Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_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: 6772376
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 29 of 32
Found at i:6029016 original size:7 final size:7
Alignment explanation
Indices: 6028995--6029032 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
6028985 GGTCAAGAAA
6028995 GTCAACGG
1 GTCAAC-G
6029003 GTC-ACG
1 GTCAACG
6029009 GTCAACG
1 GTCAACG
6029016 GTCAACG
1 GTCAACG
6029023 GTCAACG
1 GTCAACG
6029030 GTC
1 GTC
6029033 GGGTCGGGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 4 0.14
7 22 0.76
8 3 0.10
ACGTcount: A:0.24, C:0.29, G:0.32, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:6029039 original size:5 final size:5
Alignment explanation
Indices: 6029029--6029086 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
6029019 AACGGTCAAC
* *
6029029 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
6029078 GGTCG GGTC
1 GGTCG GGTC
6029087 AGACCGGTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 37 0.82
7 8 0.18
ACGTcount: A:0.07, C:0.22, G:0.52, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:6029049 original size:22 final size:22
Alignment explanation
Indices: 6029022--6029086 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
6029012 AACGGTCAAC
6029022 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
6029044 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
6029066 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
6029087 AGACCGGTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:6029106 original size:19 final size:19
Alignment explanation
Indices: 6029084--6029139 Score: 112
Period size: 19 Copynumber: 2.9 Consensus size: 19
6029074 GTCGGGTCGG
6029084 GTCAGACCGGTCAAACCGA
1 GTCAGACCGGTCAAACCGA
6029103 GTCAGACCGGTCAAACCGA
1 GTCAGACCGGTCAAACCGA
6029122 GTCAGACCGGTCAAACCG
1 GTCAGACCGGTCAAACCG
6029140 GTTCGAACCG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.30, C:0.32, G:0.27, T:0.11
Consensus pattern (19 bp):
GTCAGACCGGTCAAACCGA
Found at i:6029149 original size:19 final size:17
Alignment explanation
Indices: 6029083--6029181 Score: 90
Period size: 19 Copynumber: 5.2 Consensus size: 17
6029073 GGTCGGGTCG
6029083 GGTCAGACCGGTCAAACC
1 GGTCA-ACCGGTCAAACC
6029101 GAGTCAGACCGGTCAAACC
1 G-GTCA-ACCGGTCAAACC
6029120 GAGTCAGACCGGTCAAACC
1 G-GTCA-ACCGGTCAAACC
*
6029139 GGTTCGAACCGGTTGAAACC
1 GG-TC-AACCGG-TCAAACC
6029159 GGTCAAAACCGGTCAGAACC
1 GGTC--AACCGGTCA-AACC
6029179 GGT
1 GGT
6029182 TGAAAACCGG
Statistics
Matches: 72, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
18 2 0.03
19 48 0.67
20 22 0.31
ACGTcount: A:0.29, C:0.29, G:0.28, T:0.13
Consensus pattern (17 bp):
GGTCAACCGGTCAAACC
Found at i:6029168 original size:20 final size:19
Alignment explanation
Indices: 6029089--6029201 Score: 79
Period size: 19 Copynumber: 5.8 Consensus size: 19
6029079 GTCGGGTCAG
* *
6029089 ACCGGTCAAACCGAGTC-AG
1 ACCGGTTAAACCG-GTCAAA
* *
6029108 ACCGGTCAAACCGAGTC-AG
1 ACCGGTTAAACCG-GTCAAA
* *
6029127 ACCGGTCAAACCGGTTC-GA
1 ACCGGTTAAACCGG-TCAAA
6029146 ACCGGTTGAAACCGGTCAAA
1 ACCGGTT-AAACCGGTCAAA
* *
6029166 ACCGGTCAGAACCGGTTGAAA
1 ACCGGTTA-AACCGG-TCAAA
6029187 ACCGGTTAAACCGGT
1 ACCGGTTAAACCGGT
6029202 TTCCAGCAGC
Statistics
Matches: 82, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.01
19 44 0.54
20 26 0.32
21 11 0.13
ACGTcount: A:0.31, C:0.28, G:0.27, T:0.14
Consensus pattern (19 bp):
ACCGGTTAAACCGGTCAAA
Found at i:6029202 original size:9 final size:9
Alignment explanation
Indices: 6029083--6029201 Score: 103
Period size: 10 Copynumber: 12.3 Consensus size: 9
6029073 GGTCGGGTCG
*
6029083 GGTCAGACC
1 GGTCAAACC
6029092 GGTCAAACC
1 GGTCAAACC
*
6029101 GAGTCAGACC
1 G-GTCAAACC
6029111 GGTCAAACC
1 GGTCAAACC
*
6029120 GAGTCAGACC
1 G-GTCAAACC
6029130 GGTCAAACC
1 GGTCAAACC
*
6029139 GGTTCGAACC
1 GG-TCAAACC
*
6029149 GGTTGAAACC
1 GG-TCAAACC
6029159 GGTCAAAACC
1 GGTC-AAACC
6029169 GGTCAGAACC
1 GGTCA-AACC
*
6029179 GGTTGAAAACC
1 GG-T-CAAACC
*
6029190 GGTTAAACC
1 GGTCAAACC
6029199 GGT
1 GGT
6029202 TTCCAGCAGC
Statistics
Matches: 92, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
9 36 0.39
10 48 0.52
11 7 0.08
12 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.14
Consensus pattern (9 bp):
GGTCAAACC
Found at i:6030835 original size:17 final size:17
Alignment explanation
Indices: 6030801--6030852 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
6030791 ACCGGACAAA
* *
6030801 TTTATTATTTTAGAGAG
1 TTTATTAATTTACAGAG
*
6030818 TTTATTAATTTACCGAG
1 TTTATTAATTTACAGAG
*
6030835 --TATTAATTTAAAGAG
1 TTTATTAATTTACAGAG
6030850 TTT
1 TTT
6030853 CTACTGTAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (17 bp):
TTTATTAATTTACAGAG
Found at i:6032108 original size:2 final size:2
Alignment explanation
Indices: 6032101--6032127 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6032091 TATTATCGTG
6032101 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
6032128 GAAAGGCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6032302 original size:30 final size:29
Alignment explanation
Indices: 6032245--6032301 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
6032235 TTTTAGGTGT
6032245 CTAGACCGTTAACGACATTAGTTTTTTTC
1 CTAGACCGTTAACGACATTAGTTTTTTTC
*
6032274 CTAGACCTTTAACGACATTAGTTTTTTT
1 CTAGACCGTTAACGACATTAGTTTTTTT
6032302 TGTTAAGTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (29 bp):
CTAGACCGTTAACGACATTAGTTTTTTTC
Found at i:6033956 original size:15 final size:15
Alignment explanation
Indices: 6033936--6034027 Score: 175
Period size: 15 Copynumber: 6.1 Consensus size: 15
6033926 GTAGGACCAT
*
6033936 TACATCCCGAATGAC
1 TACATCCCGAAGGAC
6033951 TACATCCCGAAGGAC
1 TACATCCCGAAGGAC
6033966 TACATCCCGAAGGAC
1 TACATCCCGAAGGAC
6033981 TACATCCCGAAGGAC
1 TACATCCCGAAGGAC
6033996 TACATCCCGAAGGAC
1 TACATCCCGAAGGAC
6034011 TACATCCCGAAGGAC
1 TACATCCCGAAGGAC
6034026 TA
1 TA
6034028 TTATACCCTC
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
15 76 1.00
ACGTcount: A:0.34, C:0.33, G:0.18, T:0.15
Consensus pattern (15 bp):
TACATCCCGAAGGAC
Found at i:6034756 original size:64 final size:63
Alignment explanation
Indices: 6034649--6034813 Score: 215
Period size: 64 Copynumber: 2.6 Consensus size: 63
6034639 TCTTTTAATG
* * * *
6034649 AAAGTATGCATCGATGCACTACTTGTGCATCGGTGCATTAAATGCATTCGATGTTATTATTTTA
1 AAAGGATGCATCGATGCACTAC-TATGCATCGATGCATCAAATGCATTCGATGTTATTATTTTA
* * *
6034713 AAAGGATGCATCGATGCATTAGCTATGCATCGATGCATCAAATGCATTCGATGTTCTTCTTTTA
1 AAAGGATGCATCGATGCACTA-CTATGCATCGATGCATCAAATGCATTCGATGTTATTATTTTA
*
6034777 AAA-GAGTGCATCGATGCACTACCAATGCATCGATGCA
1 AAAGGA-TGCATCGATGCACTA-CTATGCATCGATGCA
6034814 CATTCAAACA
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
63 2 0.02
64 86 0.97
65 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (63 bp):
AAAGGATGCATCGATGCACTACTATGCATCGATGCATCAAATGCATTCGATGTTATTATTTTA
Found at i:6052009 original size:15 final size:14
Alignment explanation
Indices: 6051984--6052071 Score: 65
Period size: 14 Copynumber: 5.9 Consensus size: 14
6051974 AAGAAGAAAT
6051984 AAAAGAGAAAATGAA
1 AAAAGA-AAAATGAA
6051999 AAAATGAAAAA--AA
1 AAAA-GAAAAATGAA
*
6052012 TAATAATAAAAATGAGA
1 -AA-AAGAAAAATGA-A
*
6052029 AGAAGAAAAA-GAA
1 AAAAGAAAAATGAA
6052042 GAAAAGAAAAATGAGAA
1 -AAAAGAAAAAT--GAA
6052059 AAAAGAAAAATGA
1 AAAAGAAAAATGA
6052072 TGGAAAAAAC
Statistics
Matches: 59, Mismatches: 4, Indels: 21
0.70 0.05 0.25
Matches are distributed among these distances:
13 3 0.05
14 20 0.34
15 17 0.29
16 15 0.25
17 4 0.07
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAAGAAAAATGAA
Found at i:6052012 original size:29 final size:28
Alignment explanation
Indices: 6051980--6052068 Score: 99
Period size: 29 Copynumber: 3.0 Consensus size: 28
6051970 CTTGAAGAAG
6051980 AAATAAAAGAGAAAATGA-AAAAATGAAAA
1 AAATAAAAGA-AAAATGAGAAAAA-GAAAA
* *
6052009 AAATAATAATAAAAATGAGAAGAAGAAAA
1 AAATAA-AAGAAAAATGAGAAAAAGAAAA
*
6052038 AGAAGAAAAGAAAAATGAGAAAAAAGAAAA
1 A-AATAAAAGAAAAATGAG-AAAAAGAAAA
6052068 A
1 A
6052069 TGATGGAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 30 0.59
30 21 0.41
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (28 bp):
AAATAAAAGAAAAATGAGAAAAAGAAAA
Found at i:6052037 original size:14 final size:14
Alignment explanation
Indices: 6052019--6052071 Score: 63
Period size: 16 Copynumber: 3.6 Consensus size: 14
6052009 AAATAATAAT
6052019 AAAAATGAGAAGAAG
1 AAAAATGAGAA-AAG
6052034 AAAAA-GAAGAAAAG
1 AAAAATG-AGAAAAG
6052048 AAAAATGAGAAAAAAG
1 AAAAATGAG--AAAAG
6052064 AAAAATGA
1 AAAAATGA
6052072 TGGAAAAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
14 11 0.32
15 10 0.29
16 13 0.38
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.06
Consensus pattern (14 bp):
AAAAATGAGAAAAG
Found at i:6052078 original size:41 final size:42
Alignment explanation
Indices: 6052033--6052112 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 42
6052023 ATGAGAAGAA
*
6052033 GAAAAAGAAGAAAAG-AAAAATGAGAAAAAA-GAAAAATGATG
1 GAAAAA-AAGAAAAGAAAAAAAGAGAAAAAATGAAAAATGATG
* *
6052074 GAAAAAACGAAAAGAAAAAAAGAGAAAAAATGGAAAATG
1 GAAAAAAAGAAAAGAAAAAAAGAGAAAAAATGAAAAATG
6052113 GAAAATTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 7 0.21
41 20 0.59
42 7 0.21
ACGTcount: A:0.71, C:0.01, G:0.21, T:0.06
Consensus pattern (42 bp):
GAAAAAAAGAAAAGAAAAAAAGAGAAAAAATGAAAAATGATG
Found at i:6052085 original size:19 final size:16
Alignment explanation
Indices: 6052019--6052133 Score: 71
Period size: 15 Copynumber: 7.2 Consensus size: 16
6052009 AAATAATAAT
*
6052019 AAAAATGAG-AAGAAG
1 AAAAATGAGAAAAAAG
*
6052034 AAAAA-GA-AGAAAAG
1 AAAAATGAGAAAAAAG
6052048 AAAAATGAGAAAAAAG
1 AAAAATGAGAAAAAAG
6052064 AAAAATGATGGAAAAAACG
1 AAAAATGA--GAAAAAA-G
*
6052083 -AAAA-GAAAAAAAGAG
1 AAAAATGAGAAAAA-AG
**
6052098 AAAAAATG-GAAAATGG
1 -AAAAATGAGAAAAAAG
* *
6052114 AAAATTGAAGAAAAATG
1 AAAAATG-AGAAAAAAG
6052131 AAA
1 AAA
6052134 GAGAAAAACA
Statistics
Matches: 78, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
14 11 0.14
15 19 0.24
16 16 0.21
17 19 0.24
18 12 0.15
19 1 0.01
ACGTcount: A:0.70, C:0.01, G:0.21, T:0.08
Consensus pattern (16 bp):
AAAAATGAGAAAAAAG
Found at i:6052109 original size:24 final size:25
Alignment explanation
Indices: 6052019--6052110 Score: 66
