Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008511.1 Hibiscus syriacus cultivar Beakdansim tig00111366_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2221980
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 8 of 9
Found at i:1687029 original size:10 final size:11
Alignment explanation
Indices: 1687004--1687045 Score: 54
Period size: 10 Copynumber: 4.0 Consensus size: 11
1686994 TACCTTAAAA
1687004 AGAGAATATTTG
1 AGAGAA-ATTTG
1687016 AGAGAAATTT-
1 AGAGAAATTTG
1687026 AGAG-AATTTG
1 AGAGAAATTTG
1687036 AGAG-AATTTG
1 AGAGAAATTTG
1687046 GTGTGATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 5 0.17
10 14 0.48
11 4 0.14
12 6 0.21
ACGTcount: A:0.43, C:0.00, G:0.26, T:0.31
Consensus pattern (11 bp):
AGAGAAATTTG
Found at i:1687290 original size:50 final size:48
Alignment explanation
Indices: 1687182--1687291 Score: 123
Period size: 50 Copynumber: 2.2 Consensus size: 48
1687172 CGTGAATCAG
* * *
1687182 GGGGCGCGCTATACCCACATGGCGCCAGATCACCGCATATCGCGGGGCA
1 GGGGCGCGCTATACCCACATGGCCCCAAATCA-CGCATATCACGGGGCA
* *
1687231 GGGATCGCGCTATACCCACATGGCCCCAAATCA-GCATATAGCACGGTGCAA
1 GGG-GCGCGCTATACCCACATGGCCCCAAATCACGCATAT--CACGGGGC-A
1687282 GGGGCGCGCT
1 GGGGCGCGCT
1687292 TTCCTGCTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
48 6 0.12
49 3 0.06
50 38 0.75
51 4 0.08
ACGTcount: A:0.23, C:0.33, G:0.31, T:0.14
Consensus pattern (48 bp):
GGGGCGCGCTATACCCACATGGCCCCAAATCACGCATATCACGGGGCA
Found at i:1687929 original size:34 final size:34
Alignment explanation
Indices: 1687871--1687942 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
1687861 ATCATGTTCG
1687871 AAAAACTTTAAAAACTTTATTTAAAAAATAACTTT
1 AAAAACTTTAAAAACTTTATTTAAAAAATAAC-TT
*
1687906 AAAAATTTTAAAAA-TTTATTTAAAAAATAACTT
1 AAAAACTTTAAAAACTTTATTTAAAAAATAACTT
1687939 AAAA
1 AAAA
1687943 TATTATTATA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 6 0.17
34 17 0.47
35 13 0.36
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (34 bp):
AAAAACTTTAAAAACTTTATTTAAAAAATAACTT
Found at i:1688336 original size:15 final size:15
Alignment explanation
Indices: 1688303--1688365 Score: 64
Period size: 14 Copynumber: 4.5 Consensus size: 15
1688293 TTAATTTGGA
1688303 AAAATTA-AATTTTT
1 AAAATTATAATTTTT
1688317 AAAATTATAATTTTT
1 AAAATTATAATTTTT
*
1688332 AAAATT-T--TATTT
1 AAAATTATAATTTTT
* *
1688344 AAAA-TAAAATTTTA
1 AAAATTATAATTTTT
1688358 AAAATTAT
1 AAAATTAT
1688366 TAAGACATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
11 1 0.03
12 8 0.21
14 15 0.38
15 15 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AAAATTATAATTTTT
Found at i:1688365 original size:24 final size:26
Alignment explanation
Indices: 1688309--1688366 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
1688299 TGGAAAAATT
*
1688309 AAATT-TTTAAAATTATAATTTTTAA
1 AAATTATTTAAAATTATAAATTTTAA
*
1688334 AATTTTATTTAAAA-TA-AAATTTTAA
1 AA-ATTATTTAAAATTATAAATTTTAA
1688359 AAATTATT
1 AAATTATT
1688367 AAGACATAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 5 0.18
25 12 0.43
26 4 0.14
27 7 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
AAATTATTTAAAATTATAAATTTTAA
Found at i:1690340 original size:26 final size:26
Alignment explanation
Indices: 1690306--1690404 Score: 101
Period size: 26 Copynumber: 3.7 Consensus size: 26
1690296 AATAGAAAAT
*
1690306 TAAAATTATATTATTTTGACATTTAA
1 TAAATTTATATTATTTTGACATTTAA
1690332 TAAATTTATATTATTTTGACATTTAA
1 TAAATTTATATTATTTTGACATTTAA
* * *
1690358 CTAAGTAATATTATTATTTT-ATAATTTAA
1 -TAAAT-TTA-TATTATTTTGA-CATTTAA
*
1690387 TATATTTATATATATTTT
1 TAAATTTATAT-TATTTT
1690405 AGATTTATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
26 28 0.46
27 12 0.20
28 6 0.10
29 15 0.25
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (26 bp):
TAAATTTATATTATTTTGACATTTAA
Found at i:1691291 original size:22 final size:22
Alignment explanation
Indices: 1691266--1691339 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
1691256 CTCTTTTCTT
1691266 TAATATATTGAATTATATTTAA
1 TAATATATTGAATTATATTTAA
* * * ** *
1691288 TAATTTATCTAAAATAATAAGATACT
1 TAATATAT-T-GAATTAT-ATTTA-A
1691314 TAATATATTGAATTATATTTAA
1 TAATATATTGAATTATATTTAA
1691336 TAAT
1 TAAT
1691340 TTATCTAAAA
Statistics
Matches: 36, Mismatches: 12, Indels: 8
0.64 0.21 0.14
Matches are distributed among these distances:
22 11 0.31
23 4 0.11
24 10 0.28
25 4 0.11
26 7 0.19
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (22 bp):
TAATATATTGAATTATATTTAA
Found at i:1691320 original size:48 final size:48
Alignment explanation
Indices: 1691265--1691356 Score: 184
Period size: 48 Copynumber: 1.9 Consensus size: 48
1691255 TCTCTTTTCT
1691265 TTAATATATTGAATTATATTTAATAATTTATCTAAAATAATAAGATAC
1 TTAATATATTGAATTATATTTAATAATTTATCTAAAATAATAAGATAC
1691313 TTAATATATTGAATTATATTTAATAATTTATCTAAAATAATAAG
1 TTAATATATTGAATTATATTTAATAATTTATCTAAAATAATAAG
1691357 GTACACTTGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (48 bp):
TTAATATATTGAATTATATTTAATAATTTATCTAAAATAATAAGATAC
Found at i:1693737 original size:21 final size:21
Alignment explanation
Indices: 1693713--1693754 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1693703 TTTTTTATTT
1693713 AAACAATT-ATTTTTTTAAAAA
1 AAAC-ATTAATTTTTTTAAAAA
* *
1693734 AAACCTTAATTTTTTTCAAAA
1 AAACATTAATTTTTTTAAAAA
1693755 CTTAAAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.43
Consensus pattern (21 bp):
AAACATTAATTTTTTTAAAAA
Found at i:1700096 original size:21 final size:21
Alignment explanation
Indices: 1700070--1700109 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1700060 AAAATTGTGT
*
1700070 ATCGATGCACTGCTACAGTGC
1 ATCGATGCACTACTACAGTGC
*
1700091 ATCGATGTACTACTACAGT
1 ATCGATGCACTACTACAGT
1700110 AACTTTCGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (21 bp):
ATCGATGCACTACTACAGTGC
Found at i:1709757 original size:24 final size:24
Alignment explanation
Indices: 1709730--1709778 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
1709720 AATCTAACAA
*
1709730 TTAATTTATAAATATAAGTAGGGG
1 TTAATTTATAAATATAAGTAAGGG
*
1709754 TTAATTTATAATTATAAGTAAGGG
1 TTAATTTATAAATATAAGTAAGGG
1709778 T
1 T
1709779 GAGCAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (24 bp):
TTAATTTATAAATATAAGTAAGGG
Found at i:1710472 original size:34 final size:34
Alignment explanation
Indices: 1710432--1710500 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
1710422 AAATTGTATG
1710432 TGATATATTAAATAACATTATAATGTGAAAAGAA
1 TGATATATTAAATAACATTATAATGTGAAAAGAA
1710466 TGATATATTAAATAACATTATAATGTGAAAAGAA
1 TGATATATTAAATAACATTATAATGTGAAAAGAA
1710500 T
1 T
1710501 ATGAAGAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.52, C:0.03, G:0.12, T:0.33
Consensus pattern (34 bp):
TGATATATTAAATAACATTATAATGTGAAAAGAA
Found at i:1714094 original size:2 final size:2
Alignment explanation
Indices: 1714083--1714127 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
1714073 ATACAGGTTT
1714083 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1714124 TA TA
1 TA TA
1714128 GACGCAGATA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1714884 original size:26 final size:26
Alignment explanation
Indices: 1714855--1714939 Score: 134
Period size: 26 Copynumber: 3.3 Consensus size: 26
1714845 CCCCGTTTGT
* *
1714855 CTCTGCGTATCTTCTTCTCTCTTTGC
1 CTCTGCGTATCTTCTTCTCCCCTTGC
*
1714881 CTCTGTGTATCTTCTTCTCCCCTTGC
1 CTCTGCGTATCTTCTTCTCCCCTTGC
*
1714907 CTCTGTGTATCTTCTTCTCCCCTTGC
1 CTCTGCGTATCTTCTTCTCCCCTTGC
1714933 CTCTGCG
1 CTCTGCG
1714940 AAAAATTCAT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.04, C:0.38, G:0.13, T:0.46
Consensus pattern (26 bp):
CTCTGCGTATCTTCTTCTCCCCTTGC
Found at i:1717472 original size:23 final size:24
Alignment explanation
Indices: 1717438--1717498 Score: 90
Period size: 23 Copynumber: 2.6 Consensus size: 24
1717428 CTCATATAAA
1717438 TGCACCGAAGTGCCA-CGTAGAAT
1 TGCACCGAAGTGCCAGCGTAGAAT
*
1717461 TGCACCGCAGTG-CAGCGTAGAAT
1 TGCACCGAAGTGCCAGCGTAGAAT
*
1717484 TGCACCGTAGTGCCA
1 TGCACCGAAGTGCCA
1717499 TATAATAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 2 0.06
23 30 0.88
24 2 0.06
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.18
Consensus pattern (24 bp):
TGCACCGAAGTGCCAGCGTAGAAT
Found at i:1717639 original size:103 final size:103
Alignment explanation
Indices: 1717514--1717731 Score: 436
Period size: 103 Copynumber: 2.1 Consensus size: 103
1717504 TAATGTCCAT
1717514 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1717579 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
1717617 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1717682 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
1717720 AAGGACCACATA
1 AAGGACCACATA
1717732 GACCCTCGAC
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 115 1.00
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:1719271 original size:21 final size:21
