Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 11 of 106
Found at i:1734653 original size:19 final size:19
Alignment explanation
Indices: 1734631--1734668 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1734621 TTAAAGATTA
1734631 GGTTTAGGGCTTAGGGTTT
1 GGTTTAGGGCTTAGGGTTT
*
1734650 GGTTTAGGGTTTAGGGTTT
1 GGTTTAGGGCTTAGGGTTT
1734669 AGGGCTGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.03, G:0.42, T:0.45
Consensus pattern (19 bp):
GGTTTAGGGCTTAGGGTTT
Found at i:1734669 original size:33 final size:33
Alignment explanation
Indices: 1734631--1734697 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1734621 TTAAAGATTA
* ** *
1734631 GGTTTAGGGCTTAGGGTTTGGTTTAGGGTTTAG
1 GGTTTAGGGCTGAGGGTAAGGTTTAAGGTTTAG
1734664 GGTTTAGGGCTGAGGGTAAGGTTTAAGGTTTAG
1 GGTTTAGGGCTGAGGGTAAGGTTTAAGGTTTAG
1734697 G
1 G
1734698 CTAGGTGAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.16, C:0.03, G:0.43, T:0.37
Consensus pattern (33 bp):
GGTTTAGGGCTGAGGGTAAGGTTTAAGGTTTAG
Found at i:1734686 original size:26 final size:23
Alignment explanation
Indices: 1734657--1734718 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
1734647 TTTGGTTTAG
1734657 GGTTTAGGGTTTAGGGCTGAGGGTAA
1 GGTTTAGGGTTTA-GGCT-A-GGTAA
* *
1734683 GGTTTAAGGTTTAGGCTAGGTGA
1 GGTTTAGGGTTTAGGCTAGGTAA
*
1734706 GGTTTAGGATTTA
1 GGTTTAGGGTTTA
1734719 AGGTAAGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 15 0.47
24 1 0.03
25 4 0.12
26 12 0.38
ACGTcount: A:0.21, C:0.03, G:0.40, T:0.35
Consensus pattern (23 bp):
GGTTTAGGGTTTAGGCTAGGTAA
Found at i:1738704 original size:18 final size:19
Alignment explanation
Indices: 1738681--1738723 Score: 79
Period size: 18 Copynumber: 2.3 Consensus size: 19
1738671 TAACATTTAA
1738681 AAAAAAGTATATAATAGG-
1 AAAAAAGTATATAATAGGC
1738699 AAAAAAGTATATAATAGGC
1 AAAAAAGTATATAATAGGC
1738718 AAAAAA
1 AAAAAA
1738724 TAATGTCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.65, C:0.02, G:0.14, T:0.19
Consensus pattern (19 bp):
AAAAAAGTATATAATAGGC
Found at i:1744153 original size:107 final size:107
Alignment explanation
Indices: 1743953--1744163 Score: 296
Period size: 107 Copynumber: 2.0 Consensus size: 107
1743943 TAAAGATCTT
* * **
1743953 AAAATCTTTGAATGCTCCTCATACATTAGAGACATTAAAACTTTAAAAATTTAAAATGTTTTGTC
1 AAAATCTTTGAATACTCCTCATACATTAGAGACACTAAAACTTTAAAAATTTAAAATGTTTTACC
* *
1744018 TAAAGGTCTTAAAGATTGTGCCCGAAGGTCTTAAAGATTTAA
66 TAAAGGTATTAAAGATTGTGCCCAAAGGTCTTAAAGATTTAA
* * * *
1744060 AAAATCTTTGAATACTCCTTATACATTTGAGATACTGAAACTTTAAAAATTTAAAATGTTTTACC
1 AAAATCTTTGAATACTCCTCATACATTAGAGACACTAAAACTTTAAAAATTTAAAATGTTTTACC
* ** *
1744125 TAAAGGTATTAAAGATTTTGTTCAAAGGTCTTGAAGATT
66 TAAAGGTATTAAAGATTGTGCCCAAAGGTCTTAAAGATT
1744164 GTGCCTGAAG
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
107 90 1.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36
Consensus pattern (107 bp):
AAAATCTTTGAATACTCCTCATACATTAGAGACACTAAAACTTTAAAAATTTAAAATGTTTTACC
TAAAGGTATTAAAGATTGTGCCCAAAGGTCTTAAAGATTTAA
Found at i:1744174 original size:22 final size:22
Alignment explanation
Indices: 1744149--1744467 Score: 172
Period size: 22 Copynumber: 14.4 Consensus size: 22
1744139 ATTTTGTTCA
*
1744149 AAGGTCTTGAAGATTGTGCCTG
1 AAGGTCTTAAAGATTGTGCCTG
* *
1744171 AAGGTCTTTATAGACTGTGCCTTG
1 AAGGTC-TTAAAGATTGTGCC-TG
*
1744195 -AGGTCTT-AAGAATTGTG-CTC
1 AAGGTCTTAAAG-ATTGTGCCTG
* * * *
1744215 AGAGGTCTTAAGGATTATGCTTA
1 A-AGGTCTTAAAGATTGTGCCTG
* * *
1744238 AAGATCTTAAAGATTTTG-CTC
1 AAGGTCTTAAAGATTGTGCCTG
* ***
1744259 AGAGGTCTTAAAGGTTGTTTTTG
1 A-AGGTCTTAAAGATTGTGCCTG
* * *
1744282 GAGGTTTTTAAAGCTTGTGCCCT-
1 AAGG-TCTTAAAGATTGTG-CCTG
1744305 AAGGTCTT-AAGAATTGTGCTCT-
1 AAGGTCTTAAAG-ATTGTGC-CTG
* * * *
1744327 AAGGTCTTAAGGATTATACCCG
1 AAGGTCTTAAAGATTGTGCCTG
* * *
1744349 AAAGTCTTAAAGATTGTACCTA
1 AAGGTCTTAAAGATTGTGCCTG
**
1744371 AAGGTCTTAAAGATTGTGCCCA
1 AAGGTCTTAAAGATTGTGCCTG
*
1744393 AAGGTCTTAAAGATTGTG-CTC
1 AAGGTCTTAAAGATTGTGCCTG
* *
1744414 AGAGGTCTT-AAGAATTATGCTTG
1 A-AGGTCTTAAAG-ATTGTGCCTG
* *
1744437 GAGGT-TTTAAGAATTGTGCCTG
1 AAGGTCTTAAAG-ATTGTGCCTG
1744459 AAGGTCTTA
1 AAGGTCTTA
1744468 GAAATATGTC
Statistics
Matches: 225, Mismatches: 52, Indels: 39
0.71 0.16 0.12
Matches are distributed among these distances:
20 1 0.00
21 17 0.08
22 164 0.73
23 40 0.18
24 3 0.01
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (22 bp):
AAGGTCTTAAAGATTGTGCCTG
Found at i:1744198 original size:23 final size:22
Alignment explanation
Indices: 1744149--1744205 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
1744139 ATTTTGTTCA
*
1744149 AAGGTCTTGAAGATTGTGCCTG
1 AAGGTCTTGAAGACTGTGCCTG
*
1744171 AAGGTCTTTATAGACTGTGCCTTG
1 AAGGTCTTGA-AGACTGTGCC-TG
1744195 -AGGTCTT-AAGA
1 AAGGTCTTGAAGA
1744206 ATTGTGCTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 3 0.10
22 10 0.32
23 16 0.52
24 2 0.06
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (22 bp):
AAGGTCTTGAAGACTGTGCCTG
Found at i:1744319 original size:111 final size:111
Alignment explanation
Indices: 1744133--1744434 Score: 319
Period size: 111 Copynumber: 2.7 Consensus size: 111
1744123 CCTAAAGGTA
* * * * *
1744133 TTAAAGATTTTGTTCAAAGGTCTTGAAGATTGTGCCTGAAGGTCTTTATAGACTGTGCCTTGAGG
1 TTAAAGATTTTGCTCAAAGGTCTTAAAGATTGTGCCTGAAGGTCTTTAAAGACTGTGCCCTAAGG
1744198 TCTTAAGAATTGTGCTC-AGAGGTCTTAAGGATTATGCTTAAAGATC
66 TCTTAAGAATTGTGCTCTA-AGGTCTTAAGGATTATGCTTAAAGATC
* * *** * *
1744244 TTAAAGATTTTGCTCAGAGGTCTTAAAGGTTGTTTTTGGAGGTTTTTAAAG-CTTGTGCCCTAAG
1 TTAAAGATTTTGCTCAAAGGTCTTAAAGATTGTGCCTGAAGGTCTTTAAAGAC-TGTGCCCTAAG
* **
1744308 GTCTTAAGAATTGTGCTCTAAGGTCTTAAGGATTATACCCGAAAG-TC
65 GTCTTAAGAATTGTGCTCTAAGGTCTTAAGGATTAT-GCTTAAAGATC
* * ** * *
1744355 TTAAAGATTGTAC-CTAAAGGTCTTAAAGATTGTGCCCAAAGGTC-TTAAAGATTGTGCTC-AGA
1 TTAAAGATTTTGCTC-AAAGGTCTTAAAGATTGTGCCTGAAGGTCTTTAAAGACTGTGCCCTA-A
*
1744417 GGTCTTAAGAATTATGCT
64 GGTCTTAAGAATTGTGCT
1744435 TGGAGGTTTT
Statistics
Matches: 156, Mismatches: 29, Indels: 13
0.79 0.15 0.07
Matches are distributed among these distances:
109 1 0.01
110 32 0.21
111 117 0.75
112 6 0.04
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.35
Consensus pattern (111 bp):
TTAAAGATTTTGCTCAAAGGTCTTAAAGATTGTGCCTGAAGGTCTTTAAAGACTGTGCCCTAAGG
TCTTAAGAATTGTGCTCTAAGGTCTTAAGGATTATGCTTAAAGATC
Found at i:1744749 original size:12 final size:12
Alignment explanation
Indices: 1744740--1744767 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1744730 TGGAAATGTT
1744740 AATGTCAATGCA
1 AATGTCAATGCA
1744752 AATGTCAATGCA
1 AATGTCAATGCA
1744764 AATG
1 AATG
1744768 CAAGAATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (12 bp):
AATGTCAATGCA
Found at i:1744754 original size:18 final size:18
Alignment explanation
Indices: 1744723--1744770 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
1744713 TCACCAAATG
* * *
1744723 ATGCTAATGGAAATGTTA
1 ATGCAAATGCAAATGTCA
1744741 ATGTC-AATGCAAATGTCA
1 ATG-CAAATGCAAATGTCA
1744759 ATGCAAATGCAA
1 ATGCAAATGCAA
1744771 GAATGTGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 24 0.92
19 1 0.04
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (18 bp):
ATGCAAATGCAAATGTCA
Found at i:1744888 original size:27 final size:27
Alignment explanation
Indices: 1744849--1744913 Score: 62
Period size: 26 Copynumber: 2.4 Consensus size: 27
1744839 GAAAAGCCAC
* *
1744849 TACAAATACCTTTTTTTA-GGATGCAAA
1 TACAAATATCTTTTGTTATGG-TGCAAA
* *
1744876 TACAAATTTC-TTTGTTATGGTGGAAA
1 TACAAATATCTTTTGTTATGGTGCAAA
*
1744902 TACAAATGTCTT
1 TACAAATATCTT
1744914 ATACAAGTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (27 bp):
TACAAATATCTTTTGTTATGGTGCAAA
Found at i:1745009 original size:40 final size:42
Alignment explanation
Indices: 1744935--1745046 Score: 144
Period size: 40 Copynumber: 2.8 Consensus size: 42
1744925 AATGCCAGTA
*
1744935 ATGCAAATGTGAATGT-TTTTCTTATGATGCAGATGCAA-ATG
1 ATGCAAATGTAAATGTCTTTTCTTATGATGCAGATGCAAGA-G
* *
1744976 ATGCAAATGTAAATATCTTTT-TT-TGATGTAGATGCAAGAG
1 ATGCAAATGTAAATGTCTTTTCTTATGATGCAGATGCAAGAG
*
1745016 ATGCAAATGTAAATGTC-TTTCTCATGATGCA
1 ATGCAAATGTAAATGTCTTTTCTTATGATGCA
1745047 TACCTAAATG
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
39 3 0.05
40 31 0.51
41 23 0.38
42 4 0.07
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.37
Consensus pattern (42 bp):
ATGCAAATGTAAATGTCTTTTCTTATGATGCAGATGCAAGAG
Found at i:1745116 original size:9 final size:9
Alignment explanation
Indices: 1745102--1745126 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1745092 TTGTGATGTA
1745102 GATGCAAGT
1 GATGCAAGT
1745111 GATGCAAGT
1 GATGCAAGT
1745120 GATGCAA
1 GATGCAA
1745127 ATGTGAATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.32, T:0.20
Consensus pattern (9 bp):
GATGCAAGT
Found at i:1747700 original size:58 final size:58
Alignment explanation
Indices: 1747634--1747754 Score: 161
Period size: 58 Copynumber: 2.1 Consensus size: 58
1747624 TTTAGGTTTC
* *** * *
1747634 AAGATGGTGAGAAAGTCCTTAACGCTCTTATGTTTGATAAATTTGAATTTTATGAATG
1 AAGATGGTGAGAAAGTCCTCAAAAATCCTATGTCTGATAAATTTGAATTTTATGAATG
* * *
1747692 GAGATGGTGAGGAAGTCCTCAAAAATCCTATGTCTGATAAATTTGAATTTTGTGAATG
1 AAGATGGTGAGAAAGTCCTCAAAAATCCTATGTCTGATAAATTTGAATTTTATGAATG
1747750 AAGAT
1 AAGAT
1747755 ATCTAGTAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (58 bp):
AAGATGGTGAGAAAGTCCTCAAAAATCCTATGTCTGATAAATTTGAATTTTATGAATG
Found at i:1749019 original size:10 final size:10
Alignment explanation
Indices: 1748947--1749024 Score: 57
Period size: 10 Copynumber: 7.2 Consensus size: 10
1748937 TACCTATTCA
1748947 TTTCTTTTTT
1 TTTCTTTTTT
*
1748957 TCTCTTCTTTT
1 TTTCTT-TTTT
*
1748968 ATTCTTCTTTT
1 TTTCTT-TTTT
*
1748979 CCTTTCATTTCATT
1 --TTTC-TTT-TTT
