATTGATTGAATTCAAGTTGATATAGTATTAA
1 TAATACTTAAGTTATGATTAAGAATATAATTAATCGAATTCAAGTCGATATAATATTAA
14712524 GTTTGAGTTC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
61 50 0.96
62 2 0.04
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.40
Consensus pattern (61 bp):
TAATACTTAAGTTATGATTAAGAATATAATTAATCGAATTCAAGTCGATATAATATTAAAT
Found at i:14713233 original size:14 final size:14
Alignment explanation
Indices: 14713200--14713233 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
14713190 ACCATGAAAA
* *
14713200 AAAATATAAATATT
1 AAAATTTAAATATC
14713214 AAAATTTAAATATC
1 AAAATTTAAATATC
14713228 AAAATT
1 AAAATT
14713234 ATTACATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (14 bp):
AAAATTTAAATATC
Found at i:14713337 original size:22 final size:24
Alignment explanation
Indices: 14713312--14713358 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
14713302 ATATTTCTAA
14713312 TAAAAAAATCAC-AAT-TTAAAAT
1 TAAAAAAATCACAAATATTAAAAT
*
14713334 TAAAAAAATTACAAATATTAAAAT
1 TAAAAAAATCACAAATATTAAAAT
14713358 T
1 T
14713359 TAAATTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.50
23 3 0.14
24 8 0.36
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
TAAAAAAATCACAAATATTAAAAT
Found at i:14714185 original size:17 final size:19
Alignment explanation
Indices: 14714165--14714200 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
14714155 ATTAAAATAT
14714165 TATT-AAAAATA-ATTTTA
1 TATTCAAAAATATATTTTA
14714182 TATTCAAAAATATATTTTA
1 TATTCAAAAATATATTTTA
14714201 AAATTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 7 0.41
19 6 0.35
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
TATTCAAAAATATATTTTA
Found at i:14714209 original size:19 final size:17
Alignment explanation
Indices: 14714166--14714209 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
14714156 TTAAAATATT
*
14714166 ATTAAAAATAATTTTAT
1 ATTAAAAATAATTTTAA
14714183 ATTCAAAAATATATTTTAAA
1 ATT-AAAAATA-ATTTT-AA
14714203 ATTAAAA
1 ATTAAAA
14714210 TTAAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 3 0.13
18 7 0.30
19 9 0.39
20 4 0.17
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTAAAAATAATTTTAA
Found at i:14716045 original size:8 final size:8
Alignment explanation
Indices: 14716028--14716078 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
14716018 CATAAATGCA
14716028 AAAAAAGG
1 AAAAAAGG
*
14716036 AAAAAGGG
1 AAAAAAGG
14716044 AAAAAAGAG
1 AAAAAAG-G
14716053 AAAAAA--
1 AAAAAAGG
14716059 AAAAAAGAG
1 AAAAAAG-G
*
14716068 AAAAGAGG
1 AAAAAAGG
14716076 AAA
1 AAA
14716079 GAAAACTCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
6 6 0.17
8 17 0.47
9 13 0.36
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (8 bp):
AAAAAAGG
Found at i:14718739 original size:48 final size:46
Alignment explanation
Indices: 14718686--14718908 Score: 155
Period size: 44 Copynumber: 5.0 Consensus size: 46
14718676 TTGTTAAAAA
* *
14718686 GAGCTTATATTTAAAGGAGTTTTATTTATTTATTTTTCAAAAGTTGTT
1 GAGCTTATATTTAAAGAAGCTTTATTT-TTT-TTTTTCAAAAGTTGTT
* * **
14718734 GAGCTTCTGTTTAAAGAAGCTTTATTTTTTTTTTTCAAAAGTCATT
1 GAGCTTATATTTAAAGAAGCTTTATTTTTTTTTTTCAAAAGTTGTT
* * * *
14718780 GAACCTT-TATTTAGAAGAA-C-CT-TTTATATTTTTCAAAAGTTGTT
1 G-AGCTTATATTTA-AAGAAGCTTTATTTTTTTTTTTCAAAAGTTGTT
* * *
14718824 GAGCCTT-TATTTAGAAG-AGC-TT-TCTTTATTTTTCAAAAGTT-AT
1 GAG-CTTATATTTA-AAGAAGCTTTATTTTTTTTTTTCAAAAGTTGTT
* * * *
14718867 GAGCTTCTGTTTAGAGAAG-TTTA--TTTATTTTTCAAAAGTTGT
1 GAGCTTATATTTAAAGAAGCTTTATTTTTTTTTTTCAAAAGTTGT
14718909 AGAATCTCTA
Statistics
Matches: 145, Mismatches: 21, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
42 22 0.15
43 15 0.10
44 51 0.35
45 1 0.01
46 21 0.14
47 12 0.08
48 23 0.16
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.48
Consensus pattern (46 bp):
GAGCTTATATTTAAAGAAGCTTTATTTTTTTTTTTCAAAAGTTGTT
Found at i:14718921 original size:86 final size:92
Alignment explanation
Indices: 14718710--14718929 Score: 235
Period size: 86 Copynumber: 2.5 Consensus size: 92
14718700 AGGAGTTTTA
* * * * *
14718710 TTTATTTATTTTTCAAAAGTTGTTGAGCTTCTGTTTA-AAGAAGCTTTATTTTTTTTTTTCAAAA
1 TTTATTTATTTTTCAAAAGTTGTTGAACCTCTATTTAGAAGAAGCTTTATCTTTATTTTTCAAAA
14718774 GTCATTGAACCTTTATTTAGAAGAACC
66 GTCATTGAACCTTTATTTAGAAGAACC
* * *
14718801 TTT-TATATTTTTCAAAAGTTGTTGAGCCTTTATTTAGAAG-AGC-TT-TCTTTATTTTTCAAAA
1 TTTATTTATTTTTCAAAAGTTGTTGAACCTCTATTTAGAAGAAGCTTTATCTTTATTTTTCAAAA
* * * *
14718862 GTTA-TG-AGCTTCTGTTTAG-AGAA-G
66 GTCATTGAACCTT-TATTTAGAAGAACC
* *
14718886 TTTATTTATTTTTCAAAAGTTGTAGAATCTCTATTTAG-AGAAGC
1 TTTATTTATTTTTCAAAAGTTGTTGAACCTCTATTTAGAAGAAGC
14718930 CTTAAATATT
Statistics
Matches: 110, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
85 5 0.05
86 40 0.36
87 8 0.07
88 17 0.15
89 2 0.02
90 32 0.29
91 6 0.05
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (92 bp):
TTTATTTATTTTTCAAAAGTTGTTGAACCTCTATTTAGAAGAAGCTTTATCTTTATTTTTCAAAA
GTCATTGAACCTTTATTTAGAAGAACC
Found at i:14718923 original size:43 final size:44
Alignment explanation
Indices: 14718710--14718968 Score: 222
Period size: 44 Copynumber: 5.9 Consensus size: 44
14718700 AGGAGTTTTA
* * * *
14718710 TTTATTTATTTTTCAAAAGTTGTTGAGCTTCTGTTTAAAGAAGC
1 TTTATTTATTTTTCAAAAGTTGTTGAACCTCTATTTAGAGAAGC
* ** * *
14718754 TTTATTTTTTTTTTTCAAAAGTCATTGAACCTTTATTTAGAAGAACC
1 TTTA--TTTATTTTTCAAAAGTTGTTGAACCTCTATTTAG-AGAAGC
* * *
14718801 TTT-TATATTTTTCAAAAGTTGTTGAGCCTTTATTTAGA-AGAGC
1 TTTATTTATTTTTCAAAAGTTGTTGAACCTCTATTTAGAGA-AGC
* * * * *
14718844 TTTCTTTATTTTTCAAAAGTT-ATGAGCTTCTGTTTAGAGAAG-
1 TTTATTTATTTTTCAAAAGTTGTTGAACCTCTATTTAGAGAAGC
* *
14718886 TTTATTTATTTTTCAAAAGTTGTAGAATCTCTATTTAGAGAAGC
1 TTTATTTATTTTTCAAAAGTTGTTGAACCTCTATTTAGAGAAGC
* ** ** *
14718930 CTTAAATATTTTTTGAAAGTTG-TGAACCTCTACTTAGAG
1 TTTATTTATTTTTCAAAAGTTGTTGAACCTCTATTTAGAG
14718969 GAGTTTTTAG
Statistics
Matches: 172, Mismatches: 35, Indels: 17
0.77 0.16 0.08
Matches are distributed among these distances:
42 21 0.12
43 50 0.29
44 67 0.39
46 26 0.15
47 8 0.05
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.46
Consensus pattern (44 bp):
TTTATTTATTTTTCAAAAGTTGTTGAACCTCTATTTAGAGAAGC
Found at i:14720048 original size:24 final size:25
Alignment explanation
Indices: 14719996--14720050 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
14719986 AGCCAGTTCC
* * **
14719996 TATTTTAGTTTTTTTATTTTTTATT
1 TATTTTAGTTTATTTATTTTTAAAG
14720021 TATTTT-GTTTATTTATTTTTAAAG
1 TATTTTAGTTTATTTATTTTTAAAG
14720045 TATTTT
1 TATTTT
14720051 TGCATGATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (25 bp):
TATTTTAGTTTATTTATTTTTAAAG
Found at i:14720502 original size:16 final size:15
Alignment explanation
Indices: 14720478--14720519 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
14720468 TCTAAATAAC
14720478 AATTAAAAATAATAT
1 AATTAAAAATAATAT
*
14720493 AATTAGAAAAAAATAT
1 AATTA-AAAATAATAT
14720509 AAGTTAAAAAT
1 AA-TTAAAAAT
14720520 GTGAGGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 5 0.22
16 15 0.65
17 3 0.13
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AATTAAAAATAATAT
Found at i:14727822 original size:22 final size:22
Alignment explanation
Indices: 14727786--14727827 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
14727776 ATGGCTATGA
*
14727786 CCAAGGATCAAACTTCCTCTTAG
1 CCAAGGATAAAACTT-CTCTTAG
14727809 CCAAGG-TAAAACTTCTCTT
1 CCAAGGATAAAACTTCTCTT
14727828 GGTGATTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 7 0.39
23 6 0.33
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.29
Consensus pattern (22 bp):
CCAAGGATAAAACTTCTCTTAG
Found at i:14733297 original size:10 final size:9
Alignment explanation
Indices: 14733267--14733323 Score: 57
Period size: 9 Copynumber: 6.6 Consensus size: 9
14733257 GGTCGGTAGG
14733267 AAGA-AAAA
1 AAGAGAAAA
*
14733275 AAGTGAAAA
1 AAGAGAAAA
14733284 AAGAGAAAA
1 AAGAGAAAA
14733293 TAAGA-AAAA
1 -AAGAGAAAA
*
14733302 AAGAGAAAG
1 AAGAGAAAA
*
14733311 GA-AGAAAA
1 AAGAGAAAA
14733319 AAGAG
1 AAGAG
14733324 GAACAAAAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
8 13 0.33
9 22 0.56
10 4 0.10
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.04
Consensus pattern (9 bp):
AAGAGAAAA
Found at i:14733301 original size:18 final size:18
Alignment explanation
Indices: 14733280--14733320 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
14733270 AAAAAAAGTG
*
14733280 AAAAAAGAGAAAATAAGA
1 AAAAAAGAGAAAAGAAGA
*
14733298 AAAAAAGAGAAAGGAAGA
1 AAAAAAGAGAAAAGAAGA
14733316 AAAAA
1 AAAAA
14733321 GAGGAACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (18 bp):
AAAAAAGAGAAAAGAAGA
Found at i:14733773 original size:3 final size:3
Alignment explanation
Indices: 14733765--14733801 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
14733755 ATTTTCTTGC
*
14733765 TTA TTA TTA TTA GTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
14733802 GTCATCACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:14733985 original size:3 final size:3
Alignment explanation
Indices: 14733979--14734029 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
14733969 AAAGAAAAAG
14733979 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14734027 AAT
1 AAT
14734030 TTAAAAAAGG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14738505 original size:24 final size:22
Alignment explanation
Indices: 14738476--14738520 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
14738466 GATATTAATT
14738476 TAATTAAAAAATTATATTTATATA
1 TAATTAAAAAA-TA-ATTTATATA
*
14738500 TAATTAAAATATAATTTATAT
1 TAATTAAAAAATAATTTATAT