Period size: 29 Copynumber: 3.5 Consensus size: 25
6052009 AAATAATAAT
*
6052019 AAAAATGAGAAGAAGAAAAAGAAGAAAA
1 AAAAATGAGAA-AAGAAAAA-AAG-AGA
6052047 GAAAAATGAGAAAA-AAGAAAAATGATGGA
1 -AAAAATGAGAAAAGAA-AAAAA-GA--GA
*
6052076 AAAAA--CGAAAAGAAAAAAAGAGA
1 AAAAATGAGAAAAGAAAAAAAGAGA
6052099 AAAAATG-GAAAA
1 AAAAATGAGAAAA
6052111 TGGAAAATTG
Statistics
Matches: 54, Mismatches: 2, Indels: 19
0.72 0.03 0.25
Matches are distributed among these distances:
23 7 0.13
24 5 0.09
25 2 0.04
26 10 0.19
27 7 0.13
28 11 0.20
29 12 0.22
ACGTcount: A:0.73, C:0.01, G:0.21, T:0.05
Consensus pattern (25 bp):
AAAAATGAGAAAAGAAAAAAAGAGA
Found at i:6053603 original size:55 final size:55
Alignment explanation
Indices: 6053534--6054285 Score: 864
Period size: 55 Copynumber: 13.7 Consensus size: 55
6053524 TTTATGAAGA
* * * *
6053534 TCGAGTTCTATACTCTCTAAAGGAATAGAGAGCAGACTCGTTTTATGAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTTATGAAGATTGT
* * *
6053589 TCGAGTTCTATACTCTCTAAAGGAATAGAGAGCGGACTCGTTTTATGAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTTATGAAGATTGT
* * * *
6053644 TCGAGTTCTATACTCTCTAAAGGAATAGAGAGCGGACCCGCTTTATGAAGATTCT
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTTATGAAGATTGT
* *
6053699 TCGAGTTCTATACTCTCTGAAGAAATAGAGAGCGGACCCGTTTTATGAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTTATGAAGATTGT
* *
6053754 TCGAGTTCTATACTCTCTGAAGAAATAGAGAGCGGACCCGTTTTATGAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTTATGAAGATTGT
* * * *
6053809 TCGAGTTCTATACTCCCTGAATGAATAGGGAGCGGACACATTTGT-TGAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTT-TATGAAGATTGT
* *
6053864 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTAT
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTTATGAAGATTGT
* *
6053919 TCGAGTTCTATACTCCCTGAACGAATAGGGAGCGGACCCGTTTGT-TGAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTT-TATGAAGATTGT
* * *
6053974 TCGAGTTCTATACTCCCTGAACGAATAGGGAGCGGACCCG-TTTATTGAAGATTGA
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTTA-TGAAGATTGT
*
6054029 TCGAG-TCTTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGT-TGAAGA----
1 TCGAGTTC-TATACTCTCTGAAGGAATAGGGAGCGGACCCGTTT-TATGAAGATTGT
* * * * * * *
6054080 TCAAGTCCTATACTCTCTGAAGAAATAGGGAGCAGACACATTTGT-TAAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTT-TATGAAGATTGT
* * * * * * *
6054135 TTGAGTCCTATACTCTCTGAAGAAATAGGGATCGGACGCGTTTTTTTTAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCG-TTTTATGAAGATTGT
* ** * * ***
6054191 TCGAG-TCTTATACTCCCTGACTGAATAGGGAGCAGACACGTTTGCCGAAGATTGT
1 TCGAGTTC-TATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTTATGAAGATTGT
* *
6054246 TCGAG-TCTTATACTC-CTTGAAAGAATAGGGAGCAGACCCG
1 TCGAGTTC-TATACTCTC-TGAAGGAATAGGGAGCGGACCCG
6054286 CCATTTGAAG
Statistics
Matches: 623, Mismatches: 57, Indels: 34
0.87 0.08 0.05
Matches are distributed among these distances:
51 43 0.07
52 1 0.00
53 1 0.00
54 6 0.01
55 526 0.84
56 45 0.07
57 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (55 bp):
TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTTATGAAGATTGT
Found at i:6057285 original size:19 final size:18
Alignment explanation
Indices: 6057253--6057295 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
6057243 TGTTATTTCA
*
6057253 AAATTTTATGTTATATAT
1 AAATTTTATGTTATAAAT
6057271 ATAATTTTACT-TTATAAAT
1 A-AATTTTA-TGTTATAAAT
6057290 AAATTT
1 AAATTT
6057296 CTTAAAGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 6 0.27
19 15 0.68
20 1 0.05
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (18 bp):
AAATTTTATGTTATAAAT
Found at i:6071163 original size:2 final size:2
Alignment explanation
Indices: 6071156--6071184 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6071146 ACTATGATCT
6071156 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6071185 GGAAGTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6088970 original size:14 final size:14
Alignment explanation
Indices: 6088951--6088979 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6088941 ATGAAGATGG
6088951 ATTGCGAAATTACA
1 ATTGCGAAATTACA
6088965 ATTGCGAAATTACA
1 ATTGCGAAATTACA
6088979 A
1 A
6088980 CACAATGTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (14 bp):
ATTGCGAAATTACA
Found at i:6099927 original size:21 final size:21
Alignment explanation
Indices: 6099901--6099940 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6099891 CCCCCTTTGA
*
6099901 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
6099922 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
6099941 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:6103928 original size:20 final size:20
Alignment explanation
Indices: 6103900--6103944 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
6103890 GTTTGTTAGC
* *
6103900 AGTTAAGGTTGTTATTGTTT
1 AGTTAAGGTTGTTAATGGTT
*
6103920 AGTTGAGGTTGTTAATGGTT
1 AGTTAAGGTTGTTAATGGTT
6103940 AGTTA
1 AGTTA
6103945 CAAAGTCCGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (20 bp):
AGTTAAGGTTGTTAATGGTT
Found at i:6105284 original size:36 final size:36
Alignment explanation
Indices: 6105237--6105377 Score: 194
Period size: 36 Copynumber: 3.9 Consensus size: 36
6105227 TGATGAAGAA
*
6105237 GAACGAAAGGAAGCATCGGCACTTTTGATTCAAAGT
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
* * *
6105273 GAACGGAAGGAAGCATCGACACTTTCGATTC-AAGAA
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAG-T
*
6105309 GAACGAAAGAAAGCATCGGCACTTTCGATTCAAAGT
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
* * *
6105345 GAACGGAATGAAACATCGGCACTTTCGATTCAA
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAA
6105378 TTGTTCATCT
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
35 3 0.03
36 85 0.93
37 3 0.03
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (36 bp):
GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
Found at i:6105349 original size:72 final size:72
Alignment explanation
Indices: 6105232--6105377 Score: 247
Period size: 72 Copynumber: 2.0 Consensus size: 72
6105222 GAAGGTGATG
* * *
6105232 AAGAAGAACGAAAGGAAGCATCGGCACTTTTGATTCAAAGTGAACGGAAGGAAGCATCGACACTT
1 AAGAAGAACGAAAGAAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAACATCGACACTT
6105297 TCGATTC
66 TCGATTC
* *
6105304 AAGAAGAACGAAAGAAAGCATCGGCACTTTCGATTCAAAGTGAACGGAATGAAACATCGGCACTT
1 AAGAAGAACGAAAGAAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAACATCGACACTT
6105369 TCGATTC
66 TCGATTC
6105376 AA
1 AA
6105378 TTGTTCATCT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.19
Consensus pattern (72 bp):
AAGAAGAACGAAAGAAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAACATCGACACTT
TCGATTC
Found at i:6109980 original size:42 final size:42
Alignment explanation
Indices: 6109859--6109985 Score: 184
Period size: 42 Copynumber: 3.0 Consensus size: 42
6109849 CAGGCGCACA
** * **
6109859 ATTTCTAGACTTCTCA-TTCAAGAACTTGGATGAGGAGAAGGC
1 ATTTCTAGACTTCTCACTTGGA-AACTTGGATGAAGAGTGGGC
6109901 ATTTCTAGACTTCTCACTTGGAAACTTGGATGAAGAGTGGGC
1 ATTTCTAGACTTCTCACTTGGAAACTTGGATGAAGAGTGGGC
*
6109943 TTTTCTAGACTTCTCACTTGGAAACTTGGATGAAGAGTGGGC
1 ATTTCTAGACTTCTCACTTGGAAACTTGGATGAAGAGTGGGC
6109985 A
1 A
6109986 GGACAAAGCA
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 74 0.96
43 3 0.04
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (42 bp):
ATTTCTAGACTTCTCACTTGGAAACTTGGATGAAGAGTGGGC
Found at i:6119532 original size:37 final size:37
Alignment explanation
Indices: 6119474--6119593 Score: 156
Period size: 35 Copynumber: 3.3 Consensus size: 37
6119464 TCTCATTATC
* *
6119474 ATTTTTC-AACAAACATCTACCAAACTTTGAAAAACT
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACT
6119510 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAAC-
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACT
* * *
6119546 A-TTTTCAAAGAAATATTTATCAAACTTTGAAAACCAT
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAAC-T
*
6119583 TTTTTTCAAAG
1 ATTTTTCAAAG
6119594 TTGGTTACCA
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
35 31 0.42
36 8 0.11
37 26 0.35
38 9 0.12
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (37 bp):
ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACT
Found at i:6120072 original size:26 final size:26
Alignment explanation
Indices: 6120042--6120120 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 26
6120032 GTGGAGAGAG
6120042 CAACTATATTCTGTAGTTGAGAAACC
1 CAACTATATTCTGTAGTTGAGAAACC
* * * * *
6120068 CAACT-CA--CTGTTGTGGAGAGA-G
1 CAACTATATTCTGTAGTTGAGAAACC
6120090 CAACTATATTCTGTAGTTGAGAAACC
1 CAACTATATTCTGTAGTTGAGAAACC
6120116 CAACT
1 CAACT
6120121 CACTGCGGTT
Statistics
Matches: 39, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
22 5 0.13
23 12 0.31
25 12 0.31
26 10 0.26
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (26 bp):
CAACTATATTCTGTAGTTGAGAAACC
Found at i:6120100 original size:48 final size:48
Alignment explanation
Indices: 6120029--6120125 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
6120019 TTCTGCTTCA
6120029 GTTGTGGAGAGAGCAACTATATTCTGTAGTTGAGAAACCCAACTCACT
1 GTTGTGGAGAGAGCAACTATATTCTGTAGTTGAGAAACCCAACTCACT
6120077 GTTGTGGAGAGAGCAACTATATTCTGTAGTTGAGAAACCCAACTCACT
1 GTTGTGGAGAGAGCAACTATATTCTGTAGTTGAGAAACCCAACTCACT
6120125 G
1 G
6120126 CGGTTCTTCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (48 bp):
GTTGTGGAGAGAGCAACTATATTCTGTAGTTGAGAAACCCAACTCACT
Found at i:6120111 original size:25 final size:25
Alignment explanation
Indices: 6120035--6120111 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
6120025 TTCAGTTGTG
6120035 GAGAGAGCAACTATATTCTGTAGTT
1 GAGAGAGCAACTATATTCTGTAGTT
* * * * *
6120060 GAGAAACCCAACT-CA--CTGTTGTG
1 GAGAGA-GCAACTATATTCTGTAGTT
6120083 GAGAGAGCAACTATATTCTGTAGTT
1 GAGAGAGCAACTATATTCTGTAGTT
6120108 GAGA
1 GAGA
6120112 AACCCAACTC
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
22 5 0.13
23 12 0.32
25 16 0.42
26 5 0.13
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (25 bp):
GAGAGAGCAACTATATTCTGTAGTT
Found at i:6124206 original size:37 final size:37
Alignment explanation
Indices: 6124148--6124267 Score: 147
Period size: 35 Copynumber: 3.3 Consensus size: 37
6124138 TCCCATTATC
* *
6124148 ATTTTTC-AACAAACATCTACCAAACTTTGAAAAACT
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACT
6124184 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAAC-
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACT
* * * *
6124220 A-TTTTCAAAAAAATATTTACTAAACTTTGAAAACCAT
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAAC-T
*
6124257 TTTTTTCAAAG
1 ATTTTTCAAAG
6124268 TTGGTTACCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
35 30 0.42
36 8 0.11
37 26 0.36
38 8 0.11
ACGTcount: A:0.45, C:0.17, G:0.04, T:0.34
Consensus pattern (37 bp):
ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACT
Found at i:6125686 original size:19 final size:19
Alignment explanation
Indices: 6125662--6125747 Score: 82
Period size: 19 Copynumber: 4.2 Consensus size: 19
6125652 GCGATTTTGA
*
6125662 AAAATGTGTTGCGATAGTT
1 AAAATGTGTTGCGATAGTG
*
6125681 AAAATGTGTTGCGAGAGTTTG
1 AAAATGTGTTGCGATAG--TG
6125702 AAAAACATGTTGTTGCGATAGTG
1 --AAA-ATG-TGTTGCGATAGTG
**
6125725 AAAAAATGTTGCGATAGTG
1 AAAATGTGTTGCGATAGTG
6125744 AAAA
1 AAAA
6125748 ATCCAAAATA
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
19 33 0.59
20 1 0.02
21 4 0.07
23 5 0.09
24 3 0.05
25 10 0.18
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.30
Consensus pattern (19 bp):
AAAATGTGTTGCGATAGTG
Found at i:6125735 original size:44 final size:41
Alignment explanation
Indices: 6125657--6125738 Score: 110
Period size: 44 Copynumber: 1.9 Consensus size: 41
6125647 GCAACGCGAT
* **
6125657 TTTGAAAAATGTGTTGCGATAGTTAAAATGTGTTGCGAGAG
1 TTTGAAAAATGTGTTGCGATAGTGAAAAAATGTTGCGAGAG
6125698 TTTGAAAAACATGTTGTTGCGATAGTGAAAAAATGTTGCGA
1 TTTG-AAAA-ATG-TGTTGCGATAGTGAAAAAATGTTGCGA
6125739 TAGTGAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
41 4 0.11
42 4 0.11
43 3 0.09
44 24 0.69
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (41 bp):
TTTGAAAAATGTGTTGCGATAGTGAAAAAATGTTGCGAGAG
Found at i:6126185 original size:21 final size:21
Alignment explanation
Indices: 6126161--6126268 Score: 98
Period size: 21 Copynumber: 5.3 Consensus size: 21
6126151 AATTTGGAAA
6126161 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * **
6126182 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
* *
6126201 ATCGCAACGTGAACTTGGACT
1 ATCGCAACGCGAACTTCGACT
* * **
6126222 ATCGCAA--CGAATTTAGAAA
1 ATCGCAACGCGAACTTCGACT
6126241 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
6126262 ATCGCAA
1 ATCGCAA
6126269 AATCGCGTTG
Statistics
Matches: 66, Mismatches: 17, Indels: 8
0.73 0.19 0.09
Matches are distributed among these distances:
19 29 0.44
21 37 0.56
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:6126204 original size:19 final size:19
Alignment explanation
Indices: 6126149--6126249 Score: 94
Period size: 19 Copynumber: 5.1 Consensus size: 19
6126139 CCAGTCGTTG
6126149 CGAATTTGGAAAATCGCAA
1 CGAATTTGGAAAATCGCAA
* * **
6126168 CGCGAACTTCGACTATCGCAA
1 --CGAATTTGGAAAATCGCAA
6126189 CGAATTTGGAAAATCGCAA
1 CGAATTTGGAAAATCGCAA
* **
6126208 CGTGAACTTGGACTATCGCAA
1 C--GAATTTGGAAAATCGCAA
*
6126229 CGAATTTAGAAAATCGCAA
1 CGAATTTGGAAAATCGCAA
6126248 CG
1 CG
6126250 CGAACTTCGA
Statistics
Matches: 63, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
19 32 0.51
21 31 0.49
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (19 bp):
CGAATTTGGAAAATCGCAA
Found at i:6126204 original size:40 final size:40
Alignment explanation
Indices: 6126149--6126268 Score: 213
Period size: 40 Copynumber: 3.0 Consensus size: 40
6126139 CCAGTCGTTG
6126149 CGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAA
1 CGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAA
* *
6126189 CGAATTTGGAAAATCGCAACGTGAACTTGGACTATCGCAA
1 CGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAA
*
6126229 CGAATTTAGAAAATCGCAACGCGAACTTCGACTATCGCAA
1 CGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAA
6126269 AATCGCGTTG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (40 bp):
CGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAA
Found at i:6126848 original size:17 final size:17
Alignment explanation
Indices: 6126826--6126861 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
6126816 ATCATTACCT
6126826 AAACTC-ATTAATATTTA
1 AAACTCAATTAAT-TTTA
6126843 AAACTCAATTAATTTTA
1 AAACTCAATTAATTTTA
6126860 AA
1 AA
6126862 CACAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (17 bp):
AAACTCAATTAATTTTA
Found at i:6140412 original size:17 final size:18
Alignment explanation
Indices: 6140374--6140412 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
6140364 AATTAATAAA
6140374 AAATATATTAAAAATATT
1 AAATATATTAAAAATATT
* *
6140392 AAATATA-TAATAATTTT
1 AAATATATTAAAAATATT
6140409 AAAT
1 AAAT
6140413 TTTCATACGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATATATTAAAAATATT
Found at i:6143613 original size:21 final size:21
Alignment explanation
Indices: 6143587--6143802 Score: 205
Period size: 21 Copynumber: 10.4 Consensus size: 21
6143577 CCAGATTCGT
*
6143587 AATGCGAACTTCGACTATTGC
1 AATGCGAACTTCGACTATCGC
*
6143608 AATGCGAACTTCGATTATCGC
1 AATGCGAACTTCGACTATCGC
* * *
6143629 AATGCGAATTTGGACTATTGC
1 AATGCGAACTTCGACTATCGC
*
6143650 AATGCGAA-TAT-GTA-AATCGC
1 AATGCGAACT-TCG-ACTATCGC
* *
6143670 AATGCTATA-GTCGACTATCGC
1 AATGCGA-ACTTCGACTATCGC
*
6143691 AATGCGAACTTGGACTATCGC
1 AATGCGAACTTCGACTATCGC
*
6143712 AACGCGAACTTCGACTATCGC
1 AATGCGAACTTCGACTATCGC
*
6143733 AATGCGAA-TAT-GTA-AATCGC
1 AATGCGAACT-TCG-ACTATCGC
*
6143753 AATGCGATA-GTCGACTATCGC
1 AATGCGA-ACTTCGACTATCGC
*
6143774 AATGCGAACTTGGACTATCGC
1 AATGCGAACTTCGACTATCGC
6143795 AATGCGAA
1 AATGCGAA
6143803 TATGTAAATC
Statistics
Matches: 161, Mismatches: 22, Indels: 24
0.78 0.11 0.12
Matches are distributed among these distances:
20 32 0.20
21 129 0.80
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (21 bp):
AATGCGAACTTCGACTATCGC
Found at i:6143686 original size:41 final size:41
Alignment explanation
Indices: 6143624--6143781 Score: 187
Period size: 41 Copynumber: 3.8 Consensus size: 41
6143614 AACTTCGATT
* * *
6143624 ATCGCAATGCGA-ATTTGGACTATTGCAATGCGAATATGTAA
1 ATCGCAATGCGATA-GTCGACTATCGCAATGCGAATATGTAA
* * *
6143665 ATCGCAATGCTATAGTCGACTATCGCAATGCGAACT-TGGACT
1 ATCGCAATGCGATAGTCGACTATCGCAATGCGAA-TATGTA-A
* *
6143707 ATCGCAACGCGA-ACTTCGACTATCGCAATGCGAATATGTAA
1 ATCGCAATGCGATA-GTCGACTATCGCAATGCGAATATGTAA
6143748 ATCGCAATGCGATAGTCGACTATCGCAATGCGAA
1 ATCGCAATGCGATAGTCGACTATCGCAATGCGAA
6143782 CTTGGACTAT
Statistics
Matches: 98, Mismatches: 13, Indels: 12
0.80 0.11 0.10
Matches are distributed among these distances:
41 63 0.64
42 35 0.36
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (41 bp):
ATCGCAATGCGATAGTCGACTATCGCAATGCGAATATGTAA
Found at i:6143728 original size:83 final size:83
Alignment explanation
Indices: 6143597--6143802 Score: 340
Period size: 83 Copynumber: 2.5 Consensus size: 83
6143587 AATGCGAACT
* * * * * *
6143597 TCGACTATTGCAATGCGAACTTCGATTATCGCAATGCGAATTTGGACTATTGCAATGCGAATATG
1 TCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATG
*
6143662 TAAATCGCAATGCTATAG
66 TAAATCGCAATGCGATAG
*
6143680 TCGACTATCGCAATGCGAACTTGGACTATCGCAACGCGAACTTCGACTATCGCAATGCGAATATG
1 TCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATG
6143745 TAAATCGCAATGCGATAG
66 TAAATCGCAATGCGATAG
6143763 TCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAA
1 TCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAA
6143803 TATGTAAATC
Statistics
Matches: 114, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 114 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (83 bp):
TCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATG
TAAATCGCAATGCGATAG
Found at i:6143814 original size:41 final size:42
Alignment explanation
Indices: 6143600--6143821 Score: 178
Period size: 41 Copynumber: 5.4 Consensus size: 42
6143590 GCGAACTTCG
* * * * *
6143600 ACTATTGCAATGCGAACTTCGATTATCGCAATGCGAATTTGG
1 ACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGT
* * * *
6143642 ACTATTGCAATGCGAA-TATGTA-AATCGCAATGC-TATA-GT
1 ACTATCGCAATGCGAACT-TGGACTATCGCAATGCGAATATGT
*
6143681 CGACTATCGCAATGCGAACTTGGACTATCGCAACGCGAACT-TCG-
1 --ACTATCGCAATGCGAACTTGGACTATCGCAATGCGAA-TAT-GT
* *
6143725 ACTATCGCAATGCGAA-TATGTA-AATCGCAATGCG-ATA-GT
1 ACTATCGCAATGCGAACT-TGGACTATCGCAATGCGAATATGT
6143764 CGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGT
1 --ACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGT
*
6143808 A-AATCGCAATGCGA
1 ACTATCGCAATGCGA
6143822 TAGTCGAAGT
Statistics
Matches: 145, Mismatches: 17, Indels: 37
0.73 0.09 0.19
Matches are distributed among these distances:
38 1 0.01
39 2 0.01
40 3 0.02
41 71 0.49
42 60 0.41
43 4 0.03
44 3 0.02
45 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (42 bp):
ACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGT
Found at i:6143842 original size:62 final size:62
Alignment explanation
Indices: 6143686--6143828 Score: 234
Period size: 62 Copynumber: 2.3 Consensus size: 62
6143676 ATAGTCGACT
* * *
6143686 ATCGCAATGCGA-ACTTGGACTATCGCAACGCGAACTTCGACTATCGCAATGCGAATATGTAA
1 ATCGCAATGCGATA-GTCGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAA
*
6143748 ATCGCAATGCGATAGTCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAA
1 ATCGCAATGCGATAGTCGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAA
6143810 ATCGCAATGCGATAGTCGA
1 ATCGCAATGCGATAGTCGA
6143829 AGTTCGCGTT
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
62 75 0.99
63 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.23
Consensus pattern (62 bp):
ATCGCAATGCGATAGTCGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAA
Found at i:6143899 original size:20 final size:20
Alignment explanation
Indices: 6143874--6143925 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
6143864 TAGTCGACTA
6143874 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
6143894 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
6143914 TCGCATTGCGAT
1 TCGCATTGCGAT
6143926 AGTCCAAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:6143963 original size:40 final size:41
Alignment explanation
Indices: 6143893--6143986 Score: 129
Period size: 40 Copynumber: 2.3 Consensus size: 41
6143883 GATTTACATA
* *
6143893 TTCGCATTGCGA-TTTACATATTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATTTTACAAATTCG-ATTGCGATAGTCCAAG
* *
6143934 TTCGCGTTGCGATTTTCCAAATTCG-TTGCGATAGTCGAAG
1 TTCGCGTTGCGATTTTACAAATTCGATTGCGATAGTCCAAG
