Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007968.1 Hibiscus syriacus cultivar Beakdansim tig00110403_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: 1361854
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:6696 original size:10 final size:10
Alignment explanation
Indices: 6683--6714 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
6673 AGTGAAAATG
6683 AAAAAATAAA
1 AAAAAATAAA
6693 AAAAAAT-AA
1 AAAAAATAAA
6702 AAAAAATAAA
1 AAAAAATAAA
6712 AAA
1 AAA
6715 TGAAAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:6722 original size:10 final size:9
Alignment explanation
Indices: 6683--6714 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
6673 AGTGAAAATG
6683 AAAAAATAAA
1 AAAAAAT-AA
6693 AAAAAATAA
1 AAAAAATAA
6702 AAAAAATAA
1 AAAAAATAA
6711 AAAA
1 AAAA
6715 TGAAAAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 15 0.68
10 7 0.32
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAAATAA
Found at i:6724 original size:8 final size:7
Alignment explanation
Indices: 6677--6723 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
6667 AAAATGAGTG
6677 AAAATGAA
1 AAAAT-AA
6685 AAAATAA
1 AAAATAA
6692 AAAA-AA
1 AAAATAA
*
6698 ATAA-AA
1 AAAATAA
6704 AAAATAA
1 AAAATAA
6711 AAAATGAA
1 AAAAT-AA
6719 AAAAT
1 AAAAT
6724 GGAAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 10 0.29
7 13 0.37
8 12 0.34
ACGTcount: A:0.83, C:0.00, G:0.04, T:0.13
Consensus pattern (7 bp):
AAAATAA
Found at i:6729 original size:8 final size:8
Alignment explanation
Indices: 6677--6731 Score: 50
Period size: 7 Copynumber: 7.5 Consensus size: 8
6667 AAAATGAGTG
6677 AAAATGAA
1 AAAATGAA
6685 AAAAT-AA
1 AAAATGAA
6692 AAAA--AA
1 AAAATGAA
*
6698 ATAA--AA
1 AAAATGAA
6704 AAAAT-AA
1 AAAATGAA
6711 AAAATGAA
1 AAAATGAA
6719 AAAATGGAA
1 AAAAT-GAA
6728 AAAA
1 AAAA
6732 AAGAAGAAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
6 10 0.24
7 13 0.31
8 12 0.29
9 7 0.17
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (8 bp):
AAAATGAA
Found at i:7761 original size:52 final size:53
Alignment explanation
Indices: 7658--8143 Score: 604
Period size: 55 Copynumber: 9.1 Consensus size: 53
7648 CAACAATTAT
* * * *
7658 TGAAGATTGTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAAACGCAATTGA
1 TGAAGATTGT-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGA
7712 TGAAGATTGTGGGTCTTATACTCTCTGAAG-AATAGGGGGCAGACGCAATTGA
1 TGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGA
* * * *
7764 TGAAGATTGTGGGTCTTATACTCTCTGAAGATATAGGGGGCAGACACAATCGT
1 TGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGA
* * * *
7817 TGAAGATCGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAAACGCAATTGA
1 TGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGA
7872 TGAAGATTGTGGGTC-T-TACTCTCTGAAGAAATAGGGGGCAGACGCAATTGA
1 TGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGA
* * * * *
7923 TGAAGA-TGTGGGTCTTATACTCTCTGAAGATATAAGGGGCAGACACAATCGT
1 TGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGA
* * *
7975 TGAAGATCGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGA
1 TGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGA
* * * *
8030 TGAAGA-TGTGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGT
1 TGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGA
* * * * * *
8082 TGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGT
1 TGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGA
8137 TGAAGAT
1 TGAAGAT
8144 ATTCGAGTTC
Statistics
Matches: 381, Mismatches: 40, Indels: 21
0.86 0.09 0.05
Matches are distributed among these distances:
50 8 0.02
51 40 0.10
52 132 0.35
53 52 0.14
54 15 0.04
55 134 0.35
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (53 bp):
TGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGA
Found at i:8020 original size:107 final size:106
Alignment explanation
Indices: 7650--8143 Score: 640
Period size: 107 Copynumber: 4.7 Consensus size: 106
7640 AGATTTCCCA
* * * *
7650 ACAATTATTGAAGATTGTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAAACGCAATTGATGA
1 ACAATTGTTGAAGATTGTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGATGA
*
7715 AGATTGTGGGTCTTATACTCTCTGAAG-AATAGGGGGCAGAC
66 AGA-TGTGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * * * * *
7756 GCAATTGATGAAGATTGT-GGGTCTTATACTCTCTGAAGATATAGGGGGCAGACACAATCGTTGA
1 ACAATTGTTGAAGATTGTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGATGA
* *
7820 AGATCGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAAAC
66 AGAT-G-T-GGGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
7864 GCAATTGATGAAGATTGT-GGGTC-T-TACTCTCTGAAGAAATAGGGGGCAGACGCAATTGATGA
1 ACAATTGTTGAAGATTGTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGATGA
*
7926 AGATGTGGGTCTTATACTCTCTGAAGATATAAGGG-GCAGAC
66 AGATGTGGGTCTTATACTCTCTGAAGAAAT-AGGGAGCAGAC
* * *
7967 ACAATCGTTGAAGATCGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATG
1 ACAATTGTTGAAGATTG-TCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGATG
8032 AAGATGTGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
65 AAGATGTGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * * * *
8074 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTG
1 ACAATTGTTGAAGATTG-TCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGATG
8139 AAGAT
65 AAGAT
8144 ATTCGAGTTC
Statistics
Matches: 343, Mismatches: 35, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
103 40 0.12
104 7 0.02
105 47 0.14
106 59 0.17
107 155 0.45
108 35 0.10
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (106 bp):
ACAATTGTTGAAGATTGTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGATGA
AGATGTGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
Found at i:8677 original size:2 final size:2
Alignment explanation
Indices: 8670--8698 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8660 TGTAGTCATG
8670 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
8699 GCATATAAGT
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:11438 original size:183 final size:183
Alignment explanation
Indices: 11130--12089 Score: 1286
Period size: 183 Copynumber: 5.3 Consensus size: 183
11120 GTTTCGACAA
* *
11130 AAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAAAAGTTATTGCG
1 AAAGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAAAAAGTTATAGCG
*
11195 CTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAAAAATATAACAGGTAAAAATATG
66 CTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATG
* *
11260 ATAAATCAGGTCTCAAAATTGACAAAACCAGTAAAACGCTACCGGATATATTG
131 ATAAAACAGGTCTCAAAATTGACAAAACCAGTAAAAAGCTACCGGATATATTG
** *
11313 AAAGTGTTAATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAATAAGTTATAGCG
1 AAAGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAAAAAGTTATAGCG
* * * ** * * *
11378 CCTATAAAGTGTCGATACTTTAAAAAAATATATCGATCTACAACAATATAACAGGTAAAAATATG
66 CTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATG
** * * * *
11443 ATAAAATTGGTCTAAAAAATGACAAAACC-GGAAAAAGTTACCGGATATATTG
131 ATAAAACAGGTCTCAAAATTGACAAAACCAGTAAAAAGCTACCGGATATATTG
* *
11495 AAAGTGTCGATAATTTAATATTAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAA-TTATAGC
1 AAAGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAA-AAAGTTATAGC
** *
11559 GCTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCTTTACCAATATAACAGGTAAAAATAT
65 GCTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAT
* * * * ** * * *
11624 GATAAAACAAGTCTAAAAAATGATAAAA-CA-TGAAAAAATTTCCGGATATGTTA
130 GATAAAACAGGTCTCAAAATTGACAAAACCAGT-AAAAAGCTACCGGATATATTG
* * **
11677 AAAGTGTCGATAATTTAATATAAGTATC-AACCATTTTTGAATTTAAAAGAGAAAAAGTTATTCC
1 AAAGTGTCGATAATTTAATATAAGTATCGAAAC-TTTCTGAATTTAAAAGAGAAAAAGTTATAGC
11741 GCTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAT
65 GCTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAT
* *
11806 GATAAAACATGTCTCAAAATTGACAAAACCAGTAAAATGCTACCGGATATATTG
130 GATAAAACAGGTCTCAAAATTGACAAAACCAGTAAAAAGCTACCGGATATATTG
* * *
11860 AAAGTGTAGATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAAGAAGTTGTAGCG
1 AAAGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAAAAAGTTATAGCG
* * ** * * * *
11925 -TCTATAAAGTGTCGATACTTTAAAAAAATATATCGATACACAATAATATAACAGGTAAAAATAT
66 CT-TAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAT
* * * * *
11989 GATAAAACATGTCCCAAAATTGACAAAACCAGTAAAACA-ATATCGGATATGTTG
130 GATAAAACAGGTCTCAAAATTGACAAAACCAGTAAAA-AGCTACCGGATATATTG
* *
12043 AAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAAATTAAA
1 AAAGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAA
12090 CTAAAAAGTA
Statistics
Matches: 680, Mismatches: 87, Indels: 20
0.86 0.11 0.03
Matches are distributed among these distances:
181 6 0.01
182 311 0.46
183 359 0.53
184 4 0.01
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (183 bp):
AAAGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAAAAAGTTATAGCG
CTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATG
ATAAAACAGGTCTCAAAATTGACAAAACCAGTAAAAAGCTACCGGATATATTG
Found at i:11558 original size:182 final size:181
Alignment explanation
Indices: 11130--12588 Score: 1664
Period size: 182 Copynumber: 8.1 Consensus size: 181
11120 GTTTCGACAA
*
11130 AAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAAAAGTTATTGCG
1 AAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAAAA-TTATAGCG
*
11195 CTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAAAAATATAACAGGTAAAAATATG
65 CTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATG
* * *
11260 ATAAATCAGGTCTCAAAATTGACAAAACCAGTAAAACGCTACCGGATATATTG
130 ATAAA-AATGTCTCAAAATTGACAAAACCAGTAAAAAGCTACCGGATATATTG
** * *
11313 AAAGTGTTAATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAATAAGTTATAGCG
1 AAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAA-AAATTATAGCG
* * * ** * * *
11378 CCTATAAAGTGTCGATACTTTAAAAAAATATATCGATCTACAACAATATAACAGGTAAAAATATG
65 CTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATG
* * * * *
11443 ATAAAATTGGTCTAAAAAATGACAAAACC-GGAAAAAGTTACCGGATATATTG
130 ATAAAAAT-GTCTCAAAATTGACAAAACCAGTAAAAAGCTACCGGATATATTG
*
11495 AAAGTGTCGATAATTTAATATTAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAATTATAGCG
1 AAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAA-AAATTATAGCG
** *
11560 CTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCTTTACCAATATAACAGGTAAAAATATG
65 CTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATG
* * * * ** * * *
11625 ATAAAACAAGTCTAAAAAATGATAAAA-CA-TGAAAAAATTTCCGGATATGTTA
