Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006385.1 Hibiscus syriacus cultivar Beakdansim tig00015374_pilon, 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: 216924
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
File 1 of 2
Found at i:6412 original size:7 final size:7
Alignment explanation
Indices: 6402--6429 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
6392 ACGGAAAGGC
6402 GAAACAG
1 GAAACAG
6409 GAAACAG
1 GAAACAG
6416 GAAACAG
1 GAAACAG
6423 GAAACAG
1 GAAACAG
6430 TAAATGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.14, G:0.29, T:0.00
Consensus pattern (7 bp):
GAAACAG
Found at i:14686 original size:58 final size:54
Alignment explanation
Indices: 14599--14865 Score: 218
Period size: 54 Copynumber: 4.8 Consensus size: 54
14589 GAATCCATAG
* * *
14599 CACCTCTGTGCTAG-AATTAATGATTGAGCACATCTGTGCTTCAATCGAGAGCTGA
1 CACCTCTGTGC-AGTAA-AAATGACTGAGCACCTCTGTGCTTCAATCGAGAGCTGA
** *
14654 CACCTCTGTGCAGTTAAAAAAAATGACTGAGCACCTCTGTGCTTCAGCCGGGAGCTGA
1 CACCTCTGTGCAG-T---AAAAATGACTGAGCACCTCTGTGCTTCAATCGAGAGCTGA
* * * * *
14712 CACCTCTGTGTAGCT-AAGACGATTGAGCACCTCTGTGCTTCAATCGAG-GAATGA
1 CACCTCTGTGCAG-TAAAAATGACTGAGCACCTCTGTGCTTCAATCGAGAG-CTGA
* * * * * * *
14766 CACCTCTGTGCAGCCAAAAATGACTGAGCACCTCTATGCTTCAGTCTAAAATCTGG
1 CACCTCTGTGCAG-TAAAAATGACTGAGCACCTCTGTGCTTCAATC-GAGAGCTGA
* * * *
14822 CACCTCTGTGCA-TTAGAATGATTGAGCACCTCTGTGCTACAATC
1 CACCTCTGTGCAGTAAAAATGACTGAGCACCTCTGTGCTTCAATC
14866 TAAAATCAAG
Statistics
Matches: 169, Mismatches: 34, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
53 1 0.01
54 70 0.41
55 36 0.21
56 15 0.09
58 45 0.27
59 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (54 bp):
CACCTCTGTGCAGTAAAAATGACTGAGCACCTCTGTGCTTCAATCGAGAGCTGA
Found at i:14853 original size:109 final size:109
Alignment explanation
Indices: 14599--14865 Score: 288
Period size: 109 Copynumber: 2.4 Consensus size: 109
14589 GAATCCATAG
* * * *
14599 CACCTCTGTGCTAGAATTAATGATTGAGCACATCTGTGCTTCAATCGAGAGCTGACACCTCTGTG
1 CACCTCTGTGC-AG-CTAAATGATTGAGCACCTCTGTGCTTCAATCGAGAGATGACACCTCTGTG
* ***
14664 CAGTTAAAAAAAATGACTGAGCACCTCTGTGCTTCAGCCGGGAGCTGA
64 CAG-T-AAAAAAATGACTGAGCACCTCTATGCTTCAGCCAAAAGCTGA
* *
14712 CACCTCTGTGTAGCTAAGACGATTGAGCACCTCTGTGCTTCAATCGAG-GAATGACACCTCTGTG
1 CACCTCTGTGCAGCTAA-ATGATTGAGCACCTCTGTGCTTCAATCGAGAG-ATGACACCTCTGTG
** * * *
14776 CAG-CCAAAAATGACTGAGCACCTCTATGCTTCAGTCTAAAATCTGG
64 CAGTAAAAAAATGACTGAGCACCTCTATGCTTCAG-CCAAAAGCTGA
* *
14822 CACCTCTGTGCA-TTAGAATGATTGAGCACCTCTGTGCTACAATC
1 CACCTCTGTGCAGCTA-AATGATTGAGCACCTCTGTGCTTCAATC
14866 TAAAATCAAG
Statistics
Matches: 131, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
109 55 0.42
110 17 0.13
111 3 0.02
112 46 0.35
113 10 0.08
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (109 bp):
CACCTCTGTGCAGCTAAATGATTGAGCACCTCTGTGCTTCAATCGAGAGATGACACCTCTGTGCA
GTAAAAAAATGACTGAGCACCTCTATGCTTCAGCCAAAAGCTGA
Found at i:14879 original size:54 final size:54
Alignment explanation
Indices: 14735--14915 Score: 161
Period size: 54 Copynumber: 3.3 Consensus size: 54
14725 CTAAGACGAT
* * * **
14735 TGAGCACCTCTGTGCTTCAATCGAGGAAT-GA-CACCTCTGTGCAGCCAAAAATGAC
1 TGAGCACCTCTGTGCTTCAATCTA-AAATCAAGCACCTCTGTGCA--TTAAAATGAC
* * ** * *
14790 TGAGCACCTCTATGCTTCAGTCTAAAATCTGGCACCTCTGTGCATTAGAATGAT
1 TGAGCACCTCTGTGCTTCAATCTAAAATCAAGCACCTCTGTGCATTAAAATGAC
* *
14844 TGAGCACCTCTGTGCTACAATCTAAAATCAAGCACCT-TCGTGCTTTTACAAATGAC
1 TGAGCACCTCTGTGCTTCAATCTAAAATCAAGCACCTCT-GTGC-ATTA-AAATGAC
*
14900 CGAGCACCTCTGTGCT
1 TGAGCACCTCTGTGCT
14916 GCGATCTGCG
Statistics
Matches: 102, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 45 0.44
55 24 0.24
56 32 0.31
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (54 bp):
TGAGCACCTCTGTGCTTCAATCTAAAATCAAGCACCTCTGTGCATTAAAATGAC
Found at i:16342 original size:14 final size:15
Alignment explanation
Indices: 16276--16380 Score: 70
Period size: 14 Copynumber: 6.5 Consensus size: 15
16266 TAATAAGGTT
16276 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
16291 ATTTATTATAAAATATGGATA
1 ATTTATT-T-TAA-A---ATA
16312 GATTTATTTTAAAATA
1 -ATTTATTTTAAAATA
16328 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
* * *
16342 ATTTATTAGTATGAATTG
1 ATTTATT--T-TAAAATA
16360 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
16374 ATTTATT
1 ATTTATT
16381 AGTATGGATT
Statistics
Matches: 73, Mismatches: 6, Indels: 23
0.72 0.06 0.23
Matches are distributed among these distances:
14 22 0.30
15 17 0.23
16 6 0.08
17 3 0.04
18 11 0.15
19 1 0.01
20 2 0.03
21 4 0.05
22 7 0.10
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:16365 original size:18 final size:18
Alignment explanation
Indices: 16342--16399 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
16332 ATTTTAAATA
16342 ATTTATTAGTATGAATTG
1 ATTTATTAGTATGAATTG
* *
16360 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGAATTG
*
16374 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGAATTG
16392 ATTTATTA
1 ATTTATTA
16400 TTGTAGTTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
14 10 0.32
15 1 0.03
16 2 0.06
17 1 0.03
18 17 0.55
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (18 bp):
ATTTATTAGTATGAATTG
Found at i:16367 original size:32 final size:32
Alignment explanation
Indices: 16328--16809 Score: 296
Period size: 32 Copynumber: 15.4 Consensus size: 32
16318 TTTTAAAATA
*
16328 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
16360 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
* **
16392 ATTTA--TT--AT--TGTAGTT-GTATAAATTG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTG
16418 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
**
16450 ATTTA-TTT---TAA---A--A-TATGGATAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
16472 ATTTATTTTAAATAATTTATTAGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
16504 ATTTATTTTAAAATATGTAAAATAATTTATTAGTATGGATTG
1 ATTTA---T----T-T-T-AAATAATTTATTAGTATGGATTG
16546 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
** **
16578 ATTTATTTTAAA-ATATGGATT-G-ATTTATT-
1 ATTTATTTTAAATA-ATTTATTAGTATGGATTG
* * * *
16607 ATTGTAGTTGTATGAAATTATTTATT--T-T-AAATA
1 ATT-TA-TT-T-T-AAATAATTTATTAGTATGGATTG
* * * **
16640 ATTTATTAGTATGAATTGATTTATTTTAAAATATGGATAA
1 ATTTATT--T-T-AAATAATTTA--TT--AGTATGGATTG
*
16680 ATTTATTTTAAATAATTTATTAGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
16712 ATTTATTTT-AA-AA--TA-T-G--T--ATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
16734 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
16766 ATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
16798 ATTTATTTTAAA
1 ATTTATTTTAAA
16810 ATATGGATTG
Statistics
Matches: 360, Mismatches: 34, Indels: 112
0.71 0.07 0.22
Matches are distributed among these distances:
22 25 0.07
23 6 0.02
24 3 0.01
25 1 0.00
26 22 0.06
27 4 0.01
28 10 0.03
29 4 0.01
30 14 0.04
31 14 0.04
32 184 0.51
33 6 0.02
34 13 0.04
35 2 0.01
36 8 0.02
37 1 0.00
38 2 0.01
39 3 0.01
40 10 0.03
41 1 0.00
42 27 0.08
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:16466 original size:22 final size:22
Alignment explanation
Indices: 16441--16483 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
16431 AATTTATTAG
**
16441 TATGGATTGATTTATTTTAAAA
1 TATGGATAAATTTATTTTAAAA
16463 TATGGATAAATTTATTTTAAA
1 TATGGATAAATTTATTTTAAA
16484 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.49
Consensus pattern (22 bp):
TATGGATAAATTTATTTTAAAA
Found at i:16480 original size:112 final size:110
Alignment explanation
Indices: 16351--17257 Score: 798
Period size: 112 Copynumber: 8.3 Consensus size: 110
16341 AATTTATTAG
**
16351 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTATTGTAGTTGTATAAAT
1 TATG-ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTATTGTAGTTGTATGGAT
16416 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
65 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAA
** * ** * *
16463 TATGGATAAATTTATTTTAAATAATTTATTAGTATAGATTGATTTATT-TTAAAATATGTA--AA
1 TAT-GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTATTGTAGT-TGTATGGA
* * * * * * * * *
16525 ATAATTTATTAGTATGGATTGATTTATT--T-T-AAATAATTTA--TT-AG
64 TTGATTTATT--T-T-AAATAATTTATTAGTATGGATTGATTTATTTTAAA
*
16569 TATGGATTGATTTA-TTT---TAA---A--A-TATGGATTGATTTATTATTGTAGTTGTATGAAA
1 TAT-GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTATTGTAGTTGTATG-GA
*
16624 TT-ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
64 TTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAA
** * *** *
16671 TATGGATAAATTTATTTTAAATAATTTATTAGTATAGATTGATTTA-T-TT-TA-AAATATGTAT
1 TAT-GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTATTGTAGTTGTATGGAT
16732 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
65 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
* * * ** * * *
16778 TA--ATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATG
1 TATGATTGATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTATTATTGTAGTTGTATG
16841 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
62 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
* * * ** * * * *
16890 TA--ATTTATTTGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATG
1 TATGATTGATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTATTATTGTAGTTGTATG
16953 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
62 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAA
* ***
17003 TAATGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTATTTTA-AAATATGGA
1 T-ATGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-TTATTGTAGTTGTATGGA
17067 TTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
64 TTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
* * * ** * * * * *
17114 TA--ATTTATTTGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAATTGTATG
1 TATGATTGATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTATTATTGTAGTTGTATG
*
17177 GATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAA
62 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAA
17227 TATGAATTGATTTATTTTAAATAATTTATTA
1 TATG-ATTGATTTATTTTAAATAATTTATTA
17258 TTGTAGTTGT
Statistics
Matches: 659, Mismatches: 85, Indels: 102
0.78 0.10 0.12
Matches are distributed among these distances:
94 9 0.01
95 1 0.00
96 21 0.03
97 6 0.01
98 15 0.02
99 4 0.01
100 2 0.00
102 16 0.02
103 3 0.00
104 15 0.02
105 3 0.00
106 18 0.03
107 8 0.01
108 76 0.12
109 4 0.01
110 24 0.04
111 20 0.03
112 350 0.53
113 18 0.03
114 14 0.02
116 32 0.05
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (110 bp):
TATGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTATTGTAGTTGTATGGATT
GATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
Found at i:16503 original size:54 final size:54
Alignment explanation
Indices: 16351--17257 Score: 630
Period size: 54 Copynumber: 16.6 Consensus size: 54
16341 AATTTATTAG
* ***