Alignment explanation
Indices: 1719247--1719291 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1719237 TTTTGTTCGT
* *
1719247 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1719268 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1719289 TTG
1 TTG
1719292 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1721682 original size:17 final size:17
Alignment explanation
Indices: 1721660--1721698 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
1721650 AATGGTCAAC
1721660 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
1721677 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
1721694 GGTCA
1 GGTCA
1721699 GACCGGTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.13, C:0.23, G:0.46, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:1721687 original size:7 final size:7
Alignment explanation
Indices: 1721640--1721670 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
1721630 GTCAAAGAAA
1721640 GTCAACG
1 GTCAACG
*
1721647 GTCAATG
1 GTCAACG
1721654 GTCAACG
1 GTCAACG
1721661 GTCAACG
1 GTCAACG
1721668 GTC
1 GTC
1721671 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.19
Consensus pattern (7 bp):
GTCAACG
Found at i:1721761 original size:29 final size:28
Alignment explanation
Indices: 1721694--1721830 Score: 84
Period size: 29 Copynumber: 4.8 Consensus size: 28
1721684 GGTCGGGTCG
* * *
1721694 GGTCAGACCGGTCAAATCGGCTC-AGACC
1 GGTCAAACCGGTCAAACCGG-TCGAAACC
* *
1721722 GGTCAAACCGGCTCAGACCGGT-TAAACC
1 GGTCAAACCGG-TCAAACCGGTCGAAACC
*
1721750 GGCTCAGACCGGTCAAACCGGTTC-AAACC
1 GG-TCAAACCGGTCAAACCGG-TCGAAACC
* *
1721779 AGTTGAAACCGGTCAAACCGGTC-AGAACC
1 -GGTCAAACCGGTCAAACCGGTCGA-AACC
* *
1721808 GGTTGAAAACCGGTTAAACCGGT
1 GG-T-CAAACCGGTCAAACCGGT
1721831 TTTCCAGCAG
Statistics
Matches: 88, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
28 29 0.33
29 42 0.48
30 17 0.19
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.15
Consensus pattern (28 bp):
GGTCAAACCGGTCAAACCGGTCGAAACC
Found at i:1721810 original size:19 final size:19
Alignment explanation
Indices: 1721696--1721809 Score: 140
Period size: 19 Copynumber: 5.9 Consensus size: 19
1721686 TCGGGTCGGG
*
1721696 TCAGACCGGTCAAATCGGC
1 TCAGACCGGTCAAACCGGC
1721715 TCAGACCGGTCAAACCGGC
1 TCAGACCGGTCAAACCGGC
*
1721734 TCAGACCGGTTAAACCGGC
1 TCAGACCGGTCAAACCGGC
*
1721753 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGC
* * *
1721772 TCAAACCAGTTGAAACCGG-
1 TCAGACC-GGTCAAACCGGC
*
1721791 TCAAACCGGTCAGAACCGG
1 TCAGACCGGTCA-AACCGG
1721810 TTGAAAACCG
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
18 3 0.04
19 72 0.86
20 9 0.11
ACGTcount: A:0.29, C:0.32, G:0.25, T:0.14
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGC
Found at i:1721831 original size:9 final size:9
Alignment explanation
Indices: 1721694--1721830 Score: 112
Period size: 9 Copynumber: 14.3 Consensus size: 9
1721684 GGTCGGGTCG
*
1721694 GGTCAGACC
1 GGTCAAACC
*
1721703 GGTCAAATC
1 GGTCAAACC
*
1721712 GGCTCAGACC
1 GG-TCAAACC
1721722 GGTCAAACC
1 GGTCAAACC
*
1721731 GGCTCAGACC
1 GG-TCAAACC
*
1721741 GGTTAAACC
1 GGTCAAACC
*
1721750 GGCTCAGACC
1 GG-TCAAACC
1721760 GGTCAAACC
1 GGTCAAACC
1721769 GGTTCAAACC
1 GG-TCAAACC
* *
1721779 AGTTGAAACC
1 -GGTCAAACC
1721789 GGTCAAACC
1 GGTCAAACC
1721798 GGTCAGAACC
1 GGTCA-AACC
*
1721808 GGTTGAAAACC
1 GG-T-CAAACC
*
1721819 GGTTAAACC
1 GGTCAAACC
1721828 GGT
1 GGT
1721831 TTTCCAGCAG
Statistics
Matches: 103, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
9 52 0.50
10 42 0.41
11 8 0.08
12 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:1729122 original size:5 final size:5
Alignment explanation
Indices: 1729112--1729164 Score: 52
Period size: 5 Copynumber: 9.8 Consensus size: 5
1729102 AACGGTCAAC
* *
1729112 GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG
1 GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG
1729161 GGTC
1 GGTC
1729165 AGACCGGTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 32 0.80
7 8 0.20
ACGTcount: A:0.08, C:0.23, G:0.51, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:1729127 original size:17 final size:17
Alignment explanation
Indices: 1729105--1729165 Score: 77
Period size: 17 Copynumber: 3.3 Consensus size: 17
1729095 AACGATCAAC
1729105 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
1729122 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAA----C-GGTCGGGTCG
1729144 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
1729161 GGTCA
1 GGTCA
1729166 GACCGGTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
17 21 0.54
18 1 0.03
21 1 0.03
22 16 0.41
ACGTcount: A:0.11, C:0.23, G:0.48, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:1729140 original size:22 final size:22
Alignment explanation
Indices: 1729112--1729164 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
1729102 AACGGTCAAC
1729112 GGTCGGGTCGGGTCAACGGTCG
1 GGTCGGGTCGGGTCAACGGTCG
1729134 GGTCGGGTCGGGTCAACGGTCG
1 GGTCGGGTCGGGTCAACGGTCG
1729156 GGTCGGGTC
1 GGTCGGGTC
1729165 AGACCGGTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.08, C:0.23, G:0.51, T:0.19
Consensus pattern (22 bp):
GGTCGGGTCGGGTCAACGGTCG
Found at i:1729185 original size:19 final size:19
Alignment explanation
Indices: 1729163--1729279 Score: 110
Period size: 19 Copynumber: 6.1 Consensus size: 19
1729153 TCGGGTCGGG
*
1729163 TCAGACCGGTCAAACCGGC
1 TCAGACCGGTCAAACCGGT
*
1729182 TCAGACCGGTCAAATCGGT
1 TCAGACCGGTCAAACCGGT
1729201 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
* * *
1729220 TGAAACCGGTTGAAACCGG-
1 TCAGACCGG-TCAAACCGGT
* *
1729239 TCAAACCGGTCAGAACCAGT
1 TCAGACCGGTCA-AACCGGT
* * *
1729259 TGAAAACCGGTTAAACCGGT
1 T-CAGACCGGTCAAACCGGT
1729279 T
1 T
1729280 TCCAGCAGCC
Statistics
Matches: 82, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
18 2 0.02
19 55 0.67
20 16 0.20
21 9 0.11
ACGTcount: A:0.30, C:0.27, G:0.26, T:0.17
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:1729225 original size:10 final size:10
Alignment explanation
Indices: 1729212--1729279 Score: 70
Period size: 10 Copynumber: 6.9 Consensus size: 10
1729202 CAGACCGGTC
1729212 AAACCGGTTG
1 AAACCGGTTG
1729222 AAACCGGTTG
1 AAACCGGTTG
*
1729232 AAACCGG-TC
1 AAACCGGTTG
*
1729241 AAACCGG-TC
1 AAACCGGTTG
*
1729250 AGAACCAGTTG
1 A-AACCGGTTG
1729261 AAAACCGGTT-
1 -AAACCGGTTG
1729271 AAACCGGTT
1 AAACCGGTT
1729280 TCCAGCAGCC
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
9 20 0.39
10 22 0.43
11 8 0.16
12 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.18
Consensus pattern (10 bp):
AAACCGGTTG
Found at i:1729255 original size:29 final size:29
Alignment explanation
Indices: 1729161--1729278 Score: 109
Period size: 29 Copynumber: 4.1 Consensus size: 29
1729151 GGTCGGGTCG
*
1729161 GGTCAG-ACCGG-TCAAACCGGCTCAGACC
1 GGTCAGAACCGGTTCAAACCGG-TCAAACC
* *
1729189 GGTCA-AATCGGTTCAGACCGGTCAAACC
1 GGTCAGAACCGGTTCAAACCGGTCAAACC
* *
1729217 GGT-TGAAACCGGTTGAAACCGGTCAAACC
1 GGTCAG-AACCGGTTCAAACCGGTCAAACC
* * *
1729246 GGTCAGAACCAGTTGAAAACCGGTTAAACC
1 GGTCAGAACCGGTT-CAAACCGGTCAAACC
1729276 GGT
1 GGT
1729279 TTCCAGCAGC
Statistics
Matches: 73, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
28 18 0.25
29 38 0.52
30 17 0.23
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.16
Consensus pattern (29 bp):
GGTCAGAACCGGTTCAAACCGGTCAAACC
Found at i:1729279 original size:9 final size:9
Alignment explanation
Indices: 1729161--1729278 Score: 92
Period size: 9 Copynumber: 12.3 Consensus size: 9
1729151 GGTCGGGTCG
*
1729161 GGTCAGACC
1 GGTCAAACC
1729170 GGTCAAACC
1 GGTCAAACC
*
1729179 GGCTCAGACC
1 GG-TCAAACC
*
1729189 GGTCAAATC
1 GGTCAAACC
*
1729198 GGTTCAGACC
1 GG-TCAAACC
1729208 GGTCAAACC
1 GGTCAAACC
*
1729217 GGTTGAAACC
1 GG-TCAAACC
*
1729227 GGTTGAAACC
1 GG-TCAAACC
1729237 GGTCAAACC
1 GGTCAAACC
1729246 GGTCAGAACC
1 GGTCA-AACC
* *
1729256 AGTTGAAAACC
1 -GGT-CAAACC
*
1729267 GGTTAAACC
1 GGTCAAACC
1729276 GGT
1 GGT
1729279 TTCCAGCAGC
Statistics
Matches: 90, Mismatches: 13, Indels: 12
0.78 0.11 0.10
Matches are distributed among these distances:
9 44 0.49
10 39 0.43
11 6 0.07
12 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:1734985 original size:15 final size:15
Alignment explanation
Indices: 1734965--1734998 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1734955 CAACAAATAA
1734965 ATTTTTTATATAAAT
1 ATTTTTTATATAAAT
*
1734980 ATTTTTTATTTAAAT
1 ATTTTTTATATAAAT
1734995 ATTT
1 ATTT
1734999 AGAATTTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTTTTTATATAAAT
Found at i:1744632 original size:20 final size:20
Alignment explanation
Indices: 1744607--1744647 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1744597 AAAATCCACT
1744607 ACTATTGACTGTTATATAAC
1 ACTATTGACTGTTATATAAC
1744627 ACTATTGACTGTTATATAAC
1 ACTATTGACTGTTATATAAC
1744647 A
1 A