130 ATAAAA-ATGTCTCAAAATTGACAAAACCAGT-AAAAAGCTACCGGATATATTG
* * **
11677 AAAGTGTCGATAATTTAATATAAGTATCAAC-CATTTTTGAATTTAAAAGAGAAAAAGTTATTCC
1 AAAGTGTCGATAATTTAATATAAGTATCGACAC-TTTCTGAATTTAAAAGAGAAAAA-TTATAGC
11741 GCTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAT
64 GCTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAT
*
11806 GATAAAACATGTCTCAAAATTGACAAAACCAGTAAAATGCTACCGGATATATTG
129 GATAAAA-ATGTCTCAAAATTGACAAAACCAGTAAAAAGCTACCGGATATATTG
* * * *
11860 AAAGTGTAGATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAAGAAGTTGTAGCG
1 AAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAA-AAATTATAGCG
* * ** * * * *
11925 -TCTATAAAGTGTCGATACTTTAAAAAAATATATCGATACACAATAATATAACAGGTAAAAATAT
65 CT-TAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAT
* * * *
11989 GATAAAACATGTCCCAAAATTGACAAAACCAGTAAAACA-ATATCGGATATGTTG
129 GATAAAA-ATGTCTCAAAATTGACAAAACCAGTAAAA-AGCTACCGGATATATTG
*
12043 AAAGTGTCGATAATTTAATATAAGTATCGACACTTTC------T------G--AAATTA-A--AC
1 AAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAAAATTATAGCGC
* * * **
12091 -TAAAAAGTATCGACACTTTATGGAAATATATATATCCATAACA-TATAACAGGTAAAAATATGA
66 TTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGA
* * * * ** * *
12154 TAAAATTGGTCT-AAAAATGACAAAACC-GGAAAAAGTTACCAAATATGTTA
131 TAAAAAT-GTCTCAAAATTGACAAAACCAGTAAAAAGCTACCGGATATATTG
* * *
12204 AAAATGTCGACAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAAAAGTTATTGCG
1 AAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAAAA-TTATAGCG
* *
12269 CTTAAAAAATGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
65 CTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATG
* * * *
12334 ATAAAACA-GATCTCAAAATTGACAAAACC-GGAAAAAGTTGCCGGATATGTTG
130 ATAAAA-ATG-TCTCAAAATTGACAAAACCAGTAAAAAGCTACCGGATATATTG
* *
12386 AAAGTGTCGATAATTTAATATAAGTATCGACACTTTATGAATTTAAAAGAGAAGAAGTTATAGCG
1 AAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAA-AAATTATAGCG
* * * *
12451 CCTAAAAAGTGTCGACACTTTACGAAAATGTATCGATCCAGAATAATATAACAGGTAAAAAATAT
65 CTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGT-AAAAATAT
*** * * * * * *
12516 GATAACACCGGTCTCAAAA-TGATAAAATCGGTAAATAGATACCGGATATGTTG
129 GATAA-AAATGTCTCAAAATTGACAAAACCAGTAAAAAGCTACCGGATATATTG
*
12569 AAAGTGTCGATACTTTAATA
1 AAAGTGTCGATAATTTAATA
12589 AGTACGCGTA
Statistics
Matches: 1086, Mismatches: 146, Indels: 88
0.82 0.11 0.07
Matches are distributed among these distances:
160 1 0.00
161 50 0.05
162 15 0.01
163 28 0.03
164 32 0.03
167 2 0.00
168 4 0.00
171 1 0.00
173 1 0.00
175 3 0.00
176 3 0.00
177 1 0.00
179 1 0.00
180 38 0.03
181 32 0.03
182 463 0.43
183 403 0.37
184 8 0.01
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (181 bp):
AAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAAAATTATAGCGC
TTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGA
TAAAAATGTCTCAAAATTGACAAAACCAGTAAAAAGCTACCGGATATATTG
Found at i:13002 original size:18 final size:19
Alignment explanation
Indices: 12976--13020 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
12966 TAGTTAATAT
*
12976 TTATTGGTA-AAAATGATA
1 TTATAGGTAGAAAATGATA
12994 TTATAGGTAGAAAATGATA
1 TTATAGGTAGAAAATGATA
*
13013 TTTTAGGT
1 TTATAGGT
13021 TGTATAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (19 bp):
TTATAGGTAGAAAATGATA
Found at i:13306 original size:18 final size:18
Alignment explanation
Indices: 13271--13309 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13261 TTTAAATGGT
13271 AATTGGATTAAAACTTTA
1 AATTGGATTAAAACTTTA
*
13289 AATT-GATTACAAATTTTA
1 AATTGGATTA-AAACTTTA
13307 AAT
1 AAT
13310 ATTGACAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (18 bp):
AATTGGATTAAAACTTTA
Found at i:15357 original size:115 final size:115
Alignment explanation
Indices: 15154--15369 Score: 308
Period size: 115 Copynumber: 1.9 Consensus size: 115
15144 TTACAATGTT
* *
15154 ATAGGTAAATTTACAATATATCCGGTATAAATATACCGATTTTATGAGAAAATAGATCTAAATAA
1 ATAGGTAAATTTACAATATAACCGGTATAAATATACCGATTTTATGAGAAAATAGATCAAAATAA
* *
15219 TGTATCGACACTTTTATAGTTTGTGTCGATACATTTAAATTTGCAATGCA
66 AGTATCGACACTTGTATAGTTTGTGTCGATACATTTAAATTTGCAATGCA
* * * * * *
15269 ATAGGTAAATTTGCAATGTAACCTGTTTAAATTTACCGGTTTTATGAGAAAATATG-TCAAAATA
1 ATAGGTAAATTTACAATATAACCGGTATAAATATACCGATTTTATGAGAAAATA-GATCAAAATA
* *
15333 AAGTATCGACACTTGTGTATTTTGTGTCGATACATTT
65 AAGTATCGACACTTGTATAGTTTGTGTCGATACATTT
15370 TGTCCATAAT
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
115 87 0.99
116 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (115 bp):
ATAGGTAAATTTACAATATAACCGGTATAAATATACCGATTTTATGAGAAAATAGATCAAAATAA
AGTATCGACACTTGTATAGTTTGTGTCGATACATTTAAATTTGCAATGCA
Found at i:15587 original size:313 final size:313
Alignment explanation
Indices: 14972--16182 Score: 1802
Period size: 313 Copynumber: 3.9 Consensus size: 313
14962 TTTAAATTAA
* * * * * * * *
14972 CAATGTAACCAGTATACATCTACCGG-TTAATTATAAAACATGTCAACATAAAGTATCGACACTT
1 CAATGTAACCAGTTTAAATTTACCGGTTTTATGAGAAAATATGTCAAAATAAAGTATCGACACTT
* * * * * * * *
15036 -TTTAAGTTTGTGTCGATAC-TTTTTTCCAAAAT-AAAGCACAAAC-AGGTTCACA-CATAAAGT
66 GTGTAA-TTTGTGTCGATACATTTTGTCCATAATGAATGC-CCAACGAGGTGCA-AGAATAACGT
* *
15096 GTCGATACATTTAAAATTATATCGATCTCAAAAATATCGAAACGAAAATTACAATGTTATAGGTA
128 GTCGATACATTTAAAATTATATCGATCCCAAAAACATCGAAACGAAAATTACAATGTTATAGGTA
* * *
15161 AATTTACAATATATCCGGTATAAATATACC-GATTTTATGAGAAAATAGATCTAAATAATGTATC
193 AATTTACAATATACCCGGTATAAATATACCAG-TTTTATGAGAAAATAGGTCTAAATAATATATC
* *
15225 GACACTTTTATAGTTTGTGTCGATACATTTAAATTTGCAATGCAATAGGTAAATTTG
257 GACACCTTTATAGTTTGTGTCGATACATTTAAATTTGTAATGCAATAGGTAAATTTG
*
15282 CAATGTAACCTGTTTAAATTTACCGGTTTTATGAGAAAATATGTCAAAATAAAGTATCGACACTT
1 CAATGTAACCAGTTTAAATTTACCGGTTTTATGAGAAAATATGTCAAAATAAAGTATCGACACTT
*
15347 GTGTATTTTGTGTCGATACATTTTGTCCATAATGAATGCCCAACGAGGTGCAAGAATAACGTGTC
66 GTGTAATTTGTGTCGATACATTTTGTCCATAATGAATGCCCAACGAGGTGCAAGAATAACGTGTC
* *
15412 GATACATTTAAAATTGTATCGATCCCAAAAACATTGAAACGAAAATTACAATGTTATAGGTAAAT
131 GATACATTTAAAATTATATCGATCCCAAAAACATCGAAACGAAAATTACAATGTTATAGGTAAAT
* **
15477 TTACAATATGCCCGGTATAAATATACTGGTTTTATGAGAAAATAGGTCTAAATAATATATCGACA
196 TTACAATATACCCGGTATAAATATACCAGTTTTATGAGAAAATAGGTCTAAATAATATATCGACA
*
15542 CCTTTATAGTTTGTGTCGATACATTTAAATTTGTAATGTAATAGGTAAATTTG
261 CCTTTATAGTTTGTGTCGATACATTTAAATTTGTAATGCAATAGGTAAATTTG
* * *
15595 CAATGTAACCAGTTTAAATTTACCGGTTTTGTGAGAAAATAGGTCAGAATAAAGTATCGACACTT
1 CAATGTAACCAGTTTAAATTTACCGGTTTTATGAGAAAATATGTCAAAATAAAGTATCGACACTT
*
15660 GTGTAATTTGTGTCGATACATTTTGTCCATAATGAATGCCCAACGAGGTGCAAGAATAATGTGTC
66 GTGTAATTTGTGTCGATACATTTTGTCCATAATGAATGCCCAACGAGGTGCAAGAATAACGTGTC
*
15725 GATACATTTAAAATTGTATCGAT--C-----CATCGAAACGAAAATTACAATGTTATAGGTAAAT
131 GATACATTTAAAATTATATCGATCCCAAAAACATCGAAACGAAAATTACAATGTTATAGGTAAAT
* * * * **
15783 TTACAATGTACCCGGTATAAATATATCAGTTTTATGAGAAAATATGTATAAATAATATATAAACA
196 TTACAATATACCCGGTATAAATATACCAGTTTTATGAGAAAATAGGTCTAAATAATATATCGACA
*
15848 CCTTTATAGTTTGTGTCTATACATTTAAATTTGTAATGCAATAGGTAAATTTG
261 CCTTTATAGTTTGTGTCGATACATTTAAATTTGTAATGCAATAGGTAAATTTG
* * * *
15901 TAATGTAACCGGTTTAAATTTACTGGTTTTATGAGAAAATATGTCAGAATAAAGTATCGACACTT
1 CAATGTAACCAGTTTAAATTTACCGGTTTTATGAGAAAATATGTCAAAATAAAGTATCGACACTT
* *
15966 GTGTAATTTGTGTCGATACATTTTGTCCATAATGAATACACAACGAGGTGCAAGAATAACGTGTC
66 GTGTAATTTGTGTCGATACATTTTGTCCATAATGAATGCCCAACGAGGTGCAAGAATAACGTGTC
16031 GATACATTTAAAATTATATCGATCCCAAAAACATCGAAACGAAAATTACAATGTTATAGGTAAAT
131 GATACATTTAAAATTATATCGATCCCAAAAACATCGAAACGAAAATTACAATGTTATAGGTAAAT
* * * * *
16096 TTACATTGTACCCGGTATAAATATACCAGTTTTATGAGAAAATAGGTCTAGATAATGTATCGATA
196 TTACAATATACCCGGTATAAATATACCAGTTTTATGAGAAAATAGGTCTAAATAATATATCGACA
16161 CCTTTATAGTTTGTGTCGATAC
261 CCTTTATAGTTTGTGTCGATAC
16183 TTTTTTCCAG
Statistics
Matches: 820, Mismatches: 67, Indels: 25
0.90 0.07 0.03
Matches are distributed among these distances:
306 284 0.35
308 1 0.00
310 22 0.03
311 47 0.06
312 19 0.02
313 446 0.54
314 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.34
Consensus pattern (313 bp):
CAATGTAACCAGTTTAAATTTACCGGTTTTATGAGAAAATATGTCAAAATAAAGTATCGACACTT
GTGTAATTTGTGTCGATACATTTTGTCCATAATGAATGCCCAACGAGGTGCAAGAATAACGTGTC
GATACATTTAAAATTATATCGATCCCAAAAACATCGAAACGAAAATTACAATGTTATAGGTAAAT
TTACAATATACCCGGTATAAATATACCAGTTTTATGAGAAAATAGGTCTAAATAATATATCGACA
CCTTTATAGTTTGTGTCGATACATTTAAATTTGTAATGCAATAGGTAAATTTG
Found at i:15670 original size:115 final size:115
Alignment explanation
Indices: 15461--15682 Score: 288
Period size: 115 Copynumber: 1.9 Consensus size: 115
15451 CGAAAATTAC
* ** * *
15461 AATGTTATAGGTAAATTTACAATATGCCCGGTATAAATATACTGGTTTTATGAGAAAATAGGTCT
1 AATGTAATAGGTAAATTTACAATATAACCAGTATAAATATACCGGTTTTATGAGAAAATAGGTCT
*
15526 AAATAATATATCGACACCTTTATAGTTTGTGTCGATACATTTAAATTTGT
66 AAATAATATATCGACACCTTTATAATTTGTGTCGATACATTTAAATTTGT
* * * * *
15576 AATGTAATAGGTAAATTTGCAATGTAACCAGTTTAAATTTACCGGTTTTGTGAGAAAATAGGTC-
1 AATGTAATAGGTAAATTTACAATATAACCAGTATAAATATACCGGTTTTATGAGAAAATAGGTCT
*
15640 AGAATAA-AGTATCGACA-CTTGTGTAATTTGTGTCGATACATTT
66 A-AATAATA-TATCGACACCTT-TATAATTTGTGTCGATACATTT
15683 TGTCCATAAT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
114 5 0.05
115 87 0.95
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (115 bp):
AATGTAATAGGTAAATTTACAATATAACCAGTATAAATATACCGGTTTTATGAGAAAATAGGTCT
AAATAATATATCGACACCTTTATAATTTGTGTCGATACATTTAAATTTGT
Found at i:15976 original size:115 final size:115
Alignment explanation
Indices: 15773--15988 Score: 260
Period size: 115 Copynumber: 1.9 Consensus size: 115
15763 TTACAATGTT
*
15773 ATAGGTAAATTTACAATGTACCCGGTATAAATATATCAGTTTTATGAGAAAATATGTATAAATAA
1 ATAGGTAAATTTACAATGTAACCGGTATAAATATATCAGTTTTATGAGAAAATATGTATAAATAA
* *
15838 TATATAAACACCTTTATAGTTTGTGTCTATACATTTAAATTTGTAATGCA
66 TATATAAACACCTTTATAATTTGTGTCGATACATTTAAATTTGTAATGCA
** * * * *
15888 ATAGGTAAATTTGTAATGTAACCGGTTTAAATTTA-CTGGTTTTATGAGAAAATATGTCA-GAAT
1 ATAGGTAAATTTACAATGTAACCGGTATAAATATATC-AGTTTTATGAGAAAATATGT-ATAAAT
** *
15951 AA-AGTATCGACA-CTTGTGTAATTTGTGTCGATACATTT
64 AATA-TATAAACACCTT-TATAATTTGTGTCGATACATTT
15989 TGTCCATAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
114 5 0.06
115 79 0.93
116 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.38
Consensus pattern (115 bp):
ATAGGTAAATTTACAATGTAACCGGTATAAATATATCAGTTTTATGAGAAAATATGTATAAATAA
TATATAAACACCTTTATAATTTGTGTCGATACATTTAAATTTGTAATGCA
Found at i:16395 original size:23 final size:23
Alignment explanation
Indices: 16345--16389 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