**
1748993 TTTCTTCCTT
1 TTTCTTTTTT
1749003 TTTCTTTTTT
1 TTTCTTTTTT
1749013 TTTCTTTTTT
1 TTTCTTTTTT
1749023 TT
1 TT
1749025 CACTGAGTAG
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
10 27 0.50
11 15 0.28
12 4 0.07
13 4 0.07
14 4 0.07
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:1749474 original size:17 final size:15
Alignment explanation
Indices: 1749438--1749469 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1749428 GTCATAACCA
*
1749438 TTTTTCATTTCTCTC
1 TTTTTCACTTCTCTC
1749453 TTTTTCACTTCTCTC
1 TTTTTCACTTCTCTC
1749468 TT
1 TT
1749470 CTTTTTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.28, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTTCACTTCTCTC
Found at i:1752222 original size:128 final size:127
Alignment explanation
Indices: 1752072--1752394 Score: 348
Period size: 131 Copynumber: 2.5 Consensus size: 127
1752062 TGGAATAACA
*
1752072 AGAATTCAAGAAAGTAGATTGCTTAAA-ATGAAGTCAAATGTTTCAAAAAAAAAGAGAAAAAAAT
1 AGAATTCAAGAAAGTAGATTGC-TAAAGATGAAGTCAAATGTTTCAAAAAAAAAGA-AAAAAAAC
** ** *
1752136 AAAAAAGACATAG-ACCTTGGAA-ATAAGAATCCGGGGTAAAAAGTGAAT-AAAGCTTTAAGAAG
64 AAAAAAGACAT-GTA-CTTCAAAGATAAGAATCCGAAGTAAAAAGTGAATGAAA-CTTTAAGAAA
1752198 AT
126 AT
* *
1752200 AGAATTCAAGAAAGTTGATTGCTAAAGATGAAGTCAAATGTTCCTAAAAGAAAAAGAAAAGTAAA
1 AGAATTCAAGAAAGTAGATTGCTAAAGATGAAGTCAAATGTTTC-AAAA-AAAAAGAAAA--AAA
* * * * *
1752265 GCAAGAAAGACATGTACTTCAAAGATGAGAGTCCGAAGTAAAAAGTGAATGAAACTTTAGGAAAA
62 ACAAAAAAGACATGTACTTCAAAGATAAGAATCCGAAGTAAAAAGTGAATGAAACTTTAAGAAAA
1752330 T
127 T
* * * * * *
1752331 AAAATTCAAGAAAGTAAAATGCTAAAGTTGAAGTCAAATATTTGCAAAAAAAAAAACAAAAAAA
1 AGAATTCAAGAAAGTAGATTGCTAAAGATGAAGTCAAATGTTT-CAAAAAAAAAGA-AAAAAAA
1752395 AAGATAAAGA
Statistics
Matches: 163, Mismatches: 22, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
127 4 0.02
128 37 0.23
129 10 0.06
130 19 0.12
131 89 0.55
132 4 0.02
ACGTcount: A:0.54, C:0.08, G:0.18, T:0.20
Consensus pattern (127 bp):
AGAATTCAAGAAAGTAGATTGCTAAAGATGAAGTCAAATGTTTCAAAAAAAAAGAAAAAAAACAA
AAAAGACATGTACTTCAAAGATAAGAATCCGAAGTAAAAAGTGAATGAAACTTTAAGAAAAT
Found at i:1754039 original size:14 final size:14
Alignment explanation
Indices: 1754020--1754052 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1754010 TTTAAGTAAT
1754020 AAAAAAAAGAAAAG
1 AAAAAAAAGAAAAG
*
1754034 AAAAAAAAGAGAAG
1 AAAAAAAAGAAAAG
1754048 AAAAA
1 AAAAA
1754053 GTAGTAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAAAG
Found at i:1754586 original size:22 final size:22
Alignment explanation
Indices: 1754556--1754609 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
1754546 AAGTTGGCAC
1754556 CCAAG-ATAATCTCTAAGACCT
1 CCAAGCATAATCTCTAAGACCT
*
1754577 TCAAGCATAATCTCTAAGACCT
1 CCAAGCATAATCTCTAAGACCT
1754599 CCAAGCATAAT
1 CCAAGCATAAT
1754610 TCCCAAGCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 4 0.13
22 26 0.87
ACGTcount: A:0.39, C:0.28, G:0.09, T:0.24
Consensus pattern (22 bp):
CCAAGCATAATCTCTAAGACCT
Found at i:1754744 original size:105 final size:105
Alignment explanation
Indices: 1754591--1755257 Score: 605
Period size: 105 Copynumber: 6.3 Consensus size: 105
1754581 GCATAATCTC
* * * * *
1754591 TAAGACCTCCAAGCATAAT-TCCCAAG-CTTTCGGGCAAAATATTTTAAAATTTCAAAGTTTCAA
1 TAAGACCTTCAAGCATAATCT-CCAAGACCTTCAGGCAAAACATTTTAAATTTTCAAAGTTTCAA
* * *
1754654 TGCTTTTGAGTAGGAGGAACATTCAAAGATGTTAAGATTTG
65 TGCTTTTGATTGGGAGGAACATTCAAAGATGTTGAGATTTG
* * * * * *
1754695 TAAGACCTTCAAGTATAATCTCCAAGACCTACGGGCAAAACATTTTAAAATTTCAAAATTTCAAA
1 TAAGACCTTCAAGCATAATCTCCAAGACCTTCAGGCAAAACATTTTAAATTTTCAAAGTTTCAAT
* * * * *
1754760 GCCTCTACCTCTAATTGGGTGGAGCATTCAAAGATATTGAGATTTA
66 G-CT-T---T-TGATTGGGAGGAACATTCAAAGATGTTGAGATTTG
* * * * *
1754806 TAAGACCTTCAGGCATAATCTTCAAGACCTTTAAGCACAACATTTTAAATTTTCAAAGTTTCAAT
1 TAAGACCTTCAAGCATAATCTCCAAGACCTTCAGGCAAAACATTTTAAATTTTCAAAGTTTCAAT
* * * *
1754871 GCCTTTGATTGGGAGGAGCATTCAAAGATGTTAAGATTTA
66 GCTTTTGATTGGGAGGAACATTCAAAGATGTTGAGATTTG
* * *
1754911 TAAGACTTTCAAGCATAATCTCCATGACC-TCTAGGCAAAACATTTTAAATTTTCAACGTTTCAA
1 TAAGACCTTCAAGCATAATCTCCAAGACCTTC-AGGCAAAACATTTTAAATTTTCAAAGTTTCAA
* * *
1754975 TGCCTCTACCTCTGATT--AAGGAAGCATTAAAAAATGTTGAGATTTG
65 TG-CT-T---T-TGATTGGGAGGAA-CATTCAAAGATGTTGAGATTTG
* * * * * * *
1755021 TAAGACC-TCTAAGCATATTCTCTAAAACCTCCAAGCAAAACATTTTAAATTTTTAAGGTTTCAA
1 TAAGACCTTC-AAGCATAATCTCCAAGACCTTCAGGCAAAACATTTTAAATTTTCAAAGTTTCAA
* * *
1755085 TGC-TCTGATTGGGA-GAAGCATTTAAAAAATGTTGAGATTTG
65 TGCTTTTGATTGGGAGGAA-CA-TTCAAAGATGTTGAGATTTG
* * *
1755126 TAAGA-CTTCCAAGTATAATCTCCAAGACCTTCAGGCAAAACATTTTAAATTTTTAAAGTTTTAA
1 TAAGACCTT-CAAGCATAATCTCCAAGACCTTCAGGCAAAACATTTTAAATTTTCAAAGTTTCAA
* * * *
1755190 TTCTTTTGATTGGGAAGAGCATTCAAAGATGTCGAGATTTG
65 TGCTTTTGATTGGGAGGAACATTCAAAGATGTTGAGATTTG
* * * *
1755231 TAAGACATCCAAGTATAATCTCTAAGA
1 TAAGACCTTCAAGCATAATCTCCAAGA
1755258 TCTTTAGGGA
Statistics
Matches: 463, Mismatches: 74, Indels: 51
0.79 0.13 0.09
Matches are distributed among these distances:
103 5 0.01
104 30 0.06
105 236 0.51
106 18 0.04
107 5 0.01
109 8 0.02
110 73 0.16
111 88 0.19
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (105 bp):
TAAGACCTTCAAGCATAATCTCCAAGACCTTCAGGCAAAACATTTTAAATTTTCAAAGTTTCAAT
GCTTTTGATTGGGAGGAACATTCAAAGATGTTGAGATTTG
Found at i:1755132 original size:215 final size:215
Alignment explanation
Indices: 1754624--1755178 Score: 681
Period size: 215 Copynumber: 2.6 Consensus size: 215
1754614 AAGCTTTCGG
* * * *
1754624 GCAAAATATTTTAAAATTTCAAAGTTTCAATGCTTTTGAGTAGGAGGAA-CATTCAAAGATGTTA
1 GCAAAACATTTTAAATTTTCAAAGTTTCAATGC-TTTGATTGGGA-GAAGCATTCAAAGATGTTA
* * *
1754688 AGATTTGTAAGACCTTCAAGTATAATCTCCAAGACCTAC-GGGCAAAACATTTTAAAATTTCAAA
64 AGATTTGTAAGACTTTCAAGTATAATCTCCAAGACCT-CTAGGCAAAACATTTTAAATTTTCAAA
** * * *
1754752 ATTTCAAAGCCTCTACCTCTAATTGGGTGGAGCATTCAAAGATATTGAGATTTATAAGACCTTCA
128 ATTTCAAAGCCTCTACCTCTAATTAAGTGAAGCATTAAAAAATATTGAGATTTATAAGACCTTCA
* * **
1754817 GGCATAATCTTCAAGACCTTTAA
193 AGCATAATCTTCAAAACCTCCAA
* *
1754840 GCACAACATTTTAAATTTTCAAAGTTTCAATGCCTTTGATTGGGAGGAGCATTCAAAGATGTTAA
1 GCAAAACATTTTAAATTTTCAAAGTTTCAATG-CTTTGATTGGGAGAAGCATTCAAAGATGTTAA
* * * **
1754905 GATTTATAAGACTTTCAAGCATAATCTCCATGACCTCTAGGCAAAACATTTTAAATTTTCAACGT
65 GATTTGTAAGACTTTCAAGTATAATCTCCAAGACCTCTAGGCAAAACATTTTAAATTTTCAAAAT
* * * *
1754970 TTCAATGCCTCTACCTCTGATTAAG-GAAGCATTAAAAAATGTTGAGATTTGTAAGACC-TCTAA
130 TTCAAAGCCTCTACCTCTAATTAAGTGAAGCATTAAAAAATATTGAGATTTATAAGACCTTC-AA
*
1755033 GCATATTC-TCTAAAACCTCCAA
194 GCATAATCTTC-AAAACCTCCAA
* * * * * *
1755055 GCAAAACATTTTAAATTTTTAAGGTTTCAATGCTCTGATTGGGAGAAGCATTTAAAAAATGTTGA
1 GCAAAACATTTTAAATTTTCAAAGTTTCAATGCTTTGATTGGGAGAAGCA-TTCAAAGATGTTAA
*
1755120 GATTTGTAAGACTTCCAAGTATAATCTCCAAGACCT-TCAGGCAAAACATTTTAAATTTT
65 GATTTGTAAGACTTTCAAGTATAATCTCCAAGACCTCT-AGGCAAAACATTTTAAATTTT
1755179 TAAAGTTTTA
Statistics
Matches: 292, Mismatches: 40, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
214 21 0.07
215 140 0.48
216 130 0.45
217 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (215 bp):
GCAAAACATTTTAAATTTTCAAAGTTTCAATGCTTTGATTGGGAGAAGCATTCAAAGATGTTAAG
ATTTGTAAGACTTTCAAGTATAATCTCCAAGACCTCTAGGCAAAACATTTTAAATTTTCAAAATT
TCAAAGCCTCTACCTCTAATTAAGTGAAGCATTAAAAAATATTGAGATTTATAAGACCTTCAAGC
ATAATCTTCAAAACCTCCAA
Found at i:1755588 original size:17 final size:18
Alignment explanation
Indices: 1755554--1755605 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
1755544 AATAAAGACA
1755554 AAAAAAAAACCAAAAACCC
1 AAAAAAAAACC-AAAACCC
*
1755573 AAAAAAAAACC-CAACCC
1 AAAAAAAAACCAAAACCC
* *
1755590 AAAACAAAACAAAAAC
1 AAAAAAAAACCAAAAC
1755606 AAAATTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 14 0.50
18 3 0.11
19 11 0.39
ACGTcount: A:0.73, C:0.27, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAAAAACCAAAACCC
Found at i:1755803 original size:13 final size:13
Alignment explanation
Indices: 1755785--1755811 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1755775 GGCTAACTTA
1755785 ATTTATATGAATC
1 ATTTATATGAATC
1755798 ATTTATATGAATC
1 ATTTATATGAATC
1755811 A
1 A
1755812 AAATCTGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (13 bp):
ATTTATATGAATC
Found at i:1760505 original size:21 final size:21
Alignment explanation
Indices: 1760468--1760526 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
1760458 ACCCTTTAGC
** * *
1760468 TCAACCCTTTTTATGTATAGT
1 TCAACCCCCTTTATGTACAAT
*
1760489 TCAACCCCCTTTGTGTACAAT
1 TCAACCCCCTTTATGTACAAT
*
1760510 TCAACCTCCTTTATGTA
1 TCAACCCCCTTTATGTA
1760527 GCGATTTCCC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.24, C:0.27, G:0.08, T:0.41
Consensus pattern (21 bp):
TCAACCCCCTTTATGTACAAT
Found at i:1761433 original size:28 final size:28
Alignment explanation
Indices: 1761372--1761433 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
1761362 TTTGGTTTTC
* **
1761372 TGATTTGTGCTCAAGAAGCTTTAAGATC
1 TGATTTGTGCTCAAGAAGCTTTAAAAAA
*
1761400 TGATTTGTGTTCAAGAAGCTTCTAAAAAA
1 TGATTTGTGCTCAAGAAGCTT-TAAAAAA
1761429 T-ATTT
1 TGATTT
1761434 TATTCCTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 24 0.83
29 5 0.17
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (28 bp):
TGATTTGTGCTCAAGAAGCTTTAAAAAA
Found at i:1773417 original size:19 final size:18
Alignment explanation
Indices: 1773384--1773419 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1773374 TGATGCACAC
1773384 ACAAAATTTAATAAGTTT
1 ACAAAATTTAATAAGTTT
*
1773402 ACAAAGTTTGAATAAGTT
1 ACAAAATTT-AATAAGTT
1773420 GCCAACCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (18 bp):
ACAAAATTTAATAAGTTT
Found at i:1776593 original size:70 final size:70
Alignment explanation
Indices: 1776519--1776699 Score: 240
