Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold31
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: 2401195
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 123915 characters in sequence are not A, C, G, or T
File 12 of 16
Found at i:1800796 original size:25 final size:24
Alignment explanation
Indices: 1800762--1800821 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 24
1800752 ATTTAAAACA
1800762 TATATTTATATCATATAATATTTAT
1 TATATTTATATCATATAATA-TTAT
* * *
1800787 TATATTTATATTATTTTATATTAT
1 TATATTTATATCATATAATATTAT
1800811 TATATTATATA
1 TATATT-TATA
1800822 ATTATATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 10 0.32
25 21 0.68
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TATATTTATATCATATAATATTAT
Found at i:1800829 original size:18 final size:18
Alignment explanation
Indices: 1800761--1800829 Score: 50
Period size: 18 Copynumber: 3.7 Consensus size: 18
1800751 AATTTAAAAC
* * *
1800761 ATATATTTATATCATATA
1 ATATAATTATATTATATT
*
1800779 ATATTTATTATATTTATATT
1 ATA-TAATTATA-TTATATT
* *
1800799 ATTTTA-TATTATTATATT
1 ATATAATTA-TATTATATT
1800817 ATATAATTATATT
1 ATATAATTATATT
1800830 TAATATTATC
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
18 20 0.50
19 13 0.32
20 7 0.17
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (18 bp):
ATATAATTATATTATATT
Found at i:1801007 original size:22 final size:22
Alignment explanation
Indices: 1800984--1801035 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
1800974 TATGATTTTA
* *
1800984 TTATATTATTTTTATATTAATAT
1 TTATATAATTTATA-ATTAATAT
1801007 TTATATAATTTATAATTAA-AT
1 TTATATAATTTATAATTAATAT
*
1801028 TTAAATAA
1 TTATATAA
1801036 AAATATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 9 0.35
22 5 0.19
23 12 0.46
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTATATAATTTATAATTAATAT
Found at i:1801020 original size:21 final size:21
Alignment explanation
Indices: 1800994--1801035 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1800984 TTATATTATT
*
1800994 TTTAT-ATTAATATTTATATAA
1 TTTATAATTAA-ATTTAAATAA
1801015 TTTATAATTAAATTTAAATAA
1 TTTATAATTAAATTTAAATAA
1801036 AAATATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTATAATTAAATTTAAATAA
Found at i:1801818 original size:36 final size:36
Alignment explanation
Indices: 1801769--1801840 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
1801759 ACGAATAAAT
*
1801769 TTTGAAAACTTGTTTATTAAAAAAATTAAACTCGAA
1 TTTGAAAACTTGTTTATTAAAAAAATCAAACTCGAA
*
1801805 TTTGAAAATTTGTTTATTAAAAAAATCAAACTCGAA
1 TTTGAAAACTTGTTTATTAAAAAAATCAAACTCGAA
1801841 CTCATAGTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.36
Consensus pattern (36 bp):
TTTGAAAACTTGTTTATTAAAAAAATCAAACTCGAA
Found at i:1802476 original size:36 final size:36
Alignment explanation
Indices: 1802436--1802509 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
1802426 ATCTGTTCAT
1802436 TCCAACTTAGTTCTTTTACAATCTAACAACACTTTG
1 TCCAACTTAGTTCTTTTACAATCTAACAACACTTTG
*
1802472 TCCAACTTAGTTCTTTTACAATCTAACAACATTTTG
1 TCCAACTTAGTTCTTTTACAATCTAACAACACTTTG
1802508 TC
1 TC
1802510 TAAAATCAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.30, C:0.24, G:0.05, T:0.41
Consensus pattern (36 bp):
TCCAACTTAGTTCTTTTACAATCTAACAACACTTTG
Found at i:1803351 original size:18 final size:18
Alignment explanation
Indices: 1803316--1803358 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
1803306 AATCATTTAT
1803316 TTTAT-AATTTAAATTAA
1 TTTATAAATTTAAATTAA
1803333 TTTATAAATATTAAA-TAA
1 TTTATAAAT-TTAAATTAA
*
1803351 TCTATAAA
1 TTTATAAA
1803359 ATGTAACTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 5 0.22
18 13 0.57
19 5 0.22
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTATAAATTTAAATTAA
Found at i:1803418 original size:150 final size:152
Alignment explanation
Indices: 1803264--1803537 Score: 324
Period size: 150 Copynumber: 1.8 Consensus size: 152
1803254 CTTTCCTTTT
* * * *
1803264 TTTTTCA-TGTTATAATCTTTATAAATTAATTAAAAAA-TAAATAATCATTTATTTTATAATTTA
1 TTTTTCATTGTTATAATCTTTATAAA-TAAATAAAAAACTAAATAAT-AATTATATCATAATTTA
* **
1803327 AATTA-ATTTATAAATATTAAATAATCTA-T-AAAATGTAACTTATTAATTTACATTAATTTTCT
64 AATTATATTTATAAA-ATTAAATAATCTATTAAAAATATAAAATATTAATTTACATTAATTTTCT
1803389 AAAATTTTTATTTCTTCTTATTATA
128 AAAATTTTTATTTCTTCTTATTATA
* ** * * *
1803414 TTTTTCATTTTTATCCTCTTTATCAATAAATAAAAAACTAAGTAATAATTATATCGTAATTTAAA
1 TTTTTCATTGTTATAATCTTTATAAATAAATAAAAAACTAAATAATAATTATATCATAATTTAAA
* * * * *
1803479 TTATTTTTATAAAATTGAATAATTTATTAAAAATATAAAATATTTATTTTCATTAATTT
66 TTATATTTATAAAATTAAATAATCTATTAAAAATATAAAATATTAATTTACATTAATTT
1803538 AAATTATAAT
Statistics
Matches: 101, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
150 46 0.46
151 30 0.30
152 25 0.25
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (152 bp):
TTTTTCATTGTTATAATCTTTATAAATAAATAAAAAACTAAATAATAATTATATCATAATTTAAA
TTATATTTATAAAATTAAATAATCTATTAAAAATATAAAATATTAATTTACATTAATTTTCTAAA
ATTTTTATTTCTTCTTATTATA
Found at i:1803697 original size:18 final size:18
Alignment explanation
Indices: 1803661--1803698 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
1803651 AAATAAATAT
*
1803661 TTTTATAAATTACTTAAA
1 TTTTATAAATTACTGAAA
1803679 TTTTA-AAATTAACTGAAA
1 TTTTATAAATT-ACTGAAA
1803697 TT
1 TT
1803699 ATAATATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (18 bp):
TTTTATAAATTACTGAAA
Found at i:1804718 original size:17 final size:17
Alignment explanation
Indices: 1804690--1804722 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1804680 AATTTAAATA
*
1804690 TTAAATATTTATATTTT
1 TTAAAAATTTATATTTT
1804707 TTAAAAATTTATATTT
1 TTAAAAATTTATATTT
1804723 GCATATAAAT
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTAAAAATTTATATTTT
Found at i:1807998 original size:50 final size:50
Alignment explanation
Indices: 1807905--1807999 Score: 113
Period size: 49 Copynumber: 1.9 Consensus size: 50
1807895 CATATTATTT
**
1807905 ATATTTATTGTTTATAATTAATAAAAAATTTAAAAATTATTTTTATAGTA
1 ATATTTATTGTTTATAATTAATAAAAAATTTAAAAAAAATTTTTATAGTA
* * *
1807955 ATATTTA-TGTTTATATTTTATAATTAAA-TTAAAAAAAACTTTTTA
1 ATATTTATTGTTTATAATTAATAA-AAAATTTAAAAAAAA-TTTTTA
1808000 ATTATTAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
49 22 0.58
50 16 0.42
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (50 bp):
ATATTTATTGTTTATAATTAATAAAAAATTTAAAAAAAATTTTTATAGTA
Found at i:1809867 original size:20 final size:21
Alignment explanation
Indices: 1809819--1809869 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
1809809 TTCTATGATT
* *
1809819 TGTATCAATACAATTAGTGAA
1 TGTATCGATACAATAAGTGAA
1809840 TGTA-CGATAC-ATAAGTGAA
1 TGTATCGATACAATAAGTGAA
1809859 TGTATCGATAC
1 TGTATCGATAC
1809870 GAGACCATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 12 0.44
20 11 0.41
21 4 0.15
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (21 bp):
TGTATCGATACAATAAGTGAA
Found at i:1811976 original size:21 final size:21
