Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008033.1 Hibiscus syriacus cultivar Beakdansim tig00110515_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: 3048429
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 14
Found at i:1769061 original size:27 final size:27
Alignment explanation
Indices: 1769017--1769079 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
1769007 CTTTTAATTC
*
1769017 TTTTAGAAAATATATAAA-CTCTTAAACT
1 TTTTA-AAAATATATAAAGCACTT-AACT
1769045 TTTTAAAAATA-ATTAAAGCACTTAACT
1 TTTTAAAAATATA-TAAAGCACTTAACT
1769072 TTTTAAAA
1 TTTTAAAA
1769080 GAATCAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 1 0.03
27 22 0.69
28 9 0.28
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.40
Consensus pattern (27 bp):
TTTTAAAAATATATAAAGCACTTAACT
Found at i:1773033 original size:21 final size:18
Alignment explanation
Indices: 1772987--1773035 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
1772977 AGTAAATTTG
*
1772987 GTATCGATACCTAAGGGA
1 GTATCGATACCCAAGGGA
*
1773005 GTACCGATACCCAAGTGGAGA
1 GTATCGATACCCAA--GG-GA
1773026 GTATCGATAC
1 GTATCGATAC
1773036 ATTCAGAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 12 0.48
20 2 0.08
21 11 0.44
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (18 bp):
GTATCGATACCCAAGGGA
Found at i:1775757 original size:14 final size:14
Alignment explanation
Indices: 1775740--1775787 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
1775730 CGCTGGCTAA
1775740 GGCACGGTGCATGG
1 GGCACGGTGCATGG
* **
1775754 GGCACGCTGGC-TAA
1 GGCACGGT-GCATGG
1775768 GGCACGGTGCATGG
1 GGCACGGTGCATGG
1775782 GGCACG
1 GGCACG
1775788 CCTTATGCCA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
13 2 0.08
14 22 0.85
15 2 0.08
ACGTcount: A:0.17, C:0.25, G:0.46, T:0.12
Consensus pattern (14 bp):
GGCACGGTGCATGG
Found at i:1775761 original size:28 final size:28
Alignment explanation
Indices: 1775728--1775788 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
1775718 GACATGGTGA
1775728 CACGCTGGCTAAGGCACGGTGCATGGGG
1 CACGCTGGCTAAGGCACGGTGCATGGGG
1775756 CACGCTGGCTAAGGCACGGTGCATGGGG
1 CACGCTGGCTAAGGCACGGTGCATGGGG
1775784 CACGC
1 CACGC
1775789 CTTATGCCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.18, C:0.28, G:0.41, T:0.13
Consensus pattern (28 bp):
CACGCTGGCTAAGGCACGGTGCATGGGG
Found at i:1775997 original size:20 final size:20
Alignment explanation
Indices: 1775968--1776009 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1775958 TTCATCACAC
*
1775968 CAAATCCTCTTA-ACTTCTCT
1 CAAATACTCTTATA-TTCTCT
1775988 CAAATACTCTTATATTCTCT
1 CAAATACTCTTATATTCTCT
1776008 CA
1 CA
1776010 TAGCTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.40
Consensus pattern (20 bp):
CAAATACTCTTATATTCTCT
Found at i:1778373 original size:33 final size:32
Alignment explanation
Indices: 1778305--1778396 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 32
1778295 ATTTAATACA
***
1778305 TAATTTATTTTGTTAATTTTGTTTGACTTTTTT
1 TAATTTATTTTGTTAATTTTGTTT-ACTGCATT
*
1778338 TAATTTATTTTGTTAATTTTGTTTAGTAGCATT
1 TAATTTATTTTGTTAATTTTGTTTACT-GCATT
1778371 TAATATTAGTTATTG-TAATTTT-TTTA
1 TAAT-TTA-TT-TTGTTAATTTTGTTTA
1778397 TTTACCATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
32 2 0.04
33 30 0.59
34 7 0.14
35 9 0.18
36 3 0.06
ACGTcount: A:0.24, C:0.02, G:0.10, T:0.64
Consensus pattern (32 bp):
TAATTTATTTTGTTAATTTTGTTTACTGCATT
Found at i:1781648 original size:22 final size:22
Alignment explanation
Indices: 1781621--1781667 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
1781611 ACAATAAAAT
1781621 TTTTACACAGAAACGTAAATAA
1 TTTTACACAGAAACGTAAATAA
*
1781643 TTTTACACATAAACGTAAATAA
1 TTTTACACAGAAACGTAAATAA
1781665 TTT
1 TTT
1781668 AAATAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (22 bp):
TTTTACACAGAAACGTAAATAA
Found at i:1787395 original size:27 final size:27
Alignment explanation
Indices: 1787366--1787417 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
1787356 ATAATCTATT
*
1787366 TTTTTATT-TTTTAAAAAATAAATAAC
1 TTTTAATTCTTTTAAAAAATAAATAAC
* *
1787392 TTTTAATTCTTTTAGAAAATATATAA
1 TTTTAATTCTTTTAAAAAATAAATAA
1787418 ACTCTCAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (27 bp):
TTTTAATTCTTTTAAAAAATAAATAAC
Found at i:1787445 original size:27 final size:27
Alignment explanation
Indices: 1787401--1787463 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
1787391 CTTTTAATTC
*
1787401 TTTTAGAAAATATATAAA-CTCTCAAACT
1 TTTTA-AAAATATATAAAGCACT-AAACT
*
1787429 TTTTAAAAATA-ATTAAAGCACTTAACT
1 TTTTAAAAATATA-TAAAGCACTAAACT
1787456 TTTTAAAA
1 TTTTAAAA
1787464 GAATTAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 1 0.03
27 22 0.71
28 8 0.26
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.38
Consensus pattern (27 bp):
TTTTAAAAATATATAAAGCACTAAACT
Found at i:1789343 original size:21 final size:21
Alignment explanation
Indices: 1789317--1789359 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1789307 GTATTACTAG
1789317 GGTGGTTGAGGTAGATTTGGT
1 GGTGGTTGAGGTAGATTTGGT
*
1789338 GGTGGTTGAGGTGGATTTGGT
1 GGTGGTTGAGGTAGATTTGGT
1789359 G
1 G
1789360 TATACTTGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.12, C:0.00, G:0.51, T:0.37
Consensus pattern (21 bp):
GGTGGTTGAGGTAGATTTGGT
Found at i:1792610 original size:60 final size:60
Alignment explanation
Indices: 1792537--1792672 Score: 168
Period size: 60 Copynumber: 2.3 Consensus size: 60
1792527 AATTAAGGGT
* * * *
1792537 AAAG-TACATAAATGGTCTCCCGATTATA-ATATATTATTTTATTAAGTCTCTTGATTATTA
1 AAAGTTACA-AAATGATCTCCCGATTATAGA-ATATTATTTTATTAAGTATCTCGACTATTA
* * * *
1792597 AAAGTTACAAAATGATCTTCTGATTATAGAATATTGTTTTGTTAAGTATCTCGACTATTA
1 AAAGTTACAAAATGATCTCCCGATTATAGAATATTATTTTATTAAGTATCTCGACTATTA
1792657 AAAGTTACAAAATGAT
1 AAAGTTACAAAATGAT
1792673 GACTTAACTA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
60 61 0.92
61 5 0.08
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (60 bp):
AAAGTTACAAAATGATCTCCCGATTATAGAATATTATTTTATTAAGTATCTCGACTATTA
Found at i:1797935 original size:2 final size:2
Alignment explanation
Indices: 1797930--1797959 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1797920 ACACACGTAC
1797930 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1797960 ATTTTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1797992 original size:24 final size:22
Alignment explanation
Indices: 1797965--1798018 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
1797955 ATATAATTTT
* *
1797965 TATTTTTATATTTAACTTATTATA
1 TATTTTTAT-TTTAAATT-TTAAA
*
1797989 TATTTGTATTTTAAATTTTAAA
1 TATTTTTATTTTAAATTTTAAA
1798011 TATTTTTA
1 TATTTTTA
1798019 AAATAATCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 11 0.42
23 7 0.27
24 8 0.31
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (22 bp):
TATTTTTATTTTAAATTTTAAA
Found at i:1798064 original size:115 final size:114
Alignment explanation
Indices: 1797940--1798147 Score: 391
Period size: 115 Copynumber: 1.8 Consensus size: 114
1797930 ATATATATAT
1797940 ATATATATATATA-TAATATAATTTTTATTTTTATATTTAACTTATTATATATTTGTATTTTAAA
1 ATATATATAT-TAGTAATATAATTTTTATTTTTATATTTAACTTATTATAT-TTTGTATTTTAAA
1798004 TTTTAAATATTTTTAAAATAATCAAAATAACATTCTCAATCACATTAGTTA
64 TTTTAAATATTTTTAAAATAATCAAAATAACATTCTCAATCACATTAGTTA
1798055 ATATATATATTAGTAATATAATTTTTATTTTTATATTTAACTTATTATATTTTGTATTTTAAATT
1 ATATATATATTAGTAATATAATTTTTATTTTTATATTTAACTTATTATATTTTGTATTTTAAATT
1798120 TTAAATATTTTTAAAATAATCAAAATAA
66 TTAAATATTTTTAAAATAATCAAAATAA
1798148 GCCCTTCAAC
Statistics
Matches: 92, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
114 45 0.49
115 47 0.51
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (114 bp):
ATATATATATTAGTAATATAATTTTTATTTTTATATTTAACTTATTATATTTTGTATTTTAAATT
TTAAATATTTTTAAAATAATCAAAATAACATTCTCAATCACATTAGTTA
Found at i:1798880 original size:34 final size:35
Alignment explanation
Indices: 1798818--1798891 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 35
1798808 TCTACCTTTT
* * *
1798818 ATTTTATTTTATTTTATTTGTTTTAG-TTTTTAAC
1 ATTTTATTTGATTTTATTAGTTTAAGTTTTTTAAC
*
1798852 TTTTTATTTGATTTTATTCAG-TTAAGTTTTTTAAC
1 ATTTTATTTGATTTTATT-AGTTTAAGTTTTTTAAC
1798887 ATTTT
1 ATTTT
1798892 CTTTTTATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
34 20 0.61
35 13 0.39
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.68
Consensus pattern (35 bp):
ATTTTATTTGATTTTATTAGTTTAAGTTTTTTAAC
Found at i:1799026 original size:29 final size:27
Alignment explanation
Indices: 1798924--1799014 Score: 164
Period size: 27 Copynumber: 3.3 Consensus size: 27
1798914 TTAGTTTTCT
1798924 AACGTCGAAACTTGTTTTTTATTAATA
1 AACGTCGAAACTTGTTTTTTATTAATA
1798951 AACGTCGAAACTTGTTTTTTTTATTAATA
1 AACGTCGAAACTTG--TTTTTTATTAATA
1798980 AACGTCGAAACTTGTTTTTTATTAATA
1 AACGTCGAAACTTGTTTTTTATTAATA
1799007 AACGTCGA
1 AACGTCGA
1799015 TGGTTAAGTT
Statistics
Matches: 62, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
27 35 0.56
29 27 0.44
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (27 bp):
AACGTCGAAACTTGTTTTTTATTAATA
Found at i:1799165 original size:24 final size:26
Alignment explanation
Indices: 1799124--1799172 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
1799114 TCTTCTAAGA
*
1799124 AATTATATTAAATATTTAAATATATGC
1 AATTATA-TAAATATTTAAAAATATGC
1799151 AATTATA-AAAT-TTTAAAAATAT
1 AATTATATAAATATTTAAAAATAT
1799173 AAAATCAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 4 0.19
27 7 0.33
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (26 bp):
AATTATATAAATATTTAAAAATATGC
