Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008162.1 Hibiscus syriacus cultivar Beakdansim tig00110733_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3688897
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 16
Found at i:1483366 original size:55 final size:55
Alignment explanation
Indices: 1483305--1483543 Score: 184
Period size: 55 Copynumber: 4.3 Consensus size: 55
1483295 AGGATAAGCG
* ** * *
1483305 AGACTTGAAAAATCTTCAAATAACGGGTCTGTTCCCTATTCTTTTAAGGAGTATA
1 AGACTTGAACAATCTTCAAATAACGGGTCTACTCCCTATTCATTCAAGGAGTATA
* * *
1483360 AGACTTGAACAATCTTCAGATAACGTGTCTACTCCCTATTCATTCAGGGAGTATA
1 AGACTTGAACAATCTTCAAATAACGGGTCTACTCCCTATTCATTCAAGGAGTATA
* * ** * * *
1483415 AGCCTCGAACAATCTTC-AATAAACGGGTCCGCTCTCTATCCGTTC-AGGAAGTAT-
1 AGACTTGAACAATCTTCAAAT-AACGGGTCTACTCCCTATTCATTCAAGG-AGTATA
* * * * * *
1483469 AGAACTCGAACAATCTT-AATAAAATGGGTCCACTCTCTATTCCTTC-AGAGAGTAT-
1 AG-ACTTGAACAATCTTCAA-ATAACGGGTCTACTCCCTATTCATTCAAG-GAGTATA
*
1483524 AGAACTCGAACAATCTTCAA
1 AG-ACTTGAACAATCTTCAA
1483544 CAAACTTGTC
Statistics
Matches: 153, Mismatches: 24, Indels: 13
0.81 0.13 0.07
Matches are distributed among these distances:
54 6 0.04
55 143 0.93
56 4 0.03
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (55 bp):
AGACTTGAACAATCTTCAAATAACGGGTCTACTCCCTATTCATTCAAGGAGTATA
Found at i:1483564 original size:55 final size:55
Alignment explanation
Indices: 1483391--1483599 Score: 191
Period size: 55 Copynumber: 3.9 Consensus size: 55
1483381 AACGTGTCTA
* * * * *
1483391 CTCCCTATTCATTCAGGGAGTATA-AGCCTCGAACAATCTTCAATAAACGGGTCCG
1 CTCCCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAACAAACTGGTCCG
* * * *
1483446 CTCTCTA-TCCGTTCAG-GAAGTATAGAACTCGAACAATCTT-AATAAAATGGGTCCA
1 CTCCCTATTCC-TTCAGAG-AGTATAGAACTCGAACAATCTTCAACAAACT-GGTCCG
* *
1483501 CTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACTTGTCCG
1 CTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACTGGTCCG
* * * *
1483556 CACCCTATTCTTTCATAGAGTATAGGACT----CAATCTTCAACAAAC
1 CTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAAC
1483600 GAGTTTGCTT
Statistics
Matches: 132, Mismatches: 15, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
51 15 0.11
54 9 0.07
55 97 0.73
56 11 0.08
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (55 bp):
CTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACTGGTCCG
Found at i:1483578 original size:110 final size:109
Alignment explanation
Indices: 1483305--1483585 Score: 253
Period size: 110 Copynumber: 2.6 Consensus size: 109
1483295 AGGATAAGCG
* * * ** * *
1483305 AGACTTGAAAAATCTTCAA-ATAACGGGTCTGTTCCCTATTCTTTTAAGGAGTATA-AGACTTGA
1 AGACTCGAACAATCTTCAACA-AACGGGTCCGCACCCTATTCTTTCAA-GAGTATAGA-ACTCGA
* * * * *
1483368 ACAATCTTCAGATAACGTGTCTACTCCCTATTCATTCAGGGAGTATA
63 ACAATCTTAAGAAAACGGGTCCACTCCCTATTCATTCAGAGAGTATA
* * * * * * *
1483415 AGCCTCGAACAATCTTCAATAAACGGGTCCGCTCTCTATCCGTTCAGGAAGTATAGAACTCGAAC
1 AGACTCGAACAATCTTCAACAAACGGGTCCGCACCCTATTCTTTCAAG-AGTATAGAACTCGAAC
* * * *
1483480 AATCTTAATAAAATGGGTCCACTCTCTATTCCTTCAGAGAGTAT-
65 AATCTTAAGAAAACGGGTCCACTCCCTATTCATTCAGAGAGTATA
** *
1483524 AGAACTCGAACAATCTTCAACAAACTTGTCCGCACCCTATTCTTTCATAGAGTATAGGACTC
1 AG-ACTCGAACAATCTTCAACAAACGGGTCCGCACCCTATTCTTTCA-AGAGTATAGAACTC
1483586 AATCTTCAAC
Statistics
Matches: 136, Mismatches: 30, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
109 3 0.02
110 130 0.96
111 3 0.02
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (109 bp):
AGACTCGAACAATCTTCAACAAACGGGTCCGCACCCTATTCTTTCAAGAGTATAGAACTCGAACA
ATCTTAAGAAAACGGGTCCACTCCCTATTCATTCAGAGAGTATA
Found at i:1483926 original size:17 final size:17
Alignment explanation
Indices: 1483894--1483928 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1483884 TATCTTCATC
1483894 TCAATGCTTCAATATCT
1 TCAATGCTTCAATATCT
1483911 TCAAT-CTTCAACTATCT
1 TCAATGCTTCAA-TATCT
1483928 T
1 T
1483929 TGGAGTCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.29, C:0.26, G:0.03, T:0.43
Consensus pattern (17 bp):
TCAATGCTTCAATATCT
Found at i:1484965 original size:7 final size:6
Alignment explanation
Indices: 1484938--1484990 Score: 52
Period size: 6 Copynumber: 8.2 Consensus size: 6
1484928 CCCCCTTTTA
**
1484938 TTTCTT TTTCTT TTTAAT TTTCTCT TTTCGTT TTTCTT TTTCATTT TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCT-T TTTC-TT TTTCTT TTTC--TT TTTCTT
1484990 T
1 T
1484991 CATTTTCCCC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
6 22 0.56
7 10 0.26
8 7 0.18
ACGTcount: A:0.06, C:0.15, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTCTT
Found at i:1484972 original size:14 final size:14
Alignment explanation
Indices: 1484938--1485095 Score: 63
Period size: 12 Copynumber: 11.7 Consensus size: 14
1484928 CCCCCTTTTA
1484938 TTTC-TTTTTCT-T
1 TTTCATTTTTCTCT
*
1484950 TTT-AATTTTCTCT
1 TTTCATTTTTCTCT
*
1484963 TTTCGTTTTTCT-T
1 TTTCATTTTTCTCT
1484976 TTTCATTTTT-TC-
1 TTTCATTTTTCTCT
* * *
1484988 TTTCATTTTCCCCA
1 TTTCATTTTTCTCT
*
1485002 TTT--TTTCTCAT-T
1 TTTCATTTTTC-TCT
*
1485014 TTTCTTTTCTTCT-T
1 TTTCATTT-TTCTCT
1485028 TTTCATTTTT-TC-
1 TTTCATTTTTCTCT
** *
1485040 CATCATTTTTCATTTT
1 TTTCATTTTTC--TCT
*
1485056 TTCTCATTTTTCTTT
1 TT-TCATTTTTCTCT
1485071 TCTTC-TTTTTCTTCT
1 T-TTCATTTTTC-TCT
1485086 TTTCATTTTT
1 TTTCATTTTT
1485096 TATTATTTTT
Statistics
Matches: 109, Mismatches: 18, Indels: 35
0.67 0.11 0.22
Matches are distributed among these distances:
12 35 0.32
13 17 0.16
14 30 0.28
15 17 0.16
16 1 0.01
17 9 0.08
ACGTcount: A:0.08, C:0.20, G:0.01, T:0.72
Consensus pattern (14 bp):
TTTCATTTTTCTCT
Found at i:1484975 original size:26 final size:25
Alignment explanation
Indices: 1484938--1484990 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
1484928 CCCCCTTTTA
1484938 TTTCTTTTTCTTTTTAATTTTCTCT
1 TTTCTTTTTCTTTTTAATTTTCTCT
* *
1484963 TTTCGTTTTTCTTTTTCATTTTTTCT
1 TTTC-TTTTTCTTTTTAATTTTCTCT
1484989 TT
1 TT
1484991 CATTTTCCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.06, C:0.15, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTCTTTTTCTTTTTAATTTTCTCT
Found at i:1485026 original size:17 final size:16
Alignment explanation
Indices: 1485002--1485130 Score: 98
Period size: 14 Copynumber: 8.3 Consensus size: 16
1484992 ATTTTCCCCA
1485002 TTTTTTCTCATTTTTC
1 TTTTTTCTCATTTTTC
*
1485018 TTTTCT-TC-TTTTTC
1 TTTTTTCTCATTTTTC
1485032 ATTTTTTCCATCATTTTTC
1 -TTTTTT-C-TCATTTTTC
1485051 ATTTTTTCTCATTTTTC
1 -TTTTTTCTCATTTTTC
*
1485068 TTTTCT-TC-TTTTTC
1 TTTTTTCTCATTTTTC
*
1485082 TTCTTT-TCATTTTT-
1 TTTTTTCTCATTTTTC
*
1485096 TATTATT-T--TTTTTC
1 T-TTTTTCTCATTTTTC
1485110 ATTTTTT-TCATTTTTC
1 -TTTTTTCTCATTTTTC
1485126 TTTTT
1 TTTTT
1485131 CTTTTTTATT
Statistics
Matches: 94, Mismatches: 8, Indels: 23
0.75 0.06 0.18
Matches are distributed among these distances:
13 5 0.05
14 24 0.26
15 24 0.26
16 16 0.17
17 9 0.10
18 3 0.03
19 13 0.14
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTTCTCATTTTTC
Found at i:1485030 original size:9 final size:9
Alignment explanation
Indices: 1485018--1485147 Score: 50
Period size: 9 Copynumber: 15.1 Consensus size: 9
1485008 CTCATTTTTC
1485018 TTTTCTTCT
1 TTTTCTTCT
1485027 TTTTCATT-T
1 TTTTC-TTCT
* *
1485036 TTTCCATCAT
1 TTTTCTTC-T
*
1485046 TTTTCAT-T
1 TTTTCTTCT
1485054 TTTTC-TC-
1 TTTTCTTCT
*
1485061 ATTT-TTC-
1 TTTTCTTCT
1485068 TTTTCTTCT
1 TTTTCTTCT
1485077 TTTTCTTC-
1 TTTTCTTCT
*
1485085 TTTTCAT-T
1 TTTTCTTCT
* *
1485093 TTTTATTAT
1 TTTTCTTCT
*
1485102 TTTTTTTCAT
1 TTTTCTTC-T
1485112 TTTT-TTCAT
1 TTTTCTTC-T
1485121 TTTTCTT-T
1 TTTTCTTCT
1485129 TTCTT-TT-T
1 TT-TTCTTCT
1485137 TATTTCTTCT
1 T-TTTCTTCT
1485147 T
1 T
1485148 CAAGCGAAAT
Statistics
Matches: 96, Mismatches: 10, Indels: 29
0.71 0.07 0.21
Matches are distributed among these distances:
7 9 0.09
8 30 0.31
9 39 0.41
10 18 0.19
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTCTTCT
Found at i:1485053 original size:40 final size:37
Alignment explanation
Indices: 1484968--1485056 Score: 92
Period size: 40 Copynumber: 2.3 Consensus size: 37
1484958 TCTCTTTTCG
*
1484968 TTTTTC-TTTTTCATTTTTTCTTTCATTTTCCCCATT
1 TTTTTCATTTTTCATTTTTTCTTTCATTTTCCCCATA
**
1485004 TTTTCTCATTTTTC-TTTTCTTCTTTTTCATTTTTTCCATCA
1 TTTT-TCATTTTTCATTTT-TTC--TTTCATTTTCCCCAT-A
1485045 TTTTTCATTTTT
1 TTTTTCATTTTT
1485057 TCTCATTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
36 4 0.09
37 6 0.14
38 9 0.20
40 21 0.48
41 4 0.09
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (37 bp):
TTTTTCATTTTTCATTTTTTCTTTCATTTTCCCCATA
Found at i:1485066 original size:59 final size:58
Alignment explanation
Indices: 1485018--1485147 Score: 163
Period size: 59 Copynumber: 2.2 Consensus size: 58
1485008 CTCATTTTTC
1485018 TTTTCTTCTTTTTCATTTTTT-CCATCATTTTTCATTTTTTCTCATTTTTCTTTTCTTCT
1 TTTTCTTC-TTTTCATTTTTTACCATCATTTTTCATTTTTT-TCATTTTTCTTTTCTTCT
** ** *
1485077 TTTTCTTCTTTTCATTTTTTATTATTTTTTTTCATTTTTTTCATTTTTCTTTTTCTTTTT
1 TTTTCTTCTTTTCATTTTTTACCATCATTTTTCATTTTTTTCATTTTTC-TTTTC-TTCT
1485137 TATTTCTTCTT
1 T-TTTCTTCTT
1485148 CAAGCGAAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
58 21 0.34
59 28 0.45
60 4 0.06
61 9 0.15
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.75
Consensus pattern (58 bp):
TTTTCTTCTTTTCATTTTTTACCATCATTTTTCATTTTTTTCATTTTTCTTTTCTTCT
Found at i:1485073 original size:50 final size:50
Alignment explanation
Indices: 1484955--1485137 Score: 182
Period size: 50 Copynumber: 3.7 Consensus size: 50
1484945 TTCTTTTTAA
* ** *
1484955 TTTTCTC--TTTTCGTTT-TTCTTTTTCATTTTTTCTTTCATTTTCCCCATT
1 TTTTCTCATTTTTCTTTTCTTCTTTTTC-TTTTTTCCATCATTTT-CTCATT
1485004 TTTTCTCATTTTTCTTTTCTTCTTTTTCATTTTTTCCATCATTTT-TCATT
1 TTTTCTCATTTTTCTTTTCTTCTTTTTC-TTTTTTCCATCATTTTCTCATT
* * *
1485054 TTTTCTCATTTTTCTTTTCTTCTTTTTCTTCTTTT-CAT-TTTTTATTATT
1 TTTTCTCATTTTTCTTTTCTTCTTTTTCTT-TTTTCCATCATTTTCTCATT
* *
1485103 TTTTTTCATTTTT-TTCATTTTTCTTTTTCTTTTTT
1 TTTTCTCATTTTTCTT--TTCTTCTTTTTCTTTTTT
1485138 ATTTCTTCTT
Statistics
Matches: 119, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
48 6 0.05
49 32 0.27
50 49 0.41
51 8 0.07
52 24 0.20
ACGTcount: A:0.08, C:0.18, G:0.01, T:0.74
Consensus pattern (50 bp):
TTTTCTCATTTTTCTTTTCTTCTTTTTCTTTTTTCCATCATTTTCTCATT
Found at i:1485107 original size:58 final size:58
Alignment explanation
Indices: 1484969--1485147 Score: 158
Period size: 59 Copynumber: 3.0 Consensus size: 58
1484959 CTCTTTTCGT
* * *
1484969 TTTTC-TTTTTCATT-TTTTCTTTCA-TTTTCCCCATTTTTTCTCATTT-TTC-TTTTCTTC
1 TTTTCATTTTTTATTATTTT-TTTCATTTTTTCTCA-TTTTTCT--TTTCTTCTTTTTCTTC
*
1485026 TTTTTCATTTTTTCCATCA--TTTTTCATTTTTTCTCATTTTTCTTTTCTTCTTTTTCTTC
1 -TTTTCATTTTTT--ATTATTTTTTTCATTTTTTCTCATTTTTCTTTTCTTCTTTTTCTTC
*
1485085 TTTTCATTTTTTATTATTTTTTTTCATTTTTT-TCATTTTTCTTTTTCTTTTTTATTTCTTC
1 TTTTCATTTTTTATTA-TTTTTTTCATTTTTTCTCATTTTTC-TTTTC-TTCTT-TTTCTTC
1485146 TT
1 TT
1485148 CAAGCGAAAT
Statistics
Matches: 102, Mismatches: 6, Indels: 23
0.78 0.05 0.18
Matches are distributed among these distances:
56 3 0.03
57 3 0.03
58 29 0.28
59 43 0.42
60 13 0.13
61 11 0.11
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (58 bp):
TTTTCATTTTTTATTATTTTTTTCATTTTTTCTCATTTTTCTTTTCTTCTTTTTCTTC
Found at i:1485110 original size:20 final size:20
Alignment explanation
Indices: 1485045--1485147 Score: 83
Period size: 20 Copynumber: 5.1 Consensus size: 20
1485035 TTTTCCATCA
1485045 TTTTTCATTTTTTCTCATTTTTC
1 TTTTTCA-TTTTT-T-ATTTTTC
* *
1485068 -TTTTC-TTCTTT-TTCTTC
1 TTTTTCATTTTTTATTTTTC
1485085 -TTTTCATTTTTTATTATTT-
1 TTTTTCATTTTTTATT-TTTC
1485104 TTTTTCATTTTTTTCATTTTTC
1 TTTTTCA-TTTTTT-ATTTTTC
1485126 TTTTTC-TTTTTTATTTCTTC
1 TTTTTCATTTTTTATTT-TTC
1485146 TT
1 TT
1485148 CAAGCGAAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 19
0.75 0.04 0.21
Matches are distributed among these distances:
17 10 0.15
18 5 0.07
19 7 0.10
20 23 0.34
21 9 0.13
22 14 0.21
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTCATTTTTTATTTTTC
Found at i:1485136 original size:41 final size:42
Alignment explanation
Indices: 1485062--1485140 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
1485052 TTTTTTCTCA
1485062 TTTTTCTTTTCTTCTTTTTCTTCTTTTCATTTTTTATTATTT
1 TTTTTCTTTTCTTCTTTTTCTTCTTTTCATTTTTTATTATTT
*
1485104 TTTTTCATTTTTTTCATTTTTC-T-TTTTC-TTTTTTATT
1 TTTTTC-TTTTCTTC-TTTTTCTTCTTTTCATTTTTTATT
1485141 TCTTCTTCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
41 9 0.26
42 11 0.32
43 8 0.24
44 6 0.18
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.80
Consensus pattern (42 bp):
TTTTTCTTTTCTTCTTTTTCTTCTTTTCATTTTTTATTATTT
Found at i:1486905 original size:24 final size:24
Alignment explanation
Indices: 1486876--1486925 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1486866 TGGTGCTTGA
1486876 TTTAATGGTTGT-TTAAACTTTATT
1 TTTAATGG-TGTATTAAACTTTATT
* *
1486900 TTTAATGGTGTATTTAAGTTTATT
1 TTTAATGGTGTATTAAACTTTATT
1486924 TT
1 TT
1486926 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.60
Consensus pattern (24 bp):
TTTAATGGTGTATTAAACTTTATT
Found at i:1487429 original size:17 final size:16
Alignment explanation
Indices: 1487398--1487431 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1487388 CACGCGAGGA
1487398 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
1487414 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
1487431 T
1 T
1487432 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:1497155 original size:24 final size:24
Alignment explanation
Indices: 1497126--1497175 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1497116 TGGTGGTTGA
*
1497126 TTTAATGGT-TGTTTAAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
1497150 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
1497174 TT
1 TT
1497176 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:1497681 original size:17 final size:16
Alignment explanation
Indices: 1497650--1497683 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1497640 CACGTGAGGA
1497650 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