14738521 TAAAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 2 0.10
24 10 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATTAAAAAATAATTTATATA
Found at i:14740710 original size:51 final size:51
Alignment explanation
Indices: 14740617--14740717 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
14740607 GCATGGCTGC
*
14740617 ATCTTTGATTACTTTTTTCTAAAGCATAATTGGTCAAATCCGATTGGCGTA
1 ATCTTTGATTACTTTTCTCTAAAGCATAATTGGTCAAATCCGATTGGCGTA
** ** * * *
14740668 ATCTTTGATTTGTTTTCTCTAAAGTGTGATTGTTCAAGTCCGATTGGCGT
1 ATCTTTGATTACTTTTCTCTAAAGCATAATTGGTCAAATCCGATTGGCGT
14740718 CTGAATTTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.44
Consensus pattern (51 bp):
ATCTTTGATTACTTTTCTCTAAAGCATAATTGGTCAAATCCGATTGGCGTA
Found at i:14746740 original size:23 final size:23
Alignment explanation
Indices: 14746714--14746759 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
14746704 AAGGACATAA
14746714 CTTTGATCCATAGACTATAGTGG
1 CTTTGATCCATAGACTATAGTGG
14746737 CTTTGATCCATAGACTATAGTGG
1 CTTTGATCCATAGACTATAGTGG
14746760 TGAGTATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (23 bp):
CTTTGATCCATAGACTATAGTGG
Found at i:14749667 original size:31 final size:31
Alignment explanation
Indices: 14749630--14749695 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
14749620 TAGTCAAAAG
* *
14749630 AGTTAGGTAGCTAAAAAGAGAAGAGAGTTAC
1 AGTTAGGTAGCCAAAAAGAAAAGAGAGTTAC
* *
14749661 AGTTAGGTAGCCAAAAAGAAAAGGGAGTTAG
1 AGTTAGGTAGCCAAAAAGAAAAGAGAGTTAC
14749692 AGTT
1 AGTT
14749696 TCAGCAAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.44, C:0.06, G:0.30, T:0.20
Consensus pattern (31 bp):
AGTTAGGTAGCCAAAAAGAAAAGAGAGTTAC
Found at i:14757147 original size:36 final size:36
Alignment explanation
Indices: 14757107--14757182 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
14757097 TGTGTAATTC
14757107 TTTAATTTTGAAAATATGATCTTTTTTATATTTAAA
1 TTTAATTTTGAAAATATGATCTTTTTTATATTTAAA
*
14757143 TTTAATTTTGAAAATATGGTCTTTTTTATATTTAAA
1 TTTAATTTTGAAAATATGATCTTTTTTATATTTAAA
14757179 TTTA
1 TTTA
14757183 TTTATAAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.57
Consensus pattern (36 bp):
TTTAATTTTGAAAATATGATCTTTTTTATATTTAAA
Found at i:14758219 original size:24 final size:23
Alignment explanation
Indices: 14758186--14758243 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 23
14758176 AAATCTAACA
*
14758186 AAAAATAAAATAAAATAAAAATG
1 AAAAACAAAATAAAATAAAAATG
**
14758209 AAATAACAAAATAAAATGTAAATG
1 AAA-AACAAAATAAAATAAAAATG
*
14758233 AAAAAGAAAAT
1 AAAAACAAAAT
14758244 CTCACCAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 10 0.33
24 20 0.67
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (23 bp):
AAAAACAAAATAAAATAAAAATG
Found at i:14759212 original size:3 final size:3
Alignment explanation
Indices: 14759204--14759236 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
14759194 AAATGAAATA
14759204 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14759237 TTTATTTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14759432 original size:43 final size:43
Alignment explanation
Indices: 14759385--14759467 Score: 123
Period size: 43 Copynumber: 1.9 Consensus size: 43
14759375 AAAGCTCCTT
* *
14759385 TAAGTAGAGA-TTTGACAATTTTTGAAAATTTAAAAGGCTCATC
1 TAAGTAGAGACTATGA-AACTTTTGAAAATTTAAAAGGCTCATC
*
14759428 TAAGTAGAGACTATGATACTTTTGAAAATTTAAAAGGCTC
1 TAAGTAGAGACTATGAAACTTTTGAAAATTTAAAAGGCTC
14759468 TTTTGACCAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 32 0.89
44 4 0.11
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.34
Consensus pattern (43 bp):
TAAGTAGAGACTATGAAACTTTTGAAAATTTAAAAGGCTCATC
Found at i:14759492 original size:43 final size:43
Alignment explanation
Indices: 14759404--14759533 Score: 140
Period size: 43 Copynumber: 3.1 Consensus size: 43
14759394 ATTTGACAAT
* * * * *
14759404 TTTTGAAAATTTAAAAGGCTCATCTAAGTAGAGAC-TATGATAC
1 TTTTGAAAATTTAAAAGGCTCTTCTGACTAGAGGCAT-TGAAAC
* *
14759447 TTTTGAAAATTTAAAAGGCTCTTTTGACCAGAGGCATTGAAAC
1 TTTTGAAAATTTAAAAGGCTCTTCTGACTAGAGGCATTGAAAC
* * *
14759490 -TTT-AGAATTTAAAAGGCTCTTCTGACTAGAGGTAATGAAAC
1 TTTTGAAAATTTAAAAGGCTCTTCTGACTAGAGGCATTGAAAC
14759531 TTT
1 TTT
14759534 AAATTCAAAC
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
41 33 0.45
42 5 0.07
43 34 0.47
44 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (43 bp):
TTTTGAAAATTTAAAAGGCTCTTCTGACTAGAGGCATTGAAAC
Found at i:14759510 original size:41 final size:40
Alignment explanation
Indices: 14759453--14759538 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 40
14759443 ATACTTTTGA
* *
14759453 AAATTTAAAAGGCTCTTTTGACCAGAGGCATTGAAACTTT
1 AAATTTAAAAGGCTCTTCTGACCAGAGGCAATGAAACTTT
* *
14759493 AGAATTTAAAAGGCTCTTCTGACTAGAGGTAATGAAACTTT
1 A-AATTTAAAAGGCTCTTCTGACCAGAGGCAATGAAACTTT
14759534 AAATT
1 AAATT
14759539 CAAACTCTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 5 0.12
41 36 0.88
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (40 bp):
AAATTTAAAAGGCTCTTCTGACCAGAGGCAATGAAACTTT
Found at i:14759733 original size:41 final size:40
Alignment explanation
Indices: 14759622--14759758 Score: 156
Period size: 40 Copynumber: 3.5 Consensus size: 40
14759612 ACCAGAGGTT
* * * *
14759622 TTTAAAATTAAAAAGCTCTTCTGACCAAAAGCTATGAAAC
1 TTTAAATTTAAAAAGCTCTTCTGACCAGAGGCAATGAAAC
* * *
14759662 TTAAAATTTAAAAGGCTTTTCTGACCAGAGGCAATGAAAC
1 TTTAAATTTAAAAAGCTCTTCTGACCAGAGGCAATGAAAC
*
14759702 TTTAGAATTTAAAAAGCTCCTT-TGACTAGAGGCAA-GAAAC
1 TTTA-AATTTAAAAAGCT-CTTCTGACCAGAGGCAATGAAAC
14759742 TTTAAA-TTAAAAA-CTCT
1 TTTAAATTTAAAAAGCTCT
14759759 GAGAAGACTT
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
36 2 0.02
37 2 0.02
38 7 0.08
39 2 0.02
40 45 0.54
41 24 0.29
42 2 0.02
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (40 bp):
TTTAAATTTAAAAAGCTCTTCTGACCAGAGGCAATGAAAC
Found at i:14759901 original size:36 final size:35
Alignment explanation
Indices: 14759854--14759952 Score: 110
Period size: 36 Copynumber: 2.8 Consensus size: 35
14759844 ACATGGCTTC
* *
14759854 TTTGAATAGAGGCTATGACACTTTTAAGAAA-GCTCT
1 TTTGACTAGAGGCTATGA-ACTTTTAA-AAATGCTCA
*
14759890 TTTGACTAGAGGCTATGATGCTTTTAAAAATGCTCA
1 TTTGACTAGAGGCTATGA-ACTTTTAAAAATGCTCA
* * *
14759926 TTTGACTAAAGGCAATGAAATTTTAAA
1 TTTGACTAGAGGCTATGAACTTTTAAA
14759953 TTAAAAATCC
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
35 10 0.19
36 44 0.81
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.34
Consensus pattern (35 bp):
TTTGACTAGAGGCTATGAACTTTTAAAAATGCTCA
Found at i:14771984 original size:23 final size:22
Alignment explanation
Indices: 14771938--14771986 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
14771928 AACAAAAATG
14771938 AAATAAAATGAAATGAAATCAAA
1 AAATAAAATGAAATGAAA-CAAA
*
14771961 AAATAAAATGAAAATGGAA-AAA
1 AAATAAAATG-AAATGAAACAAA
14771983 AAAT
1 AAAT
14771987 CTCACTAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 7 0.29
23 10 0.42
24 7 0.29
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.16
Consensus pattern (22 bp):
AAATAAAATGAAATGAAACAAA
Found at i:14779581 original size:2 final size:2
Alignment explanation
Indices: 14779574--14779600 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14779564 TATCCCACGT
14779574 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
14779601 GGTAGGACTA
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:14787112 original size:2 final size:2
Alignment explanation
Indices: 14787107--14787137 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14787097 CGTTTGTGTG
14787107 TA TA 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 TA TA T
14787138 TTCATAACTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14792715 original size:17 final size:17
Alignment explanation
Indices: 14792693--14792725 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14792683 GATAATGGAA
14792693 TAATCAAATAAA-TAAAC
1 TAATC-AATAAACTAAAC
14792710 TAATCAATAAACTAAA
1 TAATCAATAAACTAAA
14792726 ATATAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (17 bp):
TAATCAATAAACTAAAC
Found at i:14795831 original size:17 final size:16
Alignment explanation
Indices: 14795809--14795842 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14795799 TAAAAATTAG
14795809 AATTTAATGGTAAAATA
1 AATTTAAT-GTAAAATA
*
14795826 AATTTAATTTAAAATA
1 AATTTAATGTAAAATA
14795842 A
1 A
14795843 CTTATTTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (16 bp):
AATTTAATGTAAAATA
Found at i:14796440 original size:17 final size:18
Alignment explanation
Indices: 14796407--14796440 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14796397 TTAGATTATT
*
14796407 ATATTTATTCTCTTTTAA
1 ATATTTATTCACTTTTAA
14796425 ATATTTATT-ACTTTTA
1 ATATTTATTCACTTTTA
14796441 TTTTATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (18 bp):
ATATTTATTCACTTTTAA
Found at i:14802493 original size:34 final size:35
Alignment explanation
Indices: 14802433--14802498 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 35
14802423 ATTATTTTAA
*
14802433 TTAATTAAATTTAATATGTTAATATTATATTTCTT
1 TTAATTAAATTTAATATGCTAATATTATATTTCTT
* *
14802468 TTAATTGAATTT-ATATGCTATTATTATATTT
1 TTAATTAAATTTAATATGCTAATATTATATTT
14802499 ATTTCAATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.61
35 11 0.39
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.58
Consensus pattern (35 bp):
TTAATTAAATTTAATATGCTAATATTATATTTCTT
Found at i:14804702 original size:17 final size:17
Alignment explanation
Indices: 14804672--14804711 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
14804662 CTAACTAACT
*
14804672 AATGAACTTGAAATGTA