1744648 TGCTTCCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.39
Consensus pattern (20 bp):
ACTATTGACTGTTATATAAC
Found at i:1759823 original size:23 final size:23
Alignment explanation
Indices: 1759797--1759841 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1759787 CACCACAGCT
*
1759797 CGTATAAATACACCGAAGTGCCG
1 CGTAGAAATACACCGAAGTGCCG
* * *
1759820 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATACACCGAAGTGCC
1759842 ATATAATGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATACACCGAAGTGCCG
Found at i:1761691 original size:21 final size:21
Alignment explanation
Indices: 1761667--1761711 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1761657 TTTTGTTCGT
* *
1761667 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1761688 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1761709 TTG
1 TTG
1761712 CCCATAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1763268 original size:31 final size:31
Alignment explanation
Indices: 1763230--1763385 Score: 269
Period size: 31 Copynumber: 5.0 Consensus size: 31
1763220 CCCGAAGGAC
* * *
1763230 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
1763261 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1763292 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1763323 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1763354 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1763385 C
1 C
1763386 CCTCGACCCT
Statistics
Matches: 121, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
31 120 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:1772171 original size:261 final size:261
Alignment explanation
Indices: 1771707--1772229 Score: 1046
Period size: 261 Copynumber: 2.0 Consensus size: 261
1771697 GTTGGCTGCA
1771707 CTCCATCCAGCACCATATCATCATAAACATCCCTCAACAGATAATGCCTGCACCACCATACCAAA
1 CTCCATCCAGCACCATATCATCATAAACATCCCTCAACAGATAATGCCTGCACCACCATACCAAA
1771772 TTCACAAACAAATAAGGCTGTAGTTTGTTTTTCTAATCTTTTGCTTCCTTAAAAATTTCTATGAA
66 TTCACAAACAAATAAGGCTGTAGTTTGTTTTTCTAATCTTTTGCTTCCTTAAAAATTTCTATGAA
1771837 GGAAAACCATTGTCATATTATATAACAGTTTTTCACATATAGACAATGTTAAAAATGAGAAGAAA
131 GGAAAACCATTGTCATATTATATAACAGTTTTTCACATATAGACAATGTTAAAAATGAGAAGAAA
1771902 TCTTCTAAGAGCATGCCCCATTTTGACCAAAGCTGAATCAACGGATAGAAATCAAATAACTTAAG
196 TCTTCTAAGAGCATGCCCCATTTTGACCAAAGCTGAATCAACGGATAGAAATCAAATAACTTAAG
1771967 C
261 C
1771968 CTCCATCCAGCACCATATCATCATAAACATCCCTCAACAGATAATGCCTGCACCACCATACCAAA
1 CTCCATCCAGCACCATATCATCATAAACATCCCTCAACAGATAATGCCTGCACCACCATACCAAA
1772033 TTCACAAACAAATAAGGCTGTAGTTTGTTTTTCTAATCTTTTGCTTCCTTAAAAATTTCTATGAA
66 TTCACAAACAAATAAGGCTGTAGTTTGTTTTTCTAATCTTTTGCTTCCTTAAAAATTTCTATGAA
1772098 GGAAAACCATTGTCATATTATATAACAGTTTTTCACATATAGACAATGTTAAAAATGAGAAGAAA
131 GGAAAACCATTGTCATATTATATAACAGTTTTTCACATATAGACAATGTTAAAAATGAGAAGAAA
1772163 TCTTCTAAGAGCATGCCCCATTTTGACCAAAGCTGAATCAACGGATAGAAATCAAATAACTTAAG
196 TCTTCTAAGAGCATGCCCCATTTTGACCAAAGCTGAATCAACGGATAGAAATCAAATAACTTAAG
1772228 C
261 C
1772229 C
1 C
1772230 GGACAAAATT
Statistics
Matches: 262, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
261 262 1.00
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (261 bp):
CTCCATCCAGCACCATATCATCATAAACATCCCTCAACAGATAATGCCTGCACCACCATACCAAA
TTCACAAACAAATAAGGCTGTAGTTTGTTTTTCTAATCTTTTGCTTCCTTAAAAATTTCTATGAA
GGAAAACCATTGTCATATTATATAACAGTTTTTCACATATAGACAATGTTAAAAATGAGAAGAAA
TCTTCTAAGAGCATGCCCCATTTTGACCAAAGCTGAATCAACGGATAGAAATCAAATAACTTAAG
C
Found at i:1773611 original size:196 final size:194
Alignment explanation
Indices: 1773277--1773873 Score: 1113
Period size: 196 Copynumber: 3.1 Consensus size: 194
1773267 TTAAAAGATC
1773277 AAATGATCATATTAAAATATACTCGTAATTAAATCAATTAGGGTTGATTTAAGTGATAAACAACT
1 AAATGATCATATTAAAATATACTCGTAATTAAATCAATTAGGGTTGATTTAAGTGATAAACAACT
* *
1773342 TAATATTACTTAAACATGTCTCGAATTCAAAGCCTTTTGTATGCATAAATTTCTCATTGAGAGAC
66 TAATATTACTTAAACAGGTCTCGAATTCAAAGCCTTTTGTATGCAGAAATTTCTCATTGAGAGAC
1773407 TCACTAAAATTAAGTGTACGATATGAATCAATCCAGATCACTCGGGAAAAAAATGTACTCGTAAT
131 TCACTAAAATTAAGTGTACGATATGAATCAATCCAGATCACTCGGG--AAAAATGTACTCGTAAT
1773472 T
194 T
1773473 AAATGATCATATTAAAATATACTCGTAATTAAATCAATTAGGGTTGATTTAAGTGATAAACAACT
1 AAATGATCATATTAAAATATACTCGTAATTAAATCAATTAGGGTTGATTTAAGTGATAAACAACT
*
1773538 TAATATTACTTAAACAGGTCTCGAATTCAAAGCCTTTTGTAAGCAGAAATTTCTCATTGAGAGAC
66 TAATATTACTTAAACAGGTCTCGAATTCAAAGCCTTTTGTATGCAGAAATTTCTCATTGAGAGAC
1773603 TCACTAAAATTAAGTGTACGATATGAATCAATCCAGATCACTCGGGGGAAAAATGTACTCGTAAT
131 TCACTAAAATTAAGTGTACGATATGAATCAATCCAGATCACTC--GGGAAAAATGTACTCGTAAT
1773668 T
194 T
*
1773669 AAATGATTATATTAAAATATACTCGTAATTAAATCAATTAGGGTTGATTTAAGTGATAAACAACT
1 AAATGATCATATTAAAATATACTCGTAATTAAATCAATTAGGGTTGATTTAAGTGATAAACAACT
1773734 TAATATTACTTAAACAGGTCTCGAATTCAAAGCCTTTTGTATGCAGAAATTTCTCATTGAGAGAC
66 TAATATTACTTAAACAGGTCTCGAATTCAAAGCCTTTTGTATGCAGAAATTTCTCATTGAGAGAC
1773799 TCACTAAAATTAAGTGTACGATATGAATCAATCCAGATCACTCGAGGAAAAATGTACTCGTAATT
131 TCACTAAAATTAAGTGTACGATATGAATCAATCCAGATCACTCG-GGAAAAATGTACTCGTAATT
1773864 AAATGATCAT
1 AAATGATCAT
1773874 GAGTATATAA
Statistics
Matches: 392, Mismatches: 6, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
194 1 0.00
195 29 0.07
196 359 0.92
198 3 0.01
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (194 bp):
AAATGATCATATTAAAATATACTCGTAATTAAATCAATTAGGGTTGATTTAAGTGATAAACAACT
TAATATTACTTAAACAGGTCTCGAATTCAAAGCCTTTTGTATGCAGAAATTTCTCATTGAGAGAC
TCACTAAAATTAAGTGTACGATATGAATCAATCCAGATCACTCGGGAAAAATGTACTCGTAATT
Found at i:1773988 original size:28 final size:29
Alignment explanation
Indices: 1773954--1774011 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
1773944 TTAAATTATT
1773954 TGATGAC-AAAAACTCAATCAAAAAATTC
1 TGATGACAAAAAACTCAATCAAAAAATTC
1773982 TGATGACAAAAAACTCAATCAAAAAATTC
1 TGATGACAAAAAACTCAATCAAAAAATTC
1774011 T
1 T
1774012 CTACTTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 7 0.24
29 22 0.76
ACGTcount: A:0.53, C:0.17, G:0.07, T:0.22
Consensus pattern (29 bp):
TGATGACAAAAAACTCAATCAAAAAATTC
Found at i:1776127 original size:6 final size:6
Alignment explanation
Indices: 1776116--1776147 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
1776106 TTCTTGAAAG
1776116 GAATTT GAATTT GAATTT GAATTT GAATTT GA
1 GAATTT GAATTT GAATTT GAATTT GAATTT GA
1776148 CTCAGCCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (6 bp):
GAATTT
Found at i:1777435 original size:28 final size:28
Alignment explanation
Indices: 1777404--1777461 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
1777394 TCTATTATTA
*
1777404 ATATTCTAACAATCTAGTTATTGAATTT
1 ATATTCTAACAATCTAATTATTGAATTT
*
1777432 ATATTTTAACAATCTAATTATTGAATTT
1 ATATTCTAACAATCTAATTATTGAATTT
1777460 AT
1 AT
1777462 TAATATCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (28 bp):
ATATTCTAACAATCTAATTATTGAATTT
Found at i:1787620 original size:46 final size:48
Alignment explanation
Indices: 1787553--1787649 Score: 180
Period size: 46 Copynumber: 2.1 Consensus size: 48
1787543 GTGCCGGAAC
1787553 AAATAAATCAAACACTGCTAGTACTACTGCCG-AAGTCAC-AGACCAG
1 AAATAAATCAAACACTGCTAGTACTACTGCCGAAAGTCACAAGACCAG
1787599 AAATAAATCAAACACTGCTAGTACTACTGCCGAAAGTCACAAGACCAG
1 AAATAAATCAAACACTGCTAGTACTACTGCCGAAAGTCACAAGACCAG
1787647 AAA
1 AAA
1787650 GAATGAACCA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 32 0.65
47 7 0.14
48 10 0.20
ACGTcount: A:0.44, C:0.25, G:0.14, T:0.16
Consensus pattern (48 bp):
AAATAAATCAAACACTGCTAGTACTACTGCCGAAAGTCACAAGACCAG
Found at i:1788869 original size:23 final size:23
Alignment explanation
Indices: 1788837--1788887 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 23
1788827 TACTATTTCG
1788837 AAAATAAT-AATAAAAAACTATTGA
1 AAAATAATAAAT-AAAAACTATT-A
1788861 AAAAT-ATAAATAAAAACTATTA
1 AAAATAATAAATAAAAACTATTA
1788883 AAAAT
1 AAAAT
1788888 TCAAAACAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.23
23 12 0.46
24 8 0.31
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (23 bp):
AAAATAATAAATAAAAACTATTA
Found at i:1789143 original size:20 final size:20
Alignment explanation
Indices: 1789118--1789166 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
1789108 TTTTATTGTG
*
1789118 AGTGGAGGGAGACAAGGACT
1 AGTGGAGGCAGACAAGGACT
1789138 AGTGGAGGCAGACAAGGACT
1 AGTGGAGGCAGACAAGGACT
1789158 AGTGGAGGC
1 AGTGGAGGC
1789167 TTGGTGGCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.12, G:0.45, T:0.10
Consensus pattern (20 bp):
AGTGGAGGCAGACAAGGACT
Found at i:1789970 original size:46 final size:42
Alignment explanation
Indices: 1789903--1790016 Score: 131
Period size: 42 Copynumber: 2.6 Consensus size: 42
1789893 CTTTGAATTG
* **
1789903 GATATCCTTCG-CTGTAAAGTTGAAATCCAATGTTGTTTGTGAGCAC
1 GATATCCTTCGTC-GTGAAGTTGAAAT-C-ATGGAGTTT-TGAGC-C
*
1789949 GATATCCTTCGTCGTGAAGTTGAAATCGTGGAGTTTTGAGCC
1 GATATCCTTCGTCGTGAAGTTGAAATCATGGAGTTTTGAGCC
*
1789991 AATATCCTTCGTCGTGAAGTTGAAAT
1 GATATCCTTCGTCGTGAAGTTGAAAT