6143974 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
6143987 AGTCCAAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
40 27 0.56
41 11 0.23
42 10 0.21
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.35
Consensus pattern (41 bp):
TTCGCGTTGCGATTTTACAAATTCGATTGCGATAGTCCAAG
Found at i:6143978 original size:61 final size:60
Alignment explanation
Indices: 6143835--6143993 Score: 164
Period size: 61 Copynumber: 2.6 Consensus size: 60
6143825 TCGAAGTTCG
* *
6143835 CGTTGCGATAGTTCAAGTTCGCATTGCGATAGT-CGACTATCGCATTGCGATTTACATATT
1 CGTTGCGATAG-TCAAGTTCGCATTGCGATAGTCCAACTATCGCATTGCGATTTACAAATT
* * * *
6143895 CGCATTGCGAT-TTACATA-TTCGCATTGCGATAGTCCAAGT-TCGCGTTGCGATTTTCCAAATT
1 CG--TTGCGATAGT-CA-AGTTCGCATTGCGATAGTCCAACTATCGCATTGCGA-TTTACAAATT
*
6143957 CGTTGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAA
1 CGTTGCGATAGTC-AAGTTCGCATTGCGATAGTCCAA
6143994 AATCGCAACG
Statistics
Matches: 82, Mismatches: 8, Indels: 17
0.77 0.07 0.16
Matches are distributed among these distances:
60 12 0.15
61 49 0.60
62 21 0.26
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (60 bp):
CGTTGCGATAGTCAAGTTCGCATTGCGATAGTCCAACTATCGCATTGCGATTTACAAATT
Found at i:6143993 original size:40 final size:40
Alignment explanation
Indices: 6143919--6143994 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
6143909 CATATTCGCA
**
6143919 TTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAATTCG
*
6143959 TTGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAA
1 TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAA
6143995 ATCGCAACGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (40 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAATTCG
Found at i:6143999 original size:21 final size:21
Alignment explanation
Indices: 6143811--6144000 Score: 138
Period size: 21 Copynumber: 9.2 Consensus size: 21
6143801 AATATGTAAA
* * *
6143811 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAAT
* * *
6143832 TCGCGTTGCGATAGTTCAAGT
1 TCGCATTGCGATAGTCCAAAT
* *
6143853 TCGCATTGCGATAGT-CGACT
1 TCGCATTGCGATAGTCCAAAT
* * *
6143873 ATCGCATTGCGAT-TTACATAT
1 -TCGCATTGCGATAGTCCAAAT
* * *
6143894 TCGCATTGCGAT-TTACATAT
1 TCGCATTGCGATAGTCCAAAT
*
6143914 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAAT
* **
6143935 TCGCGTTGCGATTTTCCAAAT
1 TCGCATTGCGATAGTCCAAAT
* *
6143956 TCG--TTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAAT
* *
6143975 TCGCGTTGCGATAGTCCAAAA
1 TCGCATTGCGATAGTCCAAAT
6143996 TCGCA
1 TCGCA
6144001 ACGACTGGTG
Statistics
Matches: 137, Mismatches: 27, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
19 15 0.11
20 36 0.26
21 86 0.63
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.32
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAAT
Found at i:6144589 original size:5 final size:5
Alignment explanation
Indices: 6144579--6144631 Score: 79
Period size: 5 Copynumber: 10.2 Consensus size: 5
6144569 GCGCCGCCGC
*
6144579 CGTCT CGTCT CGTCT CGTCGT CCGTCT CGTCT TGTCT CGTCT CGTCT CGTCT
1 CGTCT CGTCT CGTCT CGTC-T -CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT
6144631 C
1 C
6144632 ATGTCGTGGT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
5 38 0.86
6 2 0.05
7 4 0.09
ACGTcount: A:0.00, C:0.40, G:0.21, T:0.40
Consensus pattern (5 bp):
CGTCT
Found at i:6144603 original size:22 final size:21
Alignment explanation
Indices: 6144578--6144631 Score: 83
Period size: 22 Copynumber: 2.6 Consensus size: 21
6144568 TGCGCCGCCG
6144578 CCGTCTCGTCTCGTCTCGTCGT
1 CCGTCTCGTCTCGTCTCGTC-T
*
6144600 CCGTCTCGTCTTGTCTCGTCT
1 CCGTCTCGTCTCGTCTCGTCT
6144621 -CGTCTCGTCTC
1 CCGTCTCGTCTC
6144632 ATGTCGTGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 10 0.33
21 1 0.03
22 19 0.63
ACGTcount: A:0.00, C:0.41, G:0.20, T:0.39
Consensus pattern (21 bp):
CCGTCTCGTCTCGTCTCGTCT
Found at i:6144638 original size:15 final size:15
Alignment explanation
Indices: 6144579--6144638 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
6144569 GCGCCGCCGC
*
6144579 CGTCTCGTCTCGTCT
1 CGTCTCATCTCGTCT
*
6144594 CGTCGTCCGTCTCGTCT
1 CGTC-T-CATCTCGTCT
* *
6144611 TGTCTCGTCTCGTCT
1 CGTCTCATCTCGTCT
*
6144626 CGTCTCATGTCGT
1 CGTCTCATCTCGT
6144639 GGTCGTGGTC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
15 24 0.62
16 2 0.05
17 13 0.33
ACGTcount: A:0.02, C:0.37, G:0.22, T:0.40
Consensus pattern (15 bp):
CGTCTCATCTCGTCT
Found at i:6144771 original size:21 final size:21
Alignment explanation
Indices: 6144746--6144901 Score: 135
Period size: 21 Copynumber: 7.4 Consensus size: 21
6144736 ATTTTGGACT
6144746 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
6144767 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
*
6144788 ATCACAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
6144809 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
*
6144830 ATCACAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
6144851 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
*
6144872 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
6144893 ATCGCAACG
1 ATCGCAACG
6144902 CGGACTTCGA
Statistics
Matches: 106, Mismatches: 17, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
19 29 0.27
21 47 0.44
23 30 0.28
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (21 bp):
ATCGCAACGAACTTGGAATAA
Found at i:6144917 original size:21 final size:21
Alignment explanation
Indices: 6144742--6144926 Score: 125
Period size: 21 Copynumber: 8.8 Consensus size: 21
6144732 TGCAATTTTG
*
6144742 GACTATCGCAA--CGAACTTG
1 GACTATCGCAACGCGAACTTC
*
6144761 GAATAAATCGCAACGCGAACTTC
1 GACT--ATCGCAACGCGAACTTC
* *
6144784 GACTATCACAA--CGAACTTG
1 GACTATCGCAACGCGAACTTC
*
6144803 GAATAAATCGCAACGCGAACTTC
1 GACT--ATCGCAACGCGAACTTC
* *
6144826 GACTATCACAA--CGAACTTG
1 GACTATCGCAACGCGAACTTC
*
6144845 GAATAAATCGCAACGCGAACTTC
1 GACT--ATCGCAACGCGAACTTC
* *
6144868 GACTATCGCAA--CGAATTTG
1 GACTATCGCAACGCGAACTTC
* *
6144887 GAATAAATCGCAACGCGGACTTC
1 GACT--ATCGCAACGCGAACTTC
*
6144910 GACTATCGCAATGCGAA
1 GACTATCGCAACGCGAA
6144927 TATGTAAATC
Statistics
Matches: 126, Mismatches: 24, Indels: 30
0.70 0.13 0.17
Matches are distributed among these distances:
19 32 0.25
21 56 0.44
23 38 0.30
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.19
Consensus pattern (21 bp):
GACTATCGCAACGCGAACTTC
Found at i:6144917 original size:42 final size:42
Alignment explanation
Indices: 6144742--6144920 Score: 322
Period size: 42 Copynumber: 4.3 Consensus size: 42
6144732 TGCAATTTTG
6144742 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
6144784 GACTATCACAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
6144826 GACTATCACAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
6144868 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGGACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
6144910 GACTATCGCAA
1 GACTATCGCAA
6144921 TGCGAATATG
Statistics
Matches: 133, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 133 1.00
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
Found at i:6147390 original size:12 final size:13
Alignment explanation
Indices: 6147367--6147395 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
6147357 ATTTTTGGTT
6147367 ATTTAGTTTTTTA
1 ATTTAGTTTTTTA
6147380 ATTTA-TTTTTTA
1 ATTTAGTTTTTTA
6147392 ATTT
1 ATTT
6147396 TTTAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.72
Consensus pattern (13 bp):
ATTTAGTTTTTTA
Found at i:6150055 original size:16 final size:17
Alignment explanation
Indices: 6150027--6150063 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
6150017 TTGTATTTAG
6150027 TAATTATTTTAAATATT
1 TAATTATTTTAAATATT
*
6150044 TAATTA-TTTAAATTTT
1 TAATTATTTTAAATATT
6150060 TAAT
1 TAAT
6150064 AAATATCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TAATTATTTTAAATATT
Found at i:6151164 original size:21 final size:21
Alignment explanation
Indices: 6151138--6151178 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6151128 GATGTTATGG
* *
6151138 ATTTATGATTTAGGGTTTAAT
1 ATTTATAATTTAAGGTTTAAT
6151159 ATTTATAATTTAAGGTTTAA
1 ATTTATAATTTAAGGTTTAA
6151179 GTTAAGGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (21 bp):
ATTTATAATTTAAGGTTTAAT
Found at i:6152885 original size:16 final size:16
Alignment explanation
Indices: 6152860--6152900 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
6152850 ATAGAACCTC
*
6152860 TGAATCATTTAATATT
1 TGAATCATTTAACATT
*
6152876 TGAATTATTTAACATT
1 TGAATCATTTAACATT
*
6152892 TAAATCATT
1 TGAATCATT
6152901 CAGCGCTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (16 bp):
TGAATCATTTAACATT
Found at i:6153261 original size:2 final size:2
Alignment explanation
Indices: 6153254--6153292 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
6153244 TTATTATTAT
6153254 TA TA TA TA T- TA T- TA T- TA T- 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
6153292 T
1 T
6153293 GAATTTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
1 4 0.12
2 29 0.88
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:6153267 original size:18 final size:18
Alignment explanation
Indices: 6153244--6153280 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
6153234 CACTATCCCC
6153244 TTATTATTATTATATATA
1 TTATTATTATTATATATA
6153262 TTATTATTATTATATATA
1 TTATTATTATTATATATA
6153280 T
1 T
6153281 ATATATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATTATTATTATATATA
Found at i:6161208 original size:32 final size:33
Alignment explanation
Indices: 6161150--6161225 Score: 109
Period size: 32 Copynumber: 2.3 Consensus size: 33
6161140 CCAACACGCT
* *
6161150 GGGCATCCGAGGCCATCCGAGCGAGCTATGCAA
1 GGGCATCCGAGGCCAGCCGAGAGAGCTATGCAA
* *
6161183 GGGCATTCGAGG-CAGCCGAGAGAGCTATGCGA
1 GGGCATCCGAGGCCAGCCGAGAGAGCTATGCAA
6161215 GGGCATCCGAG
1 GGGCATCCGAG
6161226 CGAGCGAGCA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
32 27 0.71
33 11 0.29
ACGTcount: A:0.24, C:0.26, G:0.38, T:0.12
Consensus pattern (33 bp):
GGGCATCCGAGGCCAGCCGAGAGAGCTATGCAA
Found at i:6161264 original size:17 final size:17
Alignment explanation
Indices: 6161242--6161276 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
6161232 AGCAAGGGTA
*
6161242 GGTCGCCTGGAGAGCAT
1 GGTCGCCCGGAGAGCAT
6161259 GGTCGCCCGGAGAGCAT
1 GGTCGCCCGGAGAGCAT
6161276 G
1 G
6161277 ACGACCTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.26, G:0.43, T:0.14
