Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 104 of 126
Found at i:20547990 original size:43 final size:43
Alignment explanation
Indices: 20547924--20548023 Score: 123
Period size: 43 Copynumber: 2.3 Consensus size: 43
20547914 TTTCAAATAA
* *
20547924 AAATTTT-AAAGTTGTTAAACCTCTGCTTAGAT-AAATATTTTT
1 AAATTTTAAAAGTTATTAAACCTCTACTTAGATGAAATA-TTTT
* **
20547966 AAATTTTAAAAGTTATTAAGCCTCTACTTAGATGAGCTATTTT
1 AAATTTTAAAAGTTATTAAACCTCTACTTAGATGAAATATTTT
20548009 AAATTTTCAAAAGTT
1 AAATTTT-AAAAGTT
20548024 GTCGAGCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
42 7 0.14
43 33 0.66
44 10 0.20
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (43 bp):
AAATTTTAAAAGTTATTAAACCTCTACTTAGATGAAATATTTT
Found at i:20548022 original size:44 final size:43
Alignment explanation
Indices: 20547924--20548108 Score: 119
Period size: 44 Copynumber: 4.3 Consensus size: 43
20547914 TTTCAAATAA
* * * *
20547924 AAATTTT-AAAGTTGTTAAACCTCTGCTTAGATA-AA-TATTTTT
1 AAATTTTAAAAGTTATTAAGCCTCTACTTAGA-AGAACCA-TTTT
* * *
20547966 AAATTTTAAAAGTTATTAAGCCTCTACTTAGATGAGCTATTTT
1 AAATTTTAAAAGTTATTAAGCCTCTACTTAGAAGAACCATTTT
* ** * * * *
20548009 AAATTTTCAAAAGTTGTCGAGCTTTTACTTAGAAAAACCATTTA
1 AAATTTT-AAAAGTTATTAAGCCTCTACTTAGAAGAACCATTTT
* * *
20548053 AAATTTTTAAAACTTATTGAA-CCTCTGCTTAGAAGAGCCA-TTT
1 AAA-TTTTAAAAGTTATT-AAGCCTCTACTTAGAAGAACCATTTT
20548096 AAAGTTTTCAAAA
1 AAA-TTTT-AAAA
20548109 ATTGTCAAGC
Statistics
Matches: 110, Mismatches: 26, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
42 7 0.06
43 42 0.38
44 56 0.51
45 5 0.05
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.39
Consensus pattern (43 bp):
AAATTTTAAAAGTTATTAAGCCTCTACTTAGAAGAACCATTTT
Found at i:20549400 original size:25 final size:23
Alignment explanation
Indices: 20549355--20549400 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
20549345 TTGGTTCAAT
*
20549355 TTTTTTAATTTTTTTATTTATCA
1 TTTTTTAATTTTTTTAGTTATCA
*
20549378 TTTTTTAATATTATTTTGGTTAT
1 TTTTTTAAT-TT-TTTTAGTTAT
20549401 TTTGAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 2 0.11
25 8 0.42
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (23 bp):
TTTTTTAATTTTTTTAGTTATCA
Found at i:20549645 original size:16 final size:17
Alignment explanation
Indices: 20549621--20549654 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
20549611 AATGAAAATG
20549621 ATTTCTAAAT-TTAAAA
1 ATTTCTAAATATTAAAA
*
20549637 ATTTTTAAATATTAAAA
1 ATTTCTAAATATTAAAA
20549654 A
1 A
20549655 AAGAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTTCTAAATATTAAAA
Found at i:20549698 original size:17 final size:19
Alignment explanation
Indices: 20549664--20549700 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
20549654 AAAGAAAAAT
*
20549664 ACAAAAAATGATTAATAAA
1 ACAAAAAATGAGTAATAAA
20549683 ACAAAAAAT-AGT-ATAAA
1 ACAAAAAATGAGTAATAAA
20549700 A
1 A
20549701 ATTAGCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 2 0.12
19 9 0.53
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.19
Consensus pattern (19 bp):
ACAAAAAATGAGTAATAAA
Found at i:20551547 original size:21 final size:18
Alignment explanation
Indices: 20551520--20551562 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
20551510 AATATTATTT
20551520 TTAAATATAA-ATATA-AA
1 TTAAATA-AATATATATAA
20551537 TTAAATAAATATATATAA
1 TTAAATAAATATATATAA
20551555 TTAAATAA
1 TTAAATAA
20551563 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.08
17 12 0.50
18 10 0.42
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAAATAAATATATATAA
Found at i:20553610 original size:17 final size:16
Alignment explanation
Indices: 20553584--20553615 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
20553574 TACTTTTTAC
20553584 ATTTATGTAATTTAAA
1 ATTTATGTAATTTAAA
20553600 ATTTCATGTAATTTAA
1 ATTT-ATGTAATTTAA
20553616 TTATAGTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTTATGTAATTTAAA
Found at i:20554407 original size:15 final size:16
Alignment explanation
Indices: 20554374--20554409 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
20554364 TGGAGAGCAT
20554374 AAAAA-GTAAAATAAG
1 AAAAATGTAAAATAAG
20554389 AAAAATGTAAAATAA-
1 AAAAATGTAAAATAAG
20554404 AAAAAT
1 AAAAAT
20554410 AATCTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (16 bp):
AAAAATGTAAAATAAG
Found at i:20555015 original size:12 final size:13
Alignment explanation
Indices: 20554984--20555014 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
20554974 GTGGGAGGAA
*
20554984 AAAAAACTGAGTG
1 AAAAAAGTGAGTG
20554997 AAAAAAGTGAGTG
1 AAAAAAGTGAGTG
20555010 AAAAA
1 AAAAA
20555015 GAGGGAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.61, C:0.03, G:0.23, T:0.13
Consensus pattern (13 bp):
AAAAAAGTGAGTG
Found at i:20557764 original size:2 final size:2
Alignment explanation
Indices: 20557759--20557789 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
20557749 TGTATGTGTG
20557759 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
20557790 GTTACATATA
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:20561508 original size:20 final size:20
Alignment explanation
Indices: 20561483--20561523 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
20561473 GATAATGACT
20561483 CTTTCTTCTCTAGTATCTAA
1 CTTTCTTCTCTAGTATCTAA
*
20561503 CTTTCTTCTCTTGTATCTAA
1 CTTTCTTCTCTAGTATCTAA
20561523 C
1 C
20561524 AGTTTGTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.27, G:0.05, T:0.51
Consensus pattern (20 bp):
CTTTCTTCTCTAGTATCTAA
Found at i:20562406 original size:15 final size:16
Alignment explanation
Indices: 20562372--20562409 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
20562362 CGTTTATATA
* *
20562372 AAAAATTTCTGCACTC
1 AAAAATTTCAGAACTC
20562388 AAAAATTTCAGAACT-
1 AAAAATTTCAGAACTC
20562403 AAAAATT
1 AAAAATT
20562410 CAATACTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.50, C:0.16, G:0.05, T:0.29
Consensus pattern (16 bp):
AAAAATTTCAGAACTC
Found at i:20572055 original size:22 final size:22
Alignment explanation
Indices: 20572027--20572070 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
20572017 CTAAATCTTC
*
20572027 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
20572049 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
20572071 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:20575954 original size:22 final size:22
Alignment explanation
Indices: 20575926--20575969 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
20575916 CTAAATCTTC
*
20575926 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
20575948 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
20575970 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:20581670 original size:66 final size:66
Alignment explanation
Indices: 20581530--20581662 Score: 221
Period size: 66 Copynumber: 2.0 Consensus size: 66
20581520 TAAAACTAGA
* * * * *
20581530 AAAACCAGGGTTTAAATTTAGGAAAGATGTGATATCTTAATATTATCAACCTATGATCTAAATGG
1 AAAACTAGGGTTTAAATTCAGGAAAGATGTGATAACTGAATAATATCAACCTATGATCTAAATGG
20581595 T
66 T
20581596 AAAACTAGGGTTTAAATTCAGGAAAGATGTGATAACTGAATAATATCAACCTATGATCTAAATGG
1 AAAACTAGGGTTTAAATTCAGGAAAGATGTGATAACTGAATAATATCAACCTATGATCTAAATGG
20581661 T
66 T
20581662 A
1 A
20581663 TTTCTAGGAC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (66 bp):
AAAACTAGGGTTTAAATTCAGGAAAGATGTGATAACTGAATAATATCAACCTATGATCTAAATGG
T
Found at i:20585164 original size:27 final size:27
Alignment explanation
Indices: 20585134--20585187 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
20585124 GGCGCATAAG
20585134 ATTAAGA-TATGA-TAAGATAATATTATA
1 ATTAAGATTA-GATTAA-ATAATATTATA
*
20585161 ATTAATATTAGATTAAATAATATTATA
1 ATTAAGATTAGATTAAATAATATTATA
20585188 CTATATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (27 bp):
ATTAAGATTAGATTAAATAATATTATA
Found at i:20592621 original size:17 final size:17
Alignment explanation
Indices: 20592599--20592635 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
20592589 CGATGGATGT
*
20592599 TCTTCATTCAAATTTTA
1 TCTTCATTAAAATTTTA
20592616 TCTTCATTAAAATTTTA
1 TCTTCATTAAAATTTTA
20592633 TCT
1 TCT
20592636 AAAAATTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.54
Consensus pattern (17 bp):
TCTTCATTAAAATTTTA
Found at i:20594879 original size:14 final size:14
Alignment explanation
Indices: 20594860--20594890 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
20594850 AATTAATAAA
*
20594860 TTTTGATATATATT
1 TTTTGATAAATATT
20594874 TTTTGATAAATATT
1 TTTTGATAAATATT
20594888 TTT
1 TTT
20594891 AACAAAAATA
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:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
TTTTGATAAATATT
Found at i:20595040 original size:12 final size:12
Alignment explanation
Indices: 20595019--20595060 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
20595009 ATCTATCAAT
*
20595019 TTAAATTTTTTA
1 TTAAAATTTTTA
20595031 TTAAAATTTTTA
1 TTAAAATTTTTA
*
20595043 TT-AAATTATTTT
1 TTAAAATT-TTTA
20595055 TTAAAA
1 TTAAAA
20595061 AATTTACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 5 0.19
12 18 0.69
13 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTAAAATTTTTA
Found at i:20595066 original size:24 final size:24
Alignment explanation
Indices: 20595019--20595066 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
20595009 ATCTATCAAT
**
20595019 TTAAATTTTTTATTAAAATTTTTA
1 TTAAATTTTTTATTAAAAAATTTA
20595043 TTAAATTATTTT-TTAAAAAATTTA
1 TTAAATT-TTTTATTAAAAAATTTA