Found at i:1799500 original size:22 final size:23
Alignment explanation
Indices: 1799473--1799529 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
1799463 AAAAAAAATG
1799473 AAAATAATAAATCAATTTT-TTA
1 AAAATAATAAATCAATTTTATTA
* *
1799495 AAAATATATATATGAATTTTATTA
1 AAAATA-ATAAATCAATTTTATTA
1799519 AAAATGAATAA
1 AAAAT-AATAA
1799530 TGCTCTGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 6 0.21
23 11 0.38
24 11 0.38
25 1 0.03
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.39
Consensus pattern (23 bp):
AAAATAATAAATCAATTTTATTA
Found at i:1807999 original size:18 final size:17
Alignment explanation
Indices: 1807972--1808054 Score: 87
Period size: 18 Copynumber: 4.8 Consensus size: 17
1807962 ATTCTAAATG
1807972 TTTACAGTTATCAGATGA
1 TTTACAGTTATCAGAT-A
*
1807990 TTTTCAGTTATCAGATA
1 TTTACAGTTATCAGATA
** *
1808007 TTTACAAATATCAAATGA
1 TTTACAGTTATCAGAT-A
*
1808025 -TTACAGTTATAAGATA
1 TTTACAGTTATCAGATA
1808041 TTTTACAGTTATCA
1 -TTTACAGTTATCA
1808055 TACACATATT
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
16 1 0.02
17 24 0.46
18 27 0.52
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (17 bp):
TTTACAGTTATCAGATA
Found at i:1808054 original size:35 final size:35
Alignment explanation
Indices: 1807972--1808054 Score: 105
Period size: 35 Copynumber: 2.4 Consensus size: 35
1807962 ATTCTAAATG
* * *
1807972 TTTACAGTTATCAGATGATTTTCAGTTATCAGATA
1 TTTACAGTTATCAAATGATTTACAGTTATAAGATA
**
1808007 TTTACAAATATCAAATGA-TTACAGTTATAAGATA
1 TTTACAGTTATCAAATGATTTACAGTTATAAGATA
1808041 TTTTACAGTTATCA
1 -TTTACAGTTATCA
1808055 TACACATATT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
34 14 0.35
35 26 0.65
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (35 bp):
TTTACAGTTATCAAATGATTTACAGTTATAAGATA
Found at i:1808393 original size:17 final size:17
Alignment explanation
Indices: 1808371--1808403 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1808361 TTATAACATT
1808371 ATATAAAAGAAAAGAAC
1 ATATAAAAGAAAAGAAC
*
1808388 ATATAATAGAAAAGAA
1 ATATAAAAGAAAAGAA
1808404 AGTTAGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.70, C:0.03, G:0.12, T:0.15
Consensus pattern (17 bp):
ATATAAAAGAAAAGAAC
Found at i:1810126 original size:18 final size:18
Alignment explanation
Indices: 1810103--1810143 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
1810093 ATTAGAGGAT
1810103 ATTCTGATAGTTTGGGAA
1 ATTCTGATAGTTTGGGAA
1810121 ATTCTGATAGTTTGGGAA
1 ATTCTGATAGTTTGGGAA
1810139 ATTCT
1 ATTCT
1810144 AGATGTAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.41
Consensus pattern (18 bp):
ATTCTGATAGTTTGGGAA
Found at i:1814758 original size:24 final size:24
Alignment explanation
Indices: 1814731--1814813 Score: 103
Period size: 24 Copynumber: 3.5 Consensus size: 24
1814721 TCTGATTTGA
* *
1814731 ATTCTGTTATGTTACCTGACCTGG
1 ATTCTGATATGTTACTTGACCTGG
* *
1814755 ATTCTGATATGATATTTGACCTGG
1 ATTCTGATATGTTACTTGACCTGG
* * *
1814779 ATTCTGATCTATTACTTGACATGG
1 ATTCTGATATGTTACTTGACCTGG
1814803 ATTCTGATATG
1 ATTCTGATATG
1814814 ATACATGAGC
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (24 bp):
ATTCTGATATGTTACTTGACCTGG
Found at i:1819119 original size:24 final size:24
Alignment explanation
Indices: 1819075--1819144 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 24
1819065 TACCTGACCT
1819075 GGATTCTGATCTGATATTTGATC-G
1 GGATTCTGATCTGATATTTGA-CAG
* * *
1819099 GGATTCTGATTTG-TTTCTTGACAT
1 GGATTCTGATCTGATAT-TTGACAG
* *
1819123 GGATTCTGATATGATACTTGAC
1 GGATTCTGATCTGATATTTGAC
1819145 CTGAATTATG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
23 3 0.08
24 33 0.89
25 1 0.03
ACGTcount: A:0.21, C:0.13, G:0.23, T:0.43
Consensus pattern (24 bp):
GGATTCTGATCTGATATTTGACAG
Found at i:1826675 original size:20 final size:20
Alignment explanation
Indices: 1826646--1826689 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
1826636 TCCAAATTCG
1826646 CAACGCGAATCTGTAAATCA
1 CAACGCGAATCTGTAAATCA
*
1826666 CAACGTGAATCTGTAAATCA
1 CAACGCGAATCTGTAAATCA
1826686 CAAC
1 CAAC
1826690 ATAGAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20
Consensus pattern (20 bp):
CAACGCGAATCTGTAAATCA
Found at i:1826729 original size:19 final size:19
Alignment explanation
Indices: 1826705--1826741 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1826695 AGTCAAATTC
1826705 GCAAAGCGCGTTTATTTTT
1 GCAAAGCGCGTTTATTTTT
1826724 GCAAAGCGCGTTTATTTT
1 GCAAAGCGCGTTTATTTT
1826742 CGTATCGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.41
Consensus pattern (19 bp):
GCAAAGCGCGTTTATTTTT
Found at i:1826911 original size:22 final size:22
Alignment explanation
Indices: 1826886--1826932 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
1826876 GGCGATATCC
1826886 GTCCCCATCTCCGACAAAATCT
1 GTCCCCATCTCCGACAAAATCT
* *
1826908 GTCCCCATCTCTGACTAAATCT
1 GTCCCCATCTCCGACAAAATCT
1826930 GTC
1 GTC
1826933 TATCTCCATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.23, C:0.38, G:0.11, T:0.28
Consensus pattern (22 bp):
GTCCCCATCTCCGACAAAATCT
Found at i:1827606 original size:20 final size:20
Alignment explanation
Indices: 1827583--1827628 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
1827573 TCTGAAACTT
1827583 AAAATCGCAACGCGAAAATG
1 AAAATCGCAACGCGAAAATG
*
1827603 AAAATCGTAACGCGAAAATG
1 AAAATCGCAACGCGAAAATG
1827623 AAAATC
1 AAAATC
1827629 ACAAGTTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.52, C:0.17, G:0.17, T:0.13
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATG
Found at i:1829379 original size:21 final size:23
Alignment explanation
Indices: 1829355--1829452 Score: 59
Period size: 21 Copynumber: 4.6 Consensus size: 23
1829345 TGGTGCATGG
1829355 CGTGATGAGGTA-CGGT-CTTTA
1 CGTGATGAGGTAGCGGTACTTTA
* *
1829376 CGTGGTGAGGTAGAGGT--TTTA
1 CGTGATGAGGTAGCGGTACTTTA
* * ** *
1829397 CATGATGA--CAATGGTGCTTTA
1 CGTGATGAGGTAGCGGTACTTTA
* *
1829418 CGTGGTGAGGTATC--TACTTTA
1 CGTGATGAGGTAGCGGTACTTTA
1829439 CGTGATGAGGTAGC
1 CGTGATGAGGTAGC
1829453 CGCTCTACGT
Statistics
Matches: 57, Mismatches: 15, Indels: 10
0.70 0.18 0.12
Matches are distributed among these distances:
19 4 0.07
21 49 0.86
22 3 0.05
23 1 0.02
ACGTcount: A:0.21, C:0.12, G:0.34, T:0.33
Consensus pattern (23 bp):
CGTGATGAGGTAGCGGTACTTTA
Found at i:1829816 original size:21 final size:21
Alignment explanation
Indices: 1829746--1829824 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 21
1829736 GATTCACCTA
1829746 TCATCATTCAAGAGGCCCC-C
1 TCATCATTCAAGAGGCCCCTC
* * *
1829766 T-ATCTTTCAAAAGGCTCCT-
1 TCATCATTCAAGAGGCCCCTC
*
1829785 TCCACCATTCAAGAGGCCCCTC
1 T-CATCATTCAAGAGGCCCCTC
* *
1829807 TCATCGTTCAAGAAGCCC
1 TCATCATTCAAGAGGCCC
1829825 ATCCCACCGT
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
19 15 0.33
20 1 0.02
21 28 0.62
22 1 0.02
ACGTcount: A:0.25, C:0.37, G:0.14, T:0.24
Consensus pattern (21 bp):
TCATCATTCAAGAGGCCCCTC
Found at i:1829835 original size:21 final size:21
Alignment explanation
Indices: 1829786--1829844 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
1829776 AAGGCTCCTT
* * *
1829786 CCACCATTCAAGAGGCCCCTC
1 CCACCGTTCAAGAAGCCCATC
* *
1829807 TCATCGTTCAAGAAGCCCATC
1 CCACCGTTCAAGAAGCCCATC
1829828 CCACCGTTCAAG-AGCCC
1 CCACCGTTCAAGAAGCCC
1829845 GATTCACATG
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 5 0.16
21 26 0.84
ACGTcount: A:0.25, C:0.42, G:0.15, T:0.17
Consensus pattern (21 bp):
CCACCGTTCAAGAAGCCCATC
Found at i:1829838 original size:42 final size:40
Alignment explanation
Indices: 1829750--1829841 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 40
1829740 CACCTATCAT
* *
1829750 CATTCAAGAGGCCCCCTATCTTTCAAAAGGCTCCTTCCAC
1 CATTCAAGAGGCCCCCTATCGTTCAAAAGGCTCCTCCCAC
1829790 CATTCAAGAGGCCCCTCTCATCGTTCAAGAA-GC-CCATCCCAC
1 CATTCAAGAGGCCCC-CT-ATCGTTCAA-AAGGCTCC-TCCCAC
*
1829832 CGTTCAAGAG
1 CATTCAAGAG
1829842 CCCGATTCAC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
40 15 0.33
41 4 0.09
42 24 0.53
43 2 0.04
ACGTcount: A:0.26, C:0.37, G:0.15, T:0.22
Consensus pattern (40 bp):
CATTCAAGAGGCCCCCTATCGTTCAAAAGGCTCCTCCCAC
Found at i:1831408 original size:20 final size:20
Alignment explanation
Indices: 1831359--1831408 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
1831349 AATGGTTGCA
**
1831359 AAAGTCAAATTCACATTGCG
1 AAAGTCAAATTCACAACGCG
* * *
1831379 AAAATAAAATTCGCAACGCG
1 AAAGTCAAATTCACAACGCG
1831399 AAAGTCAAAT
1 AAAGTCAAAT
1831409 GCGCGTTGCA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.48, C:0.18, G:0.14, T:0.20
Consensus pattern (20 bp):
AAAGTCAAATTCACAACGCG
Found at i:1831526 original size:41 final size:42
Alignment explanation
Indices: 1831437--1831536 Score: 130
Period size: 41 Copynumber: 2.4 Consensus size: 42
1831427 TTTTACGTTT
* * * *
1831437 CGAATTTGATTTTTGCAACAAACGCAATGCGAAAATTGCAACG
1 CGAATTTGACTTTCGCAACAAACGCAA-GCAAAAATCGCAACG
*
1831480 CGAATTTGACTTTCGCAACAATCGCAA-CAAAAATCGCAACG
1 CGAATTTGACTTTCGCAACAAACGCAAGCAAAAATCGCAACG
*
1831521 TGAATTTGACTTTCGC
1 CGAATTTGACTTTCGC
1831537 GTTGTGAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
41 27 0.53
43 24 0.47
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (42 bp):
CGAATTTGACTTTCGCAACAAACGCAAGCAAAAATCGCAACG
Found at i:1831771 original size:18 final size:18
Alignment explanation
Indices: 1831748--1831783 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1831738 AAGCCGGTTG
*
1831748 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
1831766 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
1831784 CCTTTTGCTT
