Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 121 of 198
Found at i:38972771 original size:45 final size:45
Alignment explanation
Indices: 38972706--38972962 Score: 163
Period size: 45 Copynumber: 5.7 Consensus size: 45
38972696 TCCACCATAT
* *
38972706 CCAACTTTATCTC-CCTGAAGTTGCAGTGGAGCAAACTGAAGATAA
1 CCAACCTTATCTCTCC-GAAGTTGCAGTGGAGCAAATTGAAGATAA
* *** *
38972751 CCAACCTTATCTCTCCGAAGTTGTAGTGGAGCCGGTTGAGGAT-A
1 CCAACCTTATCTCTCCGAAGTTGCAGTGGAGCAAATTGAAGATAA
* * ** *
38972795 CCAATCTTATCTCCCCGAAGTTGCAGTGGAATAGATTGAAGCTATAA
1 CCAACCTTATCTCTCCGAAGTTGCAGTGGAGCAAATTGAAG--ATAA
* ** * ** *
38972842 GTTACAGATCC-TATCTCTCTAAAGTTGCAGT--AG--AATAGATCATAT
1 ---CCA-A-CCTTATCTCTCCGAAGTTGCAGTGGAGCAAATTGAAGATAA
* *
38972887 CAAACCTTATCTCAT-TGAAGTTGCAGTGGAGCAAATTGAAGATAA
1 CCAACCTTATCTC-TCCGAAGTTGCAGTGGAGCAAATTGAAGATAA
* *
38972932 CCAACCTTATCTC-CTGAAGTTGCAGTAGAGC
1 CCAACCTTATCTCTCCGAAGTTGCAGTGGAGC
38972963 TGGTTGAGGA
Statistics
Matches: 161, Mismatches: 35, Indels: 33
0.70 0.15 0.14
Matches are distributed among these distances:
40 2 0.01
41 18 0.11
42 2 0.01
43 2 0.01
44 50 0.31
45 56 0.35
46 4 0.02
47 5 0.03
49 1 0.01
50 2 0.01
51 18 0.11
52 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (45 bp):
CCAACCTTATCTCTCCGAAGTTGCAGTGGAGCAAATTGAAGATAA
Found at i:38973706 original size:5 final size:5
Alignment explanation
Indices: 38973698--38973722 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
38973688 TTATACATAC
38973698 GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA
38973723 CTTACCCGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:38974580 original size:21 final size:21
Alignment explanation
Indices: 38974529--38974607 Score: 60
Period size: 21 Copynumber: 3.8 Consensus size: 21
38974519 TACACAAATA
38974529 TATATACATACATTTTTATAA--
1 TATATACAT--ATTTTTATAACT
38974550 TATAGGTACATATTTTTATAACT
1 TATA--TACATATTTTTATAACT
* **
38974573 TATATACATATATACAT-ACT
1 TATATACATATTTTTATAACT
38974593 TATAT--ATATTTTTAT
1 TATATACATATTTTTAT
38974608 CTTTTATAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
18 7 0.15
20 8 0.17
21 24 0.50
23 9 0.19
ACGTcount: A:0.39, C:0.09, G:0.03, T:0.49
Consensus pattern (21 bp):
TATATACATATTTTTATAACT
Found at i:38975256 original size:73 final size:73
Alignment explanation
Indices: 38975117--38975256 Score: 246
Period size: 72 Copynumber: 1.9 Consensus size: 73
38975107 TTTCAAACTC
* *
38975117 AAGTTTTAAACGATCCCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCCTTT
1 AAGTTTTAAACGATCCCAGGAATTAAGAAGAAATCGTGTCCTAACTTACTGGGCATGATCCCTTT
38975182 TTTTTCTT
66 TTTTTCTT
*
38975190 AAGTTTTAAACGATCTCAGGAATTAAGAA-AAATCGTGTCCTAACTTACTGGGCATGATCCCTTT
1 AAGTTTTAAACGATCCCAGGAATTAAGAAGAAATCGTGTCCTAACTTACTGGGCATGATCCCTTT
38975254 TTT
66 TTT
38975257 AAATTCGAGA
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
72 37 0.58
73 27 0.42
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (73 bp):
AAGTTTTAAACGATCCCAGGAATTAAGAAGAAATCGTGTCCTAACTTACTGGGCATGATCCCTTT
TTTTTCTT
Found at i:38978652 original size:3 final size:3
Alignment explanation
Indices: 38978644--38978704 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
38978634 ATGGCTTTAG
38978644 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
38978692 ATT ATT ATT -TT AT
1 ATT ATT ATT ATT AT
38978705 GCGTAGTTAA
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:38993753 original size:23 final size:23
Alignment explanation
Indices: 38993710--38993753 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
38993700 ATATCTCCTG
**
38993710 TACATGAATGTGTCATCAATTTT
1 TACATGAATGTGTCAAAAATTTT
38993733 TACATGAATGTGTCAAAAATT
1 TACATGAATGTGTCAAAAATT
38993754 GATGCATTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (23 bp):
TACATGAATGTGTCAAAAATTTT
Found at i:38997936 original size:22 final size:22
Alignment explanation
Indices: 38997908--38997950 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
38997898 TTTATTGTTC
38997908 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTG
38997930 AAACATGAGAGCTTAGTACGT
1 AAACATGAGAGCTTAGTACGT
38997951 TAGCCATTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTG
Found at i:39016667 original size:25 final size:25
Alignment explanation
Indices: 39016616--39016668 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
39016606 ATTTCTTGTC
* *
39016616 TTTATTTTTTATTTCATTTTAGGAT
1 TTTATTTTTTATTTCATGTTAGAAT
*
39016641 TTTA-TTTTTATTTCATAGTTATAAT
1 TTTATTTTTTATTTCAT-GTTAGAAT
39016666 TTT
1 TTT
39016669 TCTTTATCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.23, C:0.04, G:0.06, T:0.68
Consensus pattern (25 bp):
TTTATTTTTTATTTCATGTTAGAAT
Found at i:39017488 original size:32 final size:32
Alignment explanation
Indices: 39017452--39017521 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
39017442 CTTTACATTA
*
39017452 TTCAAAAAAATGAAAGAA-CAAAGAT-AAGTTTG
1 TTCAAAAAAAT-AAA-AAGCAAAAATAAAGTTTG
*
39017484 TTCAAAAGAATAAAAAGCAAAAATAAAGTTTG
1 TTCAAAAAAATAAAAAGCAAAAATAAAGTTTG
*
39017516 CTCAAA
1 TTCAAA
39017522 GTCTTAACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 2 0.06
31 9 0.27
32 22 0.67
ACGTcount: A:0.57, C:0.09, G:0.13, T:0.21
Consensus pattern (32 bp):
TTCAAAAAAATAAAAAGCAAAAATAAAGTTTG
Found at i:39023856 original size:31 final size:31
Alignment explanation
Indices: 39023818--39023888 Score: 133
Period size: 31 Copynumber: 2.3 Consensus size: 31
39023808 ATATTAACCG
39023818 AACCGAATTTTTTCGGTTAAACCGGTCGATT
1 AACCGAATTTTTTCGGTTAAACCGGTCGATT
39023849 AACCGAATTTTTTCGGTTAAACCGGTCGATT
1 AACCGAATTTTTTCGGTTAAACCGGTCGATT
*
39023880 AACAGAATT
1 AACCGAATT
39023889 AACCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (31 bp):
AACCGAATTTTTTCGGTTAAACCGGTCGATT
Found at i:39023939 original size:9 final size:9
Alignment explanation
Indices: 39023920--39024056 Score: 170
Period size: 9 Copynumber: 15.4 Consensus size: 9
39023910 TTTGTTAAAA
*
39023920 TTAATCGAT
1 TTAACCGAT
*
39023929 TTAACCTAT
1 TTAACCGAT
39023938 TTAACCGA-
1 TTAACCGAT
39023946 TTAACCGAT
1 TTAACCGAT
*
39023955 TTAACCGAC
1 TTAACCGAT
39023964 TTAACCGAT
1 TTAACCGAT
*
39023973 TTAACCGTT
1 TTAACCGAT
*
39023982 TTAACCTAT
1 TTAACCGAT
39023991 TTAACCGA-
1 TTAACCGAT
*
39023999 TTAACTGAT
1 TTAACCGAT
* *
39024008 TTAACTGAC
1 TTAACCGAT
*
39024017 TTAATCGAT
1 TTAACCGAT
39024026 TTAACCGAT
1 TTAACCGAT
*
39024035 TTAACCTAT
1 TTAACCGAT
39024044 TTAACCGAT
1 TTAACCGAT
39024053 TTAA
1 TTAA
39024057 ATCACTATAT
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
8 15 0.14
9 94 0.86
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (9 bp):
TTAACCGAT
Found at i:39023988 original size:53 final size:53
Alignment explanation
Indices: 39023920--39024053 Score: 223
Period size: 53 Copynumber: 2.5 Consensus size: 53
39023910 TTTGTTAAAA
*
39023920 TTAATCGATTTAACCTATTTAACCGATTAACCGATTTAACCGACTTAACCGAT
1 TTAACCGATTTAACCTATTTAACCGATTAACCGATTTAACCGACTTAACCGAT
* * * *
39023973 TTAACCGTTTTAACCTATTTAACCGATTAACTGATTTAACTGACTTAATCGAT
1 TTAACCGATTTAACCTATTTAACCGATTAACCGATTTAACCGACTTAACCGAT
39024026 TTAACCGATTTAACCTATTTAACCGATT
1 TTAACCGATTTAACCTATTTAACCGATT
39024054 TAAATCACTA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 75 1.00
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (53 bp):
TTAACCGATTTAACCTATTTAACCGATTAACCGATTTAACCGACTTAACCGAT
Found at i:39024104 original size:20 final size:20
Alignment explanation
Indices: 39024079--39024216 Score: 96
Period size: 20 Copynumber: 7.3 Consensus size: 20
39024069 TTAAAAAAAT
39024079 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
** ** *
39024099 TACATAA---TTAAAAAAAT
1 TACATAAGTCTTTGAATCAC
39024116 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
** * *
39024136 TACATAA--C-TAAAAACAT
1 TACATAAGTCTTTGAATCAC
39024153 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
** * *
39024173 TACATAA---TTAAAAACAT
1 TACATAAGTCTTTGAATCAC
39024190 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
39024210 TACATAA
1 TACATAA
39024217 TTAAAAACAT
Statistics
Matches: 83, Mismatches: 26, Indels: 18
0.65 0.20 0.14
Matches are distributed among these distances:
17 37 0.45
18 1 0.01
19 1 0.01
20 44 0.53
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.32
Consensus pattern (20 bp):
TACATAAGTCTTTGAATCAC
Found at i:39024158 original size:17 final size:17
Alignment explanation
Indices: 39024136--39024196 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
39024126 TTTGAATCAC
39024136 TACATAACTAAAAACAT
1 TACATAACTAAAAACAT
** * *
39024153 TACATAAGTCTTTGAATCAC
1 TACATAA--C-TAAAAACAT
*
39024173 TACATAATTAAAAACAT
1 TACATAACTAAAAACAT
39024190 TACATAA
1 TACATAA
39024197 GTCTTTGAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 19 0.59
19 1 0.03
20 12 0.38
ACGTcount: A:0.51, C:0.16, G:0.03, T:0.30
Consensus pattern (17 bp):
TACATAACTAAAAACAT
Found at i:39024255 original size:37 final size:37
Alignment explanation
Indices: 39024056--39024238 Score: 312
Period size: 37 Copynumber: 4.9 Consensus size: 37
39024046 AACCGATTTA
* *
39024056 AATCACTATATAATTAAAAAAATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
*
39024093 AATCACTACATAATTAAAAAAATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
*
39024130 AATCACTACATAACTAAAAACATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
39024167 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
**
39024204 AATCACTACATAATTAAAAACATTATGTAAGTCTT
1 AATCACTACATAATTAAAAACATTACATAAGTCTT
39024239 GAAATTAACA
Statistics
Matches: 140, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 140 1.00
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (37 bp):
AATCACTACATAATTAAAAACATTACATAAGTCTTTG
Found at i:39027071 original size:7 final size:7
Alignment explanation
Indices: 39027061--39027085 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
39027051 TGCAGTATTG
39027061 CATGAAA
1 CATGAAA
39027068 CATGAAA
1 CATGAAA
39027075 CATGAAA
1 CATGAAA
39027082 CATG
1 CATG
39027086 CAGTATAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (7 bp):
CATGAAA
Found at i:39027153 original size:7 final size:7
Alignment explanation
Indices: 39027141--39027192 Score: 59
Period size: 7 Copynumber: 7.3 Consensus size: 7
39027131 GTACAGAAGA
39027141 AAACATG
1 AAACATG
39027148 AAACATG
1 AAACATG
* **
39027155 CAGTATG
1 AAACATG
39027162 AAACATG
1 AAACATG
*
39027169 AAAATATG
1 -AAACATG
39027177 AAACATG
1 AAACATG
39027184 AAACATG
1 AAACATG
39027191 AA
1 AA
39027193 TTGTTCTCCC
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
7 30 0.83
8 6 0.17
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.17
Consensus pattern (7 bp):
AAACATG
Found at i:39027178 original size:15 final size:15
Alignment explanation
Indices: 39027139--39027186 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
39027129 ATGTACAGAA
*
39027139 GAAAACATGAAACAT
1 GAAAATATGAAACAT
* *
39027154 G-CAGTATGAAACAT
1 GAAAATATGAAACAT
