Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007884.1 Hibiscus syriacus cultivar Beakdansim tig00110264_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: 2814991
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 13
Found at i:1675796 original size:8 final size:8
Alignment explanation
Indices: 1675777--1675844 Score: 52
Period size: 8 Copynumber: 8.4 Consensus size: 8
1675767 ATATTTTGTT
1675777 TTTAATTTA
1 TTTAA-TTA
1675786 TTTAATTA
1 TTTAATTA
1675794 TTTAAATT-
1 TTT-AATTA
1675802 TTTAA-TA
1 TTTAATTA
*
1675809 TTTAAATTT
1 TTT-AATTA
1675818 TTTAA-TA
1 TTTAATTA
*
1675825 TTTTATTTA
1 -TTTAATTA
*
1675834 ATTAATTA
1 TTTAATTA
1675842 TTT
1 TTT
1675845 TGCAGATATA
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
6 1 0.02
7 6 0.13
8 25 0.53
9 15 0.32
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTAATTA
Found at i:1675812 original size:15 final size:16
Alignment explanation
Indices: 1675780--1675827 Score: 71
Period size: 16 Copynumber: 2.9 Consensus size: 16
1675770 TTTTGTTTTT
1675780 AATTTATTTAATTATTTA
1 AATTT-TTTAA-TATTTA
1675798 AA-TTTTTAATATTTA
1 AATTTTTTAATATTTA
1675813 AATTTTTTAATATTT
1 AATTTTTTAATATTT
1675828 TATTTAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.28
16 17 0.59
17 2 0.07
18 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTTTTTAATATTTA
Found at i:1690178 original size:24 final size:24
Alignment explanation
Indices: 1690149--1690198 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1690139 TGGTGGTTGA
*
1690149 TTTAATGGT-TGTTTAAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
1690173 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
1690197 TT
1 TT
1690199 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:1693564 original size:51 final size:49
Alignment explanation
Indices: 1693509--1693617 Score: 112
Period size: 51 Copynumber: 2.2 Consensus size: 49
1693499 AGCAGCAAAG
* * **
1693509 CGCGCGCCCTGAAT-CGCGTTATACGTTGATTTGGCGTCACGTGGAGTATAA
1 CGCGC-CCCT-AATCCGCGATATACGGTGATTTGGCACCACGTGG-GTATAA
* *
1693560 CGCGCCCCTTATCCCGCGATATACGGTGATTTGGCACCACGTGGGTATAG
1 CGCGCCCCTAAT-CCGCGATATACGGTGATTTGGCACCACGTGGGTATAA
*
1693610 TGCGCCCC
1 CGCGCCCC
1693618 CTGATCCATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
49 2 0.04
50 16 0.33
51 31 0.63
ACGTcount: A:0.17, C:0.29, G:0.28, T:0.25
Consensus pattern (49 bp):
CGCGCCCCTAATCCGCGATATACGGTGATTTGGCACCACGTGGGTATAA
Found at i:1693619 original size:51 final size:51
Alignment explanation
Indices: 1693523--1693624 Score: 125
Period size: 51 Copynumber: 2.0 Consensus size: 51
1693513 CGCCCTGAAT
* * ** *
1693523 CGCGTTATACGTTGATTTGGCGTCACGTGGAGTATAACGCGCCCCTTATCC
1 CGCGATATACGGTGATTTGGCACCACGTGGAGTATAACGCGCCCCTGATCC
**
1693574 CGCGATATACGGTGATTTGGCACCACGTGG-GTATAGTGCGCCCCCTGATCC
1 CGCGATATACGGTGATTTGGCACCACGTGGAGTATAACGCG-CCCCTGATCC
1693625 ATGCTATAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 8 0.19
51 35 0.81
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.26
Consensus pattern (51 bp):
CGCGATATACGGTGATTTGGCACCACGTGGAGTATAACGCGCCCCTGATCC
Found at i:1693865 original size:17 final size:18
Alignment explanation
Indices: 1693828--1693866 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1693818 ATATTATGTA
1693828 TTTAATTTATTTAAGTAT
1 TTTAATTTATTTAAGTAT
*
1693846 TTTACTTTATTTAA-TAT
1 TTTAATTTATTTAAGTAT
1693863 TTTA
1 TTTA
1693867 GTAATATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTAATTTATTTAAGTAT
Found at i:1694124 original size:111 final size:111
Alignment explanation
Indices: 1693942--1694151 Score: 393
Period size: 111 Copynumber: 1.9 Consensus size: 111
1693932 ATCGCTACAC
* *
1693942 TTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGTTGAT
1 TTTGCTGATACGATAACATTTTAACGTTTTAATTTAAATTAAATTATTAGTAATAATTAGTTGAT
1694007 TTATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCGACAT
66 TTATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCGACAT
*
1694053 TTTGCTGATATGATAACATTTTAACGTTTTAATTTAAATTAAATTATTAGTAATAATTAGTTGAT
1 TTTGCTGATACGATAACATTTTAACGTTTTAATTTAAATTAAATTATTAGTAATAATTAGTTGAT
1694118 TTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TTATTTAATGCATGATTATTAGATTAAGAATTAA
1694152 TTTTTGTAAT
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 96 1.00
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.46
Consensus pattern (111 bp):
TTTGCTGATACGATAACATTTTAACGTTTTAATTTAAATTAAATTATTAGTAATAATTAGTTGAT
TTATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCGACAT
Found at i:1696053 original size:12 final size:12
Alignment explanation
Indices: 1696036--1696060 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1696026 ATATGCTCAG
1696036 GACGACGACGAT
1 GACGACGACGAT
1696048 GACGACGACGAT
1 GACGACGACGAT
1696060 G
1 G
1696061 GTGATGATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.24, G:0.36, T:0.08
Consensus pattern (12 bp):
GACGACGACGAT
Found at i:1701083 original size:34 final size:34
Alignment explanation
Indices: 1701032--1701136 Score: 201
Period size: 34 Copynumber: 3.1 Consensus size: 34
1701022 CGTTTTAAAA
1701032 AGATTGATTTTCTCACATTATATTCTTCAAAATGC
1 AGATTGA-TTTCTCACATTATATTCTTCAAAATGC
1701067 AGATTGATTTCTCACATTATATTCTTCAAAATGC
1 AGATTGATTTCTCACATTATATTCTTCAAAATGC
1701101 AGATTGATTTCTCACATTATATTCTTCAAAATGC
1 AGATTGATTTCTCACATTATATTCTTCAAAATGC
1701135 AG
1 AG
1701137 TGGTTTGAAG
Statistics
Matches: 70, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
34 63 0.90
35 7 0.10
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (34 bp):
AGATTGATTTCTCACATTATATTCTTCAAAATGC
Found at i:1716755 original size:16 final size:16
Alignment explanation
Indices: 1716734--1716767 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1716724 CTTGACATGA
1716734 TTATGTTGAAGATGGG
1 TTATGTTGAAGATGGG
1716750 TTATGTTGAAGATGGG
1 TTATGTTGAAGATGGG
1716766 TT
1 TT
1716768 TTGGAGAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (16 bp):
TTATGTTGAAGATGGG
Found at i:1726397 original size:23 final size:22
Alignment explanation
Indices: 1726322--1726399 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 22
1726312 ATACTAAAGG
* *
1726322 GAGTATCGATAACACATGAGGGG
1 GAGTATCGATACCACATGA-GGA
* * *
1726345 GAGTATCGTTACC-CA-AAGAA
1 GAGTATCGATACCACATGAGGA
*
1726365 GAGTACCGATACCACATGAGGA
1 GAGTATCGATACCACATGAGGA
1726387 GAAGTATCGATAC
1 G-AGTATCGATAC
1726400 TCAGGGTGTA
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
20 12 0.29
21 3 0.07
22 6 0.14
23 21 0.50
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (22 bp):
GAGTATCGATACCACATGAGGA
Found at i:1727738 original size:50 final size:50
Alignment explanation
Indices: 1727680--1727779 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 50
1727670 GTGCTATGAC
* * **
1727680 ATGGAGGTTC-CTGCATGTTGCTCCTTTTGTGGGTTTTAAGGAGGTTGTCG
1 ATGGAGGTTCTC-GCATGCTACTCCTTTTGTGGGAATTAAGGAGGTTGTCG
* *
1727730 ATGGAGGTTCTCGCATGCTATTCCTTTTGTGGGAATTAAGGTGGTTGTCG
1 ATGGAGGTTCTCGCATGCTACTCCTTTTGTGGGAATTAAGGAGGTTGTCG
1727780 GGTGCATTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 42 0.98
51 1 0.02
ACGTcount: A:0.14, C:0.14, G:0.33, T:0.39
Consensus pattern (50 bp):
ATGGAGGTTCTCGCATGCTACTCCTTTTGTGGGAATTAAGGAGGTTGTCG
Found at i:1728698 original size:37 final size:37
Alignment explanation
Indices: 1728622--1728698 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
1728612 TTTTTATATT
*
1728622 TTTAATTTTATAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTATAAAAAAAATTATATAAATATTATCAA
* * *
1728659 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTATAAAAAAAATTATATAAATATTAT-CAA
1728696 TTT
1 TTT
1728699 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (37 bp):
TTTAATTTTATAAAAAAAATTATATAAATATTATCAA
Found at i:1733251 original size:19 final size:19
Alignment explanation
Indices: 1733222--1733279 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 19
1733212 AAGAGAATAT
*
1733222 AACAAAAATCAGAGATCAG
1 AACATAAATCAGAGATCAG
* * * *
1733241 AACATATATCAAAGTTTAG
1 AACATAAATCAGAGATCAG
* *
1733260 AGCATAAATCAGAGGTCAG
1 AACATAAATCAGAGATCAG
1733279 A
1 A
1733280 CTGTATTTCA
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (19 bp):
AACATAAATCAGAGATCAG
Found at i:1736746 original size:20 final size:20
Alignment explanation
Indices: 1736721--1736768 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
1736711 GGTCAGGTTG
1736721 ACTCGGTTCGAGTCGAGTTA
1 ACTCGGTTCGAGTCGAGTTA
1736741 ACTCGGTTCGAGTCGAGTTA
1 ACTCGGTTCGAGTCGAGTTA
1736761 ACTCGGTT
1 ACTCGGTT
1736769 TGGGTCAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (20 bp):
ACTCGGTTCGAGTCGAGTTA
Found at i:1743136 original size:107 final size:109
Alignment explanation
Indices: 1742935--1743151 Score: 287
Period size: 107 Copynumber: 2.0 Consensus size: 109
1742925 CCCAGAAAGT
* * * *
1742935 TAATATAATTATGTATATATATAATAAAGTTGAGATATTCCTCTAAAGAAATTGGTTAAAAACTT
1 TAATATAATTATGTATATATACAATAAAGCTGAGATATTCCTCCAAAGAAATTGGTTAAAAACCT
* * *
1743000 TGGCTTTATGGATAAATTCTTCCAGCTAGCCAAATACAGGCAAA
66 TGGATTTATGGATAAATTCTTCCAGCTAGCCAAATAAAAGCAAA
* * *
1743044 TAATAT-A-TATGTATATATACAATAAAGCTGAGTTATTCCTCCAAAGTAATTGGTTAAAAGCCT
1 TAATATAATTATGTATATATACAATAAAGCTGAGATATTCCTCCAAAGAAATTGGTTAAAAACCT
* * *
1743107 TGGATTTATGGATATATTCATT-TATCTAGCCAAATAAAAGCAAA
66 TGGATTTATGGATAAATTC-TTCCAGCTAGCCAAATAAAAGCAAA
1743151 T
1 T
1743152 TAAATTAAAT
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
107 85 0.90
108 3 0.03
109 6 0.06
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (109 bp):
TAATATAATTATGTATATATACAATAAAGCTGAGATATTCCTCCAAAGAAATTGGTTAAAAACCT
TGGATTTATGGATAAATTCTTCCAGCTAGCCAAATAAAAGCAAA
Found at i:1743712 original size:50 final size:49
Alignment explanation
Indices: 1743651--1743760 Score: 157
Period size: 50 Copynumber: 2.2 Consensus size: 49
1743641 AAAAAAAAAA
* * * *
1743651 CTTCATCAAACATTTCTCAAAATTCTTTCATTAAACATTCTTCAAAATTT
1 CTTCATAAAACATTTCTCAAAATACTTTCATAAAACATT-TTCAAAACTT
*
1743701 CTTCATAAAACATTTTTCAAAATACTTTCATAAAACATTTTCAAAACTT
1 CTTCATAAAACATTTCTCAAAATACTTTCATAAAACATTTTCAAAACTT
*
1743750 CTTCATTAAAC
1 CTTCATAAAAC
1743761 TTTTTCACAT
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
49 19 0.35