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:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:1833867 original size:12 final size:12
Alignment explanation
Indices: 1833850--1833874 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1833840 TCTTCCGGGA
1833850 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1833862 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1833874 C
1 C
1833875 AGGGTTATAT
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:1834786 original size:14 final size:15
Alignment explanation
Indices: 1834750--1834787 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
1834740 GAAATCATTG
1834750 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
1834765 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
1834780 AAAAATTA
1 AAAAATTA
1834788 GAGTTGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:1834981 original size:21 final size:21
Alignment explanation
Indices: 1834956--1835014 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 21
1834946 TGCGAAATTT
* *
1834956 AAATTCGTGTTGTGAATTTGA
1 AAATTCGAGTTGTGAATTTCA
* *
1834977 AAATT-GAGTTGTGATTTTCC
1 AAATTCGAGTTGTGAATTTCA
* *
1834997 AAATTCGCGTTGCGAATT
1 AAATTCGAGTTGTGAATT
1835015 CATAAATCAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (21 bp):
AAATTCGAGTTGTGAATTTCA
Found at i:1835123 original size:20 final size:20
Alignment explanation
Indices: 1835098--1835176 Score: 77
Period size: 20 Copynumber: 3.9 Consensus size: 20
1835088 TGCGAATTAC
1835098 AGATTCGCGTTACAATTTAT
1 AGATTCGCGTTACAATTTAT
* * *
1835118 AGATTCACGTTGCGATTTAT
1 AGATTCGCGTTACAATTTAT
* * *
1835138 AGATTTGCGTTGCGATTTAT
1 AGATTCGCGTTACAATTTAT
* *
1835158 ATATTTGCGTTACGAATTT
1 AGATTCGCGTTAC-AATTT
1835177 GAAAAATCAC
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
20 46 0.92
21 4 0.08
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.43
Consensus pattern (20 bp):
AGATTCGCGTTACAATTTAT
Found at i:1840370 original size:18 final size:17
Alignment explanation
Indices: 1840316--1840364 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
1840306 TTGGACCCTT
* *
1840316 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
1840334 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
1840352 AGTGCATTCGATG
1 AGTGCA-TCGATG
1840365 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:1840469 original size:65 final size:62
Alignment explanation
Indices: 1840315--1840495 Score: 204
Period size: 65 Copynumber: 2.8 Consensus size: 62
1840305 GTTGGACCCT
* * *
1840315 TAGTGCATCGGTGCACTAAG-AGTGCATCGATGCATCAAGTGCATTCGATG-TTTCAAAATAGC
1 TAGTGCATCGGTGCA-T-GGTAGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATACC
* * * *
1840377 TAGAGCGCATCGATGCATGGCTGGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATC
1 T--AGTGCATCGGTGCATGG-TAGTGCATCGATGCATCAAATGCATTCGATGTTTTC--AAAATA
1840442 CC
61 CC
*
1840444 TAGTGCATCGGTGCATGGTATGTGCATCGATGCATGAAATGCATTCGATGTT
1 TAGTGCATCGGTGCATGGTA-GTGCATCGATGCATCAAATGCATTCGATGTT
1840496 CAATTTAATT
Statistics
Matches: 100, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
62 2 0.02
63 1 0.01
64 41 0.41
65 49 0.49
67 7 0.07
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (62 bp):
TAGTGCATCGGTGCATGGTAGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATACC
Found at i:1840534 original size:65 final size:64
Alignment explanation
Indices: 1840336--1840536 Score: 210
Period size: 65 Copynumber: 3.1 Consensus size: 64
1840326 TGCACTAAGA
* * * * * *
1840336 GTGCATCGATGCATCAAGTGCATTCGATGTTTCA-AAATAGCTAGAGCGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-ATCCATAGTGCATCGATGCATGGTTG
* *
1840400 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCCTAGTGCATCGGTGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAATCCATAGTGCATCGATGCATGGT-T
1840465 -
64 G
* ** ** *
1840465 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTTATGGTGCATCGATGCATGGATT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAATCCATAGTGCATCGATGCATGG-TT
1840529 G
64 G
1840530 GTGCATC
1 GTGCATC
1840537 ACTTTGAAAA
Statistics
Matches: 115, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
63 3 0.03
64 50 0.43
65 58 0.50
66 4 0.03
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCCATAGTGCATCGATGCATGGTTG
Found at i:1843222 original size:24 final size:23
Alignment explanation
Indices: 1843148--1843227 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 23
1843138 CATAACCCCG
1843148 TGCATCGATGCACATTCAAGGCG-
1 TGCATCGATGCACATTCAAGG-GA
* *
1843171 TGCATCGGTGCATCA-TC-A-TGA
1 TGCATCGATGCA-CATTCAAGGGA
*
1843192 TGAATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTC-AAGGGA
1843216 TGCATCGATGCA
1 TGCATCGATGCA
1843228 TTGTTAAGTG
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
20 3 0.07
21 12 0.27
22 1 0.02
23 14 0.31
24 15 0.33
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.24
Consensus pattern (23 bp):
TGCATCGATGCACATTCAAGGGA
Found at i:1849148 original size:65 final size:64
Alignment explanation
Indices: 1848950--1849150 Score: 207
Period size: 65 Copynumber: 3.1 Consensus size: 64
1848940 TTCACTAAGA
* *
1848950 GTGCATCAATGCATCAAGTGCATTCGATGTTTC--AAAAT-AGCTAGAGTGCATCGATGCATGGT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCA-CT--AGTGCATCGATGCATGGT
1849012 TG
63 TG
*
1849014 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCACTAGTGCATCGGTGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAATCACTAGTGCATCGATGCATGGT-T
1849079 -
64 G
* * * * * *
1849079 GTGCATCGATGTATGAAATGCATTCGATG-TTCAATTTAATTCA-TGGTGCATTGATGCATGGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-A-TAAAATCACTAGTGCATCGATGCATGG-T
1849142 TG
63 TG
1849144 GTGCATC
1 GTGCATC
1849151 ACTCTGAAAA
Statistics
Matches: 118, Mismatches: 10, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
63 3 0.03
64 44 0.37
65 62 0.53
66 1 0.01
67 7 0.06
68 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCACTAGTGCATCGATGCATGGTTG
Found at i:1850512 original size:18 final size:18
Alignment explanation
Indices: 1850489--1850526 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1850479 CTCATTACCC
* *
1850489 TTATTATTATTCTTATCA
1 TTATTAGTATTATTATCA
1850507 TTATTAGTATTATTATCA
1 TTATTAGTATTATTATCA
1850525 TT
1 TT
1850527 CATATCTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.61
Consensus pattern (18 bp):
TTATTAGTATTATTATCA
Found at i:1856832 original size:18 final size:18
Alignment explanation
Indices: 1856809--1856844 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1856799 ACTACTATGA
1856809 TATGTCCCGAAAGACCAC
1 TATGTCCCGAAAGACCAC
* *
1856827 TATGTCCTGAAGGACCAC
1 TATGTCCCGAAAGACCAC
1856845 ATAAAACCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (18 bp):
TATGTCCCGAAAGACCAC
Found at i:1857066 original size:9 final size:9
Alignment explanation
Indices: 1857048--1857082 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
1857038 CACATATGTT
1857048 TCACATATA
1 TCACATATA
*
1857057 TCATATATA
1 TCACATATA
1857066 TCACATAT-
1 TCACATATA
1857074 TCACATATA
1 TCACATATA
1857083 CATGTAGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (9 bp):
TCACATATA
Found at i:1857409 original size:15 final size:15
Alignment explanation
Indices: 1857386--1857420 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1857376 ACGTTACCCT
1857386 CAATCGATATCTACA
1 CAATCGATATCTACA
*
1857401 CAATTGATATCTACA
1 CAATCGATATCTACA
1857416 CAATC
1 CAATC
1857421 ATGTATACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.40, C:0.26, G:0.06, T:0.29
Consensus pattern (15 bp):
CAATCGATATCTACA
Found at i:1861260 original size:9 final size:9
Alignment explanation
Indices: 1861233--1861279 Score: 60
Period size: 9 Copynumber: 5.1 Consensus size: 9
1861223 CATCTCTTGT
1861233 TCACATATA
1 TCACATATA
1861242 TTTCACATATA
1 --TCACATATA
*
1861253 TCATATATA
1 TCACATATA
1861262 TCACATAT-
1 TCACATATA
1861270 TCACATATA
1 TCACATATA
1861279 T
1 T
1861280 ACGTAGATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 8 0.24
9 16 0.48
11 9 0.27
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.40
Consensus pattern (9 bp):
TCACATATA
Found at i:1861876 original size:84 final size:84
Alignment explanation
Indices: 1861735--1861908 Score: 321
Period size: 84 Copynumber: 2.1 Consensus size: 84
1861725 CCTTCACTAT
*
1861735 GGTATCGGTACACTACCTAGGTATCGATACCCAAATTACATTCGATATTTTTCATTTCAAGGGGG
1 GGTATCGATACACTACCTAGGTATCGATACCCAAATTACATTCGATATTTTTCATTTCAAGGGGG
1861800 TATCGATACCATCCCTTAG
66 TATCGATACCATCCCTTAG
**
1861819 GGTATCGATACACTACCTCTGTATCGATACCCAAATTACATTCGATATTTTTCATTTCAAGGGGG
1 GGTATCGATACACTACCTAGGTATCGATACCCAAATTACATTCGATATTTTTCATTTCAAGGGGG
1861884 TATCGATACCATCCCTTAG
66 TATCGATACCATCCCTTAG
1861903 GGTATC
1 GGTATC
1861909 AGTTCCATCC
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 87 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (84 bp):
GGTATCGATACACTACCTAGGTATCGATACCCAAATTACATTCGATATTTTTCATTTCAAGGGGG
TATCGATACCATCCCTTAG
Found at i:1861906 original size:21 final size:21
Alignment explanation
Indices: 1861881--1861935 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
1861871 CATTTCAAGG
1861881 GGGTATCGATACCATCCCTTA
1 GGGTATCGATACCATCCCTTA
*
1861902 GGGTATC-AGTTCCATCCCTTA
1 GGGTATCGA-TACCATCCCTTA
*
1861923 GGGTATCGGTACC
1 GGGTATCGATACC
1861936 CTTTGAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.29
Consensus pattern (21 bp):
GGGTATCGATACCATCCCTTA
Found at i:1869404 original size:15 final size:15
Alignment explanation