16351 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAA
**
16409 TATAAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
** *
16463 TATGGATAAATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * * * * * * * * *
16517 TATGTAAAATAATTTATTAGTATGGATTGATTTATT--T-T-AAATAATTTA--TT--AG
1 TATG--GATTGATTTATT--T-T-AAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * * * ***
16569 TATGGATTGATTTATTTT-AA-AA--TA-T-GGATTGATTTA-TTATTGTAGTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAA
* *
16617 TATGAAATT-ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
1 TATG-GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
** *
16671 TATGGATAAATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
16725 TATGTATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * * ** * * * ***
16778 TA---ATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAA
16837 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * * ** * * * * ***
16890 TA---ATTTATTTGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAA
16949 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
17003 TAAT-GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTATTTTAAAA
1 T-ATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG----ATTTATTTTAAAA
17061 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * * ** * * * * **
17114 TA---ATTTATTTGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAATTG
1 TATGGATTGATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TAA-AA
*
17173 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
17227 TATGAATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTA
17258 TTGTAGTTGT
Statistics
Matches: 667, Mismatches: 117, Indels: 134
0.73 0.13 0.15
Matches are distributed among these distances:
41 1 0.00
42 2 0.00
43 4 0.01
44 4 0.01
45 2 0.00
47 1 0.00
48 15 0.02
49 5 0.01
50 59 0.09
52 13 0.02
53 15 0.02
54 275 0.41
55 20 0.03
56 30 0.04
57 10 0.01
58 141 0.21
59 7 0.01
60 15 0.02
62 48 0.07
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:16545 original size:42 final size:41
Alignment explanation
Indices: 16480--16674 Score: 152
Period size: 42 Copynumber: 5.0 Consensus size: 41
16470 AAATTTATTT
*
16480 TAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATG
1 TAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
16521 TAAAATAATTTATTAGTATGGATTGATTTA---T----T-T-
1 T-AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
16554 TAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
1 TAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
* * * * * *
16595 -GATTGATTTATTATTGTAGTTG-TATGAAATTA-TTT---AT-TT
1 TAAATAATTTATTA--GTA-TGGAT-TG-ATTTATTTTAAAATATG
*
16634 TAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATG
1 TAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
16675 GATAAATTTA
Statistics
Matches: 118, Mismatches: 14, Indels: 44
0.67 0.08 0.25
Matches are distributed among these distances:
32 28 0.24
33 1 0.01
34 1 0.01
35 2 0.02
36 4 0.03
37 6 0.05
38 4 0.03
39 3 0.03
40 25 0.21
41 2 0.02
42 31 0.26
43 7 0.06
44 4 0.03
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (41 bp):
TAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
Found at i:16674 original size:22 final size:22
Alignment explanation
Indices: 16649--16691 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
16639 AATTTATTAG
**
16649 TATGAATTGATTTATTTTAAAA
1 TATGAATAAATTTATTTTAAAA
*
16671 TATGGATAAATTTATTTTAAA
1 TATGAATAAATTTATTTTAAA
16692 TAATTTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (22 bp):
TATGAATAAATTTATTTTAAAA
Found at i:16761 original size:86 final size:80
Alignment explanation
Indices: 16671--17242 Score: 502
Period size: 80 Copynumber: 6.9 Consensus size: 80
16661 TATTTTAAAA
** * *
16671 TATGGATAAATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGTATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
16736 TTATTTTAAATAATTTA-TTAG
66 TTA--TT--AT--TGTAGTT-G
*
16757 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
16822 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
*
16837 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA--TGG
* * * ***
16902 ATGGATTGATTTATTTTA-AAA
60 ATTGATTTA-TTATTGTAGTTG
* *
16923 TATGAATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G
* * * * **
16981 TATGGATTGATTTATTTTAAAAT-
59 GATTGATTTA-TTATTGT-AGTTG
*
17004 AAT-GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTATTTTAAAATATGGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG----ATTTATTTTAAAATATGGAT
*
17068 TGATTTATTTTAAATAATTTA-TTAG
62 TGATTTA--TT--AT--TGTAGTT-G
* *
17093 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGAATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
17158 TTATTATTGTAATTG
66 TTATTATTGTAGTTG
* *
17173 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGAATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
17238 TTATT
66 TTATT
17243 TTAAATAATT
Statistics
Matches: 424, Mismatches: 30, Indels: 70
0.81 0.06 0.13
Matches are distributed among these distances:
79 2 0.00
80 185 0.44
81 11 0.03
82 11 0.03
84 18 0.04
85 6 0.01
86 126 0.30
87 10 0.02
88 3 0.01
89 7 0.02
90 45 0.11
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (80 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTG
Found at i:16877 original size:32 final size:32
Alignment explanation
Indices: 16836--17145 Score: 218
Period size: 32 Copynumber: 9.7 Consensus size: 32
16826 TATTGTAGTT
16836 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
16868 GTATGGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
**
16900 GTATGGATTGATTTATTTTAAA-ATATGAATT-
1 GTATGGATTGATTTATTTTAAATA-ATTTATTA
** * * *
16931 G-ATTTATT-ATTGTAGTTGTATGGATTGATTTATT-
1 GTATGGATTGATT-TA-TT-T-T-AAATAATTTATTA
* * * * * *
16965 -T-T-AAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATT--T-T-AAATAATTTA--TT--A
*
17002 ATAAT-GATTGATTTATTTTAAATAATTTATTA
1 GT-ATGGATTGATTTATTTTAAATAATTTATTA
*
17034 GTATGGATTGATTTA-TTT--AT--TTTA-AA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
17060 ATATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
17092 GTATGGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
17124 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
17146 ATATGAATTG
Statistics
Matches: 229, Mismatches: 24, Indels: 50
0.76 0.08 0.17
Matches are distributed among these distances:
26 15 0.07
27 7 0.03
29 7 0.03
30 7 0.03
31 15 0.07
32 143 0.62
33 5 0.02
34 10 0.04
36 7 0.03
37 1 0.00
38 2 0.01
40 10 0.04
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:17010 original size:22 final size:21
Alignment explanation
Indices: 16985--17085 Score: 81
Period size: 22 Copynumber: 5.0 Consensus size: 21
16975 TATTAGTATG
16985 GATTGATTTATTTTAAAATAAT
1 GATTGATTTATTTT-AAATAAT
17007 GATTGATTTATTTTAAATAAT
1 GATTGATTTATTTTAAATAAT
* * **
17028 --TT-A-TTAGTATGGAT--T
1 GATTGATTTATTTTAAATAAT
*
17043 GATTTATTTATTTTAAA-ATAT
1 GATTGATTTATTTTAAATA-AT
17064 GGATTGATTTATTTTAAATAAT
1 -GATTGATTTATTTTAAATAAT
17086 TTATTAGTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 18
0.69 0.10 0.20
Matches are distributed among these distances:
15 1 0.02
17 9 0.15
18 2 0.03
19 8 0.13
21 8 0.13
22 32 0.52
23 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (21 bp):
GATTGATTTATTTTAAATAAT
Found at i:17137 original size:18 final size:18
Alignment explanation
Indices: 17084--17141 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
17074 ATTTTAAATA
*
17084 ATTTATTAGTATGGATTG
1 ATTTATTTGTATGGATTG
* *
17102 ATTTATTT-TA---AATA
1 ATTTATTTGTATGGATTG
17116 ATTTATTTGTATGGATTG
1 ATTTATTTGTATGGATTG
17134 ATTTATTT
1 ATTTATTT
17142 TAAAATATGA
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
14 10 0.32
15 2 0.06
17 2 0.06
18 17 0.55
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (18 bp):
ATTTATTTGTATGGATTG
Found at i:17150 original size:22 final size:22
Alignment explanation
Indices: 17125--17193 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
17115 AATTTATTTG
17125 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
* **
17147 TATGAATTGATTTATTATTGTAATTG
1 TATGGATTGATTTA-T-TT-TAA-AA
17173 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
17194 TAATTTATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
22 13 0.34
23 4 0.11
24 4 0.11
25 4 0.11
26 13 0.34
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:17209 original size:144 final size:141
Alignment explanation
Indices: 16523--17225 Score: 443
Period size: 144 Copynumber: 5.0 Consensus size: 141
16513 AAAATATGTA
16523 AAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA
1 AAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA
* * *
16588 AAAT-ATGGATTGATTTA-TT-AT-TGTAGTT-GTAT-GA---AATTATTTATTTT-AAATAATT
66 AAATAAT-GATTGATTTATTTAATAT-TAATTAGTATGGATTGATTTATTTATTTTAAAAT-ATG
* * * * *
16643 TATTAGTATGAATTG
128 GATTAAT-TTATTTT
** * * * ** *
16658 ATTTATTTTA-AAATATGGATAAATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTA
1 AAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA
*
16722 AAAT-ATGTATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTAT
66 AAATAATG-ATTGATTTA-TTT-AAT-ATTAATTAGTATGGATTGATTTA-TTT--AT--TTTA-
*** *
16786 TTGTATGGATTGATTTA-TTT
121 AAATATGGATTAATTTATTTT
*
16806 ---TAA---A--A-TATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT
1 AAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT
* *
16855 AAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTG----ATTTAT
65 --A-AA---A-TA--AT-GATTGATTTA-TTT-AAT-ATTAATTAGTATGGATTGATTTATTTAT
* *
16916 TTTAAAATATGAATTGATTTA--TT
117 TTTAAAATATGGATTAATTTATTTT
*
16939 --AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
1 AAATAATTTA-TTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
*
16999 AAAATAATGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTATTTTAAAATAT
65 AAAATAATGATTGATTTA-TTT-AAT-ATTAATTAGTATGGATTGATTTATTTATTTTAAAATAT
*
17064 GGATTGATTTATTTT
127 GGATTAATTTATTTT
*
17079 AAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTA
1 AAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA
*
17144 AAAT-ATGAATTGATTTA-TT-AT-TGTAATT-GTATGGATTGATTTATTTTAAATAATTTATTA
66 AAATAATG-ATTGATTTATTTAATAT-TAATTAGTATGGATTGATTTA-TTT--AT--TTTA-AA
*
17204 GTATGGATTAATTTATTTT
123 ATATGGATTAATTTATTTT
17223 AAA
1 AAA
17226 ATATGAATTG
Statistics
Matches: 464, Mismatches: 39, Indels: 121
0.74 0.06 0.19
Matches are distributed among these distances:
133 3 0.01
134 135 0.29
135 16 0.03
136 5 0.01
137 6 0.01
138 61 0.13
139 13 0.03
140 25 0.05
141 8 0.02
142 8 0.02
143 11 0.02
144 151 0.33
145 6 0.01
147 2 0.00
148 2 0.00
149 5 0.01
150 6 0.01
151 1 0.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.53
Consensus pattern (141 bp):
AAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA
AAATAATGATTGATTTATTTAATATTAATTAGTATGGATTGATTTATTTATTTTAAAATATGGAT
TAATTTATTTT
Found at i:17230 original size:22 final size:22
Alignment explanation
Indices: 17205--17247 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
17195 AATTTATTAG
*
17205 TATGGATTAATTTATTTTAAAA
1 TATGAATTAATTTATTTTAAAA
*
17227 TATGAATTGATTTATTTTAAA
1 TATGAATTAATTTATTTTAAA
17248 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TATGAATTAATTTATTTTAAAA
Found at i:17306 original size:31 final size:31
Alignment explanation
Indices: 17271--17330 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
17261 TAGTTGTATG
* *
17271 AATTATTTAAATTTCAATATTGTAAAACTAA
1 AATTATTTAAATATCAATATTGCAAAACTAA
17302 AATTATTTAAATATCAATATTGCAAAACT
1 AATTATTTAAATATCAATATTGCAAAACT
17331 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATATCAATATTGCAAAACTAA
Found at i:24110 original size:3 final size:3
Alignment explanation
Indices: 24104--24135 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
24094 ACTGATTTGC
24104 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
24136 CAAATCTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:26046 original size:29 final size:29
Alignment explanation
Indices: 25990--26046 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
25980 AATTTTTTTA
*
25990 TTTATCAAAATAAGTATCTAAAATTATTT
1 TTTATCAAAATAAGTATCTAAAAGTATTT
* *
26019 TTTAGTCAAAATAGGTA-CTTAAAGTATT
1 TTTA-TCAAAATAAGTATCTAAAAGTATT
26047 CGAATTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (29 bp):
TTTATCAAAATAAGTATCTAAAAGTATTT
Found at i:26930 original size:29 final size:28
Alignment explanation
Indices: 26874--26930 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
26864 TAGGTTTTTG
* **
26874 TTTTCTTTAATAGTTAAAGACCTGAGTT
1 TTTTCTTTAATAGTGAAAGACCAAAGTT
*
26902 TTTTTTTTAAATAGTGAAAGACCAAAGTT
1 TTTTCTTT-AATAGTGAAAGACCAAAGTT
26931 ATAAACTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (28 bp):
TTTTCTTTAATAGTGAAAGACCAAAGTT
Found at i:37660 original size:19 final size:21
Alignment explanation
Indices: 37621--37665 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
37611 CTTTAATATT
*
37621 TATAAATATTAAAATTAATAA
1 TATAAATATAAAAATTAATAA
37642 TATAAATA-AAAAATT-ATAA
1 TATAAATATAAAAATTAATAA
*
37661 CATAA
1 TATAA
37666 CATTATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 6 0.27
21 8 0.36
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
TATAAATATAAAAATTAATAA
Found at i:38039 original size:30 final size:30
Alignment explanation
Indices: 38005--38062 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
37995 TCAAATTTTA
* *
38005 AGGGTTAAAGTGATATTTCACCTAAAATTT
1 AGGGTCAAAGTAATATTTCACCTAAAATTT
* * *
38035 AGGGTCAAATTAATATTTTATCTAAAAT
1 AGGGTCAAAGTAATATTTCACCTAAAAT
38063 ATAAGTGCCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (30 bp):
AGGGTCAAAGTAATATTTCACCTAAAATTT
Found at i:39911 original size:27 final size:25
Alignment explanation
Indices: 39847--39903 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
39837 AAATAAATAG
*
39847 AATAAAGAAAATAAAAAAACGACTGA
1 AATAAAG-GAATAAAAAAACGACTGA
*
39873 AATAAAGGAATAAAAAAA-GAGTGA
1 AATAAAGGAATAAAAAAACGACTGA
39897 AGATAAA
1 A-ATAAA
39904 AATGAATACG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 6 0.21
25 15 0.54
26 7 0.25
ACGTcount: A:0.68, C:0.04, G:0.16, T:0.12
Consensus pattern (25 bp):
AATAAAGGAATAAAAAAACGACTGA
Found at i:40261 original size:2 final size:2
Alignment explanation
Indices: 40256--40301 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
40246 GGAAAAAATG
40256 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
40298 TA TA
1 TA TA
40302 ATACGTATAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:40342 original size:22 final size:22
Alignment explanation
Indices: 40315--40385 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
40305 CGTATAGATA
40315 AATAATAGAGAGAAAAAAATAT
1 AATAATAGAGAGAAAAAAATAT
* * *
40337 AATAATGGTAGGGAAATAAA-AT
1 AATAATAG-AGAGAAAAAAATAT
*
40359 AA-AATA-AGA-TAAAAAATAT
1 AATAATAGAGAGAAAAAAATAT
40378 AATGAATA
1 AAT-AATA
40386 TGCATATAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
18 5 0.13
19 6 0.16
21 7 0.18
22 11 0.29
23 9 0.24
ACGTcount: A:0.65, C:0.00, G:0.14, T:0.21
Consensus pattern (22 bp):
AATAATAGAGAGAAAAAAATAT
Found at i:40885 original size:37 final size:37
Alignment explanation
Indices: 40835--40942 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
40825 TTATGGATCC
*
40835 TATTTTTAGGAGTTTGAATCTTAGTAAAACTCTATCA
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
* *
40872 TATTTTTAGGAGTTTGAATCATAATAAAACTCTATCT
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
*
40909 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTA
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTA
40943 ACGTTATGTT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (37 bp):
TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
Found at i:41684 original size:84 final size:84
Alignment explanation
Indices: 41596--42534 Score: 1122
Period size: 84 Copynumber: 11.3 Consensus size: 84
41586 GTTTGCCTCT
* * * *
41596 GAGCTGAGTGTAATCGAACTCGAAGGTCTTCGGTTGGCAGATAACCCTTCTCGACTTAATTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
41661 CTGCAAATGATGTGCCTTG
66 CTGCAAATGATGTGCCTTG
* * *
41680 GAGCTGAGCGTAGTCGAACTCGAAGGT-ATT--TTGGCAGATAGA-CCTTTTCGACTTAAGCTAT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATA-ACCCTTCTCGACTTAAGTTAT
* *
41741 GCTGCAAATGATGTGACTTA
65 GCTGCAAATGATGTGCCTTG
41761 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
* *
41826 CTGTAAATGATATGCCTTG
66 CTGCAAATGATGTGCCTTG
* ** * *
41845 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG-TGACATTTAACCCTTTCTAGCCTTAAGTTA
1 GAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCC-TTCTCGACTTAAGTTA
* *
41909 TGCTGTAAATGATGTGCCCTCG
64 TGCTGCAAATGATGTG-CCTTG
* * * * * *
41931 AAGCTGAGTGTAATCGAACTCGATGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
*
41992 CTGCAAATGATGTGTCTTG
66 CTGCAAATGATGTGCCTTG
* * *
42011 AAGCTGAGCTTAGTTGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
* * *
42076 TTGTAAATGATATGCCTTG
66 CTGCAAATGATGTGCCTTG
* * * * * *
42095 GAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGG-TGACATATAACCCTTTCTAGCCTTGAGTTA
1 GAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCC-TTCTCGACTTAAGTTA
* * *
42159 TGTTGTAAATGATGTGCCCTCG
64 TGCTGCAAATGATGTG-CCTTG
* * * * * * *
42181 AAGTTGAGTGTAATCGAACTCGATGGTC--T--TTGGCAG-TAGCCCTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
*
42241 CTGCAAATGATGTGTCTTG
66 CTGCAAATGATGTGCCTTG
* * *
42260 GAGCTGAGCGTAGTTGAACTCAAAGGACTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
* * *
42325 CTACAAATGATATGCCTTA
66 CTGCAAATGATGTGCCTTG
* *
42344 GAGCTGAGCGTAGTCGAACTCGAAGGTC-TT--TTGGCAGATAACCCTTCTCAACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
*
42406 CTGCAAATGATGTGTCTTG
66 CTGCAAATGATGTGCCTTG
* * *
42425 GAGATGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTCATA
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
* * *
42490 TTGCAAATGATATGCCTTA
66 CTGCAAATGATGTGCCTTG
42509 GAGCTGAGCGTAGTCGAACTCGAAGG
1 GAGCTGAGCGTAGTCGAACTCGAAGG
42535 ACTTGGCTCA
Statistics
Matches: 722, Mismatches: 108, Indels: 50
0.82 0.12 0.06
Matches are distributed among these distances:
79 23 0.03
80 52 0.07
81 177 0.25
82 19 0.03
83 13 0.02
84 317 0.44
85 67 0.09
86 54 0.07
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (84 bp):
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
CTGCAAATGATGTGCCTTG
Found at i:41868 original size:165 final size:165
Alignment explanation
Indices: 41596--42534 Score: 1165
Period size: 165 Copynumber: 5.7 Consensus size: 165
41586 GTTTGCCTCT
* * * *
41596 GAGCTGAGTGTAATCGAACTCGAAGGTCTTCGGTTGGCAGATAACCCTTCTCGACTTAATTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
* *
41661 CTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTATTTTGGCAGATAGA-CCT
66 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGCAGATA-ACCCT
* * *
41725 TTTCGACTTAAGCTATGCTGCAAATGATGTGACTTA
130 TCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTG
41761 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
* **
41826 CTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACATTTAACC
66 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTT-G-G-CAGATAACC
* * * * *
41891 CTTTCTAGCCTTAAGTTATGCTGTAAATGATGTGCCCTCG
128 C-TTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTG
* * * * * *
41931 AAGCTGAGTGTAATCGAACTCGATGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
* * * * *
41992 CTGCAAATGATGTGTCTTGAAGCTGAGCTTAGTTGAACTCGAAGGTCTTTGGTTGGCAGATAACC
66 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TT--TTGGCAGATAACC
* * * *
42057 CTTCTCGACTTAAGTTATGTTGTAAATGATATGCCTTG
128 CTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTG
* * * * * *
42095 GAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGG-TGACATATAACCCTTTCTAGCCTTGAGTTA
1 GAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCC-TTCTCGACTTAAGTTA
* * * * * * * * * *
42159 TGTTGTAAATGATGTGCCCTCGAAGTTGAGTGTAATCGAACTCGATGGTC-TTTGGCAG-TAGCC
64 TGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGCAGATAACC
*
42222 CTTCTCGACTTAAGCTATGCTGCAAATGATGTGTCTTG
128 CTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTG
* * *
42260 GAGCTGAGCGTAGTTGAACTCAAAGGACTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
* *
42325 CTACAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGCAGATAACCCTT
66 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGCAGATAACCCTT
* *
42390 CTCAACTTAAGCTATGCTGCAAATGATGTGTCTTG
131 CTCGACTTAAGCTATGCTGCAAATGATGTGCCTTG
* * *
42425 GAGATGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTCATA
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
* *
42490 TTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGG
66 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGG
42535 ACTTGGCTCA
Statistics
Matches: 661, Mismatches: 94, Indels: 38
0.83 0.12 0.05
Matches are distributed among these distances:
163 26 0.04
164 65 0.10
165 352 0.53
166 87 0.13
167 6 0.01
168 19 0.03
169 55 0.08
170 51 0.08
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (165 bp):
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGCAGATAACCCTT
CTCGACTTAAGCTATGCTGCAAATGATGTGCCTTG
Found at i:41984 original size:250 final size:248
Alignment explanation
Indices: 41596--42534 Score: 1266
Period size: 250 Copynumber: 3.8 Consensus size: 248
41586 GTTTGCCTCT
* * * * * *
41596 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTCGGTTGGCAGATAACCCTTCTCGACTTAATTTAT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG-TGACAGATAACCCTTCTAGACTTAAGTTAT
* * * * *
41660 GCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTATTTTGGCAGATAGACCT
65 GCTGCAAATGATGTGCCTCGAAGCTGAGCGTAATCGAACTCGAAGGT-CTTTGGCAGATAGCCCT
