Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 104 of 199
Found at i:34996541 original size:38 final size:38
Alignment explanation
Indices: 34996499--34996574 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
34996489 CGCCCTACCA
* * *
34996499 AGTACATGTTAAGTATGTCTATTGCTAATAATGAATTG
1 AGTACATATTAAGCATGTCTACTGCTAATAATGAATTG
* *
34996537 AGTACATATTAAGCATGTCTACTGCTAGTATTGAATTG
1 AGTACATATTAAGCATGTCTACTGCTAATAATGAATTG
34996575 TTCTATTACA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (38 bp):
AGTACATATTAAGCATGTCTACTGCTAATAATGAATTG
Found at i:34996699 original size:43 final size:43
Alignment explanation
Indices: 34996635--34996909 Score: 249
Period size: 43 Copynumber: 6.5 Consensus size: 43
34996625 ATGGAGGAAG
* *
34996635 AGTGGCAG--TTTATCTGTAAATATGTTGTGCATCCACAGCCC
1 AGTGGCAGTTTTTATCTGCAAATATGTTGTGCATCCACAACCC
* * * **
34996676 AGTGGCAGTTTTTATCTACAAATATGTTGTTCACCCACAGTCC
1 AGTGGCAGTTTTTATCTGCAAATATGTTGTGCATCCACAACCC
* *** * * * *
34996719 AATGATTGTTTTTATCTTCAAATATGTTATGTATCCACAAACC
1 AGTGGCAGTTTTTATCTGCAAATATGTTGTGCATCCACAACCC
* * * * *
34996762 AGCGGCAATTTTTATCTACAAATATGTTATGCATCCACAACCT
1 AGTGGCAGTTTTTATCTGCAAATATGTTGTGCATCCACAACCC
** *
34996805 AACGGCAG--TTTATCTGCAAATATGTTGTGCATCCACAACCT
1 AGTGGCAGTTTTTATCTGCAAATATGTTGTGCATCCACAACCC
* *
34996846 AGTGGTC-G--TTTATCTGTAAATATGTTGTGCATCCACAGCCC
1 AGTGG-CAGTTTTTATCTGCAAATATGTTGTGCATCCACAACCC
* *
34996887 AGTAGTAGTTTTTATCTGCAAAT
1 AGTGGCAGTTTTTATCTGCAAAT
34996910 TAGTGGTGGT
Statistics
Matches: 190, Mismatches: 38, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
41 78 0.41
42 1 0.01
43 111 0.58
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (43 bp):
AGTGGCAGTTTTTATCTGCAAATATGTTGTGCATCCACAACCC
Found at i:34996829 original size:41 final size:41
Alignment explanation
Indices: 34996729--34996882 Score: 177
Period size: 41 Copynumber: 3.7 Consensus size: 41
34996719 AATGATTGTT
* * *
34996729 TTTATCTTCAAATATGTTATGTATCCACAAACC-AGCGGCAATT
1 TTTATCTGCAAATATGTTATGCATCCAC-AACCTAGCGGC-A-G
* *
34996772 TTTATCTACAAATATGTTATGCATCCACAACCTAACGGCAG
1 TTTATCTGCAAATATGTTATGCATCCACAACCTAGCGGCAG
* *
34996813 TTTATCTGCAAATATGTTGTGCATCCACAACCTAGTGGTC-G
1 TTTATCTGCAAATATGTTATGCATCCACAACCTAGCGG-CAG
* *
34996854 TTTATCTGTAAATATGTTGTGCATCCACA
1 TTTATCTGCAAATATGTTATGCATCCACA
34996883 GCCCAGTAGT
Statistics
Matches: 100, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
41 63 0.63
42 6 0.06
43 31 0.31
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.34
Consensus pattern (41 bp):
TTTATCTGCAAATATGTTATGCATCCACAACCTAGCGGCAG
Found at i:35003047 original size:11 final size:11
Alignment explanation
Indices: 35003031--35003071 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
35003021 CATCATCTAT
35003031 TTCTTTTCTTC
1 TTCTTTTCTTC
*
35003042 TTCTTTT-TTT
1 TTCTTTTCTTC
*
35003052 TTCTTTTCCTC
1 TTCTTTTCTTC
35003063 TTCTTTTCT
1 TTCTTTTCT
35003072 CTCATCATCG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TTCTTTTCTTC
Found at i:35003055 original size:21 final size:21
Alignment explanation
Indices: 35003030--35003069 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
35003020 TCATCATCTA
*
35003030 TTTCTTTTCTTCTTCTTTTTT
1 TTTCTTTTCCTCTTCTTTTTT
35003051 TTTCTTTTCCTCTTCTTTT
1 TTTCTTTTCCTCTTCTTTT
35003070 CTCTCATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTCTTTTCCTCTTCTTTTTT
Found at i:35004353 original size:18 final size:19
Alignment explanation
Indices: 35004327--35004363 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
35004317 TTATTAAATT
35004327 AATTGATTT-TAAATCATTA
1 AATTGATTTATAAAT-ATTA
35004346 AATT-ATTTATAAATATTA
1 AATTGATTTATAAATATTA
35004364 TAAATAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (19 bp):
AATTGATTTATAAATATTA
Found at i:35004949 original size:11 final size:11
Alignment explanation
Indices: 35004928--35004986 Score: 73
Period size: 11 Copynumber: 5.3 Consensus size: 11
35004918 ACTAATCTTA
35004928 TCTCAAATTTCC
1 TCTC-AATTTCC
*
35004940 TCTCAATTTCT
1 TCTCAATTTCC
*
35004951 TCTAAATTTCC
1 TCTCAATTTCC
*
35004962 TCTCAATTTGC
1 TCTCAATTTCC
*
35004973 TCTCAAATTCC
1 TCTCAATTTCC
35004984 TCT
1 TCT
35004987 TAAATTTCTC
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
11 36 0.90
12 4 0.10
ACGTcount: A:0.22, C:0.31, G:0.02, T:0.46
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:35004991 original size:34 final size:34
Alignment explanation
Indices: 35004928--35005002 Score: 91
Period size: 33 Copynumber: 2.2 Consensus size: 34
35004918 ACTAATCTTA
* *
35004928 TCTCAAATTTCCTCTCAATTTCTTCTAAATTTCC
1 TCTCAAATTTCCTCTCAAATTCCTCTAAATTTCC
*
35004962 TCTC-AATTTGCTCTCAAATTCCTCTTAAATTT-C
1 TCTCAAATTTCCTCTCAAATTCCTC-TAAATTTCC
*
35004995 TCTTAAAT
1 TCTCAAAT
35005003 CCCTATTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
33 21 0.60
34 14 0.40
ACGTcount: A:0.25, C:0.27, G:0.01, T:0.47
Consensus pattern (34 bp):
TCTCAAATTTCCTCTCAAATTCCTCTAAATTTCC
Found at i:35004997 original size:22 final size:22
Alignment explanation
Indices: 35004928--35005002 Score: 91
Period size: 22 Copynumber: 3.4 Consensus size: 22
35004918 ACTAATCTTA
35004928 TCTCAAATTTCCTCTCAATTTC
1 TCTCAAATTTCCTCTCAATTTC
35004950 T-TCTAAATTTCCTCTCAATTTGC
1 TCTC-AAATTTCCTCTCAATTT-C
*
35004973 TCTCAAA-TTCCTCTTAAATTTC
1 TCTCAAATTTCCTC-TCAATTTC
*
35004995 TCTTAAAT
1 TCTCAAAT
35005003 CCCTATTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
21 2 0.04
22 31 0.67
23 11 0.24
24 2 0.04
ACGTcount: A:0.25, C:0.27, G:0.01, T:0.47
Consensus pattern (22 bp):
TCTCAAATTTCCTCTCAATTTC
Found at i:35007433 original size:22 final size:22
Alignment explanation
Indices: 35007397--35008344 Score: 770
Period size: 22 Copynumber: 42.8 Consensus size: 22
35007387 TAAAAACCCT
*
35007397 AACCCT-AACCATTAA-TTTAA
1 AACCCTAAACCCTTAACTTTAA
* * *
35007417 AACTCATAAACCCTTAACCTAAA
1 AAC-CCTAAACCCTTAACTTTAA
*
35007440 AACCCT-AACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTTAA
** * *
35007461 AACCCTAGCCCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTTAA
*
35007483 AACTCT-AACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTTAA
* *
35007504 AACCCTAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTTAA
** *
35007526 AACCCTAAACTTTTAACTTAAA
1 AACCCTAAACCCTTAACTTTAA
* * *
35007548 AACCATAAACCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTTAA
35007570 AACCCTAACCCTAACCCTTAACTTTAA
1 AACCCT-A----AACCCTTAACTTTAA
**
35007597 AACAATAAACCCTTAAC-TTAA
1 AACCCTAAACCCTTAACTTTAA
* *
35007618 AACCCCTAAACCCTTATCTTAAA
1 AA-CCCTAAACCCTTAACTTTAA
* *
35007641 AACACTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTTAA
*
35007663 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTTAA
** *
35007685 AACCCTAGCCCCTTAAC-CTAA
1 AACCCTAAACCCTTAACTTTAA
35007706 AACCCTAAACCCTT-ACTTTAAA
1 AACCCTAAACCCTTAACTTT-AA
* * *
35007728 AACCATAAACCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTTAA
35007750 AACCCTAACCCTAACCCTTAACTTTAA
1 AACCCT-A----AACCCTTAACTTTAA
* * *
35007777 AATCGTAAACCATTAAC-TTAA
1 AACCCTAAACCCTTAACTTTAA
35007798 AACCCATAAACCCTTAACTTTAA
1 AACCC-TAAACCCTTAACTTTAA
35007821 AACCCTAAACCCTTAAC-TTAA
1 AACCCTAAACCCTTAACTTTAA
*
35007842 AACCCCTAAACCCTTAACTTAAA
1 AA-CCCTAAACCCTTAACTTTAA
* ** * *
35007865 AACCGTAGCCCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTTAA
** *
35007887 AACCCT-AACATTTTACCTTTAA
1 AACCCTAAAC-CCTTAACTTTAA
35007909 AACCCTAAACCCTTAAC-TTAA
1 AACCCTAAACCCTTAACTTTAA
*
35007930 AACCCCT-AACTCTTAACTTTAA
1 AA-CCCTAAACCCTTAACTTTAA
* * * *
35007952 AACCTTAAACCTTTAAATTAAA
1 AACCCTAAACCCTTAACTTTAA
*
35007974 AACCCAAAACCCTTAAC-TTAA
1 AACCCTAAACCCTTAACTTTAA
* *
35007995 AACCCATAAACCCATAAACCCTT--
1 AACCC-TAAACCC-TTAA-CTTTAA
*
35008018 AA-CCTAAAAACCTTAAACCTTAACTTAAA
1 AACCCT--AAA-C-----CCTTAACTTTAA
* *
35008047 AACCTTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTTAA
* * *
35008069 AATCCT-GACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTTAA
35008090 AACCCT-AACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTTAA
** * *
35008111 AACCCTAGCCCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTTAA
**
35008133 AATTCT-AACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTTAA
*
35008154 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTTAA
* *
35008176 AAGCATAAACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTTAA
*
35008198 ACCCCT-AACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTTAA
*
35008219 AACCCTAAACTCTTAAC-TTAA
1 AACCCTAAACCCTTAACTTTAA
* *
35008240 AACCCCTAAAACCTTAACTTAAA
1 AA-CCCTAAACCCTTAACTTTAA
** * *
35008263 AACATTAACCCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTTAA
*
35008285 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTTAA
* *
35008307 AACCCT-AACACTTAACTTAAA
1 AACCCTAAACCCTTAACTTTAA
**
35008328 AACCCTAGCCCCTTAAC
1 AACCCTAAACCCTTAAC
35008345 CGGTATGGTA
Statistics
Matches: 749, Mismatches: 129, Indels: 98
0.77 0.13 0.10
Matches are distributed among these distances:
20 5 0.01
21 199 0.27
22 444 0.59
23 46 0.06
24 2 0.00
25 2 0.00
26 2 0.00
27 37 0.05
28 6 0.01
29 4 0.01
30 2 0.00
ACGTcount: A:0.43, C:0.31, G:0.01, T:0.25
Consensus pattern (22 bp):
AACCCTAAACCCTTAACTTTAA
Found at i:35007449 original size:43 final size:43
Alignment explanation
Indices: 35007397--35008344 Score: 809
Period size: 43 Copynumber: 21.4 Consensus size: 43
35007387 TAAAAACCCT
* *
35007397 AACCCTAACCATTAA-TTTAAAACTCATAAACCCTTAACCTAAA
1 AACCCTAACCCTTAACTTTAAAAC-CATAAACCCTTAACTTAAA
* * ** *
35007440 AACCCTAACCCTTAACTTAAAAACCCTAGCCCCTTAACCTAAA
1 AACCCTAACCCTTAACTTTAAAACCATAAACCCTTAACTTAAA
* * *
35007483 AACTCTAACCCTTAACTTTAAAACCCTAAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTTAAAACCATAAACCCTTAACTTAAA
** * *
35007526 AACCCTAAACTTTTAACTTAAAAACCATAAACCCTTAACCTAAAAA
1 AACCCT-AACCCTTAACTTTAAAACCATAAACCCTTAA-CT-TAAA
*
35007572 CCCTAACCCTAACCCTTAACTTTAAAACAATAAACCCTTAACTTAAA
1 ----AACCCTAACCCTTAACTTTAAAACCATAAACCCTTAACTTAAA
* * *
35007619 ACCCCTAAACCCTTATC-TTAAAAACACTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTTAAAACCA-TAAACCCTTAACTTAAA
* * ** *
35007663 AACCCTAAACCCTTAACTTAAAAACCCTAGCCCCTTAACCT-AA
1 AACCCT-AACCCTTAACTTTAAAACCATAAACCCTTAACTTAAA
*
35007706 AACCCTAAACCCTT-ACTTTAAAAACCATAAACCCTTAACCTAAAAA
1 AACCCT-AACCCTTAACTTT-AAAACCATAAACCCTTAA-CT-TAAA
* * *
35007752 CCCTAACCCTAACCCTTAACTTTAAAATCGTAAACCATTAACTT-AA
1 ----AACCCTAACCCTTAACTTTAAAACCATAAACCCTTAACTTAAA
*
35007798 AACCCATAAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAA
1 AACCC-T-AACCCTTAACTTTAAAACCATAAACCCTTAACTTAAA
* * * ** *
35007843 ACCCCTAAACCCTTAACTTAAAAACCGTAGCCCCTTAACCTAAA