Period size: 70 Copynumber: 2.6 Consensus size: 70
1776509 GTCAAAGATA
* * * **
1776519 TAAATGCTCACCAAATGAT-CTAAATGCATGGTTCTAACTTTAATGCAAATGCAATATGC-AAAC
1 TAAATACTCACCAAATGATGC-AAATGCATGGTACAAACAATAATGCAAATGCAATATGCAAAAC
1776582 AATGATT
65 AATGA-T
* *
1776589 TAAATACTCACCAAATGATGCAAATGCATGGTACAAACAATGATGCAAATGCAATATTCAAAACA
1 TAAATACTCACCAAATGATGCAAATGCATGGTACAAACAATAATGCAAATGCAATATGCAAAACA
1776654 ATGAT
66 ATGAT
* * *
1776659 TAAATTCTCATCAAATGATGCAAATGTATGGTACAAACAAT
1 TAAATACTCACCAAATGATGCAAATGCATGGTACAAACAAT
1776700 TATGTAGTTT
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
70 89 0.90
71 10 0.10
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.27
Consensus pattern (70 bp):
TAAATACTCACCAAATGATGCAAATGCATGGTACAAACAATAATGCAAATGCAATATGCAAAACA
ATGAT
Found at i:1776650 original size:25 final size:26
Alignment explanation
Indices: 1776602--1776658 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
1776592 ATACTCACCA
*
1776602 AATGATGCAAATGCATGGTAC-AAAC
1 AATGATGCAAATGCATGATACAAAAC
*
1776627 AATGATGCAAATGCAAT-ATTCAAAAC
1 AATGATGCAAATGC-ATGATACAAAAC
1776653 AATGAT
1 AATGAT
1776659 TAAATTCTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 16 0.57
26 12 0.43
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.23
Consensus pattern (26 bp):
AATGATGCAAATGCATGATACAAAAC
Found at i:1779614 original size:14 final size:15
Alignment explanation
Indices: 1779587--1779621 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
1779577 TATACTAATC
1779587 AACAAAATTAAAAAT
1 AACAAAATTAAAAAT
1779602 AACAAAA-TAAAAAT
1 AACAAAATTAAAAAT
1779616 AA-AAAA
1 AACAAAA
1779622 CATGTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 4 0.20
14 9 0.45
15 7 0.35
ACGTcount: A:0.80, C:0.06, G:0.00, T:0.14
Consensus pattern (15 bp):
AACAAAATTAAAAAT
Found at i:1782725 original size:11 final size:11
Alignment explanation
Indices: 1782709--1782734 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1782699 AATTTAATAT
1782709 CAAATCAATTG
1 CAAATCAATTG
1782720 CAAATCAATTG
1 CAAATCAATTG
1782731 CAAA
1 CAAA
1782735 CCCACCATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.19, G:0.08, T:0.23
Consensus pattern (11 bp):
CAAATCAATTG
Found at i:1784437 original size:30 final size:30
Alignment explanation
Indices: 1784387--1784463 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 30
1784377 CGAATCTATG
* * * *
1784387 CTCTTATACCACTTGCTGGGATCACAATAA
1 CTCTAATACCATTTGTTGGGATCACAACAA
**
1784417 CTCTAATACCATTTGTTGGGATCATGACAA
1 CTCTAATACCATTTGTTGGGATCACAACAA
* *
1784447 CTTTGATACCATTTGTT
1 CTCTAATACCATTTGTT
1784464 AGGAACATGA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.36
Consensus pattern (30 bp):
CTCTAATACCATTTGTTGGGATCACAACAA
Found at i:1785354 original size:17 final size:18
Alignment explanation
Indices: 1785332--1785367 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1785322 ATTTAAATGA
*
1785332 ATTTTTTATTATTAGACT
1 ATTTTTTATAATTAGACT
1785350 ATTTTTTATAATTAGACT
1 ATTTTTTATAATTAGACT
1785368 CAAAAATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.58
Consensus pattern (18 bp):
ATTTTTTATAATTAGACT
Found at i:1785748 original size:23 final size:22
Alignment explanation
Indices: 1785710--1785761 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 22
1785700 AATTAACAAT
1785710 TGATAACATAGTAAAAAATCAA
1 TGATAACATAGTAAAAAATCAA
1785732 TGATAACATAGTAAAAAAATCAA
1 TGATAACATAGT-AAAAAATCAA
*
1785755 TAATAAC
1 TGATAAC
1785762 GTAATAGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.60, C:0.10, G:0.08, T:0.23
Consensus pattern (22 bp):
TGATAACATAGTAAAAAATCAA
Found at i:1785788 original size:22 final size:22
Alignment explanation
Indices: 1785763--1785825 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
1785753 AATAATAACG
1785763 TAATAGTAAATTAATGATAATT
1 TAATAGTAAATTAATGATAATT
* * **
1785785 TAATAATAAATCAATTTTAATT
1 TAATAGTAAATTAATGATAATT
*
1785807 TAAAAGT-AATTAATTGATA
1 TAATAGTAAATTAA-TGATA
1785826 GTAGTAAATA
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
21 5 0.16
22 26 0.84
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (22 bp):
TAATAGTAAATTAATGATAATT
Found at i:1787755 original size:15 final size:15
Alignment explanation
Indices: 1787737--1787782 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
1787727 TTTTCGACTT
1787737 TTGCTTTGCCTTGCC
1 TTGCTTTGCCTTGCC
* *
1787752 TTGCCTTACCTTGCC
1 TTGCTTTGCCTTGCC
1787767 TTG-TTGTGCCTTGCC
1 TTGCTT-TGCCTTGCC
1787782 T
1 T
1787783 CTCAAATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 1 0.04
15 25 0.96
ACGTcount: A:0.02, C:0.33, G:0.20, T:0.46
Consensus pattern (15 bp):
TTGCTTTGCCTTGCC
Found at i:1792480 original size:22 final size:22
Alignment explanation
Indices: 1792400--1792547 Score: 67
Period size: 22 Copynumber: 6.9 Consensus size: 22
1792390 ATTACTCAGT
*
1792400 GATAACTTAGTAGT-AATCAA-G
1 GATAATTTAGTAGTAAAT-AATG
* * *
1792421 GATAAGTTAATA-TAAATTA-G
1 GATAATTTAGTAGTAAATAATG
* * *
1792441 TGATAACTTGGTAATAAATAATG
1 -GATAATTTAGTAGTAAATAATG
* *
1792464 GATAATTTAGTAGTAAATCATT
1 GATAATTTAGTAGTAAATAATG
* * * *
1792486 GCTAATTTTGTAGTACATAATT
1 GATAATTTAGTAGTAAATAATG
*
1792508 GA-AATGTAAGTAGTAAATCAAT-
1 GATAAT-TTAGTAGTAAAT-AATG
* *
1792530 TATAA-ATAGTAGTAAATA
1 GATAATTTAGTAGTAAATA
1792548 CAAAATAATA
Statistics
Matches: 97, Mismatches: 23, Indels: 15
0.72 0.17 0.11
Matches are distributed among these distances:
20 4 0.04
21 35 0.36
22 52 0.54
23 6 0.06
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.35
Consensus pattern (22 bp):
GATAATTTAGTAGTAAATAATG
Found at i:1792555 original size:21 final size:21
Alignment explanation
Indices: 1792516--1792570 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
1792506 TTGAAATGTA
*
1792516 AGTAGTAAATCAATTATAAAT
1 AGTAGTAAATCAATAATAAAT
1792537 AGTAGTAAATACAA-AATAATAT
1 AGTAGTAAAT-CAATAATAA-AT
* *
1792559 AATAATAAATCA
1 AGTAGTAAATCA
1792571 TTGATAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 16 0.55
22 13 0.45
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.29
Consensus pattern (21 bp):
AGTAGTAAATCAATAATAAAT
Found at i:1792623 original size:22 final size:22
Alignment explanation
Indices: 1792595--1792878 Score: 86
Period size: 22 Copynumber: 13.0 Consensus size: 22
1792585 GTAAATTTAG
1792595 TAGTAAATCACTAATAATATAA
1 TAGTAAATCACTAATAATATAA
1792617 TAGTAAATCACTAA-AA-ACT--
1 TAGTAAATCACTAATAATA-TAA
* * **
1792636 TAGTTAATGATCATTAATAACATTG
1 TAG-TAA--ATCACTAATAATATAA
* ** * *
1792661 TGGTAAATCACTGTTAATTTAG
1 TAGTAAATCACTAATAATATAA
* *
1792683 TAGTAAATCAATTATAACTTTATAA
1 TAGTAAATCACTAATAA---TATAA
** *
1792708 -AAAAAAT--CT-ATAATTTAA
1 TAGTAAATCACTAATAATATAA
* ** *
1792726 TAGTAAATCACCAACCATTTAA
1 TAGTAAATCACTAATAATATAA
* *
1792748 TAGTAAA-CA-TCATAATTTAA
1 TAGTAAATCACTAATAATATAA
* * *
1792768 TGGTAAATCACTCATAA-ATTAG
1 TAGTAAATCACTAATAATA-TAA
** * *
1792790 TAGTAAATCACTGGTAATTTAG
1 TAGTAAATCACTAATAATATAA
* * * *
1792812 TAGTAAATCATTGATAACATAG
1 TAGTAAATCACTAATAATATAA
** *
1792834 TAACAAATCATTAATAATATAA
1 TAGTAAATCACTAATAATATAA
* * *
1792856 TAATAAATCAATAATAATTTAA
1 TAGTAAATCACTAATAATATAA
1792878 T
1 T
1792879 TGTCATTCAT
Statistics
Matches: 197, Mismatches: 46, Indels: 38
0.70 0.16 0.14
Matches are distributed among these distances:
18 4 0.02
19 8 0.04
20 17 0.09
21 12 0.06
22 139 0.71
23 3 0.02
24 9 0.05
25 5 0.03
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.35
Consensus pattern (22 bp):
TAGTAAATCACTAATAATATAA
Found at i:1792794 original size:42 final size:41
Alignment explanation
Indices: 1792717--1792821 Score: 104
Period size: 42 Copynumber: 2.5 Consensus size: 41
1792707 AAAAAAATCT
*
1792717 ATAATTTAATAGTAAATCACCAACCATTTAATAGTAAACATC
1 ATAATTTAATAGTAAATCACCAA-CAATTAATAGTAAACATC
* * *
1792759 ATAATTTAATGGTAAATCACTCATA-AATTAGTAGTAAATCACTG
1 ATAATTTAATAGTAAATCAC-CA-ACAATTAATAGTAAA-CA-TC
* *
1792803 GTAATTTAGTAGTAAATCA
1 ATAATTTAATAGTAAATCA
1792822 TTGATAACAT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
42 30 0.58
43 4 0.08
44 18 0.35
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (41 bp):
ATAATTTAATAGTAAATCACCAACAATTAATAGTAAACATC
Found at i:1797156 original size:22 final size:23
Alignment explanation
Indices: 1797119--1797166 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
1797109 AAATCAAAGA
*
1797119 TAATAAAATAAGTGATAACTTAG
1 TAATAAAATAAATGATAACTTAG
1797142 TAAT-AAATAAATGATAACTTAG
1 TAATAAAATAAATGATAACTTAG
1797164 TAA
1 TAA
1797167 CATAATGACA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.54, C:0.04, G:0.10, T:0.31
Consensus pattern (23 bp):
TAATAAAATAAATGATAACTTAG
Found at i:1797397 original size:22 final size:22
Alignment explanation
Indices: 1797369--1797480 Score: 79
Period size: 22 Copynumber: 5.2 Consensus size: 22
1797359 ATAAATTTAG
1797369 TAGTAAATCATAAATAACTTAA
1 TAGTAAATCATAAATAACTTAA
* *
1797391 TAGTAAATCA-ATGATAATTTAA
1 TAGTAAATCATA-AATAACTTAA
* * *
1797413 TAGTAATTAATCAA-AACTTAA
1 TAGTAAATCATAAATAACTTAA
* * *
1797434 AAGTAAAT--TAATACAACTTAG
1 TAGTAAATCATAA-ATAACTTAA
** *
1797455 TAGTAAATCATTGATAGCTTAA
1 TAGTAAATCATAAATAACTTAA
1797477 TAGT
1 TAGT
1797481 TAGTTAGTTA
Statistics
Matches: 67, Mismatches: 17, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
19 2 0.03
20 1 0.01
21 26 0.39
22 37 0.55
23 1 0.01
ACGTcount: A:0.49, C:0.08, G:0.09, T:0.34
Consensus pattern (22 bp):
TAGTAAATCATAAATAACTTAA
Found at i:1797438 original size:21 final size:21
Alignment explanation
Indices: 1797384--1797462 Score: 61
Period size: 21 Copynumber: 3.7 Consensus size: 21
1797374 AATCATAAAT
* * *
1797384 AACTTAATAGTAAATCAATGAT
1 AACTTAAAAGTAAATTAAT-AA
* *
1797406 AATTTAATAGT-AATTAATCAA
1 AACTTAAAAGTAAATTAAT-AA
