Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008129.1 Hibiscus syriacus cultivar Beakdansim tig00110684_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: 2577775
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 10
Found at i:2002 original size:3 final size:3
Alignment explanation
Indices: 1996--2094 Score: 53
Period size: 3 Copynumber: 32.0 Consensus size: 3
1986 TAATATTATT
* * *
1996 TAA TAA TAA TAA TAT TAA TATA TAA TAAA TAA TAA CATG TAA TTAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA T-AA TAA TAA TA-A TAA -TAA TAA
* * *
2045 TAAA TAA T-A TGA TAA TAA TAA -CA TAGA -AA TAA T-A TATA TAT TAA
1 T-AA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA-A TAA TAA
2089 TAA TAA
1 TAA TAA
2095 AGGACAAAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
2 6 0.08
3 51 0.69
4 17 0.23
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2044 original size:21 final size:22
Alignment explanation
Indices: 2017--2065 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
2007 ATATTAATAT
2017 ATAATAAAT-AATAACATG-TA
1 ATAATAAATAAATAACATGATA
*
2037 ATTAAT-AATAAATAATATGATA
1 A-TAATAAATAAATAACATGATA
2059 ATAATAA
1 ATAATAA
2066 CATAGAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 4 0.17
21 16 0.67
22 4 0.17
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (22 bp):
ATAATAAATAAATAACATGATA
Found at i:2089 original size:47 final size:44
Alignment explanation
Indices: 1986--2095 Score: 113
Period size: 43 Copynumber: 2.5 Consensus size: 44
1976 TTTGGGTTTG
1986 TAATATTAT-TTAATAAT-AATAATATTAATATATAATAAATAA
1 TAATATTATATTAATAATAAATAATATTAATATATAATAAATAA
* *
2028 TAACATGTA-ATTAATAATAAATAATA-TGATA-ATAATAACATAGAAA
1 TAATAT-TATATTAATAATAAATAATATTAATATATAATAA-AT---AA
2074 TAATATATATATTAATAATAAA
1 TAATAT-TATATTAATAATAAA
2096 GGACAAAAAC
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
42 12 0.21
43 16 0.29
44 7 0.12
46 9 0.16
47 12 0.21
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (44 bp):
TAATATTATATTAATAATAAATAATATTAATATATAATAAATAA
Found at i:2570 original size:46 final size:49
Alignment explanation
Indices: 2502--2623 Score: 151
Period size: 46 Copynumber: 2.6 Consensus size: 49
2492 AAATGTCTAG
* *
2502 CTGTGCATTTTTGGCATAAAGGTGCCATTAATCCAGGTTAG-T-ACTAA
1 CTGTGCATTTTTGGCAGAAAGGTGCCATTAATCCAAGTTAGATGACTAA
* * *
2549 CTGTGC-TTTTTGGTAGAAAGGTTCCATTAATGCAAGTTAGATGACTAA
1 CTGTGCATTTTTGGCAGAAAGGTGCCATTAATCCAAGTTAGATGACTAA
* * *
2597 CGGTGCACTCTTGGCAGAAAGGTGCCA
1 CTGTGCATTTTTGGCAGAAAGGTGCCA
2624 CGTATGCAGG
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 29 0.47
47 7 0.11
48 10 0.16
49 16 0.26
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (49 bp):
CTGTGCATTTTTGGCAGAAAGGTGCCATTAATCCAAGTTAGATGACTAA
Found at i:3795 original size:30 final size:30
Alignment explanation
Indices: 3761--3817 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
3751 ATGCATGGGT
*
3761 TAAATTGATATTTCATCTAAAGTTTAGGTG
1 TAAATTAATATTTCATCTAAAGTTTAGGTG
* *
3791 TAAATTAATATTTTATCTAAATTTTAG
1 TAAATTAATATTTCATCTAAAGTTTAG
3818 TTCAAATTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (30 bp):
TAAATTAATATTTCATCTAAAGTTTAGGTG
Found at i:3958 original size:31 final size:30
Alignment explanation
Indices: 3917--4007 Score: 87
Period size: 31 Copynumber: 3.0 Consensus size: 30
3907 TAATAACTCG
*
3917 ATGACCAAAATAAGACAAATTAAAAATAAA
1 ATGACTAAAATAAGACAAATTAAAAATAAA
* **
3947 AGTGACTAAAATAAAACATTTTTAAAAACT--A
1 A-TGACTAAAATAAGACA-AATTAAAAA-TAAA
* *
3978 ATAACTAAAATAAGATAAATTAAAAATAAA
1 ATGACTAAAATAAGACAAATTAAAAATAAA
4008 TAAATAATTT
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
28 1 0.02
29 7 0.15
30 15 0.32
31 16 0.34
32 7 0.15
33 1 0.02
ACGTcount: A:0.64, C:0.08, G:0.05, T:0.23
Consensus pattern (30 bp):
ATGACTAAAATAAGACAAATTAAAAATAAA
Found at i:6274 original size:21 final size:20
Alignment explanation
Indices: 6187--6275 Score: 76
Period size: 21 Copynumber: 4.3 Consensus size: 20
6177 TTTTGGATTG
6187 ATCCCTTCATAAAAGGAT-A
1 ATCCCTTCATAAAAGGATCA
* *
6206 GATCCC-TCGAGGAAAATGATCA
1 -ATCCCTTC-A-TAAAAGGATCA
*
6228 ATCCTTTCACTAAAAGGATCA
1 ATCCCTTCA-TAAAAGGATCA
*
6249 A-CCCTTCGATGAAAGGATCA
1 ATCCCTTC-ATAAAAGGATCA
6269 ATCCCTT
1 ATCCCTT
6276 TCTTGTAATG
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
19 2 0.04
20 22 0.40
21 28 0.51
22 3 0.05
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.25
Consensus pattern (20 bp):
ATCCCTTCATAAAAGGATCA
Found at i:19943 original size:36 final size:36
Alignment explanation
Indices: 19897--20162 Score: 290
Period size: 36 Copynumber: 7.4 Consensus size: 36
19887 AGCAAAGTCA
*
19897 ATCTTAAGCCTTCACCGAAGAGA-AGTGAAGCAAACC
1 ATCTGAAGCCTTCACCGAAGA-ATAGTGAAGCAAACC
* *
19933 ATCTGAAGCCTTCACTGGAGAATAGTGAAGCAAACC
1 ATCTGAAGCCTTCACCGAAGAATAGTGAAGCAAACC
* *
19969 ATCCT-AAGCCTTCATCGGAGAATAGTGAAGCAAACC
1 AT-CTGAAGCCTTCACCGAAGAATAGTGAAGCAAACC
* * *
20005 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAATCA
1 ATCTGAAGCCTTCACCGAAGAATAGTGAAGCAAACC
*
20041 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAACC
1 ATCTGAAGCCTTCACCGAAGAATAGTGAAGCAAACC
* *
20077 ATCAT-AAGTCTTCACC-AGAGAGTAGTGAAGCAAACC
1 ATC-TGAAGCCTTCACCGA-AGAATAGTGAAGCAAACC
* * * *
20113 ATCTTAAGTCTTCACC-AAAAAGTAGTGAAGCAGATCC
1 ATCTGAAGCCTTCACCGAAGAA-TAGTGAAGCA-AACC
* *
20150 ATTTTAAGCCTTC
1 ATCTGAAGCCTTC
20163 TCAGAAGAGT
Statistics
Matches: 204, Mismatches: 18, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
35 6 0.03
36 181 0.89
37 17 0.08
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (36 bp):
ATCTGAAGCCTTCACCGAAGAATAGTGAAGCAAACC
Found at i:20103 original size:108 final size:108
Alignment explanation
Indices: 19897--20144 Score: 354
Period size: 108 Copynumber: 2.3 Consensus size: 108
19887 AGCAAAGTCA
* *
19897 ATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACCATCTGAAGCCTTCACTGGAGAATAGTGAA
1 ATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACAATCTGAAGCCTTCACCGGAGAATAGTGAA
* * *
19962 GCAAACCATCCTAAGCCTTCATCGGAGAATAGTGAAGCAAACC
66 GCAAACCATCATAAGCCTTCACCAGAGAATAGTGAAGCAAACC
* * *
20005 ATCTGAAGCCTTCACCGGAGA-ATAGTGAAGCAATCAATCTGAAGCCTTCACCGGAGAATAGTGA
1 ATCTTAAGCCTTCACCGAAGAGA-AGTGAAGCAAACAATCTGAAGCCTTCACCGGAGAATAGTGA
* *
20069 AGCAAACCATCATAAGTCTTCACCAGAGAGTAGTGAAGCAAACC
65 AGCAAACCATCATAAGCCTTCACCAGAGAATAGTGAAGCAAACC
* * * *
20113 ATCTTAAGTCTTCACCAAAAAGTAGTGAAGCA
1 ATCTTAAGCCTTCACCGAAGAGAAGTGAAGCA
20145 GATCCATTTT
Statistics
Matches: 122, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
107 1 0.01
108 121 0.99
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (108 bp):
ATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACAATCTGAAGCCTTCACCGGAGAATAGTGAA
GCAAACCATCATAAGCCTTCACCAGAGAATAGTGAAGCAAACC
Found at i:20674 original size:54 final size:54
Alignment explanation
Indices: 20542--20875 Score: 403
Period size: 54 Copynumber: 6.2 Consensus size: 54
20532 AAGATTATTT
** **
20542 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACATGTTTGTTGAAGATTGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA-TGTTC
*
20597 GAGTTCTATACTCCCTAGAGAAAGGGGGAGCGAACCCGTTTGAAGAAGATGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * *
20651 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCTGTTT---GAAGATGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * *
20702 GAGTTCTATACTCCTTAAAGAAGGAAGGAGCGAACCC-TTTGAAG-AGATGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
*
20754 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAATATG-TC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * * **
20807 TGAGTTCCATACTCCCTAGAGAAATAGGGAGTGAACCCATTTGTTGAAGATTGTTC
1 -GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA-TGTTC
20863 GAG-TCTTATACTC
1 GAGTTC-TATACTC
20876 TCTGAAGAAA
Statistics
Matches: 245, Mismatches: 25, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
50 3 0.01
51 45 0.18
52 41 0.17
53 10 0.04
54 89 0.36
55 55 0.22
56 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (54 bp):
GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
Found at i:20771 original size:157 final size:164
Alignment explanation
Indices: 20530--20885 Score: 442
Period size: 157 Copynumber: 2.2 Consensus size: 164
20520 GTGAAGCAAA
* * * * ** **
20530 TGAAGATTATTTGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACATGTTTGTTGAAGATTGT
1 TGAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACACCTTTGAAGAAGATTGT
* *
20595 TCGAGTTCTATACTCCCTAGAGAAAGGGGGAGCGAACCCGTTTGAAGAAGATGT-TCGAGTTCTA
66 TCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCT-GAGTTCCA
*
20659 TACTCCTTAAAGAAAGAAGGAGCGAA-CC-TGT-T
130 TACTCCCTAAAGAAAGAAGGAGCGAACCCATGTGT
* *
20691 TGAAGA-TGTTCGAGTTCTATACTCCTTAAAGAAGGAAGGAGCGAAC-CCTTTGAAG-AGA-TGT
1 TGAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACACCTTTGAAGAAGATTGT
*
20752 TCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAATATGTCTGAGTTCCAT
66 TCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCTGAGTTCCAT
* * * * *
20817 ACTCCCTAGAGAAATAGGGAGTGAACCCATTTGT
131 ACTCCCTAAAGAAAGAAGGAGCGAACCCATGTGT
* *
20851 TGAAGATTGTTCGAG-TCTTATACTCTCTGAAGAAA
1 TGAAGATTGTTCGAGTTC-TATACTCCCTAAAGAAA
20886 TAGGGGGCAG
Statistics
Matches: 166, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
157 83 0.50
158 6 0.04
159 7 0.04
160 43 0.26
161 27 0.16
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (164 bp):
TGAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACACCTTTGAAGAAGATTGT
TCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCTGAGTTCCAT
ACTCCCTAAAGAAAGAAGGAGCGAACCCATGTGT
Found at i:20784 original size:103 final size:106
Alignment explanation
Indices: 20542--20875 Score: 394
Period size: 103 Copynumber: 3.1 Consensus size: 106
20532 AAGATTATTT
*
20542 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACATGTTTGTTGAAGATTGTTCGAGTTCTATA
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTG--T-TTGAAGATTGTTCGAGTTCTATA
* *
20607 CTCCCTAGAGAAAGGGGGAGCGAACCCGTTTGAAGAAGATGTTC
63 CTCCCTAAAGAAAGGAGGAGCGAACCCGTTTGAAGAAGATGTTC
* * *
20651 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCTGTTTGAAGA-TGTTCGAGTTCTATACTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTTGAAGATTGTTCGAGTTCTATACTC
*
20715 CTTAAAG-AAGGAAGGAGCGAACCC-TTTGAAG-AGATGTTC
66 CCTAAAGAAAGG-AGGAGCGAACCCGTTTGAAGAAGATGTTC
* *
20754 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAATATG-TCTGAGTTCCATA
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTTGAAG-AT-TGTTC-GAGTTCTATA
* * * * **
20818 CTCCCTAGAGAAA-TAGGGAGTGAACCCATTTGTTGAAGATTGTTC
63 CTCCCTAAAGAAAGGA-GGAGCGAACCCGTTTGAAGAAGA-TGTTC
20863 GAG-TCTTATACTC
1 GAGTTC-TATACTC
20876 TCTGAAGAAA
Statistics
Matches: 196, Mismatches: 18, Indels: 22
0.83 0.08 0.09
Matches are distributed among these distances:
103 49 0.25
104 12 0.06
105 37 0.19
106 36 0.18
107 8 0.04
108 5 0.03
109 49 0.25
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (106 bp):
GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTTGAAGATTGTTCGAGTTCTATACTC
CCTAAAGAAAGGAGGAGCGAACCCGTTTGAAGAAGATGTTC