39027168 GAAAATATGAAACAT
1 GAAAATATGAAACAT
39027183 GAAA
1 GAAA
39027187 CATGAATTGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.56, C:0.10, G:0.17, T:0.17
Consensus pattern (15 bp):
GAAAATATGAAACAT
Found at i:39028245 original size:25 final size:25
Alignment explanation
Indices: 39028217--39028267 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
39028207 ACTTTAACTT
*
39028217 AGCTCTTTGTGGGTGTTAATTTTCC
1 AGCTCTTTGCGGGTGTTAATTTTCC
39028242 AGCTCTTTGCGGGTGTTAATTTTCC
1 AGCTCTTTGCGGGTGTTAATTTTCC
39028267 A
1 A
39028268 AAGCCACTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.14, C:0.18, G:0.24, T:0.45
Consensus pattern (25 bp):
AGCTCTTTGCGGGTGTTAATTTTCC
Found at i:39035620 original size:26 final size:25
Alignment explanation
Indices: 39035576--39035673 Score: 90
Period size: 26 Copynumber: 3.8 Consensus size: 25
39035566 AATTTTCTCT
39035576 AAATTTTATCG-GGGATAAAATCGTCA
1 AAATTTTA-CGAGGG-TAAAATCGTCA
* * *
39035602 CAATTTTATCGAGGGTAAATTTGTCA
1 AAATTTTA-CGAGGGTAAAATCGTCA
* * *
39035628 AAATTATACCATGGGTAAAATCTTCA
1 AAATTTTACGA-GGGTAAAATCGTCA
*
39035654 AAATTTTACTAGGGTAAAAT
1 AAATTTTACGAGGGTAAAAT
39035674 TGGGATGAGA
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
25 11 0.19
26 45 0.76
27 3 0.05
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (25 bp):
AAATTTTACGAGGGTAAAATCGTCA
Found at i:39038992 original size:20 final size:20
Alignment explanation
Indices: 39038964--39039001 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
39038954 CTTTAAAATC
*
39038964 AAGTTAAAATTATTTTAATA
1 AAGTAAAAATTATTTTAATA
*
39038984 AAGTAAAAATTCTTTTAA
1 AAGTAAAAATTATTTTAA
39039002 CTAGTCAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (20 bp):
AAGTAAAAATTATTTTAATA
Found at i:39044103 original size:49 final size:49
Alignment explanation
Indices: 39044016--39044143 Score: 121
Period size: 49 Copynumber: 2.6 Consensus size: 49
39044006 AACTTGAACT
** * ** *
39044016 CATGATCGCATAACCATTGACAACTAGGCTCTCGAGTTATACTCCAACC
1 CATGATCGCATAACCACCGTCAACTAGGAGCCCGAGTTATACTCCAACC
* * **
39044065 CGTGATCGCATAACCACCGTCAACTAGGAGCCCTAGTTATACTTTAACC
1 CATGATCGCATAACCACCGTCAACTAGGAGCCCGAGTTATACTCCAACC
* * * * *
39044114 CATGACCGTATAAGCACCGTGAACTGGGAG
1 CATGATCGCATAACCACCGTCAACTAGGAG
39044144 TTTGACTTGC
Statistics
Matches: 63, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
49 63 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.23
Consensus pattern (49 bp):
CATGATCGCATAACCACCGTCAACTAGGAGCCCGAGTTATACTCCAACC
Found at i:39048685 original size:2 final size:2
Alignment explanation
Indices: 39048672--39048717 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
39048662 ACATTTTCAA
* *
39048672 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39048714 AT AT
1 AT AT
39048718 TCATATTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:39049121 original size:9 final size:9
Alignment explanation
Indices: 39049105--39049190 Score: 52
Period size: 8 Copynumber: 9.2 Consensus size: 9
39049095 AATTAATAAT
39049105 ATTATAAAA
1 ATTATAAAA
*
39049114 ATTGTAAAA
1 ATTATAAAA
39049123 A-TATAAAA
1 ATTATAAAA
39049131 TATATATAAAA
1 -AT-TATAAAA
*
39049142 ATTGTAAAGA
1 ATTATAAA-A
*
39049152 TATTAATTTAAA
1 -ATT-A-TAAAA
39049164 ATT-TAAAA
1 ATTATAAAA
* *
39049172 TTTATTAAA
1 ATTATAAAA
39049181 A-TATAAAA
1 ATTATAAAA
39049189 AT
1 AT
39049191 ATTTAAAAGT
Statistics
Matches: 58, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
8 19 0.33
9 19 0.33
10 3 0.05
11 13 0.22
12 1 0.02
13 3 0.05
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.37
Consensus pattern (9 bp):
ATTATAAAA
Found at i:39049226 original size:19 final size:19
Alignment explanation
Indices: 39049157--39049279 Score: 68
Period size: 17 Copynumber: 6.9 Consensus size: 19
39049147 AAAGATATTA
39049157 ATTTAAAA-TT-TAAAATT
1 ATTTAAAATTTGTAAAATT
* *
39049174 -TATTAAAA--TATAAAAAT
1 AT-TTAAAATTTGTAAAATT
* *
39049191 ATTTAAAAGTTGCAAAATT
1 ATTTAAAATTTGTAAAATT
*
39049210 ATTTAAATTTTGTAAAA--
1 ATTTAAAATTTGTAAAATT
* *
39049227 ATTTAAAAATTGTGAAAATC
1 ATTTAAAATTTGT-AAAATT
* *
39049247 A-TTAAAAATT-TAAAATG
1 ATTTAAAATTTGTAAAATT
*
39049264 ATTT-AAATTTATAAAA
1 ATTTAAAATTTGTAAAA
39049280 AATATTTAGA
Statistics
Matches: 85, Mismatches: 11, Indels: 19
0.74 0.10 0.17
Matches are distributed among these distances:
16 2 0.02
17 40 0.47
18 13 0.15
19 29 0.34
20 1 0.01
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.40
Consensus pattern (19 bp):
ATTTAAAATTTGTAAAATT
Found at i:39055344 original size:62 final size:62
Alignment explanation
Indices: 39055265--39055493 Score: 144
Period size: 62 Copynumber: 3.7 Consensus size: 62
39055255 TGTTTTACCT
* *
39055265 TGCTGAAATTAAATTGTACATGGTTATATATTGTCGATATTGAATTGTTTATGTATATAGGA
1 TGCTGAAATTAATTTGTACATGATTATATATTGTCGATATTGAATTGTTTATGTATATAGGA
** * * * ** * * *
39055327 TGCTG-AATTAGATTTGTATTTGATTATACAATATCGA-ACTTG-ATTCGTACAGGGT-TGTA-C
1 TGCTGAAATTA-ATTTGTACATGATTATATATTGTCGATA-TTGAATT-GTTTA-TGTATATAGG
39055387 A
62 A
* ** * * * * *
39055388 TTGTTGAAATTAATTCATACTTGGTTATATATTGTTGATAGTGAATTGTTTATGAATATAGGA
1 -TGCTGAAATTAATTTGTACATGATTATATATTGTCGATATTGAATTGTTTATGTATATAGGA
* * * ** *
39055451 TGCCGAATTTGATTTGTGTATGATTATATATTGTCGATCTTGA
1 TGCTGAAATTAATTTGTACATGATTATATATTGTCGATATTGA
39055494 TTCGTGAATG
Statistics
Matches: 116, Mismatches: 41, Indels: 20
0.66 0.23 0.11
Matches are distributed among these distances:
61 11 0.09
62 93 0.80
63 12 0.10
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.44
Consensus pattern (62 bp):
TGCTGAAATTAATTTGTACATGATTATATATTGTCGATATTGAATTGTTTATGTATATAGGA
Found at i:39055493 original size:124 final size:124
Alignment explanation
Indices: 39055268--39055515 Score: 329
Period size: 124 Copynumber: 2.0 Consensus size: 124
39055258 TTTACCTTGC
* * * *
39055268 TGAAATTAAATTGTACATGGTTATATATTGTCGATATTGAATTGTTTATGTATATAGGATGCTGA
1 TGAAATTAAATTATACATGGTTATATATTGTCGATAGTGAATTGTTTATGAATATAGGATGCCGA
* *
39055333 ATTAGATTTGTATTTGATTATACAATATCGAACTTGATTCGT-ACAGGGTTGTACATTGT
66 ATTAGATTTGTATATGATTATACAATATCGAACTTGATTCGTGA-AGGGTTATACATTGT
* *
39055392 TGAAATT-AATTCATACTTGGTTATATATTGTTGATAGTGAATTGTTTATGAATATAGGATGCCG
1 TGAAATTAAATT-ATACATGGTTATATATTGTCGATAGTGAATTGTTTATGAATATAGGATGCCG
* * * * * * *
39055456 AATTTGATTTGTGTATGATTATATATTGTCGATCTTGATTCGTGAATGGTTATACATTGT
65 AATTAGATTTGTATATGATTATACAATATCGAACTTGATTCGTGAAGGGTTATACATTGT
39055516 CAAATTGTTG
Statistics
Matches: 107, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
123 4 0.04
124 102 0.95
125 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (124 bp):
TGAAATTAAATTATACATGGTTATATATTGTCGATAGTGAATTGTTTATGAATATAGGATGCCGA
ATTAGATTTGTATATGATTATACAATATCGAACTTGATTCGTGAAGGGTTATACATTGT
Found at i:39057897 original size:42 final size:42
Alignment explanation
Indices: 39057762--39057945 Score: 192
Period size: 42 Copynumber: 4.4 Consensus size: 42
39057752 CTCAGTGGAT
* * *
39057762 TCAGCACTTAGCAATCACC-TTAAATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTAAAATCAATGATACGGGGAA
* * * *
39057803 TCAGCACATAGCAACC-CCTTTCACAATCAAAGATACAGTGGAA
1 TCAGCACTTAGCAACCACCTTT-AAAATCAATGATAC-GGGGAA
* * * * *
39057846 TTAGCACTTAGCAACCACCTTTATATTTAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTAAAATCAATGATACGGGGAA
* * * *
39057888 TCAGCACTTAGCAACCACCTTTAGAATCAATAATTCTGGGAA
1 TCAGCACTTAGCAACCACCTTTAAAATCAATGATACGGGGAA
39057930 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
39057946 CCTCAGGGAA
Statistics
Matches: 116, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
40 2 0.02
41 16 0.14
42 65 0.56
43 28 0.24
44 5 0.04
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (42 bp):
TCAGCACTTAGCAACCACCTTTAAAATCAATGATACGGGGAA
Found at i:39057939 original size:84 final size:84
Alignment explanation
Indices: 39057754--39057945 Score: 255
Period size: 85 Copynumber: 2.3 Consensus size: 84
39057744 ATCCGTTACT
* *
39057754 CAGTGGATTCAGCACTTAGCAATCACCTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACC
1 CAGTGGAATCAGCACTTAGCAACCACCTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACC
39057819 CCTTTCACAATCAAAGATA
66 CCTTTCACAATCAAAGATA
* * * *
39057838 CAGTGGAATTAGCACTTAGCAACCACCTTTATATTTAGTGATACGGGGAATCAGCACTTAGCAAC
1 CAGTGGAATCAGCACTTAGCAACCACC-TTAAATTCAGTGATACGGGGAATCAGCACATAGCAAC
* *
39057903 CACCTTT-AGAATCAATA-ATT
65 C-CCTTTCACAATCAA-AGATA
*
39057923 CTG-GGAATCAGCACTTAGCAACC
1 CAGTGGAATCAGCACTTAGCAACC
39057946 CCTCAGGGAA
Statistics
Matches: 95, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
84 43 0.45
85 46 0.48
86 6 0.06
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (84 bp):
CAGTGGAATCAGCACTTAGCAACCACCTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACC
CCTTTCACAATCAAAGATA
Found at i:39057954 original size:26 final size:26
Alignment explanation
Indices: 39057925--39057974 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
39057915 CAATAATTCT
*
39057925 GGGAATCAGCACTTAGCAACCCCTCA
1 GGGAATCAGCACTTAACAACCCCTCA
* *
39057951 GGGAATCTGCACTTAACGACCCCT
1 GGGAATCAGCACTTAACAACCCCT
39057975 TTTTATCCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.28, C:0.34, G:0.20, T:0.18
Consensus pattern (26 bp):
GGGAATCAGCACTTAACAACCCCTCA
Found at i:39061274 original size:29 final size:29
Alignment explanation
Indices: 39061229--39061308 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 29
39061219 GTACTCTTTG
*
39061229 TAAA-TTTAAATTTTAGTCCATTTATTTT
1 TAAATTTTAAAATTTAGTCCATTTATTTT
*
39061257 T-ATTTTTAGAAATTTAGTCTC-TTTATTTT
1 TAAATTTTA-AAATTTAGTC-CATTTATTTT
39061286 TCAAATTTTAAAATTTAGATCCA
1 T-AAATTTTAAAATTTAG-TCCA
39061309 ACTGTTAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
27 1 0.02
28 5 0.12
29 18 0.43
30 10 0.24
31 8 0.19
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.54
Consensus pattern (29 bp):
TAAATTTTAAAATTTAGTCCATTTATTTT
Found at i:39062263 original size:42 final size:42
Alignment explanation
Indices: 39062076--39062426 Score: 332
Period size: 42 Copynumber: 8.4 Consensus size: 42
39062066 GCGTTTACAG
* *
39062076 AAAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TTCG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTCA
* * *
39062117 AAAAAA-GCCGCTAAAAATCATGTTCTTTAGCAGCGC-TTCG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTCA
* * * **
39062157 AAAAAATGCCACTAAAGATCATGTTCTTTAGCTGCGCTTAAA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTCA
* * *
39062199 AAAAAGACGCCGCTAAATATCATGTTCTTTAGTGGCACTTTCA
1 AAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTCA
* * *
39062242 AAAAAACGCCACTAAAGATCATGTTCTTTAGCAGCGC-TTAA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTCA
* * * ***
39062283 AGAAAAACACCGCTAAAGATCATATTCTTTAGCAGCGCTTAGT
1 A-AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTCA
* * *
39062326 AAAAAACGCCGCTATAGATTATGTTCTTTAGCGACGCTTTCA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTCA
* * * * * * **