*
1797427 AACTTAAAAGTAAATTAATAC
1 AACTTAAAAGTAAATTAATAA
**
1797448 AACTTAGTAGTAAAT
1 AACTTAAAAGTAAAT
1797463 CATTGATAGC
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
21 30 0.64
22 17 0.36
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.33
Consensus pattern (21 bp):
AACTTAAAAGTAAATTAATAA
Found at i:1797441 original size:43 final size:45
Alignment explanation
Indices: 1797357--1797441 Score: 111
Period size: 44 Copynumber: 1.9 Consensus size: 45
1797347 AGTAATTAAT
* * *
1797357 TGATAAATTTAGTAGTAAATCATAAATAACTTAATAGTAAATCAA
1 TGATAAATTTAATAGTAAATAATAAATAACTTAAAAGTAAATCAA
* *
1797402 TGAT-AATTTAATAGTAATTAATCAA-AACTTAAAAGTAAAT
1 TGATAAATTTAATAGTAAATAATAAATAACTTAAAAGTAAAT
1797442 TAATACAACT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 14 0.40
44 17 0.49
45 4 0.11
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (45 bp):
TGATAAATTTAATAGTAAATAATAAATAACTTAAAAGTAAATCAA
Found at i:1797744 original size:22 final size:22
Alignment explanation
Indices: 1797695--1797746 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
1797685 AATAGTAAAT
* * *
1797695 TAGTTAATCATTCATAACTTAA
1 TAGTAAATAATTCATAAATTAA
* *
1797717 TGGTAAATAATTCATAAATTAG
1 TAGTAAATAATTCATAAATTAA
1797739 TAGTAAAT
1 TAGTAAAT
1797747 TAATGATAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (22 bp):
TAGTAAATAATTCATAAATTAA
Found at i:1797840 original size:21 final size:21
Alignment explanation
Indices: 1797733--1797842 Score: 78
Period size: 22 Copynumber: 5.1 Consensus size: 21
1797723 ATAATTCATA
*
1797733 AATTAGTAGTAAATTAATGAT
1 AATTAGTAGTAAATCAATGAT
* * * **
1797754 AATTTACTATTAAACCTTTGAT
1 AA-TTAGTAGTAAATCAATGAT
* *
1797776 AATTTAGTAGTAAATCATTAAT
1 AA-TTAGTAGTAAATCAATGAT
* *
1797798 AGTTTAATAGTAAAT-AACTGAT
1 A-ATTAGTAGTAAATCAA-TGAT
*
1797820 AATTAGTAGTTAATCAATGAT
1 AATTAGTAGTAAATCAATGAT
1797841 AA
1 AA
1797843 ATTAATTGTC
Statistics
Matches: 67, Mismatches: 18, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
21 19 0.28
22 48 0.72
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (21 bp):
AATTAGTAGTAAATCAATGAT
Found at i:1800140 original size:20 final size:20
Alignment explanation
Indices: 1800117--1800159 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
1800107 GGTTTACATA
*
1800117 TAGGGCTTAGGGTTTCATTT
1 TAGGACTTAGGGTTTCATTT
*
1800137 TAGGATTTAGGGTTTCATTT
1 TAGGACTTAGGGTTTCATTT
1800157 TAG
1 TAG
1800160 AGTTTAAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.19, C:0.07, G:0.28, T:0.47
Consensus pattern (20 bp):
TAGGACTTAGGGTTTCATTT
Found at i:1800146 original size:39 final size:39
Alignment explanation
Indices: 1800136--1800223 Score: 81
Period size: 39 Copynumber: 2.2 Consensus size: 39
1800126 GGGTTTCATT
* * *
1800136 TTAGGATTTAGGGTTT-CATTTTAGAGTTTAAGATTTCA-T
1 TTAGGATTTAGGGTTTACA-TATAG-GGTTAAGGTTTCATT
* * *
1800175 TTAGGATTTAGGGGATTACACACAGGGTTAAGGTTTCATT
1 TTAGGATTTA-GGGTTTACATATAGGGTTAAGGTTTCATT
1800215 TTAGGATTT
1 TTAGGATTT
1800224 CACTTTTAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
39 21 0.52
40 17 0.43
41 2 0.05
ACGTcount: A:0.26, C:0.07, G:0.24, T:0.43
Consensus pattern (39 bp):
TTAGGATTTAGGGTTTACATATAGGGTTAAGGTTTCATT
Found at i:1800165 original size:20 final size:20
Alignment explanation
Indices: 1800123--1800187 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
1800113 CATATAGGGC
1800123 TTAGGGTTTCATTTTAGGAT
1 TTAGGGTTTCATTTTAGGAT
1800143 TTAGGGTTTCATTTTA-GAGT
1 TTAGGGTTTCATTTTAGGA-T
* *
1800163 TTAAGATTTCA-TTTAGGAT
1 TTAGGGTTTCATTTTAGGAT
1800182 TTAGGG
1 TTAGGG
1800188 GATTACACAC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
19 11 0.28
20 28 0.72
ACGTcount: A:0.23, C:0.05, G:0.25, T:0.48
Consensus pattern (20 bp):
TTAGGGTTTCATTTTAGGAT
Found at i:1800243 original size:13 final size:13
Alignment explanation
Indices: 1800206--1800253 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
1800196 ACAGGGTTAA
1800206 GGTTTCATTTTAG
1 GGTTTCATTTTAG
*
1800219 GATTTCACTTTTAG
1 GGTTTCA-TTTTAG
*
1800233 GGTTTCTTTTTTAG
1 GGTTTC-ATTTTAG
*
1800247 GTTTTCA
1 GGTTTCA
1800254 AAGAACCTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
13 6 0.21
14 22 0.79
ACGTcount: A:0.15, C:0.10, G:0.19, T:0.56
Consensus pattern (13 bp):
GGTTTCATTTTAG
Found at i:1800338 original size:3 final size:3
Alignment explanation
Indices: 1800330--1800359 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
1800320 TGTAAAAAAT
1800330 TTA TTA TTA TTA TTA TTA TTA TTTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TT
1800360 TCTTTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:1807989 original size:23 final size:23
Alignment explanation
Indices: 1807944--1807990 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1807934 CCAAGCTAGG
* * **
1807944 TCTCAGCACCCTAGCCTTGGGGT
1 TCTCAGAACCCCAGCCTCAGGGT
1807967 TCTCAGAACCCCAGCCTCAGGGT
1 TCTCAGAACCCCAGCCTCAGGGT
1807990 T
1 T
1807991 TTCAAGAGCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.17, C:0.36, G:0.23, T:0.23
Consensus pattern (23 bp):
TCTCAGAACCCCAGCCTCAGGGT
Found at i:1816091 original size:3 final size:3
Alignment explanation
Indices: 1816083--1816166 Score: 114
Period size: 3 Copynumber: 28.0 Consensus size: 3
1816073 AGTTTATTTG
* * * * * *
1816083 ATT ATT ATT ATT ATT GTT GTT GTT ATT GTT GTT GTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1816131 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1816167 TTTGTTTTAA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1816938 original size:3 final size:3
Alignment explanation
Indices: 1816930--1816964 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
1816920 TAATTTGATT
1816930 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1816965 GGGTTTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1817001 original size:10 final size:10
Alignment explanation
Indices: 1816986--1817019 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
1816976 TACTTGTTTT
1816986 AAAAAGTAAA
1 AAAAAGTAAA
*
1816996 AAAAAGGAAA
1 AAAAAGTAAA
1817006 AAAATAGTAAA
1 AAAA-AGTAAA
1817017 AAA
1 AAA
1817020 GGGAAATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 13 0.62
11 8 0.38
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (10 bp):
AAAAAGTAAA
Found at i:1817926 original size:24 final size:25
Alignment explanation
Indices: 1817893--1817950 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
1817883 TCCTTTCTTT
*
1817893 TTTTCATTTTAATTTC-TGTTT-CAA
1 TTTT-ATTTTTATTTCATGTTTCCAA
* *
1817917 TTTTATTTTTATTTCATTTTTCCTA
1 TTTTATTTTTATTTCATGTTTCCAA
1817942 TTTTATTTT
1 TTTTATTTT
1817951 CATTATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 10 0.34
24 8 0.28
25 11 0.38
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (25 bp):
TTTTATTTTTATTTCATGTTTCCAA
Found at i:1817937 original size:17 final size:16
Alignment explanation
Indices: 1817890--1817937 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
1817880 AATTCCTTTC
*
1817890 TTTTTTTCATTTTAAT
1 TTTTTTTCATTTTTAT
* *
1817906 TTCTGTTTCAATTTTAT
1 TT-TTTTTCATTTTTAT
1817923 TTTTATTTCATTTTT
1 TTTT-TTTCATTTTT
1817938 CCTATTTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 3 0.12
17 22 0.88
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.73
Consensus pattern (16 bp):
TTTTTTTCATTTTTAT
Found at i:1819431 original size:18 final size:16
Alignment explanation
Indices: 1819408--1819447 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
1819398 CTATCTATTT
1819408 TCATTCATTTCATGCATC
1 TCATTCA-TTCAT-CATC
*
1819426 TCATTCATTCATCATG
1 TCATTCATTCATCATC
1819442 TCATTC
1 TCATTC
1819448 CATAATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.43
17 5 0.24
18 7 0.33
ACGTcount: A:0.23, C:0.28, G:0.05, T:0.45
Consensus pattern (16 bp):
TCATTCATTCATCATC
Found at i:1826153 original size:21 final size:21
Alignment explanation
Indices: 1826132--1826189 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
1826122 TATTGAAAAT
1826132 ATAAAAGTAAAAATAAAGAATA
1 ATAAAA-TAAAAATAAAGAATA
* *
1826154 ATAAAATAATAATAATAGTA-A
1 ATAAAATAAAAATAA-AGAATA
1826175 AT-AAATAAATAATAA
1 ATAAAATAAA-AATAA
1826190 TAATTAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 6 0.19
21 16 0.52
22 9 0.29
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (21 bp):
ATAAAATAAAAATAAAGAATA
Found at i:1826294 original size:14 final size:14
Alignment explanation
Indices: 1826271--1826318 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
1826261 AAAGGTTTTT
*
1826271 TGAAAACCTAAAAA
1 TGAAACCCTAAAAA
*
1826285 TGAAACCCTAAAAG
1 TGAAACCCTAAAAA
*
1826299 TGAAATCCT-AAAA
1 TGAAACCCTAAAAA
1826312 TGAAACC
1 TGAAACC
1826319 TTTAATCCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 9 0.31
14 20 0.69
ACGTcount: A:0.54, C:0.19, G:0.10, T:0.17
Consensus pattern (14 bp):
TGAAACCCTAAAAA
Found at i:1828573 original size:22 final size:22
Alignment explanation
Indices: 1828476--1828647 Score: 101
Period size: 22 Copynumber: 7.8 Consensus size: 22
1828466 AGTATAAAAT
* * * *
1828476 ATTATCAATTATTGACAATTAA
1 ATTATCAATGATTTACTACTAA
* * * *
1828498 TTTATCATTGATTAACTACTAT
1 ATTATCAATGATTTACTACTAA
* * *
1828520 ATTATCAGTTATTTACTATTAA
1 ATTATCAATGATTTACTACTAA
** * *
1828542 CCTATTAATGATTTACCACTAA
1 ATTATCAATGATTTACTACTAA
* *
1828564 ATTATCAATGGTTTAATACTAA
1 ATTATCAATGATTTACTACTAA
* * *
1828586 ATTGTCATTAATTTACTACTAA
1 ATTATCAATGATTTACTACTAA
* * * *
1828608 TTTATGAATGATTTACAATTAA
1 ATTATCAATGATTTACTACTAA
* * *
1828630 GTTATGAATGATTAACTA
1 ATTATCAATGATTTACTA
1828648 ATTTACTATT
Statistics
Matches: 109, Mismatches: 41, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 109 1.00
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (22 bp):