50 35 0.65
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.40
Consensus pattern (49 bp):
CTTCATAAAACATTTCTCAAAATACTTTCATAAAACATTTTCAAAACTT
Found at i:1743765 original size:24 final size:24
Alignment explanation
Indices: 1743651--1743767 Score: 130
Period size: 25 Copynumber: 4.8 Consensus size: 24
1743641 AAAAAAAAAA
* *
1743651 CTTCATCAAACATTTCTCAAAATT
1 CTTCATAAAACATTTTTCAAAATT
* *
1743675 CTTTCATTAAACATTCTTCAAAATTT
1 C-TTCATAAAACATTTTTCAAAA-TT
*
1743701 CTTCATAAAACATTTTTCAAAATA
1 CTTCATAAAACATTTTTCAAAATT
1743725 CTTTCATAAAACA-TTTTCAAAACTT
1 C-TTCATAAAACATTTTTCAAAA-TT
*
1743750 CTTCATTAAAC-TTTTTCA
1 CTTCATAAAACATTTTTCA
1743768 CATTTTGAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
24 27 0.34
25 50 0.62
26 3 0.04
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.42
Consensus pattern (24 bp):
CTTCATAAAACATTTTTCAAAATT
Found at i:1744482 original size:17 final size:18
Alignment explanation
Indices: 1744456--1744489 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1744446 CTCGAAAAGA
*
1744456 AAAAATAGAAACGAAAAT
1 AAAAATAGAAAAGAAAAT
1744474 AAAAA-AGAAAAGAAAA
1 AAAAATAGAAAAGAAAA
1744490 AAAGAAGCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.79, C:0.03, G:0.12, T:0.06
Consensus pattern (18 bp):
AAAAATAGAAAAGAAAAT
Found at i:1745021 original size:12 final size:12
Alignment explanation
Indices: 1745004--1745028 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1744994 CTCAAACAGA
1745004 GAGAATGAACGT
1 GAGAATGAACGT
1745016 GAGAATGAACGT
1 GAGAATGAACGT
1745028 G
1 G
1745029 TTGCATTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.36, T:0.16
Consensus pattern (12 bp):
GAGAATGAACGT
Found at i:1745090 original size:29 final size:29
Alignment explanation
Indices: 1745057--1745112 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
1745047 TCCCAACACA
* *
1745057 TAGGTCGCCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCACTCCGGACGACCTTG
1745086 TAGGTCGCCATGCACTCCGGACGACCT
1 TAGGTCGCCATGCACTCCGGACGACCT
1745113 ACCCTCGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.14, C:0.38, G:0.29, T:0.20
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCGGACGACCTTG
Found at i:1745153 original size:33 final size:33
Alignment explanation
Indices: 1745128--1745204 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 33
1745118 CGCTTGGCTT
*
1745128 CCCTCGGATTCCCTCGCATAGCTCGCTCGGTTG
1 CCCTCGGATGCCCTCGCATAGCTCGCTCGGTTG
* * *
1745161 CCCTCTGATGCCCTCGCATAGCTCGTTCGGATG
1 CCCTCGGATGCCCTCGCATAGCTCGCTCGGTTG
*
1745194 GCCTCGGATGC
1 CCCTCGGATGC
1745205 TCTCAGATGG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.10, C:0.38, G:0.26, T:0.26
Consensus pattern (33 bp):
CCCTCGGATGCCCTCGCATAGCTCGCTCGGTTG
Found at i:1745314 original size:29 final size:29
Alignment explanation
Indices: 1745277--1745334 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
1745267 GCAATCTCTT
*
1745277 GTAGCTCGCCGGGAAGACATGGCGACCTA
1 GTAGCTCGCCCGGAAGACATGGCGACCTA
* *
1745306 GTAGGTCGCCCGGAAGGCATGGCGACCTA
1 GTAGCTCGCCCGGAAGACATGGCGACCTA
1745335 CGGCCAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.22, C:0.28, G:0.36, T:0.14
Consensus pattern (29 bp):
GTAGCTCGCCCGGAAGACATGGCGACCTA
Found at i:1747219 original size:10 final size:11
Alignment explanation
Indices: 1747204--1747267 Score: 53
Period size: 10 Copynumber: 5.7 Consensus size: 11
1747194 TTATTATAAT
1747204 TATATTT-TTA
1 TATATTTATTA
1747214 TATATTTATTA
1 TATATTTATTA
1747225 TA-ATTTAAATTGA
1 TATATTT--ATT-A
*
1747238 TATATTCATATA
1 TATATTTAT-TA
*
1747250 TAAATTTATTA
1 TATATTTATTA
1747261 TA-ATTTA
1 TATATTTA
1747268 AATCGATATA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
10 16 0.36
11 9 0.20
12 13 0.29
13 4 0.09
14 3 0.07
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (11 bp):
TATATTTATTA
Found at i:1747251 original size:25 final size:25
Alignment explanation
Indices: 1747186--1747257 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 25
1747176 TTATATAAAA
* ** *
1747186 ATATATTCTTATTATAATTATATTTTT
1 ATATATTCATA-TATAATT-TAAATTG
*
1747213 ATATATTTAT-TATAATTTAAATTG
1 ATATATTCATATATAATTTAAATTG
1747237 ATATATTCATATATAAATTTA
1 ATATATTCATATAT-AATTTA
1747258 TTATAATTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
24 13 0.35
25 10 0.27
26 6 0.16
27 8 0.22
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (25 bp):
ATATATTCATATATAATTTAAATTG
Found at i:1747264 original size:36 final size:37
Alignment explanation
Indices: 1747212--1747289 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
1747202 ATTATATTTT
* * *
1747212 TATATATTTATTATAATTTAAATTGATAT-ATTCATA
1 TATAAATTTATTATAATTTAAATCGATATAATTCACA
1747248 TATAAATTTATTATAATTTAAATCGATATAATTCACA
1 TATAAATTTATTATAATTTAAATCGATATAATTCACA
1747285 TATAA
1 TATAA
1747290 GTGTAAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 27 0.71
37 11 0.29
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (37 bp):
TATAAATTTATTATAATTTAAATCGATATAATTCACA
Found at i:1747269 original size:16 final size:16
Alignment explanation
Indices: 1747217--1747270 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 16
1747207 ATTTTTATAT
1747217 ATTTATTATAATTTAA
1 ATTTATTATAATTTAA
* *
1747233 ATTGATATATTCATATATAA
1 ATTTAT-TA-T-A-ATTTAA
1747253 ATTTATTATAATTTAA
1 ATTTATTATAATTTAA
1747269 AT
1 AT
1747271 CGATATAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
16 12 0.40
17 3 0.10
18 2 0.07
19 3 0.10
20 10 0.33
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (16 bp):
ATTTATTATAATTTAA
Found at i:1747629 original size:13 final size:14
Alignment explanation
Indices: 1747607--1747643 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
1747597 ATCAAACAGT
1747607 TACA-TTTTAAAC-
1 TACACTTTTAAACG
1747619 TACACTTTTAAACG
1 TACACTTTTAAACG
1747633 T-CACTTTTAAA
1 TACACTTTTAAA
1747644 AGTTTGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.17
13 18 0.78
14 1 0.04
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.41
Consensus pattern (14 bp):
TACACTTTTAAACG
Found at i:1747973 original size:22 final size:22
Alignment explanation
Indices: 1747924--1747974 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
1747914 GATTCGAACT
*
1747924 CAAAATTCTATTTAACACTTAC
1 CAAAATTCTATTTAACACTCAC
* *
1747946 CTAAATTC-CTTTAACACTCCAC
1 CAAAATTCTATTTAACACT-CAC
1747968 CAAAATT
1 CAAAATT
1747975 AACCTTTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.33
Consensus pattern (22 bp):
CAAAATTCTATTTAACACTCAC
Found at i:1751591 original size:14 final size:14
Alignment explanation
Indices: 1751574--1751620 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
1751564 TATTTAGTAC
1751574 TTTTTATTGTAG-T
1 TTTTTATTGTAGAT
*
1751587 TTTTTA-T-TAGAC
1 TTTTTATTGTAGAT
*
1751599 TTTTTATTGTAAAT
1 TTTTTATTGTAGAT
1751613 TTTTTATT
1 TTTTTATT
1751621 TATCATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
11 3 0.11
12 7 0.25
13 7 0.25
14 11 0.39
ACGTcount: A:0.21, C:0.02, G:0.09, T:0.68
Consensus pattern (14 bp):
TTTTTATTGTAGAT
Found at i:1751600 original size:25 final size:27
Alignment explanation
Indices: 1751567--1751620 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 27
1751557 ATATTTGTAT
*
1751567 TTAGTACTTTTTATTGT-AGTTTTTTA
1 TTAGTACTTTTTATTGTAAATTTTTTA
1751593 TTAG-ACTTTTTATTGTAAATTTTTTA
1 TTAGTACTTTTTATTGTAAATTTTTTA
1751619 TT
1 TT
1751621 TATCATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.22, C:0.04, G:0.09, T:0.65
Consensus pattern (27 bp):
TTAGTACTTTTTATTGTAAATTTTTTA
Found at i:1755101 original size:15 final size:16
Alignment explanation
Indices: 1755069--1755101 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1755059 TCAAATAATC
*
1755069 ATAATAAACAATAAGT
1 ATAATAAACAAAAAGT
1755085 ATAATAAA-AAAAAGT
1 ATAATAAACAAAAAGT
1755100 AT
1 AT
1755102 CACAGAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.24
Consensus pattern (16 bp):
ATAATAAACAAAAAGT
Found at i:1756648 original size:6 final size:6
Alignment explanation
Indices: 1756638--1756671 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
1756628 AAAAAATTAG
* *
1756638 AAAAAT TAAAAT GAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1756672 CGGTAAGCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:1757741 original size:21 final size:21
Alignment explanation
Indices: 1757692--1757751 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 21
1757682 TATAACATTC
*
1757692 TTTAAATTATAATT-T-TTAT
1 TTTAAATTATAATTATATTTT
1757711 TTTAAA--ATAATTATATTTT
1 TTTAAATTATAATTATATTTT
*
1757730 TTTAAATTATAAGTATCATTTT
1 TTTAAATTATAATTAT-ATTTT
1757752 ATTTTTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
17 6 0.18
18 1 0.03
19 15 0.44
21 7 0.21
22 5 0.15
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTAAATTATAATTATATTTT
Found at i:1759365 original size:14 final size:13
Alignment explanation
Indices: 1759334--1759366 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1759324 TAAGTCACCC
1759334 TAAAAACACTAAG
1 TAAAAACACTAAG
*
1759347 TAAAAACACTTAG
1 TAAAAACACTAAG
1759360 TAAAAAC
1 TAAAAAC
1759367 GTAGAAGCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.61, C:0.15, G:0.06, T:0.18
Consensus pattern (13 bp):
TAAAAACACTAAG
Found at i:1759924 original size:13 final size:12
Alignment explanation
Indices: 1759906--1759975 Score: 70
Period size: 13 Copynumber: 5.6 Consensus size: 12
1759896 GGAAAAAATG
1759906 AATAAATGAAAAA
1 AATAAAT-AAAAA
*
1759919 AATAAAGAATAAA
1 AATAAATAA-AAA
*
1759932 AATAAGTAAAAA
1 AATAAATAAAAA
1759944 AATAAAATAAAAA
1 AAT-AAATAAAAA
*
1759957 GAA-AAATAAATA
1 -AATAAATAAAAA
1759969 AATAAAT
1 AATAAAT
1759976 GAAATATTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
11 2 0.04
12 20 0.42
13 24 0.50
14 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (12 bp):
AATAAATAAAAA
Found at i:1759965 original size:29 final size:30
Alignment explanation
Indices: 1759899--1759981 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 30
1759889 GTTAGAGGGA
* * *
1759899 AAAAATGAATAAATGAAA-AAAATAAAGAAT
1 AAAAATAAATAAA-AAAATAAAATAAAGAAG
*
1759929 AAAAATAAGTAAAAAAATAAAATAAA-AAG
1 AAAAATAAATAAAAAAATAAAATAAAGAAG
* *
1759958 AAAAATAAATAAATAAATGAAATA