1497666 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
1497683 T
1 T
1497684 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:1506379 original size:45 final size:47
Alignment explanation
Indices: 1506312--1506417 Score: 135
Period size: 45 Copynumber: 2.3 Consensus size: 47
1506302 CCATGCTTTG
*
1506312 TTATTCACAAAAATAAATCCTAACCGCATGATATATAATTTGCATGC-
1 TTATTCA-AAAAATAAATCCTAACCGCATGATATATAATTCGCATGCA
* * *
1506359 TTATTCAAAAAATAAA-CCTAACCGTATGATATCTAGTTCGCATGCA
1 TTATTCAAAAAATAAATCCTAACCGCATGATATATAATTCGCATGCA
*
1506405 TTTATTCGAAAAA
1 -TTATTCAAAAAA
1506418 CAAAAATAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
45 25 0.48
46 9 0.17
47 18 0.35
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (47 bp):
TTATTCAAAAAATAAATCCTAACCGCATGATATATAATTCGCATGCA
Found at i:1508358 original size:20 final size:18
Alignment explanation
Indices: 1508316--1508358 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
1508306 ATTTGGAGGA
*
1508316 CTAAAAACCTAAATTATC
1 CTAAAAACCTAAATTACC
1508334 CTAAAAACCTAATATATACC
1 CTAAAAACCTAA-AT-TACC
1508354 CTAAA
1 CTAAA
1508359 TAAAACAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.55
19 2 0.09
20 8 0.36
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (18 bp):
CTAAAAACCTAAATTACC
Found at i:1511035 original size:21 final size:21
Alignment explanation
Indices: 1511011--1511107 Score: 68
Period size: 21 Copynumber: 4.6 Consensus size: 21
1511001 AGAGGTTAAG
* *
1511011 ACCTTTCGATGAAATGACTTA
1 ACCTTTTGATGAAAAGACTTA
* *
1511032 ACCTTTTGATTAAAAGACTTC
1 ACCTTTTGATGAAAAGACTTA
* * *
1511053 TCCTTTTGATGAAAGGGCTTA
1 ACCTTTTGATGAAAAGACTTA
* * * * *
1511074 ACATTTTCATTAAAGGATTTA
1 ACCTTTTGATGAAAAGACTTA
* *
1511095 ATCTTTTCATGAA
1 ACCTTTTGATGAA
1511108 GAGAAGTGTT
Statistics
Matches: 58, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (21 bp):
ACCTTTTGATGAAAAGACTTA
Found at i:1513179 original size:23 final size:23
Alignment explanation
Indices: 1513126--1513182 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
1513116 GAAGCTCAAG
* *
1513126 ACTCGATTGAAGCTCGATTTTGA
1 ACTCGATTCAAACTCGATTTTGA
* *
1513149 GCTTGATTCAAACTCGATTTTGA
1 ACTCGATTCAAACTCGATTTTGA
1513172 ACTCGATTCAA
1 ACTCGATTCAA
1513183 GCCCGACTGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (23 bp):
ACTCGATTCAAACTCGATTTTGA
Found at i:1513988 original size:3 final size:3
Alignment explanation
Indices: 1513980--1514036 Score: 80
Period size: 3 Copynumber: 19.0 Consensus size: 3
1513970 ATTTATTTAT
* *
1513980 TTA TTA TTA TTA TAA TAA TTA TTA TTA TTA TTA TTA -TA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
1514025 TTA TTA TTA TTA
1 TTA TTA TTA TTA
1514037 AAAAAGTAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.90
4 3 0.06
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:1514032 original size:18 final size:18
Alignment explanation
Indices: 1513972--1514034 Score: 74
Period size: 18 Copynumber: 3.4 Consensus size: 18
1513962 CCCATTTTAT
*
1513972 TTATT-TATTTATTATTA
1 TTATTATATATATTATTA
*
1513989 TTATAATAATTATTATTATTA
1 TTATTAT-A-TA-TATTATTA
1514010 TTATTATATATATTATTA
1 TTATTATATATATTATTA
1514028 TTATTAT
1 TTATTAT
1514035 TAAAAAAGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 4 0.10
18 16 0.41
19 3 0.08
20 2 0.05
21 14 0.36
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTATTATATATATTATTA
Found at i:1514036 original size:21 final size:21
Alignment explanation
Indices: 1513972--1514036 Score: 89
Period size: 21 Copynumber: 3.1 Consensus size: 21
1513962 CCCATTTTAT
*
1513972 TTATTTAT-TTATTATTATTA
1 TTATATATATTATTATTATTA
*
1513992 TAATA-ATTATTATTATTATTA
1 TTATATA-TATTATTATTATTA
1514013 TTATATATATTATTATTATTA
1 TTATATATATTATTATTATTA
1514034 TTA
1 TTA
1514037 AAAAAGTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.03
20 4 0.10
21 33 0.85
22 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATATATATTATTATTATTA
Found at i:1515671 original size:12 final size:12
Alignment explanation
Indices: 1515639--1515671 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
1515629 TATTATAAAA
*
1515639 AAATTATAATTT
1 AAATTATTATTT
1515651 AAATT-TTATTT
1 AAATTATTATTT
1515662 AAATTATTAT
1 AAATTATTAT
1515672 AATATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
AAATTATTATTT
Found at i:1526926 original size:28 final size:28
Alignment explanation
Indices: 1526884--1527004 Score: 117
Period size: 28 Copynumber: 4.4 Consensus size: 28
1526874 ATGTTTGAAG
*
1526884 AAAAA-AAATGAAAAGAAAAAA-AGAAA
1 AAAAAGAAAAGAAAAGAAAAAAGAGAAA
* *
1526910 AAAAAGAGAAAGAAAAGAAAAAAATAGAAG
1 AAAAAGA-AAAGAAAAG-AAAAAAGAGAAA
*
1526940 AAAAA-AAAAGAAAAGAAAAAAGAGAAG
1 AAAAAGAAAAGAAAAGAAAAAAGAGAAA
*
1526967 AAGAAGAAAA-AACAAGAAAAAAGA-AGAA
1 AAAAAGAAAAGAA-AAGAAAAAAGAGA-AA
*
1526995 AAGAAGAAAA
1 AAAAAGAAAA
1527005 AAAGGGGGGT
Statistics
Matches: 83, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
26 5 0.06
27 19 0.23
28 43 0.52
29 7 0.08
30 9 0.11
ACGTcount: A:0.80, C:0.01, G:0.17, T:0.02
Consensus pattern (28 bp):
AAAAAGAAAAGAAAAGAAAAAAGAGAAA
Found at i:1526929 original size:43 final size:45
Alignment explanation
Indices: 1526880--1527008 Score: 142
Period size: 43 Copynumber: 2.8 Consensus size: 45
1526870 TATTATGTTT
*
1526880 GAAGAAAAAAAATGAAAAGAAAAAAAGAAAAAAAAGAGA-AAGAA
1 GAAGAAAAAAAATGAAAAGAAAAAAAGAAAAAAAAAAGAGAAGAA
1526924 -AAG-AAAAAAATAGAAGAA-AAAAAAAGAAAAGAAAAAAGAGAAGAA
1 GAAGAAAAAAAAT-GAA-AAGAAAAAAAGAAAA-AAAAAAGAGAAGAA
* *
1526969 GAAGAAAAAACAA-GAAAAAAGAAGAAAAGAAGAAAAAAAG
1 GAAGAAAAAA-AATG--AAAAGAAAAAAAGAAAAAAAAAAG
1527009 GGGGGTCAAG
Statistics
Matches: 72, Mismatches: 3, Indels: 17
0.78 0.03 0.18
Matches are distributed among these distances:
42 8 0.11
43 18 0.25
44 9 0.12
45 5 0.07
46 4 0.06
47 14 0.19
48 14 0.19
ACGTcount: A:0.79, C:0.01, G:0.19, T:0.02
Consensus pattern (45 bp):
GAAGAAAAAAAATGAAAAGAAAAAAAGAAAAAAAAAAGAGAAGAA
Found at i:1526953 original size:56 final size:56
Alignment explanation
Indices: 1526880--1526988 Score: 159
Period size: 56 Copynumber: 1.9 Consensus size: 56
1526870 TATTATGTTT
*
1526880 GAAGAAAAAAAATGAAAAGAAAAAA-AGAAAAAAAAGAGAAAGAA-AAGAAAAAAATA
1 GAAGAAAAAAAAAGAAAAGAAAAAAGAGAAAAAAAAGA-AAA-AACAAGAAAAAAATA
* *
1526936 GAAGAAAAAAAAAGAAAAGAAAAAAGAGAAGAAGAAGAAAAAACAAGAAAAAA
1 GAAGAAAAAAAAAGAAAAGAAAAAAGAGAAAAAAAAGAAAAAACAAGAAAAAA
1526989 GAAGAAAAGA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
55 2 0.04
56 36 0.75
57 10 0.21
ACGTcount: A:0.80, C:0.01, G:0.17, T:0.02
Consensus pattern (56 bp):
GAAGAAAAAAAAAGAAAAGAAAAAAGAGAAAAAAAAGAAAAAACAAGAAAAAAATA
Found at i:1527005 original size:28 final size:27
Alignment explanation
Indices: 1526899--1527007 Score: 81
Period size: 25 Copynumber: 4.2 Consensus size: 27
1526889 AAATGAAAAG
1526899 AAAAAAAGAAAAAA-AAGAGAAAGAA-A
1 AAAAAAAGAAAAAAGAAGA-AAAGAAGA
* * *
1526925 AGAAAAAA-ATAGAAGAA-AAAAAAAGA
1 A-AAAAAAGAAAAAAGAAGAAAAGAAGA
* *
1526951 AAAGAAA-AAAG-AGAAGAAGAAG-A-A
1 AAAAAAAGAAAAAAGAAGAA-AAGAAGA
*
1526975 AAAACAAGAAAAAAGAAGAAAAGAAGA
1 AAAAAAAGAAAAAAGAAGAAAAGAAGA
1527002 AAAAAA
1 AAAAAA
1527008 GGGGGGTCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 17
0.70 0.11 0.19
Matches are distributed among these distances:
24 10 0.16
25 22 0.34
26 18 0.28
27 14 0.22
ACGTcount: A:0.81, C:0.01, G:0.17, T:0.01
Consensus pattern (27 bp):
AAAAAAAGAAAAAAGAAGAAAAGAAGA
Found at i:1527005 original size:46 final size:46
Alignment explanation
Indices: 1526893--1527006 Score: 139
Period size: 46 Copynumber: 2.5 Consensus size: 46
1526883 GAAAAAAAAT
1526893 GAAAAGAAAAAAAGAA-AAAAAAGAGAAAGAAAAGAAAAAAATAGAA
1 GAAAAG-AAAAAAGAAGAAAAAAGAGAAAGAAAAGAAAAAAATAGAA
*
1526939 GAAAA-AAAAAGAAAAGAAAAAAGAG-AAGAAGAAGAAAAAACA-AGAA
1 GAAAAGAAAAA-AGAAGAAAAAAGAGAAAGAA-AAGAAAAAA-ATAGAA
1526985 -AAAAGAAGAAAAGAAGAAAAAA
1 GAAAAGAA-AAAAGAAGAAAAAA
1527007 AGGGGGGTCA
Statistics
Matches: 60, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
44 5 0.08
45 12 0.20
46 39 0.65
47 4 0.07
ACGTcount: A:0.80, C:0.01, G:0.18, T:0.01
Consensus pattern (46 bp):
GAAAAGAAAAAAGAAGAAAAAAGAGAAAGAAAAGAAAAAAATAGAA
Found at i:1527374 original size:20 final size:22
Alignment explanation
Indices: 1527338--1527377 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
1527328 TATTTATTAA
1527338 TAAATTCTAAGTTTATTTTCTC
1 TAAATTCTAAGTTTATTTTCTC
1527360 TAAATTC-AA-TTTATTTTC
1 TAAATTCTAAGTTTATTTTC
1527378 GAAAATTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 2 0.11
22 7 0.39
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (22 bp):
TAAATTCTAAGTTTATTTTCTC
Found at i:1527887 original size:114 final size:114
Alignment explanation
Indices: 1527687--1528138 Score: 742
Period size: 114 Copynumber: 4.0 Consensus size: 114
1527677 GTGCTACGTT
1527687 CTCATAGTAGGAATACGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGGAATACGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
*
1527752 ATTTGGTATGAACCCCAAAATCAATCATTGGATTTGAAATATGAATTTG
66 ATTTGGTATGAACCCCAAAATCAATCATTGGATTTGAAAGATGAATTTG
*
1527801 CTCATAGTAGGAATACGAAGACCCAATAGCATCTTCTGGAAGTGTACTTTGAGTTATCTGATCTG
1 CTCATAGTAGGAATACGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
*
1527866 ATTTGGTATGAACCCCAAAATCAATCATTGGATTTGAAAGATTAATTTG
66 ATTTGGTATGAACCCCAAAATCAATCATTGGATTTGAAAGATGAATTTG
1527915 CTCATAGTAGGAATACGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGGAATACGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1527980 ATTTGGTATGAACCCCAAAATCAATCATTGGATTTGAAAGATGAATTTG
66 ATTTGGTATGAACCCCAAAATCAATCATTGGATTTGAAAGATGAATTTG
* * * * * *
1528029 CTCATAGTAGAAATAAGAAGACCCAATAACATCTTTTGGAAGTTTTCTTTGAGTCATCTGATCTG
1 CTCATAGTAGGAATACGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
* * * ** * * * *
1528094 GTTCGGTAGGAACCAGAAAACCAATCATTAGAATTAAAAGATGAA
66 ATTTGGTATGAACCCCAAAATCAATCATTGGATTTGAAAGATGAA
1528139 CTGCATGGTC
Statistics
Matches: 318, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 318 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (114 bp):
CTCATAGTAGGAATACGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
ATTTGGTATGAACCCCAAAATCAATCATTGGATTTGAAAGATGAATTTG
Found at i:1529155 original size:113 final size:113
Alignment explanation
Indices: 1528828--1529386 Score: 698
Period size: 113 Copynumber: 4.9 Consensus size: 113
1528818 GATTTAAATC
** * * * * *
1528828 CATCATTCAATGGATCAACAGTACCAGTAGAAGTTCTTAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCAACATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
1528893 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCGAATT
* ** *
1528941 CATCATTTGATGGATCAACATTGCCAGGTAAAGTTCCTAATGAGAAGAACTCGTCATCTGAAGAA
1 CATCATTTGATGGATCAACATTTCCAGAAAAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAA
* * *
1529006 -GAAG-A-AA-TTCATAATGAGAAGAATTTGTTCAACCTTTTACTCAAATC
63 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCGAATT
* *
1529053 CATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCAACATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
1529118 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCGAATT
* ** * *
1529166 CATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAATGAGAAGAACTCATCTGAAAAAG
1 CATCATTTGATGGATCAACATTTCCA--GAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
*
1529231 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTATTCT-CTCGAATT
64 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCT-TT-TGCTCGAATT
* * * * * *
1529281 CATCACTCGATGGATCAACTTTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGA
1 CATCATTTGATGGATCAACATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
** *
1529346 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTTTTGC
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
1529387 ATGACTCTAT
Statistics
Matches: 390, Mismatches: 43, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
109 12 0.03
110 5 0.01
111 1 0.00
112 81 0.21
113 171 0.44
114 5 0.01
115 102 0.26
116 13 0.03
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.28
Consensus pattern (113 bp):
CATCATTTGATGGATCAACATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCGAATT
Found at i:1529319 original size:228 final size:223
Alignment explanation
Indices: 1528823--1529385 Score: 792
Period size: 228 Copynumber: 2.5 Consensus size: 223
1528813 ACAAAGATTT
* ** * *
1528823 AAATCCATCATTCAATGGATCAACAGTACCAGTAGAAGTTCTTAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTCGATGGATCAACTTTTCCAG-AGAAGTTCATAATGAGAAGAACTCATCTGAAG
1528888 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATG
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATG
** * *
1528953 GATCAACATTGCCAGGTAAAGTTCCTAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAATTCAT
130 GATCAACATCCCCAGGAAAAGTTCATAATGAGAAGAAC-CGTCATCTGAAGAAGAAGAAATTCAT
*
1529018 AATGAGAAGAATTTGTTCAACCTTTTACTC
194 AATGAGAAGAACTTGTTCAACCTTTTACTC
* * *
1529048 AAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTCGATGGATCAACTTTTCCAG-AGAAGTTCATAATGAGAAGAACTCATCTGAAG
1529113 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATG
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATG
* *
1529178 GATCAGCATCCCCAGTGAAAGAGTTCATAATGAGAAGAA-C-TCATCTGAAAAAGGAAGAAGAAG
130 GATCAACATCCCCAG-GAAA-AGTTCATAATGAGAAGAACCGTCATCTG---AA-GAAGAAGAAA
1529241 TTCATAATGAGAAGAACTTGTTCAA-CTATTCT-CTC
189 TTCATAATGAGAAGAACTTGTTCAACCT-TT-TACTC
* * *
1529276 GAATTCATCACTCGATGGATCAACTTTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTCGATGGATCAACTTTTCCAGAGA-AGTTCATAATGAGAAGAACTCATCTGAAG
* ** *
1529341 AAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTTTTG
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
1529386 CATGACTCTA
Statistics
Matches: 303, Mismatches: 26, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
224 7 0.02
225 134 0.44
226 3 0.01
227 23 0.08
228 135 0.45
229 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (223 bp):
AAATCCATCATTCGATGGATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGG
ATCAACATCCCCAGGAAAAGTTCATAATGAGAAGAACCGTCATCTGAAGAAGAAGAAATTCATAA
TGAGAAGAACTTGTTCAACCTTTTACTC
Found at i:1529348 original size:225 final size:222
Alignment explanation
Indices: 1528823--1529385 Score: 774
Period size: 225 Copynumber: 2.5 Consensus size: 222
1528813 ACAAAGATTT
* ** * *
1528823 AAATCCATCATTCAATGGATCAACAGTACCAGTAGAAGTTCTTAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTCGATGGATCAACTTTTCCAG-AGAAGTTCATAATGAGAAGAACTCATCTGAAG
1528888 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATG
65 AA-GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATG
** * *
1528953 GATCAACATTGCCAGGTAAAGTTCCTAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAATTCAT
129 GATCAACATCCCCAGGAAAAGTTCATAATGAGAAGAAC-CGTCATCTGAAGAAGAAGAAATTCAT
*
1529018 AATGAGAAGAATTTGTTCAACCTTTTACTC
193 AATGAGAAGAACTTGTTCAACCTTTTACTC
* * *
1529048 AAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTCGATGGATCAACTTTTCCAG-AGAAGTTCATAATGAGAAGAACTCATCTGAAG
1529113 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATG
65 AA-GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATG
* *
1529178 GATCAGCATCCCCAGTGAAAGAGTTCATAATGAGAAGAA-C-TCATCTGAAAAAGGAAGAAGAAG
129 GATCAACATCCCCAG-GAAA-AGTTCATAATGAGAAGAACCGTCATCTG---AA-GAAGAAGAAA
1529241 TTCATAATGAGAAGAACTTGTTCAA-CTATTCT-CTC
188 TTCATAATGAGAAGAACTTGTTCAACCT-TT-TACTC
* * *
1529276 GAATTCATCACTCGATGGATCAACTTTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTCGATGGATCAACTTTTCCAGAGA-AGTTCATAATGAGAAGAACTCATCTGAAG
** *
1529341 AAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTTTTG
65 -AAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
1529386 CATGACTCTA
Statistics
Matches: 303, Mismatches: 25, Indels: 17
0.88 0.07 0.05
Matches are distributed among these distances:
224 7 0.02
225 134 0.44
226 3 0.01
227 23 0.08
228 133 0.44
229 3 0.01
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (222 bp):
AAATCCATCATTCGATGGATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGA
TCAACATCCCCAGGAAAAGTTCATAATGAGAAGAACCGTCATCTGAAGAAGAAGAAATTCATAAT
GAGAAGAACTTGTTCAACCTTTTACTC
Found at i:1529740 original size:3 final size:3
Alignment explanation
Indices: 1529732--1529788 Score: 89
Period size: 3 Copynumber: 19.0 Consensus size: 3
1529722 TTTTATTTAT
*
1529732 TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TTA TTA -TA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
1529777 TTA TTA TTA TTA
1 TTA TTA TTA TTA
1529789 AAAAAATAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.90
4 3 0.06
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:1529758 original size:21 final size:21
Alignment explanation
Indices: 1529724--1529788 Score: 98
Period size: 21 Copynumber: 3.1 Consensus size: 21
1529714 TTTACCCATT
*
1529724 TTATTTAT-TTATTATTATTA
1 TTATATATATTATTATTATTA
1529744 TTATA-ATTATTATTATTATTA
1 TTATATA-TATTATTATTATTA
1529765 TTATATATATTATTATTATTA
1 TTATATATATTATTATTATTA
1529786 TTA
1 TTA
1529789 AAAAAATAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
19 1 0.02
20 5 0.12
21 34 0.83
22 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTATATATATTATTATTATTA
Found at i:1531412 original size:12 final size:12
Alignment explanation
Indices: 1531380--1531412 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
1531370 TATTATAAAA
*
1531380 AAATTATAATTT
1 AAATTATTATTT
1531392 AAATT-TTATTT
1 AAATTATTATTT
1531403 AAATTATTAT
1 AAATTATTAT
1531413 AATATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
AAATTATTATTT
Found at i:1533501 original size:14 final size:14
Alignment explanation
Indices: 1533482--1533607 Score: 76
Period size: 14 Copynumber: 9.0 Consensus size: 14
1533472 ATGTGCATAA
1533482 CTTAAACCCTAAAC
1 CTTAAACCCTAAAC
**
1533496 CTTAAACTATAAAC
1 CTTAAACCCTAAAC
* * *
1533510 CTTAAATCAT-ATC
1 CTTAAACCCTAAAC
* *
1533523 ACATAAACTCTAAAC
1 -CTTAAACCCTAAAC
* * *
1533538 CTTAAATCAT-ATC
1 CTTAAACCCTAAAC
* *
1533551 ACATAAACTCTAAAC
1 -CTTAAACCCTAAAC
* *
1533566 CTTAAATCTTAAAC
1 CTTAAACCCTAAAC
*
1533580 CTTAAACTCTAAAC
1 CTTAAACCCTAAAC
*
1533594 CTTAAACCTTAAAC
1 CTTAAACCCTAAAC
1533608 TCTAATTTCT
Statistics
Matches: 79, Mismatches: 29, Indels: 8
0.68 0.25 0.07
Matches are distributed among these distances:
13 4 0.05
14 71 0.90
15 4 0.05
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (14 bp):
CTTAAACCCTAAAC
Found at i:1533564 original size:7 final size:7
Alignment explanation
Indices: 1533561--1533607 Score: 69
Period size: 7 Copynumber: 6.7 Consensus size: 7
1533551 ACATAAACTC
1533561 TAAACCT
1 TAAACCT
*
1533568 TAAATCT
1 TAAACCT
1533575 TAAACCT
1 TAAACCT
1533582 TAAA-CT
1 TAAACCT
1533588 CTAAACCT
1 -TAAACCT
1533596 TAAACCT
1 TAAACCT
1533603 TAAAC
1 TAAAC
1533608 TCTAATTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 2 0.06
7 32 0.89
8 2 0.06
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.30
Consensus pattern (7 bp):
TAAACCT
Found at i:1533607 original size:28 final size:29
Alignment explanation
Indices: 1533498--1533599 Score: 138
Period size: 28 Copynumber: 3.6 Consensus size: 29
1533488 CCCTAAACCT
* *
1533498 TAAACTATAAACCTTAAATCAT-ATCACA
1 TAAACTCTAAACCTTAAATCATAAACACA
*
1533526 TAAACTCTAAACCTTAAATCAT-ATCACA
1 TAAACTCTAAACCTTAAATCATAAACACA
* *
1533554 TAAACTCTAAACCTTAAATCTTAAAC-CT
1 TAAACTCTAAACCTTAAATCATAAACACA
1533582 TAAACTCTAAACCTTAAA
1 TAAACTCTAAACCTTAAA
1533600 CCTTAAACTC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 67 0.97
29 2 0.03
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (29 bp):
TAAACTCTAAACCTTAAATCATAAACACA
Found at i:1533609 original size:21 final size:21
Alignment explanation
Indices: 1533568--1533612 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
1533558 CTCTAAACCT
*
1533568 TAAATCTTAAACCTTAAACTC
1 TAAACCTTAAACCTTAAACTC
1533589 TAAACCTTAAACCTTAAACTC
1 TAAACCTTAAACCTTAAACTC
1533610 TAA
1 TAA
1533613 TTTCTAACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.31
Consensus pattern (21 bp):
TAAACCTTAAACCTTAAACTC
Found at i:1533874 original size:14 final size:14
Alignment explanation
Indices: 1533857--1533897 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
1533847 TTTATTCATC
1533857 AATAATGTATTTTT
1 AATAATGTATTTTT
1533871 AAT-A--TATTTTT
1 AATAATGTATTTTT
*
1533882 AATAATGTAATTTT
1 AATAATGTATTTTT
1533896 AA
1 AA
1533898 AAATTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 10 0.43
12 1 0.04
13 1 0.04
14 11 0.48
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (14 bp):
AATAATGTATTTTT
Found at i:1535503 original size:37 final size:38
Alignment explanation
Indices: 1535468--1535543 Score: 102
Period size: 38 Copynumber: 2.0 Consensus size: 38
1535458 TATTATAATT
*
1535468 AATTTATAT-ATATATTTTTAAAAAATTTAAAATAATAA
1 AATTTATATAAT-TATTTTTAAAAAATTAAAAATAATAA
* *
1535506 AATTTATATAATTTTTTTTATAAAATTAAAAA-AATAA
1 AATTTATATAATTATTTTTAAAAAATTAAAAATAATAA
1535543 A
1 A
1535544 TAGGTTTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 6 0.18
38 26 0.76
39 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (38 bp):
AATTTATATAATTATTTTTAAAAAATTAAAAATAATAA
Found at i:1537063 original size:15 final size:15
Alignment explanation
Indices: 1537034--1537081 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
1537024 ATTACCCAAT
*
1537034 ACATTTTTT-AAAAG
1 ACATTTTTTGAGAAG
*
1537048 ATATTTTTTGAGAAG
1 ACATTTTTTGAGAAG
*
1537063 ACATTTTCTGAGAAG
1 ACATTTTTTGAGAAG
1537078 ACAT
1 ACAT
1537082 ATGAATGAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 8 0.28
15 21 0.72
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.40
Consensus pattern (15 bp):
ACATTTTTTGAGAAG
Found at i:1540824 original size:3 final size:3
Alignment explanation
Indices: 1540816--1540841 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1540806 ATTTATTTTT
1540816 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
1540842 TGATAGTCTC
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:1543080 original size:2 final size:2
Alignment explanation
Indices: 1543073--1543097 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1543063 AAATTATTGC
1543073 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1543098 AACTGGGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1543434 original size:14 final size:14
Alignment explanation
Indices: 1543401--1543437 Score: 65
Period size: 15 Copynumber: 2.6 Consensus size: 14
1543391 ATATTTAATT
1543401 ATAAATTTTAAAAA
1 ATAAATTTTAAAAA
1543415 ATTAAATTTTAAAAA
1 A-TAAATTTTAAAAA
1543430 ATAAATTT
1 ATAAATTT
1543438 ATTTCATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAAATTTTAAAAA
Found at i:1544514 original size:15 final size:17
Alignment explanation
Indices: 1544478--1544515 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
1544468 CTCCCTTAAA
1544478 ATTTTAAATTAGTATAT
1 ATTTTAAATTAGTATAT
1544495 ATTTTAAA-TA-TATAT
1 ATTTTAAATTAGTATAT
*
1544510 TTTTTA
1 ATTTTA
1544516 TTTTCAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 10 0.50
16 2 0.10
17 8 0.40
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
ATTTTAAATTAGTATAT
Found at i:1545233 original size:37 final size:37
Alignment explanation
Indices: 1545157--1545233 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
1545147 TTTTTATATT
*
1545157 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
1545194 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
1545231 TTT
1 TTT
1545234 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:1546392 original size:18 final size:18
Alignment explanation
Indices: 1546371--1546406 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1546361 GGGTGGTGGA
*
1546371 GGTGGGGGAGGTGGAGGT
1 GGTGGGGGAGGAGGAGGT
*
1546389 GGTGGTGGAGGAGGAGGT
1 GGTGGGGGAGGAGGAGGT
1546407 AATTGTGGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.69, T:0.17
Consensus pattern (18 bp):
GGTGGGGGAGGAGGAGGT
Found at i:1547739 original size:25 final size:25
Alignment explanation
Indices: 1547711--1547765 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
1547701 GTATTACCCT
*
1547711 AAATTTTAGATACAATAAAA-AAATA
1 AAATTTTA-AAACAATAAAATAAATA
* * *
1547736 AAATATTAAAATAATAAAATTAATA
1 AAATTTTAAAACAATAAAATAAATA
1547761 AAATT
1 AAATT
1547766 AAAGATCAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (25 bp):
AAATTTTAAAACAATAAAATAAATA
Found at i:1547767 original size:9 final size:8
Alignment explanation
Indices: 1547724--1547764 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
1547714 TTTTAGATAC
*
1547724 AATAAAAA
1 AATAAAAT
1547732 AATAAAAT
1 AATAAAAT
*
1547740 ATTAAAAT
1 AATAAAAT
1547748 AATAAAATT
1 AATAAAA-T
1547757 AATAAAAT
1 AATAAAAT
1547765 TAAAGATCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 21 0.72
9 8 0.28
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
AATAAAAT
Found at i:1549484 original size:82 final size:82
Alignment explanation
Indices: 1549341--1549946 Score: 757
Period size: 82 Copynumber: 7.4 Consensus size: 82
1549331 GATGGAAATA
* * * * * **
1549341 TGCTCCACTATACATT-AAGGGAAATCATACTTGATCTGTGTCTCTTTTTCGGGTAAACAGATCA
1 TGCTCCACTATTCATTCAGGGGAGATCAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCA
1549405 ATTTTGGAAGACGTGTC
66 ATTTTGGAAGACGTGTC
* * * * *
1549422 TGCTCCACTATTAATTCAGGGAAGATCAAACTTAATCTGTGCCTCTTTTTCAGGTAGTCAGATCA
1 TGCTCCACTATTCATTCAGGGGAGATCAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCA
* * *
1549487 ATTTTGAAAGATGTGTA
66 ATTTTGGAAGACGTGTC
* * * * * *
1549504 TGCCCCGCTATTCATTCAGGGGAGATAAAACTTGATATGTGCCTCTTTTTTTGGGTAGTCAGATC
1 TGCTCCACTATTCATTCAGGGGAGATCAGACTTGATCTGTGCCTC-TTTTTCGGGTAGTCAGATC
1549569 AATTTTGGAAGACGTGTC
65 AATTTTGGAAGACGTGTC
* * * *
1549587 TGCTCCATTATTCATTCAGGGGAGATTAGACTTGAGCTGTGCCTCTTTTTCGGGTAGTCAAATCA
1 TGCTCCACTATTCATTCAGGGGAGATCAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCA
*
1549652 ATTTTGGAAGACGAGTC
66 ATTTTGGAAGACGTGTC
* * * *
1549669 TTCTCCACTATTCATTCAGGGGAGATCATG-CTTGATTTGTGCCTCTTTTTTGAGTAGTCAGATC
1 TGCTCCACTATTCATTCAGGGGAGATCA-GACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATC
*
1549733 AATTTTGGAAGATGTGTC
65 AATTTTGGAAGACGTGTC
* * * * * * *
1549751 TACTCCTCTATTCATTCAAGGGAGATTAGACTTGATTTGTACATCTTTTTCGGGTAGTCAGATCA
1 TGCTCCACTATTCATTCAGGGGAGATCAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCA
* *
1549816 ATTTTGAAAGACGGGTC
66 ATTTTGGAAGACGTGTC
* * * **
1549833 TGCTCCACTATTCATTCAGAGGAGATTAGACTTGATCTATGCCTCTTTTTCAAGTAGTCAGATCA
1 TGCTCCACTATTCATTCAGGGGAGATCAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCA
*
1549898 ATTTTGGAAGACGAGTC
66 ATTTTGGAAGACGTGTC
*
1549915 TGCTCCACTATTCATTCAGGGGAGATTAGACT
1 TGCTCCACTATTCATTCAGGGGAGATCAGACT
1549947 CGAGATTGAT
Statistics
Matches: 451, Mismatches: 70, Indels: 7
0.85 0.13 0.01
Matches are distributed among these distances:
81 15 0.03
82 365 0.81
83 71 0.16
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.35
Consensus pattern (82 bp):
TGCTCCACTATTCATTCAGGGGAGATCAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCA
ATTTTGGAAGACGTGTC
Found at i:1549911 original size:246 final size:246
Alignment explanation
Indices: 1549341--1549940 Score: 826
Period size: 247 Copynumber: 2.4 Consensus size: 246
1549331 GATGGAAATA
* * * * * * **
1549341 TGCTCCACTATACATTAAGGGAAATCATACTTGATCTGTGTCTCTTTTTCGGGTAAACAGATCAA
1 TGCTCCACTATTCATTCAGGGAGATTAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCAA
* * *
1549406 TTTTGGAAGACGTGTCTGCTCCACTATTAATTCAGGGAAGATCAAACTTAATCTGTGCCTCTTTT
66 TTTTGGAAGACGAGTCTGCTCCACTATTCATTCAGGGGAGATCAAACTTAATCTGTGCCTCTTTT
* *
1549471 TCAGGTAGTCAGATCAATTTTGAAAGATGTGTATGCCCCGCTATTCATTCAGGGGAGATAAAACT
131 TCAGGTAGTCAGATCAATTTTGAAAGATGTGTATACCCCGCTATTCATTCAAGGGAGATAAAACT
* * * * *
1549536 TGATATGTGCCTCTTTTTTTGGGTAGTCAGATCAATTTTGGAAGACGTGTC
196 TGATATGTACATCTTTTTTCGGGTAGTCAGATCAATTTTGAAAGACGGGTC
* * *
1549587 TGCTCCATTATTCATTCAGGGGAGATTAGACTTGAGCTGTGCCTCTTTTTCGGGTAGTCAAATCA