Alignment explanation
Indices: 1811935--1811978 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1811925 CTCTCCTTTA
* *
1811935 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1811956 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1811977 TC
1 TC
1811979 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1813803 original size:13 final size:13
Alignment explanation
Indices: 1813785--1813823 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
1813775 AGAATCACCC
1813785 TGTATCGATACAA
1 TGTATCGATACAA
1813798 TGTATCGATACAA
1 TGTATCGATACAA
1813811 TGTATCGATACAA
1 TGTATCGATACAA
1813824 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1815921 original size:15 final size:15
Alignment explanation
Indices: 1815901--1815931 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1815891 ATTTCGTTTG
*
1815901 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1815916 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1815931 G
1 G
1815932 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1817765 original size:21 final size:21
Alignment explanation
Indices: 1817736--1817780 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1817726 AAGTTTTCAT
*
1817736 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1817756 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1817778 TTT
1 TTT
1817781 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1820007 original size:13 final size:13
Alignment explanation
Indices: 1819989--1820014 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1819979 CAATTTTTTG
1819989 TGTATCGATACAT
1 TGTATCGATACAT
1820002 TGTATCGATACAT
1 TGTATCGATACAT
1820015 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1820886 original size:20 final size:21
Alignment explanation
Indices: 1820847--1820887 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1820837 ACAGCCCATG
*
1820847 TTCATGCATTTTGAGCTATGT
1 TTCATACATTTTGAGCTATGT
*
1820868 TTCATACATTTTTAG-TATGT
1 TTCATACATTTTGAGCTATGT
1820888 CTAACATCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.12, G:0.15, T:0.51
Consensus pattern (21 bp):
TTCATACATTTTGAGCTATGT
Found at i:1829424 original size:13 final size:13
Alignment explanation
Indices: 1829406--1829432 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1829396 AAAATTCCCA
1829406 AATGTATCGATAC
1 AATGTATCGATAC
1829419 AATGTATCGATAC
1 AATGTATCGATAC
1829432 A
1 A
1829433 TTGAATAATG
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:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1832833 original size:51 final size:51
Alignment explanation
Indices: 1832777--1832964 Score: 188
Period size: 51 Copynumber: 3.6 Consensus size: 51
1832767 ATTTGCCTGC
**
1832777 ATGTATCGATACATTGAAT-AATGTATCGATACATCTAGGTAAAATTCCCAG
1 ATGTATCGATACAAAG-ATCAATGTATCGATACATCTAGGTAAAATTCCCAG
* * * ** *
1832828 ATGTATCGATAGAAAGATCAATGTATCGATACAATGTATCG-ATGCATT--GAG
1 ATGTATCGATACAAAGATCAATGTATCGATAC-ATCTA-GGTA-AAATTCCCAG
**
1832879 TAATGTATCGATACATTGAAT-AATGTATCGATACATCTAGGTAAAATTCCCAG
1 --ATGTATCGATACAAAG-ATCAATGTATCGATACATCTAGGTAAAATTCCCAG
1832932 ATGTATCGATACAAAGATCAATGTATCGATACA
1 ATGTATCGATACAAAGATCAATGTATCGATACA
1832965 ATGTATCGAT
Statistics
Matches: 108, Mismatches: 18, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
50 4 0.04
51 60 0.56
52 10 0.09
53 32 0.30
54 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.30
Consensus pattern (51 bp):
ATGTATCGATACAAAGATCAATGTATCGATACATCTAGGTAAAATTCCCAG
Found at i:1832864 original size:13 final size:13
Alignment explanation
Indices: 1832846--1832870 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1832836 ATAGAAAGAT
1832846 CAATGTATCGATA
1 CAATGTATCGATA
1832859 CAATGTATCGAT
1 CAATGTATCGAT
1832871 GCATTGAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1832885 original size:20 final size:20
Alignment explanation
Indices: 1832860--1832914 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
1832850 GTATCGATAC
* *
1832860 AATGTATCGATGCATTGAGT
1 AATGTATCGATACATTGAAT
1832880 AATGTATCGATACATTGAAT
1 AATGTATCGATACATTGAAT
1832900 AATGTATCGATACAT
1 AATGTATCGATACAT
1832915 CTAGGTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTGAAT
Found at i:1832957 original size:104 final size:104
Alignment explanation
Indices: 1832777--1832999 Score: 437
Period size: 104 Copynumber: 2.1 Consensus size: 104
1832767 ATTTGCCTGC
*
1832777 ATGTATCGATACATTGAATAATGTATCGATACATCTAGGTAAAATTCCCAGATGTATCGATAGAA
1 ATGTATCGATACATTGAATAATGTATCGATACATCTAGGTAAAATTCCCAGATGTATCGATACAA
1832842 AGATCAATGTATCGATACAATGTATCGATGCATTGAGTA
66 AGATCAATGTATCGATACAATGTATCGATGCATTGAGTA
1832881 ATGTATCGATACATTGAATAATGTATCGATACATCTAGGTAAAATTCCCAGATGTATCGATACAA
1 ATGTATCGATACATTGAATAATGTATCGATACATCTAGGTAAAATTCCCAGATGTATCGATACAA
1832946 AGATCAATGTATCGATACAATGTATCGATGCATTGAGTA
66 AGATCAATGTATCGATACAATGTATCGATGCATTGAGTA
1832985 ATGTATCGATACATT
1 ATGTATCGATACATT
1833000 TTCTTGGCAG
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 118 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (104 bp):
ATGTATCGATACATTGAATAATGTATCGATACATCTAGGTAAAATTCCCAGATGTATCGATACAA
AGATCAATGTATCGATACAATGTATCGATGCATTGAGTA
Found at i:1832968 original size:13 final size:13
Alignment explanation
Indices: 1832950--1832974 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1832940 ATACAAAGAT
1832950 CAATGTATCGATA
1 CAATGTATCGATA
1832963 CAATGTATCGAT
1 CAATGTATCGAT
1832975 GCATTGAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1833062 original size:32 final size:32
Alignment explanation
Indices: 1833016--1833093 Score: 120
Period size: 32 Copynumber: 2.4 Consensus size: 32
1833006 GCAGTAGCTT
*
1833016 CGTAGCGATACATTGTATCGATACAACACTAA
1 CGTATCGATACATTGTATCGATACAACACTAA
* * *
1833048 TGTATCGATACATTGTATCGGTACAACACTTA
1 CGTATCGATACATTGTATCGATACAACACTAA
1833080 CGTATCGATACATT
1 CGTATCGATACATT
1833094 TACTGCTTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (32 bp):
CGTATCGATACATTGTATCGATACAACACTAA
Found at i:1834050 original size:52 final size:49
Alignment explanation
Indices: 1833784--1834247 Score: 294
Period size: 49 Copynumber: 9.8 Consensus size: 49
1833774 CGAAGAATGA
* * * *
1833784 CAATGTGCTGATTCATGGCCAGCAACATTAGATTTAAAGA-AGAA--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATA-AAGGTGC
** * * * * *
1833831 CAATGTGCTGAGACAAGGCCAGTGACTTTGGGCTTAGGAATGTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA--AA-GATAAAGGTGC
* * * ** * *
1833883 CAATATGCTGATTCAAGG-CAACGATATCAGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGC
* *
1833931 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTGAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGC
* * ** *
1833980 CAATATGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGGTTGAGGTGT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA---TAAAGGTGC
* * * * * * *
1834032 CGATGTGCTGATTTAAGGCCAACGACATCGGTCTTCAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGC
* * *
1834081 CAATATGCTGATTCAAGGCCAGCGATATTGGA--T-----T---CGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGC
* *
1834120 CAATGTGCTGATTCAAGGCCAGTGACATTGGGC-T-----T----GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGC
* * * *
1834159 CAATGTGCTGATTCAAGGCCAACAACATTGGTCTTAAAGACAAA-GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGC
* *
1834207 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA-AAGA
1834248 AGACGCCACC
Statistics
Matches: 325, Mismatches: 71, Indels: 40
0.75 0.16 0.09
Matches are distributed among these distances:
39 65 0.20
40 3 0.01
42 1 0.00
47 28 0.09
48 61 0.19
49 97 0.30
50 3 0.01
51 11 0.03
52 56 0.17
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGC
Found at i:1834065 original size:101 final size:98
Alignment explanation
Indices: 1833874--1834112 Score: 309
Period size: 101 Copynumber: 2.4 Consensus size: 98
1833864 TTAGGAATGT
* * **
1833874 TAAAGATGCCAATATGCTGATTCAAGG-CAACGATATCAGACTTAAAGATGAAGATGCCAATGTG
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTG
* * *
1833938 CTGATTCAAGGCCAGCGACATTGGTCTTGAAGA
66 CTGATTCAAGGCCAACGACATCGGTCTTCAAGA
* * * * * *
1833971 TAAAGGTGCCAATATGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGGTTGAGGTGTCGAT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGATGCCAAT
*
1834036 GTGCTGATTTAAGGCCAACGACATCGGTCTTCAAGA
63 GTGCTGATTCAAGGCCAACGACATCGGTCTTCAAGA
*
1834072 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1834113 TTCGTGCCAA
Statistics
Matches: 121, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
97 26 0.21
98 17 0.14
99 1 0.01
101 77 0.64
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (98 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTG
CTGATTCAAGGCCAACGACATCGGTCTTCAAGA
Found at i:1834131 original size:39 final size:39
Alignment explanation
Indices: 1834077--1834189 Score: 156
Period size: 39 Copynumber: 2.9 Consensus size: 39
1834067 CAAGATGAAG
* *
1834077 GTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGATT
* *
1834115 CGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGGCTT
1 -GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGATT
* *
1834155 GTGCCAATGTGCTGATTCAAGGCCAACAACATTGG
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
1834190 TCTTAAAGAC
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 62 0.94
40 4 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGATT
Found at i:1834237 original size:48 final size:49
Alignment explanation
Indices: 1834155--1834247 Score: 134
Period size: 48 Copynumber: 1.9 Consensus size: 49
1834145 CATTGGGCTT
* *
1834155 GTGCCAATGTGCTGATTCAAGGCCAACAACATTGGTCTTA-AAGACAAA
1 GTGCCAATATGCTGATTCAAGGCCAACAACATTGGACTTAGAAGACAAA
* * *
1834203 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 GTGCCAATATGCTGATTCAAGGCCAACAACATTGGACTTAGAAGA
1834248 AGACGCCACC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 35 0.90
49 4 0.10
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (49 bp):
GTGCCAATATGCTGATTCAAGGCCAACAACATTGGACTTAGAAGACAAA
Found at i:1834351 original size:57 final size:56
Alignment explanation
Indices: 1834264--1834388 Score: 153
Period size: 57 Copynumber: 2.2 Consensus size: 56
1834254 CACCAACTTG
* * *
1834264 TGTGGGCTTTTGAAAGGGTTGCACCAACTTGTGTGCTTTTG-AAGGTTGCCATTGACT
1 TGTGGGC-TTTGAAAGGGGTGCACCAACTTGTGGGCTTTTGAAAGG-TGCCACTGACT
* *
1834321 TGTGGGCTTTGAAAGGGGTGCCACCGACTTGTGGGTTTTTGAAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGGTG-CACCAACTTGTGGGCTTTTG--AAAGGTGCCACTGACT
1834380 TGTGGGCTT
1 TGTGGGCTT
1834389 AAAAAGAGAA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
56 12 0.20
57 24 0.41
59 19 0.32
60 4 0.07
ACGTcount: A:0.18, C:0.16, G:0.33, T:0.34
Consensus pattern (56 bp):
TGTGGGCTTTGAAAGGGGTGCACCAACTTGTGGGCTTTTGAAAGGTGCCACTGACT
Found at i:1834364 original size:30 final size:30
Alignment explanation
Indices: 1834264--1834388 Score: 132
Period size: 29 Copynumber: 4.3 Consensus size: 30
1834254 CACCAACTTG
* *
1834264 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGCTTTTGAAAGGGGTGCCACCGACT
* * **
1834293 TGTGTGCTTTTG-AA-GGTTGCCATTGACT
1 TGTGGGCTTTTGAAAGGGGTGCCACCGACT
1834321 TGTGGGC-TTTGAAAGGGGTGCCACCGACT
1 TGTGGGCTTTTGAAAGGGGTGCCACCGACT
* ** *
1834350 TGTGGGTTTTTGAAAAAGGTGCCACTGACT
1 TGTGGGCTTTTGAAAGGGGTGCCACCGACT
1834380 TGTGGGCTT
1 TGTGGGCTT
1834389 AAAAAGAGAA
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
27 9 0.11
28 15 0.19
29 28 0.35
30 27 0.34
ACGTcount: A:0.18, C:0.16, G:0.33, T:0.34
Consensus pattern (30 bp):
TGTGGGCTTTTGAAAGGGGTGCCACCGACT
Found at i:1834438 original size:27 final size:27
Alignment explanation
Indices: 1834402--1834867 Score: 203
Period size: 34 Copynumber: 15.0 Consensus size: 27
1834392 AAGAGAAAGA
*
1834402 TGCCATGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
1834429 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * *
1834456 TGCCATGGAGTTATGCACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
1834483 TGCCACGGAGTTATGGACTTAAAAGGAAAAAAAG
1 TGCCACGGAGTTGTGGACTTAAAAGG-------G
* * *
1834517 TGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAAGA
1 TGCCACGGAGTTGTGGAC-TT-AAAAG------GG
1834552 TGCCACGGAGTTGTGGACTTAAAAGGAAAAATAG
1 TGCCACGGAGTTGTGGACTTAAAAGG-------G
*
1834586 TGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGGG
1 TGCCACGGAGTTGTGGACTT-------AAAAGGG
*
1834620 TGCCACGGAGTTGTGGACTTAAAAAGAAAATG
1 TGCCACGGAGTTGTGGACTT-AAAAG----GG
**
1834652 TGCCATAGAGTTGTGGACTTAAAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTAAAA-G-----G-G
* *
1834686 TGCCACAGAGTTGTGGGCTTAAAAGGAGAAAGAG
1 TGCCACGGAGTTGTGGACTT-AAA--AG---G-G
*
1834720 TGCCACGGAGTTGTGGGCTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
1834747 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
1 TGCCACGGAGTTGTGGACTTAAAAGG-----G
* *
1834779 ACTGCCACGAAGTTGTGGGCTTAAAAGGAGAAAGAG
1 --TGCCACGGAGTTGTGGACTT-AAA--AG---G-G
* *
1834815 TGCCACAGAGTTGTGGGCTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
1834842 TGCCACGGAGTTGTGGACTTAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGG
1834868 AAAAAGAATG
Statistics
Matches: 358, Mismatches: 29, Indels: 104
0.73 0.06 0.21
Matches are distributed among these distances:
27 126 0.35
28 8 0.02
31 8 0.02
32 21 0.06
33 15 0.04
34 137 0.38
35 24 0.07
36 8 0.02
37 3 0.01
40 1 0.00
41 6 0.02
42 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.21
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:1834520 original size:34 final size:34
Alignment explanation
Indices: 1834476--1834969 Score: 608
Period size: 34 Copynumber: 15.0 Consensus size: 34
1834466 TTATGCACTT
* * *
1834476 AAAAGGGTGCCACGGAGTTATGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* * *
1834510 AAAAAAGTGCCACAGAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGA
*
1834545 AAAA-AGATGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAAGAG-TGCCACGGAGTTGTGGGCTTAAAAGGA