1 AAAAATAAATAAAAAAATAAAATA
1759982 TTAATATATA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
29 26 0.58
30 19 0.42
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (30 bp):
AAAAATAAATAAAAAAATAAAATAAAGAAG
Found at i:1760306 original size:19 final size:19
Alignment explanation
Indices: 1760270--1760321 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
1760260 GTAAAATATT
1760270 TTAAAAAAGTATATATATA-TA
1 TTAAAAAA-TA-A-ATATAGTA
*
1760291 TATAAATAATAAATATAGTA
1 T-TAAAAAATAAATATAGTA
1760311 TTAAAAAATAA
1 TTAAAAAATAA
1760322 CCAAATGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 14 0.52
20 4 0.15
21 3 0.11
22 6 0.22
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (19 bp):
TTAAAAAATAAATATAGTA
Found at i:1760893 original size:37 final size:37
Alignment explanation
Indices: 1760852--1760948 Score: 131
Period size: 37 Copynumber: 2.6 Consensus size: 37
1760842 GGATCTTATC
* * *
1760852 TTTAGAAGTTTAAATCATAGTAGAACTCTATCCTATT
1 TTTAGGAGTTTGAATCCTAGTAGAACTCTATCCTATT
* * * *
1760889 TTTAGGAGTTTGAATCCTAGCAAAATTCTATCTTATT
1 TTTAGGAGTTTGAATCCTAGTAGAACTCTATCCTATT
1760926 TTTAGGAGTTTGAATCCTAGTAG
1 TTTAGGAGTTTGAATCCTAGTAG
1760949 GACGAAAAGG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.41
Consensus pattern (37 bp):
TTTAGGAGTTTGAATCCTAGTAGAACTCTATCCTATT
Found at i:1761997 original size:106 final size:106
Alignment explanation
Indices: 1761678--1762523 Score: 1109
Period size: 106 Copynumber: 8.0 Consensus size: 106
1761668 AGCATTGTTC
* * ** *
1761678 TGAGTCCAATATCCTCCG-TCCTGAAGTTGAAATTGGCTCT-AGAACCGGGAAATTGTTTGTTGA
1 TGAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGA-AATTGGGAAATTGTTTATTGA
* * * *
1761741 CAACCAGCCGTCCCTTTGTTGTGAAGTTGAACTTGTGTTGTCT
64 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
1761784 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAAA-T-TTTGTTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
* * * * * **
1761843 ATCAGCCG-CTCATTCATCGTGAAGTTGAGCTTGTATTGTCT
66 ACCAGCGGTC-CCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * * *
1761884 TGGGTCCAAGATTCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
*
1761949 ACCAGCGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
1761990 TGAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
*
1762055 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * ** * **
1762096 GGAGTCCAATATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAAATTAAGAAGTTGTTTGCTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
*
1762161 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
1762202 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
*
1762267 ACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
1762308 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
*
1762373 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTTTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * * * *
1762414 GGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGAAAATT-ATTGTTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
** * *
1762478 ACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
1762519 TGAGT
1 TGAGT
1762524 AGCACGATAT
Statistics
Matches: 658, Mismatches: 72, Indels: 21
0.88 0.10 0.03
Matches are distributed among these distances:
99 1 0.00
100 77 0.12
101 3 0.00
102 5 0.01
104 3 0.00
105 51 0.08
106 516 0.78
107 2 0.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (106 bp):
TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:1763354 original size:22 final size:22
Alignment explanation
Indices: 1763328--1763404 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
1763318 TTATGTTTGG
1763328 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
1763350 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
* *
1763372 TCATAGGTTTGGAATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
1763394 TCAATGGTTTG
1 TCAAAGGTTTG
1763405 ATGGGGTAGC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.22, C:0.12, G:0.27, T:0.39
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:1767508 original size:10 final size:10
Alignment explanation
Indices: 1767489--1767528 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
1767479 ACAGTTAGTA
1767489 AAATAAAAAT
1 AAATAAAAAT
*
1767499 AAATAGAAAT
1 AAATAAAAAT
1767509 AAATAAAAAAT
1 AAAT-AAAAAT
*
1767520 AATTAAAAA
1 AAATAAAAA
1767529 AATAAATGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
10 18 0.69
11 8 0.31
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:1767514 original size:20 final size:18
Alignment explanation
Indices: 1767488--1767534 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 18
1767478 AACAGTTAGT
1767488 AAAATAAAAATAAATAGAA
1 AAAATAAAAATAAATA-AA
*
1767507 ATAAATAAAAAATAATTAAA
1 A-AAAT-AAAAATAAATAAA
1767527 AAAATAAA
1 AAAATAAA
1767535 TGGCAAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 3 0.12
19 5 0.20
20 7 0.28
21 10 0.40
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (18 bp):
AAAATAAAAATAAATAAA
Found at i:1768474 original size:16 final size:15
Alignment explanation
Indices: 1768453--1768546 Score: 62
Period size: 16 Copynumber: 5.7 Consensus size: 15
1768443 TGTTAGAGGG
1768453 AAAAAATGAATAAATA
1 AAAAAATGAA-AAATA
*
1768469 AAAAAATGAAGAATA
1 AAAAAATGAAAAATA
*
1768484 AAAATAAGTAAAAAAAATAA
1 AAAA-AA-T--GAAAAAT-A
*
1768504 AATAAAAGGAAAAATA
1 AA-AAAATGAAAAATA
* *
1768520 AATAAATAAATAAATA
1 AAAAAATGAA-AAATA
*
1768536 AATAAATGAAA
1 AAAAAATGAAA
1768547 TATTAAAATA
Statistics
Matches: 62, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
15 14 0.23
16 29 0.47
17 7 0.11
19 5 0.08
20 5 0.08
21 2 0.03
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (15 bp):
AAAAAATGAAAAATA
Found at i:1768524 original size:4 final size:4
Alignment explanation
Indices: 1768515--1768548 Score: 59
Period size: 4 Copynumber: 8.2 Consensus size: 4
1768505 ATAAAAGGAA
1768515 AAAT AAAT AAAT AAAT AAAT AAAT AAAT GAAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT A
1768549 TTAAAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:1768561 original size:2 final size:2
Alignment explanation
Indices: 1768554--1768610 Score: 96
Period size: 2 Copynumber: 28.5 Consensus size: 2
1768544 AAATATTAAA
* *
1768554 AT AT AT AT AT AT AT AT TT TT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1768596 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
1768611 AATGAGTAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:1768913 original size:23 final size:23
Alignment explanation
Indices: 1768873--1768928 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
1768863 AAGTAAAATT
*
1768873 TTTAAAAA-AAGTATATATATATA
1 TTTAAAAATAAGTAAATATA-ATA
*
1768896 TTTAAAAATAA-TAAATATAGTA
1 TTTAAAAATAAGTAAATATAATA
*
1768918 TTAAAAAATAA
1 TTTAAAAATAA
1768929 CCAAATGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 12 0.41
23 15 0.52
24 2 0.07
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (23 bp):
TTTAAAAATAAGTAAATATAATA
Found at i:1769505 original size:37 final size:37
Alignment explanation
Indices: 1769464--1769558 Score: 145
Period size: 37 Copynumber: 2.6 Consensus size: 37
1769454 GGATCATATC
* * *
1769464 TTTAGGAGTTTAAATCATAGTAGAACTCTATCCTATT
1 TTTAGGAGTTTGAATCCTAGTAAAACTCTATCCTATT
* *
1769501 TTTAGGAGTTTGAATCCTAGCAAAATTCTATCCTATT
1 TTTAGGAGTTTGAATCCTAGTAAAACTCTATCCTATT
1769538 TTTAGGAGTTTGAATCCTAGT
1 TTTAGGAGTTTGAATCCTAGT
1769559 TAGACGAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (37 bp):
TTTAGGAGTTTGAATCCTAGTAAAACTCTATCCTATT
Found at i:1770405 original size:21 final size:22
Alignment explanation
Indices: 1770366--1770406 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1770356 CATATTGCTC
1770366 AGAGGGAACCGATTCCCCCCCA
1 AGAGGGAACCGATTCCCCCCCA
*
1770388 AGAGGGTACCGA-TCCCCCC
1 AGAGGGAACCGATTCCCCCC
1770407 TGAATGGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.24, C:0.41, G:0.24, T:0.10
Consensus pattern (22 bp):
AGAGGGAACCGATTCCCCCCCA
Found at i:1776207 original size:22 final size:23
Alignment explanation
Indices: 1776171--1776226 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
1776161 TAGTGCAAGA
*
1776171 GGAATCGA-TCCCCC-TTGAAAG
1 GGAACCGATTCCCCCTTTGAAAG
*
1776192 GGAACCGATTCCCCCTTTGAAGG
1 GGAACCGATTCCCCCTTTGAAAG
1776215 GGAACCGATTCC
1 GGAACCGATTCC
1776227 TCCCACAGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 7 0.23
22 6 0.19
23 18 0.58
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (23 bp):
GGAACCGATTCCCCCTTTGAAAG
Found at i:1777870 original size:18 final size:18
Alignment explanation
Indices: 1777832--1777872 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
1777822 AGAACAGCAG
* *
1777832 GAGGAACAAGCTCCACTA
1 GAGGAACAAGCACCACCA
*
1777850 GAGGAACAAGCACGACCA
1 GAGGAACAAGCACCACCA
1777868 GAGGA
1 GAGGA
1777873 TCAAATGCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.24, G:0.29, T:0.05
Consensus pattern (18 bp):
GAGGAACAAGCACCACCA
Found at i:1791409 original size:16 final size:14
Alignment explanation
Indices: 1791370--1791417 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 14
1791360 CTCTTTTCAA
1791370 ATTTTAAATTAAAT
1 ATTTTAAATTAAAT
1791384 ATTTAATAAATTAATAT
1 ATTT--TAAATTAA-AT
1791401 CATTTTAAACTTAAAT
1 -ATTTTAAA-TTAAAT
1791417 A
1 A
1791418 AATTATTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
14 4 0.14
15 1 0.03
16 14 0.48
17 6 0.21
18 4 0.14
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (14 bp):
ATTTTAAATTAAAT
Found at i:1797392 original size:12 final size:12
Alignment explanation
Indices: 1797358--1797393 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
1797348 TAGAAATTTT
*
1797358 GATTACACAAAC
1 GATTACACAACC
1797370 GATTACACAACC
1 GATTACACAACC
1797382 GATTACACAACC
1 GATTACACAACC
1797394 TTTATAGCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.44, C:0.31, G:0.08, T:0.17
Consensus pattern (12 bp):
GATTACACAACC
Found at i:1802675 original size:35 final size:35
Alignment explanation
Indices: 1802624--1802764 Score: 149
Period size: 35 Copynumber: 4.0 Consensus size: 35
1802614 CCTTAGATTC
*
1802624 ATAAGGAATTACCAGTTCGATCGATCTAAACCTAT
1 ATAAGGAATTACCAGTTCGATCGATCTGAACCTAT