1 AACCCT-AACCCTTAACTTTAAAACCATAAACCCTTAACTTAAA
** * *
35007887 AACCCTAACATTTTACCTTTAAAACCCTAAACCCTTAACTTAAA
1 AACCCTAAC-CCTTAACTTTAAAACCATAAACCCTTAACTTAAA
* * * * *
35007931 ACCCCTAACTCTTAACTTTAAAACCTTAAACCTTTAAATTAAA
1 AACCCTAACCCTTAACTTTAAAACCATAAACCCTTAACTTAAA
* * *
35007974 AACCCAAAACCCTTAACTTAAAACCCATAAACCCATAAACCCTTAACCTAAA
1 AACCC-TAACCCTTAACTT--------TAAAACCATAAACCCTTAACTTAAA
* * * *
35008026 AACCTTAAACCTTAACTTAAAAACCTTAAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTTAAAACCATAAACCCTTAACTTAAA
* * * * *
35008069 AATCCTGACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTTAAAACCATAAACCCTTAACTTAAA
* * * * *
35008111 AACCCTAGCCCCTTAACCTAAAAATTC-T-AACCCTTAACTTTAA
1 AACCCTA-ACCCTTAACTTTAAAA-CCATAAACCCTTAACTTAAA
* * *
35008154 AACCCTAAACCCTTAACTTAAAAAGCATAAACCCTTAACTTTAA
1 AACCCT-AACCCTTAACTTTAAAACCATAAACCCTTAACTTAAA
* * *
35008198 ACCCCTAACCCTTAACTTTAAAACCCTAAACTCTTAACTTAAA
1 AACCCTAACCCTTAACTTTAAAACCATAAACCCTTAACTTAAA
* * * *
35008241 ACCCCTAAAACCTTAAC-TTAAAAACATTAACCCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTTAAAACCA-TAAACCCTTAACTTAAA
* * *
35008285 AACCCTAAACCCTTAACTTAAAAACCCT-AACACTTAACTTAAA
1 AACCCT-AACCCTTAACTTTAAAACCATAAACCCTTAACTTAAA
*
35008328 AACCCTAGCCCCTTAAC
1 AACCCTA-ACCCTTAAC
35008345 CGGTATGGTA
Statistics
Matches: 746, Mismatches: 117, Indels: 84
0.79 0.12 0.09
Matches are distributed among these distances:
42 30 0.04
43 318 0.43
44 264 0.35
45 19 0.03
46 7 0.01
47 3 0.00
48 4 0.01
49 49 0.07
50 17 0.02
51 11 0.01
52 24 0.03
ACGTcount: A:0.43, C:0.31, G:0.01, T:0.25
Consensus pattern (43 bp):
AACCCTAACCCTTAACTTTAAAACCATAAACCCTTAACTTAAA
Found at i:35007543 original size:44 final size:44
Alignment explanation
Indices: 35007397--35008344 Score: 945
Period size: 44 Copynumber: 21.4 Consensus size: 44
35007387 TAAAAACCCT
* * * *
35007397 AACCCT-AACCATTAA-TTTAAAACTCATAAACCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTAAAAAC-CCTAAACCCTTAACTTAAA
** *
35007440 AACCCT-AACCCTTAACTTAAAAACCCTAGCCCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * *
35007483 AACTCT-AACCCTTAACTTTAAAACCCTAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
** * *
35007526 AACCCTAAACTTTTAACTTAAAAACCATAAACCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* **
35007570 AACCCTAACCCTAACCCTTAACTTTAAAACAATAAACCCTTAACTTAAA
1 AACCCT-A----AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * *
35007619 ACCCCTAAACCCTTATCTTAAAAACACTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
** *
35007663 AACCCTAAACCCTTAACTTAAAAACCCTAGCCCCTTAACCT-AA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* *
35007706 AACCCTAAACCCTT-ACTTTAAAAACCATAAACCCTTAACCTAAA
1 AACCCTAAACCCTTAAC-TTAAAAACCCTAAACCCTTAACTTAAA
* * * *
35007750 AACCCTAACCCTAACCCTTAACTTTAAAATCGTAAACCATTAACTT-AA
1 AACCCT-A----AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
*
35007798 AACCCATAAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAA
1 AACCC-TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * ** *
35007843 ACCCCTAAACCCTTAACTTAAAAACCGTAGCCCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
** * *
35007887 AACCCT-AACATTTTACCTTTAAAACCCTAAACCCTTAACTTAAA
1 AACCCTAAAC-CCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * * * * *
35007931 ACCCCT-AACTCTTAACTTTAAAACCTTAAACCTTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* *
35007974 AACCCAAAACCCTTAACTTAAAACCCATAAACCCATAAACCCTTAACCTAAA
1 AACCCTAAACCCTTAACTT---A---A-AAACCC-TAAACCCTTAACTTAAA
* *
35008026 AACCTTAAA-CCTTAACTTAAAAACCTTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * *
35008069 AATCCT-GACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
** * ** *
35008111 AACCCTAGCCCCTTAACCTAAAAATTCT-AACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * *
35008154 AACCCTAAACCCTTAACTTAAAAAGCATAAACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * *
35008198 ACCCCT-AACCCTTAACTTTAAAACCCTAAACTCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * ** *
35008241 ACCCCTAAAACCTTAACTTAAAAACATTAACCCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
*
35008285 AACCCTAAACCCTTAACTTAAAAACCCT-AACACTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
**
35008328 AACCCTAGCCCCTTAAC
1 AACCCTAAACCCTTAAC
35008345 CGGTATGGTA
Statistics
Matches: 761, Mismatches: 113, Indels: 62
0.81 0.12 0.07
Matches are distributed among these distances:
42 22 0.03
43 302 0.40
44 316 0.42
45 9 0.01
48 10 0.01
49 64 0.08
50 3 0.00
51 14 0.02
52 21 0.03
ACGTcount: A:0.43, C:0.31, G:0.01, T:0.25
Consensus pattern (44 bp):
AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
Found at i:35007998 original size:14 final size:14
Alignment explanation
Indices: 35007974--35008033 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
35007964 TTAAATTAAA
*
35007974 AACCCAAAACCCTT
1 AACCTAAAACCCTT
* *
35007988 AACTTAAAACCCATA
1 AACCTAAAACCC-TT
*
35008003 AACCCATAAACCCTT
1 AACCTA-AAACCCTT
*
35008018 AACCTAAAAACCTT
1 AACCTAAAACCCTT
35008032 AA
1 AA
35008034 ACCTTAACTT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
14 19 0.53
15 11 0.31
16 6 0.17
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.18
Consensus pattern (14 bp):
AACCTAAAACCCTT
Found at i:35008014 original size:30 final size:29
Alignment explanation
Indices: 35007973--35008036 Score: 92
Period size: 30 Copynumber: 2.2 Consensus size: 29
35007963 TTTAAATTAA
* *
35007973 AAACCCAAAACCCTTAACTTAAAACCCAT
1 AAACCCAAAACCCTTAACCTAAAAACCAT
*
35008002 AAACCCATAAACCCTTAACCTAAAAACCTT
1 AAACCCA-AAACCCTTAACCTAAAAACCAT
35008032 AAACC
1 AAACC
35008037 TTAACTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.17
Consensus pattern (29 bp):
AAACCCAAAACCCTTAACCTAAAAACCAT
Found at i:35009696 original size:25 final size:25
Alignment explanation
Indices: 35009648--35009696 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
35009638 TTCCTTTTTT
* * * *
35009648 CTTTTTCGATTGTTTTTTTTTCTTC
1 CTTTTTCGATTGCTCTTCTATCTTC
35009673 CTTTTTCGATTGCTCTTCTATCTT
1 CTTTTTCGATTGCTCTTCTATCTT
35009697 TTTTCGATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.06, C:0.20, G:0.08, T:0.65
Consensus pattern (25 bp):
CTTTTTCGATTGCTCTTCTATCTTC
Found at i:35010329 original size:7 final size:6
Alignment explanation
Indices: 35010275--35010327 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
35010265 TTAGTTCATC
** * *
35010275 TTTATT TTTCCT TTTATT TCTATT TGTAGTGT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTA-T-T TTTATT TTTATT TTTATT
35010325 TTT
1 TTT
35010328 TAAATTTCAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
6 32 0.84
7 2 0.05
8 4 0.11
ACGTcount: A:0.13, C:0.06, G:0.06, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:35010361 original size:3 final size:3
Alignment explanation
Indices: 35010353--35010383 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
35010343 TTTTTAATCC
35010353 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
35010384 TCTCCTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:35011467 original size:15 final size:14
Alignment explanation
Indices: 35011434--35011464 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
35011424 CTACTCCTGC
35011434 AAAA-ACAGAAGCA
1 AAAAGACAGAAGCA
35011447 AAAAGACAGAAGCA
1 AAAAGACAGAAGCA
35011461 AAAA
1 AAAA
35011465 AGAGAGGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.71, C:0.13, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAGACAGAAGCA
Found at i:35011698 original size:20 final size:20
Alignment explanation
Indices: 35011675--35011712 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
35011665 TCTTGCGTTT
35011675 CTTTTTTGTTTATTTTCTTC
1 CTTTTTTGTTTATTTTCTTC
35011695 CTTTTTTGTTTATTTTCT
1 CTTTTTTGTTTATTTTCT
35011713 ATAACTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.13, G:0.05, T:0.76
Consensus pattern (20 bp):
CTTTTTTGTTTATTTTCTTC
Found at i:35012652 original size:25 final size:25
Alignment explanation
Indices: 35012608--35012666 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
35012598 TACTATTATA
35012608 ATTATT-TATATATCGTTATATCTT
1 ATTATTATATATATCGTTATATCTT
*
35012632 ATTATTATATATAT-TTATATATCTT
1 ATTATTATATATATCGT-TATATCTT
35012657 A-TA-TATATAT
1 ATTATTATATAT
35012667 GTGTACATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
23 7 0.22
24 9 0.28
25 16 0.50
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.58
Consensus pattern (25 bp):
ATTATTATATATATCGTTATATCTT
Found at i:35018287 original size:33 final size:33
Alignment explanation
Indices: 35018245--35018352 Score: 93
Period size: 33 Copynumber: 3.4 Consensus size: 33
35018235 GAAAGGAGCA
*
35018245 AGAGGACAAGTTGATTGAGAGATATAGAAAGAG
1 AGAGCACAAGTTGATTGAGAGATATAGAAAGAG
***
35018278 AGAGCACAAG-T--TTG-GAG--GCGGAAAGGAG
1 AGAGCACAAGTTGATTGAGAGATATAGAAA-GAG
* *
35018306 CAAGAGGACAAGTTGATTGAGAGATATAGCAAGAG
1 --AGAGCACAAGTTGATTGAGAGATATAGAAAGAG
35018341 AGAGCACAAGTT
1 AGAGCACAAGTT
35018353 TGCTTAGAGT
Statistics
Matches: 56, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
27 4 0.07
28 3 0.05
29 3 0.05
30 12 0.21
31 1 0.02
32 1 0.02
33 23 0.41
34 3 0.05
35 3 0.05
36 3 0.05
ACGTcount: A:0.42, C:0.08, G:0.34, T:0.16
Consensus pattern (33 bp):
AGAGCACAAGTTGATTGAGAGATATAGAAAGAG
Found at i:35018333 original size:63 final size:63
Alignment explanation
Indices: 35018229--35018354 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
35018219 AAAAGGTGGA
*
35018229 GAGGTGGAAAGGAGCAAGAGGACAAGTTGATTGAGAGATATAGAAAGAGAGAGCACAAGTTTG
1 GAGGCGGAAAGGAGCAAGAGGACAAGTTGATTGAGAGATATAGAAAGAGAGAGCACAAGTTTG
*
35018292 GAGGCGGAAAGGAGCAAGAGGACAAGTTGATTGAGAGATATAGCAAGAGAGAGCACAAGTTTG
1 GAGGCGGAAAGGAGCAAGAGGACAAGTTGATTGAGAGATATAGAAAGAGAGAGCACAAGTTTG
35018355 CTTAGAGTAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.40, C:0.08, G:0.37, T:0.15
Consensus pattern (63 bp):
GAGGCGGAAAGGAGCAAGAGGACAAGTTGATTGAGAGATATAGAAAGAGAGAGCACAAGTTTG
Found at i:35018339 original size:29 final size:29
Alignment explanation
Indices: 35018241--35018340 Score: 78
Period size: 30 Copynumber: 3.3 Consensus size: 29
35018231 GGTGGAAAGG
35018241 AGCAAGAGGACAAGTTGATTGAGAGATAT
1 AGCAAGAGGACAAGTTGATTGAGAGATAT
* * * * *
35018270 AGAAAGAGAGAGCACAAGTT--TGGAGGCGGAAAGG
1 AG-CA-AGAG-G-ACAAGTTGATTGA-G-AGATA-T
35018304 AGCAAGAGGACAAGTTGATTGAGAGATAT
1 AGCAAGAGGACAAGTTGATTGAGAGATAT
35018333 AGCAAGAG
1 AGCAAGAG
35018341 AGAGCACAAG
Statistics
Matches: 52, Mismatches: 10, Indels: 18
0.65 0.12 0.22
Matches are distributed among these distances:
29 10 0.19
30 11 0.21
31 9 0.17
32 9 0.17
33 11 0.21
34 2 0.04