39062368 TCACAAACGCCGCGAAAAATAATGTTCTTTAGCGGCACTTTTGT
1 -AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TTTCA
*
39062412 AAAAAACGCCACTAA
1 AAAAAACGCCGCTAA
39062427 TTTTGGGATT
Statistics
Matches: 251, Mismatches: 52, Indels: 12
0.80 0.17 0.04
Matches are distributed among these distances:
40 37 0.15
41 37 0.15
42 98 0.39
43 76 0.30
44 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTCA
Found at i:39062278 original size:126 final size:124
Alignment explanation
Indices: 39062076--39062358 Score: 370
Period size: 126 Copynumber: 2.3 Consensus size: 124
39062066 GCGTTTACAG
* * * *
39062076 AAAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTCGAAAAAAGCCGCTAAAAATCATGTT
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTCAAAAAAAGCCACTAAAAATCATGTT
** ** * *
39062141 CTTTAGCAGCGCTTCGA-AAAAATGCCACTAAAGATCATGTTCTTTAGCTGCGCTTAAA
66 CTTTAGCAGCGCTTAAAGAAAAACACCACTAAAGATCATATTCTTTAGCAGCGCTTAAA
* * *
39062199 AAAAAGACGCCGCTAAATATCATGTTCTTTAGTGGCACTTTCAAAAAAACGCCACTAAAGATCAT
1 AAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCAC-TTCAAAAAAA-GCCACTAAAAATCAT
* **
39062264 GTTCTTTAGCAGCGCTTAAAGAAAAACACCGCTAAAGATCATATTCTTTAGCAGCGCTTAGT
63 GTTCTTTAGCAGCGCTTAAAGAAAAACACCACTAAAGATCATATTCTTTAGCAGCGCTTAAA
* *
39062326 AAAAAACGCCGCTATAGATTATGTTCTTTAGCG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCG
39062359 ACGCTTTCAT
Statistics
Matches: 136, Mismatches: 20, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
123 5 0.04
124 28 0.21
125 9 0.07
126 55 0.40
127 39 0.29
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (124 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTCAAAAAAAGCCACTAAAAATCATGTT
CTTTAGCAGCGCTTAAAGAAAAACACCACTAAAGATCATATTCTTTAGCAGCGCTTAAA
Found at i:39062831 original size:21 final size:21
Alignment explanation
Indices: 39062807--39062896 Score: 108
Period size: 21 Copynumber: 4.3 Consensus size: 21
39062797 GCTTCTTTCG
* *
39062807 CTGCTTCTCGCGCTGCAGCCT
1 CTGCTTCCCTCGCTGCAGCCT
* * *
39062828 CTGCTTCTCTCACTGTAGCCT
1 CTGCTTCCCTCGCTGCAGCCT
*
39062849 CTGCTTCCCTCGCTGTAGCCT
1 CTGCTTCCCTCGCTGCAGCCT
* *
39062870 CTGCTTCCCTCGTTGCTGCCT
1 CTGCTTCCCTCGCTGCAGCCT
39062891 CTGCTT
1 CTGCTT
39062897 TAAGTTGTAG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.04, C:0.41, G:0.19, T:0.36
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGCAGCCT
Found at i:39068275 original size:9 final size:9
Alignment explanation
Indices: 39068258--39068578 Score: 271
Period size: 9 Copynumber: 36.8 Consensus size: 9
39068248 TCATAGATAA
*
39068258 GTAAATTAT
1 GTAAGTTAT
39068267 GTAAGTTAT
1 GTAAGTTAT
*
39068276 GTACGTGTA-
1 GTAAGT-TAT
39068285 -TAAGTTAT
1 GTAAGTTAT
39068293 GTAAGTTAT
1 GTAAGTTAT
*
39068302 GT-A-TTAA
1 GTAAGTTAT
*
39068309 GTAAGCTAT
1 GTAAGTTAT
*
39068318 GTAAGTTGT
1 GTAAGTTAT
39068327 GT-A-TTAT
1 GTAAGTTAT
39068334 GTAAGTTAT
1 GTAAGTTAT
39068343 GTAAGTTAT
1 GTAAGTTAT
** *
39068352 CAAAGTAAT
1 GTAAGTTAT
*
39068361 GTATGTTAT
1 GTAAGTTAT
39068370 GTAAG-T-T
1 GTAAGTTAT
39068377 GTAAGTTAT
1 GTAAGTTAT
*
39068386 -TATGTACTAT
1 GTAAGT--TAT
39068396 GTAAGTTAT
1 GTAAGTTAT
*
39068405 GTAATTTAT
1 GTAAGTTAT
39068414 GTAAGTTAAAT
1 GTAAGTT--AT
39068425 GT-A-TTAT
1 GTAAGTTAT
*
39068432 GTACGTTAT
1 GTAAGTTAT
*
39068441 GTAAGTTGT
1 GTAAGTTAT
*
39068450 GTAAGATAT
1 GTAAGTTAT
*
39068459 TTAAGTTAT
1 GTAAGTTAT
*
39068468 GTAAGTTTT
1 GTAAGTTAT
39068477 GT-A-TTAT
1 GTAAGTTAT
39068484 GTAAGTTAT
1 GTAAGTTAT
39068493 GTAAGTTAT
1 GTAAGTTAT
39068502 GTAAGTTAAAT
1 GTAAGTT--AT
39068513 GT-A-TTAT
1 GTAAGTTAT
*
39068520 GTAGGTTAT
1 GTAAGTTAT
*
39068529 GTAAGTTGT
1 GTAAGTTAT
*
39068538 GTAAGATAT
1 GTAAGTTAT
*
39068547 TTAAGTTAT
1 GTAAGTTAT
*
39068556 GTAAGTTTT
1 GTAAGTTAT
39068565 GT-A-TTAT
1 GTAAGTTAT
39068572 GTAAGTT
1 GTAAGTT
39068579 GTTATGTTAT
Statistics
Matches: 247, Mismatches: 41, Indels: 48
0.74 0.12 0.14
Matches are distributed among these distances:
7 36 0.15
8 18 0.07
9 174 0.70
10 7 0.03
11 12 0.05
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:39068502 original size:88 final size:88
Alignment explanation
Indices: 39068258--39068578 Score: 368
Period size: 88 Copynumber: 3.7 Consensus size: 88
39068248 TCATAGATAA
* * * * * * *
39068258 GTAAATTATGTAAGTTATGTACG-TGTATAAGTTATGTAAGTTATGTATTAAGTAAGCTATGTAA
1 GTAAGTTATGTAAGTTATGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAA
*
39068322 GTTGTGT-A-TT--ATGTAAGTTAT
66 GTTATGTAAGTTAAATGT-A-TTAT
** * * * * *
39068343 GTAAGTTATCAAAGTAATGTATGTTATGTAAG-T-TGTAAGTTATTATGTACTATGTAAGTTATG
1 GTAAGTTATGTAAGTTATGTAAGATATTTAAGTTATGTAAG-T-TT-TGTATTATGTAAGTTATG
*
39068406 TAATTTATGTAAGTTAAATGTATTAT
63 TAAGTTATGTAAGTTAAATGTATTAT
* *
39068432 GTACGTTATGTAAGTTGTGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAA
1 GTAAGTTATGTAAGTTATGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAA
39068497 GTTATGTAAGTTAAATGTATTAT
66 GTTATGTAAGTTAAATGTATTAT
* *
39068520 GTAGGTTATGTAAGTTGTGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAAGTT
1 GTAAGTTATGTAAGTTATGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAAGTT
39068579 GTTATGTTAT
Statistics
Matches: 202, Mismatches: 24, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
84 6 0.03
85 20 0.10
86 7 0.03
87 23 0.11
88 101 0.50
89 32 0.16
90 3 0.01
91 10 0.05
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (88 bp):
GTAAGTTATGTAAGTTATGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAA
GTTATGTAAGTTAAATGTATTAT
Found at i:39068597 original size:45 final size:44
Alignment explanation
Indices: 39068437--39068608 Score: 144
Period size: 45 Copynumber: 3.9 Consensus size: 44
39068427 ATTATGTACG
* *
39068437 TTATGTAAGTTGTGTAAGATATT--TAAGTTATGTAAGTTTTGTA
1 TTATGTAAGTTGT-TATGTTATTAGTAAGTTATGTAAGTTTTGTA
* * *
39068480 TTATGTAAGTTATGTAAGTTA-T-GTAAGTTAAATGT-A-TTATGTA
1 TTATGTAAGTTGT-TATGTTATTAGTAAGTT--ATGTAAGTTTTGTA
* *
39068523 GGTTATGTAAGTTGTGTAAGATATT--TAAGTTATGTAAGTTTTGTA
1 --TTATGTAAGTTGT-TATGTTATTAGTAAGTTATGTAAGTTTTGTA
*
39068568 TTATGTAAGTTGTTATGTTATTACGTAAGTTATGCAAGTTT
1 TTATGTAAGTTGTTATGTTATTA-GTAAGTTATGTAAGTTT
39068609 ATATATATAT
Statistics
Matches: 109, Mismatches: 9, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 8 0.07
43 48 0.44
44 2 0.02
45 50 0.46
46 1 0.01
ACGTcount: A:0.30, C:0.01, G:0.21, T:0.48
Consensus pattern (44 bp):
TTATGTAAGTTGTTATGTTATTAGTAAGTTATGTAAGTTTTGTA
Found at i:39068691 original size:13 final size:13
Alignment explanation
Indices: 39068673--39068697 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39068663 TGACAAGTCA
39068673 TTATATAATCAAT
1 TTATATAATCAAT
39068686 TTATATAATCAA
1 TTATATAATCAA
39068698 GTAATAATTA
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTATATAATCAAT
Found at i:39069806 original size:18 final size:18
Alignment explanation
Indices: 39069783--39069820 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
39069773 TTTCTTCAAA
39069783 AATATTAACACTGCAAGT
1 AATATTAACACTGCAAGT
39069801 AATATTAACACTGCAAGT
1 AATATTAACACTGCAAGT
39069819 AA
1 AA
39069821 CTAACAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (18 bp):
AATATTAACACTGCAAGT
Found at i:39071140 original size:365 final size:366
Alignment explanation
Indices: 39070470--39071183 Score: 1189
Period size: 365 Copynumber: 2.0 Consensus size: 366
39070460 CGACATTTAC
*
39070470 GGCGTTTTAATTAAAAACGCCACTAAAATTTCAAGTACAGAAAGAAACGTCGCCGTTTTATAAAA
1 GGCGTTTTAATTAAAAACGCCACTAAAATTTCAAGTACAGAAAGAAACGTCGCCATTTTATAAAA
* * *
39070535 ATATAAGGAAACATTCTGGCGTTTTCCCAAACACGCCACAATTAATATATTATCGAACCGGCGTC
66 ATATAAGGAAACATTCTAGCGTTCTCCCAAAAACGCCACAATTAATATATTATCGAACCGGCGTC
* * * *
39070600 GTTTTCAGTAAATTTTATACATCCTTGCGGCGTTTTTAATAAAACGCCACTAAAAGATTCCATCC
131 ATTTTCAGAAAATTTTATACATCCTTGCGGCATTTATAATAAAACGCCACTAAAAGATTCCATCC
** * * *
39070665 TTCAACTGAAACGGCGCCGTTTTTGCAAAGTTCAAATATTATTTACGGCGCTTTTAGGGAACATG
196 TTCAACTGAAACGGCGCCGTTTCGGCAAAGTTCAAATATTATTTAAGGCGCTTTTAGGAAAAATG
** *
39070730 CCACAACTAAATTTTATTCCCTAAGCCGAAACAACGCTGTATCGGTAAATGCAATAAATATTTGT
261 CCACAACTAAAACTTATTCCCTAAGCCGAAACAACGCCGTATCGGTAAATGCAATAAATATTTGT
39070795 GGC-GTTTTTTATCAAAACGCCGGTAATGTCTACCTTTTGT
326 GGCTGTTTTTTATCAAAACGCCGGTAATGTCTACCTTTTGT
39070835 GGCGTTTTAATTAAAAACGCCACTAAAATTTCAAGTACAGAAAGAAACAG-CGCCATTTTATAAA
1 GGCGTTTTAATTAAAAACGCCACTAAAATTTCAAGTACAGAAAGAAAC-GTCGCCATTTTATAAA
*
39070899 AATATAAGGAAACATTCTAGCGTTCTCCCAAAAATGCCACAATTAATATATTATCGAACCGGCGT
65 AATATAAGGAAACATTCTAGCGTTCTCCCAAAAACGCCACAATTAATATATTATCGAACCGGCGT
*
39070964 CATTTTCAGAAAATTTTATACATCCTTGCGGCATTTATAATAAAACGCCACTAAAATATTCCATC
130 CATTTTCAGAAAATTTTATACATCCTTGCGGCATTTATAATAAAACGCCACTAAAAGATTCCATC
* *
39071029 CTTCAACTGAAACGGCGCCGTTTCGGCAAAGTTTAAATATTATTTAAGGCGCTTTTCGGAAAAAT
195 CTTCAACTGAAACGGCGCCGTTTCGGCAAAGTTCAAATATTATTTAAGGCGCTTTTAGGAAAAAT
* *
39071094 GCCACAACTAAAACTTATTCCCTAAGCCGAAACGACGCCGTATCGGTAAATGCAATAAATTTTTG
260 GCCACAACTAAAACTTATTCCCTAAGCCGAAACAACGCCGTATCGGTAAATGCAATAAATATTTG
*
39071159 TGGCTTTTTTTTTATCAAAACGCCG
325 TGGC-TGTTTTTTATCAAAACGCCG
39071184 CTAAATCTTA
Statistics
Matches: 323, Mismatches: 23, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
365 304 0.94
366 1 0.00
367 18 0.06
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (366 bp):
GGCGTTTTAATTAAAAACGCCACTAAAATTTCAAGTACAGAAAGAAACGTCGCCATTTTATAAAA
ATATAAGGAAACATTCTAGCGTTCTCCCAAAAACGCCACAATTAATATATTATCGAACCGGCGTC
ATTTTCAGAAAATTTTATACATCCTTGCGGCATTTATAATAAAACGCCACTAAAAGATTCCATCC
TTCAACTGAAACGGCGCCGTTTCGGCAAAGTTCAAATATTATTTAAGGCGCTTTTAGGAAAAATG
CCACAACTAAAACTTATTCCCTAAGCCGAAACAACGCCGTATCGGTAAATGCAATAAATATTTGT
GGCTGTTTTTTATCAAAACGCCGGTAATGTCTACCTTTTGT
Found at i:39071309 original size:24 final size:24
Alignment explanation
Indices: 39071230--39071310 Score: 81
Period size: 24 Copynumber: 3.2 Consensus size: 24
39071220 TGTATCATTC
* *
39071230 ATTTAAATAAATAATTACCTATCT
1 ATTTAAATAATTAATTACCTATTT
* * *
39071254 ATTTAAACAATTAATTACTTAAAAATTA
1 ATTTAAATAATTAATTACCT----ATTT
39071282 ATTTAAATAATTAATTACCTATTT
1 ATTTAAATAATTAATTACCTATTT
39071306 ATTTA
1 ATTTA
39071311 TTTGTTTATT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
24 25 0.56
28 20 0.44
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (24 bp):
ATTTAAATAATTAATTACCTATTT
Found at i:39071721 original size:28 final size:26
Alignment explanation
Indices: 39071689--39071749 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 26
39071679 TGACCGTTGA
39071689 AACCCTAAATCCCAAACCTCAAATCCCT
1 AACCCTAAA-CCCAAACCT-AAATCCCT
* *
39071717 AACCCCTAAACCCAATCCTGAATCCCT
1 AA-CCCTAAACCCAAACCTAAATCCCT
39071744 AACCCT
1 AACCCT
39071750 TAACTCCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 4 0.13
27 9 0.30
28 10 0.33
29 7 0.23
ACGTcount: A:0.36, C:0.44, G:0.02, T:0.18
Consensus pattern (26 bp):
AACCCTAAACCCAAACCTAAATCCCT
Found at i:39071746 original size:27 final size:29
Alignment explanation
Indices: 39071691--39071748 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 29