Consensus pattern (17 bp):
GGTCGCCCGGAGAGCAT
Found at i:6163027 original size:30 final size:30
Alignment explanation
Indices: 6162993--6163061 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
6162983 TTATATGAGT
* *
6162993 TATGTGATAAAGTTAT-AGAAATGATATGTC
1 TATGTGATAAAGGTATGA-AAATAATATGTC
*
6163023 TATGTGATAAAGGTATGAAAATAATATGTT
1 TATGTGATAAAGGTATGAAAATAATATGTC
*
6163053 TACGTGATA
1 TATGTGATA
6163062 CAAATTATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 33 0.97
31 1 0.03
ACGTcount: A:0.41, C:0.03, G:0.20, T:0.36
Consensus pattern (30 bp):
TATGTGATAAAGGTATGAAAATAATATGTC
Found at i:6163306 original size:23 final size:23
Alignment explanation
Indices: 6163276--6163343 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
6163266 ATTATTATAT
6163276 GGCACTCCGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTCTACGC
*
6163299 GGCACTCCGGTGCAATTCTACGT
1 GGCACTCCGGTGCAATTCTACGC
* * * *
6163322 AGCACTTCTGTGCAATTATACG
1 GGCACTCCGGTGCAATTCTACG
6163344 AGCTGTGGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (23 bp):
GGCACTCCGGTGCAATTCTACGC
Found at i:6164463 original size:142 final size:143
Alignment explanation
Indices: 6164225--6164510 Score: 565
Period size: 142 Copynumber: 2.0 Consensus size: 143
6164215 CCTAATTACC
6164225 ACTAAAGTCACTCAATTAACTCTCTCTTAATTTTTCTTTCCTTGAAGAATAATAATATTTTATTT
1 ACTAAAGTCACTCAATTAACTCTCTCTTAATTTTTCTTTCCTTGAAGAATAATAATATTTTATTT
6164290 TATTATGGTTGGTCCAAGCTTTAATCAACTTGTTAGAAATTAATCAATCTTAGCTAAATATTTAT
66 TATTATGGTTGGTCCAAGCTTTAATCAACTTGTTAGAAATTAATCAATCTTAGCTAAATATTTAT
6164355 TTAATCATTAAAT
131 TTAATCATTAAAT
6164368 ACTAAAGTCACTCAATTAACTCTCTCTTAA-TTTTCTTTCCTTGAAGAATAATAATATTTTATTT
1 ACTAAAGTCACTCAATTAACTCTCTCTTAATTTTTCTTTCCTTGAAGAATAATAATATTTTATTT
6164432 TATTATGGTTGGTCCAAGCTTTAATCAACTTGTTAGAAATTAATCAATCTTAGCTAAATATTTAT
66 TATTATGGTTGGTCCAAGCTTTAATCAACTTGTTAGAAATTAATCAATCTTAGCTAAATATTTAT
6164497 TTAATCATTAAAT
131 TTAATCATTAAAT
6164510 A
1 A
6164511 ATTACAAATA
Statistics
Matches: 143, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
142 113 0.79
143 30 0.21
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.44
Consensus pattern (143 bp):
ACTAAAGTCACTCAATTAACTCTCTCTTAATTTTTCTTTCCTTGAAGAATAATAATATTTTATTT
TATTATGGTTGGTCCAAGCTTTAATCAACTTGTTAGAAATTAATCAATCTTAGCTAAATATTTAT
TTAATCATTAAAT
Found at i:6165262 original size:19 final size:19
Alignment explanation
Indices: 6165233--6165282 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
6165223 TATTTTCAAA
*
6165233 TTCAAAACACAATATTAAT
1 TTCACAACACAATATTAAT
*
6165252 TTTACAACACAATATTAAT
1 TTCACAACACAATATTAAT
6165271 TTCACAACACAA
1 TTCACAACACAA
6165283 ATGTAAACAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (19 bp):
TTCACAACACAATATTAAT
Found at i:6165790 original size:19 final size:20
Alignment explanation
Indices: 6165768--6165806 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6165758 ATCGCAACGT
6165768 GATTTT-AGTTTCGCGTTGC
1 GATTTTCAGTTTCGCGTTGC
*
6165787 GATTTTCATTTTCGCGTTGC
1 GATTTTCAGTTTCGCGTTGC
6165807 AAATTTAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.10, C:0.18, G:0.23, T:0.49
Consensus pattern (20 bp):
GATTTTCAGTTTCGCGTTGC
Found at i:6165819 original size:20 final size:20
Alignment explanation
Indices: 6165769--6165819 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
6165759 TCGCAACGTG
* *
6165769 ATTTTAGTTTCGCGTTGCGA
1 ATTTAAGTTTCGCGTTGCAA
* * *
6165789 TTTTCATTTTCGCGTTGCAA
1 ATTTAAGTTTCGCGTTGCAA
6165809 ATTTAAGTTTC
1 ATTTAAGTTTC
6165820 AGAAACTACT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.49
Consensus pattern (20 bp):
ATTTAAGTTTCGCGTTGCAA
Found at i:6167204 original size:42 final size:42
Alignment explanation
Indices: 6167141--6167233 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
6167131 CCCACTTTGT
* * * * *
6167141 GAGCCATCACCTGATCAAGCCGATTCTACAGCTCGACATCAA
1 GAGCCATCAACTGATCAAGCCGATTATACACCTCCACAACAA
* *
6167183 GAGCCATCAACTGATCGAGCCGATTATACACCTCCACAACGA
1 GAGCCATCAACTGATCAAGCCGATTATACACCTCCACAACAA
6167225 GAGCCATCA
1 GAGCCATCA
6167234 CCTATTACAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.32, C:0.33, G:0.17, T:0.17
Consensus pattern (42 bp):
GAGCCATCAACTGATCAAGCCGATTATACACCTCCACAACAA
Found at i:6167399 original size:21 final size:21
Alignment explanation
Indices: 6167355--6167400 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
6167345 GGGGAGTTAA
* *
6167355 GTGATGAGGTCAGTGCTCTGC
1 GTGATGAGGTCAGTACTCTAC
* *
6167376 GTGATGAGGTCGGTACTTTAC
1 GTGATGAGGTCAGTACTCTAC
6167397 GTGA
1 GTGA
6167401 CGACAATGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.17, C:0.15, G:0.37, T:0.30
Consensus pattern (21 bp):
GTGATGAGGTCAGTACTCTAC
Found at i:6167632 original size:4 final size:4
Alignment explanation
Indices: 6167623--6167664 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
6167613 TTTTTCGATA
* * *
6167623 TTAT TTAT TTAT TTAT TTAT TGAT TTAT ATAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
6167665 TTAACGGTCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:6167877 original size:42 final size:42
Alignment explanation
Indices: 6167814--6167905 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
6167804 CATGTTATCG
6167814 TTCAAGAGGCCCCTCATATCGTTCAAGAGGTCCCTCCCACCA
1 TTCAAGAGGCCCCTCATATCGTTCAAGAGGTCCCTCCCACCA
*
6167856 TTCAAGAGGCCCCT-ATCATCGTTCAAGAGGTCCCTCCCACCG
1 TTCAAGAGGCCCCTCAT-ATCGTTCAAGAGGTCCCTCCCACCA
*
6167898 TTAAAGAG
1 TTCAAGAG
6167906 CCCGATTCAC
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
41 2 0.04
42 45 0.96
ACGTcount: A:0.25, C:0.35, G:0.18, T:0.22
Consensus pattern (42 bp):
TTCAAGAGGCCCCTCATATCGTTCAAGAGGTCCCTCCCACCA
Found at i:6167899 original size:21 final size:21
Alignment explanation
Indices: 6167812--6167905 Score: 98
Period size: 21 Copynumber: 4.5 Consensus size: 21
6167802 CACATGTTAT
** *
6167812 CGTTCAAGAGGCCCCTCATAT
1 CGTTCAAGAGGCCCCTCCCAC
*
6167833 CGTTCAAGAGGTCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
* ** *
6167854 CATTCAAGAGGCCCCTATCAT
1 CGTTCAAGAGGCCCCTCCCAC
*
6167875 CGTTCAAGAGGTCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
*
6167896 CGTTAAAGAG
1 CGTTCAAGAG
6167906 CCCGATTCAC
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.24, C:0.35, G:0.19, T:0.21
Consensus pattern (21 bp):
CGTTCAAGAGGCCCCTCCCAC
Found at i:6174489 original size:3 final size:3
Alignment explanation
Indices: 6174466--6174534 Score: 79
Period size: 3 Copynumber: 23.3 Consensus size: 3
6174456 GCCTGCAAAA
* * *
6174466 AAT AAT ATT AAT AGT ATT AAT AAT -AT AAT AAT AAT AAT AAGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
*
6174511 TAT AAT AAT AAT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
6174535 TATTATTTAA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
2 4 0.07
3 49 0.88
4 3 0.05
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:6174897 original size:84 final size:84
Alignment explanation
Indices: 6174763--6175035 Score: 377
Period size: 84 Copynumber: 3.2 Consensus size: 84
6174753 CTGAATGAAA
* * *
6174763 TCGAACTCGTCAGGTCTTTGGTTGGCAGATAGCCCTTCTCAACTTAAGCTATGCTGCAAATGATG
1 TCGAACTCG-AAGGTCTTTGGTTGGCAAATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
6174828 TGCCTTGGAGCTGAGCGTAG
65 TGCCTTGGAGCTGAGCGTAG
* * * * *
6174848 TCAAACTCGAAGGTCTTTGGTTGGCAAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAAATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
*
6174913 ACCTTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* * *
6174932 TCGAACTCAAAGGTCTTTGGTTGG-AAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
1 TCGAACTCGAAGGTCTTTGGTTGGCAA-ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
* *
6174996 TGCCTTAGAGCTGAGCGTAA
65 TGCCTTGGAGCTGAGCGTAG
**
6175016 TCGAACTCGGGGGTCTTTGG
1 TCGAACTCGAAGGTCTTTGG
6175036 CAGATAGCCT
Statistics
Matches: 164, Mismatches: 23, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
83 2 0.01
84 154 0.94
85 8 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (84 bp):
TCGAACTCGAAGGTCTTTGGTTGGCAAATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
GCCTTGGAGCTGAGCGTAG
Found at i:6175267 original size:106 final size:106
Alignment explanation
Indices: 6175077--6175914 Score: 1415
Period size: 106 Copynumber: 7.9 Consensus size: 106
6175067 TCGTGAAGTT
*
6175077 GAAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTC
1 GAAA-TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
* * * *
6175142 CAATATCCTTTGCTATGAAGTTGAAATTGACTCTGAAATTGG
65 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
6175184 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
1 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* * * *
6175249 AATATCCTTTGCTGTGAAGTTGAACTTGGCTCTGAAATTGA
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
* * *
6175290 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGGAGTCC
1 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* *
6175355 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGATATTGA
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
* * * *
6175396 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACATGCGTTGTCTGGAGTCC
1 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
6175461 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
*
6175502 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGGAGTCC
1 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* *
6175567 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGATATTGA
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
* * *
6175608 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
1 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
6175673 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
*
6175714 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGGAGTCC
1 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
6175779 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
* * *
6175820 GAAATTATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACCTGCGTTGTCTGGAGTCC
1 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
6175885 AATATCCTTCGTTGTGAAGTTGAAATTGGC
66 AATATCCTTCGTTGTGAAGTTGAAATTGGC
6175915 ACTCAAGCAA
Statistics
Matches: 693, Mismatches: 38, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