1 AATGAACTTGAAATCTA
14804689 AATGCAACTT-AAATCTA
1 AATG-AACTTGAAATCTA
14804706 AATGAA
1 AATGAA
14804712 TCTAACCTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 2 0.10
17 14 0.67
18 5 0.24
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (17 bp):
AATGAACTTGAAATCTA
Found at i:14807323 original size:26 final size:28
Alignment explanation
Indices: 14807294--14807347 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
14807284 AATTTACTTA
* *
14807294 AATATATTAATATTT-TAAA-TTAAAAT
1 AATATATAAAAATTTATAAATTTAAAAT
14807320 AATATATAAAAATTTATAAATTTAAAAT
1 AATATATAAAAATTTATAAATTTAAAAT
14807348 TTAAAATCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 13 0.54
27 4 0.17
28 7 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
AATATATAAAAATTTATAAATTTAAAAT
Found at i:14810671 original size:16 final size:17
Alignment explanation
Indices: 14810631--14810672 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
14810621 AGGATCATGG
*
14810631 TAAAAGAATAAAAGATTA
1 TAAAA-AATAAAAGATAA
*
14810649 CAAAAAATAAAA-ATAA
1 TAAAAAATAAAAGATAA
14810665 TAAAAAAT
1 TAAAAAAT
14810673 TCATCAATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 10 0.48
17 7 0.33
18 4 0.19
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (17 bp):
TAAAAAATAAAAGATAA
Found at i:14814179 original size:57 final size:56
Alignment explanation
Indices: 14814061--14814211 Score: 209
Period size: 57 Copynumber: 2.7 Consensus size: 56
14814051 TTTGTACAAG
* * *
14814061 GAAAATTGATACTTTCAACTTTT-TCCCAAAATATTTTTTTGAAACTTATTTTTAAA
1 GAAAATTGATACTTTCAACTTTTCTCCAAAAATA-TTTTTAGAAAATTATTTTTAAA
14814117 GAAAATTGATACTTTCAACTTTTCTCCAAAAATAGTTTTTAGAAAATTATTTTT-AA
1 GAAAATTGATACTTTCAACTTTTCTCCAAAAATA-TTTTTAGAAAATTATTTTTAAA
*
14814173 GAAAAATTGATACTCTCAACTTTTC-CTCAAAAATATTTT
1 G-AAAATTGATACTTTCAACTTTTCTC-CAAAAATATTTT
14814212 CAAGGAAAAT
Statistics
Matches: 87, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
56 31 0.36
57 56 0.64
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (56 bp):
GAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTAGAAAATTATTTTTAAA
Found at i:14814221 original size:42 final size:42
Alignment explanation
Indices: 14814159--14814253 Score: 136
Period size: 42 Copynumber: 2.3 Consensus size: 42
14814149 TAGTTTTTAG
* *
14814159 AAAATTATTTTTAAGAAAAATTGATACTCTCAACTTTTCCTC
1 AAAAATATTTTCAAGAAAAATTGATACTCTCAACTTTTCCTC
* * * *
14814201 AAAAATATTTTCAAGGAAAATTGATACTTTCAACTTTTCTTT
1 AAAAATATTTTCAAGAAAAATTGATACTCTCAACTTTTCCTC
14814243 AAAAATATTTT
1 AAAAATATTTT
14814254 TTTGAATTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.40, C:0.13, G:0.05, T:0.42
Consensus pattern (42 bp):
AAAAATATTTTCAAGAAAAATTGATACTCTCAACTTTTCCTC
Found at i:14814295 original size:5 final size:5
Alignment explanation
Indices: 14814287--14814365 Score: 70
Period size: 5 Copynumber: 14.6 Consensus size: 5
14814277 AATACAAAAT
14814287 ATAAA ATAAAA TATAAA ATAAA ATAAAA ATAAAA ATAAAA ATAAA GATAAAA
1 ATAAA AT-AAA -ATAAA ATAAA AT-AAA AT-AAA AT-AAA ATAAA -AT-AAA
* *
14814339 ATAGA ATAAA ATGAA ATAAA A-AAA ATA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATA
14814366 CTAAATGATT
Statistics
Matches: 64, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
4 4 0.06
5 28 0.44
6 27 0.42
7 5 0.08
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:14814317 original size:6 final size:6
Alignment explanation
Indices: 14814267--14814341 Score: 91
Period size: 6 Copynumber: 12.3 Consensus size: 6
14814257 GAATTTTATT
*
14814267 TAAAAA GAAAAA TACAAAA TATAAAA T-AAAA TATAAAA T-AAAA TAAAAA
1 TAAAAA TAAAAA TA-AAAA TA-AAAA TAAAAA TA-AAAA TAAAAA TAAAAA
*
14814316 TAAAAA TAAAAA TAAAGA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
14814342 GAATAAAATG
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
5 10 0.17
6 34 0.57
7 16 0.27
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:14814409 original size:12 final size:14
Alignment explanation
Indices: 14814388--14814458 Score: 87
Period size: 15 Copynumber: 5.1 Consensus size: 14
14814378 AAATATAGTC
14814388 AATAAATAAT-AAT
1 AATAAATAATAAAT
14814401 AAT-AATAAT-AA-
1 AATAAATAATAAAT
14814412 AATAAATAAATAAAT
1 AATAAAT-AATAAAT
14814427 AAATAAATAATAAAT
1 -AATAAATAATAAAT
14814442 AATAAATAAATAAAT
1 AATAAAT-AATAAAT
14814457 AA
1 AA
14814459 AAGTTGGGAA
Statistics
Matches: 52, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
11 3 0.06
12 11 0.21
13 6 0.12
14 9 0.17
15 16 0.31
16 7 0.13
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AATAAATAATAAAT
Found at i:14814420 original size:4 final size:4
Alignment explanation
Indices: 14814388--14814459 Score: 86
Period size: 4 Copynumber: 19.5 Consensus size: 4
14814378 AAATATAGTC
14814388 AATA AAT- AAT- AAT- AAT- AAT- AATAA AATA AATA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AAT-A AATA AATA AATA AATA AATA
14814432 AAT- AATA AAT- AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
14814460 AGTTGGGAAC
Statistics
Matches: 64, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
3 21 0.33
4 40 0.62
5 3 0.05
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:14814459 original size:12 final size:11
Alignment explanation
Indices: 14814388--14814458 Score: 82
Period size: 11 Copynumber: 6.8 Consensus size: 11
14814378 AAATATAGTC
14814388 AATAAATAAT-
1 AATAAATAATA
14814398 AAT-AATAAT-
1 AATAAATAATA
14814407 AAT-AA-AATA
1 AATAAATAATA
14814416 AATAAATAAATA
1 AATAAAT-AATA
14814428 AATAAATAATA
1 AATAAATAATA
14814439 AAT-AATAAATA
1 AATAAAT-AATA
14814450 AATAAATAA
1 AATAAATAA
14814459 AAGTTGGGAA
Statistics
Matches: 55, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
8 3 0.05
9 14 0.25
10 8 0.15
11 16 0.29
12 14 0.25
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AATAAATAATA
Found at i:14815314 original size:14 final size:14
Alignment explanation
Indices: 14815295--14815349 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
14815285 ATGTTAATAG
14815295 ATAATTAATAGAAA
1 ATAATTAATAGAAA
14815309 ATAATTAGATAAGTAAA
1 ATAATTA-AT-AG-AAA
14815326 A-ATATTAATAGATAA
1 ATA-ATTAATAGA-AA
14815341 ATAA-TAATA
1 ATAATTAATA
14815350 ATAATAATAG
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
14 13 0.37
15 8 0.23
16 6 0.17
17 8 0.23
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (14 bp):
ATAATTAATAGAAA
Found at i:14815334 original size:42 final size:42
Alignment explanation
Indices: 14815276--14815404 Score: 143
Period size: 42 Copynumber: 2.9 Consensus size: 42
14815266 AAATCAAATC
* *
14815276 AAATAAAAAATGTTAATAGATAATTAATAGAAAATAAT-TAGAT
1 AAAT-AAAAATATTAATAGATAAATAATA-AAAATAATATAGAT
* *
14815319 AAGTAAAAATATTAATAGATAAATAATAATAATAATAATAGAT
1 AAATAAAAATATTAATAGATAAATAATAAAAATAAT-ATAGAT
*
14815362 AAATAATAATATATAAATAGATAAATAATAATAAATACATATA
1 AAATAA-AA-ATATTAATAGATAAATAATAA-AAATA-ATATA
14815405 CATATTAACA
Statistics
Matches: 73, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
41 7 0.10
42 22 0.30
43 13 0.18
44 2 0.03
45 20 0.27
46 7 0.10
47 2 0.03
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (42 bp):
AAATAAAAATATTAATAGATAAATAATAAAAATAATATAGAT
Found at i:14815339 original size:20 final size:20
Alignment explanation
Indices: 14815276--14815429 Score: 91
Period size: 20 Copynumber: 7.6 Consensus size: 20
14815266 AAATCAAATC
*
14815276 AAATAAAAAATGTTAATAGAT
1 AAAT-AAAAATATTAATAGAT
* *
14815297 AATTAATAGAA-AATAATTAGAT
1 AAATAA-A-AATATTAA-TAGAT
*
14815319 AAGTAAAAATATTAATAGAT
1 AAATAAAAATATTAATAGAT
* *
14815339 AAATAATAATAATAATA-AT
1 AAATAAAAATATTAATAGAT
* * *
14815358 AGAT--AAATAATAATATAT
1 AAATAAAAATATTAATAGAT
* *
14815376 AAATAGATAAATAATAATAAAT
1 AAATA-A-AAATATTAATAGAT
* * * *
14815398 ACATATACATATTAACAGAT
1 AAATAAAAATATTAATAGAT
14815418 AAATAAAAATAT
1 AAATAAAAATAT
14815430 ATATATTAAT
Statistics
Matches: 103, Mismatches: 21, Indels: 19
0.72 0.15 0.13
Matches are distributed among these distances:
17 10 0.10
18 5 0.05
19 5 0.05
20 42 0.41
21 12 0.12
22 29 0.28
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (20 bp):
AAATAAAAATATTAATAGAT
Found at i:14815366 original size:14 final size:14
Alignment explanation
Indices: 14815325--14815394 Score: 63
Period size: 14 Copynumber: 4.8 Consensus size: 14
14815315 AGATAAGTAA
*
14815325 AAATATTAATAGAT
1 AAATAATAATAGAT
14815339 AAATAATAATA-AT
1 AAATAATAATAGAT
*
14815352 -AATAATAGATAAAT
1 AAATAATA-ATAGAT
14815366 AATAATATATAAATAGAT
1 -A-AATA-AT-AATAGAT
14815384 AAATAATAATA
1 AAATAATAATA
14815395 AATACATATA
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
12 7 0.15
13 5 0.11
14 16 0.34
15 2 0.04
16 4 0.09
17 5 0.11
18 7 0.15
19 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (14 bp):
AAATAATAATAGAT
Found at i:14815383 original size:45 final size:43
Alignment explanation
Indices: 14815276--14815396 Score: 138
Period size: 45 Copynumber: 2.8 Consensus size: 43
14815266 AAATCAAATC
* * * *
14815276 AAATAAAAAATGTTAATAGATAATTAAT-AGAAAATAATTAGAT
1 AAAT-AAAAATATAAATAGATAAATAATAATAAAATAATTAGAT
* *
14815319 AAGTAAAAATATTAATAGATAAATAATAATAATAATAA-TAGAT
1 AAATAAAAATATAAATAGATAAATAATAATAA-AATAATTAGAT
14815362 AAATAATAATATATAAATAGATAAATAATAATAAA
1 AAATAA-AA-ATATAAATAGATAAATAATAATAAA
14815397 TACATATACA
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
42 21 0.31
43 16 0.24
44 8 0.12
45 23 0.34
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (43 bp):
AAATAAAAATATAAATAGATAAATAATAATAAAATAATTAGAT
Found at i:14815420 original size:42 final size:37
Alignment explanation
Indices: 14815325--14815461 Score: 136