ACGTcount: A:0.42, C:0.08, G:0.35, T:0.15
Consensus pattern (29 bp):
AGCAAGAGGACAAGTTGATTGAGAGATAT
Found at i:35021234 original size:19 final size:17
Alignment explanation
Indices: 35021210--35021253 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
35021200 TCTTATACAT
*
35021210 TATAAAAAAAATCATATAA
1 TATAAAAAAAAT-ACA-AA
*
35021229 TATAAAAACAATACAAA
1 TATAAAAAAAATACAAA
35021246 TATAAAAA
1 TATAAAAA
35021254 TGATATAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 10 0.43
18 2 0.09
19 11 0.48
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (17 bp):
TATAAAAAAAATACAAA
Found at i:35021702 original size:24 final size:24
Alignment explanation
Indices: 35021652--35021704 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
35021642 AACAAGTATT
* *
35021652 TTTAAAAGGAACTGTATGTCAATA
1 TTTAAAAGAAACTGTATGTCAACA
* *
35021676 TTTAAGAGAAACTGTATGTCAGCA
1 TTTAAAAGAAACTGTATGTCAACA
35021700 TTTAA
1 TTTAA
35021705 CAGATTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (24 bp):
TTTAAAAGAAACTGTATGTCAACA
Found at i:35023425 original size:25 final size:25
Alignment explanation
Indices: 35023397--35023450 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
35023387 TCCAATATGC
*
35023397 AAAAAAGAATACCTAATATTATACT
1 AAAAAAGAATAACTAATATTATACT
****
35023422 AAAATTTTATAACTAATATTATACT
1 AAAAAAGAATAACTAATATTATACT
35023447 AAAA
1 AAAA
35023451 TTTTAATAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (25 bp):
AAAAAAGAATAACTAATATTATACT
Found at i:35023468 original size:26 final size:25
Alignment explanation
Indices: 35023410--35023470 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 25
35023400 AAAGAATACC
*
35023410 TAATATTATACTAAAATTTTATAAC
1 TAATATTATACTAAAATTTTATAAA
35023435 TAATATTATACTAAAATTTTAATAAA
1 TAATATTATACTAAAATTTT-ATAAA
35023461 T-ATCATTATA
1 TAAT-ATTATA
35023471 ATTTCAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 22 0.67
26 11 0.33
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (25 bp):
TAATATTATACTAAAATTTTATAAA
Found at i:35026842 original size:30 final size:30
Alignment explanation
Indices: 35026808--35026873 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
35026798 CTTACAATGA
*
35026808 CGTTCAGGAATTTGAGAAGACCCAATATCT
1 CGTTCAGGAACTTGAGAAGACCCAATATCT
* * *
35026838 CGTTCAGGAGCTTGAGAAGACTCGATATCT
1 CGTTCAGGAACTTGAGAAGACCCAATATCT
*
35026868 CATTCA
1 CGTTCA
35026874 AGGTCTTGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (30 bp):
CGTTCAGGAACTTGAGAAGACCCAATATCT
Found at i:35028518 original size:3 final size:3
Alignment explanation
Indices: 35028510--35028561 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
35028500 AAGTTTTCTT
35028510 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
35028558 TTA T
1 TTA T
35028562 CTGTGAACTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:35036405 original size:16 final size:16
Alignment explanation
Indices: 35036384--35036415 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
35036374 TGTTTAGTGC
35036384 TATTGTTAAATGATGT
1 TATTGTTAAATGATGT
35036400 TATTGTTAAATGATGT
1 TATTGTTAAATGATGT
35036416 ATCTAAAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (16 bp):
TATTGTTAAATGATGT
Found at i:35036910 original size:12 final size:12
Alignment explanation
Indices: 35036893--35036918 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
35036883 CCTACACTTG
35036893 AGCACTAATTCA
1 AGCACTAATTCA
35036905 AGCACTAATTCA
1 AGCACTAATTCA
35036917 AG
1 AG
35036919 ATTCTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (12 bp):
AGCACTAATTCA
Found at i:35037463 original size:20 final size:21
Alignment explanation
Indices: 35037438--35037476 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
35037428 AAACATAAAC
35037438 AACTTTAC-ATTTTTTAAAGT
1 AACTTTACAATTTTTTAAAGT
35037458 AACTTTACAATTTTTTAAA
1 AACTTTACAATTTTTTAAA
35037477 ATTTATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (21 bp):
AACTTTACAATTTTTTAAAGT
Found at i:35040341 original size:23 final size:24
Alignment explanation
Indices: 35040314--35040358 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
35040304 GAAAAATATT
*
35040314 AAATAT-ATATTTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
35040337 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
35040359 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:35040469 original size:9 final size:9
Alignment explanation
Indices: 35040455--35040482 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
35040445 TTTTGTTACA
35040455 ACAATTAAT
1 ACAATTAAT
35040464 ACAATTAAT
1 ACAATTAAT
35040473 ACAATTAAT
1 ACAATTAAT
35040482 A
1 A
35040483 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:35040504 original size:68 final size:66
Alignment explanation
Indices: 35040425--35040566 Score: 239
Period size: 68 Copynumber: 2.1 Consensus size: 66
35040415 TCAAGTTTGT
*
35040425 TTTACTAATCAAATGTTAAATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAAATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
35040490 AAA
64 AAA
*
35040493 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
1 TTTACTAATCAAATGTTAAATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
*
35040558 T
66 A
35040559 TTTACTAA
1 TTTACTAA
35040567 CAATTAATTT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
66 27 0.38
67 1 0.01
68 43 0.61
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAATGTTAAATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
A
Found at i:35040576 original size:16 final size:16
Alignment explanation
Indices: 35040555--35040596 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
35040545 AATAATTTGA
*
35040555 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
35040571 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
35040587 TAGTTTTAAT
1 TAATTTTAAT
35040597 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:35040580 original size:22 final size:22
Alignment explanation
Indices: 35040570--35040630 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
35040560 TTACTAACAA
* * *
35040570 TTAATTTTAATAACAATTAGTT
1 TTAATTTTAATAAAAAATAATT
*
35040592 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAATAAAAAATAATT
*
35040614 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
35040631 CAGGCTGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:35040585 original size:59 final size:66
Alignment explanation
Indices: 35040425--35040588 Score: 207
Period size: 68 Copynumber: 2.5 Consensus size: 66
35040415 TCAAGTTTGT
* *
35040425 TTTACTAATCAAATGTTAAATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTT-ATACAACAATTAATACAATTAATACAATTAATAATTTGAT
35040490 AAA
64 AAA
35040493 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTTA-TACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
35040556 AAT
64 AAA
*
35040559 TTTACTAA-C-AA-TTA-ATTTTA-ATAACAATTA
1 TTTACTAATCAAAGTTAGATTTTATACAACAATTA
35040589 GTTTTAATTT
Statistics
Matches: 91, Mismatches: 4, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
59 9 0.10
61 6 0.07
62 3 0.03
64 2 0.02
65 1 0.01
66 27 0.30
67 1 0.01
68 42 0.46
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAAGTTAGATTTTATACAACAATTAATACAATTAATACAATTAATAATTTGATAA
A
Found at i:35046785 original size:21 final size:22
Alignment explanation
Indices: 35046749--35046800 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
35046739 AAGAAGCCAC
* *
35046749 AAAAGAACAATAGAAATCC-AT
1 AAAAGAACAACAGAAAGCCAAT
*
35046770 AAAAGAACAACCGAAAGCCATAT
1 AAAAGAACAACAGAAAGCCA-AT
35046793 AAAAGAAC
1 AAAAGAAC
35046801 GTACGAGAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 16 0.62
23 10 0.38
ACGTcount: A:0.62, C:0.17, G:0.12, T:0.10
Consensus pattern (22 bp):
AAAAGAACAACAGAAAGCCAAT
Found at i:35049380 original size:21 final size:21
Alignment explanation
Indices: 35049329--35049380 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
35049319 TTTTGCCTAA
*
35049329 GATG-TAAATTGGATTGAATT
1 GATGTTAAATTGGATTAAATT
* *
35049349 GAATATT-AATTGTATTAAATT
1 G-ATGTTAAATTGGATTAAATT
35049370 GATGTTAAATT
1 GATGTTAAATT
35049381 TTCTCAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
20 5 0.20
21 19 0.76
22 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.44
Consensus pattern (21 bp):
GATGTTAAATTGGATTAAATT
Found at i:35049756 original size:25 final size:25
Alignment explanation
Indices: 35049728--35049783 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
35049718 CCGTTATTTA
*
35049728 GCTCTTATAAGCATCCTAA-TATATG
1 GCTCTCATAAGCATCCTAATTA-ATG
* *
35049753 GCTCTCATGAGCTTCCTAATTAATG
1 GCTCTCATAAGCATCCTAATTAATG
35049778 GCTCTC
1 GCTCTC
35049784 TAGAGCTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 25 0.93
26 2 0.07
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (25 bp):
GCTCTCATAAGCATCCTAATTAATG
Found at i:35049789 original size:25 final size:25
Alignment explanation
Indices: 35049741--35049792 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
35049731 CTTATAAGCA
35049741 TCCTAATATATGGCTCTCATGAGCT
1 TCCTAATATATGGCTCTCATGAGCT
35049766 TCCTAAT-TAATGGCTCTC-TAGAGCT
1 TCCTAATAT-ATGGCTCTCAT-GAGCT
35049791 TC
1 TC
35049793 TCGATATGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (25 bp):
TCCTAATATATGGCTCTCATGAGCT
Found at i:35049815 original size:23 final size:23
Alignment explanation
Indices: 35049775--35049822 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
35049765 TTCCTAATTA
* * *
35049775 ATGGCTCTCTAGAGCTTCTCGAT
1 ATGGCTCGCTAGAACTTCCCGAT
*
35049798 ATGGCTCGCTTGAACTTCCCGAT
1 ATGGCTCGCTAGAACTTCCCGAT
35049821 AT
1 AT
35049823 ATAGCTATCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.19, C:0.27, G:0.21, T:0.33
Consensus pattern (23 bp):
ATGGCTCGCTAGAACTTCCCGAT
Found at i:35050112 original size:26 final size:26
Alignment explanation
Indices: 35050046--35050112 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
35050036 TGAGCTCTCC
*
35050046 ATTATATGGCTCTTCGTAAGCTTCCCG
1 ATTA-ATGGCTCTTTGTAAGCTTCCCG
* * *
35050073 ATTAAAGGCTCTTTGTGAGCTTCCTG
1 ATTAATGGCTCTTTGTAAGCTTCCCG
35050099 ATTAATGGCTCTTT
1 ATTAATGGCTCTTT
35050113 AGAGCTTTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
26 31 0.89
27 4 0.11
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (26 bp):
ATTAATGGCTCTTTGTAAGCTTCCCG
Found at i:35054200 original size:26 final size:26
Alignment explanation
Indices: 35054166--35054227 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
35054156 CCTATAAGTG
35054166 TTCTGAAACTGATACATGCTATGATA
1 TTCTGAAACTGATACATGCTATGATA
* * *
35054192 TTCTAAAACTGATATATGTTATGATA
1 TTCTGAAACTGATACATGCTATGATA
35054218 TTCTGAAACT