* *
41725 TTTCGACTTAAGCTATGCTGCAAATGATGTGACTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCT
129 TCTCGACTTAAGCTATGCTGCAAATGATGTGTCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCT
41790 TTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCTTG
194 TTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCTTG
** *
41845 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACATTTAACCCTTTCTAGCCTTAAGTTAT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCC-TTCTAGACTTAAGTTAT
* * *
41910 GCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGATGGTCTTTGGCAGATAGCCCT
65 GCTGCAAATGATGTG-CCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCT
* *
41975 TCTCGACTTAAGCTATGCTGCAAATGATGTGTCTT-GAAGCTGAGCTTAGTTGAACTCGAAGGTC
129 TCTCGACTTAAGCTATGCTGCAAATGATGTGTCTTAG-AGCTGAGCGTAGTCGAACTCGAAGGTC
*
42039 TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGTTGTAAATGATATGCCTTG
193 TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCTTG
* * * *
42095 GAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGGTGACATATAACCCTTTCTAGCCTTGAGTTAT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCC-TTCTAGACTTAAGTTAT
* * * * *
42160 GTTGTAAATGATGTGCCCTCGAAGTTGAGTGTAATCGAACTCGATGGTCTTTGGCAG-TAGCCCT
65 GCTGCAAATGATGTG-CCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCT
* * * *
42224 TCTCGACTTAAGCTATGCTGCAAATGATGTGTCTTGGAGCTGAGCGTAGTTGAACTCAAAGGACT
129 TCTCGACTTAAGCTATGCTGCAAATGATGTGTCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCT
** *
42289 TTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATATGCCTTA
194 TTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCTTG
*
42344 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTT-G-G-CAGATAACCCTTCTCA-ACTTAAGCTAT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCT-AGACTTAAGTTAT
* * * * * *
42405 GCTGCAAATGATGTGTCTTGGAGATGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAAC
65 GCTGCAAATGATGTGCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTC--T--TTGGCAGATAGC
* *
42470 CCTTCTCGACTTAAGTCATAT--TGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAA
126 CCTTCTCGACTTAAG-C-TATGCTGCAAATGATGTGTCTTAGAGCTGAGCGTAGTCGAACTCGAA
42533 GG
189 GG
42535 ACTTGGCTCA
Statistics
Matches: 623, Mismatches: 54, Indels: 26
0.89 0.08 0.04
Matches are distributed among these distances:
244 26 0.04
245 25 0.04
246 11 0.02
247 1 0.00
248 8 0.01
249 243 0.39
250 279 0.45
251 30 0.05
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (248 bp):
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATG
CTGCAAATGATGTGCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTC
TCGACTTAAGCTATGCTGCAAATGATGTGTCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT
GGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCTTG
Found at i:43921 original size:95 final size:94
Alignment explanation
Indices: 43749--43944 Score: 243
Period size: 95 Copynumber: 2.1 Consensus size: 94
43739 GGGACAACCA
* * * * ** * *
43749 ATATGTAAACACCTTTATCATGTTAGCTGAATCTTATCCATAAAGTTGTGGCATTTAACCAGTTG
1 ATATATAATCACCTTTATCATGCTAGCTGAATATTATCCATAAAGACGGGGCATTTAACCAATTG
* *
43814 TCTTTGAGGGACAACTCAATCTTTATTGT
66 TCTTAGAGGGACAACTCAAGCTTTATTGT
* *
43843 ATAGTATAATCACCTTTATTATGCTAGGTGAATATTATCCATAAAGACGGGGCGA-TTAACCAAT
1 ATA-TATAATCACCTTTATCATGCTAGCTGAATATTATCCATAAAGACGGGGC-ATTTAACCAAT
43907 TG-CTCTAGAGGGACAACTCAAGCTTTATTGT
64 TGTCT-TAGAGGGACAACTCAAGCTTTATTGT
43938 ATATATA
1 ATATATA
43945 TAATATTATA
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
94 9 0.10
95 77 0.89
96 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (94 bp):
ATATATAATCACCTTTATCATGCTAGCTGAATATTATCCATAAAGACGGGGCATTTAACCAATTG
TCTTAGAGGGACAACTCAAGCTTTATTGT
Found at i:47597 original size:18 final size:18
Alignment explanation
Indices: 47574--47637 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 18
47564 GAGTGAAGAT
47574 AAAAATGAATACGATAAG
1 AAAAATGAATACGATAAG
* *
47592 AAAAATAAAATGAAGAGTGAAG
1 AAAAAT-GAAT-ACGA-T-AAG
47614 ATAAAAATGAATACGATAAG
1 --AAAAATGAATACGATAAG
47634 AAAA
1 AAAA
47638 TACAAATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
18 10 0.28
19 3 0.08
20 6 0.17
21 2 0.06
22 6 0.17
23 3 0.08
24 6 0.17
ACGTcount: A:0.64, C:0.03, G:0.17, T:0.16
Consensus pattern (18 bp):
AAAAATGAATACGATAAG
Found at i:47617 original size:42 final size:40
Alignment explanation
Indices: 47555--47637 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 40
47545 GAAATAAAGG
47555 AATAAAAAAGAGTGAAGATAAAAATGAATACGATAAGAAA
1 AATAAAAAAGAGTGAAGATAAAAATGAATACGATAAGAAA
47595 AATAAAATGAAGAGTGAAGATAAAAATGAATACGATAAGAAA
1 AATAAAA--AAGAGTGAAGATAAAAATGAATACGATAAGAAA
47637 A
1 A
47638 TACAAATAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
40 7 0.17
42 34 0.83
ACGTcount: A:0.64, C:0.02, G:0.18, T:0.16
Consensus pattern (40 bp):
AATAAAAAAGAGTGAAGATAAAAATGAATACGATAAGAAA
Found at i:47622 original size:19 final size:19
Alignment explanation
Indices: 47562--47624 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 19
47552 AGGAATAAAA
47562 AAGAGTGAAGATAAAAATG
1 AAGAGTGAAGATAAAAATG
* *
47581 AATACGAT-AAGAAAAATAAAATG
1 AAGA-G-TGAAG--ATA-AAAATG
47604 AAGAGTGAAGATAAAAATG
1 AAGAGTGAAGATAAAAATG
47623 AA
1 AA
47625 TACGATAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
19 11 0.32
20 6 0.18
21 2 0.06
22 6 0.18
23 9 0.26
ACGTcount: A:0.62, C:0.02, G:0.21, T:0.16
Consensus pattern (19 bp):
AAGAGTGAAGATAAAAATG
Found at i:47750 original size:3 final size:3
Alignment explanation
Indices: 47742--47783 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
47732 AATAAAATAG
* *
47742 AAT AAT AAT AAT TAT AAT AAT AAT ACT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
47784 GTAAGTAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:48542 original size:37 final size:37
Alignment explanation
Indices: 48492--48603 Score: 172
Period size: 37 Copynumber: 3.0 Consensus size: 37
48482 ATGCTTATGG
*
48492 ATCTTATTTTTAGGTGTTTGAATCTTAGTAAAACTCT
1 ATCTTATTTTTAGGAGTTTGAATCTTAGTAAAACTCT
*
48529 ATCTTATTTTTAGGAGTTTAAAT-TATAGTAAAACTCT
1 ATCTTATTTTTAGGAGTTTGAATCT-TAGTAAAACTCT
* *
48566 ATCATATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
1 ATCTTATTTTTAGGAGTTTGAATCTTAGTAAAACTCT
48603 A
1 A
48604 ACATTATGTT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
36 1 0.01
37 67 0.99
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (37 bp):
ATCTTATTTTTAGGAGTTTGAATCTTAGTAAAACTCT
Found at i:49041 original size:60 final size:60
Alignment explanation
Indices: 48974--49086 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 60
48964 AACGATCCTT
** * *
48974 GACTATAAGGTATTATTTTGTTGAGT-CTTTCAACTATTGAAAGTTATAAAATGAGCATTC
1 GACTATAAGACATTATTTTGTTGAGTCCATT-AACTATTAAAAGTTATAAAATGAGCATTC
* *
49034 GACTATAAGACATTGTTTTGTTGAGTCCATTGACTATTAAAAGTTATAAAATG
1 GACTATAAGACATTATTTTGTTGAGTCCATTAACTATTAAAAGTTATAAAATG
49087 GTCATCCAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
60 43 0.93
61 3 0.07
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.39
Consensus pattern (60 bp):
GACTATAAGACATTATTTTGTTGAGTCCATTAACTATTAAAAGTTATAAAATGAGCATTC
Found at i:49099 original size:60 final size:60
Alignment explanation
Indices: 48975--49099 Score: 146
Period size: 60 Copynumber: 2.1 Consensus size: 60
48965 ACGATCCTTG
** * * * *
48975 ACTATAAGGTATTATTTTGTTGAGTCTTTCAACTATTGAAAGTTATAAAATGAGCATTCG
1 ACTATAAGACATTATTTTGTTGAGTCATTCAACTATTAAAAGTTATAAAATGAGCATCCA
* *
49035 ACTATAAGACATTGTTTTGTTGAGTCCATT-GACTATTAAAAGTTATAAAATG-GTCATCCA
1 ACTATAAGACATTATTTTGTTGAGT-CATTCAACTATTAAAAGTTATAAAATGAG-CATCCA
49095 ACTAT
1 ACTAT
49100 TCATATGTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
59 1 0.02
60 51 0.93
61 3 0.05
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.38
Consensus pattern (60 bp):
ACTATAAGACATTATTTTGTTGAGTCATTCAACTATTAAAAGTTATAAAATGAGCATCCA
Found at i:58306 original size:2 final size:2
Alignment explanation
Indices: 58301--58330 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
58291 CTCTCTCTAC
58301 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
58331 CCTTCTCTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:59362 original size:2 final size:2
Alignment explanation
Indices: 59357--59381 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
59347 TATATATTCG
59357 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 T
59382 TATTTTGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:59890 original size:79 final size:79
Alignment explanation
Indices: 59758--59917 Score: 214
Period size: 79 Copynumber: 2.0 Consensus size: 79
59748 TAATATATTT
* * * * * *
59758 TTTAATATTTTCGATAAAGCGTTACTTAAAATATTATTTTTTCTGCCTTAAATGTTAATATTGGG
1 TTTAATATTTTCGATAAAACGCTACTTAAAACATTATTTTTTCTACCTGAAATGTTAATATTAGG
59823 CGCTACCTAAAATG
66 CGCTACCTAAAATG
* * *
59837 TTTAATATTTTCGGTAAAACGCTA-TCTAAAACATTATTTTTTCTATCTGAAATGTTAATATTAT
1 TTTAATATTTTCGATAAAACGCTACT-TAAAACATTATTTTTTCTACCTGAAATGTTAATATTAG
*
59901 TCGCTACCTAAAATG
65 GCGCTACCTAAAATG
59916 TT
1 TT
59918 ATTTTTTACC
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
78 1 0.01
79 69 0.99
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.44
Consensus pattern (79 bp):
TTTAATATTTTCGATAAAACGCTACTTAAAACATTATTTTTTCTACCTGAAATGTTAATATTAGG
CGCTACCTAAAATG
Found at i:66086 original size:23 final size:22
Alignment explanation
Indices: 66051--66093 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
66041 TAAATCTTTC
66051 GATTATTACATAAATAGTTAAAT
1 GATTATTACATAAATA-TTAAAT
**
66074 GATTATTTTATAAATATTAA
1 GATTATTACATAAATATTAA
66094 CAATTAGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (22 bp):
GATTATTACATAAATATTAAAT
Found at i:67271 original size:33 final size:35
Alignment explanation
Indices: 67233--67318 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
67223 AGGTTTACAT
* *
67233 AGTAAACTATTTCA-TGGTTA-TGTA-TTGTTATTA
1 AGTAAACTATTTCACT-GTAAGTGTATTTATTATTA
* *
67266 AGTAAACTATTTTACTGTAAGTTTATTTATTATTA
1 AGTAAACTATTTCACTGTAAGTGTATTTATTATTA
67301 AGTAAACTATTTCACTGT
1 AGTAAACTATTTCACTGT
67319 CAGTTTGGGG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
33 16 0.36
34 4 0.09
35 25 0.56
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.48
Consensus pattern (35 bp):
AGTAAACTATTTCACTGTAAGTGTATTTATTATTA
Found at i:68722 original size:37 final size:36
Alignment explanation
Indices: 68658--68748 Score: 119
Period size: 37 Copynumber: 2.5 Consensus size: 36
68648 AATCACTTCG
* * **
68658 ATTCAAACTGTTTTTTATTATTATCAATATTCATTA
1 ATTCAAACTATTTTTTATCATTATCAATATTCACCA
68694 ATTCAAACTATTTTCTTATCATTATCAATATTCACCA
1 ATTCAAACTATTTT-TTATCATTATCAATATTCACCA
* *
68731 ATTCAACCTGTTTTTTAT
1 ATTCAAACTATTTTTTAT
68749 TGAAGAAGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
36 17 0.35
37 31 0.65
ACGTcount: A:0.32, C:0.16, G:0.02, T:0.49