Indices: 1869371--1869404 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1869361 TATAGTTATT
*
1869371 TGATTTGTAAATGTG
1 TGATTTGTAAATGTA
*
1869386 TGATTTGTAAATTTA
1 TGATTTGTAAATGTA
1869401 TGAT
1 TGAT
1869405 AAAATGTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (15 bp):
TGATTTGTAAATGTA
Found at i:1871836 original size:15 final size:15
Alignment explanation
Indices: 1871804--1871846 Score: 56
Period size: 13 Copynumber: 3.1 Consensus size: 15
1871794 AGCAACTCGA
1871804 AAAAATTATATA-TT
1 AAAAATTATATATTT
1871818 -AAAATTATATATTT
1 AAAAATTATATATTT
*
1871832 AAAAATAATA-ATTT
1 AAAAATTATATATTT
1871846 A
1 A
1871847 TTAATGATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 11 0.42
14 7 0.27
15 8 0.31
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAAAATTATATATTT
Found at i:1872161 original size:26 final size:26
Alignment explanation
Indices: 1872132--1872184 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
1872122 GCTCATTTGC
1872132 AACCCCACCTTCAACTCAGAAAATAA
1 AACCCCACCTTCAACTCAGAAAATAA
1872158 AACCCCACCTTCAACTCAGAAAATAA
1 AACCCCACCTTCAACTCAGAAAATAA
1872184 A
1 A
1872185 CTAAATGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.34, G:0.04, T:0.15
Consensus pattern (26 bp):
AACCCCACCTTCAACTCAGAAAATAA
Found at i:1872419 original size:15 final size:15
Alignment explanation
Indices: 1872399--1872433 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
1872389 TATAGTATTC
1872399 AAAAAAATTAAAATT
1 AAAAAAATTAAAATT
1872414 AAAAAAATTAAAATT
1 AAAAAAATTAAAATT
1872429 AAAAA
1 AAAAA
1872434 TTAAATTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAAAAATTAAAATT
Found at i:1872446 original size:15 final size:14
Alignment explanation
Indices: 1872401--1872448 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
1872391 TAGTATTCAA
*
1872401 AAAAATTAAAATTAA
1 AAAAATT-AAATTAT
*
1872416 AAAAATTAAAAT-T
1 AAAAATTAAATTAT
1872429 AAAAATTAAATTACT
1 AAAAATTAAATTA-T
1872444 AAAAA
1 AAAAA
1872449 GTCAAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 11 0.39
14 4 0.14
15 13 0.46
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAAATTAAATTAT
Found at i:1872455 original size:28 final size:28
Alignment explanation
Indices: 1872401--1872455 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
1872391 TAGTATTCAA
*
1872401 AAAAATTAAAATTAAAAAAATTAAAATT
1 AAAAATTAAAATTAAAAAAAGTAAAATT
* *
1872429 AAAAATT-AAATTACTAAAAAGTCAAAT
1 AAAAATTAAAATTA-AAAAAAGTAAAAT
1872456 ATATATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (28 bp):
AAAAATTAAAATTAAAAAAAGTAAAATT
Found at i:1872882 original size:39 final size:39
Alignment explanation
Indices: 1872835--1872942 Score: 128
Period size: 39 Copynumber: 2.8 Consensus size: 39
1872825 TAATTTGAAA
*
1872835 AATAATTTAGATTGTTAGAGTGAAATAATTGAAGAAATT
1 AATAATTTAGATTGTTAGGGTGAAATAATTGAAGAAATT
* * *
1872874 AATAATTTATAATGTT-GTGGTGAAATAATTTAAGAAATT
1 AATAATTTAGATTGTTAG-GGTGAAATAATTGAAGAAATT
* * * *
1872913 AAGAATTTAGATCGTAAGGGTAAAATAATT
1 AATAATTTAGATTGTTAGGGTGAAATAATT
1872943 TTAGAATTAG
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
38 1 0.02
39 55 0.96
40 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.18, T:0.36
Consensus pattern (39 bp):
AATAATTTAGATTGTTAGGGTGAAATAATTGAAGAAATT
Found at i:1873415 original size:33 final size:33
Alignment explanation
Indices: 1873378--1873440 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
1873368 TATGCTTATT
* *
1873378 TGGCGCCACGTGGTTATAGCGTGCCCCCTGCCC
1 TGGCGCCACGTGGGTATAGCGCGCCCCCTGCCC
1873411 TGGCGCCACGTGGGTATAGCGCGCCCCCTG
1 TGGCGCCACGTGGGTATAGCGCGCCCCCTG
1873441 ATCCGCGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.10, C:0.38, G:0.33, T:0.19
Consensus pattern (33 bp):
TGGCGCCACGTGGGTATAGCGCGCCCCCTGCCC
Found at i:1873937 original size:111 final size:111
Alignment explanation
Indices: 1873738--1873959 Score: 392
Period size: 111 Copynumber: 2.0 Consensus size: 111
1873728 TGGAAATCAT
* *
1873738 ATATCTCTACACTTTGCTGATACGGTAATATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
1873803 TATTTAGTTGATTTATTATATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTATATGCATGATTATTAGATTAAGAATTAA
1873849 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1873914 TAATTAGTTGATTCATT-TAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTAT-ATGCATGATTATTAGATTAAGAATTAA
1873960 TTTTTATAAT
Statistics
Matches: 106, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
110 1 0.01
111 105 0.99
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTCATTATATGCATGATTATTAGATTAAGAATTAA
Found at i:1875490 original size:18 final size:18
Alignment explanation
Indices: 1875467--1875501 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1875457 CCAGCAGCTA
1875467 CCGCAGCCATATATGATT
1 CCGCAGCCATATATGATT
1875485 CCGCAGCCATATATGAT
1 CCGCAGCCATATATGAT
1875502 GCCTACATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (18 bp):
CCGCAGCCATATATGATT
Found at i:1875856 original size:9 final size:9
Alignment explanation
Indices: 1875839--1875876 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
1875829 ACCTGCTCAG
1875839 GACGACGAT
1 GACGACGAT
*
1875848 GATGACGAT
1 GACGACGAT
1875857 GACGACGAT
1 GACGACGAT
1875866 GACGACGAT
1 GACGACGAT
1875875 GA
1 GA
1875877 TGATAGGGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.34, C:0.18, G:0.34, T:0.13
Consensus pattern (9 bp):
GACGACGAT
Found at i:1883108 original size:22 final size:22
Alignment explanation
Indices: 1883067--1883108 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1883057 AGGCAACCCA
** *
1883067 TTTCATTTTATTTTCGTTTTAC
1 TTTCATTTTAAATTCATTTTAC
1883089 TTTCATTTTAAATTCATTTT
1 TTTCATTTTAAATTCATTTT
1883109 TTTAGCAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.19, C:0.12, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTCATTTTAAATTCATTTTAC
Found at i:1887176 original size:20 final size:21
Alignment explanation
Indices: 1887153--1887205 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 21
1887143 AGTATTTTAA
1887153 TTAGGATTTATTT-CTT-TATT
1 TTAGGATTTATTTACTTGT-TT
1887173 TTAGGAATTATATTTACCTTGTTT
1 TTAGG-ATT-TATTTA-CTTGTTT
1887197 TTAGGATTT
1 TTAGGATTT
1887206 TGAAGGCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 5 0.18
21 3 0.11
22 6 0.21
23 3 0.11
24 10 0.36
25 1 0.04
ACGTcount: A:0.23, C:0.06, G:0.13, T:0.58
Consensus pattern (21 bp):
TTAGGATTTATTTACTTGTTT
Found at i:1887332 original size:25 final size:26
Alignment explanation
Indices: 1887304--1887359 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
1887294 AAAATCCTCT
1887304 ATTTTCTT-TTCTT-TTTCAAGTTTTC
1 ATTTTCTTATT-TTATTTCAAGTTTTC
* *
1887329 ATTTT-TTATTTTATTTTAAGTTTTT
1 ATTTTCTTATTTTATTTCAAGTTTTC
1887354 ATTTTC
1 ATTTTC
1887360 AAATATGCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 22 0.85
ACGTcount: A:0.16, C:0.09, G:0.04, T:0.71
Consensus pattern (26 bp):
ATTTTCTTATTTTATTTCAAGTTTTC
Found at i:1890653 original size:145 final size:146
Alignment explanation
Indices: 1890378--1890688 Score: 552
Period size: 145 Copynumber: 2.1 Consensus size: 146
1890368 CCCCCGCCCA
* *
1890378 AGGGGGTTACCGATTCCCCCTGAATGGTTTGGCTCTGAGAAAAACAGAATGCTCGGAGGGAACCG
1 AGGGGG-TACCAATTCCCCCTGAATGGTTTGGCTCCGAGAAAAACAGAATGCTCGGAGGGAACCG
*
1890443 ATTTCCCCCAAAGGGGTACCGATTCCCCCTGTTTAACGGTCGAAATATTTGAATTTTACACTTAG
65 ATTTCCCCCAAAGGGGTACCGATTCCCCCTATTTAACGGTCGAAATATTTGAATTTTACACTTAG
*
1890508 GGAACTGATT-CCCATG
130 GGAACCGATTCCCCATG
*
1890524 AGGGGGTACTAATTCCCCCTGAATGGTTTGGCTCCGAGAAAAACAGAATGCTCGGAGGGAACCGA
1 AGGGGGTACCAATTCCCCCTGAATGGTTTGGCTCCGAGAAAAACAGAATGCTCGGAGGGAACCGA
1890589 TTTCCCCCAAAGGGGTACCGATTCCCCCTATTTAACGGTCGAAATATTTGAATTTTACACTTAGG
66 TTTCCCCCAAAGGGGTACCGATTCCCCCTATTTAACGGTCGAAATATTTGAATTTTACACTTAGG
1890654 GAACCGATTCCCCATG
131 GAACCGATTCCCCATG
*
1890670 AGGGGGTACCGATTCCCCC
1 AGGGGGTACCAATTCCCCC
1890689 CACGCTCCAA
Statistics
Matches: 157, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
145 128 0.82
146 29 0.18
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (146 bp):
AGGGGGTACCAATTCCCCCTGAATGGTTTGGCTCCGAGAAAAACAGAATGCTCGGAGGGAACCGA
TTTCCCCCAAAGGGGTACCGATTCCCCCTATTTAACGGTCGAAATATTTGAATTTTACACTTAGG
GAACCGATTCCCCATG
Found at i:1890676 original size:72 final size:72
Alignment explanation
Indices: 1890434--1890688 Score: 211
Period size: 72 Copynumber: 3.5 Consensus size: 72
1890424 GAATGCTCGG
*
1890434 AGGGAACCGATTTCCCCCAAAGGGGTACCGATTCCCCCTGTTTAACGGTCGAAATATTTGAATTT
1 AGGGAACCGATTTCCCCCAAAGGGGTACCGATTCCCCCTATTTAACGGTCGAAATATTTGAATTT
1890499 TACACTT
66 TACACTT
* *** * ** * * **
1890506 AGGGAACTGA-TTCCCATGAGGGGGTACTAATTCCCCCTGAATGGTT--TGGCTCCGAGAAAAAC
1 AGGGAACCGATTTCCCCCAAAGGGGTACCGATTCCCCCT--AT--TTAACGG-T-CGA-AATATT
* * * **
1890568 AGAA---TGCTCGG
59 TGAATTTTACACTT
1890579 AGGGAACCGATTTCCCCCAAAGGGGTACCGATTCCCCCTATTTAACGGTCGAAATATTTGAATTT
1 AGGGAACCGATTTCCCCCAAAGGGGTACCGATTCCCCCTATTTAACGGTCGAAATATTTGAATTT
1890644 TACACTT
66 TACACTT
*
1890651 AGGGAACCGA-TT-CCCCATGAGGGGGTACCGATTCCCCC
1 AGGGAACCGATTTCCCCCA--AAGGGGTACCGATTCCCCC
1890689 CACGCTCCAA
Statistics
Matches: 134, Mismatches: 34, Indels: 30
0.68 0.17 0.15
Matches are distributed among these distances:
69 6 0.04
70 10 0.07
71 25 0.19
72 44 0.33
73 15 0.11
74 23 0.17
75 5 0.04
76 6 0.04
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (72 bp):
AGGGAACCGATTTCCCCCAAAGGGGTACCGATTCCCCCTATTTAACGGTCGAAATATTTGAATTT
TACACTT
Found at i:1893451 original size:13 final size:13
Alignment explanation
Indices: 1893433--1893490 Score: 98