* * * * *
1802659 ATAAAGAATTACCAGTTTGATCGAGCTGAACCCACC
1 ATAAGGAATTACCAGTTCGATCGATCTGAACCTA-T
* * *
1802695 GTAAGGAATTA-AAGTTCGATCGGTCTGAACCTAT
1 ATAAGGAATTACCAGTTCGATCGATCTGAACCTAT
* * * *
1802729 ATAAGGAATTATCAGTTTGATTGATTTGAACCTAT
1 ATAAGGAATTACCAGTTCGATCGATCTGAACCTAT
1802764 A
1 A
1802765 GAGAATTCAT
Statistics
Matches: 84, Mismatches: 20, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
34 10 0.12
35 65 0.77
36 9 0.11
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (35 bp):
ATAAGGAATTACCAGTTCGATCGATCTGAACCTAT
Found at i:1810490 original size:8 final size:8
Alignment explanation
Indices: 1810477--1810504 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
1810467 TGAAGGACTT
1810477 ATTTCAGA
1 ATTTCAGA
1810485 ATTTCAGA
1 ATTTCAGA
1810493 ATTTCAGA
1 ATTTCAGA
1810501 ATTT
1 ATTT
1810505 AGAGACTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.43
Consensus pattern (8 bp):
ATTTCAGA
Found at i:1815312 original size:21 final size:20
Alignment explanation
Indices: 1815226--1815383 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
1815216 AAATGACCAA
**
1815226 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
1815245 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
1815265 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
1815285 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
1815306 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
1815327 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
1815347 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
1815368 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1815384 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1815412 original size:20 final size:20
Alignment explanation
Indices: 1815350--1815543 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
1815340 CGATTTTCCA
* ** *
1815350 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
1815370 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
1815390 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1815410 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
1815430 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
1815450 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1815470 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
1815490 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
1815510 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
1815531 AAATCGCAACGCG
1 AAATCGCAACGCG
1815544 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:1815434 original size:60 final size:60
Alignment explanation
Indices: 1815350--1815543 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
1815340 CGATTTTCCA
* ** * *
1815350 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
1815410 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
1815470 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
1815531 AAATCGCAACGCG
1 AAATCGCAACGCG
1815544 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:1815965 original size:33 final size:33
Alignment explanation
Indices: 1815926--1815996 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1815916 TTCACTTAGA
*
1815926 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
1815959 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1815992 TTTCA
1 TTTCA
1815997 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:1816100 original size:21 final size:20
Alignment explanation
Indices: 1816076--1816181 Score: 91
Period size: 21 Copynumber: 5.5 Consensus size: 20
1816066 TGCAGAAGAG
*
1816076 TCGCAATGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* ***
1816097 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAAAATGAAAA
1816117 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
1816138 TCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
1816152 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
1816171 TCGCAACGAGA
1 TCGCAACGAGA
1816182 GAATCGCAAC
Statistics
Matches: 67, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
14 11 0.16
16 2 0.03
17 2 0.03
19 11 0.16
20 16 0.24
21 25 0.37
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:1816120 original size:20 final size:20
Alignment explanation
Indices: 1816089--1816185 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 20
1816079 CAATGAGATA
1816089 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
1816109 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
1816129 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
1816148 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
1816163 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
1816183 AAT
1 AAT
1816186 CGCAACGCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
14 9 0.15
16 4 0.06
17 2 0.03
19 15 0.24
20 20 0.32
21 12 0.19
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:1816133 original size:41 final size:38
Alignment explanation
Indices: 1816069--1816185 Score: 136
Period size: 41 Copynumber: 3.1 Consensus size: 38
1816059 TTCAATTTGC
* * *
1816069 AGAAGAGTCGCAATGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1816107 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
1816148 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1816181 AGAAT
1 AGAAT
1816186 CGCAACGCGA
Statistics
Matches: 70, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
33 23 0.33
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 32 0.46
ACGTcount: A:0.46, C:0.16, G:0.26, T:0.12
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:1816155 original size:14 final size:14
Alignment explanation
Indices: 1816136--1816192 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1816126 GAGAAATGAA
1816136 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1816150 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1816169 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1816183 AATCGCAACG
1 AATCGCAACG
1816193 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1816168 original size:33 final size:33
Alignment explanation
Indices: 1816128--1816208 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
1816118 CGCAACGAGA
1816128 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1816161 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
1816194 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
1816209 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1816226 original size:19 final size:19
Alignment explanation
Indices: 1816204--1816331 Score: 87
Period size: 19 Copynumber: 7.1 Consensus size: 19
1816194 GAAACCAAAA
*
1816204 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1816223 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1816237 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1816256 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1816270 TCTCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* ***
1816290 CTCTCGTTGCGACAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
1816310 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
1816330 TC
1 TC
1816332 AACCAAAAGA
Statistics
Matches: 87, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
14 20 0.23
16 6 0.07
17 6 0.07
19 22 0.25
20 19 0.22
21 14 0.16
ACGTcount: A:0.11, C:0.25, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1816245 original size:14 final size:14
Alignment explanation
Indices: 1816226--1816282 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1816216 TTTCATTTCG
1816226 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1816240 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1816259 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1816273 CGTTGCGATT
1 CGTTGCGATT
1816283 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1816251 original size:33 final size:33
Alignment explanation
Indices: 1816209--1816331 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
1816199 CAAAATCGCA
1816209 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1816242 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
1816275 TTGCGATTTTCATTTCTCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTT--G-C-G--ATTCTCTCG
1816316 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
1816332 AACCAAAAGA
Statistics
Matches: 81, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
33 45 0.56
34 2 0.02
35 6 0.07
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.02
41 21 0.26
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:1816293 original size:21 final size:21
Alignment explanation
Indices: 1816267--1816331 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
1816257 CGCGTTGCGA
1816267 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
1816288 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
1816308 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
1816329 TTC
1 TTC
1816332 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:1818187 original size:93 final size:93
Alignment explanation
Indices: 1818028--1818403 Score: 736
Period size: 93 Copynumber: 4.1 Consensus size: 93
1818018 TAGATTGCTT
*
1818028 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1818093 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1818121 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1818186 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1818214 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1818279 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1818307 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1818372 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1818399 AGTAA
1 AGTAA
1818404 TGCAATCCAT
Statistics
Matches: 282, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
92 6 0.02
93 276 0.98
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1818491 original size:19 final size:19
Alignment explanation
Indices: 1818451--1818579 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
1818441 TAGTTTACTT
* *
1818451 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
1818471 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
1818490 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