20595067 CAAACTTCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TTAAATTTTTTATTAAAAAATTTA
Found at i:20610328 original size:165 final size:164
Alignment explanation
Indices: 20610028--20610329 Score: 369
Period size: 165 Copynumber: 1.8 Consensus size: 164
20610018 CTTATGTCAG
** ** ** * *
20610028 AAATGCAATTTTTGACTTGAAAATATACAAACATGGTGTTTAATAAAAGACTATGTTTATAAATT
1 AAATGCAACCTTTGACTTGAAAATATACAAACATAATGTTTAATAAAAGACTACATTTAGAAATA
* * *
20610093 TACAAACGTAATCTTTAATATAAAGATGGTATTTTCTCCTTAAAAAATGTCATATTTGAAATGCA
66 TACAAACATAATCTTTAATATAAAGACGGTATTTTCTCCTTAAAAAATGT-ATATTTAAAATGCA
20610158 AAAAAAATTCATAAAAAGTACATTTACAATCTTAA
130 AAAAAAATTCATAAAAAGTACATTTACAATCTTAA
* * *
20610193 AAATGCAACCTTTGACTTGAAAATATACAAACCTAATGTTTAATCAAAGAGTACATTTAGAAATA
1 AAATGCAACCTTTGACTTGAAAATATACAAACATAATGTTTAATAAAAGACTACATTTAGAAATA
* *
20610258 TACAAACATAGTCTTTGATATAAAGACGACG-ATTTT-TCCTTGAAAAACATTGT-T-TTTAAAA
66 TACAAACATAATCTTTAATATAAAGACG--GTATTTTCTCCTT-AAAAA-A-TGTATATTTAAAA
*
20610319 TGGAAAAAAAA
126 TGCAAAAAAAA
20610330 ATTATTGAAA
Statistics
Matches: 115, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
165 99 0.86
166 11 0.10
167 2 0.02
168 3 0.03
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (164 bp):
AAATGCAACCTTTGACTTGAAAATATACAAACATAATGTTTAATAAAAGACTACATTTAGAAATA
TACAAACATAATCTTTAATATAAAGACGGTATTTTCTCCTTAAAAAATGTATATTTAAAATGCAA
AAAAAATTCATAAAAAGTACATTTACAATCTTAA
Found at i:20610540 original size:25 final size:25
Alignment explanation
Indices: 20610512--20610563 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
20610502 ACTAAAGCTC
*
20610512 TATGATATTGTCTGAAAAGAGAAAG
1 TATGATATTGTCTAAAAAGAGAAAG
20610537 TATGATATTGTCTAAAAAGAGAAAG
1 TATGATATTGTCTAAAAAGAGAAAG
20610562 TA
1 TA
20610564 GTCTTTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.46, C:0.04, G:0.21, T:0.29
Consensus pattern (25 bp):
TATGATATTGTCTAAAAAGAGAAAG
Found at i:20610752 original size:112 final size:110
Alignment explanation
Indices: 20610556--20610826 Score: 300
Period size: 112 Copynumber: 2.4 Consensus size: 110
20610546 GTCTAAAAAG
* * * *
20610556 AGAAAGTAGTCTTTATTATTTAAAAAAGTGATTTTTGTTATTTAACAAATACGGTATTTCTTATG
1 AGAAAGTAGTCTTTGTTATTTAAAAAAATGATTTTTATTAATTAACAAATAC-GTATTTCTTATG
* * *
20610621 TTAGAAATAGAGTCTTTGTATTTTTAAAGACTATG-TATTGACATA
65 TTAGAAACAGAGTCATTGTATTCTTAAAGACTATGTTATTGACATA
* * * *
20610666 AGAAACGTAGTCTTTGTTGTTTAAAAAAATGTTTTTTAATTAATTATCAAATAC-TACGTTTTTT
1 AGAAA-GTAGTCTTTGTTATTTAAAAAAATGATTTTT-ATTAATTAACAAATACGTA--TTTCTT
*
20610730 ATGTTAGAAACATG-GTCATTGTATTCTTAAAGACTATGTTTTTGACATA
62 ATGTTAGAAACA-GAGTCATTGTATTCTTAAAGACTATGTTATTGACATA
* * * *
20610779 AGAAATGTGGTATTTGTTATTTAAAAAAATG--CTTTATTATTTAACAAA
1 AGAAA-GTAGTCTTTGTTATTTAAAAAAATGATTTTTATTAATTAACAAA
20610827 AATTATGTTT
Statistics
Matches: 136, Mismatches: 19, Indels: 12
0.81 0.11 0.07
Matches are distributed among these distances:
110 18 0.13
111 30 0.22
112 51 0.38
113 37 0.27
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.44
Consensus pattern (110 bp):
AGAAAGTAGTCTTTGTTATTTAAAAAAATGATTTTTATTAATTAACAAATACGTATTTCTTATGT
TAGAAACAGAGTCATTGTATTCTTAAAGACTATGTTATTGACATA
Found at i:20610840 original size:112 final size:111
Alignment explanation
Indices: 20610616--20610889 Score: 277
Period size: 112 Copynumber: 2.4 Consensus size: 111
20610606 ACGGTATTTC
* * * *
20610616 TTATGTTAGAAATA-GAGTCTTTGTATTTTTAAAGACTATGTATTGACATAAGAAACGTAGTCTT
1 TTATGTTAGAAACATG-GTCTTTGTATTCTTAAAGACTATGTTTTGACATAAGAAACGTAGTATT
* * * *
20610680 TGTTGTTTAAAAAAATGTTTTTTAATTAATTATCAAATACTACGTTTT
65 TGTTATTTAAAAAAATG-TCTTTAATTAATTAACAAAAACTACGTTTT
* * *
20610728 TTATGTTAGAAACATGGTCATTGTATTCTTAAAGACTATGTTTTTGACATAAGAAATGTGGTATT
1 TTATGTTAGAAACATGGTCTTTGTATTCTTAAAGACTATG-TTTTGACATAAGAAACGTAGTATT
* * *
20610793 TGTTATTTAAAAAAATG-CTTT-ATTATTTAACAAAAATTATGTTTTTT
65 TGTTATTTAAAAAAATGTCTTTAATTAATTAACAAAAACTACG--TTTT
* ** * * *
20610840 TTATTTTA-AAACATAATTTTTGTTTTCTTCAAAAACTATGATTTTGACAT
1 TTATGTTAGAAACATGGTCTTTGTATTCTT-AAAGACTATG-TTTTGACAT
20610890 GAAAACATGG
Statistics
Matches: 135, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
110 15 0.11
111 19 0.14
112 64 0.47
113 37 0.27
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.46
Consensus pattern (111 bp):
TTATGTTAGAAACATGGTCTTTGTATTCTTAAAGACTATGTTTTGACATAAGAAACGTAGTATTT
GTTATTTAAAAAAATGTCTTTAATTAATTAACAAAAACTACGTTTT
Found at i:20614215 original size:16 final size:15
Alignment explanation
Indices: 20614196--20614229 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
20614186 AAATTATATG
20614196 TATAAAAATTTTTAAA
1 TATAAAAA-TTTTAAA
*
20614212 TATACAAATTTTAAA
1 TATAAAAATTTTAAA
20614227 TAT
1 TAT
20614230 TAATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (15 bp):
TATAAAAATTTTAAA
Found at i:20614378 original size:13 final size:13
Alignment explanation
Indices: 20614360--20614384 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20614350 AATCTAGGTT
20614360 AAATAATAAAATC
1 AAATAATAAAATC
20614373 AAATAATAAAAT
1 AAATAATAAAAT
20614385 AAAAACAAAA
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:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAATAAAATC
Found at i:20622276 original size:21 final size:20
Alignment explanation
Indices: 20622251--20622291 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
20622241 TCAAAAAAAT
20622251 TTTTAAATGAATATTTTAATA
1 TTTTAAATGAATATTTT-ATA
20622272 TTTTAAA--AATATTTTATA
1 TTTTAAATGAATATTTTATA
20622290 TT
1 TT
20622292 AAAATGAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 8 0.40
21 7 0.35
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTAAATGAATATTTTATA
Found at i:20628179 original size:18 final size:18
Alignment explanation
Indices: 20628148--20628188 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
20628138 ATATTTATAA
*
20628148 AATAAGAATAAACAAATG
1 AATAAAAATAAACAAATG
*
20628166 AATAAAAATGAACAAATG
1 AATAAAAATAAACAAATG
20628184 AATAA
1 AATAA
20628189 GAATTCAGAA
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:0.68, C:0.05, G:0.10, T:0.17
Consensus pattern (18 bp):
AATAAAAATAAACAAATG
Found at i:20630224 original size:27 final size:27
Alignment explanation
Indices: 20630188--20630240 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
20630178 ACTACATATG
20630188 TTTTAGGCTAATCAGAATTAAGTTGGT
1 TTTTAGGCTAATCAGAATTAAGTTGGT
20630215 TTTTAGGCTAATCAGAATTAAGTTGG
1 TTTTAGGCTAATCAGAATTAAGTTGG
20630241 CCTTACTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.40
Consensus pattern (27 bp):
TTTTAGGCTAATCAGAATTAAGTTGGT
Found at i:20636406 original size:2 final size:2
Alignment explanation
Indices: 20636399--20636429 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
20636389 TTTATAACCC
20636399 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
20636430 CTAGAATATA
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:20637264 original size:27 final size:27
Alignment explanation
Indices: 20637203--20637265 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 27
20637193 TGTTTGGTAT
20637203 ATAA-AATTATGATAAGATAAAATAAG
1 ATAATAATTATGATAAGATAAAATAAG
*
20637229 ATAAT-ATTATGAATAAGATTAAATTAA-
1 ATAATAATTATG-ATAAGA-TAAAATAAG
20637256 A-AATAATTAT
1 ATAATAATTAT
20637266 ATTTTAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
26 13 0.41
27 12 0.38
28 7 0.22
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (27 bp):
ATAATAATTATGATAAGATAAAATAAG
Found at i:20637284 original size:26 final size:26
Alignment explanation
Indices: 20637251--20637304 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 26
20637241 ATAAGATTAA
20637251 ATTAAAA-ATAATTATATTTTAAATATT
1 ATTAAAATATAATTAT-TTTT-AATATT
20637278 ATTAAAATATAATTATTTTTAATATT
1 ATTAAAATATAATTATTTTTAATATT
20637304 A
1 A
20637305 ATAATTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 7 0.27
27 11 0.42
28 8 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
ATTAAAATATAATTATTTTTAATATT
Found at i:20639869 original size:25 final size:25
Alignment explanation
Indices: 20639822--20639869 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
20639812 AATATCATAA
*
20639822 TTTTTTATAAAAAAATGTATTATTC
1 TTTTTTATAAAAAAATATATTATTC
* * *
20639847 TTTTTTATTATAAAATATTTTAT
1 TTTTTTATAAAAAAATATATTAT
20639870 CACCAAGTAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (25 bp):
TTTTTTATAAAAAAATATATTATTC
Found at i:20640470 original size:17 final size:16
Alignment explanation
Indices: 20640401--20640473 Score: 58
Period size: 17 Copynumber: 4.4 Consensus size: 16
20640391 TAAAGGTTTA
20640401 GATTTTAGGGATTTTG
1 GATTTTAGGGATTTTG
* *
20640417 GATTTTAGAGG-GTTCG
1 GATTTTAG-GGATTTTG
* * **
20640433 AATTTTTAGGGGTTTAA
1 GA-TTTTAGGGATTTTG
20640450 GATTTTAGGAGATTTTG
1 GATTTTAGG-GATTTTG
20640467 GATTTTA
1 GATTTTA
20640474 AGGGTTTTAG
Statistics
Matches: 43, Mismatches: 10, Indels: 7
0.72 0.17 0.12
Matches are distributed among these distances:
16 21 0.49
17 22 0.51
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.47
Consensus pattern (16 bp):
GATTTTAGGGATTTTG
Found at i:20640710 original size:16 final size:16
Alignment explanation
Indices: 20640686--20640716 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20640676 ACATCTAGGC
*
20640686 AAAATTATTTTTTTAA
1 AAAAATATTTTTTTAA
20640702 AAAAATATTTTTTTA
1 AAAAATATTTTTTTA
20640717 TTCCCTCCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AAAAATATTTTTTTAA
Found at i:20641575 original size:14 final size:14
Alignment explanation
Indices: 20641537--20641578 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