1 TTCTGAAACT
35054228 ACTGTAGGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (26 bp):
TTCTGAAACTGATACATGCTATGATA
Found at i:35060904 original size:19 final size:19
Alignment explanation
Indices: 35060877--35060915 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
35060867 TTATTCCAGC
*
35060877 AACTTAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
35060896 AACTCAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
35060915 A
1 A
35060916 GTAATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (19 bp):
AACTCAATTAACTAAGATG
Found at i:35060905 original size:54 final size:54
Alignment explanation
Indices: 35060832--35060934 Score: 170
Period size: 54 Copynumber: 1.9 Consensus size: 54
35060822 CAACTAAGTG
* *
35060832 AACTAAGTTAAACTTAATTAACTAAGATAAGTAATTTATTCCAGCAACTTAATT
1 AACTAAGATAAACTCAATTAACTAAGATAAGTAATTTATTCCAGCAACTTAATT
* *
35060886 AACTAAGATGAACTCAATTAACTAAGATGAGTAATTTATTCCAGCAACT
1 AACTAAGATAAACTCAATTAACTAAGATAAGTAATTTATTCCAGCAACT
35060935 AAATACTTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.32
Consensus pattern (54 bp):
AACTAAGATAAACTCAATTAACTAAGATAAGTAATTTATTCCAGCAACTTAATT
Found at i:35064666 original size:25 final size:25
Alignment explanation
Indices: 35064606--35064666 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
35064596 CTCCTAACTT
*
35064606 TTAATTTAATTATCTAATTTTTCAA
1 TTAATTAAATTATCTAATTTTTCAA
* *
35064631 TTTATTGAATTAT-TAATATTTT-ATA
1 TTAATTAAATTATCTAAT-TTTTCA-A
35064656 TTAATTAAATT
1 TTAATTAAATT
35064667 TTTGAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 5 0.17
25 25 0.83
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATCTAATTTTTCAA
Found at i:35081391 original size:6 final size:6
Alignment explanation
Indices: 35081380--35081414 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
35081370 TGGTGTTAAG
35081380 AGTAAT AGTAAT AGTAAT AGTAAT AGTAAT AGTAA
1 AGTAAT AGTAAT AGTAAT AGTAAT AGTAAT AGTAA
35081415 GTGAAAGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.17, T:0.31
Consensus pattern (6 bp):
AGTAAT
Found at i:35082668 original size:31 final size:31
Alignment explanation
Indices: 35082627--35082685 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
35082617 ATTTAATGGA
* *
35082627 GAGTGGCCAAAATAGAAATGATCTAAAATGT
1 GAGTGACCAAAATAAAAATGATCTAAAATGT
*
35082658 GAGTGACCAAAATAAAAATGATTTAAAA
1 GAGTGACCAAAATAAAAATGATCTAAAA
35082686 CATTAATGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.51, C:0.08, G:0.19, T:0.22
Consensus pattern (31 bp):
GAGTGACCAAAATAAAAATGATCTAAAATGT
Found at i:35087868 original size:18 final size:18
Alignment explanation
Indices: 35087801--35087868 Score: 52
Period size: 18 Copynumber: 3.8 Consensus size: 18
35087791 TTTTTTCTAG
* *
35087801 GTTT-TATATATTTTAAA
1 GTTTATATATATTTTTAT
*
35087818 GTTTTTATATATTTATT-T
1 GTTTATATATATTT-TTAT
*
35087836 CATTTAT-TATAATTTTTAT
1 -GTTTATATAT-ATTTTTAT
35087855 GTTTATATATATTT
1 GTTTATATATATTT
35087869 GATAAAAGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
17 4 0.10
18 23 0.57
19 13 0.32
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.65
Consensus pattern (18 bp):
GTTTATATATATTTTTAT
Found at i:35091906 original size:19 final size:20
Alignment explanation
Indices: 35091882--35091926 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
35091872 AATGAAATGA
*
35091882 AAATGAAATGTGAAA-TGTG
1 AAATGAAATATGAAATTGTG
35091901 AAATGAAATATGAAATTGTG
1 AAATGAAATATGAAATTGTG
*
35091921 GAATGA
1 AAATGA
35091927 GTTGAGAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (20 bp):
AAATGAAATATGAAATTGTG
Found at i:35091914 original size:12 final size:12
Alignment explanation
Indices: 35091873--35091916 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
35091863 ACAAATGGAA
35091873 ATGAAATGAAA-
1 ATGAAATGAAAT
35091884 ATGAAATGTGAAAT
1 ATGAAA--TGAAAT
*
35091898 GTGAAATGAAAT
1 ATGAAATGAAAT
35091910 ATGAAAT
1 ATGAAAT
35091917 TGTGGAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 6 0.21
12 12 0.43
13 5 0.18
14 5 0.18
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (12 bp):
ATGAAATGAAAT
Found at i:35100120 original size:17 final size:18
Alignment explanation
Indices: 35100098--35100131 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
35100088 GAACGAGGGA
35100098 AAAAGAA-AAAGGGAAAG
1 AAAAGAAGAAAGGGAAAG
35100115 AAAAGAAGAAAGGGAAA
1 AAAAGAAGAAAGGGAAA
35100132 AGTAGGGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
AAAAGAAGAAAGGGAAAG
Found at i:35100676 original size:16 final size:15
Alignment explanation
Indices: 35100655--35100694 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 15
35100645 TTATGTGTAT
35100655 GGTAAGTAAATAATAA
1 GGTAAGTAAAT-ATAA
35100671 GGTAAGTGAAATATAA
1 GGTAAGT-AAATATAA
35100687 GGTAAGTA
1 GGTAAGTA
35100695 TTATTATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.04
16 18 0.78
17 4 0.17
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (15 bp):
GGTAAGTAAATATAA
Found at i:35100813 original size:36 final size:36
Alignment explanation
Indices: 35100764--35100843 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
35100754 AATATTGACC
* *
35100764 TGAAAATGGAAAAGTAAATTTGAATTGAATTGTGAT
1 TGAAAATGAAAAAGTAAATTTGAATTGAAATGTGAT
* *
35100800 TGAAAGTGAAAAAGTGAATTTGAATTGAAATGTGAATT
1 TGAAAATGAAAAAGTAAATTTGAATTGAAATGTG-A-T
35100838 TGAAAA
1 TGAAAA
35100844 GTATGTGTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 30 0.81
37 1 0.03
38 6 0.16
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (36 bp):
TGAAAATGAAAAAGTAAATTTGAATTGAAATGTGAT
Found at i:35100834 original size:18 final size:18
Alignment explanation
Indices: 35100780--35100841 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
35100770 TGGAAAAGTA
*
35100780 AATTTGAATTGAATTGTG
1 AATTTGAATTGAAATGTG
* *
35100798 -A-TTGAAAGTGAAAAAGTG
1 AATTTG-AATTG-AAATGTG
35100816 AATTTGAATTGAAATGTG
1 AATTTGAATTGAAATGTG
35100834 AATTTGAA
1 AATTTGAA
35100842 AAGTATGTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
16 3 0.09
17 5 0.14
18 19 0.54
19 5 0.14
20 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (18 bp):
AATTTGAATTGAAATGTG
Found at i:35101052 original size:23 final size:23
Alignment explanation
Indices: 35101025--35101070 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
35101015 GTCTTACCGA
35101025 TCAGGCACTTTATGTGTCATATC
1 TCAGGCACTTTATGTGTCATATC
*
35101048 TCAGGCACTTTATGTGTCGTATC
1 TCAGGCACTTTATGTGTCATATC
35101071 AAGCACCTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.39
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCATATC
Found at i:35101084 original size:21 final size:21
Alignment explanation
Indices: 35101060--35101107 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
35101050 AGGCACTTTA
35101060 TGTGTCGTATCA-AGCACCTCG
1 TGTGTCGTATCAGA-CACCTCG
*
35101081 TGTGTCGTATCAGACACTTCG
1 TGTGTCGTATCAGACACCTCG
35101102 TGTGTC
1 TGTGTC
35101108 ATATACTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.33
Consensus pattern (21 bp):
TGTGTCGTATCAGACACCTCG
Found at i:35106175 original size:16 final size:16
Alignment explanation
Indices: 35106153--35106192 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
35106143 TTAATAATAA
35106153 TACTTACCTTA-TATT
1 TACTTACCTTATTATT
35106168 TCACTTACCTTATTATT
1 T-ACTTACCTTATTATT
35106185 TACTTACC
1 TACTTACC
35106193 ATACACATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.04
16 17 0.74
17 5 0.22
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (16 bp):
TACTTACCTTATTATT
Found at i:35106596 original size:40 final size:40
Alignment explanation
Indices: 35106550--35106647 Score: 124
Period size: 40 Copynumber: 2.5 Consensus size: 40
35106540 GCGTTTGGAA
* * * *
35106550 CAAAAGCGCCACTAAAAAACGAGCATTAGATGCGTTTTTG
1 CAAAAGCGCCGCTAAAAAACGAGCATTAGAGGCGTATTTC
* * *
35106590 CAAAAGCGCCGCTAAAGATCGAGCATTAGCGGCGTATTTC
1 CAAAAGCGCCGCTAAAAAACGAGCATTAGAGGCGTATTTC
*
35106630 CAAAATCGCCGCTAAAAA
1 CAAAAGCGCCGCTAAAAA
35106648 TAGGAATCAG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.19
Consensus pattern (40 bp):
CAAAAGCGCCGCTAAAAAACGAGCATTAGAGGCGTATTTC
Found at i:35106787 original size:41 final size:40
Alignment explanation
Indices: 35106715--35106911 Score: 146
Period size: 41 Copynumber: 4.8 Consensus size: 40
35106705 GTTTTTTGAG
** * *
35106715 CCTTTAGCGGCGTTTTTGCGGATGCGACGCTAATGATCGGA
1 CCTTTAGCGGCGTTTTTG-TTAAGCGCCGCTAATGATCGGA
* *
35106756 CCTTTAGCGGCGTTTTTAGTTAAGCGCCGCTAATGCTCGGG
1 CCTTTAGCGGCGTTTTT-GTTAAGCGCCGCTAATGATCGGA
* * * * * *
35106797 CCTTTAGTGGCGTTTCTGTCTATGCGCCGCTACTGCTTGG-
1 CCTTTAGCGGCGTTTTTGT-TAAGCGCCGCTAATGATCGGA
* * * * *
35106837 GCTTTAGTGGCGCTTTTGTCTAAGCGCCACTAATGAAT-GTA
1 CCTTTAGCGGCGTTTTTGT-TAAGCGCCGCTAATG-ATCGGA
* **
35106878 GCTTTAGCGGCGTTTTTGACGAAGCGCCGCTAAT
1 CCTTTAGCGGCGTTTTTG-TTAAGCGCCGCTAAT
35106912 AGTAACAAAA
Statistics
Matches: 127, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
40 32 0.25
41 94 0.74
42 1 0.01
ACGTcount: A:0.16, C:0.23, G:0.28, T:0.32
Consensus pattern (40 bp):
CCTTTAGCGGCGTTTTTGTTAAGCGCCGCTAATGATCGGA
Found at i:35106857 original size:40 final size:40
Alignment explanation
Indices: 35106742--35106871 Score: 147
Period size: 41 Copynumber: 3.2 Consensus size: 40
35106732 GCGGATGCGA
* * *
35106742 CGCTAATGATCGGACCTTTAGCGGCGTTTTTAGT-TAAGCGC
1 CGCTAATGCTCGGGCCTTTAGTGGCG-TTTT-GTCTAAGCGC
*
35106783 CGCTAATGCTCGGGCCTTTAGTGGCGTTTCTGTCTATGCGC
1 CGCTAATGCTCGGGCCTTTAGTGGCGTTT-TGTCTAAGCGC
* *
35106824 CGCTACTGCTTGGG-CTTTAGTGGCGCTTTTGTCTAAGCGC
1 CGCTAATGCTCGGGCCTTTAGTGGCG-TTTTGTCTAAGCGC
*
35106864 CACTAATG
1 CGCTAATG
35106872 AATGTAGCTT
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
40 32 0.42
41 45 0.58
ACGTcount: A:0.15, C:0.25, G:0.28, T:0.33
Consensus pattern (40 bp):
CGCTAATGCTCGGGCCTTTAGTGGCGTTTTGTCTAAGCGC
Found at i:35107322 original size:20 final size:20
Alignment explanation
Indices: 35107291--35107337 Score: 85
Period size: 20 Copynumber: 2.3 Consensus size: 20
35107281 CAAAATATAT
35107291 TTTAAGTACTATTAATTATTG
1 TTTAA-TACTATTAATTATTG
35107312 TTTAATACTATTAATTATTG
1 TTTAATACTATTAATTATTG
35107332 TTTAAT
1 TTTAAT
35107338 CGATTTTGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.55
Consensus pattern (20 bp):
TTTAATACTATTAATTATTG
Found at i:35107652 original size:27 final size:26
Alignment explanation
Indices: 35107622--35107672 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
35107612 AATAAACAAA
* *
35107622 TAAATAAGTAGGTAATTATTTATTTGT
1 TAAATAAATAGGT-ATTAATTATTTGT
35107649 TAAATAAATAGGTATTAATTATTT
1 TAAATAAATAGGTATTAATTATTT