1790017 TGGCTCGAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
42 26 0.42
43 5 0.08
44 6 0.10
45 1 0.02
46 23 0.37
47 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (42 bp):
GATATCCTTCGTCGTGAAGTTGAAATCATGGAGTTTTGAGCC
Found at i:1790167 original size:167 final size:169
Alignment explanation
Indices: 1789778--1790349 Score: 963
Period size: 167 Copynumber: 3.4 Consensus size: 169
1789768 TGCTGGTGGA
* *
1789778 CACGATATCCTTCGTCGTGAAGTTAAAATCGTGGATG-TTCGAGTCCAATATCCTTCGTCATGAA
1 CACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCGTGAA
*
1789842 GTTGAAATTGGCTCTGAATGAAATTGGGAAGCCCCTTCGCTGTGGAGTGAGCTTTGAATTGGATA
66 GTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCTGTGGAGTGAGCTTTGAATTGGATA
1789907 TCCTTCGCTGTAAAGTTGAAATCCAATGTTGTTTGTGAG
131 TCCTTCGCTGTAAAGTTGAAATCCAATGTTGTTTGTGAG
*
1789946 CACGATATCCTTCGTCGTGAAGTTGAAATCGTGGA-GTTTTGAG-CCAATATCCTTCGTCGTGAA
1 CACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCGTGAA
1790009 GTTGAAATTGGCTC-GAATGAAACTGGGAAG-CCCTTCGCTGTGGAGTTGAGCTTTGAATTGGAT
66 GTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCTGTGGAG-TGAGCTTTGAATTGGAT
*
1790072 ATCCTTCGCTGTAAAGTTTG-AATCCAATGTTG-TTGTAAG
130 ATCCTTCGCTGTAAAG-TTGAAATCCAATGTTGTTTGTGAG
1790111 CACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCGTGAA
1 CACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCGTGAA
*
1790176 GTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCTGTGGAGTGAGAGTTTGAATTGGAT
66 GTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCTGTGGAGTGAG-CTTTGAATTGGAT
1790241 ATCCTTCGCTGTAAAGTTGAAATCCAATG-TGTTTGTGAG
130 ATCCTTCGCTGTAAAGTTGAAATCCAATGTTGTTTGTGAG
*
1790280 --CGATATCCTTCGTCGTGAAGTTGAAATCG-GGATGTTTCGAGTCC-A-ATCCTTCGTTGTGAA
1 CACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCGTGAA
1790340 GTTGAAATTG
66 GTTGAAATTG
1790350 ACTAGCTAGA
Statistics
Matches: 385, Mismatches: 9, Indels: 24
0.92 0.02 0.06
Matches are distributed among these distances:
164 24 0.06
165 57 0.15
166 82 0.21
167 100 0.26
168 64 0.17
169 58 0.15
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (169 bp):
CACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCGTGAA
GTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCTGTGGAGTGAGCTTTGAATTGGATA
TCCTTCGCTGTAAAGTTGAAATCCAATGTTGTTTGTGAG
Found at i:1791518 original size:80 final size:81
Alignment explanation
Indices: 1791385--1791545 Score: 315
Period size: 80 Copynumber: 2.0 Consensus size: 81
1791375 TCCTTCACGA
1791385 AATATTCTCGGGCGCACCTTCTTGTCATGTGCCCGAATCATTCGTTTCTGATAGATTTGACCGTG
1 AATATTCTCGGGCGCACCTTCTTGTCATGTGCCCGAATCATTCGTTTCTGATAGATTTGACCGTG
1791450 A-GAATGGCTTTCAGT
66 ATGAATGGCTTTCAGT
1791465 AATATTCTCGGGCGCACCTTCTTGTCATGTGCCCGAATCATTCGTTTCTGATAGATTTGACCGTG
1 AATATTCTCGGGCGCACCTTCTTGTCATGTGCCCGAATCATTCGTTTCTGATAGATTTGACCGTG
1791530 ATGAATGGCTTTCAGT
66 ATGAATGGCTTTCAGT
1791546 CTCTTTTCAT
Statistics
Matches: 80, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
80 66 0.82
81 14 0.17
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.35
Consensus pattern (81 bp):
AATATTCTCGGGCGCACCTTCTTGTCATGTGCCCGAATCATTCGTTTCTGATAGATTTGACCGTG
ATGAATGGCTTTCAGT
Found at i:1798719 original size:14 final size:14
Alignment explanation
Indices: 1798700--1798730 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1798690 ATTAAAATCG
*
1798700 AAATAAAAAAGAGT
1 AAATAAAAAAGAAT
1798714 AAATAAAAAAGAAT
1 AAATAAAAAAGAAT
1798728 AAA
1 AAA
1798731 GGAAAATTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (14 bp):
AAATAAAAAAGAAT
Found at i:1799497 original size:25 final size:25
Alignment explanation
Indices: 1799468--1799522 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 25
1799458 AAAATGACAT
1799468 ACTATTTCGAAAAT-AAT-AATAAAAA
1 ACTATTT-GAAAATAAATAAAT-AAAA
1799493 ACTA-TTGAAAATAAATAAATAAAA
1 ACTATTTGAAAATAAATAAATAAAA
1799517 ACTATT
1 ACTATT
1799523 AAAAATTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 6 0.22
24 13 0.48
25 8 0.30
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.29
Consensus pattern (25 bp):
ACTATTTGAAAATAAATAAATAAAA
Found at i:1799504 original size:23 final size:24
Alignment explanation
Indices: 1799476--1799528 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
1799466 ATACTATTTC
1799476 GAAAAT-AAT-AATAAAAAACTATT
1 GAAAATAAATAAAT-AAAAACTATT
1799499 GAAAATAAATAAATAAAAACTATT
1 GAAAATAAATAAATAAAAACTATT
*
1799523 AAAAAT
1 GAAAAT
1799529 TCAAAACAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 6 0.22
24 18 0.67
25 3 0.11
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (24 bp):
GAAAATAAATAAATAAAAACTATT
Found at i:1799565 original size:24 final size:24
Alignment explanation
Indices: 1799477--1799566 Score: 60
Period size: 24 Copynumber: 3.8 Consensus size: 24
1799467 TACTATTTCG
* * **
1799477 AAAAT-AATAATAAAAAACTATTG
1 AAAATAAATAATAAAAATCAATAA
*
1799500 AAAATAAATAAATAAAAA-CTATTAA
1 AAAATAAAT-AATAAAAATC-AATAA
* * *
1799525 AAATTCAA-AACAGAAAATCAATAA
1 AAAATAAATAATA-AAAATCAATAA
1799549 AAAATAAATAATAAAAAT
1 AAAATAAATAATAAAAAT
1799567 AAAGAAACTG
Statistics
Matches: 50, Mismatches: 11, Indels: 11
0.69 0.15 0.15
Matches are distributed among these distances:
23 8 0.16
24 23 0.46
25 19 0.38
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.22
Consensus pattern (24 bp):
AAAATAAATAATAAAAATCAATAA
Found at i:1799790 original size:20 final size:20
Alignment explanation
Indices: 1799765--1799813 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
1799755 TTTTATTGTG
*
1799765 AGTGGAGGGAGACAAGGACT
1 AGTGGAGGCAGACAAGGACT
1799785 AGTGGAGGCAGACAAGGACT
1 AGTGGAGGCAGACAAGGACT
1799805 AGTGGAGGC
1 AGTGGAGGC
1799814 TTGGTGGCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.12, G:0.45, T:0.10
Consensus pattern (20 bp):
AGTGGAGGCAGACAAGGACT
Found at i:1804943 original size:23 final size:23
Alignment explanation
Indices: 1804909--1804977 Score: 111
Period size: 23 Copynumber: 3.0 Consensus size: 23
1804899 CAACCTTATA
1804909 TGGCACTTCGGTGCATTTCTACG
1 TGGCACTTCGGTGCATTTCTACG
* *
1804932 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCATTTCTACG
*
1804955 TGGCACTTCGGTGCATTTATACG
1 TGGCACTTCGGTGCATTTCTACG
1804978 AGCTGTGGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.17, C:0.25, G:0.26, T:0.32
Consensus pattern (23 bp):
TGGCACTTCGGTGCATTTCTACG
Found at i:1808253 original size:19 final size:19
Alignment explanation
Indices: 1808210--1808251 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
1808200 TAAATTTGAC
**
1808210 AATTTATTGAAAGAATTTT
1 AATTTATTGAAAGAATAAT
1808229 AATTTATTG-AAGAATAAT
1 AATTTATTGAAAGAATAAT
1808247 AATTT
1 AATTT
1808252 TAATGATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (19 bp):
AATTTATTGAAAGAATAAT
Found at i:1817978 original size:29 final size:28
Alignment explanation
Indices: 1817945--1818028 Score: 123
Period size: 29 Copynumber: 2.9 Consensus size: 28
1817935 AGTCCAGTCA
1817945 CTGAGTCAACTCGGTTCGAGTCAACCCAT
1 CTGAGTCAACTC-GTTCGAGTCAACCCAT
* *
1817974 CTGAGTCAACTCGTTCGAAGTCAATCCGT
1 CTGAGTCAACTCGTTCG-AGTCAACCCAT
*
1818003 CTGAGTCAACTCGTCCGAGTCAACCC
1 CTGAGTCAACTCGTTCGAGTCAACCC
1818029 GTTGACTTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
28 13 0.26
29 37 0.74
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (28 bp):
CTGAGTCAACTCGTTCGAGTCAACCCAT
Found at i:1817981 original size:14 final size:14
Alignment explanation
Indices: 1817962--1818030 Score: 68
Period size: 14 Copynumber: 4.9 Consensus size: 14
1817952 AACTCGGTTC
*
1817962 GAGTCAACCCATCT
1 GAGTCAACCCGTCT
*
1817976 GAGTCAACTCGT-T
1 GAGTCAACCCGTCT
*
1817989 CGAAGTCAATCCGTCT
1 -G-AGTCAACCCGTCT
* *
1818005 GAGTCAACTCGTCC
1 GAGTCAACCCGTCT
1818019 GAGTCAACCCGT
1 GAGTCAACCCGT
1818031 TGACTTTGAC
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
13 1 0.02
14 32 0.73
15 10 0.23
16 1 0.02
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (14 bp):
GAGTCAACCCGTCT
Found at i:1821330 original size:18 final size:18
Alignment explanation
Indices: 1821307--1821341 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1821297 ACACCTCAAA
1821307 TCGGATCGGCTACCCACG
1 TCGGATCGGCTACCCACG
1821325 TCGGATCGGCTACCCAC
1 TCGGATCGGCTACCCAC
1821342 CTCCGTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.40, G:0.26, T:0.17
Consensus pattern (18 bp):
TCGGATCGGCTACCCACG
Found at i:1830213 original size:20 final size:20
Alignment explanation
Indices: 1830188--1830241 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
1830178 AACCAACAAA
1830188 TTCGCAACGCGAATTCCAAT
1 TTCGCAACGCGAATTCCAAT
* *
1830208 TTCGCAAC-CCAGTTTCCAAT
1 TTCGCAACGCGA-ATTCCAAT
*
1830228 TTCGCAACGTGAAT
1 TTCGCAACGCGAAT
1830242 ATGTAAATTG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.07
20 24 0.89
21 1 0.04
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (20 bp):