16335 TGCCTATTTT
*
16345 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
16368 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
16390 TGTTATTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:22766 original size:7 final size:7
Alignment explanation
Indices: 22750--22810 Score: 88
Period size: 7 Copynumber: 8.4 Consensus size: 7
22740 AACATTCGGA
22750 GATG-TC
1 GATGCTC
22756 GATGCTC
1 GATGCTC
22763 GATGCTCCTC
1 GATG---CTC
22773 GATGCTC
1 GATGCTC
22780 GATGCTC
1 GATGCTC
22787 GATGCTC
1 GATGCTC
22794 GATGCTC
1 GATGCTC
22801 GATGCTC
1 GATGCTC
22808 GAT
1 GAT
22811 CACCTATTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
6 4 0.08
7 40 0.78
10 7 0.14
ACGTcount: A:0.15, C:0.28, G:0.28, T:0.30
Consensus pattern (7 bp):
GATGCTC
Found at i:24601 original size:23 final size:22
Alignment explanation
Indices: 24544--24605 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 22
24534 AGCATTTTTC
* * *
24544 TCTGTTCTTATAGCACGTTTTT
1 TCTGCTCTTGTAGCACGTTCTT
* **
24566 TCTACTCCCGTAGCACGCTTCTT
1 TCTGCTCTTGTAGCACG-TTCTT
24589 TCTGCTCTTGTAGCACG
1 TCTGCTCTTGTAGCACG
24606 ATTTCTTGCA
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.13, C:0.29, G:0.16, T:0.42
Consensus pattern (22 bp):
TCTGCTCTTGTAGCACGTTCTT
Found at i:27227 original size:33 final size:33
Alignment explanation
Indices: 27185--27250 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
27175 TTTATCAAAA
*
27185 ATTTTTGGCACATCATCGGTTCTAAGGTCTCTG
1 ATTTTTGGCACATCATCGGTTCTAAGGCCTCTG
27218 ATTTTTGGCACATCATCGGTTCTAAGGCCTCTG
1 ATTTTTGGCACATCATCGGTTCTAAGGCCTCTG
27251 GTAACTTGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (33 bp):
ATTTTTGGCACATCATCGGTTCTAAGGCCTCTG
Found at i:37326 original size:13 final size:14
Alignment explanation
Indices: 37310--37339 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
37300 TCTTCCATTA
37310 CTTTCTTTCTTT-C
1 CTTTCTTTCTTTGC
37323 CTTTCTTTCTTTGC
1 CTTTCTTTCTTTGC
37337 CTT
1 CTT
37340 CCAAATCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.00, C:0.30, G:0.03, T:0.67
Consensus pattern (14 bp):
CTTTCTTTCTTTGC
Found at i:37580 original size:7 final size:7
Alignment explanation
Indices: 37568--37603 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
37558 AAACCCACCC
37568 AGAAGAG
1 AGAAGAG
37575 AGAAGAG
1 AGAAGAG
37582 AGAAGAG
1 AGAAGAG
37589 AGAAGAG
1 AGAAGAG
37596 AGAAGAG
1 AGAAGAG
37603 A
1 A
37604 ATTGGACTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (7 bp):
AGAAGAG
Found at i:41483 original size:76 final size:77
Alignment explanation
Indices: 41356--41504 Score: 282
Period size: 76 Copynumber: 1.9 Consensus size: 77
41346 TGTCTGGTTT
*
41356 GTACTTAGTTTACTGGGTTAGTGTAAGAAGGATGGAATATGTTGTCATTAATATTGTTGTTTCTT
1 GTACTTAGTTTACTGGGTTAGTGTAAGAAGGATGAAATATGTTGTCATTAATATTGTTGTTTCTT
41421 TCTCTCTCTTGG
66 TCTCTCTCTTGG
41433 GTACTTAGTTTA-TGGGTTAGTGTAAGAAGGATGAAATATGTTGTCATTAATATTGTTGTTTCTT
1 GTACTTAGTTTACTGGGTTAGTGTAAGAAGGATGAAATATGTTGTCATTAATATTGTTGTTTCTT
41497 TCTCTCTC
66 TCTCTCTC
41505 AACCATTTCA
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
76 59 0.83
77 12 0.17
ACGTcount: A:0.22, C:0.10, G:0.22, T:0.46
Consensus pattern (77 bp):
GTACTTAGTTTACTGGGTTAGTGTAAGAAGGATGAAATATGTTGTCATTAATATTGTTGTTTCTT
TCTCTCTCTTGG
Found at i:42409 original size:20 final size:21
Alignment explanation
Indices: 42384--42427 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
42374 ATATTATATA
42384 AATCTA-TTATGTATCATTT-T
1 AATCTACTT-TGTATCATTTAT
*
42404 AATCTACTTTGTTTCATTTAT
1 AATCTACTTTGTATCATTTAT
42425 AAT
1 AAT
42428 ATCGATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.30, C:0.11, G:0.05, T:0.55
Consensus pattern (21 bp):
AATCTACTTTGTATCATTTAT
Found at i:45609 original size:15 final size:15
Alignment explanation
Indices: 45589--45618 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
45579 GAGCCGAGCC
45589 AAAGCAGCAGATGCT
1 AAAGCAGCAGATGCT
45604 AAAGCAGCAGATGCT
1 AAAGCAGCAGATGCT
45619 GCCTCCAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.27, T:0.13
Consensus pattern (15 bp):
AAAGCAGCAGATGCT
Found at i:58067 original size:31 final size:30
Alignment explanation
Indices: 57994--58067 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 30
57984 AAAATCGAAT
* * *
57994 TAAACGGGGATGGGGAAAAATCGTTTATGC
1 TAAACGGGGACGGGAAAAAACCGTTTATGC
58024 TAAACGGGGACGGGAAAAAACCGTTTATGC
1 TAAACGGGGACGGGAAAAAACCGTTTATGC
*
58054 TAAAACGGAGACGG
1 T-AAACGGGGACGG
58068 AGACGGGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 28 0.72
31 11 0.28
ACGTcount: A:0.36, C:0.14, G:0.32, T:0.18
Consensus pattern (30 bp):
TAAACGGGGACGGGAAAAAACCGTTTATGC
Found at i:58520 original size:20 final size:20
Alignment explanation
Indices: 58461--58509 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
58451 TATATTATTC
*
58461 TCGATTATCACTTATCATAA
1 TCGATCATCACTTATCATAA
58481 TCGATCATCACTTATCATAA
1 TCGATCATCACTTATCATAA
58501 TCGATCATC
1 TCGATCATC
58510 GTTATCAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.37
Consensus pattern (20 bp):
TCGATCATCACTTATCATAA
Found at i:60742 original size:2 final size:2
Alignment explanation
Indices: 60735--60766 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
60725 GAGTTGGATA
60735 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
60767 TCGGGTTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61921 original size:31 final size:32
Alignment explanation
Indices: 61883--61950 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 32
61873 AATAAATCGG
*
61883 TCACTAATATTATTGATTTGTAAC-AAAATGA
1 TCACTAATATTATCGATTTGTAACAAAAATGA
*
61914 TCACTAATGTTATCGATTTGTAACAAAAATGA
1 TCACTAATATTATCGATTTGTAACAAAAATGA
61946 TCACT
1 TCACT
61951 CTACCACCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 22 0.65
32 12 0.35
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (32 bp):
TCACTAATATTATCGATTTGTAACAAAAATGA
Found at i:63727 original size:17 final size:17
Alignment explanation
Indices: 63700--63738 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
63690 AATTTATAAT
63700 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
63716 TAATTATAAATAATATC
1 TAATTATAAATAATATC
63733 TAATTA
1 TAATTA
63739 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:64797 original size:22 final size:21
Alignment explanation
Indices: 64765--64820 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
64755 ATCATAAATT
*
64765 CTAAACGCTAAACTATAA-CC
1 CTAAACCCTAAACTATAAGCC
* *
64785 CTATAACCTCTAAAGTATAAGCT
1 CTA-AACC-CTAAACTATAAGCC
64808 CTAAACCCTAAAC
1 CTAAACCCTAAAC
64821 CCTAGCTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 3 0.10
21 8 0.28
22 14 0.48
23 4 0.14
ACGTcount: A:0.43, C:0.29, G:0.05, T:0.23
Consensus pattern (21 bp):
CTAAACCCTAAACTATAAGCC
Found at i:71987 original size:25 final size:23
Alignment explanation
Indices: 71948--71994 Score: 76
Period size: 25 Copynumber: 2.0 Consensus size: 23
71938 ACAATATATA
71948 AAAATAATAGGATATAAACTGGT
1 AAAATAATAGGATATAAACTGGT
71971 AAAATATATATGGATATAAACTGG
1 AAAATA-ATA-GGATATAAACTGG
71995 ATTTGAAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 6 0.27
24 3 0.14
25 13 0.59
ACGTcount: A:0.51, C:0.04, G:0.17, T:0.28
Consensus pattern (23 bp):
AAAATAATAGGATATAAACTGGT
Found at i:78794 original size:32 final size:32
Alignment explanation
Indices: 78719--78794 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
78709 ATAATTATTT
78719 TATATATATATAATTAATAAATTTAATTTAAA
1 TATATATATATAATTAATAAATTTAATTTAAA
* * * *
78751 TAAAAAAATATATATT-ATATATTTAATTTAAA
1 TATATATATATA-ATTAATAAATTTAATTTAAA
78783 TATATATATATA
1 TATATATATATA
78795 CCCGGCCCGA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
32 33 0.92
33 3 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (32 bp):
TATATATATATAATTAATAAATTTAATTTAAA
Found at i:78827 original size:12 final size:12
Alignment explanation
Indices: 78812--78844 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
78802 CGATTCTCGG
78812 CCCAATACCTGA
1 CCCAATACCTGA
*
78824 CCCAATACCTGG
1 CCCAATACCTGA
78836 CCCAATACC
1 CCCAATACC
78845 CGTTTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.30, C:0.45, G:0.09, T:0.15
Consensus pattern (12 bp):
CCCAATACCTGA
Found at i:79124 original size:17 final size:17
Alignment explanation
Indices: 79102--79137 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
79092 AATCACACTA
79102 AATTTATTTTCTGAATT
1 AATTTATTTTCTGAATT
79119 AATTTATTTTCTGAATT
1 AATTTATTTTCTGAATT
79136 AA
1 AA
79138 AAATCACGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (17 bp):
AATTTATTTTCTGAATT
Found at i:86738 original size:29 final size:29
Alignment explanation
Indices: 86674--86730 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
86664 CAAAGCATAG
*
86674 TAACTGTAAGAAATGCTTGCAGCCAATAT
1 TAACAGTAAGAAATGCTTGCAGCCAATAT
* *
86703 TAACAGTAAGACATGTTTGCAGCCAATA
1 TAACAGTAAGAAATGCTTGCAGCCAATA
86731 ATTTCAGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.26
Consensus pattern (29 bp):
TAACAGTAAGAAATGCTTGCAGCCAATAT
Found at i:86870 original size:2 final size:2
Alignment explanation
Indices: 86863--86894 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
86853 ACAACTTGTT
86863 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
86895 GTACATCGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:96346 original size:26 final size:25
Alignment explanation
Indices: 96317--96367 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
96307 TATTTCAAAA
**
96317 ATTTTGTATTTTTTAAATATAATTTT
1 ATTTTGTAAATTTTAAATA-AATTTT
*
96343 ATTTTTTAAATTTTAAATAAATTTT
1 ATTTTGTAAATTTTAAATAAATTTT
96368 TAAAATTACC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
ATTTTGTAAATTTTAAATAAATTTT
Found at i:97737 original size:14 final size:14
Alignment explanation
Indices: 97718--97744 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
97708 TTTATCTTAA
97718 AAATTATAGAAATC
1 AAATTATAGAAATC
97732 AAATTATAGAAAT
1 AAATTATAGAAAT
97745 ATCGAAGTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (14 bp):
AAATTATAGAAATC
Found at i:97819 original size:27 final size:28
Alignment explanation
Indices: 97769--97842 Score: 107
Period size: 28 Copynumber: 2.6 Consensus size: 28
97759 AAAAAGGTTT
97769 TTAAGTGTCAAAGTGAAGC-AAAAACAG
1 TTAAGTGTCAAAGTGAAGCAAAAAACAG
*
97796 CTTAAGTGTTAAA-TGAAGCAAAAAACAG
1 -TTAAGTGTCAAAGTGAAGCAAAAAACAG
97824 TTCAAGTGTCAAAGTGAAG
1 TT-AAGTGTCAAAGTGAAG
97843 GCACAGATGC
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