35107673 AAATGTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (26 bp):
TAAATAAATAGGTATTAATTATTTGT
Found at i:35109022 original size:27 final size:27
Alignment explanation
Indices: 35108992--35109043 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
35108982 AATAAACAAA
*
35108992 TAAATAAGTAGGTAA-TAATTTATTTGT
1 TAAATAAATAGGTAATTAA-TTATTTGT
35109019 TAAATAAATAGGTAATTAATTATTT
1 TAAATAAATAGGTAATTAATTATTT
35109044 AAATGTAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (27 bp):
TAAATAAATAGGTAATTAATTATTTGT
Found at i:35110379 original size:18 final size:18
Alignment explanation
Indices: 35110356--35110390 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
35110346 TGATGAAGCT
35110356 GATGATGACTCCG-ATGAA
1 GATGATGA-TCCGTATGAA
35110374 GATGATGATCCGTATGA
1 GATGATGATCCGTATGA
35110391 GGCGGGCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (18 bp):
GATGATGATCCGTATGAA
Found at i:35115671 original size:19 final size:20
Alignment explanation
Indices: 35115642--35115681 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
35115632 ATAAATGGAC
**
35115642 TATTGTATTTGGTTTTTATT
1 TATTGTATTTGAATTTTATT
35115662 TATT-TATTTGAATTTTATT
1 TATTGTATTTGAATTTTATT
35115681 T
1 T
35115682 GTCTTGGGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (20 bp):
TATTGTATTTGAATTTTATT
Found at i:35118103 original size:2 final size:2
Alignment explanation
Indices: 35118096--35118122 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
35118086 TGGCTACCTA
35118096 AT 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 AT A
35118123 AAGGAAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35123599 original size:12 final size:12
Alignment explanation
Indices: 35123582--35123609 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
35123572 AATGGTGAAG
35123582 CTTTAGCTTTCT
1 CTTTAGCTTTCT
35123594 CTTTAGCTTTCT
1 CTTTAGCTTTCT
35123606 CTTT
1 CTTT
35123610 GGTCCCAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.25, G:0.07, T:0.61
Consensus pattern (12 bp):
CTTTAGCTTTCT
Found at i:35124230 original size:34 final size:34
Alignment explanation
Indices: 35124192--35124256 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
35124182 CTTAAAGTTT
*
35124192 TAGTATGTGAACCCCCATATTATATAGTATGACA
1 TAGTATGCGAACCCCCATATTATATAGTATGACA
*
35124226 TAGTATGCGAACCCCCATGTTATATAGTATG
1 TAGTATGCGAACCCCCATATTATATAGTATG
35124257 TGATTTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (34 bp):
TAGTATGCGAACCCCCATATTATATAGTATGACA
Found at i:35124345 original size:28 final size:27
Alignment explanation
Indices: 35124310--35124376 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
35124300 GGGAACCCTA
*
35124310 TACATGTGAACTCTAGATGCGTGAACCT
1 TACATGTGAACT-TAGATGCGTGAACCC
* * *
35124338 TAGATGTGCAACTTATATGTGTGAACCC
1 TACATGTG-AACTTAGATGCGTGAACCC
35124366 TACATGTGAAC
1 TACATGTGAAC
35124377 ATGTCATGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
27 3 0.09
28 26 0.79
29 4 0.12
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (27 bp):
TACATGTGAACTTAGATGCGTGAACCC
Found at i:35126148 original size:21 final size:21
Alignment explanation
Indices: 35126124--35126170 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
35126114 AAAAATTTAG
35126124 ATTATTATAATGGTTATTATC
1 ATTATTATAATGGTTATTATC
* * * *
35126145 ATTACTGTTATGGTTATTTTC
1 ATTATTATAATGGTTATTATC
35126166 ATTAT
1 ATTAT
35126171 CAATATTTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.06, G:0.11, T:0.55
Consensus pattern (21 bp):
ATTATTATAATGGTTATTATC
Found at i:35130281 original size:6 final size:6
Alignment explanation
Indices: 35130282--35130318 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
35130272 AAAATCAAAA
35130282 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG A
35130319 TGGAAAAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:35130340 original size:17 final size:17
Alignment explanation
Indices: 35130320--35130361 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
35130310 TGAAAATGAT
*
35130320 GGAAAAAGAAAAGGAAA
1 GGAAAAAGAAAAAGAAA
35130337 GGAAAAAGAAAAAGAAA
1 GGAAAAAGAAAAAGAAA
*
35130354 AGAAAAAG
1 GGAAAAAG
35130362 GAGGGGCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
GGAAAAAGAAAAAGAAA
Found at i:35130349 original size:7 final size:6
Alignment explanation
Indices: 35130321--35130361 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
35130311 GAAAATGATG
* *
35130321 GAAAAA G-AAAA GGAAAG GAAAAA GAAAAA G-AAAA GAAAAA G
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA G
35130362 GAGGGGCTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
5 10 0.33
6 20 0.67
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:35132081 original size:88 final size:88
Alignment explanation
Indices: 35131965--35132575 Score: 582
Period size: 88 Copynumber: 6.9 Consensus size: 88
35131955 GAAACCATAA
* * * *
35131965 AGCCTTATCTCCCTGAGCAGCAATGGAGTAGGTTAAAAATAGCAAATCTTGTCTTCTTGTATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTATATTGG
** *
35132030 CAGCGAAGTAGATTGAAGGCCCC
66 CAGCGAAGTAGATCAAAGACCCC
* * * * *
35132053 AGCCTTATCTCCTTGAGAAACAGTGGAGTAGGTTGAAAATAGCAGATCTTGCCTTCTTGTATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTATATTGG
* ** *
35132118 CAGCGAAGTAGATCGAAGATAGCA
66 CAGCGAAGTAGATCAAAGA-CCCC
* * * *
35132142 AGCCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGTAGATCTTGTCTTCCTATATTGA
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTATATTGG
*
35132207 CAACGAAGTAGATCAAAGACCCC
66 CAGCGAAGTAGATCAAAGACCCC
* * * *
35132230 AGCCTTATCTCCCT-AGGCAACAGTGGAGTAGGTTGAAAATAACAGATCTTGTCTTCCTCTATTG
1 AGCCTTATCTCCCTGA-GCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTATATTG
* * ****
35132294 GCAGTGAAGTAGATAAAAGATAGTA
65 GCAGCGAAGTAGATCAAAGA-CCCC
* * *
35132319 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTCAAAATAGCATATGTTGTCTT-TCTATATTG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCT-TATATTG
35132383 GCAGCGAAGTAGATCAAAGACCCC
65 GCAGCGAAGTAGATCAAAGACCCC
* * * ** * * * ** *
35132407 AACCATATCTCCCTGAGCGGCAGCAGAGCAGATTGAAAACAGCAGATCTTACCTTCCTATATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTATATTGG
* * * *
35132472 CAGCAAAGCAGATCGAAGAACACC
66 CAGCGAAGTAGATCAAAG-ACCCC
* ** * * ** * * *
35132496 AGCCCTT-CCTCCCTGAGTTTGTAGTGGAGCAGACTAAAAACAGCAGATCTTGTCTT-TCTATAC
1 AG-CCTTATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCT-TATAT
*
35132559 TGGCAGCGAAGCAGATC
63 TGGCAGCGAAGTAGATC
35132576 GACAACACTA
Statistics
Matches: 428, Mismatches: 85, Indels: 18
0.81 0.16 0.03
Matches are distributed among these distances:
87 1 0.00
88 214 0.50
89 160 0.37
90 53 0.12
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (88 bp):
AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTATATTGG
CAGCGAAGTAGATCAAAGACCCC
Found at i:35132260 original size:177 final size:177
Alignment explanation
Indices: 35131964--35132575 Score: 692
Period size: 177 Copynumber: 3.5 Consensus size: 177
35131954 TGAAACCATA
* * *
35131964 AAGCCTTATCTCCCTGAGCAGCAATGGAGTAGGTTAAAAATAGCAAATCTTGTCTTCTTGTATTG
1 AAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAAATCTTGTCTTCCTATATTG
** * * *
35132029 GCAGCGAAGTAGATTGAAGGCCCCAGCCTTATCTCCTTGAGAAACAGTGGAGTAGGTTGAAAATA
66 GCAGCGAAGTAGATCAAAGACCCCAGCCTTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAAATA
* *
35132094 GCAGATCTTGCCTTCTTGTATTGGCAGCGAAGTAGATCGAAGATAGC
131 GCAGATCTTGCCTTCCTATATTGGCAGCGAAGTAGATCGAAGATAGC
* * * *
35132141 AAGCCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGTAGATCTTGTCTTCCTATATTG
1 AAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAAATCTTGTCTTCCTATATTG
* *
35132206 ACAACGAAGTAGATCAAAGACCCCAGCCTTATCTCCCT-AGGCAACAGTGGAGTAGGTTGAAAAT
66 GCAGCGAAGTAGATCAAAGACCCCAGCCTTATCTCCCTGA-GCAACAGTGGAGTAGGTTGAAAAT
* * * * ** *
35132270 AACAGATCTTGTCTTCCTCTATTGGCAGTGAAGTAGATAAAAGATAGT
130 AGCAGATCTTGCCTTCCTATATTGGCAGCGAAGTAGATCGAAGATAGC
* * * *
35132318 AAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTCAAAATAGCATATGTTGTCTTTCTATATTG
1 AAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAAATCTTGTCTTCCTATATTG
* * ** ** * * *
35132383 GCAGCGAAGTAGATCAAAGACCCCAACCATATCTCCCTGAGCGGCAGCAGAGCAGATTGAAAACA
66 GCAGCGAAGTAGATCAAAGACCCCAGCCTTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAAATA
* * *
35132448 GCAGATCTTACCTTCCTATATTGGCAGCAAAGCAGATCGAAGA-A-C
131 GCAGATCTTGCCTTCCTATATTGGCAGCGAAGTAGATCGAAGATAGC
* ** * * ** * * *
35132493 ACCAGCCCTT-CCTCCCTGAGTTTGTAGTGGAGCAGACTAAAAACAGCAGATCTTGTCTTTCTAT
1 A--AG-CCTTATCTCCCTGAG-CAGCAGTGGAGTAGGTTAAAAATAGCAAATCTTGTCTTCCTAT
* *
35132557 ACTGGCAGCGAAGCAGATC
62 ATTGGCAGCGAAGTAGATC
35132576 GACAACACTA
Statistics
Matches: 367, Mismatches: 62, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
175 1 0.00
176 2 0.01
177 309 0.84
178 55 0.15
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (177 bp):
AAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAAATCTTGTCTTCCTATATTG
GCAGCGAAGTAGATCAAAGACCCCAGCCTTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAAATA
GCAGATCTTGCCTTCCTATATTGGCAGCGAAGTAGATCGAAGATAGC
Found at i:35132542 original size:90 final size:89
Alignment explanation
Indices: 35132432--35132613 Score: 231
Period size: 90 Copynumber: 2.0 Consensus size: 89
35132422 AGCGGCAGCA
* * * *
35132432 GAGCAGATTGAAAACAGCAGATCTTACCTTCCTATATTGGCAGCAAAGCAGATCGAAGAACACCA
1 GAGCAGACTAAAAACAGCAGATCTTACCTTCCTATACTGGCAGCAAAGCAGATCG-ACAACACCA
*
35132497 GCCCTT-CCTCCCTGAGTTTGTAGTG
65 G-CCTTGCCTCCCTGAGTTTGCAGTG
** * * *
35132522 GAGCAGACTAAAAACAGCAGATCTTGTCTTTCTATACTGGCAGCGAAGCAGATCGACAACACTAG
1 GAGCAGACTAAAAACAGCAGATCTTACCTTCCTATACTGGCAGCAAAGCAGATCGACAACACCAG
* *
35132587 TCTTGCCTCTCTGAGTTTGCAGTG
66 CCTTGCCTCCCTGAGTTTGCAGTG
35132611 GAG
1 GAG
35132614 TAGGTTGAAG
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
88 3 0.04
89 28 0.35
90 48 0.61
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (89 bp):
GAGCAGACTAAAAACAGCAGATCTTACCTTCCTATACTGGCAGCAAAGCAGATCGACAACACCAG
CCTTGCCTCCCTGAGTTTGCAGTG
Found at i:35132761 original size:129 final size:131
Alignment explanation
Indices: 35132605--35133082 Score: 651
Period size: 132 Copynumber: 3.6 Consensus size: 131
35132595 CTCTGAGTTT
* *
35132605 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAAATCAAAGAC
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
*
35132670 AGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCATATTTAAGCCACCAATCCTATCTCCCT-G-
66 AGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCTATCTCCCTAGC
35132733 A
131 A
* * * *
35132734 GCAGTGGAGCAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGTAGTACTGGAGTAGATCAAAGAC