TTCGCAACGCGAATTCCAAT
Found at i:1830306 original size:20 final size:19
Alignment explanation
Indices: 1830281--1830340 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 19
1830271 GCAACGTAAA
*
1830281 TCGCAACACAGAAGTCAAAT
1 TCGCAACGC-GAAGTCAAAT
1830301 TCGCAACGCGATAGTCAAAT
1 TCGCAACGCGA-AGTCAAAT
1830321 TCGCAACGCGAAAGTCAAAT
1 TCGCAACGCG-AAGTCAAAT
1830341 GTTTTTACGC
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 2 0.05
20 34 0.92
21 1 0.03
ACGTcount: A:0.40, C:0.25, G:0.18, T:0.17
Consensus pattern (19 bp):
TCGCAACGCGAAGTCAAAT
Found at i:1830493 original size:22 final size:22
Alignment explanation
Indices: 1830468--1830537 Score: 122
Period size: 22 Copynumber: 3.2 Consensus size: 22
1830458 CTACGGCGAC
1830468 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
1830490 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
* *
1830512 ATCCGTCCCCATTTCTGACGAA
1 ATCCGTCCCCATCTCCGACGAA
1830534 ATCC
1 ATCC
1830538 ATCTATCTCC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.23, C:0.43, G:0.13, T:0.21
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:1830861 original size:20 final size:20
Alignment explanation
Indices: 1830820--1830861 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1830810 GAAACTAAAA
* * *
1830820 TCGCGTTGCGATTTTCATTT
1 TCGCGTTGCGAATTTAAGTT
1830840 TCGCGTTGCGAATTTAAGTT
1 TCGCGTTGCGAATTTAAGTT
1830860 TC
1 TC
1830862 AGAAACTTCT
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:0.14, C:0.19, G:0.21, T:0.45
Consensus pattern (20 bp):
TCGCGTTGCGAATTTAAGTT
Found at i:1833630 original size:31 final size:31
Alignment explanation
Indices: 1833592--1833747 Score: 269
Period size: 31 Copynumber: 5.0 Consensus size: 31
1833582 CCCGAAGGAC
* * *
1833592 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
1833623 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1833654 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1833685 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1833716 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1833747 C
1 C
1833748 CCTCGACCCT
Statistics
Matches: 121, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
31 120 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:1835333 original size:3 final size:3
Alignment explanation
Indices: 1835325--1835356 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1835315 CCATCTATAT
1835325 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1835357 TTTAATCTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1838179 original size:31 final size:31
Alignment explanation
Indices: 1838141--1838296 Score: 260
Period size: 31 Copynumber: 5.0 Consensus size: 31
1838131 CCCGAAGGAC
* * *
1838141 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
1838172 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1838203 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
1838234 TAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1838265 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1838296 C
1 C
1838297 CCTCGACCCT
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 118 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:1840195 original size:47 final size:48
Alignment explanation
Indices: 1840130--1840247 Score: 125
Period size: 47 Copynumber: 2.4 Consensus size: 48
1840120 ACATTGAAAG
* *
1840130 TTGATTTGTTACAA-TTGATGAGGAAATAAGATTTA-TTTTTTGA-TTAA
1 TTGATTTG-TAAAAGTTGATGA-GAAATAAGAATTATTTTTTTGATTTAA
* *
1840177 TTGATTTGTAAAAGTTGATTTATAAATAAGAATTATTTTTTTGATTGTTTAA
1 TTGATTTGTAAAAGTTGA-TGAGAAATAAGAATTATTTTTTTGA---TTTAA
1840229 TTGATTTGTAAAAGTTGAT
1 TTGATTTGTAAAAGTTGAT
1840248 TTGTTGTTTC
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
46 4 0.07
47 23 0.38
48 10 0.17
51 1 0.02
52 22 0.37
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.49
Consensus pattern (48 bp):
TTGATTTGTAAAAGTTGATGAGAAATAAGAATTATTTTTTTGATTTAA
Found at i:1840336 original size:20 final size:20
Alignment explanation
Indices: 1840311--1840349 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1840301 ATTGAAGGTA
*
1840311 CAAATTTGCAACACGAAATT
1 CAAATTCGCAACACGAAATT
*
1840331 CAAATTCGCAACGCGAAAT
1 CAAATTCGCAACACGAAAT
1840350 AAGCATTGCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.23, G:0.13, T:0.21
Consensus pattern (20 bp):
CAAATTCGCAACACGAAATT
Found at i:1840690 original size:39 final size:39
Alignment explanation
Indices: 1840636--1840718 Score: 148
Period size: 39 Copynumber: 2.1 Consensus size: 39
1840626 TTAAGTTGTA
*
1840636 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1 GATTTGGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
1840675 GATTTGGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTGGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1840714 GATTT
1 GATTT
1840719 TGATGAGCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.17, C:0.16, G:0.22, T:0.46
Consensus pattern (39 bp):
GATTTGGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:1842147 original size:24 final size:24
Alignment explanation
Indices: 1842113--1842166 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1842103 CCATCACATC
1842113 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
1842137 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1842161 ATCAAA
1 ATCAAA
1842167 TTTTGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1843224 original size:20 final size:20
Alignment explanation
Indices: 1843176--1843228 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
1843166 TTTACATATT
1843176 TTCGCGTTGCGAAATTGGAA
1 TTCGCGTTGCGAAATTGGAA
* *
1843196 -ACTGGGTTGCGAAATTGGAA
1 TTC-GCGTTGCGAAATTGGAA
1843216 TTCGCGTTGCGAA
1 TTCGCGTTGCGAA
1843229 TTTGTTGGTC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
21 1 0.04
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.28
Consensus pattern (20 bp):
TTCGCGTTGCGAAATTGGAA
Found at i:1844057 original size:31 final size:31
Alignment explanation
Indices: 1844022--1844103 Score: 137
Period size: 31 Copynumber: 2.6 Consensus size: 31
1844012 GTCCATAGAC
*
1844022 CCCGAAGAACCTAGGTAAACAGCCCATATAT
1 CCCGAAGAACATAGGTAAACAGCCCATATAT
* *
1844053 CCCGAAGAACATAGGTAAACAGTCCATATGT
1 CCCGAAGAACATAGGTAAACAGCCCATATAT
1844084 CCCGAAGAACATAGGTAAAC
1 CCCGAAGAACATAGGTAAAC
1844104 CCTCGACCCT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.40, C:0.26, G:0.18, T:0.16
Consensus pattern (31 bp):
CCCGAAGAACATAGGTAAACAGCCCATATAT
Found at i:1845454 original size:12 final size:12
Alignment explanation
Indices: 1845437--1845472 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
1845427 TCGTACATGT
*
1845437 AGAAGAAGAAGA
1 AGAAGATGAAGA
1845449 AGAAGATGAAGA
1 AGAAGATGAAGA
*
1845461 TGAAGATGAAGA
1 AGAAGATGAAGA
1845473 GAATATCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.33, T:0.08
Consensus pattern (12 bp):
AGAAGATGAAGA
Found at i:1852044 original size:105 final size:105
Alignment explanation
Indices: 1851827--1853015 Score: 1993
Period size: 105 Copynumber: 11.4 Consensus size: 105
1851817 GTATTGTTCC
* * * ** *
1851827 GAGTCCAATATCATTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTCGGTTGACAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAA
* * *** *
1851892 TCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGTACTGTCTT
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1851933 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1851998 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1852038 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTG-GAAA-GTTGTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATG-T-TTGTTGACA
*
1852101 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
64 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1852143 GAGTCCAATATCCTTCGTTGTGAGGTTGAAATTGGCTCT---A---A-AAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1852201 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1852241 GAGTCCAATGTCCTTCGTTGTGAGGTTGAAATTGGCTCT-AAATTTGAGAAATGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA-TTGAGAAATGTTTGTTGACAA
1852305 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1852346 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGATCTGAAATTAAGAAATGTTTATTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
* *
1852411 TAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1852451 GAGTCCAATATTCTTCGTTGTAAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1852516 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1852556 GAGTCCAATATCCTTCGTTGCGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1852621 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1852661 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