Consensus pattern (36 bp):
ATTCAAACTATTTTTTATCATTATCAATATTCACCA
Found at i:75096 original size:35 final size:34
Alignment explanation
Indices: 75011--75097 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 34
75001 ATTTGGTATT
*
75011 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
75045 TAAATGATAACCAAATTACAATAACTGATATTAAAT-G
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
*
75082 TTAATA-AACAAAATTA
1 TAAATACAACAAAATTA
75098 ATTGAAATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.55
36 1 0.02
37 7 0.16
38 7 0.16
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:75863 original size:20 final size:20
Alignment explanation
Indices: 75840--75909 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
75830 GTTTCCAGAT
75840 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
**
75860 TCGCAACGCGATAAT-ACATAA
1 TCGCAACGCGATTCTGAC-T-A
* *
75881 TCGCAACTCGATTCTGACTG
1 TCGCAACGCGATTCTGACTA
75901 TCGCAACGC
1 TCGCAACGC
75910 TGAATTTCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
19 2 0.05
20 22 0.55
21 14 0.35
22 2 0.05
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.23
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTA
Found at i:76972 original size:13 final size:13
Alignment explanation
Indices: 76954--76978 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76944 TATAACCCTG
76954 AAGAAGAAGAAAA
1 AAGAAGAAGAAAA
76967 AAGAAGAAGAAA
1 AAGAAGAAGAAA
76979 TCCCCGAAGA
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:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AAGAAGAAGAAAA
Found at i:77927 original size:21 final size:21
Alignment explanation
Indices: 77903--77970 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
77893 GAAAACCGCA
77903 TTGCGATTTTGTATTATCGCG
1 TTGCGATTTTGTATTATCGCG
* **
77924 TTGCGA--TAGTCAGAATCGCG
1 TTGCGATTTTGT-ATTATCGCG
*
77944 TTGCGATTATGTATTATCGCG
1 TTGCGATTTTGTATTATCGCG
77965 TTGCGA
1 TTGCGA
77971 ATCTAGAAAC
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
19 3 0.08
20 13 0.35
21 19 0.51
22 2 0.05
ACGTcount: A:0.19, C:0.16, G:0.26, T:0.38
Consensus pattern (21 bp):
TTGCGATTTTGTATTATCGCG
Found at i:77989 original size:41 final size:41
Alignment explanation
Indices: 77903--77991 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 41
77893 GAAAACCGCA
* * *
77903 TTGCGATTTTGTATTATCGCGTTGCGATAGTCAGAATCGCG
1 TTGCGATTATGTATTATCGCGTTGCGATAGTCAGAAACGAG
*
77944 TTGCGATTATGTATTATCGCGTTGCGA-A-TCTAGAAACTGAT
1 TTGCGATTATGTATTATCGCGTTGCGATAGTC-AGAAAC-GAG
77985 TTGCGAT
1 TTGCGAT
77992 ACTGGAGATC
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
39 2 0.05
40 6 0.14
41 34 0.81
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.37
Consensus pattern (41 bp):
TTGCGATTATGTATTATCGCGTTGCGATAGTCAGAAACGAG
Found at i:78020 original size:19 final size:19
Alignment explanation
Indices: 77996--78032 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
77986 TGCGATACTG
*
77996 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
*
78015 GAGATCGTATTGCGATTT
1 GAGATCGCATTGCGATTT
78033 TGTTTATCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.35
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:83688 original size:41 final size:41
Alignment explanation
Indices: 83631--83712 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
83621 CACTTCCATT
83631 TTGCTGGTAAAAGATGGAATGGTTAATGCATGCATGAAGAA
1 TTGCTGGTAAAAGATGGAATGGTTAATGCATGCATGAAGAA
83672 TTGCTGGTAAAAGATGGAATGGTTAATGCATGCATGAAGAA
1 TTGCTGGTAAAAGATGGAATGGTTAATGCATGCATGAAGAA
83713 ATGTTGTAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.07, G:0.29, T:0.27
Consensus pattern (41 bp):
TTGCTGGTAAAAGATGGAATGGTTAATGCATGCATGAAGAA
Found at i:83752 original size:14 final size:15
Alignment explanation
Indices: 83735--83767 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
83725 TATTTTGTCT
83735 TTAAG-ATTTAGAAA
1 TTAAGAATTTAGAAA
*
83749 TTAAGAATTTAGAAT
1 TTAAGAATTTAGAAA
83764 TTAA
1 TTAA
83768 TGTCTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (15 bp):
TTAAGAATTTAGAAA
Found at i:85531 original size:30 final size:30
Alignment explanation
Indices: 85497--85560 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
85487 ATTAATAGAT
*
85497 AAATAAATTATATATACATAATTAATTAAA
1 AAATAAATTATATATAAATAATTAATTAAA
85527 AAATAAATTATATATAAATAATTAATTAAA
1 AAATAAATTATATATAAATAATTAATTAAA
85557 AAAT
1 AAAT
85561 GGGTTGTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (30 bp):
AAATAAATTATATATAAATAATTAATTAAA
Found at i:86386 original size:48 final size:48
Alignment explanation
Indices: 86332--86444 Score: 199
Period size: 48 Copynumber: 2.4 Consensus size: 48
86322 TAATTTAACG
86332 TAATACAGAAATATTTGAAATTAAATCTATTATTATATCAAACTAGCA
1 TAATACAGAAATATTTGAAATTAAATCTATTATTATATCAAACTAGCA
* *
86380 TAATACAGAAATATTTGAAATTAAATTTATTATTATATCAAATTAGCA
1 TAATACAGAAATATTTGAAATTAAATCTATTATTATATCAAACTAGCA
*
86428 TAATACATAAATATTTG
1 TAATACAGAAATATTTG
86445 GGGCTAAAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 62 1.00
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (48 bp):
TAATACAGAAATATTTGAAATTAAATCTATTATTATATCAAACTAGCA
Found at i:95232 original size:15 final size:16
Alignment explanation
Indices: 95204--95235 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
95194 AAAATCTTTC
95204 TTTCCCGTTCTGGATT
1 TTTCCCGTTCTGGATT
95220 TTTCCCG-TCTGGATT
1 TTTCCCGTTCTGGATT
95235 T
1 T
95236 GGATCTGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.06, C:0.25, G:0.19, T:0.50
Consensus pattern (16 bp):
TTTCCCGTTCTGGATT
Found at i:96008 original size:16 final size:16
Alignment explanation
Indices: 95984--96017 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
95974 TATCGCCGAC
*
95984 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
96000 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
96016 CG
1 CG
96018 TGAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:99496 original size:21 final size:21
Alignment explanation
Indices: 99472--99514 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
99462 TATTACCTTA
99472 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
99493 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
99514 A
1 A
99515 GGGTTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Found at i:99532 original size:35 final size:35
Alignment explanation
Indices: 99483--99568 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
99473 ATTGAAGTAT
** * *
99483 TTTAGAATTTAATTGAAGTATTTTAGAATTTAGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
* * *
99518 TTTAGAATAAAATTGAATTACTTTGGAAATTGGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
*
99553 TTTAGAATGAAATTGA
1 TTTAGAATAAAATTGA
99569 TGACTGTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
Found at i:99751 original size:29 final size:29
Alignment explanation
Indices: 99699--99756 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
99689 GCAAACGGAA
* *
99699 TAAATGTTGGGGGACTGTATTGCAAGTTT
1 TAAATGTTGGGGGACTGAAATGCAAGTTT
99728 TAAATGTTGGGGGACCT-AAATGCAAGTTT
1 TAAATGTTGGGGGA-CTGAAATGCAAGTTT
99757 CAGAAATGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.28, C:0.09, G:0.29, T:0.34
Consensus pattern (29 bp):
TAAATGTTGGGGGACTGAAATGCAAGTTT
Found at i:100186 original size:27 final size:27
Alignment explanation
Indices: 100156--100218 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
100146 ATTAGGTACC
100156 TGAAATTGGTATCTTAAGTTGACTTCG
1 TGAAATTGGTATCTTAAGTTGACTTCG
100183 TGAAATTGGTATCTTAAGTTGACTTCG
1 TGAAATTGGTATCTTAAGTTGACTTCG
100210 TGAAATTGG
1 TGAAATTGG
100219 CACCTAATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.40
Consensus pattern (27 bp):
TGAAATTGGTATCTTAAGTTGACTTCG
Found at i:105245 original size:13 final size:12
Alignment explanation
Indices: 105209--105259 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
105199 AATTACGATG
105209 TATTAAAATGAAA
1 TATTAAAAT-AAA
**
105222 TAAAAAAATAAA
1 TATTAAAATAAA
105234 TATT-AAATATAA
1 TATTAAAATA-AA
*
105246 TTTTAAAATAAA
1 TATTAAAATAAA
105258 TA
1 TA
105260 AAAGTTTATG
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
11 5 0.17
12 13 0.43
13 12 0.40
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (12 bp):
TATTAAAATAAA
Found at i:105299 original size:24 final size:23
Alignment explanation
Indices: 105226--105299 Score: 55
Period size: 24 Copynumber: 3.1 Consensus size: 23
105216 ATGAAATAAA
105226 AAAATAAATATTAAA-TATAAT-TTT
1 AAAATAAATA--AAAGT-TAATGTTT
*
105250 AAAATAAATAAAAGTTTATGTATT
1 AAAATAAATAAAAGTTAATGT-TT
*
105274 AAAATAAAATAGAA-TTAATAGTTT
1 AAAAT-AAATAAAAGTTAAT-GTTT
105298 AA
1 AA
105300 GTACTAAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
22 6 0.14
23 2 0.05
24 25 0.60
25 9 0.21
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.36
Consensus pattern (23 bp):
AAAATAAATAAAAGTTAATGTTT
Found at i:106669 original size:20 final size:21
Alignment explanation
Indices: 106625--106676 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
106615 TTGTTTAAGG
* * *
106625 TTAAGGGGTTAGGGTTAACAG
1 TTAAGGGTTTAGGGTGAACAC
106646 TTAAGGGTTTAGGGTGAA-AC
1 TTAAGGGTTTAGGGTGAACAC
*
106666 TTAAGGATTTA
1 TTAAGGGTTTA
106677 ATACCAATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.31, C:0.04, G:0.33, T:0.33
Consensus pattern (21 bp):
TTAAGGGTTTAGGGTGAACAC
Found at i:113584 original size:2 final size:2
Alignment explanation
Indices: 113577--113629 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
113567 TAATGTGTTC
113577 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
113619 AT AT AT AT AT A
1 AT AT AT AT AT A
113630 CTAAAGTCGG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:113922 original size:2 final size:2
Alignment explanation
Indices: 113915--113942 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
113905 ATAGAAAAAT
113915 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
113943 AATAGAGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:114564 original size:2 final size:2
Alignment explanation
Indices: 114557--114590 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
114547 GGAAATTTAG
114557 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
114591 AGATAGGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:114744 original size:2 final size:2
Alignment explanation
Indices: 114737--114765 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
114727 GAATCATAAC
114737 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
114766 GTATGAAAAA
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:115205 original size:218 final size:218
Alignment explanation
Indices: 114827--115264 Score: 867
Period size: 218 Copynumber: 2.0 Consensus size: 218
114817 TATATTCATC
114827 TTAAAAAATTGGAACACACTCGCTCAATTTTTTTGAGAAATAAGTTTATCTAAAATAAAAATATT
1 TTAAAAAATTGGAACACACTCGCTCAATTTTTTTGAGAAATAAGTTTATCTAAAATAAAAATATT