Period size: 13 Copynumber: 4.5 Consensus size: 13
1893423 GTCACAACCC
1893433 GACCCGACCCGTT
1 GACCCGACCCGTT
*
1893446 GACCCGACCTGTT
1 GACCCGACCCGTT
*
1893459 TACCCGACCCGTT
1 GACCCGACCCGTT
1893472 GACCCGACCCGTT
1 GACCCGACCCGTT
1893485 GACCCG
1 GACCCG
1893491 TTGACCGTCG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.16, C:0.45, G:0.22, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:1894805 original size:18 final size:18
Alignment explanation
Indices: 1894779--1894813 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1894769 TCGAAAGGAC
*
1894779 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
1894797 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
1894814 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:1898588 original size:15 final size:15
Alignment explanation
Indices: 1898568--1898598 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1898558 ACCCGACCCA
1898568 TTGACCCGTTGACCG
1 TTGACCCGTTGACCG
1898583 TTGACCCGTTGACCG
1 TTGACCCGTTGACCG
1898598 T
1 T
1898599 CGTTGACCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.32, G:0.26, T:0.29
Consensus pattern (15 bp):
TTGACCCGTTGACCG
Found at i:1898604 original size:10 final size:8
Alignment explanation
Indices: 1898562--1898616 Score: 58
Period size: 8 Copynumber: 6.5 Consensus size: 8
1898552 CCGTTTACCC
*
1898562 GACCCATT
1 GACCCGTT
1898570 GACCCGTT
1 GACCCGTT
1898578 GA-CCGTT
1 GACCCGTT
1898585 GACCCGTT
1 GACCCGTT
1898593 GACCGTCGTT
1 GACC--CGTT
1898603 GACCACTGTT
1 GACC-C-GTT
1898613 GACC
1 GACC
1898617 AAAACTTTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
7 7 0.17
8 18 0.44
9 1 0.02
10 15 0.37
ACGTcount: A:0.16, C:0.35, G:0.24, T:0.25
Consensus pattern (8 bp):
GACCCGTT
Found at i:1899908 original size:17 final size:17
Alignment explanation
Indices: 1899883--1899916 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1899873 TCGAAATAAC
*
1899883 TGAAGTAAATGATAAGA
1 TGAAGTAAATAATAAGA
*
1899900 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
1899917 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.18, T:0.26
Consensus pattern (17 bp):
TGAAGTAAATAATAAGA
Found at i:1905318 original size:22 final size:21
Alignment explanation
Indices: 1905291--1905370 Score: 65
Period size: 23 Copynumber: 3.7 Consensus size: 21
1905281 TTTAGTGCAG
1905291 AGGGAATCGATACCCCCTTGA
1 AGGGAATCGATACCCCCTTGA
*
1905312 AGGGGAA-CTGATTCCCCCTTTGA
1 A-GGGAATC-GATACCCCC-TTGA
* * *
1905335 ATGGGAACCGATTCCCTCCTCG-
1 A-GGGAATCGATACCC-CCTTGA
1905357 AGGGAATCGATACC
1 AGGGAATCGATACC
1905371 TCCCACGGGT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
21 13 0.27
22 14 0.29
23 19 0.39
24 3 0.06
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.21
Consensus pattern (21 bp):
AGGGAATCGATACCCCCTTGA
Found at i:1905334 original size:23 final size:22
Alignment explanation
Indices: 1905292--1905350 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
1905282 TTAGTGCAGA
* *
1905292 GGGAATCGATACCCCCTTGAAG
1 GGGAACCGATTCCCCCTTGAAG
* *
1905314 GGGAACTGATTCCCCCTTTGAAT
1 GGGAACCGATTCCCCC-TTGAAG
1905337 GGGAACCGATTCCC
1 GGGAACCGATTCCC
1905351 TCCTCGAGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
22 13 0.42
23 18 0.58
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (22 bp):
GGGAACCGATTCCCCCTTGAAG
Found at i:1907612 original size:78 final size:78
Alignment explanation
Indices: 1907507--1907662 Score: 312
Period size: 78 Copynumber: 2.0 Consensus size: 78
1907497 GATTCCCCCC
1907507 AAGGGGGTACCGATTCCCCCTATTTAACGGTCAAAATATTTGAATTTTACACTTAGGGAACCGAT
1 AAGGGGGTACCGATTCCCCCTATTTAACGGTCAAAATATTTGAATTTTACACTTAGGGAACCGAT
1907572 TCCCCATGAGGGG
66 TCCCCATGAGGGG
1907585 AAGGGGGTACCGATTCCCCCTATTTAACGGTCAAAATATTTGAATTTTACACTTAGGGAACCGAT
1 AAGGGGGTACCGATTCCCCCTATTTAACGGTCAAAATATTTGAATTTTACACTTAGGGAACCGAT
1907650 TCCCCATGAGGGG
66 TCCCCATGAGGGG
1907663 GTATCGATTC
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (78 bp):
AAGGGGGTACCGATTCCCCCTATTTAACGGTCAAAATATTTGAATTTTACACTTAGGGAACCGAT
TCCCCATGAGGGG
Found at i:1909173 original size:11 final size:12
Alignment explanation
Indices: 1909152--1909200 Score: 52
Period size: 11 Copynumber: 4.4 Consensus size: 12
1909142 TACTTTCTCA
1909152 TAATT-TTTA-T
1 TAATTATTTATT
1909162 TAATTATTTA-T
1 TAATTATTTATT
*
1909173 TATTTA-TTATT
1 TAATTATTTATT
*
1909184 TCATTATTTATT
1 TAATTATTTATT
1909196 TAATT
1 TAATT
1909201 TCATTATTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 8 0.25
11 15 0.47
12 9 0.28
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (12 bp):
TAATTATTTATT
Found at i:1909174 original size:7 final size:7
Alignment explanation
Indices: 1909154--1909209 Score: 60
Period size: 7 Copynumber: 7.6 Consensus size: 7
1909144 CTTTCTCATA
1909154 ATTT-TT
1 ATTTATT
*
1909160 ATTAATT
1 ATTTATT
1909167 ATTTATT
1 ATTTATT
1909174 ATTTATT
1 ATTTATT
1909181 ATTTCATT
1 ATTT-ATT
1909189 ATTTATTT
1 ATTTA-TT
1909197 AATTTCATT
1 -ATTT-ATT
1909206 ATTT
1 ATTT
1909210 CTAAATCCCA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
6 3 0.07
7 20 0.47
8 13 0.30
9 6 0.14
10 1 0.02
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.68
Consensus pattern (7 bp):
ATTTATT
Found at i:1909747 original size:31 final size:31
Alignment explanation
Indices: 1909712--1909825 Score: 106
Period size: 32 Copynumber: 3.6 Consensus size: 31
1909702 AATACTTAAC
1909712 AAATTTATCAAACTATTATAAAGTAATTCTT
1 AAATTTATCAAACTATTATAAAGTAATTCTT
* * * *
1909743 AAATTTTATCAAATTGTTGTAAACGTAA-T-TA
1 AAA-TTTATCAAACTATTATAAA-GTAATTCTT
* * * *
1909774 AAATTTATAAAACTATTATAAAATAGTCCTT
1 AAATTTATCAAACTATTATAAAGTAATTCTT
*
1909805 AAATTTATCAAAACTTTTATA
1 AAATTTATC-AAACTATTATA
1909826 TTTATTATAG
Statistics
Matches: 64, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
29 2 0.03
30 15 0.23
31 16 0.25
32 27 0.42
33 4 0.06
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (31 bp):
AAATTTATCAAACTATTATAAAGTAATTCTT
Found at i:1911308 original size:25 final size:25
Alignment explanation
Indices: 1911262--1911309 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
1911252 TCCAATATTT
* *
1911262 TTTTATTTTTTTATCTATTTTAACC
1 TTTTATTTTTTTATCAAATTTAACC
*
1911287 TTTTATTTTTTTTTCAAATTTAA
1 TTTTATTTTTTTATCAAATTTAA
1911310 TTTTTTTACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTTATTTTTTTATCAAATTTAACC
Found at i:1911315 original size:25 final size:25
Alignment explanation
Indices: 1911260--1911315 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
1911250 CCTCCAATAT
* *
1911260 TTTTTTATTTTTTTATCTATTTTAA
1 TTTTTTATTTTTTTATCAAATTTAA
** *
1911285 CCTTTTATTTTTTTTTCAAATTTAA
1 TTTTTTATTTTTTTATCAAATTTAA
1911310 TTTTTT
1 TTTTTT
1911316 TACCAATTAT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTTTTATTTTTTTATCAAATTTAA
Found at i:1911973 original size:13 final size:13
Alignment explanation
Indices: 1911955--1911980 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1911945 ATTCAAAAGT
1911955 CAAGGATCAATAA
1 CAAGGATCAATAA
1911968 CAAGGATCAATAA
1 CAAGGATCAATAA
1911981 TAATAATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (13 bp):
CAAGGATCAATAA
Found at i:1911984 original size:3 final size:3
Alignment explanation
Indices: 1911976--1912057 Score: 157
Period size: 3 Copynumber: 27.7 Consensus size: 3
1911966 AACAAGGATC
1911976 AAT AAT AAT AAT AAT 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
1912024 AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1912058 AAAAGCTAAA
Statistics
Matches: 78, Mismatches: 0, Indels: 2
0.98 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 76 0.97
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1919339 original size:21 final size:21
Alignment explanation
Indices: 1919310--1919361 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
1919300 CACTTGACTA
1919310 GTATCGATACTATGCTTCATG
1 GTATCGATACTATGCTTCATG
*
1919331 GTATAGATACTATGCTTCATG
1 GTATCGATACTATGCTTCATG
1919352 GTATCGATAC
1 GTATCGATAC
1919362 CACCGTGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (21 bp):
GTATCGATACTATGCTTCATG
Found at i:1923149 original size:16 final size:16
Alignment explanation
Indices: 1923104--1923152 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
1923094 CAGACCCAAA
1923104 CCAAACCAACCTAAAC
1 CCAAACCAACCTAAAC
*
1923120 CCAAA-TAA---AAAC
1 CCAAACCAACCTAAAC
1923132 CCAAACCAACCTAAAC
1 CCAAACCAACCTAAAC
1923148 CCAAA
1 CCAAA
1923153 TAAGACCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
12 9 0.33
13 2 0.07
15 2 0.07
16 14 0.52
ACGTcount: A:0.55, C:0.39, G:0.00, T:0.06
Consensus pattern (16 bp):
CCAAACCAACCTAAAC
Found at i:1923166 original size:28 final size:28
Alignment explanation
Indices: 1923104--1923163 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
1923094 CAGACCCAAA
1923104 CCAAACCAACCTAAACCCAAATAAAAAC
1 CCAAACCAACCTAAACCCAAATAAAAAC
*
1923132 CCAAACCAACCTAAACCCAAAT-AAGAC
1 CCAAACCAACCTAAACCCAAATAAAAAC
1923159 CCAAA
1 CCAAA
1923164 ACCCAACTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 9 0.29
28 22 0.71
ACGTcount: A:0.55, C:0.37, G:0.02, T:0.07
Consensus pattern (28 bp):
CCAAACCAACCTAAACCCAAATAAAAAC
Found at i:1926756 original size:21 final size:23
Alignment explanation
Indices: 1926730--1926790 Score: 81
Period size: 21 Copynumber: 2.7 Consensus size: 23
1926720 GAAATGATTC
1926730 AAAAATAAAAAAAAC-TTTC-TT
1 AAAAATAAAAAAAACATTTCGTT
1926751 AAAAATAAAAAAAACATTTTCGTT
1 AAAAATAAAAAAAACA-TTTCGTT
*
1926775 TAAAATAGAAAAAAAC
1 AAAAATA-AAAAAAAC