Period size: 37 Copynumber: 3.6 Consensus size: 37
14815315 AGATAAGTAA
*
14815325 AAATATTAATAGATAAATAATAATAATAATAATAGAT
1 AAATATTAATAGATAAATAATAATAATAATAATACAT
* *
14815362 AAATAATAATATATAAATAGATAAATAATAATAAATACAT
1 AAATATTAATAGATAAATA-AT-AATAATAAT-AATACAT
* * *
14815402 ATACATATTAACAGATAAATAAAAAT-ATATATATTA-AT
1 A-A-ATATTAATAGATAAATAATAATAATA-ATAATACAT
*
14815440 AAATAGTAATA-ATAAATAATAA
1 AAATATTAATAGATAAATAATAA
14815462 ATACATAAGA
Statistics
Matches: 83, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
35 10 0.12
36 7 0.08
37 18 0.22
38 5 0.06
39 15 0.18
40 12 0.14
41 2 0.02
42 14 0.17
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (37 bp):
AAATATTAATAGATAAATAATAATAATAATAATACAT
Found at i:14815422 original size:56 final size:55
Alignment explanation
Indices: 14815331--14815461 Score: 151
Period size: 56 Copynumber: 2.3 Consensus size: 55
14815321 GTAAAAATAT
* *
14815331 TAATAGATAAATAATAATAATAATAATAGATAAATAATAATATATA-AATAGATAAA
1 TAATA-ATAAATAATAATAATAATAACAGATAAATAAAAATATATATAATA-ATAAA
* *
14815387 TAATAATAAATACAT-ATACATATTAACAGATAAATAAAAATATATATATTAATAAA
1 TAATAATAAATA-ATAATA-ATAATAACAGATAAATAAAAATATATATAATAATAAA
*
14815443 TAGTAAT-AATAAATAATAA
1 TAATAATAAAT-AATAATAA
14815462 ATACATAAGA
Statistics
Matches: 65, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
55 16 0.25
56 46 0.71
57 3 0.05
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (55 bp):
TAATAATAAATAATAATAATAATAACAGATAAATAAAAATATATATAATAATAAA
Found at i:14815487 original size:18 final size:18
Alignment explanation
Indices: 14815466--14815522 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
14815456 TAATAAATAC
*
14815466 ATAAGATACAAAAAAAAA
1 ATAAGATATAAAAAAAAA
*
14815484 ATAAGA-ATAAAAAAAAT
1 ATAAGATATAAAAAAAAA
*
14815501 ATAA-ATATAAAATACAAA
1 ATAAGATATAAAA-AAAAA
14815519 ATAA
1 ATAA
14815523 AAAAAATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 1 0.03
17 19 0.58
18 13 0.39
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.18
Consensus pattern (18 bp):
ATAAGATATAAAAAAAAA
Found at i:14815512 original size:29 final size:28
Alignment explanation
Indices: 14815481--14815534 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
14815471 ATACAAAAAA
*
14815481 AAAATA-AGAATAAAAAAAATATAAATAT
1 AAAATACAAAATAAAAAAAATA-AAATAT
14815509 AAAATACAAAATAAAAAAAATAAAAT
1 AAAATACAAAATAAAAAAAATAAAAT
14815535 GGGCCTACCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 10 0.42
29 14 0.58
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (28 bp):
AAAATACAAAATAAAAAAAATAAAATAT
Found at i:14815771 original size:45 final size:44
Alignment explanation
Indices: 14815713--14815861 Score: 139
Period size: 42 Copynumber: 3.5 Consensus size: 44
14815703 AAAATTTGAT
* * * *
14815713 CAAAACTCTTCTAAGCAGAGGCTTAATGACTTTGAAAAACATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAAA-ATAAA
* * *
14815758 CAAAGCTTCTCTAATCAAAGGCTCAACGACTTTG--AAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAAAATAAA
* * *
14815800 TAAAGCTCCTCTAATAAGAGGCCCAATGACTTTG--AAAAT-AA
1 CAAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAAAATAAA
**
14815841 -ATGGCTCCTCTAATCAGAGGC
1 CAAAGCTCCTCTAATCAGAGGC
14815862 ATCACAACTT
Statistics
Matches: 88, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
40 18 0.20
41 2 0.02
42 38 0.43
43 3 0.03
45 27 0.31
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (44 bp):
CAAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAAAATAAA
Found at i:14815872 original size:40 final size:39
Alignment explanation
Indices: 14815766--14815887 Score: 111
Period size: 40 Copynumber: 3.0 Consensus size: 39
14815756 AACAAAGCTT
* * *
14815766 CTCTAATCAAAGGCTCAACGACTTTGAAAATAAATAAAGCTC
1 CTCTAATCAGAGGCTC-ACAACTTTGAAAATAAAT--GGCTC
* *
14815808 CTCTAATAAGAGGCCCA-ATGACTTTGAAAATAAATGGCTC
1 CTCTAATCAGAGGCTCACA--ACTTTGAAAATAAATGGCTC
* * *
14815848 CTCTAATCAGAGGCATCACAACTTTAAAAAAAAAAGGCTC
1 CTCTAATCAGAGGC-TCACAACTTTGAAAATAAATGGCTC
14815888 TTTGACAATT
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
40 34 0.52
41 3 0.05
42 29 0.44
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.23
Consensus pattern (39 bp):
CTCTAATCAGAGGCTCACAACTTTGAAAATAAATGGCTC
Found at i:14816921 original size:18 final size:18
Alignment explanation
Indices: 14816899--14816932 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
14816889 TTATTCACTT
14816899 TTTTTTTC-TTTTTTTTA
1 TTTTTTTCATTTTTTTTA
14816916 TTTTTTTCATTTTTTTT
1 TTTTTTTCATTTTTTTT
14816933 CAAGCATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.06, C:0.06, G:0.00, T:0.88
Consensus pattern (18 bp):
TTTTTTTCATTTTTTTTA
Found at i:14816933 original size:10 final size:10
Alignment explanation
Indices: 14816884--14816934 Score: 54
Period size: 9 Copynumber: 5.1 Consensus size: 10
14816874 TTGAGTCCTT
14816884 ATTTTTTATTC
1 ATTTTTT-TTC
14816895 ACTTTTTTTTTC
1 A--TTTTTTTTC
14816907 -TTTTTTTT-
1 ATTTTTTTTC
14816915 A-TTTTTTTC
1 ATTTTTTTTC
14816924 ATTTTTTTTC
1 ATTTTTTTTC
14816934 A
1 A
14816935 AGCATAGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
8 7 0.20
9 9 0.26
10 9 0.26
11 1 0.03
12 3 0.09
13 6 0.17
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (10 bp):
ATTTTTTTTC
Found at i:14827519 original size:58 final size:58
Alignment explanation
Indices: 14827335--14827608 Score: 437
Period size: 58 Copynumber: 4.8 Consensus size: 58
14827325 TACTTTTGTA
*
14827335 CAAGGAAAATTGATACTTTCAACTTTTCC-CCAAAATATTTTTTAG-AAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
* *
14827391 TAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAA-TTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
*
14827448 CAAAGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
* * *
14827506 CAAGAAAAATTGATACTTTTAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
* *
14827564 TAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTT
14827609 TTGAATTTTA
Statistics
Matches: 200, Mismatches: 14, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
56 28 0.14
57 69 0.34
58 98 0.49
59 5 0.03
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (58 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
Found at i:14827540 original size:115 final size:115
Alignment explanation
Indices: 14827339--14827608 Score: 427
Period size: 115 Copynumber: 2.3 Consensus size: 115
14827329 TTTGTACAAG
* * *
14827339 GAAAATTGATACTTTCAACTTTTCC-CCAAAATATTTTTTAGAAACTTATTTTTAAGGAAAATTG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAACTTATTTTCAAGAAAAATTG
14827403 ATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAA-TTATTTTCAAA
66 ATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAACTTATTTTCAAA
14827452 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAAGAAAAATT
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAG-AAACTTATTTTCAAGAAAAATT
* * * * *
14827517 GATACTTTTAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTTAAG
65 GATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAACTTATTTTCAAA
*
14827568 GAAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTT
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTT
14827609 TTGAATTTTA
Statistics
Matches: 144, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
113 25 0.17
114 15 0.10
115 56 0.39
116 43 0.30
117 5 0.03
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (115 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAACTTATTTTCAAGAAAAATTG
ATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAACTTATTTTCAAA
Found at i:14827637 original size:5 final size:5
Alignment explanation
Indices: 14827629--14827707 Score: 88
Period size: 5 Copynumber: 14.8 Consensus size: 5
14827619 TTTAAAAAGA
14827629 AAAAT AAAAT -AAAT AAAAT AAAAAAT AAAAT AAAAT AAAAAT AAAGAT
1 AAAAT AAAAT AAAAT AAAAT --AAAAT AAAAT AAAAT -AAAAT AAA-AT
*
14827677 AAAGAT AAAAAT AGAAT AAAAT AAAAT AAAA
1 AAA-AT -AAAAT AAAAT AAAAT AAAAT AAAA
14827708 AATACTAAAT
Statistics
Matches: 66, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
4 4 0.06
5 39 0.59
6 15 0.23
7 8 0.12
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:14827637 original size:6 final size:6
Alignment explanation
Indices: 14827621--14827708 Score: 69
Period size: 6 Copynumber: 15.0 Consensus size: 6
14827611 GAATTTTATT
* *
14827621 TAAAAA GAAAAA TAAAATA AATAAAA TAAAAA -ATAAAA T-AAAA TAAAAA
1 TAAAAA TAAAAA TAAAA-A TA-AAAA TAAAAA TA-AAAA TAAAAA TAAAAA
* * *
14827670 TAAAGA TAAAGA TAAAAA T-AGAA T-AAAA T-AAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
14827709 ATACTAAATG
Statistics
Matches: 68, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
5 19 0.28
6 42 0.62
7 4 0.06
8 3 0.04
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:14827711 original size:17 final size:16
Alignment explanation
Indices: 14827629--14827707 Score: 101
Period size: 17 Copynumber: 4.9 Consensus size: 16
14827619 TTTAAAAAGA
14827629 AAAAT-AAAAT-AAAT
1 AAAATAAAAATAAAAT
14827643 AAAATAAAAAATAAAAT
1 AAAAT-AAAAATAAAAT
14827660 AAAATAAAAATAAAGAT
1 AAAATAAAAATAAA-AT
*
14827677 AAAGATAAAAATAGAAT
1 AAA-ATAAAAATAAAAT
14827694 AAAAT-AAAATAAAA
1 AAAATAAAAATAAAA
14827708 AATACTAAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
14 5 0.09
15 8 0.14
16 16 0.28
17 19 0.33
18 10 0.17
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (16 bp):
AAAATAAAAATAAAAT
Found at i:14827745 original size:7 final size:7
Alignment explanation
Indices: 14827733--14827773 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
14827723 TAAATCTAGT
14827733 TAATAAA
1 TAATAAA
