Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 11 of 52
Found at i:1785577 original size:10 final size:10
Alignment explanation
Indices: 1785534--1785567 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
1785524 CTTTGTTTTG
1785534 TTTTTTT-GT
1 TTTTTTTGGT
1785543 TTTTTTTGGT
1 TTTTTTTGGT
1785553 TTTTTTTGGT
1 TTTTTTTGGT
1785563 TTTTT
1 TTTTT
1785568 GTTTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 7 0.29
10 17 0.71
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (10 bp):
TTTTTTTGGT
Found at i:1800958 original size:1 final size:1
Alignment explanation
Indices: 1800952--1801032 Score: 63
Period size: 1 Copynumber: 81.0 Consensus size: 1
1800942 TCCACAAACC
* * * * * * * * *
1800952 AAAAAAAAAAAACAAAAACAAAAAAAAAAACACAAAAAAACAAAAAAAGAAACAAAAAACAAAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
1801017 AAAACACAAAAAAAAA
1 AAAAAAAAAAAAAAAA
1801033 CAACAACAAC
Statistics
Matches: 58, Mismatches: 22, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.86, C:0.11, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:1800974 original size:12 final size:12
Alignment explanation
Indices: 1800953--1801053 Score: 75
Period size: 12 Copynumber: 8.4 Consensus size: 12
1800943 CCACAAACCA
*
1800953 AAAAAAAAAAAC
1 AAAAACAAAAAC
*
1800965 AAAAACAAAAAA
1 AAAAACAAAAAC
*
1800977 AAAAAC-ACAA-
1 AAAAACAAAAAC
1800987 AAAAACAAAAA-
1 AAAAACAAAAAC
1800998 AAGAAACAAAAAAC
1 AA-AAAC-AAAAAC
*
1801012 AAAAGA-AAACAC
1 AAAA-ACAAAAAC
*
1801024 AAAAAAAAACAAC
1 AAAAACAAA-AAC
* *
1801037 AACAACAACAAC
1 AAAAACAAAAAC
1801049 AAAAA
1 AAAAA
1801054 GGGTATGGAT
Statistics
Matches: 72, Mismatches: 10, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
10 6 0.08
11 9 0.12
12 39 0.54
13 15 0.21
14 3 0.04
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (12 bp):
AAAAACAAAAAC
Found at i:1800977 original size:22 final size:22
Alignment explanation
Indices: 1800952--1801041 Score: 85
Period size: 22 Copynumber: 4.0 Consensus size: 22
1800942 TCCACAAACC
1800952 AAAAAAAAAAAACAAAAACAAA
1 AAAAAAAAAAAACAAAAACAAA
*
1800974 AAAAAAAACACAA-AAAAACAAAA
1 AAAAAAAA-AAAACAAAAAC-AAA
1800997 AAAGAAACAAAAAACAAAAGA-AAA
1 AAA-AAA-AAAAAACAAAA-ACAAA
* * *
1801021 CACAAAAAAAAACAACAACAA
1 AAAAAAAAAAAACAAAAACAA
1801042 CAACAACAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 14
0.75 0.07 0.19
Matches are distributed among these distances:
21 1 0.02
22 26 0.46
23 12 0.21
24 10 0.18
25 6 0.11
26 1 0.02
ACGTcount: A:0.84, C:0.13, G:0.02, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAAACAAAAACAAA
Found at i:1800988 original size:29 final size:27
Alignment explanation
Indices: 1800955--1801041 Score: 102
Period size: 28 Copynumber: 3.1 Consensus size: 27
1800945 ACAAACCAAA
1800955 AAAAAAAAACAAAAACAAAAAAAAAAAC
1 AAAAAAAAACAAAAA-AAAAAAAAAAAC
*
1800983 ACAAAAAAACAAAAAAAGAAACAAAAAAC
1 AAAAAAAAACAAAAAAA-AAA-AAAAAAC
* * *
1801012 AAAAGAAAACACAAAAAAAAACAACAAC
1 AAAAAAAAACA-AAAAAAAAAAAAAAAC
1801040 AA
1 AA
1801042 CAACAACAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
27 2 0.04
28 24 0.47
29 19 0.37
30 6 0.12
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (27 bp):
AAAAAAAAACAAAAAAAAAAAAAAAAC
Found at i:1801010 original size:41 final size:40
Alignment explanation
Indices: 1800953--1801053 Score: 121
Period size: 41 Copynumber: 2.4 Consensus size: 40
1800943 CCACAAACCA
*
1800953 AAAAAAAAAAACAAAAACAAAAAAAAAAACACAAAAAAAC
1 AAAAAAAAAAACAAAAACAAAAAAAAAAACAAAAAAAAAC
* * *
1800993 AAAAAAAGAAACAAAAAACAAAAGAAAACACAAAAAAAAAC
1 AAAAAAAAAAAC-AAAAACAAAAAAAAAAACAAAAAAAAAC
*
1801034 AACAACAACAACAACAAAAA
1 AA-AA-AA-AAAAACAAAAA
1801054 GGGTATGGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
40 11 0.22
41 27 0.53
42 2 0.04
43 7 0.14
44 4 0.08
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (40 bp):
AAAAAAAAAAACAAAAACAAAAAAAAAAACAAAAAAAAAC
Found at i:1801675 original size:13 final size:13
Alignment explanation
Indices: 1801657--1801681 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1801647 CATAAAGTGT
1801657 TGTATCGATACAA
1 TGTATCGATACAA
1801670 TGTATCGATACA
1 TGTATCGATACA
1801682 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1801820 original size:52 final size:50
Alignment explanation
Indices: 1801757--1801905 Score: 190
Period size: 52 Copynumber: 2.9 Consensus size: 50
1801747 ATCGATACGT
*
1801757 TGTATCGATACACTAATCTTTGTATCGATACATGCAAGTAAATTTGCCCAGA
1 TGTATCGATACACT-AT-TTTGTATCGATACATGCAAGCAAATTTGCCCAGA
* ** *
1801809 TGTATCGATACATTATAAAATGTATCGATACATACAAGCAAATTTGCCCAGA
1 TGTATCGATACACTAT--TTTGTATCGATACATGCAAGCAAATTTGCCCAGA
*
1801861 TGTATCGATACACTATTTAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTATTT--TGTATCGATACATGCAAGCAAATTT
1801906 TCATATTTCG
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
51 2 0.02
52 81 0.98
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (50 bp):
TGTATCGATACACTATTTTGTATCGATACATGCAAGCAAATTTGCCCAGA
Found at i:1809168 original size:13 final size:13
Alignment explanation
Indices: 1809150--1809175 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1809140 TACAGCAAGT
1809150 ATGTATCGATACA
1 ATGTATCGATACA
1809163 ATGTATCGATACA
1 ATGTATCGATACA
1809176 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1809775 original size:34 final size:35
Alignment explanation
Indices: 1809737--1809803 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1809727 CCTTACAACA
1809737 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1809771 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1809804 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1810279 original size:13 final size:13
Alignment explanation
Indices: 1810261--1810286 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1810251 CAATTTTTTG
1810261 TGTATCGATACAT
1 TGTATCGATACAT
1810274 TGTATCGATACAT
1 TGTATCGATACAT
1810287 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1810298 original size:32 final size:33
Alignment explanation
Indices: 1810241--1810304 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1810231 TATAAGCCAA
**
1810241 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
1810274 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
1810305 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:1812088 original size:13 final size:13
Alignment explanation
Indices: 1812070--1812094 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1812060 ACTGAAGCAA
1812070 TGTATCGATACAT
1 TGTATCGATACAT
1812083 TGTATCGATACA
1 TGTATCGATACA
1812095 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1812724 original size:23 final size:24
Alignment explanation
Indices: 1812678--1812725 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
1812668 TCAAAGAATT
*
1812678 AAACACAAATTCAATTAAGCACAA
1 AAACACAAATTCAATTAAGAACAA
1812702 AAACACAAA-TCAATTGAA-AACAA
1 AAACACAAATTCAATT-AAGAACAA
1812725 A
1 A
1812726 TTTTCAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AAACACAAATTCAATTAAGAACAA
Found at i:1815333 original size:34 final size:35
Alignment explanation
Indices: 1815295--1815361 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1815285 CCTTACAACA
1815295 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1815329 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1815362 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1815837 original size:13 final size:13
Alignment explanation
Indices: 1815819--1815844 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1815809 CAATTTTTTG
1815819 TGTATCGATACAT
1 TGTATCGATACAT
1815832 TGTATCGATACAT
1 TGTATCGATACAT
1815845 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1815856 original size:32 final size:33
Alignment explanation
Indices: 1815799--1815862 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1815789 TATAAGCCAA
**
1815799 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
1815832 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
1815863 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:1818170 original size:21 final size:21
Alignment explanation
Indices: 1818137--1818181 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1818127 TTGCAAGTTG
*
1818137 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1818159 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1818179 AAA
1 AAA
1818182 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1820005 original size:15 final size:15
Alignment explanation
Indices: 1819985--1820015 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1819975 TAAAAATGTC
*
1819985 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1820000 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1820015 C
1 C
1820016 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1822107 original size:20 final size:20
Alignment explanation
Indices: 1822028--1822107 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
1822018 AATGTCCAAA
*
1822028 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
1822048 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
1822073 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
1822093 TTGTATCGATACATT
1 ATGTATCGATACATT
1822108 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:1822111 original size:13 final size:13
Alignment explanation
Indices: 1822093--1822131 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1822083 ACATTTTTCT
1822093 TTGTATCGATACA
1 TTGTATCGATACA
1822106 TTGTATCGATACA
1 TTGTATCGATACA
*
1822119 CTGTATCGATACA
1 TTGTATCGATACA
1822132 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1822276 original size:21 final size:21
Alignment explanation
Indices: 1822252--1822298 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
1822242 AAATCTTTTG
1822252 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
1822273 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
1822293 CAAAAT
1 CAAAAT
1822299 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:1822295 original size:20 final size:19
Alignment explanation
Indices: 1822254--1822296 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
1822244 ATCTTTTGCA
1822254 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
1822274 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
1822294 AAA
1 AAA
1822297 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:1824691 original size:13 final size:13
Alignment explanation
Indices: 1824673--1824698 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1824663 TACAGCAAGT
1824673 ATGTATCGATACA
1 ATGTATCGATACA
1824686 ATGTATCGATACA
1 ATGTATCGATACA
1824699 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1825785 original size:12 final size:12
Alignment explanation
Indices: 1825768--1825802 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
1825758 TCCAAAAAAG
1825768 AAACAAAACAAA
1 AAACAAAACAAA
*
1825780 AAACAAAAGAAA
1 AAACAAAACAAA
1825792 AAAC-AAACAAA
1 AAACAAAACAAA
1825803 CAAAAAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.83, C:0.14, G:0.03, T:0.00
Consensus pattern (12 bp):
AAACAAAACAAA
Found at i:1825796 original size:19 final size:19
Alignment explanation
Indices: 1825772--1825811 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
1825762 AAAAAGAAAC
1825772 AAAACAAA-AAACAAAAGAA
1 AAAACAAACAAACAAAA-AA
1825791 AAAACAAACAAACAAAAAA
1 AAAACAAACAAACAAAAAA
1825810 AA
1 AA
1825812 GATGAAAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (19 bp):
AAAACAAACAAACAAAAAA
Found at i:1825811 original size:24 final size:24
Alignment explanation
Indices: 1825768--1825813 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
1825758 TCCAAAAAAG
*
1825768 AAACAAAACAAAAAACAAAAGAAA
1 AAACAAAACAAAAAAAAAAAGAAA
1825792 AAAC-AAACAAACAAAAAAAAGA
1 AAACAAAACAAA-AAAAAAAAGA
1825814 TGAAAGGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.83, C:0.13, G:0.04, T:0.00
Consensus pattern (24 bp):
AAACAAAACAAAAAAAAAAAGAAA
Found at i:1826785 original size:31 final size:30
Alignment explanation
Indices: 1826748--1826958 Score: 226
Period size: 31 Copynumber: 6.8 Consensus size: 30