1926791 GCTACGACAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
21 15 0.43
23 4 0.11
24 8 0.23
25 8 0.23
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.25
Consensus pattern (23 bp):
AAAAATAAAAAAAACATTTCGTT
Found at i:1927285 original size:20 final size:21
Alignment explanation
Indices: 1927132--1927286 Score: 79
Period size: 21 Copynumber: 7.5 Consensus size: 21
1927122 ATTATGACTA
*
1927132 TCGCAATGCGATTTTCCA-ATT
1 TCGCAATGCGATTTT-CATAAT
** **
1927153 TCGCGTTGCGATTTTCCCAAT
1 TCGCAATGCGATTTTCATAAT
** *
1927174 TCGCAATGCGAATTTGGA-AAA
1 TCGCAATGCG-ATTTTCATAAT
** *
1927195 TCGCAATGCGATACTGACT-A-
1 TCGCAATGCGATTTTCA-TAAT
* *
1927215 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGATTTTCATAAT
* * *
1927236 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGATTTTCATAAT
**
1927256 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
1927277 T-GCAATGCGA
1 TCGCAATGCGA
1927287 ATACGTAAAT
Statistics
Matches: 100, Mismatches: 27, Indels: 15
0.70 0.19 0.11
Matches are distributed among these distances:
19 1 0.01
20 42 0.42
21 53 0.53
22 4 0.04
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCATAAT
Found at i:1927301 original size:20 final size:20
Alignment explanation
Indices: 1927278--1927387 Score: 105
Period size: 20 Copynumber: 5.5 Consensus size: 20
1927268 TTTCATAATT
1927278 GCAATGCGAATACGTAAATC
1 GCAATGCGAATACGTAAATC
* * *
1927298 GCAACGCGATTAAGTAAATC
1 GCAATGCGAATACGTAAATC
* * * *
1927318 ACAATGTGAATTAGGAAAATC
1 GCAATGCGAA-TACGTAAATC
*
1927339 GCAATACGAATACGTAAATC
1 GCAATGCGAATACGTAAATC
* *
1927359 GCAATGCGAAT-CTTACTATC
1 GCAATGCGAATACGTA-AATC
1927379 GCAATGCGA
1 GCAATGCGA
1927388 TTTACATAGC
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
19 3 0.04
20 53 0.75
21 15 0.21
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (20 bp):
GCAATGCGAATACGTAAATC
Found at i:1927947 original size:19 final size:19
Alignment explanation
Indices: 1927909--1927975 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
1927899 TTCGAGAATG
1927909 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
1927929 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
1927948 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
1927967 AAAATCGCA
1 AAAATCGCA
1927976 TTGCGATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 30 0.73
20 11 0.27
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:1928022 original size:33 final size:33
Alignment explanation
Indices: 1927985--1928105 Score: 170
Period size: 33 Copynumber: 3.6 Consensus size: 33
1927975 ATTGCGATTT
**
1927985 TCATTTCGCGTTGCGATTCTCTCGTTGAGATTT
1 TCATTTCGCGTTGCGATTCTCTCGTTGAGATAG
* * *
1928018 TCATTTCGCGTTGCAATTCTCTCATTGTGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTTGAGATAG
*
1928051 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTTGAGATAG
*
1928084 TCATTTCCGCATTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
1928106 ATTATCTCGT
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
33 64 0.82
34 14 0.18
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTTGAGATAG
Found at i:1928107 original size:20 final size:19
Alignment explanation
Indices: 1928070--1928130 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
1928060 GTTGCGATTC
**
1928070 TCTCGTTGCGATAGTCATT
1 TCTCGTTGCGATTCTCATT
1928089 TC-CGCATTGCGATTCTCATT
1 TCTCG--TTGCGATTCTCATT
*
1928109 ATCTCGTTGCGATTTTCATT
1 -TCTCGTTGCGATTCTCATT
1928129 TC
1 TC
1928131 AACCAAAAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
18 2 0.06
19 4 0.11
20 25 0.71
21 2 0.06
22 2 0.06
ACGTcount: A:0.15, C:0.25, G:0.16, T:0.44
Consensus pattern (19 bp):
TCTCGTTGCGATTCTCATT
Found at i:1928586 original size:41 final size:42
Alignment explanation
Indices: 1928532--1928623 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
1928522 CCTCTTCAAC
* *
1928532 GATGACAGTGGCCTCTTGAACG-GTGGGGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
* *
1928573 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
*
1928615 AATGACAGG
1 GATGACAGG
1928624 TGAGTCGGGC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 20 0.45
42 24 0.55
ACGTcount: A:0.22, C:0.15, G:0.41, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:1928986 original size:20 final size:20
Alignment explanation
Indices: 1928961--1929033 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
1928951 GAAGAATAGT
*
1928961 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACACGAAAA
*
1928981 TTACTTTCGCAACGCGAAAA
1 TTACTTTCGCAACACGAAAA
* * * *
1929001 TGACTATCGCAACGCGGAAA
1 TTACTTTCGCAACACGAAAA
* *
1929021 TGACTATCGCAAC
1 TTACTTTCGCAAC
1929034 GCGGAAATGG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.22
Consensus pattern (20 bp):
TTACTTTCGCAACACGAAAA
Found at i:1929011 original size:40 final size:40
Alignment explanation
Indices: 1928967--1929052 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
1928957 TAGTTTACTT
* *
1928967 TCGCAACAC-GAAACTTACTTTCGCAACGCGAAAATGACTA
1 TCGCAACACGGAAA-TGACTATCGCAACGCGAAAATGACTA
* * *
1929007 TCGCAACGCGGAAATGACTATCGCAACGCGGAAATGGCTA
1 TCGCAACACGGAAATGACTATCGCAACGCGAAAATGACTA
1929047 TCGCAA
1 TCGCAA
1929053 TGCGAAATGA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 36 0.90
41 4 0.10
ACGTcount: A:0.35, C:0.27, G:0.21, T:0.17
Consensus pattern (40 bp):
TCGCAACACGGAAATGACTATCGCAACGCGAAAATGACTA
Found at i:1929034 original size:20 final size:20
Alignment explanation
Indices: 1928987--1929073 Score: 122
Period size: 20 Copynumber: 4.4 Consensus size: 20
1928977 AAACTTACTT
*
1928987 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
1929007 TCGCAACGCGGAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
1929027 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
1929047 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
1929066 TCGCAACG
1 TCGCAACG
1929074 ACAAAATCGC
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
19 14 0.23
20 46 0.77
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:1929081 original size:14 final size:13
Alignment explanation
Indices: 1929062--1929092 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
1929052 ATGCGAAATG
1929062 AAAATCGCAACGAC
1 AAAATCGCAACG-C
1929076 AAAATCGCAACGC
1 AAAATCGCAACGC
1929089 AAAA
1 AAAA
1929093 CACAAATCGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.55, C:0.26, G:0.13, T:0.06
Consensus pattern (13 bp):
AAAATCGCAACGC
Found at i:1929121 original size:19 final size:19
Alignment explanation
Indices: 1929099--1929165 Score: 81
Period size: 19 Copynumber: 3.8 Consensus size: 19
1929089 AAAACACAAA
1929099 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
1929118 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
1929134 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1929151 TCGCATTGCGATTTT
1 TCGCATTGCGATTTT
1929166 GTCGTTGCGA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 6 0.15
15 3 0.08
16 4 0.10
17 4 0.10
18 3 0.08
19 20 0.50
ACGTcount: A:0.12, C:0.19, G:0.21, T:0.48
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1929140 original size:14 final size:14
Alignment explanation
Indices: 1929121--1929176 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
1929111 TTTCATTTCG
1929121 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
1929135 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
1929152 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
1929168 CGTTGCGAT
1 CGTTGCGAT
1929177 AGCCATTTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 15 0.43
15 3 0.09
16 4 0.11
17 4 0.11
18 3 0.09
19 6 0.17
ACGTcount: A:0.11, C:0.18, G:0.25, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1929146 original size:33 final size:33
Alignment explanation
Indices: 1929104--1929196 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
1929094 ACAAATCGCA
1929104 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
1929137 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
***
1929170 TTGCGATAGCCATTTCCGCGTTGCGAT
1 TTGCGATTTTCATTT-CGCGTTGCGAT
1929197 AGTCATTTTC
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 44 0.81
34 10 0.19
ACGTcount: A:0.12, C:0.20, G:0.24, T:0.44
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:1929191 original size:20 final size:20
Alignment explanation
Indices: 1929168--1929215 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
1929158 GCGATTTTGT
1929168 CGTTGCGATAGCCATTTCCG
1 CGTTGCGATAGCCATTTCCG
* *
1929188 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGCCATTTCCG
*
1929208 TGTTGCGA
1 CGTTGCGA
1929216 AAGTAAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTCCG
Found at i:1929794 original size:17 final size:17
Alignment explanation
Indices: 1929749--1929794 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 17
1929739 GGGTCGATCA
1929749 AGTGATGGCTCTGGGTG
1 AGTGATGGCTCTGGGTG
*
1929766 AGGTGATAGCTCTGGGTG
1 A-GTGATGGCTCTGGGTG
1929784 AGTGATGGCTC
1 AGTGATGGCTC
1929795 CCGAAGTGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 10 0.38
18 16 0.62
ACGTcount: A:0.15, C:0.13, G:0.43, T:0.28
Consensus pattern (17 bp):
AGTGATGGCTCTGGGTG
Found at i:1931140 original size:20 final size:20
Alignment explanation
Indices: 1931115--1931157 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
1931105 AATAGTTTCT
1931115 GAAAATGAAAATCACAACAC
1 GAAAATGAAAATCACAACAC
* *
1931135 GAAAATGAAAATCGCAACGC
1 GAAAATGAAAATCACAACAC
1931155 GAA
1 GAA
1931158 TTTGACTATC
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:0.56, C:0.19, G:0.16, T:0.09