20641527 GCGAGGAAGA
*
20641537 CTGTGTGTGTCTTTT
1 CTGTTTGTGT-TTTT
*
20641552 -TGTTTCTGTTTTT
1 CTGTTTGTGTTTTT
20641565 CTGTTTGTGTTTTT
1 CTGTTTGTGTTTTT
20641579 TTTTGTTGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.00, C:0.10, G:0.21, T:0.69
Consensus pattern (14 bp):
CTGTTTGTGTTTTT
Found at i:20641872 original size:1 final size:1
Alignment explanation
Indices: 20641862--20641918 Score: 60
Period size: 1 Copynumber: 57.0 Consensus size: 1
20641852 CTACTTTCTG
* * * * * *
20641862 TTTTTCTTTTTTTTTGTTTTTTTTATTTTTTTATTTTTTTGTTTTTTTTTATTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
20641919 ATAATAATTA
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.05, C:0.02, G:0.04, T:0.89
Consensus pattern (1 bp):
T
Found at i:20641898 original size:26 final size:26
Alignment explanation
Indices: 20641862--20641918 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
20641852 CTACTTTCTG
20641862 TTTTTCTT-TTTTTTTG-TTTTTTTTA
1 TTTTT-TTATTTTTTTGTTTTTTTTTA
20641887 TTTTTTTATTTTTTTGTTTTTTTTTA
1 TTTTTTTATTTTTTTGTTTTTTTTTA
20641913 TTTTTT
1 TTTTTT
20641919 ATAATAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 2 0.07
25 13 0.43
26 15 0.50
ACGTcount: A:0.05, C:0.02, G:0.04, T:0.89
Consensus pattern (26 bp):
TTTTTTTATTTTTTTGTTTTTTTTTA
Found at i:20641951 original size:3 final size:3
Alignment explanation
Indices: 20641945--20641988 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
20641935 ATTTTTTAAA
* ** *
20641945 ATT ATT ATT ATT ATT ATT ATT ATT AAT AAA ATT ATT AAT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
20641989 ACTGAAATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:20644455 original size:20 final size:22
Alignment explanation
Indices: 20644425--20644464 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
20644415 AATTTGAAGA
20644425 TAAATATTTTTTTG-ATATTCT
1 TAAATATTTTTTTGAATATTCT
20644446 TAAA-ATTTTTTTGAATATT
1 TAAATATTTTTTTGAATATT
20644465 ATTTTTATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (22 bp):
TAAATATTTTTTTGAATATTCT
Found at i:20646289 original size:2 final size:2
Alignment explanation
Indices: 20646282--20646310 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
20646272 AGCTAAGTTT
20646282 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 T
20646311 TTAAATTTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20646340 original size:14 final size:15
Alignment explanation
Indices: 20646323--20646351 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20646313 AAATTTTTTG
20646323 AATT-AAAATTATTA
1 AATTCAAAATTATTA
20646337 AATTCAAAATTATTA
1 AATTCAAAATTATTA
20646352 TTTTAATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
AATTCAAAATTATTA
Found at i:20651065 original size:20 final size:20
Alignment explanation
Indices: 20651016--20651072 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
20651006 AATTTATTTT
* * *
20651016 AATCCATTAGATAATTTAAA
1 AATCTATTAGATTATATAAA
*
20651036 AATGTATTAGATTATATAAA
1 AATCTATTAGATTATATAAA
* *
20651056 AATCTGTTAGAATATAT
1 AATCTATTAGATTATAT
20651073 TTTTAAAATA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (20 bp):
AATCTATTAGATTATATAAA
Found at i:20652368 original size:3 final size:3
Alignment explanation
Indices: 20652360--20652398 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
20652350 CTTTTCCCGG
20652360 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
20652399 TATATTATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:20657778 original size:33 final size:33
Alignment explanation
Indices: 20657736--20657804 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
20657726 TATAACTCCA
20657736 ATGGTGGAGATCAAATAAACTCTAATCCTAGTT
1 ATGGTGGAGATCAAATAAACTCTAATCCTAGTT
* *
20657769 ATGGTGGAGATCAAATAAACTCTTATCTTAGTT
1 ATGGTGGAGATCAAATAAACTCTAATCCTAGTT
20657802 ATG
1 ATG
20657805 TTATAATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (33 bp):
ATGGTGGAGATCAAATAAACTCTAATCCTAGTT
Found at i:20663123 original size:13 final size:13
Alignment explanation
Indices: 20663105--20663154 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
20663095 TCACAAGTAT
20663105 ATAAAAATTAAAA
1 ATAAAAATTAAAA
* *
20663118 ATAAAAATTATAT
1 ATAAAAATTAAAA
*
20663131 GTATAAAA-TAAAA
1 ATA-AAAATTAAAA
20663144 ATAAAAATTAA
1 ATAAAAATTAA
20663155 GTTCGACAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
12 4 0.14
13 21 0.72
14 4 0.14
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (13 bp):
ATAAAAATTAAAA
Found at i:20665487 original size:25 final size:27
Alignment explanation
Indices: 20665424--20665487 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 27
20665414 AAATCTAGAT
*
20665424 AAAATTTC-TCATCTAAGAATTTTATA
1 AAAATTTCATCATTTAAGAATTTTATA
20665450 AAAATTT-ATCATTTAA-AATTTT-TA
1 AAAATTTCATCATTTAAGAATTTTATA
*
20665474 TAAATTTCATCATT
1 AAAATTTCATCATT
20665488 GGATAATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 8 0.24
25 12 0.35
26 14 0.41
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (27 bp):
AAAATTTCATCATTTAAGAATTTTATA
Found at i:20665495 original size:26 final size:25
Alignment explanation
Indices: 20665424--20665488 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
20665414 AAATCTAGAT
*
20665424 AAAATTTCTCATCT-AAGAATTTTATA
1 AAAATTTATCAT-TGAA-AATTTTATA
*
20665450 AAAATTTATCATTTAAAATTTT-TA
1 AAAATTTATCATTGAAAATTTTATA
*
20665474 TAAATTTCATCATTG
1 AAAATTT-ATCATTG
20665489 GATAATTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 8 0.24
25 13 0.38
26 13 0.38
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.46
Consensus pattern (25 bp):
AAAATTTATCATTGAAAATTTTATA
Found at i:20665514 original size:195 final size:194
Alignment explanation
Indices: 20665166--20665539 Score: 467
Period size: 195 Copynumber: 1.9 Consensus size: 194
20665156 TTTGGAAAAG
* * * *
20665166 AATATAATTATTTATATTGAAATTTCATCTAAATTATTCCACCATTTGGGCTAGATTTAGAGAAA
1 AATATAATTATTTATATTAAAATTTCATCTAAATTATTCCACCATTTGGGATAAATCTAGAGAAA
* * * *
20665231 ATTTTTCACCTAAAGAATTCTTAGAAAATTTACAATTTGAAGTTTCTTAAAATCTCATCATTGGA
66 ATTTCTCACCTAAAGAATTCTTAAAAAATTTACAATTTAAAATTTCTTAAAATCTCATCATTGGA
**
20665296 TAATTTGTATTTAATTCCAAAATTTTATATTTTTTA-TTATTTTATATTTTTTTGGATTGAAAAT
131 TAATTAATATTTAATTCCAAAATTTTATATTTTTTACTT-TTTT-TATTTTTTTGGATTGAAAAT
20665360 A
194 A
** *
20665361 AATATTAATTATTGT-TATTAAAACTTT-ATCTAAATTATTCCATTATTTGGGATAAATCTAGAT
1 AATA-TAATTATT-TATATTAAAA-TTTCATCTAAATTATTCCACCATTTGGGATAAATCTAGAG
* *
20665424 AAAATTTCTCATCT-AAGAATT-TTATAAAAATTTATC-ATTTAAAATTT-TTATAAATTTCATC
63 AAAATTTCTCACCTAAAGAATTCTTA-AAAAATTTA-CAATTTAAAATTTCTTA-AAATCTCATC
*
20665485 ATTGGATAATTAATATTT-ATTCTCAAAATTTTATTTTTTTTACTTTTTTTATTTT
125 ATTGGATAATTAATATTTAATTC-CAAAATTTTATATTTTTTACTTTTTTTATTTT
20665540 ATTTAATATC
Statistics
Matches: 155, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
194 16 0.10
195 75 0.48
196 60 0.39
197 4 0.03
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.49
Consensus pattern (194 bp):
AATATAATTATTTATATTAAAATTTCATCTAAATTATTCCACCATTTGGGATAAATCTAGAGAAA
ATTTCTCACCTAAAGAATTCTTAAAAAATTTACAATTTAAAATTTCTTAAAATCTCATCATTGGA
TAATTAATATTTAATTCCAAAATTTTATATTTTTTACTTTTTTTATTTTTTTGGATTGAAAATA
Found at i:20666152 original size:17 final size:18
Alignment explanation
Indices: 20666130--20666166 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
20666120 CTATCTTTTT
20666130 TTTTTCATT-TTTTTATA
1 TTTTTCATTATTTTTATA
*
20666147 TTTTTCATTATTTTTTTA
1 TTTTTCATTATTTTTATA
20666165 TT
1 TT
20666167 CGTAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTCATTATTTTTATA
Found at i:20666508 original size:42 final size:41
Alignment explanation
Indices: 20666348--20666726 Score: 376
Period size: 42 Copynumber: 9.0 Consensus size: 41
20666338 AGCAAAGCTT
*
20666348 CTCTAAACAGAGGCAACAAACTTTGAG-AAATAAATGGCTC
1 CTCTAAATAGAGGCAACAAACTTTGAGAAAATAAATGGCTC
* * * * *
20666388 ATCTGAATAGAGGCAACGAACTTT--GAAAATAAACGACTC
1 CTCTAAATAGAGGCAACAAACTTTGAGAAAATAAATGGCTC
* *
20666427 CTCTGAATAGAGGCAACGAACTTTGA-AAAATAAATGGCTC
1 CTCTAAATAGAGGCAACAAACTTTGAGAAAATAAATGGCTC
* *
20666467 ATCTAAATAGAGGTAACAAACTTTTGAGAAAATAAATGGCTC
1 CTCTAAATAGAGGCAACAAAC-TTTGAGAAAATAAATGGCTC
* * * *
20666509 TTTTGAATAGAGGGAACAAACTTTTGAGAAAATAAATGGCTC
1 CTCTAAATAGAGGCAACAAAC-TTTGAGAAAATAAATGGCTC
* *
20666551 CTTTAAGTAGAGGCAACAAACTTTTGAGAAAATAAATGGCTC
1 CTCTAAATAGAGGCAACAAAC-TTTGAGAAAATAAATGGCTC
** *
20666593 CTCTAAATAGAGGCAATGAACTTTGA-AAAATAAATGGCTT
1 CTCTAAATAGAGGCAACAAACTTTGAGAAAATAAATGGCTC
* * *
20666633 CTCTAAATAGAAGCAACGAACTTAGGCAATGAACTTTGAAAAATAAATGGCTA
1 CTCTAAATAGAGGCAACAAACTT------TG-A----G-AAAATAAATGGCTC
20666686 CTCTAAATAGAGGCAACAAACTTT--GAAAATAAATGGCTC
1 CTCTAAATAGAGGCAACAAACTTTGAGAAAATAAATGGCTC
20666725 CT
1 CT
20666727 TGATAATCAT
Statistics
Matches: 289, Mismatches: 32, Indels: 37
0.81 0.09 0.10
Matches are distributed among these distances:
38 1 0.00
39 49 0.17
40 84 0.29
41 10 0.03
42 107 0.37
46 2 0.01
47 2 0.01
53 34 0.12
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.24
Consensus pattern (41 bp):
CTCTAAATAGAGGCAACAAACTTTGAGAAAATAAATGGCTC
Found at i:20666663 original size:53 final size:53
Alignment explanation
Indices: 20666603--20666708 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
20666593 CTCTAAATAG
* *
20666603 AGGCAATGAACTTTGAAAAATAAATGGCTTCTCTAAATAGAAGCAACGAACTT
1 AGGCAATGAACTTTGAAAAATAAATGGCTACTCTAAATAGAAGCAACAAACTT
*
20666656 AGGCAATGAACTTTGAAAAATAAATGGCTACTCTAAATAGAGGCAACAAACTT