Found at i:20908 original size:55 final size:55
Alignment explanation
Indices: 20849--20983 Score: 184
Period size: 55 Copynumber: 2.5 Consensus size: 55
20839 GAACCCATTT
* * *
20849 GTTGAAGATTGTTCGAGTCTTATACTCTCTG-AAGAAATAGGGGGCAGACGCGATC
1 GTTGAAGATTATTCGAGTCTTATACTCTCTGAAAG-AATAGGGAGCAGACACGATC
* *
20904 GTTGAAGATATATT-GAGTCTTATACTCTCTGAAAGAATAGGGAGCTGACACGATT
1 GTTGAAGAT-TATTCGAGTCTTATACTCTCTGAAAGAATAGGGAGCAGACACGATC
*
20959 GTTGAAGATTATTCGAGTCTCATAC
1 GTTGAAGATTATTCGAGTCTTATAC
20984 CCAGTTTTGT
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
54 4 0.06
55 61 0.86
56 6 0.08
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (55 bp):
GTTGAAGATTATTCGAGTCTTATACTCTCTGAAAGAATAGGGAGCAGACACGATC
Found at i:21459 original size:13 final size:13
Alignment explanation
Indices: 21441--21465 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21431 GTATAGTTTT
21441 TTTTTATTTATTC
1 TTTTTATTTATTC
21454 TTTTTATTTATT
1 TTTTTATTTATT
21466 TCAAATTACA
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:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTATTTATTC
Found at i:25045 original size:28 final size:27
Alignment explanation
Indices: 25004--25082 Score: 67
Period size: 28 Copynumber: 3.0 Consensus size: 27
24994 AGGCAACCCA
*
25004 TATTTTATTCAATTATTTTTTATTTTT
1 TATTTTATTTAATTATTTTTTATTTTT
* * *
25031 TATTTATATTTAATT-TCATTTGATATTT
1 TATTT-TATTTAATTAT-TTTTTATTTTT
25059 TATTTGT-TTTAA--ATTTTTTATTTT
1 TATTT-TATTTAATTATTTTTTATTTT
25083 CATTTTGTAG
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
25 7 0.17
26 1 0.02
27 11 0.27
28 22 0.54
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (27 bp):
TATTTTATTTAATTATTTTTTATTTTT
Found at i:27801 original size:12 final size:11
Alignment explanation
Indices: 27784--27837 Score: 63
Period size: 12 Copynumber: 4.6 Consensus size: 11
27774 ATTGAATTTA
27784 CTTCTTTTAAAT
1 CTTCTTTT-AAT
27796 CTTCTTCTTAAT
1 CTTCTT-TTAAT
*
27808 CTTCTTTTACT
1 CTTCTTTTAAT
*
27819 TTTCTCTTTAAT
1 CTTCT-TTTAAT
27831 CTTCTTT
1 CTTCTTT
27838 ATTTTATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 10 0.28
12 24 0.67
13 2 0.06
ACGTcount: A:0.15, C:0.22, G:0.00, T:0.63
Consensus pattern (11 bp):
CTTCTTTTAAT
Found at i:32354 original size:44 final size:44
Alignment explanation
Indices: 32289--32381 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
32279 CATTCCAATG
* **
32289 GTATCGATACTGGCCAAGGGGTATCGGTACTACTT-TGTAGTGTA
1 GTATCGATACTGGCCAAGGGGTATCGATACTA-TTATGTAAAGTA
* *
32333 GTATCGATACTGTCCAGGGGGTATCGATACTATTATGTAAAGTA
1 GTATCGATACTGGCCAAGGGGTATCGATACTATTATGTAAAGTA
32377 GTATC
1 GTATC
32382 AGTACCTTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 2 0.05
44 41 0.95
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (44 bp):
GTATCGATACTGGCCAAGGGGTATCGATACTATTATGTAAAGTA
Found at i:32775 original size:19 final size:19
Alignment explanation
Indices: 32737--32776 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
32727 TGAATAATTG
* * *
32737 AATCGAATATAATATTTTA
1 AATCAAATATAAAATCTTA
32756 AATCAAATATAAAATCTTA
1 AATCAAATATAAAATCTTA
32775 AA
1 AA
32777 ATTACTTAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.35
Consensus pattern (19 bp):
AATCAAATATAAAATCTTA
Found at i:34538 original size:12 final size:12
Alignment explanation
Indices: 34521--34545 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34511 CTAACAGGCA
34521 ATTTTGAAAACT
1 ATTTTGAAAACT
34533 ATTTTGAAAACT
1 ATTTTGAAAACT
34545 A
1 A
34546 AGTTTGAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
ATTTTGAAAACT
Found at i:38944 original size:21 final size:21
Alignment explanation
Indices: 38907--38946 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
38897 TCGTTTTTCA
*
38907 ATTTTGAAATATCTTTCTTGT
1 ATTTTGAAATATATTTCTTGT
38928 ATTTTGAAA-ATAATTTCTT
1 ATTTTGAAATAT-ATTTCTT
38947 ATAATTCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTTTGAAATATATTTCTTGT
Found at i:42925 original size:23 final size:23
Alignment explanation
Indices: 42907--42967 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
42897 CTCGTATAAA
42907 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* * *
42930 TACACCAAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
42953 TGCATCGAAGTGCCA
1 TGCACCGAAGTGCCA
42968 TATAAAATGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.31, C:0.26, G:0.25, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:44520 original size:19 final size:19
Alignment explanation
Indices: 44496--44548 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
44486 TCTTAAGAGG
44496 ATGCATCGATGCACTCCTT
1 ATGCATCGATGCACTCCTT
*
44515 ATGCATCAATGCACTCCTT
1 ATGCATCGATGCACTCCTT
44534 ATGCATCGATGCACT
1 ATGCATCGATGCACT
44549 AATTGCATTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (19 bp):
ATGCATCGATGCACTCCTT
Found at i:44605 original size:21 final size:21
Alignment explanation
Indices: 44572--44612 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
44562 GTTCATTTAT
44572 TTGAAAGTGCATCGATACACA
1 TTGAAAGTGCATCGATACACA
* *
44593 TTGAATGTTCATCGATACAC
1 TTGAAAGTGCATCGATACAC
44613 TTTGCCCAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (21 bp):
TTGAAAGTGCATCGATACACA
Found at i:48183 original size:23 final size:23
Alignment explanation
Indices: 48157--48211 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
48147 TAAATGCAGT
48157 GAAGTGCCACGTAGAATTACACC
1 GAAGTGCCACGTAGAATTACACC
* *
48180 GAAGTGCCTCGTAGAATTGCACC
1 GAAGTGCCACGTAGAATTACACC
48203 GAAGTGCCA
1 GAAGTGCCA
48212 TATATAATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.18
Consensus pattern (23 bp):
GAAGTGCCACGTAGAATTACACC
Found at i:49756 original size:19 final size:19
Alignment explanation
Indices: 49732--49784 Score: 106
Period size: 19 Copynumber: 2.8 Consensus size: 19
49722 TCTTAAGAGG
49732 ATGCATCGATGCACTCCTT
1 ATGCATCGATGCACTCCTT
49751 ATGCATCGATGCACTCCTT
1 ATGCATCGATGCACTCCTT
49770 ATGCATCGATGCACT
1 ATGCATCGATGCACT
49785 AATTTCATTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (19 bp):
ATGCATCGATGCACTCCTT
Found at i:49838 original size:21 final size:21
Alignment explanation
Indices: 49808--49848 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
49798 GTTCATTTAT
49808 TTGAAAGTGCATCGATACACA
1 TTGAAAGTGCATCGATACACA
*
49829 TTGAATGTGCATCGATACAC
1 TTGAAAGTGCATCGATACAC
49849 TTTGCCCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (21 bp):
TTGAAAGTGCATCGATACACA
Found at i:53443 original size:23 final size:23
Alignment explanation
Indices: 53412--53471 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
53402 CTCGTATAAA
53412 TGCA-CGAAGTGCCACATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
* *
53434 TGCACCGAAGTGCCTCGTAGAAT
1 TGCACCGAAGTGCCACATAGAAT
*
53457 TACACCGAAGTGCCA
1 TGCACCGAAGTGCCA
53472 TATATAATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
22 4 0.12
23 29 0.88
ACGTcount: A:0.32, C:0.27, G:0.23, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAT
Found at i:61974 original size:14 final size:14
Alignment explanation
Indices: 61955--61982 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
61945 GAGTCAGTAG
61955 CAGTCAACAACTTC
1 CAGTCAACAACTTC
61969 CAGTCAACAACTTC
1 CAGTCAACAACTTC
61983 TAAAATATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.36, G:0.07, T:0.21
Consensus pattern (14 bp):
CAGTCAACAACTTC
Found at i:64291 original size:21 final size:21
Alignment explanation
Indices: 64249--64292 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
64239 GGTGATTTCT
* ** *
64249 CAAGAGAAATTAGTTGCTTCC
1 CAAGAAAAATTAGTCACCTCC
64270 CAAGAAAAATTAGTCACCTCC
1 CAAGAAAAATTAGTCACCTCC
64291 CA
1 CA
64293 GGAATGATTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.23
Consensus pattern (21 bp):
CAAGAAAAATTAGTCACCTCC
Found at i:71681 original size:11 final size:12
Alignment explanation
Indices: 71660--71691 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
71650 AGAAAAAGAA
71660 AAAAATGAAAAT
1 AAAAATGAAAAT
71672 AAAAAT-AAAAT
1 AAAAATGAAAAT
71683 AAAAA-GAAA
1 AAAAATGAAA
71692 GAAAGAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 13 0.68
12 6 0.32
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.12
Consensus pattern (12 bp):
AAAAATGAAAAT
Found at i:81492 original size:54 final size:54
Alignment explanation
Indices: 81433--81933 Score: 774
Period size: 54 Copynumber: 9.3 Consensus size: 54
81423 ATTTATTAAG
* * * *
81433 ATGCACACATAGTGCCTATACGG-TAGTTCCTCAACTCATGATGGATTCCGTGAA
1 ATGCACACTTAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTCCGTGAA
81487 ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGAA
1 ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGAA
* *
81541 ATGCACACTTAGTGCTTGTACGGTTATTCATCAACTCATGATGAATTCCGTGAG
1 ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGAA
* *
81595 ATGCACACTTAGTGCATGTACGGTTATTCATCAACTCATAATGAATTCCGTGAA
1 ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGAA
* * * *
81649 ATGTACACTTAATGCCTGTACGGTTATTCATCAACACATGATTAATTCCGTGAA
1 ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGAA
**
81703 ATGCACACTTAGTGTATGTACGGTTATTCATCAACTCATGATGAATTCCGTGAA
1 ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGAA
*
81757 ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCATGAA
1 ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGAA
* * * *
81811 ATGGACACTTAGTGCATGTACAG-T-TTCATCAACTCATGATGAATTCCATGAA
1 ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGAA
* * *
81863 ATGGACACTTAGTGCATGTACAGTTATTCATCAACTCATGATGAATTCCGTGAA
1 ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGAA
81917 ATGCACACTTAGTGCCT
1 ATGCACACTTAGTGCCT
81934 ATTTGATAAT
Statistics
Matches: 414, Mismatches: 30, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
52 51 0.12
53 2 0.00
54 359 0.87
55 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (54 bp):
ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGAA
Found at i:83911 original size:15 final size:16
Alignment explanation
Indices: 83881--83921 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
83871 TAAATATCAT
83881 AATTTATTAATTTTAA
1 AATTTATTAATTTTAA
*
83897 AATTTATT-TTTTTAA
1 AATTTATTAATTTTAA
*
83912 AATATATTAA
1 AATTTATTAA
83922 AAATATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
AATTTATTAATTTTAA
Found at i:84364 original size:17 final size:16
Alignment explanation
Indices: 84339--84373 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
84329 TTTAAAAATA
84339 TATAAAATTTTATTTTT
1 TATAAAATTTT-TTTTT
*
84356 TATATAATTTTTTTTT
1 TATAAAATTTTTTTTT
84372 TA
1 TA
84374 AATTATCAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TATAAAATTTTTTTTT
Found at i:90646 original size:73 final size:74
Alignment explanation
Indices: 90569--90712 Score: 218
Period size: 73 Copynumber: 1.9 Consensus size: 74
90559 AATAAATCAG
* *
90569 AATTAAAGTACTTAAAAATATTTAAACTAAAATACCTAAAACAAAGATAAGA-TAAAATATTATC
1 AATTAAAATACTTAAAAATATTTAAACTAAAATACCTAAAACAAAGATAAGATTAAAATAATATC
90633 CTAAATCCT
66 CTAAATCCT
* * * *