114892 TTTAATTAGTAATAATAGAATACCTAAAAATCTATGTAAACCATATTTTATTTATTAGTAAAAGG
66 TTTAATTAGTAATAATAGAATACCTAAAAATCTATGTAAACCATATTTTATTTATTAGTAAAAGG
114957 AAATTAATTTATTTTAAAAAGTTTATCAAAAATAATATGACGTGGAATTTTCTTAATTTAAAAAT
131 AAATTAATTTATTTTAAAAAGTTTATCAAAAATAATATGACGTGGAATTTTCTTAATTTAAAAAT
115022 TAAAATTAATTGAAAAATGAGTG
196 TAAAATTAATTGAAAAATGAGTG
115045 TTAAAAAATTGGAACACACTCGCTCAATTTTTTTGAGAAATAAGTTTATCTAAAATAAAAATATT
1 TTAAAAAATTGGAACACACTCGCTCAATTTTTTTGAGAAATAAGTTTATCTAAAATAAAAATATT
115110 TTTAATTAGTAATAATAGAATACCTAAAAATCTATGTAAACCATATTTTATTTATTAGTAAAAGG
66 TTTAATTAGTAATAATAGAATACCTAAAAATCTATGTAAACCATATTTTATTTATTAGTAAAAGG
*
115175 AAATTAATTTATTTTAAAAAGTTTATCAAAAATAATATGACGTGGACTTTTCTTAATTTAAAAAT
131 AAATTAATTTATTTTAAAAAGTTTATCAAAAATAATATGACGTGGAATTTTCTTAATTTAAAAAT
115240 TAAAATTAATTGAAAAATGAGTG
196 TAAAATTAATTGAAAAATGAGTG
115263 TT
1 TT
115265 CAAACTATAC
Statistics
Matches: 219, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
218 219 1.00
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (218 bp):
TTAAAAAATTGGAACACACTCGCTCAATTTTTTTGAGAAATAAGTTTATCTAAAATAAAAATATT
TTTAATTAGTAATAATAGAATACCTAAAAATCTATGTAAACCATATTTTATTTATTAGTAAAAGG
AAATTAATTTATTTTAAAAAGTTTATCAAAAATAATATGACGTGGAATTTTCTTAATTTAAAAAT
TAAAATTAATTGAAAAATGAGTG
Found at i:125200 original size:22 final size:23
Alignment explanation
Indices: 125172--125219 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 23
125162 CAAATACAAA
125172 ACCTAAAAAT-AGAGTAAGAAGT
1 ACCTAAAAATAAGAGTAAGAAGT
125194 ACCTAAAAATAGAGAGTAAGAAGT
1 ACCTAAAAATA-AGAGTAAGAAGT
125218 AC
1 AC
125220 AATTTTCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 10 0.42
24 14 0.58
ACGTcount: A:0.54, C:0.10, G:0.19, T:0.17
Consensus pattern (23 bp):
ACCTAAAAATAAGAGTAAGAAGT
Found at i:127029 original size:10 final size:11
Alignment explanation
Indices: 127006--127030 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
126996 ACCCACTTTA
127006 CCCCTTATTCC
1 CCCCTTATTCC
127017 CCCCTTATTCC
1 CCCCTTATTCC
127028 CCC
1 CCC
127031 AAAAACCACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.60, G:0.00, T:0.32
Consensus pattern (11 bp):
CCCCTTATTCC
Found at i:128595 original size:28 final size:28
Alignment explanation
Indices: 128539--128606 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
128529 CACTAAATTT
* * *
128539 AGTTCTTCAAATATTATGTTGGTAGGTC
1 AGTTCTTGAAATATTATGATAGTAGGTC
128567 AGTTCTTGAAATATTATGATAGT-GAGTC
1 AGTTCTTGAAATATTATGATAGTAG-GTC
*
128595 AGTGCTTGAAAT
1 AGTTCTTGAAAT
128607 CAATGACGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (28 bp):
AGTTCTTGAAATATTATGATAGTAGGTC
Found at i:129028 original size:11 final size:11
Alignment explanation
Indices: 129012--129038 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
129002 TAATTATCAA
129012 TAATATATTTT
1 TAATATATTTT
129023 TAATATATTTT
1 TAATATATTTT
129034 TAATA
1 TAATA
129039 ATATAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TAATATATTTT
Found at i:129040 original size:14 final size:13
Alignment explanation
Indices: 129010--129050 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
129000 TATAATTATC
129010 AATAATATATTTT
1 AATAATATATTTT
129023 --TAATATATTTTT
1 AATAATATA-TTTT
129035 AATAATATAATTTT
1 AATAATAT-ATTTT
129049 AA
1 AA
129051 AACATCTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
11 7 0.29
12 4 0.17
14 12 0.50
15 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AATAATATATTTT
Found at i:135030 original size:60 final size:57
Alignment explanation
Indices: 134964--135131 Score: 142
Period size: 60 Copynumber: 2.8 Consensus size: 57
134954 ACTCTTATTT
*
134964 TAAATTAGTCTCTAAACTTTTAAATATTTCAATTTCATTCCTAAACTATGAC-TGTCGTTC
1 TAAATTAGTC-CTAAACTTTTAAA-ATTTCAATTTCATTCC-AAACTATGACAT-TCATTC
* * * *
135024 TAAATTAATCCTCAAAGTTTTGAAAATCTCATTTTCACTCTCC-AACTATGACATTCATTC
1 TAAATTAGTCCT-AAACTTTT-AAAATTTCAATTTCA-T-TCCAAACTATGACATTCATTC
* * * * *
135084 TAAATTGGTCCCAAACTTTTTGAACATTTCAATTGCATCCCAAACTAT
1 TAAATTAGTCCTAAAC-TTTT-AAAATTTCAATTTCATTCCAAACTAT
135132 ACTAATCACA
Statistics
Matches: 87, Mismatches: 14, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
58 2 0.02
59 12 0.14
60 65 0.75
61 5 0.06
62 3 0.03
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (57 bp):
TAAATTAGTCCTAAACTTTTAAAATTTCAATTTCATTCCAAACTATGACATTCATTC
Found at i:137560 original size:37 final size:34
Alignment explanation
Indices: 137464--137562 Score: 110
Period size: 34 Copynumber: 2.8 Consensus size: 34
137454 TTTCGTCCTA
137464 TTATGATTCAAACTCTTAAAAATAGGATAGAATT
1 TTATGATTCAAACTCTTAAAAATAGGATAGAATT
* * *
137498 TTA-GAATTCAAACTCCTAAAAATAGGGTAGAGTT
1 TTATG-ATTCAAACTCTTAAAAATAGGATAGAATT
* *
137532 CTACTATGATTTAAACTCTTAAAGATAGGAT
1 -T--TATGATTCAAACTCTTAAAAATAGGAT
137563 TCACAAGCAT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
33 1 0.02
34 29 0.55
35 1 0.02
37 21 0.40
38 1 0.02
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.33
Consensus pattern (34 bp):
TTATGATTCAAACTCTTAAAAATAGGATAGAATT
Found at i:137975 original size:2 final size:2
Alignment explanation
Indices: 137970--138000 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
137960 TTAGTGTTAT
137970 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
138001 TTCCTATTTT
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:138081 original size:20 final size:20
Alignment explanation
Indices: 138056--138093 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
138046 ATTATTATTA
138056 TTTTACTTATATATATATGC
1 TTTTACTTATATATATATGC
* *
138076 TTTTACTTTTTTATATAT
1 TTTTACTTATATATATAT
138094 TTTACTCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTACTTATATATATATGC
Found at i:140173 original size:25 final size:25
Alignment explanation
Indices: 140135--140183 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
140125 ATGCCTCGAA
*
140135 CATCTCATGCATTTT-TGCATTTTG
1 CATCTCATGCATTTTAAGCATTTTG
*
140159 CATCTACATTCATTTTAAGCATTTT
1 CATCT-CATGCATTTTAAGCATTTT
140184 CATAAACATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 9 0.43
26 7 0.33
ACGTcount: A:0.22, C:0.20, G:0.08, T:0.49
Consensus pattern (25 bp):
CATCTCATGCATTTTAAGCATTTTG
Found at i:141346 original size:19 final size:18
Alignment explanation
Indices: 141315--141362 Score: 78
Period size: 19 Copynumber: 2.6 Consensus size: 18
141305 AAAACAAAGA
*
141315 AAAAAGAGAAACAAAATC
1 AAAAAGAAAAACAAAATC
141333 AAAAAGAAAGAACAAAATC
1 AAAAAGAAA-AACAAAATC
141352 AAAAAGAAAAA
1 AAAAAGAAAAA
141363 GGGACAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 10 0.36
19 18 0.64
ACGTcount: A:0.77, C:0.08, G:0.10, T:0.04
Consensus pattern (18 bp):
AAAAAGAAAAACAAAATC
Found at i:141992 original size:22 final size:22
Alignment explanation
Indices: 141964--142040 Score: 102
Period size: 22 Copynumber: 3.5 Consensus size: 22
141954 ACTACCCCAT
141964 CAAACCTTTGAGCATCAAATGA
1 CAAACCTTTGAGCATCAAATGA
*
141986 CAAACCTTTGAACATCAAAT-A
1 CAAACCTTTGAGCATCAAATGA
* * *
142007 CCAAACATTTAAGCATCAAATGC
1 -CAAACCTTTGAGCATCAAATGA
142030 CAAACCTTTGA
1 CAAACCTTTGA
142041 CCAAACACAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
21 1 0.02
22 45 0.98
ACGTcount: A:0.43, C:0.25, G:0.09, T:0.23
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGA
Found at i:142876 original size:36 final size:36
Alignment explanation
Indices: 142770--142906 Score: 170
Period size: 36 Copynumber: 3.8 Consensus size: 36
142760 TTTCCAATAT
* *
142770 AAATTTTGTCTCGCTTGAGACAGTC-TCATTTAAAAC
1 AAATTTTGTCTCCCTTGAGACAGTCTTC-TTTGAAAC
* * * *
142806 AAGATTTTATCTCGCTTGAGATAGTTTTCTTTGAAAC
1 AA-ATTTTGTCTCCCTTGAGACAGTCTTCTTTGAAAC
* *
142843 AAATTTCGTCTCCCTTGAGACAGTCTTCCTTGAAAC
1 AAATTTTGTCTCCCTTGAGACAGTCTTCTTTGAAAC
142879 AAATTTTGTCTCCCTTGAGACAGT-TTCT
1 AAATTTTGTCTCCCTTGAGACAGTCTTCT
142907 CTCCAGACAA
Statistics
Matches: 87, Mismatches: 12, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
35 3 0.03
36 53 0.61
37 29 0.33
38 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (36 bp):
AAATTTTGTCTCCCTTGAGACAGTCTTCTTTGAAAC
Found at i:143974 original size:106 final size:106
Alignment explanation
Indices: 142907--143967 Score: 1572
Period size: 106 Copynumber: 10.0 Consensus size: 106
142897 GACAGTTTCT
* * *
142907 CTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
142972 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * * * * * ** *
143013 CT-CA-AGAACACAAGCTCAACATCAC-AGCGAAGGGGCGGCTGACTGTCAACAAACAACTTCTC
1 CTCCAGACAACGCAAGTTCAACTTCACGA-CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
143075 AATTTCAGAGTCAATTTCAACTTTACAGCGAAGGATATTGGA
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
*
143117 CTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
*
143182 ATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * *
143223 CTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
*
143288 ATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* *
143329 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACACACAACTTCTCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
* * *
143394 ATTTCAGAGCCAAATTCAACTTCACAACGAAAGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
*
143435 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
* *
143500 ATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGAA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * * *
143541 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACAGCTGGTTGTTAATAAACAACTTCTCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
* * *
143606 ATTTCAGAGCCAATTTCAAATTCACAACGAATGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
*
143647 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGATGGTTGTCAACAAACAACTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
143712 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * * ** *
143753 CTCGAGACGATGCAAGTTCAACTTCAAAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
* *
143818 ATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGTA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
** * * * * * * * *
143859 CTTGAAACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAAACAATTTCTCG
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
* *
143924 ATTCCAAAGCCAATTTCAACTTCAC-GACGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGGA
143965 CTC
1 CTC
143968 GGAACAATCC
Statistics
Matches: 860, Mismatches: 90, Indels: 10
0.90 0.09 0.01
Matches are distributed among these distances:
103 1 0.00
104 88 0.10
105 4 0.00
106 766 0.89
107 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
Found at i:145226 original size:2 final size:2
Alignment explanation
Indices: 145221--145255 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
145211 TTAGTGTTAT
145221 TA TA 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 TA TA T