1 TGCTCCACTATTCATTCA-GGGAGATTAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCA
* ** * *
1549652 ATTTTGGAAGACGAGTCTTCTCCACTATTCATTCAGGGGAGATCATGCTTGATTTGTGCCTCTTT
65 ATTTTGGAAGACGAGTCTGCTCCACTATTCATTCAGGGGAGATCAAACTTAATCTGTGCCTCTTT
* * * * * * *
1549717 TT-TGAGTAGTCAGATCAATTTTGGAAGATGTGTCTACTCCTCTATTCATTCAAGGGAGATTAGA
130 TTCAG-GTAGTCAGATCAATTTTGAAAGATGTGTATACCCCGCTATTCATTCAAGGGAGATAAAA
*
1549781 CTTGATTTGTACATC-TTTTTCGGGTAGTCAGATCAATTTTGAAAGACGGGTC
194 CTTGATATGTACATCTTTTTTCGGGTAGTCAGATCAATTTTGAAAGACGGGTC
* **
1549833 TGCTCCACTATTCATTCAGAGGAGATTAGACTTGATCTATGCCTCTTTTTCAAGTAGTCAGATCA
1 TGCTCCACTATTCATTCAG-GGAGATTAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCA
1549898 ATTTTGGAAGACGAGTCTGCTCCACTATTCATTCAGGGGAGAT
65 ATTTTGGAAGACGAGTCTGCTCCACTATTCATTCAGGGGAGAT
1549941 TAGACTCGAG
Statistics
Matches: 310, Mismatches: 41, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
245 1 0.00
246 149 0.48
247 160 0.52
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.35
Consensus pattern (246 bp):
TGCTCCACTATTCATTCAGGGAGATTAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCAA
TTTTGGAAGACGAGTCTGCTCCACTATTCATTCAGGGGAGATCAAACTTAATCTGTGCCTCTTTT
TCAGGTAGTCAGATCAATTTTGAAAGATGTGTATACCCCGCTATTCATTCAAGGGAGATAAAACT
TGATATGTACATCTTTTTTCGGGTAGTCAGATCAATTTTGAAAGACGGGTC
Found at i:1550036 original size:90 final size:90
Alignment explanation
Indices: 1549913--1550744 Score: 906
Period size: 90 Copynumber: 9.4 Consensus size: 90
1549903 GGAAGACGAG
* * * * * *
1549913 TCTGCTCCACTATTCATTCAGGGGAGATTAGACTCGAGATTGATTTGCTCCACTACTCTTTTATG
1 TCTGTTCCACTACTCTTTC-GGGGAGATCAGACTCGAGATTGATTTGCTTCACTACTCTTTCATG
*
1549978 AAGGCCAATATCTGAAATAAGAAGAA
65 AAGGCCAACATCTGAAATAAGAAGAA
* * * * * * **
1550004 TCTATTCCACTACTCTCTCGGGGAGATCAGACTCGAGATTAATTTTCTTTAATACTCTTTTGTGA
1 TCTGTTCCACTACTCTTTCGGGGAGATCAGACTCGAGATTGATTTGCTTCACTACTCTTTCATGA
*
1550069 AGGCCAACATCTGAAATGAGAAGAA
66 AGGCCAACATCTGAAATAAGAAGAA
* *
1550094 TCTGTTCCACTACTCTTTCAGGGAGATCAGACTCGAGATTTATTTGCTTCACTACTCTTTCATGA
1 TCTGTTCCACTACTCTTTCGGGGAGATCAGACTCGAGATTGATTTGCTTCACTACTCTTTCATGA
* *
1550159 AGGCC-ATATATGAAATAAGAAGAA
66 AGGCCAACATCTGAAATAAGAAGAA
* * * * * *
1550183 TCTGCTCCTCTACTCTTCCGGGGAGATCGGACTCAAGATTGATTTGCTTCACTAATCTTTCATGA
1 TCTGTTCCACTACTCTTTCGGGGAGATCAGACTCGAGATTGATTTGCTTCACTACTCTTTCATGA
* * *
1550248 AGGACAACATCTGAAATGAGAAAAA
66 AGGCCAACATCTGAAATAAGAAGAA
* * *
1550273 TCTATTCCACTACTCTTTCGGGGAGATCAGACTTGAGATTGATTTGCTTCACTACTCTTTCGTGA
1 TCTGTTCCACTACTCTTTCGGGGAGATCAGACTCGAGATTGATTTGCTTCACTACTCTTTCATGA
* * *
1550338 AGGCCTACATATGATATAAGAAGAA
66 AGGCCAACATCTGAAATAAGAAGAA
* * * * *
1550363 TCTGCTCCTCTACTTTTTCGGGGAGATCAGACTCAAGAATGATTTGCTTCACTACTCTTTCATGA
1 TCTGTTCCACTACTCTTTCGGGGAGATCAGACTCGAGATTGATTTGCTTCACTACTCTTTCATGA
*
1550428 AGGCCAACATCTGAAATGAGAAGAA
66 AGGCCAACATCTGAAATAAGAAGAA
*
1550453 TCTGTTCCACTACTCTTTCGGGGAGATCAGACTCGCGATTGATTTGCTTCACTACTCTTTCATGA
1 TCTGTTCCACTACTCTTTCGGGGAGATCAGACTCGAGATTGATTTGCTTCACTACTCTTTCATGA
*
1550518 AAGCCAA-ATCTGAAATAAGAAGAA
66 AGGCCAACATCTGAAATAAGAAGAA
* * * * * *
1550542 TCTGCTCCTCTACT-TTTCCAGGGAGATCAGACTCGAGATTGATTTGATTCGCTGCT-TCTTCA-
1 TCTGTTCCACTACTCTTT-CGGGGAGATCAGACTCGAGATTGATTTGCTTCACTACTCT-TTCAT
* * *
1550604 GAAAGACTAA-ATCTGAAATAAAAAG-A
64 G-AAGGCCAACATCTGAAATAAGAAGAA
* * * * * *
1550630 -C---T---CTACTC-TTCTGAGGAGATCATACTCGAGATTGATTTGATTCGCTGCT-TCTTCAG
1 TCTGTTCCACTACTCTTTC-GGGGAGATCAGACTCGAGATTGATTTGCTTCACTACTCT-TTCAT
* *
1550686 GAAGACCAA-ATATGAAATAAGAAGAA
64 GAAGGCCAACATCTGAAATAAGAAGAA
* * * * *
1550712 TATGCTCCTCTACTCTTCCGGGGATATCAGACT
1 TCTGTTCCACTACTCTTTCGGGGAGATCAGACT
1550745 TTCTTTATGA
Statistics
Matches: 629, Mismatches: 96, Indels: 34
0.83 0.13 0.04
Matches are distributed among these distances:
80 1 0.00
81 67 0.11
82 2 0.00
84 1 0.00
86 1 0.00
87 1 0.00
88 6 0.01
89 178 0.28
90 358 0.57
91 14 0.02
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (90 bp):
TCTGTTCCACTACTCTTTCGGGGAGATCAGACTCGAGATTGATTTGCTTCACTACTCTTTCATGA
AGGCCAACATCTGAAATAAGAAGAA
Found at i:1550412 original size:269 final size:269
Alignment explanation
Indices: 1549913--1550587 Score: 931
Period size: 269 Copynumber: 2.5 Consensus size: 269
1549903 GGAAGACGAG
* * * * *
1549913 TCTGCTCCACTATTCATTCAGGGGAGATTAGACTCGAGATTGATTTGCTCCACTACTCTTTTATG
1 TCTGCTCCACTACTC-TTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCACTACTCTTTCATG
*
1549978 AAGGCCAATATCTGAAATAAGAAGAATCTATTCCACTACTCTCTCGGGGAGATCAGACTCGAGAT
65 AAGGCCAA-ATCTGAAATAAGAAGAATCTATTCCACTACTCTTTCGGGGAGATCAGACTCGAGAT
* * * * * * *
1550043 TAATTTTCTTTAATACTCTTTTGTGAAGGCCAACATCTGAAATGAGAAGAATCTGTTCCACTACT
129 TGATTTGCTTCAATACTCTTTCGTGAAGGCCAACATATGAAATAAGAAGAATCTGCTCCACTACT
* * * *
1550108 CTTTCAGGGAGATCAGACTCGAGATTTATTTGCTTCACTACTCTTTCATGAAGGCC-ATATATGA
194 CTTTCAGGGAGATCAGACTCAAGAATGATTTGCTTCACTACTCTTTCATGAAGGCCAACATATGA
1550172 AATAAGAAGAA
259 AATAAGAAGAA
* * * *
1550183 TCTGCTCCTCTACTCTTCCGGGGAGATCGGACTCAAGATTGATTTGCTTCACTAATCTTTCATGA
1 TCTGCTCCACTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCACTACTCTTTCATGA
* * * *
1550248 AGGACAACATCTGAAATGAGAAAAATCTATTCCACTACTCTTTCGGGGAGATCAGACTTGAGATT
66 AGGCCAA-ATCTGAAATAAGAAGAATCTATTCCACTACTCTTTCGGGGAGATCAGACTCGAGATT
* * * * *
1550313 GATTTGCTTCACTACTCTTTCGTGAAGGCCTACATATGATATAAGAAGAATCTGCTCCTCTACTT
130 GATTTGCTTCAATACTCTTTCGTGAAGGCCAACATATGAAATAAGAAGAATCTGCTCCACTACTC
* *
1550378 TTTCGGGGAGATCAGACTCAAGAATGATTTGCTTCACTACTCTTTCATGAAGGCCAACATCTGAA
195 TTTCAGGGAGATCAGACTCAAGAATGATTTGCTTCACTACTCTTTCATGAAGGCCAACATATGAA
*
1550443 ATGAGAAGAA
260 ATAAGAAGAA
* * *
1550453 TCTGTTCCACTACTCTTTCGGGGAGATCAGACTCGCGATTGATTTGCTTCACTACTCTTTCATGA
1 TCTGCTCCACTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCACTACTCTTTCATGA
* ** * *
1550518 AAGCCAAATCTGAAATAAGAAGAATCTGCTCCTCTACT-TTTCCAGGGAGATCAGACTCGAGATT
66 AGGCCAAATCTGAAATAAGAAGAATCTATTCCACTACTCTTT-CGGGGAGATCAGACTCGAGATT
1550582 GATTTG
130 GATTTG
1550588 ATTCGCTGCT
Statistics
Matches: 353, Mismatches: 50, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
268 3 0.01
269 258 0.73
270 92 0.26
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (269 bp):
TCTGCTCCACTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCACTACTCTTTCATGA
AGGCCAAATCTGAAATAAGAAGAATCTATTCCACTACTCTTTCGGGGAGATCAGACTCGAGATTG
ATTTGCTTCAATACTCTTTCGTGAAGGCCAACATATGAAATAAGAAGAATCTGCTCCACTACTCT
TTCAGGGAGATCAGACTCAAGAATGATTTGCTTCACTACTCTTTCATGAAGGCCAACATATGAAA
TAAGAAGAA
Found at i:1550902 original size:62 final size:62
Alignment explanation
Indices: 1550824--1551363 Score: 665
Period size: 62 Copynumber: 8.6 Consensus size: 62
1550814 ATGAATATCA
* * * *
1550824 AATAAGAAAAGTTGACTTCTCTTCACGAGGAAATCAAGGATTGACTCTACTGGGGAGTCATG
1 AATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTGGGGAGTCAGG
* *
1550886 AATAATAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTGTGGAGTCAGG
1 AATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTGGGGAGTCAGG
* * * * *
1550948 AATAATAAAGTTTGACTTCTCTTTATGAGAAAGTCAAGGATTGACTCTACT-GGGAGTCAGG
1 AATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTGGGGAGTCAGG
* * **
1551009 AATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAAGATTGACTCTATTAAGGAGTCAGG
1 AATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTGGGGAGTCAGG
* * * * * * *
1551071 AATAACAAAGGTTGTCTTCTCTTCATGAGAAAGTCAAGGATTAACTCATCTTCATGAAGAAGTCA
1 AATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGA--C-TCTAC-TG-GGGAGTC-
1551136 AGG
60 AGG
* ** * * * *
1551139 -ATAACAAAGATTGACTTCTCTTCATTAGAAAGTCAAGGATTGACTATACTGAGGAGTCAAG
1 AATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTGGGGAGTCAGG
* * *
1551200 AATAACAAAGTTTGAGTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA-AGAGGGAGTCAGG
1 AATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTG-GGGAGTCAGG
* *
1551262 AATAACAAAGGTTGACTTCTCTTCACAAGGAAGTCAAGGATTGACTCTATTGGGGAGTCAGG
1 AATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTGGGGAGTCAGG
*
1551324 AATAATC-AAGGTTGACTTCTCTTCATGAGGAAGTCAAGGA
1 AATAA-CAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGA
1551364 ATAGAAAACA
Statistics
Matches: 417, Mismatches: 50, Indels: 22
0.85 0.10 0.04
Matches are distributed among these distances:
61 56 0.13
62 300 0.72
63 4 0.01
64 4 0.01
65 4 0.01
66 1 0.00
67 45 0.11
68 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.27
Consensus pattern (62 bp):
AATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTGGGGAGTCAGG
Found at i:1551345 original size:253 final size:252
Alignment explanation
Indices: 1550887--1551363 Score: 740
Period size: 253 Copynumber: 1.9 Consensus size: 252
1550877 GGAGTCATGA
* * * * * *
1550887 ATAATAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTGTGGAGTCAGGAATA
1 ATAACAAAGATTGACTTCTCTTCACGAGAAAGTCAAGGATTGACTATACTGAGGAGTCAAGAATA
* * * *
1550952 ATAAAGTTTGACTTCTCTTTATGAGAAAGTCAAGGATTGACTCTACTGGGAGTCAGGAATAACAA
66 ACAAAGTTTGACTTCTCTTCACGAGAAAGTCAAGGATTGACTCTACAGGGAGTCAGGAATAACAA
*
1551017 AGGTTGACTTCTCTTCACGAGGAAGTCAAAGATTGACTCTATTAAGGAGTCAGGAATAACAAAGG
131 AGGTTGACTTCTCTTCACAAGGAAGTCAAAGATTGACTCTATTAAGGAGTCAGGAATAACAAAGG
*
1551082 TTGTCTTCTCTTCATGAGAAAGTCAAGGATTAACTCATCTTCATGAAGAAGTCAAGG
196 TTGACTTCTCTTCATGAGAAAGTCAAGGATTAACTCATCTTCATGAAGAAGTCAAGG
**
1551139 ATAACAAAGATTGACTTCTCTTCATTAGAAAGTCAAGGATTGACTATACTGAGGAGTCAAGAATA
1 ATAACAAAGATTGACTTCTCTTCACGAGAAAGTCAAGGATTGACTATACTGAGGAGTCAAGAATA
* * *
1551204 ACAAAGTTTGAGTTCTCTTCACGAGGAAGTCAAGGATTGACTCTAAGAGGGAGTCAGGAATAACA
66 ACAAAGTTTGACTTCTCTTCACGAGAAAGTCAAGGATTGACTCT-ACAGGGAGTCAGGAATAACA
* **
1551269 AAGGTTGACTTCTCTTCACAAGGAAGTCAAGGATTGACTCTATTGGGGAGTCAGGAATAATC-AA
130 AAGGTTGACTTCTCTTCACAAGGAAGTCAAAGATTGACTCTATTAAGGAGTCAGGAATAA-CAAA
*
1551333 GGTTGACTTCTCTTCATGAGGAAGTCAAGGA
194 GGTTGACTTCTCTTCATGAGAAAGTCAAGGA
1551364 ATAGAAAACA
Statistics
Matches: 202, Mismatches: 21, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
252 96 0.48
253 105 0.52
254 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.27
Consensus pattern (252 bp):
ATAACAAAGATTGACTTCTCTTCACGAGAAAGTCAAGGATTGACTATACTGAGGAGTCAAGAATA
ACAAAGTTTGACTTCTCTTCACGAGAAAGTCAAGGATTGACTCTACAGGGAGTCAGGAATAACAA
AGGTTGACTTCTCTTCACAAGGAAGTCAAAGATTGACTCTATTAAGGAGTCAGGAATAACAAAGG
TTGACTTCTCTTCATGAGAAAGTCAAGGATTAACTCATCTTCATGAAGAAGTCAAGG
Found at i:1572219 original size:135 final size:132
Alignment explanation
Indices: 1571914--1572355 Score: 521
Period size: 133 Copynumber: 3.3 Consensus size: 132
1571904 AGATCACGAA
* * * *
1571914 ACGTTGATTTATT-CACTGTTCTCCAGGGAGGA-TGAATCGAGGTAGATTTGTTCCACTGCTACT
1 ACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGCTACT
* * * * *
1571977 CAGGGAAGATCAAATCTGGAAAG-AGCGGATCAGTTCCGCTGATTCTTTAGGGCAAATCAGATAT
66 CAGGGAAGATCAAATCTGGAAAGAAG-GGATCTGTTCCACT-TTTCTTCAGGGAAAATCAGATAT
1572041 GGAG
129 GGAG
*
1572045 ACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTACTACT
1 ACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGCTACT
* * ** * *
1572110 CAGGGAAGATCAAATTTGGAAACAGAAGGGATTTGTTCCACTTCTTCTTCAATGAAAATAAGATC
66 CAGGGAAGATCAAATCTGG-AA-AGAAGGGATCTGTTCCACTT-TTCTTCAGGGAAAATCAGATA
*
1572175 TGAAG
128 TGGAG
** * * * *
1572180 ACGTTGATTCATTCCACTGTTCTTTGGGGAAGATTGAATCGATGCATACTTGTTCCACTGTTACT
1 ACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGCTACT
* * * * * * *
1572245 TAGGGAAGATCAAATCTGGAAAGAGGGGATCTATTCTACTATTTTTTCAGGGGAAATCAGATTTG
66 CAGGGAAGATCAAATCTGGAAAGAAGGGATCTGTTCCACT-TTTCTTCAGGGAAAATCAGATATG
1572310 GAG
130 GAG
* *
1572313 ATGTTGATTCATTCCACTGTTCTTCACGGAAGATTGAATCGAG
1 ACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAG
1572356 TTCGATTTGC
Statistics
Matches: 262, Mismatches: 42, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
131 12 0.05
132 17 0.06
133 119 0.45
134 5 0.02
135 107 0.41
136 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (132 bp):
ACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGCTACT
CAGGGAAGATCAAATCTGGAAAGAAGGGATCTGTTCCACTTTTCTTCAGGGAAAATCAGATATGG
AG
Found at i:1602029 original size:20 final size:19
Alignment explanation
Indices: 1601987--1602030 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
1601977 AAAATGACCC
* *
1601987 AATTTCACATTCTAAAATC
1 AATTTCACACTCTAAAATA
*
1602006 AATTTCAACACTCTAACATA
1 AATTTC-ACACTCTAAAATA
1602026 AATTT
1 AATTT
1602031 TAAGCATAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.36
Consensus pattern (19 bp):
AATTTCACACTCTAAAATA
Found at i:1612250 original size:3 final size:3
Alignment explanation
Indices: 1612242--1612328 Score: 59
Period size: 3 Copynumber: 27.0 Consensus size: 3
1612232 TATTTTATTT
* * *
1612242 ATA ATA ATA ATA ATTC ATA ATA ACA TTA ATTA ATTA ATA ATA ATA ATTA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA A-TA A-TA ATA ATA ATA A-TA
* *
1612291 ATA ATG ATA CA-A ATTA ATA ATG ATA ATA ATTA ATA ATA
1 ATA ATA ATA -ATA A-TA ATA ATA ATA ATA A-TA ATA ATA
1612329 TTACTTGACA
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
2 1 0.01
3 48 0.72
4 18 0.27
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:1612263 original size:16 final size:16
Alignment explanation
Indices: 1612242--1612328 Score: 104
Period size: 16 Copynumber: 5.4 Consensus size: 16
1612232 TATTTTATTT
*
1612242 ATAATAATAATAATTC
1 ATAATAATAATAATTA
* *
1612258 ATAATAACATTAATTA
1 ATAATAATAATAATTA
1612274 ATTAATAATAATAATTA
1 A-TAATAATAATAATTA
*
1612291 ATAATGATACA-AATTA
1 ATAATAATA-ATAATTA
*
1612307 ATAATGATAATAATTA
1 ATAATAATAATAATTA
1612323 ATAATA
1 ATAATA
1612329 TTACTTGACA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
15 1 0.02
16 45 0.74
17 15 0.25
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.37
Consensus pattern (16 bp):
ATAATAATAATAATTA
Found at i:1612288 original size:13 final size:12
Alignment explanation
Indices: 1612242--1612328 Score: 59
Period size: 13 Copynumber: 6.8 Consensus size: 12
1612232 TATTTTATTT
1612242 ATAATAATAATA
1 ATAATAATAATA
* *
1612254 ATTCATAATAACA
1 A-TAATAATAATA
*