Consensus pattern (20 bp):
GAAAATGAAAATCACAACAC
Found at i:1931466 original size:22 final size:22
Alignment explanation
Indices: 1931436--1931479 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1931426 GATGGAGATA
*
1931436 GACGGATTTCGCCGGAGATGGG
1 GACGAATTTCGCCGGAGATGGG
*
1931458 GACGAATTTCGTCGGAGATGGG
1 GACGAATTTCGCCGGAGATGGG
1931480 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGAATTTCGCCGGAGATGGG
Found at i:1931697 original size:20 final size:20
Alignment explanation
Indices: 1931672--1931738 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
1931662 GTATTATCTC
*
1931672 GTTGCGAAAGTCAGTATTGA
1 GTTGCGAAAGTCAGTATCGA
* *
1931692 GTTGCGAAATTAAGTATCGA
1 GTTGCGAAAGTCAGTATCGA
*
1931712 GTTGCGAAAGTCAGTATCGC
1 GTTGCGAAAGTCAGTATCGA
1931732 GTTGCGA
1 GTTGCGA
1931739 TTTTGTATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.28
Consensus pattern (20 bp):
GTTGCGAAAGTCAGTATCGA
Found at i:1931765 original size:41 final size:41
Alignment explanation
Indices: 1931646--1931783 Score: 145
Period size: 41 Copynumber: 3.4 Consensus size: 41
1931636 CGCTTTGAAA
* * * *
1931646 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCGCATTGCGAAAGTCAGT
* * ** * *
1931687 ATTGAGTTGCGAAATT-AAGTATCG-AGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCGCA-TTGCGAAAGTCAGT
*
1931727 ATCGCGTTGCGATTTTGTATTATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCGCATTGCGAAAGTCAGT
*
1931768 ACCGCGTTGCGATTTT
1 ATCGCGTTGCGATTTT
1931784 CCAAATTCGC
Statistics
Matches: 76, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
40 31 0.41
41 44 0.58
42 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGATTTTGTATTATCGCATTGCGAAAGTCAGT
Found at i:1931780 original size:20 final size:20
Alignment explanation
Indices: 1931666--1931779 Score: 95
Period size: 20 Copynumber: 5.7 Consensus size: 20
1931656 GATTATGTAT
*
1931666 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* * * *
1931686 TATTGAGTTGCGAAATTAAG
1 TATCGCGTTGCGAAAGTCAG
*
1931706 TATCGAGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
** *
1931726 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
* *
1931747 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
1931767 TACCGCGTTGCGA
1 TATCGCGTTGCGA
1931780 TTTTCCAAAT
Statistics
Matches: 74, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
19 3 0.04
20 56 0.76
21 13 0.18
22 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:1931794 original size:41 final size:41
Alignment explanation
Indices: 1931713--1931843 Score: 140
Period size: 41 Copynumber: 3.2 Consensus size: 41
1931703 AAGTATCGAG
* ** *
1931713 TTGCGAAAGTCAGTATCGCGTTGCGATTTT-GTATTATCGCA
1 TTGCGATAGTCAGTATCGCGTTGCGATTTTCCAAAT-TCGCA
*
1931754 TTGCGATAGTCAGTACCGCGTTGCGATTTTCCAAATTCGCA
1 TTGCGATAGTCAGTATCGCGTTGCGATTTTCCAAATTCGCA
** * *
1931795 TTGCGATTTTCCA-AATTCGCATTGCGATTTTCCAAATTCGCA
1 TTGCGATAGT-CAGTA-TCGCGTTGCGATTTTCCAAATTCGCA
1931837 TTGCGAT
1 TTGCGAT
1931844 TTTCCAAATT
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
41 42 0.55
42 35 0.45
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (41 bp):
TTGCGATAGTCAGTATCGCGTTGCGATTTTCCAAATTCGCA
Found at i:1931800 original size:21 final size:21
Alignment explanation
Indices: 1931774--1931864 Score: 182
Period size: 21 Copynumber: 4.3 Consensus size: 21
1931764 CAGTACCGCG
1931774 TTGCGATTTTCCAAATTCGCA
1 TTGCGATTTTCCAAATTCGCA
1931795 TTGCGATTTTCCAAATTCGCA
1 TTGCGATTTTCCAAATTCGCA
1931816 TTGCGATTTTCCAAATTCGCA
1 TTGCGATTTTCCAAATTCGCA
1931837 TTGCGATTTTCCAAATTCGCA
1 TTGCGATTTTCCAAATTCGCA
1931858 TTGCGAT
1 TTGCGAT
1931865 AGTCATAATC
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 70 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (21 bp):
TTGCGATTTTCCAAATTCGCA
Found at i:1932300 original size:3 final size:3
Alignment explanation
Indices: 1932292--1932345 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
1932282 TATTTTAAAT
1932292 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1932340 TAA TAA
1 TAA TAA
1932346 ATTATCGAGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1933089 original size:5 final size:5
Alignment explanation
Indices: 1933079--1933113 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
1933069 ATACCCTATA
1933079 TGAGT TGAGT TGAGT TGAGT TGAGT TGAGT TGAGT
1 TGAGT TGAGT TGAGT TGAGT TGAGT TGAGT TGAGT
1933114 CGAGCTCAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (5 bp):
TGAGT
Found at i:1936551 original size:53 final size:53
Alignment explanation
Indices: 1936481--1936648 Score: 266
Period size: 53 Copynumber: 3.2 Consensus size: 53
1936471 TTGCACCTAC
* *
1936481 GTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGATGCACACATA
1 GTGCCGAAATGGTAATTCACAAACTTATTATGAATTCCATGGATGCAAACATA
* * *
1936534 GTGTCGAAATGGTAATTC-CTAAACTTATTATGAATTCCATGGATGTATACATA
1 GTGCCGAAATGGTAATTCAC-AAACTTATTATGAATTCCATGGATGCAAACATA
*
1936587 GTGCCAAAATGGTAATTCACAAACTTATTATGAATTCCATGGATGCAAACATA
1 GTGCCGAAATGGTAATTCACAAACTTATTATGAATTCCATGGATGCAAACATA
1936640 GTGCCGAAA
1 GTGCCGAAA
1936649 GTACATATAG
Statistics
Matches: 104, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
52 1 0.01
53 102 0.98
54 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (53 bp):
GTGCCGAAATGGTAATTCACAAACTTATTATGAATTCCATGGATGCAAACATA
Found at i:1936840 original size:137 final size:137
Alignment explanation
Indices: 1936593--1936871 Score: 400
Period size: 137 Copynumber: 2.0 Consensus size: 137
1936583 CATAGTGCCA
* * * *
1936593 AAATGGTAATTCACAAACTTATTATGAATTCCATGGATGCAAACATAGTGCCGAAAGTACATATA
1 AAATGGTAATTCACAAACTCATAATGAATACAATGGATGCAAACATAGTGCCGAAAGTACATATA
* * *
1936658 GTACTGATACAAAAATGCAACATATTCATTAAACAAAATTGATCGATAACCTTTATACACAAATG
66 GTACTGATACAAAAATGCAACATATGCATTAAACAAAATTGATCGATAACCATCATACACAAATG
* *
1936723 TATGTTG
131 TATATCG
* *
1936730 AAATGGTAATTCACAAACTCATAATGAATACAATGGTTGCACATC-TAGTGCCGAAAGTACATAT
1 AAATGGTAATTCACAAACTCATAATGAATACAATGGATGCA-AACATAGTGCCGAAAGTACATAT
* * *
1936794 AGTACTGATACGAAAATGCAACATATGCTTTAAACAAAA-TGCATCGATAACCATCATATACAAA
65 AGTACTGATACAAAAATGCAACATATGCATTAAACAAAATTG-ATCGATAACCATCATACACAAA
1936858 TGTATATCG
129 TGTATATCG
1936867 AAATG
1 AAATG
1936872 CACCTATGAC
Statistics
Matches: 126, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
136 2 0.02
137 122 0.97
138 2 0.02
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.28
Consensus pattern (137 bp):
AAATGGTAATTCACAAACTCATAATGAATACAATGGATGCAAACATAGTGCCGAAAGTACATATA
GTACTGATACAAAAATGCAACATATGCATTAAACAAAATTGATCGATAACCATCATACACAAATG
TATATCG
Found at i:1943266 original size:53 final size:53
Alignment explanation
Indices: 1943198--1943311 Score: 192
Period size: 53 Copynumber: 2.2 Consensus size: 53
1943188 TGCACCTACA
* *
1943198 TGCCAAAATGGTAATTCACAAACTCATTATGAATTCCATGGATGCACACATAG
1 TGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGATACACACATAG
* *
1943251 TGCCGAAATGGTAATTCACAAACTTATTATGAATTCCATGGATACACATATAG
1 TGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGATACACACATAG
1943304 TGCCGAAA
1 TGCCGAAA
1943312 GTACATATAG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (53 bp):
TGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGATACACACATAG
Found at i:1943506 original size:137 final size:137
Alignment explanation
Indices: 1943254--1943508 Score: 393
Period size: 137 Copynumber: 1.9 Consensus size: 137
1943244 CACATAGTGC
* * * * ** *
1943254 CGAAATGGTAATTCACAAACTTATTATGAATTCCATGGATACACATATAGTGCCGAAAGTACATA
1 CGAAATGATAATTCAAAAACTCATTATGAATACCATGGATACACATATAGTGCAAAAAGTACACA
*
1943319 TAGTACTTATACGAAAATGCAACATATGCATTAAACAAAATCGATCGATAACCTTTATACACAAA
66 TAGTACTGATACGAAAATGCAACATATGCATTAAACAAAATCGATCGATAACCTTTATACACAAA
1943384 TGTATGT
131 TGTATGT
* * *
1943391 CGAAATGATAATTCAAAAACTCATTATGAATACCATGGTTGCACATCTAGTGCAAAAAGTACACA
1 CGAAATGATAATTCAAAAACTCATTATGAATACCATGGATACACATATAGTGCAAAAAGTACACA
* *
1943456 TAGTACTGATACGAAAATGCAACATATGCATTAAACAAAATTGATTGATAACC
66 TAGTACTGATACGAAAATGCAACATATGCATTAAACAAAATCGATCGATAACC
1943509 ATCATATACA
Statistics
Matches: 105, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
137 105 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (137 bp):
CGAAATGATAATTCAAAAACTCATTATGAATACCATGGATACACATATAGTGCAAAAAGTACACA
TAGTACTGATACGAAAATGCAACATATGCATTAAACAAAATCGATCGATAACCTTTATACACAAA
TGTATGT
Found at i:1949936 original size:53 final size:53
Alignment explanation
Indices: 1949867--1949976 Score: 202
Period size: 53 Copynumber: 2.1 Consensus size: 53
1949857 TGCACCTACA
*
1949867 TGCCTAAATGGTAATTCACAAACTTATTATGAATTCCAAGGATGCACACATAG
1 TGCCCAAATGGTAATTCACAAACTTATTATGAATTCCAAGGATGCACACATAG
*
1949920 TGCCCAAATGGTAATTCACAAACTTATTATGAATTCCATGGATGCACACATAG
1 TGCCCAAATGGTAATTCACAAACTTATTATGAATTCCAAGGATGCACACATAG
1949973 TGCC
1 TGCC
1949977 GAAAGTACAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.28
Consensus pattern (53 bp):
TGCCCAAATGGTAATTCACAAACTTATTATGAATTCCAAGGATGCACACATAG
Found at i:1950111 original size:137 final size:137
Alignment explanation
Indices: 1949925--1950177 Score: 391
Period size: 137 Copynumber: 1.8 Consensus size: 137
1949915 CATAGTGCCC
* * *
1949925 AAATGGTAATTCACAAACTTATTATGAATTCCATGGATGCACACATAGTGCCGAAAGTACATATA
1 AAATGGTAATTCACAAACTGATTATGAATACCATGGATGCACACATAGTGCCGAAAGTACACATA
*
1949990 GTACTTATACGAAAATGCAACATATGCATTAAACAAAATCGATCGATAACCTTTATACACAAATG
66 GTACTGATACGAAAATGCAACATATGCATTAAACAAAATCGATCGATAACCTTTATACACAAATG
1950055 TATGTCG
131 TATGTCG
* * * *