ATTATCAATGATTTACTACTAA
Found at i:1828703 original size:22 final size:22
Alignment explanation
Indices: 1828676--1828723 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1828666 TTTGATAATC
*
1828676 ACTACTAAGTTATT-AATAATTT
1 ACTACTAA-ATATTCAATAATTT
*
1828698 ACTACTAAATATTCATTAATTT
1 ACTACTAAATATTCAATAATTT
1828720 ACTA
1 ACTA
1828724 TTATGCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (22 bp):
ACTACTAAATATTCAATAATTT
Found at i:1829239 original size:20 final size:19
Alignment explanation
Indices: 1829203--1829244 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
1829193 ACTACGTTAC
*
1829203 TAAGTTATCATTTATTTTAT
1 TAAGTTAACATTTA-TTTAT
1829223 TAAGTTAAC-TTTGATTTAT
1 TAAGTTAACATTT-ATTTAT
1829242 TAA
1 TAA
1829245 TATATTGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (19 bp):
TAAGTTAACATTTATTTAT
Found at i:1833364 original size:145 final size:144
Alignment explanation
Indices: 1833065--1833469 Score: 492
Period size: 145 Copynumber: 2.8 Consensus size: 144
1833055 TTAAAACATC
* * * * *
1833065 AAAAATCATGAAATATTATGACATTGAGATC-TAGAAAGTTTCATGAAAATCCAATCTTAGAAAG
1 AAAAATCATGAAATATTATGAAATTAAGATCTTA-AAAGTTTCATGAAAATCCAAACTCAGGAAG
* * * * **
1833129 GCAAATTATGAAAATA-CCCTTATAGGGGTATTTTGATAATTTCATACTTCTTGGGGTATTGCTA
65 GCAAATTATGAAAATATCCTTTATAGGGGTATTTAG-TAATTTTACACTTCTTGGGGTACGGCTA
1833193 TGATTTCAAATGCACT
129 TGATTTCAAATGCACT
* * *
1833209 AAAAATCATGAAATATTATGAAATTAAGATCTTAAAAGTTTCATGAAAATCCGAGCTCGGGAAGG
1 AAAAATCATGAAATATTATGAAATTAAGATCTTAAAAGTTTCATGAAAATCCAAACTCAGGAAGG
* * *
1833274 CCAAATTACGAAAATATCCTTTATAGGGGTACTTTAGTAATTTTGCACTT-TTTGGGTACGGCTA
66 -CAAATTATGAAAATATCCTTTATAGGGGTA-TTTAGTAATTTTACACTTCTTGGGGTACGGCTA
1833338 TGATTTCAAATGCACT
129 TGATTTCAAATGCACT
* * * * * *
1833354 AAAAATCATGAAATATTATGAAATTAGGATCTGAAAATTTTTATAAAAATCCAAACTCTGGAAGG
1 AAAAATCATGAAATATTATGAAATTAAGATCTTAAAAGTTTCATGAAAATCCAAACTCAGGAAGG
* ** *
1833419 TCAAATTATAAAAATATATTTTATAGGGGTATTTTAGTAATTTTATACTTC
66 -CAAATTATGAAAATATCCTTTATAGGGGTA-TTTAGTAATTTTACACTTC
1833470 CCTCGATGTA
Statistics
Matches: 224, Mismatches: 32, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
144 55 0.25
145 142 0.63
146 23 0.10
147 4 0.02
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.34
Consensus pattern (144 bp):
AAAAATCATGAAATATTATGAAATTAAGATCTTAAAAGTTTCATGAAAATCCAAACTCAGGAAGG
CAAATTATGAAAATATCCTTTATAGGGGTATTTAGTAATTTTACACTTCTTGGGGTACGGCTATG
ATTTCAAATGCACT
Found at i:1835074 original size:242 final size:231
Alignment explanation
Indices: 1834595--1835273 Score: 814
Period size: 242 Copynumber: 2.9 Consensus size: 231
1834585 GCTATGAGGG
* * * * *
1834595 CTTTCCTGAAGTGGTTCTGGTATTTACATATGTATTTTCAC-TTT--TTTATGAAATATATTTAA
1 CTTTCCTAAAGTTGTTCTGGTATTTATATAT-TTTTTTCACATTTCCTTTGTGAAATATATTT-A
* ** *
1834657 AAATTGAAGATAATACAATGATTATTTATAAAAAAATATTAAAGATATTAAATAATATTTTTAAA
64 AAACTGAAGATAATGTAAGGATTATTTATAAAAAAATATTAAAGATATTAAATAATATTTTTAAA
* *
1834722 AGTTATGATAAATTTAAATACTCATGTTAA-CCATAGATAAAGTGAAAAAGATAAATTACTTTAA
129 AGTTATGATAAATTTAAATACTCATGTTAATTCAT--ATAAATTGAAAAAGATAAATTACTTTAA
* * * *
1834786 AATTTATTTTAAATTAAAATAAGGTTATGTATAAGAGAAA
192 AATTAATTTTAAATTGAAATAAGGTGATGTAGAAGAGAAA
* * *
1834826 CTTTCCTAAAGTTGTTTTGGTATTTATATATATATATATATATATTCATATTTCCTTTGTGAAAC
1 CTTTCCTAAAGTTGTTCTGGTA--T-T-TATATAT-T-T-T-T-TTCACATTTCCTTTGTGAAAT
* *
1834891 ATATTTAAAAGCTGAAGATAATGTAAGGAATATTTATAAAAAAATATTAAAGATATTAAACAATA
57 ATATTTAAAA-CTGAAGATAATGTAAGGATTATTTATAAAAAAATATTAAAGATATTAAATAATA
* * *
1834956 TTTTTAAAAGTTGTGATAAATTTAAATACTTATGTTAATTGCATATAAATTGAAAAAGAAAAATT
121 TTTTTAAAAGTTATGATAAATTTAAATACTCATGTTAATT-CATATAAATTGAAAAAGATAAATT
* * * *
1835021 ATTTTAAAATTGATTTTAAATTGAGATGAGGTGATGTAG-AGAAGAAA
185 ACTTTAAAATTAATTTTAAATTGAAATAAGGTGATGTAGAAG-AGAAA
* * *
1835068 CTTTCCTTAAGTTGTTCTGGTATTTATATATTTTTTTCACGTTTCCTTTGTCAAATATATTTAAA
1 CTTTCCTAAAGTTGTTCTGGTATTTATATATTTTTTTCACATTTCCTTTGTGAAATATATTTAAA
* * * *
1835133 ACTAAAAATAATGTAAGGTTTATTTAT--AAAAATATTAAAGACATTAAATAATATTTTTAAAAG
66 ACTGAAGATAATGTAAGGATTATTTATAAAAAAATATTAAAGATATTAAATAATATTTTTAAAAG
* * * *
1835196 CTATGATAAATTTAAATACTCATATTAACTTCAAATAAATTGAAAAATATAAATTACTTTAAAAT
131 TTATGATAAATTTAAATACTCATGTTAA-TTCATATAAATTGAAAAAGATAAATTACTTTAAAAT
1835261 TAATTTTAAATTG
195 TAATTTTAAATTG
1835274 GAATGATGTG
Statistics
Matches: 384, Mismatches: 48, Indels: 33
0.83 0.10 0.07
Matches are distributed among these distances:
230 100 0.26
231 21 0.05
232 22 0.06
233 28 0.07
234 2 0.01
235 8 0.02
236 1 0.00
237 2 0.01
238 8 0.02
239 5 0.01
240 4 0.01
241 6 0.02
242 174 0.45
244 3 0.01
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.41
Consensus pattern (231 bp):
CTTTCCTAAAGTTGTTCTGGTATTTATATATTTTTTTCACATTTCCTTTGTGAAATATATTTAAA
ACTGAAGATAATGTAAGGATTATTTATAAAAAAATATTAAAGATATTAAATAATATTTTTAAAAG
TTATGATAAATTTAAATACTCATGTTAATTCATATAAATTGAAAAAGATAAATTACTTTAAAATT
AATTTTAAATTGAAATAAGGTGATGTAGAAGAGAAA
Found at i:1837262 original size:15 final size:15
Alignment explanation
Indices: 1837242--1837273 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1837232 CATATATATA
1837242 TATATATAATTCAAT
1 TATATATAATTCAAT
*
1837257 TATATATAATTTAAT
1 TATATATAATTCAAT
1837272 TA
1 TA
1837274 ATAAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TATATATAATTCAAT
Found at i:1837311 original size:20 final size:22
Alignment explanation
Indices: 1837269--1837311 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
1837259 TATATAATTT
*
1837269 AATTAATAAATTTTATATAAAA
1 AATTAATAAATTTAATATAAAA
*
1837291 AATTAA-AAATTTAATGTAAAA
1 AATTAATAAATTTAATATAAAA
1837312 TAATAGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
AATTAATAAATTTAATATAAAA
Found at i:1839231 original size:44 final size:45
Alignment explanation
Indices: 1839137--1839231 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 45
1839127 ACCCATATAC
* *
1839137 ATAAAATCTAATATTATAATGTACGATTAATTTTATAACAAAAAT
1 ATAAAATCTAACATTATAATGTACGATTAATCTTATAACAAAAAT
* *
1839182 A-AAAATCTAACATTATAATGTATC-ATTAATCTTAT-ATAAATAT
1 ATAAAATCTAACATTATAATGTA-CGATTAATCTTATAACAAAAAT
1839225 ATAAAAT
1 ATAAAAT
1839232 TATTATGTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
43 7 0.16
44 35 0.80
45 2 0.05
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (45 bp):
ATAAAATCTAACATTATAATGTACGATTAATCTTATAACAAAAAT
Found at i:1840185 original size:162 final size:163
Alignment explanation
Indices: 1839875--1840203 Score: 507
Period size: 162 Copynumber: 2.0 Consensus size: 163
1839865 AGACTTGATT
*
1839875 AGAACTCACAAGTGAACGAGGAGATTATTGGGATATGGTTCACATGTGAGTAAAGAAATCACACA
1 AGAACTCACAAGCGAACGAGGAGATTATTGGGATATGGTTCACATGTGAGTAAAGAAATCACACA
*
1839940 TCATTAGAAAATCTGAATGAGATATCCTATATACGCATGAAAAACCCAAGAATCTAATCATGTGC
66 TCATT----AATCTAAATGAGATATCCTATATACGCATGAAAAACCCAAGAATCTAATCATGTGC
* *
1840005 TCGAACACCGATATTAAAAGATTCGACTTGGATGCAA
127 TCGAACACCGATATTAAAAAATTCGACTTAGATGCAA
* * * *
1840042 AGAACTCACAAGCGAATGGGGAGATTGTTGGGATATGGTTCACATGTGAGTAAAGAAATCCCACA
1 AGAACTCACAAGCGAACGAGGAGATTATTGGGATATGGTTCACATGTGAGTAAAGAAATCACACA
* ** *
1840107 TCATT-ATCTAAATGAGATATCCTATATATGCATGAAGGACCTAAGAATCTAATCATGTGCTCGA
66 TCATTAATCTAAATGAGATATCCTATATACGCATGAAAAACCCAAGAATCTAATCATGTGCTCGA
1840171 ACACCGATATTAAAAAATTCGACTTAGATGCAA
131 ACACCGATATTAAAAAATTCGACTTAGATGCAA
1840204 CGAGTATAAG
Statistics
Matches: 150, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
162 85 0.57
167 65 0.43
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (163 bp):
AGAACTCACAAGCGAACGAGGAGATTATTGGGATATGGTTCACATGTGAGTAAAGAAATCACACA
TCATTAATCTAAATGAGATATCCTATATACGCATGAAAAACCCAAGAATCTAATCATGTGCTCGA
ACACCGATATTAAAAAATTCGACTTAGATGCAA
Found at i:1843119 original size:5 final size:5
Alignment explanation
Indices: 1843109--1843136 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
1843099 TGCAGTATTA
1843109 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1843137 TAAAAAGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:1844386 original size:13 final size:12
Alignment explanation
Indices: 1844351--1844386 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
1844341 AAGATTTTCA
1844351 TAAGGTTTTGAG
1 TAAGGTTTTGAG
*
1844363 TAAGGTCTTGAG
1 TAAGGTTTTGAG
1844375 TAGAGGTTTTGA
1 TA-AGGTTTTGA
1844387 AGGTTTGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.25, C:0.03, G:0.33, T:0.39
Consensus pattern (12 bp):
TAAGGTTTTGAG
Found at i:1844526 original size:16 final size:16
Alignment explanation
Indices: 1844505--1844567 Score: 74
Period size: 16 Copynumber: 3.9 Consensus size: 16
1844495 TAAGGGTTTA
1844505 GATTTTAGGGATTTTG
1 GATTTTAGGGATTTTG
* *
1844521 GATTTT-GAGATTTTT
1 GATTTTAGGGATTTTG
*
1844536 TATTTTAGGGGATTTTG
1 GATTTTA-GGGATTTTG
*
1844553 GATTTTAGGGGTTTT
1 GATTTTAGGGATTTT
1844568 AGAAACCTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
15 12 0.32
16 13 0.34
17 13 0.34
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (16 bp):
GATTTTAGGGATTTTG
Found at i:1844549 original size:17 final size:17
Alignment explanation
Indices: 1844505--1844567 Score: 71
Period size: 17 Copynumber: 3.9 Consensus size: 17
1844495 TAAGGGTTTA
1844505 GATTTTA-GGGATTTTG
1 GATTTTAGGGGATTTTG
* *
1844521 GATTTT--GAGATTTTT
1 GATTTTAGGGGATTTTG
*
1844536 TATTTTAGGGGATTTTG
1 GATTTTAGGGGATTTTG
1844553 GATTTTAGGGG-TTTT
1 GATTTTAGGGGATTTT
1844568 AGAAACCTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
15 12 0.31
16 10 0.26
17 17 0.44
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (17 bp):
GATTTTAGGGGATTTTG
Found at i:1844568 original size:31 final size:31
Alignment explanation
Indices: 1844506--1844568 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