*
1834579 AAAATAGTGCCACGGAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* * *
1834613 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAAG-
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* ** *
1834646 AAAA-TGTGCCATAGAGTTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
*
1834679 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
*
1834713 GAAAGAGTGCCACGGAGTTGTGGGCTTAAAA-G-
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
*
1834745 ----G-GTGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* *
1834774 AAAAGACTGCCACGAAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* *
1834808 GAAAGAGTGCCACAGAGTTGTGGGCTTAAAA-G-
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
*
1834840 ----G-GTGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
*
1834869 AAAAGAATGCCACGGAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* * *
1834903 AAAAGAGTGCCATGGAGTTATGGGCTTAAAAGGG
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
1834937 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGG
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGG
1834970 GTGCCATGGA
Statistics
Matches: 400, Mismatches: 41, Indels: 38
0.84 0.09 0.08
Matches are distributed among these distances:
27 47 0.12
28 4 0.01
32 24 0.06
33 12 0.03
34 283 0.71
35 30 0.08
ACGTcount: A:0.36, C:0.12, G:0.33, T:0.19
Consensus pattern (34 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
Found at i:1834794 original size:95 final size:95
Alignment explanation
Indices: 1834552--1834936 Score: 574
Period size: 95 Copynumber: 4.0 Consensus size: 95
1834542 AGAAAAAAGA
* *
1834552 TGCCACGGAGTTGTGGACTTAAAAGGAAAAATAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTAAAAGGAAAAA
* * *
1834617 GGGTGCCACGGAGTTGTGGACTTAAAAAGAAAATG
66 GAGTGCCACGGAGTTGTGGGCTT-AAAAG----GG
** *
1834652 TGCCATAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCAC-AGAGTTGTGGGCTTAAAAGGAGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGA-AGTTGTGGGCTTAAAAGGAAAA
1834716 AGAGTGCCACGGAGTTGTGGGCTTAAAAGGG
65 AGAGTGCCACGGAGTTGTGGGCTTAAAAGGG
* *
1834747 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGACTGCCACGAAGTTGTGGGCTTAAAAGGAGAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTAAAAGGAAAAA
*
1834812 GAGTGCCACAGAGTTGTGGGCTTAAAAGGG
66 GAGTGCCACGGAGTTGTGGGCTTAAAAGGG
* *
1834842 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGGCTTAAAAGGAAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTAAAAGGAAAAA
* *
1834907 GAGTGCCATGGAGTTATGGGCTTAAAAGGG
66 GAGTGCCACGGAGTTGTGGGCTTAAAAGGG
1834937 AAAAGAGTGC
Statistics
Matches: 265, Mismatches: 18, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
95 179 0.68
96 1 0.00
99 5 0.02
100 80 0.30
ACGTcount: A:0.35, C:0.12, G:0.34, T:0.20
Consensus pattern (95 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTAAAAGGAAAAA
GAGTGCCACGGAGTTGTGGGCTTAAAAGGG
Found at i:1834933 original size:27 final size:28
Alignment explanation
Indices: 1834902--1834981 Score: 72
Period size: 34 Copynumber: 2.7 Consensus size: 28
1834892 GCTTAAAAGG
1834902 AAAAAGAGTGCCATGGAGTTATGGGCTT
1 AAAAAGAGTGCCATGGAGTTATGGGCTT
* *
1834930 AAAAGGGAAAAGAGTGCCACGGAGTTGTGGGCTT
1 ---A---AAAAGAGTGCCATGGAGTTATGGGCTT
*
1834964 -AAAAGGGTGCCATGGAGT
1 AAAAAGAGTGCCATGGAGT
1834982 CGTGGACTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
27 16 0.38
31 1 0.02
34 25 0.60
ACGTcount: A:0.33, C:0.11, G:0.36, T:0.20
Consensus pattern (28 bp):
AAAAAGAGTGCCATGGAGTTATGGGCTT
Found at i:1834968 original size:95 final size:96
Alignment explanation
Indices: 1834422--1834969 Score: 570
Period size: 95 Copynumber: 5.7 Consensus size: 96
1834412 TTGTGGACTT
* * * * *
1834422 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAG----GGTGCCATGGAGTTATGCACTTAAAA-G-
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
1834481 -G-GTGCCACGGAGTTATGGACTTAAAAGGA
66 AGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* * *
1834510 AAAAAAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAAGATGCCACGGAGTTGTGGACTTAAA
1 AAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAG--AAAAGGTGCCACGGAGTTGTGGACTTAAA
*
1834575 AGGAAAAATAGTGCCACGGAGTTGTGGGCTTAAAAGGA
62 AGG---AAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* * * **
1834613 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGAAAATGTGCCATAGAGTTGTGGACTTAAAAGG
1 AAAAGAGTGCCACGGAGTTGTGGGCTT-AAAAGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
*
1834678 AAAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGA
65 ---AAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
*
1834713 GAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG----GGTGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG-
* *
1834774 AAAAGACTGCCACGAAGTTGTGGGCTTAAAAGGA
65 --AAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* *
1834808 GAAAGAGTGCCACAGAGTTGTGGGCTTAAAAG----GGTGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG-
*
1834869 AAAAGAATGCCACGGAGTTGTGGGCTTAAAAGGA
65 --AAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* * *
1834903 AAAAGAGTGCCATGGAGTTATGGGCTTAAAAGGGAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAA--GAAAAG-GTGCCACGGAGTTGTGGACTTAAAA
1834968 GG
63 GG
1834970 GTGCCATGGA
Statistics
Matches: 400, Mismatches: 38, Indels: 30
0.85 0.08 0.06
Matches are distributed among these distances:
88 21 0.05
89 2 0.00
90 5 0.01
95 176 0.44
96 22 0.05
97 2 0.00
99 5 0.01
100 85 0.21
101 1 0.00
102 34 0.09
103 47 0.12
ACGTcount: A:0.35, C:0.12, G:0.33, T:0.20
Consensus pattern (96 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
AGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
Found at i:1834970 original size:129 final size:126
Alignment explanation
Indices: 1834361--1834990 Score: 623
Period size: 129 Copynumber: 5.0 Consensus size: 126
1834351 GTGGGTTTTT
* * * * * *
1834361 GAAAAAGGTGCCACTGACTTGTGGGCTTAAAAAGAGAAAGA-TGCCATGGAGTTGTGGACTTAAA
1 GAAAAA-GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTTAAA
* * * *
1834425 A-G----G-GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTATGCACTTAAAAG
65 AGGAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
* * **
1834481 G-----GTGCCACGGAGTTATGGACTTAAAAGGAAAAAAAGTGCCACAGAGTTGTGGGCTTTAAA
1 GAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGC-TTAAA
* * * *
1834541 AAGAAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAAAAATAGTGCCACGGAGTTGTGGGCTT
65 AGGAAAAGAG-TGCCACGGAGTTGTGGGCTTAAAAGG-------GTGCCACGGAGTTGTGGACTT
1834606 AAAAG
122 AAAAG
* * * *
1834611 GAAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAG-AAAA-TGTGCCATAGAGTTGTGGACTTAA
1 GAAAAA--GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTTAA
* *
1834674 AAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGAGAAAGAGTGCCACGGAGTTGTGGGCT
64 AAGG-AAAAGAGTGCCACGGAGTTGTGGGCTT-AAA--AG---G-GTGCCACGGAGTTGTGGACT