1852726 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCCG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1852766 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTAAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1852831 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1852871 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATGGAGAAATGTTTGGTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1852936 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1852976 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1853016 GGTAAAACCT
Statistics
Matches: 1028, Mismatches: 43, Indels: 25
0.94 0.04 0.02
Matches are distributed among these distances:
98 88 0.09
99 4 0.00
100 2 0.00
102 1 0.00
103 1 0.00
104 6 0.01
105 875 0.85
106 51 0.05
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:1853832 original size:49 final size:51
Alignment explanation
Indices: 1853771--1853867 Score: 142
Period size: 50 Copynumber: 1.9 Consensus size: 51
1853761 TTTTTTCCTC
* * * *
1853771 TTTTTTCTTTTTTCAATTTAGGGTGCCCTTTCGGGTTTTCACCCTAAACGT
1 TTTTTTCTTTTTTCAACTTAGGATGCCCTCTCGGATTTTCACCCTAAACGT
*
1853822 TTTTTT-TTTTTTCAACTTAGGATGCCCTCTCGGATTTTCATCCTAA
1 TTTTTTCTTTTTTCAACTTAGGATGCCCTCTCGGATTTTCACCCTAA
1853868 GCGAAGTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
50 35 0.85
51 6 0.15
ACGTcount: A:0.15, C:0.22, G:0.13, T:0.49
Consensus pattern (51 bp):
TTTTTTCTTTTTTCAACTTAGGATGCCCTCTCGGATTTTCACCCTAAACGT
Found at i:1863280 original size:10 final size:10
Alignment explanation
Indices: 1863255--1863288 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
1863245 AGCGTTAGTA
*
1863255 AAATAGAAAT
1 AAATAAAAAT
*
1863265 AGATAAAAAT
1 AAATAAAAAT
1863275 AAATAAAAAT
1 AAATAAAAAT
1863285 AAAT
1 AAAT
1863289 GGTAAATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:1868539 original size:21 final size:23
Alignment explanation
Indices: 1868499--1868551 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
1868489 TGATTTCTCC
*
1868499 TCATCTGCATTTGAAAACT-AAA
1 TCATCTACATTTGAAAACTAAAA
1868521 TCATCTACATTTG-AAACTAAAA
1 TCATCTACATTTGAAAACTAAAA
1868543 TCATCTACA
1 TCATCTACA
1868552 CATATGAGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 5 0.17
22 24 0.83
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.32
Consensus pattern (23 bp):
TCATCTACATTTGAAAACTAAAA
Found at i:1871494 original size:50 final size:49
Alignment explanation
Indices: 1871394--1871494 Score: 141
Period size: 50 Copynumber: 2.0 Consensus size: 49
1871384 CAGAGAAGAC
* *
1871394 TTCGTATTGAAAAGGACTACTGTAAAAAGAAATGGTCCTAAAACTATTTT
1 TTCGAATTGAAAAGGACTACTGTAAAAAG-AATGGTCCAAAAACTATTTT
**
1871444 TTCGAATTGAAAAGGACTACTGTAGAAAAG-ATTTTCCAAAAACTATTTT
1 TTCGAATTGAAAAGGACTACTGTA-AAAAGAATGGTCCAAAAACTATTTT
1871493 TT
1 TT
1871495 AGCTTTAAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
49 18 0.39
50 23 0.50
51 5 0.11
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.34
Consensus pattern (49 bp):
TTCGAATTGAAAAGGACTACTGTAAAAAGAATGGTCCAAAAACTATTTT
Found at i:1873687 original size:16 final size:18
Alignment explanation
Indices: 1873654--1873691 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
1873644 TGTTAGATTC
1873654 ATTTTTTAAATTTAATTT
1 ATTTTTTAAATTTAATTT
*
1873672 ATTTTTT-AGTTT-ATTT
1 ATTTTTTAAATTTAATTT
1873688 ATTT
1 ATTT
1873692 GTTGATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 4 0.21
18 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
ATTTTTTAAATTTAATTT
Found at i:1874529 original size:15 final size:16
Alignment explanation
Indices: 1874506--1874547 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
1874496 GTCAAATTCG
1874506 ACTCGACTTGAAA-GA
1 ACTCGACTTGAAATGA
* *
1874521 ACTCAACTT-AAATTA
1 ACTCGACTTGAAATGA
1874536 ACTCGACTTGAA
1 ACTCGACTTGAA
1874548 TAAATTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 3 0.14
15 17 0.77
16 2 0.09
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.26
Consensus pattern (16 bp):
ACTCGACTTGAAATGA
Found at i:1877670 original size:22 final size:22
Alignment explanation
Indices: 1877626--1877668 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1877616 TGCTTTCTCC
*
1877626 TCATCTGCATTTGGAAACTAAA
1 TCATCTACATTTGGAAACTAAA
1877648 TCATCTACATTT-GAAACTAAA
1 TCATCTACATTTGGAAACTAAA
1877669 ATAATCTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (22 bp):
TCATCTACATTTGGAAACTAAA
Found at i:1877675 original size:22 final size:22
Alignment explanation
Indices: 1877628--1877676 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
1877618 CTTTCTCCTC
* *
1877628 ATCTGCATTTGGAAACTAAATC
1 ATCTACATTTGGAAACTAAATA
1877650 ATCTACATTT-GAAACTAAAATA
1 ATCTACATTTGGAAACT-AAATA
1877672 ATCTA
1 ATCTA
1877677 GTGTTGCTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (22 bp):
ATCTACATTTGGAAACTAAATA
Found at i:1881395 original size:22 final size:22
Alignment explanation
Indices: 1881367--1881416 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
1881357 GAAGCATTCA
1881367 GATAATCAAATTCAACTCACTT
1 GATAATCAAATTCAACTCACTT
1881389 GATAATCAAATTCAACTCACTT
1 GATAATCAAATTCAACTCACTT
1881411 GATAAT
1 GATAAT
1881417 TCAACTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.42, C:0.20, G:0.06, T:0.32
Consensus pattern (22 bp):
GATAATCAAATTCAACTCACTT
Found at i:1884057 original size:57 final size:57
Alignment explanation
Indices: 1883895--1884063 Score: 275
Period size: 57 Copynumber: 3.0 Consensus size: 57
1883885 ATACAACCTT
* * * * **
1883895 GTCACGAACAGTAAGGCCCTGAGCACAAAGCCAAGGAACCTGCAAGTAATCAACCCC
1 GTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATTCTTCCCC
*
1883952 GTTACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATTCTTCCCC
1 GTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATTCTTCCCC
1884009 GTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATTCTTCC
1 GTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATTCTTCC
1884064 TCCAACTATA
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 104 1.00
ACGTcount: A:0.33, C:0.30, G:0.21, T:0.16
Consensus pattern (57 bp):
GTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATTCTTCCCC
Found at i:1888890 original size:57 final size:57
Alignment explanation
Indices: 1888664--1888893 Score: 361
Period size: 57 Copynumber: 4.0 Consensus size: 57
1888654 AACCATACAA
* * * * * **
1888664 CCCCGTCACGAACAGTAAGGCCCTGAGCACAAAGCCAATGAACCTGCAAGTAATCAA
1 CCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATTCTT
*
1888721 CCCCGTCACAAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATTCTT
1 CCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATTCTT
* *
1888778 CCCCGTCACGAACAGTAAGGCTATCAGTACAAAGCCGAGGAACCTGCAAGTATTCTT
1 CCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATTCTT
*
1888835 CCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGTCGAGGAACCTGCAAGTATTCTT
1 CCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATTCTT
1888892 CC
1 CC
1888894 TCCAACTATA
Statistics
Matches: 159, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 159 1.00
ACGTcount: A:0.32, C:0.31, G:0.20, T:0.17
Consensus pattern (57 bp):
CCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATTCTT
Found at i:1892563 original size:16 final size:16
Alignment explanation
Indices: 1892533--1892563 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1892523 AATATTGAAA
*
1892533 CTTGAACTCGAAAAAG
1 CTTGAACTCAAAAAAG
1892549 CTTGAACTCAAAAAA
1 CTTGAACTCAAAAAA
1892564 AATTTAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.19
Consensus pattern (16 bp):
CTTGAACTCAAAAAAG
Found at i:1895610 original size:21 final size:23
Alignment explanation
Indices: 1895571--1895621 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
1895561 TGCTTTCTCC
*
1895571 TCATCTGCATTTGGAAACT-AAA
1 TCATCTACATTTGGAAACTAAAA
1895593 TCATCTACATTT-GAAACTAAAA
1 TCATCTACATTTGGAAACTAAAA
1895615 TCATCTA
1 TCATCTA
1895622 GTGTTGCTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (23 bp):
TCATCTACATTTGGAAACTAAAA
Found at i:1897429 original size:20 final size:19
Alignment explanation
Indices: 1897385--1897429 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
1897375 AAATAGACTT
*
1897385 AAAATGAAGGATAAATTGA
1 AAAATAAAGGATAAATTGA
*
1897404 AGAAATAAAGGATCAAATTGC
1 A-AAATAAAGGAT-AAATTGA
1897425 AAAAT
1 AAAAT
1897430 GTCAAAATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 14 0.64
21 7 0.32
ACGTcount: A:0.58, C:0.04, G:0.18, T:0.20
Consensus pattern (19 bp):
AAAATAAAGGATAAATTGA
Found at i:1906432 original size:11 final size:13
Alignment explanation
Indices: 1906416--1906447 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1906406 ACTTGATACT
1906416 AATATTTT-TT-A
1 AATATTTTATTCA
1906427 AATATTTTATTCA
1 AATATTTTATTCA
1906440 AATATTTT
1 AATATTTT
1906448 CAAGAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 2 0.11
13 9 0.47
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (13 bp):
AATATTTTATTCA
Found at i:1906802 original size:19 final size:19