90642 AATTAAAATACTTAAAACTATTTAAACTAAAATTCCTAAAACAAATATAATATTTAAAATAATAT
1 AATTAAAATACTTAAAAATATTTAAACTAAAATACCTAAAACAAAGATAAGA-TTAAAATAATAT
90707 CCTAAA
65 CCTAAA
90713 ACATGAGTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
73 47 0.75
75 16 0.25
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.31
Consensus pattern (74 bp):
AATTAAAATACTTAAAAATATTTAAACTAAAATACCTAAAACAAAGATAAGATTAAAATAATATC
CTAAATCCT
Found at i:96706 original size:23 final size:22
Alignment explanation
Indices: 96647--96709 Score: 99
Period size: 22 Copynumber: 2.8 Consensus size: 22
96637 AGTCGAGGGT
*
96647 TACATAGTTCATTCGGGACATA
1 TACATAGGTCATTCGGGACATA
*
96669 TACATACGTCATTCGGGACATA
1 TACATAGGTCATTCGGGACATA
96691 TACATGAGGTCATTCGGGA
1 TACAT-AGGTCATTCGGGA
96710 AAAATTTCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
22 25 0.68
23 12 0.32
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (22 bp):
TACATAGGTCATTCGGGACATA
Found at i:96983 original size:2 final size:2
Alignment explanation
Indices: 96976--97194 Score: 393
Period size: 2 Copynumber: 109.5 Consensus size: 2
96966 GTTATATGTA
* *
96976 TG TG TG TG TG TG TG TG CG TG TG TG TG CG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
97018 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
97060 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
*
97102 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TT TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* *
97144 TG TG TG TG TG TG TG TG TG TT TG TG TG TG TG TG TT TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
97186 TG TG TG TG T
1 TG TG TG TG T
97195 TATGTTTAAT
Statistics
Matches: 207, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 207 1.00
ACGTcount: A:0.00, C:0.01, G:0.48, T:0.51
Consensus pattern (2 bp):
TG
Found at i:98387 original size:24 final size:24
Alignment explanation
Indices: 98355--98400 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
98345 ATGAGGTAAA
98355 TTCAATTTTACAATTTTGTCATAG
1 TTCAATTTTACAATTTTGTCATAG
*
98379 TTCAGTTTTACAATTTTGTCAT
1 TTCAATTTTACAATTTTGTCAT
98401 TCTTACTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.13, G:0.09, T:0.52
Consensus pattern (24 bp):
TTCAATTTTACAATTTTGTCATAG
Found at i:99597 original size:11 final size:11
Alignment explanation
Indices: 99564--99600 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
99554 TTAATTTCGT
99564 TTTTCGTTTTA
1 TTTTCGTTTTA
*
99575 TTTTCATTTTA
1 TTTTCGTTTTA
99586 TTTTCGTTTTA
1 TTTTCGTTTTA
99597 TTTT
1 TTTT
99601 TAGTAAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.11, C:0.08, G:0.05, T:0.76
Consensus pattern (11 bp):
TTTTCGTTTTA
Found at i:101534 original size:3 final size:3
Alignment explanation
Indices: 101526--101573 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
101516 TTCGAATGAA
101526 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
101574 GAAAAATTGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:104713 original size:29 final size:29
Alignment explanation
Indices: 104677--104754 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
104667 AAAAATTCAG
*
104677 TTAATTCGGTTCGGTTAATAATTTTCAAA
1 TTAATTCGGTTCGGTTAATAATTTACAAA
*
104706 TTAATTCGGTTTGGTTAATAATTTACAAA
1 TTAATTCGGTTCGGTTAATAATTTACAAA
* * *
104735 TAAATTTTGGTTCGATTAAT
1 TTAA-TTCGGTTCGGTTAAT
104755 CGAACGAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 30 0.71
30 12 0.29
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (29 bp):
TTAATTCGGTTCGGTTAATAATTTACAAA
Found at i:104826 original size:29 final size:30
Alignment explanation
Indices: 104792--104860 Score: 113
Period size: 29 Copynumber: 2.3 Consensus size: 30
104782 TGATTATTCG
*
104792 GTTCGGTTAATAATTTTCAAATTAA-TTTA
1 GTTCGGTTAATAATTTTCAAATAAATTTTA
104821 GTTCGGTTAATAATTTTCAAATAAATTTTA
1 GTTCGGTTAATAATTTTCAAATAAATTTTA
*
104851 GTTCGATTAA
1 GTTCGGTTAA
104861 CCGAACCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
29 24 0.65
30 13 0.35
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.46
Consensus pattern (30 bp):
GTTCGGTTAATAATTTTCAAATAAATTTTA
Found at i:104866 original size:107 final size:105
Alignment explanation
Indices: 104680--104985 Score: 357
Period size: 107 Copynumber: 2.8 Consensus size: 105
104670 AATTCAGTTA
* * *
104680 ATTCGGTTCGGTTAATAATTTTCAAATTAATTCGGTTTGGTTAATAATTTACAAATAAATTTTGG
1 ATTCGGTTCGGTTAATAATTTTCAAATTAATTCGGTTCGGTTAATAATTTTCAAATAAATTTTAG
* * *
104745 TTCGATTAATCGAACGAAATTAACCGAATTTTTGT-TTTGATT
66 TTCGATTAACCGAACCAAATTAACCGAATTTTT-TATTCG--T
**
104787 ATTCGGTTCGGTTAATAATTTTCAAATTAATTTAGTTCGGTTAATAATTTTCAAATAAATTTTAG
1 ATTCGGTTCGGTTAATAATTTTCAAATTAATTCGGTTCGGTTAATAATTTTCAAATAAATTTTAG
*
104852 TTCGATTAACCGAACCAAATTAACTGAATTTTTTATTCGT
66 TTCGATTAACCGAACCAAATTAACCGAATTTTTTATTCGT
** *
104892 -TT-AATTCGGTTAATAATTTTCAAAAAACAATCGGTTAATTCGGTTCGGATAATAATTTTCAAA
1 ATTCGGTTCGGTTAATAATTTTC-----A-AA----TTAATTCGGTTCGGTTAATAATTTTCAAA
*
104955 TAAATTTTAGTTCGATTAACCGAACCGAATT
56 TAAATTTTAGTTCGATTAACCGAACCAAATT
104986 TTTGCTTCCA
Statistics
Matches: 173, Mismatches: 15, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
103 17 0.10
104 2 0.01
105 1 0.01
106 1 0.01
107 93 0.54
108 1 0.01
109 2 0.01
113 56 0.32
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (105 bp):
ATTCGGTTCGGTTAATAATTTTCAAATTAATTCGGTTCGGTTAATAATTTTCAAATAAATTTTAG
TTCGATTAACCGAACCAAATTAACCGAATTTTTTATTCGT
Found at i:105011 original size:65 final size:64
Alignment explanation
Indices: 104935--105153 Score: 210
Period size: 65 Copynumber: 3.4 Consensus size: 64
104925 GTTAATTCGG
* *
104935 TTCGGATAATAATTTTCAAATAAATTTTAGTTCGATTAACCGAACCGAATTTTTGCTTCCATTAA
1 TTCGGTTAATAATTTT-AAAAAAATTTTAGTTCGATTAACCGAACCGAATTTTTGCTTCCATTAA
* * * **** * * *
105000 TTCGGTTAATAATTTTAAAAAAATCGGTTAATTCGGTTATGTTAA--TAATTTTTAACTT-AATT
1 TTCGGTTAATAATTTTAAAAAAAT--TTTAGTTCGATTAACCGAACCGAATTTTT-GCTTCCATT
**
105062 CGG
63 -AA
* *
105065 TTAGGTTAATAATTTTCAAATAAATTTTAGTTCGATTAACCGAACCGAATTTTTGCTTCCATTAA
1 TTCGGTTAATAATTTT-AAAAAAATTTTAGTTCGATTAACCGAACCGAATTTTTGCTTCCATTAA
*
105130 TTCTGTTAATAATTTTAAAAAAAT
1 TTCGGTTAATAATTTTAAAAAAAT
105154 CGGTTAATTC
Statistics
Matches: 115, Mismatches: 31, Indels: 17
0.71 0.19 0.10
Matches are distributed among these distances:
64 36 0.31
65 50 0.43
66 29 0.25
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.42
Consensus pattern (64 bp):
TTCGGTTAATAATTTTAAAAAAATTTTAGTTCGATTAACCGAACCGAATTTTTGCTTCCATTAA
Found at i:105090 original size:29 final size:29
Alignment explanation
Indices: 105029--105090 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
105019 AAAATCGGTT
* * * *
105029 AATTCGGTTATGTTAATAATTTTTAACTT
1 AATTCGGTTAGGTTAATAATTTTCAAATA
105058 AATTCGGTTAGGTTAATAATTTTCAAATA
1 AATTCGGTTAGGTTAATAATTTTCAAATA
105087 AATT
1 AATT
105091 TTAGTTCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.47
Consensus pattern (29 bp):
AATTCGGTTAGGTTAATAATTTTCAAATA
Found at i:105203 original size:65 final size:66
Alignment explanation
Indices: 105003--105219 Score: 221
Period size: 65 Copynumber: 3.3 Consensus size: 66
104993 CCATTAATTC
105003 GGTTAATAATTTT-AAAAAAATCGGTTAATTCGGTTATGTTAATAATTTTTAACTTAATTCGGTT
1 GGTTAATAATTTTCAAAAAAATCGGTTAATTCGGTTATGTTAATAATTTTTAACTTAATTCGGTT
105067 A
66 A
* * * * **** * * * *
105068 GGTTAATAATTTTCAAATAAAT--TTTAGTTCGATTAACCGAACCGAATTTTT-GCTTCCATT-A
1 GGTTAATAATTTTCAAAAAAATCGGTTAATTCGGTTATGTTAA--TAATTTTTAACTT-AATTCG
* *
105129 ATTC
63 GTTA
*
105133 TGTTAATAATTTT-AAAAAAATCGGTTAATTCGGTTATGTTAATAATTTTTAACTTAATTCGGTT
1 GGTTAATAATTTTCAAAAAAATCGGTTAATTCGGTTATGTTAATAATTTTTAACTTAATTCGGTT
105197 A
66 A
*
105198 GGTTAATAATTTTCAAATAAAT
1 GGTTAATAATTTTCAAAAAAAT
105220 TTTGATTCGA
Statistics
Matches: 112, Mismatches: 31, Indels: 17
0.70 0.19 0.11
Matches are distributed among these distances:
64 29 0.26
65 47 0.42
66 36 0.32
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (66 bp):
GGTTAATAATTTTCAAAAAAATCGGTTAATTCGGTTATGTTAATAATTTTTAACTTAATTCGGTT
A
Found at i:105220 original size:29 final size:29
Alignment explanation
Indices: 105159--105220 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
105149 AAAATCGGTT
* * * *
105159 AATTCGGTTATGTTAATAATTTTTAACTT
1 AATTCGGTTAGGTTAATAATTTTCAAATA
105188 AATTCGGTTAGGTTAATAATTTTCAAATA
1 AATTCGGTTAGGTTAATAATTTTCAAATA
105217 AATT
1 AATT
105221 TTGATTCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.47
Consensus pattern (29 bp):
AATTCGGTTAGGTTAATAATTTTCAAATA
Found at i:105245 original size:130 final size:130
Alignment explanation
Indices: 104926--105237 Score: 581
Period size: 130 Copynumber: 2.4 Consensus size: 130
104916 AAACAATCGG
* *
104926 TTAATTCGGTTCGGATAATAATTTTCAAATAAATTTTAGTTCGATTAACCGAACCGAATTTTTGC
1 TTAATTCGGTTAGGTTAATAATTTTCAAATAAATTTTAGTTCGATTAACCGAACCGAATTTTTGC
104991 TTCCATTAATTCGGTTAATAATTTTAAAAAAATCGGTTAATTCGGTTATGTTAATAATTTTTAAC
66 TTCCATTAATTCGGTTAATAATTTTAAAAAAATCGGTTAATTCGGTTATGTTAATAATTTTTAAC
105056 TTAATTCGGTTAGGTTAATAATTTTCAAATAAATTTTAGTTCGATTAACCGAACCGAATTTTTGC
1 TTAATTCGGTTAGGTTAATAATTTTCAAATAAATTTTAGTTCGATTAACCGAACCGAATTTTTGC
*
105121 TTCCATTAATTCTGTTAATAATTTTAAAAAAATCGGTTAATTCGGTTATGTTAATAATTTTTAAC
66 TTCCATTAATTCGGTTAATAATTTTAAAAAAATCGGTTAATTCGGTTATGTTAATAATTTTTAAC
105186 TTAATTCGGTTAGGTTAATAATTTTCAAATAAATTTT-GATTCGATTAACCGA
1 TTAATTCGGTTAGGTTAATAATTTTCAAATAAATTTTAG-TTCGATTAACCGA
105238 GTCGAATTAA
Statistics
Matches: 178, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
129 1 0.01
130 177 0.99
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (130 bp):
TTAATTCGGTTAGGTTAATAATTTTCAAATAAATTTTAGTTCGATTAACCGAACCGAATTTTTGC
TTCCATTAATTCGGTTAATAATTTTAAAAAAATCGGTTAATTCGGTTATGTTAATAATTTTTAAC
Found at i:107127 original size:95 final size:95
Alignment explanation
Indices: 106964--107167 Score: 284
Period size: 95 Copynumber: 2.1 Consensus size: 95
106954 TCATCACACT
* * * ** * *
106964 ATGAAAACTACAATTATTTCACATAACTCTAATATTCTATTACAATCATATCACACATTACATTA
1 ATGAAAACAACAAATATTTCACATAACCCTAATATTCTACAACAATCATACCACACATTACATAA
*
107029 AATGAATTCTCCATCTACATACTTAAGGAG
66 AATGAATTCTCCATCTACATACCTAAGGAG
* *
107059 ATGAAAACAACAAATATTTCACATAACCCTAATATT-TCACAACCATCATACCATACATTACATA
1 ATGAAAACAACAAATATTTCACATAACCCTAATATTCT-ACAACAATCATACCACACATTACATA
107123 AAATGAATTCTCCATCTACATACCTAAGGAG
65 AAATGAATTCTCCATCTACATACCTAAGGAG
* *
107154 ATTAAAATAACAAA
1 ATGAAAACAACAAA
107168 CATGAAATAT
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 1 0.01
95 95 0.99
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (95 bp):
ATGAAAACAACAAATATTTCACATAACCCTAATATTCTACAACAATCATACCACACATTACATAA
AATGAATTCTCCATCTACATACCTAAGGAG
Found at i:118023 original size:3 final size:3
Alignment explanation
Indices: 118008--118074 Score: 109
Period size: 3 Copynumber: 22.7 Consensus size: 3
117998 AGTTAAAAAA
*
118008 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
118055 TAT TAT TAT TAG TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
118075 AGTGTGTTTA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
2 1 0.02
3 58 0.98