1 AGGCAATGAACTTTGAAAAATAAATGGCTACTCTAAATAGAAGCAACAAACTT
20666709 TGAAAATAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (53 bp):
AGGCAATGAACTTTGAAAAATAAATGGCTACTCTAAATAGAAGCAACAAACTT
Found at i:20674959 original size:9 final size:9
Alignment explanation
Indices: 20674945--20674986 Score: 75
Period size: 9 Copynumber: 4.7 Consensus size: 9
20674935 TATTAGAAAT
20674945 TATGTATGA
1 TATGTATGA
20674954 TATGTATGA
1 TATGTATGA
20674963 TATGTATGA
1 TATGTATGA
*
20674972 TAGGTATGA
1 TATGTATGA
20674981 TATGTA
1 TATGTA
20674987 AATATATGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (9 bp):
TATGTATGA
Found at i:20679041 original size:10 final size:10
Alignment explanation
Indices: 20679012--20679050 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
20679002 AGAATTTGCA
20679012 AAAAATAAAT
1 AAAAATAAAT
20679022 AATTAAATAAAT
1 AA--AAATAAAT
*
20679034 AAAAATAAGT
1 AAAAATAAAT
20679044 AAAAATA
1 AAAAATA
20679051 CTAAAATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 16 0.62
12 10 0.38
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:20679513 original size:9 final size:9
Alignment explanation
Indices: 20679464--20679514 Score: 59
Period size: 9 Copynumber: 5.7 Consensus size: 9
20679454 AATTCAATTA
20679464 TTTATTTTT
1 TTTATTTTT
*
20679473 TTCATTTTT
1 TTTATTTTT
*
20679482 TATA-TTTT
1 TTTATTTTT
*
20679490 TATATTTTT
1 TTTATTTTT
20679499 TATTATTTTT
1 T-TTATTTTT
20679509 TTTATT
1 TTTATT
20679515 CACAAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
8 8 0.22
9 20 0.56
10 8 0.22
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTATTTTT
Found at i:20679699 original size:9 final size:8
Alignment explanation
Indices: 20679680--20679710 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
20679670 AATTAATTAA
20679680 TTTTTTAT
1 TTTTTTAT
20679688 TTTTTTAT
1 TTTTTTAT
20679696 TTTTTTAT
1 TTTTTTAT
20679704 TTTTTTA
1 TTTTTTA
20679711 ATTTAAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTAT
Found at i:20695086 original size:20 final size:21
Alignment explanation
Indices: 20695051--20695091 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
20695041 TTTTTATCCC
* *
20695051 AGGTGATCGATTCCTT-TATA
1 AGGTGATCAATCCCTTCTATA
20695071 AGGTGATCAATCCCTTCTATA
1 AGGTGATCAATCCCTTCTATA
20695092 GGTTTTTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.37
Consensus pattern (21 bp):
AGGTGATCAATCCCTTCTATA
Found at i:20696317 original size:22 final size:22
Alignment explanation
Indices: 20696170--20696333 Score: 95
Period size: 22 Copynumber: 7.5 Consensus size: 22
20696160 TAAATTAATT
*
20696170 GTAAATCAATTATAACTTTA--A
1 GTAAATCATTTATAA-TTTAGTA
* *
20696191 GATAAATCA-TAAGTAACTTAGTA
1 G-TAAATCATTTA-TAATTTAGTA
* ** *
20696214 ATAAATCATCAATAATTTATTA
1 GTAAATCATTTATAATTTAGTA
*
20696236 GTAAATCATTTA-ATACTTAGTA
1 GTAAATCATTTATA-ATTTAGTA
* * *
20696258 GTAAATCATTCATAAATTAGAA
1 GTAAATCATTTATAATTTAGTA
** * * *
20696280 GTACTTTAATGT-TAATTTGGTA
1 GTA-AATCATTTATAATTTAGTA
20696302 GTAAATCATTTATAATTTAGTA
1 GTAAATCATTTATAATTTAGTA
*
20696324 GTATATCATT
1 GTAAATCATT
20696334 GACAACTTAG
Statistics
Matches: 106, Mismatches: 28, Indels: 17
0.70 0.19 0.11
Matches are distributed among these distances:
21 11 0.10
22 88 0.83
23 7 0.07
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (22 bp):
GTAAATCATTTATAATTTAGTA
Found at i:20696343 original size:22 final size:22
Alignment explanation
Indices: 20696205--20696357 Score: 58
Period size: 22 Copynumber: 7.0 Consensus size: 22
20696195 AATCATAAGT
* ** *
20696205 AACTTAGTAATAAATCATCAAT
1 AACTTAGTAGTAAATCATTGAC
* * *
20696227 AATTTATTAGTAAATCATTTA-
1 AACTTAGTAGTAAATCATTGAC
* *
20696248 ATACTTAGTAGTAAATCATTCAT
1 A-ACTTAGTAGTAAATCATTGAC
* * ** * * **
20696271 AAATTAGAAGTACTTTAATGTT
1 AACTTAGTAGTAAATCATTGAC
* * * *
20696293 AATTTGGTAGTAAATCATTTAT
1 AACTTAGTAGTAAATCATTGAC
* *
20696315 AATTTAGTAGTATATCATTGAC
1 AACTTAGTAGTAAATCATTGAC
*
20696337 AACTTAGTTA-TAAATAATTGA
1 AACTTAG-TAGTAAATCATTGA
20696358 TAAAATTTGA
Statistics
Matches: 96, Mismatches: 32, Indels: 6
0.72 0.24 0.04
Matches are distributed among these distances:
21 1 0.01
22 92 0.96
23 3 0.03
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.41
Consensus pattern (22 bp):
AACTTAGTAGTAAATCATTGAC
Found at i:20696531 original size:13 final size:12
Alignment explanation
Indices: 20696504--20696528 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20696494 CTATGAATCT
20696504 ATTTAGTGAAAA
1 ATTTAGTGAAAA
20696516 ATTTAGTGAAAA
1 ATTTAGTGAAAA
20696528 A
1 A
20696529 ATTCTAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (12 bp):
ATTTAGTGAAAA
Found at i:20696829 original size:21 final size:21
Alignment explanation
Indices: 20696790--20696829 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
20696780 TCAAAGTAAC
* *
20696790 ATTGAAGGTTACGACAATTGT
1 ATTGAAGGTTACCAAAATTGT
20696811 ATTGAAGGTTACCAAAATT
1 ATTGAAGGTTACCAAAATT
20696830 TTATCAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.33
Consensus pattern (21 bp):
ATTGAAGGTTACCAAAATTGT
Found at i:20700176 original size:20 final size:20
Alignment explanation
Indices: 20700153--20700191 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
20700143 TATATAAAAA
*
20700153 TAATTTTTTAATTATTTATT
1 TAATTTTATAATTATTTATT
20700173 TAATTTTATAATTATTTAT
1 TAATTTTATAATTATTTAT
20700192 ATAAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TAATTTTATAATTATTTATT
Found at i:20700200 original size:20 final size:20
Alignment explanation
Indices: 20700161--20700200 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20700151 AATAATTTTT
* *
20700161 TAATTATTTATTTAATTTTA
1 TAATTATTTATATAAATTTA
20700181 TAATTATTTATATAAATTTA
1 TAATTATTTATATAAATTTA
20700201 ATTTTATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TAATTATTTATATAAATTTA
Found at i:20700225 original size:23 final size:22
Alignment explanation
Indices: 20700184--20700233 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
20700174 AATTTTATAA
**
20700184 TTATTTATATAAATTTAAT-TT
1 TTATTTATATAAAAATAATATT
20700205 TATATTTATATTAAAAATAATATT
1 T-TATTTATA-TAAAAATAATATT
20700229 TTATT
1 TTATT
20700234 AATTTCGAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 1 0.04
22 8 0.33
23 12 0.50
24 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTATTTATATAAAAATAATATT
Found at i:20709538 original size:133 final size:134
Alignment explanation
Indices: 20709367--20709623 Score: 342
Period size: 133 Copynumber: 1.9 Consensus size: 134
20709357 CTAGATGTAT
* * *
20709367 ATGACTATTGAAAGTAACCTTTTGATTTTAGCCTAATGCACTTAG-CAATGGATTAATGGTTTTA
1 ATGACTATTGAAAGTAACCTTTTGATTGTAGCCTAATGCAATT-GCCAATGGATTAATAGTTTTA
* * * *
20709431 CTATTGAATTATA-TGGA-ATGCCAATATTTAGTTGTTCTCATGTGACAATGTTGTTGTAAACAA
65 CTATGGAATTATATTGGATAT--CAATATTTACTTGCTCTCATGTGAAAATGTTGTTGTAAACAA
20709494 TAGATAA
128 TAGATAA
* **
20709501 ATGACTATTG-AAGTAACCTTTTGATTGTAGCTTAATGCAATTGCCCCTGGATTAATAGTTTTAC
1 ATGACTATTGAAAGTAACCTTTTGATTGTAGCCTAATGCAATTGCCAATGGATTAATAGTTTTAC
* * *
20709565 TATGGAATTTTATTGGATATCAATATTTTCTTGCTCTTATGTGAAAATGTTGTTGTAAA
66 TATGGAATTATATTGGATATCAATATTTACTTGCTCTCATGTGAAAATGTTGTTGTAAA
20709624 GAAGTTTTGT
Statistics
Matches: 107, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
132 1 0.01
133 90 0.84
134 14 0.13
135 2 0.02
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (134 bp):
ATGACTATTGAAAGTAACCTTTTGATTGTAGCCTAATGCAATTGCCAATGGATTAATAGTTTTAC
TATGGAATTATATTGGATATCAATATTTACTTGCTCTCATGTGAAAATGTTGTTGTAAACAATAG
ATAA
Found at i:20713023 original size:27 final size:27
Alignment explanation
Indices: 20712985--20713036 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
20712975 ACATCTACAG
20712985 TTAGCTGTATGTCACTTTATGGAACAT
1 TTAGCTGTATGTCACTTTATGGAACAT
* *
20713012 TTAGCTTTATGTTACTTTATGGAAC
1 TTAGCTGTATGTCACTTTATGGAAC
20713037 TATGTAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.44
Consensus pattern (27 bp):
TTAGCTGTATGTCACTTTATGGAACAT
Found at i:20717943 original size:62 final size:62
Alignment explanation
Indices: 20717846--20717976 Score: 208
Period size: 62 Copynumber: 2.1 Consensus size: 62
20717836 TACAATTTGT
*
20717846 ATGAAATTGCATTTATATTACAAGGAAAAAGCATTAATTTCTACTACTTAAGTACCTTAATA
1 ATGAAATTGCATTTATATTACAAGGAAAAAGCATTAATATCTACTACTTAAGTACCTTAATA
* * * * *
20717908 ATGAAATTGCATTTATATTATAGGGAAAAAGCATTAATATCTTCTACTTTAGTATCTTAATA
1 ATGAAATTGCATTTATATTACAAGGAAAAAGCATTAATATCTACTACTTAAGTACCTTAATA
20717970 ATGAAAT
1 ATGAAAT
20717977 CAATGATGAA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (62 bp):
ATGAAATTGCATTTATATTACAAGGAAAAAGCATTAATATCTACTACTTAAGTACCTTAATA
Found at i:20719413 original size:15 final size:15
Alignment explanation
Indices: 20719393--20719423 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
20719383 CCTATAGAGA
20719393 TCAACTCAATTCAAC
1 TCAACTCAATTCAAC
20719408 TCAACTCAATTCAAC
1 TCAACTCAATTCAAC
20719423 T
1 T
20719424 AAAACCTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (15 bp):
TCAACTCAATTCAAC
Found at i:20724754 original size:23 final size:23
Alignment explanation
Indices: 20724724--20724767 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
20724714 TCGATTGATC
20724724 TAATAAAAGAA-AATTATTATTTT
1 TAATAAAA-AATAATTATTATTTT
*
20724747 TAATAAAAAATTATTATTATT
1 TAATAAAAAATAATTATTATT
20724768 GAAAGTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TAATAAAAAATAATTATTATTTT
Found at i:20724779 original size:21 final size:20
Alignment explanation