14827740 TAAT-AA
1 TAATAAA
14827746 TAAT-AA
1 TAATAAA
*
14827752 TAATTAAT
1 TAA-TAAA
14827760 TAATAAA
1 TAATAAA
14827767 TAATAAA
1 TAATAAA
14827774 AAAATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 11 0.37
7 15 0.50
8 4 0.13
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (7 bp):
TAATAAA
Found at i:14828645 original size:20 final size:20
Alignment explanation
Indices: 14828619--14828678 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
14828609 TAAAAAATGT
*
14828619 TAATAGATAATTAAAAA-AA
1 TAATAGATAAATAAAAATAA
*
14828638 TAATTAGATAAATAAAAATAT
1 TAA-TAGATAAATAAAAATAA
*
14828659 TAATAGATAAATAATAATAA
1 TAATAGATAAATAAAAATAA
14828679 ATACATATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 3 0.09
20 28 0.80
21 4 0.11
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (20 bp):
TAATAGATAAATAAAAATAA
Found at i:14828755 original size:18 final size:18
Alignment explanation
Indices: 14828734--14828803 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
14828724 AGTAATAATA
*
14828734 AAGAAATAATAAATAAAT
1 AAGAAATAAAAAATAAAT
* *
14828752 AAGATACAAAAAAT-AAT
1 AAGAAATAAAAAATAAAT
*
14828769 -AGTAATAAAAATATAAAT
1 AAGAAATAAAAA-ATAAAT
14828787 ATA-AAATAAAAAATAAA
1 A-AGAAATAAAAAATAAA
14828804 AAAAATGGGC
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
16 8 0.20
17 5 0.12
18 19 0.46
19 8 0.20
20 1 0.02
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.21
Consensus pattern (18 bp):
AAGAAATAAAAAATAAAT
Found at i:14828981 original size:22 final size:20
Alignment explanation
Indices: 14828956--14829001 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 20
14828946 AAACGTGCAT
*
14828956 AAATAATAACTATAAAAACTAA
1 AAATAATAA-AATAAAAA-TAA
14828978 AAATAATAAAATAAAAATAA
1 AAATAATAAAATAAAAATAA
14828998 AAAT
1 AAAT
14829002 TAAACCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.30
21 7 0.30
22 9 0.39
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (20 bp):
AAATAATAAAATAAAAATAA
Found at i:14835464 original size:13 final size:12
Alignment explanation
Indices: 14835448--14835495 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
14835438 AATAATAACT
*
14835448 ATAAAAACTAAAA
1 ATAAAAAAT-AAA
14835461 ATAATAAAATAAA
1 ATAA-AAAATAAA
*
14835474 ATAAAAAATTAA
1 ATAAAAAATAAA
14835486 ATAAGAAAAT
1 ATAA-AAAAT
14835496 TTTTTACCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 11 0.35
13 16 0.52
14 4 0.13
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (12 bp):
ATAAAAAATAAA
Found at i:14837136 original size:43 final size:43
Alignment explanation
Indices: 14837075--14837246 Score: 344
Period size: 43 Copynumber: 4.0 Consensus size: 43
14837065 TACATGTAAG
14837075 CTAATGTCATCTTCATCGAAGAATTGAATAATTGAGCTCACTT
1 CTAATGTCATCTTCATCGAAGAATTGAATAATTGAGCTCACTT
14837118 CTAATGTCATCTTCATCGAAGAATTGAATAATTGAGCTCACTT
1 CTAATGTCATCTTCATCGAAGAATTGAATAATTGAGCTCACTT
14837161 CTAATGTCATCTTCATCGAAGAATTGAATAATTGAGCTCACTT
1 CTAATGTCATCTTCATCGAAGAATTGAATAATTGAGCTCACTT
14837204 CTAATGTCATCTTCATCGAAGAATTGAATAATTGAGCTCACTT
1 CTAATGTCATCTTCATCGAAGAATTGAATAATTGAGCTCACTT
14837247 TTGAAGTTGA
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 129 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (43 bp):
CTAATGTCATCTTCATCGAAGAATTGAATAATTGAGCTCACTT
Found at i:14838655 original size:21 final size:20
Alignment explanation
Indices: 14838631--14838690 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
14838621 ATATATGAAT
14838631 GAGGATTGATCCTTATTCATA
1 GAGGATTGATCCTTATTCA-A
** *
14838652 GAGGACCGATCCTTCACTCAA
1 GAGGATTGATCCTT-ATTCAA
*
14838673 AAGGATTGATCCTT-TTCA
1 GAGGATTGATCCTTATTCA
14838691 CTTTTTAACT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
19 3 0.10
21 24 0.77
22 4 0.13
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (20 bp):
GAGGATTGATCCTTATTCAA
Found at i:14841985 original size:96 final size:92
Alignment explanation
Indices: 14841820--14842110 Score: 273
Period size: 96 Copynumber: 3.0 Consensus size: 92
14841810 AAAATTGAAA
*
14841820 AAAATTATTTTTTCCTACTAAACGATTGAAGGATTTTAATTTTAAATTATAAATTCTACCAAACA
1 AAAATTATTTTTTCCTACAAAACGATTGAAGGATTTTAATTTTAAATTATAAATTCTACCAAACA
*
14841885 ATTGGAGAATTTTATAATG-ATTTTTG
66 ATTGGAGAATTTCATAATGAATTTTTG
* *
14841911 AAAATTAGTTTTTTTCCCTACCAAAATGATTGGAGGATTTTAATTTTAAAATTATAAATTCTACC
1 AAAATTA--TTTTTT-CCTA-CAAAACGATTGAAGGATTTTAATTTT-AAATTATAAATTCTACC
* *
14841976 AAACTATTGGATAATTTCATAATGAATTTTTATG
61 AAACAATTGGAGAATTTCATAATGAA-TTTT-TG
* * * * * * *
14842010 AAAAATAAAATTGTTTT-TTAATTCTATCAAATGATTGAAGGATTTAAATCTTGAATTATGAATT
1 -AAAAT--TATT-TTTTCCT-A--C-A--AAACGATTGAAGGATTTTAATTTTAAATTATAAATT
**
14842074 CTACCAAATGATTGGAGAATTTCAT-ATGAATTTTTG
56 CTACCAAACAATTGGAGAATTTCATAATGAATTTTTG
14842110 A
1 A
14842111 GAAAAACTAA
Statistics
Matches: 166, Mismatches: 17, Indels: 26
0.79 0.08 0.12
Matches are distributed among these distances:
91 7 0.04
93 6 0.04
94 4 0.02
95 23 0.14
96 38 0.23
97 1 0.01
98 4 0.02
99 4 0.02
100 10 0.06
101 9 0.05
102 7 0.04
103 32 0.19
104 21 0.13
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (92 bp):
AAAATTATTTTTTCCTACAAAACGATTGAAGGATTTTAATTTTAAATTATAAATTCTACCAAACA
ATTGGAGAATTTCATAATGAATTTTTG
Found at i:14842075 original size:103 final size:104
Alignment explanation
Indices: 14841934--14842121 Score: 267
Period size: 103 Copynumber: 1.8 Consensus size: 104
14841924 TTCCCTACCA
* * * *
14841934 AAATGATTGGAGGATTTTAATTTTAAAATTATAAATTCTACCAAACT-ATTGGATAATTTCATAA
1 AAATGATTGAAGGATTTAAATCTTAAAATTATAAATTCTACCAAA-TGATTGGAGAATTTCAT-A
14841998 TGAATTTTT-ATGAAAAA-TAAAATTGTTTTTTAATTCTATC
64 TGAATTTTTGA-GAAAAACTAAAATTGTTTTTTAATTCTATC
* *
14842038 AAATGATTGAAGGATTTAAATCTT-GAATTATGAATTCTACCAAATGATTGGAGAATTTCATATG
1 AAATGATTGAAGGATTTAAATCTTAAAATTATAAATTCTACCAAATGATTGGAGAATTTCATATG
14842102 AATTTTTGAGAAAAACTAAA
66 AATTTTTGAGAAAAACTAAA
14842122 TTTTAATTCT
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
102 17 0.23
103 37 0.49
104 21 0.28
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.39
Consensus pattern (104 bp):
AAATGATTGAAGGATTTAAATCTTAAAATTATAAATTCTACCAAATGATTGGAGAATTTCATATG
AATTTTTGAGAAAAACTAAAATTGTTTTTTAATTCTATC
Found at i:14856849 original size:14 final size:13
Alignment explanation
Indices: 14856822--14856870 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
14856812 AACAATAACT
*
14856822 ATAAAAACTAAAA
1 ATAAAAAATAAAA
14856835 ATAATAAAATAAAA
1 ATAA-AAAATAAAA
*
14856849 ATAAAAAAT-TAA
1 ATAAAAAATAAAA
14856861 ATAAGAAAAT
1 ATAA-AAAAT
14856871 TTTTTACCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 6 0.19
13 14 0.44
14 12 0.38
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (13 bp):
ATAAAAAATAAAA
Found at i:14859089 original size:2 final size:2
Alignment explanation
Indices: 14859082--14859115 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
14859072 CAATTTCCCA
*
14859082 AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14859116 TTCTAAGTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14859547 original size:21 final size:20
Alignment explanation
Indices: 14859523--14859582 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
14859513 CTATATGAAT
14859523 GAGGATTGATCCTTATTCATA
1 GAGGATTGATCCTTATTCA-A
** *
14859544 GAGGACCGATCCTTCACTCAA
1 GAGGATTGATCCTT-ATTCAA
*
14859565 AAGGATTGATCCTT-TTCA
1 GAGGATTGATCCTTATTCA
14859583 CTTTTTAACT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
19 3 0.10
21 24 0.77
22 4 0.13
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (20 bp):
GAGGATTGATCCTTATTCAA
Found at i:14862300 original size:15 final size:16
Alignment explanation
Indices: 14862275--14862308 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
14862265 AAATAGGAAT
14862275 AGAGAAAAGAAAGGGA
1 AGAGAAAAGAAAGGGA
*
14862291 AGAG-AAAGAAAGTGA
1 AGAGAAAAGAAAGGGA
14862306 AGA
1 AGA
14862309 AGAATTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.35, T:0.03
Consensus pattern (16 bp):
AGAGAAAAGAAAGGGA
Found at i:14862804 original size:103 final size:101
Alignment explanation
Indices: 14862697--14863003 Score: 312
Period size: 96 Copynumber: 3.1 Consensus size: 101
14862687 TCTAATTGAT
* *
14862697 ATTTTTAAAAAATTGAAAAATATTATTTTTCCCTACTAAACGATTGAAGGATTTTAATTTTAAAT
1 ATTTTTAAAAAATT-AAAAATGTT-TTTTTCCCTACTAAATGATTGAAGGATTTTAATTTTAAAT
14862762 TATAAATTCTACCAAACAATTGGAGAATTTCATAATGA
64 TATAAATTCTACCAAACAATTGGAGAATTTCATAATGA
* * *
14862800 A-TTTT-GAAAATT----A-GTTTTTTTCCCTACCAAAATGATTGGAGGATTTTAATTTTAAAAT
1 ATTTTTAAAAAATTAAAAATGTTTTTTTCCCTA-CTAAATGATTGAAGGATTTTAATTTT-AAAT
* * *
14862858 TATAAATTCTACCAAACTATTAGATAATTTCATAATGA
64 TATAAATTCTACCAAACAATTGGAGAATTTCATAATGA
* * * * *
14862896 ATTTTTATGAAAAA-TAAAATTGTTTTTTAAT-TCTA-TCAAATGATTGAAGGATTTAAATCTTG
1 ATTTTTA--AAAAATTAAAAATGTTTTTT--TCCCTACT-AAATGATTGAAGGATTTTAATTTTA
* **
14862958 AATTATGAATTCTACCAAATGATTGGAGAATTTCAT-ATGA
61 AATTATAAATTCTACCAAACAATTGGAGAATTTCATAATGA
14862998 ATTTTT
1 ATTTTT
14863004 GAGAAAAACA
Statistics
Matches: 169, Mismatches: 21, Indels: 29
0.77 0.10 0.13
Matches are distributed among these distances:
94 10 0.06
95 25 0.15
96 41 0.24
97 4 0.02
99 1 0.01
100 4 0.02
101 6 0.04
102 14 0.08
103 32 0.19
104 28 0.17
105 3 0.02
106 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (101 bp):
ATTTTTAAAAAATTAAAAATGTTTTTTTCCCTACTAAATGATTGAAGGATTTTAATTTTAAATTA
TAAATTCTACCAAACAATTGGAGAATTTCATAATGA
Found at i:14862937 original size:104 final size:102
Alignment explanation
Indices: 14862829--14863018 Score: 258
Period size: 103 Copynumber: 1.8 Consensus size: 102