1612267 TTAATTAATTAATA
1 ATAA-TAA-TAATA
1612281 ATAATAATTAATA
1 ATAATAA-TAATA
*
1612294 ATGATACA-AATTA
1 ATAATA-ATAA-TA
*
1612307 ATAATGATAATA
1 ATAATAATAATA
1612319 ATTAATAATA
1 A-TAATAATA
1612329 TTACTTGACA
Statistics
Matches: 58, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
12 9 0.16
13 41 0.71
14 8 0.14
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.37
Consensus pattern (12 bp):
ATAATAATAATA
Found at i:1616752 original size:2 final size:2
Alignment explanation
Indices: 1616745--1616778 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1616735 TACTTAATGC
1616745 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1616779 TAATAATTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1617764 original size:54 final size:54
Alignment explanation
Indices: 1617045--1617762 Score: 950
Period size: 54 Copynumber: 13.3 Consensus size: 54
1617035 AGAGTATAAG
* * * * *
1617045 ACTCAAACAATCTTCTATTAACGGGTTCGCTCCCTCTTTCTTCAGAGAGTATAGG-
1 ACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTCTTTAGGGAG--TAGGA
* * *
1617100 ACTC-AGA-TATCTTCT-TCAAACGTGTTCGCTCCCTCTTTCTCTAGGGAGTAGGA
1 ACTCGA-ACAATCTTCTGTC-AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGA
** *
1617153 ACTCGAATGATCTTCTGTCAACGGGTTCGCTCCCTCTTTATTTAGGGAGTAGGA
1 ACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGA
* * * *
1617207 ACTTGAACAATCTTCTGTCTATGGGTTCGCTCCCTCTTTCTTTAGGGAGTATGA
1 ACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGA
* * * * *
1617261 ACTCGAATAATCTTCTGTCTATGGATTCGCTCCCTCTTTTTTTAGGGAGTAGGA
1 ACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGA
* *
1617315 ACTCGAACGATCTTCTGTCAACGGGTTTGCTCCCTCTTTCTTTAGGGAGTAGGA
1 ACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGA
*
1617369 ACTCGAACAATCTTCTGTCTACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGA
1 ACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGA
* *
1617423 ACTTGAACAATCTTCTGTCTACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGA
1 ACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGA
* *
1617477 ACTCGAACAATCTTCTGTCTACGGGTTCACTCCCTCTTTCTTTAGGGAGTAGGA
1 ACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGA
* * *
1617531 ACTCGAACAATCTTCTATCAACGGGTTTGCTCCCTCTTTTTTTAGGGAGTAGGA
1 ACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGA
* * *
1617585 ACTCGAACAATCTTCTGTCTACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGA
1 ACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTA-GGA
*
1617640 ACTCGAAC-ATCTTCT-TCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGA
1 ACTCGAACAATCTTCTGTC-AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTA-GGA
* * *
1617694 ACTCGAAC-ATCTTCT-TCAACCGGGTTCACTCCCTCTTTCTTCAGGGAGTATAGA
1 ACTCGAACAATCTTCTGTCAA-CGGGTTCGCTCCCTCTTTCTTTAGGGAGTA-GGA
*
1617748 ACTCTAAC-ATCTTCT
1 ACTCGAACAATCTTCT
1617763 TCTGCTTCAC
Statistics
Matches: 603, Mismatches: 51, Indels: 19
0.90 0.08 0.03
Matches are distributed among these distances:
52 4 0.01
53 10 0.02
54 572 0.95
55 17 0.03
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (54 bp):
ACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGA
Found at i:1619062 original size:9 final size:9
Alignment explanation
Indices: 1619048--1619110 Score: 51
Period size: 9 Copynumber: 7.1 Consensus size: 9
1619038 TGAACCCTCC
1619048 TTTTTTTCTT
1 TTTTTTTC-T
1619058 TTTTTATTCT
1 TTTTT-TTCT
*
1619068 CTTTTTTC-
1 TTTTTTTCT
*
1619076 -CTTTTT-T
1 TTTTTTTCT
*
1619083 TTTTGTTCT
1 TTTTTTTCT
1619092 TTTTTTTCT
1 TTTTTTTCT
*
1619101 TTTTTATCT
1 TTTTTTTCT
1619110 T
1 T
1619111 CAAGCAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
7 5 0.12
8 4 0.09
9 21 0.49
10 10 0.23
11 3 0.07
ACGTcount: A:0.03, C:0.13, G:0.02, T:0.83
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:1619091 original size:24 final size:23
Alignment explanation
Indices: 1619056--1619105 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
1619046 CCTTTTTTTC
1619056 TTTTTTTATTCTCTTTTTTCCTTT
1 TTTTTTTATTCT-TTTTTTCCTTT
* *
1619080 TTTTTTTGTTCTTTTTTTTCTTT
1 TTTTTTTATTCTTTTTTTCCTTT
1619103 TTT
1 TTT
1619106 ATCTTCAAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.84
Consensus pattern (23 bp):
TTTTTTTATTCTTTTTTTCCTTT
Found at i:1632127 original size:3 final size:3
Alignment explanation
Indices: 1632105--1632146 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
1632095 ATATATATAT
*
1632105 TAA TAA TTAA TTA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1632147 ACTCGAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1660456 original size:48 final size:48
Alignment explanation
Indices: 1660390--1660489 Score: 137
Period size: 48 Copynumber: 2.1 Consensus size: 48
1660380 TTTCGACATA
* * *
1660390 ATTTGTGTACGATGGTTATCGATCGATTTTGAATAATGCATAAGTTGT
1 ATTTATGTACGATGGTTATCGATAGATTTTGAATAATGCATAAGTTGC
* ** *
1660438 ATTTATGTATGATGGTTATCGATAGATTTTGTTTAATGCATATGTTGC
1 ATTTATGTACGATGGTTATCGATAGATTTTGAATAATGCATAAGTTGC
1660486 ATTT
1 ATTT
1660490 TCGTATCATT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.46
Consensus pattern (48 bp):
ATTTATGTACGATGGTTATCGATAGATTTTGAATAATGCATAAGTTGC
Found at i:1665400 original size:28 final size:28
Alignment explanation
Indices: 1665360--1665422 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
1665350 AAGAAATTGA
1665360 TGTTTAACTCATTCTAGGCATAACACAT
1 TGTTTAACTCATTCTAGGCATAACACAT
1665388 TGTTTAACTCATTCTAGGCATAACACAT
1 TGTTTAACTCATTCTAGGCATAACACAT
*
1665416 TATTTAA
1 TGTTTAA
1665423 ACATCAATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (28 bp):
TGTTTAACTCATTCTAGGCATAACACAT
Found at i:1673524 original size:625 final size:623
Alignment explanation
Indices: 1672289--1673536 Score: 2271
Period size: 625 Copynumber: 2.0 Consensus size: 623
1672279 AAGATATTAG
* * * *
1672289 GGTATAACACAACGATTTACCTATGTTCAGCAAATAAAATGATATTGATATACAAAGAAAATTGA
1 GGTATAACACAACGATTTACCTATGTTCAACAAAAAAAAGGATATCGATATACAAAGAAAATTGA
* *
1672354 CTCTAGTGAGTAAGGTTAGCCAGAGAAAGATTTAGCGATGGTTGTGAATCACGGGGTAGCATCAT
66 CTCTAGTGAGTAAGGTTAGCCAGAGAAAGATTTAGCGATGGCTGTGAATCACGAGGTAGCATCAT
1672419 CCTTGGGAAACACTCCGAGCGTACAATATCAGATAGCCAGAGTATGATTACTTTGGCTTCATTCT
131 CCTTGGGAAACACTCCGAGCGTACAATATCAGATAGCCAGAGTATGATTACTTTGGCTTCATTCT
1672484 TTTCAAAGGTTTTGATCAAGGTTGACGCAGGTAGCACCCTCAGGAGAATCGTAGATCAATTTTGT
196 TTTCAAAGGTTTTGATCAAGGTTGACGCAGGTAGCACCCTCAGGAGAATCGTAGATCAATTTTGT
1672549 GAGTTCCAAACATCATGTCAGGTTGTGAGGTCTTCTTCTTCAACTATCATATCGGATAAGAGCCT
261 GAGTTCCAAACATCATGTCAGGTTGTGAGGTCTTCTTCTTCAACTATCATATCGGATAAGAGCCT
1672614 CATTTTTTGAACAAAGAGTAAGTTGTTTTCAGTCCAAGTAAATTTAGATGACAAAATTTATTTTA
326 CATTTTTTGAACAAAGAGTAAGTTGTTTTCAGTCCAAGTAAATTTAGATGACAAAATTTATTTTA
*
1672679 AGGATGAGAGAGTTGTAACACCCTAAATTCTGGACTAGTAGTTTTGGGTTTACCCGAGGCGTAAG
391 AGGATGAGAGAGTTGTAACACCCTAAATTCTGGACTAATAGTTTTGGGTTTACCCGAGGCGTAAG
*
1672744 TAGACCCCATAAATCTCATATTTTAAGTCGTTAGACTTAACTGGGTTGGAAATTAGCCCAATTAG
456 TAGACCCCATAAATCTCATATTTTAAGTCGTTAGACTTAACTGAGTTGGAAATTAGCCCAATTAG
*
1672809 TTATCAAAATGAGATTTTTGAATTTCAGAAAGATGAGGAATGACCTATAGTATGATTTTCCCATT
521 TTATCAAAATGAGATTTTTGAATTTCAGAAAGATGAGGAATAACCTATAGTATGATTTTCCCATT
* *
1672874 TTAGAAAGATGGAGACTTTATATCTCTTTCATCTCCAT
586 TTAGAAAAATGGAGACTTTATATCTCTTTCAACTCCAT
1672912 GGTATAACACAACGATTTACCTATGTTCAACAAGTAAAAAAGGATATCGATATACAAAGAAAATT
1 GGTATAACACAACGATTTACCTATGTTCAACAA--AAAAAAGGATATCGATATACAAAGAAAATT
*
1672977 TACTCTAGTGAGTAAGGTTAGCCAGAGAAAGATTTAGCGATGGCTGTGAATCACGAGGTAGCATC
64 GACTCTAGTGAGTAAGGTTAGCCAGAGAAAGATTTAGCGATGGCTGTGAATCACGAGGTAGCATC
* * *
1673042 ATCCTTGGGAAACACTCCGAGCGTACAATATCATATAGTCAGAGTGTGATTACTTTGGCTTCATT
129 ATCCTTGGGAAACACTCCGAGCGTACAATATCAGATAGCCAGAGTATGATTACTTTGGCTTCATT
*
1673107 CTTTTCAAAGGTTTTGATCAAGGTTGACGCAGTTAGCACCCTCAGGAGAATCGTAGATCAATTTT
194 CTTTTCAAAGGTTTTGATCAAGGTTGACGCAGGTAGCACCCTCAGGAGAATCGTAGATCAATTTT
1673172 GTGAGTTCCAAACATCATGTCAGGTTGTGAGGTCTTCTTCTTCAACTATCATATCGGATAAGAGC
259 GTGAGTTCCAAACATCATGTCAGGTTGTGAGGTCTTCTTCTTCAACTATCATATCGGATAAGAGC
*
1673237 CTCATTTTTTGAACAAAGAGTAAGTTGTTTTCAGTCCAAGTAAATTTAGATGACAAAATTTCTTT
324 CTCATTTTTTGAACAAAGAGTAAGTTGTTTTCAGTCCAAGTAAATTTAGATGACAAAATTTATTT
* *
1673302 TAAGGATGAGAGAGTTGTAACACCCTAAATTCTGGACTAATAGTTTTGGGTTTACCTGAGGGGTA
389 TAAGGATGAGAGAGTTGTAACACCCTAAATTCTGGACTAATAGTTTTGGGTTTACCCGAGGCGTA
* *
1673367 AGTAGACCCCATAAATCTCATATTTTAAGTCGTTGGACTTAACTGAGTTGGAAGTTAGCCCAATT
454 AGTAGACCCCATAAATCTCATATTTTAAGTCGTTAGACTTAACTGAGTTGGAAATTAGCCCAATT
* *
1673432 AGTTATCAAAATGAGATTTTTGAATTTCAGAAATATGAGGAATAACCTATAGTGTGATTTTCCCA
519 AGTTATCAAAATGAGATTTTTGAATTTCAGAAAGATGAGGAATAACCTATAGTATGATTTTCCCA
1673497 TTTTAGAAAAATGGAGACTTTATATCTCTTTCAACTCCAT
584 TTTTAGAAAAATGGAGACTTTATATCTCTTTCAACTCCAT
1673537 CTTTTCTTCA
Statistics
Matches: 600, Mismatches: 23, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
623 32 0.05
625 568 0.95
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (623 bp):
GGTATAACACAACGATTTACCTATGTTCAACAAAAAAAAGGATATCGATATACAAAGAAAATTGA
CTCTAGTGAGTAAGGTTAGCCAGAGAAAGATTTAGCGATGGCTGTGAATCACGAGGTAGCATCAT
CCTTGGGAAACACTCCGAGCGTACAATATCAGATAGCCAGAGTATGATTACTTTGGCTTCATTCT
TTTCAAAGGTTTTGATCAAGGTTGACGCAGGTAGCACCCTCAGGAGAATCGTAGATCAATTTTGT
GAGTTCCAAACATCATGTCAGGTTGTGAGGTCTTCTTCTTCAACTATCATATCGGATAAGAGCCT
CATTTTTTGAACAAAGAGTAAGTTGTTTTCAGTCCAAGTAAATTTAGATGACAAAATTTATTTTA
AGGATGAGAGAGTTGTAACACCCTAAATTCTGGACTAATAGTTTTGGGTTTACCCGAGGCGTAAG
TAGACCCCATAAATCTCATATTTTAAGTCGTTAGACTTAACTGAGTTGGAAATTAGCCCAATTAG
TTATCAAAATGAGATTTTTGAATTTCAGAAAGATGAGGAATAACCTATAGTATGATTTTCCCATT
TTAGAAAAATGGAGACTTTATATCTCTTTCAACTCCAT
Found at i:1675398 original size:32 final size:32
Alignment explanation
Indices: 1675357--1675457 Score: 132
Period size: 32 Copynumber: 3.2 Consensus size: 32
1675347 TCAGAAAAGA
* *
1675357 CATAGCAGAGTTAGTATTGCATTTAGATAATG
1 CATAGCAGAGTCAGTATTACATTTAGATAATG
*
1675389 CATAGCAGAGTCAGTATTAC-TTTCAGATAACG
1 CATAGCAGAGTCAGTATTACATTT-AGATAATG
* * *
1675421 CATAGCAGTGTCAGTATTACATTCAGTTAATG
1 CATAGCAGAGTCAGTATTACATTTAGATAATG
1675453 CATAG
1 CATAG
1675458 GAGTGCCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
31 3 0.05
32 55 0.92
33 2 0.03
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.32
Consensus pattern (32 bp):
CATAGCAGAGTCAGTATTACATTTAGATAATG
Found at i:1676727 original size:32 final size:33
Alignment explanation
Indices: 1676665--1676751 Score: 131
Period size: 32 Copynumber: 2.7 Consensus size: 33
1676655 ATGGAGAAAT
* *
1676665 CAACCAACCAATAGCTCATCGAAAAATCTTGAG
1 CAACCAACCAACAACTCATCGAAAAATCTTGAG
* *
1676698 CAATCAACCAACGACTCATC-AAAAATCTTGAG
1 CAACCAACCAACAACTCATCGAAAAATCTTGAG
1676730 CAACCAACCAACAACTCATCGA
1 CAACCAACCAACAACTCATCGA
1676752 TATTCATTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
32 30 0.64
33 17 0.36
ACGTcount: A:0.44, C:0.31, G:0.09, T:0.16
Consensus pattern (33 bp):
CAACCAACCAACAACTCATCGAAAAATCTTGAG
Found at i:1679412 original size:73 final size:73
Alignment explanation
Indices: 1679318--1679482 Score: 208
Period size: 73 Copynumber: 2.3 Consensus size: 73
1679308 CAACTTATTT
* * ** *
1679318 AATATTTAAAAGTATCAATCATCATC-ACATAAGTATCGATATTTTAAATTTCGATCTT-TTTAT
1 AATATTTAAAAGTATCGATCATCACCGA-ATAAGTATAAATATTTTAAATTTCGATCTTATCT-T
* *
1679381 TAATTTTTTC
64 CAAATTTTTC
* *
1679391 AATTTTTAAAAGTATCGATCATTACCGAATAAGTATAAATATTTTAAATTTCGATCTTATCTTCA
1 AATATTTAAAAGTATCGATCATCACCGAATAAGTATAAATATTTTAAATTTCGATCTTATCTTCA
1679456 AATTTTTC
66 AATTTTTC
*
1679464 AATATATAAAAGTATCGAT
1 AATATTTAAAAGTATCGAT
1679483 AATAATGTAC
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
73 76 0.96
74 3 0.04
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.44
Consensus pattern (73 bp):
AATATTTAAAAGTATCGATCATCACCGAATAAGTATAAATATTTTAAATTTCGATCTTATCTTCA
AATTTTTC
Found at i:1679685 original size:77 final size:77
Alignment explanation
Indices: 1679523--1679685 Score: 218
Period size: 77 Copynumber: 2.1 Consensus size: 77
1679513 TTATTTTTTA
** * * * *
1679523 GGGCACAACCTATTTTATTAATAAAAATATTAAGATAACATACCGCAACATATTTCTTAGTGAAC
1 GGGCACAATATATTTTATTAATAAAAATATTAAAATAACAGACCGCAACAGATGTCTTAGTGAAC
* *
1679588 TATGACATTCTT
66 CATGACATTATT
* ** *
1679600 GGGCACAATATATTTTATTAATAAAAATATTAAAATTACAGATTGCAACCGATGTCTTAGTGAAC
1 GGGCACAATATATTTTATTAATAAAAATATTAAAATAACAGACCGCAACAGATGTCTTAGTGAAC
1679665 CATGACATTATT
66 CATGACATTATT
1679677 GGGCACAAT
1 GGGCACAAT
1679686 TGTATTTCTT
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
77 74 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (77 bp):
GGGCACAATATATTTTATTAATAAAAATATTAAAATAACAGACCGCAACAGATGTCTTAGTGAAC
CATGACATTATT
Found at i:1680231 original size:263 final size:263
Alignment explanation
Indices: 1679518--1680309 Score: 903
Period size: 263 Copynumber: 3.0 Consensus size: 263
1679508 ATTTTTTATT
* * *
1679518 TTTTAGGGCACAACCTATTTTATTAATAAAAATATTAAGATAAC-ATACCGCAACATATTTCTTA
1 TTTTA-GGCACAACCTATTTTATTATTAAAAATATTAAGA-ATCTATATCGCAACATATTTCTTA
* * ** * *
1679582 GTGAACTATGACATTCTTGGGCACAATATATTTTATTAATAAAAATATTAAAATTACAGATTGCA
64 GTGAACCATGACATTCTTGGGCGCAACCTATTTTATTAAT-AAAATATTAACATTAAAGATTGCA
* * * * *
1679647 ACCGATGTCTTAGTGAACCATGACATTATTGGGCACAATTGTATTTCTTATATATATATATATAT
128 ACCGATTTCTTAGTGAACCATGACATTATTGGGC-GAA----A---C--ATGTATTTCT-TATAT
* * * *
1679712 ATATTCATAACATTTTCAGCTTTTCATTTATTTTCTTGTCATAGGAAAATCTAAGGCTCTATCAG
182 ATATTCATAACATTTTCAGCTTTTAACTTATTTTCTTATCATAGGAAAATCTAAGGCTCCATCAG
*
1679777 CTTAAACTCTGATAATA
247 CTTAAACTCTGATAACA
** * * ** *
1679794 TTTTATACACAGCCTATTTTATTATTAAAAATATTAATAAT-TCATATCGCAATTTGTTTTCTTA
1 TTTTAGGCACAACCTATTTTATTATTAAAAATATTAAGAATCT-ATATCGCAACAT-ATTTCTTA
* * * *
1679858 GTAAACCATGACATTCTTTGGCGCAACCTATTTTATTAATAAAATATTAACATTAAAGATCGTAA
64 GTGAACCATGACATTCTTGGGCGCAACCTATTTTATTAATAAAATATTAACATTAAAGATTGCAA
* * *
1679923 TCGATTTCTTAGTGAACCATGACATTATTGGGTGAAAC-CGTATTTCTTATATATATTCATAACA
129 CCGATTTCTTAGTGAACCATGACATTATTGGGCGAAACATGTATTTCTTATATATATTCATAACA
* * * **
1679987 ATTTCAGCTTTTAACTTATTATCTTATCATGGGAAAA-CTTAAGGCTCCATCAGCTTAAGTTCTG