106 689 0.99
107 4 0.01
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (106 bp):
GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
Found at i:6178629 original size:17 final size:16
Alignment explanation
Indices: 6178577--6178631 Score: 101
Period size: 16 Copynumber: 3.4 Consensus size: 16
6178567 AATAAAAGTC
6178577 CTACCCCACATGATAT
1 CTACCCCACATGATAT
6178593 CTACCCCACATGATAT
1 CTACCCCACATGATAT
6178609 CTACCCCACATGATAAT
1 CTACCCCACATGAT-AT
6178626 CTACCC
1 CTACCC
6178632 GAACATGCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 30 0.79
17 8 0.21
ACGTcount: A:0.31, C:0.40, G:0.05, T:0.24
Consensus pattern (16 bp):
CTACCCCACATGATAT
Found at i:6181007 original size:3 final size:3
Alignment explanation
Indices: 6180984--6181055 Score: 94
Period size: 3 Copynumber: 24.3 Consensus size: 3
6180974 GCCTGCAAAA
* * *
6180984 AAT AAT ATT AAT AGT ATT AAT AAT -AT AAT AAT AAT AAT AAGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
6181029 AAT AAT AAT AAT AAT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6181056 TATTATTATT
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
2 4 0.07
3 54 0.89
4 3 0.05
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:6183510 original size:19 final size:18
Alignment explanation
Indices: 6183486--6183528 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
6183476 GTTATGTGTT
6183486 ATTTATATGAATTTTTAAA
1 ATTTAT-TGAATTTTTAAA
*
6183505 ATTTATTTAATTTTTAAA
1 ATTTATTGAATTTTTAAA
6183523 ATTTAT
1 ATTTAT
6183529 CCCTAATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
ATTTATTGAATTTTTAAA
Found at i:6185583 original size:19 final size:19
Alignment explanation
Indices: 6185561--6185599 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
6185551 CTAAGAATTT
6185561 GTAAAATGAATATGATTCG
1 GTAAAATGAATATGATTCG
* * *
6185580 GTAATATGAGTTTGATTCG
1 GTAAAATGAATATGATTCG
6185599 G
1 G
6185600 GTCAGGCGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (19 bp):
GTAAAATGAATATGATTCG
Found at i:6185666 original size:21 final size:22
Alignment explanation
Indices: 6185625--6185671 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
6185615 TTATCTTAAA
* * *
6185625 AAATAAATATTTTTTTTAATTT
1 AAATAAATATCTTTTTGAATTC
6185647 AAATAAA-ATCTTTTTGAATTC
1 AAATAAATATCTTTTTGAATTC
6185668 AAAT
1 AAAT
6185672 CTAATCAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (22 bp):
AAATAAATATCTTTTTGAATTC
Found at i:6195448 original size:20 final size:20
Alignment explanation
Indices: 6195423--6195467 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
6195413 TTGTTTTTAA
6195423 TAAATTTTTATCTATAAAAT
1 TAAATTTTTATCTATAAAAT
* *
6195443 TAAATTTTTATTTTTAAAAT
1 TAAATTTTTATCTATAAAAT
*
6195463 AAAAT
1 TAAAT
6195468 ATTAAAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
TAAATTTTTATCTATAAAAT
Found at i:6200962 original size:2 final size:2
Alignment explanation
Indices: 6200955--6201004 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
6200945 CTTGCAGGTG
6200955 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6200997 AT AT AT AT
1 AT AT AT AT
6201005 TATTAAAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6203173 original size:18 final size:18
Alignment explanation
Indices: 6203117--6203173 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
6203107 AACCAATAAT
*
6203117 AATAAACATAAAATAATTG
1 AATAAA-ATAAAATAAATG
*
6203136 GAT-AAA-AAAATGAAATTG
1 AATAAAATAAAAT-AAA-TG
6203154 AATAAAATAAAATAAATG
1 AATAAAATAAAATAAATG
6203172 AA
1 AA
6203174 GATAAAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
16 5 0.16
17 3 0.10
18 10 0.32
19 8 0.26
20 5 0.16
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.23
Consensus pattern (18 bp):
AATAAAATAAAATAAATG
Found at i:6203285 original size:22 final size:19
Alignment explanation
Indices: 6203255--6203322 Score: 68
Period size: 19 Copynumber: 3.4 Consensus size: 19
6203245 GCAAAGAAAC
6203255 TAAAAATATAATGAAAATAAA
1 TAAAAATATAAT-AAAAT-AA
6203276 TAAATAATATAAATAAAATAA
1 TAAA-AATAT-AATAAAATAA
6203297 TAAAAA-ATATATATAAAT-A
1 TAAAAATATA-ATA-AAATAA
6203316 TAAAAAT
1 TAAAAAT
6203323 GTATGTATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
18 1 0.02
19 12 0.29
20 6 0.14
21 10 0.24
22 10 0.24
23 3 0.07
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (19 bp):
TAAAAATATAATAAAATAA
Found at i:6203312 original size:21 final size:21
Alignment explanation
Indices: 6203256--6203382 Score: 89
Period size: 22 Copynumber: 5.9 Consensus size: 21
6203246 CAAAGAAACT
6203256 AAAAATATA-ATGAAAATAAATA
1 AAAAATATATAT-AAAAT-AATA
* *
6203278 AATAATATAAATAAAATAATA
1 AAAAATATATATAAAATAATA
6203299 AAAAATATATAT-AAAT-ATA
1 AAAAATATATATAAAATAATA
* * *
6203318 AAAATGTATGTATAATATAATA
1 AAAA-ATATATATAAAATAATA
* *
6203340 AAATACTAAATAGTAATAATAATA
1 AAA-AATATATA-TAA-AATAATA
* * *
6203364 ATAAATAAATAAAAAATAA
1 AAAAATATATATAAAATAA
6203383 GTATACATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
19 7 0.08
20 10 0.12
21 22 0.26
22 25 0.29
23 13 0.15
24 8 0.09
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (21 bp):
AAAAATATATATAAAATAATA
Found at i:6203320 original size:19 final size:19
Alignment explanation
Indices: 6203275--6203344 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 19
6203265 ATGAAAATAA
* *
6203275 ATAAATAATATAAATAAAAT
1 ATAAAAAATATATAT-AAAT
6203295 AATAAAAAATATATATAAAT
1 -ATAAAAAATATATATAAAT
* *
6203315 AT-AAAAATGTATGTATAAT
1 ATAAAAAATATATATA-AAT
6203334 ATAATAAAATA
1 ATAA-AAAATA
6203345 CTAAATAGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
18 11 0.27
19 7 0.17
20 5 0.12
21 18 0.44
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (19 bp):
ATAAAAAATATATATAAAT
Found at i:6203381 original size:30 final size:30
Alignment explanation
Indices: 6203256--6203416 Score: 78
Period size: 30 Copynumber: 5.4 Consensus size: 30
6203246 CAAAGAAACT
6203256 AAAAATA-TAATGAA-AATAAATAAATAATATA
1 AAAAATAGTAAT-AATAAT-AATAAATAA-ATA
6203287 AATAAA-A-TAATAA-AA-AATATATATAAATA
1 AA-AAATAGTAATAATAATAATA-A-ATAAATA
*
6203316 TAAAAAT-GT-AT-GT-ATAATATAATAAAATA
1 -AAAAATAGTAATAATAATAATA-AAT-AAATA
**
6203345 CTAAATAGTAATAATAATAATAAATAAATA
1 AAAAATAGTAATAATAATAATAAATAAATA
* *
6203375 AAAAATAAGT-ATACAT-ATAAT-ATTAACTAA
1 AAAAAT-AGTAATA-ATAATAATAAATAAAT-A
6203405 AAAAATAGTAAT
1 AAAAATAGTAAT
6203417 CATAGAAATA
Statistics
Matches: 105, Mismatches: 8, Indels: 35
0.71 0.05 0.24
Matches are distributed among these distances:
28 11 0.10
29 30 0.29
30 39 0.37
31 16 0.15
32 9 0.09
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (30 bp):
AAAAATAGTAATAATAATAATAAATAAATA
Found at i:6203614 original size:23 final size:23
Alignment explanation
Indices: 6203549--6203635 Score: 72
Period size: 23 Copynumber: 3.8 Consensus size: 23
6203539 AATAATAGGA
* * *
6203549 AAAT-AATATAATATAACGTAAAA
1 AAATAAATAAAATATAA-TTAAAT
*
6203572 AAATGAA-AAAATATAA-TAAAT
1 AAATAAATAAAATATAATTAAAT
6203593 AAATAAATAAAATATAATTAAAT
1 AAATAAATAAAATATAATTAAAT
* *
6203616 ATATACATATAAATAATAAT
1 AAATAAATA-AAAT-ATAAT
6203636 GGTTAAATTA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
21 10 0.19
22 9 0.17
23 24 0.44
24 6 0.11
25 5 0.09
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (23 bp):
AAATAAATAAAATATAATTAAAT
Found at i:6204067 original size:37 final size:37
Alignment explanation
Indices: 6204026--6204130 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
6204016 GTACTTGTGG
* *
6204026 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
* * *
6204063 ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
*
6204100 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAG
6204131 GACGAAAATG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
Found at i:6205186 original size:106 final size:106
Alignment explanation
Indices: 6204861--6207083 Score: 3033
Period size: 106 Copynumber: 21.0 Consensus size: 106
6204851 GCATTGTTCT
* * ** *
6204861 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTTTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
** * * *
6204925 ACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
6204967 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAAA-T-TTTGTTGAGAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * * *
6205026 TCAGCCG-CCTCTTCGTCGTGAAGTTGAGCTTGTGTTGCCTTG
66 CCAGCGGTCC-CTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * * * * *
6205068 G-GTTCAAGATCCTTTGCTGAGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
6205132 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
6205173 GAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
6205238 CCAGCGGTCCCTTCGTCGCGAAGTTGAAATCCAAGTAAGTAGCATTGTTCT-
66 CCAGCGGTCCCTTCGTCGTGAAGTTG-AA--C---T---T-GCGTTG-TCTG
* * ** * *
6205289 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTATTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
* * * * *
6205353 ACCAGCCGTTCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
6205395 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAAA-T-TTTGTTGAGAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * * * *
6205454 TCAGCCG-CCTCTTCGTTGTGAAGTTGAGCTTGTGTTGCCTTG
66 CCAGCGGTCC-CTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * * * * *
6205496 G-GTTCAAGATCCTTCGTTGAGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
6205560 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
6205601 GAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
6205666 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * * *
6205707 GAGTCCAATATCCTTCGTTATGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
6205772 CCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGGCTT-T-TG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC-G-TTGTCTG
* *
6205813 GAGTCCAATATCCTTCGCTGTGAAGTTGAAAATGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
6205878 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTATCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
6205919 AAGTCCAATATCCTACGTTGTGAAGTTGAAATTGGCTATGAAATTGGGAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
6205984 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
6206025 GAGTCCAATATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
6206090 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