Alignment explanation
Indices: 1906778--1906814 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1906768 TGTTCCCTAA
1906778 TAATTAAT-TTAAAATAAAT
1 TAATTAATGTT-AAATAAAT
1906797 TAATTAATGTTAAATAAA
1 TAATTAATGTTAAATAAA
1906815 AGAATCACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (19 bp):
TAATTAATGTTAAATAAAT
Found at i:1907178 original size:21 final size:21
Alignment explanation
Indices: 1907152--1907198 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
1907142 CGTTAAGATA
1907152 GAATCCATCTGAGTTTTGATC
1 GAATCCATCTGAGTTTTGATC
1907173 GAATCCATCTGAGTTTTGATC
1 GAATCCATCTGAGTTTTGATC
1907194 GAATC
1 GAATC
1907199 AAACTCGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (21 bp):
GAATCCATCTGAGTTTTGATC
Found at i:1917281 original size:19 final size:18
Alignment explanation
Indices: 1917244--1917283 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
1917234 TTGAGTCAGC
*
1917244 AGCTGTTAGGAGTTTGTT
1 AGCTGTTAGGAGGTTGTT
*
1917262 AGCTGTTAGTTAGGTTGTT
1 AGCTGTTAG-GAGGTTGTT
1917281 AGC
1 AGC
1917284 ATGTATACGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.17, C:0.07, G:0.33, T:0.42
Consensus pattern (18 bp):
AGCTGTTAGGAGGTTGTT
Found at i:1921565 original size:6 final size:6
Alignment explanation
Indices: 1921554--1921587 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
1921544 TATATATGCA
1921554 CACACT CACACT CACACT CACACT CACACT CACA
1 CACACT CACACT CACACT CACACT CACACT CACA
1921588 TATATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.35, C:0.50, G:0.00, T:0.15
Consensus pattern (6 bp):
CACACT
Found at i:1925210 original size:24 final size:24
Alignment explanation
Indices: 1925163--1925216 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
1925153 GTGGGCGATA
* *
1925163 ATGGTCAGAATAGTGTCTGACGTG
1 ATGGTCAGAATAGTGCCAGACGTG
1925187 ATGGTCAGAATAGTGGCCAG-CGTG
1 ATGGTCAGAATAGT-GCCAGACGTG
*
1925211 GTGGTC
1 ATGGTC
1925217 GTAATATGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.22, C:0.15, G:0.37, T:0.26
Consensus pattern (24 bp):
ATGGTCAGAATAGTGCCAGACGTG
Found at i:1926552 original size:22 final size:22
Alignment explanation
Indices: 1926522--1926563 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1926512 GGCATGTCAC
**
1926522 ATTTATAAAATTTTAAAATTTT
1 ATTTATAAAAAATTAAAATTTT
*
1926544 ATTTTTAAAAAATTAAAATT
1 ATTTATAAAAAATTAAAATT
1926564 AAAATTTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTTATAAAAAATTAAAATTTT
Found at i:1926588 original size:20 final size:20
Alignment explanation
Indices: 1926547--1926590 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
1926537 AAATTTTATT
1926547 TTTAAAAAATTAAAATTAAAA
1 TTTAAAAAA-TAAAATTAAAA
*
1926568 TTTAAAAAA-AAAACTTGAAA
1 TTTAAAAAATAAAA-TTAAAA
1926588 TTT
1 TTT
1926591 TTCTTAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.19
20 8 0.38
21 9 0.43
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (20 bp):
TTTAAAAAATAAAATTAAAA
Found at i:1928105 original size:14 final size:14
Alignment explanation
Indices: 1928072--1928114 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 14
1928062 CGTTCGTGAA
*
1928072 CGTTCGATTATATGTT
1 CGTTC-ATT-TATGTC
1928088 CGTTCATTTATGTC
1 CGTTCATTTATGTC
1928102 CGTTCATTTATGT
1 CGTTCATTTATGT
1928115 TCATTTATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 18 0.69
15 3 0.12
16 5 0.19
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.51
Consensus pattern (14 bp):
CGTTCATTTATGTC
Found at i:1928118 original size:10 final size:10
Alignment explanation
Indices: 1928103--1928127 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1928093 ATTTATGTCC
1928103 GTTCATTTAT
1 GTTCATTTAT
1928113 GTTCATTTAT
1 GTTCATTTAT
1928123 GTTCA
1 GTTCA
1928128 AACAGAGGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.12, G:0.12, T:0.56
Consensus pattern (10 bp):
GTTCATTTAT
Found at i:1928433 original size:23 final size:23
Alignment explanation
Indices: 1928391--1928481 Score: 94
Period size: 23 Copynumber: 3.9 Consensus size: 23
1928381 GTGTTTGTGT
* **
1928391 TGTTCGTTTATATTTGTTTATTG
1 TGTTCGTTTATGTTCATTTATTG
*
1928414 TGTTCGTTTATGTTCATTTATTA
1 TGTTCGTTTATGTTCATTTATTG
* *
1928437 TGTTTGTTTATGTTCGTTCGT-TTG
1 TGTTCGTTTATGTTCATT--TATTG
*
1928461 TGTTCGTTTACGTTCATTTAT
1 TGTTCGTTTATGTTCATTTAT
1928482 GTTCGTTTAT
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
22 1 0.02
23 36 0.65
24 17 0.31
25 1 0.02
ACGTcount: A:0.12, C:0.09, G:0.18, T:0.62
Consensus pattern (23 bp):
TGTTCGTTTATGTTCATTTATTG
Found at i:1928441 original size:32 final size:32
Alignment explanation
Indices: 1928373--1928441 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 32
1928363 TGAATAAGTT
* * * *
1928373 TGTTTTTTGTGTTTGTGTTGTTCGTTTATATT
1 TGTTTATTGTGTTCGTGTTGTTCATTTATATA
*
1928405 TGTTTATTGTGTTCGTTTATGTTCATTTAT-TA
1 TGTTTATTGTGTTCGTGT-TGTTCATTTATATA
1928437 TGTTT
1 TGTTT
1928442 GTTTATGTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 21 0.68
33 10 0.32
ACGTcount: A:0.10, C:0.04, G:0.19, T:0.67
Consensus pattern (32 bp):
TGTTTATTGTGTTCGTGTTGTTCATTTATATA
Found at i:1928465 original size:37 final size:36
Alignment explanation
Indices: 1928398--1928470 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 36
1928388 TGTTGTTCGT
1928398 TTATATTTGTTTATTGTGTTCGTTTATGTTCATTTA
1 TTATATTTGTTTATTGTGTTCGTTTATGTTCATTTA
* * *
1928434 TTATGTTTGTTTA-TGTTCGTTCGTTTGTGTTCGTTTA
1 TTATATTTGTTTATTG-T-GTTCGTTTATGTTCATTTA
1928471 CGTTCATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 2 0.06
36 13 0.41
37 17 0.53
ACGTcount: A:0.12, C:0.07, G:0.18, T:0.63
Consensus pattern (36 bp):
TTATATTTGTTTATTGTGTTCGTTTATGTTCATTTA
Found at i:1928474 original size:20 final size:20
Alignment explanation
Indices: 1928451--1928490 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1928441 TGTTTATGTT
* *
1928451 CGTTCGTTTGTGTTCGTTTA
1 CGTTCATTTATGTTCGTTTA
1928471 CGTTCATTTATGTTCGTTTA
1 CGTTCATTTATGTTCGTTTA
1928491 TCATTTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.15, G:0.20, T:0.55
Consensus pattern (20 bp):
CGTTCATTTATGTTCGTTTA
Found at i:1932351 original size:14 final size:13
Alignment explanation
Indices: 1932333--1932357 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1932323 AATATGCTAA
1932333 AAAAAAGTGAACT
1 AAAAAAGTGAACT
1932346 AAAAAAGTGAAC
1 AAAAAAGTGAAC
1932358 CGGCAGAGGT
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:0.64, C:0.08, G:0.16, T:0.12
Consensus pattern (13 bp):
AAAAAAGTGAACT
Found at i:1933025 original size:22 final size:22
Alignment explanation
Indices: 1932981--1933026 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
1932971 ATTAATATTT
* **
1932981 TATTTTAAATTATTTATTTTTA
1 TATTTTAAATAATTTATAATTA
*
1933003 TATTTTAACTAATTTATAATTA
1 TATTTTAAATAATTTATAATTA
1933025 TA
1 TA
1933027 CGTTTAGTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
TATTTTAAATAATTTATAATTA
Found at i:1933767 original size:38 final size:38
Alignment explanation
Indices: 1933725--1933804 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
1933715 AACCTGATGA
1933725 TTCACTTACGACATTCAAATAAAAGAATTCATTATAAG
1 TTCACTTACGACATTCAAATAAAAGAATTCATTATAAG
*
1933763 TTCACTTACGACATTCAACTAAAAGAATTCATTATAAG
1 TTCACTTACGACATTCAAATAAAAGAATTCATTATAAG
1933801 TTCA
1 TTCA
1933805 TCATGATTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (38 bp):
TTCACTTACGACATTCAAATAAAAGAATTCATTATAAG
Found at i:1935339 original size:20 final size:20
Alignment explanation
Indices: 1935286--1935343 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 20
1935276 TACCGTAAGG
* *
1935286 GGGTATCGATACCATAGTAT
1 GGGTATCGATACCATGGTAA
*
1935306 GGTAGTATCTATACCATGGTAA
1 GG--GTATCGATACCATGGTAA
1935328 GGGTATCGATACCATG
1 GGGTATCGATACCATG
1935344 AAACAACGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 15 0.47
22 17 0.53
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (20 bp):
GGGTATCGATACCATGGTAA
Found at i:1935387 original size:95 final size:96
Alignment explanation
Indices: 1935219--1935398 Score: 258
Period size: 95 Copynumber: 1.9 Consensus size: 96
1935209 TTGGAATCAA
* * * *
1935219 TATACCATTGTAAGGGTATCGATACCAAGCAAACAACGAATCTAGTTTTGGTATTGATACCGTAA
1 TATACCATGGTAAGGGTATCGATACCAAGCAAACAACGAACCTAATTTTGGTATCGATACCGTAA
**
1935284 GGGGGTATC-GATACCATAGTATGGTAGTATC
66 GGAAGTATCAG-TACCATAGTATGGTAGTATC
*
1935315 TATACCATGGTAAGGGTATCGATACCATG-AAACAACGAACCTAATTTTGGTATCGATACCCG-A
1 TATACCATGGTAAGGGTATCGATACCAAGCAAACAACGAACCTAATTTTGGTATCGATA-CCGTA
1935378 AGGAAGTATCAGTACCATAGT
65 AGGAAGTATCAGTACCATAGT
1935399 GTTGAAGTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
95 44 0.59
96 31 0.41
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (96 bp):
TATACCATGGTAAGGGTATCGATACCAAGCAAACAACGAACCTAATTTTGGTATCGATACCGTAA
GGAAGTATCAGTACCATAGTATGGTAGTATC
Found at i:1935429 original size:95 final size:96