1844496 AAGGGTTTAG
**
1844506 ATTTTAGGGATTTTGGATTTTGAGATTTTTT
1 ATTTTAGGGATTTTGGATTTTGAGAGGTTTT
*
1844537 ATTTTAGGGGATTTTGGATTTT-AGGGGTTTT
1 ATTTTA-GGGATTTTGGATTTTGAGAGGTTTT
1844568 A
1 A
1844569 GAAACCTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 13 0.46
32 15 0.54
ACGTcount: A:0.19, C:0.00, G:0.27, T:0.54
Consensus pattern (31 bp):
ATTTTAGGGATTTTGGATTTTGAGAGGTTTT
Found at i:1846627 original size:112 final size:112
Alignment explanation
Indices: 1846482--1846735 Score: 300
Period size: 112 Copynumber: 2.3 Consensus size: 112
1846472 CAATACCACA
* * * *
1846482 AATCGAAATCATGTCTGAAGGTCTTACAG-AAATCATGCCCAGAGGTCTTATAGAATCGA-TTGA
1 AATCAAAATCATGTCTGGAGGTCTTACAGAAAATCATGCCCAGAGGTCTTACAGAATCGACTAG-
* * * *
1846545 GATAACACCGTAAGTCGAGAA-TAATA-ACTCGATCAAGATAACACCGCG
65 GACAACACCGTAAGTC-AAAATTAA-AGAATCAATCAAGATAACACCGCG
* * * * *
1846593 AATCAAAATTATGTTTGGAGGTTTTACAGAAAATCATGCCCGGAGGTCTTACAGAATTGACTAGG
1 AATCAAAATCATGTCTGGAGGTCTTACAGAAAATCATGCCCAGAGGTCTTACAGAATCGACTAGG
** *
1846658 ACAACACCGTAAGTCAAAATTAAAGAATCAATCGGGATAATACCGCG
66 ACAACACCGTAAGTCAAAATTAAAGAATCAATCAAGATAACACCGCG
*
1846705 AATCAAAATCATGCCTGGAGGTCTTACAGAA
1 AATCAAAATCATGTCTGGAGGTCTTACAGAA
1846736 TCGATTGAGA
Statistics
Matches: 119, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
111 28 0.24
112 89 0.75
113 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (112 bp):
AATCAAAATCATGTCTGGAGGTCTTACAGAAAATCATGCCCAGAGGTCTTACAGAATCGACTAGG
ACAACACCGTAAGTCAAAATTAAAGAATCAATCAAGATAACACCGCG
Found at i:1846773 original size:87 final size:87
Alignment explanation
Indices: 1846622--1846906 Score: 333
Period size: 87 Copynumber: 3.3 Consensus size: 87
1846612 GGTTTTACAG
* *
1846622 AAAATCATGCCCGGAGGTCTTACAGAATTGACT-AGGACAACACCGTAAGTCAAAATTAAAGAAT
1 AAAATCATGCCTGGAGGTCTTACAGAATCGACTGA-GACAACACCGTAAGTCAAAATTAAAGAAT
* *
1846686 CAATCGGGATAATACCGCGAATC
65 CGATCGGGATAACACCGCGAATC
* * * *
1846709 AAAATCATGCCTGGAGGTCTTACAGAATCGATTGAGACAACACCGTAAGTTGAGAA-TAACGAAT
1 AAAATCATGCCTGGAGGTCTTACAGAATCGACTGAGACAACACCGTAAG-TCAAAATTAAAGAAT
*
1846773 CGATTGGGATAACACCGCGAATC
65 CGATCGGGATAACACCGCGAATC
* * ** * * * *
1846796 GAAATTATGTCC-AAAGCTCTTACAGAACCGACTGGGACAACACCATAAGTCAAAATTAAAGAAT
1 AAAATCATG-CCTGGAGGTCTTACAGAATCGACTGAGACAACACCGTAAGTCAAAATTAAAGAAT
* *
1846860 CGATCAGGATAACACCGCAAATC
65 CGATCGGGATAACACCGCGAATC
* *
1846883 AAAATTATGCCTGGAGGTTTTACA
1 AAAATCATGCCTGGAGGTCTTACA
1846907 AAAATCATGT
Statistics
Matches: 164, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
86 6 0.04
87 151 0.92
88 7 0.04
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (87 bp):
AAAATCATGCCTGGAGGTCTTACAGAATCGACTGAGACAACACCGTAAGTCAAAATTAAAGAATC
GATCGGGATAACACCGCGAATC
Found at i:1847722 original size:32 final size:32
Alignment explanation
Indices: 1847685--1847993 Score: 196
Period size: 33 Copynumber: 9.5 Consensus size: 32
1847675 TTGGGATAAA
* *
1847685 ATAAACTGGGCTTAAATTTTATTAAAGGCCA-
1 ATAAACTGGGCTTAAATGTTATTGAAGGCCAG
* ** *
1847716 ATTAAACTAGGCTTAAAACCTCATTTGAA-GCCAG
1 A-TAAACTGGGCTT-AAATGTTA-TTGAAGGCCAG
*
1847750 ATAAACTGGGCTTAAA-GCTTCATTGATGGCCAG
1 ATAAACTGGGCTTAAATG-TT-ATTGAAGGCCAG
* *
1847783 ATAAACTAGGCTTAAATGTTATTGATGGCCAG
1 ATAAACTGGGCTTAAATGTTATTGAAGGCCAG
*
1847815 ATAGACTGGGCTTAAATGTTATTGAAGGCCAG
1 ATAAACTGGGCTTAAATGTTATTGAAGGCCAG
* * ** * *
1847847 CTAAATTGGGCTTAAAACCTCATTTG-AGGCTAG
1 ATAAACTGGGCTT-AAATGTTA-TTGAAGGCCAG
* ** ** * *
1847880 ATAAATTGAACTTAAAACTTAATTGATGGTCAG
1 ATAAACTGGGCTTAAATGTT-ATTGAAGGCCAG
* * ** * *
1847913 CTAAATTAAGCTTAAATTTTATTGAAGGTCAG
1 ATAAACTGGGCTTAAATGTTATTGAAGGCCAG
* * **
1847945 CTAAACTAGGCTTAAAACCTTATTTGAA-GCCAG
1 ATAAACTGGGCTT-AAATGTTA-TTGAAGGCCAG
1847978 ATAAACTGGGCTTAAA
1 ATAAACTGGGCTTAAA
1847994 ACTTCATTGA
Statistics
Matches: 223, Mismatches: 41, Indels: 27
0.77 0.14 0.09
Matches are distributed among these distances:
31 1 0.00
32 103 0.46
33 105 0.47
34 14 0.06
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (32 bp):
ATAAACTGGGCTTAAATGTTATTGAAGGCCAG
Found at i:1847926 original size:130 final size:130
Alignment explanation
Indices: 1847685--1848005 Score: 369
Period size: 130 Copynumber: 2.5 Consensus size: 130
1847675 TTGGGATAAA
* * * *
1847685 ATAAACTGGGCTTAAATTTTATTAAAGGCCA-ATTAAACTAGGCTTAAAACCTCATTTGAAGCCA
1 ATAAACTGGGCTTAAATCTTATTGAAGGCCAGA-TAAACTGGGCTTAAAACCTCATTTGAGGCCA
** * * * *
1847749 GATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTAGGCTTAAATGTTATTGATGGCCA
65 GATAAACTGAACTTAAAACTTAATTGATGGCCAGATAAACTAAGCTTAAATGTTATTGAAGGCCA
1847814 G
130 G
* * * * *
1847815 ATAGACTGGGCTTAAATGTTATTGAAGGCCAGCTAAATTGGGCTTAAAACCTCATTTGAGGCTAG
1 ATAAACTGGGCTTAAATCTTATTGAAGGCCAGATAAACTGGGCTTAAAACCTCATTTGAGGCCAG
* * * * * *
1847880 ATAAATTGAACTTAAAACTTAATTGATGGTCAGCTAAATTAAGCTTAAATTTTATTGAAGGTCAG
66 ATAAACTGAACTTAAAACTTAATTGATGGCCAGATAAACTAAGCTTAAATGTTATTGAAGGCCAG
* * * *
1847945 CTAAACTAGGCTTAAAACCTTATTTGAA-GCCAGATAAACTGGGCTTAAAACTTCA-TTGAGG
1 ATAAACTGGGCTT-AAATCTTA-TTGAAGGCCAGATAAACTGGGCTTAAAACCTCATTTGAGG
1848006 ATTTTTTTCT
Statistics
Matches: 160, Mismatches: 28, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
130 125 0.78
131 30 0.19
132 5 0.03
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (130 bp):
ATAAACTGGGCTTAAATCTTATTGAAGGCCAGATAAACTGGGCTTAAAACCTCATTTGAGGCCAG
ATAAACTGAACTTAAAACTTAATTGATGGCCAGATAAACTAAGCTTAAATGTTATTGAAGGCCAG
Found at i:1847946 original size:98 final size:98
Alignment explanation
Indices: 1847824--1848003 Score: 261
Period size: 98 Copynumber: 1.8 Consensus size: 98
1847814 GATAGACTGG
* * * * *
1847824 GCTTAAATGTTATTGAAGGCCAGCTAAATTGGGCTTAAAACCTCATTTGAGGCTAGATAAATTGA
1 GCTTAAATGTTATTGAAGGCCAGCTAAACTAGGCTTAAAACCTCATTTGAAGCCAGATAAACTGA
1847889 ACTTAAAACTTAATTGATGGTCAGCTAAATTAA
66 ACTTAAAACTTAATTGATGGTCAGCTAAATTAA
* * * *
1847922 GCTTAAATTTTATTGAAGGTCAGCTAAACTAGGCTTAAAACCTTATTTGAAGCCAGATAAACTGG
1 GCTTAAATGTTATTGAAGGCCAGCTAAACTAGGCTTAAAACCTCATTTGAAGCCAGATAAACTGA
* *
1847987 GCTTAAAACTTCATTGA
66 ACTTAAAACTTAATTGA
1848004 GGATTTTTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
98 71 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (98 bp):
GCTTAAATGTTATTGAAGGCCAGCTAAACTAGGCTTAAAACCTCATTTGAAGCCAGATAAACTGA
ACTTAAAACTTAATTGATGGTCAGCTAAATTAA
Found at i:1849227 original size:14 final size:16
Alignment explanation
Indices: 1849208--1849242 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
1849198 TCTCAAAAAA
1849208 TTTTTTGG-T-TTTTT
1 TTTTTTGGCTCTTTTT
1849222 TTTTTTGGCTCTTTTT
1 TTTTTTGGCTCTTTTT
1849238 TTTTT
1 TTTTT
1849243 CAAAACTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
15 1 0.05
16 10 0.53
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (16 bp):
TTTTTTGGCTCTTTTT
Found at i:1850027 original size:14 final size:14
Alignment explanation
Indices: 1850008--1850045 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
1849998 AAACTTATAA
1850008 TTTTTTTTTTT-AC
1 TTTTTTTTTTTGAC
* *
1850021 TTTTTTTTGTTGCC
1 TTTTTTTTTTTGAC
1850035 TTTTTTTTTTT
1 TTTTTTTTTTT
1850046 AAAGACATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.03, C:0.08, G:0.05, T:0.84
Consensus pattern (14 bp):
TTTTTTTTTTTGAC
Found at i:1855833 original size:13 final size:12
Alignment explanation
Indices: 1855799--1855833 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
1855789 AGATTTTCAG
1855799 AAGGTTTTGAGT
1 AAGGTTTTGAGT
*
1855811 AAGGTCTTGAGT
1 AAGGTTTTGAGT
1855823 AGAGGTTTTGA
1 A-AGGTTTTGA
1855834 AGGTTTGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.26, C:0.03, G:0.34, T:0.37
Consensus pattern (12 bp):
AAGGTTTTGAGT
Found at i:1855969 original size:16 final size:16
Alignment explanation
Indices: 1855948--1856014 Score: 91
Period size: 16 Copynumber: 4.2 Consensus size: 16
1855938 GATTTAAGGG
1855948 TTTGGATTTTAGGGAT
1 TTTGGATTTTAGGGAT
1855964 TTTGGATTTT-GGGAT
1 TTTGGATTTTAGGGAT
*
1855979 TTTTGATTTTAGGGGAT
1 TTTGGATTTTA-GGGAT
* *
1855996 TTTGAATTTTAGGGGT
1 TTTGGATTTTAGGGAT
1856012 TTT
1 TTT
1856015 AGAAACCTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
15 14 0.31
16 17 0.38
17 14 0.31
ACGTcount: A:0.16, C:0.00, G:0.30, T:0.54
Consensus pattern (16 bp):
TTTGGATTTTAGGGAT
Found at i:1855996 original size:17 final size:16
Alignment explanation
Indices: 1855934--1856014 Score: 80
Period size: 16 Copynumber: 5.2 Consensus size: 16
1855924 GGGTTTGGGG
*
1855934 TTTTGATTTAAGGG--
1 TTTTGATTTTAGGGAT
*
1855948 TTTGGATTTTAGGGAT
1 TTTTGATTTTAGGGAT
*
1855964 TTTGGATTTT-GGGAT
1 TTTTGATTTTAGGGAT
1855979 TTTTGATTTTAGGGGA-
1 TTTTGATTTTA-GGGAT
*
1855995 TTTTGAATTTTAGGGGT
1 TTTTG-ATTTTAGGGAT
1856012 TTT
1 TTT
1856015 AGAAACCTAA
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
14 12 0.21
15 14 0.25
16 18 0.32
17 13 0.23
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (16 bp):
TTTTGATTTTAGGGAT
Found at i:1856293 original size:3 final size:3
Alignment explanation
Indices: 1856287--1856316 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1856277 ATAATTATTC
1856287 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1856317 CTTAAGCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1858305 original size:19 final size:18
Alignment explanation
Indices: 1858281--1858316 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
1858271 TAAAACATTA
1858281 TTATTAATTGTTACTAAAT
1 TTATTAATTGTTA-TAAAT
*
1858300 TTATTATTTGTTATAAA
1 TTATTAATTGTTATAAA
1858317 AATTAACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.56
Consensus pattern (18 bp):
TTATTAATTGTTATAAAT
Found at i:1860461 original size:8 final size:8
Alignment explanation
Indices: 1860448--1860499 Score: 104
Period size: 8 Copynumber: 6.5 Consensus size: 8