27 8 0.20
28 28 0.68
29 5 0.12
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.22
Consensus pattern (28 bp):
TTAAGTGTCAAAGTGAAGCAAAAAACAG
Found at i:97978 original size:12 final size:12
Alignment explanation
Indices: 97961--97985 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
97951 AAATCAAGAA
97961 ATATACATACAT
1 ATATACATACAT
97973 ATATACATACAT
1 ATATACATACAT
97985 A
1 A
97986 CATAAACAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATATACATACAT
Found at i:111550 original size:29 final size:29
Alignment explanation
Indices: 111507--111618 Score: 197
Period size: 29 Copynumber: 3.8 Consensus size: 29
111497 CTCACCTAAC
111507 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
111537 TAAATGATGTAAGCAATGACATCATTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
111566 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
111595 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
111619 ATTTAGTTTG
Statistics
Matches: 79, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
29 75 0.95
30 4 0.05
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:116348 original size:29 final size:29
Alignment explanation
Indices: 116305--116416 Score: 197
Period size: 29 Copynumber: 3.8 Consensus size: 29
116295 CTCACCTAAC
116305 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
116335 TAAATGATGTAAGCAATGACATCATTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
116364 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
116393 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
116417 ATTTAGTTTG
Statistics
Matches: 79, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
29 75 0.95
30 4 0.05
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:117634 original size:39 final size:39
Alignment explanation
Indices: 117503--117637 Score: 155
Period size: 39 Copynumber: 3.5 Consensus size: 39
117493 TCAACATAAA
* * * *
117503 AGAACTTCTCTAGGTATAGACAGTGGGAACCATTAAGAA
1 AGAACTTCTCTAGGTATGGACAATGGAAACCATTAAGAT
* * * *
117542 ATAACTTCAT-TGGGTATGGACACTGGAAACCATTAGGAT
1 AGAACTTC-TCTAGGTATGGACAATGGAAACCATTAAGAT
* *
117581 AGAACATCTTTAGGTATGGACAATGGAAACCATTAAGAT
1 AGAACTTCTCTAGGTATGGACAATGGAAACCATTAAGAT
*
117620 GGAACTTCTCTAGGTATG
1 AGAACTTCTCTAGGTATG
117638 AAAACTGGAA
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
38 1 0.01
39 77 0.97
40 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.27
Consensus pattern (39 bp):
AGAACTTCTCTAGGTATGGACAATGGAAACCATTAAGAT
Found at i:117636 original size:78 final size:78
Alignment explanation
Indices: 117503--117648 Score: 177
Period size: 78 Copynumber: 1.9 Consensus size: 78
117493 TCAACATAAA
* * * * * * *
117503 AGAACTTCTCTAGGTATAGACAGTGGGAACCATTAAGAAATAACTTCATTGGGTATGGACACTGG
1 AGAACATCTCTAGGTATAGACAATGGAAACCATTAAGAAAGAACTTCATTAGGTATGAAAACTGG
117568 AAACCATTAGGAT
66 AAACCATTAGGAT
* * **
117581 AGAACATCTTTAGGTATGGACAATGGAAACCATTAAGATGGAACTTC-TCTAGGTATGAAAACTG
1 AGAACATCTCTAGGTATAGACAATGGAAACCATTAAGAAAGAACTTCAT-TAGGTATGAAAACTG
117645 GAAA
65 GAAA
117649 ACATCTTCAG
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
77 1 0.02
78 55 0.98
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (78 bp):
AGAACATCTCTAGGTATAGACAATGGAAACCATTAAGAAAGAACTTCATTAGGTATGAAAACTGG
AAACCATTAGGAT
Found at i:125788 original size:23 final size:23
Alignment explanation
Indices: 125761--125835 Score: 78
Period size: 23 Copynumber: 3.3 Consensus size: 23
125751 GTGTTCATTT
*
125761 ATTTATTGTTCATGAACATGTTC
1 ATTTATCGTTCATGAACATGTTC
* * *
125784 ATTTACCGTTCATGAATATGTTT
1 ATTTATCGTTCATGAACATGTTC
* * * *
125807 GTTTAACGTTCGTGAACATATTC
1 ATTTATCGTTCATGAACATGTTC
125830 ATTTAT
1 ATTTAT
125836 ATATTCAAAA
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (23 bp):
ATTTATCGTTCATGAACATGTTC
Found at i:128810 original size:9 final size:9
Alignment explanation
Indices: 128777--128816 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
128767 TAATTTACTC
*
128777 TTTTTATTA
1 TTTTTAATA
*
128786 TTTTTAATT
1 TTTTTAATA
128795 TTTTTAATA
1 TTTTTAATA
*
128804 TTTTTAAAA
1 TTTTTAATA
128813 TTTT
1 TTTT
128817 CAATTTACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTTTAATA
Found at i:129301 original size:15 final size:15
Alignment explanation
Indices: 129277--129378 Score: 109
Period size: 15 Copynumber: 6.9 Consensus size: 15
129267 TTGGTTTTCC
*
129277 GGAAAATGAATTACT
1 GGAAATTGAATTACT
*
129292 GGAATTTGAATTACT
1 GGAAATTGAATTACT
129307 -GAAACTTGAATTACT
1 GGAAA-TTGAATTACT
*
129322 GGAAAATGAATTACT
1 GGAAATTGAATTACT
*
129337 GGAAAATGAATTACT
1 GGAAATTGAATTACT
* *
129352 TGAATTTGAATT-CT
1 GGAAATTGAATTACT
* *
129366 GTAAAATGAATTA
1 GGAAATTGAATTA
129379 TATTTCTCGA
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
14 13 0.18
15 56 0.77
16 4 0.05
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (15 bp):
GGAAATTGAATTACT
Found at i:129319 original size:30 final size:30
Alignment explanation
Indices: 129277--129378 Score: 136
Period size: 30 Copynumber: 3.4 Consensus size: 30
129267 TTGGTTTTCC
129277 GGAAAATGAATTACTGGAATTTGAATTACT
1 GGAAAATGAATTACTGGAATTTGAATTACT
* **
129307 -GAAACTTGAATTACTGGAAAATGAATTACT
1 GGAAA-ATGAATTACTGGAATTTGAATTACT
*
129337 GGAAAATGAATTACTTGAATTTGAATT-CT
1 GGAAAATGAATTACTGGAATTTGAATTACT
*
129366 GTAAAATGAATTA
1 GGAAAATGAATTA
129379 TATTTCTCGA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
29 18 0.29
30 40 0.65
31 4 0.06
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (30 bp):
GGAAAATGAATTACTGGAATTTGAATTACT
Found at i:129327 original size:45 final size:44
Alignment explanation
Indices: 129277--129378 Score: 143
Period size: 45 Copynumber: 2.3 Consensus size: 44
129267 TTGGTTTTCC
**
129277 GGAAAATGAATTACTGGAATTTGAATTAC-TGAAACTTGAATTACT
1 GGAAAATGAATTACTGGAAAATGAATTACTTG-AACTTGAATT-CT
*
129322 GGAAAATGAATTACTGGAAAATGAATTACTTGAATTTGAATTCT
1 GGAAAATGAATTACTGGAAAATGAATTACTTGAACTTGAATTCT
*
129366 GTAAAATGAATTA
1 GGAAAATGAATTA
129379 TATTTCTCGA
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
44 14 0.27
45 36 0.69
46 2 0.04
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (44 bp):
GGAAAATGAATTACTGGAAAATGAATTACTTGAACTTGAATTCT
Found at i:129664 original size:33 final size:33
Alignment explanation
Indices: 129626--129701 Score: 152
Period size: 33 Copynumber: 2.3 Consensus size: 33
129616 TAATTTTATT
129626 AATAAAAATATTAATTTTTGTATATTTTAGTGA
1 AATAAAAATATTAATTTTTGTATATTTTAGTGA
129659 AATAAAAATATTAATTTTTGTATATTTTAGTGA
1 AATAAAAATATTAATTTTTGTATATTTTAGTGA
129692 AATAAAAATA
1 AATAAAAATA
129702 ATATAAATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (33 bp):
AATAAAAATATTAATTTTTGTATATTTTAGTGA
Found at i:129746 original size:26 final size:27
Alignment explanation
Indices: 129712--129772 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
129702 ATATAAATTA
*
129712 TATTA-ATTAT-TTATTAAAATAATAGT
1 TATTATATTATATT-TTAAAATAATAAT
*
129738 TA-TATATTATATTTTAAAATATTAAT
1 TATTATATTATATTTTAAAATAATAAT
129764 TATTATATT
1 TATTATATT
129773 TTAAATATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 2 0.07
26 20 0.67
27 8 0.27
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (27 bp):
TATTATATTATATTTTAAAATAATAAT
Found at i:129767 original size:22 final size:22
Alignment explanation
Indices: 129711--129777 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
129701 AATATAAATT
**
129711 ATATTAATTATT-TATTAAAATA
1 ATATTAATTATTATATTTTAA-A
129733 ATAGTT-ATATATTATATTTTAAA
1 ATA-TTAAT-TATTATATTTTAAA
129756 ATATTAATTATTATATTTTAAA
1 ATATTAATTATTATATTTTAAA
129778 TATCTTTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
22 21 0.54
23 12 0.31
24 6 0.15
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (22 bp):
ATATTAATTATTATATTTTAAA
Found at i:129854 original size:27 final size:28
Alignment explanation
Indices: 129793--129855 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 28
129783 TTATTAAAAT
* *
129793 ATTATTTAAATATATAAATAATATTATTC
1 ATTA-TTAAATATATAAAAAAAATTATTC
129822 ATTATTAAATATA-AAAAAAAATTATT-
1 ATTATTAAATATATAAAAAAAATTATTC
129848 ATATATTA
1 AT-TATTA
129856 TTAAAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 2 0.06
27 16 0.52
28 9 0.29
29 4 0.13
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
ATTATTAAATATATAAAAAAAATTATTC
Found at i:129875 original size:24 final size:23
Alignment explanation
Indices: 129835--129880 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
129825 ATTAAATATA
*
129835 AAAAAAAATTATTATATATTATT
1 AAAAAAAATTATAATATATTATT
* *
129858 AAAATAAATATATAATATCTTAT
1 AAAAAAAAT-TATAATATATTAT
129881 ATTATTATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
AAAAAAAATTATAATATATTATT
Found at i:129902 original size:23 final size:22
Alignment explanation
Indices: 129867--129941 Score: 66
Period size: 23 Copynumber: 3.4 Consensus size: 22
129857 TAAAATAAAT
129867 ATATAATATCTTATATTATTATA
1 ATATAATATCTTATATTA-TATA
*
129890 ATATAAT-TGCTTATTTTATATA
1 ATATAATAT-CTTATATTATATA
* * *
129912 ATATTAAAATATTAT-TTATATT
1 ATA-TAATATCTTATATTATATA
129934 ATA-AATAT
1 ATATAATAT
129942 AATAAATAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
20 4 0.09
22 17 0.39
23 22 0.50
24 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (22 bp):
ATATAATATCTTATATTATATA
Found at i:129945 original size:23 final size:23
Alignment explanation
Indices: 129861--129945 Score: 59
Period size: 25 Copynumber: 3.5 Consensus size: 23
129851 TATTATTAAA
*
129861 ATAAATAT-ATAATATCTTATATT
1 ATAAATATAATATTAT-TTATATT
*
129884 ATTATAATATAATTGCTTATTT-TA-T
1 A-TA-AATATAA-T-ATTATTTATATT
*
129909 ATAATATTAAAATATTATTTATATT
1 ATAA-A-TATAATATTATTTATATT
129934 ATAAATATAATA
1 ATAAATATAATA
129946 AATAAATAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 18
0.68 0.07 0.25
Matches are distributed among these distances:
23 14 0.29
24 9 0.19
25 16 0.33
26 3 0.06
27 3 0.06
28 3 0.06
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (23 bp):
ATAAATATAATATTATTTATATT
Found at i:131257 original size:18 final size:19
Alignment explanation
Indices: 131223--131259 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
131213 ACAGAATGTG
131223 AGATTACCAGTGGGAATAAA
1 AGATTACCAG-GGGAATAAA
131243 AGATTACCA-GGGAATAA
1 AGATTACCAGGGGAATAA
131260 GATTAATGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AGATTACCAGGGGAATAAA
Found at i:131478 original size:36 final size:36
Alignment explanation
Indices: 131408--131480 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 36