1950062 AAATGGTAGTTCAGAAACTGATTATGAATACCGTGGTTGCACATC-TAGTGCCGAAAGTACACAT
1 AAATGGTAATTCACAAACTGATTATGAATACCATGGATGCACA-CATAGTGCCGAAAGTACACAT
* * *
1950126 AGTACTGATACGAAAATGGACCATATGCATTAAACAAAATCGATTGATAACC
65 AGTACTGATACGAAAATGCAACATATGCATTAAACAAAATCGATCGATAACC
1950178 ATCATATACA
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
137 103 0.99
138 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.26
Consensus pattern (137 bp):
AAATGGTAATTCACAAACTGATTATGAATACCATGGATGCACACATAGTGCCGAAAGTACACATA
GTACTGATACGAAAATGCAACATATGCATTAAACAAAATCGATCGATAACCTTTATACACAAATG
TATGTCG
Found at i:1951130 original size:20 final size:21
Alignment explanation
Indices: 1951087--1951130 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
1951077 CAACTAACTT
** *
1951087 ACATCCATAAATCTCCTTATA
1 ACATCCATAAATCTCCAAAGA
1951108 ACATCCA-AAATCTCCAAAGA
1 ACATCCATAAATCTCCAAAGA
1951128 ACA
1 ACA
1951131 CTCAAAACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (21 bp):
ACATCCATAAATCTCCAAAGA
Found at i:1953935 original size:14 final size:15
Alignment explanation
Indices: 1953908--1953939 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1953898 TGATTTATGA
1953908 TTTAAGATTATAAAC
1 TTTAAGATTATAAAC
1953923 TTTAAGATT-TAAAC
1 TTTAAGATTATAAAC
1953937 TTT
1 TTT
1953940 GCATTTTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (15 bp):
TTTAAGATTATAAAC
Found at i:1954109 original size:14 final size:15
Alignment explanation
Indices: 1954070--1954109 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
1954060 ATAATAATCT
1954070 AATTTATATATCACA
1 AATTTATATATCACA
1954085 AATTTATTATATCA-A
1 AATTTA-TATATCACA
1954100 AATTTATATA
1 AATTTATATA
1954110 AACGGAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.17
15 13 0.54
16 7 0.29
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTATATATCACA
Found at i:1965386 original size:984 final size:983
Alignment explanation
Indices: 1963464--1966096 Score: 4553
Period size: 984 Copynumber: 2.7 Consensus size: 983
1963454 TTAGGATGTT
1963464 ACATAAGAGGATCTTACCCTAAACTTTTGACTATAAAACCTACATTTTTTT-TGGTAACTTTGAA
1 ACATAAGAGGATCTTACCCTAAACTTTTGACTATAAAACCTACATTTTTTTCTGGTAACTTTGAA
1963528 GCCAACACTAAAAAAAATCCTCTGGCCTTTTTTCTCTCTCACAACTACCCTTTCTTGTCTTTCTC
66 GCCAACACT-AAAAAAATCCTCTGGCCTTTTTTCTCTCTCACAACTACCCTTTCTTGTCTTTCTC
*
1963593 TTAACCAAACTACTCTGATCCCTCTCAACCCTTAGCCATCATGCTTTGGTGGTCGTTTCTCCATC
130 TTAACCAAACTACTCTGATCCCTCACAACCCTTAGCCATC-TGCTTTGGTGGTCGTTTCTCCATC
*
1963658 TAACCATCATCAATGGGTTTTAAGAACCCTAAACAACACCTAAACACGACCAACAGACCTTTAAA
194 CAACCATCATCAATGGGTTTTAAGAACCCTAAACAACACCTAAACACGACCAACAGACCTTTAAA
* *
1963723 ACTTCAATATACCCCCTAAACTCAAATATAAGTATAGAGATACCAAACAGAGCCATAAACACCCT
259 ACTTCAATATACCCCCTAAACTCAAATATAAGTCTAGAGATACCAAACAGAGCCAAAAACACCCT
*
1963788 AGATCTCTCGTGACCCTTCGATTCTTGAGATATGGTGATGGTCCTAACTTCGATGAGAAACTAAA
324 AGATCTCTCGTGACCCTTCGATTCTTGAGATCTGGTGATGGTCCTAACTTCGATGAGAAACTAAA
** * * * *
1963853 AGGACATAAATACATCTCTATAAGCTCTCTTTCTCTTCTTTTGGATGAAAAGAAACATTCATAAA
389 AGGACATAGGTACAACTCTCTAAGCTCTCTCTCTCTTCTTTTGGATCAAAAGAAACATTCATAAA
*
1963918 ATCCAAACTAAAAAGAGTAAAAACTGAAACAGTTACCTTAAGAAACAATTCTTCTATTATTCTTT
454 ATCCAAACTAAAAAGAGTAAAAACTGAAACAGTTACCTTAAGAAACATTTCTTCTATTATTCTTT
* *
1963983 TTCTGATTTATTTGATTTCATAATCATCCTCCTCTTTTATCAATCTCATTTCTTTTGGGTTTACA
519 TTCTGATTTATTTGATTTCAGAATCATCCTCCTCTTTTATCAA--TCATTTCTTTTGGGTTTATA
*
1964048 AACCCGATTACAAGGATACATGAGTAAAAGCCCTTATTTCCCCTAATTTTATGCATTTAATTTCT
582 AACCCGATTACAAGGATACATGAGTAAAAGCCCTCATTTCCCCTAATTTTATGCATTTAATTTCT
1964113 TCTATGGACGCTAATGGACGATTTAAAGCTTTACCTGAGGCCAAAATAATGCGGGTCATACCTGA
647 TCTATGGACGCTAATGGACGATTTAAAGCTTTACCTGAGGCCAAAATAATGCGGGTCATACCTGA
* *
1964178 GGATGCTTCACCACAATACCATATCGAATTTTTATTAACAATAATTAAAAAAGGATGATTGAAAC
712 GGATGCTTCACCAAAATACCATATCGAATTTTTATTAACAATAATTAAAAAAAGATGATTGAAAC
* * *
1964243 AAAATAAAAAAGTACTAAATTTGAAATAATAAAAAAAATAATAATGGTGACTAAATTAAAAAACA
777 AAAATAAAAAAGTACTAAATTTGAAACAATAAAAAAAAAAACAATGGTGACTAAATTAAAAAACA
**
1964308 TAATTCAAAGAATCAAATTTGAAAAAAAAAATTATTAACAGAATAAAAAGGGAAATTAACATAAT
842 TAACGCAAAGAATCAAATTTGAAAAAAAAAATTATTAACAGAATAAAAAGGGAAATTAACATAAT
* * * *
1964373 AGAATATCTAACTAGAAACAAATTTT-AAAAAATGGAACAAGTGACTTAAACGTAAAAGCATGGT
907 AGAATATCTAACTAGAAACAAATTTTAAAAAAATGGAACAAGTAACTTAAAAGTAAAAGAACGGT
1964437 AAATGTTGGGGG
972 AAATGTTGGGGG
1964449 ACATAAGAGGATCTTACCCTAAACTTTTGACTATAAAACCTACATTTTTTTCTGGTAACTTTGAA
1 ACATAAGAGGATCTTACCCTAAACTTTTGACTATAAAACCTACATTTTTTTCTGGTAACTTTGAA
* * * *
1964514 GCCAACAATAAAAAAATCCTCTAGCCTTTTTTATCTCTCACAACTA-TCTTTCTTGTCTTTCTCT
66 GCCAACACTAAAAAAATCCTCTGGCCTTTTTTCTCTCTCACAACTACCCTTTCTTGTCTTTCTCT
* *
1964578 TGACCAAACTACTCTGATCCCTCACAACCCTTAGCCATCGTGCTTTGGTGGTCGTTTATCCATCC
131 TAACCAAACTACTCTGATCCCTCACAACCCTTAGCCATC-TGCTTTGGTGGTCGTTTCTCCATCC
* * *
1964643 AACCATTATCAATGGGTTTTGAGAACCCTAAATAACACCTAAACACGACCAACAGACCTTTAAAA
195 AACCATCATCAATGGGTTTTAAGAACCCTAAACAACACCTAAACACGACCAACAGACCTTTAAAA
**
1964708 CTTCAATATACCCCCTAAACTCAAATATAAGTCTAGAGATACCAAACAGAGCCACGAACACCCTA
260 CTTCAATATACCCCCTAAACTCAAATATAAGTCTAGAGATACCAAACAGAGCCAAAAACACCCTA
*
1964773 GATATCTCGTGACCCTTCGATTCTTGAGATCTGGTGATGGTCCTAACTTCGATGAGAAACTAAAA
325 GATCTCTCGTGACCCTTCGATTCTTGAGATCTGGTGATGGTCCTAACTTCGATGAGAAACTAAAA
* *
1964838 GAACATAGGTACAACTCTCTAAACTCTCTCTCTCTTCTTTTGGATCAAAAGAAACATTCATAAAA
390 GGACATAGGTACAACTCTCTAAGCTCTCTCTCTCTTCTTTTGGATCAAAAGAAACATTCATAAAA
*
1964903 TCCAAACTAAAAAGAGTAAAAATTGAAACAGTTACCTTAAGAAACATTTCTTCTATTATTCTTTT
455 TCCAAACTAAAAAGAGTAAAAACTGAAACAGTTACCTTAAGAAACATTTCTTCTATTATTCTTTT
*
1964968 TCTGATTTATTTAATTTCAGAATCATCCTCCTCTTTTATCAATCATTTCTTTTGGGTTTATAAAC
520 TCTGATTTATTTGATTTCAGAATCATCCTCCTCTTTTATCAATCATTTCTTTTGGGTTTATAAAC
*
1965033 CCGATTATAAGGATACATGAGTAAAAGCCCTCATTTCCCCTAATTTTATGCATTTAATTTCTTCT
585 CCGATTACAAGGATACATGAGTAAAAGCCCTCATTTCCCCTAATTTTATGCATTTAATTTCTTCT
* * *
1965098 ATGGACGCTAATGGACGATTTAAAGTTTTACCTGAGGCCAAAATTATGTGGGTCATACCTGAGGA
650 ATGGACGCTAATGGACGATTTAAAGCTTTACCTGAGGCCAAAATAATGCGGGTCATACCTGAGGA
1965163 TGCTTCACCAAAATACCATATCGAATTTTTATTAACAATAATTAAAAAAAGATGATTGAAAACAA
715 TGCTTCACCAAAATACCATATCGAATTTTTATTAACAATAATTAAAAAAAGATGATTG-AAACAA
* *
1965228 AATAAAAAATTACTAAATTTGAAACAATAAAAAATAAAAAACCAATGGTGATTAAATTAAAAAAC
779 AATAAAAAAGTACTAAATTTGAAACAAT-AAAAA-AAAAAA-CAATGGTGACTAAATTAAAAAAC
* *
1965293 ATAACGCAAAGAATCAATTTTG-AAAAAAAAATTATTAACCGAATAAAAAGGGAAATTAACATAA
841 ATAACGCAAAGAATCAAATTTGAAAAAAAAAATTATTAACAGAATAAAAAGGGAAATTAACATAA
1965357 TAGAATATCTAACTAGAAACAAA-TTTAAAAAAATGGAACAAGTAACTTAAAAGTAAAAGAACGG
906 TAGAATATCTAACTAGAAACAAATTTTAAAAAAATGGAACAAGTAACTTAAAAGTAAAAGAACGG
1965421 TAAATGTTGGGGG
971 TAAATGTTGGGGG
1965434 ACATAAGAGGATCTTACCCTAAACTTTTGACTATAAAACCTACATTTTTTTCTGGTAACTTTGAA
1 ACATAAGAGGATCTTACCCTAAACTTTTGACTATAAAACCTACATTTTTTTCTGGTAACTTTGAA
1965499 GCCAACACTAAAAAAATCCTCTGGCC-TTTTTCTCTCTCACAACTACCCTTTCTTGTCTTTCTCT
66 GCCAACACTAAAAAAATCCTCTGGCCTTTTTTCTCTCTCACAACTACCCTTTCTTGTCTTTCTCT
* * *
1965563 TTACCAAACTACTATGATCTCTCACAACCCTTAGCCATCTGCTTTGGTGGTCGTTTCTCCATCCA
131 TAACCAAACTACTCTGATCCCTCACAACCCTTAGCCATCTGCTTTGGTGGTCGTTTCTCCATCCA
* * * *
1965628 ACCACCATCAACGGGTTTTTAGAACTCTAAACAACACCTAAACACGACCAACAGACCTTTAAAAC
196 ACCATCATCAATGGGTTTTAAGAACCCTAAACAACACCTAAACACGACCAACAGACCTTTAAAAC
*
1965693 TTCAATATACCCCCTAAACTCAAATATAAGTCTAGAAATACCAAACAGAGCCAAAAACACCCTAG
261 TTCAATATACCCCCTAAACTCAAATATAAGTCTAGAGATACCAAACAGAGCCAAAAACACCCTAG
* *
1965758 ATCTCTCGTGAACCTTCGATTCTTGAGATCTGGTGATGGTCCTATCTTCGATGAGAAACTAAAAG
326 ATCTCTCGTGACCCTTCGATTCTTGAGATCTGGTGATGGTCCTAACTTCGATGAGAAACTAAAAG
1965823 GACATAGGTACAACTCTCTAAGCTCTCTCTCT-TT-TTTTGGATCAAAAGAAACATTCATAAAAT
391 GACATAGGTACAACTCTCTAAGCTCTCTCTCTCTTCTTTTGGATCAAAAGAAACATTCATAAAAT
*
1965886 CCAAACTAAAAAGAGTAAAAACTGAAACAGTTACCTTAGGAAACATTTCTTCTATTATTCTTTTT
456 CCAAACTAAAAAGAGTAAAAACTGAAACAGTTACCTTAAGAAACATTTCTTCTATTATTCTTTTT
*
1965951 CTGATTTATTTGATTTCAGAATTATCCTCCTCTTTTATCAATCTTATTTCTTTTGGGTTTATAAA
521 CTGATTTATTTGATTTCAGAATCATCCTCCTCTTTTATCAATC--ATTTCTTTTGGGTTTATAAA
1966016 CCCGATTACAAGGATACATGAGTAAAAGCCCTCATTTCCCCTAATTTTATGCATTTAATTTCTTC
584 CCCGATTACAAGGATACATGAGTAAAAGCCCTCATTTCCCCTAATTTTATGCATTTAATTTCTTC
1966081 TATGGACGCTAATGGA
649 TATGGACGCTAATGGA
1966097 GTGATATGAT
Statistics
Matches: 1562, Mismatches: 77, Indels: 19
0.94 0.05 0.01
Matches are distributed among these distances:
982 336 0.22
983 34 0.02
984 788 0.50
985 343 0.22
986 61 0.04
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (983 bp):
ACATAAGAGGATCTTACCCTAAACTTTTGACTATAAAACCTACATTTTTTTCTGGTAACTTTGAA
GCCAACACTAAAAAAATCCTCTGGCCTTTTTTCTCTCTCACAACTACCCTTTCTTGTCTTTCTCT
TAACCAAACTACTCTGATCCCTCACAACCCTTAGCCATCTGCTTTGGTGGTCGTTTCTCCATCCA
ACCATCATCAATGGGTTTTAAGAACCCTAAACAACACCTAAACACGACCAACAGACCTTTAAAAC
TTCAATATACCCCCTAAACTCAAATATAAGTCTAGAGATACCAAACAGAGCCAAAAACACCCTAG
ATCTCTCGTGACCCTTCGATTCTTGAGATCTGGTGATGGTCCTAACTTCGATGAGAAACTAAAAG
GACATAGGTACAACTCTCTAAGCTCTCTCTCTCTTCTTTTGGATCAAAAGAAACATTCATAAAAT
CCAAACTAAAAAGAGTAAAAACTGAAACAGTTACCTTAAGAAACATTTCTTCTATTATTCTTTTT
CTGATTTATTTGATTTCAGAATCATCCTCCTCTTTTATCAATCATTTCTTTTGGGTTTATAAACC
CGATTACAAGGATACATGAGTAAAAGCCCTCATTTCCCCTAATTTTATGCATTTAATTTCTTCTA
TGGACGCTAATGGACGATTTAAAGCTTTACCTGAGGCCAAAATAATGCGGGTCATACCTGAGGAT
GCTTCACCAAAATACCATATCGAATTTTTATTAACAATAATTAAAAAAAGATGATTGAAACAAAA
TAAAAAAGTACTAAATTTGAAACAATAAAAAAAAAAACAATGGTGACTAAATTAAAAAACATAAC
GCAAAGAATCAAATTTGAAAAAAAAAATTATTAACAGAATAAAAAGGGAAATTAACATAATAGAA
TATCTAACTAGAAACAAATTTTAAAAAAATGGAACAAGTAACTTAAAAGTAAAAGAACGGTAAAT
GTTGGGGG
Done.