Indices: 20724729--20724779 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
20724719 TGATCTAATA
*
20724729 AAAGAAAATTATTATT-TTT
1 AAAGAAAATTATTATTATTG
*
20724748 AATAAAAAATTATTATTATTG
1 AA-AGAAAATTATTATTATTG
20724769 AAAGTAAAATT
1 AAAG-AAAATT
20724780 TTTAGTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 2 0.08
20 14 0.54
21 10 0.38
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (20 bp):
AAAGAAAATTATTATTATTG
Found at i:20730129 original size:13 final size:13
Alignment explanation
Indices: 20730107--20730144 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
20730097 TTCATAAAAT
20730107 TATT-ATTTAATA
1 TATTAATTTAATA
* *
20730119 TTTTAATTTAAGA
1 TATTAATTTAATA
20730132 TATTAATTTAATA
1 TATTAATTTAATA
20730145 AAAATACTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 3 0.14
13 18 0.86
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (13 bp):
TATTAATTTAATA
Found at i:20730820 original size:2 final size:2
Alignment explanation
Indices: 20730813--20730843 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
20730803 AATAGATATG
20730813 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
20730844 GTTATCTTCC
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:20733659 original size:742 final size:735
Alignment explanation
Indices: 20732202--20733689 Score: 1960
Period size: 742 Copynumber: 2.0 Consensus size: 735
20732192 GAGACTCGAG
* ** * *
20732202 CATTCACCCTTTCGGTGTCTCGGATCAGCCTAATCACCACGGTTCACACCATTGTGAAGTATTGT
1 CATTCACCCTTCCGGCATCTCAGATCAGCCTAATCACCACGATTCACACCATTGTGAAGTATTGT
* *
20732267 CCGCTCTGGCCTCCCTGGCCTCACGGTTTTATCCTACAAAAGGCCCCTCACAAGGAAGAGATGGT
66 CCGCTCTGGCCTCCCTGGCCTCACGATTTTATCCTACAAAAGGCACCTCACAAGGAAGAGATGGT
* *
20732332 GTGAACCCTTATATACCCCAGTGACCCTCTTCGATGTGGGATTCAAGACTCCCCCTTAGGTCCAT
131 GTGAACCCTTATATACCCCAATGACCCTCTTCGATGTGAGATTCAAGACTCCCCCTTAGGTCCAT
* * *
20732397 GACATTCTCCCTCACCCAACTTCGTGACGCCCTCGTCACGAAGACTGACCACCATGCCTACCTCC
196 GACATTCTCCCTCACCCAACCTCGTGACACCCTCGTCAAGAAGACTGACCACCATGCCTACCTCC
* * *
20732462 CTTGAGGTGCTTGACGTGGATCAAACGGTATAGGGCTGGCTTTGATATCACTTGTCACGGGTCGA
261 CTTGAGGTGCTTGACATGGATCAAACAGTATAGGGCTGGCTCTGATATCACTTGTCACGGGTCGA
* * * ** * * *
20732527 GACTTAAGTTTTGAACCCGTGCGGCTTCGAGACCCGGACATTCACCCTTCCGGCATCCTAGATCA
326 GACTCAAGCTCTGAACCCGCACGGCTCCGAGACCCGGACATTCACCCTTCCGACATCCCAGATCA
** * ** *
20732592 ACATTCCTGTCACGGTTTATTCCCTTGTGAGGTATTGTTCGCTCTGGCTCCCCCTGACCTCACAG
391 ACATGACTGTCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCTCCCCCTGACCTCACAG
* * *
20732657 TTTTGTCCTACAAAAGGCGCCTCACAAGACGGAGGTAGTGTGAACCCTTTTATACCCCAGTGACC
456 TTTTATCCTACAAAAGGCGCCTCACAAGACGGAGATAGTGTGAACCCTTATATACCCCAGTGACC
* * * * * *
20732722 CTCTTATTATGTTCGATGTGGGATTCATGACTTTTCTTTAGGTCCGTGACATTCTCCTGCACCCA
521 CTCCTATTATGTTCGATATGAGATTCAGGACTTCTCTTTAGGTCCGTGACATTCTCCCGCACCCA
* * *
20732787 ACCTCGTGACGCCCTCGTCACAGAGGCTGGCCACCTTGCCTACCTCCCTCGAAGCGCTCGACGTG
586 ACCTCGTGACGCCCTCGTCACAGAGGCTGACCACCCTACCTACCTCCCTCGAAGCGCTCGACGTG
* ** * *
20732852 AATCGAACGGTTTAGGGTTGGCTCTGATACCACTTGTCACGGATCGAGACTTAAGCTCTGAACCC
651 AATCGAACGATTTAGGACTGGCTCTGATACCACTTGTCACGGATCGAGACTCAAGCTCCGAACCC
20732917 GAGCGACTCCGGGACCCGGA
716 GAGCGACTCCGGGACCCGGA
* * * *
20732937 CATTCACCCTTCCGGCATCTCAGATCAGCTTAATCGCCACGATTCACACCCTTGTGAGGTATTGT
1 CATTCACCCTTCCGGCATCTCAGATCAGCCTAATCACCACGATTCACACCATTGTGAAGTATTGT
*
20733002 CCGCTCTGGTCC-CCCTGGCCTCACGATTTTGTCCTACAAAAGGCACCTCACAAGGAAGAGATGG
66 CCGCTCTGG-CCTCCCTGGCCTCACGATTTTATCCTACAAAAGGCACCTCACAAGGAAGAGATGG
* * *
20733066 TGTGAACCCTTATATACCCTAATGACCCTCCTATTATGTTCGATGTGAGATTCAGGACTCTCCCT
130 TGTGAACCCTTATATACCCCAATGACCCT-C-------TTCGATGTGAGATTCAAGACTCCCCCT
* * * * * * *
20733131 TAGGTCCGTGACATTCTCCGTCACCCAACCTCGTGACACCTTCGTCAAGGAGGCTGGCCACCCTG
187 TAGGTCCATGACATTCTCCCTCACCCAACCTCGTGACACCCTCGTCAAGAAGACTGACCACCATG
* *
20733196 CCTACCTCCCTTGAGGTGCTTGGCATGGATCGAACAGTATAGGGCTGGCTCTGATA-CTACTTGT
252 CCTACCTCCCTTGAGGTGCTTGACATGGATCAAACAGTATAGGGCTGGCTCTGATATC-ACTTGT
* * * * *
20733260 CACGGGTCGAGACTCAAGCTCTGAACCTGCACGGCTCCGGGACCCGGGCATTCACCCTTCTGACG
316 CACGGGTCGAGACTCAAGCTCTGAACCCGCACGGCTCCGAGACCCGGACATTCACCCTTCCGACA
* * * * *
20733325 TCCCGGATCAGCCTGACTGTCACGGTTCACACCCTTGTGAGGTATTGTCCGCTTTGGC-CCTCCT
381 TCCCAGATCAACATGACTGTCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCTCCCCCT
* * * *
20733389 GGCCTTAC-GATTTTATCCTACAAAAGGCGCCTCACAAGGCGGAGATGGTGTGAACCCTTATATA
446 GACCTCACAG-TTTTATCCTACAAAAGGCGCCTCACAAGACGGAGATAGTGTGAACCCTTATATA
* *
20733453 CCCCAGTGACCTTCCTATTATGTTCGATATGAGATTTAGGAC-TCTCTCTTAGGTCCGTGACATT
510 CCCCAGTGACCCTCCTATTATGTTCGATATGAGATTCAGGACTTCTCT-TTAGGTCCGTGACATT
* * * * * * *
20733517 CTCCCGCACTCAACCTTGTGACGCCCTCGTTACTGAGGCTGACCACCCTACCTGCCTCCCTTGAG
574 CTCCCGCACCCAACCTCGTGACGCCCTCGTCACAGAGGCTGACCACCCTACCTACCTCCCTCGAA
* * ** * *
20733582 GTGCTTGGTGTGGATCGAACGATTTAGGACTGGCTCTGATACCACTTGTCACGGGTCGAGACTCA
639 GCGCTCGACGTGAATCGAACGATTTAGGACTGGCTCTGATACCACTTGTCACGGATCGAGACTCA
* ** * *
20733647 AGCTCCGAACCCGCGCGGTTCCGGGACCGGGG
704 AGCTCCGAACCCGAGCGACTCCGGGACCCGGA
20733679 CATTCACCCTT
1 CATTCACCCTT
20733690 TTCACGTCCC
Statistics
Matches: 644, Mismatches: 97, Indels: 17
0.85 0.13 0.02
Matches are distributed among these distances:
735 141 0.22
736 3 0.00
741 5 0.01
742 259 0.40
743 236 0.37
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (735 bp):
CATTCACCCTTCCGGCATCTCAGATCAGCCTAATCACCACGATTCACACCATTGTGAAGTATTGT
CCGCTCTGGCCTCCCTGGCCTCACGATTTTATCCTACAAAAGGCACCTCACAAGGAAGAGATGGT
GTGAACCCTTATATACCCCAATGACCCTCTTCGATGTGAGATTCAAGACTCCCCCTTAGGTCCAT
GACATTCTCCCTCACCCAACCTCGTGACACCCTCGTCAAGAAGACTGACCACCATGCCTACCTCC
CTTGAGGTGCTTGACATGGATCAAACAGTATAGGGCTGGCTCTGATATCACTTGTCACGGGTCGA
GACTCAAGCTCTGAACCCGCACGGCTCCGAGACCCGGACATTCACCCTTCCGACATCCCAGATCA
ACATGACTGTCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCTCCCCCTGACCTCACAG
TTTTATCCTACAAAAGGCGCCTCACAAGACGGAGATAGTGTGAACCCTTATATACCCCAGTGACC
CTCCTATTATGTTCGATATGAGATTCAGGACTTCTCTTTAGGTCCGTGACATTCTCCCGCACCCA
ACCTCGTGACGCCCTCGTCACAGAGGCTGACCACCCTACCTACCTCCCTCGAAGCGCTCGACGTG
AATCGAACGATTTAGGACTGGCTCTGATACCACTTGTCACGGATCGAGACTCAAGCTCCGAACCC
GAGCGACTCCGGGACCCGGA
Found at i:20733702 original size:371 final size:370
Alignment explanation
Indices: 20732239--20733689 Score: 1762
Period size: 371 Copynumber: 3.9 Consensus size: 370
20732229 GCCTAATCAC
* * *
20732239 CACGGTTCACACCATTGTGAAGTATTGTCCGCTCTGG-CCTCCCTGGCCTCACGGTTTTATCCTA
1 CACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCT-CCTGGCCTCACGATTTTATCCTA
*
20732303 CAAAAGGCCCCTCACAAGGAAGAGATGGTGTGAACCCTTATATACCCCAGTGACCCT-C------
65 CAAAAGGCGCCTCACAAGGAAGAGATGGTGTGAACCCTTATATACCCCAGTGACCCTCCTATTAT
* * * * * *
20732361 -TTCGATGTGGGATTCAAGACTCCCCCTTAGGTCCATGACATTCTCCCTCACCCAACTTCGTGAC
130 GTTCGATGTGAGATTCAGGACTCTCCCTTAGGTCCGTGACATTCTCCCGCACCCAACCTCGTGAC
* * * *
20732425 GCCCTCGTCACGAAGACTGACCACCATGCCTACCTCCCTTGAGGTGCTTGACGTGGATCAAACGG
195 GCCCTCGTCACG-AGGCTGACCACCCTGCCTACCTCCCTTGAGGTGCTTGACGTGGATCGAACGA
* * * * * * *
20732490 TATAGGGCTGGCTTTGATATCACTTGTCACGGGTCGAGACTTAAGTTTTGAACCCGTGCGGCTTC
259 TATAGGGCTGGCTCTGATACCACTTGTCACGGGTCGAGACTCAAGCTCTGAACCCGCGCGGCTCC
* * * * * *
20732555 GAGACCCGGACATTCACCCTTCCGGCATCCTAGATCAACATTCCTGT
324 GGGACCCGGACATTCACCCTTCCGACATCCCAGATCAGCCTTACTGT
* ** * * * *
20732602 CACGGTTTATTCCCTTGTGAGGTATTGTTCGCTCTGGCTCCCCCTGACCTCAC-AGTTTTGTCCT
1 CACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGC-CCTCCTGGCCTCACGA-TTTTATCCT
* * * * *
20732666 ACAAAAGGCGCCTCACAA-GACGGAGGTAGTGTGAACCCTTTTATACCCCAGTGACCCTCTTATT
64 ACAAAAGGCGCCTCACAAGGA-AGAGATGGTGTGAACCCTTATATACCCCAGTGACCCTCCTATT
* * * * * *
20732730 ATGTTCGATGTGGGATTCATGACTTTTCTTTAGGTCCGTGACATTCTCCTGCACCCAACCTCGTG
128 ATGTTCGATGTGAGATTCAGGACTCTCCCTTAGGTCCGTGACATTCTCCCGCACCCAACCTCGTG
* * * * * * *
20732795 ACGCCCTCGTCACAGAGGCTGGCCACCTTGCCTACCTCCCTCGAAGCGCTCGACGTGAATCGAAC
193 ACGCCCTCGTCAC-GAGGCTGACCACCCTGCCTACCTCCCTTGAGGTGCTTGACGTGGATCGAAC
* * * * * * *
20732860 GGTTTAGGGTTGGCTCTGATACCACTTGTCACGGATCGAGACTTAAGCTCTGAACCCGAGCGACT
257 GATATAGGGCTGGCTCTGATACCACTTGTCACGGGTCGAGACTCAAGCTCTGAACCCGCGCGGCT
* * * *
20732925 CCGGGACCCGGACATTCACCCTTCCGGCATCTCAGATCAG-CTTAATCGC
322 CCGGGACCCGGACATTCACCCTTCCGACATCCCAGATCAGCCTTACT-GT
* *
20732974 CACGATTCACACCCTTGTGAGGTATTGTCCGCTCTGGTCCC-CCTGGCCTCACGATTTTGTCCTA
1 CACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGG-CCCTCCTGGCCTCACGATTTTATCCTA
* * *
20733038 CAAAAGGCACCTCACAAGGAAGAGATGGTGTGAACCCTTATATACCCTAATGACCCTCCTATTAT
65 CAAAAGGCGCCTCACAAGGAAGAGATGGTGTGAACCCTTATATACCCCAGTGACCCTCCTATTAT
20733103 GTTCGATGTGAGATTCAGGACTCTCCCTTAGGTCCGTGACATTCT-CCGTCACCCAACCTCGTGA
130 GTTCGATGTGAGATTCAGGACTCTCCCTTAGGTCCGTGACATTCTCCCG-CACCCAACCTCGTGA
* * * * * *
20733167 CACCTTCGTCAAGGAGGCTGGCCACCCTGCCTACCTCCCTTGAGGTGCTTGGCATGGATCGAAC-
194 CGCCCTCGTC-ACGAGGCTGACCACCCTGCCTACCTCCCTTGAGGTGCTTGACGTGGATCGAACG
* * *
20733231 AGTATAGGGCTGGCTCTGATACTACTTGTCACGGGTCGAGACTCAAGCTCTGAACCTGCACGGCT
258 A-TATAGGGCTGGCTCTGATACCACTTGTCACGGGTCGAGACTCAAGCTCTGAACCCGCGCGGCT
* * * * *
20733296 CCGGGACCCGGGCATTCACCCTTCTGACGTCCCGGATCAGCCTGACTGT
322 CCGGGACCCGGACATTCACCCTTCCGACATCCCAGATCAGCCTTACTGT
* *
20733345 CACGGTTCACACCCTTGTGAGGTATTGTCCGCTTTGGCCCTCCTGGCCTTACGATTTTATCCTAC
1 CACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCTCCTGGCCTCACGATTTTATCCTAC
** *
20733410 AAAAGGCGCCTCACAAGGCGGAGATGGTGTGAACCCTTATATACCCCAGTGACCTTCCTATTATG
66 AAAAGGCGCCTCACAAGGAAGAGATGGTGTGAACCCTTATATACCCCAGTGACCCTCCTATTATG