1826738 AATTCTTCAA
*
1826748 ATCTCTTCTCAAAGCCCACGACTCAGTGGC
1 ATCTCTTCTCAAAGTCCACGACTCAGTGGC
* *
1826778 AATCTCTTCTCAAAGTTCACGACTTAGTGGC
1 -ATCTCTTCTCAAAGTCCACGACTCAGTGGC
* *
1826809 ATCCTTTTTTTCAAAGTCCACGACTCAGTGGC
1 AT-C-TCTTCTCAAAGTCCACGACTCAGTGGC
* * *
1826841 AT-TTTGTCTTAAAGTCCACGACTCCGTGGC
1 ATCTCT-TCTCAAAGTCCACGACTCAGTGGC
* *
1826871 ACCTTCTTCTCAAAGTCCACGACTTAGTGGC
1 ATC-TCTTCTCAAAGTCCACGACTCAGTGGC
*
1826902 ATCATTTTCTTCAAAGTCCACGACTCAGTGGC
1 ATC-TCTTC-TCAAAGTCCACGACTCAGTGGC
* *
1826934 AATCTCTGCTCAAAGTCCACAACTC
1 -ATCTCTTCTCAAAGTCCACGACTC
1826959 TATGGCACCT
Statistics
Matches: 151, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
29 3 0.02
30 24 0.16
31 70 0.46
32 51 0.34
33 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (30 bp):
ATCTCTTCTCAAAGTCCACGACTCAGTGGC
Found at i:1826831 original size:32 final size:32
Alignment explanation
Indices: 1826756--1826934 Score: 190
Period size: 32 Copynumber: 5.7 Consensus size: 32
1826746 AAATCTCTTC
* * *
1826756 TCAAAGCCCACGACTCAGTGGCAAT-C-TCTTC
1 TCAAAGTCCACGACTCAGTGGC-ATCCTTTTTT
* *
1826787 TCAAAGTTCACGACTTAGTGGCATCCTTTTTT
1 TCAAAGTCCACGACTCAGTGGCATCCTTTTTT
*
1826819 TCAAAGTCCACGACTCAGTGGCAT--TTTGTCT
1 TCAAAGTCCACGACTCAGTGGCATCCTTT-TTT
* * *
1826850 T-AAAGTCCACGACTCCGTGGCA-CCTTCTTC
1 TCAAAGTCCACGACTCAGTGGCATCCTTTTTT
* * *
1826880 TCAAAGTCCACGACTTAGTGGCATCATTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCCTTTTTT
1826912 TCAAAGTCCACGACTCAGTGGCA
1 TCAAAGTCCACGACTCAGTGGCA
1826935 ATCTCTGCTC
Statistics
Matches: 122, Mismatches: 19, Indels: 13
0.79 0.12 0.08
Matches are distributed among these distances:
30 27 0.22
31 44 0.36
32 51 0.42
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (32 bp):
TCAAAGTCCACGACTCAGTGGCATCCTTTTTT
Found at i:1826922 original size:93 final size:94
Alignment explanation
Indices: 1826747--1826970 Score: 303
Period size: 93 Copynumber: 2.4 Consensus size: 94
1826737 CAATTCTTCA
* * * *
1826747 AATCTCTTCTCAAAGCCCACGACTCAGTGGCA-ATCTCTTCTCAAAGTTCACGACTTAGTGGCAT
1 AATCTCTGCTCAAAGTCCACGACTCAGTGGCACCT-TCTTCTCAAAGTCCACGACTTAGTGGCAT
* *
1826811 CCTTTTTTTCAAAGTCCACGACTCAGTGGC
65 CATTTTCTTCAAAGTCCACGACTCAGTGGC
* * *
1826841 -AT-TTTGTCTTAAAGTCCACGACTCCGTGGCACCTTCTTCTCAAAGTCCACGACTTAGTGGCAT
1 AATCTCTG-CTCAAAGTCCACGACTCAGTGGCACCTTCTTCTCAAAGTCCACGACTTAGTGGCAT
1826904 CATTTTCTTCAAAGTCCACGACTCAGTGGC
65 CATTTTCTTCAAAGTCCACGACTCAGTGGC
*
1826934 AATCTCTGCTCAAAGTCCACAACTCTA-TGGCACCTTC
1 AATCTCTGCTCAAAGTCCACGACTC-AGTGGCACCTTC
1826971 CATTCAAAGC
Statistics
Matches: 112, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
92 2 0.02
93 79 0.71
94 28 0.25
95 3 0.03
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (94 bp):
AATCTCTGCTCAAAGTCCACGACTCAGTGGCACCTTCTTCTCAAAGTCCACGACTTAGTGGCATC
ATTTTCTTCAAAGTCCACGACTCAGTGGC
Found at i:1826946 original size:63 final size:62
Alignment explanation
Indices: 1826751--1826958 Score: 244
Period size: 63 Copynumber: 3.3 Consensus size: 62
1826741 TCTTCAAATC
* * * *
1826751 TCTTCTCAAAGCCCACGACTCAGTGGCAATCTCTTC-TCAAAGTTCACGACTTAGTGGCATCCT
1 TCTTCTCAAAGTCCACGACTCAGTGGC-ATCTTTTCTTCAAAGTCCACGACTCAGTGGCAT-CT
* * * *
1826814 TTTTTTCAAAGTCCACGACTCAGTGGCAT-TTTGTCTT-AAAGTCCACGACTCCGTGGCACCT
1 TCTTCTCAAAGTCCACGACTCAGTGGCATCTTT-TCTTCAAAGTCCACGACTCAGTGGCATCT
*
1826875 TCTTCTCAAAGTCCACGACTTAGTGGCATCATTTTCTTCAAAGTCCACGACTCAGTGGCAATC-
1 TCTTCTCAAAGTCCACGACTCAGTGGCATC-TTTTCTTCAAAGTCCACGACTCAGTGGC-ATCT
* *
1826938 TCTGCTCAAAGTCCACAACTC
1 TCTTCTCAAAGTCCACGACTC
1826959 TATGGCACCT
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
61 30 0.24
62 26 0.21
63 65 0.53
64 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (62 bp):
TCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATCT
Found at i:1827114 original size:34 final size:33
Alignment explanation
Indices: 1826977--1827423 Score: 368
Period size: 34 Copynumber: 13.8 Consensus size: 33
1826967 CTTCCATTCA
* *
1826977 AAGCCCACAACTCCGTGGCACTTTTTTTTCCCTTTT
1 AAGCCCACAACTCCGTGGCAC--CTTTTTCTC-TTT
* * *
1827013 AAAGTCCACAACTCTGTGGCACCTTCTTT-TC--A
1 -AAGCCCACAACTCCGTGGCACCTT-TTTCTCTTT
1827045 AAGCCCACAACTCCGTGGCACC-----CT-TTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
* *
1827072 AAGCCCACAACTCCGTGGTACTTTTTTCATCTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTC-TCTTT
* *
1827106 AAGTCCACAACTCTGTGGCACC-----CT-TTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
* *
1827133 AAGCCCACAACTCCATGGCACTTTTTTCATCTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTC-TCTTT
*
1827167 AAGTCCACAACTCCGTGGCACC-----CT-TTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
*
1827194 AAGCCCACAACTCCGTGGCACCTTTCTC-CTTAT
1 AAGCCCACAACTCCGTGGCACCTTTTTCTCTT-T
*
1827227 AAGCCCACAATTCCGTGGCACCTTTTTCGT-TTT
1 AAGCCCACAACTCCGTGGCACCTTTTTC-TCTTT
*
1827260 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 -AAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
* *
1827294 AAAGCCCACAACTCCGTGGCA-CTCTTCTCCCTTTT
1 -AAGCCCACAACTCCGTGGCACCT-TTTTCTC-TTT
1827329 CAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTT
1 --AAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
*
1827363 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAGCCCACAACTCCGTGGCAC-CTTTTTCTC-TTT
* * *
1827399 AAGTCCATAACTCCGTGGCATCTTT
1 AAGCCCACAACTCCGTGGCACCTTT
1827424 CTCCCTTCCC
Statistics
Matches: 340, Mismatches: 34, Indels: 75
0.76 0.08 0.17
Matches are distributed among these distances:
26 1 0.00
27 65 0.19
28 2 0.01
29 2 0.01
31 20 0.06
32 5 0.01
33 55 0.16
34 114 0.34
35 24 0.07
36 31 0.09
37 21 0.06
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (33 bp):
AAGCCCACAACTCCGTGGCACCTTTTTCTCTTT
Found at i:1827118 original size:61 final size:60
Alignment explanation
Indices: 1827006--1827390 Score: 402
Period size: 61 Copynumber: 6.1 Consensus size: 60
1826996 ACTTTTTTTT
* * *
1827006 CCCTTTTAAAGTCCACAACTCTGTGGCACCTTCTTT-TC--AAAGCCCACAACTCCGTGGCA
1 CCCTTTT-AAGCCCACAACTCCGTGGCACCTT-TTTCTCTTTAAGCCCACAACTCCGTGGCA
* * * *
1827065 CCCTTTTAAGCCCACAACTCCGTGGTACTTTTTTCATCTTTAAGTCCACAACTCTGTGGCA
1 CCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTC-TCTTTAAGCCCACAACTCCGTGGCA
* * *
1827126 CCCTTTTAAGCCCACAACTCCATGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCA
1 CCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTC-TCTTTAAGCCCACAACTCCGTGGCA
* *
1827187 CCCTTTTAAGCCCACAACTCCGTGGCACCTTTCTC-CTTATAAGCCCACAATTCCGTGGCA
1 CCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTCTT-TAAGCCCACAACTCCGTGGCA
*
1827247 CCTTTTTCGTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTG
1 CC-----C-TTTT-AAGCCCACAACTCCGTGGCACCTTTTTCTCTTT-AAGCCCACAACTCCGTG
1827312 GCA
58 GCA
1827315 CTCTTCTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCG
1 -------CCCTTTT--AAGCCCACAACTCCGTGGCACCTTTTTCTCTTT-AAGCCCACAACTCCG
1827379 TGGCA
56 TGGCA
*
1827384 CTCTTTT
1 CCCTTTT
1827391 TCCCTTTTAA
Statistics
Matches: 285, Mismatches: 19, Indels: 41
0.83 0.06 0.12
Matches are distributed among these distances:
57 3 0.01
58 20 0.07
59 12 0.04
60 21 0.07
61 108 0.38
62 6 0.02
65 1 0.00
66 4 0.01
67 28 0.10
68 21 0.07
69 28 0.10
70 31 0.11
75 2 0.01
ACGTcount: A:0.21, C:0.35, G:0.12, T:0.31
Consensus pattern (60 bp):
CCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTCTTTAAGCCCACAACTCCGTGGCA
Found at i:1827156 original size:25 final size:26
Alignment explanation
Indices: 1827103--1827158 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
1827093 TTTTTTCATC
* **
1827103 TTTAAGTCCACAACTCTGTGGCACCCT
1 TTTAAGCCCACAACTCCATGGCA-CCT
*
1827130 TTTAAGCCCACAACTCCATGGCACTT
1 TTTAAGCCCACAACTCCATGGCACCT
1827156 TTT
1 TTT
1827159 TCATCTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.23, C:0.32, G:0.12, T:0.32
Consensus pattern (26 bp):
TTTAAGCCCACAACTCCATGGCACCT
Found at i:1827437 original size:104 final size:101
Alignment explanation
Indices: 1826976--1827443 Score: 425
Period size: 104 Copynumber: 4.8 Consensus size: 101
1826966 CCTTCCATTC
* * * *
1826976 AAAGCCCACAACTCCGTGGCACTTTTTTTTCCCTTTTAAAGTCCACAACTCTGTGGCACCTTCT-
1 AAAGCCCACAACTCCGTGGCAC--CTTTTTCCCTTTT-AAGCCCACAACTCCGTGGCACTTTCTC
*
1827040 -TTTCAAAGCCCACAACTCCGTGGCACC-----C-TTTT
63 CCTTCAAAGCCCACAACTCCGTGGCACCTTTTTCGTTTT
* * * * *
1827072 -AAGCCCACAACTCCGTGGTA-CTTTTTTCATCTTTAAGTCCACAACTCTGTGGCA------CCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCCT-TTTAAGCCCACAACTCCGTGGCACTTTCTCCC
** * * *
1827129 TTTTAAGCCCACAACTCCATGGCACTTTTTTCATCTTT
65 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCGT-TTT
*
1827167 -AAGTCCACAACTCCGTGGCA-------CCCTTTTAAGCCCACAACTCCGTGGCACCTTTCT-CC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTTAAGCCCACAACTCCGTGGCA-CTTTCTCCC
*
1827223 TT-ATAAGCCCACAATTCCGTGGCACCTTTTTCGTTTT
65 TTCA-AAGCCCACAACTCCGTGGCACCTTTTTCGTTTT
*
1827260 AAAGCCCACAACTCCGTGGCACCTTTTT-CTTTTTAAAGCCCACAACTCCGTGGCACTCTTCTCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTT-AAGCCCACAACTCCGTGGCACT-TTCTCC
1827324 CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTC-TTTT
64 C--TTCAAAGCCCACAACTCCGTGGCACCTTTTTCGTTTT
* *
1827363 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCATAACTCCGTGGCATCTTTCTCC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCCCTTTTAAGCCCACAACTCCGTGGCA-CTTTCTCC
1827428 CTTCCCAAAGCCCACA
64 CTT--CAAAGCCCACA
1827444 CAAGTCGGTG
Statistics
Matches: 309, Mismatches: 26, Indels: 66
0.77 0.06 0.16
Matches are distributed among these distances:
88 43 0.14
89 2 0.01
92 27 0.09
93 7 0.02
94 50 0.16
95 40 0.13
100 7 0.02
101 24 0.08
102 4 0.01
103 26 0.08
104 71 0.23
105 8 0.03
ACGTcount: A:0.21, C:0.35, G:0.12, T:0.31
Consensus pattern (101 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTTAAGCCCACAACTCCGTGGCACTTTCTCCCT
TCAAAGCCCACAACTCCGTGGCACCTTTTTCGTTTT
Found at i:1827508 original size:33 final size:32
Alignment explanation
Indices: 1827432--1827569 Score: 192
Period size: 33 Copynumber: 4.3 Consensus size: 32
1827422 TTCTCCCTTC
1827432 CCAAAGCCCACACAAGTCGGTGGCAA-CTCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
1827463 CCTAAAGCCCACACAAGTCGGTGGCAACCTTCTT
1 CC-AAAGCCCACACAAGTCGGTGGCAACC-TCTT
* *
1827497 CCAAAGCCCACACAAGTCGGTGGAAACCACTCT
1 CCAAAGCCCACACAAGTCGGTGGCAACCTCT-T
*
1827530 CTAAAGCCCACACAAGTCGGTGGCAACC-CTT
1 CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
*
1827561 -CTAAGCCCA
1 CCAAAGCCCA
1827570 ATATAGCTGG
Statistics
Matches: 97, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
30 7 0.07
31 3 0.03
32 28 0.29
33 53 0.55
34 6 0.06
ACGTcount: A:0.30, C:0.36, G:0.18, T:0.16
Consensus pattern (32 bp):
CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
Found at i:1827546 original size:66 final size:66
Alignment explanation
Indices: 1827432--1827562 Score: 212
Period size: 66 Copynumber: 2.0 Consensus size: 66
1827422 TTCTCCCTTC
* *
1827432 CCAAAGCCCACACAAGTCGGTGGCAACTCTTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTTCT
1 CCAAAGCCCACACAAGTCGGTGGAAACACTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTTCT
1827496 T
66 T
1827497 CCAAAGCCCACACAAGTCGGTGGAAACCAC-TCTCTAAAGCCCACACAAGTCGGTGGCAACCCTT
1 CCAAAGCCCACACAAGTCGGTGGAAA-CACTTC-CTAAAGCCCACACAAGTCGGTGGCAACCCTT
1827561 CT
64 CT
1827563 AAGCCCAATA
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
65 27 0.44
66 28 0.46
67 6 0.10
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.17
Consensus pattern (66 bp):
CCAAAGCCCACACAAGTCGGTGGAAACACTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTTCT
T
Found at i:1827620 original size:49 final size:49
Alignment explanation
Indices: 1827562--1828557 Score: 1300
Period size: 49 Copynumber: 20.7 Consensus size: 49
1827552 GCAACCCTTC
* * * * *
1827562 TAAGCCCAATATAGCTGGCCCTAAATCAGCATATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1827611 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
1827659 TAAGTCCAATATCGTTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1827708 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1827757 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1827806 TAAGTCCAATGTAGCTGGCCCTGAATCAGCACATTGGCACC-TCATCCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * * *
1827854 TAAGTCCAATATCGCTGGCCCTGAATCAGCATATTGACACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1827903 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1827952 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1828001 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
1828049 TAAGTCGAATATCGCTGGCCCTGAATCAGCATATTCGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1828098 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1828146 TAAGTCCAATATCGCTGGCCCTGAATCAGCATATTGACACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1828195 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1828243 TATGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C-T-TT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1828286 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTCATCCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1828335 TAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCA----C-T-TT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1828378 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1828427 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1828470 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* * *
1828522 TAAGTTCAATGTAGCTAGCCTTGAATCAGCACATTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
1828558 ACATCATTTT
Statistics
Matches: 831, Mismatches: 91, Indels: 47
0.86 0.09 0.05
Matches are distributed among these distances:
43 113 0.14
44 1 0.00
45 3 0.00
47 2 0.00
48 216 0.26
49 460 0.55
50 1 0.00
52 35 0.04
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:1827733 original size:97 final size:98
Alignment explanation
Indices: 1827562--1828557 Score: 1300
Period size: 97 Copynumber: 10.4 Consensus size: 98
1827552 GCAACCCTTC
* * * * * *
1827562 TAAGCCCAATATAGCTGGCCCTAAATCAGCATATTGGCACCTTCACCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
1827627 GGCCTTGAATCAGCACATTGGCACC-TCATCTT
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
1827659 TAAGTCCAATATCGTTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
* *
1827724 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1827757 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
* *
1827822 GGCCCTGAATCAGCACATTGGCACC-TCATCCT
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * * *
1827854 TAAGTCCAATATCGCTGGCCCTGAATCAGCATATTGACACCTTCACCATTAAGTCCAATATAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
* *
1827919 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1827952 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
1828017 GGCCTTGAATCAGCACATTGGCACC-TCATCTT
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * * *
1828049 TAAGTCGAATATCGCTGGCCCTGAATCAGCATATTCGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
1828114 GGCCTTGAATCAGCACATTGGCACC-TCATCTT
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
1828146 TAAGTCCAATATCGCTGGCCCTGAATCAGCATATTGACACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
*
1828211 GGCCTTGAATCAGCACATTGGCACC-TCACCTT
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1828243 TATGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C-T-TTTAAGTCCAATATAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
* * *
1828302 GGCCTTGAATCAGCATATTAGCACCTTCATCCT
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1828335 TAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCA----C-T-TTTAAGTCCAATATAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
* *
1828394 GGCCTTGAATCAGCATATTGGCACCTTCTTCTT
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1828427 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
*
1828486 GGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
66 GGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* * *
1828522 TAAGTTCAATGTAGCTAGCCTTGAATCAGCACATTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
1828558 ACATCATTTT
Statistics
Matches: 810, Mismatches: 82, Indels: 16
0.89 0.09 0.02
Matches are distributed among these distances:
91 40 0.05
92 170 0.21
93 1 0.00
94 2 0.00
95 39 0.05
97 385 0.48
98 173 0.21
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (98 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
GGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:1827905 original size:195 final size:193
Alignment explanation
Indices: 1827562--1828557 Score: 1392
Period size: 195 Copynumber: 5.2 Consensus size: 193
1827552 GCAACCCTTC
* * * * *
1827562 TAAGCCCAATATAGCTGGCCCTAAATCAGCATATTGGCACCTTCACCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* *
1827627 GGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATATCGTTGGCCTTGACTCAGCACA
66 GGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACA
1827692 TTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
131 TTGGCACCTTCA-C-TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
1827757 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* * * *
1827822 GGCCCTGAATCAGCACATTGGCACCTCATCCTTAAGTCCAATATCGCTGGCCCTGAATCAGCATA
66 GGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACA
*
1827887 TTGACACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
131 TTGGCACCTTCA-C-TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
1827952 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* * *
1828017 GGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCGAATATCGCTGGCCCTGAATCAGCATA
66 GGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACA
* * * *
1828082 TTCGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
131 TTGGCACCTTCA-C-TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * * *
1828146 TAAGTCCAATATCGCTGGCCCTGAATCAGCATATTGACACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* * * * *
1828211 GGCCTTGAATCAGCACATTGGCACCTCACCTTTATGTCCAATGTAGCTGGCCTTGACTCAGCACA
66 GGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACA
* * *
1828276 TTGGCA-CTT---TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTCATCCT
131 TTGGCACCTTCACTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * *
1828335 TAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCA----C-T-TTTAAGTCCAATATAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* * * *
1828394 GGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGAATCAGCACATTGGCACC-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAC
1828459 ATTGGCACC-T---TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC
130 ATTGGCACCTTCACTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATC
1828520 TT
192 TT
* * *
1828522 TAAGTTCAATGTAGCTAGCCTTGAATCAGCACATTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
1828558 ACATCATTTT
Statistics
Matches: 736, Mismatches: 59, Indels: 20
0.90 0.07 0.02
Matches are distributed among these distances:
183 41 0.06
184 85 0.12
185 4 0.01
187 37 0.05
188 39 0.05
189 41 0.06
193 3 0.00
194 127 0.17
195 359 0.49
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (193 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACA
TTGGCACCTTCACTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
Found at i:1828383 original size:92 final size:92
Alignment explanation
Indices: 1828096--1828557 Score: 640
Period size: 92 Copynumber: 4.9 Consensus size: 92
1828086 CACCTTCATC
* * * *
1828096 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTTTAAGTCCAATATCG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
* * *
1828160 CTGGCCCTGAATCAGCATATTGACACCTTCAT
66 CTGGCCTTGAATCAGCACATTGGCA----C-T
* * * *
1828192 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTATGTCCAATGTA
1 -TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
*
1828256 GCTGGCCTTGACTCAGCACATTGGCACT
65 GCTGGCCTTGAATCAGCACATTGGCACT
* * * *
1828284 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTCATCCTTAAGTCCAATATCG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
*
1828349 CTAGCCTTGAATCAGCACATTGGCACT
66 CTGGCCTTGAATCAGCACATTGGCACT
*
1828376 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
*
1828441 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACT
*
1828468 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAATG
*
1828533 TAGCTAGCCTTGAATCAGCACATTG
63 TAGCTGGCCTTGAATCAGCACATTG
1828558 ACATCATTTT
Statistics
Matches: 333, Mismatches: 28, Indels: 10
0.90 0.08 0.03
Matches are distributed among these distances:
91 40 0.12
92 170 0.51
93 1 0.00
94 2 0.01
95 39 0.12
97 81 0.24
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (92 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
CTGGCCTTGAATCAGCACATTGGCACT
Found at i:1828601 original size:54 final size:52
Alignment explanation
Indices: 1828467--1828603 Score: 166
Period size: 52 Copynumber: 2.6 Consensus size: 52
1828457 ACATTGGCAC
* * *
1828467 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
* * *
1828519 CTTTAAGTTCAATGTAGCTAGCCTTGAATCAGCACATTGACATCATTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA-CATTTTC-CAT
* * * *
1828573 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
1828604 ACATATTGGT
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
52 37 0.53
53 6 0.09
54 27 0.39
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
Found at i:1829299 original size:13 final size:13
Alignment explanation
Indices: 1829281--1829305 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1829271 CATAAAGTGT
1829281 TGTATCGATACAA
1 TGTATCGATACAA
1829294 TGTATCGATACA
1 TGTATCGATACA
1829306 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1829457 original size:52 final size:52
Alignment explanation
Indices: 1829401--1829529 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
1829391 CACTAATCTT
* *
1829401 TGTATCGATACATGCAAGTAAATTTGCCCAGATGTATCGATACATTATGAAA
1 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* **
1829453 TGTATCGATACGTGCAAGCAAATTTGCCCAGATGTATCGATACACTATTTAA
1 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
1829505 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAAGCAAATTT
1829530 TCATATTTCG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:1833542 original size:28 final size:28
Alignment explanation
Indices: 1833457--1833543 Score: 95
Period size: 30 Copynumber: 3.0 Consensus size: 28
1833447 CCTCAAAGGG
1833457 AACCTTCAAAAGCCCACAAGTCAGTGGC
1 AACCTTCAAAAGCCCACAAGTCAGTGGC
* * *
1833485 ACCCTTTTTC-AAAGCCCATAAATCAGTGGC
1 AACC---TTCAAAAGCCCACAAGTCAGTGGC
* *
1833515 AACCTTCAAAAGTCCACAAGTCCGTGGC
1 AACCTTCAAAAGCCCACAAGTCAGTGGC
1833543 A
1 A
1833544 TCTTTTCCTT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
27 3 0.06
28 20 0.43
30 21 0.45
31 3 0.06
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (28 bp):
AACCTTCAAAAGCCCACAAGTCAGTGGC
Found at i:1833565 original size:32 final size:32
Alignment explanation
Indices: 1833528--1833612 Score: 116
Period size: 32 Copynumber: 2.7 Consensus size: 32
1833518 CTTCAAAAGT
*
1833528 CCACAAGTCCGTGGCATCTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCATCTTTTCCTTTTAAGC
* * *
1833560 CCACAACTCCGTGGCACCTTTTCTTTTTAAGT
1 CCACAACTCCGTGGCATCTTTTCCTTTTAAGC
* *
1833592 CCATAACTCCGCGGCATCTTT
1 CCACAACTCCGTGGCATCTTT
1833613 AAGCCCAATA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.19, C:0.33, G:0.14, T:0.34
Consensus pattern (32 bp):
CCACAACTCCGTGGCATCTTTTCCTTTTAAGC
Found at i:1833693 original size:35 final size:35
Alignment explanation
Indices: 1833646--1833742 Score: 137
Period size: 35 Copynumber: 2.9 Consensus size: 35
1833636 GTCAGCATAT
* *
1833646 TGGCAC-C-TTTTCTTTTTTAAGTCCATAACTCCG
1 TGGCACTCTTTTTCTTTTTTAAGCCCACAACTCCG
*
1833679 TGGCACTCTTTTTCTTTTGTAAGCCCACAACTCCG
1 TGGCACTCTTTTTCTTTTTTAAGCCCACAACTCCG
*
1833714 TGGCACTCTTTTTC-CTTTTAAGCCCACAA
1 TGGCACTCTTTTTCTTTTTTAAGCCCACAA
1833743 GTCAATGGCA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
33 6 0.11
34 14 0.25
35 37 0.65
ACGTcount: A:0.19, C:0.30, G:0.12, T:0.39
Consensus pattern (35 bp):