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:120312 original size:2 final size:2
Alignment explanation
Indices: 120305--120361 Score: 82
Period size: 2 Copynumber: 29.0 Consensus size: 2
120295 CTATGTCGTT
*
120305 TA TA TA TA TA TA TA -A TA T- TA TCA TA TG TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA
120346 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
120362 ATTAATTTAC
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
1 2 0.04
2 46 0.92
3 2 0.04
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:131931 original size:25 final size:25
Alignment explanation
Indices: 131874--131948 Score: 84
Period size: 25 Copynumber: 3.1 Consensus size: 25
131864 ACTATGCTTG
* *
131874 AAGAAACAAAAA-GAACAAAT-AAA
1 AAGAAAAAAAAATGAAAAAATGAAA
**
131897 AAGATGAAAAAATGAAAAAATGAAA
1 AAGAAAAAAAAATGAAAAAATGAAA
131922 AAGAAAAAAAAAATG-AAAAATGAAA
1 AAG-AAAAAAAAATGAAAAAATGAAA
131947 AA
1 AA
131949 ATGAAATGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
23 9 0.21
24 7 0.16
25 18 0.42
26 9 0.21
ACGTcount: A:0.77, C:0.03, G:0.12, T:0.08
Consensus pattern (25 bp):
AAGAAAAAAAAATGAAAAAATGAAA
Found at i:131932 original size:18 final size:19
Alignment explanation
Indices: 131911--131961 Score: 77
Period size: 18 Copynumber: 2.7 Consensus size: 19
131901 TGAAAAAATG
131911 AAAAAATGAAAAA-GAAAA
1 AAAAAATGAAAAATGAAAA
131929 AAAAAATGAAAAATGAAAA
1 AAAAAATGAAAAATGAAAA
*
131948 AATGAAATGAAAAA
1 AA-AAAATGAAAAA
131962 AATGAAAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 13 0.43
19 7 0.23
20 10 0.33
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (19 bp):
AAAAAATGAAAAATGAAAA
Found at i:131941 original size:33 final size:33
Alignment explanation
Indices: 131894--131963 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 33
131884 AAGAACAAAT
*
131894 AAAAAGATGAAAAAATGAAAAAATGAAAAAGAAA
1 AAAAAAATGAAAAAATGAAAAAATG-AAAAGAAA
*
131928 AAAAAAATG-AAAAATGAAAAAATGAAATGAAA
1 AAAAAAATGAAAAAATGAAAAAATGAAAAGAAA
131960 AAAA
1 AAAA
131964 TGAAAAGAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 15 0.44
34 8 0.24
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (33 bp):
AAAAAAATGAAAAAATGAAAAAATGAAAAGAAA
Found at i:131969 original size:8 final size:8
Alignment explanation
Indices: 131881--131954 Score: 73
Period size: 8 Copynumber: 9.2 Consensus size: 8
131871 TTGAAGAAAC
131881 AAAAA-GA
1 AAAAATGA
*
131888 ACAAAT-A
1 AAAAATGA
131895 AAAAGATGA
1 AAAA-ATGA
131904 AAAAATGA
1 AAAAATGA
131912 AAAAATGAA
1 AAAAATG-A
**
131921 AAAGAAAAA
1 AAA-AATGA
131930 AAAAATG-
1 AAAAATGA
131937 AAAAATGA
1 AAAAATGA
131945 AAAAATGA
1 AAAAATGA
131953 AA
1 AA
131955 TGAAAAAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
7 15 0.27
8 25 0.45
9 13 0.24
10 2 0.04
ACGTcount: A:0.77, C:0.01, G:0.12, T:0.09
Consensus pattern (8 bp):
AAAAATGA
Found at i:133100 original size:91 final size:90
Alignment explanation
Indices: 132984--133151 Score: 284
Period size: 92 Copynumber: 1.9 Consensus size: 90
132974 TGAGGGATTG
132984 ACATTTTCAGGAGAGTTCATAATGAGAAGAACTCATCCAAC-GAGGAAGAAGAAGTTCATAATGA
1 ACATTTTCAGGAGAGTTCATAATGAGAAGAACTCATCCAACAGAGGAAGAAGAAGTTCATAATGA
133048 GAAGAACTTGTTAAACTTCGCATCA
66 GAAGAACTTGTTAAACTTCGCATCA
* *
133073 ACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAAT
1 ACATTTTC-A-GGAGAGTTCATAATGAGAAGAACTCATCCAACAGAGGAAGAAGAAGTTCATAAT
*
133138 GAGAAGAGCTTGTT
64 GAGAAGAACTTGTT
133152 TGACCTATCA
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
89 8 0.11
90 1 0.01
91 31 0.42
92 33 0.45
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (90 bp):
ACATTTTCAGGAGAGTTCATAATGAGAAGAACTCATCCAACAGAGGAAGAAGAAGTTCATAATGA
GAAGAACTTGTTAAACTTCGCATCA
Found at i:133402 original size:105 final size:105
Alignment explanation
Indices: 133209--133601 Score: 520
Period size: 105 Copynumber: 3.7 Consensus size: 105
133199 TGAGGGATAG
* *
133209 ACATTTCCAATGAAGAGTTTATAATGAGAAGAACTCATCATAAAGGAGAAAGTTCAAAATGAGAA
1 ACATTTCC-A-GAAGAGTTCATAATGAGAAGAACTCATCCTAAAGGAGAAAGTTCAAAATGAGAA
*
133274 TAACTTGTTCCTTTCAAATTCACCACAGATGGAGGTGAACCA
64 GAACTTGTTCCTTTCAAATTCACCACAGATGGAGGTGAACCA
*
133316 ACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCAAAATGAGAAGA
1 ACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCTAAAGGAGAAAGTTCAAAATGAGAAGA
133381 ACTTGTTCCTTTCAAATTCACCACAGATGGAGGTGAACCA
66 ACTTGTTCCTTTCAAATTCACCACAGATGGAGGTGAACCA
* * *
133421 ACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAAA
1 ACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCTAAAGGAGAAAGTTCAAAATGAGAAGA
* * * * * * ** * *
133486 ACATGTT-CTTTCTAAGTCCACCGCAAAAGGATTTGGATCA
66 ACTTGTTCCTTTC-AAATTCACCACAGATGGAGGTGAACCA
* * * *
133526 ACATTTCCAAAAGAGTTCATAATGAGAAGAACTCATCC-ACGAGAAAGAAGAAGTTCATAATGAG
1 ACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCTA-AAG-GAG-A-AAGTTCAAAATGAG
133590 AAGAACTTGTTC
62 AAGAACTTGTTC
133602 AATCTAACGA
Statistics
Matches: 258, Mismatches: 22, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
104 6 0.02
105 217 0.84
106 3 0.01
107 9 0.03
108 23 0.09
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (105 bp):
ACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCTAAAGGAGAAAGTTCAAAATGAGAAGA
ACTTGTTCCTTTCAAATTCACCACAGATGGAGGTGAACCA
Found at i:133744 original size:3 final size:3
Alignment explanation
Indices: 133729--133831 Score: 163
Period size: 3 Copynumber: 34.7 Consensus size: 3
133719 AGTTAAAAAA
*
133729 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
133776 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
133824 TAT TAT TA
1 TAT TAT TA
133832 AGTGTGTTTA
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
2 1 0.01
3 90 0.99
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:136077 original size:2 final size:2
Alignment explanation
Indices: 136070--136130 Score: 67
Period size: 2 Copynumber: 32.0 Consensus size: 2
136060 CTATGTCGTT
* *
136070 TA TA TA TA T- TA TA TA -A TA T- TA T- TCA TA TG TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA
136109 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
136131 AATTAATTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
1 4 0.08
2 47 0.90
3 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:136578 original size:17 final size:17
Alignment explanation
Indices: 136556--136601 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
136546 CAGACCAACT
136556 TTTGTCTTAAAAAATGA
1 TTTGTCTTAAAAAATGA
136573 TTTGTCTTAAAAAATGA
1 TTTGTCTTAAAAAATGA
*
136590 TTTTTCTTAAAA
1 TTTGTCTTAAAA
136602 TTATTTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.46
Consensus pattern (17 bp):
TTTGTCTTAAAAAATGA
Found at i:138063 original size:227 final size:227
Alignment explanation
Indices: 137616--138328 Score: 1308
Period size: 228 Copynumber: 3.1 Consensus size: 227
137606 GTTATATTGT
* *
137616 AAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGT-GAAAATATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAA-ATATTTATTATT
*
137680 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAAAATCAAATAATCAAA
65 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
*
137745 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
130 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
137810 AAAAATTGAAACATAAATTACATAACTTTAAAA
195 AAAAATTGAAACATAAATTACATAACTTTAAAA
*
137843 AAAGTATATATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAA-ATATTTATTATT
137908 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
65 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
137973 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-A
130 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
138037 AAAAATTGAAACATAAATTACATAACTTTAAAA
195 AAAAATTGAAACATAAATTACATAACTTTAAAA
138070 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGG-AAAATATTTATTATTA
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAAATATTTATTATTA
* *
138134 T-ATTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAAT
66 TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAAT
138198 AATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
131 AATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
138263 AAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAATTGAAACATAAATTACATAACTTTAAAA
*
138295 AAAGTATATATCATTTTTATAAAAGTGTTCATAC
1 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
138329 GTATAAAAGT
Statistics
Matches: 474, Mismatches: 10, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
224 123 0.26
225 81 0.17
226 3 0.01
227 124 0.26
228 143 0.30
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (227 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAAATATTTATTATTA
TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAAT
AATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
AAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:138400 original size:20 final size:19
Alignment explanation
Indices: 138377--138423 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
138367 CGATATACCA
138377 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
138397 GGTAACAAAATGATAAAGCC
1 GGTAA-AAAATGATAAAACC
138417 GGTAAAA
1 GGTAAAA
138424 CGTTACCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.19, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:138581 original size:20 final size:19
Alignment explanation
Indices: 138558--138604 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
138548 CGATATAACA
138558 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
138578 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
138598 GGTAAAA
1 GGTAAAA
138605 TTATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:140852 original size:21 final size:21
Alignment explanation
Indices: 140828--140871 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
140818 AAGACAATCA
140828 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
140849 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
140870 AG
1 AG
140872 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:142122 original size:6 final size:6
Alignment explanation
Indices: 142098--142201 Score: 84
Period size: 6 Copynumber: 17.3 Consensus size: 6
142088 AGCGGTCGCA
* * * *
142098 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GAAGAT GACA-AT GATGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA-AGAT GAAGAT
* * * * * * * *
142146 GACGAT GAAGCT GACGAT GAAGAT GATGAC GATGAT GATGAT GATGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
142194 GAAGAT GA
1 GAAGAT GA
142202 TGATCCAAAT
Statistics
Matches: 79, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
6 78 0.99
7 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.33, T:0.20
Consensus pattern (6 bp):
GAAGAT
Found at i:142205 original size:12 final size:12
Alignment explanation
Indices: 142101--142201 Score: 112
Period size: 12 Copynumber: 8.4 Consensus size: 12
142091 GGTCGCAGAA
*
142101 GATGAAGCTGAC
1 GATGAAGATGAC
142113 GATGAAGATGAC
1 GATGAAGATGAC
142125 GATGAAGATGAC
1 GATGAAGATGAC
* *