* * * * *
20733475 TTCGATATGAGATTTAGGACTCTCTCTTAGGTCCGTGACATTCTCCCGCACTCAACCTTGTGACG
131 TTCGATGTGAGATTCAGGACTCTCCCTTAGGTCCGTGACATTCTCCCGCACCCAACCTCGTGACG
* * * **
20733540 CCCTCGTTACTGAGGCTGACCACCCTACCTGCCTCCCTTGAGGTGCTTGGTGTGGATCGAACGAT
196 CCCTCGTCAC-GAGGCTGACCACCCTGCCTACCTCCCTTGAGGTGCTTGACGTGGATCGAACGAT
* * * *
20733605 TTAGGACTGGCTCTGATACCACTTGTCACGGGTCGAGACTCAAGCTCCGAACCCGCGCGGTTCCG
260 ATAGGGCTGGCTCTGATACCACTTGTCACGGGTCGAGACTCAAGCTCTGAACCCGCGCGGCTCCG
* *
20733670 GGACCGGGGCATTCACCCTT
325 GGACCCGGACATTCACCCTT
20733690 TTCACGTCCC
Statistics
Matches: 929, Mismatches: 134, Indels: 42
0.84 0.12 0.04
Matches are distributed among these distances:
363 33 0.04
364 68 0.07
365 2 0.00
370 6 0.01
371 573 0.62
372 245 0.26
373 2 0.00
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (370 bp):
CACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCTCCTGGCCTCACGATTTTATCCTAC
AAAAGGCGCCTCACAAGGAAGAGATGGTGTGAACCCTTATATACCCCAGTGACCCTCCTATTATG
TTCGATGTGAGATTCAGGACTCTCCCTTAGGTCCGTGACATTCTCCCGCACCCAACCTCGTGACG
CCCTCGTCACGAGGCTGACCACCCTGCCTACCTCCCTTGAGGTGCTTGACGTGGATCGAACGATA
TAGGGCTGGCTCTGATACCACTTGTCACGGGTCGAGACTCAAGCTCTGAACCCGCGCGGCTCCGG
GACCCGGACATTCACCCTTCCGACATCCCAGATCAGCCTTACTGT
Found at i:20734444 original size:15 final size:15
Alignment explanation
Indices: 20734404--20734444 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
20734394 AATTCAACTA
*
20734404 TAATTATTTTTCTTT
1 TAATTTTTTTTCTTT
* *
20734419 TACTTTATTTTCTTT
1 TAATTTTTTTTCTTT
20734434 TAATTTTTTTT
1 TAATTTTTTTT
20734445 TAAAAATTAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (15 bp):
TAATTTTTTTTCTTT
Found at i:20739195 original size:22 final size:22
Alignment explanation
Indices: 20739151--20739197 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
20739141 CCCATAAGAG
* *
20739151 ATTTATTTGGGATTTGTTAGAT
1 ATTTATTTGAGATTTGTCAGAT
* *
20739173 ATTTGTTTGAGATTTGTCGGAT
1 ATTTATTTGAGATTTGTCAGAT
20739195 ATT
1 ATT
20739198 GCTTGATGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.21, C:0.02, G:0.23, T:0.53
Consensus pattern (22 bp):
ATTTATTTGAGATTTGTCAGAT
Found at i:20739301 original size:52 final size:52
Alignment explanation
Indices: 20739214--20739370 Score: 217
Period size: 52 Copynumber: 3.0 Consensus size: 52
20739204 TGGACAAGAA
* * * *
20739214 GACTTGCAAAAGAAGAATTCGAAGA-GAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGCAAGTTT
* *
20739266 GACTTACAAGAGAAGAATTCTAAAAGGAAAGGGATTTTTAATAGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
* * *
20739318 GACTTACAGGAGAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
20739370 G
1 G
20739371 TATGGTTATA
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
52 88 0.95
53 5 0.05
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.25
Consensus pattern (52 bp):
GACTTACAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:20757990 original size:28 final size:28
Alignment explanation
Indices: 20757893--20757997 Score: 133
Period size: 28 Copynumber: 3.8 Consensus size: 28
20757883 GTTAGAGTTT
*
20757893 TTGTT-AACAAAAAT-AGAACATTAATAG
1 TTGTTCAAC-AAAATGAGAACATTAACAG
* *
20757920 TTGTTTAACAAAATAAGAACATTAACAG
1 TTGTTCAACAAAATGAGAACATTAACAG
* *
20757948 TTGTTCAACAAAATGATAACATTAACAA
1 TTGTTCAACAAAATGAGAACATTAACAG
*
20757976 TTGTTCAACAAAATGATAACAT
1 TTGTTCAACAAAATGAGAACAT
20757998 CAGAGAAGTA
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
27 10 0.14
28 61 0.86
ACGTcount: A:0.50, C:0.11, G:0.10, T:0.30
Consensus pattern (28 bp):
TTGTTCAACAAAATGAGAACATTAACAG
Found at i:20767316 original size:291 final size:288
Alignment explanation
Indices: 20766795--20767341 Score: 778
Period size: 291 Copynumber: 1.9 Consensus size: 288
20766785 AAACTTTCCT
* * * * *
20766795 TAATATTTATATGTTCACAGTTCTTCATCCAAGGAAAAAAAATGTAAAAAAAAAAACCTTAAAAG
1 TAATATTTACATATTCACAATTCTTCATCAAAGGAAAAAAAATGTAAAAAAAAAAAACTTAAAAG
* *
20766860 ATGAAAAACACAGCCTAATAAAAAAAGAAACACCAACCAATCAAGGTATCTCTCTAACTATTAAA
66 ATGAAAAACACAACCTAATAAAAAAAGAAACACCAACCAATCAAGGTACCTCTCTAACTATTAAA
*
20766925 CGAAAATTCTTATACTTCATTAATTCCAAAATCCCTAATACTTGACTAACTGTAAATCTTATAAG
131 CGAAAATTCTTATACTTCATTAATTCCAAAATCCCTAATACCTGACTAACTGTAAATCTTATAAG
20766990 TAAAAAAGTTCAATATAAGCACAAAATAAACAAACATTTTTTCATAAATCTTATATGTCACACAC
196 TAAAAAAGTTCAATATAAGCACAAAATAAACAAACATTTTTTCATAAATCTTATATGTCACACAC
20767055 ATAATAGCAATCAAAATAACTATACACA
261 ATAATAGCAATCAAAATAACTATACACA
*
20767083 TAATATTTACATATTCACAATTCTTCATCAAAGGAAAGAAAATGTTAAAAAAGAAAAAAAC-TAT
1 TAATATTTACATATTCACAATTCTTCATCAAAGGAAAAAAAATG-T-AAAAA-AAAAAAACTTA-
* ** *
20767147 AAAGATGAAAAACACAACTTAATAAAAAAAGAAACATTAACCAATCAAGGTACCTCTTTAA-TCA
62 AAAGATGAAAAACACAACCTAATAAAAAAAGAAACACCAACCAATCAAGGTACCTCTCTAACT-A
* * * * * * *
20767211 TTAAGCTAAACTTCTTCTACTTTATTAATTCCAAAAT-CCTCATTACCTGACTAAGTGTAAATCT
126 TTAAACGAAAATTCTTATACTTCATTAATTCCAAAATCCCT-AATACCTGACTAACTGTAAATCT
* * * * *
20767275 TATTAGTAAAAAAGTTCAATGTAAGTATAAAGA-ACACAAACATTTTTTCATAAATCTTATATGT
190 TATAAGTAAAAAAGTTCAATATAAGCACAAA-ATAAACAAACATTTTTTCATAAATCTTATATGT
20767339 CAC
254 CAC
20767342 CCATTGCATT
Statistics
Matches: 227, Mismatches: 25, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
288 39 0.17
289 1 0.00
290 11 0.05
291 175 0.77
292 1 0.00
ACGTcount: A:0.48, C:0.17, G:0.07, T:0.29
Consensus pattern (288 bp):
TAATATTTACATATTCACAATTCTTCATCAAAGGAAAAAAAATGTAAAAAAAAAAAACTTAAAAG
ATGAAAAACACAACCTAATAAAAAAAGAAACACCAACCAATCAAGGTACCTCTCTAACTATTAAA
CGAAAATTCTTATACTTCATTAATTCCAAAATCCCTAATACCTGACTAACTGTAAATCTTATAAG
TAAAAAAGTTCAATATAAGCACAAAATAAACAAACATTTTTTCATAAATCTTATATGTCACACAC
ATAATAGCAATCAAAATAACTATACACA
Found at i:20769455 original size:5 final size:5
Alignment explanation
Indices: 20769424--20769648 Score: 148
Period size: 5 Copynumber: 43.2 Consensus size: 5
20769414 TTGTTCCTAG
* *
20769424 TATTA TATTA CTATAGTA TAGTT- TATTA TATTA TATTC TATTG TGATTA
1 TATTA TATTA -TAT--TA TA-TTA TATTA TATTA TATTA TATTA T-ATTA
* * * * *
20769473 TATTC TATTA TTTTA TATTA TATTA TATTA TATTA TAGTA TAGTA TAGTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
* * * * * * * *
20769523 TAATA TATTA TAGTA TAGTA TAGTA TAATA TATTA TAGTA TATCA GTATAA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA -TATTA
* * * *
20769574 TA-TA TTATTA TAGTA TAGTA TATTG TATTG TATTA TATTTA TTATTA
1 TATTA -TATTA TATTA TATTA TATTA TATTA TATTA TA-TTA -TATTA
* *
20769621 TTATTA TAGTA TATTA TTATTA CATTA T
1 -TATTA TATTA TATTA -TATTA TATTA T
20769649 TATTTTTATT
Statistics
Matches: 182, Mismatches: 26, Indels: 24
0.78 0.11 0.10
Matches are distributed among these distances:
4 3 0.02
5 141 0.77
6 31 0.17
7 4 0.02
8 3 0.02
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (5 bp):
TATTA
Found at i:20770443 original size:29 final size:27
Alignment explanation
Indices: 20770407--20770492 Score: 77
Period size: 30 Copynumber: 3.1 Consensus size: 27
20770397 ATGTTTTATT
*
20770407 TTTATTTTTAATTTTATTATTTATTTA
1 TTTATTTTAAATTTTATTATTTATTTA
*
20770434 TTTAAATTTTAAAATTTT-TTATATATTTTA
1 TTT--ATTTT-AAATTTTATTATTTA-TTTA
* * *
20770464 TTT-TATTGATTTTTATTATTTATTTA
1 TTTATTTTAAATTTTATTATTTATTTA
20770490 TTT
1 TTT
20770493 TTATTGAGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
26 12 0.25
27 12 0.25
29 11 0.23
30 13 0.27
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.71
Consensus pattern (27 bp):
TTTATTTTAAATTTTATTATTTATTTA
Found at i:20770487 original size:17 final size:17
Alignment explanation
Indices: 20770465--20770497 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20770455 TATATTTTAT
20770465 TTTATTGATTTTTATTA
1 TTTATTGATTTTTATTA
*
20770482 TTTATTTATTTTTATT
1 TTTATTGATTTTTATT
20770498 GAGTAACTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTATTGATTTTTATTA
Found at i:20785190 original size:20 final size:19
Alignment explanation
Indices: 20785144--20785193 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
20785134 AATAATATTT
20785144 AACAAAACAAAACAAAAAA
1 AACAAAACAAAACAAAAAA
*
20785163 AGGA-AAAATAAAACAGAAAAA
1 A--ACAAAACAAAACA-AAAAA
20785184 AACAAAACAA
1 AACAAAACAA
20785194 GTAAACAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
19 2 0.08
20 16 0.64
21 7 0.28
ACGTcount: A:0.80, C:0.12, G:0.06, T:0.02
Consensus pattern (19 bp):
AACAAAACAAAACAAAAAA
Found at i:20786040 original size:27 final size:27
Alignment explanation
Indices: 20786002--20786070 Score: 138
Period size: 27 Copynumber: 2.6 Consensus size: 27
20785992 TACCAAAATC
20786002 AAAACGACGTCGTTTCATTAAAGGCCT
1 AAAACGACGTCGTTTCATTAAAGGCCT
20786029 AAAACGACGTCGTTTCATTAAAGGCCT
1 AAAACGACGTCGTTTCATTAAAGGCCT
20786056 AAAACGACGTCGTTT
1 AAAACGACGTCGTTT
20786071 TAAGCCCGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (27 bp):
AAAACGACGTCGTTTCATTAAAGGCCT
Found at i:20786244 original size:27 final size:25
Alignment explanation
Indices: 20786212--20786264 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 25
20786202 AACCGGTACT
*
20786212 GAACCGTCGAACCAACCAGACCGAACC
1 GAACCGCCGAACCAACC-G-CCGAACC
*
20786239 GAACCGCCGATCCAACCGCCGAACC
1 GAACCGCCGAACCAACCGCCGAACC
20786264 G
1 G
20786265 GTCAGACCGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 1 0.04
27 15 0.62
ACGTcount: A:0.32, C:0.43, G:0.21, T:0.04
Consensus pattern (25 bp):
GAACCGCCGAACCAACCGCCGAACC
Found at i:20786779 original size:16 final size:18
Alignment explanation
Indices: 20786758--20786803 Score: 62
Period size: 16 Copynumber: 2.7 Consensus size: 18
20786748 AAACCCTTAA
*
20786758 AAATCCAAAATCCA-T-T