39071681 ACCGTTGAAA
39071691 CCCTAAATCCCAAACCTCAAATCCCTAAC
1 CCCTAAATCCCAAACCTCAAATCCCTAAC
* *
39071720 CCCTAAA-CCCAATCCT-GAATCCCTAAC
1 CCCTAAATCCCAAACCTCAAATCCCTAAC
39071747 CC
1 CC
39071749 TTAACTCCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 12 0.44
28 8 0.30
29 7 0.26
ACGTcount: A:0.34, C:0.47, G:0.02, T:0.17
Consensus pattern (29 bp):
CCCTAAATCCCAAACCTCAAATCCCTAAC
Found at i:39071883 original size:7 final size:7
Alignment explanation
Indices: 39071873--39071912 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
39071863 CTCTTAACAT
39071873 CTAACCC
1 CTAACCC
39071880 CTAA--C
1 CTAACCC
39071885 CTAACCC
1 CTAACCC
39071892 CTAACCC
1 CTAACCC
39071899 CTAACCC
1 CTAACCC
*
39071906 TTAACCC
1 CTAACCC
39071913 ATAAACCTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 5 0.17
7 25 0.83
ACGTcount: A:0.30, C:0.53, G:0.00, T:0.17
Consensus pattern (7 bp):
CTAACCC
Found at i:39071890 original size:12 final size:12
Alignment explanation
Indices: 39071873--39071911 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
39071863 CTCTTAACAT
39071873 CTAACCCCTAAC
1 CTAACCCCTAAC
39071885 CTAACCCCTAACCC
1 CTAACCCCTAA--C
*
39071899 CTAACCCTTAAC
1 CTAACCCCTAAC
39071911 C
1 C
39071912 CATAAACCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 13 0.54
14 11 0.46
ACGTcount: A:0.31, C:0.51, G:0.00, T:0.18
Consensus pattern (12 bp):
CTAACCCCTAAC
Found at i:39071969 original size:14 final size:14
Alignment explanation
Indices: 39071904--39071978 Score: 60
Period size: 14 Copynumber: 5.1 Consensus size: 14
39071894 AACCCCTAAC
* *
39071904 CCTTAACCCATAAA
1 CCTTAATCCATAAT
*
39071918 CCTTAAATCACATTAAC
1 CCTT-AATC-CA-TAAT
* *
39071935 CCTTAAACCAGAAT
1 CCTTAATCCATAAT
*
39071949 CCCTAATCCATAAT
1 CCTTAATCCATAAT
39071963 CCTTAATTCCATAAT
1 CCTTAA-TCCATAAT
39071978 C
1 C
39071979 TATAAAACTT
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
14 22 0.46
15 14 0.29
16 5 0.10
17 7 0.15
ACGTcount: A:0.39, C:0.32, G:0.01, T:0.28
Consensus pattern (14 bp):
CCTTAATCCATAAT
Found at i:39072774 original size:115 final size:115
Alignment explanation
Indices: 39072551--39072795 Score: 343
Period size: 115 Copynumber: 2.1 Consensus size: 115
39072541 GGCGCATCCT
**
39072551 CAAAAACGCCGCT-AAAGCACTGAGCATTAGCGGCGCTTTATTAAAAACGTTACTAAATCCACGA
1 CAAAAACGCCGCTAAAAGCACTGAGCATTAGCGGCGCTTTATTAAAAACGCCACTAAATCCACGA
*
39072615 AAGCTAAGAAAACGGCGTCGTTGGGCTTAGGTTTCTTTGCGGCGCCTTCC
66 AAGCTAAGAAAACGGCGTCGTTGGGCTTAGGTTTCTTTGCGGCGCCTTAC
* * *
39072665 CAAAAACGCCGCTAAAAGC-CTGAGCATTAGCGGCGC-TTACTTAAAAAACGCCGCTACATCCCC
1 CAAAAACGCCGCTAAAAGCACTGAGCATTAGCGGCGCTTTA-TT-AAAAACGCCACTAAATCCAC
* * * * *
39072728 GAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTAG
64 GAAAGCTAAGAAAACGGCGTCGTTGGGCTTAGGTTTCTTTGCGGCGCCTTAC
*
39072780 TAAAAACGCCGCTAAA
1 CAAAAACGCCGCTAAA
39072796 TCCCCGAAAG
Statistics
Matches: 116, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
113 3 0.03
114 32 0.28
115 81 0.70
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (115 bp):
CAAAAACGCCGCTAAAAGCACTGAGCATTAGCGGCGCTTTATTAAAAACGCCACTAAATCCACGA
AAGCTAAGAAAACGGCGTCGTTGGGCTTAGGTTTCTTTGCGGCGCCTTAC
Found at i:39072793 original size:73 final size:72
Alignment explanation
Indices: 39072708--39072922 Score: 340
Period size: 73 Copynumber: 3.0 Consensus size: 72
39072698 CGCTTACTTA
*
39072708 AAAAACGCCGCTACATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGC
39072773 GCTTTAGT
66 GCTTTA-T
* * * *
39072781 AAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGACGTCGTTGGGATTAGGTTTTTCTGTGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGC
39072846 GCTTTAT
66 GCTTTAT
* * *
39072853 CAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGCATCGTTGGGCTTAGGTTTTTTTGTGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGC
*
39072918 ACTTT
66 GCTTT
39072923 CGCAAAATCG
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 63 0.49
73 66 0.51
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (72 bp):
AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGC
GCTTTAT
Found at i:39072929 original size:72 final size:71
Alignment explanation
Indices: 39072709--39072929 Score: 325
Period size: 72 Copynumber: 3.1 Consensus size: 71
39072699 GCTTACTTAA
*
39072709 AAAACGCCGCTACATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCG
1 AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC-GCGTCGTTGGGCTTAGGTTTTTTTGTGGCG
*
39072774 CTTTAGTA
65 CTTTAG-C
* * *
39072782 AAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGACGTCGTTGGGATTAGGTTTTTCTGTGGCG
1 AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACG-CGTCGTTGGGCTTAGGTTTTTTTGTGGCG
*
39072847 CTTTATC
65 CTTTAGC
* *
39072854 AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGCATCGTTGGGCTTAGGTTTTTTTGTGGCA
1 AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC-GCGTCGTTGGGCTTAGGTTTTTTTGTGGCG
*
39072919 CTTTCGC
65 CTTTAGC
39072926 AAAA
1 AAAA
39072930 TCGTCGTTAA
Statistics
Matches: 133, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
72 68 0.51
73 65 0.49
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (71 bp):
AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGCGTCGTTGGGCTTAGGTTTTTTTGTGGCGC
TTTAGC
Found at i:39073017 original size:114 final size:114
Alignment explanation
Indices: 39072854--39073167 Score: 443
Period size: 114 Copynumber: 2.8 Consensus size: 114
39072844 GCGCTTTATC
* * *
39072854 AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGCATCGTTGGGCTTAGGTTTTTTTGTGGCA
1 AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCG
* * ** *
39072919 CTTTCGCAAAATCGTCGTTAAAGCCCTGGGCATTAGCGGCGCTTCCCCAA
66 CTTTCGCAAAAACGCCACTAAAGCCCTGAGCATTAGCGGCGCTT-CCCAA
*
39072969 AAAAC-CCGCTAAATCCCCGAAAACTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCG
1 AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCG
**
39073033 CTTTCGCAAAAACGCCACTAAAGCCCTGAGCATTAGCGGCGCTTCCTTA
66 CTTTCGCAAAAACGCCACTAAAGCCCTGAGCATTAGCGGCGCTTCCCAA
* * * *
39073082 AAAACGTCGCTAAATCCCCCGAAAGCTCAGAAAACGGCGTCATTGGGCTTA-GTTATTTTGCGGC
1 AAAACGCCGCTAAAT-CCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGC
* *
39073146 GCTTTAGCAAAAACGCCGCTAA
65 GCTTTCGCAAAAACGCCACTAA
39073168 TGCTTATTTT
Statistics
Matches: 179, Mismatches: 18, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
113 8 0.04
114 133 0.74
115 38 0.21
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (114 bp):
AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCG
CTTTCGCAAAAACGCCACTAAAGCCCTGAGCATTAGCGGCGCTTCCCAA
Found at i:39073423 original size:13 final size:13
Alignment explanation
Indices: 39073404--39073443 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
39073394 TATATTTTTA
39073404 TAATATTATTAAT
1 TAATATTATTAAT
* *
39073417 TAGTATTAATAAT
1 TAATATTATTAAT
*
39073430 TAATATAATTAAT
1 TAATATTATTAAT
39073443 T
1 T
39073444 TTTTAATTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
TAATATTATTAAT
Found at i:39074284 original size:19 final size:18
Alignment explanation
Indices: 39074260--39074311 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
39074250 ATAATACACC
*
39074260 AAATATATTAAAAATATTA
1 AAATATATTAAAAAT-TGA
* *
39074279 AAATATCTCAACAAATTGA
1 AAATATATTAA-AAATTGA
*
39074298 AAATAAATTAAAAA
1 AAATATATTAAAAA
39074312 AATTTCTTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
18 3 0.12
19 19 0.73
20 4 0.15
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (18 bp):
AAATATATTAAAAATTGA
Found at i:39081887 original size:29 final size:28
Alignment explanation
Indices: 39081844--39081908 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 28
39081834 GTAGAGACCG
39081844 CCAACTTATGACTTCTATCAATTTAACC
1 CCAACTTATGACTTCTATCAATTTAACC
* *
39081872 ACCAACTTATGGCTTCTTTCAATTTAACC
1 -CCAACTTATGACTTCTATCAATTTAACC
39081901 CC-ACTTAT
1 CCAACTTAT
39081909 TTCTAATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 6 0.18
28 2 0.06
29 26 0.76
ACGTcount: A:0.29, C:0.29, G:0.05, T:0.37
Consensus pattern (28 bp):
CCAACTTATGACTTCTATCAATTTAACC
Found at i:39083545 original size:51 final size:51
Alignment explanation
Indices: 39083482--39083583 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
39083472 TAGCCAGAGA
39083482 GCTTTGTATTTAGGGTTAGGGTTTGTTTTAAATTTCTTGTTTTGAATTTCT
1 GCTTTGTATTTAGGGTTAGGGTTTGTTTTAAATTTCTTGTTTTGAATTTCT
39083533 GCTTTGTATTTAGGGTTAGGGTTTGTTTTAAATTTCTTGTTTTGAATTTCT
1 GCTTTGTATTTAGGGTTAGGGTTTGTTTTAAATTTCTTGTTTTGAATTTCT
39083584 CCATCTTGTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.16, C:0.06, G:0.22, T:0.57
Consensus pattern (51 bp):
GCTTTGTATTTAGGGTTAGGGTTTGTTTTAAATTTCTTGTTTTGAATTTCT
Found at i:39084485 original size:21 final size:21
Alignment explanation
Indices: 39084444--39084486 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
39084434 TAATTTAACA
*
39084444 CAAAATTTTTAACTTTGATTT
1 CAAAATTTATAACTTTGATTT
*
39084465 CAAAATCTTATAA-TTTTATTT
1 CAAAAT-TTATAACTTTGATTT
39084486 C
1 C
39084487 TATTCTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.35, C:0.12, G:0.02, T:0.51
Consensus pattern (21 bp):
CAAAATTTATAACTTTGATTT
Found at i:39092280 original size:18 final size:17
Alignment explanation
Indices: 39092256--39092300 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
39092246 ATAAAATTTT
39092256 AAAATATAAAAAAGCAA
1 AAAATATAAAAAAGCAA
* *
39092273 AGAAATATATAAAAATCCA
1 A-AAATATA-AAAAAGCAA
39092292 AAAATATAA
1 AAAATATAA
39092301 CTTTAGCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 2 0.08
18 14 0.58
19 8 0.33
ACGTcount: A:0.71, C:0.07, G:0.04, T:0.18
Consensus pattern (17 bp):
AAAATATAAAAAAGCAA
Found at i:39096842 original size:20 final size:21
Alignment explanation
Indices: 39096794--39096842 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
39096784 TTTAAAGGGG
*
39096794 GAATTAAATCAATTTGATTTA
1 GAATAAAATCAATTTGATTTA
*
39096815 -AATCAAATCAATTTGA-TTA
1 GAATAAAATCAATTTGATTTA
39096834 GAATAAAAT
1 GAATAAAAT
39096843 AAAATAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (21 bp):
GAATAAAATCAATTTGATTTA
Found at i:39096855 original size:30 final size:30
Alignment explanation
Indices: 39096814--39096877 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
39096804 AATTTGATTT
* *
39096814 AAATCAAATCAATTTGATTAGAATAAAATA
1 AAATAAAATCAAATTGATTAGAATAAAATA
*
39096844 AAATAAAATCAAATTGATTAGAATTAAATA
1 AAATAAAATCAAATTGATTAGAATAAAATA
39096874 AAAT
1 AAAT
39096878 CAAGATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.30
Consensus pattern (30 bp):
AAATAAAATCAAATTGATTAGAATAAAATA
Found at i:39098096 original size:16 final size:16
Alignment explanation
Indices: 39098075--39098105 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
39098065 TCTTTTATAT
39098075 TATATATTTTTAAAAA
1 TATATATTTTTAAAAA
39098091 TATATATTTTTAAAA
1 TATATATTTTTAAAA
39098106 TTTTTAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATATATTTTTAAAAA
Found at i:39098121 original size:11 final size:9
Alignment explanation
Indices: 39098096--39098130 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
39098086 AAAAATATAT
39098096 ATTTTTAAA
1 ATTTTTAAA
39098105 ATTTTTAGAA
1 ATTTTTA-AA
39098115 TATTTTTAAA
1 -ATTTTTAAA
39098125 ATTTTT
1 ATTTTT
39098131 TGAGATTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 13 0.54
10 4 0.17
11 7 0.29
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:39098533 original size:14 final size:15
Alignment explanation
Indices: 39098516--39098546 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
39098506 CTAAAAGGTT
39098516 TAAAA-TAAATATTG
1 TAAAATTAAATATTG
39098530 TAAAATTAAATATTG
1 TAAAATTAAATATTG
39098545 TA
1 TA
39098547 TAAGAGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (15 bp):
TAAAATTAAATATTG
Found at i:39098715 original size:20 final size:20
Alignment explanation
Indices: 39098690--39098731 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
39098680 ATTTGATTCT
39098690 TCTCTCCAGTTTGGCTTCGA
1 TCTCTCCAGTTTGGCTTCGA
** *
39098710 TCTCTCTGGTTTGGTTTCGA
1 TCTCTCCAGTTTGGCTTCGA
39098730 TC
1 TC
39098732 CAAGAGTTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.07, C:0.26, G:0.21, T:0.45
Consensus pattern (20 bp):
TCTCTCCAGTTTGGCTTCGA
Found at i:39102213 original size:29 final size:28
Alignment explanation
Indices: 39102179--39102244 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
39102169 TTTTGCAAAA
*
39102179 TCAACATGACAGGAAGAACCCTTGCAACT
1 TCAACATGACAGGAAGAA-CCTTACAACT
* **
39102208 TCAACATAATGGGAAGAACCTTACAACT
1 TCAACATGACAGGAAGAACCTTACAACT
39102236 TCAACATGA
1 TCAACATGA
39102245 TGAGAGGAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 17 0.53
29 15 0.47
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (28 bp):
TCAACATGACAGGAAGAACCTTACAACT
Found at i:39102464 original size:70 final size:70
Alignment explanation
Indices: 39102376--39102521 Score: 168
Period size: 70 Copynumber: 2.1 Consensus size: 70
39102366 TTTTGCACCC
* * * ** * *
39102376 TCAACATGGTGATGGGAGGACCCATTTTGGACTTTACAACATCAGTAGGGTGGGAAGAACCCTTA
1 TCAACATGATGATGGGAGGACCCATTCTGAACTTTACAACATCAACAGGGCGGGAAGAACACTTA
39102441 CAACT
66 CAACT
* * * * *
39102446 TCAACATGATGA-GAGGAGGGCCCATTCTGAACTTTGCAGCATCAACATGGCGGGAAGAGCACTT
1 TCAACATGATGATG-GGAGGACCCATTCTGAACTTTACAACATCAACAGGGCGGGAAGAACACTT
39102510 ACAACT
65 ACAACT
39102516 TCAACA
1 TCAACA
39102522 CGGAGAGAAG
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
69 1 0.02
70 62 0.98
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (70 bp):
TCAACATGATGATGGGAGGACCCATTCTGAACTTTACAACATCAACAGGGCGGGAAGAACACTTA
CAACT
Found at i:39102535 original size:70 final size:70
Alignment explanation
Indices: 39102391--39102561 Score: 184
Period size: 70 Copynumber: 2.4 Consensus size: 70
39102381 ATGGTGATGG
* * * * ** * * * *
39102391 GAGGACCCATTTTGGACTTTACAACATCAGTAGGGTGGGAAGAACCCTTACAACTTCAACATGAT
1 GAGGGCCCATTTCGAACTTTGCAACATCAACATGGCGGGAAGAACACTTACAACTTCAACAGGAT
*
39102456 GAGAG
66 GAGAA
* *
39102461 GAGGGCCCA-TTCTGAACTTTGCAGCATCAACATGGCGGGAAGAGCACTTACAACTTCAACACGG
1 GAGGGCCCATTTC-GAACTTTGCAACATCAACATGGCGGGAAGAACACTTACAACTTCAACA-GG
39102525 A-GAGAA
64 ATGAGAA
*
39102531 GAGGGCTCATTTCGAACTTTGCAACATCAAC
1 GAGGGCCCATTTCGAACTTTGCAACATCAAC
39102562 TTGGTGAGAA
Statistics
Matches: 83, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
69 2 0.02
70 76 0.92
71 5 0.06
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (70 bp):
GAGGGCCCATTTCGAACTTTGCAACATCAACATGGCGGGAAGAACACTTACAACTTCAACAGGAT
GAGAA
Found at i:39106380 original size:14 final size:15
Alignment explanation
Indices: 39106344--39106380 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
39106334 TGTATTCGTA
*
39106344 TTGTATCATATTATT
1 TTGTATAATATTATT
39106359 TT-TATAAT-TTATT
1 TTGTATAATATTATT
39106372 TTGTATAAT
1 TTGTATAAT
39106381 CTATCAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 7 0.35
14 11 0.55
15 2 0.10
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (15 bp):
TTGTATAATATTATT
Found at i:39110836 original size:16 final size:16
Alignment explanation
Indices: 39110815--39110854 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
39110805 CGGACTTGTT
*
39110815 GAGGATGGTAGCACGA
1 GAGGATAGTAGCACGA
39110831 GAGGATAGTAGCACGA
1 GAGGATAGTAGCACGA
*
39110847 TAGGATAG
1 GAGGATAG
39110855 ACAGATCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.35, C:0.10, G:0.40, T:0.15
Consensus pattern (16 bp):
GAGGATAGTAGCACGA
Found at i:39112360 original size:6 final size:7
Alignment explanation
Indices: 39112321--39112359 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
39112311 AAAATGTGTA
39112321 AAAAATG
1 AAAAATG
39112328 AAAAAATG
1 -AAAAATG
39112336 -AAAATG
1 AAAAATG
39112342 AAAAATG
1 AAAAATG
39112349 AAAAATG
1 AAAAATG
39112356 AAAA
1 AAAA
39112360 TAGAGAGGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.20
7 17 0.57
8 7 0.23
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (7 bp):
AAAAATG
Found at i:39113934 original size:127 final size:128
Alignment explanation
Indices: 39113658--39113990 Score: 526
Period size: 127 Copynumber: 2.6 Consensus size: 128
39113648 CCCTGACCAG
* *
39113658 CAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGTAGATCAAAGAC
1 CAGTGGAATAGGTT-GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGAC
* *
39113723 GGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTAGTCAG
65 AGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTAGTCAA
* *
39113787 CAGTGGAATAGG-TGGGAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACA
1 CAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACA
* * *
39113851 GCGAATC-TATCTTCAAGTGTAAGGAAGCAGATTTAGGCCACAAGTCCTATGTCCCTGGTCAA
66 GCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTAGTCAA
* **
39113913 CAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATTGAAGATG
1 CAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACA
*
39113978 GCAAATCTTATCT
66 GCGAATCTTATCT
39113991 CCCTGAAGTT
Statistics
Matches: 187, Mismatches: 15, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
126 63 0.34
127 106 0.57
128 6 0.03
129 12 0.06
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (128 bp):
CAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACA
GCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTAGTCAA
Found at i:39114797 original size:14 final size:15
Alignment explanation
Indices: 39114761--39114797 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
39114751 TGTATTCGTA
*
39114761 TTGTATCATATTATT
1 TTGTATAATATTATT
39114776 TT-TATAAT-TTATT
1 TTGTATAATATTATT
39114789 TTGTATAAT
1 TTGTATAAT
39114798 CTATCAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 7 0.35
14 11 0.55
15 2 0.10
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (15 bp):
TTGTATAATATTATT
Found at i:39119054 original size:27 final size:27
Alignment explanation
Indices: 39119024--39119142 Score: 89
Period size: 27 Copynumber: 4.4 Consensus size: 27
39119014 TAGTCCTTTA
* *
39119024 GGACATTAAACG-CGAGGTAGTCTACTG
1 GGACATTAAACGAGGA-GTAGTCTACCG
39119051 GGACATTAAACGAGGAGTAGTCTACCG
1 GGACATTAAACGAGGAGTAGTCTACCG
* * * * *
39119078 GGACAATAAATGCGGAATAGTCCACCG
1 GGACATTAAACGAGGAGTAGTCTACCG
* * * * *
39119105 GGATAATAAA-GATGGGGTAGTCCATCG
1 GGACATTAAACGA-GGAGTAGTCTACCG
*
39119132 AGACATTAAAC
1 GGACATTAAAC
39119143 ACAAACATTA
Statistics
Matches: 74, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
26 1 0.01
27 71 0.96
28 2 0.03
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (27 bp):
GGACATTAAACGAGGAGTAGTCTACCG
Found at i:39119203 original size:27 final size:27
Alignment explanation
Indices: 39119173--39119273 Score: 96
Period size: 27 Copynumber: 3.7 Consensus size: 27
39119163 AATCTTCCGA
39119173 GACAATAAACATGGGGTAGTCCGTCGG
1 GACAATAAACATGGGGTAGTCCGTCGG
*** * *
39119200 GACAATAATTGTGGAGTAGTCTG-CTGG
1 GACAATAAACATGGGGTAGTCCGTC-GG
* * *
39119227 GACATTAAACGTGGGGTAGTCCGTTGG
1 GACAATAAACATGGGGTAGTCCGTCGG
* *
39119254 GACAATAAATATGAGGTAGT
1 GACAATAAACATGGGGTAGT
39119274 TTGCTGGAAC
Statistics
Matches: 57, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
26 1 0.02
27 56 0.98
ACGTcount: A:0.30, C:0.13, G:0.33, T:0.25
Consensus pattern (27 bp):
GACAATAAACATGGGGTAGTCCGTCGG
Found at i:39119260 original size:54 final size:54
Alignment explanation
Indices: 39119173--39119289 Score: 155
Period size: 54 Copynumber: 2.2 Consensus size: 54
39119163 AATCTTCCGA
* * *
39119173 GACAATAAACATGGGGTAGTCCGTCGGGACAATAATTGTG-GAGTAGTCTGCTGG
1 GACATTAAACATGGGGTAGTCCGTCGGGACAATAAATATGAG-GTAGTCTGCTGG
* * *
39119227 GACATTAAACGTGGGGTAGTCCGTTGGGACAATAAATATGAGGTAGTTTGCTGG
1 GACATTAAACATGGGGTAGTCCGTCGGGACAATAAATATGAGGTAGTCTGCTGG
*
39119281 AACATTAAA
1 GACATTAAA
39119290 TGTAGAATAG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
54 54 0.98
55 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.26
Consensus pattern (54 bp):
GACATTAAACATGGGGTAGTCCGTCGGGACAATAAATATGAGGTAGTCTGCTGG
Found at i:39119315 original size:54 final size:53
Alignment explanation
Indices: 39119189--39119322 Score: 142
Period size: 54 Copynumber: 2.5 Consensus size: 53
39119179 AAACATGGGG
* * * * **
39119189 TAGTCCGTCGGGACAATAATTGTGGAGTAGTCTGCTGGGACATTAAACGTGGGG
1 TAGTCCGTCGGGACAATAAATATGG-GTAGTCTGCTGGAACATTAAACGTAGAA
* * *
39119243 TAGTCCGTTGGGACAATAAATATGAGGTAGTTTGCTGGAACATTAAATGTAGAA
1 TAGTCCGTCGGGACAATAAATATG-GGTAGTCTGCTGGAACATTAAACGTAGAA
* * *
39119297 TAGTTCGTCGGGATAATAAACATGGG
1 TAGTCCGTCGGGACAATAAATATGGG
39119323 GTATTCCAAG
Statistics
Matches: 66, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
53 2 0.03
54 63 0.95
55 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.28
Consensus pattern (53 bp):
TAGTCCGTCGGGACAATAAATATGGGTAGTCTGCTGGAACATTAAACGTAGAA
Found at i:39119366 original size:27 final size:27
Alignment explanation
Indices: 39119335--39119459 Score: 94
Period size: 27 Copynumber: 4.7 Consensus size: 27
39119325 ATTCCAAGTT
* *
39119335 ATTAAACGTAGGGTAGTCCATCAAGAC
1 ATTAAACGCAGGGTAGTCTATCAAGAC
* * *
39119362 ATTAAATGCGGGGTAGTCTACCAAGAC
1 ATTAAACGCAGGGTAGTCTATCAAGAC
* * *
39119389 ATTAAACCCA-GGTAGTCTGTCAGGAC
1 ATTAAACGCAGGGTAGTCTATCAAGAC
* ** * *
39119415 AATAAACATAGGGTAGTCT-GCTAGGAC
1 ATTAAACGCAGGGTAGTCTATC-AAGAC
39119442 ATTAAACGC-GAGGTAGTC
1 ATTAAACGCAG-GGTAGTC
39119460 CATCGGGACA
Statistics
Matches: 77, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
26 22 0.29
27 55 0.71
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
ATTAAACGCAGGGTAGTCTATCAAGAC
Found at i:39119476 original size:54 final size:53
Alignment explanation
Indices: 39119372--39119476 Score: 129
Period size: 54 Copynumber: 2.0 Consensus size: 53
39119362 ATTAAATGCG
** *
39119372 GGGTAGTCTACCAAGACATTAAACCCAGGTAGTCTGTCAGGACAATAAACATA
1 GGGTAGTCTACCAAGACATTAAACCCAGGTAGTCCATCAGGACAAGAAACATA
* * * * *