131398 GTTGGAAAAT
* *
131408 ATTTATATATTTTCTTTAAAAATTTAAATTTATAAA
1 ATTTATATATTTTCTTTAAAAATTGAAATATATAAA
131444 ATTTATATAATTTT-TTTACAAAATTGAAA-ATATAAA
1 ATTTATAT-ATTTTCTTTA-AAAATTGAAATATATAAA
131480 A
1 A
131481 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 19 0.58
37 14 0.42
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (36 bp):
ATTTATATATTTTCTTTAAAAATTGAAATATATAAA
Found at i:142451 original size:197 final size:195
Alignment explanation
Indices: 142116--142477 Score: 706
Period size: 197 Copynumber: 1.8 Consensus size: 195
142106 AAAATATGTG
142116 TGTCGTCATCATTATTTAACTCGTGTAATTATGTGTCTTCGACATAGATTGTAAATATTTATTTA
1 TGTCGTCATCATTATTTAACTCGTGTAATTATGTGTCTTCGACATAGATTGTAAATATTTATTTA
142181 TTTTTGACAAAGTTCATATATTTTTTATATTTTTCATTTCTCCTTTTTTTTCATTATTTTAATTT
66 TTTTTGACAAAGTTCATATATTTTTTATATTTTTCATTTCTCCTTTTTTTTCATTATTTTAATTT
142246 AGTTTGTGCTCATATTATTGTCATGTAAACAACGCACATTATAAGACACCCGCTTTTGTGGGGTT
131 AGTTTGTGCTC--ATTATTGTCATGTAAACAACGCACATTATAAGACACCCGCTTTTGTGGGGTT
142311 TT
194 TT
142313 TGTCGTCATCATTATTTAACTCGTGTAATTATGTGTCTTCGACATAGATTGTAAATATTTATTTA
1 TGTCGTCATCATTATTTAACTCGTGTAATTATGTGTCTTCGACATAGATTGTAAATATTTATTTA
142378 TTTTTGACAAAGTTCATATATTTTTTATATTTTTCATTTCTCCTTTTTTTTCATTATTTTAATTT
66 TTTTTGACAAAGTTCATATATTTTTTATATTTTTCATTTCTCCTTTTTTTTCATTATTTTAATTT
142443 AGTTTGTGCTCATTATTGTCATGTAAACAACGCAC
131 AGTTTGTGCTCATTATTGTCATGTAAACAACGCAC
142478 GCCTTGTGCC
Statistics
Matches: 165, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
195 24 0.15
197 141 0.85
ACGTcount: A:0.25, C:0.14, G:0.11, T:0.50
Consensus pattern (195 bp):
TGTCGTCATCATTATTTAACTCGTGTAATTATGTGTCTTCGACATAGATTGTAAATATTTATTTA
TTTTTGACAAAGTTCATATATTTTTTATATTTTTCATTTCTCCTTTTTTTTCATTATTTTAATTT
AGTTTGTGCTCATTATTGTCATGTAAACAACGCACATTATAAGACACCCGCTTTTGTGGGGTTTT
Found at i:145251 original size:17 final size:17
Alignment explanation
Indices: 145230--145559 Score: 136
Period size: 17 Copynumber: 20.4 Consensus size: 17
145220 ATTGATATGT
*
145230 AATTAGGATTTTTTTTT
1 AATTAGGATTTTTTTTA
**
145247 AATTAGGATAATTTTTA
1 AATTAGGATTTTTTTTA
* *
145264 AATTAGAATTTTCTTTA
1 AATTAGGATTTTTTTTA
* *
145281 AGATTAAGA--TTTTTCA
1 A-ATTAGGATTTTTTTTA
*
145297 AATTAGGA-TTCTTTT-
1 AATTAGGATTTTTTTTA
*
145312 AATTTGGA-TTTTTTTA
1 AATTAGGATTTTTTTTA
*
145328 AATTA--ATATTTTTTA
1 AATTAGGATTTTTTTTA
* *
145343 AATTTGGATTTTGTTTA
1 AATTAGGATTTTTTTTA
* *
145360 AGATTAAGATTTTTTTAA
1 A-ATTAGGATTTTTTTTA
*
145378 AATTAGGA-TTTTTTAA
1 AATTAGGATTTTTTTTA
* *
145394 AATTTGG--TTTTTCTA
1 AATTAGGATTTTTTTTA
*
145409 GAA-TAGAATTTTTTTT-
1 -AATTAGGATTTTTTTTA
*
145425 -A-T----TCTTTTTTA
1 AATTAGGATTTTTTTTA
*
145436 AATTA-GAATTTTTTTA
1 AATTAGGATTTTTTTTA
*
145452 AGATTAAG-TTTTTTTTGA
1 A-ATTAGGATTTTTTTT-A
*
145470 AATTTA-GATTTTTGTT-
1 AA-TTAGGATTTTTTTTA
* *
145486 AATTATGATATATTTTTAA
1 AATTAGGAT-T-TTTTTTA
*
145505 AATT---ATTATTTTTA
1 AATTAGGATTTTTTTTA
*
145519 AATTA-AATTATTTTTTA
1 AATTAGGATT-TTTTTTA
* **
145536 ATTTAGTTTTTTTTTTA
1 AATTAGGATTTTTTTTA
145553 AATTAGG
1 AATTAGG
145560 TTCTCCTTTT
Statistics
Matches: 237, Mismatches: 47, Indels: 58
0.69 0.14 0.17
Matches are distributed among these distances:
10 7 0.03
12 1 0.00
13 1 0.00
14 12 0.05
15 42 0.18
16 48 0.20
17 85 0.36
18 37 0.16
19 4 0.02
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.57
Consensus pattern (17 bp):
AATTAGGATTTTTTTTA
Found at i:145338 original size:16 final size:16
Alignment explanation
Indices: 145239--145548 Score: 118
Period size: 16 Copynumber: 19.4 Consensus size: 16
145229 TAATTAGGAT
* *
145239 TTTTTTTTAATTAGGA
1 TTTTTTTAAATTAAGA
*
145255 TAATTTTTAAATT-AGAA
1 T-TTTTTTAAATTAAG-A
145272 TTTTCTTTAAGATTAAGA
1 TTTT-TTTAA-ATTAAGA
* *
145290 -TTTTTCAAATTAGGA
1 TTTTTTTAAATTAAGA
* **
145305 TTCTTTT-AATTTGGA
1 TTTTTTTAAATTAAGA
*
145320 TTTTTTTAAATTAATA
1 TTTTTTTAAATTAAGA
**
145336 -TTTTTTAAATTTGGA
1 TTTTTTTAAATTAAGA
145351 TTTTGTTTAAGATTAAGA
1 TTTT-TTTAA-ATTAAGA
*
145369 TTTTTTTAAAATTAGGA
1 TTTTTTT-AAATTAAGA
* * *
145386 TTTTTTAAAATT-TGG
1 TTTTTTTAAATTAAGA
*
145401 TTTTTCTAGAA-T-AGAA
1 TTTTTTTA-AATTAAG-A
*
145417 TTTTTTT-TATT----
1 TTTTTTTAAATTAAGA
*
145428 CTTTTTTAAATT-AGAA
1 TTTTTTTAAATTAAG-A
*
145444 TTTTTTTAAGATTAAGT
1 TTTTTTTAA-ATTAAGA
*
145461 TTTTTTTGAAATTTAGA
1 TTTTTTT-AAATTAAGA
*
145478 TTTTTGTT-AATTATGA
1 TTTTT-TTAAATTAAGA
145494 TATATTTTTAAAATT---A
1 T-T-TTTTT-AAATTAAGA
145510 TTATTTTTAAATTAA-A
1 TT-TTTTTAAATTAAGA
* *
145526 TTATTTTTTAATTTAG-
1 TT-TTTTTAAATTAAGA
145542 TTTTTTT
1 TTTTTTT
145549 TTTAAATTAG
Statistics
Matches: 226, Mismatches: 38, Indels: 61
0.70 0.12 0.19
Matches are distributed among these distances:
11 6 0.03
12 3 0.01
14 6 0.03
15 53 0.23
16 66 0.29
17 62 0.27
18 24 0.11
19 6 0.03
ACGTcount: A:0.31, C:0.02, G:0.09, T:0.58
Consensus pattern (16 bp):
TTTTTTTAAATTAAGA
Found at i:145363 original size:79 final size:81
Alignment explanation
Indices: 145229--145393 Score: 219
Period size: 79 Copynumber: 2.0 Consensus size: 81
145219 TATTGATATG
*
145229 TAATTAGGATTTTTTTTTAATTAGGATAATTTTTAAATTAGAATTTTCTTTAAGATTAAGA-TTT
1 TAATTAGGATTTTTTTTAAATTA-GATAATTTTTAAATTAGAATTTTCTTTAAGATTAAGATTTT
*
145293 TTCAAATTAGGATTCTTT
65 TTAAAATTAGGATT-TTT
* * * * *
145311 TAATTTGGA-TTTTTTTAAATTA-ATATTTTTTAAATTTGGATTTTGTTTAAGATTAAGATTTTT
1 TAATTAGGATTTTTTTTAAATTAGATAATTTTTAAATTAGAATTTTCTTTAAGATTAAGA-TTTT
145374 TTAAAATTAGGATTTTT
65 TTAAAATTAGGATTTTT
145391 TAA
1 TAA
145394 AATTTGGTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
79 32 0.43
80 6 0.08
81 28 0.38
82 8 0.11
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.55
Consensus pattern (81 bp):
TAATTAGGATTTTTTTTAAATTAGATAATTTTTAAATTAGAATTTTCTTTAAGATTAAGATTTTT
TAAAATTAGGATTTTT
Found at i:150315 original size:14 final size:15
Alignment explanation
Indices: 150289--150328 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
150279 TTTCTGTCTA
150289 TATGCA-GAGATTT-T
1 TATGCAGGA-ATTTAT
150303 TATGCAGGAATTTAT
1 TATGCAGGAATTTAT
150318 T-TGCAGGAATT
1 TATGCAGGAATT
150329 ACTTCCCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (15 bp):
TATGCAGGAATTTAT
Found at i:151997 original size:3 final size:3
Alignment explanation
Indices: 151991--152042 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
151981 TTCTTCTTCT
151991 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC
152039 TCC T
1 TCC T
152043 GCCGTTGTTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (3 bp):
TCC
Found at i:158813 original size:23 final size:23
Alignment explanation
Indices: 158764--158841 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
158754 GAAAATATCA
* * *
158764 AAAGATAGAGAAAAACATGCCAC
1 AAAGATAGAGATAAACATGTCAT
* *
158787 AAAGGTAGAGATAAACTTGTCAT
1 AAAGATAGAGATAAACATGTCAT
* * *
158810 AAAGACATAGATAAACGTGTCAT
1 AAAGATAGAGATAAACATGTCAT
158833 AAAGGATAG
1 AAA-GATAG
158842 TTAAACATAT
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 40 0.93
24 3 0.07
ACGTcount: A:0.50, C:0.12, G:0.21, T:0.18
Consensus pattern (23 bp):
AAAGATAGAGATAAACATGTCAT
Found at i:161955 original size:31 final size:31
Alignment explanation
Indices: 161919--161980 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
161909 TTTTATTCTC
*
161919 TTTTTTATTTTTACTCATT-ATACTTTT-AATT
1 TTTTTTA-ATTTACTCATTGA-ACTTTTGAATT
161950 TTTTTTAATTTACTCATTGAACTTTTGAATT
1 TTTTTTAATTTACTCATTGAACTTTTGAATT
161981 ATTTCTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 16 0.57
31 12 0.43
ACGTcount: A:0.24, C:0.10, G:0.03, T:0.63
Consensus pattern (31 bp):
TTTTTTAATTTACTCATTGAACTTTTGAATT
Found at i:162453 original size:23 final size:23
Alignment explanation
Indices: 162409--162453 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
162399 GACCACCTTC
* *
162409 TATTTTTATTTTATAATTTAAAT
1 TATTTTTATATTATAATATAAAT
162432 TATTTTTATATTA-AATAATAAA
1 TATTTTTATATTATAAT-ATAAA
162454 AAAATGCCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TATTTTTATATTATAATATAAAT
Found at i:165557 original size:33 final size:33
Alignment explanation
Indices: 165515--165582 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
165505 CAATATATTT
* *
165515 GGCATAATGTTAATTACTATACCTGCAGGCTAA
1 GGCATAATGTTAATAAATATACCTGCAGGCTAA
*
165548 GGCATAATGTTAATAAATATATCTGCAGGCTAA
1 GGCATAATGTTAATAAATATACCTGCAGGCTAA
165581 GG
1 GG
165583 TTTAATTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (33 bp):
GGCATAATGTTAATAAATATACCTGCAGGCTAA
Found at i:179716 original size:38 final size:38
Alignment explanation
Indices: 179646--179734 Score: 117
Period size: 38 Copynumber: 2.3 Consensus size: 38
179636 TTTGTTAACC
* *
179646 CGATCTGACTCGAAAACTATGTATCTCCCATCTAAA-T
1 CGATCCGACTCGAAAACTATGTATCTACCATCTAAATT
* *
179683 CTGATCCGACTCGAAAACTATGTATCTATCATCTGAATT
1 C-GATCCGACTCGAAAACTATGTATCTACCATCTAAATT
*
179722 CGATTCGACTCGA
1 CGATCCGACTCGA
179735 CTCGAAAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
37 1 0.02
38 42 0.93
39 2 0.04
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (38 bp):
CGATCCGACTCGAAAACTATGTATCTACCATCTAAATT
Found at i:181346 original size:23 final size:22
Alignment explanation
Indices: 181306--181375 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 22
181296 ACACAAAGGT
*
181306 AGAGATAAACTTATCATAAAGAC
1 AGAGATAAACTGA-CATAAAGAC
181329 AGAGATAAACGTGACATAAAGAC
1 AGAGATAAAC-TGACATAAAGAC
* * *
181352 AGAGTTAAACATGTCACAAAGAC
1 AGAGATAAAC-TGACATAAAGAC
181375 A
1 A
181376 AAATTATTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
23 39 0.95
24 2 0.05
ACGTcount: A:0.51, C:0.14, G:0.17, T:0.17
Consensus pattern (22 bp):
AGAGATAAACTGACATAAAGAC
Found at i:184942 original size:23 final size:23
Alignment explanation
Indices: 184898--184942 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
184888 GACCACCTTC
* *
184898 TATTTTTATTTTATAATTTAAAT
1 TATTTTTATATTATAATATAAAT
184921 TATTTTTATATTA-AATAATAAA
1 TATTTTTATATTATAAT-ATAAA
184943 AAAATGCCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TATTTTTATATTATAATATAAAT
Found at i:187306 original size:36 final size:36
Alignment explanation
Indices: 187265--187340 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
187255 ATTTTCGGGA
*
187265 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
187301 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
187337 TTTT
1 TTTT
187341 TTGCTATAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:192295 original size:36 final size:36
Alignment explanation
Indices: 192254--192329 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