6206131 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
6206196 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** * ** *
6206237 GAGTCCAATATCCTTCATTGTGAAGTTGAAAATGGCTCTGAAATTATGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
6206302 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
6206343 GAGTCCAATATCCTACGTTGTGAAGTTGAAATTGGCTATGAAATTGGGAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
6206408 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
6206449 GAGTCCAATATCCTTCGTTGTAAAGTTGAAATTTGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
6206514 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
6206555 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
6206620 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
6206661 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
6206726 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
6206767 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAAGTTGTTTATTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-TTGTTTATTGACA
* * *
6206831 ACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGTGTTGTCTA
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
6206873 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGATCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
6206938 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
6206979 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGAAAATT-ATTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
6207043 CCAGC---CCCTTCGT-GTGAAGTTGAACTTGTGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
6207080 GAGT
1 GAGT
6207084 GGCACGATAT
Statistics
Matches: 1903, Mismatches: 173, Indels: 87
0.88 0.08 0.04
Matches are distributed among these distances:
99 3 0.00
100 147 0.08
101 36 0.02
102 18 0.01
104 8 0.00
105 32 0.02
106 1547 0.81
107 15 0.01
108 2 0.00
109 1 0.00
110 1 0.00
112 1 0.00
113 1 0.00
115 4 0.00
116 84 0.04
117 3 0.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:6207931 original size:22 final size:22
Alignment explanation
Indices: 6207905--6207960 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
6207895 TTGTGTTTGG
*
6207905 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
6207927 TCAAAGGTTTGACATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
6207949 TCAAAGGTTTGA
1 TCAAAGGTTTGA
6207961 TGGGGTAGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGACATTTGATGC
Found at i:6208593 original size:15 final size:14
Alignment explanation
Indices: 6208569--6208615 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
6208559 CCCTTTTTGA
6208569 TTTTTG-TTCTTTT
1 TTTTTGTTTCTTTT
*
6208582 TTTTTGTTTTCTTCT
1 TTTTTG-TTTCTTTT
6208597 TTTTTGTTTCTTTT
1 TTTTTGTTTCTTTT
6208611 TTTTT
1 TTTTT
6208616 TTATTTTTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
13 6 0.20
14 12 0.40
15 12 0.40
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (14 bp):
TTTTTGTTTCTTTT
Found at i:6208616 original size:15 final size:15
Alignment explanation
Indices: 6208569--6208616 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
6208559 CCCTTTTTGA
6208569 TTTTTG-TTC-TTTT
1 TTTTTGTTTCTTTTT
*
6208582 TTTTTGTTT-TCTTCT
1 TTTTTGTTTCT-TTTT
6208597 TTTTTGTTTCTTTTT
1 TTTTTGTTTCTTTTT
6208612 TTTTT
1 TTTTT
6208617 TATTTTTGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 6 0.21
14 2 0.07
15 20 0.69
16 1 0.03
ACGTcount: A:0.00, C:0.08, G:0.06, T:0.85
Consensus pattern (15 bp):
TTTTTGTTTCTTTTT
Found at i:6212958 original size:20 final size:19
Alignment explanation
Indices: 6212908--6212963 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
6212898 AACCAATAAT
6212908 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
*
6212927 GATGAAAA-AAAATGAAATTG
1 AAT-AAAATAAAAT-AAATTG
6212947 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
6212964 AAAGATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 11 0.35
20 15 0.48
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:6213070 original size:21 final size:20
Alignment explanation
Indices: 6213046--6213161 Score: 76
Period size: 21 Copynumber: 5.5 Consensus size: 20
6213036 GCAAAGAAAT
6213046 TAAAAATATAATGAAAATAAA
1 TAAAAATATAAT-AAAATAAA
*
6213067 TAAATAGTATAAATAAAAT-AA
1 TAAA-AATAT-AATAAAATAAA
*
6213088 TAAAAAATATATATAAAA-ATA
1 T-AAAAATATA-ATAAAATAAA
* * *
6213109 TAAAAATGTATGTATAATATAA
1 TAAAAATATA-ATAAAATA-AA
*
6213131 TAATAATAATAAT-AAATAAA
1 TAAAAAT-ATAATAAAATAAA
6213151 TAAATAATATA
1 TAAA-AATATA
6213162 CATATAATAT
Statistics
Matches: 74, Mismatches: 12, Indels: 19
0.70 0.11 0.18
Matches are distributed among these distances:
20 22 0.30
21 27 0.36
22 20 0.27
23 5 0.07
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.30
Consensus pattern (20 bp):
TAAAAATATAATAAAATAAA
Found at i:6213156 original size:29 final size:30
Alignment explanation
Indices: 6213124--6213190 Score: 54
Period size: 26 Copynumber: 2.3 Consensus size: 30
6213114 ATGTATGTAT
*
6213124 AATATAATAATA-ATAATAATAAA-T-AAAT
1 AATATAATAATACAT-ATAATAAACTAAAAA
6213152 AA-ATAAT-ATACATATAATATTAACTAAAAA
1 AATATAATAATACATATAATA--AACTAAAAA
6213182 AATAGTAAT
1 AATA-TAAT
6213191 CATAGAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
26 9 0.29
27 7 0.23
28 4 0.13
29 1 0.03
30 5 0.16
31 1 0.03
32 4 0.13
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (30 bp):
AATATAATAATACATATAATAAACTAAAAA
Found at i:6213161 original size:32 final size:33
Alignment explanation
Indices: 6213122--6213185 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
6213112 AAATGTATGT
*
6213122 ATAATATA-ATAATAATAATAA-TAAATAAATAA
1 ATAATATACAT-ATAATAATAACTAAAAAAATAA
*
6213154 ATAATATACATATAATATTAACTAAAAAAATA
1 ATAATATACATATAATAATAACTAAAAAAATA
6213186 GTAATCATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (33 bp):
ATAATATACATATAATAATAACTAAAAAAATAA
Found at i:6213168 original size:43 final size:41
Alignment explanation
Indices: 6213060--6213182 Score: 108
Period size: 43 Copynumber: 2.9 Consensus size: 41
6213050 AATATAATGA
* *
6213060 AAATAAATAAATAGTATAA-ATAAAATAATAAAAAATATAT
1 AAATAAATAAATAATATAATATAATATAATAAAAAATATAT
* * *
6213100 ATAA-AAATATAAAAATGTATGTATAATATAATAATAATAATA-AT
1 A-AATAAATA-AATAATATA-ATATAATATAATAA-AA-AATATAT
6213144 AAATAAATAAATAATATACATATAATATTAACTAAAAAA
1 AAATAAATAAATAATATA-ATATAATA-TAA-TAAAAAA
6213183 ATAGTAATCA
Statistics
Matches: 65, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
40 6 0.09
41 8 0.12
43 29 0.45
44 15 0.23
45 7 0.11
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (41 bp):
AAATAAATAAATAATATAATATAATATAATAAAAAATATAT
Found at i:6213384 original size:23 final size:24
Alignment explanation
Indices: 6213349--6213414 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 24
6213339 ACGCAAAGAA
*
6213349 AAATGAAAAAAAATTATAA-TAAAT
1 AAAT-AAATAAAATTATAATTAAAT
6213373 AAATAAATAAAA-TATAATTAAAT
1 AAATAAATAAAATTATAATTAAAT
* *
6213396 ATATAAATATAAATAATAA
1 AAATAAATA-AAATTATAA
6213415 GGGTTAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 5 0.14
23 20 0.56
24 7 0.19
25 4 0.11
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (24 bp):
AAATAAATAAAATTATAATTAAAT
Found at i:6214968 original size:19 final size:18
Alignment explanation
Indices: 6214921--6214973 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
6214911 AACCAATAAT
6214921 AATAACATAAAAT-AATTG
1 AATAA-ATAAAATAAATTG
*
6214939 GATGAAA-AAAATGAAATTG
1 AAT-AAATAAAAT-AAATTG
6214958 AATAAATAAAATAAAT
1 AATAAATAAAATAAAT
6214974 AAATAAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 5 0.17
18 10 0.34
19 14 0.48
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (18 bp):
AATAAATAAAATAAATTG
Found at i:6214976 original size:13 final size:14
Alignment explanation
Indices: 6214958--6214986 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6214948 AATGAAATTG
6214958 AATAAATAAA-ATA
1 AATAAATAAAGATA
6214971 AATAAATAAAGATA
1 AATAAATAAAGATA
6214985 AA
1 AA
6214987 ATATATATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
AATAAATAAAGATA
Found at i:6215119 original size:12 final size:11
Alignment explanation
Indices: 6215060--6215125 Score: 57
Period size: 11 Copynumber: 6.0 Consensus size: 11
6215050 GCAAAGAAAT
6215060 TAAAAATATAA
1 TAAAAATATAA
*
6215071 TGAAAAT-TAA
1 TAAAAATATAA
*
6215081 TAAATAGTATAA
1 TAAA-AATATAA
*
6215093 -ATAAA-ATAA
1 TAAAAATATAA
6215102 TAAAAAATATATA
1 T-AAAAATATA-A
6215115 TAAAAATATAA
1 TAAAAATATAA
6215126 AAATGTATGT
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
9 4 0.09
10 7 0.16
11 15 0.35
12 15 0.35
13 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (11 bp):
TAAAAATATAA
Found at i:6215139 original size:22 final size:22
Alignment explanation
Indices: 6215061--6215128 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 22
6215051 CAAAGAAATT
*
6215061 AAAAATATA-ATGAAAATTAATA
1 AAAAATATATAT-AAAAATAATA
* * *
6215083 AATAGTATAAAT-AAAATAATA
1 AAAAATATATATAAAAATAATA
6215104 AAAAATATATATAAAAAT-ATA
1 AAAAATATATATAAAAATAATA
6215125 AAAA
1 AAAA
6215129 TGTATGTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
21 24 0.63
22 12 0.32
23 2 0.05
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (22 bp):
AAAAATATATATAAAAATAATA
Found at i:6215190 original size:26 final size:24
Alignment explanation
Indices: 6215078--6215201 Score: 65
Period size: 26 Copynumber: 4.9 Consensus size: 24
6215068 TAATGAAAAT
*
6215078 TAATAAATAGTATAAATAA-AATAA
1 TAATAAATA-AATAAATAATAATAA
*
6215102 TAAAAAATATATATAAA-AAT-ATAA
1 TAATAAATA-A-ATAAATAATAATAA
* **
6215126 AAATGTATGTATAATATAATAATAATAA
1 TAA--TAAATA-AATA-AATAATAATAA
6215154 TAATAAATAAATAAATACATACATAA
1 TAATAAATAAATAAATA-ATA-ATAA
* * * *
6215180 TATTAACTAAAAAAATAGTAAT
1 TAATAAATAAATAAATAATAAT
6215202 CATAGAAATA
Statistics
Matches: 77, Mismatches: 14, Indels: 18
0.71 0.13 0.17
Matches are distributed among these distances:
24 22 0.29
25 17 0.22
26 29 0.38
27 3 0.04
28 6 0.08
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (24 bp):
TAATAAATAAATAAATAATAATAA
Found at i:6215841 original size:37 final size:37
Alignment explanation
Indices: 6215800--6215890 Score: 128
Period size: 37 Copynumber: 2.5 Consensus size: 37
6215790 GTGCTTGTGG
* * *
6215800 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATCATAGCAAAACTCT
* *