39119425 GGGTAGTCTGCTAGGACATTAAACGCGAGGTAGTCCATCGGGACAAGAAACA
1 GGGTAGTCTACCAAGACATTAAAC-CCAGGTAGTCCATCAGGACAAGAAACA
39119477 CGTGGTGATC
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
53 21 0.49
54 22 0.51
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (53 bp):
GGGTAGTCTACCAAGACATTAAACCCAGGTAGTCCATCAGGACAAGAAACATA
Found at i:39127656 original size:13 final size:13
Alignment explanation
Indices: 39127635--39127672 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
39127625 TAACCCATTG
*
39127635 CACATAAAACAAA
1 CACACAAAACAAA
39127648 CACACAAAAACAAA
1 CACAC-AAAACAAA
39127662 -ACACAAAACAA
1 CACACAAAACAA
39127673 CCAAAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 7 0.30
13 8 0.35
14 8 0.35
ACGTcount: A:0.71, C:0.26, G:0.00, T:0.03
Consensus pattern (13 bp):
CACACAAAACAAA
Found at i:39127663 original size:15 final size:15
Alignment explanation
Indices: 39127635--39127666 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
39127625 TAACCCATTG
39127635 CACATAAAACAAACA
1 CACATAAAACAAACA
39127650 CACA-AAAACAAA-A
1 CACATAAAACAAACA
39127663 CACA
1 CACA
39127667 AAACAACCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.29
14 8 0.47
15 4 0.24
ACGTcount: A:0.69, C:0.28, G:0.00, T:0.03
Consensus pattern (15 bp):
CACATAAAACAAACA
Found at i:39128990 original size:27 final size:27
Alignment explanation
Indices: 39128948--39129048 Score: 139
Period size: 27 Copynumber: 3.7 Consensus size: 27
39128938 TTAATCATTT
* * *
39128948 GCCACTAAGGCTTTCCTTTTCTTATATC
1 GCCACAAAGGC-TTCCATTTCATATATC
39128976 GCCACAAAGGCTTCCATTTCATATATC
1 GCCACAAAGGCTTCCATTTCATATATC
* *
39129003 GCCACAAAGGCTTCCATTTCATAGATT
1 GCCACAAAGGCTTCCATTTCATATATC
*
39129030 GTCACAAAGGCTTCCATTT
1 GCCACAAAGGCTTCCATTT
39129049 TTCTGGCGTG
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
27 57 0.85
28 10 0.15
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.34
Consensus pattern (27 bp):
GCCACAAAGGCTTCCATTTCATATATC
Found at i:39135512 original size:18 final size:19
Alignment explanation
Indices: 39135459--39135512 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
39135449 GAAGAAAAGT
*
39135459 TACTAGGAAATATAAAATT
1 TACTAGGAAATATAAAATC
*
39135478 TATTAGGAAATATAAAATC
1 TACTAGGAAATATAAAATC
*
39135497 TACTGGGAAA-ATAAAA
1 TACTAGGAAATATAAAA
39135513 AAACCTAGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 6 0.19
19 25 0.81
ACGTcount: A:0.54, C:0.06, G:0.13, T:0.28
Consensus pattern (19 bp):
TACTAGGAAATATAAAATC
Found at i:39137846 original size:26 final size:27
Alignment explanation
Indices: 39137764--39137828 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
39137754 GGAAAGAGAA
* * *
39137764 GCCTTTGTGGCAAAATATGA-AAGAAAA
1 GCCTTTGTGGCAAACTAT-ATAAGGAAT
*
39137791 GCCTTTGTGGCAAACTCTATAAGGAAT
1 GCCTTTGTGGCAAACTATATAAGGAAT
39137818 GCCTTTGTGGC
1 GCCTTTGTGGC
39137829 GCACTATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 1 0.03
27 32 0.97
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.28
Consensus pattern (27 bp):
GCCTTTGTGGCAAACTATATAAGGAAT
Found at i:39145592 original size:33 final size:33
Alignment explanation
Indices: 39145555--39145622 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
39145545 ATTGGGGCAG
39145555 TCCTGGTATCTCCAAATGGAGATTATCATCCTT
1 TCCTGGTATCTCCAAATGGAGATTATCATCCTT
39145588 TCCTGGTATCTCCAAATGGAGATTATCATCCTT
1 TCCTGGTATCTCCAAATGGAGATTATCATCCTT
39145621 TC
1 TC
39145623 ACTAGTAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.37
Consensus pattern (33 bp):
TCCTGGTATCTCCAAATGGAGATTATCATCCTT
Found at i:39148537 original size:44 final size:45
Alignment explanation
Indices: 39148473--39149174 Score: 628
Period size: 44 Copynumber: 15.9 Consensus size: 45
39148463 AAAAAGCAGT
* *
39148473 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
* * * * *
39148517 AGATCCTATCTTCCTATATTGGTAG-GAAATGGATCGAAGAT-GC
1 AGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
* * * * *
39148560 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGC
1 AGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
* * * *
39148605 AGATCTTGTCTTCATGTATTGG-CGTGAAGGAGATCGAAGATAAC
1 AGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
* * * *
39148649 AGATCCTT-TCTTCCTATATTGGTAGCGAAGTGGATTGAAGAT-GC
1 AGAT-CTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
** * * ** *
39148693 AGATCTTGTCTTCGAATACTGGTGGCAAAGTAGATCGAA-AAAGC
1 AGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
* * *
39148737 GGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
* * * * * *
39148781 AGGTCCTATCTTCCTATATTGGTAG-GAAGTGGATTGAAGAT-GC
1 AGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
* * * * * *
39148824 AGATCTTGTCTTCCCATATTGGTGGCGAAGAAGATTGAAGAAAGC
1 AGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
* * *
39148869 AGTTCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
* * *
39148913 AGAT-TCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATA-C
1 AGATCT-TGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
* * * * * * * *
39148957 AGATCTTGTTTTCCCATACTGGTGGCGAAGTAAATCGAAAAAAGC
1 AGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
* * *
39149002 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAATATAGC
1 AGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
* * * *
39149046 AGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGAT-GC
1 AGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
* * * * *
39149090 AGATTTTGTCTTCCCATACTGGTGGTGAAGTAGATCGGAA-AAAGC
1 AGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATC-GAAGATAGC
* *
39149135 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGA
1 AGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGA
39149175 CGGCAAATCC
Statistics
Matches: 519, Mismatches: 120, Indels: 38
0.77 0.18 0.06
Matches are distributed among these distances:
43 65 0.13
44 322 0.62
45 132 0.25
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (45 bp):
AGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
Found at i:39148944 original size:264 final size:265
Alignment explanation
Indices: 39148473--39149207 Score: 1177
Period size: 264 Copynumber: 2.8 Consensus size: 265
39148463 AAAAAGCAGT
39148473 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTG
*
39148538 GTAGGAAATGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
66 GTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
* * *
39148603 GCAGATCTTGTCTTCATGTATTGGCGTGAAGGAGATCGAAGATAACAGATCCTTTCTTCCTATAT
131 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATAT
* * * *
39148668 TGGTAGCGAAGTGGATTGAAGATGCAGATCTTGTCTTCGAATACTGGTGGCAAAGTAGATCG-AA
196 TGGTAGCGAAGTGGATCGAAGATACAGATCTTGTCTTCCAATACTGGTGGCAAAGTAAATCGAAA
39148732 AAAGC
261 AAAGC
* *
39148737 GGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTG
* * * *
39148802 GTAGGAAGTGGATTGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGAAGATTGAAGAAA
66 GTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
* * *
39148867 GCAGTTCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATTCTGTCTTCCTATAT
131 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATAT
* * *
39148932 TGGTAGCGAAGTGGATCGAAGATACAGATCTTGTTTTCCCATACTGGTGGCGAAGTAAATCGAAA
196 TGGTAGCGAAGTGGATCGAAGATACAGATCTTGTCTTCCAATACTGGTGGCAAAGTAAATCGAAA
39148997 AAAGC
261 AAAGC
* *
39149002 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAATATAGCAGATCCTGTCTTCCTATATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTG
* *
39149067 GTAGCGAAGTGGATCGAAGATGCAGATTTTGTCTTCCCATACTGGTGGTGAAGTAGATCGGAA-A
66 GTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC-GAAGA
** * *
39149131 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGACGGCAAATCCTATCTGCCTAT
129 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTAT
*
39149196 ATCGGTAGCGAA
194 ATTGGTAGCGAA
39149208 ATAGATCAAA
Statistics
Matches: 431, Mismatches: 37, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
264 238 0.55
265 72 0.17
266 118 0.27
267 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (265 bp):
AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTG
GTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATAT
TGGTAGCGAAGTGGATCGAAGATACAGATCTTGTCTTCCAATACTGGTGGCAAAGTAAATCGAAA
AAAGC
Found at i:39149013 original size:133 final size:133
Alignment explanation
Indices: 39148473--39149207 Score: 1161
Period size: 133 Copynumber: 5.5 Consensus size: 133
39148463 AAAAAGCAGT
39148473 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTG
* *
39148538 GTAG-GAAATGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
66 GTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAAAA
39148602 AGC
131 AGC
* * *
39148605 AGATCTTGTCTTCATGTATTGGCGTGAAGGAGATCGAAGATAACAGATCCTTTCTTCCTATATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTG
* ** *
39148670 GTAGCGAAGTGGATTGAAGATGCAGATCTTGTCTTCGAATACTGGTGGCAAAGTAGATCG-AAAA
66 GTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAAAA
39148734 AGC
131 AGC
* *
39148737 GGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTG
* * * * *
39148802 GTAG-GAAGTGGATTGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGAAGATTGAAGAA
66 GTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAAAA
39148866 AGC
131 AGC
* * *
39148869 AGTTCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATTCTGTCTTCCTATATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTG
* * *
39148934 GTAGCGAAGTGGATCGAAGATACAGATCTTGTTTTCCCATACTGGTGGCGAAGTAAATCGAAAAA
66 GTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAAAA
39148999 AGC
131 AGC
* *
39149002 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAATATAGCAGATCCTGTCTTCCTATATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTG
* * *
39149067 GTAGCGAAGTGGATCGAAGATGCAGATTTTGTCTTCCCATACTGGTGGTGAAGTAGATCGGAAAA
66 GTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAAAA
39149132 AGC
131 AGC
** * * *
39149135 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGACGGCAAATCCTATCTGCCTATATCG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTG
39149200 GTAGCGAA
66 GTAGCGAA
39149208 ATAGATCAAA
Statistics
Matches: 550, Mismatches: 50, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
131 49 0.09
132 206 0.37
133 295 0.54
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (133 bp):
AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTG
GTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAAAA
AGC
Found at i:39158239 original size:3 final size:3
Alignment explanation
Indices: 39158233--39158262 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
39158223 CATGTTATAC
*
39158233 TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
39158263 AGTTATTGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:39158435 original size:9 final size:9
Alignment explanation
Indices: 39158420--39158456 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