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
* *
35132799 AATGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCTATTTCCCTGAG
66 AGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCTATCTCCCT-AG
35132864 CA
130 CA
* * * *
35132866 GCAGTGGAGTTGGTTGAAGAATGTAGAT-CTCGGCTCTCC-AAGCAGTAGTGGAACAGATCAAAG
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCT-GTCTC-CCTAAGCAGTAGTGGAGCAGATCAAAG
* * * * * *
35132929 ACGGTGAATTTTATCTTTCCAAGGTAGTAGGGAAGCAGATTTAAACCACAAATCCTATCTCTCTG
64 ACAGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCTATCTCCCT-
35132994 AGCA
128 AGCA
* * * * *
35132998 GCAGTGGAGTAGGTTGAAGATTGTAAATCATGTCTCGCTAAGCAGTAGTGAAGCAGATCAAAGAT
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
*
35133063 AGCGAATCTTA-CTTCTCCAA
66 AGTGAATCTTATCTTC-CCAA
35133083 CGTTACAGTA
Statistics
Matches: 303, Mismatches: 38, Indels: 13
0.86 0.11 0.04
Matches are distributed among these distances:
129 118 0.39
131 7 0.02
132 175 0.58
133 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (131 bp):
GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
AGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCTATCTCCCTAGC
A
Found at i:35133208 original size:49 final size:50
Alignment explanation
Indices: 35133066--35133223 Score: 234
Period size: 47 Copynumber: 3.2 Consensus size: 50
35133056 CAAAGATAGC
* *
35133066 GAATCTTACTTCTCCAACGTTACAGTAAAACAGATTGAAGCTACAACAGT
1 GAATCTTACTTCTCCAACGTTGCAGTAAAACAGATTGAAGCTACAACAGA
* *
35133116 GAATCCTA--T-TCCAACATTGCAGTAAAACAGATTGAAGCTACAACAGA
1 GAATCTTACTTCTCCAACGTTGCAGTAAAACAGATTGAAGCTACAACAGA
* *
35133163 GAATCTTACTTCTCCGACGTTGTAGTAAAACAGA-TGAAGCTACAACAGA
1 GAATCTTACTTCTCCAACGTTGCAGTAAAACAGATTGAAGCTACAACAGA
35133212 GAATCTTACTTC
1 GAATCTTACTTC
35133224 CCCTGAAGTT
Statistics
Matches: 97, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
47 42 0.43
48 1 0.01
49 28 0.29
50 26 0.27
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (50 bp):
GAATCTTACTTCTCCAACGTTGCAGTAAAACAGATTGAAGCTACAACAGA
Found at i:35133720 original size:19 final size:19
Alignment explanation
Indices: 35133696--35133737 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
35133686 GTATTCATAA
*
35133696 AAAGGGAGGAAATTAGTGT
1 AAAGGGAGAAAATTAGTGT
*
35133715 AAAGGGTGAAAATTAGTGT
1 AAAGGGAGAAAATTAGTGT
35133734 AAAG
1 AAAG
35133738 AGAAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.33, T:0.21
Consensus pattern (19 bp):
AAAGGGAGAAAATTAGTGT
Found at i:35133745 original size:19 final size:19
Alignment explanation
Indices: 35133705--35133745 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
35133695 AAAAGGGAGG
* **
35133705 AAATTAGTGTAAAGGGTGA
1 AAATTAGTGTAAAGAGAAA
35133724 AAATTAGTGTAAAGAGAAA
1 AAATTAGTGTAAAGAGAAA
35133743 AAA
1 AAA
35133746 AATAAGTGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.24, T:0.22
Consensus pattern (19 bp):
AAATTAGTGTAAAGAGAAA
Found at i:35134592 original size:24 final size:22
Alignment explanation
Indices: 35134562--35134723 Score: 94
Period size: 23 Copynumber: 7.0 Consensus size: 22
35134552 AGTTTATTGT
35134562 ATATTATTATTTTAGATTTATCA
1 ATATTATTATTTTA-ATTTATCA
*
35134585 TATTTTATTATTTGTAATTTATCA
1 -ATATTATTATTT-TAATTTATCA
* *
35134609 ATATTATTATTTTAAATTCATCG
1 ATATTATTATTTT-AATTTATCA
* **
35134632 TTAACATTATTTTAAATTTATC-
1 ATATTATTATTTT-AATTTATCA
* *
35134654 ATGTATATTTATTTCAAATTTATCA
1 ATAT-TA-TTATTT-TAATTTATCA
* * * *
35134679 TTAATATT-TTTAAATTTATTA
1 ATATTATTATTTTAATTTATCA
* *
35134700 TATACTATTATTTTGGATTTATCA
1 -ATATTATTATTTT-AATTTATCA
35134724 CGTATGATTG
Statistics
Matches: 107, Mismatches: 22, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
21 9 0.08
22 11 0.10
23 42 0.39
24 42 0.39
25 3 0.03
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (22 bp):
ATATTATTATTTTAATTTATCA
Found at i:35134626 original size:23 final size:23
Alignment explanation
Indices: 35134562--35134723 Score: 116
Period size: 24 Copynumber: 7.0 Consensus size: 23
35134552 AGTTTATTGT
*
35134562 ATATTATTATTTTAGATTTATCA
1 ATATTATTATTTTAAATTTATCA
*
35134585 TATTTTATTATTTGT-AATTTATCA
1 -ATATTATTATTT-TAAATTTATCA
* *
35134609 ATATTATTATTTTAAATTCATCG
1 ATATTATTATTTTAAATTTATCA
* **
35134632 TTAACATTATTTTAAATTTATC-
1 ATATTATTATTTTAAATTTATCA
* *
35134654 ATGTATATTTATTTCAAATTTATCA
1 ATAT-TA-TTATTTTAAATTTATCA
* * *
35134679 TTAATA-T-TTTTAAATTTATTA
1 ATATTATTATTTTAAATTTATCA
* **
35134700 TATACTATTATTTTGGATTTATCA
1 -ATATTATTATTTTAAATTTATCA
35134724 CGTATGATTG
Statistics
Matches: 106, Mismatches: 24, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
21 12 0.11
22 7 0.07
23 38 0.36
24 47 0.44
25 2 0.02
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (23 bp):
ATATTATTATTTTAAATTTATCA
Found at i:35134946 original size:11 final size:11
Alignment explanation
Indices: 35134930--35134958 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
35134920 TACATATTAC
35134930 TTATTTTTTAA
1 TTATTTTTTAA
35134941 TTA-TTTTTAA
1 TTATTTTTTAA
35134951 TTATTTTT
1 TTATTTTT
35134959 CTATATAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTTTTTAA
Found at i:35137559 original size:23 final size:23
Alignment explanation
Indices: 35137533--35137579 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
35137523 CAGCATCATA
35137533 TTTCATTACAAAAACCAATCAAT
1 TTTCATTACAAAAACCAATCAAT
* *
35137556 TTTCATTACAAAGACCAGTCAAT
1 TTTCATTACAAAAACCAATCAAT
35137579 T
1 T
35137580 CATACAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.32
Consensus pattern (23 bp):
TTTCATTACAAAAACCAATCAAT
Found at i:35138760 original size:36 final size:36
Alignment explanation
Indices: 35138713--35138820 Score: 157
Period size: 36 Copynumber: 3.0 Consensus size: 36
35138703 TGTCAGTGTC
*
35138713 TGATTACTACACCAAGATATCTCGTGCAAGTTTATA
1 TGATTACTACACCAAGATATCTCGTACAAGTTTATA
35138749 TGATTACTACACCAAGATATCTCGTACAAGTTTATA
1 TGATTACTACACCAAGATATCTCGTACAAGTTTATA
** *
35138785 T--TTTGTCACACCAAGATATCTCATACAAGTTTATA
1 TGATTACT-ACACCAAGATATCTCGTACAAGTTTATA
35138820 T
1 T
35138821 TTTGTCTAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
34 3 0.04
35 28 0.42
36 36 0.54
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.35
Consensus pattern (36 bp):
TGATTACTACACCAAGATATCTCGTACAAGTTTATA
Found at i:35138803 original size:35 final size:36
Alignment explanation
Indices: 35138719--35138828 Score: 161
Period size: 35 Copynumber: 3.1 Consensus size: 36
35138709 TGTCTGATTA
* * *
35138719 CTACACCAAGATATCTCGTGCAAGTTTATATGATT-A
1 CTACACCAAGATATCTCGTACAAGTTTATAT-TTTGT
35138755 CTACACCAAGATATCTCGTACAAGTTTATATTTTGT
1 CTACACCAAGATATCTCGTACAAGTTTATATTTTGT
*
35138791 C-ACACCAAGATATCTCATACAAGTTTATATTTTGT
1 CTACACCAAGATATCTCGTACAAGTTTATATTTTGT
35138826 CTA
1 CTA
35138829 AACATGAAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
35 36 0.53
36 32 0.47
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (36 bp):
CTACACCAAGATATCTCGTACAAGTTTATATTTTGT
Found at i:35146202 original size:20 final size:19
Alignment explanation
Indices: 35146165--35146204 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
35146155 AATTTTAAAA
* *
35146165 TATTTTTAAAATACTTTTT
1 TATTTTTAAAAAAATTTTT
35146184 TATTTTTAAAAGAAATTTTT
1 TATTTTTAAAA-AAATTTTT
35146204 T
1 T
35146205 GTGTTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (19 bp):
TATTTTTAAAAAAATTTTT
Found at i:35152332 original size:32 final size:32
Alignment explanation
Indices: 35152262--35152429 Score: 203
Period size: 32 Copynumber: 5.3 Consensus size: 32
35152252 GAATGGATAC
* *
35152262 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * * *
35152293 AAACCATCAGTAGCAGTGATATGATCGACACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
35152325 CAGCCATCAGTAATAGTAATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
35152357 AAGCCATTAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
35152389 CAGCCATCAGTAACGGTAATATGATCGGCAAA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
35152421 AAGCCATCA
1 AAGCCATCA
35152430 CCAGCATCGC
Statistics
Matches: 112, Mismatches: 24, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
31 9 0.08
32 103 0.92
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:35152349 original size:64 final size:64
Alignment explanation
Indices: 35152263--35152429 Score: 248
Period size: 64 Copynumber: 2.6 Consensus size: 64
35152253 AATGGATACA
* *
35152263 AGCCATAAGT-ACAGTAATATGATTGGCACAAAACCATCAGTAGCAGTGATATGATCGACACAC
1 AGCCATCAGTAACAGTAATATGATCGGCACAAAACCATCAGTAGCAGTGATATGATCGACACAC
* * * *
35152326 AGCCATCAGTAATAGTAATATGATCGGCACAAAGCCATTAGTAGCAGTGATATGATCGGCACAC
1 AGCCATCAGTAACAGTAATATGATCGGCACAAAACCATCAGTAGCAGTGATATGATCGACACAC
*
35152390 AGCCATCAGTAACGGTAATATGATCGGCA-AAAAGCCATCA
1 AGCCATCAGTAACAGTAATATGATCGGCACAAAA-CCATCA
35152430 CCAGCATCGC
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
63 12 0.13
64 80 0.87
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.20
Consensus pattern (64 bp):
AGCCATCAGTAACAGTAATATGATCGGCACAAAACCATCAGTAGCAGTGATATGATCGACACAC
Found at i:35152473 original size:27 final size:26
Alignment explanation
Indices: 35152450--35152514 Score: 96
Period size: 27 Copynumber: 2.5 Consensus size: 26
35152440 AGAAAAGCTG
35152450 CCAATAACAGTATATGTGGCAAAGCCA
1 CCAATAACAGTAT-TGTGGCAAAGCCA
*
35152477 CCAGTAACAGTGATTGTGGCAAAGCCA
1 CCAATAACAGT-ATTGTGGCAAAGCCA
35152504 CCAAT-ACAGTA
1 CCAATAACAGTA
35152515 CTTCCTCCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 1 0.03
26 5 0.14
27 27 0.77
28 2 0.06
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.18
Consensus pattern (26 bp):
CCAATAACAGTATTGTGGCAAAGCCA
Found at i:35152681 original size:27 final size:27
Alignment explanation
Indices: 35152633--35152808 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
35152623 GGGTAAAATA
**
35152633 GTCATTTTACCCTTTGAA-GGTA-TATCG
1 GTCATTTTACCC-TACAAGGGTATTA-CG
35152660 GTCATTTTACCCTACAAGGGTATTACG
1 GTCATTTTACCCTACAAGGGTATTACG
* * *
35152687 GTCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAAGGGTATTACG
* *
35152714 GTCATTTTACTCTAC-AGGGGATTACG
1 GTCATTTTACCCTACAAGGGTATTACG
* *
35152740 GTCATTTTATCCTA-AGGGGTATTACG
1 GTCATTTTACCCTACAAGGGTATTACG
* * * *
35152766 GTTATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCCTACAAGGGTATTACG
35152793 GTCATTTTACCCTACA
1 GTCATTTTACCCTACA
35152809 TAGGCTGTAA
Statistics
Matches: 127, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 45 0.35
27 80 0.63
28 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCTACAAGGGTATTACG
Found at i:35152744 original size:26 final size:27
Alignment explanation