6215837 ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATCATAGCAAAACTCT
*
6215874 ATCATATTTTTAGGAGT
1 ATCCTATTTTTAGGAGT
6215891 CTGAATCTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATCATAGCAAAACTCT
Found at i:6218271 original size:24 final size:24
Alignment explanation
Indices: 6218235--6218281 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
6218225 AGACAATCGT
6218235 CCGAATAACAACACCTTGCCAACC
1 CCGAATAACAACACCTTGCCAACC
*
6218259 CCGAATAATAACACCTTGCCAAC
1 CCGAATAACAACACCTTGCCAAC
6218282 AATATGGCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.38, G:0.09, T:0.15
Consensus pattern (24 bp):
CCGAATAACAACACCTTGCCAACC
Found at i:6222088 original size:21 final size:21
Alignment explanation
Indices: 6222044--6222088 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
6222034 AAATTACACA
* *
6222044 TTTAGTATCTAAACTATCAGT
1 TTTAGCATCTAAACTATCAAT
* *
6222065 TTTAGCATCTAAACTTTTAAT
1 TTTAGCATCTAAACTATCAAT
6222086 TTT
1 TTT
6222089 TTTCAAAACC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.13, G:0.07, T:0.49
Consensus pattern (21 bp):
TTTAGCATCTAAACTATCAAT
Found at i:6227853 original size:20 final size:21
Alignment explanation
Indices: 6227830--6227868 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
6227820 TAGTAAAAAA
6227830 AAATAAAAAAAAAG-GAAATG
1 AAATAAAAAAAAAGTGAAATG
*
6227850 AAATAAAATAAAAGTGAAA
1 AAATAAAAAAAAAGTGAAA
6227869 AGGAGAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (21 bp):
AAATAAAAAAAAAGTGAAATG
Found at i:6227964 original size:2 final size:2
Alignment explanation
Indices: 6227959--6227988 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6227949 GAAAACAAAA
6227959 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
6227989 TGGTATGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6228285 original size:2 final size:2
Alignment explanation
Indices: 6228278--6228303 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6228268 CAAAACAAAC
6228278 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
6228304 TGGTATGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6230703 original size:106 final size:106
Alignment explanation
Indices: 6230518--6231501 Score: 1650
Period size: 106 Copynumber: 9.3 Consensus size: 106
6230508 TATTGTTCTA
* ** * * * *
6230518 AGTCCAATATCCTCCGCCGTGAAGTTGTAATTGGCTCTGGAACTGGGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
6230583 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
6230624 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
*
6230689 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
6230730 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
* *
6230795 CAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
6230836 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
*
6230901 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCG-TGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
6230941 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
*
6231006 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * * *
6231047 AGTCCAATATCATTCGCTGGGAATTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
*
6231112 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
6231153 AGTCCAATATCCTTCGCTGTGAAGTCGAAATTGGCTCTGAAATTGAGAA-ATGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
*
6231217 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
6231258 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
6231322 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
6231363 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTTTTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTTGTTGACAA
* *
6231428 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
6231470 AGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATT
6231502 TACTCTCGAG
Statistics
Matches: 831, Mismatches: 44, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
105 305 0.37
106 444 0.53
107 82 0.10
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (106 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:6231099 original size:317 final size:316
Alignment explanation
Indices: 6230518--6231501 Score: 1639
Period size: 317 Copynumber: 3.1 Consensus size: 316
6230508 TATTGTTCTA
* * * * * *
6230518 AGTCCAATATCCTCCGCCGTGAAGTTGTAATTGGCTCTGGAACTGGGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
6230583 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG-TGTCTGGAGTCCAATATCCTTCGTTGTGAAG
*
6230648 TTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
130 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
* *
6230713 GAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGA
195 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGA
* *
6230778 AGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTTG
260 AGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* *
6230836 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
*
6230901 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
6230966 TGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
131 TGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* * * * *
6231031 AACTTGCGTTGTCTTGAGTCCAATATCATTCGCTGGGAATTTGAAATTGGCTCTGAAATTGGGAA
196 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
*
6231096 GTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGG
261 GTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * *
6231153 AGTCCAATATCCTTCGCTGTGAAGTCGAAATTGGCTCTGAAATTGAGAA-ATGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
*
6231217 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC-GTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
* *
6231282 TTGAAATTGGCTCTGAAATTGAGAA-ATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
130 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
6231346 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGA
195 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGA
* *
6231411 AGTTGTTTTTTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
260 AGTTG-TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
6231469 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 -AGTCCAATATCCTTCGCTGTGAAGTTGAAATT
6231502 TACTCTCGAG
Statistics
Matches: 623, Mismatches: 40, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
316 147 0.24
317 387 0.62
318 89 0.14
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (316 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
TGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
GTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:6233406 original size:26 final size:25
Alignment explanation
Indices: 6233352--6233408 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
6233342 TGAGAATGTG
*
6233352 AATGCAATGAAAAAAAAGGAATCAT
1 AATGCAATGAAAAAAAAGGAATCAA
* *
6233377 AATGCGAATGTAAAGAAAAGTAA-CAA
1 AATGC-AATG-AAAAAAAAGGAATCAA
6233403 AATGCA
1 AATGCA
6233409 CACATGTCTG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 6 0.22
26 11 0.41
27 10 0.37
ACGTcount: A:0.58, C:0.09, G:0.18, T:0.16
Consensus pattern (25 bp):
AATGCAATGAAAAAAAAGGAATCAA
Found at i:6238443 original size:32 final size:33
Alignment explanation
Indices: 6238400--6238462 Score: 119
Period size: 32 Copynumber: 1.9 Consensus size: 33
6238390 ATTAATTATC
6238400 ACAATTTTATTACAAGTTATATAATAGTAGAAG
1 ACAATTTTATTACAAGTTATATAATAGTAGAAG
6238433 ACAA-TTTATTACAAGTTATATAATAGTAGA
1 ACAATTTTATTACAAGTTATATAATAGTAGA
6238463 TAAATGACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 26 0.87
33 4 0.13
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (33 bp):
ACAATTTTATTACAAGTTATATAATAGTAGAAG
Found at i:6239604 original size:73 final size:74
Alignment explanation
Indices: 6239520--6239683 Score: 222
Period size: 73 Copynumber: 2.2 Consensus size: 74
6239510 CAAGTTATTT
* *
6239520 TCATTATGAACTTTTACTAAAAACGCTGATCGATCTCCTTCTGTGATGGGCGAACCAAGGGTTGA
1 TCATTATGAACTTTTACTAAAAACGCTGATCCATCTCCTTCTATGATGGGCGAACCAAGGGTTGA
6239585 ACAAG-TTC
66 ACAAGTTTC
* ** * * * *
6239593 TTATTATGAACTTTTGTTTAAAACGTTGATCCATCTCCTTCTATGATGGGCGAGCTAAGGGTTGA
1 TCATTATGAACTTTTACTAAAAACGCTGATCCATCTCCTTCTATGATGGGCGAACCAAGGGTTGA
6239658 ACAAGTTATTC
66 ACAAG-T-TTC
6239669 TCATTATGAACTTTT
1 TCATTATGAACTTTT
6239684 TCTCTTAGGA
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
73 61 0.78
76 17 0.22
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (74 bp):
TCATTATGAACTTTTACTAAAAACGCTGATCCATCTCCTTCTATGATGGGCGAACCAAGGGTTGA
ACAAGTTTC
Found at i:6239764 original size:47 final size:44
Alignment explanation
Indices: 6239698--6239810 Score: 118
Period size: 44 Copynumber: 2.5 Consensus size: 44
6239688 TTAGGAATGT
* * * *
6239698 TGATCCAACTCATTCTGTGATGGATTTGAACTCAAGCGAGATGATGC
1 TGATCCAACTCCTTATGTGATGGAATCGAAC-CAAGCG-G-TGATGC
* * * * *
6239745 TGATTCAACTCCTTATGTGATGGAATCGAGCGAAGTGGTGATGT
1 TGATCCAACTCCTTATGTGATGGAATCGAACCAAGCGGTGATGC
6239789 TGATCCAACTCCTTATGTGATG
1 TGATCCAACTCCTTATGTGATG
6239811 AAAGAGCTAA
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
44 26 0.46
45 1 0.02
46 4 0.07
47 25 0.45
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (44 bp):
TGATCCAACTCCTTATGTGATGGAATCGAACCAAGCGGTGATGC
Found at i:6239802 original size:44 final size:47
Alignment explanation
Indices: 6239694--6239810 Score: 132
Period size: 47 Copynumber: 2.6 Consensus size: 47
6239684 TCTCTTAGGA
* * * *
6239694 ATGTTGATCCAACTCATTCTGTGATGGATTTGAACTCAAGCGAGATG
1 ATGTTGATCCAACTCCTTATGTGATGGAATCGAACTCAAGCGAGATG
* * * * *
6239741 ATGCTGATTCAACTCCTTATGTGATGGAATCGAGC-GAAGTG-G-TG
1 ATGTTGATCCAACTCCTTATGTGATGGAATCGAACTCAAGCGAGATG
6239785 ATGTTGATCCAACTCCTTATGTGATG
1 ATGTTGATCCAACTCCTTATGTGATG
6239811 AAAGAGCTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
44 26 0.44
45 1 0.02
46 4 0.07
47 28 0.47
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (47 bp):
ATGTTGATCCAACTCCTTATGTGATGGAATCGAACTCAAGCGAGATG
Found at i:6242373 original size:2 final size:2
Alignment explanation
Indices: 6242366--6242434 Score: 131
Period size: 2 Copynumber: 35.0 Consensus size: 2
6242356 ACCTACGTGC
6242366 AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6242407 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
6242435 TACATTTTTT
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 65 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.