39158410 TTTTACTTTT
39158420 TTATATATA
1 TTATATATA
39158429 CTT-TATATA
1 -TTATATATA
39158438 TTATATATA
1 TTATATATA
39158447 -TATATATA
1 TTATATATA
39158455 TT
1 TT
39158457 TTTTTTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
8 10 0.40
9 13 0.52
10 2 0.08
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (9 bp):
TTATATATA
Found at i:39166900 original size:51 final size:51
Alignment explanation
Indices: 39166844--39166945 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 51
39166834 GGCCATGCCA
*
39166844 AAACTAGCAAGCATAACTACCATTTTTAAAAATAGTTTAATATTTTTAGAC
1 AAACTAGCAAGCATAACTACCATTTTTAAAAATAATTTAATATTTTTAGAC
**
39166895 AAACTAGTGAGCATAACTACCATTTTTAAAAATAATTTAATATTTTTAGAC
1 AAACTAGCAAGCATAACTACCATTTTTAAAAATAATTTAATATTTTTAGAC
39166946 TAATTTAGCA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36
Consensus pattern (51 bp):
AAACTAGCAAGCATAACTACCATTTTTAAAAATAATTTAATATTTTTAGAC
Found at i:39168863 original size:25 final size:25
Alignment explanation
Indices: 39168829--39168879 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
39168819 TCCAAGGATG
39168829 TGGTGTTTGTTGTCATGACATTCAT
1 TGGTGTTTGTTGTCATGACATTCAT
39168854 TGGTGTTTGTTGTCATGACATTCAT
1 TGGTGTTTGTTGTCATGACATTCAT
39168879 T
1 T
39168880 ACTCCAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.16, C:0.12, G:0.24, T:0.49
Consensus pattern (25 bp):
TGGTGTTTGTTGTCATGACATTCAT
Found at i:39171645 original size:32 final size:31
Alignment explanation
Indices: 39171604--39171666 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 31
39171594 TAAAATAGGG
* *
39171604 TTTTAAGTTCTTTAAACGTTGGAGAAAAAAAA
1 TTTTAAGTTCCTTAAAAGTT-GAGAAAAAAAA
*
39171636 TTTTAAGTTCCTTAAAAGTTGATAAAAAAAA
1 TTTTAAGTTCCTTAAAAGTTGAGAAAAAAAA
39171667 AGATTTGAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 10 0.36
32 18 0.64
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (31 bp):
TTTTAAGTTCCTTAAAAGTTGAGAAAAAAAA
Found at i:39185506 original size:17 final size:17
Alignment explanation
Indices: 39185486--39185518 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
39185476 AGAAGATTCA
39185486 ACAAAAAATGATAGATG
1 ACAAAAAATGATAGATG
*
39185503 ACAACAAATGATAGAT
1 ACAAAAAATGATAGAT
39185519 AAAATAATGG
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:0.58, C:0.09, G:0.15, T:0.18
Consensus pattern (17 bp):
ACAAAAAATGATAGATG
Found at i:39192595 original size:14 final size:15
Alignment explanation
Indices: 39192567--39192595 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
39192557 GCTAATAAAA
39192567 ACTTACACTAAAATT
1 ACTTACACTAAAATT
39192582 ACTTACAC-AAAATT
1 ACTTACACTAAAATT
39192596 TTCAACCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (15 bp):
ACTTACACTAAAATT
Found at i:39197734 original size:16 final size:16
Alignment explanation
Indices: 39197713--39197752 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
39197703 TAATATAGTA
39197713 AATTTTGCTTTTAGGT
1 AATTTTGCTTTTAGGT
*
39197729 AATTTTGTTTTTAGGT
1 AATTTTGCTTTTAGGT
*
39197745 TATTTTGC
1 AATTTTGC
39197753 ATTCCGTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.17, C:0.05, G:0.17, T:0.60
Consensus pattern (16 bp):
AATTTTGCTTTTAGGT
Found at i:39200732 original size:36 final size:34
Alignment explanation
Indices: 39200691--39200762 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 34
39200681 TGGAAATTAT
39200691 ATTTATTAACTTAGTGGAATTATGGACTTCACATTC
1 ATTTATT-A-TTAGTGGAATTATGGACTTCACATTC
*
39200727 A--T-TTATTAGTGTAATTATGGACTTCACATTC
1 ATTTATTATTAGTGGAATTATGGACTTCACATTC
39200758 ATTTA
1 ATTTA
39200763 GACATTTCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
31 26 0.81
32 1 0.03
33 3 0.09
34 1 0.03
36 1 0.03
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (34 bp):
ATTTATTATTAGTGGAATTATGGACTTCACATTC
Found at i:39200737 original size:31 final size:31
Alignment explanation
Indices: 39200701--39200762 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
39200691 ATTTATTAAC
39200701 TTAGTGGAATTATGGACTTCACATTCATTTA
1 TTAGTGGAATTATGGACTTCACATTCATTTA
*
39200732 TTAGTGTAATTATGGACTTCACATTCATTTA
1 TTAGTGGAATTATGGACTTCACATTCATTTA
39200763 GACATTTCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.44
Consensus pattern (31 bp):
TTAGTGGAATTATGGACTTCACATTCATTTA
Found at i:39202271 original size:18 final size:18
Alignment explanation
Indices: 39202243--39202286 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
39202233 AGTGAAATTT
*
39202243 ATATAAAAATCCCTGAAGG
1 ATAT-AAAATCCCGGAAGG
*
39202262 ATTTAAAATCCCGGAAGG
1 ATATAAAATCCCGGAAGG
39202280 ATATAAA
1 ATATAAA
39202287 GTTTCTTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.23
Consensus pattern (18 bp):
ATATAAAATCCCGGAAGG
Found at i:39205614 original size:2 final size:2
Alignment explanation
Indices: 39205607--39205646 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
39205597 ACAAATAATG
39205607 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
39205647 AAAGTATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:39205750 original size:2 final size:2
Alignment explanation
Indices: 39205745--39205769 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
39205735 AAAATTTACA
39205745 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
39205770 ATAGTTTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:39237808 original size:14 final size:14
Alignment explanation
Indices: 39237789--39237827 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
39237779 TTGGATTTAA
*
39237789 GGTTCACACATATG
1 GGTTCACACATAAG
* *
39237803 GGTTCAAACCTAAG
1 GGTTCACACATAAG
39237817 GGTTCACACAT
1 GGTTCACACAT
39237828 CTAGGCATGC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.26
Consensus pattern (14 bp):
GGTTCACACATAAG
Found at i:39244719 original size:16 final size:16
Alignment explanation
Indices: 39244698--39244730 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
39244688 CAGAAAGAAC
39244698 GAGAGTTTGAGACTAT
1 GAGAGTTTGAGACTAT
39244714 GAGAGTTTGAGACTAT
1 GAGAGTTTGAGACTAT
39244730 G
1 G
39244731 TATCGATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.06, G:0.33, T:0.30
Consensus pattern (16 bp):
GAGAGTTTGAGACTAT
Found at i:39245003 original size:28 final size:28
Alignment explanation
Indices: 39244963--39245019 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
39244953 ATGAACCGAA
*
39244963 TACTTCAGTCATATCTAGATAGATTTGT
1 TACTTCAATCATATCTAGATAGATTTGT
39244991 TACTTCAATCATATCTAGATAGATTTGT
1 TACTTCAATCATATCTAGATAGATTTGT
39245019 T
1 T
39245020 GTCGTATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (28 bp):
TACTTCAATCATATCTAGATAGATTTGT
Found at i:39251191 original size:15 final size:16
Alignment explanation
Indices: 39251171--39251200 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
39251161 CTTGACTCTT
39251171 AAAAAAA-TAAAAGTA
1 AAAAAAATTAAAAGTA
39251186 AAAAAAATTAAAAGT
1 AAAAAAATTAAAAGT
39251201 TCATTTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.17
Consensus pattern (16 bp):
AAAAAAATTAAAAGTA
Found at i:39252620 original size:24 final size:24
Alignment explanation
Indices: 39252592--39252752 Score: 94
Period size: 24 Copynumber: 7.0 Consensus size: 24
39252582 TATCTAAGTT
39252592 AATTTATTGTATATTATTATTTTA
1 AATTTATTGTATATTATTATTTTA
* *
39252616 GATTTATCACGT-T-TTATTATTTGT-
1 AATTTAT--TGTATATTATTATTT-TA
**
39252640 AATTTA-TCAATATTATTATTTTA
1 AATTTATTGTATATTATTATTTTA
* *
39252663 AATTTATCGTA-A-CATTATTTTA
1 AATTTATTGTATATTATTATTTTA
39252685 AATTTATCATGTATA-T-TTATTTTA
1 AATTTAT--TGTATATTATTATTTTA
* *
39252709 CAATTTA---T-CATTAATATTTTA
1 -AATTTATTGTATATTATTATTTTA
* *
39252730 AATTTATTATATACTATTATTTT
1 AATTTATTGTATATTATTATTTT
39252753 GGATTTATCG
Statistics
Matches: 103, Mismatches: 17, Indels: 34
0.67 0.11 0.22
Matches are distributed among these distances:
19 1 0.01
20 8 0.08
21 7 0.07
22 18 0.17
23 17 0.17
24 41 0.40
25 9 0.09
26 2 0.02
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.57
Consensus pattern (24 bp):
AATTTATTGTATATTATTATTTTA
Found at i:39252659 original size:23 final size:23
Alignment explanation
Indices: 39252602--39252670 Score: 86
Period size: 23 Copynumber: 2.9 Consensus size: 23
39252592 AATTTATTGT
39252602 ATATTATTATTTTAGATTTATCAC
1 ATATTATTATTTTA-ATTTATCAC
* *
39252626 GTTTTATTATTTGTAATTTATCA-
1 ATATTATTATTT-TAATTTATCAC
39252649 ATATTATTATTTTAAATTTATC
1 ATATTATTATTTT-AATTTATC
39252671 GTAACATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
22 1 0.03
23 18 0.46
24 18 0.46
25 2 0.05
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (23 bp):
ATATTATTATTTTAATTTATCAC
Found at i:39252682 original size:22 final size:21
Alignment explanation
Indices: 39252654--39252736 Score: 87
Period size: 22 Copynumber: 3.8 Consensus size: 21
39252644 TATCAATATT
39252654 ATTATTTTAAATTTATCGTAA
1 ATTATTTTAAATTTATCGTAA
39252675 CATTATTTTAAATTTATCATGTATA
1 -ATTATTTTAAATTTATC--GTA-A
* * *
39252700 TTTATTTTACAATTTATCATTA
1 ATTATTTTA-AATTTATCGTAA
39252722 A-TATTTTAAATTTAT
1 ATTATTTTAAATTTAT
39252737 TATATACTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
20 7 0.13
21 7 0.13
22 18 0.34
23 1 0.02
24 11 0.21
25 9 0.17
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.55
Consensus pattern (21 bp):
ATTATTTTAAATTTATCGTAA
Found at i:39252684 original size:69 final size:68
Alignment explanation
Indices: 39252557--39252820 Score: 182
Period size: 69 Copynumber: 3.7 Consensus size: 68
39252547 TTTAAAGTAA
** *
39252557 TTATTATTAAATTTATCATTAATATTATCTAAGTTAATTTATTGTATATTATTATTTTAGATTTA
1 TTATT-TTAAATTTATCATTAATATT-T-T-A---AATTTATCATATACTATTATTTTAGATTTA
*
39252622 TCACGT-TTT
59 TCACGTATAT
* * *
39252631 ATTATTTGT-AATTTATCAATATTATTATTTTAAATTTATCGTA-AC-ATTATTTTAAATTTATC
1 -TTATTT-TAAATTTATC---ATTAATATTTTAAATTTATCATATACTATTATTTTAGATTTATC
*
39252693 ATGTATAT
61 ACGTATAT
* * *
39252701 TTATTTTACAATTTATCATTAATATTTTAAATTTATTATATACTATTATTTTGGATTTATCGCGT
1 TTATTTTA-AATTTATCATTAATATTTTAAATTTATCATATACTATTATTTTAGATTTATCACGT
39252766 ATGA-
65 AT-AT
* * * * *
39252770 TTATTCTAGAA-TTATCATCAAAATTTTTAAATTTTAT-ATGTATTATTATTT
1 TTATTTTA-AATTTATCATTAATA-TTTTAAA-TTTATCATATACTATTATTT
39252821 CAATTTTATT
Statistics
Matches: 158, Mismatches: 19, Indels: 30
0.76 0.09 0.14
Matches are distributed among these distances:
67 20 0.13
68 13 0.08
69 72 0.46
70 17 0.11
71 10 0.06
74 10 0.06
75 7 0.04
76 1 0.01
77 8 0.05
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (68 bp):
TTATTTTAAATTTATCATTAATATTTTAAATTTATCATATACTATTATTTTAGATTTATCACGTA
TAT
Found at i:39252714 original size:25 final size:24
Alignment explanation
Indices: 39252632--39252727 Score: 94
Period size: 22 Copynumber: 4.1 Consensus size: 24
39252622 TCACGTTTTA
* *
39252632 TTATTTGT-AATTTATCAATATTA-
1 TTATTT-TAAATTTATCATTAATAT
* *
39252655 TTATTTTAAATTTATC-GTAACA-
1 TTATTTTAAATTTATCATTAATAT
39252677 TTATTTTAAATTTATCATGT-ATAT
1 TTATTTTAAATTTATCAT-TAATAT
39252701 TTATTTTACAATTTATCATTAATAT