145256 TTCCTATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:145337 original size:20 final size:20
Alignment explanation
Indices: 145312--145349 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
145302 TTTATTATTA
145312 TTTTACTTATATATATATGC
1 TTTTACTTATATATATATGC
* *
145332 TTTTACTTTTTTATATAT
1 TTTTACTTATATATATAT
145350 TTACTCATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTACTTATATATATATGC
Found at i:159565 original size:31 final size:32
Alignment explanation
Indices: 159496--159554 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
159486 AAATATTATT
159496 TATTA-ATTTATTAATATTTATAATAATATAA
1 TATTATATTTATTAATATTTATAATAATATAA
159527 TATTATATTT-TTAATATTATATAA-AATA
1 TATTATATTTATTAATATT-TATAATAATA
159555 ATCAATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (32 bp):
TATTATATTTATTAATATTTATAATAATATAA
Found at i:159572 original size:51 final size:51
Alignment explanation
Indices: 159508--159655 Score: 140
Period size: 51 Copynumber: 2.8 Consensus size: 51
159498 TTAATTTATT
* *
159508 AATATTTATAATAATATAATATTATAT-TTTTAATATTAT-ATAAAATAATC
1 AATATATATAATAATATAATATTATATATTTTAATAATATAATAAAA-AATC
* *
159558 AATTATATATAATAATATAATA-TATTTTATTTTAATAATATAATAAAAAATT
1 AA-TATATATAATAATATAATATTA-TATATTTTAATAATATAATAAAAAATC
* *
159610 TATATATTTAATAATGAATAATATTATTTATATATTTAAATAATAT
1 AATATATATAATAAT--ATAATATTA--TATAT-TTT-AATAATAT
159656 TTTAATAAAG
Statistics
Matches: 81, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
50 4 0.05
51 32 0.40
52 15 0.19
53 12 0.15
54 2 0.02
55 5 0.06
56 3 0.04
57 8 0.10
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.48
Consensus pattern (51 bp):
AATATATATAATAATATAATATTATATATTTTAATAATATAATAAAAAATC
Found at i:159581 original size:17 final size:17
Alignment explanation
Indices: 159507--159582 Score: 61
Period size: 17 Copynumber: 4.5 Consensus size: 17
159497 ATTAATTTAT
*
159507 TAATATTTATAATAATA
1 TAATATATATAATAATA
* *
159524 TAATAT-TAT-AT-TTT
1 TAATATATATAATAATA
159538 TAATATTATATAA-AATAA
1 TAATA-TATATAATAAT-A
159556 TCAATTATATATAATAATA
1 T-AA-TATATATAATAATA
159575 TAATATAT
1 TAATATAT
159583 TTTATTTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
14 6 0.13
15 3 0.06
16 6 0.13
17 13 0.28
18 3 0.06
19 11 0.23
20 5 0.11
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATATATAATAATA
Found at i:159684 original size:23 final size:23
Alignment explanation
Indices: 159658--159702 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
159648 AATAATATTT
159658 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
159681 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
159703 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:159804 original size:30 final size:32
Alignment explanation
Indices: 159743--159804 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 32
159733 ATAATATTTA
*
159743 TAATATTTTTATTTCACTAAAATATACAAAAT
1 TAATATTTTTATTTCAATAAAATATACAAAAT
159775 TAATATTTTTA-TT-AATAAAATTATA-AAAAT
1 TAATATTTTTATTTCAATAAAA-TATACAAAAT
159805 ACTATTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 11 0.39
31 6 0.21
32 11 0.39
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (32 bp):
TAATATTTTTATTTCAATAAAATATACAAAAT
Found at i:159836 original size:89 final size:89
Alignment explanation
Indices: 159671--159836 Score: 196
Period size: 89 Copynumber: 1.9 Consensus size: 89
159661 TAAAGATATT
* * * * * *
159671 TAAAATATACTAATTAATATTTTTAAAATATAATATAACACTATTACTTTAATAAATAATTTATA
1 TAAAATATACAAATTAATATTTTTAAAATAAAATATAAAAATACTACTTTAATAAATAATATATA
159736 ATATTTATAATATTTTTATTTCAC
66 ATATTTATAATATTTTTATTTCAC
*
159760 TAAAATATACAAAATTAATATTTTTATTAATAAAATTATAAAAATACTA-TTTAAT-AATAA-AT
1 TAAAATATAC-AAATTAATATTTTTA-AAATAAAA-TATAAAAATACTACTTTAATAAATAATAT
*
159822 A-AATTATTTTTAATA
63 ATAA-TATTTATAATA
159837 ATAATTTTTT
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
88 2 0.03
89 22 0.34
90 19 0.29
91 12 0.18
92 10 0.15
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (89 bp):
TAAAATATACAAATTAATATTTTTAAAATAAAATATAAAAATACTACTTTAATAAATAATATATA
ATATTTATAATATTTTTATTTCAC
Found at i:160067 original size:29 final size:30
Alignment explanation
Indices: 160034--160104 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
160024 TTCTAGAAAT
*
160034 GTAATTCATTTTCCAG-AATTCAAATTTCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
*
160063 GTAATTCATTTTCTAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
160093 GTAATTCATTTT
1 GTAATTCATTTT
160105 TCGGAAAACC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 15 0.38
30 24 0.62
ACGTcount: A:0.32, C:0.15, G:0.07, T:0.45
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:160068 original size:15 final size:15
Alignment explanation
Indices: 160050--160100 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
160040 CATTTTCCAG
160050 AATTCAAATTTCAGT
1 AATTCAAATTTCAGT
*
160065 AATTC-ATTTTCTAGT
1 AATTCAAATTTC-AGT
*
160080 AATTCAAATTCCAGT
1 AATTCAAATTTCAGT
160095 AATTCA
1 AATTCA
160101 TTTTTCGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 5 0.16
15 22 0.71
16 4 0.13
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.41
Consensus pattern (15 bp):
AATTCAAATTTCAGT
Found at i:161810 original size:19 final size:19
Alignment explanation
Indices: 161786--161837 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
161776 ACTTTCTAAT
*
161786 AATTTTATTATTTTTTAAC
1 AATTTTAATATTTTTTAAC
* * *
161805 AATTTTAAAATATTTTCAC
1 AATTTTAATATTTTTTAAC
161824 AATTTTAATATTTT
1 AATTTTAATATTTT
161838 ATTTAAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.58
Consensus pattern (19 bp):
AATTTTAATATTTTTTAAC
Found at i:176774 original size:69 final size:70
Alignment explanation
Indices: 176672--176812 Score: 205
Period size: 69 Copynumber: 2.0 Consensus size: 70
176662 AGTCTCACCC
* * *
176672 TAGGTACTTGGTAGTGAATGTCATTTGGATGTTAGATGTTTATGT-TGTGTGA-CCAAGTCTCAT
1 TAGGTACTTGGTAGTGAATGTCATTTGCATGTTAGATGTTGAT-TCTATGTGACCCAAGTCTCAT
176735 CCAATG
65 CCAATG
* * *
176741 TAGGTACTTGGTAGTGAGTGTCATTTGCTTGTTAGATGTTGATTCTATGTGACCCAGGTCTCATC
1 TAGGTACTTGGTAGTGAATGTCATTTGCATGTTAGATGTTGATTCTATGTGACCCAAGTCTCATC
176806 CAATG
66 CAATG
176811 TA
1 TA
176813 CCTCTTCGTA
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
68 1 0.02
69 45 0.70
70 18 0.28
ACGTcount: A:0.22, C:0.13, G:0.26, T:0.39
Consensus pattern (70 bp):
TAGGTACTTGGTAGTGAATGTCATTTGCATGTTAGATGTTGATTCTATGTGACCCAAGTCTCATC
CAATG
Found at i:183220 original size:2 final size:2
Alignment explanation
Indices: 183215--183267 Score: 81
Period size: 2 Copynumber: 26.5 Consensus size: 2
183205 AATATATTTC
183215 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GA-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
*
183257 AT AA AT AT AT A
1 AT AT AT AT AT A
183268 ATGAGATGAT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
1 1 0.02
2 45 0.96
3 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:190190 original size:60 final size:60
Alignment explanation
Indices: 190110--190235 Score: 155
Period size: 60 Copynumber: 2.1 Consensus size: 60
190100 ATTATATCAT
* *
190110 CAAATTATGAATCTCATTCTAAATCAGTTCTTAAACTTTTGAACA-TTCTAATTTCATCCC
1 CAAATTATGAATCTCATTCTAAATCAGTCCTCAAACTTTTGAACACTT-TAATTTCATCCC
* * * * ** *
190170 TAAATTTTGACTCTCTTTCTAAATTGGTCCTCAAACTTTTGAATACTTTAATTTCATCCC
1 CAAATTATGAATCTCATTCTAAATCAGTCCTCAAACTTTTGAACACTTTAATTTCATCCC
190230 CAAATT
1 CAAATT
190236 CATCTAAATG
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 53 0.96
61 2 0.04
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (60 bp):
CAAATTATGAATCTCATTCTAAATCAGTCCTCAAACTTTTGAACACTTTAATTTCATCCC
Found at i:191539 original size:18 final size:19
Alignment explanation
Indices: 191505--191541 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
191495 AAAATATATT
191505 AATTTTATTTTTAAAAAAG
1 AATTTTATTTTTAAAAAAG
*
191524 AATTTT-TTTTTCAAAAAG
1 AATTTTATTTTTAAAAAAG
191542 TTTTTTGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (19 bp):
AATTTTATTTTTAAAAAAG
Found at i:191547 original size:18 final size:18
Alignment explanation
Indices: 191506--191547 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
191496 AAATATATTA
*
191506 ATTTTATTTTTAAAAAAG
1 ATTTTTTTTTTAAAAAAG
* *
191524 AATTTTTTTTTCAAAAAG
1 ATTTTTTTTTTAAAAAAG
191542 -TTTTTT
1 ATTTTTT
191548 GGGTGTCATA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (18 bp):
ATTTTTTTTTTAAAAAAG
Found at i:193612 original size:36 final size:36
Alignment explanation
Indices: 193557--193634 Score: 129
Period size: 36 Copynumber: 2.1 Consensus size: 36
193547 AGAGTAATAT
193557 TCCAGTTGCAGACAACAAGGTTTTGATGGAGAAACAA
1 TCCA-TTGCAGACAACAAGGTTTTGATGGAGAAACAA
* *
193594 TCCATTGCAGACACCAAGGTTTTGATGGAGAAAGAA
1 TCCATTGCAGACAACAAGGTTTTGATGGAGAAACAA
193630 TCCAT
1 TCCAT
193635 GAAGAAAACC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
36 35 0.90
37 4 0.10
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (36 bp):
TCCATTGCAGACAACAAGGTTTTGATGGAGAAACAA
Found at i:201345 original size:21 final size:20
Alignment explanation
Indices: 201259--201416 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
201249 AAATGACCAA
**
201259 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
201278 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
201298 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
201318 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
201339 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
201360 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
201380 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
201401 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
201417 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:201639 original size:20 final size:20
Alignment explanation
Indices: 201383--201652 Score: 290
Period size: 20 Copynumber: 13.5 Consensus size: 20
201373 CGATTTTCCA
* ** *
201383 AAATCGCAACGCGAATATGA
1 AAATCGCAACGAGAATCCGT
* *
201403 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGAGAATC-CGT
** *
201423 AAATCGCAACTTGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
201443 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
201463 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
*
201483 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
* *
201503 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
*
201523 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
201543 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
201563 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
201583 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
201603 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
* *
201623 AAATCGCAATGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
201643 AAATCACAAC
1 AAATCGCAAC
201653 ACTGAAATTT
Statistics