14862819 TTCCCTACCA
* * * *
14862829 AAATGATTGGAGGATTTTAATTTTAAAATTATAAATTCTACCAAACT-ATTAGATAATTTCATAA
1 AAATGATTGAAGGATTTAAATCTT-AAATTATAAATTCTACCAAA-TGATTAGAGAATTTCAT-A
*
14862893 TGAATTTTT-ATGAAAAATAAAATTGTTTTTTAATTCTATC
63 TGAATTTTTGA-GAAAAACAAAATTGTTTTTTAATTCTATC
* * *
14862933 AAATGATTGAAGGATTTAAATCTTGAATTATGAATTCTACCAAATGATTGGAGAATTTCATATGA
1 AAATGATTGAAGGATTTAAATCTTAAATTATAAATTCTACCAAATGATTAGAGAATTTCATATGA
14862998 ATTTTTGAGAAAAACAAAATT
66 ATTTTTGAGAAAAACAAAATT
14863019 TCAATTCTAC
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
102 23 0.30
103 32 0.42
104 21 0.28
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (102 bp):
AAATGATTGAAGGATTTAAATCTTAAATTATAAATTCTACCAAATGATTAGAGAATTTCATATGA
ATTTTTGAGAAAAACAAAATTGTTTTTTAATTCTATC
Found at i:14864452 original size:59 final size:58
Alignment explanation
Indices: 14864261--14864539 Score: 391
Period size: 59 Copynumber: 4.7 Consensus size: 58
14864251 TTTTGTGTAG
* *
14864261 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTT-ATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTGAAAATTTGATTTTCAA
* *
14864319 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAA-A-TTTTTTTTGAAAATTTGATTTTCAA
* * *
14864380 GGAAAATTTATACTTTCAACTTTTCCTCAAAAATCCCTTTTTTGAAAATTT-ATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT--TTTTTTTGAAAATTTGATTTTCAA
* *
14864439 GGAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTGGAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAA-ATTTTTTTTGAAAATTTGATTTTCAA
14864498 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTT
14864540 TTTGAAATTA
Statistics
Matches: 197, Mismatches: 15, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
58 42 0.21
59 87 0.44
60 34 0.17
61 34 0.17
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.45
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTGAAAATTTGATTTTCAA
Found at i:14864453 original size:120 final size:117
Alignment explanation
Indices: 14864261--14864539 Score: 459
Period size: 118 Copynumber: 2.4 Consensus size: 117
14864251 TTTTGTGTAG
* *
14864261 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTTTGAAAATTTATTTTTAAGGAAAAT
*
14864326 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAA
66 TGATACTTTCAACTTTTCCTC-AAAATA-TTTTTTTGGAAACTTTGATTTCCAA
* *
14864380 GGAAAATTTATACTTTCAACTTTTCCTCAAAAATCCCTTTTTTGAAAATTTATTTTTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-ACTTTTTTGAAAATTTATTTTTAAGGAAAA
* *
14864445 TTGATACTTTCAACTTTTCCTCAAAATATTTTTTTGGAAATTTTGATTTTCAA
65 TTGATACTTTCAACTTTTCCTCAAAATATTTTTTTGGAAACTTTGATTTCCAA
*
14864498 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTTT
14864540 TTTGAAATTA
Statistics
Matches: 149, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
117 6 0.04
118 55 0.37
119 38 0.26
120 50 0.34
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.45
Consensus pattern (117 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTTTGAAAATTTATTTTTAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAATATTTTTTTGGAAACTTTGATTTCCAA
Found at i:14864541 original size:120 final size:120
Alignment explanation
Indices: 14864261--14864558 Score: 467
Period size: 120 Copynumber: 2.5 Consensus size: 120
14864251 TTTTGTGTAG
*
14864261 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAAATTTATTTTTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAAGGAAAA
*
14864325 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAA
66 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGGAAACTTTGATTTCCAA
* ***
14864380 GGAAAATTTATACTTTCAACTTTTCCTCAAAAATCCCTTTTTTGAAAATTTATTTTTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAAGGAAAA
* *
14864445 TTGATACTTTCAACTTTTCCTC-AAAATA-TTTTTTTGGAAATTTTGATTTTCAA
66 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGGAAACTTTGATTTCCAA
*
14864498 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAATTATTATTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA--TTTTTTTTGAAAAT-TTATTTTTA
14864559 TTATTAACCA
Statistics
Matches: 163, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
118 55 0.34
119 38 0.23
120 61 0.37
121 9 0.06
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (120 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAAGGAAAA
TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGGAAACTTTGATTTCCAA
Found at i:14866706 original size:23 final size:23
Alignment explanation
Indices: 14866680--14866724 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
14866670 GAAAAAGAAA
14866680 ATAAATCATAAAATAAA-AAAATG
1 ATAAAT-ATAAAATAAACAAAATG
*
14866703 ATAAATATGAAATAAACAAAAT
1 ATAAATATAAAATAAACAAAAT
14866725 CTAAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.22
Consensus pattern (23 bp):
ATAAATATAAAATAAACAAAATG
Found at i:14867056 original size:9 final size:9
Alignment explanation
Indices: 14867024--14867048 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14867014 TTTTGTCCAT
14867024 TTTTTTTGC
1 TTTTTTTGC
14867033 TTTTTTTGC
1 TTTTTTTGC
14867042 TTTTTTT
1 TTTTTTT
14867049 TTTTTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (9 bp):
TTTTTTTGC
Found at i:14867155 original size:125 final size:128
Alignment explanation
Indices: 14866904--14867142 Score: 423
Period size: 125 Copynumber: 1.9 Consensus size: 128
14866894 TTTTGCCCAT
14866904 TTTTTCTTGCTTCTTTTTTTTTTTTTAAATTTTGATCAAAGCTCCTCTAAGCGAAGGCTCAATGA
1 TTTTTCTTGCTTCTTTTTTTTTTTTTAAA-TTTGATCAAAGCTCCTCTAAGCGAAGGCTCAATGA
*
14866969 TTTTGAGAAACATAAACAAAGCTCCTCTAAATAGAGGCAACTTTTTTTTGTCCATTTTTTTTGC
65 CTTTGAGAAACATAAACAAAGCTCCTCTAAATAGAGGCAACTTTTTTTTGTCCATTTTTTTTGC
14867033 TTTTT-TTGCTT-TTTTTTTTTTTTTAAA-TTGATCAAAGCTCCTCTAAGC-AGAGGCTCAATGA
1 TTTTTCTTGCTTCTTTTTTTTTTTTTAAATTTGATCAAAGCTCCTCTAAGCGA-AGGCTCAATGA
14867094 CTTTGAGAAACATAAACAAAGCTCCTCTAAATAGAGGCAACTTTTTTTT
65 CTTTGAGAAACATAAACAAAGCTCCTCTAAATAGAGGCAACTTTTTTTT
14867143 TTGTTTTTTT
Statistics
Matches: 108, Mismatches: 1, Indels: 6
0.94 0.01 0.05
Matches are distributed among these distances:
124 1 0.01
125 80 0.74
127 16 0.15
128 6 0.06
129 5 0.05
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.44
Consensus pattern (128 bp):
TTTTTCTTGCTTCTTTTTTTTTTTTTAAATTTGATCAAAGCTCCTCTAAGCGAAGGCTCAATGAC
TTTGAGAAACATAAACAAAGCTCCTCTAAATAGAGGCAACTTTTTTTTGTCCATTTTTTTTGC
Found at i:14867202 original size:96 final size:93
Alignment explanation
Indices: 14867042--14867226 Score: 244
Period size: 96 Copynumber: 2.0 Consensus size: 93
14867032 CTTTTTTTGC
* * *
14867042 TTTTTTTTTTTTTTTAAATTGATCAAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAGAAACAT
1 TTTTTTTTTTTTTTTAAATTGACCAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACAT
*
14867107 AAACAAAGCTCCTCTAAATAGAGGCAACTT
66 -AA-AAAGCTCCTCTAAACAGAGGCAACTT
*** * *
14867137 TTTTTTTTGTTTTTTTTTTTTGACCAAAGCTCCTTTAAACAGAGGCTCAACGACTTTGCGAAACA
1 TTTTTTTT-TTTTTTTAAATTGACCAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACA
**
14867202 TAAATTGCTCCTCTAAACAGAGGCA
65 TAAAAAGCTCCTCTAAACAGAGGCA
14867227 CCACGACTTT
Statistics
Matches: 78, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
94 19 0.24
95 10 0.13
96 49 0.63
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (93 bp):
TTTTTTTTTTTTTTTAAATTGACCAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACAT
AAAAAGCTCCTCTAAACAGAGGCAACTT
Found at i:14867336 original size:41 final size:41
Alignment explanation
Indices: 14867165--14867469 Score: 451
Period size: 40 Copynumber: 7.5 Consensus size: 41
14867155 TTTGACCAAA
* * * *
14867165 GCTCCTTTAAACAGAGGCTCAACGACTTTGCGAAACATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAA-GTAAATT
14867208 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATT
*
14867250 GCTCCTCTAAACAGAGGCACCACAACTTT-GAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
14867290 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
*
14867331 GCTCCTCTAAACAGAGGCAACA-GAACTTT-GAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAGTAAATT
*
14867371 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
14867412 GCTCCTCTAAACAGAGGCA--ACGAAC-TTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAGTAAATT
*
14867451 GCTCCTCTAAATAGAGGCA
1 GCTCCTCTAAACAGAGGCA
14867470 ACGAACTTGA
Statistics
Matches: 245, Mismatches: 11, Indels: 16
0.90 0.04 0.06
Matches are distributed among these distances:
39 34 0.14
40 78 0.32
41 68 0.28
42 35 0.14
43 30 0.12
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
Found at i:14867364 original size:81 final size:81
Alignment explanation
Indices: 14867202--14867469 Score: 475
Period size: 81 Copynumber: 3.3 Consensus size: 81
14867192 TTGCGAAACA
14867202 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGG
* *
14867267 CACCACAACTTTGAAAG
65 CAACAGAACTTTGAAAG
14867284 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGC
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGC
14867349 AACAGAACTTTGAAAG
66 AACAGAACTTTGAAAG
*
14867365 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATCGCTCCTCTAAACAGAGGC
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGC
*
14867430 AAC-GAACTTGGAAAG
66 AACAGAACTTTGAAAG
*
14867445 TAAATTGCTCCTCTAAATAGAGGCA
1 TAAATTGCTCCTCTAAACAGAGGCA
14867470 ACGAACTTGA
Statistics
Matches: 181, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
80 35 0.19
81 109 0.60
82 37 0.20
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (81 bp):
TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGC
AACAGAACTTTGAAAG
Found at i:14868692 original size:18 final size:18
Alignment explanation