1834739 TAAAAG
121 TAAAAG
* * *
1834745 G-----GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGACTGCCACGAAGTTGTGGGCTTAAAA
1 GAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTTAAAA
*
1834805 GGAGAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
66 GGA-AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
* *
1834867 GAAAAAGAATGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCATGGAGTTATGGGCTTAA
1 GAAAAAG--TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTTAA
* *
1834932 AAGGGAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCATGGAGTCGTGGACTT
64 AA-GGAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTT
1834991 TGAGAAGAGA
Statistics
Matches: 429, Mismatches: 40, Indels: 73
0.79 0.07 0.13
Matches are distributed among these distances:
114 27 0.06
115 15 0.03
116 6 0.01
117 1 0.00
120 1 0.00
122 27 0.06
123 27 0.06
126 2 0.00
127 27 0.06
128 8 0.02
129 151 0.35
130 26 0.06
134 53 0.12
135 26 0.06
136 4 0.01
137 27 0.06
140 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (126 bp):
GAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTTAAAA
GGAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
Found at i:1835013 original size:31 final size:30
Alignment explanation
Indices: 1834978--1835284 Score: 353
Period size: 31 Copynumber: 9.8 Consensus size: 30
1834968 GGGTGCCATG
1834978 GAGTCGTGGACTTTGAGAAGAGATTGCCACT
1 GAGTCGTGGACTTTGAGAAGAGA-TGCCACT
*
1835009 GAGTCGTGGACTTTGAGGAAAAGATGCCACT
1 GAGTCGTGGACTTTGA-GAAGAGATGCCACT
* *
1835040 GAGTCGTGGACTTTGGGAAGAGATGCCATT
1 GAGTCGTGGACTTTGAGAAGAGATGCCACT
* * *
1835070 GAGTCGTGGACTTGGAAGAAAAAATGCCACT
1 GAGTCGTGGACTTTG-AGAAGAGATGCCACT
1835101 GAGTCGTGGACTTTGAGAAGAGATGCCACT
1 GAGTCGTGGACTTTGAGAAGAGATGCCACT
* *
1835131 GAGTCGTGGACTTTAAAGAAAAAAGATGCCACT
1 GAGTCGTGGACTTT---GAGAAGAGATGCCACT
* *
1835164 GAGTCGTGGACTTGGAAGAAAAAAGATGCCACT
1 GAGTCGTGGACTTTG-AG--AAGAGATGCCACT
*
1835197 GAGTCGTGGACTTTGAAGAAAAGATGCCACT
1 GAGTCGTGGACTTTG-AGAAGAGATGCCACT
* * *
1835228 AAGTTGTGGACTTTGGGAAAAGAGATGCCACT
1 GAGTCGTGGACTTT--GAGAAGAGATGCCACT
* *
1835260 GAGTTGTGGACTTCGAAGAAGAGAT
1 GAGTCGTGGACTTTG-AGAAGAGAT
1835285 TTGAAGAATT
Statistics
Matches: 241, Mismatches: 24, Indels: 22
0.84 0.08 0.08
Matches are distributed among these distances:
30 55 0.23
31 97 0.40
32 31 0.13
33 58 0.24
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (30 bp):
GAGTCGTGGACTTTGAGAAGAGATGCCACT
Found at i:1835097 original size:61 final size:61
Alignment explanation
Indices: 1834978--1835279 Score: 399
Period size: 61 Copynumber: 4.8 Consensus size: 61
1834968 GGGTGCCATG
* * *
1834978 GAGTCGTGGACTTTGAGAAGAGATTGCCACTGAGTCGTGGACTTTGAGGAAAAGATGCCACT
1 GAGTCGTGGACTTTGGGAAGAGA-TGCCACTGAGTCGTGGACTTTGAAGAAAAAATGCCACT
* *
1835040 GAGTCGTGGACTTTGGGAAGAGATGCCATTGAGTCGTGGACTTGGAAGAAAAAATGCCACT
1 GAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAATGCCACT
* *
1835101 GAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTAAAGAAAAAAGATGCCACT
1 GAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTGAAG-AAAAA-ATGCCACT
* *
1835164 GAGTCGTGGAC-TTGGAAGAAAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACT
1 GAGTCGTGGACTTTGG--G--AAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAATGCCACT
* * * *
1835228 AAGTTGTGGACTTTGGGAAAAGAGATGCCACTGAGTTGTGGACTTCGAAGAA
1 GAGTCGTGGACTTTGGG--AAGAGATGCCACTGAGTCGTGGACTTTGAAGAA
1835280 GAGATTTGAA
Statistics
Matches: 215, Mismatches: 18, Indels: 13
0.87 0.07 0.05
Matches are distributed among these distances:
61 78 0.36
62 30 0.14
63 52 0.24
64 18 0.08
65 8 0.04
66 29 0.13
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (61 bp):
GAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAATGCCACT
Found at i:1836278 original size:17 final size:17
Alignment explanation
Indices: 1836256--1836289 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1836246 TTCACTGAGA
1836256 TTTTCTG-TTTTGTTTTT
1 TTTTCTGCTTTT-TTTTT
1836273 TTTTCTGCTTTTTTTTT
1 TTTTCTGCTTTTTTTTT
1836290 GTTGGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.82
Consensus pattern (17 bp):
TTTTCTGCTTTTTTTTT
Found at i:1843694 original size:20 final size:20
Alignment explanation
Indices: 1843641--1843695 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
1843631 AAATTCCTAG
**
1843641 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
1843661 ATGTATCGATACATTGAAT-A
1 ATGTATCGATACATTG-ATCA
1843681 ATGTATCGATACATT
1 ATGTATCGATACATT
1843696 TCCTTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:1845894 original size:51 final size:52
Alignment explanation
Indices: 1845830--1845949 Score: 188
Period size: 51 Copynumber: 2.3 Consensus size: 52
1845820 TCTGGGAAGA
*
1845830 AAATGTATCGATACATTTTTTATTGTATCGATACATTTT-GGGTTTTGACCC
1 AAATGTATCGATACATTTTTTATAGTATCGATACATTTTAGGGTTTTGACCC
* * *
1845881 AATTGTATCGATACATTTTTTATAGTATCGATACATTTTAGGTTTTTGATCC
1 AAATGTATCGATACATTTTTTATAGTATCGATACATTTTAGGGTTTTGACCC
*
1845933 AAATGTATCAATACATT
1 AAATGTATCGATACATT
1845950 CTTCAATAGA
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
51 37 0.60
52 25 0.40
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.45
Consensus pattern (52 bp):
AAATGTATCGATACATTTTTTATAGTATCGATACATTTTAGGGTTTTGACCC
Found at i:1847635 original size:28 final size:28
Alignment explanation
Indices: 1847603--1847661 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
1847593 TTTCCAAATA
1847603 TTTTTCCCCAAATCTTCATGAAATTTTC
1 TTTTTCCCCAAATCTTCATGAAATTTTC
*
1847631 TTTTTCCTCAAATCTTCATGAAATTTTC
1 TTTTTCCCCAAATCTTCATGAAATTTTC
1847659 TTT
1 TTT
1847662 CCTGAAAGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.24, C:0.22, G:0.03, T:0.51
Consensus pattern (28 bp):
TTTTTCCCCAAATCTTCATGAAATTTTC
Found at i:1848767 original size:13 final size:13
Alignment explanation
Indices: 1848749--1848775 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1848739 ACAAACAGTA
1848749 AATGTATCGATAC
1 AATGTATCGATAC
1848762 AATGTATCGATAC
1 AATGTATCGATAC
1848775 A
1 A
1848776 TAAGTTTTGT
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:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1848902 original size:20 final size:21
Alignment explanation
Indices: 1848869--1848911 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
1848859 TTTGAAAATT
1848869 TTACCCAGATGTATCAATACA
1 TTACCCAGATGTATCAATACA
*
1848890 TTACCCA-ATGTATCGATACA
1 TTACCCAGATGTATCAATACA
1848910 TT
1 TT
1848912 CAGGCATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (21 bp):
TTACCCAGATGTATCAATACA
Found at i:1851251 original size:51 final size:51
Alignment explanation
Indices: 1851195--1851432 Score: 293
Period size: 51 Copynumber: 4.6 Consensus size: 51
1851185 TTAAGTTTCT
* *
1851195 CAATTTTTCATAATCGGGGGTACTCCAACCCC-AGTTTTA-TTTCTAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGA-TTTTATTTTC-AAAACAC
* * * *
1851246 TAATTTTTCACAATCGGGGATACTCCAACTCTGATTTTATTTTCGAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* * *