1860438 ATTTGATAAG
1860448 ATTTTTCA
1 ATTTTTCA
1860456 ATTTTTCA
1 ATTTTTCA
1860464 ATTTTTCA
1 ATTTTTCA
1860472 ATTTTTCA
1 ATTTTTCA
1860480 ATTTTTCA
1 ATTTTTCA
1860488 ATTTTTCA
1 ATTTTTCA
1860496 ATTT
1 ATTT
1860500 CAATTTTGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 44 1.00
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.63
Consensus pattern (8 bp):
ATTTTTCA
Found at i:1860475 original size:24 final size:24
Alignment explanation
Indices: 1860448--1860506 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
1860438 ATTTGATAAG
1860448 ATTTTTCAATTTTTCAATTTTTCA
1 ATTTTTCAATTTTTCAATTTTTCA
1860472 ATTTTTCAATTTTTCAATTTTTCA
1 ATTTTTCAATTTTTCAATTTTTCA
1860496 A--TTTCAATTTT
1 ATTTTTCAATTTT
1860507 GATTTTGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
22 10 0.29
24 25 0.71
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTTTTCAATTTTTCAATTTTTCA
Found at i:1860867 original size:29 final size:29
Alignment explanation
Indices: 1860834--1860892 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
1860824 TTTAAATACG
1860834 ACATGAATAGATATGAATAATAAAGATAT
1 ACATGAATAGATATGAATAATAAAGATAT
* *
1860863 ACATGAATAGATATGAGTAATATAGATAT
1 ACATGAATAGATATGAATAATAAAGATAT
1860892 A
1 A
1860893 TACAAATAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.29
Consensus pattern (29 bp):
ACATGAATAGATATGAATAATAAAGATAT
Found at i:1860900 original size:29 final size:29
Alignment explanation
Indices: 1860839--1860902 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
1860829 ATACGACATG
**
1860839 AATAGATATGAATAATAAAGATATACATG
1 AATAGATATGAATAATAAAGATATACACA
* * *
1860868 AATAGATATGAGTAATATAGATATATACA
1 AATAGATATGAATAATAAAGATATACACA
1860897 AATAGA
1 AATAGA
1860903 CACGACTAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.55, C:0.03, G:0.14, T:0.28
Consensus pattern (29 bp):
AATAGATATGAATAATAAAGATATACACA
Found at i:1865401 original size:21 final size:20
Alignment explanation
Indices: 1865377--1865427 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
1865367 TATTAATAAA
1865377 ATTAATACAAAAATTAATTTT
1 ATTAAT-CAAAAATTAATTTT
*
1865398 ATTAATCAATAATTAATTTT
1 ATTAATCAAAAATTAATTTT
* *
1865418 TTTTATCAAA
1 ATTAATCAAA
1865428 TATAAGATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTAATCAAAAATTAATTTT
Found at i:1873305 original size:16 final size:16
Alignment explanation
Indices: 1873284--1873314 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1873274 TCAGGGTTTT
1873284 GATTTTAGAGTTTGGA
1 GATTTTAGAGTTTGGA
*
1873300 GATTTTAGGGTTTGG
1 GATTTTAGAGTTTGG
1873315 GTTTTGAGGT
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:0.19, C:0.00, G:0.35, T:0.45
Consensus pattern (16 bp):
GATTTTAGAGTTTGGA
Found at i:1873325 original size:14 final size:15
Alignment explanation
Indices: 1873308--1873336 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1873298 GAGATTTTAG
1873308 GGTTT-GGGTTTTGA
1 GGTTTGGGGTTTTGA
1873322 GGTTTGGGGTTTTGA
1 GGTTTGGGGTTTTGA
1873337 TTTAAGGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.07, C:0.00, G:0.45, T:0.48
Consensus pattern (15 bp):
GGTTTGGGGTTTTGA
Found at i:1873366 original size:16 final size:16
Alignment explanation
Indices: 1873345--1873411 Score: 91
Period size: 16 Copynumber: 4.2 Consensus size: 16
1873335 GATTTAAGGG
*
1873345 TTTGGATTTTAGGGAT
1 TTTGAATTTTAGGGAT
*
1873361 TTTGGATTTT-GGGAT
1 TTTGAATTTTAGGGAT
1873376 TTTGAATTTTAAGGGAT
1 TTTGAATTTT-AGGGAT
*
1873393 TTTGAATTTTAGGGGT
1 TTTGAATTTTAGGGAT
1873409 TTT
1 TTT
1873412 AGAAACCTAG
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
15 14 0.30
16 18 0.38
17 15 0.32
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.52
Consensus pattern (16 bp):
TTTGAATTTTAGGGAT
Found at i:1873393 original size:17 final size:17
Alignment explanation
Indices: 1873337--1873403 Score: 81
Period size: 15 Copynumber: 4.2 Consensus size: 17
1873327 GGGGTTTTGA
*
1873337 TTTAAGGG--TTTGGAT
1 TTTAAGGGATTTTGAAT
*
1873352 TTT-AGGGATTTTGGAT
1 TTTAAGGGATTTTGAAT
1873368 TTT--GGGATTTTGAAT
1 TTTAAGGGATTTTGAAT
1873383 TTTAAGGGATTTTGAAT
1 TTTAAGGGATTTTGAAT
1873400 TTTA
1 TTTA
1873404 GGGGTTTTAG
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
14 4 0.09
15 17 0.36
16 10 0.21
17 16 0.34
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (17 bp):
TTTAAGGGATTTTGAAT
Found at i:1875652 original size:19 final size:18
Alignment explanation
Indices: 1875628--1875663 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
1875618 TAAAACATTA
1875628 TTATTAATTGTTACTAAAT
1 TTATTAATTGTTA-TAAAT
*
1875647 TTATTATTTGTTATAAA
1 TTATTAATTGTTATAAA
1875664 AATTAACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.56
Consensus pattern (18 bp):
TTATTAATTGTTATAAAT
Found at i:1878196 original size:7 final size:8
Alignment explanation
Indices: 1878176--1878204 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
1878166 ATGTGATAAG
1878176 ATTTTTCA
1 ATTTTTCA
1878184 ATTTTTCA
1 ATTTTTCA
1878192 ATTTTTCA
1 ATTTTTCA
1878200 ATTTT
1 ATTTT
1878205 GATTTTGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (8 bp):
ATTTTTCA
Found at i:1881569 original size:16 final size:15
Alignment explanation
Indices: 1881548--1881586 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
1881538 AGAGACTGTT
1881548 AGAAAAAATAAATAAG
1 AGAAAAAA-AAATAAG
*
1881564 AG-AAAAAAAATAAT
1 AGAAAAAAAAATAAG
1881578 AGAAAAAAA
1 AGAAAAAAA
1881587 TTTTGACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 8 0.38
15 11 0.52
16 2 0.10
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (15 bp):
AGAAAAAAAAATAAG
Found at i:1881587 original size:13 final size:14
Alignment explanation
Indices: 1881551--1881586 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
1881541 GACTGTTAGA
1881551 AAAAATAAATAAGAG
1 AAAAA-AAATAAGAG
*
1881566 AAAAAAAATAATAG
1 AAAAAAAATAAGAG
1881580 AAAAAAA
1 AAAAAAA
1881587 TTTTGACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (14 bp):
AAAAAAAATAAGAG
Found at i:1893645 original size:20 final size:20
Alignment explanation
Indices: 1893620--1893657 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1893610 ATTATATCCC
1893620 TTTTGTATACTATAACTCCT
1 TTTTGTATACTATAACTCCT
1893640 TTTTGTATACTATAACTC
1 TTTTGTATACTATAACTC
1893658 GTTTCATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTTGTATACTATAACTCCT
Found at i:1896979 original size:2 final size:2
Alignment explanation
Indices: 1896972--1897003 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1896962 TAATGCAACT
1896972 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
1897004 ACAACGCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1900089 original size:17 final size:18
Alignment explanation
Indices: 1900045--1900090 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
1900035 TGATATAATA
*
1900045 TTAAATTT-TTTTTTATT
1 TTAAATTTATTTTATATT
**
1900062 TTAAAAATATTTTATA-T
1 TTAAATTTATTTTATATT
1900079 TTAAATTTATTT
1 TTAAATTTATTT
1900091 ATTTGTTTGA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTAAATTTATTTTATATT
Found at i:1900668 original size:38 final size:34
Alignment explanation
Indices: 1900608--1900679 Score: 81
Period size: 38 Copynumber: 2.0 Consensus size: 34
1900598 TTATTTTTTA
1900608 TAAAAAGATCATTTAAAGTATTTTTATATAAAAAATT
1 TAAAAAGATCATTTAAAGTA--TTTATA-AAAAAATT
* **
1900645 TAAAAATGATCTTTTAATTTATTTATAAAAAAATT
1 TAAAAA-GATCATTTAAAGTATTTATAAAAAAATT
1900680 ATTTAAAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
35 8 0.26
36 6 0.19
37 6 0.19
38 11 0.35
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (34 bp):
TAAAAAGATCATTTAAAGTATTTATAAAAAAATT
Found at i:1900741 original size:25 final size:25
Alignment explanation
Indices: 1900712--1900766 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
1900702 CCTTAAATAA
*
1900712 TCTTTTTATTTAAGCATTCTAAGCT
1 TCTTTTTATTTAAGCATTCTAAACT
1900737 TCTTTTTATTTAAGCATTCTAAACT
1 TCTTTTTATTTAAGCATTCTAAACT
1900762 TCTTT
1 TCTTT
1900767 ATATGTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.24, C:0.16, G:0.05, T:0.55
Consensus pattern (25 bp):
TCTTTTTATTTAAGCATTCTAAACT
Found at i:1909485 original size:2 final size:2
Alignment explanation
Indices: 1909478--1909502 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1909468 ATTCGAGTTT
1909478 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1909503 TATGTCTCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1910084 original size:12 final size:13
Alignment explanation
Indices: 1910063--1910105 Score: 52
Period size: 12 Copynumber: 3.2 Consensus size: 13
1910053 TTTTTTTTCT
*
1910063 TTTTCTTTTTTGA
1 TTTTATTTTTTGA
1910076 TTTTA-TTTTTGA
1 TTTTATTTTTTGA
1910088 TTTATTATTTTTTGA
1 -TT-TTATTTTTTGA
1910103 TTT
1 TTT
1910106 ATTATTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 7 0.27
13 7 0.27
14 5 0.19
15 7 0.27
ACGTcount: A:0.14, C:0.02, G:0.07, T:0.77
Consensus pattern (13 bp):
TTTTATTTTTTGA
Found at i:1910101 original size:15 final size:15
Alignment explanation
Indices: 1910068--1910116 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
1910058 TTTCTTTTTC
1910068 TTTTTTGA-TT-TTA
1 TTTTTTGATTTATTA
1910081 -TTTTTGATTTATTA
1 TTTTTTGATTTATTA
1910095 TTTTTTGATTTATTA
1 TTTTTTGATTTATTA
1910110 TTATTTT
1 TT-TTTT
1910117 TTTATATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.22
13 2 0.06
14 3 0.09
15 16 0.50
16 4 0.12
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (15 bp):
TTTTTTGATTTATTA
Found at i:1910121 original size:26 final size:27
Alignment explanation
Indices: 1910062--1910118 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
1910052 TTTTTTTTTC
* *
1910062 TTTTTCTTTTTTGATTTTATTTTTGAT
1 TTTTTATTTTTTGATTTTATTATTGAT