TGGCACTCTTTTTCTTTTTTAAGCCCACAACTCCG
Found at i:1833752 original size:34 final size:35
Alignment explanation
Indices: 1833679--1833759 Score: 110
Period size: 34 Copynumber: 2.3 Consensus size: 35
1833669 CATAACTCCG
* **
1833679 TGGCACTCTTTTTCTTTTGTAAGCCCACAACTCCG
1 TGGCACTCTTTTTCCTTTGTAAGCCCACAACTCAA
*
1833714 TGGCACTCTTTTTCCTTT-TAAGCCCACAAGTCAA
1 TGGCACTCTTTTTCCTTTGTAAGCCCACAACTCAA
*
1833748 TGGCACCCTTTT
1 TGGCACTCTTTT
1833760 CAAACGCCCA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
34 24 0.59
35 17 0.41
ACGTcount: A:0.19, C:0.31, G:0.14, T:0.37
Consensus pattern (35 bp):
TGGCACTCTTTTTCCTTTGTAAGCCCACAACTCAA
Found at i:1833782 original size:30 final size:28
Alignment explanation
Indices: 1833733--1833812 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 28
1833723 TTTTCCTTTT
* * *
1833733 AAGCCCACAAGTCAATGGCACCCTTTTCAA
1 AAGCCCACAAGTTAGTGGCAACC--TTCAA
*
1833763 ACGCCCACAAGTTAGTGGCAACCTTCAA
1 AAGCCCACAAGTTAGTGGCAACCTTCAA
*
1833791 AAGCCTACACAAGTTGGTGGCA
1 AAGCC--CACAAGTTAGTGGCA
1833813 TCTTCTTCTA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
28 9 0.21
30 33 0.79
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.19
Consensus pattern (28 bp):
AAGCCCACAAGTTAGTGGCAACCTTCAA
Found at i:1833943 original size:49 final size:49
Alignment explanation
Indices: 1833808--1834105 Score: 331
Period size: 49 Copynumber: 6.1 Consensus size: 49
1833798 CACAAGTTGG
* * * **
1833808 TGGCATCTTC-T-TCTAAGTCCAATATCGTTGGCCTTGAATCAACATGT
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* *
1833855 TGGCGCCTTCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
1 T-G-G-CATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * *
1833907 TGGCATCTTCAT-TGTTAAGTCCAATATCGTTCGCCTTGAATTAGCATAT
1 TGGCATCTTCATCT-TTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * * *
1833956 TGGCACCTTTATCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * *
1834005 TGGCATCTTCATCTTTAAGTCCAATATCACTGGTCC-TGAGTCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGG-CCTTGAATCAGCACAT
1834054 TGGCA-C--CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
1834100 TGGCAT
1 TGGCAT
1834106 ATGCCCAATC
Statistics
Matches: 210, Mismatches: 31, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
45 2 0.01
46 39 0.19
47 1 0.00
48 3 0.01
49 122 0.58
50 10 0.05
51 2 0.01
52 31 0.15
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (49 bp):
TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
Found at i:1833997 original size:98 final size:97
Alignment explanation
Indices: 1833808--1834388 Score: 529
Period size: 101 Copynumber: 6.1 Consensus size: 97
1833798 CACAAGTTGG
* * * * *
1833808 TGGCATCTTC-TTCTAAGTCCAATATCGTTGGCCTTGAATCAACATGTTGGCGCCTTCTTCATCT
1 TGGCATCTTCATTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-T-TT-ATCT
1833872 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
63 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * *
1833907 TGGCATCTTCATTGTTAAGTCCAATATCGTTCGCCTTGAATTAGCATATTGGCACCTTTATCTTT
1 TGGCATCTTCATT-TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
* *
1833972 AAGACCAATGTCACTGGCCTTGAATCAGCACAT
65 AAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* *
1834005 TGGCATCTTCATCTTTAAGTCCAATATCACTGGTCC-TGAGTCAGCATATTGGCACC---ATCTT
1 TGGCATCTTCAT-TTTAAGTCCAATATCGCTGG-CCTTGAATCAGCATATTGGCACCTTTATCTT
*
1834066 TAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
64 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
1834100 TGGCA---T-A---T--G-CCCA-AT--CTAGCCTTGAATCAACATATTGGCACC-TTGTCTTTA
1 TGGCATCTTCATTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTA
* *
1834151 AGACCAATGTCGCTGGCCTTGAATCAGCATAT
66 AGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * *
1834183 TGGCACCTTTGTCATCTT-AGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCACCTTTATCT
1 TGGCA--TCT-TCATTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCT
*
1834247 TTAAGTCCAATAG-CGCTGGCCTTGAATCAACACAT
63 TTAAGTCCAAT-GTCGCTGGCCTTGAATCAGCACAT
* ** * * * * * * *
1834282 TGGCACCTTAACCATCTTTAAAACCAATGTTGCTAGCCTTAAATCAGCACATCGGCACCTTCATC
1 TGGCATCTT---CAT-TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * * * *
1834347 TTTAAGTCCAATATTGTTGGCCTTGAATCAACATAT
62 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
1834383 TGGCAT
1 TGGCAT
1834389 GCTAGCCTTG
Statistics
Matches: 402, Mismatches: 50, Indels: 58
0.79 0.10 0.11
Matches are distributed among these distances:
80 2 0.00
81 21 0.05
83 42 0.10
84 3 0.01
85 1 0.00
87 1 0.00
89 1 0.00
90 1 0.00
91 1 0.00
92 1 0.00
93 1 0.00
94 1 0.00
95 44 0.11
96 2 0.00
97 1 0.00
98 106 0.26
99 58 0.14
100 6 0.01
101 109 0.27
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (97 bp):
TGGCATCTTCATTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTA
AGTCCAATGTCGCTGGCCTTGAATCAGCACAT
Found at i:1834233 original size:133 final size:130
Alignment explanation
Indices: 1833988--1834237 Score: 326
Period size: 129 Copynumber: 1.9 Consensus size: 130
1833978 AATGTCACTG
* * * *
1833988 GCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCACTGGTCCTGAGTCAGCATA
1 GCCTTGAATCAACACATTGGCACCTTCATCTTTAAGACCAATATCACTGGTCCTGAATCAGCATA
1834053 TTGGCACCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATATGCCCAATCTA
66 TTGGCACCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATATGCCCAATCTA
* * * *
1834118 GCCTTGAATCAACATATTGGCACCTT-GTCTTTAAGACCAATGTCGCTGG-CCTTGAATCAGCAT
1 GCCTTGAATCAACACATTGGCACCTTCATCTTTAAGACCAATATCACTGGTCC-TGAATCAGCAT
* * *
1834181 ATTGGCACCTTTGTCATCTT-AGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCA
65 ATTGGCACC---ATC-T-TTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
1834238 CCTTTATCTT
Statistics
Matches: 103, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
128 2 0.02
129 38 0.37
130 23 0.22
132 2 0.02
133 36 0.35
134 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (130 bp):
GCCTTGAATCAACACATTGGCACCTTCATCTTTAAGACCAATATCACTGGTCCTGAATCAGCATA
TTGGCACCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATATGCCCAATCTA
Found at i:1834273 original size:49 final size:49
Alignment explanation
Indices: 1834118--1834387 Score: 276
Period size: 49 Copynumber: 5.4 Consensus size: 49
1834108 GCCCAATCTA
* * * *
1834118 GCCTTGAATCAACATATTGGCACC-TTGTCTTTAAGACCAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
* *
1834166 GCCTTGAATCAGCATATTGGCACCTTTGTCATCTT-AGTCCAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTTATC-T-TTAAGTCCAATGTCGCTG
*
1834216 GCCTTGAATCAGTACATTGGCACCTTTATCTTTAAGTCCAATAG-CGCTG
1 GCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAAT-GTCGCTG
* * ** * *
1834265 GCCTTGAATCAACACATTGGCACCTTAACCATCTTTAAAACCAATGTTGCTA
1 GCCTTGAATCAGCACATTGGCACCTT---TATCTTTAAGTCCAATGTCGCTG
* * * * * *
1834317 GCCTTAAATCAGCACATCGGCACCTTCATCTTTAAGTCCAATATTGTTG
1 GCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
* *
1834366 GCCTTGAATCAACATATTGGCA
1 GCCTTGAATCAGCACATTGGCA
1834388 TGCTAGCCTT
Statistics
Matches: 189, Mismatches: 24, Indels: 17
0.82 0.10 0.07
Matches are distributed among these distances:
48 25 0.13
49 79 0.42
50 43 0.23
51 3 0.02
52 39 0.21
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (49 bp):
GCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
Found at i:1837501 original size:13 final size:13
Alignment explanation
Indices: 1837483--1837508 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1837473 CAATTTTTTG
1837483 TGTATCGATACAT
1 TGTATCGATACAT
1837496 TGTATCGATACAT
1 TGTATCGATACAT
1837509 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1837520 original size:32 final size:33
Alignment explanation
Indices: 1837463--1837526 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1837453 TACAAGCCAA
**
1837463 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
1837496 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
1837527 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:1838184 original size:39 final size:37
Alignment explanation
Indices: 1838137--1838222 Score: 97
Period size: 38 Copynumber: 2.3 Consensus size: 37
1838127 TTTCTTTTCT
1838137 TTCT-CCCTTAATTAA-AGTAATTTTAACAAATTCGTA-CA
1 TTCTCCCCTTAA-TAAGA-TAATTTTAACAAATT--TACCA
*
1838175 TTCTCCCCTTAATAAGATAATTTTAGCAAATTTACGCA
1 TTCTCCCCTTAATAAGATAATTTTAACAAATTTAC-CA
1838213 TTCTCCCCTT
1 TTCTCCCCTT
1838223 TTTTTAAAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
36 2 0.05
38 33 0.77
39 8 0.19
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (37 bp):
TTCTCCCCTTAATAAGATAATTTTAACAAATTTACCA
Found at i:1839565 original size:13 final size:13
Alignment explanation
Indices: 1839547--1839571 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1839537 ACTGAAGTAA
1839547 TGTATCGATACAT
1 TGTATCGATACAT
1839560 TGTATCGATACA
1 TGTATCGATACA
1839572 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1841669 original size:21 final size:21
Alignment explanation
Indices: 1841645--1841686 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1841635 ATCCATTTCT
* *
1841645 TCATTTTCATCAACCTCTTGA
1 TCATCTTCATCAACATCTTGA
*
1841666 TCATCTTCATCATCATCTTGA
1 TCATCTTCATCAACATCTTGA
1841687 ACGATTGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.43
Consensus pattern (21 bp):
TCATCTTCATCAACATCTTGA
Found at i:1843323 original size:13 final size:13
Alignment explanation
Indices: 1843305--1843330 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1843295 CAATTTTTTG
1843305 TGTATCGATACAT
1 TGTATCGATACAT
1843318 TGTATCGATACAT
1 TGTATCGATACAT
1843331 ACTTTTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1843346 original size:32 final size:33
Alignment explanation
Indices: 1843285--1843348 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1843275 TACAAGCCAA
*
1843285 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATCTTTTGTGTATCGATACAT
1843318 TGTATCGATAC-ATACTTTT-TGTATCGATACA
1 TGTATCGATACAAT-CTTTTGTGTATCGATACA
1843349 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATCTTTTGTGTATCGATACAT
Found at i:1850976 original size:52 final size:52
Alignment explanation
Indices: 1850898--1851026 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1850888 CGAAATATGA
* *
1850898 AAATTTGCCTACATGTATCGATACATTTCATGGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1850950 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1851002 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1851027 AAAATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1851037 original size:52 final size:51
Alignment explanation
Indices: 1850898--1851046 Score: 203
Period size: 52 Copynumber: 2.9 Consensus size: 51
1850888 CGAAATATGA
* *
1850898 AAATTTGCCTACATGTATCGATAC-ATTTCATGGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACAATATCA--GTGTATCGATACATCTGGGC
*
1850950 AAATTTGCCTGCATGTATCGATACATTTTAT-AGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA--ATATCAGTGTATCGATACATCTGGGC
*
1851002 AAATTTGCCTGCATGTATCGATACAAAAATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATAC-AATATCAGTGTATCGATACA
1851047 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
51 2 0.02
52 81 0.93
53 1 0.01
54 1 0.01
55 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACAATATCAGTGTATCGATACATCTGGGC
Found at i:1851053 original size:13 final size:13
Alignment explanation
Indices: 1851035--1851059 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1851025 CAAAAATCAG
1851035 TGTATCGATACAA
1 TGTATCGATACAA
1851048 TGTATCGATACA
1 TGTATCGATACA
1851060 TTTGAAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1851124 original size:19 final size:18
Alignment explanation
Indices: 1851100--1851197 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
1851090 TAGCTTATAT
1851100 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1851119 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1851132 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
1851151 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1851164 TGTATCGATACAAGACTTTA
1 TGTATCGATACAA-AC-TTA
1851184 TGTATCGATACAAA