1851297 CAGTTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* * * * *
1851348 CAA-TTTTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAATAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACAC
1851400 CAATTTTTCACAATCGGGGATACTCCAACCCCG
1 CAATTTTTCACAATCGGGGATACTCCAACCCCG
1851433 TTAATCATCG
Statistics
Matches: 158, Mismatches: 24, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
50 4 0.03
51 114 0.72
52 35 0.22
53 5 0.03
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
Found at i:1851442 original size:27 final size:28
Alignment explanation
Indices: 1851412--1851487 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
1851402 ATTTTTCACA
1851412 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
1851439 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
1851467 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
1851488 GTTTTATTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 24 0.55
28 20 0.45
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:1851522 original size:79 final size:79
Alignment explanation
Indices: 1851439--1851959 Score: 792
Period size: 79 Copynumber: 6.6 Consensus size: 79
1851429 CCCGTTAATC
*
1851439 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
*
1851504 ATTGATTTCTCATA
66 ATTGATTTCTCACA
* *
1851518 ATCGGGGATACTCCAACCTCGTTATTTCTGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
* *
1851583 ATTCATTTC-CTATA
66 ATTGATTTCTC-ACA
* * *
1851597 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAAACCCTGGCTTTATTTCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCC-AACCCCGGCTTTATTCCTAAAA
1851662 TATTGATTTCTCACA
65 TATTGATTTCTCACA
* * * * * * * *
1851677 ATTGGGAATACTCCAACCCTGTTATTTTCGAGGGGATACTCTAACCTCGGTTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
1851742 ATTGATTTCTCACA
66 ATTGATTTCTCACA
* *
1851756 ATCGGGGATACTCCAACCTCGTTATTTCCGAGGAGATACTCCAACCCCGGCTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
1851821 ATTGATTTCTCACA
66 ATTGATTTCTCACA
* * *
1851835 ATCAGGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
1851900 ATTGATTTCTCACA
66 ATTGATTTCTCACA
* * *
1851914 ATCGGGGATACTCTAACCCCGTTATTTTCGCGGGGATACTCCAACC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACC
1851960 TCGTTATTTT
Statistics
Matches: 403, Mismatches: 36, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
78 1 0.00
79 332 0.82
80 69 0.17
81 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
ATTGATTTCTCACA
Found at i:1851561 original size:107 final size:107
Alignment explanation
Indices: 1851363--1851566 Score: 268
Period size: 106 Copynumber: 1.9 Consensus size: 107
1851353 TTCTATAATC
* * *
1851363 GGGGATACTCTAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAATACCAATTTCTCACAATCGGGGATACTCCAA
*
1851428 CCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGA
66 CCCCGTTAATCATAGGGGATACTCCAACCCCGTTATTTCCGA
* * *** *
1851470 GGGGATACTCCAACCCCGGTTTTA-TTCCTAAAATATTGATTTCTCATAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAATACCAATTTCTCACAATCGGGGATACTCCAA
* *
1851534 CCTCGTTATTTC-TGAGGGGATACTCCAACCCCG
66 CCCCGTTA-ATCAT-AGGGGATACTCCAACCCCG
1851567 GCTTTATTCC
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
106 42 0.51
107 41 0.49
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAAATACCAATTTCTCACAATCGGGGATACTCCAA
CCCCGTTAATCATAGGGGATACTCCAACCCCGTTATTTCCGA
Found at i:1851730 original size:238 final size:237
Alignment explanation
Indices: 1851439--1851962 Score: 834
Period size: 238 Copynumber: 2.2 Consensus size: 237
1851429 CCCGTTAATC
* * *
1851439 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTCCTAAAAT
1 ATCGGGAATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTCCTAAAAT
* * *
1851504 ATTGATTTCTCATAATCGGGGATACTCCAACCTCGTTATTTCTGAGGGGATACTCCAACCCCGGC
66 ATTGATTTCTCACAATCGGGGATACTCCAACCTCGTTATTTCCGAGGAGATACTCCAACCCCGGC
* * *
1851569 TTTATTCCTAAAATATTCATTTC-CTATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
131 TTTATTCCTAAAATATTCATTTCTC-ACAATCAGGGATACTCCAACCCCGTTATTTCCGAGGGGA
* *
1851633 TACTCCAAACCCTGGCTTTATTTCTAAAATATTGATTTCTCACA
195 TACTCC-AACCCCGGCTTTATTCCTAAAATATTGATTTCTCACA
* * * *
1851677 ATTGGGAATACTCCAACCCTGTTATTTTCGAGGGGATACTCTAACCTCGGTTTTATTTCTAAAAT
1 ATCGGGAATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTCCTAAAAT
1851742 ATTGATTTCTCACAATCGGGGATACTCCAACCTCGTTATTTCCGAGGAGATACTCCAACCCCGGC
66 ATTGATTTCTCACAATCGGGGATACTCCAACCTCGTTATTTCCGAGGAGATACTCCAACCCCGGC
* *
1851807 TTTATTCCTAAAATATTGATTTCTCACAATCAGGGATACTCCAACCTCGTTATTTCCGAGGGGAT
131 TTTATTCCTAAAATATTCATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCCGAGGGGAT
*
1851872 ACTCCAACCCCGGTTTTATTCCTAAAATATTGATTTCTCACA
196 ACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACA
* * *
1851914 ATCGGGGATACTCTAACCCCGTTATTTTCGCGGGGATACTCCAACCTCG
1 ATCGGGAATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCG
1851963 TTATTTTTGA
Statistics
Matches: 261, Mismatches: 24, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
237 77 0.30
238 183 0.70
239 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (237 bp):
ATCGGGAATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTCCTAAAAT
ATTGATTTCTCACAATCGGGGATACTCCAACCTCGTTATTTCCGAGGAGATACTCCAACCCCGGC
TTTATTCCTAAAATATTCATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCCGAGGGGAT
ACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACA
Found at i:1851959 original size:28 final size:28
Alignment explanation
Indices: 1851918--1852016 Score: 144
Period size: 28 Copynumber: 3.5 Consensus size: 28
1851908 CTCACAATCG
* * **
1851918 GGGATACTCTAACCCCGTTATTTTCGCG
1 GGGATACTCCAACCCCGTTATTTTTGAA
*
1851946 GGGATACTCCAACCTCGTTATTTTTGAA
1 GGGATACTCCAACCCCGTTATTTTTGAA
*
1851974 GGGATACTCCAACCTCGTTATTTTTGAA
1 GGGATACTCCAACCCCGTTATTTTTGAA
1852002 GGGATACTCCAACCC
1 GGGATACTCCAACCC
1852017 TGATTTTATT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.31
Consensus pattern (28 bp):
GGGATACTCCAACCCCGTTATTTTTGAA
Found at i:1852065 original size:51 final size:51
Alignment explanation
Indices: 1852001--1852120 Score: 152
Period size: 51 Copynumber: 2.4 Consensus size: 51
1851991 TTATTTTTGA
* * * *
1852001 AGGGATACTCCAACCCTGATTTTATTTTCA-AAACACCAATTTTCTATAATT
1 AGGGATACTCCAACCCCGATTTTATTTCCAGAAA-ACCAATTTTCCATAATC
* *
1852052 AGGGATACTCCAACCCCGATTTTATTTCCAGAAAATCGATTTTCCATAATC
1 AGGGATACTCCAACCCCGATTTTATTTCCAGAAAACCAATTTTCCATAATC
* *
1852103 AGGGGTACTCCAGCCCCG
1 AGGGATACTCCAACCCCG
1852121 TCGTCATCTC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 57 0.95
52 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (51 bp):
AGGGATACTCCAACCCCGATTTTATTTCCAGAAAACCAATTTTCCATAATC
Found at i:1860764 original size:12 final size:12
Alignment explanation
Indices: 1860747--1860772 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1860737 TATGTCATCA
1860747 TAACGCCAATCT