142137 AATGATGATGAC
1 GATGAAGATGAC
*
142149 GATGAAGCTGAC
1 GATGAAGATGAC
*
142161 GATGAAGATGAT
1 GATGAAGATGAC
* * *
142173 GACGATGATGAT
1 GATGAAGATGAC
* *
142185 GATGATGATGAA
1 GATGAAGATGAC
142197 GATGA
1 GATGA
142202 TGATCCAAAT
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 77 1.00
ACGTcount: A:0.39, C:0.08, G:0.33, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:143981 original size:183 final size:182
Alignment explanation
Indices: 143706--144198 Score: 860
Period size: 183 Copynumber: 2.7 Consensus size: 182
143696 GCAATGCTAT
*
143706 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
* *
143771 GTGTCGGTACATTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTGTCGACA
*
143836 TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
143889 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
* * *
143954 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATATGTCGATACGATTTAAAAAAGTATCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTGTCGACA
*
144019 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
* * *
144072 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGAGACTTTATAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
144137 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGTGTCG
144199 GTAATTTTAA
Statistics
Matches: 294, Mismatches: 14, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
183 290 0.99
184 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (182 bp):
CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTGTCGACAT
TTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:145010 original size:13 final size:13
Alignment explanation
Indices: 144992--145019 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
144982 GTTCATCTTG
144992 GAACACACGAAAA
1 GAACACACGAAAA
145005 GAACACACGAAAA
1 GAACACACGAAAA
145018 GA
1 GA
145020 TTCGTGGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.21, G:0.18, T:0.00
Consensus pattern (13 bp):
GAACACACGAAAA
Found at i:146708 original size:25 final size:25
Alignment explanation
Indices: 146680--146744 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
146670 TTATCATTAA
146680 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
146705 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
146730 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
146745 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:147121 original size:23 final size:23
Alignment explanation
Indices: 147090--147162 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
147080 ATAGATAAAC
*
147090 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
147113 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
147136 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
147159 ATAT
1 ATAT
147163 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:147187 original size:46 final size:45
Alignment explanation
Indices: 147090--147187 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 45
147080 ATAGATAAAC
* * *
147090 ATATGATGTAATAGGTAGCGCTTATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTTATAT-ATGTAATATCTATCCTTT
* *
147136 ATATAATGTAATAGGTAGTGGTTATAT-TGTAAAGTATCTATCCTTT
1 ATATAATGTAATAGGTAGCGCTTATATATGT-AA-TATCTATCCTTT
*
147182 TTATAA
1 ATATAA
147188 AAGTGTCCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
44 3 0.07
45 2 0.05
46 39 0.89
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (45 bp):
ATATAATGTAATAGGTAGCGCTTATATATGTAATATCTATCCTTT
Found at i:147611 original size:18 final size:18
Alignment explanation
Indices: 147590--147626 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
147580 GTAATTGGAG
147590 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
147608 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
147626 T
1 T
147627 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:147634 original size:24 final size:24
Alignment explanation
Indices: 147582--147628 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
147572 TTTCATATGT
* *
147582 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
147606 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
147629 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:147921 original size:39 final size:39
Alignment explanation
Indices: 147878--147964 Score: 122
Period size: 39 Copynumber: 2.2 Consensus size: 39
147868 TCCGATGCTC
*
147878 ATCAAAATCCAAAGCTA-ATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGC-ACATATGATGCCAAGCAAAAGGAA
* * *
147917 ATCAAAATTCAAATCACATATGATGCCAAGCAAAATGAA
1 ATCAAAATCCAAAGCACATATGATGCCAAGCAAAAGGAA
147956 ATCAAAATC
1 ATCAAAATC
147965 TACAACTTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
38 1 0.02
39 41 0.98
ACGTcount: A:0.51, C:0.18, G:0.13, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCACATATGATGCCAAGCAAAAGGAA
Found at i:148409 original size:23 final size:23
Alignment explanation
Indices: 148378--148450 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
148368 ATAGGTAAAA
*
148378 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
148401 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
148424 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
148447 ATAT
1 ATAT
148451 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:148828 original size:23 final size:23
Alignment explanation
Indices: 148802--148874 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
148792 GTAGGTAAAA
*
148802 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
148825 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
148848 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
148871 ATAT
1 ATAT
148875 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:149022 original size:424 final size:427
Alignment explanation
Indices: 148176--150497 Score: 4228
Period size: 424 Copynumber: 5.5 Consensus size: 427
148166 GTTAATGTTG
148176 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
*
148241 TGAAATTATTAAATTAATATTGTAGGTGTAAAACATGAAACACTATTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
* *
148306 ATTACATAACTTTAAAAGAAGTATCAATCATTTTTATAAAAAGTATGGACACTTTCAATATAATA
131 ATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
148371 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
196 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
* *
148436 AGGTAGTGGTTATATTGTAAAGTATCT-TCCTTTTTATAAAAGTGTTCATACTTTTTTCACTGTG
261 AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
*
148500 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAATAATTATAGGCG
326 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
148565 TCTAATGATTTATTTTTACGTTACG-ATATATATATTA
391 TCTAATGATTTATTTTTACGTTACGAATATAT-TATTA
148602 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAA-AATCAAATAA-TTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
148665 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
*
148730 ATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAGTA
131 ATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
148795 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
196 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
148860 AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
261 AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
* *
148925 GAAAACATTAATTTAATGTTATCTTTTAAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
326 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
*
148990 TCTAATGATTTATTTTTTACGTTATGATATATATTATTA
391 TCTAATGATTTA-TTTTTACGTTACGA-ATATATTATTA
149029 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
* *
149094 TGAAATTATTAAATTAATATTATAGGTGAAAAACATGAAACACTATTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
* * *
149159 ATTAAATAACTTTAAAATAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAATA
131 ATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
149224 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCG-TT-TATAA--TAAT
196 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
149285 AGGTAGTGGTTATATTGTAAAGTGTCTATCC-TTTTATAAAAGTGTCCATACTTTTTTCACTGTG
261 AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
149349 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
326 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
149414 TCTAATGA-TTATTTTTACGTTACG-ATATATTATTA
391 TCTAATGATTTATTTTTACGTTACGAATATATTATTA
*
149449 TTAAATTAAAAATTCTAAATAATATTTTAT-AAATATCAAAAAATCAAATAA-TTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
149512 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
149577 ATTACATAACTTTAAAAGAAGTATCGATCCTTTTTAATAAAAAAGTATGGACACTTTCAATATAA
131 ATTACATAACTTTAAAAGAAGTATCGATCCTTTTT-AT-AAAAAGTATGGACACTTTCAATATAA
149642 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
194 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
* * *
149707 ATAGGTAGTGGTAATATTGTAAAGTGTCTATCATTTTTATAAAAGTGTCAATACTTTTTTCACTG
259 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
*
149772 TGGAAAACATTAATTTAAGGTTATCTTTTGTGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
324 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
149837 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
389 CGTCTAATGATTTA-TTTTTACGTTACGA-ATATATTATTA
149878 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
149943 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATA
* *
150008 AATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGAACACTTTCAATATAAT
130 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
150073 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
195 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
* *
150138 TAGGTAGTGGTTATATTGTAATGTGTCTATCCTTTTTATAAAAGTGTACATACTTTTTTCACTGT
260 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
150203 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
325 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
150268 GTCTAATGA-TTATTTTTACGTTACG-ATATA-TATTA
390 GTCTAATGATTTATTTTTACGTTACGAATATATTATTA
150303 TTAAATT-AAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
150367 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATA
150432 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
130 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
150497 A
195 A
150498 TAATGTAATA
Statistics
Matches: 1836, Mismatches: 40, Indels: 42
0.96 0.02 0.02
Matches are distributed among these distances:
418 108 0.06
419 22 0.01
420 118 0.06
421 2 0.00
422 17 0.01
423 3 0.00
424 552 0.30
425 271 0.15
426 61 0.03
427 64 0.03
428 31 0.02
429 230 0.13
430 244 0.13
431 61 0.03
432 52 0.03
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.39
Consensus pattern (427 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
ATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
TCTAATGATTTATTTTTACGTTACGAATATATTATTA
Found at i:149262 original size:23 final size:22
Alignment explanation
Indices: 149231--149299 Score: 72
Period size: 23 Copynumber: 3.2 Consensus size: 22
149221 ATAGGTAAAA
*
149231 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCG-TT