*
1910089 TTATTATTTTTTGA-TTTATTATT-AT
1 TTTTTATTTTTTGATTTTATTATTGAT
1910114 TTTTT
1 TTTTT
1910119 TATATTTTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 6 0.23
26 8 0.31
27 12 0.46
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (27 bp):
TTTTTATTTTTTGATTTTATTATTGAT
Found at i:1910126 original size:26 final size:27
Alignment explanation
Indices: 1910070--1910126 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
1910060 TCTTTTTCTT
* *
1910070 TTTTGATTTTATTTTTGATTTATTATT
1 TTTTGATTTTATTATTGATTTATTATA
*
1910097 TTTTGA-TTTATTATT-ATTTTTTTATA
1 TTTTGATTTTATTATTGA-TTTATTATA
1910123 TTTT
1 TTTT
1910127 AGTATTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 1 0.04
26 19 0.73
27 6 0.23
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.75
Consensus pattern (27 bp):
TTTTGATTTTATTATTGATTTATTATA
Found at i:1910137 original size:18 final size:17
Alignment explanation
Indices: 1910088--1910137 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
1910078 TTATTTTTGA
*
1910088 TTTATTATTTTTTGATT
1 TTTATTATTTTTTTATT
1910105 TATTATTATTTTTTTATAT
1 T-TTATTATTTTTTTAT-T
*
1910124 TTTAGTATTTTTTT
1 TTTATTATTTTTTT
1910138 TAATTGTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 1 0.03
18 26 0.90
19 2 0.07
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (17 bp):
TTTATTATTTTTTTATT
Found at i:1910360 original size:50 final size:46
Alignment explanation
Indices: 1910294--1910407 Score: 129
Period size: 50 Copynumber: 2.4 Consensus size: 46
1910284 AGAATTATAA
* * *
1910294 TATATATTTTTACATGATATTTTGCATGGATTTTATTTGCATGATTTAT
1 TATATATTTTTGCATGATATTTTACATGAATTTTATTTGCATGA---AT
* * *
1910343 TACTATATTTTTGCATGATGTTTTATATGAATTTTATTTGTATGAAT
1 TA-TATATTTTTGCATGATATTTTACATGAATTTTATTTGCATGAAT
*
1910390 TATTTATTTTTGCATGAT
1 TATATATTTTTGCATGAT
1910408 TGATGATATT
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
46 15 0.26
47 4 0.07
49 2 0.04
50 36 0.63
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.56
Consensus pattern (46 bp):
TATATATTTTTGCATGATATTTTACATGAATTTTATTTGCATGAAT
Found at i:1910377 original size:23 final size:23
Alignment explanation
Indices: 1910329--1910377 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
1910319 ATGGATTTTA
*
1910329 TTTGCATGATTTATTACTATATT
1 TTTGCATGATTTATTACTATAAT
1910352 TTTGCATGATGTT-TTA-TATGAAT
1 TTTGCATGAT-TTATTACTAT-AAT
1910375 TTT
1 TTT
1910378 ATTTGTATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 3 0.13
23 18 0.78
24 2 0.09
ACGTcount: A:0.24, C:0.06, G:0.12, T:0.57
Consensus pattern (23 bp):
TTTGCATGATTTATTACTATAAT
Found at i:1910482 original size:68 final size:69
Alignment explanation
Indices: 1910394--1910540 Score: 190
Period size: 68 Copynumber: 2.1 Consensus size: 69
1910384 ATGAATTATT
* *
1910394 TATTTTTGCATGATTGATGATATTATTGCATGATATTATTATTATATGTTTACT-TGA-TTTTAT
1 TATTTTTGCAGGATTGATGATATTATTGCATGATATTATTATAATAT-TTTACTATGACTTTTAT
*
1910457 TTTGA
65 TATGA
* * * **
1910462 TATTTTTGCAGGGTTTATGATATTATTGCATGATTTTATTATAATATTTTTGTATGACTTTTATT
1 TATTTTTGCAGGATTGATGATATTATTGCATGATATTATTATAATATTTTACTATGACTTTTATT
1910527 ATGA
66 ATGA
*
1910531 TATTATTGCA
1 TATTTTTGCA
1910541 TGATATTTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
67 4 0.06
68 45 0.66
69 19 0.28
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.55
Consensus pattern (69 bp):
TATTTTTGCAGGATTGATGATATTATTGCATGATATTATTATAATATTTTACTATGACTTTTATT
ATGA
Found at i:1910528 original size:25 final size:24
Alignment explanation
Indices: 1910410--1910560 Score: 123
Period size: 24 Copynumber: 6.3 Consensus size: 24
1910400 TGCATGATTG
*
1910410 ATGATATTATTGCATGATATTATT
1 ATGATATTATTGCATGATTTTATT
* * *
1910434 ATTATATGT-TTACTTGATTTTATT
1 ATGATAT-TATTGCATGATTTTATT
* * **
1910458 TTGATATTTTTGCA-G--GGT-TT
1 ATGATATTATTGCATGATTTTATT
1910478 ATGATATTATTGCATGATTTTATT
1 ATGATATTATTGCATGATTTTATT
* * *
1910502 ATAATATTTTTGTATGACTTTTATT
1 ATGATATTATTGCATGA-TTTTATT
*
1910527 ATGATATTATTGCATGATATTTTTCT
1 ATGATATTATTGCATGAT-TTTAT-T
1910553 ATGATATT
1 ATGATATT
1910561 TTGATAGTAT
Statistics
Matches: 97, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
20 14 0.14
21 2 0.02
23 3 0.03
24 43 0.44
25 26 0.27
26 9 0.09
ACGTcount: A:0.27, C:0.05, G:0.13, T:0.56
Consensus pattern (24 bp):
ATGATATTATTGCATGATTTTATT
Found at i:1910545 original size:13 final size:13
Alignment explanation
Indices: 1910478--1910560 Score: 59
Period size: 13 Copynumber: 6.6 Consensus size: 13
1910468 TGCAGGGTTT
1910478 ATGATATTATTGC
1 ATGATATTATTGC
*
1910491 ATGATTTTATT--
1 ATGATATTATTGC
* * *
1910502 ATAATATTTTTGT
1 ATGATATTATTGC
*
1910515 ATGACTTTTATT--
1 ATGA-TATTATTGC
1910527 ATGATATTATTGC
1 ATGATATTATTGC
*
1910540 ATGATATT-TTTC
1 ATGATATTATTGC
1910552 TATGATATT
1 -ATGATATT
1910561 TTGATAGTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
11 14 0.25
12 7 0.13
13 29 0.53
14 5 0.09
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (13 bp):
ATGATATTATTGC
Found at i:1913978 original size:18 final size:17
Alignment explanation
Indices: 1913955--1914090 Score: 89
Period size: 18 Copynumber: 7.6 Consensus size: 17
1913945 GTTTACTTGT
1913955 ATGATTTATTATTATTGC
1 ATGA-TTATTATTATTGC
*
1913973 ATGATTA-T-TTATTTGT
1 ATGATTATTATTA-TTGC
* *
1913989 ATGATTTAATATTATAGC
1 ATGA-TTATTATTATTGC
*
1914007 ATGATTATGTATTTATTTGT
1 ATGATTAT-TA-TTA-TTGC
* *
1914027 ATGATTTAATATTATTGT
1 ATGA-TTATTATTATTGC
*
1914045 ATGATTATTTATTAATGC
1 ATGATTA-TTATTATTGC
*
1914063 ATGATT-TAATATATTTGC
1 ATGATTATTAT-TA-TTGC
1914081 ATGATTATTA
1 ATGATTATTA
1914091 ATATGTTATT
Statistics
Matches: 93, Mismatches: 13, Indels: 23
0.72 0.10 0.18
Matches are distributed among these distances:
15 3 0.03
16 11 0.12
17 14 0.15
18 43 0.46
19 11 0.12
20 8 0.09
21 3 0.03
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.54
Consensus pattern (17 bp):
ATGATTATTATTATTGC
Found at i:1913993 original size:34 final size:34
Alignment explanation
Indices: 1913930--1914089 Score: 180
Period size: 34 Copynumber: 4.6 Consensus size: 34
1913920 TGAATAATAT
* * *
1913930 ATATTTTTGCATGA-TGTTTACTTGTATGATTTA
1 ATATTATTGCATGATTATTTATTTGTATGATTTA
*
1913963 TTATTATTGCATGATTATTTATTTGTATGATTTA
1 ATATTATTGCATGATTATTTATTTGTATGATTTA
*
1913997 ATATTATAGCATGATTATGTATTTATTTGTATGATTTA
1 ATATTATTGCATG---AT-TATTTATTTGTATGATTTA
* *
1914035 ATATTATTGTATGATTATTTATTAATGCATGATTTA
1 ATATTATTGCATGATTATTTATT--TGTATGATTTA
1914071 ATA-TATTTGCATGATTATT
1 ATATTA-TTGCATGATTATT
1914090 AATATGTTAT
Statistics
Matches: 109, Mismatches: 10, Indels: 13
0.83 0.08 0.10
Matches are distributed among these distances:
33 12 0.11
34 36 0.33
35 4 0.04
36 25 0.23
37 2 0.02
38 30 0.28
ACGTcount: A:0.29, C:0.04, G:0.12, T:0.54
Consensus pattern (34 bp):
ATATTATTGCATGATTATTTATTTGTATGATTTA
Found at i:1914029 original size:38 final size:37
Alignment explanation
Indices: 1913946--1914090 Score: 167
Period size: 38 Copynumber: 4.0 Consensus size: 37
1913936 TTGCATGATG
* *
1913946 TTTACTTGTATGATTTATTATTATTGCATG---ATTA
1 TTTATTTGTATGATTTAATATTATTGCATGATTATTA
*
1913980 TTTATTTGTATGATTTAATATTATAGCATGATTATGTA
1 TTTATTTGTATGATTTAATATTATTGCATGATTAT-TA
*
1914018 TTTATTTGTATGATTTAATATTATTGTATGATTATT-
1 TTTATTTGTATGATTTAATATTATTGCATGATTATTA
* *
1914054 TATTA-ATGCATGATTTAATA-TATTTGCATGATTATTA
1 T-TTATTTGTATGATTTAATATTA-TTGCATGATTATTA
1914091 ATATGTTATT
Statistics
Matches: 96, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
34 27 0.28
35 2 0.02
36 26 0.27
37 6 0.06
38 35 0.36
ACGTcount: A:0.30, C:0.03, G:0.12, T:0.54
Consensus pattern (37 bp):
TTTATTTGTATGATTTAATATTATTGCATGATTATTA
Found at i:1914092 original size:56 final size:55
Alignment explanation
Indices: 1913955--1914094 Score: 125
Period size: 56 Copynumber: 2.6 Consensus size: 55
1913945 GTTTACTTGT
*
1913955 ATGATTTATTAT-TATTGCATGATTATT--TA-TTTGTATGATTTAATATTATAGC
1 ATGATTTAATATAT-TTGCATGATTATTAATATTTTGTATGATTTAATATTATAGC
* * * *
1914007 ATGATTATGTATTTATTTGTATGA-T-TTAATATTATTGTATGA-TTATTTATTA-ATGC
1 ATGATT-T-AATATATTTGCATGATTATTAATATT-TTGTATGATTTA-ATATTATA-GC
1914063 ATGATTTAATATATTTGCATGATTATTAATAT
1 ATGATTTAATATATTTGCATGATTATTAATAT
1914095 GTTATTTTCA
Statistics
Matches: 69, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
52 8 0.12
53 2 0.03
54 23 0.33
55 8 0.12
56 28 0.41
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.54
Consensus pattern (55 bp):
ATGATTTAATATATTTGCATGATTATTAATATTTTGTATGATTTAATATTATAGC
Found at i:1914152 original size:35 final size:35
Alignment explanation
Indices: 1914113--1914212 Score: 82
Period size: 35 Copynumber: 2.9 Consensus size: 35
1914103 CATGGGTTGA
1914113 ATTTAATTGGATGATTTATTATATAATTTTGCATG
1 ATTTAATTGGATGATTTATTATATAATTTTGCATG
* *
1914148 ATTTATTGTGAGATG-TTTCTTATAT--TTATTGCATG
1 ATTTAAT-TG-GATGATTTATTATATAATT-TTGCATG
* * * *
1914183 ATGT-CTTGGCATGATTTTTTATAGAATTTT
1 ATTTAATTGG-ATGATTTATTATATAATTTT
1914213 TATTGGCATG
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
32 1 0.02
33 5 0.10
34 11 0.21
35 18 0.35
36 13 0.25
37 4 0.08
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (35 bp):
ATTTAATTGGATGATTTATTATATAATTTTGCATG
Found at i:1914241 original size:27 final size:27
Alignment explanation
Indices: 1914188--1914244 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
1914178 GCATGATGTC
*
1914188 TTGGCATGATTTTTTATAGAATTTTTA
1 TTGGCATGATTTTTTATAGAATATTTA
1914215 TTGGCATGATATTTGTTAT-G-ATATTTA
1 TTGGCATGAT-TTT-TTATAGAATATTTA
1914242 TTG
1 TTG
1914245 TATGATGTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 19 0.70
28 4 0.15
29 4 0.15
ACGTcount: A:0.25, C:0.04, G:0.18, T:0.54
Consensus pattern (27 bp):
TTGGCATGATTTTTTATAGAATATTTA
Done.