1 TAACGCCAATCT
1860759 TAACGCCAATCT
1 TAACGCCAATCT
1860771 TA
1 TA
1860773 CTCCCATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.31, G:0.08, T:0.27
Consensus pattern (12 bp):
TAACGCCAATCT
Found at i:1861005 original size:27 final size:27
Alignment explanation
Indices: 1860969--1861070 Score: 114
Period size: 28 Copynumber: 3.7 Consensus size: 27
1860959 TCTTTTTTCA
*
1860969 AAGTCCACAACTTTGTGGCACCCTTTT
1 AAGTCCACAACTTCGTGGCACCCTTTT
* *
1860996 AAGTCTACAACTCCGTGGCACCCTTTTT
1 AAGTCCACAACTTCGTGGCACCC-TTTT
* * *
1861024 AAGTACACAAATTCGTGGCACGCCTTTCA
1 AAGTCCACAACTTCGTGGCAC-CCTTT-T
*
1861053 AAGTCCACAACTCCGTGG
1 AAGTCCACAACTTCGTGG
1861071 TACATTTTTC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
27 20 0.33
28 24 0.39
29 17 0.28
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (27 bp):
AAGTCCACAACTTCGTGGCACCCTTTT
Found at i:1861069 original size:29 final size:28
Alignment explanation
Indices: 1860964--1861070 Score: 117
Period size: 27 Copynumber: 3.8 Consensus size: 28
1860954 TGGCATCTTT
**
1860964 TTTCAAAGTCCACAACTTTGTGGCACCC
1 TTTCAAAGTCCACAACTCCGTGGCACCC
* *
1860992 TTT-TAAGTCTACAACTCCGTGGCACCC
1 TTTCAAAGTCCACAACTCCGTGGCACCC
** * * *
1861019 TTTTTAAGTACACAAATTCGTGGCACGCC
1 TTTCAAAGTCCACAACTCCGTGGCAC-CC
1861048 TTTCAAAGTCCACAACTCCGTGG
1 TTTCAAAGTCCACAACTCCGTGG
1861071 TACATTTTTC
Statistics
Matches: 64, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
27 23 0.36
28 21 0.33
29 20 0.31
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (28 bp):
TTTCAAAGTCCACAACTCCGTGGCACCC
Found at i:1861080 original size:29 final size:28
Alignment explanation
Indices: 1860953--1861689 Score: 263
Period size: 32 Copynumber: 24.5 Consensus size: 28
1860943 GACAACCCTA
* **
1860953 GTGGCATCTTTTTTCAAAGTCCACAACTTT
1 GTGGCA-CCTTTTTC-AAGTCCACAACTCC
* *
1860983 GTGGCACCCTTTT-AAGTCTACAACTCC
1 GTGGCACCTTTTTCAAGTCCACAACTCC
* * *
1861010 GTGGCACCCTTTTT-AAGTACACAAATTC
1 GTGGCA-CCTTTTTCAAGTCCACAACTCC
*
1861038 GTGGCACGC-CTTTCAAAGTCCACAACTCC
1 GTGGCAC-CTTTTTC-AAGTCCACAACTCC
** * *
1861067 GTGGTACATTTTTCTTCAAAGTCCATAACTCT
1 GTGG--CACCTTT-TTC-AAGTCCACAACTCC
* *
1861099 GTGCCATCTTTTT-AAGTCCACAACTCC
1 GTGGCACCTTTTTCAAGTCCACAACTCC
* * * **
1861126 GCGCCACCTATTTCTTCAAAGTCCATAACTTT
1 GTGGCACC--TTT-TTC-AAGTCCACAACTCC
*
1861158 GTGGCACCTTTTTCTTCAAAGTCCACTACTCC
1 GTGGCACC--TTT-TTC-AAGTCCACAACTCC
* * * **
1861190 GTAGCACCCTTTT-AAGTCCACGACTTA
1 GTGGCACCTTTTTCAAGTCCACAACTCC
* * * * *
1861217 ATTGCATCCTTTTTTTTCCTTAAAGCCCACGACTCA
1 GTGGCA-CC---TTTTT-C---AAGTCCACAACTCC
* * *
1861253 ATGGCATCCTTTTTTTTCTTCAAAGTCCACGACTTC
1 GTGGCA-CC-----TTT-TTC-AAGTCCACAACTCC
*
1861289 GTGGCATCC-TTTT-AAGTCC-CTAACTCT
1 GTGGCA-CCTTTTTCAAGTCCAC-AACTCC
*
1861316 GTGGTACCCTTTTT-AAGTCCACAACTCC
1 GTGGCA-CCTTTTTCAAGTCCACAACTCC
*
1861344 ATGGCACCTTTTTCTTTTAAGTCCACAACTCC
1 GTGGCACCTTTTTC----AAGTCCACAACTCC
* *
1861376 GTGGTACCCTTTTT-AAGTCCACAACTTC
1 GTGGCA-CCTTTTTCAAGTCCACAACTCC
* * *
1861404 ATGGTACCTTTTTATTTAAAGTCCACAACTCC
1 GTGGCACC---TT-TTTCAAGTCCACAACTCC
* *
1861436 GTGGCACCTTTTTTAAAGTCCACAACTCT
1 GTGGCACC-TTTTTCAAGTCCACAACTCC
* *
1861465 GTGGCACCCTTTT-AAGTCTACAACTCC
1 GTGGCACCTTTTTCAAGTCCACAACTCC
* * *
1861492 GTGGCACATTTTTCTTCAAAGTACACAACTTC
1 GTGGCAC--CTTT-TTC-AAGTCCACAACTCC
*
1861524 GTGGCACCCTTTTTCAAAGTCAACAACTCC
1 GTGGCA-CCTTTTTC-AAGTCCACAACTCC
* * *
1861554 GTGGCATCTCTTTTAAAGTCTACAACTCC
1 GTGGCACCT-TTTTCAAGTCCACAACTCC
* * *
1861583 GAGGCACCTTTTTCTTCAAAGTCCATAACTTC
1 GTGGCACC--TTT-TTC-AAGTCCACAACTCC
* **
1861615 GTGACACCTTTTTCTTCAAAGTCCACAACTTT
1 GTGGCACC--TTT-TTC-AAGTCCACAACTCC
* * * *
1861647 GTGGTACCTTTTTTAAAGTCCATAACTTC
1 GTGGCACC-TTTTTCAAGTCCACAACTCC
*
1861676 GTGGCACTTTTTTC
1 GTGGCACCTTTTTC
1861690 TTCAAAGTCC
Statistics
Matches: 558, Mismatches: 99, Indels: 102
0.74 0.13 0.13
Matches are distributed among these distances:
26 1 0.00
27 98 0.18
28 71 0.13
29 96 0.17
30 54 0.10
31 20 0.04
32 161 0.29
33 8 0.01
36 40 0.07
38 7 0.01
39 2 0.00
ACGTcount: A:0.23, C:0.29, G:0.13, T:0.35
Consensus pattern (28 bp):
GTGGCACCTTTTTCAAGTCCACAACTCC
Found at i:1861123 original size:59 final size:59
Alignment explanation
Indices: 1861053--1861170 Score: 164
Period size: 59 Copynumber: 2.0 Consensus size: 59
1861043 ACGCCTTTCA
* ** * *
1861053 AAGTCCACAACTCCGTGGTACATTTTTCTTCAAAGTCCATAACTCTGTGCCATCTTTTT
1 AAGTCCACAACTCCGCGCCACATATTTCTTCAAAGTCCATAACTCTGTGCCACCTTTTT
* * *
1861112 AAGTCCACAACTCCGCGCCACCTATTTCTTCAAAGTCCATAACTTTGTGGCACCTTTTT
1 AAGTCCACAACTCCGCGCCACATATTTCTTCAAAGTCCATAACTCTGTGCCACCTTTTT
1861171 CTTCAAAGTC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 51 1.00
ACGTcount: A:0.24, C:0.30, G:0.12, T:0.35
Consensus pattern (59 bp):
AAGTCCACAACTCCGCGCCACATATTTCTTCAAAGTCCATAACTCTGTGCCACCTTTTT
Found at i:1861170 original size:91 final size:91
Alignment explanation
Indices: 1860953--1861700 Score: 561
Period size: 91 Copynumber: 8.3 Consensus size: 91
1860943 GACAACCCTA
* ** * * *
1860953 GTGGCATC-TTTT-TTCAAAGTCCACAACTTTGTGGCACC--CTT-TT--AAGTCTACAACTCCG
1 GTGGCACCTTTTTCTTCAAAGTCCACAACTCCGTGGCACCTTTTTCTTCAAAGTCCACAACTCTG
* * *
1861011 TGGCACCCTTTTTAAGTACACAAATTC
66 TGGCA-CCTTTTTAAGTCCACAACTCC
* * * *
1861038 GTGGCACGC---CT-TTCAAAGTCCACAACTCCGTGGTACATTTTTCTTCAAAGTCCATAACTCT
1 GTGGCAC-CTTTTTCTTCAAAGTCCACAACTCCGTGGCACCTTTTTCTTCAAAGTCCACAACTCT
* *
1861099 GTGCCATCTTTTTAAGTCCACAACTCC
65 GTGGCACCTTTTTAAGTCCACAACTCC
* * * * ** * *
1861126 GCGCCACCTATTTCTTCAAAGTCCATAACTTTGTGGCACCTTTTTCTTCAAAGTCCACTACTCCG
1 GTGGCACCTTTTTCTTCAAAGTCCACAACTCCGTGGCACCTTTTTCTTCAAAGTCCACAACTCTG
* * * **
1861191 TAGCACCCTTTTAAGTCCACGACTTA
66 TGGCACCTTTTTAAGTCCACAACTCC
* * * * * **
1861217 ATTGCATCCTTTTTTTTCCTTAAAGCCCACGACTCAATGGCATCCTTTTTTTTCTTCAAAGTCCA
1 GTGGCA-CCTTTTTCTT-C--AAAGTCCACAACTCCGTGGCA-CC---TTTTTCTTCAAAGTCCA
* *
1861282 CGACT-TCGTGGCATCC-TTTTAAGTCC-CTAACTCT
58 CAACTCT-GTGGCA-CCTTTTTAAGTCCAC-AACTCC
* * * ** *
1861316 GTGGTACC-CTTT-TT--AAGTCCACAACTCCATGGCACCTTTTTCTTTTAAGTCCACAACTCCG
1 GTGGCACCTTTTTCTTCAAAGTCCACAACTCCGTGGCACCTTTTTCTTCAAAGTCCACAACTCTG
* *
1861377 TGGTACCCTTTTTAAGTCCACAACTTC
66 TGGCA-CCTTTTTAAGTCCACAACTCC
* * * *
1861404 ATGGTACCTTTTTATTTAAAGTCCACAACTCCGTGGCACC-TTTT-TT-AAAGTCCACAACTCTG
1 GTGGCACCTTTTTCTTCAAAGTCCACAACTCCGTGGCACCTTTTTCTTCAAAGTCCACAACTCTG
* *
1861466 TGGCACCCTTTTAAGTCTACAACTCC
66 TGGCACCTTTTTAAGTCCACAACTCC
* * * * * *
1861492 GTGGCACATTTTTCTTCAAAGTACACAACTTCGTGGCACC-CTTT-TTCAAAGTCAACAACTCCG
1 GTGGCACCTTTTTCTTCAAAGTCCACAACTCCGTGGCACCTTTTTCTTCAAAGTCCACAACTCTG
* *
1861555 TGGCATCTCTTTTAAAGTCTACAACTCC
66 TGGCA-C-CTTTTTAAGTCCACAACTCC
* * * * *
1861583 GAGGCACCTTTTTCTTCAAAGTCCATAACTTCGTGACACCTTTTTCTTCAAAGTCCACAACTTTG
1 GTGGCACCTTTTTCTTCAAAGTCCACAACTCCGTGGCACCTTTTTCTTCAAAGTCCACAACTCTG
* * *
1861648 TGGTACCTTTTTTAAAGTCCATAACTTC
66 TGGCACC-TTTTT-AAGTCCACAACTCC
*
1861676 GTGGCACTTTTTTCTTCAAAGTCCA
1 GTGGCACCTTTTTCTTCAAAGTCCA
1861701 TAATTCTTTG
Statistics