*
149254 ATATAATGTAATAGGTATCGTT
1 ATATAATGTAATAGGTAGCGTT
*
149276 -TATAA--TAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAG-CGTT
149296 ATAT
1 ATAT
149300 TGTAAAGTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 9 0.22
20 3 0.08
21 8 0.20
22 2 0.05
23 18 0.45
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (22 bp):
ATATAATGTAATAGGTAGCGTT
Found at i:149497 original size:29 final size:29
Alignment explanation
Indices: 149440--149504 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
149430 ACGTTACGAT
*
149440 ATATTATTATTAAATTAAAAATTCTAAATA
1 ATATT-TTATTAAATTAAAAAATCTAAATA
149470 ATATTTTA-TAAATATCAAAAAATC-AAATA
1 ATATTTTATTAAAT-T-AAAAAATCTAAATA
149499 AT-TTTT
1 ATATTTT
149505 GTGCAAATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
28 9 0.28
29 11 0.34
30 12 0.38
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (29 bp):
ATATTTTATTAAATTAAAAAATCTAAATA
Found at i:149682 original size:23 final size:23
Alignment explanation
Indices: 149651--149714 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
149641 ATAGGTAAAA
*
149651 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
149674 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
149697 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
149715 TGGTAATATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:149723 original size:23 final size:23
Alignment explanation
Indices: 149650--149723 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
149640 AATAGGTAAA
* *
149650 AATATGATGTAATAGGTAGCGCT
1 AATATAATGTAATAGGTAGTGCT
* *
149673 TATATAATGTAATAGGTA-TCGTT
1 AATATAATGTAATAGGTAGT-GCT
* *
149696 TATATAATGTAATAGGTAGTGGT
1 AATATAATGTAATAGGTAGTGCT
149719 AATAT
1 AATAT
149724 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (23 bp):
AATATAATGTAATAGGTAGTGCT
Found at i:149817 original size:849 final size:852
Alignment explanation
Indices: 148176--150497 Score: 4302
Period size: 849 Copynumber: 2.7 Consensus size: 852
148166 GTTAATGTTG
148176 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
*
148241 TGAAATTATTAAATTAATATTGTAGGTGTAAAACATGAAACACTATTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTAAAAAAATTGAAACATAA
* *
148306 ATTACATAACTTTAAAAGAAGTATCAATCATTTTTATAAAAAGTATGGACACTTTCAATATAATA
131 ATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGAACACTTTCAATATAATA
148371 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
196 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAA-GTAAT
* *
148436 AGGTAGTGGTTATATTGTAAAGTATCT-TCCTTTTTATAAAAGTGTTCATACTTTTTTCACTGTG
260 AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTACATACTTTTTTCACTGTG
*
148500 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAATAATTATAGGCG
325 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
148565 TCTAATGATTTATTTTTACGTTACGATATATATATTATTAAATTAAAAATTCTAAATAATATTTT
390 TCTAATGA-TTATTTTTACGTTACGATATAT-TATTATTAAATTAAAAATTCTAAATAATATTTT
148630 ATAAAATATC-AAAAATCAAATAATTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGG
453 ATAAAATATCAAAAAATCAAATAATTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGG
148694 AAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATC
518 AAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATC
*
148759 CTTTTTATAAAAAGTATGGACACTTTCAATATAGTAGGTAAAAATATGATGTAATAGGTAGCGCT
583 CTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCT
*
148824 TATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTAT
648 TATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTAATATTGTAAAGTGTCTAT
* * *
148889 CCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAATGTTATCTTTTAA
713 CATTTTTATAAAAGTGTCAATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTAA
*
148954 GTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTATGATA
778 GTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATA
149019 TATATTATTA
843 TATATTATTA
149029 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
*
149094 TGAAATTATTAAATTAATATTATAGGTGAAAAACATGAAACACTATTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTAAAAAAATTGAAACATAA
* * *
149159 ATTAAATAACTTTAAAATAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAATA
131 ATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGAACACTTTCAATATAATA
149224 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCG-TT-TATAA-TAATA
196 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAAGTAATA
*
149286 GGTAGTGGTTATATTGTAAAGTGTCTATCC-TTTTATAAAAGTGTCCATACTTTTTTCACTGTGG
261 GGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTACATACTTTTTTCACTGTGG
149350 AAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGT
326 AAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGT
149415 CTAATGATTATTTTTACGTTACGATATATTATTATTAAATTAAAAATTCTAAATAATATTTTAT-
391 CTAATGATTATTTTTACGTTACGATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATA
149479 AAATATCAAAAAATCAAATAATTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAA
456 AAATATCAAAAAATCAAATAATTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAA
149544 ACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTT
521 ACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTT
149609 TTTAATAAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
586 TTT-AT-AAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
149674 ATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTAATATTGTAAAGTGTCTATC
649 ATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTAATATTGTAAAGTGTCTATC
**
149739 ATTTTTATAAAAGTGTCAATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGTG
714 ATTTTTATAAAAGTGTCAATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTAAG
149804 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATAT
779 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATAT
149869 ATATTATTA
844 ATATTATTA
149878 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
*
149943 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATT-AAAAAAATTGAAACATA
150008 AATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGAACACTTTCAATATAAT
130 AATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGAACACTTTCAATATAAT
150073 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
195 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAA-GTAA
*
150138 TAGGTAGTGGTTATATTGTAATGTGTCTATCCTTTTTATAAAAGTGTACATACTTTTTTCACTGT
259 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTACATACTTTTTTCACTGT
150203 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
324 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
150268 GTCTAATGATTATTTTTACGTTACGATATA-TATTATTAAATT-AAAATTCTAAATAATATTTTA
389 GTCTAATGATTATTTTTACGTTACGATATATTATTATTAAATTAAAAATTCTAAATAATATTTTA
*
150331 TAAAATATCAAATAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGG
454 TAAAATATCAAAAAATCAAATAA-TTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGG
150396 AAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGAT
518 AAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGAT
150461 CCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
582 CCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
150498 TAATGTAATA
Statistics
Matches: 1430, Mismatches: 26, Indels: 25
0.97 0.02 0.02
Matches are distributed among these distances:
846 7 0.00
847 160 0.11
848 24 0.02
849 498 0.35
850 133 0.09
851 7 0.00
852 7 0.00
853 260 0.18
854 94 0.07
855 187 0.13
856 53 0.04
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.39
Consensus pattern (852 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
TGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTAAAAAAATTGAAACATAA
ATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGAACACTTTCAATATAATA
GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAAGTAATA
GGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTACATACTTTTTTCACTGTGG
AAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGT
CTAATGATTATTTTTACGTTACGATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATA
AAATATCAAAAAATCAAATAATTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAA
ACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTT
TTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTAT
ATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTAATATTGTAAAGTGTCTATCAT
TTTTATAAAAGTGTCAATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTAAGTG
AGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATAT
ATTATTA
Found at i:150112 original size:23 final size:23
Alignment explanation
Indices: 150081--150153 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
150071 ATAGGTAAAA
*
150081 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
150104 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
150127 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
150150 ATAT
1 ATAT
150154 TGTAATGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:150593 original size:23 final size:23
Alignment explanation
Indices: 150564--150611 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
150554 AAATAGGTAA
*
150564 ATATAAGCGCTACCTATTATATT
1 ATATAAGCGCTACCTAGTATATT
*
150587 ATATAAGCGCTACCTAGTATGTT
1 ATATAAGCGCTACCTAGTATATT
150610 AT
1 AT
150612 TGTACTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (23 bp):
ATATAAGCGCTACCTAGTATATT
Found at i:152718 original size:18 final size:18
Alignment explanation
Indices: 152687--152721 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
152677 GGAATTCACT
*
152687 TGTGTTATTGGAAATCTC
1 TGTGTGATTGGAAATCTC
*
152705 TGTGTGATTTGAAATCT
1 TGTGTGATTGGAAATCT
152722 GATGGAGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.09, G:0.23, T:0.46
Consensus pattern (18 bp):
TGTGTGATTGGAAATCTC
Found at i:156258 original size:12 final size:11
Alignment explanation
Indices: 156241--156293 Score: 61
Period size: 12 Copynumber: 4.5 Consensus size: 11
156231 ACAAGAAAAT
156241 AAAGAAGATTA
1 AAAGAAGATTA
* *
156252 AAGAGAAAAGTA
1 AA-AGAAGATTA
156264 AAAGAAGATTA
1 AAAGAAGATTA
156275 AGAAGAAGATGTA
1 A-AAGAAGAT-TA
156288 AAAGAA
1 AAAGAA
156294 ATAAATTCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 10 0.29
12 22 0.63
13 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.23, T:0.13
Consensus pattern (11 bp):
AAAGAAGATTA
Found at i:156269 original size:23 final size:23
Alignment explanation
Indices: 156233--156293 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
156223 AAATAAAAAC
156233 AAGAAAA-T-AAAGAAGATTAA-
1 AAGAAAAGTAAAAGAAGATTAAG
156253 AGAGAAAAGTAAAAGAAGATTAAG
1 A-AGAAAAGTAAAAGAAGATTAAG
*
156277 AAGAAGATGTAAAAGAA
1 AAGAA-AAGTAAAAGAA
156294 ATAAATTCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
20 1 0.03
21 6 0.17
22 1 0.03
23 16 0.46
24 11 0.31
ACGTcount: A:0.66, C:0.00, G:0.21, T:0.13
Consensus pattern (23 bp):
AAGAAAAGTAAAAGAAGATTAAG
Found at i:164327 original size:21 final size:21
Alignment explanation
Indices: 164273--164320 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
164263 GGCTTTGGAA
* * * *
164273 TTTCTCATAAGAAGTAACCAG
1 TTTCTCCTAGGAAGCAACAAG