1 AAATCCAAAATCCACTCG
20786774 AAATCCAAAA-CCACTCG
1 AAATCCAAAATCCACTCG
20786791 AAATCCAAAATCC
1 AAATCCAAAATCC
20786804 TTGAAGTCCG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 3 0.12
16 11 0.42
17 10 0.38
18 2 0.08
ACGTcount: A:0.50, C:0.30, G:0.02, T:0.17
Consensus pattern (18 bp):
AAATCCAAAATCCACTCG
Found at i:20788525 original size:42 final size:42
Alignment explanation
Indices: 20788466--20788548 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
20788456 TGTTAAAGCT
*
20788466 AAAATCGATCGATCCATTTTTAG-AGAGGATCAATCCATTTTG
1 AAAATCAATCGATCCATTTTTAGAAG-GGATCAATCCATTTTG
*
20788508 AAAATCAATCGATCCATTTTTAGAAGGGATCGATCCATTTT
1 AAAATCAATCGATCCATTTTTAGAAGGGATCAATCCATTTT
20788549 AGTAGTTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 36 0.95
43 2 0.05
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Consensus pattern (42 bp):
AAAATCAATCGATCCATTTTTAGAAGGGATCAATCCATTTTG
Found at i:20788539 original size:21 final size:21
Alignment explanation
Indices: 20788472--20788548 Score: 84
Period size: 21 Copynumber: 3.7 Consensus size: 21
20788462 AGCTAAAATC
20788472 GATCGATCCATTTTTAG-AGAG
1 GATCGATCCATTTTTAGAAG-G
* * * **
20788493 GATCAATCCATTTTGAAAATC
1 GATCGATCCATTTTTAGAAGG
*
20788514 AATCGATCCATTTTTAGAAGG
1 GATCGATCCATTTTTAGAAGG
20788535 GATCGATCCATTTT
1 GATCGATCCATTTT
20788549 AGTAGTTTTG
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
21 42 0.98
22 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (21 bp):
GATCGATCCATTTTTAGAAGG
Found at i:20792236 original size:31 final size:31
Alignment explanation
Indices: 20792201--20792286 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 31
20792191 TCACTTCATG
*
20792201 ATTCAAAAATCAATCCAAATCAAATTGAA-A
1 ATTCAAAAATCAATCCAAATTAAATTGAATA
*
20792231 TATTC-AATATCCAATCCAAATTAAATTGAATA
1 -ATTCAAAAAT-CAATCCAAATTAAATTGAATA
* *
20792263 AAT-AAAAATAAATCCAAATTAAAT
1 ATTCAAAAATCAATCCAAATTAAAT
20792287 ACTATAATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
30 18 0.38
31 28 0.60
32 1 0.02
ACGTcount: A:0.56, C:0.14, G:0.02, T:0.28
Consensus pattern (31 bp):
ATTCAAAAATCAATCCAAATTAAATTGAATA
Found at i:20793891 original size:22 final size:22
Alignment explanation
Indices: 20793865--20793906 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
20793855 TGTATATTTA
* *
20793865 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
20793887 TATTTGTATCCCTAAAATTA
1 TATTTGTATCCCTAAAATTA
20793907 GGATAGACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:20797818 original size:22 final size:22
Alignment explanation
Indices: 20797778--20797819 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
20797768 TATATATTTA
** *
20797778 TATTTGTATTTCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
20797800 TATTTGTATCCCTAAAATTA
1 TATTTGTATCCCTAAAATTA
20797820 GGATAGACAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:20803940 original size:33 final size:31
Alignment explanation
Indices: 20803900--20803963 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 31
20803890 TTTATTTTAT
*
20803900 ATTTTTATATTAATATAAAATTATAATAT-AATA
1 ATTTTTATA-TAAAAT-AAA-TATAATATCAATA
20803933 ATTTTTATATAAAATAAATATAATATCAATA
1 ATTTTTATATAAAATAAATATAATATCAATA
20803964 TTAAATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 8 0.28
31 7 0.24
32 5 0.17
33 9 0.31
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (31 bp):
ATTTTTATATAAAATAAATATAATATCAATA
Found at i:20803942 original size:14 final size:13
Alignment explanation
Indices: 20803910--20803955 Score: 51
Period size: 14 Copynumber: 3.6 Consensus size: 13
20803900 ATTTTTATAT
20803910 TAATATAAAATTA
1 TAATATAAAATTA
*
20803923 TAATATAATAATTT
1 TAATATAA-AATTA
*
20803937 TTATATAAAA-TA
1 TAATATAAAATTA
20803949 -AATATAA
1 TAATATAA
20803956 TATCAATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 6 0.21
12 1 0.04
13 10 0.36
14 11 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TAATATAAAATTA
Found at i:20804316 original size:22 final size:23
Alignment explanation
Indices: 20804290--20804333 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
20804280 TAATGATTTT
20804290 AAATT-ATATAAAAA-ATAAATAA
1 AAATTAAT-TAAAAAGATAAATAA
20804312 AAATTAATTAAAAAGATAAATA
1 AAATTAATTAAAAAGATAAATA
20804334 TAATTTGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (23 bp):
AAATTAATTAAAAAGATAAATAA
Found at i:20804899 original size:7 final size:7
Alignment explanation
Indices: 20804887--20804912 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
20804877 GTTTTTATTT
20804887 ATAAATA
1 ATAAATA
20804894 ATAAATA
1 ATAAATA
20804901 ATAAATA
1 ATAAATA
20804908 ATAAA
1 ATAAA
20804913 ACAACTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
ATAAATA
Found at i:20814172 original size:26 final size:26
Alignment explanation
Indices: 20814143--20814193 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
20814133 TGTACAGCAT
* *
20814143 TAACTATTTCTTACTAACAACAATGC
1 TAACTATCTCATACTAACAACAATGC
* *
20814169 TAACTCTCTCATACTAACATCAATG
1 TAACTATCTCATACTAACAACAATG
20814194 TCGGAATATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.33
Consensus pattern (26 bp):
TAACTATCTCATACTAACAACAATGC
Found at i:20819102 original size:14 final size:15
Alignment explanation
Indices: 20819083--20819112 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
20819073 GATTGTGCAA
20819083 TTTTTCTTT-CTTTT
1 TTTTTCTTTGCTTTT
20819097 TTTTTCTTTGCTTTT
1 TTTTTCTTTGCTTTT
20819112 T
1 T
20819113 CACCACTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTTCTTTGCTTTT
Found at i:20819154 original size:25 final size:25
Alignment explanation
Indices: 20819092--20819154 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
20819082 ATTTTTCTTT
20819092 CTTTTTTTTTCTTTGCTTTTTCACCA
1 CTTTTTTTTT-TTTGCTTTTTCACCA
** * ***
20819118 CTTAATTATTTTTGCTTTTTTTTCA
1 CTTTTTTTTTTTTGCTTTTTCACCA
20819143 CTTTTTTTTTTT
1 CTTTTTTTTTTT
20819155 GCAAGCTAGC
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
25 21 0.75
26 7 0.25
ACGTcount: A:0.10, C:0.16, G:0.03, T:0.71
Consensus pattern (25 bp):
CTTTTTTTTTTTTGCTTTTTCACCA
Found at i:20827852 original size:6 final size:6
Alignment explanation
Indices: 20827841--20827870 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
20827831 TTTCATGGGA
20827841 ACATTC ACATTC ACATTC ACATTC ACATTC
1 ACATTC ACATTC ACATTC ACATTC ACATTC
20827871 TCTTTCTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (6 bp):
ACATTC
Found at i:20829063 original size:21 final size:23
Alignment explanation
Indices: 20829023--20829069 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
20829013 GCCCTGTAGA
*
20829023 TAATTTCATTAAGTTTAAAATAT
1 TAATTTCATTAAGATTAAAATAT
*
20829046 TAATTT-ATTAA-ATTAAAATGT
1 TAATTTCATTAAGATTAAAATAT
20829067 TAA
1 TAA
20829070 ATAATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 5 0.23
23 6 0.27
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (23 bp):
TAATTTCATTAAGATTAAAATAT
Found at i:20829456 original size:11 final size:10
Alignment explanation
Indices: 20829440--20829487 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
20829430 TTGCTAAATA
20829440 AAAAAAGAAAG
1 AAAAAA-AAAG
*
20829451 AAAAAAAAAT
1 AAAAAAAAAG
*
20829461 AAAAAAAAATT
1 AAAAAAAAA-G
20829472 AAAAGAAAAAG
1 AAAA-AAAAAG
20829483 AAAAA
1 AAAAA
20829488 TATAGGAGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
10 13 0.39
11 15 0.45
12 5 0.15
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.06
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:20829463 original size:26 final size:26
Alignment explanation
Indices: 20829434--20829486 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
20829424 AACAATTTGC
20829434 TAAATAAAAAA-AGAAAGAAAAA-AAAA
1 TAAA-AAAAAATA-AAAGAAAAAGAAAA
20829460 TAAAAAAAAATTAAAAGAAAAAGAAAA
1 TAAAAAAAAA-TAAAAGAAAAAGAAAA
20829487 ATATAGGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 6 0.25
26 13 0.54
27 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.08, T:0.09
Consensus pattern (26 bp):
TAAAAAAAAATAAAAGAAAAAGAAAA
Found at i:20830956 original size:5 final size:5
Alignment explanation
Indices: 20830937--20831019 Score: 61
Period size: 5 Copynumber: 17.0 Consensus size: 5
20830927 TATCTAATAA
*
20830937 AAAAT AAAA- ATAAAT AAAAT AAAATTT AAAA- AAAAT -AGAT AAAAT
1 AAAAT AAAAT A-AAAT AAAAT AAAA--T AAAAT AAAAT AAAAT AAAAT
* *
20830982 AAAAT AAAAT AACAA- AAATT AAAA- AAAA- AAAAG AAAAT
1 AAAAT AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT AAAAT
20831020 GGAGAAGGAG
Statistics
Matches: 64, Mismatches: 5, Indels: 18
0.74 0.06 0.21
Matches are distributed among these distances:
4 17 0.27
5 39 0.61
6 3 0.05
7 5 0.08
ACGTcount: A:0.78, C:0.01, G:0.02, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:20831008 original size:10 final size:9
Alignment explanation
Indices: 20830935--20831019 Score: 73
Period size: 10 Copynumber: 8.8 Consensus size: 9
20830925 TTTATCTAAT
20830935 AAAAAATAA
1 AAAAAATAA
20830944 AAATAAATAA
1 AAA-AAATAA
20830954 AATAAAATTTAA
1 AA-AAAA--TAA
*
20830966 AAAAAATAG
1 AAAAAATAA
*
20830975 ATAAAATAA
1 AAAAAATAA
20830984 AATAAAATAA
1 AA-AAAATAA
*
20830994 CAAAAATTAA
1 -AAAAAATAA
20831004 AAAAAA-AA
1 AAAAAATAA
20831012 AAGAAAAT
1 AA-AAAAT
20831020 GGAGAAGGAG
Statistics
Matches: 62, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
8 4 0.06
9 22 0.35
10 24 0.39
11 7 0.11
12 5 0.08
ACGTcount: A:0.79, C:0.01, G:0.02, T:0.18
Consensus pattern (9 bp):
AAAAAATAA