1818509 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
1818523 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
1818542 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
1818556 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
1818575 TCGCA
1 TCGCA
1818580 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:1818530 original size:33 final size:32
Alignment explanation
Indices: 1818487--1818579 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
1818477 CGCGAAACCA
**
1818487 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
1818519 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
1818552 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
1818580 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:1818577 original size:52 final size:52
Alignment explanation
Indices: 1818451--1818579 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
1818441 TAGTTTACTT
**
1818451 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
1818503 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
1818556 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
1818580 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:1818597 original size:19 final size:19
Alignment explanation
Indices: 1818575--1818747 Score: 168
Period size: 19 Copynumber: 9.6 Consensus size: 19
1818565 GAAACCAAAA
*
1818575 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1818594 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
1818610 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
1818627 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
1818643 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
1818660 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
1818679 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
1818698 TCTCGTTGCGATTATCATT
1 TCGCGTTGCGATTTTCATT
*
1818717 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
1818737 TCGTGTTGCGA
1 TCGCGTTGCGA
1818748 AAGTAAACTA
Statistics
Matches: 128, Mismatches: 15, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
14 15 0.12
16 11 0.09
17 11 0.09
19 79 0.62
20 12 0.09
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1818616 original size:14 final size:14
Alignment explanation
Indices: 1818597--1818653 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1818587 TTTCATTTCG
1818597 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
1818611 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
1818628 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
1818644 CGTTGCGATT
1 CGTTGCGATT
1818654 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:1818705 original size:38 final size:38
Alignment explanation
Indices: 1818575--1818747 Score: 168
Period size: 33 Copynumber: 4.8 Consensus size: 38
1818565 GAAACCAAAA
*
1818575 TCGCATTGCGATTTTCATTTCGCGTTGCGA-T-TC-TT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* *
1818610 T--CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* **
1818643 T--CGTTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
** *
1818679 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTATCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* *
1818717 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
1818748 AAGTAAACTA
Statistics
Matches: 116, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
33 56 0.48
34 1 0.01
35 2 0.02
36 2 0.02
38 44 0.38
39 11 0.09
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
Found at i:1820691 original size:14 final size:14
Alignment explanation
Indices: 1820672--1820707 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1820662 ATTGTTTAAT
1820672 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1820686 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1820700 TGATTTGT
1 TGATTTGT
1820708 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1820829 original size:19 final size:19
Alignment explanation
Indices: 1820813--1820910 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
1820803 CAAAATGACT
1820813 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1820832 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1820851 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1820865 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1820884 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
1820904 ATCGCAA
1 ATCGCAA
1820911 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1820942 original size:53 final size:53
Alignment explanation
Indices: 1820813--1820929 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
1820803 CAAAATGACT
1820813 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1820865 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1820918 ATCGCAATGCGA
1 ATCGCAATGCGA
1820930 TTTTAATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.45
53 35 0.55
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:1820947 original size:19 final size:19
Alignment explanation
Indices: 1820919--1821311 Score: 371
Period size: 19 Copynumber: 22.7 Consensus size: 19
1820909 AACGAGAGAA
* *
1820919 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
1820938 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
*
1820954 TCG--TTGCAATTTTCATT
1 TCGCATTGCGATTTTCATT
1820971 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1820990 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
1821006 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1821023 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1821042 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
1821058 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1821075 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1821094 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
1821110 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1821127 TCCGCATTGTGATTTTCATT
1 T-CGCATTGCGATTTTCATT
*
1821147 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
1821163 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1821180 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
1821196 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1821213 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
1821232 TCGTATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
1821248 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1821265 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
1821283 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
1821299 TCGCATTGCGATT
1 TCGCATTGCGATT
1821312 CTCTCGTTGC
Statistics
Matches: 309, Mismatches: 23, Indels: 84
0.74 0.06 0.20
Matches are distributed among these distances:
14 52 0.17
16 51 0.17
17 45 0.15
18 5 0.02
19 130 0.42
20 26 0.08
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1820966 original size:33 final size:33
Alignment explanation
Indices: 1820925--1821225 Score: 274
Period size: 33 Copynumber: 8.8 Consensus size: 33
1820915 AGAATCGCAA
*
1820925 TGCGATTTTAATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
* *
1820958 TGCAATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
* * * * *
1820996 TGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCAT
1 TGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGT
1821029 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
1821062 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
* * *
1821100 TGCGATTCTCTCGTTGCG-ATTTTC-ATT-TC-CGCAT
1 TGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG--T
*
1821134 TGTGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1821167 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1821200 TGCGATTTTCATTTCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATT
1821226 TTCATTTCGT
Statistics
Matches: 220, Mismatches: 25, Indels: 46
0.76 0.09 0.16
Matches are distributed among these distances:
31 9 0.04
32 14 0.06
33 122 0.55
34 13 0.06
35 11 0.05
36 8 0.04
37 4 0.02
38 15 0.07
39 6 0.03
40 18 0.08
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:1820982 original size:52 final size:52
Alignment explanation
Indices: 1820919--1821325 Score: 523
Period size: 52 Copynumber: 7.9 Consensus size: 52
1820909 AACGAGAGAA
* * *
1820919 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCAATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1820971 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1821023 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1821075 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
1821127 TCCGCATTGTGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
* * * * *
1821180 TCGCATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTCATT
1 TCGCATTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTCATT
* * * *
1821232 TCGTATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TC-CGCATTGCGATTTTCA--
1 TCGCATTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG--TTGCGATTTTCATT
*
1821283 T-G--TTGGGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
1821326 GTAATTTCCG
Statistics
Matches: 329, Mismatches: 16, Indels: 25
0.89 0.04 0.07
Matches are distributed among these distances:
46 9 0.03
47 13 0.04
48 9 0.03
49 2 0.01
50 1 0.00
51 2 0.01
52 216 0.66
53 68 0.21
54 9 0.03
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:1821171 original size:14 final size:14
Alignment explanation
Indices: 1821152--1821206 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
1821142 TCATTTCGCA
1821152 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
1821166 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
1821183 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
1821199 TTGCGATT
1 TTGCGATT
1821207 TTCATTTCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:1821174 original size:86 final size:85
Alignment explanation
Indices: 1821028--1821311 Score: 405
Period size: 86 Copynumber: 3.3 Consensus size: 85
1821018 TCATTTCGCA
* * * * *
1821028 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCATTGCGATTTT
1 TTGCGATTTTCATTTCGCATTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGTTGCGATTTT
1821090 CATTTCGCATTGCGATTCTCTCG
63 CATTTCGCATTGCGATTCTCTCG
*
1821113 TTGCGATTTTCATTTCCGCATTGTGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