192244 ATTTTCGGGA
*
192254 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
192290 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
192326 TTTT
1 TTTT
192330 TTTGCTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:193721 original size:33 final size:33
Alignment explanation
Indices: 193679--193746 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
193669 CAATATATTT
* *
193679 GGCATAATGTTAATTACTATACCTGCAGGCTAA
1 GGCATAATGTTAATAAATATACCTGCAGGCTAA
*
193712 GGCATAATGTTAATAAATATATCTGCAGGCTAA
1 GGCATAATGTTAATAAATATACCTGCAGGCTAA
193745 GG
1 GG
193747 TTTAATTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (33 bp):
GGCATAATGTTAATAAATATACCTGCAGGCTAA
Found at i:207851 original size:21 final size:21
Alignment explanation
Indices: 207825--207864 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
207815 TTGTTAACCC
207825 GATCTGACTCGAAAACTATGT
1 GATCTGACTCGAAAACTATGT
207846 GATCTGACTCGAAAACTAT
1 GATCTGACTCGAAAACTAT
207865 ATATCTCCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (21 bp):
GATCTGACTCGAAAACTATGT
Found at i:207896 original size:38 final size:37
Alignment explanation
Indices: 207845--207944 Score: 119
Period size: 38 Copynumber: 2.6 Consensus size: 37
207835 GAAAACTATG
* *
207845 TGATCTGACTCGAAAACTATATATCTCCCATCTAAAT
1 TGATCCGACTCGAAAACTATATATCTACCATCTAAAT
* * *
207882 CTGATCCGACTCGAAAACTATGTATCTATCATCTGAAT
1 -TGATCCGACTCGAAAACTATATATCTACCATCTAAAT
* *
207920 TCGATTCGACTCGAAAATTATATAT
1 T-GATCCGACTCGAAAACTATATAT
207945 TCTCACGAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
37 1 0.02
38 52 0.98
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.33
Consensus pattern (37 bp):
TGATCCGACTCGAAAACTATATATCTACCATCTAAAT
Found at i:209539 original size:23 final size:22
Alignment explanation
Indices: 209499--209568 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 22
209489 ACACAAAGGT
*
209499 AGAGATAAACTTATCATAAAGAC
1 AGAGATAAACTGA-CATAAAGAC
209522 AGAGATAAACGTGACATAAAGAC
1 AGAGATAAAC-TGACATAAAGAC
* * *
209545 AGAGTTAAACATGTCACAAAGAC
1 AGAGATAAAC-TGACATAAAGAC
209568 A
1 A
209569 AAATTATTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
23 39 0.95
24 2 0.05
ACGTcount: A:0.51, C:0.14, G:0.17, T:0.17
Consensus pattern (22 bp):
AGAGATAAACTGACATAAAGAC
Found at i:213143 original size:23 final size:23
Alignment explanation
Indices: 213099--213143 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
213089 GACCACCTTC
* *
213099 TATTTTTATTTTATAATTTAAAT
1 TATTTTTATATTATAATATAAAT
213122 TATTTTTATATTA-AATAATAAA
1 TATTTTTATATTATAAT-ATAAA
213144 AAAATGCCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TATTTTTATATTATAATATAAAT
Found at i:216249 original size:33 final size:33
Alignment explanation
Indices: 216207--216274 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
216197 CAATATATTT
* *
216207 GGCATAATGTTAATTACTATACCTGCAGGCTAA
1 GGCATAATGTTAATAAATATACCTGCAGGCTAA
*
216240 GGCATAATGTTAATAAATATATCTGCAGGCTAA
1 GGCATAATGTTAATAAATATACCTGCAGGCTAA
216273 GG
1 GG
216275 TTTAATTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (33 bp):
GGCATAATGTTAATAAATATACCTGCAGGCTAA
Found at i:220953 original size:21 final size:21
Alignment explanation
Indices: 220929--220982 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
220919 GGGTTTTTAT
220929 TAGTGGTTTAGGTCATTTTCA
1 TAGTGGTTTAGGTCATTTTCA
220950 TAGTGGTTTAGGTCATTTTCA
1 TAGTGGTTTAGGTCATTTTCA
*
220971 TTGTGGTTTAGG
1 TAGTGGTTTAGG
220983 ATTTTTAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.17, C:0.07, G:0.28, T:0.48
Consensus pattern (21 bp):
TAGTGGTTTAGGTCATTTTCA
Found at i:228270 original size:15 final size:15
Alignment explanation
Indices: 228250--228288 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
228240 ATCTATTGAC
228250 TTTGATATAATAAAA
1 TTTGATATAATAAAA
*
228265 TTTGATCTTAATAAAA
1 TTTGAT-ATAATAAAA
*
228281 TGTGATAT
1 TTTGATAT
228289 TAGAATCTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.44
Consensus pattern (15 bp):
TTTGATATAATAAAA
Found at i:234313 original size:37 final size:39
Alignment explanation
Indices: 234226--234313 Score: 92
Period size: 40 Copynumber: 2.3 Consensus size: 39
234216 CCTAAAGTTT
* * *
234226 AGTTTTTGTTTCATTTTAGTATTCCTCCGTTAAAAATTTT
1 AGTTTATGTTTCATTTTAGTA-TCCTCAGTTAAAAATTTA
* *
234266 AGTTTTTGTTTCATTTTAGTA-CC-CAGTTCAAAATTTA
1 AGTTTATGTTTCATTTTAGTATCCTCAGTTAAAAATTTA
234303 ACG-TTATGTTT
1 A-GTTTATGTTT
234314 TGAAAAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
37 19 0.44
38 3 0.07
40 21 0.49
ACGTcount: A:0.24, C:0.12, G:0.11, T:0.52
Consensus pattern (39 bp):
AGTTTATGTTTCATTTTAGTATCCTCAGTTAAAAATTTA
Found at i:234990 original size:23 final size:24
Alignment explanation
Indices: 234954--235005 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
234944 ATCTTTGTCA
234954 TTGTGACACA-TTTTTCTCTACTC
1 TTGTGACACATTTTTTCTCTACTC
** * *
234977 TTGTGACATGTTTTTTCTTTGCTC
1 TTGTGACACATTTTTTCTCTACTC
235001 TTGTG
1 TTGTG
235006 GCACTTTCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.12, C:0.19, G:0.15, T:0.54
Consensus pattern (24 bp):
TTGTGACACATTTTTTCTCTACTC
Found at i:238676 original size:28 final size:28
Alignment explanation
Indices: 238644--238735 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
238634 ATTAATCTTT
*
238644 AAACTTTTGGACTTTTCAATTTCATCCC
1 AAACTTTTGAACTTTTCAATTTCATCCC
* * *
238672 AAAC--TAGAACCCTCATTTCAAATTAATCCCC
1 AAACTTTTGAA--CT--TTTCAATTTCAT-CCC
*
238703 AAACTTTTGAACATTTCAATTTCATCCC
1 AAACTTTTGAACTTTTCAATTTCATCCC
238731 AAACT
1 AAACT
238736 ATTGGTATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
26 3 0.06
28 14 0.29
29 10 0.20
30 10 0.20
31 8 0.16
33 4 0.08
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.35
Consensus pattern (28 bp):
AAACTTTTGAACTTTTCAATTTCATCCC
Found at i:238949 original size:60 final size:60
Alignment explanation
Indices: 238874--239047 Score: 163
Period size: 60 Copynumber: 2.9 Consensus size: 60
238864 CTGGGAATAA
* ** * * *
238874 AAATTGGAAGATTCAAAAGTTTGGGGACTAATTTAGAATGAGAGTTATAGTTTAAGGATG
1 AAATTGAAAGATTCAAAAGTTTAAGGACTAATTTAGAATAAGAGTCATAATTTAAGGATG
* * *
238934 AAATTGAAATATTCAAAAGTTTAAGGAGTAATTTAGAATAAGAGTCATAATTTAAGAATG
1 AAATTGAAAGATTCAAAAGTTTAAGGACTAATTTAGAATAAGAGTCATAATTTAAGGATG
** * * * * **
238994 TTATTAAAATATTTAAAAATTTAAAAACTAATTTAG-A-AAGATGATCATAATTTA
1 AAATTGAAAGATTCAAAAGTTTAAGGACTAATTTAGAATAAGA-G-TCATAATTTA
239048 GGTACATGTA
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
58 4 0.04
59 2 0.02
60 89 0.94
ACGTcount: A:0.46, C:0.03, G:0.17, T:0.34
Consensus pattern (60 bp):
AAATTGAAAGATTCAAAAGTTTAAGGACTAATTTAGAATAAGAGTCATAATTTAAGGATG
Found at i:240403 original size:37 final size:36
Alignment explanation
Indices: 240328--240403 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
240318 ATTTTATATT
*
240328 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
240364 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
240401 TTT
1 TTT
240404 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:240593 original size:661 final size:654
Alignment explanation
Indices: 239350--240607 Score: 1873
Period size: 661 Copynumber: 1.9 Consensus size: 654
239340 ACATTCTCCC
* * * *
239350 GTTTGGTTGGTCGGGAATGTTATTCCCGGTAATCTTACATTGCCAATAGTGAATTTTTTGGGGTA
1 GTTTGGTTGGCCGGGAATCTCATTCCCGGTAATCTTACATTGCCAATAATGAATTTTTTGGGGTA
* ***
239415 TATTACCGAGAATGTCATTACCTCCTTTTCCTTAGGTATTGTTGGATTACCGGCGTTTTAGACTA
66 TATTACCGAGAATGTCATTACCTCCTTCTCCTTAGGTATTGTAACATTACCGGCGTTTTAGACTA
* * *
239480 AAATGCCCTTAATTTTTCTACCAAAAATATCCTTATTCTCCCATTGAATAATAAAAATTCTACGA
131 AAATGCCCTTAATTTTTCTACAAAAAATATCATTATTCTCCCATTGAATAATAAAAAATCTACGA
* * *
239545 ATGTTAAAATACAAATTTGTCTTTAAACTATTTTAGATTTACAAAAAAATCTATAATTAAAATTT
196 AAGTTAAAATACAAATTTATCCTTAAACTATTTTAGATTTACAAAAAAATCTATAATTAAAATTT
* * *
239610 TATATGAAGTTCATGGGTTAAAATAAATTTTTACTCTTTCATTAAACCTTTTTATATTTTCAATT
261 TATATGAAGTTCAAGGGTTAAAAT-AATTTTTACCCTTTCATTAAACATTTTTATATTTTCAATT
* *
239675 TTGTAAAAAATTTATATAAATTTTATAAATTTAATTTTTTTAAAGAAAATATATAAATATTTTCA
325 TTGTAAAAAAATTATATAAATATTATAAATTTAATTTTTTTAAAGAAAATATATAAATATTTTCA
*
239740 AACTTGTTAAAAAACAAATATATAATAATGACAATTTGGTAAAATATACATTCCAATAATCTTTT
390 AACTTGTTAAAAAACAAATATATAATAAGGACAATTTGGTAAAATATACATTCCAATAATCTTTT
239805 ATTCCTTTAACCAAACACGGTAATCTTACATTCCTGCTAAACCAACCAAACACAAAATACAACAT
455 ATTCCTTTAACCAAACACGGTAATCTTACATTCCTGCTAAACCAACCAAACACAAAATACAACAT
*
239870 TCACAGTAATCATATTCCCTGATAATCTTTTATTCCCACTGGTAATCTTACATTCCGTGAACCAA
520 TCACAGTAATCATATTCCCTGATAATCTTTTATTCCCACTGATAATCTTACATTCCGTGAACCAA
*
239935 ATACACCCTTAGGGGGTGTTTGGTTCAAGGATTGTGGGATTCTCATGGGTTGGGAATCCCACATT
585 ACACACCCTTAGGGGGTGTTTGGTTCAAGGATTGTGGGATTCTCATGGGTTGGGAATCCCACATT
240000 CCCAT
650 CCCAT
* ** *
240005 GTTTGGTTGGCCGGGAATCTCATTCCCGGTAATGTTTTATTAG-CAATAAT-ATATTTTTTTGGG
1 GTTTGGTTGGCCGGGAATCTCATTCCCGGTAATCTTACATT-GCCAATAATGA-ATTTTTTGGGG
* * * *
240068 TATATTACTGGGAATGTCATTACCTCCATTCT-CTTAGGTATTGTAACATTACTGGCGTTTTGGA
64 TATATTACCGAGAATGTCATTACCTCC-TTCTCCTTAGGTATTGTAACATTACCGGCGTTTTAGA
* * ** * **
240132 CTAAAATGTCCTTAAATTTTTATTTTTTTAAAAAATATCATTCTTCTGTCATTGAATAATAAAAA
128 CTAAAATGCCCTT-AA---TT-TTTCTACAAAAAATATCATTATTCTCCCATTGAATAATAAAAA
* *
240197 ATCTACGAAAGTTAAATTACAAATTTATCCTTAAATTATTTTAGATTTACAAAAAAAATCTATAA
188 ATCTACGAAAGTTAAAATACAAATTTATCCTTAAACTATTTTAGATTTAC-AAAAAAATCTATAA
*
240262 TTAAAATTTTATATGAAGTTCAAGGGTTAAAAT-TTTTTTACCCTTTCATTAAACATATTTTATA
252 TTAAAATTTTATATGAAGTTCAAGGGTTAAAATAATTTTTACCCTTTCATTAAACAT-TTTTATA
* *
240326 TTTTTAATTTTGTAAAAAAATTATATAAATATTATGAATTTAA-TTTTTTAAAGAAAATATATAA
316 TTTTCAATTTTGTAAAAAAATTATATAAATATTATAAATTTAATTTTTTTAAAGAAAATATATAA
* * *
240390 ATATTTT-ACAATTTG-TAATATTATACAAATATATAATAAGGACAATTTGGTCAAATATACATT
381 ATATTTTCA-AACTTGTTAA-A--AAACAAATATATAATAAGGACAATTTGGTAAAATATACATT
240453 CCAATAATCTTTTATTCCTTTAACCAAACACGGTAATCTTACATTCCTGCTAAACCAACCAAACA
442 CCAATAATCTTTTATTCCTTTAACCAAACACGGTAATCTTACATTCCTGCTAAACCAACCAAACA
* * * *
240518 CAAAATACAACATTCTCAGTAATCCTATTCCCTGGTAATCTTTTATTTCCACTGATAATCTTACA
507 CAAAATACAACATTCACAGTAATCATATTCCCTGATAATCTTTTATTCCCACTGATAATCTTACA
* *
240583 TTCTGTGAACCAAACGCACCCTTAG
572 TTCCGTGAACCAAACACACCCTTAG
240608 AGTATAAGCG
Statistics
Matches: 538, Mismatches: 51, Indels: 22
0.88 0.08 0.04
Matches are distributed among these distances:
654 1 0.00
655 115 0.21
656 6 0.01
658 4 0.01
659 56 0.10
660 125 0.23
661 231 0.43
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (654 bp):