1 TGTATCGATACAAA
1851198 TCATTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1851137 original size:13 final size:13
Alignment explanation
Indices: 1851119--1851175 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1851109 ACAAAACTTA
1851119 TGTATCGATACAT
1 TGTATCGATACAT
1851132 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
1851150 ATGTATCGATACAT
1 -TGTATCGATACAT
1851164 TGTATCGATACA
1 TGTATCGATACA
1851176 AGACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1851139 original size:32 final size:32
Alignment explanation
Indices: 1851098--1851195 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
1851088 AGTAGCTTAT
1851098 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTATGTATCGATAC
*
1851130 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTATGTATCGATAC
*
1851162 ATTGTATCGATACAAGACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAC-TTATGTATCGATAC
1851195 A
1 A
1851196 AATCATTGAA
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 48 0.76
33 15 0.24
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAAAACTTATGTATCGATAC
Found at i:1852080 original size:52 final size:50
Alignment explanation
Indices: 1852001--1852565 Score: 465
Period size: 43 Copynumber: 12.1 Consensus size: 50
1851991 CTTAGGAATG
* * * *
1852001 TTAAAGATG-AAGGTGCCAATGTACTGATGCAAGGCTAGCGACATTGGAC
1 TTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * * *
1852050 TTAAAGATGACAAAGGCGCCAATATGCTGATTTAGGGCCAGCGATATTGGAC
1 TTAAAGATG--AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* *
1852102 -T-----T-AAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGAC
1 TTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * *
1852145 TTAAAAGATG-AGGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGAC
1 TT-AAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * * *
1852195 TT----A-G--AGTTGCCAATGTGCTGATTCATGGCCAGCTACATTGGAC
1 TTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * * *
1852238 TTAAAGATG-ATGGTGCTAATATGCTGATTCAAGGCCAACGATATTGGAC
1 TTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * *
1852287 -T-----T-AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAATGGAC
1 TTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * * *
1852330 TTAAA-AAGGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
1 TTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* *
1852379 -T-----T-AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * * *
1852422 TTAAAGAAG-AAGGTGCCAATATGCTGATTCAAGGCAAGCTATATTGGAC
1 TTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * *
1852471 -T-----T-AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACGTTGGAC
1 TTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* *
1852514 TTAAAGATG-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC
1 TTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
1852563 TTA
1 TTA
1852566 GAAGGGTTGC
Statistics
Matches: 413, Mismatches: 64, Indels: 78
0.74 0.12 0.14
Matches are distributed among these distances:
43 177 0.43
44 5 0.01
45 1 0.00
46 1 0.00
47 1 0.00
48 4 0.01
49 153 0.37
50 38 0.09
51 1 0.00
52 32 0.08
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (50 bp):
TTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
Found at i:1852122 original size:43 final size:44
Alignment explanation
Indices: 1852062--1852570 Score: 497
Period size: 43 Copynumber: 11.1 Consensus size: 44
1852052 AAAGATGACA
* * * *
1852062 AAGGCGCCAATATGCTGATTTAGGGCCAGCGATATTGGACTTA-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAG
* * * *
1852105 AAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAAG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT---AG
* *
1852152 ATGAGGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAG
1 A--A-GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAG
* * * *
1852199 -AGTTGCCAATGTGCTGATTCATGGCCAGCTACATTGGACTTAAAG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--AG
* * *
1852244 ATGATGGTGCTAATATGCTGATTCAAGGCCAACGATATTGGACTTA-
1 A--A-GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAG
* * *
1852290 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAATGGACTTAAAAAGG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A-G
1852339 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAG
* *
1852382 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----AG
*
1852431 AAGGTGCCAATATGCTGATTCAAGGCAAGCTATATTGGACTTA-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAG
* **
1852474 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACGTTGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A-G
* *
1852523 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAG
1852567 AAGG
1 AAGG
1852571 GTTGCCACCG
Statistics
Matches: 389, Mismatches: 46, Indels: 61
0.78 0.09 0.12
Matches are distributed among these distances:
43 182 0.47
44 8 0.02
45 4 0.01
46 2 0.01
47 6 0.02
48 2 0.01
49 149 0.38
50 36 0.09
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (44 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAG
Found at i:1852298 original size:92 final size:92
Alignment explanation
Indices: 1852010--1852570 Score: 843
Period size: 92 Copynumber: 6.0 Consensus size: 92
1852000 GTTAAAGATG
* * * * *
1852010 AAGGTGCCAATGTACTGATGCAAGGCTAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATAT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG---AAGGTGCCAATAT
* *
1852075 GCTGATTTAGGGCCAGCGATATTGGACTTA
63 GCTGATTCAAGGCCAGCGATATTGGACTTA
* * *
1852105 AAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAAGATGAGGGTGCCAATATGC
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGATGAAGGTGCCAATATGC
*
1852170 TAATTCAAGGCCAGCGATATTGGACTTA
65 TGATTCAAGGCCAGCGATATTGGACTTA
* * * * *
1852198 GAGTTGCCAATGTGCTGATTCATGGCCAGCTACATTGGACTTAAAGATGATGGTGCTAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
*
1852263 GATTCAAGGCCAACGATATTGGACTTA
66 GATTCAAGGCCAGCGATATTGGACTTA
* * *
1852290 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAATGGACTTAAAAAGGAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
*
1852355 GATTCAAGGCCAGCTATATTGGACTTA
66 GATTCAAGGCCAGCGATATTGGACTTA
*
1852382 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
* *
1852447 GATTCAAGGCAAGCTATATTGGACTTA
66 GATTCAAGGCCAGCGATATTGGACTTA
*
1852474 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACGTTGGACTTAAAGATGAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
*
1852539 GATTCAAGGCCAGCGATATTGGGCTTA
66 GATTCAAGGCCAGCGATATTGGACTTA
1852566 GAAGG
1 -AAGG
1852571 GTTGCCACCG
Statistics
Matches: 429, Mismatches: 35, Indels: 6
0.91 0.07 0.01
Matches are distributed among these distances:
92 303 0.71
93 79 0.18
95 40 0.09
96 7 0.02
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.25
Consensus pattern (92 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
GATTCAAGGCCAGCGATATTGGACTTA
Found at i:1852363 original size:21 final size:21
Alignment explanation
Indices: 1852339--1852406 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
1852329 CTTAAAAAGG
1852339 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATGCTGATTC
* ** *
1852360 AA-G-GCCAGCTATATTGGACTTA
1 AAGGTGCCA-ATATGCT-GA-TTC
*
1852382 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATATGCTGATTC
1852403 AAGG
1 AAGG
1852407 CCAGCTACAT
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 4 0.12
20 5 0.15
21 10 0.30
22 6 0.18
23 4 0.12
24 4 0.12
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (21 bp):
AAGGTGCCAATATGCTGATTC
Found at i:1852721 original size:34 final size:34
Alignment explanation
Indices: 1852606--1853193 Score: 405
Period size: 34 Copynumber: 17.8 Consensus size: 34
1852596 AAAAAGGGTG
* *
1852606 AAAGA-TGCCACGAAGTTGTGGACTTAAAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAA
* * *
1852639 CAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAG--
1 AAAGAGTGCCACGGAGTTGTGGAC-TTAAAAAGAA
* * *
1852671 -AAG-GTGCTACGGAGTTGTGGACTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAA
*
1852703 AAAGAGTGCCACGGAGTTGTGGGCTT-------A
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAA
* * * *
1852730 AACG-GTGCCACAGAGTTGTGGACTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAA
* *
1852763 AAAGAATGCCACGGAGTTGTGGGCTTTAAAAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGAC-TTAAAAA-GAA
** * *
1852799 AAAGAGTGCCACAAAGTTGTGGGCTTTGAAAAG--
1 AAAGAGTGCCACGGAGTTGTGGAC-TTAAAAAGAA
** *
1852832 -AAGA-TGCCACGGAGTCATAGACTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGAC-TTAAAAAGAA
*
1852865 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGAC-TTAAAAAGAA
1852899 AAAG-GTGCCACGGAGTTGTGGACTTAAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGACTT-AAAAAGAA
* *
1852933 AAAGGAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAAGAA
1 AAA-G---A-GTGCCACGGAGTTGTGGAC-TTAAAAAGAA
*
1852973 AAA-TGTGCCACGGAGTTGTGGACTTAAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGACTT-AAAAAGAA
* * **
1853007 AAA-AGTGCCATGGAGTTGTGGGCTTTGAAAG--
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAA
* * *
1853038 GAAG-GTGCCATGGAGTTGTGGACTTTAAAAAGGA
1 AAAGAGTGCCACGGAGTTGTGGAC-TTAAAAAGAA
1853072 AAAG-GTGCCACGGAGTTGT-GAGCTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGA-C-TTAAAAAGAA
* **
1853106 AAAG-GTGCCACGGAGTTGTGGGCTT-TGAAGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAA
* * **
1853138 AAA-A-TGCCACTGAGTCGTGGACTT-TGAAGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAA
* * *
1853169 AAGGA-TGCCACTGAGTCGTGGACTT
1 AAAGAGTGCCACGGAGTTGTGGACTT
1853194 TGAGAAGAGA
Statistics
Matches: 457, Mismatches: 61, Indels: 75
0.77 0.10 0.13
Matches are distributed among these distances:
26 19 0.04
27 4 0.01
30 5 0.01
31 86 0.19
32 39 0.09
33 38 0.08
34 197 0.43
35 8 0.02
36 31 0.07
40 28 0.06
41 2 0.00
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.21
Consensus pattern (34 bp):
AAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAA
Found at i:1852726 original size:65 final size:65
Alignment explanation
Indices: 1852605--1853194 Score: 406
Period size: 65 Copynumber: 8.9 Consensus size: 65
1852595 TAAAAAGGGT
* * * * * *
1852605 GAAAGATGCCACGAAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
1 GAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAA
* *
1852670 G-AAGGTGCTACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT----
1 GAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAG-GTGCCACGGAGTTGTGGACTTTAAAA
1852729 A
65 A
* * * *
1852730 -AACGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAATGCCACGGAGTTGTGGGCTTTAAAA
1 GAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAG-GTGCCACGGAGTTGTGGACTTTAAAA
1852794 A
65 A
** * * * * ** *
1852795 GGAAAAAGAGTGCCACAAAGTTGTGGGCTTTGAA--AAGAAGATGCCACGGAGTCATAGACTTTA
1 -G--AAAG-GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTA
1852858 AAAA
62 AAAA
* * *
1852862 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAA
1 G--AAAGGTGCCACGGAGTTGTGGAC-TTAGAAGGAAAAAGGTGCCACGGAGTTGTGGACTT---
*
1852927 AAAGAAAAA
60 ---TAAAAA
* * * * * *
1852936 GGAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAATGTGCCACGGAGTTGTGGACTTAAA
1 -G-AAAGGTGCCACGGAGTTGTGGAC-TTAGAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTAA
1853001 AAA
63 AAA
* * * * *
1853004 GAAAAAAGTGCCATGGAGTTGTGGGCTTTGAAAGG---AAGGTGCCATGGAGTTGTGGACTTTAA
1 G--AAAGGTGCCACGGAGTTGTGGACTTAG-AAGGAAAAAGGTGCCACGGAGTTGTGGACTTTAA
1853066 AAA
63 AAA
* * *
1853069 GGAAAAGGTGCCACGGAGTTGT-GAGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTG
1 -G-AAAGGTGCCACGGAGTTGTGGA-C-TTAGAAGGAAAAAGGTGCCACGGAGTTGTGGACTTT-
1853133 AAGAAA
61 AA-AAA
* * * * *
1853139 -AAA--TGCCACTGAGTCGTGGACTTTGAA-G-AAAAGGATGCCACTGAGTCGTGGACTTT
1 GAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGG-TGCCACGGAGTTGTGGACTTT
1853195 GAGAAGAGAT
Statistics
Matches: 436, Mismatches: 55, Indels: 70
0.78 0.10 0.12
Matches are distributed among these distances:
60 53 0.12
61 2 0.00
62 6 0.01
63 19 0.04
64 38 0.09
65 100 0.23
66 16 0.04
67 29 0.07