Found at i:20831780 original size:19 final size:21
Alignment explanation
Indices: 20831756--20831800 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
20831746 TTTAAAATTG
20831756 ATAAAATA-TTA-TTTTTAAT
1 ATAAAATATTTATTTTTTAAT
20831775 ATAAAATATTTATTTTTTAAT
1 ATAAAATATTTATTTTTTAAT
20831796 ATAAA
1 ATAAA
20831801 TATAAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 8 0.33
20 3 0.12
21 13 0.54
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATAAAATATTTATTTTTTAAT
Found at i:20836111 original size:16 final size:16
Alignment explanation
Indices: 20836070--20836110 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
20836060 TATAATTTAA
20836070 AAATTTTTTTGGATTT
1 AAATTTTTTTGGATTT
* *
20836086 GAATTGTTTTGG-TTT
1 AAATTTTTTTGGATTT
20836101 AAATTTTTTT
1 AAATTTTTTT
20836111 TAGTTAAGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.22, C:0.00, G:0.15, T:0.63
Consensus pattern (16 bp):
AAATTTTTTTGGATTT
Found at i:20839530 original size:13 final size:14
Alignment explanation
Indices: 20839498--20839533 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
20839488 GATTGATGAC
*
20839498 AAATTATTATTATG
1 AAATTAATATTATG
20839512 AAATTAATATTAT-
1 AAATTAATATTATG
20839525 AAATTAATA
1 AAATTAATA
20839534 AAATTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (14 bp):
AAATTAATATTATG
Found at i:20842173 original size:3 final size:3
Alignment explanation
Indices: 20842165--20842202 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
20842155 AAAAAGTAAA
20842165 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
20842203 CGAAAAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:20847240 original size:18 final size:19
Alignment explanation
Indices: 20847214--20847257 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
20847204 TTTATCTTTC
* *
20847214 CAAATATAGATAA-AAAAA
1 CAAAAATAGACAATAAAAA
20847232 CAAAAATAGACAATTAAAAA
1 CAAAAATAGACAA-TAAAAA
20847252 CAAAAA
1 CAAAAA
20847258 AAATAAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 11 0.50
20 11 0.50
ACGTcount: A:0.73, C:0.09, G:0.05, T:0.14
Consensus pattern (19 bp):
CAAAAATAGACAATAAAAA
Found at i:20848296 original size:27 final size:27
Alignment explanation
Indices: 20848248--20848314 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
20848238 TAAAATTTTA
* *
20848248 AAATAAAAAAATAAAAAAAAAGTAAATC
1 AAATTAAAAAA-AAAAAAAAAGGAAATC
* *
20848276 AAATTAAAAAAAAAAACAAAGGAAATG
1 AAATTAAAAAAAAAAAAAAAGGAAATC
20848303 AAATTAAAAAAA
1 AAATTAAAAAAA
20848315 TGGGATGACA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
27 25 0.71
28 10 0.29
ACGTcount: A:0.78, C:0.03, G:0.06, T:0.13
Consensus pattern (27 bp):
AAATTAAAAAAAAAAAAAAAGGAAATC
Found at i:20851108 original size:17 final size:18
Alignment explanation
Indices: 20851073--20851120 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
20851063 CTTGTTTTTC
20851073 TTTAAATTTTTATATATT
1 TTTAAATTTTTATATATT
20851091 TTTAAATTTTT-T-TCATT
1 TTTAAATTTTTATAT-ATT
20851108 TTTAAAATTTTTA
1 TTT-AAATTTTTA
20851121 AATAAAAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 1 0.04
17 7 0.26
18 19 0.70
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTAAATTTTTATATATT
Found at i:20854649 original size:23 final size:23
Alignment explanation
Indices: 20854623--20854674 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
20854613 AAGTCATGTT
20854623 ATATAAATGATAATAACCATTTG
1 ATATAAATGATAATAACCATTTG
20854646 ATATAAATGATAATAACCATTTG
1 ATATAAATGATAATAACCATTTG
20854669 A-ATAAA
1 ATATAAA
20854675 AATTTATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.17
23 24 0.83
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.33
Consensus pattern (23 bp):
ATATAAATGATAATAACCATTTG
Found at i:20855784 original size:30 final size:33
Alignment explanation
Indices: 20855748--20855832 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 33
20855738 CGAAATTAAT
*
20855748 AAAATATTATTTTTTAAATATA-A-ATAT-TTA
1 AAAATATTATTTTATAAATATATATATATATTA
* *
20855778 AAAATATCATTATATAAATATATATATATAATTA
1 AAAATATTATTTTATAAATATATATATAT-ATTA
*
20855812 AAAA-ATTA-TTTATATATATAT
1 AAAATATTATTTTATAAATATAT
20855833 CGGGTCGGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
30 19 0.42
31 1 0.02
32 15 0.33
33 3 0.07
34 7 0.16
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (33 bp):
AAAATATTATTTTATAAATATATATATATATTA
Found at i:20855813 original size:34 final size:32
Alignment explanation
Indices: 20855765--20855832 Score: 82
Period size: 34 Copynumber: 2.1 Consensus size: 32
20855755 TATTTTTTAA
*
20855765 ATATAAATATTTAAAAATATCATTATATAAATAT
1 ATATAAATAATTAAAAA-ATCATT-TATAAATAT
* * *
20855799 ATATATATAATTAAAAAATTATTTATATATAT
1 ATATAAATAATTAAAAAATCATTTATAAATAT
20855831 AT
1 AT
20855833 CGGGTCGGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 10 0.33
33 5 0.17
34 15 0.50
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (32 bp):
ATATAAATAATTAAAAAATCATTTATAAATAT
Found at i:20866198 original size:11 final size:10
Alignment explanation
Indices: 20866176--20866214 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 10
20866166 AACTATGCTT
20866176 AAAAAAAG-A
1 AAAAAAAGAA
20866185 AAAAAAAGAAA
1 AAAAAAAG-AA
20866196 AAAAAAAGAGA
1 AAAAAAAGA-A
20866207 AAAAAAAG
1 AAAAAAAG
20866215 GAGGATCCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 8 0.30
10 1 0.04
11 18 0.67
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:20866202 original size:13 final size:13
Alignment explanation
Indices: 20866179--20866213 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
20866169 TATGCTTAAA
20866179 AAAAGAAAAAAAAG
1 AAAA-AAAAAAAAG
*
20866193 AAAAAAAAAAGAG
1 AAAAAAAAAAAAG
20866206 AAAAAAAA
1 AAAAAAAA
20866214 GGAGGATCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:20866211 original size:9 final size:9
Alignment explanation
Indices: 20866176--20866200 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
20866166 AACTATGCTT
20866176 AAAAAAAGA
1 AAAAAAAGA
20866185 AAAAAAAGA
1 AAAAAAAGA
20866194 AAAAAAA
1 AAAAAAA
20866201 AAGAGAAAAA
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:20867759 original size:47 final size:47
Alignment explanation
Indices: 20867465--20867766 Score: 209
Period size: 47 Copynumber: 6.5 Consensus size: 47
20867455 ACCCATATTT
* * *
20867465 ATAGGAGACCTTTCTAGAAAGATTTTTAAAGTTCATTGCTTATTTTC
1 ATAGGAGCCCTTTCTAGAAAGATTTTTAAAGTTCGTTGCCTATTTTC
* * * * ** *
20867512 ATAAGAGCCATTTCCA-AAATGATTTTTAAAGTTTGTTATCTATATTC
1 ATAGGAGCCCTTTCTAGAAA-GATTTTTAAAGTTCGTTGCCTATTTTC
* * * * * * *
20867559 ATA--AGTCTTTTTTGGAAATATTTTTAAAG-TCATTGCTTATTTTC
1 ATAGGAGCCCTTTCTAGAAAGATTTTTAAAGTTCGTTGCCTATTTTC
** * * * * * *** *
20867603 ATAATAACCTTTTCCAAAAAGATTTTTAAAGTTAGTTATTTTATTTTT
1 ATAGGAGCCCTTTCTAGAAAGATTTTTAAAGTTCGTT-GCCTATTTTC
* * ** *
20867651 AAAGGAG-CCTTTTTCAGAAAGATTTTTAAAGTTCGTTATCTATTTTA
1 ATAGGAGCCCTTTCT-AGAAAGATTTTTAAAGTTCGTTGCCTATTTTC
* * * *
20867698 ATAGAAGCCATTTCTAGAAAGATTTTTAAAGTTTGTTGCCTATTTTT
1 ATAGGAGCCCTTTCTAGAAAGATTTTTAAAGTTCGTTGCCTATTTTC
20867745 ATAGGAGCCCTTTCTAGAAAGA
1 ATAGGAGCCCTTTCTAGAAAGA
20867767 GATTTTTTAA
Statistics
Matches: 191, Mismatches: 56, Indels: 16
0.73 0.21 0.06
Matches are distributed among these distances:
44 12 0.06
45 16 0.08
46 25 0.13
47 103 0.54
48 35 0.18
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (47 bp):
ATAGGAGCCCTTTCTAGAAAGATTTTTAAAGTTCGTTGCCTATTTTC
Found at i:20867796 original size:50 final size:46
Alignment explanation
Indices: 20867462--20867797 Score: 129
Period size: 47 Copynumber: 7.1 Consensus size: 46
20867452 TCTACCCATA
*
20867462 TTTATAGGAGACC-TTTCTAGAAAGATTTTTAAAGTTCA-TTG-CTTAT
1 TTTATAGAAG-CCATTTCTAGAAAGATTTTTAAAG-TCACTTGTC-TAT
* *** *
20867508 TTTCATA-AGAGCCATTTCCA-AAATGATTTTTAAAGTTTGTTATCTAT
1 TTT-ATAGA-AGCCATTTCTAGAAA-GATTTTTAAAGTCACTTGTCTAT
* * * * * *
20867555 ATTCAT--AAGTCTTTTTTGGAAATATTTTTAAAGTCA-TTG-CTTAT
1 -TTTATAGAAGCCATTTCTAGAAAGATTTTTAAAGTCACTTGTC-TAT
* * * * * * * *
20867599 TTTCATA-ATAACCTTTTCCAAAAAGATTTTTAAAGTTAGTTATTTTATT
1 TTT-ATAGA-AGCCATTTCTAGAAAGATTTTTAAAGTCACTT-GTCTA-T
* * * * *
20867648 TTTAAAGGAGCC-TTTTTCAGAAAGATTTTTAAAGTTC-GTTATCTAT
1 TTTATAGAAGCCATTTCT-AGAAAGATTTTTAAAG-TCACTTGTCTAT
*** *
20867694 TTTAATAGAAGCCATTTCTAGAAAGATTTTTAAAGTTTGTTGCCTATT
1 TTT-ATAGAAGCCATTTCTAGAAAGATTTTTAAAGTCACTTGTCTA-T
* *
20867742 TTTATAGGAGCCCTTTCTAGAAAGAGATTTTTTAAAGTCACTTGTCTAT
1 TTTATAGAAGCCATTTCTAG-AA-AGA-TTTTTAAAGTCACTTGTCTAT
20867791 GTTTATA
1 -TTTATA
20867798 ATAGCTCTTC
Statistics
Matches: 216, Mismatches: 47, Indels: 50
0.69 0.15 0.16
Matches are distributed among these distances:
43 3 0.01
44 7 0.03
45 18 0.08
46 39 0.18
47 80 0.37
48 38 0.18
49 9 0.04
50 22 0.10
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (46 bp):
TTTATAGAAGCCATTTCTAGAAAGATTTTTAAAGTCACTTGTCTAT
Found at i:20867907 original size:41 final size:39
Alignment explanation
Indices: 20867860--20867963 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 39
20867850 TAGTTAAACC
* * * *
20867860 TTAAATTTTTAAACGATTTT-GAAGACTTCTAGGCAAAATT
1 TTAAATTTTTAAA-GATTTTCAAAGACCTCCAAGCAAAA-T
*
20867900 TTAAAATTTTGAAAGATTTTCAAAGACCTCCAAGCAAAAT
1 TT-AAATTTTTAAAGATTTTCAAAGACCTCCAAGCAAAAT
20867940 TTAAATTTTTGAAAGATTTTCAAA
1 TTAAATTTTT-AAAGATTTTCAAA
20867964 ATTCTTCGAG
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
39 7 0.13
40 24 0.44
41 24 0.44
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (39 bp):
TTAAATTTTTAAAGATTTTCAAAGACCTCCAAGCAAAAT
Done.