194 TTTTCAGCTTTTAACTTATTTTCTTATCATAGGAAAATC-TAAGGCTCCATCAGCTTAAACTCTG
1680051 ATAACA
258 ATAACA
* * * *
1680057 TTTTAGGCACAACCCATTTTATTATTAAAAATATTAGGAATCTATATCTCAACCTACTTT-TTAG
1 TTTTAGGCACAACCTATTTTATTATTAAAAATATTAAGAATCTATATCGCAACATA-TTTCTTAG
* *
1680121 TGAACCATGACATTCTTGGGCGTAACCTATTTTATTAATAAAATATTAACATTATAGATTGCAAC
65 TGAACCATGACATTCTTGGGCGCAACCTATTTTATTAATAAAATATTAACATTAAAGATTGCAAC
* * *
1680186 CTATTTCTTAGTGAACCATGACATTATTAGGCGAAACATGTATTTCTTATATATATTCATAATAT
130 CGATTTCTTAGTGAACCATGACATTATTGGGCGAAACATGTATTTCTTATATATATTCATAACAT
* * * * * *
1680251 TTTCAGATTTTAACTTATTTTCTTATCGTATGAATATCTAAGAC-CCATCACCTTAAACT
195 TTTCAGCTTTTAACTTATTTTCTTATCATAGGAAAATCTAAGGCTCCATCAGCTTAAACT
1680310 TTGGTAACTT
Statistics
Matches: 437, Mismatches: 71, Indels: 30
0.81 0.13 0.06
Matches are distributed among these distances:
262 109 0.25
263 181 0.41
264 7 0.02
267 1 0.00
270 1 0.00
274 3 0.01
275 89 0.20
276 46 0.11
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (263 bp):
TTTTAGGCACAACCTATTTTATTATTAAAAATATTAAGAATCTATATCGCAACATATTTCTTAGT
GAACCATGACATTCTTGGGCGCAACCTATTTTATTAATAAAATATTAACATTAAAGATTGCAACC
GATTTCTTAGTGAACCATGACATTATTGGGCGAAACATGTATTTCTTATATATATTCATAACATT
TTCAGCTTTTAACTTATTTTCTTATCATAGGAAAATCTAAGGCTCCATCAGCTTAAACTCTGATA
ACA
Found at i:1681066 original size:26 final size:28
Alignment explanation
Indices: 1681028--1681081 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
1681018 CCATCATAGG
*
1681028 ATAAAATGAATG-ATGATA-GTTTGTAT
1 ATAAAATGAATGAATGATATGTATGTAT
*
1681054 ATAAAATGTATGAATGATATGTATGTAT
1 ATAAAATGAATGAATGATATGTATGTAT
1681082 GTACGTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 11 0.46
27 6 0.25
28 7 0.29
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.39
Consensus pattern (28 bp):
ATAAAATGAATGAATGATATGTATGTAT
Found at i:1681078 original size:4 final size:4
Alignment explanation
Indices: 1681059--1685937 Score: 8925
Period size: 4 Copynumber: 1235.8 Consensus size: 4
1681049 TGTATATAAA
* * *
1681059 ATGT ATGA ATGAT ATGT ATGT ATGT ACGT ATGT ACGT ATGT ATGT ATGT
1 ATGT ATGT ATG-T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
1681108 A--T ATGT ATGT A-AT ATGT ATGT ATTT ATGT AT-C ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * *
1681152 ATGT ATAT AT-A ATAT AT-T AATGC ATGGC ATGT ATGT AT-A ATTT AT-T
1 ATGT ATGT ATGT ATGT ATGT -ATGT AT-GT ATGT ATGT ATGT ATGT ATGT
** * * * * * * *
1681198 CATAC ATGC ATTT ATGT ATAT -TTT GATGC ACGT ACGT ATGT ATGT ATGT
1 -ATGT ATGT ATGT ATGT ATGT ATGT -ATGT ATGT ATGT ATGT ATGT ATGT
1681247 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1681295 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1681343 ATGT A--T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1681389 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1681436 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1681484 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1681532 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1681580 ATGT A--T ATGT ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1681624 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1681672 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1681719 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1681766 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1681812 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1681860 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1681908 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1681956 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1682004 A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1682051 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1682099 ATGT ATGT ATGT A--T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1682145 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT A-GT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1682190 ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1682236 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1682284 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1682332 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1682380 ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A--T
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1682425 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1682473 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1682521 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1682569 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1682617 ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1682664 ATGT ATGT ATGT ATGGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-T
1 ATGT ATGT ATGT AT-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1682712 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1682760 ATGT ATGT A--T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1682806 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1682852 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1682900 ATGT A-GT ATGT -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1682946 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1682994 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1683042 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1683090 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1683138 ATGT ATGT GTGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A--T
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1683184 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT -TGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1683231 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1683279 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1683327 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1683375 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-GT ATGT
1683424 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1683472 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1683518 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1683566 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1683614 ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1683660 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1683708 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1683755 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1683803 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1683851 ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1683898 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1683946 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1683994 ATG- -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1684040 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1684088 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1684136 A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1684183 A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1684230 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1684278 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1684326 ATGT ATGT ATGT ATGGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT AT-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1684375 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1684423 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1684469 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1684517 ATGT ATGT ATGT ATGT ATGT ATG- ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1684564 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT GTAGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-GT
1684613 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1684661 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1684709 ATGT ATGT ATGT ATG- ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1684756 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A--T ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1684802 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1684850 ATGT ATGT ATGT ATGT ATGT A--T ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1684896 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1684944 ATGT A-GT ATGT ATGT A--T ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1684989 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1685037 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1685085 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1685133 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1685181 ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1685228 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1685276 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1685324 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1685372 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1685420 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1685468 ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1685515 ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1685561 ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT A--T
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1685606 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1685654 ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1685701 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1685749 ATGT ATGT ATG- -TGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1685794 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1685842 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1685890 ATGT ATGT ATGT ATGAT ATAT ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATG-T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
1685938 ATATTAATAC
Statistics
Matches: 4754, Mismatches: 37, Indels: 168
0.96 0.01 0.03
Matches are distributed among these distances:
2 44 0.01
3 81 0.02
4 4603 0.97
5 26 0.01
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:1681137 original size:19 final size:19
Alignment explanation
Indices: 1681099--1681161 Score: 74
Period size: 19 Copynumber: 3.2 Consensus size: 19
1681089 TGTACGTATG
1681099 TATGTATGTATATGTATGTAA
1 TATGTATGTAT-T-TATGTAA
1681120 TATGTATGTATTTATGT-A
1 TATGTATGTATTTATGTAA
*
1681138 TCATGTATGTATGTATGTATA
1 T-ATGTATGTATTTATGTA-A
1681159 TAT
1 TAT
1681162 AATATATTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
18 2 0.05
19 20 0.53
20 3 0.08
21 13 0.34
ACGTcount: A:0.30, C:0.02, G:0.17, T:0.51
Consensus pattern (19 bp):
TATGTATGTATTTATGTAA
Found at i:1681143 original size:15 final size:15
Alignment explanation
Indices: 1681096--1681153 Score: 66
Period size: 15 Copynumber: 3.9 Consensus size: 15
1681086 GTATGTACGT
1681096 ATGTATGTATGTAT-
1 ATGTATGTATGTATC
* *
1681110 ATGTATGTA-ATATGT
1 ATGTATGTATGTAT-C
*
1681125 ATGTATTTATGTATC
1 ATGTATGTATGTATC
1681140 ATGTATGTATGTAT
1 ATGTATGTATGTAT
1681154 GTATATATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
13 3 0.08
14 9 0.25
15 21 0.58
16 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.19, T:0.50
Consensus pattern (15 bp):
ATGTATGTATGTATC
Found at i:1686084 original size:36 final size:38
Alignment explanation
Indices: 1686008--1686084 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 38
1685998 TCATACATGT
* **
1686008 ATATATTATATATACATAATACATACATACATGTTCTAC
1 ATATATCATATATACA-AATACATACATACATGTAATAC
*
1686047 ATATATCATATATAC-AAT-CATACATGCATGTAATAC
1 ATATATCATATATACAAATACATACATACATGTAATAC
1686083 AT
1 AT
1686085 GCATTATACA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 17 0.50
37 3 0.09
39 14 0.41
ACGTcount: A:0.44, C:0.16, G:0.04, T:0.36
Consensus pattern (38 bp):
ATATATCATATATACAAATACATACATACATGTAATAC
Found at i:1686095 original size:11 final size:11
Alignment explanation
Indices: 1686066--1686106 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
1686056 ATATACAATC
1686066 ATACATGCATGT
1 ATACATGCAT-T
1686078 AATACATGCATT
1 -ATACATGCATT
*
1686090 ATACATACATT
1 ATACATGCATT
1686101 ATACAT
1 ATACAT
1686107 ATACATGTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 16 0.59
12 1 0.04
13 10 0.37
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.34
Consensus pattern (11 bp):
ATACATGCATT
Found at i:1686120 original size:43 final size:43
Alignment explanation
Indices: 1686057--1686139 Score: 98
Period size: 43 Copynumber: 1.9 Consensus size: 43
1686047 ATATATCATA
*
1686057 TATACAATCATACATGCATGTAATACATGCATTATACATACAT
1 TATACAATCATACATGCATGTAATACATGCATCATACATACAT
** *
1686100 TATAC-AT-ATACATGTACATGTTCTACATTCATCATACATA
1 TATACAATCATACATG--CATGTAATACATGCATCATACATA
1686140 AATGTGTGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
41 7 0.21
42 2 0.06
43 25 0.74
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.35
Consensus pattern (43 bp):
TATACAATCATACATGCATGTAATACATGCATCATACATACAT
Found at i:1686803 original size:285 final size:284
Alignment explanation
Indices: 1686243--1686975 Score: 813
Period size: 285 Copynumber: 2.6 Consensus size: 284
1686233 ATTAAGACAT
* * * * *
1686243 TAAACTTTTGTTCACCAA-TTTTTAAAATAAATACAATTTAGTCTAATGTGATATTAATTTTAGC
1 TAAACTTTTGTTCACCAACTTTTT-AAATGAAT-CAATTTAGTCT-ATTTTATATTAATTTCATC
* * *
1686307 TTCACATTTTACAATTGTTTCAATTTGATCTCTATGTATTATTTAATTTATTTAAATTTTGGTTT
63 TTCACATTTTACAATTGTTTCAATTTGATCTCTCTATATTATTTAATTTATTTAAATTTTAGTTT
* * **
1686372 GTAATTTTATGTTTGTT-AAGTTTAGTCCTTAAAATTATATTATTTATCTGAAATTAGCTCATAC
128 GTAATTTCATGTTTGTTCAA-TTTAGTCCTTAAAATTATATTACTTATCACAAATTAGCTCATAC
* * * * *
1686436 ATTTTATATTTTTATAATTTACTTCGAACTCTATAAATCAATTCATAAACTTTATTTCATGCACT
192 ATTTTATATTTTTATAATGTACTCCAAACCCTATAAATCAATTCATAAACTTCATTTCATGCACT
* *
1686501 TAACTTATATCGTAATCTTCAAACCCTA
257 TAACTCATATCGTAATCTCCAAACCCTA
* *
1686529 TAAACTTTTATTCACCAACTTGTTAAATGAATGCAATTTAGTCTATTTTATATTAATTTCATCTT
1 TAAACTTTTGTTCACCAACTTTTTAAATGAAT-CAATTTAGTCTATTTTATATTAATTTCATCTT
* * * * * * * *