Indices: 35152658--35152808 Score: 216
Period size: 27 Copynumber: 5.7 Consensus size: 27
35152648 GAAGGTATAT
* *
35152658 CGGTCATTTTACCCTACAAGGGTATTA
1 CGGTCATTTTACCCTACAGGGGCATTA
*
35152685 CGGTCATTTTACCCTATAGGGGCATTA
1 CGGTCATTTTACCCTACAGGGGCATTA
*
35152712 CGGTCATTTTACTCTACAGGGG-ATTA
1 CGGTCATTTTACCCTACAGGGGCATTA
* *
35152738 CGGTCATTTTATCCTA-AGGGGTATTA
1 CGGTCATTTTACCCTACAGGGGCATTA
*
35152764 CGGTTATTTTACCCTACAGGGGCATTA
1 CGGTCATTTTACCCTACAGGGGCATTA
*
35152791 CAGTCATTTTACCCTACA
1 CGGTCATTTTACCCTACA
35152809 TAGGCTGTAA
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
25 5 0.05
26 36 0.33
27 69 0.63
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (27 bp):
CGGTCATTTTACCCTACAGGGGCATTA
Found at i:35152773 original size:79 final size:80
Alignment explanation
Indices: 35152658--35152808 Score: 241
Period size: 79 Copynumber: 1.9 Consensus size: 80
35152648 GAAGGTATAT
* *
35152658 CGGTCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTATAGGGGCATTACGGTCATTTTA
1 CGGTCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAGGGGCATTACAGTCATTTTA
*
35152723 CTCTACAGGGGATTA
66 CCCTACAGGGGATTA
* * *
35152738 CGGTCATTTTATCCTA-AGGGGTATTACGGTTATTTTACCCTACAGGGGCATTACAGTCATTTTA
1 CGGTCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAGGGGCATTACAGTCATTTTA
35152802 CCCTACA
66 CCCTACA
35152809 TAGGCTGTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
79 50 0.77
80 15 0.23
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (80 bp):
CGGTCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAGGGGCATTACAGTCATTTTA
CCCTACAGGGGATTA
Found at i:35155598 original size:27 final size:27
Alignment explanation
Indices: 35155558--35155627 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
35155548 CCAACATAGA
35155558 GGCATTACGATCATTTTACCCTACAGG
1 GGCATTACGATCATTTTACCCTACAGG
* *
35155585 GGCATTACGGTCATTTTACCCTATAGG
1 GGCATTACGATCATTTTACCCTACAGG
35155612 GGCATTACGATCATTT
1 GGCATTACGATCATTT
35155628 AACAACCTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (27 bp):
GGCATTACGATCATTTTACCCTACAGG
Found at i:35158933 original size:42 final size:41
Alignment explanation
Indices: 35158783--35158979 Score: 198
Period size: 42 Copynumber: 4.7 Consensus size: 41
35158773 TAACCGTTAC
35158783 ACGGTGGAATCAGCACTTAACAACCACC-TTATAATCAATGAT
1 ACGG-GGAATCAGCACTTAACAACC-CCTTTATAATCAATGAT
* * *
35158825 ACGGGGAATCAGCACATAACAACCCCTTTCACAATCAAGGAT
1 ACGGGGAATCAGCACTTAACAACCCCTTT-ATAATCAATGAT
*
35158867 ACGGTGGAATCAGCACTTAACAACCACCTTTATAATCAACGAT
1 ACGG-GGAATCAGCACTTAACAACC-CCTTTATAATCAATGAT
** * * * * *
35158910 TTGGGGAATCTGCACTTAGCAACCCTTTTTTTTATCAATGAT
1 ACGGGGAATCAGCACTTAACAACCC-CTTTATAATCAATGAT
* * * *
35158952 TCGGGGAATCTGCATTTAGCAACCCCTT
1 ACGGGGAATCAGCACTTAACAACCCCTT
35158980 ACATTCAAAG
Statistics
Matches: 133, Mismatches: 17, Indels: 11
0.83 0.11 0.07
Matches are distributed among these distances:
40 2 0.02
41 24 0.18
42 71 0.53
43 31 0.23
44 5 0.04
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (41 bp):
ACGGGGAATCAGCACTTAACAACCCCTTTATAATCAATGAT
Found at i:35162150 original size:95 final size:95
Alignment explanation
Indices: 35161986--35162170 Score: 307
Period size: 95 Copynumber: 1.9 Consensus size: 95
35161976 AAGGTTATAA
*
35161986 TTCTCAATGGTGACATTGACGAGACGGTTTATATGGTGCAACCAGAAATGTAACACCCCTAACCC
1 TTCTCAATGGTGACATTGACAAGACGGTTTATATGGTGCAACCAGAAATGTAACACCCCTAACCC
35162051 GTATCCGTCACCAGAATAGGGTTACGAAGT
66 GTATCCGTCACCAGAATAGGGTTACGAAGT
* * * *
35162081 TTCTCAATGGTGATATTGACAAGACGGTTTATATGGTGGAACTAGAAATGTAACACCCCTAACCT
1 TTCTCAATGGTGACATTGACAAGACGGTTTATATGGTGCAACCAGAAATGTAACACCCCTAACCC
* *
35162146 GTATCCGTCGCCGGAATAGGGTTAC
66 GTATCCGTCACCAGAATAGGGTTAC
35162171 AGAGCATTAC
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
95 83 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (95 bp):
TTCTCAATGGTGACATTGACAAGACGGTTTATATGGTGCAACCAGAAATGTAACACCCCTAACCC
GTATCCGTCACCAGAATAGGGTTACGAAGT
Found at i:35163511 original size:31 final size:31
Alignment explanation
Indices: 35163474--35163550 Score: 95
Period size: 29 Copynumber: 2.5 Consensus size: 31
35163464 AACCAAAGCT
* *
35163474 ATCCCTTTTCATAATTTTGATGGTCGTTACC
1 ATCCCTTTTCATAATTTTGATGGTCATCACC
*
35163505 ATCCCTTTTCAT--TGTTGATGGTCATCACC
1 ATCCCTTTTCATAATTTTGATGGTCATCACC
* *
35163534 ATACCTTTACATAATTT
1 ATCCCTTTTCATAATTT
35163551 GATAGCCGGA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
29 24 0.63
31 14 0.37
ACGTcount: A:0.22, C:0.23, G:0.10, T:0.44
Consensus pattern (31 bp):
ATCCCTTTTCATAATTTTGATGGTCATCACC
Found at i:35173962 original size:29 final size:29
Alignment explanation
Indices: 35173882--35173953 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
35173872 ATAGCCGAAG
* * *
35173882 CCATACCTTTTCATAGTTCAATGGTCATCA
1 CCATCCCTTTTCATA-ATCGATGGTCATCA
*
35173912 CCATCCCTTTTCATAATCGATGGTCGTCA
1 CCATCCCTTTTCATAATCGATGGTCATCA
35173941 CCAT-CCTTTTCAT
1 CCATCCCTTTTCAT
35173954 TTGTTGATGA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 9 0.24
29 15 0.39
30 14 0.37
ACGTcount: A:0.22, C:0.31, G:0.10, T:0.38
Consensus pattern (29 bp):
CCATCCCTTTTCATAATCGATGGTCATCA
Found at i:35180171 original size:47 final size:47
Alignment explanation
Indices: 35180117--35180476 Score: 567
Period size: 47 Copynumber: 7.6 Consensus size: 47
35180107 TATTTGAATA
35180117 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
35180164 AATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
35180211 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
35180258 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
35180307 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
35180354 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
35180403 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
35180450 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
35180477 TCCCGAAGGG
Statistics
Matches: 289, Mismatches: 20, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
47 199 0.69
49 90 0.31
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:35180300 original size:96 final size:96
Alignment explanation
Indices: 35180117--35180476 Score: 629
Period size: 96 Copynumber: 3.8 Consensus size: 96
35180107 TATTTGAATA
* *
35180117 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
35180180 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
35180211 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
35180276 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
35180307 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
35180372 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
35180403 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
35180467 -ATGTGATAAG
66 TATGTGATAAG
35180477 TCCCGAAGGG
Statistics
Matches: 257, Mismatches: 7, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
94 64 0.25
95 1 0.00
96 192 0.75
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:35180419 original size:143 final size:141
Alignment explanation
Indices: 35180117--35180476 Score: 567
Period size: 143 Copynumber: 2.5 Consensus size: 141
35180107 TATTTGAATA
*
35180117 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
35180182 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
35180247 CCAATGTGATG
131 CCAATGTGATG
35180258 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
35180323 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
64 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGA
*
35180388 ATGGCCGATGTGATG
127 ATGGCCAATGTGATG
* * * * * * * *
35180403 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
35180468 TGTGATAAG
66 TGTGATAAG
35180477 TCCCGAAGGG
Statistics
Matches: 202, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
141 12 0.06
143 145 0.72
145 45 0.22
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (141 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
CCAATGTGATG
Found at i:35184018 original size:15 final size:15
Alignment explanation
Indices: 35183998--35184026 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
35183988 ACTGACGAAT
35183998 AAACCAAAAACAAAA
1 AAACCAAAAACAAAA
35184013 AAACCAAAAACAAA
1 AAACCAAAAACAAA
35184027 TTATAGTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (15 bp):
AAACCAAAAACAAAA
Found at i:35187078 original size:40 final size:40
Alignment explanation
Indices: 35186994--35187218 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
35186984 TTGAATGATG
* * * *
35186994 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
35187034 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35187074 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35187113 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35187153 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35187194 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35187219 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 120 0.74
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35187236 original size:80 final size:79
Alignment explanation
Indices: 35187033--35187241 Score: 221
Period size: 80 Copynumber: 2.6 Consensus size: 79
35187023 AAGTGACCAT
* * ** * *
35187033 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGAT-ACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGCCCGAAGGCAT
35187096 TGGTGCGAGTTACTAA
64 TGGTGCGAGTTACTAA
* ** *
35187112 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAG-CCCGAAGGCATT
*
35187177 TGTGCGAGTTACTATA
65 GGTGCGAGTTACTA-A
* *
35187193 A-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAA
35187242 ATTTTGAAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.02
79 50 0.44
80 59 0.52
81 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGCCCGAAGGCATTG
GTGCGAGTTACTAA
Found at i:35187240 original size:119 final size:119
Alignment explanation
Indices: 35186994--35187241 Score: 272
Period size: 119 Copynumber: 2.1 Consensus size: 119
35186984 TTGAATGATG
* * *
35186994 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGTATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
35187059 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
35187113 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
35187176 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
35187233 TCC-GGTTAA
1 TCCGGGTTAA
35187242 ATTTTGAAGG
Statistics
Matches: 108, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 74 0.69
120 31 0.29
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:35192884 original size:48 final size:48
Alignment explanation
Indices: 35192826--35192917 Score: 175