Matches: 212, Mismatches: 36, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
20 211 1.00
21 1 0.00
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGAGAATCCGT
Found at i:202374 original size:24 final size:23
Alignment explanation
Indices: 202335--202380 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
202325 AAATTTGGTC
202335 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGA-TTTGATA
202359 TTGGTCAATA-CACGGATTTGAT
1 TTGGTCAATATC-CGGATTTGAT
202381 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (23 bp):
TTGGTCAATATCCGGATTTGATA
Found at i:204918 original size:33 final size:33
Alignment explanation
Indices: 204881--204951 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
204871 AGAATCGCAA
204881 TGCGAAATGAAAATCGCATTGCGATTCTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTCTCTCGT
** ** **
204914 TGCGATTTTTATTTCGCATTGCGATTCTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTCTCTCGT
204947 TGCGA
1 TGCGA
204952 TTTTCATTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTCTCTCGT
Found at i:204937 original size:19 final size:19
Alignment explanation
Indices: 204913--204990 Score: 103
Period size: 19 Copynumber: 4.4 Consensus size: 19
204903 GATTCTCTCG
*
204913 TTGCGATTTTTATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
204932 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
204946 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
204965 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
204984 TTGCGAT
1 TTGCGAT
204991 AGTCAATTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
14 6 0.12
16 7 0.14
17 6 0.12
19 32 0.63
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:204952 original size:33 final size:33
Alignment explanation
Indices: 204894--204972 Score: 149
Period size: 33 Copynumber: 2.4 Consensus size: 33
204884 GAAATGAAAA
*
204894 TCGCATTGCGATTCTCTCGTTGCGATTTTTATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
204927 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
204960 TCGCATTGCGATT
1 TCGCATTGCGATT
204973 TTCATTTCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.46
Consensus pattern (33 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:205101 original size:33 final size:32
Alignment explanation
Indices: 205049--205210 Score: 139
Period size: 33 Copynumber: 4.8 Consensus size: 32
205039 CCATTACATT
205049 TCGCAATGCGGAAATGAAAATCGCAACGAGATAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGA-AA
* *
205083 TCGCAATGCGAAATGAAAATCGCAATGCGAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAAA
* * * *
205115 T-GAAAAT-CGCAACGAGAGAATCGCAATGTGAAATGAAAA
1 TCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-G-AAA
205154 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGA-AA
*
205187 TCGCAATGCGAAATTAAAATCGCA
1 TCGCAATGCGAAATGAAAATCGCA
205211 TTGCGATTCT
Statistics
Matches: 105, Mismatches: 11, Indels: 25
0.74 0.08 0.18
Matches are distributed among these distances:
31 7 0.07
32 8 0.08
33 53 0.50
34 10 0.10
35 2 0.02
36 1 0.01
38 9 0.09
39 8 0.08
40 7 0.07
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.15
Consensus pattern (32 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:205105 original size:19 final size:19
Alignment explanation
Indices: 205049--205216 Score: 168
Period size: 19 Copynumber: 9.6 Consensus size: 19
205039 CCATTACATT
205049 TCGCAATGCGGAAATGAAAA
1 TCGCAATGC-GAAATGAAAA
*
205069 TCGCAA--CG--A-GATAA
1 TCGCAATGCGAAATGAAAA
205083 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
205102 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
205121 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
*
205135 TCGCAATGTGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
205154 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
205173 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
*
205187 TCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAA
*
205206 TCGCATTGCGA
1 TCGCAATGCGA
205217 TTCTCCCATT
Statistics
Matches: 123, Mismatches: 10, Indels: 31
0.75 0.06 0.19
Matches are distributed among these distances:
14 30 0.24
15 3 0.02
16 5 0.04
17 5 0.04
18 4 0.03
19 70 0.57
20 6 0.05
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.16
Consensus pattern (19 bp):
TCGCAATGCGAAATGAAAA
Found at i:205128 original size:52 final size:52
Alignment explanation
Indices: 205049--205216 Score: 291
Period size: 52 Copynumber: 3.2 Consensus size: 52
205039 CCATTACATT
*
205049 TCGCAATGCGGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATGAAAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
205102 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGTGAAATGAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
205154 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
205206 TCGCATTGCGA
1 TCGCAATGCGA
205217 TTCTCCCATT
Statistics
Matches: 110, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
52 101 0.92
53 9 0.08
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.16
Consensus pattern (52 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
Found at i:205265 original size:19 final size:19
Alignment explanation
Indices: 205223--205322 Score: 147
Period size: 19 Copynumber: 5.5 Consensus size: 19
205213 GCGATTCTCC
205223 CATTGCGATTTTCATTTCCG
1 CATTGCGATTTTCATTT-CG
205243 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
205262 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
205278 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
205295 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
205314 CATTGCGAT
1 CATTGCGAT
205323 AGTCAATTTT
Statistics
Matches: 73, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.49
20 17 0.23
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:205319 original size:52 final size:53
Alignment explanation
Indices: 205206--205322 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
205196 GAAATTAAAA
205206 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
* *
205259 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
205311 TCGCATTGCGAT
1 TCGCATTGCGAT
205323 AGTCAATTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 30 0.48
53 32 0.52
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:205444 original size:13 final size:13
Alignment explanation
Indices: 205428--205462 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
205418 CATCAATTAC
205428 ACAAATCAACTTT
1 ACAAATCAACTTT
*
205441 ACAAATCATCTTT
1 ACAAATCAACTTT
205454 ACAAATCAA
1 ACAAATCAA
205463 TTAAACAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.29
Consensus pattern (13 bp):
ACAAATCAACTTT
Found at i:207455 original size:14 final size:14
Alignment explanation
Indices: 207436--207492 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
207426 GCGAAATGAA
*
207436 AATCGCAACGACAG
1 AATCGCAACGAAAG
207450 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
207467 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
207483 AATCGCAACG
1 AATCGCAACG
207493 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:207463 original size:33 final size:33
Alignment explanation
Indices: 207417--207509 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
207407 GCGAAACCAA
*
207417 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
207450 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
207483 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
207510 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:207474 original size:19 final size:19
Alignment explanation
Indices: 207380--207514 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
207370 TAGTTTACTT
* *
207380 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
207400 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
207419 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
207438 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
207452 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
207471 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
207485 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
207504 TCGCAATGCGA
1 TCGCAACGCGA
207515 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:207532 original size:19 final size:19
Alignment explanation
Indices: 207510--207638 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
207500 AAAATCGCAA
207510 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
207529 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
207543 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
207562 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
207576 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
207595 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
207614 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
207634 TGCGA
1 TGCGA
207639 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:207552 original size:33 final size:33
Alignment explanation
Indices: 207510--207601 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
207500 AAAATCGCAA
207510 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
207543 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
207576 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
207602 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:207841 original size:93 final size:93
Alignment explanation
Indices: 207682--207967 Score: 540
Period size: 93 Copynumber: 3.1 Consensus size: 93
207672 TTGAATGGAT
207682 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
207747 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
207775 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
207840 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
207868 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTT--CAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
207931 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
207959 AAATTTACT
1 AAATTTACT
207968 AAGCAATCTA
Statistics
Matches: 190, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
91 53 0.28
93 137 0.72
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:209689 original size:14 final size:14
Alignment explanation
Indices: 209670--209758 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
209660 TTGAAATGAA
209670 AATCGCAACGAGAG
1 AATCGCAACGAGAG
209684 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
*
209701 ACAATCACAACGAGAG
1 --AATCGCAACGAGAG
*
209717 AA-CGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
209735 AATCGCAACGAGAG
1 AATCGCAACGAGAG
209749 AATCGCAACG
1 AATCGCAACG
209759 CGAAATGAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 22
0.70 0.05 0.26
Matches are distributed among these distances:
13 4 0.07
14 22 0.37
15 3 0.05
16 6 0.10
17 9 0.15
18 4 0.07
19 12 0.20
ACGTcount: A:0.44, C:0.24, G:0.25, T:0.08
Consensus pattern (14 bp):
AATCGCAACGAGAG
Done.