164294 TTTCTCCTAGGAAGCAACAAG
1 TTTCTCCTAGGAAGCAACAAG
164315 TTTCTC
1 TTTCTC
164321 TTGGGAAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (21 bp):
TTTCTCCTAGGAAGCAACAAG
Found at i:165722 original size:18 final size:18
Alignment explanation
Indices: 165694--165736 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
165684 CTTCTTATTT
*
165694 TTTACTTTAATTACTTTTA
1 TTTA-TTTAATCACTTTTA
*
165713 TTTATTTAATCGCTTTTA
1 TTTATTTAATCACTTTTA
165731 -TTATTT
1 TTTATTT
165737 TAATATCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
18 12 0.55
19 4 0.18
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTATTTAATCACTTTTA
Found at i:174371 original size:23 final size:23
Alignment explanation
Indices: 174326--174371 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
174316 TTCTTATTTT
* *
174326 ACTTTAATTACTTTTATTTAATC
1 ACTTTAATTACTTTTACTAAATC
174349 ACTTT-ATTATCTTTTACTAAATC
1 ACTTTAATTA-CTTTTACTAAATC
174372 CCCCATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.54
Consensus pattern (23 bp):
ACTTTAATTACTTTTACTAAATC
Found at i:177230 original size:13 final size:12
Alignment explanation
Indices: 177198--177231 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
177188 AATTCTGTTA
*
177198 TATTTTTATTTT
1 TATTTTTTTTTT
*
177210 TATTTTTTCTTT
1 TATTTTTTTTTT
177222 TATTTTTTTT
1 TATTTTTTTT
177232 CCGATTAAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (12 bp):
TATTTTTTTTTT
Found at i:181694 original size:18 final size:18
Alignment explanation
Indices: 181666--181710 Score: 74
Period size: 18 Copynumber: 2.5 Consensus size: 18
181656 TCTTCTTATT
181666 TTTACTTTAATTGCTTTTA
1 TTTA-TTTAATTGCTTTTA
181685 TTTATTTAATTGCTTTTA
1 TTTATTTAATTGCTTTTA
181703 -TTATTTAA
1 TTTATTTAA
181711 ATATATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 8 0.31
18 14 0.54
19 4 0.15
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.64
Consensus pattern (18 bp):
TTTATTTAATTGCTTTTA
Found at i:187022 original size:3 final size:3
Alignment explanation
Indices: 187014--187039 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
187004 TAAAAAGGTA
187014 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
187040 GAGAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:187197 original size:21 final size:21
Alignment explanation
Indices: 187173--187269 Score: 74
Period size: 21 Copynumber: 4.7 Consensus size: 21
187163 TATCGCAAAT
187173 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
187194 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
* ** **
187214 TCGCGTTACGACT--TTTCATT
1 TCGCGTTGCGA-TAGTTGAAAA
187234 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
187255 TCGCGTTGCGATAGT
1 TCGCGTTGCGATAGT
187270 CTATAATGTC
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
19 1 0.02
20 29 0.48
21 31 0.51
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:187219 original size:20 final size:19
Alignment explanation
Indices: 187194--187245 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 19
187184 TAGTTGAAAA
187194 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTT-CATT
*
187214 TCGCGTTACGACTTTTCATT
1 TCGCGTTGCGA-TTTTCATT
187234 TCGCGTTGCGAT
1 TCGCGTTGCGAT
187246 AGTTGAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 1 0.03
20 24 0.83
21 4 0.14
ACGTcount: A:0.12, C:0.25, G:0.21, T:0.42
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:187302 original size:61 final size:60
Alignment explanation
Indices: 187170--187309 Score: 149
Period size: 61 Copynumber: 2.3 Consensus size: 60
187160 CACTATCGCA
** * *
187170 AATTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTACGACTTTTC
1 AATTC-CGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCCATATCGCATTACGACTTTTC
* * * *
187231 ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTATAAT-GTCATTGCGATTTTTC
1 AATTC-CGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCCAT-ATCG-CATTACGACTTTTC
187293 AAATT-CGTTGCGATAGT
1 -AATTCCGTTGCGATAGT
187310 CTACAGTTGT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
61 52 0.78
62 12 0.18
63 3 0.04
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (60 bp):
AATTCCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCCATATCGCATTACGACTTTTC
Found at i:188781 original size:37 final size:37
Alignment explanation
Indices: 188684--189051 Score: 274
Period size: 37 Copynumber: 10.0 Consensus size: 37
188674 GCAAACGGTC
* *
188684 TTTGAAAATACT-TATAATATACATAATTTTTGAAAACA-T
1 TTTGAAAATA-TATATAATAT--ATAGTTTTT-AAAATATT
* *
188723 TTTGAAAATGTATATAATATATAGTTTTAAAAATATTT
1 TTTGAAAATATATATAATATATAGTTTTTAAAATA-TT
* * *
188761 TTTGAAAA-CTATATAGTATATAGTTTTTAAAACATT
1 TTTGAAAATATATATAATATATAGTTTTTAAAATATT
*
188797 TTAGAAAATATATATAATATATAGTTTTTAAAATCATT
1 TTTGAAAATATATATAATATATAGTTTTTAAAAT-ATT
* * *
188835 TTTGAAAATTTATATAATATATAG-TTTT-GAATTTT
1 TTTGAAAATATATATAATATATAGTTTTTAAAATATT
* * * * * *
188870 TTTAAAACATTTAAATATTATATAATTTTTGAAAA-ACAT
1 TTTGAAA-ATATATATAATATATAGTTTTT-AAAATA-TT
* **
188909 TTT-AAAA-ATATATAATATATAATTTTTAAAACGTT
1 TTTGAAAATATATATAATATATAGTTTTTAAAATATT
* * *
188944 TCTGAAAATATATAT--TATAAAGTTTTTAAAATGTT
1 TTTGAAAATATATATAATATATAGTTTTTAAAATATT
* * * *
188979 TTTAAAAACATGTATAATATATAGTTTTTAAAAGCA-T
1 TTTGAAAATATATATAATATATAGTTTTTAAAA-TATT
* * * *
189016 TTTGGAAATTTATATATTACATA-TTTTTGAAAATAT
1 TTTGAAAATATATATAATATATAGTTTTT-AAAATAT
189052 ATATATATAT
Statistics
Matches: 264, Mismatches: 47, Indels: 38
0.76 0.13 0.11
Matches are distributed among these distances:
35 43 0.16
36 58 0.22
37 102 0.39
38 38 0.14
39 23 0.09
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.46
Consensus pattern (37 bp):
TTTGAAAATATATATAATATATAGTTTTTAAAATATT
Found at i:188804 original size:74 final size:72
Alignment explanation
Indices: 188696--189051 Score: 308
Period size: 74 Copynumber: 4.8 Consensus size: 72
188686 TGAAAATACT
* * *
188696 TATAATATACATAATTTTTGAAAACATTTTGAAAATGTATATAATATATAGTTTTAAAAATATTT
1 TATAATAT--ATAGTTTTT-AAAACATTTTGAAAATTTATATATTATATAGTTTTAAAAATA-TT
188761 TTTGAAAACTA
62 TTTGAAAACTA
* * * *
188772 TATAGTATATAGTTTTTAAAACATTTTAGAAAATATATATAATATATAGTTTTTAAAATCATTTT
1 TATAATATATAGTTTTTAAAACATTTT-GAAAATTTATATATTATATAGTTTTAAAAAT-ATTTT
*
188837 TGAAAATTTA
64 TGAAAA-CTA
* *** * * * *
188847 TATAATATATAG-TTTTGAATTTTTTTAAAACATTTAAATATTATATAATTTTTGAAAAACA-TT
1 TATAATATATAGTTTTTAAAACATTTTGAAA-ATTTATATATTATAT-AGTTTT-AAAAATATTT
*
188910 TT-AAAAATA
63 TTGAAAACTA
* * * * *
188919 TATAATATATAATTTTTAAAACGTTTCTGAAAA--TATATATTATAAAGTTTTTAAAATGTTTTT
1 TATAATATATAGTTTTTAAAACATTT-TGAAAATTTATATATTATATAGTTTTAAAAATATTTTT
* *
188982 AAAAACATG
65 GAAAAC-TA
* * * *
188991 TATAATATATAGTTTTTAAAAGCATTTTGGAAATTTATATATTACATATTTTTGAAAATAT
1 TATAATATATAGTTTTTAAAA-CATTTTGAAAATTTATATATTATATAGTTTTAAAAATAT
189052 ATATATATAT
Statistics
Matches: 226, Mismatches: 40, Indels: 30
0.76 0.14 0.10
Matches are distributed among these distances:
69 4 0.02
70 9 0.04
71 14 0.06
72 39 0.17
73 31 0.14
74 98 0.43
75 20 0.09
76 11 0.05
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.46
Consensus pattern (72 bp):
TATAATATATAGTTTTTAAAACATTTTGAAAATTTATATATTATATAGTTTTAAAAATATTTTTG
AAAACTA
Found at i:188897 original size:29 final size:29
Alignment explanation
Indices: 188864--188924 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
188854 TATAGTTTTG
** *
188864 AATTTTTTTAAAACA-TTTAAATATTATAT
1 AATTTTTGAAAAACATTTTAAA-AATATAT
188893 AATTTTTGAAAAACATTTTAAAAATATAT
1 AATTTTTGAAAAACATTTTAAAAATATAT
188922 AAT
1 AAT
188925 ATATAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 22 0.79
30 6 0.21
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (29 bp):
AATTTTTGAAAAACATTTTAAAAATATAT
Found at i:189072 original size:3 final size:3
Alignment explanation
Indices: 189064--189113 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
189054 ATATATATAG
* *
189064 TAT TAT TAT TAT TAT TAT TATT TAT TTT TAT T-T TATT TCT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TA-T TAT TAT TAT
189110 TAT T
1 TAT T
189114 TATGCTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 33 0.82
4 5 0.12
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (3 bp):
TAT
Found at i:189634 original size:20 final size:21
Alignment explanation
Indices: 189601--189647 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
189591 ATACAACCAG
*
189601 AACA-CAAAATAAACCAAAAC
1 AACAGCAAAATAAACAAAAAC
189621 AACAGCAAAA-AAACAAAAAC
1 AACAGCAAAATAAACAAAAAC
*
189641 AAAAGCA
1 AACAGCA
189648 GACAGCCCCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.72, C:0.21, G:0.04, T:0.02
Consensus pattern (21 bp):
AACAGCAAAATAAACAAAAAC
Found at i:191099 original size:20 final size:21
Alignment explanation
Indices: 191057--191109 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
191047 AAAAAATTAG
191057 TTTTTTAATATATGAAAATAAAT
1 TTTTTTAA-A-ATGAAAATAAAT
*
191080 TTTTTTAAAATTAAAA-AAAT
1 TTTTTTAAAATGAAAATAAAT
* *
191100 ATTTTCAAAA
1 TTTTTTAAAA
191110 AAAGAATGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 12 0.44
21 6 0.22
22 1 0.04
23 8 0.30
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
TTTTTTAAAATGAAAATAAAT
Found at i:193479 original size:15 final size:15
Alignment explanation
Indices: 193459--193493 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
193449 GCGAGAAGAA
193459 CGAGGCATTCGTCAT
1 CGAGGCATTCGTCAT
*
193474 CGAGGCATTCGTTAT
1 CGAGGCATTCGTCAT
193489 CGAGG
1 CGAGG
193494 AATGACGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.26
Consensus pattern (15 bp):
CGAGGCATTCGTCAT
Found at i:194442 original size:17 final size:17
Alignment explanation
Indices: 194420--194452 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
194410 AGAACTTTGA
*
194420 AAAATATGTAAACAAAT
1 AAAATATGCAAACAAAT
194437 AAAATATGCAAACAAA
1 AAAATATGCAAACAAA
194453 AATGAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.09, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAATATGCAAACAAAT
Found at i:194486 original size:17 final size:17
Alignment explanation
Indices: 194463--194509 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
194453 AATGAAAAAT
*
194463 ATTTAATTAAAAATAAC
1 ATTTAATTAAAAATAAA
*
194480 TTTTAATT-AAAATAAA
1 ATTTAATTAAAAATAAA
194496 ATTTAATTTAAAAA
1 ATTTAA-TTAAAAA
194510 ATTCATTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 12 0.48
17 9 0.36
18 4 0.16
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTAATTAAAAATAAA
Found at i:194493 original size:16 final size:16
Alignment explanation
Indices: 194463--194508 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
194453 AATGAAAAAT
*
194463 ATTTAATTAAAAATAAC
1 ATTTAATT-AAAATAAA
*
194480 TTTTAATTAAAATAAA
1 ATTTAATTAAAATAAA
194496 ATTTAATTTAAAA
1 ATTTAA-TTAAAA
194509 AATTCATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTTAATTAAAATAAA
Found at i:194713 original size:32 final size:33
Alignment explanation
Indices: 194661--194750 Score: 119
Period size: 32 Copynumber: 2.8 Consensus size: 33
194651 TTGATATTTA
*
194661 TAAAAAAATATGTTTTTTTTTGAAATTTGGAAT