GTTTGGTTGGCCGGGAATCTCATTCCCGGTAATCTTACATTGCCAATAATGAATTTTTTGGGGTA
TATTACCGAGAATGTCATTACCTCCTTCTCCTTAGGTATTGTAACATTACCGGCGTTTTAGACTA
AAATGCCCTTAATTTTTCTACAAAAAATATCATTATTCTCCCATTGAATAATAAAAAATCTACGA
AAGTTAAAATACAAATTTATCCTTAAACTATTTTAGATTTACAAAAAAATCTATAATTAAAATTT
TATATGAAGTTCAAGGGTTAAAATAATTTTTACCCTTTCATTAAACATTTTTATATTTTCAATTT
TGTAAAAAAATTATATAAATATTATAAATTTAATTTTTTTAAAGAAAATATATAAATATTTTCAA
ACTTGTTAAAAAACAAATATATAATAAGGACAATTTGGTAAAATATACATTCCAATAATCTTTTA
TTCCTTTAACCAAACACGGTAATCTTACATTCCTGCTAAACCAACCAAACACAAAATACAACATT
CACAGTAATCATATTCCCTGATAATCTTTTATTCCCACTGATAATCTTACATTCCGTGAACCAAA
CACACCCTTAGGGGGTGTTTGGTTCAAGGATTGTGGGATTCTCATGGGTTGGGAATCCCACATTC
CCAT
Found at i:241052 original size:11 final size:11
Alignment explanation
Indices: 241036--241061 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
241026 GTTTTTCTCC
241036 TTTCGGCTTCT
1 TTTCGGCTTCT
241047 TTTCGGCTTCT
1 TTTCGGCTTCT
241058 TTTC
1 TTTC
241062 TGTTTTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.27, G:0.15, T:0.58
Consensus pattern (11 bp):
TTTCGGCTTCT
Found at i:246013 original size:29 final size:29
Alignment explanation
Indices: 245971--246053 Score: 132
Period size: 29 Copynumber: 2.9 Consensus size: 29
245961 GCGACCTACC
245971 TAGGTCG-TTGGGCGTGCATGGCGACTTGA
1 TAGGTCGCTT-GGCGTGCATGGCGACTTGA
*
246000 TAGGTCGCTTGGCGTGCATGGCGACTTGG
1 TAGGTCGCTTGGCGTGCATGGCGACTTGA
*
246029 TAGGTCGCTGGGCGTGCATGGCGAC
1 TAGGTCGCTTGGCGTGCATGGCGAC
246054 CTACCCCATC
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
29 49 0.96
30 2 0.04
ACGTcount: A:0.12, C:0.20, G:0.42, T:0.25
Consensus pattern (29 bp):
TAGGTCGCTTGGCGTGCATGGCGACTTGA
Found at i:256549 original size:32 final size:33
Alignment explanation
Indices: 256491--256553 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
256481 TTGTATTTAA
*
256491 AAAAAATTAATGTGGTTATGGAATTATTTTTTG
1 AAAAAATTAATGTGGTTATCGAATTATTTTTTG
*
256524 AAAAAA-TAATGTGGTCT-TCGTATTATTTTT
1 AAAAAATTAATGTGGT-TATCGAATTATTTTT
256554 CTTTTAATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 20 0.74
33 7 0.26
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.46
Consensus pattern (33 bp):
AAAAAATTAATGTGGTTATCGAATTATTTTTTG
Found at i:257415 original size:24 final size:24
Alignment explanation
Indices: 257369--257429 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
257359 AATTATTTTT
* * *
257369 ATAA-TTTATTATTTTATTCATTA
1 ATAATTTTATTATTTAAGTAATTA
257392 A-AATGTTTATTATTTAAGTAATTA
1 ATAAT-TTTATTATTTAAGTAATTA
*
257416 ATTATTTTATTATT
1 ATAATTTTATTATT
257430 ATTTTATTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
22 2 0.06
23 1 0.03
24 26 0.84
25 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (24 bp):
ATAATTTTATTATTTAAGTAATTA
Found at i:258618 original size:14 final size:15
Alignment explanation
Indices: 258599--258631 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
258589 GTAGATGTAC
*
258599 ATTTTT-TAATTTTA
1 ATTTTTATAATTTGA
258613 ATTTTTATAATTTGA
1 ATTTTTATAATTTGA
258628 ATTT
1 ATTT
258632 CATTTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
ATTTTTATAATTTGA
Found at i:260500 original size:32 final size:32
Alignment explanation
Indices: 260464--260524 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
260454 GAAAAGTTTG
*
260464 TTTTAGGTGTATGTGTA-AGCTTTTATTTACTA
1 TTTTAGATGTATGTGTATA-CTTTTATTTACTA
260496 TTTTAGATGTATGTGTATACTTTTATTTA
1 TTTTAGATGTATGTGTATACTTTTATTTA
260525 TTGTTTAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
32 26 0.96
33 1 0.04
ACGTcount: A:0.23, C:0.05, G:0.16, T:0.56
Consensus pattern (32 bp):
TTTTAGATGTATGTGTATACTTTTATTTACTA
Found at i:261677 original size:43 final size:43
Alignment explanation
Indices: 261615--261698 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
261605 AGGAGCTGGG
* * *
261615 ATCAAAACAATAATGGACTCTTTTGGTCCAATATGGAAACCCC
1 ATCAAAACAACAATAGACTCTTTGGGTCCAATATGGAAACCCC
* *
261658 ATCAAAGCAACAATAGACTCTTTGGGTTCAATATGGAAACC
1 ATCAAAACAACAATAGACTCTTTGGGTCCAATATGGAAACC
261699 TCCACATGTC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.25
Consensus pattern (43 bp):
ATCAAAACAACAATAGACTCTTTGGGTCCAATATGGAAACCCC
Found at i:266298 original size:20 final size:20
Alignment explanation
Indices: 266273--266312 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
266263 TTACCAATGT
266273 AAAAAAATCCAGATCTTTTA
1 AAAAAAATCCAGATCTTTTA
266293 AAAAAAATCCAGATCTTTTA
1 AAAAAAATCCAGATCTTTTA
266313 GATCCCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.05, T:0.30
Consensus pattern (20 bp):
AAAAAAATCCAGATCTTTTA
Found at i:272369 original size:2 final size:2
Alignment explanation
Indices: 272362--272394 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
272352 CTTTTGAACA
272362 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
272395 AAAGTAAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:283077 original size:20 final size:20
Alignment explanation
Indices: 283052--283119 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
283042 AAATAATTAA
283052 TTAATTTGTACAAATCACTT
1 TTAATTTGTACAAATCACTT
* *
283072 TTAATTTGTATAAATCATTT
1 TTAATTTGTACAAATCACTT
*
283092 TTAATTTGTACAAATTACTT
1 TTAATTTGTACAAATCACTT
283112 TTAATTTG
1 TTAATTTG
283120 ATACTATTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (20 bp):
TTAATTTGTACAAATCACTT
Found at i:283085 original size:41 final size:40
Alignment explanation
Indices: 283040--283119 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
283030 AAATAAATAA
283040 ATAAATAATTAATTAATTTGTACAAATCACTTTTAATTTGT
1 ATAAATAATT-ATTAATTTGTACAAATCACTTTTAATTTGT
* * *
283081 ATAAATCATTTTTAATTTGTACAAATTACTTTTAATTTG
1 ATAAATAATTATTAATTTGTACAAATCACTTTTAATTTG
283120 ATACTATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
40 27 0.75
41 9 0.25
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (40 bp):
ATAAATAATTATTAATTTGTACAAATCACTTTTAATTTGT
Found at i:283128 original size:20 final size:20
Alignment explanation
Indices: 283052--283128 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 20
283042 AAATAATTAA
*
283052 TTAATTTG-TACAAATCACTT
1 TTAATTTGATAC-AATTACTT
* *
283072 TTAATTTGTATA-AATCATTT
1 TTAATTTG-ATACAATTACTT
283092 TTAATTTG-TACAAATTACTT
1 TTAATTTGATAC-AATTACTT
*
283112 TTAATTTGATACTATTA
1 TTAATTTGATACAATTA
283129 ATTCTTCTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
18 2 0.04
20 41 0.85
21 3 0.06
22 2 0.04
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (20 bp):
TTAATTTGATACAATTACTT
Found at i:283853 original size:13 final size:12
Alignment explanation
Indices: 283835--283875 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
283825 TGAAATATAG
283835 ATTTGATTTAGT
1 ATTTGATTTAGT
283847 AATTTGA-TTA-T
1 -ATTTGATTTAGT
283858 ATGTTGATTTAGT
1 AT-TTGATTTAGT
283871 ATTTG
1 ATTTG
283876 TAAATTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
10 2 0.08
11 5 0.20
12 9 0.36
13 9 0.36
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.56
Consensus pattern (12 bp):
ATTTGATTTAGT
Found at i:289438 original size:20 final size:20
Alignment explanation
Indices: 289413--289480 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
289403 ACGAAATAAA
*
289413 AATCGCAACGC-GATCTCCAG
1 AATCGCAAAGCAGATC-CCAG
* *
289433 AATCGCAAATCAGTTCCCAG
1 AATCGCAAAGCAGATCCCAG
* *
289453 AATCGCAAATCAGTTCCCAG
1 AATCGCAAAGCAGATCCCAG
289473 AATCGCAA
1 AATCGCAA
289481 CGCGATTATG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.93
21 3 0.07
ACGTcount: A:0.35, C:0.31, G:0.16, T:0.18
Consensus pattern (20 bp):
AATCGCAAAGCAGATCCCAG
Found at i:289497 original size:21 final size:21
Alignment explanation
Indices: 289471--289568 Score: 78
Period size: 21 Copynumber: 4.7 Consensus size: 21
289461 ATCAGTTCCC
289471 AGAATCGCAACGCGATTATGA
1 AGAATCGCAACGCGATTATGA
*
289492 AGAATCGCAATGCGA-TA-GTA
1 AGAATCGCAACGCGATTATG-A
** * **
289512 CA-AATTCGCATTGCGATTTTCC
1 -AGAA-TCGCAACGCGATTATGA
*
289534 AGAATCGCAACGCGAATATGA
1 AGAATCGCAACGCGATTATGA
289555 A-AATCGCAACGCGA
1 AGAATCGCAACGCGA
289569 ACATATAAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 13
0.71 0.13 0.15
Matches are distributed among these distances:
19 1 0.02
20 18 0.30
21 38 0.63
22 3 0.05
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.20
Consensus pattern (21 bp):
AGAATCGCAACGCGATTATGA
Found at i:289561 original size:20 final size:20
Alignment explanation
Indices: 289536--289821 Score: 225
Period size: 20 Copynumber: 14.5 Consensus size: 20
289526 GATTTTCCAG
* *
289536 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGTA
* **
289556 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAATACGTA
* *
289576 AATCGCAACGTG-ATTC-TGA
1 AATCGCAACGCGAATACGT-A
* * * *
289595 CTATCGCAACGAGTATCCGTAA
1 -AATCGCAACGCGAATACGT-A
* *
289617 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
289637 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACGT-A
* *
289658 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
*
289678 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
289698 AATCGCAACGC----A-G-A
1 AATCGCAACGCGAATACGTA
* *
289712 AATTGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
* *
289732 AATCGCAATGC-ATATCCGTA
1 AATCGCAACGCGA-ATACGTA
*
289752 AATCGCAATGCGAATACGTA
1 AATCGCAACGCGAATACGTA
*
289772 AATCGCAATGCGAATACGTA
1 AATCGCAACGCGAATACGTA
*
289792 AATCGCAATGCGAAT-CTGTA
1 AATCGCAACGCGAATAC-GTA
289812 AATCGCAACG
1 AATCGCAACG
289822 AGATTCTGAC
Statistics
Matches: 221, Mismatches: 29, Indels: 32
0.78 0.10 0.11
Matches are distributed among these distances:
14 10 0.05
15 1 0.00
16 1 0.00
18 2 0.01
19 5 0.02
20 162 0.73
21 38 0.17
22 2 0.01
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATACGTA
Found at i:289642 original size:41 final size:40
Alignment explanation
Indices: 289597--289821 Score: 257
Period size: 40 Copynumber: 5.7 Consensus size: 40
289587 GATTCTGACT
* *
289597 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCCGTAA
*
289638 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCCGTAA
289679 ATCGCAACGAGAATACGTAAATCGCAACGC--A---G-AA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
* * *
289713 ATTGCAACGAGAATACGTAAATCGCAATGCATATCCGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
* * * * *
289753 ATCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
* *
289793 ATCGCAATGCGAAT-CTGTAAATCGCAACG
1 ATCGCAACGAGAATAC-GTAAATCGCAACG
289822 AGATTCTGAC
Statistics
Matches: 164, Mismatches: 13, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