Alignment explanation
Indices: 1935228--1935434 Score: 224
Period size: 95 Copynumber: 2.2 Consensus size: 96
1935218 ATATACCATT
* * * * **
1935228 GTAAGGGTATCGATACCAAGCAAACAACGAATCTAGTTTTGGTATTGATACCGTAAGGGGGTATC
1 GTAAGAGTATCGATACCAAGCAAACAACGAACCTAATTTTGGTATCGATACCGTAAGGAAGTATC
* * *
1935293 GATACCATAGTATGGTAGTATCTATACCATG
66 GATACCATAGTATGGAAGTATCGATACCAGG
* *
1935324 GTAAGGGTATCGATACCATG-AAACAACGAACCTAATTTTGGTATCGATACCCG-AAGGAAGTAT
1 GTAAGAGTATCGATACCAAGCAAACAACGAACCTAATTTTGGTATCGATA-CCGTAAGGAAGTAT
* * * *
1935387 C-AGTACCATAGTGTTGAAGTATCGGTACTAGG
65 CGA-TACCATAGTATGGAAGTATCGATACCAGG
1935419 GT-AGTAGTATCGATAC
1 GTAAG-AGTATCGATAC
1935435 TACTAAGCTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
94 3 0.03
95 69 0.73
96 22 0.23
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (96 bp):
GTAAGAGTATCGATACCAAGCAAACAACGAACCTAATTTTGGTATCGATACCGTAAGGAAGTATC
GATACCATAGTATGGAAGTATCGATACCAGG
Found at i:1936372 original size:64 final size:65
Alignment explanation
Indices: 1936252--1936399 Score: 192
Period size: 64 Copynumber: 2.3 Consensus size: 65
1936242 CATTCATAAG
* * *
1936252 TGCATCGATGCATTCCTTTAAAAAGAAAGAACATCGAATGCCTTTGATGCATCGATGCA-TAGCT
1 TGCATCGATGCA-TCCTTTAAAAAGAAAGAACATCGAATGCATTTGATGCACCGATGCACAAG-T
1936316 AA
64 AA
* * * *
1936318 TGCATCGATGCATCCTTTTAAAATAAA-AACATCGAATGCATTTTATGCACCGATGCACAAGTAG
1 TGCATCGATGCATCCTTTAAAAAGAAAGAACATCGAATGCATTTGATGCACCGATGCACAAGTAA
1936382 TGCATCGATGCATACCTT
1 TGCATCGATGCAT-CCTT
1936400 CATTGAAAGA
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
64 42 0.58
65 19 0.26
66 12 0.16
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (65 bp):
TGCATCGATGCATCCTTTAAAAAGAAAGAACATCGAATGCATTTGATGCACCGATGCACAAGTAA
Found at i:1936905 original size:17 final size:19
Alignment explanation
Indices: 1936883--1936918 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
1936873 GATTTACATG
1936883 AATACATGT-ATAT-ATAT
1 AATACATGTGATATGATAT
1936900 AATACATGTGATATGATAT
1 AATACATGTGATATGATAT
1936919 GAGATATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (19 bp):
AATACATGTGATATGATAT
Found at i:1937145 original size:31 final size:31
Alignment explanation
Indices: 1937052--1937159 Score: 85
Period size: 31 Copynumber: 3.5 Consensus size: 31
1937042 AGTCGAGGGT
* *
1937052 TTTACCTATG-TCTTTCGAGACATATGGACAG
1 TTTACCTAGGTTCTTT-GGGACATATGGACAG
* * * ** * *
1937083 TATACATATGTTCTAAGGAACATATGAACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
*
1937114 TTTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
* *
1937145 -TTGCCGAGGTTCTTT
1 TTTACCTAGGTTCTTT
1937160 ATGACCTCTG
Statistics
Matches: 59, Mismatches: 17, Indels: 3
0.75 0.22 0.04
Matches are distributed among these distances:
30 13 0.22
31 43 0.73
32 3 0.05
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (31 bp):
TTTACCTAGGTTCTTTGGGACATATGGACAG
Found at i:1938890 original size:17 final size:19
Alignment explanation
Indices: 1938849--1938890 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
1938839 AGGAGCGTAG
1938849 GTGTATCGATACACTATCAA
1 GTGTATCGATACAC-ATCAA
*
1938869 GTGTATCGGTACAC-TC-A
1 GTGTATCGATACACATCAA
1938886 GTGTA
1 GTGTA
1938891 AAATATTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 2 0.10
20 13 0.62
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (19 bp):
GTGTATCGATACACATCAA
Found at i:1941126 original size:13 final size:12
Alignment explanation
Indices: 1941097--1941134 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
1941087 AATGGGCAAT
*
1941097 TTTTGAAAACTA
1 TTTTGAAAACAA
1941109 TTTTGAAAACAA
1 TTTTGAAAACAA
1941121 TGTTTGAAAA-AA
1 T-TTTGAAAACAA
1941133 TT
1 TT
1941135 ATAATACGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 1 0.04
12 15 0.62
13 8 0.33
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (12 bp):
TTTTGAAAACAA
Found at i:1941694 original size:21 final size:23
Alignment explanation
Indices: 1941616--1941677 Score: 124
Period size: 23 Copynumber: 2.7 Consensus size: 23
1941606 CACTCCTGAG
1941616 TGTATCGATACACATTAAAGGAA
1 TGTATCGATACACATTAAAGGAA
1941639 TGTATCGATACACATTAAAGGAA
1 TGTATCGATACACATTAAAGGAA
1941662 TGTATCGATACACATT
1 TGTATCGATACACATT
1941678 CATATTGTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (23 bp):
TGTATCGATACACATTAAAGGAA
Found at i:1947845 original size:8 final size:8
Alignment explanation
Indices: 1947832--1947865 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
1947822 CTCAACCCTT
*
1947832 TTTATTTC
1 TTTATTCC
1947840 TTTATTCC
1 TTTATTCC
*
1947848 ATTATTCC
1 TTTATTCC
1947856 TTTATTCC
1 TTTATTCC
1947864 TT
1 TT
1947866 CAAAAATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTATTCC
Found at i:1951040 original size:18 final size:18
Alignment explanation
Indices: 1951011--1951059 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
1951001 TGAATATTTG
*
1951011 TCCCGAATGACCACTATGT
1 TCCCGAAGGACCACTAT-T
1951030 T-CCGAAGGACCACTATT
1 TCCCGAAGGACCACTATT
1951047 TCCCGAAGGACCA
1 TCCCGAAGGACCA
1951060 TTGAAAATCC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 2 0.07
18 25 0.89
19 1 0.04
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (18 bp):
TCCCGAAGGACCACTATT
Found at i:1953867 original size:20 final size:20
Alignment explanation
Indices: 1953842--1953882 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1953832 GAGTTGCTAC
1953842 AATGCAATGACGACAAAGAA
1 AATGCAATGACGACAAAGAA
1953862 AATGCAATGACGACAAAGAA
1 AATGCAATGACGACAAAGAA
1953882 A
1 A
1953883 GATCGAGAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.20, T:0.10
Consensus pattern (20 bp):
AATGCAATGACGACAAAGAA
Found at i:1956419 original size:19 final size:19
Alignment explanation
Indices: 1956395--1956436 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
1956385 TTCTTGAGTA
*
1956395 TAGCCTTGAGCAACAAGTC
1 TAGCCTTGAGCAACAAATC
1956414 TAGCCTTGAGCAACAAATC
1 TAGCCTTGAGCAACAAATC
1956433 TAGC
1 TAGC
1956437 GTTGTTCCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (19 bp):
TAGCCTTGAGCAACAAATC
Found at i:1960477 original size:17 final size:19
Alignment explanation
Indices: 1960436--1960477 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
1960426 AGGAGCATAG
1960436 GTGTATCGGTACACTATCAA
1 GTGTATCGGTACAC-ATCAA
1960456 GTGTATCGGTACAC-TC-A
1 GTGTATCGGTACACATCAA
1960473 GTGTA
1 GTGTA
1960478 AAATATTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.27
18 2 0.09
20 14 0.64
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (19 bp):
GTGTATCGGTACACATCAA
Found at i:1962241 original size:29 final size:29
Alignment explanation
Indices: 1962181--1962242 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 29
1962171 ACTTTGTGAT
*
1962181 AAAGTTTGAGGATTAACTTAAAATTCTAA
1 AAAGTTTGAGGATTAAATTAAAATTCTAA
* *
1962210 AAAGTTTAGAGGTTTAAATTAAAATTTTAA
1 AAAGTTT-GAGGATTAAATTAAAATTCTAA
1962240 AAA
1 AAA
1962243 ATTGAAGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.48, C:0.03, G:0.13, T:0.35
Consensus pattern (29 bp):
AAAGTTTGAGGATTAAATTAAAATTCTAA
Found at i:1965052 original size:17 final size:17
Alignment explanation
Indices: 1965030--1965068 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
1965020 TTGACCGGTC
1965030 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
1965047 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
1965064 TGACC
1 TGACC
1965069 GTTGACTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:1972332 original size:19 final size:18
Alignment explanation
Indices: 1972308--1972356 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
1972298 GCTGCTGGAA
1972308 ACCGGTTTGACTGGTTTCG
1 ACCGGTTTGACT-GTTTCG
* *
1972327 ACCGGTTCGAACTGTTTTG
1 ACCGGTTTG-ACTGTTTCG
*
1972346 ACCGGTCTGAC
1 ACCGGTTTGAC
1972357 CCGACCCTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 2 0.08
19 20 0.80
20 3 0.12
ACGTcount: A:0.14, C:0.24, G:0.29, T:0.33
Consensus pattern (18 bp):
ACCGGTTTGACTGTTTCG
Found at i:1972371 original size:14 final size:14
Alignment explanation
Indices: 1972354--1972399 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
1972344 TGACCGGTCT
*
1972354 GACCCGACCCTACC
1 GACCCGACCCGACC
1972368 GACCCGACCCGACC
1 GACCCGACCCGACC
1972382 GTTGACCCGACCCGACC
1 ---GACCCGACCCGACC
1972399 G
1 G
1972400 TTAACCGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 14 0.50
17 14 0.50
ACGTcount: A:0.20, C:0.52, G:0.22, T:0.07
Consensus pattern (14 bp):
GACCCGACCCGACC
Found at i:1972390 original size:17 final size:17
Alignment explanation
Indices: 1972368--1972401 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1972358 CGACCCTACC
1972368 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
1972385 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
1972402 AACCGTTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.47, G:0.24, T:0.12
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Done.