1686594 CACAATTTACAATTATTTCGATTTGATCTCTCTATGTTATTTAATTTATTTATATTTCATTTTAT
65 CACATTTTACAATTGTTTCAATTTGATCTCTCTATATTATTTAATTTATTTAAATTTTAGTTTGT
*
1686659 AATTTCATGTTTGTTCAATTTAGTCCTTAAAATTATATT-CTTATCACAAATTGGCTCATA-ATT
130 AATTTCATGTTTGTTCAATTTAGTCCTTAAAATTATATTACTTATCACAAATTAGCTCATACA-T
* * * *
1686722 ATTTCTATTTTT-TAATGTACTCCAAACCCTATAGATCGCA-TCATAATCTTCATTTCAAAT-C-
194 -TTTATATTTTTATAATGTACTCCAAACCCTATAAATC-AATTCATAAACTTCATTTC--ATGCA
*
1686783 CTATGAA-TCATATCGTAATCTCCAAACTCTA
255 CT-T-AACTCATATCGTAATCTCCAAACCCTA
* * * * * *
1686814 TAAACTTTTGTTTACAAACTTTTTAAACGGATCTAATTTTGTTTATTTTCATATTAATTTCAAT-
1 TAAACTTTTGTTCACCAACTTTTTAAATGAATC-AATTTAGTCTATTTT-ATATTAATTTC-ATC
* * * * *
1686878 TTTACATTTTATAATTGTTTCAACTTGAT-TCCCACATATTATTTAATTTATTTAAATTTTAGTT
63 TTCACATTTTACAATTGTTTCAATTTGATCTCTC-TATATTATTTAATTTATTTAAATTTTAGTT
* *
1686942 TGTAATTTCATGTTTGTTCAGTTTAATCCTTAAA
127 TGTAATTTCATGTTTGTTCAATTTAGTCCTTAAA
1686976 TATTTTTATC
Statistics
Matches: 375, Mismatches: 59, Indels: 26
0.82 0.13 0.06
Matches are distributed among these distances:
283 1 0.00
284 55 0.15
285 182 0.49
286 131 0.35
287 6 0.02
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (284 bp):
TAAACTTTTGTTCACCAACTTTTTAAATGAATCAATTTAGTCTATTTTATATTAATTTCATCTTC
ACATTTTACAATTGTTTCAATTTGATCTCTCTATATTATTTAATTTATTTAAATTTTAGTTTGTA
ATTTCATGTTTGTTCAATTTAGTCCTTAAAATTATATTACTTATCACAAATTAGCTCATACATTT
TATATTTTTATAATGTACTCCAAACCCTATAAATCAATTCATAAACTTCATTTCATGCACTTAAC
TCATATCGTAATCTCCAAACCCTA
Found at i:1697005 original size:17 final size:17
Alignment explanation
Indices: 1696983--1697016 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1696973 AAGATATCAC
*
1696983 AATTTATACATATATAT
1 AATTTATACATAGATAT
1697000 AATTTATACATAGATAT
1 AATTTATACATAGATAT
1697017 CTTATAACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (17 bp):
AATTTATACATAGATAT
Found at i:1697390 original size:2 final size:2
Alignment explanation
Indices: 1697383--1697440 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
1697373 TGCATTGTTG
1697383 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1697425 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
1697441 AATGCATTAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1697715 original size:81 final size:81
Alignment explanation
Indices: 1697478--1698118 Score: 919
Period size: 81 Copynumber: 7.9 Consensus size: 81
1697468 ACCCAAAAGC
* * * * * *
1697478 ATTTAGCTTTTCATCTAACTTGCATAATTGACACTTTTCTGTCAAATTGCACAGCTAGGTCATTA
1 ATTTAACTGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAA-TGCACAGCTAGGCCATTA
*
1697543 ATCTTTTACTCAACAGT
65 ATCTTTTACTCAACGGT
** * * * *
1697560 ATTTAACTACTCATCTAATTGGGATAATTGACA-CATTCTGCCTAATGCACAGCTAGGCCATTAA
1 ATTTAACTGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAA
*
1697624 TCTTTTACTCAATGGT
66 TCTTTTACTCAACGGT
*
1697640 ATTTAACTGTTCATCTAACTGGCATAATGGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAA
1 ATTTAACTGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAA
1697705 TCTTTTACTCAACGGT
66 TCTTTTACTCAACGGT
* * *
1697721 ATTTAACTGTTCATTTAACTGGCATAATTGACACATTTCTGCCAAATGCACAACTAGGCCATTAA
1 ATTTAACTGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAA
*
1697786 TCTTTTACTCAACAGT
66 TCTTTTACTCAACGGT
** * * * *
1697802 ATTTAACCATTCATCTAACTAGCATAGTTGACATCTTTCTACCAAATGCACAGCTAGGCCATTAA
1 ATTTAACTGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAA
*
1697867 TATTTTACTCAACGGT
66 TCTTTTACTCAACGGT
* * *
1697883 ATTTAACCGTTCATCTAACTGGCATAATTGGCACATTTCTGCCAAATGCACAGCTAGGCCATTAA
1 ATTTAACTGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAA
1697948 TCTTTTACTCAACGGT
66 TCTTTTACTCAACGGT
* *
1697964 ATTTAA-TCGATT-ATCTAACTGGCATAATTGACACGTTTCTGCCAAATGCACAGCAAGGCCATT
1 ATTTAACT-G-TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATT
**
1698027 AATCTTTTACTCAATAGT
64 AATCTTTTACTCAACGGT
*
1698045 ATTTAACTGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCATAGCTAGGCCATTAA
1 ATTTAACTGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAA
*
1698110 TCTATTACT
66 TCTTTTACT
1698119 TTAGAACTAT
Statistics
Matches: 499, Mismatches: 55, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
80 62 0.12
81 407 0.82
82 30 0.06
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (81 bp):
ATTTAACTGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAA
TCTTTTACTCAACGGT
Found at i:1698436 original size:57 final size:57
Alignment explanation
Indices: 1698279--1698524 Score: 439
Period size: 57 Copynumber: 4.4 Consensus size: 57
1698269 TATAATTGCG
*
1698279 TAACTTTTTGCACACAAAGTGCCCATATGGAATTTCATAAACTAATTATGAATTTCT
1 TAACTTTTTGCACACAAAGTGCCCATATGGAAATTCATAAACTAATTATGAATTTCT
1698336 TAA-TTTTTGCACACAAA----CCATATGGAAATTCATAAACTAATTATGAATTTCT
1 TAACTTTTTGCACACAAAGTGCCCATATGGAAATTCATAAACTAATTATGAATTTCT
1698388 TAACTTTTTGCACACAAAGTGCCCATATGGAAATTCATAAACTAATTATGAATTTCT
1 TAACTTTTTGCACACAAAGTGCCCATATGGAAATTCATAAACTAATTATGAATTTCT
*
1698445 TAACTTTTTGCACACAAAGTGCCCATATTGAAATTCATAAACTAATTATGAATTTCT
1 TAACTTTTTGCACACAAAGTGCCCATATGGAAATTCATAAACTAATTATGAATTTCT
1698502 TAACTTTTTGCACACAAAGTGCC
1 TAACTTTTTGCACACAAAGTGCC
1698525 TATTGGGTAA
Statistics
Matches: 182, Mismatches: 2, Indels: 10
0.94 0.01 0.05
Matches are distributed among these distances:
52 37 0.20
53 14 0.08
56 14 0.08
57 117 0.64
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.36
Consensus pattern (57 bp):
TAACTTTTTGCACACAAAGTGCCCATATGGAAATTCATAAACTAATTATGAATTTCT
Found at i:1701509 original size:22 final size:21
Alignment explanation
Indices: 1701464--1701510 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1701454 GTCGAGGGTT
**
1701464 TTATGTGGTCCTCCGGGAAAA
1 TTATGTGGTCCTCCGAAAAAA
*
1701485 TTATGTGGTCCTTTCGAAAAAA
1 TTATGTGGTCC-TCCGAAAAAA
1701507 TTAT
1 TTAT
1701511 ATGGCACTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (21 bp):
TTATGTGGTCCTCCGAAAAAA
Found at i:1701538 original size:23 final size:23
Alignment explanation
Indices: 1701512--1701560 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
1701502 AAAAATTATA
1701512 TGGCACTTTGGTGAAAACCTATG
1 TGGCACTTTGGTGAAAACCTATG
* *
1701535 TGGCACTTTGGTGTAAACTTATG
1 TGGCACTTTGGTGAAAACCTATG
1701558 TGG
1 TGG
1701561 TCCTCGGGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.22, C:0.14, G:0.29, T:0.35
Consensus pattern (23 bp):
TGGCACTTTGGTGAAAACCTATG
Found at i:1708443 original size:22 final size:21
Alignment explanation
Indices: 1708399--1708449 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
1708389 GTCGAGGGTT
*
1708399 TTATGTAGTCCTCTGGGACAA
1 TTATGTGGTCCTCTGGGACAA
* *
1708420 TTATGTGGTCCTTTTGGGATAA
1 TTATGTGGTCC-TCTGGGACAA
1708442 TTATGTGG
1 TTATGTGG
1708450 CACTTTGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.20, C:0.12, G:0.27, T:0.41
Consensus pattern (21 bp):
TTATGTGGTCCTCTGGGACAA
Found at i:1708455 original size:22 final size:22
Alignment explanation
Indices: 1708412--1708477 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
1708402 TGTAGTCCTC
*
1708412 TGGGACAATTATGTGGTC-CTTT
1 TGGGAAAATTATGTGG-CACTTT
*
1708434 TGGGATAATTATGTGGCAC-TT
1 TGGGAAAATTATGTGGCACTTT
*
1708455 TGGTGAAAACCTATGTGGCACTT
1 TGG-GAAAA-TTATGTGGCACTT
1708478 CGGTGCAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 6 0.16
22 20 0.54
23 10 0.27
24 1 0.03
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.36
Consensus pattern (22 bp):
TGGGAAAATTATGTGGCACTTT
Found at i:1708471 original size:23 final size:23
Alignment explanation
Indices: 1708443--1708495 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
1708433 TTGGGATAAT
*
1708443 TATGTGGCACTTTGGTGAAAACC
1 TATGTGGCACTTCGGTGAAAACC
*
1708466 TATGTGGCACTTCGGTGCAAACC
1 TATGTGGCACTTCGGTGAAAACC
1708489 TATGTGG
1 TATGTGG
1708496 TCCTCGGGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (23 bp):
TATGTGGCACTTCGGTGAAAACC
Found at i:1711501 original size:22 final size:22
Alignment explanation
Indices: 1711469--1711530 Score: 106
Period size: 22 Copynumber: 2.8 Consensus size: 22
1711459 TCGGTACCCC
1711469 TACTATGGTATCGATACTTCTA
1 TACTATGGTATCGATACTTCTA
* *
1711491 TACTATAGTATCTATACTTCTA
1 TACTATGGTATCGATACTTCTA
1711513 TACTATGGTATCGATACT
1 TACTATGGTATCGATACT
1711531 CCTTTCAGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (22 bp):
TACTATGGTATCGATACTTCTA
Found at i:1715362 original size:18 final size:18
Alignment explanation
Indices: 1715327--1715365 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1715317 TTTGTTTATA
*
1715327 GTTTTACTTGTTATTTTT
1 GTTTTACTTGTTAGTTTT
1715345 GTTTTACTT-TTAGGTTTT
1 GTTTTACTTGTTA-GTTTT
1715363 GTT
1 GTT
1715366 ATTGCATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.10, C:0.05, G:0.15, T:0.69
Consensus pattern (18 bp):
GTTTTACTTGTTAGTTTT
Found at i:1720681 original size:43 final size:43
Alignment explanation
Indices: 1720634--1720800 Score: 226
Period size: 43 Copynumber: 3.8 Consensus size: 43
1720624 AATAAATGGT
* * *
1720634 AAGTATGTTGGTAAAATAAGCTTACGAGCTTATGAATAACGAC
1 AAGTATATTGATAAAATAAGCTTACGAGCTTATGAATAATGAC
*
1720677 AAGTATATTGATAAAATAAGCTTACGAGCTTATGAATAATGGC
1 AAGTATATTGATAAAATAAGCTTACGAGCTTATGAATAATGAC
*
1720720 AAGTATATTGATAAAATAAGCTTACGAGCTTATGGAATTTAAATGAT
1 AAGTATATTGATAAAATAAGCTTACGAGCTTAT-GAA--T-AATGAC
* * *
1720767 AAATATTTTGGTAAAATAAGCTTACGAGCTTATG
1 AAGTATATTGATAAAATAAGCTTACGAGCTTATG
1720801 GGATAAATGG
Statistics
Matches: 111, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
43 72 0.65
44 3 0.03
46 2 0.02
47 34 0.31
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.32
Consensus pattern (43 bp):
AAGTATATTGATAAAATAAGCTTACGAGCTTATGAATAATGAC
Found at i:1721220 original size:21 final size:21
Alignment explanation
Indices: 1721196--1721235 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1721186 TTCGGCAATT
*
1721196 ACTGTAGCATTGCATCGATGC
1 ACTGTAGCAGTGCATCGATGC
1721217 ACTGTAGCAGTGCATCGAT
1 ACTGTAGCAGTGCATCGAT
1721236 ACACAATTTT
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:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (21 bp):
ACTGTAGCAGTGCATCGATGC
Found at i:1727794 original size:21 final size:21
Alignment explanation
Indices: 1727770--1727809 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1727760 GAATCGATCC
*
1727770 TTCAGGAAAGGGATCAATCAT
1 TTCAAGAAAGGGATCAATCAT
**
1727791 TTCAATCAAGGGATCAATC
1 TTCAAGAAAGGGATCAATC
1727810 TTTTTTTCTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (21 bp):
TTCAAGAAAGGGATCAATCAT
Found at i:1735276 original size:39 final size:39
Alignment explanation
Indices: 1735227--1735318 Score: 161
Period size: 38 Copynumber: 2.4 Consensus size: 39
1735217 TTCGGTTTGC
1735227 AAAAAACCGGTTTTTAAAAAAAA-CCGGATTTTTTCGGAT
1 AAAAAACCGGTTTTTAAAAAAAACCCGGA-TTTTTCGGAT
1735266 AAAAAACCGG-TTTTAAAAAAAACCCGGATTTTTCGGAT
1 AAAAAACCGGTTTTTAAAAAAAACCCGGATTTTTCGGAT
1735304 AAAAAACCGGTTTTT
1 AAAAAACCGGTTTTT
1735319 TATCCGGTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
38 32 0.63
39 19 0.37
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.29
Consensus pattern (39 bp):
AAAAAACCGGTTTTTAAAAAAAACCCGGATTTTTCGGAT
Found at i:1735333 original size:26 final size:24
Alignment explanation
Indices: 1735304--1735364 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 24
1735294 TTTTTCGGAT
*
1735304 AAAAAACCGGTTTTTTATCCGGTTTGA
1 AAAAAACCGGTTTTTAATCCGG--T-A
1735331 AAAAAACCGGTTTTTAATCCGGT-
1 AAAAAACCGGTTTTTAATCCGGTA
1735354 AAAAAACCGGT
1 AAAAAACCGGT
1735365 CGTTCAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
23 11 0.33
25 1 0.03
27 21 0.64
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (24 bp):
AAAAAACCGGTTTTTAATCCGGTA
Found at i:1735478 original size:27 final size:27
Alignment explanation
Indices: 1735440--1735491 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
1735430 ACCGGTTTTT
1735440 CCAAAATCCGAT-TTCAGATATTTTTTAC
1 CCAAAATCCGATATTC-GA-ATTTTTTAC
1735468 CCAAAAT-CGATATTCGAATTTTTT
1 CCAAAATCCGATATTCGAATTTTTT
1735492 GTGCACCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 7 0.30
27 6 0.26
28 10 0.43
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (27 bp):
CCAAAATCCGATATTCGAATTTTTTAC
Found at i:1737064 original size:3 final size:3
Alignment explanation
Indices: 1737058--1737141 Score: 109
Period size: 3 Copynumber: 27.7 Consensus size: 3
1737048 CTCCATTTTC
1737058 TAT TAT TAT TATT TAT TAT TAT TAT TAT TAT T-T TAT ATAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
* *
1737104 TAT TAT TAT T-T TATT TAT TAT TAT TAA AAT TAT TAT TA
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TA
1737142 CAAACAGGCC
Statistics
Matches: 72, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
2 4 0.06
3 59 0.82
4 9 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1737137 original size:24 final size:24
Alignment explanation
Indices: 1737058--1737129 Score: 126
Period size: 24 Copynumber: 3.0 Consensus size: 24
1737048 CTCCATTTTC
1737058 TATTATTATTATTTATTATTATTAT
1 TATTATT-TTATTTATTATTATTAT
*
1737083 TATTATTTTATATATTATTATTAT
1 TATTATTTTATTTATTATTATTAT
1737107 TATTATTTTATTTATTATTATTA
1 TATTATTTTATTTATTATTATTA
1737130 AAATTATTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
24 38 0.84
25 7 0.16
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
TATTATTTTATTTATTATTATTAT
Found at i:1738501 original size:3 final size:3
Alignment explanation
Indices: 1738487--1738519 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
1738477 TTATATGTTA
*
1738487 ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1738520 TAACCATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1738736 original size:20 final size:20
Alignment explanation
Indices: 1738711--1738753 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1738701 TTATTTTATA
1738711 AATTATATATTAATTGTTTT
1 AATTATATATTAATTGTTTT
* * *
1738731 AATTATTTATTTATTTTTTT
1 AATTATATATTAATTGTTTT
1738751 AAT
1 AAT
1738754 ATCAAAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