Indices: 14868671--14868724 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 18
14868661 TTTGAATATC
*
14868671 TTTTTT-TTATTTTCTCA
1 TTTTTTCTTTTTTTCTCA
* *
14868688 TTTTTTCCTTTTTTTTTCT
1 TTTTTT-CTTTTTTTCTCA
14868707 TTTTTTCTTTTTTT-TCA
1 TTTTTTCTTTTTTTCTCA
14868724 T
1 T
14868725 CATCTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 9 0.29
18 8 0.26
19 14 0.45
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTTCTTTTTTTCTCA
Found at i:14868734 original size:23 final size:23
Alignment explanation
Indices: 14868704--14868748 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
14868694 CCTTTTTTTT
*
14868704 TCTTTTTTTCTT-TTTTTTCATCA
1 TCTTTTTTT-TTCATTTTTCATCA
14868727 TCTTTTTTTTTCATTTTTCATC
1 TCTTTTTTTTTCATTTTTCATC
14868749 CATTGTTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (23 bp):
TCTTTTTTTTTCATTTTTCATCA
Found at i:14871474 original size:15 final size:15
Alignment explanation
Indices: 14871454--14871500 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
14871444 TTGTAAGTGT
14871454 AATGAATGAAAATGC
1 AATGAATGAAAATGC
* *
14871469 AATGAATGAGAATGT
1 AATGAATGAAAATGC
14871484 AATGAATGAGAAATGC
1 AATGAATGA-AAATGC
14871500 A
1 A
14871501 TGTATGCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
15 22 0.81
16 5 0.19
ACGTcount: A:0.51, C:0.04, G:0.23, T:0.21
Consensus pattern (15 bp):
AATGAATGAAAATGC
Found at i:14874758 original size:59 final size:57
Alignment explanation
Indices: 14874669--14875076 Score: 477
Period size: 57 Copynumber: 6.9 Consensus size: 57
14874659 TTTTTTAGGA
*
14874669 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTT--ATTTTCAAGG
14874728 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAA-TTT-ATTTTCAAGG
* *
14874788 AAAATTGATACTTTCAACTTTTTCCCAAAAATTTTTTTTTTTTGAAATTTA--TT-AAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA---TATTTTTTTGAAATTTATTTTCAAGG
* * *
14874845 AAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTTGAAATTTA-TTTCTGAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTGAAATTTATTTTC-AAGG
* *
14874904 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAATTTATTTTTCTTTTAAAG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTA-TTTTC----AAGG
** * *
14874966 AAAATTGATACTTTCAACTTTTCCTTAAAAACATTTTTTGGAAATTTATTCTT-AAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATT-TTCAAGG
*
14875023 AAAATTGATACTTTCAACTTTTCCCTAAAAAATATTTTTTTTTGAAATTT-TTTT
1 AAAATTGATACTTTCAACTTTTCCC-CAAAAATA--TTTTTTTGAAATTTATTTT
14875077 ATTTTTATTT
Statistics
Matches: 310, Mismatches: 20, Indels: 39
0.84 0.05 0.11
Matches are distributed among these distances:
54 1 0.00
56 15 0.05
57 77 0.25
58 10 0.03
59 73 0.24
60 65 0.21
61 8 0.03
62 60 0.19
63 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.47
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTTCAAGG
Found at i:14875195 original size:21 final size:20
Alignment explanation
Indices: 14875171--14875209 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14875161 AACAAATAAA
14875171 CAAAGAAAAAAAAAAAAAATT
1 CAAA-AAAAAAAAAAAAAATT
14875192 CAAAAAAAAAAAAAAAAA
1 CAAAAAAAAAAAAAAAAA
14875210 CCTGGAGCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.87, C:0.05, G:0.03, T:0.05
Consensus pattern (20 bp):
CAAAAAAAAAAAAAAAAATT
Found at i:14875747 original size:26 final size:24
Alignment explanation
Indices: 14875708--14875761 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
14875698 AATCTGGAAA
*
14875708 TTTCCCAGAAATTTCCAGAAAAAAT
1 TTTCCCAAAAATTTCCA-AAAAAAT
* *
14875733 TTTCGCCAAAAATTTCTAAAAAATT
1 TTTC-CCAAAAATTTCCAAAAAAAT
14875758 TTTC
1 TTTC
14875762 TCACTCTCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.35
Consensus pattern (24 bp):
TTTCCCAAAAATTTCCAAAAAAAT
Found at i:14876121 original size:22 final size:24
Alignment explanation
Indices: 14876070--14876123 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 24
14876060 ATATGATAGT
*
14876070 ATAAAAATAAAAAAATAATATCAG
1 ATAAAATTAAAAAAATAATATCAG
*
14876094 AT--AATTCAAAAAA-AA-ATCAG
1 ATAAAATTAAAAAAATAATATCAG
14876114 ATAAAATTAA
1 ATAAAATTAA
14876124 CAGATAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
20 7 0.28
21 2 0.08
22 14 0.56
24 2 0.08
ACGTcount: A:0.69, C:0.06, G:0.04, T:0.22
Consensus pattern (24 bp):
ATAAAATTAAAAAAATAATATCAG
Found at i:14878041 original size:30 final size:30
Alignment explanation
Indices: 14877970--14878041 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
14877960 TAAAAATTAT
*
14877970 TTAAAATTTTAA-CATTTTATTATAATTAA
1 TTAAAATTTTAATCATTTTATTATAACTAA
* * *
14877999 TCAAATTTTTAATC-TTTTATTTTAAACTAA
1 TTAAAATTTTAATCATTTTATTAT-AACTAA
*
14878029 TTAAACTTTTAAT
1 TTAAAATTTTAAT
14878042 TAGATGAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
29 18 0.51
30 17 0.49
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (30 bp):
TTAAAATTTTAATCATTTTATTATAACTAA
Found at i:14884100 original size:29 final size:29
Alignment explanation
Indices: 14884067--14884126 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
14884057 GCATTTAGAT
*
14884067 AATTTGCAAAATGATTTTATCTTGTAATC
1 AATTTGCAAAATGATTTTATCTTGCAATC
14884096 AATTTGCAAAATGATTTTATCTTGCAATC
1 AATTTGCAAAATGATTTTATCTTGCAATC
14884125 AA
1 AA
14884127 AATTACCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.42
Consensus pattern (29 bp):
AATTTGCAAAATGATTTTATCTTGCAATC
Found at i:14892661 original size:13 final size:12
Alignment explanation
Indices: 14892645--14892692 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
14892635 AATAATAACT
*
14892645 ATAAAAACTAAAA
1 ATAAAAAAT-AAA
14892658 ATAATAAAATAAA
1 ATAA-AAAATAAA
*
14892671 ATAAAAAATTAA
1 ATAAAAAATAAA
14892683 ATAAGAAAAT
1 ATAA-AAAAT
14892693 TTTTTACCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 11 0.35
13 16 0.52
14 4 0.13
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (12 bp):
ATAAAAAATAAA
Found at i:14894327 original size:43 final size:42
Alignment explanation
Indices: 14894267--14894351 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 42
14894257 TACATGTAAG
14894267 CTAATGTCACTTCATCGAAGAATTGAATAATTGAGCTCACTT
1 CTAATGTCACTTCATCGAAGAATTGAATAATTGAGCTCACTT
14894309 CTAATGTCATCTTCATCGAAGAATTGAATAATTGAGCTCACTT
1 CTAATGTCA-CTTCATCGAAGAATTGAATAATTGAGCTCACTT
14894352 TTGAAGTTGA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 9 0.21
43 33 0.79
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (42 bp):
CTAATGTCACTTCATCGAAGAATTGAATAATTGAGCTCACTT
Found at i:14895760 original size:21 final size:20
Alignment explanation
Indices: 14895736--14895795 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
14895726 ATATATGAAT
14895736 GAGGATTGATCCTTATTCATA
1 GAGGATTGATCCTTATTCA-A
** *
14895757 GAGGACCGATCCTTCACTCAA
1 GAGGATTGATCCTT-ATTCAA
*
14895778 AAGGATTGATCCTT-TTCA
1 GAGGATTGATCCTTATTCA
14895796 CTTTTTAACT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
19 3 0.10
21 24 0.77
22 4 0.13
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (20 bp):
GAGGATTGATCCTTATTCAA
Found at i:14898539 original size:15 final size:16
Alignment explanation
Indices: 14898521--14898553 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14898511 GGAATAGAGA
14898521 AAAGAAAGGGAA-AAG
1 AAAGAAAGGGAAGAAG
*
14898536 AAAGAAAGTGAAGAAG
1 AAAGAAAGGGAAGAAG
14898552 AA
1 AA
14898554 TTCTGAGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.03
Consensus pattern (16 bp):
AAAGAAAGGGAAGAAG
Found at i:14898861 original size:22 final size:21
Alignment explanation
Indices: 14898836--14898892 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
14898826 TTTAGTTTTT
14898836 TTATTTATTTATTTAAAATTGC
1 TTATTTATTTATTT-AAATTGC
* * *
14898858 TTATTTAATTGATTTTAATTGG
1 TTATTT-ATTTATTTAAATTGC
14898880 TTATTT-TTTATTT
1 TTATTTATTTATTT
14898893 TTATTTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 6 0.20
22 17 0.57
23 7 0.23
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (21 bp):
TTATTTATTTATTTAAATTGC
Found at i:14899174 original size:104 final size:103
Alignment explanation
Indices: 14899066--14899253 Score: 256
Period size: 103 Copynumber: 1.8 Consensus size: 103
14899056 TTCCCTACCA
* * * *
14899066 AAATGATCGGAGGATTTTAATTTTAAAATTATAAATTCTACCAAACT-ATTGGATAATTTCATAA
1 AAATGATCGAAGGATTTAAATCTT-AAATTATAAATTCTACCAAA-TGATTGGAGAATTTCAT-A
14899130 TGAATTTTT-ATGAAAAA-TAAAATTGTTTTTTAATTCTATC
63 TGAATTTTTGA-GAAAAACTAAAATTGTTTTTTAATTCTATC
* * *
14899170 AAATGATTGAAGGATTTAAATCTTGAATTATGAATTCTACCAAATGATTGGAGAATTTCATATGA
1 AAATGATCGAAGGATTTAAATCTTAAATTATAAATTCTACCAAATGATTGGAGAATTTCATATGA
14899235 ATTTTTGAGAAAAACTAAA
66 ATTTTTGAGAAAAACTAAA
14899254 TTTCAATTCT
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
102 17 0.23
103 37 0.50
104 20 0.27
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.39
Consensus pattern (103 bp):
AAATGATCGAAGGATTTAAATCTTAAATTATAAATTCTACCAAATGATTGGAGAATTTCATATGA
ATTTTTGAGAAAAACTAAAATTGTTTTTTAATTCTATC
Found at i:14900489 original size:4 final size:4
Alignment explanation
Indices: 14900480--14900524 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
14900470 AATAGGTTCA
* * * *
14900480 TATT TATT TATT TATT TATT TGTT TGTT TGTT AATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT T
14900525 TCATTCATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:14903110 original size:22 final size:23
Alignment explanation
Indices: 14903067--14903111 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
14903057 TTTCAGTCAA
* *
14903067 TTCATACTGAATGATTGGAAAAT
1 TTCATAATGAATGATTGAAAAAT
*
14903090 TTCATAATGAAT-TTTGAAAAAT
1 TTCATAATGAATGATTGAAAAAT