1 TTATTTTA-AATTTATCATTAATAT
39252726 TT
1 TT
39252728 TAAATTTATT
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
22 20 0.32
23 16 0.26
24 10 0.16
25 16 0.26
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.56
Consensus pattern (24 bp):
TTATTTTAAATTTATCATTAATAT
Found at i:39252750 original size:45 final size:45
Alignment explanation
Indices: 39252556--39252761 Score: 143
Period size: 45 Copynumber: 4.4 Consensus size: 45
39252546 GTTTAAAGTA
**
39252556 ATTATTATTAAATTTATCATTAATATTATCTAAGTTAATTTATTGTATATT
1 ATTATT-TTAAATTTATCATTAATATT-TCT-A---AATTTATCATATATT
* * *
39252607 ATTATTTTAGATTTATCACGTTTTATTATTTGT-AATTTATCA-ATATT
1 ATTATTTTAAATTTATCA----TTAATATTTCTAAATTTATCATATATT
* * *
39252654 ATTATTTTAAATTTATCGTAACATTATTT-TAAATTTATCATGTA-T
1 ATTATTTTAAATTTATCATTA-A-TATTTCTAAATTTATCATATATT
* *
39252699 ATTTATTTTACAATTTATCATTAATATTT-TAAATTTATTATATACT
1 A-TTATTTTA-AATTTATCATTAATATTTCTAAATTTATCATATATT
**
39252745 ATTATTTTGGATTTATC
1 ATTATTTTAAATTTATC
39252762 GCGTATGATT
Statistics
Matches: 128, Mismatches: 16, Indels: 29
0.74 0.09 0.17
Matches are distributed among these distances:
43 2 0.02
44 8 0.06
45 41 0.32
46 13 0.10
47 31 0.24
48 7 0.05
50 11 0.09
51 6 0.05
53 2 0.02
54 7 0.05
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (45 bp):
ATTATTTTAAATTTATCATTAATATTTCTAAATTTATCATATATT
Found at i:39257545 original size:24 final size:24
Alignment explanation
Indices: 39257503--39257549 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
39257493 TGTTTGGTTA
39257503 CCCTTCTTCTCCCCTTTCCCCTTC
1 CCCTTCTTCTCCCCTTTCCCCTTC
*
39257527 CCCTTCTCTTTCCCC-TTCCCCTT
1 CCCTTCT-TCTCCCCTTTCCCCTT
39257550 GGGTTGCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (24 bp):
CCCTTCTTCTCCCCTTTCCCCTTC
Found at i:39257643 original size:25 final size:25
Alignment explanation
Indices: 39257615--39257664 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
39257605 AGGCTCCTTC
*
39257615 TCCTTCTCCTTCTTCCGTTCTTCAT
1 TCCTTCTCCTTCTTCCATTCTTCAT
* *
39257640 TCCTTTTTCTTCTTCCATTCTTCAT
1 TCCTTCTCCTTCTTCCATTCTTCAT
39257665 CTTCTCTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.06, C:0.36, G:0.02, T:0.56
Consensus pattern (25 bp):
TCCTTCTCCTTCTTCCATTCTTCAT
Found at i:39259312 original size:13 final size:13
Alignment explanation
Indices: 39259294--39259333 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
39259284 TGTGTATATA
39259294 ATTATTTTATTAT
1 ATTATTTTATTAT
39259307 ATTATTTTATTACGT
1 ATTATTTTATTA--T
39259322 ATTA-TTTATTAT
1 ATTATTTTATTAT
39259334 GTCCTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.04
13 12 0.48
14 7 0.28
15 5 0.20
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (13 bp):
ATTATTTTATTAT
Found at i:39261221 original size:12 final size:12
Alignment explanation
Indices: 39261204--39261237 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
39261194 TTAGAGTAAT
39261204 TGCAAGAACAGA
1 TGCAAGAACAGA
**
39261216 TGCAAGTTCAGA
1 TGCAAGAACAGA
39261228 TGCAAGAACA
1 TGCAAGAACA
39261238 ACTAGAAAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (12 bp):
TGCAAGAACAGA
Found at i:39263579 original size:15 final size:15
Alignment explanation
Indices: 39263561--39263616 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 15
39263551 AACAAACAAA
39263561 AAAAGAAGAAAAGAG
1 AAAAGAAGAAAAGAG
39263576 AAAAGAAAAGAAAAGAAAAG
1 AAAAG--AAGAAAAG---AG
39263596 AAAAGAAGAAAA-AG
1 AAAAGAAGAAAAGAG
39263610 AAAAGAA
1 AAAAGAA
39263617 AAATGAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
14 9 0.25
15 5 0.14
17 8 0.22
18 7 0.19
20 7 0.19
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAAGAAGAAAAGAG
Found at i:39263582 original size:5 final size:5
Alignment explanation
Indices: 39263561--39263618 Score: 75
Period size: 5 Copynumber: 11.8 Consensus size: 5
39263551 AACAAACAAA
* *
39263561 AAAAG AAGAA- AAGAG AAAAG AAAAG AAAAG AAAAG AAAAG AAGA- AAAAG
1 AAAAG AA-AAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
39263610 AAAAG AAAA
1 AAAAG AAAA
39263619 ATGAAAAATG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
4 4 0.09
5 40 0.87
6 2 0.04
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:39263626 original size:19 final size:19
Alignment explanation
Indices: 39263561--39263618 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 19
39263551 AACAAACAAA
39263561 AAAAGAAGAAAAGAGAAAAG
1 AAAAGAAGAAAA-AGAAAAG
39263581 --AA-AAG-AAAAGAAAAG
1 AAAAGAAGAAAAAGAAAAG
39263596 AAAAGAAGAAAAAGAAAAG
1 AAAAGAAGAAAAAGAAAAG
39263615 AAAA
1 AAAA
39263619 ATGAAAAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.21
16 3 0.09
17 5 0.15
18 5 0.15
19 14 0.41
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (19 bp):
AAAAGAAGAAAAAGAAAAG
Found at i:39265084 original size:45 final size:44
Alignment explanation
Indices: 39265012--39265116 Score: 165
Period size: 45 Copynumber: 2.3 Consensus size: 44
39265002 GAGCAGACTA
*
39265012 GAAGTAGTAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
1 GAAGTAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
*
39265056 GAAGATAGCAGATCTTGTCTTCTTGTATTGGCAGTGAAGTAGATC
1 GAAG-TAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
*
39265101 GAAGCTTGCAGATCTT
1 GAAG-TAGCAGATCTT
39265117 ATCTCCCTAA
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
44 4 0.07
45 52 0.93
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (44 bp):
GAAGTAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
Found at i:39265250 original size:43 final size:42
Alignment explanation
Indices: 39265198--39265430 Score: 173
Period size: 43 Copynumber: 5.4 Consensus size: 42
39265188 TTAAGCCACC
* * *
39265198 AATCCTATCTCCCTAAGCCGTAGTGGATAGGTTGAAACTTACA
1 AATCTTATCTCCCTAAGCAGTAGTGGATAGGTTGAAAC-TGCA
* ** * *
39265241 AATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACGGCG
1 AATCTTATCTCCCTAAGCAGTAGTGGA-TAGGTTGAA-ACTGCA
* * * * * ** *
39265285 AATCTTATCTTCCTAAG-A-TAATAGGAAGTAGATTTAAGCCACC
1 AATCTTATCTCCCTAAGCAGTAGT-GG-A-TAGGTTGAAACTGCA
*
39265328 AATCCTATCTCCCTAAGCAGTAGTGGATAGGTTGAAACTTGCA
1 AATCTTATCTCCCTAAGCAGTAGTGGATAGGTTGAAAC-TGCA
* * * *
39265371 GATCTTATCTTCCTAAGCAGTAGTGGAACAGGTCGAAGACTGCA
1 AATCTTATCTCCCTAAGCAGTAGTGG-ATAGGTTGAA-ACTGCA
*
39265415 AATCTTATCTTCCTAA
1 AATCTTATCTCCCTAA
39265431 TGTAGTAGGA
Statistics
Matches: 150, Mismatches: 31, Indels: 17
0.76 0.16 0.09
Matches are distributed among these distances:
42 11 0.07
43 70 0.47
44 62 0.41
45 7 0.05
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (42 bp):
AATCTTATCTCCCTAAGCAGTAGTGGATAGGTTGAAACTGCA
Found at i:39265278 original size:130 final size:129
Alignment explanation
Indices: 39265112--39265471 Score: 567
Period size: 130 Copynumber: 2.8 Consensus size: 129
39265102 AAGCTTGCAG
39265112 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACGACGAATCTTATCTTCCTAAGGTAGT
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACG-CGAATCTTATCTTCCTAAGGTAGT
* *
39265177 AGGAAGCATATTTAAGCCACCAATCCTATCTCCCTAAGCCGTAGTGGATAGGTTGAAACTTACAA
65 AGGAAGCAGATTTAAGCCACCAATCCTATCTCCCTAAGCAGTAGTGGATAGGTTGAAACTTACAA
* *
39265242 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACGGCGAATCTTATCTTCCTAAGATAAT
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGAC-GCGAATCTTATCTTCCTAAGGTAGT
* * *
39265307 AGGAAGTAGATTTAAGCCACCAATCCTATCTCCCTAAGCAGTAGTGGATAGGTTGAAACTTGCAG
65 AGGAAGCAGATTTAAGCCACCAATCCTATCTCCCTAAGCAGTAGTGGATAGGTTGAAACTTACAA
* ** * * * *
39265372 ATCTTATCTTCCTAAGCAGTAGTGGAACAGGTCGAAGACTGCAAATCTTATCTTCCTAATGTAGT
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGAC-GCGAATCTTATCTTCCTAAGGTAGT
39265437 AGGAAGCAGATTTAAGCCACCAATCCTATCTCCCT
65 AGGAAGCAGATTTAAGCCACCAATCCTATCTCCCT
39265472 GAAGTTGCAG
Statistics
Matches: 211, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
130 210 1.00
131 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.28
Consensus pattern (129 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACGCGAATCTTATCTTCCTAAGGTAGTA
GGAAGCAGATTTAAGCCACCAATCCTATCTCCCTAAGCAGTAGTGGATAGGTTGAAACTTACAA
Found at i:39265851 original size:173 final size:173
Alignment explanation
Indices: 39265559--39265904 Score: 541
Period size: 173 Copynumber: 2.0 Consensus size: 173
39265549 AACAGATCTC
* **
39265559 GTCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATAGCAAACCTTATCCCCATGAAGTTACAGTGG
1 GTCTCTCTGAAGTTACAACAGAGCAGGTTGAAATAGCAAACCTTATCCCCATGAAGTTACAGTGG
*
39265624 GGCAAGTTGAAGATATAAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGGTCAAAATGATGGATC
66 GGCAAGTTAAAGATATAAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGGTCAAAATGATGGATC
* * * *
39265689 TCGTCTCTCTGAAGTTGCAGTAAAGCAGATCATATCAATCTTT
131 TCATCTCTCTGAAGTTGCAGTAAAACAGATCACATCAAACTTT
* * *
39265732 GTCTCTCTGAAGTTACAACAGAGCATGTTGAAATAGCAAACCTTATCCTCATGAAGTTGCAGTGG
1 GTCTCTCTGAAGTTACAACAGAGCAGGTTGAAATAGCAAACCTTATCCCCATGAAGTTACAGTGG
* *
39265797 GGCAAGTTAAAGATATCAGTCCTATCTCCCTGAAGTTGCAGTGTAG-AGGGTCAAAATGATGGAT
66 GGCAAGTTAAAGATATAAGTCCTATCTCCCTGAAGTTGCAGTGGAGCA-GGTCAAAATGATGGAT
* *
39265861 CTTATCTCTCTGAAGTTGCAGTAAAACTGATCACATCAAACTTT
130 CTCATCTCTCTGAAGTTGCAGTAAAACAGATCACATCAAACTTT
39265905 ATTAAAAATT
Statistics
Matches: 157, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
172 1 0.01
173 156 0.99
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (173 bp):
GTCTCTCTGAAGTTACAACAGAGCAGGTTGAAATAGCAAACCTTATCCCCATGAAGTTACAGTGG
GGCAAGTTAAAGATATAAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGGTCAAAATGATGGATC
TCATCTCTCTGAAGTTGCAGTAAAACAGATCACATCAAACTTT
Found at i:39266051 original size:147 final size:146
Alignment explanation
Indices: 39265773--39266090 Score: 397
Period size: 147 Copynumber: 2.2 Consensus size: 146
39265763 AATAGCAAAC
*
39265773 CTTATCCTCATGAAGTTGCAGTGGGGCAAGTTAAAGATATCAGTCCTATCTCCCTGAAGTTGCAG
1 CTTATCC-CCTGAAGTTGCAGTGGGGCAAGTTAAAGATATCAGTCCTATCTCCCTGAAGTTGCAG
* * *
39265838 TGTAGAGGGTCAAAATGATGGATCTTATCTCTCTGAAGTTGCAGTAAAACTGATCACATCAAACT
65 TGGAGAGGGTCAAAATGATGGATCTTATCTCTCTGAAGTTGCAATAAAACAGATCACATCAAACT
*
39265903 TTATTAAAAATTACAAGT
130 TTATT-AAAACTACAAGT
* * * *
39265921 CTTATCCCCTGAAGTTGCAGTGGGGCAAGTTGAAGATA-CGAGTCTTATTTCCTTGAAGTTGCAG
1 CTTATCCCCTGAAGTTGCAGTGGGGCAAGTTAAAGATATC-AGTCCTATCTCCCTGAAGTTGCAG
* * * * * * *
39265985 TGGA-ATGGGTCAAAATGATGGATCTTATCTTTTTGAAGTTGTAATAGAACAGGTCGCATCAGAC
65 TGGAGA-GGGTCAAAATGATGGATCTTATCTCTCTGAAGTTGCAATAAAACAGATCACATCAAAC
* *
39266049 TTTATTGAAGCTACAAGT
129 TTTATTAAAACTACAAGT
* *
39266067 CTTATCTCCCTAAAGTTACAGTGG
1 CTTATC-CCCTGAAGTTGCAGTGG
39266091 AGCAGACTGA
Statistics
Matches: 147, Mismatches: 20, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
146 17 0.12
147 123 0.84
148 7 0.05
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (146 bp):
CTTATCCCCTGAAGTTGCAGTGGGGCAAGTTAAAGATATCAGTCCTATCTCCCTGAAGTTGCAGT
GGAGAGGGTCAAAATGATGGATCTTATCTCTCTGAAGTTGCAATAAAACAGATCACATCAAACTT
TATTAAAACTACAAGT
Done.