AATTATATATTAATTGTTTT
Found at i:1742657 original size:15 final size:15
Alignment explanation
Indices: 1742637--1742668 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1742627 GATCAATACC
1742637 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
1742652 TTTTGCATACATTCA
1 TTTTGCATACATGCA
1742667 TT
1 TT
1742669 ATTCATTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:1749993 original size:16 final size:15
Alignment explanation
Indices: 1749974--1750048 Score: 69
Period size: 16 Copynumber: 4.6 Consensus size: 15
1749964 TATTATGCTT
*
1749974 GAAGAAAAAATGAAAA
1 GAAGAAAAAA-AAAAA
1749990 GAAGAAAAGAAAAAAAAA
1 GAAG--AA-AAAAAAAAA
1750008 GAAGAAAAAGAAAAAA
1 GAAGAAAAA-AAAAAA
* *
1750024 GAAGAAAAAAGAGAGA
1 GAAGAAAAAA-AAAAA
1750040 GAAGAAAAA
1 GAAGAAAAA
1750049 GAGAAAAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
15 4 0.08
16 33 0.65
18 10 0.20
19 4 0.08
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.01
Consensus pattern (15 bp):
GAAGAAAAAAAAAAA
Found at i:1750001 original size:13 final size:12
Alignment explanation
Indices: 1749975--1750055 Score: 65
Period size: 13 Copynumber: 6.2 Consensus size: 12
1749965 ATTATGCTTG
1749975 AAGAAAAAATGAA
1 AAGAAAAAA-GAA
1749988 AAGAAGAAAAGAA
1 AAGAA-AAAAGAA
*
1750001 AAAAAAAGAAGAAA
1 AAGAAAA-AAG-AA
1750015 AAGAAAAAAGAA
1 AAGAAAAAAGAA
*
1750027 GAA-AAAAGAGAGAG
1 -AAGAAAA-A-AGAA
1750041 AAGAAAAAGAGAA
1 AAGAAAAA-AGAA
1750054 AA
1 AA
1750056 AAAGGGGTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
12 8 0.14
13 30 0.53
14 19 0.33
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (12 bp):
AAGAAAAAAGAA
Found at i:1750009 original size:18 final size:18
Alignment explanation
Indices: 1749986--1750035 Score: 75
Period size: 19 Copynumber: 2.8 Consensus size: 18
1749976 AGAAAAAATG
1749986 AAAAGAAGAAAAGAAAAA
1 AAAAGAAGAAAAGAAAAA
1750004 AAAAGAAGAAAAAGAAAAA
1 AAAAGAAG-AAAAGAAAAA
*
1750023 AGAAGAA-AAAAGA
1 AAAAGAAGAAAAGA
1750036 GAGAGAAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 6 0.20
18 8 0.27
19 16 0.53
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (18 bp):
AAAAGAAGAAAAGAAAAA
Found at i:1750014 original size:26 final size:26
Alignment explanation
Indices: 1749985--1750058 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 26
1749975 AAGAAAAAAT
1749985 GAAAAGAAGAAAAGAAAAAAAAAGA-A
1 GAAAAGAA-AAAAGAAAAAAAAAGAGA
*
1750011 GAAAAAGAAAAAAGAAGAAAAAAGAGA
1 G-AAAAGAAAAAAGAAAAAAAAAGAGA
*
1750038 GAGAAGAAAAAGAGAAAAAAA
1 GAAAAGAAAAA-AGAAAAAAA
1750059 GGGGTCAAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 25 0.60
27 17 0.40
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (26 bp):
GAAAAGAAAAAAGAAAAAAAAAGAGA
Found at i:1750054 original size:34 final size:31
Alignment explanation
Indices: 1749974--1750057 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 31
1749964 TATTATGCTT
1749974 GAAGAAAAAATGAAAAGAAGAAAAGAAAAAAAAA
1 GAAGAAAAAA-GAAAA-AAG-AAAGAAAAAAAAA
1750008 GAAG-AAAAAGAAAAAAG-AAGAAAAAAGAGAGA
1 GAAGAAAAAAGAAAAAAGAAAGAAAAAA-A-A-A
1750040 GAAGAAAAAGAGAAAAAA
1 GAAGAAAAA-AGAAAAAA
1750058 AGGGGTCAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
29 9 0.20
30 1 0.02
31 4 0.09
32 10 0.22
33 9 0.20
34 12 0.27
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.01
Consensus pattern (31 bp):
GAAGAAAAAAGAAAAAAGAAAGAAAAAAAAA
Found at i:1750648 original size:224 final size:222
Alignment explanation
Indices: 1750278--1751144 Score: 1216
Period size: 224 Copynumber: 3.9 Consensus size: 222
1750268 AGTGCCAGTT
*
1750278 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
1 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAATTTGT
* *
1750343 TCAACCTTTTGTTTGAATTCATCATTTGATGGATCAATATTGCCAGGTAGAGTTTATAATGAGAA
66 TCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAA
* *
1750408 GAACTTGTCATCTGAAGACGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAAT
131 GAACTCGTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCT-AAAT
1750473 CCATCACTTATGGATCAACTTTTCCAGAG
195 CCATCACTTATGGATCAACTTTTCCA-AG
1750502 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAATTTGT
1 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAATTTGT
* *
1750567 TCGACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTACCAGGTAGAGTTCATAATGAGAA
66 TCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAA
* * *
1750632 GAACTCGTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAAT
131 GAACTCGTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG-CTAAAT
* *
1750697 TCATCA-TTCGATGGATCAACTTTTCC-AT
195 CCATCACTT--ATGGATCAACTTTTCCAAG
*
1750725 AAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAA-TTCATAATGAGAAGAATTTG
1 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA-AAAGTTCATAATGAGAAGAATTTG
* * * ** *
1750788 TTCAA-ATTTTTTTTGAATTCATCATTCGATGGATCAAC-TTTTCA-G-AAAGTTCATAATGAGA
65 TTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGA
1750849 AGAACT--T-ATCTGAAGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCAT
130 AGAACTCGTCATCT---GAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC-T
* * * * *
1750911 AATTCTATCACAGAAGGAGATAGATCAGCATCAGCTTTTCCAAAG
191 AAATCCATCAC---------T-TAT--GGATCAACTTTTCC-AAG
*
1750956 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
1 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAATTTGT
1751021 TCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAA
66 TCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAA
*
1751086 GAACTCATCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
131 GAACTCGTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
1751145 ATAATTCTAT
Statistics
Matches: 573, Mismatches: 38, Indels: 52
0.86 0.06 0.08
Matches are distributed among these distances:
215 4 0.01
216 1 0.00
218 72 0.13
219 1 0.00
220 4 0.01
221 30 0.05
222 32 0.06
223 36 0.06
224 188 0.33
225 17 0.03
227 2 0.00
228 1 0.00
229 12 0.02
231 33 0.06
232 33 0.06
233 30 0.05
234 4 0.01
235 1 0.00
236 67 0.12
238 1 0.00
239 4 0.01
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (222 bp):
AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAATTTGT
TCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAA
GAACTCGTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTAAATC
CATCACTTATGGATCAACTTTTCCAAG
Found at i:1750964 original size:123 final size:123
Alignment explanation
Indices: 1750820--1751535 Score: 778
Period size: 123 Copynumber: 5.9 Consensus size: 123
1750810 CATTCGATGG
* *
1750820 ATCAACTTTT-C--AGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGAAGAAGAAATTCATA
1 ATCAACTTTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATA
*
1750882 ATGAGAAGAATTTGTTCAACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGC
66 ATGAGAAGAACTTGTTCAACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGC
*
1750940 ATCAGCTTTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAACTTTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCAT
* ** * * *
1751005 AATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTC-AT--C------A-TTTGAT--GG
65 AATGAGAAGAACTTGTTCAACCTTTTGCAT-AATTCTATCACAGAAGGAGATAGATCAGC
* * * * ** *
1751053 ATCAACATTGCC-AGGTAGAGTTCATAATGAGAAGAACTCATCAT-CTGAAGAAGAAGAAATTCA
1 ATCAACTTTTCCAAAG-AAAGTTCATAATGAGAAGAACTCATC-TGAAGAAGAAGAAGAAGTTCA
* *
1751116 TAATGAGAAGAATTTGTTCAACCTTTTGCATAATTCTATCACAGAAGGAGATAGATTAGC
64 TAATGAGAAGAACTTGTTCAACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGC
* * *
1751176 ATCAGCTTTTCTAGAA-AAAGTTCATAATGAGAAGAACTCATCTG-A-AA-AAGAAGAAGTTCAC
1 ATCAACTTTTCCA-AAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCAT
* * *
1751237 AAGGAGAAGAGCTTGTTCAACCTTTTGTATAATTCTATCACAGAAGGAGATAGATCAGC
65 AATGAGAAGAACTTGTTCAACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGC
* * *
1751296 ATCAAC-TTTCCAGAGAAAGTTCATAATAAGAAGAACTCATTTGAAGAAGAAAGAAGAAGTTCAT
1 ATCAACTTTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG-AAGAAGAAGTTCAT
* * * * * * * * *
1751360 AATGACAAGAACTTATTCAACTTTTTGAATGACTCTATCACAGAAGGAAATAGGTCAAC
65 AATGAGAAGAACTTGTTCAACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGC
** * * * *
1751419 ATCAACTTTTCCAGGGAAAGTTCATAATAAGAAGAACTCATCTAAAGAAGGAAGAAGAATTTTAT
1 ATCAACTTTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCAT
* *
1751484 AATAAGAAGAACTTGTTCAACCCTTTTCCA-AATTAC-ATCACAGAAGGAGATA
65 AATGAGAAGAACTTGTTCAA-CCTTTTGCATAATT-CTATCACAGAAGGAGATA
1751536 TTATCATCCC
Statistics
Matches: 499, Mismatches: 66, Indels: 58
0.80 0.11 0.09
Matches are distributed among these distances:
111 5 0.01
112 46 0.09
113 38 0.08
114 2 0.00
115 4 0.01
116 1 0.00
118 1 0.00
119 31 0.06
120 82 0.16
121 9 0.02
122 2 0.00
123 135 0.27
124 129 0.26
125 14 0.03
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (123 bp):
ATCAACTTTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGC
Found at i:1751114 original size:236 final size:234
Alignment explanation
Indices: 1750486--1751510 Score: 1148
Period size: 236 Copynumber: 4.4 Consensus size: 234
1750476 TCACTTATGG
* *
1750486 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCAT
1 ATCAACTTTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* *
1750551 AATGAGAAGAATTTGTTCGACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTACCAGGTA
66 AATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTTCCAGG-A
* *
1750616 GAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
130 AAGTTCATAATGAGAAGAACTCATC-TCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
* ** * * *
1750681 AACTTTTTGTTTGAATTC-AT--C------A-TTCGAT--GG
194 AACCTTTTGCAT-AATTCTATCACAGAAGGAGATAGATCAGC
* * *
1750711 ATCAACTTTTCC--ATAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAATTCAT
1 ATCAACTTTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* * * *
1750773 AATGAGAAGAATTTGTTCAA-ATTTTTTTTGAATTCATCATTCGATGGATCAAC-TTTTCA-GAA
66 AATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTTCCAGGAA
* **
1750835 AGTTCATAATGAGAAGAACTTATCTGAAGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
131 AGTTCATAATGAGAAGAACTCATCT-CTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1750900 ACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGC
195 ACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGC
*
1750940 ATCAGCTTTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAACTTTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
*
1751005 AATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTA
66 AATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTTCCAGG-A
*
1751070 GAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
130 AAGTTCATAATGAGAAGAACTCATC-TCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
*
1751135 AACCTTTTGCATAATTCTATCACAGAAGGAGATAGATTAGC
194 AACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGC
* *
1751176 ATCAGCTTTTCTAGAA-AAAGTTCATAATGAGAAGAACTCATCTG-A-AA--AAGAAGAAGTTCA
1 ATCAACTTTTCCA-AAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* * ** * *** *
1751236 CAAGGAGAAGAGCTTGTTCAACCTTTTGTAT-AATTCTATCACAGAAGGAGATAGATCAGCATCA
65 TAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTC-AT--C---ATTTGATGGATCA--A-C-
*
1751300 ACTTTCCAGAGAAAGTTCATAATAAGAAGAACTCAT-T-TGAAGAAGAAAGAAGAAGTTCATAAT
120 A-TTTCCAG-GAAAGTTCATAATGAGAAGAACTCATCTCTGAAGAAG-AAG-A-AA-TTCATAAT
* * * * * * * * * *
1751363 GACAAGAACTTATTCAACTTTTTGAATGACTCTATCACAGAAGGAAATAGGTCAAC
179 GAGAAGAATTTGTTCAACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGC
** * * * *
1751419 ATCAACTTTTCCAGGGAAAGTTCATAATAAGAAGAACTCATCTAAAGAAGGAAGAAGAATTTTAT
1 ATCAACTTTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* *
1751484 AATAAGAAGAACTTGTTCAACCCTTTT
66 AATGAGAAGAATTTGTTCAA-CCTTTT
1751511 CCAAATTACA
Statistics
Matches: 685, Mismatches: 71, Indels: 65
0.83 0.09 0.08
Matches are distributed among these distances:
217 6 0.01
218 70 0.10
219 1 0.00
220 5 0.01
221 30 0.04
222 34 0.05
223 31 0.05
225 12 0.02
226 1 0.00
227 4 0.01
229 12 0.02
231 36 0.05
232 77 0.11
233 30 0.04
234 7 0.01
235 2 0.00
236 140 0.20
237 12 0.02
239 9 0.01
240 5 0.01
241 2 0.00
242 31 0.05
243 91 0.13
244 1 0.00
245 2 0.00
247 28 0.04
248 6 0.01
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (234 bp):
ATCAACTTTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
AATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTTCCAGGAA
AGTTCATAATGAGAAGAACTCATCTCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAA
CCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGC
Found at i:1751742 original size:3 final size:3
Alignment explanation
Indices: 1751734--1751807 Score: 105
Period size: 3 Copynumber: 24.7 Consensus size: 3
1751724 CTCCATTTTA
1751734 TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT ATAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * *
1751779 TAT TTT TAT TAT TAT TAA AAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1751808 CAAACAGGCC
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
2 2 0.03
3 58 0.92
4 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1753389 original size:20 final size:20
Alignment explanation
Indices: 1753364--1753406 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1753354 TTATTTTATA
1753364 AATTATGTATTAATTGTTTT
1 AATTATGTATTAATTGTTTT
* * *
1753384 AATTATTTATTTATTTTTTT
1 AATTATGTATTAATTGTTTT
1753404 AAT
1 AAT
1753407 ATCAAAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (20 bp):
AATTATGTATTAATTGTTTT
Found at i:1758825 original size:14 final size:15
Alignment explanation
Indices: 1758798--1758848 Score: 65
Period size: 14 Copynumber: 3.6 Consensus size: 15
1758788 TTATGTGATA
1758798 GAGTTTA-GAGTTTAG
1 GAGTTTAGGA-TTTAG
1758813 GA-TTTAGGATTTA-
1 GAGTTTAGGATTTAG
1758826 GAGTTTAGGATTTA-
1 GAGTTTAGGATTTAG
1758840 GAGTTTAGG
1 GAGTTTAGG
1758849 TTTTTAGGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.06
14 28 0.82
15 4 0.12
ACGTcount: A:0.27, C:0.00, G:0.31, T:0.41
Consensus pattern (15 bp):
GAGTTTAGGATTTAG
Done.