68 79 0.18
69 5 0.01
70 25 0.06
74 63 0.14
75 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.21
Consensus pattern (65 bp):
GAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAA
Found at i:1852757 original size:60 final size:61
Alignment explanation
Indices: 1852611--1852796 Score: 236
Period size: 60 Copynumber: 3.0 Consensus size: 61
1852601 GGGTGAAAGA
* *
1852611 TGCCACGAAGTTGTGGACTTAAAAGGAACAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
1 TGCCACG-AGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT--AAAGAAGG
* *
1852675 TGCTACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT-AA-ACGG
1 TGCCAC-GAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAGAAGG
*
1852735 TGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAATGCCACGGAGTTGTGGGCTTTAAA-AAGG
1 TGCCAC-GAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAGAAGG
1852797 AAAAAGAGTG
Statistics
Matches: 110, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
60 52 0.47
61 4 0.04
62 5 0.05
64 29 0.26
65 20 0.18
ACGTcount: A:0.31, C:0.13, G:0.34, T:0.21
Consensus pattern (61 bp):
TGCCACGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAGAAGG
Found at i:1853064 original size:99 final size:99
Alignment explanation
Indices: 1852640--1853193 Score: 499
Period size: 99 Copynumber: 5.6 Consensus size: 99
1852630 TAAAAGGAAC
* * * * *
1852640 AAGGTGCCACGGAGTTGTGGGCTTTGAAAAG---AAGGTGCTACGGAGTTGTGGACTT-AGAAGG
1 AAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAAAG
1852701 AAAAAGAGTGCCACGGAGTTGTGGGC-TT--AA--
66 AAAAA-AGTGCCACGGAGTTGTGGGCTTTGAAAGG
* * * * * *
1852731 ACGGTGCCACAGAGTTGTGGAC-TTAGAAGGAAAAAGAATGCCACGGAGTTGTGGGCTTTAAAAA
1 AAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGAC-TTAAAAA
* ** *
1852795 GGAAAAAGAGTGCCACAAAGTTGTGGGCTTTGAAAAG
64 AGAAAAA-AGTGCCACGGAGTTGTGGGCTTTGAAAGG
* ** * * *
1852832 AAGATGCCACGGAGTCATAGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAAAG
* * *
1852897 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAAGAAAAAGG
66 AAAAAAGTGCCACGGAGTTGTGGGCTT-----TG--AAAGG
* * *
1852938 AAAAGGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAATGTGCCACGGAGTTGTGGACTTAAAAA
1 --AAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAA
*
1853003 AGAAAAAAGTGCCATGGAGTTGTGGGCTTTGAAAGG
64 AGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAGG
* * *
1853039 AAGGTGCCATGGAGTTGTGGACTTTAAAAAGGAAAAGGTGCCACGGAGTTGT-GAGCTTTAAAAA
1 AAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGA-CTTAAAAAA
* *
1853103 GAAAAAGGTGCCACGGAGTTGTGGGCTTTG-AAGAA
65 GAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAG-G
** * * * * *
1853138 AAAATGCCACTGAGTCGTGGACTTT--GAAG-AAAAGGATGCCACTGAGTCGTGGACTT
1 AAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGG-TGCCACGGAGTTGTGGACTT
1853194 TGAGAAGAGA
Statistics
Matches: 379, Mismatches: 59, Indels: 44
0.79 0.12 0.09
Matches are distributed among these distances:
90 5 0.01
91 19 0.05
93 3 0.01
94 16 0.04
95 2 0.01
96 35 0.09
97 20 0.05
98 7 0.02
99 123 0.32
100 12 0.03
101 39 0.10
102 12 0.03
103 1 0.00
104 1 0.00
106 4 0.01
108 80 0.21
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.21
Consensus pattern (99 bp):
AAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAAAG
AAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAGG
Found at i:1853090 original size:207 final size:208
Alignment explanation
Indices: 1852733--1853126 Score: 596
Period size: 207 Copynumber: 1.9 Consensus size: 208
1852723 GGGCTTAAAC
* * * *
1852733 GGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAATGCCACGGAGTTGTGGGCTTTAAAAAGGA
1 GGTGCCACAGAGTTGTGGACTTAAAAAGAAAAAG-ATGCCACGGAGTTGTGGACTTTAAAAAAGA
1852798 AAAAGAGTGCCACAAAGTTGTGGGCTTTGAAAAGAAGATGCCACGGAGTCATAGACTTTAAAAAG
65 AAAAGAGTGCCACAAAGTTGTGGGCTTTGAAAAGAAGATGCCACGGAGTCATAGACTTTAAAAAG
*
1852863 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAA
130 AAAAAGGTGCCACGGAGTTGTGAGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAA
1852928 AAGAAAAAGGAAAA
195 AAGAAAAAGGAAAA
*
1852942 GGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAATG-TGCCACGGAGTTGTGGAC-TTAAAAAAG
1 GGTGCCACAGAGTTGTGGAC-TTAAAAAGAAAAA-GATGCCACGGAGTTGTGGACTTTAAAAAAG
*** * * * ** *
1853005 AAAAA-AGTGCCATGGAGTTGTGGGCTTTGAAAGGAAGGTGCCATGGAGTTGTGGACTTTAAAAA
64 AAAAAGAGTGCCACAAAGTTGTGGGCTTTGAAAAGAAGATGCCACGGAGTCATAGACTTTAAAAA
*
1853069 GGAAAAGGTGCCACGGAGTTGTGAGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGG
129 GAAAAAGGTGCCACGGAGTTGTGAGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGG
1853127 GCTTTGAAGA
Statistics
Matches: 167, Mismatches: 16, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
207 106 0.63
208 13 0.08
209 36 0.22
210 11 0.07
211 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.31, T:0.20
Consensus pattern (208 bp):
GGTGCCACAGAGTTGTGGACTTAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTTAAAAAAGAA
AAAGAGTGCCACAAAGTTGTGGGCTTTGAAAAGAAGATGCCACGGAGTCATAGACTTTAAAAAGA
AAAAGGTGCCACGGAGTTGTGAGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAA
AGAAAAAGGAAAA
Found at i:1853182 original size:32 final size:31
Alignment explanation
Indices: 1853105--1853225 Score: 154
Period size: 31 Copynumber: 3.9 Consensus size: 31
1853095 TTTAAAAAGA
* * * *
1853105 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
*
1853136 AAAAAATGCCACTGAGTCGTGGACTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
1853167 AAAAGGATGCCACTGAGTCGTGGACTTTG-AG
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAAG
* *
1853198 AAGAGATTGCCACTAAGTCGTGGACTTT
1 AAAAGA-TGCCACTGAGTCGTGGACTTT
1853226 AAAAAGGTAT
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
30 2 0.03
31 55 0.69
32 23 0.29
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.24
Consensus pattern (31 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAAG
Found at i:1853209 original size:63 final size:62
Alignment explanation
Indices: 1853105--1853225 Score: 163
Period size: 63 Copynumber: 1.9 Consensus size: 62
1853095 TTTAAAAAGA
* * *
1853105 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTGAAG
1 AAAAGGTGCCACGGAGTCGTGGACTTTGAAGAAAAAATGCCACTAAGTCGTGGACTTTGAAG
* * *
1853167 AAAAGGATGCCACTGAGTCGTGGACTTTG-AGAAGAGATTGCCACTAAGTCGTGGACTTT
1 AAAAGG-TGCCACGGAGTCGTGGACTTTGAAGAA-AAAATGCCACTAAGTCGTGGACTTT
1853226 AAAAAGGTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
62 10 0.20
63 41 0.80
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.24
Consensus pattern (62 bp):
AAAAGGTGCCACGGAGTCGTGGACTTTGAAGAAAAAATGCCACTAAGTCGTGGACTTTGAAG
Found at i:1854550 original size:12 final size:11
Alignment explanation
Indices: 1854533--1854585 Score: 58
Period size: 11 Copynumber: 5.0 Consensus size: 11
1854523 CTTTTTTCTG
1854533 TGTTTTATTTTT
1 TGTTTT-TTTTT
*
1854545 TG--TTTTGTT
1 TGTTTTTTTTT
1854554 TG-TTTTTTTT
1 TGTTTTTTTTT
*
1854564 TGTGTTTTTTT
1 TGTTTTTTTTT
1854575 TGTTTTTTTTT
1 TGTTTTTTTTT
1854586 CATCATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 6 0.17
10 10 0.29
11 17 0.49
12 2 0.06
ACGTcount: A:0.02, C:0.00, G:0.13, T:0.85
Consensus pattern (11 bp):
TGTTTTTTTTT
Found at i:1854557 original size:21 final size:21
Alignment explanation
Indices: 1854533--1854585 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
1854523 CTTTTTTCTG
1854533 TGTTTTATTTTT-TGTTTTGTT
1 TGTTTT-TTTTTGTGTTTTGTT
*
1854554 TGTTTTTTTTTGTGTTTTTTT
1 TGTTTTTTTTTGTGTTTTGTT
1854575 TGTTTTTTTTT
1 TGTTTTTTTTT
1854586 CATCATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 5 0.17
21 25 0.83
ACGTcount: A:0.02, C:0.00, G:0.13, T:0.85
Consensus pattern (21 bp):
TGTTTTTTTTTGTGTTTTGTT
Found at i:1854584 original size:9 final size:9
Alignment explanation
Indices: 1854540--1854584 Score: 54
Period size: 10 Copynumber: 4.7 Consensus size: 9
1854530 CTGTGTTTTA
1854540 TTTTTTGTT
1 TTTTTTGTT
*
1854549 TTGTTTGTTTT
1 TT-TTT-TGTT
1854560 TTTTTGTGTT
1 TTTTT-TGTT
1854570 TTTTTTGTT
1 TTTTTTGTT
1854579 TTTTTT
1 TTTTTT
1854585 TCATCATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 12 0.38
10 15 0.47
11 5 0.16
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:1861473 original size:20 final size:20
Alignment explanation
Indices: 1861448--1861500 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
1861438 TTTGCCTGCA
1861448 TGTATCGATACATTTCATAG
1 TGTATCGATACATTTCATAG
*
1861468 TGTATCGATAGATTTCATAG
1 TGTATCGATACATTTCATAG
1861488 TGTATCGATACAT
1 TGTATCGATACAT
1861501 CTGGGCAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTTCATAG
Found at i:1861617 original size:19 final size:19
Alignment explanation
Indices: 1861573--1861656 Score: 90
Period size: 19 Copynumber: 4.7 Consensus size: 19
1861563 TAGCTTATAT
* *
1861573 TGTATCAATACAAAACTTA
1 TGTATCGATACAACACTTA
1861592 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
1861611 TGTATCGAT---GCA--T-
1 TGTATCGATACAACACTTA
1861624 TGTATCGATACAACACTTTA
1 TGTATCGATACAACAC-TTA
1861644 TGTATCGATACAA
1 TGTATCGATACAA
1861657 ATTGTTGAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
13 9 0.17
14 1 0.02
16 4 0.07
19 27 0.50
20 13 0.24
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1863881 original size:131 final size:130
Alignment explanation
Indices: 1863761--1864038 Score: 328
Period size: 130 Copynumber: 2.1 Consensus size: 130
1863751 AAATAATGCT
* * *
1863761 GGGGTTAGAGTAT-CCTTGCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAGATT-AGT
1 GGGGTTAGAGTATCCCCT-CGAAAATAAAGGGGTTGGAGTATCCCCAATTATGAAAA-ATTGA-T
** * *
1863824 GTCTTAGAAATAAAATTGGGGTTGGAGTATCCCCGACTGTGAGAAATCAATATTTTAGAAAAAAA
63 GTCTTAGAAATAAAACCGGGGTTAGAGTATCCCCGACTGTGAAAAATCAATATTTTAGAAAAAAA
1863889 GTC
128 GTC
* ** *
1863892 GGGGTTGGAGTATCCCCTCGAAAATAAAGGGGTTGGAGTATCTTCAATTATGAAAAATTGATGTT
1 GGGGTTAGAGTATCCCCTCGAAAATAAAGGGGTTGGAGTATCCCCAATTATGAAAAATTGATGTC
* * *** *
1863957 TTGGAAATAAAACCGGGGTTAGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAA-T
66 TTAGAAATAAAACCGGGGTTAGAGTATCCCCGACTGTGAAAAATCAATATTTTAGAAA-AAAAGT
*
1864021 A
130 C
*
1864022 GGGGTTGGAGTATCCCC
1 GGGGTTAGAGTATCCCC
1864039 GATTATGAGA
Statistics
Matches: 126, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
130 72 0.57
131 51 0.40
132 3 0.02
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (130 bp):
GGGGTTAGAGTATCCCCTCGAAAATAAAGGGGTTGGAGTATCCCCAATTATGAAAAATTGATGTC
TTAGAAATAAAACCGGGGTTAGAGTATCCCCGACTGTGAAAAATCAATATTTTAGAAAAAAAGTC
Found at i:1863903 original size:51 final size:52
Alignment explanation
Indices: 1863788--1863908 Score: 147
Period size: 51 Copynumber: 2.3 Consensus size: 52
1863778 GCGAAAATAA
* * * *
1863788 CGGGGTTGGAGTATCCCCGATTATGAAAAGATTAGTGTCTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGACTATGAAAAGATCAATATCTTAGAAATAAAAT
* * * *
1863840 TGGGGTTGGAGTATCCCCGACTGTGAGAA-ATCAATATTTTAGAAA-AAAAGT
1 CGGGGTTGGAGTATCCCCGACTATGAAAAGATCAATATCTTAGAAATAAAA-T
1863891 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
1863909 TCGAAAATAA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 4 0.07
51 30 0.51
52 25 0.42
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.27
Consensus pattern (52 bp):
CGGGGTTGGAGTATCCCCGACTATGAAAAGATCAATATCTTAGAAATAAAAT
Found at i:1863997 original size:51 final size:51
Alignment explanation
Indices: 1863920--1864246 Score: 257
Period size: 51 Copynumber: 6.3 Consensus size: 51
1863910 CGAAAATAAA
** * * * *
1863920 GGGGTTGGAGTATCTTCAATTATGAAAAATTGATGTTTTGGAAATAAAACC
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATC
* * *
1863971 GGGGTTAGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATA
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATC
* * ** * *
1864022 GGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGTC
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATC
* * ** ** ** **
1864073 GGGGGTGGAGTATCCCC---T-CGAAAATAACGGGGTTGGAGTATCCTCGATAAATGAC
1 GGGGTTGGAGTATCCCCGATTGTGAAAA-ATTGATGTTTTAG-A-AAT--A-AAAT--C
* * *
1864128 AGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATC
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATC
* * * *
1864179 GGAGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAACC
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATC
*
1864230 GAGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
1864247 TCGAAAATGA
Statistics
Matches: 215, Mismatches: 49, Indels: 24
0.75 0.17 0.08
Matches are distributed among these distances:
47 4 0.02
48 7 0.03
49 1 0.00
50 1 0.00
51 162 0.75
52 1 0.00
53 7 0.03
54 1 0.00
55 16 0.07
56 1 0.00
57 1 0.00
58 8 0.04
59 5 0.02
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATC
Found at i:1864027 original size:130 final size:131
Alignment explanation
Indices: 1863715--1864038 Score: 361
Period size: 131 Copynumber: 2.5 Consensus size: 131
1863705 ACAACGGTGC
** * * ** * *
1863715 TAGAGTATCCTTGATTGTGGAAAATCGATGCTTTAGAAATAATGCTGGGGTTAGAGTAT-CCTTG
1 TAGAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAA-AATGGGGTTGGAGTATCCCCTG
* * **
1863779 CGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAGATTAGTGTCTTAGAAATAAAATTGGG
65 CGAAAATAAAGGGGTTGGAGTATCCCCAATTATGAAAAGATTAGTGTCTTAGAAATAAAACCGGG
1863844 GT
130 GT
* * * * *
1863846 TGGAGTATCCCCGACTGTGAGAAATCAATATTTTAGAAA-AAAAGTCGGGGTTGGAGTATCCCCT
1 TAGAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAA-T-GGGGTTGGAGTATCCCCT
** * *
1863910 -CGAAAATAAAGGGGTTGGAGTATCTTCAATTATGAAAA-ATT-GATGTTTTGGAAATAAAACCG
64 GCGAAAATAAAGGGGTTGGAGTATCCCCAATTATGAAAAGATTAG-TGTCTTAGAAATAAAACCG
1863972 GGGT
128 GGGT
* *
1863976 TAGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATAGGGGTTGGAGTATCCCC
1 TAGAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAAT-GGGGTTGGAGTATCCCC
1864039 GATTATGAGA
Statistics
Matches: 159, Mismatches: 29, Indels: 11
0.80 0.15 0.06
Matches are distributed among these distances:
129 1 0.01
130 75 0.47
131 80 0.50
132 3 0.02
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (131 bp):
TAGAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAATGGGGTTGGAGTATCCCCTGC
GAAAATAAAGGGGTTGGAGTATCCCCAATTATGAAAAGATTAGTGTCTTAGAAATAAAACCGGGG
T
Found at i:1864050 original size:181 final size:182
Alignment explanation
Indices: 1863788--1864114 Score: 557
Period size: 181 Copynumber: 1.8 Consensus size: 182
1863778 GCGAAAATAA
* *
1863788 CGGGGTTGGAGTATCCCCGATTATGAAAAGATTAGTGTCTTAGAAATAAAATTGGGGTTGGAGTA
1 CGGGGTTAGAGTATCCCCGATTATGAAAAGATTAGTGTCTTAGAAATAAAATAGGGGTTGGAGTA
* *
1863853 TCCCCGACTGTGAGAAATCAATATTTTAGAAAAAAAGTCGGGGTTGGAGTATCCCCTCGAAAATA
66 TCCCCGACTATGAGAAATCAATATTTTAGAAAAAAAGTCGGGGGTGGAGTATCCCCTCGAAAATA
1863918 AAGGGGTTGGAGTATCTTCAATTATGAAAAATTGATGTTTTGGAAATAAAAC
131 AAGGGGTTGGAGTATCTTCAATTATGAAAAATTGATGTTTTGGAAATAAAAC
* * *
1863970 CGGGGTTAGAGTATCCCCGATTGTGAAAA-ATTGGTGTTTTAGAAATAAAATAGGGGTTGGAGTA
1 CGGGGTTAGAGTATCCCCGATTATGAAAAGATTAGTGTCTTAGAAATAAAATAGGGGTTGGAGTA
* *
1864034 TCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGTCGGGGGTGGAGTATCCCCTCGAAAATA
66 TCCCCGACTATGAGAAATCAATATTTTAGAAAAAAAGTCGGGGGTGGAGTATCCCCTCGAAAATA
*
1864099 ACGGGGTTGGAGTATC
131 AAGGGGTTGGAGTATC
1864115 CTCGATAAAT
Statistics
Matches: 135, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
181 108 0.80
182 27 0.20
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (182 bp):
CGGGGTTAGAGTATCCCCGATTATGAAAAGATTAGTGTCTTAGAAATAAAATAGGGGTTGGAGTA
TCCCCGACTATGAGAAATCAATATTTTAGAAAAAAAGTCGGGGGTGGAGTATCCCCTCGAAAATA
AAGGGGTTGGAGTATCTTCAATTATGAAAAATTGATGTTTTGGAAATAAAAC
Found at i:1864109 original size:28 final size:29
Alignment explanation
Indices: 1864072--1864144 Score: 98
Period size: 27 Copynumber: 2.6 Consensus size: 29
1864062 GAAATAAAGT
*
1864072 CGGGGGTGGAGTATCCCCTCGA-AAATAA
1 CGGGGTTGGAGTATCCCCTCGATAAATAA
*
1864100 CGGGGTTGGAGTAT--CCTCGATAAATGA
1 CGGGGTTGGAGTATCCCCTCGATAAATAA
*
1864127 CAGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
1864145 GATTGTGAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
26 6 0.15
27 18 0.46
28 13 0.33
29 2 0.05
ACGTcount: A:0.25, C:0.21, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGGGTTGGAGTATCCCCTCGATAAATAA
Found at i:1864260 original size:157 final size:157
Alignment explanation
Indices: 1863972--1864272 Score: 476
Period size: 157 Copynumber: 1.9 Consensus size: 157
1863962 AATAAAACCG
*
1863972 GGGTTAGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATAGGGGTTGGAGTATCC
1 GGGTTAGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATAGGAGTTGGAGTATCC
* ** *
1864037 CCGATTATGAGAAATCAATATTTTAGAAATAAAGTCGGGGGTGGAGTATCCCCTCGAAAATAACG
66 CCGATTATGAAAAATCAATATTTTAGAAATAAAACCGAGGGTGGAGTATCCCCTCGAAAATAACG
1864102 GGGTTGGAGTATCCTCGATAAATGACA
131 GGGTTGGAGTATCCTCGATAAATGACA
* * *
1864129 GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCC
1 GGGTTAGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATAGGAGTTGGAGTATCC
* *** * *
1864194 CCGATTGTGAAAAATTGGTATTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAATGACG
66 CCGATTATGAAAAATCAATATTTTAGAAATAAAACCGAGGGTGGAGTATCCCCTCGAAAATAACG
1864259 GGGTTGGAGTATCC
131 GGGTTGGAGTATCC
1864273 CCAATTATGA
Statistics
Matches: 130, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
157 130 1.00
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.28
Consensus pattern (157 bp):
GGGTTAGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATAGGAGTTGGAGTATCC
CCGATTATGAAAAATCAATATTTTAGAAATAAAACCGAGGGTGGAGTATCCCCTCGAAAATAACG
GGGTTGGAGTATCCTCGATAAATGACA
Found at i:1864317 original size:79 final size:78
Alignment explanation
Indices: 1864182--1864403 Score: 311
Period size: 78 Copynumber: 2.8 Consensus size: 78
1864172 TAAAATCGGA
* *
1864182 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAACCG-GGTTGGAGTATCCCC
*
1864247 TCGAAAATGACGGG
65 TCGAAAATAACGGG
* * * *
1864261 GTTGGAGTATCCCCAATTATGAAAAATTGGTGTTTTGGGAATAAAATCGGGATTGGAGTAT-CCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAACCGGG-TTGGAGTATCCCC
1864325 TCGAAAATAACGGG
65 TCGAAAATAACGGG
* * * *
1864339 ATTAGAGTATCCCCGATTATGAAAAATTGATATTTTGGAAATAAAACCGGGGTTGAAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAACC-GGGTTGGAGTATCCCC
1864404 GAGATGAAAA
Statistics
Matches: 125, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
78 67 0.54
79 58 0.46
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (78 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAACCGGGTTGGAGTATCCCCT
CGAAAATAACGGG
Found at i:1866647 original size:33 final size:33
Alignment explanation
Indices: 1866605--1866672 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
1866595 GTAAACCAAG
* * *
1866605 AATGTATCGATACAAAGAATAATGTGTTGATAC
1 AATGTATCGATACAAAGAACAATGTATCGATAC
*
1866638 AATGTATCGATACAATGAACAATGTATCGATAC
1 AATGTATCGATACAAAGAACAATGTATCGATAC
1866671 AA
1 AA
1866673 ATTGTAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (33 bp):
AATGTATCGATACAAAGAACAATGTATCGATAC
Found at i:1868455 original size:4 final size:4
Alignment explanation
Indices: 1868446--1868480 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
1868436 TTTTGAGGTG
*
1868446 TTTA TTTA TTTA TTTA TTCA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1868481 TGTTTTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:1874171 original size:15 final size:16
Alignment explanation
Indices: 1874125--1874172 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
1874115 GGAAGAAAAT
*
1874125 AAATCAAAATGTGTTGA
1 AAATGAAAAT-TGTTGA
*
1874142 AAATG-AAATTCTTGA
1 AAATGAAAATTGTTGA
1874157 AAA-GAAAATTGTTGA
1 AAATGAAAATTGTTGA
1874172 A
1 A
1874173 CTAGAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 1 0.04
15 18 0.67
16 4 0.15
17 4 0.15
ACGTcount: A:0.50, C:0.04, G:0.17, T:0.29
Consensus pattern (16 bp):
AAATGAAAATTGTTGA
Found at i:1878910 original size:13 final size:13
Alignment explanation
Indices: 1878892--1878927 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1878882 TGTTCTTTGC
1878892 ATCGATACATTGT
1 ATCGATACATTGT
*
1878905 ATCGATACAATGT
1 ATCGATACATTGT
*
1878918 ATCCATACAT
1 ATCGATACAT
1878928 GGGTTACTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.33
Consensus pattern (13 bp):
ATCGATACATTGT
Found at i:1879051 original size:21 final size:20
Alignment explanation
Indices: 1879026--1879064 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
1879016 GATTCATTCA
*
1879026 TCAAATTTCTTCAAATTTTTT
1 TCAAATTTCATC-AATTTTTT
1879047 TCAAATTTCATCAATTTT
1 TCAAATTTCATCAATTTT
1879065 ACATCAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (20 bp):
TCAAATTTCATCAATTTTTT
Found at i:1879071 original size:21 final size:21
Alignment explanation
Indices: 1879022--1879072 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
1879012 TAACGATTCA
*
1879022 TTCATCAAATTTCTTCAAATT
1 TTCATCAAATTTCATCAAATT
**
1879043 TTTTTCAAATTTCATC-AATT
1 TTCATCAAATTTCATCAAATT
1879063 TTACATCAAA
1 TT-CATCAAA
1879073 ACATTTCATT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.35, C:0.18, G:0.00, T:0.47
Consensus pattern (21 bp):
TTCATCAAATTTCATCAAATT
Found at i:1882018 original size:13 final size:13
Alignment explanation
Indices: 1882000--1882024 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1881990 TTCAACAATT
1882000 TGTATCGATACAA
1 TGTATCGATACAA
1882013 TGTATCGATACA
1 TGTATCGATACA
1882025 TGCAGGCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1889235 original size:20 final size:20
Alignment explanation
Indices: 1889206--1889247 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1889196 GTTCTTTTCC
* *
1889206 AAACACAAAAAAAAAGAGAA
1 AAACAAAAAAAAAAACAGAA
*
1889226 AAACAAAAAACAAAACAGAA
1 AAACAAAAAAAAAAACAGAA
1889246 AA
1 AA
1889248 TCTCGATGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.81, C:0.12, G:0.07, T:0.00
Consensus pattern (20 bp):
AAACAAAAAAAAAAACAGAA
Found at i:1890432 original size:32 final size:31
Alignment explanation
Indices: 1890267--1890454 Score: 225
Period size: 31 Copynumber: 5.9 Consensus size: 31
1890257 TCTCTTTTCT
*
1890267 AAGTCCACGACTTAGTGGCATCTTTTCTTCA
1 AAGTCCACGACTCAGTGGCATCTTTTCTTCA
*
1890298 AAGTCCACGACTTAGTGGCATCTTTTCTTCA
1 AAGTCCACGACTCAGTGGCATCTTTTCTTCA
*
1890329 AAGTCCACGACTCAGTGGCATCTTTTCTTCC
1 AAGTCCACGACTCAGTGGCATCTTTTCTTCA
* *
1890360 AAGTCCACGACTCGGTGGCGTCTTTT-TTCCCCA
1 AAGTCCACGACTCAGTGGCATCTTTTCTT---CA
* * * *
1890393 ACGTCCACGACACAATGGCATTTTTTTCTTCA
1 AAGTCCACGACTCAGTGGCA-TCTTTTCTTCA
* *
1890425 AATTCCACGACTCAGTGGCACCATTTTCTT
1 AAGTCCACGACTCAGTGGCATC-TTTTCTT
1890455 TTTAAAGCCT
Statistics
Matches: 134, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.01
31 84 0.63
32 25 0.19
33 16 0.12
34 5 0.04
35 2 0.01
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (31 bp):
AAGTCCACGACTCAGTGGCATCTTTTCTTCA
Found at i:1890479 original size:34 final size:34
Alignment explanation
Indices: 1890429--1890554 Score: 103
Period size: 35 Copynumber: 3.7 Consensus size: 34
1890419 TCTTCAAATT
* *
1890429 CCACGACTCAGTGGCAC-CATTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACGC-TTTTCTTTTTAAAGC
*
1890463 CTACAACTCCGTGGCACTGCTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCAC-GCTTTTCTTTTTAAAGC
* * ** * *
1890498 CCATAACTTCGTGGCACTTTTTTTCCTTTT-AAGT
1 CCACAACTCCGTGGCAC-GCTTTTCTTTTTAAAGC
* * *
1890532 CCATAACTCTGTGGCACCCTTTT
1 CCACAACTCCGTGGCACGCTTTT
1890555 AAGTCCACAA
Statistics
Matches: 76, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
33 4 0.05
34 32 0.42
35 39 0.51
36 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.13, T:0.38
Consensus pattern (34 bp):
CCACAACTCCGTGGCACGCTTTTCTTTTTAAAGC
Found at i:1890489 original size:35 final size:35
Alignment explanation
Indices: 1890448--1890548 Score: 114
Period size: 35 Copynumber: 2.9 Consensus size: 35
1890438 AGTGGCACCA
*
1890448 TTTTCTTTTTAAAGCCTACAACTCCGTGGCACTGC
1 TTTTCTTTTTAAAGCCCACAACTCCGTGGCACTGC
* * **
1890483 TTTTCTTTTTAAAGCCCATAACTTCGTGGCACTTT
1 TTTTCTTTTTAAAGCCCACAACTCCGTGGCACTGC
* * * *
1890518 TTTTCCTTTT-AAGTCCATAACTCTGTGGCAC
1 TTTTCTTTTTAAAGCCCACAACTCCGTGGCAC
1890549 CCTTTTAAGT
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
34 18 0.32
35 39 0.68
ACGTcount: A:0.20, C:0.26, G:0.13, T:0.42