1 TAAAAAAATATGTTATTTTTTGAAATTTGGAAT
* * * *
194694 T-AAAGAATATGTTAATTTTTGAAATTTGTATT
1 TAAAAAAATATGTTATTTTTTGAAATTTGGAAT
*
194726 TAAAAAAATACGTTATTTTTTGAAA
1 TAAAAAAATATGTTATTTTTTGAAA
194751 ATTTTAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
32 27 0.56
33 21 0.44
ACGTcount: A:0.41, C:0.01, G:0.11, T:0.47
Consensus pattern (33 bp):
TAAAAAAATATGTTATTTTTTGAAATTTGGAAT
Found at i:195733 original size:22 final size:22
Alignment explanation
Indices: 195705--195748 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
195695 AAGCACAGTT
*
195705 AAAAAAACATAGTTACAGTACA
1 AAAAAAACATAGTTACAATACA
*
195727 AAAAAAACCTAGTTACAATACA
1 AAAAAAACATAGTTACAATACA
195749 TAATATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.59, C:0.16, G:0.07, T:0.18
Consensus pattern (22 bp):
AAAAAAACATAGTTACAATACA
Found at i:198752 original size:2 final size:2
Alignment explanation
Indices: 198745--198778 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
198735 CATTAAAATA
198745 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
198779 TAAACAATAT
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):
AT
Found at i:201106 original size:61 final size:66
Alignment explanation
Indices: 200990--201127 Score: 171
Period size: 68 Copynumber: 2.1 Consensus size: 66
200980 TTGATATTTA
* *
200990 TTATCTTTTTAAAATTTAAATATTAAAAAGATATCAATATCTTTTCGAATGTTTTAAATTAAAAG
1 TTATCTTTTTAAAATTTAAATATTAAAAAGATATC---ATCTTTTCAAATATTTTAAATTAAAAG
201055 ATAC
63 ATAC
*
201059 TTAT-TTTTTAAAATTTAAATATTAAAAAGAT-TC-T-TTTT-AAATATTTTAAATTAAAAAACT
1 TTATCTTTTTAAAATTTAAATATTAAAAAGATATCATCTTTTCAAATATTTTAAATTAAAAGA-T
201119 A-
65 AC
201120 TTATCTTT
1 TTATCTTT
201128 AAAGAGTTTG
Statistics
Matches: 64, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
61 21 0.33
62 9 0.14
63 1 0.02
67 2 0.03
68 27 0.42
69 4 0.06
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (66 bp):
TTATCTTTTTAAAATTTAAATATTAAAAAGATATCATCTTTTCAAATATTTTAAATTAAAAGATA
C
Found at i:202190 original size:87 final size:87
Alignment explanation
Indices: 202077--202251 Score: 296
Period size: 87 Copynumber: 2.0 Consensus size: 87
202067 CATTTATAGA
** *
202077 CCGGTTTTGTCATTTGTTTACCTGTTATATTGTTATGGATTGATACATTTTTATAAAGTATCGAC
1 CCGGTTTTGTCATTTGTTTACCTGTTATATTGTTATAAATCGATACATTTTTATAAAGTATCGAC
202142 ACTTTCAATATATCCGGTAGCG
66 ACTTTCAATATATCCGGTAGCG
* *
202164 CCGGTTTTGTCATTTTTTTATCTGTTATATTGTTATAAATCGATACATTTTTATAAAGTATCGAC
1 CCGGTTTTGTCATTTGTTTACCTGTTATATTGTTATAAATCGATACATTTTTATAAAGTATCGAC
*
202229 ACTTTCAATATATTCGGTAGCG
66 ACTTTCAATATATCCGGTAGCG
202251 C
1 C
202252 TTTACATATT
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 82 1.00
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (87 bp):
CCGGTTTTGTCATTTGTTTACCTGTTATATTGTTATAAATCGATACATTTTTATAAAGTATCGAC
ACTTTCAATATATCCGGTAGCG
Found at i:202374 original size:110 final size:111
Alignment explanation
Indices: 202168--202452 Score: 446
Period size: 110 Copynumber: 2.6 Consensus size: 111
202158 GTAGCGCCGG
* **
202168 TTTTGTCATTTTTTTATCTGTTATATTGTTATAAATCGATACATTTTTATAAAGTATCGACACTT
1 TTTTGTCA-TTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
*
202233 TCAATATATTCGGTAGCGCTTTACATATTTTGTCATTTATAGACCAA
65 TCAATATATCCGGTAGCGCTTTACATATTTTGTCATTTATAGACCAA
202280 TTTTGTCA-TTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
1 TTTTGTCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
* * * **
202344 TAATATATCCGGTAGCGCTTTACTTGTTTTGTCATTTATAGACCGG
66 CAATATATCCGGTAGCGCTTTACATATTTTGTCATTTATAGACCAA
* *
202390 TTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTTATAAAGTATCGACAC
1 TTTTGTCA-TTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACAC
202453 AAACCGACAA
Statistics
Matches: 160, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
110 101 0.63
112 59 0.37
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (111 bp):
TTTTGTCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
CAATATATCCGGTAGCGCTTTACATATTTTGTCATTTATAGACCAA
Found at i:203613 original size:53 final size:53
Alignment explanation
Indices: 203553--203721 Score: 128
Period size: 53 Copynumber: 3.1 Consensus size: 53
203543 CTTTTTAAGG
* *
203553 AAAATAAATTATTTTATTTATCTTCTTATGAATCTTGAATGATTCTATTTTGT
1 AAAATAAATTATTTAATTTATCTTCTTATGAATCTTGAATGATTCTATTTTAT
* * * *
203606 AAAATAAA--AATAAATGGTTGATTTCTTTTTCATTGAAATCTTGAATGATTCTATTTTTTT
1 AAAATAAATTATTTAAT--TT-A--TCTTCTT-A-TG-AATCTTGAATGATTCTA-TTTTAT
* * * * * *
203666 TAAA-AAATTGTTAAATTTATTTTCTTAGGAATTTTGAATGATTCTATTTTAT
1 AAAATAAATTATTTAATTTATCTTCTTATGAATCTTGAATGATTCTATTTTAT
203718 AAAA
1 AAAA
203722 AGAAATAAAT
Statistics
Matches: 91, Mismatches: 14, Indels: 23
0.71 0.11 0.18
Matches are distributed among these distances:
51 4 0.04
52 8 0.09
53 26 0.29
54 2 0.02
55 1 0.01
56 11 0.12
57 1 0.01
58 3 0.03
59 22 0.24
60 8 0.09
61 5 0.05
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.50
Consensus pattern (53 bp):
AAAATAAATTATTTAATTTATCTTCTTATGAATCTTGAATGATTCTATTTTAT
Found at i:203745 original size:58 final size:58
Alignment explanation
Indices: 203554--203857 Score: 208
Period size: 58 Copynumber: 5.4 Consensus size: 58
203544 TTTTTAAGGA
* ** * * * *
203554 AAATAAATTATTTTATTTATCTTCTTATGAATCTTGAATGATTCTATTTTGTAAAATAA
1 AAATAAATTGTTGAATTTATTTTCTTAGGAATCTTGAATGATTCTATTTTATAAAA-AG
* * * ***
203613 AAATAAATGGTTG-ATTTCTTTTTCATT-GAAATCTTGAATGATTCTATTTT-T---TTT
1 AAATAAATTGTTGAATTT-ATTTTC-TTAGGAATCTTGAATGATTCTATTTTATAAAAAG
* *
203667 AAA-AAATTGTTAAATTTATTTTCTTAGGAATTTTGAATGATTCTATTTTATAAAAAG
1 AAATAAATTGTTGAATTTATTTTCTTAGGAATCTTGAATGATTCTATTTTATAAAAAG
* ** *
203724 AAATAAATTGTTGAATTTATTTTCTT-GTGAATCTT-ATATGATTATGGTTTGTAAAAAG
1 AAATAAATTGTTGAATTTATTTTCTTAG-GAATCTTGA-ATGATTCTATTTTATAAAAAG
* ** * * *
203782 AAATAAATCGTAAAACTTATGTTCCTA-G------GAATGATTCTATTTTATAAAAAG
1 AAATAAATTGTTGAATTTATTTTCTTAGGAATCTTGAATGATTCTATTTTATAAAAAG
*
203833 AAAATAAATAGTTGAATTTATTTTC
1 -AAATAAATTGTTGAATTTATTTTC
203858 ATATTATCTT
Statistics
Matches: 192, Mismatches: 39, Indels: 35
0.72 0.15 0.13
Matches are distributed among these distances:
51 17 0.09
52 22 0.11
53 33 0.17
54 8 0.04
57 6 0.03
58 69 0.36
59 35 0.18
60 2 0.01
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.46
Consensus pattern (58 bp):
AAATAAATTGTTGAATTTATTTTCTTAGGAATCTTGAATGATTCTATTTTATAAAAAG
Found at i:206535 original size:20 final size:21
Alignment explanation
Indices: 206496--206545 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
206486 GGAATCCCGA
*
206496 TCTCGATACCAAGCCCCTCAG
1 TCTCGATACCAAGACCCTCAG
206517 TCTCGATACCAA-ACCCTCAG
1 TCTCGATACCAAGACCCTCAG
*
206537 TATCGATAC
1 TCTCGATAC
206546 TCCTTTATGG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.28, C:0.38, G:0.12, T:0.22
Consensus pattern (21 bp):
TCTCGATACCAAGACCCTCAG
Found at i:224597 original size:21 final size:22
Alignment explanation
Indices: 224534--224609 Score: 91
Period size: 23 Copynumber: 3.5 Consensus size: 22
224524 CAGAGAGAAT
*
224534 CGATACCCCCTTGAAGGGAAAC
1 CGATACCCCCTTGAAGGGGAAC
*
224556 CGATTCCCCCTTTGAAGGGGAAC
1 CGATACCCCC-TTGAAGGGGAAC
* * *
224579 CGATTCCCCC-TGTAGGGGAAT
1 CGATACCCCCTTGAAGGGGAAC
224600 CGATACCCCC
1 CGATACCCCC
224610 CTCGGGTTCT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
21 18 0.38
22 9 0.19
23 21 0.44
ACGTcount: A:0.24, C:0.34, G:0.24, T:0.18
Consensus pattern (22 bp):
CGATACCCCCTTGAAGGGGAAC
Found at i:226231 original size:18 final size:17
Alignment explanation
Indices: 226179--226234 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 17
226169 CTCCGACGAT
*
226179 GAACCAGAACAGCACGAG
1 GAACAAGAACAGCA-GAG
*
226197 GAACAAGCACGAGCAGAG
1 GAACAAGAAC-AGCAGAG
226215 GAACAAGAACAGCCAGAG
1 GAACAAGAACAG-CAGAG
226233 GA
1 GA
226235 TCAAATGCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 2 0.06
18 27 0.82
19 4 0.12
ACGTcount: A:0.46, C:0.23, G:0.30, T:0.00
Consensus pattern (17 bp):
GAACAAGAACAGCAGAG
Found at i:237629 original size:45 final size:42
Alignment explanation
Indices: 237573--237717 Score: 126
Period size: 45 Copynumber: 3.5 Consensus size: 42
237563 CTTTTATGTT
237573 GATAATGCACCCATATGCATTTCAACGATGGCATCCTTTCATGCC
1 GATAATGCACCCATATGCATTTC-AC-AT-GCATCCTTTCATGCC
* *
237618 GATAATGCACCCATATGCA-TT---AT-TAT--TTT-ATGCT
1 GATAATGCACCCATATGCATTTCACATGCATCCTTTCATGCC
* * *
237652 GACAATGTACCCATATACATTTCAGCTATTGCATCCTTTCATGCC
1 GATAATGCACCCATATGCATTTCA-C-A-TGCATCCTTTCATGCC
*
237697 AATAATGCACCCATATGCATT
1 GATAATGCACCCATATGCATT
237718 ATTCTTTTAT
Statistics
Matches: 78, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
34 20 0.26
35 5 0.06
37 2 0.03
39 2 0.03
40 1 0.01
41 1 0.01
42 2 0.03
44 5 0.06
45 40 0.51
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (42 bp):
GATAATGCACCCATATGCATTTCACATGCATCCTTTCATGCC
Found at i:237695 original size:79 final size:79
Alignment explanation
Indices: 237563--237885 Score: 511
Period size: 79 Copynumber: 4.1 Consensus size: 79
237553 ATAAAATATA
* * * * * * *
237563 CTTTTATGTTGATAATGCACCCATATGCATTTCAACGATGGCATCCTTTCATGCCGATAATGCAC
1 CTTTTATGCTGACAATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
237628 CCATATGCATTATT
66 CCATATGCATTATT
* *
237642 ATTTTATGCTGACAATGTACCCATATACATTTCAGCTATTGCATCCTTTCATGCCAATAATGCAC
1 CTTTTATGCTGACAATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
237707 CCATATGCATTATT
66 CCATATGCATTATT
* * *
237721 CTTTTATGATGACAATCTACCCATATACATTTCAGCTATGGCATCCATTCATGCCAATAATGCAC
1 CTTTTATGCTGACAATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
*
237786 TCATATGCATTATT
66 CCATATGCATTATT
* *
237800 CTTTTATGCTGACAATGTACCCATATAAATTTTAGCTATGGCATCCTTTCATGCCAATAATGCAC
1 CTTTTATGCTGACAATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
237865 CCATATGCATTATT
66 CCATATGCATTATT
237879 CTTTTAT
1 CTTTTAT
237886 TCGTTTTAGA
Statistics
Matches: 223, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 223 1.00
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (79 bp):
CTTTTATGCTGACAATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
CCATATGCATTATT
Found at i:238259 original size:18 final size:18
Alignment explanation
Indices: 238222--238257 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
238212 ATACAAAAGA
*
238222 ATATACATTATTAACTTT
1 ATATACATTATCAACTTT
238240 ATATATCATTATCAACTT
1 ATATA-CATTATCAACTT
238258 ATTTTTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATACATTATCAACTTT
Found at i:238400 original size:20 final size:19
Alignment explanation
Indices: 238375--238448 Score: 71
Period size: 19 Copynumber: 3.7 Consensus size: 19
238365 CGATGTTTCA
238375 TGGTATCGATACCCTTTAC
1 TGGTATCGATACCCTTTAC
238394 GTGGTATCGATACTACCCTTCTA-
1 -TGGTATCG--A-TACCCTT-TAC
*
238417 TGGTACCGATACTCCTTTAC
1 TGGTATCGATAC-CCTTTAC
238437 -GGTATCGATACC
1 TGGTATCGATACC
238449 AAAATTAGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
18 1 0.02
19 15 0.33
20 13 0.28
22 8 0.17
23 7 0.15
24 2 0.04
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.34
Consensus pattern (19 bp):
TGGTATCGATACCCTTTAC
Done.