1 TTGCGATTTTCATTT-CGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
1821178 TTTCGCATTGCGATTCTCTCG
65 TTTCGCATTGCGATTCTCTCG
*
1821199 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
*
1821264 TTCCGCATTGCGATTTTCAT-G
66 TT-CGCATTGCGATTCTC-TCG
*
1821285 TTGGGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
1821312 CTCTCGTTGC
Statistics
Matches: 183, Mismatches: 10, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
84 9 0.05
85 70 0.38
86 103 0.56
87 1 0.01
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (85 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
TTCGCATTGCGATTCTCTCG
Found at i:1821255 original size:33 final size:34
Alignment explanation
Indices: 1821218--1821344 Score: 161
Period size: 33 Copynumber: 3.8 Consensus size: 34
1821208 TCATTTCGCA
*
1821218 TTGCGATTTTCATTT-CGTATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
*
1821251 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTTCCGCATTGCGATTCTC-TCG
*
1821285 TTGGGATTTTCATTT-CGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
* * **
1821318 TTGCGATTGTAATTTCCGTGTTGCGAT
1 TTGCGATTTTCATTTCCGCATTGCGAT
1821345 AGTCAAATGC
Statistics
Matches: 81, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
32 1 0.01
33 42 0.52
34 37 0.46
35 1 0.01
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.46
Consensus pattern (34 bp):
TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
Found at i:1821308 original size:138 final size:138
Alignment explanation
Indices: 1820976--1821311 Score: 536
Period size: 138 Copynumber: 2.4 Consensus size: 138
1820966 TCATTTCGCA
* *
1820976 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTCATTTCGCATTGCGATTTTC
1821039 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
65 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1821104 ATTCTCTCG
130 ATTCTCTCG
* * * * * *
1821113 TTGCGATTTTCATTTCCGCATTGTGATTTTCAT-TTCGCA-TTGCGATTCTCTCGTTGCGATTTT
1 TTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGGGATTTTC-ATT-TCGCATTGCGATTTT
*
1821176 CATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTATTGC
64 CATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGC
1821241 GATTCTCTCG
129 GATTCTCTCG
1821251 TTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCATTGCGATT
1821312 CTCTCGTTGC
Statistics
Matches: 178, Mismatches: 15, Indels: 11
0.87 0.07 0.05
Matches are distributed among these distances:
136 3 0.02
137 21 0.12
138 143 0.80
139 8 0.04
140 3 0.02
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (138 bp):
TTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCATTGCGATTTTCA
TTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA
TTCTCTCG
Found at i:1823625 original size:12 final size:12
Alignment explanation
Indices: 1823608--1823632 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1823598 TCTTCGGGGA
1823608 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1823620 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1823632 C
1 C
1823633 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1823841 original size:24 final size:24
Alignment explanation
Indices: 1823807--1823853 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1823797 CTGAAACATC
1823807 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
1823831 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
1823854 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:1824564 original size:20 final size:20
Alignment explanation
Indices: 1824536--1824765 Score: 219
Period size: 20 Copynumber: 11.5 Consensus size: 20
1824526 AAATTTCAGT
* * *
1824536 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1824556 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
1824576 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1824596 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
1824616 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
1824636 GTTGCGATATACTGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
1824656 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
1824676 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
1824696 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
1824716 GTTGCGATTTATGTG-TTCGT
1 GTTGCGATTTACG-GATTCGC
* **
1824736 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
1824756 GTTGCGATTT
1 GTTGCGATTT
1824766 TGGAAAATCG
Statistics
Matches: 179, Mismatches: 29, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
20 178 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:1824782 original size:21 final size:21
Alignment explanation
Indices: 1824758--1824834 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
1824748 ATATTCGCGT
1824758 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGCAA
* * ** *
1824779 TGCGAATTTGTACTATCGCAT
1 TGCGATTTTGGAAAATCGCAA
*
1824800 TGCGATTTT-CAAGAATCGCAA
1 TGCGATTTTGGAA-AATCGCAA
*
1824821 CGCGATTTTGGAAA
1 TGCGATTTTGGAAA
1824835 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
20 1 0.02
21 39 0.93
22 2 0.05
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (21 bp):
TGCGATTTTGGAAAATCGCAA
Found at i:1828706 original size:6 final size:6
Alignment explanation
Indices: 1828688--1828734 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
1828678 AAGCAGTACT
* * *
1828688 TGGAGA TGTAGA TGGAGA TGGAGA TGCAGA TGGAGA TGCAGA TGGAG
1 TGGAGA TGGAGA TGGAGA TGGAGA TGGAGA TGGAGA TGGAGA TGGAG
1828735 CCAAAAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.32, C:0.04, G:0.45, T:0.19
Consensus pattern (6 bp):
TGGAGA
Found at i:1829818 original size:25 final size:24
Alignment explanation
Indices: 1829755--1829822 Score: 93
Period size: 23 Copynumber: 2.8 Consensus size: 24
1829745 TTTAATTAAA
1829755 TAAATTGAGTCGAACTTTTTTTAT
1 TAAATTGAGTCGAACTTTTTTTAT
* *
1829779 T-AATTGAATCAAACTTTTGTTTAT
1 TAAATTGAGTCGAACTTTT-TTTAT
*
1829803 TAAATTGAGTGGAACTTTTT
1 TAAATTGAGTCGAACTTTTT
1829823 GATAAATATA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 15 0.41
24 8 0.22
25 14 0.38
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.49
Consensus pattern (24 bp):
TAAATTGAGTCGAACTTTTTTTAT
Found at i:1833490 original size:2 final size:2
Alignment explanation
Indices: 1833483--1833535 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
1833473 TAGTAATTGA
1833483 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1833525 AT AT AT AT AT A
1 AT AT AT AT AT A
1833536 GATTTTTTGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1835138 original size:19 final size:19
Alignment explanation
Indices: 1835082--1835160 Score: 95
Period size: 19 Copynumber: 4.1 Consensus size: 19
1835072 GGCTGCTGGA
* * *
1835082 AACCGGTTTAACCGGTTTTC
1 AACCGGTTTGACCGG-TCTG
1835102 AACCGGTTCTGACCGGTCTG
1 AACCGGTT-TGACCGGTCTG
* *
1835122 AACCGTTTTGACTGGTCTG
1 AACCGGTTTGACCGGTCTG
1835141 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
1835160 A
1 A
1835161 CCCGACCCGA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
19 28 0.55
20 17 0.33
21 6 0.12
ACGTcount: A:0.18, C:0.25, G:0.27, T:0.30
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:1835161 original size:9 final size:9
Alignment explanation
Indices: 1835103--1835162 Score: 57
Period size: 9 Copynumber: 6.3 Consensus size: 9
1835093 CCGGTTTTCA
1835103 ACCGGTTCTG
1 ACCGG-TCTG
1835113 ACCGGTCTG
1 ACCGGTCTG
* *
1835122 AACCGTTTTG
1 -ACCGGTCTG
*
1835132 ACTGGTCTG
1 ACCGGTCTG
*
1835141 AACCGGTTTG
1 -ACCGGTCTG
1835151 ACCGGTCTG
1 ACCGGTCTG
1835160 ACC
1 ACC
1835163 CGACCCGACC
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
9 21 0.52
10 19 0.47
ACGTcount: A:0.15, C:0.28, G:0.28, T:0.28
Consensus pattern (9 bp):
ACCGGTCTG
Found at i:1835180 original size:17 final size:17
Alignment explanation
Indices: 1835158--1835218 Score: 77
Period size: 17 Copynumber: 3.3 Consensus size: 17
1835148 TTGACCGGTC
1835158 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
1835175 TGACCCGACTCGACCCGACCGT
1 TGA--C--C-CGACCCGACCGT
1835197 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
1835214 TGACC
1 TGACC
1835219 GTTGACCGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
17 20 0.51
18 1 0.03
19 1 0.03
20 1 0.03
21 1 0.03
22 15 0.38
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:1835189 original size:22 final size:22
Alignment explanation
Indices: 1835159--1835225 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
1835149 TGACCGGTCT
1835159 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
*
1835181 GACTCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
*
1835203 GACCCGACCGTTGACCGTTGACC
1 GACCCGACC--CGACCGTTGACC
1835226 GTTGACTTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 29 0.73
24 11 0.28
ACGTcount: A:0.18, C:0.45, G:0.24, T:0.13
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:1835218 original size:12 final size:12
Alignment explanation
Indices: 1835164--1835206 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
1835154 GGTCTGACCC
1835164 GACCCGACCGTT
1 GACCCGACCGTT
*
1835176 GACCCGA-C-TC
1 GACCCGACCGTT
1835186 GACCCGACCGTT
1 GACCCGACCGTT
1835198 GACCCGACC
1 GACCCGACC
1835207 CGACCGTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 8 0.30
11 2 0.07
12 17 0.63
ACGTcount: A:0.19, C:0.47, G:0.23, T:0.12
Consensus pattern (12 bp):
GACCCGACCGTT
Found at i:1842399 original size:9 final size:9
Alignment explanation
Indices: 1842385--1842468 Score: 51
Period size: 9 Copynumber: 8.8 Consensus size: 9
1842375 GGCTGCTGGA
1842385 AACCGGTTT
1 AACCGGTTT
1842394 AACCGGTTTT
1 AACCGG-TTT
1842404 CAACCGGTTCT
1 -AACCGGTT-T
*
1842415 GACCGGTTT
1 AACCGGTTT
* *
1842424 GACCGGTTCG
1 AACCGGTT-T
*
1842434 AACCGATTT
1 AACCGGTTT
* *
1842443 GACCGGTCTG
1 AACCGGT-TT
*
1842453 AACCGTTTT
1 AACCGGTTT
*
1842462 GACCGGT
1 AACCGGT
1842469 CTGACCCGAC
Statistics
Matches: 57, Mismatches: 13, Indels: 10
0.71 0.16 0.12
Matches are distributed among these distances:
9 26 0.46
10 24 0.42
11 7 0.12
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.30
Consensus pattern (9 bp):
AACCGGTTT
Found at i:1842410 original size:20 final size:21
Alignment explanation