14903112 AGTTTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (23 bp):
TTCATAATGAATGATTGAAAAAT
Found at i:14913542 original size:117 final size:115
Alignment explanation
Indices: 14913388--14913906 Score: 631
Period size: 117 Copynumber: 4.3 Consensus size: 115
14913378 TTGTGTAGGA
14913388 AAAATTGATACTTTCAACTTTTCCC-AAAAATACTTTTTTG-AAATTTATTTTTAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGAAAATTTATTTTTAAGGAAAATTG
14913451 ATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTTCAAGG
65 ATACTTTCAACTTTTCC-CAAAAATA--TTTTTTTGAAACTTTGATTTTCAAGG
* *
14913505 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTCGAAAATTTTGATTTTCAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAA-TTT-ATTTTTAAGGAAAATT
* *
14913570 GATACTTTCAACTTTTCCCAAAAATTTTTTTTTTGAAACTTTGATTTCCAAGG
64 GATACTTTCAACTTTTCCCAAAAA-TATTTTTTTGAAACTTTGATTTTCAAGG
* *
14913623 AAAATTAATACTTTCAACTTTT-CCTCAAAAATCTTTTTTTGAAAATTTATTTTTAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAAT-ATTTTTTGAAAATTTATTTTTAAGGAAAATT
* * *
14913687 GATACTTTCAACTTTTCCCAAAAATAGTTTTTGGAAA-TTT-ATTTCTAAGAAAAATTGATACAG
64 GATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAACTTTGATTT-T-----CAA--G-----G
*
14913750 AAAAATTGATACTTTCAACTTTT-CCTCAAAAATCCTTTTTTGAAAATTTATTTTTAAGGAAAAT
1 -AAAATTGATACTTTCAACTTTTCCCT-AAAAAT-ATTTTTTGAAAATTTATTTTTAAGGAAAAT
*
14913814 TGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGAAAATTTTGATTTTCAAGG
63 TGATACTTTCAACTTTTCCC-AAAAATATTTTTTTG-AAACTTTGATTTTCAAGG
14913868 AAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTT
1 AAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTT
14913907 TGATTTTTAT
Statistics
Matches: 357, Mismatches: 18, Indels: 55
0.83 0.04 0.13
Matches are distributed among these distances:
114 4 0.01
115 3 0.01
116 16 0.04
117 97 0.27
118 70 0.20
119 21 0.06
120 36 0.10
122 1 0.00
123 1 0.00
125 2 0.01
127 1 0.00
128 87 0.24
129 10 0.03
130 4 0.01
131 4 0.01
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.44
Consensus pattern (115 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTATTTTTAAGGAAAATTGA
TACTTTCAACTTTTCCCAAAAATATTTTTTTGAAACTTTGATTTTCAAGG
Found at i:14913571 original size:59 final size:56
Alignment explanation
Indices: 14913388--14913747 Score: 472
Period size: 59 Copynumber: 6.2 Consensus size: 56
14913378 TTGTGTAGGA
* *
14913388 AAAATTGATACTTTCAACTTTTCCCAAAAATACTTTTTTGAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAATTTATTTTCAAGG
14913444 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCC-CAAAAATA--TTTTTTTGAAA-TTT-ATTTTCAAGG
*
14913505 AAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTCGAAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTG-AAA-TTT-ATTTTCAAGG
* *
14913564 AAAATTGATACTTTCAACTTTTCCCAAAAATTTTTTTTTTGAAACTTTGATTTCCAAGG
1 AAAATTGATACTTTCAACTTTTCCCAAAAA-TATTTTTTTGAAA-TTT-ATTTTCAAGG
* * *
14913623 AAAATTAATACTTTCAACTTTTCCTCAAAAATCTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTTG-AAATTTATTTTCAAGG
* * *
14913681 AAAATTGATACTTTCAACTTTTCCCAAAAATAGTTTTTGGAAATTTA-TTTCTAAGA
1 AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAATTTATTTTC-AAGG
14913737 AAAATTGATAC
1 AAAATTGATAC
14913748 AGAAAAATTG
Statistics
Matches: 274, Mismatches: 18, Indels: 24
0.87 0.06 0.08
Matches are distributed among these distances:
55 3 0.01
56 45 0.16
57 21 0.08
58 42 0.15
59 104 0.38
60 19 0.07
61 40 0.15
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.44
Consensus pattern (56 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAATTTATTTTCAAGG
Found at i:14913753 original size:14 final size:14
Alignment explanation
Indices: 14913734--14913761 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14913724 TTTATTTCTA
14913734 AGAAAAATTGATAC
1 AGAAAAATTGATAC
14913748 AGAAAAATTGATAC
1 AGAAAAATTGATAC
14913762 TTTCAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.21
Consensus pattern (14 bp):
AGAAAAATTGATAC
Found at i:14913756 original size:70 final size:72
Alignment explanation
Indices: 14913681--14913819 Score: 219
Period size: 72 Copynumber: 2.0 Consensus size: 72
14913671 ATTTTTAAGG
*
14913681 AAAATTGATACTTTCAACTTTTCC-CAAAAAT-AGTTTTTGGAAATTTATTTCTAAGAAAAATTG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATCAGTTTTTGAAAATTTATTTCTAAGAAAAATTG
14913744 ATACAGA
66 ATACAGA
** * *
14913751 AAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAATTTATTTTTAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATCAGTTTTTGAAAATTTATTTCTAAGAAAAATTG
14913816 ATAC
66 ATAC
14913820 TTTCAACTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
70 24 0.39
71 7 0.11
72 31 0.50
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.40
Consensus pattern (72 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATCAGTTTTTGAAAATTTATTTCTAAGAAAAATTG
ATACAGA
Found at i:14913764 original size:128 final size:131
Alignment explanation
Indices: 14913623--14913878 Score: 430
Period size: 128 Copynumber: 2.0 Consensus size: 131
14913613 ATTTCCAAGG
*
14913623 AAAATTAATACTTTCAACTTTTCCTCAAAAATCTTTTTTTGAAAATTTATTTTTAAGGAAAATTG
1 AAAATTAATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAATTTATTTTTAAGGAAAATTG
*
14913688 ATACTTTCAACTTTTCCC-AAAAATAGTTTTTGGAAA-TTT-A-TTTCTAAGAAAAATTGATACA
66 ATACTTTCAACTTTTCCCTAAAAATAGTTTTTGAAAATTTTGATTTTC-AAGAAAAATTGATACA
14913749 GA
130 GA
*
14913751 AAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAATTTATTTTTAAGGAAAATTG
1 AAAATTAATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAATTTATTTTTAAGGAAAATTG
* *
14913816 ATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTTGATTTTCAAGGAAAATTGATAC
66 ATACTTTCAACTTTTCCCTAAAAATAGTTTTTGAAAATTTTGATTTTCAAGAAAAATTGATAC
14913879 TTTCAACTTT
Statistics
Matches: 119, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
128 81 0.68
129 16 0.13
130 3 0.03
131 15 0.13
132 4 0.03
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (131 bp):
AAAATTAATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAATTTATTTTTAAGGAAAATTG
ATACTTTCAACTTTTCCCTAAAAATAGTTTTTGAAAATTTTGATTTTCAAGAAAAATTGATACAG
A
Found at i:14913816 original size:58 final size:58
Alignment explanation
Indices: 14913751--14913906 Score: 244
Period size: 59 Copynumber: 2.7 Consensus size: 58
14913741 TTGATACAGA
* *
14913751 AAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAA-TTT-ATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCC-CAAAAAT-ATTTTTTGAAAATTTTGATTTTCAAGG
14913809 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTGAAAATTTTGATTTTCAAGG
14913868 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTT
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTT
14913907 TGATTTTTAT
Statistics
Matches: 92, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
57 12 0.13
58 33 0.36
59 40 0.43
60 7 0.08
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.45
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAAATTTTGATTTTCAAGG
Found at i:14913879 original size:187 final size:188
Alignment explanation
Indices: 14913564--14913906 Score: 534
Period size: 187 Copynumber: 1.8 Consensus size: 188
14913554 ATTTTCAAGG
** *
14913564 AAAATTGATACTTTCAACTTTTCCCAAAAATTTTTTTTTTGAAACTTTGATTTCCAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCCAAAAATTCCTTTTTTGAAAATTTGATTTCCAAGGAAAATT
* *
14913629 AATACTTTCAACTTTTCCTCAAAAATCTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTT
66 AATACTTTCAACTTTTCCTCAAAAATCATTTTTTGAAAATTTATTTTCAAGGAAAATTGATACTT
14913694 TCAAC-TTTTCCCAAAAATAGTTTTTGGAAATTTATTTCTAAGAAAAATTGATACAGA
131 TCAACTTTTTCCCAAAAATAGTTTTTGGAAATTTATTTCTAAGAAAAATTGATACAGA
**
14913751 AAAATTGATACTTTCAACTTTTCCTCAAAAA-TCCTTTTTTGAAAATTT-ATTTTTAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCC-CAAAAATTCCTTTTTTGAAAATTTGATTTCCAAGGAAAAT
*
14913814 TGATACTTTCAACTTTTCC-CTAAAAAT-ATTTTTTGAAAATTTTGATTTTCAAGGAAAATTGAT
65 TAATACTTTCAACTTTTCCTC-AAAAATCATTTTTTGAAAA-TTT-ATTTTCAAGGAAAATTGAT
*
14913877 ACTTTCAACTTTTTCCCAAAAATATTTTTT
127 ACTTTCAACTTTTTCCCAAAAATAGTTTTT
14913907 TGATTTTTAT
Statistics
Matches: 142, Mismatches: 9, Indels: 9
0.89 0.06 0.06
Matches are distributed among these distances:
185 12 0.08
186 40 0.28
187 65 0.46
188 25 0.18
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.43
Consensus pattern (188 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAATTCCTTTTTTGAAAATTTGATTTCCAAGGAAAATT
AATACTTTCAACTTTTCCTCAAAAATCATTTTTTGAAAATTTATTTTCAAGGAAAATTGATACTT
TCAACTTTTTCCCAAAAATAGTTTTTGGAAATTTATTTCTAAGAAAAATTGATACAGA
Found at i:14913947 original size:22 final size:22
Alignment explanation
Indices: 14913922--14913963 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
14913912 TTTATTTAAA
14913922 GAAAATAGAACAAA-ATAAAAGT
1 GAAAATA-AACAAAGATAAAAGT
*
14913944 GAAAATAAATAAAGATAAAA
1 GAAAATAAACAAAGATAAAA
14913964 AAAATAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.71, C:0.02, G:0.12, T:0.14
Consensus pattern (22 bp):
GAAAATAAACAAAGATAAAAGT
Found at i:14913957 original size:15 final size:15
Alignment explanation
Indices: 14913945--14914012 Score: 66
Period size: 15 Copynumber: 4.4 Consensus size: 15
14913935 AATAAAAGTG
*
14913945 AAAATAAATAAAGAT
1 AAAAAAAATAAAGAT
14913960 AAAAAAAATAAAGA-
1 AAAAAAAATAAAGAT
* * *
14913974 AAAGTAAAACAAAAAT
1 AAA-AAAAATAAAGAT
14913990 AAAAATAAGATAAAGAT
1 AAAAA-AA-ATAAAGAT
14914007 AAAAAA
1 AAAAAA
14914013 TATTAAATAA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
14 3 0.07
15 22 0.52
16 6 0.14
17 11 0.26
ACGTcount: A:0.78, C:0.01, G:0.07, T:0.13
Consensus pattern (15 bp):
AAAAAAAATAAAGAT
Done.