Period size: 48 Copynumber: 1.9 Consensus size: 48
35192816 TGATGAATTT
35192826 GAAATGTTGGTTGATATTTAAAAGTATTTTGTTAAGTAATTTTGTTAA
1 GAAATGTTGGTTGATATTTAAAAGTATTTTGTTAAGTAATTTTGTTAA
*
35192874 GAAATTTTGGTTGATATTTAAAAGTATTTTGTTAAGTAATTTTG
1 GAAATGTTGGTTGATATTTAAAAGTATTTTGTTAAGTAATTTTG
35192918 ATGAATTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (48 bp):
GAAATGTTGGTTGATATTTAAAAGTATTTTGTTAAGTAATTTTGTTAA
Found at i:35192917 original size:13 final size:13
Alignment explanation
Indices: 35192847--35192882 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
35192837 TGATATTTAA
35192847 AAGT-ATTTTGTT
1 AAGTAATTTTGTT
35192859 AAGTAATTTTGTT
1 AAGTAATTTTGTT
*
35192872 AAGAAATTTTG
1 AAGTAATTTTG
35192883 GTTGATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (13 bp):
AAGTAATTTTGTT
Found at i:35195455 original size:50 final size:50
Alignment explanation
Indices: 35195355--35195500 Score: 163
Period size: 50 Copynumber: 2.9 Consensus size: 50
35195345 TTTCCGGTAC
* * * **
35195355 TGCCAATC-CCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAA-CGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGG
* * *
35195405 TG-CACATGCCATGTCCTAGACATGGTCTTAC-GGGAGACCTCTCATCTCGG
1 TGCCA-ACGCCATGTCCCAGACATGGTCTTACAGGG-GACCTCTCATATCGG
*
35195455 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATA
35195501 ATCTCAATAA
Statistics
Matches: 79, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
49 4 0.05
50 71 0.90
51 4 0.05
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGG
Found at i:35201979 original size:7 final size:7
Alignment explanation
Indices: 35201967--35201991 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
35201957 AGAGAGCATT
35201967 GATATGA
1 GATATGA
35201974 GATATGA
1 GATATGA
35201981 GATATGA
1 GATATGA
35201988 GATA
1 GATA
35201992 GTAGAGGTTT
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:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (7 bp):
GATATGA
Found at i:35203149 original size:66 final size:66
Alignment explanation
Indices: 35203072--35203255 Score: 206
Period size: 66 Copynumber: 2.8 Consensus size: 66
35203062 GTTAGTAGCC
*
35203072 TCACACGGCCTAGCACATGGGCGTGTGGCTTGGTCATGTGACACAAGTCAGTATACCCATCATTT
1 TCACACGGCCTAGCACACGGGCGTGTGGCTTGGTCATGTGACACAAGTCAGTATACCCATCATTT
35203137 T
66 T
* * * * * * * **
35203138 TCACACGGCCTAGCACACGGGCGTGTAGCTTAGCCGTATGTCACAAGTCAGTATGCCTTTCATTT
1 TCACACGGCCTAGCACACGGGCGTGTGGCTTGGTCATGTGACACAAGTCAGTATACCCATCATTT
35203203 T
66 T
* ** * * * * *
35203204 TAACACAACCTGGTATACGGGCATGTGGCTTGGTCATGTGACCCAAGTCAGT
1 TCACACGGCCTAGCACACGGGCGTGTGGCTTGGTCATGTGACACAAGTCAGT
35203256 GAGTTATATG
Statistics
Matches: 94, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
66 94 1.00
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (66 bp):
TCACACGGCCTAGCACACGGGCGTGTGGCTTGGTCATGTGACACAAGTCAGTATACCCATCATTT
T
Found at i:35206840 original size:20 final size:18
Alignment explanation
Indices: 35206815--35206871 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
35206805 GGGAAAATCC
35206815 ATTTTTTATAATTTCTAATA
1 ATTTTTTATAATTT-TAA-A
*
35206835 ATTTTTCATAATTTTAAA
1 ATTTTTTATAATTTTAAA
* *
35206853 ATATTTTTACAGTTTTAAA
1 AT-TTTTTATAATTTTAAA
35206872 TAATTCGTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 3 0.09
19 16 0.50
20 13 0.41
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (18 bp):
ATTTTTTATAATTTTAAA
Found at i:35213138 original size:115 final size:116
Alignment explanation
Indices: 35212936--35213161 Score: 400
Period size: 115 Copynumber: 1.9 Consensus size: 116
35212926 CTCGCAAAAG
* *
35212936 CAAGACTACATGCATAAGCAAGACTAAAAAATGTACTACAAGAGTAGACAAAAACTTCTAAAAGT
1 CAAGACTACATGCATAAGCAAGACTAAAAAACGAACTACAAGAGTAGACAAAAACTTCTAAAAGT
*
35213001 GAAGGCTTATTAAATAATG-AAAAATAAAAAAAAACATATAAAACGTACTA
66 GAAGGCTTATTAAATAATGAAAAAACAAAAAAAAACATATAAAACGTACTA
*
35213051 CAAGACTACATGCATAAGCAAGACTAAAAAACGAACTACAAGAGTAGACAAAAATTTCTAAAAGT
1 CAAGACTACATGCATAAGCAAGACTAAAAAACGAACTACAAGAGTAGACAAAAACTTCTAAAAGT
35213116 GAAGGCTTATTAAATAATGAAAAAAACAAAAAAAAACATATAAAAC
66 GAAGGCTTATTAAATAATG-AAAAAACAAAAAAAAACATATAAAAC
35213162 TTTAGGCAGC
Statistics
Matches: 105, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
115 81 0.77
117 24 0.23
ACGTcount: A:0.56, C:0.13, G:0.12, T:0.19
Consensus pattern (116 bp):
CAAGACTACATGCATAAGCAAGACTAAAAAACGAACTACAAGAGTAGACAAAAACTTCTAAAAGT
GAAGGCTTATTAAATAATGAAAAAACAAAAAAAAACATATAAAACGTACTA
Found at i:35217036 original size:3 final size:3
Alignment explanation
Indices: 35217028--35217053 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
35217018 AACAAATAGG
35217028 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
35217054 GGACTAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:35218182 original size:16 final size:17
Alignment explanation
Indices: 35218155--35218198 Score: 74
Period size: 16 Copynumber: 2.7 Consensus size: 17
35218145 AAAAGTCCCC
35218155 TCTCTT-TTTTTTTGTT
1 TCTCTTCTTTTTTTGTT
35218171 TCT-TTCTTTTTTTGTT
1 TCTCTTCTTTTTTTGTT
35218187 TCTCTTCTTTTT
1 TCTCTTCTTTTT
35218199 CTTCTTGTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 2 0.08
16 16 0.62
17 8 0.31
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.80
Consensus pattern (17 bp):
TCTCTTCTTTTTTTGTT
Found at i:35218838 original size:44 final size:44
Alignment explanation
Indices: 35218766--35219397 Score: 308
Period size: 44 Copynumber: 13.8 Consensus size: 44
35218756 ATCTGATGTG
* *
35218766 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTTTA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGAT-CTGTTATTTTA
* * ** * *
35218810 ATCCGCTCCACTGTAACTTCAGAGAGATAGGAT-TACTAGCTTCA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCTGTTA-TTTTA
* * * * *** *
35218854 ATCTACTCCGCTGTAATTTCAGAGAGATAAGATCTCTGGCTTCA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCTGTTATTTTA
* * ** *
35218898 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTTCG
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCTGTTA-TTTT-A
* * * *
35218944 GTCTGTTCCACTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTG
1 ATCTGCTCCACTGTAACT-TCAGAGAGATAAGA--TCT-G-TT--AT-T--T-TA
* *
35218998 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTTTA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGAT-CTGTTATTTTA
* * ** * *
35219042 ATCCGCTCCACTGTAACTTCAGAGAGATAGGAT-TACTAGCTTCA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCTGTTA-TTTTA
* * * * *** *
35219086 ATCTACTCCGCTGTAATTTCAGAGAGATAAGATCTCTGGCTTCA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCTGTTATTTTA
* * ** *
35219130 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTTCG
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCTGTTA-TTTT-A
* * * *
35219176 GTCTGTTCCACTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTG
1 ATCTGCTCCACTGTAACT-TCAGAGAGATAAGA--TCT-G-TT--AT-T--T-TA
* *
35219230 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTTTA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGAT-CTGTTATTTTA
* * ** * *
35219274 ATCCGCTCCACTGTAACTTCAGAGAGATAGGAT-TACTAGCTTCA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCTGTTA-TTTTA
* * * * *** *
35219318 ATCTACTCCGCTGTAATTTCAGAGAGATAAGATCTCTGGCTTCA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCTGTTATTTTA
* *
35219362 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTG
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCTG
35219398 AAATTTTTCG
Statistics
Matches: 449, Mismatches: 100, Indels: 78
0.72 0.16 0.12
Matches are distributed among these distances:
42 3 0.01
43 6 0.01
44 287 0.64
45 9 0.02
46 56 0.12
47 2 0.00
48 10 0.02
49 2 0.00
50 4 0.01
51 2 0.00
52 6 0.01
53 4 0.01
54 54 0.12
55 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (44 bp):
ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCTGTTATTTTA
Found at i:35219118 original size:232 final size:232
Alignment explanation
Indices: 35218706--35219439 Score: 1416
Period size: 232 Copynumber: 3.2 Consensus size: 232
35218696 GAAATTTATG
* *
35218706 TTTTCAGTCTGTTCCACTGCAA-CATCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCT
1 TTTTCGGTCTGTTCCACTGTAATC-TCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCT
35218770 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGA
65 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGA
35218835 GATAGGATTACTAGCTTCAATCTACTCCGCTGTAATTTCAGAGAGATAAGATCTCTGGCTTCAAT
130 GATAGGATTACTAGCTTCAATCTACTCCGCTGTAATTTCAGAGAGATAAGATCTCTGGCTTCAAT
35218900 CTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
195 CTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
35218938 TTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTA
1 TTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTA
35219003 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAG
66 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAG
35219068 ATAGGATTACTAGCTTCAATCTACTCCGCTGTAATTTCAGAGAGATAAGATCTCTGGCTTCAATC
131 ATAGGATTACTAGCTTCAATCTACTCCGCTGTAATTTCAGAGAGATAAGATCTCTGGCTTCAATC
35219133 TGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
196 TGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
35219170 TTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTA
1 TTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTA
35219235 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAG
66 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAG
35219300 ATAGGATTACTAGCTTCAATCTACTCCGCTGTAATTTCAGAGAGATAAGATCTCTGGCTTCAATC
131 ATAGGATTACTAGCTTCAATCTACTCCGCTGTAATTTCAGAGAGATAAGATCTCTGGCTTCAATC
35219365 TGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
196 TGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
**
35219402 TTTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGA
1 TTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
35219440 CCTGTATAAT
Statistics
Matches: 497, Mismatches: 4, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
232 496 1.00
233 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (232 bp):
TTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTA
CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAG
ATAGGATTACTAGCTTCAATCTACTCCGCTGTAATTTCAGAGAGATAAGATCTCTGGCTTCAATC
TGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
Found at i:35232251 original size:3 final size:3
Alignment explanation
Indices: 35232243--35232268 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
35232233 AACAAATAGG
35232243 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
35232269 GGACTAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Done.