Indices: 1842385--1842423 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1842375 GGCTGCTGGA
1842385 AACCGGTT-TAACCGGTTTTC
1 AACCGGTTCTAACCGGTTTTC
*
1842405 AACCGGTTCTGACCGGTTT
1 AACCGGTTCTAACCGGTTT
1842424 GACCGGTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (21 bp):
AACCGGTTCTAACCGGTTTTC
Found at i:1842430 original size:19 final size:19
Alignment explanation
Indices: 1842406--1842477 Score: 85
Period size: 19 Copynumber: 3.8 Consensus size: 19
1842396 CCGGTTTTCA
*
1842406 ACCGGTTCTG-ACCGGTTTG
1 ACCGG-TCTGAACCGATTTG
1842425 ACCGGT-TCGAACCGATTTG
1 ACCGGTCT-GAACCGATTTG
*
1842444 ACCGGTCTGAACCGTTTTG
1 ACCGGTCTGAACCGATTTG
*
1842463 ACCGGTCTGACCCGA
1 ACCGGTCTGAACCGA
1842478 CCCGACCGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.02
18 2 0.04
19 42 0.91
20 1 0.02
ACGTcount: A:0.17, C:0.29, G:0.28, T:0.26
Consensus pattern (19 bp):
ACCGGTCTGAACCGATTTG
Found at i:1842481 original size:5 final size:5
Alignment explanation
Indices: 1842471--1842523 Score: 52
Period size: 5 Copynumber: 9.8 Consensus size: 5
1842461 TGACCGGTCT
* *
1842471 GACCC GACCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
1842520 GACC
1 GACC
1842524 GTTGACCGTT
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:0.19, C:0.51, G:0.23, T:0.08
Consensus pattern (5 bp):
GACCC
Found at i:1842492 original size:17 final size:17
Alignment explanation
Indices: 1842470--1842530 Score: 77
Period size: 17 Copynumber: 3.3 Consensus size: 17
1842460 TTGACCGGTC
1842470 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
1842487 TGACCCGACCCGACCCGACCGT
1 T-----GACCCGACCCGACCGT
1842509 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
1842526 TGACC
1 TGACC
1842531 GTTGACCGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
17 22 0.56
22 17 0.44
ACGTcount: A:0.18, C:0.48, G:0.23, T:0.11
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:1842497 original size:22 final size:22
Alignment explanation
Indices: 1842471--1842537 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
1842461 TGACCGGTCT
1842471 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
1842493 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
*
1842515 GACCCGACCGTTGACCGTTGACC
1 GACCCGACC--CGACCGTTGACC
1842538 GTTGACTTTC
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
22 31 0.74
24 11 0.26
ACGTcount: A:0.18, C:0.46, G:0.24, T:0.12
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:1844078 original size:8 final size:7
Alignment explanation
Indices: 1844065--1844153 Score: 78
Period size: 7 Copynumber: 12.6 Consensus size: 7
1844055 GGGATTACAA
1844065 AAATAAT
1 AAATAAT
1844072 GAAATAAT
1 -AAATAAT
*
1844080 AAAT-GT
1 AAATAAT
1844086 AAAGTACAT
1 AAA-TA-AT
**
1844095 AAGGAA-
1 AAATAAT
1844101 AAATAAT
1 AAATAAT
1844108 -AATAAAT
1 AAAT-AAT
1844115 AAATAAT
1 AAATAAT
1844122 AAATAAT
1 AAATAAT
1844129 AAA-AAT
1 AAATAAT
1844135 AAATAAT
1 AAATAAT
1844142 AAATAAAT
1 AAAT-AAT
1844150 AAAT
1 AAAT
1844154 GAAAAAAAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
6 17 0.25
7 29 0.43
8 18 0.27
9 3 0.04
ACGTcount: A:0.69, C:0.01, G:0.06, T:0.25
Consensus pattern (7 bp):
AAATAAT
Found at i:1844117 original size:4 final size:4
Alignment explanation
Indices: 1844108--1844153 Score: 60
Period size: 4 Copynumber: 11.8 Consensus size: 4
1844098 GAAAAATAAT
*
1844108 AATA AATA AAT- AATA AATA ATAAA AATA AAT- AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA A-ATA AATA AATA AATA AATA AATA AAT
1844154 GAAAAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
3 6 0.16
4 28 0.76
5 3 0.08
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:1844129 original size:24 final size:24
Alignment explanation
Indices: 1844102--1844151 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
1844092 CATAAGGAAA
*
1844102 AATAATAATAAATAA-ATAATAAAT
1 AATAAAAATAAATAATA-AATAAAT
1844126 AATAAAAATAAATAATAAATAAAT
1 AATAAAAATAAATAATAAATAAAT
1844150 AA
1 AA
1844152 ATGAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (24 bp):
AATAAAAATAAATAATAAATAAAT
Found at i:1845250 original size:3 final size:3
Alignment explanation
Indices: 1845229--1845276 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
1845219 AATGATAAAA
*
1845229 AAT AAC AAT AA- AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1845275 AA
1 AA
1845277 AAAGTATGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 4 0.10
3 38 0.90
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:1845352 original size:43 final size:43
Alignment explanation
Indices: 1845300--1845631 Score: 162
Period size: 37 Copynumber: 8.4 Consensus size: 43
1845290 AATCTATATA
*
1845300 ATATAAATTTTTAAAAATGTTTCTTTT-AAAAACTATATATTAT
1 ATATAAATTTTCAAAAATGTTT-TTTTAAAAAACTATATATTAT
1845343 ATATAAATTTTCAAAAATGTTTTTTTAAAAAACTATATAATT-T
1 ATATAAATTTTCAAAAATGTTTTTTTAAAAAACTATAT-ATTAT
* * * * * *
1845386 -TCAAAAATGTTTTTAAAAACTATATAATTTT-CAAAA--ATGT-TT-T
1 AT-ATAAA--TTTTCAAAAA-TGT-T-TTTTTAAAAAACTATATATTAT
** *
1845429 A-A-AAATTACCAAAAATG---TTTTCAAAAACTATATA-T-T
1 ATATAAATTTTCAAAAATGTTTTTTTAAAAAACTATATATTAT
* *
1845465 ATATAAGTTTTC-AAAATG--ATTTT-AAAAACTATATATTAT
1 ATATAAATTTTCAAAAATGTTTTTTTAAAAAACTATATATTAT
* *
1845504 ATAT--ATTTTCTAAAATG---TTTT-AAAAATTATATA-T-T
1 ATATAAATTTTCAAAAATGTTTTTTTAAAAAACTATATATTAT
* *
1845539 ATAT-AGTTTTCAAAAA-G-TATTTT-AAAAACTATATA-T-T
1 ATATAAATTTTCAAAAATGTTTTTTTAAAAAACTATATATTAT
1845576 ATATAAATTTTC-AAAATG--TTTTT-AAAAACTATATATTAT
1 ATATAAATTTTCAAAAATGTTTTTTTAAAAAACTATATATTAT
***
1845615 ATACGTATTTTCAAAAA
1 ATATAAATTTTCAAAAA
1845632 CCGTTTGCAA
Statistics
Matches: 236, Mismatches: 26, Indels: 57
0.74 0.08 0.18
Matches are distributed among these distances:
33 4 0.02
34 4 0.02
35 6 0.03
36 16 0.07
37 80 0.34
38 25 0.11
39 22 0.09
40 4 0.02
41 3 0.01
42 6 0.03
43 40 0.17
44 3 0.01
45 12 0.05
46 2 0.01
47 5 0.02
48 4 0.02
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (43 bp):
ATATAAATTTTCAAAAATGTTTTTTTAAAAAACTATATATTAT
Found at i:1845406 original size:30 final size:30
Alignment explanation
Indices: 1845342--1845433 Score: 141
Period size: 30 Copynumber: 3.0 Consensus size: 30
1845332 CTATATATTA
1845342 TATATAAATTTTCAAAAATGTTTTTTTAAAAAAC
1 TATAT-AATTTTCAAAAATG--TTTTT-AAAAAC
1845376 TATATAATTTTCAAAAATGTTTTTAAAAAC
1 TATATAATTTTCAAAAATGTTTTTAAAAAC
1845406 TATATAATTTTCAAAAATG-TTTTAAAAA
1 TATATAATTTTCAAAAATGTTTTTAAAAA
1845434 TTACCAAAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
29 9 0.16
30 25 0.43
31 5 0.09
33 14 0.24
34 5 0.09
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.43
Consensus pattern (30 bp):
TATATAATTTTCAAAAATGTTTTTAAAAAC
Found at i:1845492 original size:37 final size:36
Alignment explanation
Indices: 1845440--1845617 Score: 252
Period size: 37 Copynumber: 4.8 Consensus size: 36
1845430 AAAATTACCA
1845440 AAAATGTTTTCAAAAACTATATATTATATAAGTTTTC
1 AAAATGTTTT-AAAAACTATATATTATATAAGTTTTC
1845477 AAAATGATTTTAAAAACTATATATTATATATA-TTTTC
1 AAAATG-TTTTAAAAACTATATATTATATA-AGTTTTC
*
1845514 TAAAATGTTTTAAAAATTATATATTATAT-AGTTTTC
1 -AAAATGTTTTAAAAACTATATATTATATAAGTTTTC
* *
1845550 AAAAAGTATTTTAAAAACTATATATTATATAAATTTTC
1 -AAAA-TGTTTTAAAAACTATATATTATATAAGTTTTC
1845588 AAAATGTTTTTAAAAACTATATATTATATA
1 AAAATG-TTTTAAAAACTATATATTATATA
1845618 CGTATTTTCA
Statistics
Matches: 128, Mismatches: 6, Indels: 14
0.86 0.04 0.09
Matches are distributed among these distances:
35 1 0.01
36 10 0.08
37 100 0.78
38 17 0.13
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (36 bp):
AAAATGTTTTAAAAACTATATATTATATAAGTTTTC
Found at i:1845535 original size:74 final size:74
Alignment explanation
Indices: 1845440--1845631 Score: 289
Period size: 74 Copynumber: 2.6 Consensus size: 74
1845430 AAAATTACCA
*
1845440 AAAATGTTTTCAAAAACTATATATTATATAAGTTTTCAAAATG-ATTTTAAAAACTATATATTAT
1 AAAATGTTTT-AAAAACTATATATTATATAAGTTTTCAAAAAGTATTTTAAAAACTATATATTAT
*
1845504 ATATATTTTC
65 ATAAATTTTC
*
1845514 TAAAATGTTTTAAAAATTATATATTATAT-AGTTTTCAAAAAGTATTTTAAAAACTATATATTAT
1 -AAAATGTTTTAAAAACTATATATTATATAAGTTTTCAAAAAGTATTTTAAAAACTATATATTAT
1845578 ATAAATTTTC
65 ATAAATTTTC
*
1845588 AAAATGTTTTTAAAAACTATATATTATATACGTATTTTCAAAAA
1 AAAATG-TTTTAAAAACTATATATTATATAAG--TTTTCAAAAA
1845632 CCGTTTGCAA
Statistics
Matches: 107, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
73 18 0.17
74 68 0.64
75 11 0.10
77 10 0.09
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (74 bp):
AAAATGTTTTAAAAACTATATATTATATAAGTTTTCAAAAAGTATTTTAAAAACTATATATTATA
TAAATTTTC
Found at i:1845654 original size:74 final size:73
Alignment explanation
Indices: 1845440--1845656 Score: 258
Period size: 74 Copynumber: 2.9 Consensus size: 73
1845430 AAAATTACCA
* **
1845440 AAAATGTTTTCAAAAACTATATATTATATAAGTTTTCAAAATGATTTTAAAAACTATATATTATA
1 AAAATGTTTTTAAAAACTATATATTATAT-AGTTTTCAAAAACATTTTAAAAACTATATA-TATA
*
1845505 TATATTTTCT
64 TAAATTTTCT
* *
1845515 AAAATG-TTTTAAAAATTATATATTATATAGTTTTCAAAAAGTATTTTAAAAACTATATATTATA
1 AAAATGTTTTTAAAAACTATATATTATATAGTTTTCAAAAA-CATTTTAAAAACTATATA-TATA
1845579 TAAATTTTC-
64 TAAATTTTCT
** **
1845588 AAAATGTTTTTAAAAACTATATATTATATACGTATTTTCAAAAACCGTTTGCAAACTATATAATA
1 AAAATGTTTTTAAAAACTATATATTATATA-G--TTTTCAAAAACATTTTAAAAACTATAT-ATA
1845653 TATA
62 TATA
1845657 TATATAATAA
Statistics
Matches: 125, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
73 17 0.14
74 72 0.58
75 7 0.06
76 18 0.14
77 11 0.09
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (73 bp):
AAAATGTTTTTAAAAACTATATATTATATAGTTTTCAAAAACATTTTAAAAACTATATATATATA
AATTTTCT
Found at i:1845654 original size:111 final size:110
Alignment explanation
Indices: 1845438--1845656 Score: 298
Period size: 111 Copynumber: 2.0 Consensus size: 110
1845428 TAAAAATTAC
*
1845438 CAAAAATGTTTTCAAAAACTATATATTATATAAGTTTTCAAAATGATTTTAAAAACTATATATTA
1 CAAAAATGTTTTCAAAAACTATATATTATATAAATTTTCAAAATGATTTTAAAAACTATATATTA
* * *
1845503 TATATATTTTCTAAAATGTTTTAAAAATTATATATTATATAGTTTT
66 TATATATTTTCAAAAACGTTTTAAAAACTATATA-TATATAGTTTT
* *
1845549 CAAAAA-GTATTTTAAAAACTATATATTATATAAATTTTCAAAATGTTTTTAAAAACTATATATT
1 CAAAAATGT-TTTCAAAAACTATATATTATATAAATTTTCAAAATGATTTTAAAAACTATATATT
**
1845613 ATATACGTATTTTCAAAAACCG-TTTGCAAACTATATAATATATA