34 30 0.18
35 1 0.01
36 1 0.01
38 1 0.01
39 2 0.01
40 74 0.45
41 55 0.34
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.19
Consensus pattern (40 bp):
ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
Found at i:289767 original size:74 final size:75
Alignment explanation
Indices: 289636--289779 Score: 227
Period size: 74 Copynumber: 1.9 Consensus size: 75
289626 GCGTATCCGT
*
289636 AAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAAT
1 AAATCGCAACGACAATACGTAAAATCGCAACGCATATCCGTAAATCGCAACGAGAATACGTAAAT
289701 CGCAACGCAG
66 CGCAACGCAG
* * * * *
289711 AAATTGCAACGAGAATACGT-AAATCGCAATGCATATCCGTAAATCGCAATGCGAATACGTAAAT
1 AAATCGCAACGACAATACGTAAAATCGCAACGCATATCCGTAAATCGCAACGAGAATACGTAAAT
289775 CGCAA
66 CGCAA
289780 TGCGAATACG
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
74 45 0.71
75 18 0.29
ACGTcount: A:0.42, C:0.23, G:0.18, T:0.17
Consensus pattern (75 bp):
AAATCGCAACGACAATACGTAAAATCGCAACGCATATCCGTAAATCGCAACGAGAATACGTAAAT
CGCAACGCAG
Found at i:290708 original size:24 final size:24
Alignment explanation
Indices: 290681--290734 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
290671 GTATTCAAAA
290681 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
290705 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
290729 TTTGAT
1 TTTGAT
290735 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:293313 original size:14 final size:14
Alignment explanation
Indices: 293294--293328 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
293284 TAATGCGAAA
293294 TGAAAATCGCAACG
1 TGAAAATCGCAACG
293308 TGAAAATCGCAACG
1 TGAAAATCGCAACG
*
293322 TGGAAAT
1 TGAAAAT
293329 GACTATTGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (14 bp):
TGAAAATCGCAACG
Found at i:293378 original size:33 final size:33
Alignment explanation
Indices: 293336--293426 Score: 155
Period size: 33 Copynumber: 2.8 Consensus size: 33
293326 AATGACTATT
293336 GCAATGCGAAATGAAAATCGCAACGAGAGAATC
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATC
*
293369 GCAATGCGAAATGAAAATCGCAACGAGGGAATC
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATC
* *
293402 ACAATGCGAAATAAAAATCGCAACG
1 GCAATGCGAAATGAAAATCGCAACG
293427 CGAATTTTGT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (33 bp):
GCAATGCGAAATGAAAATCGCAACGAGAGAATC
Found at i:293448 original size:19 final size:18
Alignment explanation
Indices: 293430--293473 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
293420 CGCAACGCGA
*
293430 ATTTTGTTTCGCGTTGCG
1 ATTTTGTTTCACGTTGCG
293448 ATTTTAGTTTCACGTTGCG
1 ATTTT-GTTTCACGTTGCG
293467 ATTTTGT
1 ATTTTGT
293474 CATTGCGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.11, C:0.14, G:0.23, T:0.52
Consensus pattern (18 bp):
ATTTTGTTTCACGTTGCG
Found at i:293482 original size:33 final size:33
Alignment explanation
Indices: 293443--293534 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 33
293433 TTGTTTCGCG
* * * *
293443 TTGCGATTTTAGTTTC-ACGTTGCGATTTTGTCA
1 TTGCGATTTTAATTTCGA-ATTGCGATTCTCTCA
*
293476 TTGCGATTTTAATTTCGAATTGCGATTCTCTCG
1 TTGCGATTTTAATTTCGAATTGCGATTCTCTCA
* *
293509 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTAATTTCGAATTGCGAT
293535 AGTCATTTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
33 50 0.98
34 1 0.02
ACGTcount: A:0.16, C:0.17, G:0.20, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTAATTTCGAATTGCGATTCTCTCA
Found at i:293533 original size:19 final size:19
Alignment explanation
Indices: 293474--293534 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
293464 GCGATTTTGT
*
293474 CATTGCGATTTTAATTTCG
1 CATTGCGATTTTCATTTCG
* *
293493 AATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
293509 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
293526 CATTGCGAT
1 CATTGCGAT
293535 AGTCATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
14 6 0.18
16 7 0.21
17 6 0.18
19 14 0.42
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:293660 original size:14 final size:14
Alignment explanation
Indices: 293641--293677 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
293631 CATCAATTAA
293641 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
293655 ACAAATCATCTTTT
1 ACAAATCAACTTTT
293669 ACAAATCAA
1 ACAAATCAA
293678 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:297202 original size:19 final size:19
Alignment explanation
Indices: 297097--297204 Score: 100
Period size: 20 Copynumber: 5.8 Consensus size: 19
297087 TCTTTTGGTT
**
297097 GAAATGAAAATCGCAACAA
1 GAAATGAAAATCGCAACGC
*
297116 GAGAATGAAAATCGCAACGTG
1 GA-AATGAAAATCGCAACG-C
**
297137 GAAATGACTATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
297156 GAAATTAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
297173 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
297189 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
297205 TACGATTTTG
Statistics
Matches: 71, Mismatches: 11, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
14 9 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 25 0.35
20 29 0.41
21 2 0.03
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:297324 original size:20 final size:19
Alignment explanation
Indices: 297222--297326 Score: 96
Period size: 20 Copynumber: 5.6 Consensus size: 19
297212 TTGGTTTCGC
297222 GTTGCGATTTTCATTTTGC-
1 GTTGCGATTTTCATTTT-CT
*
297241 GTTGCGA--TTC--TCTC-
1 GTTGCGATTTTCATTTTCT
297255 GTTGCGATTTTCATTTCTCT
1 GTTGCGATTTTCATTT-TCT
**
297275 CGTTGCGATAATCATTTTCGT
1 -GTTGCGATTTTCATTTTC-T
297296 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTC-T
297316 GTTGCGATTTT
1 GTTGCGATTTT
297327 AAGTTTAGAA
Statistics
Matches: 71, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
14 8 0.11
15 2 0.03
16 3 0.04
17 3 0.04
18 1 0.01
19 9 0.13
20 30 0.42
21 15 0.21
ACGTcount: A:0.12, C:0.18, G:0.19, T:0.50
Consensus pattern (19 bp):
GTTGCGATTTTCATTTTCT
Found at i:297873 original size:20 final size:20
Alignment explanation
Indices: 297848--298020 Score: 159
Period size: 20 Copynumber: 8.6 Consensus size: 20
297838 CTTTAAAAAT
*
297848 CGCGTTACGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
297868 CGCGTTACGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
* *
297888 TGTCGTTACGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
* * *
297909 CGCATTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
* *
297929 CTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
* * * *
297949 CACGTTGCAATTTACGTATT
1 CGCGTTGCGATTTACGGATA
*
297969 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
297989 CGCGTTACGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
*
298010 CTCGTTGCGAT
1 CGCGTTGCGAT
298021 AGTCAGAATC
Statistics
Matches: 123, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
20 88 0.72
21 35 0.28
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:297934 original size:40 final size:41
Alignment explanation
Indices: 297850--298020 Score: 229
Period size: 40 Copynumber: 4.2 Consensus size: 41
297840 TTAAAAATCG
* *
297850 CGTTACGATTTACGGATACGCGTTACGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTACGATTTTACGTATTCT
* * *
297891 CGTTACGATTTACGGATACGCATTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTACGATTTTACGTATTCT
* * * *
297931 CGTTGCGATTTACAGATACACGTTGC-AATTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTACGATTTTACGTATTCT
* *
297971 CGTTGCGATTTACGGATACGCGTTACGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTACGATTTTACGTATTCT
298012 CGTTGCGAT
1 CGTTGCGAT
298021 AGTCAGAATC
Statistics
Matches: 115, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 68 0.59
41 46 0.40
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCGTTACGATTTTACGTATTCT
Found at i:298052 original size:20 final size:20
Alignment explanation
Indices: 298029--298083 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
298019 ATAGTCAGAA
*
298029 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
*
298049 TCGCATTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
298069 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
298084 GTTGGTCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.15, C:0.18, G:0.22, T:0.45
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:298058 original size:81 final size:80
Alignment explanation
Indices: 297896--298062 Score: 185
Period size: 81 Copynumber: 2.1 Consensus size: 80
297886 ATTGTCGTTA
* * * *
297896 CGATTTACGGATACGCATTGCGATTTACGTATTCTCGTTGCGATTTACAGATACACGTTGCAATT
1 CGATTTACGGATACGCATTACGATTTACGGATACTCGTTGCGATGTACAGATACACGTTGCAATT
* * *
297961 TACGTATTCTCGTTG
66 TACATATTCGCATTG
* * *
297976 CGATTTACGGATACGCGTTACGATTTTACGGATACTCGTTGCGATAGT-CAGA-ATCGCGTTGCG
1 CGATTTACGGATACGCATTACGA-TTTACGGATACTCGTTGCGAT-GTACAGATA-CACGTTGCA
* *
298039 ATTTATATGTTCGCATTG
63 ATTTACATATTCGCATTG
298057 CGATTT
1 CGATTT
298063 TCATATTCGC
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
80 22 0.31
81 49 0.68
82 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (80 bp):
CGATTTACGGATACGCATTACGATTTACGGATACTCGTTGCGATGTACAGATACACGTTGCAATT
TACATATTCGCATTG
Found at i:302294 original size:120 final size:120
Alignment explanation
Indices: 302161--302401 Score: 482
Period size: 120 Copynumber: 2.0 Consensus size: 120
302151 TAGACAAAAG
302161 ATTCAATTTTTTTCTTCTTCGAAAGAAGATGAATGAATTACCAAATAGAGGTAAATGAGAGAGAC
1 ATTCAATTTTTTTCTTCTTCGAAAGAAGATGAATGAATTACCAAATAGAGGTAAATGAGAGAGAC
302226 GAAATAAGCAACAGGATGGCAAAGATTATGGTGAGAAAGCATCCAAAGCAGCATC
66 GAAATAAGCAACAGGATGGCAAAGATTATGGTGAGAAAGCATCCAAAGCAGCATC
302281 ATTCAATTTTTTTCTTCTTCGAAAGAAGATGAATGAATTACCAAATAGAGGTAAATGAGAGAGAC
1 ATTCAATTTTTTTCTTCTTCGAAAGAAGATGAATGAATTACCAAATAGAGGTAAATGAGAGAGAC
302346 GAAATAAGCAACAGGATGGCAAAGATTATGGTGAGAAAGCATCCAAAGCAGCATC
66 GAAATAAGCAACAGGATGGCAAAGATTATGGTGAGAAAGCATCCAAAGCAGCATC
302401 A
1 A
302402 AAACTAACCC
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 121 1.00
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.23
Consensus pattern (120 bp):
ATTCAATTTTTTTCTTCTTCGAAAGAAGATGAATGAATTACCAAATAGAGGTAAATGAGAGAGAC
GAAATAAGCAACAGGATGGCAAAGATTATGGTGAGAAAGCATCCAAAGCAGCATC
Found at i:303486 original size:3 final size:3
Alignment explanation
Indices: 303478--303518 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
303468 TAAACATTGG
*
303478 ATT ATT ATT ATT ATT ATT ATT ATT AAT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
303519 ATCCATTCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Done.