Consensus pattern (35 bp):
TTTTCTTTTTAAAGCCCACAACTCCGTGGCACTGC
Found at i:1890573 original size:27 final size:27
Alignment explanation
Indices: 1890522--1890574 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
1890512 CACTTTTTTT
* **
1890522 CCTTTTAAGTCCATAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCCATGGCAC
1890549 CCTTTTAAGTCCACAACTCCATGGCA
1 CCTTTTAAGTCCACAACTCCATGGCA
1890575 TCTTCTCCTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.30
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCATGGCAC
Found at i:1890778 original size:21 final size:21
Alignment explanation
Indices: 1890711--1890821 Score: 63
Period size: 21 Copynumber: 5.2 Consensus size: 21
1890701 ATGTCGTTGG
1890711 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* * *
1890732 CCTTTAAGTC--CA-ATATCGCTGG
1 CCTTGAA-TCAGCACAT-TGGC--A
1890754 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* *
1890775 CCTTTAAGTC--CA-ATATCGCTA
1 CCTTGAA-TCAGCACAT-TGGC-A
1890796 GCCTTGAATCAGCACATTGGCA
1 -CCTTGAATCAGCACATTGGCA
1890818 CCTT
1 CCTT
1890822 TAAGTCCAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 28
0.63 0.10 0.27
Matches are distributed among these distances:
19 4 0.06
20 10 0.15
21 21 0.32
22 17 0.26
23 10 0.15
24 4 0.06
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (21 bp):
CCTTGAATCAGCACATTGGCA
Found at i:1890822 original size:86 final size:88
Alignment explanation
Indices: 1890645--1890950 Score: 454
Period size: 86 Copynumber: 3.4 Consensus size: 88
1890635 CGTCTTCTTC
* * *
1890645 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCATCTCTTTAAGACCAATGTCGTTG
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C--CTCTTTAAGACCAATATCGCTG
1890710 GCCTTGAATCAGCACATTGGCACCTT
63 GCCTTGAATCAGCACATTGGCACCTT
* * *
1890736 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-C-CTTTAAGTCCAATATCGCTAGCC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCTTTAAGACCAATATCGCTGGCC
1890799 TTGAATCAGCACATTGGCACCTT
66 TTGAATCAGCACATTGGCACCTT
*
1890822 TAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCCTTGTCTTTAAGACCAATATCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CC---TCTTTAAGACCAATATCGCT
*
1890887 GGCCTTGAATCAGCACATTGGCGCCTT
62 GGCCTTGAATCAGCACATTGGCACCTT
*
1890914 TAAGTCAAATATCGCTGGCCTTGAATCAGCATATTGG
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
1890951 TGCCTTTATC
Statistics
Matches: 196, Mismatches: 13, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
86 79 0.40
87 1 0.01
88 1 0.01
91 37 0.19
92 78 0.40
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (88 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCTTTAAGACCAATATCGCTGGCC
TTGAATCAGCACATTGGCACCTT
Found at i:1890905 original size:135 final size:132
Alignment explanation
Indices: 1890645--1890950 Score: 420
Period size: 135 Copynumber: 2.3 Consensus size: 132
1890635 CGTCTTCTTC
* * *
1890645 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCATCTCTTTAAGACCAATGTCGTTG
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CCATCTCTTTAAGACCAATATCGCTG
* *
1890710 GCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
64 GCCTTGAATCAACACATTGGCACCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
1890775 CCTT
129 CCTT
* * *
1890779 TAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGG-CA-C-CTTTAAGTCCAATATCGCTGGC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCCATCTCTTTAAGACCAATATCGCTGGC
*
1890841 CTTGAATCAACATATTGGCACCCTTGTCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATT
66 CTTGAATCAACACATTGGCA--C----CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATT
*
1890906 GGCGCCTT
125 GGCACCTT
*
1890914 TAAGTCAAATATCGCTGGCCTTGAATCAGCATATTGG
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
1890951 TGCCTTTATC
Statistics
Matches: 153, Mismatches: 13, Indels: 11
0.86 0.07 0.06
Matches are distributed among these distances:
129 37 0.24
130 1 0.01
131 3 0.02
134 34 0.22
135 78 0.51
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (132 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCCATCTCTTTAAGACCAATATCGCTGGC
CTTGAATCAACACATTGGCACCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACC
TT
Found at i:1890947 original size:22 final size:22
Alignment explanation
Indices: 1890879--1890947 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
1890869 TTTAAGACCA
1890879 ATATCGCTGGCCTTGAATCAGC
1 ATATCGCTGGCCTTGAATCAGC
* * * *
1890901 ACATTG--GCGCCTTTAAGTCA-A
1 ATATCGCTG-GCCTTGAA-TCAGC
1890922 ATATCGCTGGCCTTGAATCAGC
1 ATATCGCTGGCCTTGAATCAGC
1890944 ATAT
1 ATAT
1890948 TGGTGCCTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
20 1 0.03
21 14 0.41
22 18 0.53
23 1 0.03
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (22 bp):
ATATCGCTGGCCTTGAATCAGC
Found at i:1890958 original size:43 final size:43
Alignment explanation
Indices: 1890645--1890950 Score: 405
Period size: 43 Copynumber: 6.9 Consensus size: 43
1890635 CGTCTTCTTC
* *
1890645 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCATCTCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGG---CA-C-CTT
* * *
1890693 TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
1890736 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
*
1890779 TAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
* *
1890822 TAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCCTTGTCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA--C----CTT
* *
1890871 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCGCCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
* *
1890914 TAAGTCAAATATCGCTGGCCTTGAATCAGCATATTGG
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGG
1890951 TGCCTTTATC
Statistics
Matches: 235, Mismatches: 17, Indels: 17
0.87 0.06 0.06
Matches are distributed among these distances:
43 158 0.67
44 1 0.00
45 3 0.01
47 1 0.00
48 34 0.14
49 38 0.16
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (43 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
Found at i:1890995 original size:61 final size:55
Alignment explanation
Indices: 1890915--1891078 Score: 160
Period size: 61 Copynumber: 2.9 Consensus size: 55
1890905 TGGCGCCTTT
1890915 AAGTCAAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTATCATCTTTAAGTCCAGC
1 AAGTC-AAT-TCGCTGGCCTTGAATCAGCATATTGGTGCCTTT-TCATCTTTAAGT---GC
* ** *
1890976 AAGTCCAATGTCGCTGGCCTTGAATTAGCATATTGGCACC--TTCATCTTTAAGTTC
1 AAGT-CAAT-TCGCTGGCCTTGAATCAGCATATTGGTGCCTTTTCATCTTTAAGTGC
*
1891031 -AGT--A-TCGCTGGCCTTGAATCAGCATATTGGTGCCTTCGTCATCTTTAA
1 AAGTCAATTCGCTGGCCTTGAATCAGCATATTGGTGCCTT-TTCATCTTTAA
1891079 AACCTAATGC
Statistics
Matches: 90, Mismatches: 9, Indels: 17
0.78 0.08 0.15
Matches are distributed among these distances:
49 27 0.30
51 1 0.01
52 10 0.11
54 3 0.03
55 1 0.01
58 12 0.13
59 1 0.01
61 34 0.38
62 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (55 bp):
AAGTCAATTCGCTGGCCTTGAATCAGCATATTGGTGCCTTTTCATCTTTAAGTGC
Found at i:1891126 original size:53 final size:52
Alignment explanation
Indices: 1891039--1891212 Score: 145
Period size: 53 Copynumber: 3.2 Consensus size: 52
1891029 TCAGTATCGC
* * * *
1891039 TGGCCTTGAATCAGCATATTGG--TGCCTTCGTCATCTTTAAAACCTAATGCCGT
1 TGGCCGTGAATCAGCACATTGGCAT-TCTTC-TCATCTTT-AAACCTAATGTCGT
* * ** *
1891092 TGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAAATGTCGC
1 TGGCCGTGAATCAGCACATTGGCATTCTTCTCATCTTTAAACCT-AATGTCGT
* * * * *
1891145 TGACCGTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGT
1 TGGCCGTGAATCAGCACATTGGCA---TTCTTCTCATCTTTAAACCTAATGTCGT
1891200 TGGCCGTGAATCA
1 TGGCCGTGAATCA
1891213 ACGTATTGGT
Statistics
Matches: 97, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
52 4 0.04
53 55 0.57
54 4 0.04
55 19 0.20
56 15 0.15
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (52 bp):
TGGCCGTGAATCAGCACATTGGCATTCTTCTCATCTTTAAACCTAATGTCGT
Found at i:1891874 original size:13 final size:13
Alignment explanation
Indices: 1891856--1891880 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1891846 AATAAGTAAC
1891856 TGTATCGATACAA
1 TGTATCGATACAA
1891869 TGTATCGATACA
1 TGTATCGATACA
1891881 TAAGGGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1891970 original size:13 final size:13
Alignment explanation
Indices: 1891952--1891978 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1891942 ATTACTCAAA
1891952 TGTATCGATACAT
1 TGTATCGATACAT
1891965 TGTATCGATACAT
1 TGTATCGATACAT
1891978 T
1 T
1891979 AATCTTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1891974 original size:34 final size:33
Alignment explanation
Indices: 1891931--1891997 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
1891921 ACCAAAGAAA
*
1891931 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTAATC-AATGTATCGATACAT
**
1891965 TGTATCGATACATTAATCTTTGTATCGATACAT
1 TGTATCGATACATTAATCAATGTATCGATACAT
1891998 GCAGGCAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 13 0.43
34 17 0.57
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTAATCAATGTATCGATACAT
Found at i:1894112 original size:27 final size:27
Alignment explanation
Indices: 1894078--1894150 Score: 128
Period size: 27 Copynumber: 2.7 Consensus size: 27
1894068 TTATTCATTA
1894078 GGGACACTTCAACCCCATTCTTCCGAG
1 GGGACACTTCAACCCCATTCTTCCGAG
1894105 GGGACACTTCAACCCCATTCTTCCGAG
1 GGGACACTTCAACCCCATTCTTCCGAG
* *
1894132 GGGACACTCCAACCTCATT
1 GGGACACTTCAACCCCATT
1894151 TTCAATCAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.22
Consensus pattern (27 bp):
GGGACACTTCAACCCCATTCTTCCGAG
Found at i:1905007 original size:20 final size:21
Alignment explanation
Indices: 1904982--1905038 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 21
1904972 GTAAAAACAC
1904982 AGAATGTATCGATACATT-AA
1 AGAATGTATCGATACATTCAA
*
1905002 AGAATGTATCGATACATTCAT
1 AGAATGTATCGATACATTCAA
*
1905023 A-CATGTATCGATACAT
1 AGAATGTATCGATACAT
1905039 CTAGGTACTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 32 0.94
21 2 0.06
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (21 bp):
AGAATGTATCGATACATTCAA
Found at i:1908910 original size:13 final size:13
Alignment explanation
Indices: 1908892--1908917 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1908882 TACAGCAAGT
1908892 ATGTATCGATACA
1 ATGTATCGATACA
1908905 ATGTATCGATACA
1 ATGTATCGATACA
1908918 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1909517 original size:34 final size:35
Alignment explanation
Indices: 1909479--1909545 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1909469 CCTTACAACA
1909479 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1909513 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1909546 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1910021 original size:13 final size:13
Alignment explanation
Indices: 1910003--1910028 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1909993 CAATTTTTTG
1910003 TGTATCGATACAT
1 TGTATCGATACAT
1910016 TGTATCGATACAT
1 TGTATCGATACAT
1910029 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1910040 original size:32 final size:33
Alignment explanation
Indices: 1909983--1910046 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1909973 TATAAGCCAA
**
1909983 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
1910016 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
1910047 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:1911831 original size:13 final size:13
Alignment explanation
Indices: 1911813--1911837 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1911803 ACTGAAGCAA
1911813 TGTATCGATACAT
1 TGTATCGATACAT
1911826 TGTATCGATACA
1 TGTATCGATACA
1911838 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1912467 original size:23 final size:24
Alignment explanation
Indices: 1912422--1912468 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
1912412 CAAAGAATTG
*
1912422 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
1912446 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
1912469 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Done.