65 ATATA--TATTTTCAAAAA-CGTTTTAAAAACTATAT-ATATATA
1845657 TATATAATAA
Statistics
Matches: 95, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
110 2 0.02
111 63 0.66
113 28 0.29
114 2 0.02
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (110 bp):
CAAAAATGTTTTCAAAAACTATATATTATATAAATTTTCAAAATGATTTTAAAAACTATATATTA
TATATATTTTCAAAAACGTTTTAAAAACTATATATATATAGTTTT
Found at i:1846352 original size:84 final size:84
Alignment explanation
Indices: 1846227--1847183 Score: 986
Period size: 84 Copynumber: 11.4 Consensus size: 84
1846217 CGACGAATTT
* * * *
1846227 GTTGACAGATAACCCTTCTTGCCTTGAGCTATAG-TGTAAATGATGTGCCTTGGAGCTGAGCGTA
1 GTTGGCAGATAACCCTTCTAGCCTTGAGTTAT-GCTGCAAATGATGTGCCTTGGAGCTGAGCGTA
*
1846291 GTCGAACTCGAAGGTCTTTG
65 ATCGAACTCGAAGGTCTTTG
* * * *
1846311 GTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCCTCGAGGCTGAGTGTA
1 GTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGA-GCTGAGCGTA
*
1846376 ATCGAACTCGAGGGTCTTTG
65 ATCGAACTCGAAGGTCTTTG
* * * * * * *
1846396 G-T---AGATAACACTTCTTGCCTTGAGTTATACCGTAAATGATGTGCCGTT-AAGCTGAGTGTA
1 GTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTA
* *
1846456 ATAGAACTCAAAGGTCTTT-
65 ATCGAACTCGAAGGTCTTTG
* * *
1846475 GTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGACCTCGAAGCTGAGTGTA
1 GTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTA
* *
1846540 ATCAAACTCGAAGGTGTTTG
65 ATCGAACTCGAAGGTCTTTG
* * * * * * * * * *
1846560 GTTGGAAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTACCTTTGAGCTGAGCGTAG
1 GTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAA
1846625 TCGAACTCGAAGGTCTTT-
66 TCGAACTCGAAGGTCTTTG
* * * * *
1846643 GTTGGCAGATAACCCTTCTAACCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCCGAACGTAG
1 GTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAA
1846708 TCGAACTCGAAGGTCTTT-
66 TCGAACTCGAAGGTCTTTG
* * * * *
1846726 ATTGGCAGATAACCCTTCTAG-CTCTGAGTTATGCTGCAAATAATGTGCCCTCGAAGCTGAGTGT
1 GTTGGCAGATAACCCTTCTAGCCT-TGAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGT
** *
1846790 AATTAAACTCGAAGGTATTTG
64 AATCGAACTCGAAGGTCTTTG
* * * * *** *
1846811 GTTGGCAGATAACCATTCTAGCCCTGAGTTATGCTACAAATGATGTTCCCTCAAAGCTGAGGGTA
1 GTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATG-TGCCTTGGAGCTGAGCGTA
*
1846876 ATCGAACTCGAAGGTCTTTA
65 ATCGAACTCGAAGGTCTTTG
* * * * *
1846896 GTTGGCAGATAACACTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTAT-GAGCTGAGCGTA
1 GTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCT-TGGAGCTGAGCGTA
* *
1846960 GTCGAACTCGAAGGT-TTTT
65 ATCGAACTCGAAGGTCTTTG
* * *** * *
1846979 GTTGGCATATAACCCTTCTAACCTTGAGTTATGCTGCAAATGATGTGCCCTCAAAGTTGAGTGTA
1 GTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTA
1847044 ATCGAACTCGAAGGTCTTTG
65 ATCGAACTCGAAGGTCTTTG
* * * * * * * * ** *
1847064 GTTAGCAGATAGCCCTTATTGACTTAAGCTATGTTGCAAATGGCGTGCCTTGGAGCTGAGCGTAG
1 GTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAA
*
1847129 TTGAACTCGAAGGTCTTTTG
66 TCGAACTCGAAGGTC-TTTG
*
1847149 G-TGGAAGATAACCCTTCTAGCCTTGAGTTATGCTG
1 GTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
1847184 TCAATAGTTT
Statistics
Matches: 716, Mismatches: 137, Indels: 40
0.80 0.15 0.04
Matches are distributed among these distances:
79 1 0.00
80 27 0.04
81 38 0.05
82 3 0.00
83 194 0.27
84 235 0.33
85 216 0.30
86 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (84 bp):
GTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAA
TCGAACTCGAAGGTCTTTG
Found at i:1846682 original size:168 final size:167
Alignment explanation
Indices: 1846224--1847183 Score: 1131
Period size: 168 Copynumber: 5.7 Consensus size: 167
1846214 ACTCGACGAA
* * * * * *
1846224 TTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATAG-TGTAAATGATGTGCCTTGGAGCTGAGC
1 TTTGTTGGCAGATAACCCTTCTCGACTTAAGCTAT-GCTGCAAATGATGTGCCTTTGAGCTGAGC
1846288 GTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATG
65 GTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATG
* * *
1846353 ATATGCCCTCGAGGCTGAGTGTAATCGAACTCGAGGGTC
129 ATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC
* * * * * * * * * * * *
1846392 --T-TTGGTAGATAACACTTCTTGCCTTGAGTTATACCGTAAATGATGTGCCGTTAAGCTGAGTG
1 TTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCG
* * *
1846454 TAATAGAACTCAAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
66 TAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
* * *
1846519 GTGACCTCGAAGCTGAGTGTAATCAAACTCGAAGGTG
131 GTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC
* * * *
1846556 TTTGGTTGGAAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTACCTTTGAGCTGAGC
1 TTT-GTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGC
*
1846621 GTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAACCTTGAGTTATGCTGCAAATGA
65 GTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGA
* * * ** *
1846686 TGTGCCTTTG-AGCCGAACGTAGTCGAACTCGAAGGTC
130 TGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC
* * * * * * *
1846723 TTTATTGGCAGATAACCCTTCTAG-CTCTGAGTTATGCTGCAAATAATGTGCCCTCGAAGCTGAG
1 TTTGTTGGCAGATAACCCTTCTCGACT-TAAGCTATGCTGCAAATGATGTGCCTTTG-AGCTGAG
* * ** * * * *
1846787 TGTAATTAAACTCGAAGGTATTTGGTTGGCAGATAACCATTCTAGCCCTGAGTTATGCTACAAAT
64 CGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAAT
* * *
1846852 GATGTTCCCTCAAAGCTGAGGGTAATCGAACTCGAAGGTC
128 GATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC
* *
1846892 TTTAGTTGGCAGATAACACTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTATGAGCTGAGC
1 TTT-GTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGC
* * *
1846957 GTAGTCGAACTCGAAGGTTTTTGTTGGCATATAACCCTTCTAACCTTGAGTTATGCTGCAAATGA
65 GTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGA
* *
1847022 TGTGCCCTCAAAGTTGAGTGTAATCGAACTCGAAGGTC
130 TGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC
* * * * * ** *
1847060 TTTGGTTAGCAGATAGCCCTTATTGACTTAAGCTATGTTGCAAATGGCGTGCCTTGGAGCTGAGC
1 TTT-GTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGC
* * *
1847125 GTAGTTGAACTCGAAGGTCTTTTGGTGGAAGATAACCCTTCTAGCCTTGAGTTATGCTG
65 GTAGTCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
1847184 TCAATAGTTT
Statistics
Matches: 666, Mismatches: 114, Indels: 23
0.83 0.14 0.03
Matches are distributed among these distances:
164 75 0.11
165 70 0.11
166 41 0.06
167 49 0.07
168 302 0.45
169 86 0.13
170 41 0.06
171 2 0.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (167 bp):
TTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCG
TAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
GTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC
Found at i:1848508 original size:95 final size:95
Alignment explanation
Indices: 1848313--1848569 Score: 335
Period size: 95 Copynumber: 2.7 Consensus size: 95
1848303 GGCTAGCTGA
* * * *
1848313 ATCCATAAAGTC-AGGGCATTTAACCAATTGCTCTAGAGGGATAACTTAA--TATCATTG--TAT
1 ATCCATAAAGTCGA-GGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCT-TTATTGTATAT
* * *
1848373 TATAATCACCTTTATCAGGCTAGTTGAATATT
64 TATAATCACATTTATCAGGCTAGCTAAATATT
* *
1848405 ATCCATAAAGTCGAGGCGTTTAACCAATTTCTCTAGAGGGACAACTCAAGCTTTATTGTATATTG
1 ATCCATAAAGTCGAGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
*
1848470 TAATCACATTTATCAGGCTAGCTAAATCTT
66 TAATCACATTTATCAGGCTAGCTAAATATT
* * *
1848500 ATCCATAAAGTCGTGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTTTATATAT
1 ATCCATAAAGTCGAGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAT-T
1848565 ATAAT
65 ATAAT
1848570 ATTATAATAT
Statistics
Matches: 144, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
92 43 0.30
93 6 0.04
94 1 0.01
95 89 0.62
96 5 0.03
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (95 bp):
ATCCATAAAGTCGAGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
TAATCACATTTATCAGGCTAGCTAAATATT
Found at i:1851467 original size:39 final size:39
Alignment explanation
Indices: 1851423--1851523 Score: 157
Period size: 39 Copynumber: 2.6 Consensus size: 39
1851413 GTCCTACCCC
* * *
1851423 ACATGATATCTACCCCACATGCTTATTATTCCTACATGG
1 ACATGATCTCTATCCCACATGCTTATTATTCCTACACGG
*
1851462 ACATGATCTCTATCCCACATGCTTATTATTCCTACCCGG
1 ACATGATCTCTATCCCACATGCTTATTATTCCTACACGG
*
1851501 ACATGATCTCTATCCCGCATGCT
1 ACATGATCTCTATCCCACATGCT
1851524 AATTTCAAAC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.25, C:0.32, G:0.11, T:0.33
Consensus pattern (39 bp):
ACATGATCTCTATCCCACATGCTTATTATTCCTACACGG
Found at i:1852461 original size:15 final size:15
Alignment explanation
Indices: 1852441--1852582 Score: 65
Period size: 15 Copynumber: 8.8 Consensus size: 15
1852431 CTTAAAAGAT
* *
1852441 AAAAATATTAGATAA
1 AAAAATAATAAATAA
1852456 AAAAATAATAAATAA
1 AAAAATAATAAATAA
*
1852471 ATAAATAA-AAACTTAAA
1 AAAAATAATAAA--T-AA
* *
1852488 ATAAAAAAATGAATAA
1 A-AAAATAATAAATAA
1852504 AATGAAATAATAAATGTAA
1 AA--AAATAATAAA--TAA
* *
1852523 AGGAAATAAGGAAAATAA
1 A-AAAATAA--TAAATAA
*
1852541 TAATAA-AATAAATAA
1 -AAAAATAATAAATAA
*
1852556 AAAAATAATATATAA
1 AAAAATAATAAATAA
1852571 ATAAAA-AATAAA
1 A-AAAATAATAAA
1852583 AACAAATAAG
Statistics
Matches: 96, Mismatches: 16, Indels: 30
0.68 0.11 0.21
Matches are distributed among these distances:
14 7 0.07
15 41 0.43
16 8 0.08
17 14 0.15
18 16 0.17
19 7 0.07
20 3 0.03
ACGTcount: A:0.72, C:0.01, G:0.06, T:0.22
Consensus pattern (15 bp):
AAAAATAATAAATAA
Found at i:1852549 original size:20 final size:20
Alignment explanation
Indices: 1852526--1852578 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
1852516 AATGTAAAGG
* *
1852526 AAATAAGGAAAATAATAATA
1 AAATAAAGAAAAAAATAATA
*
1852546 AAATAAATAAAAAAATAAT-
1 AAATAAAGAAAAAAATAATA
* *
1852565 ATATAAATAAAAAA
1 AAATAAAGAAAAAA
1852579 TAAAAACAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (20 bp):
AAATAAAGAAAAAAATAATA
Found at i:1853719 original size:16 final size:16
Alignment explanation
Indices: 1853670--1853713 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
1853660 GAAACGAAAA
* *
1853670 AATAAAAATTAGTAAT
1 AATAAAAAATAATAAT
*
1853686 GATAAAAAATAATAAT
1 AATAAAAAATAATAAT
*
1853702 AATAATAAATAA
1 AATAAAAAATAA
1853714 ATATAAAAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (16 bp):
AATAAAAAATAATAAT
Done.