Matches: 525, Mismatches: 103, Indels: 62
0.76 0.15 0.09
Matches are distributed among these distances:
84 23 0.04
85 6 0.01
86 3 0.01
87 29 0.06
88 99 0.19
89 57 0.11
90 8 0.02
91 139 0.26
92 37 0.07
93 55 0.10
95 15 0.03
96 4 0.01
97 3 0.01
98 3 0.01
99 42 0.08
100 2 0.00
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.35
Consensus pattern (91 bp):
GTGGCACCTTTTTCTTCAAAGTCCACAACTCCGTGGCACCTTTTTCTTCAAAGTCCACAACTCTG
TGGCACCTTTTTAAGTCCACAACTCC
Found at i:1861260 original size:36 final size:36
Alignment explanation
Indices: 1861207--1861301 Score: 122
Period size: 36 Copynumber: 2.6 Consensus size: 36
1861197 CCTTTTAAGT
* *
1861207 CCACGACTTAATTGCATCCTTTTTTTTCCTT-AAAGC
1 CCACGACTCAATGGCATCCTTTTTTTT-CTTCAAAGC
*
1861243 CCACGACTCAATGGCATCCTTTTTTTTCTTCAAAGT
1 CCACGACTCAATGGCATCCTTTTTTTTCTTCAAAGC
*
1861279 CCACGACTTC-GTGGCATCCTTTT
1 CCACGAC-TCAATGGCATCCTTTT
1861302 AAGTCCCTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
35 3 0.06
36 48 0.91
37 2 0.04
ACGTcount: A:0.20, C:0.29, G:0.12, T:0.39
Consensus pattern (36 bp):
CCACGACTCAATGGCATCCTTTTTTTTCTTCAAAGC
Found at i:1861364 original size:60 final size:60
Alignment explanation
Indices: 1861297--1861617 Score: 257
Period size: 60 Copynumber: 5.4 Consensus size: 60
1861287 TCGTGGCATC
*
1861297 CTTTTAAGTCC-CTAACTCTGTGGTACCCTTTTTAAGTCCACAACTCCATGGCACCTTTTT
1 CTTTTAAGTCCAC-AACTCCGTGGTACCCTTTTTAAGTCCACAACTCCATGGCACCTTTTT
* *
1861357 CTTTTAAGTCCACAACTCCGTGGTACCCTTTTTAAGTCCACAACTTCATGGTACCTTTTT
1 CTTTTAAGTCCACAACTCCGTGGTACCCTTTTTAAGTCCACAACTCCATGGCACCTTTTT
* * * * **
1861417 ATTTAAAGTCCACAACTCCGTGGCACCTTTTTTAAAGTCCACAACTCTGTGGCACC-----
1 CTTTTAAGTCCACAACTCCGTGGTACCCTTTTT-AAGTCCACAACTCCATGGCACCTTTTT
* * ** * * *
1861473 CTTTTAAGTCTACAACTCCGTGGCACATTTTTCTTCAAAGTACACAACTTCGTGGCACCCTTTTT
1 CTTTTAAGTCCACAACTCCGTGGTAC-CCTTT-TT--AAGTCCACAACTCCATGGCA-CCTTTTT
* * * * * *
1861538 C---AAAGTCAACAACTCCGTGGCATCTCTTTTAAAGTCTACAACTCCGA-GGCACCTTTTT
1 CTTTTAAGTCCACAACTCCGTGGTA-CCCTTTTTAAGTCCACAACTCC-ATGGCACCTTTTT
** * *
1861596 CTTCAAAGTCCATAACTTCGTG
1 CTTTTAAGTCCACAACTCCGTG
1861618 ACACCTTTTT
Statistics
Matches: 216, Mismatches: 29, Indels: 31
0.78 0.11 0.11
Matches are distributed among these distances:
56 23 0.11
57 4 0.02
58 10 0.05
59 33 0.15
60 86 0.40
61 35 0.16
62 23 0.11
63 1 0.00
65 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.34
Consensus pattern (60 bp):
CTTTTAAGTCCACAACTCCGTGGTACCCTTTTTAAGTCCACAACTCCATGGCACCTTTTT
Found at i:1861688 original size:61 final size:61
Alignment explanation
Indices: 1860953--1861729 Score: 390
Period size: 61 Copynumber: 12.9 Consensus size: 61
1860943 GACAACCCTA
* * * *
1860953 GTGGCA-TCTTTT-TTCAAAGTCCACAACTTTGTGGCACC-CTTTT-AAGTCTACAACTCC
1 GTGGCACTTTTTTCTTCAAAGTCCACAACTTCGTGGCACCTTTTTTAAAGTCCACAACTCC
** * * * *
1861010 GTGGCAC-CCTTT-TT--AAGTACACAAATTCGTGGCACGC-CTTTCAAAGTCCACAACTCC
1 GTGGCACTTTTTTCTTCAAAGTCCACAACTTCGTGGCAC-CTTTTTTAAAGTCCACAACTCC
* * * * *
1861067 GTGGTACATTTTTCTTCAAAGTCCATAAC-TCTGTGCCATC-TTTTT-AAGTCCACAACTCC
1 GTGGCACTTTTTTCTTCAAAGTCCACAACTTC-GTGGCACCTTTTTTAAAGTCCACAACTCC
* * * * * * *
1861126 GCGCCACCTATTTCTTCAAAGTCCATAACTTTGTGGCACCTTTTTCTTCAAAGTCCACTACTCC
1 GTGGCACTTTTTTCTTCAAAGTCCACAACTTCGTGGCACC-TTTT-TT-AAAGTCCACAACTCC
* ** * ** * * *
1861190 GTAGCAC--CCTT-TT--AAGTCCACGACTTAATTGCATCCTTTTTTTTCCTTAAAGCCCACGAC
1 GTGGCACTTTTTTCTTCAAAGTCCACAACTTCGTGGCA-CC----TTTT--TTAAAGTCCACAAC
*
1861250 TCA
59 TCC
* *
1861253 ATGGCATCCTTTTTTTTCTTCAAAGTCCACGACTTCGTGGCATCC--TTTT-AAGTCC-CTAACT
1 GTGGCA--C--TTTTTTCTTCAAAGTCCACAACTTCGTGGCA-CCTTTTTTAAAGTCCAC-AACT
*
1861314 CT
60 CC
* ** * * *
1861316 GTGGTAC-CCTTT-TT--AAGTCCACAACTCCATGGCACCTTTTTCTTTTAAGTCCACAACTCC
1 GTGGCACTTTTTTCTTCAAAGTCCACAACTTCGTGGCACC--TTT-TTTAAAGTCCACAACTCC
* ** * *
1861376 GTGGTAC-CCTTT-TT--AAGTCCACAACTTCATGGTACCTTTTTATTTAAAGTCCACAACTCC
1 GTGGCACTTTTTTCTTCAAAGTCCACAACTTCGTGGCACC--TTT-TTTAAAGTCCACAACTCC
* * *
1861436 GTGGCAC-CTTTT-TT-AAAGTCCACAAC-TCTGTGGCACC-CTTTT-AAGTCTACAACTCC
1 GTGGCACTTTTTTCTTCAAAGTCCACAACTTC-GTGGCACCTTTTTTAAAGTCCACAACTCC
* * * *
1861492 GTGGCACATTTTTCTTCAAAGTACACAACTTCGTGGCACCCTTTTTCAAAGTCAACAACTCC
1 GTGGCACTTTTTTCTTCAAAGTCCACAACTTCGTGGCA-CCTTTTTTAAAGTCCACAACTCC
* * * * * * *
1861554 GTGGCA-TCTCTT-TT-AAAGTCTACAACTCCGAGGCACCTTTTTCTTCAAAGTCCATAACTTC
1 GTGGCACTTTTTTCTTCAAAGTCCACAACTTCGTGGCACC-TTTT-TT-AAAGTCCACAACTCC
* * * * * *
1861615 GTGACACCTTTTTCTTCAAAGTCCACAACTTTGTGGTACCTTTTTTAAAGTCCATAACTTC
1 GTGGCACTTTTTTCTTCAAAGTCCACAACTTCGTGGCACCTTTTTTAAAGTCCACAACTCC
* * *
1861676 GTGGCACTTTTTTCTTCAAAGTCCATAA-TTCTTTGGCACCCTTTTTAAAGTCCA
1 GTGGCACTTTTTTCTTCAAAGTCCACAACTTC-GTGGCACCTTTTTTAAAGTCCA
1861730 TACAAGTCGG
Statistics
Matches: 570, Mismatches: 98, Indels: 100
0.74 0.13 0.13
Matches are distributed among these distances:
54 2 0.00
55 35 0.06
56 25 0.04
57 40 0.07
58 12 0.02
59 102 0.18
60 99 0.17
61 119 0.21
62 29 0.05
63 40 0.07
64 40 0.07
65 1 0.00
66 2 0.00
69 2 0.00
70 2 0.00
72 20 0.04
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.35
Consensus pattern (61 bp):
GTGGCACTTTTTTCTTCAAAGTCCACAACTTCGTGGCACCTTTTTTAAAGTCCACAACTCC
Found at i:1861703 original size:32 final size:31
Alignment explanation
Indices: 1861049--1861700 Score: 267
Period size: 32 Copynumber: 21.4 Consensus size: 31
1861039 TGGCACGCCT
* *
1861049 TTCAAAGTCCACAACTCCGTGGTACATTTTTC
1 TTCAAAGTCCACAACTTCGTGGCAC-TTTTTC
* * *
1861081 TTCAAAGTCCATAAC-TCTGTGCCA-TCTTT-
1 TTCAAAGTCCACAACTTC-GTGGCACTTTTTC
* * * *
1861110 TT--AAGTCCACAACTCCGCGCCACCTATTTC
1 TTCAAAGTCCACAACTTCGTGGCA-CTTTTTC
* *
1861140 TTCAAAGTCCATAACTTTGTGGCACCTTTTTC
1 TTCAAAGTCCACAACTTCGTGGCA-CTTTTTC
* * * **
1861172 TTCAAAGTCCACTACTCCGTAGCAC-CCTT-
1 TTCAAAGTCCACAACTTCGTGGCACTTTTTC
* ** * *
1861201 TT--AAGTCCACGACTTAATTGCATCCTTTTTT
1 TTCAAAGTCCACAACTTCGTGGCA--CTTTTTC
* * *
1861232 TTCCTTAAAGCCCACGAC-TCAATGGCATCCTTTTTTTTC
1 TT-C--AAAGTCCACAACTTC-GTGGCA--C---TTTTTC
* **
1861271 TTCAAAGTCCACGACTTCGTGGCA-TCCTT-
1 TTCAAAGTCCACAACTTCGTGGCACTTTTTC
* **
1861300 TT--AAGTCC-CTAAC-TCTGTGGTACCCTTT-
1 TTCAAAGTCCAC-AACTTC-GTGGCACTTTTTC
* *
1861328 TT--AAGTCCACAACTCCATGGCACCTTTTTC
1 TTCAAAGTCCACAACTTCGTGGCA-CTTTTTC
** * * **
1861358 TTTTAAGTCCACAACTCCGTGGTACCCTTT-
1 TTCAAAGTCCACAACTTCGTGGCACTTTTTC
* * *
1861388 TT--AAGTCCACAACTTCATGGTACCTTTTTA
1 TTCAAAGTCCACAACTTCGTGGCA-CTTTTTC
* * *
1861418 TTTAAAGTCCACAACTCCGTGGCACCTTTT-
1 TTCAAAGTCCACAACTTCGTGGCACTTTTTC
**
1861448 TT-AAAGTCCACAAC-TCTGTGGCAC-CCTT-
1 TTCAAAGTCCACAACTTC-GTGGCACTTTTTC
* *
1861476 TT--AAGTCTACAACTCCGTGGCACATTTTTC
1 TTCAAAGTCCACAACTTCGTGGCAC-TTTTTC
* **
1861506 TTCAAAGTACACAACTTCGTGGCACCCTTT-
1 TTCAAAGTCCACAACTTCGTGGCACTTTTTC
* * *
1861536 TTCAAAGTCAACAACTCCGTGGCA-TCTCTT-
1 TTCAAAGTCCACAACTTCGTGGCACT-TTTTC
* * *
1861566 TT-AAAGTCTACAACTCCGAGGCACCTTTTTC
1 TTCAAAGTCCACAACTTCGTGGCA-CTTTTTC
* *
1861597 TTCAAAGTCCATAACTTCGTGACACCTTTTTC
1 TTCAAAGTCCACAACTTCGTGGCA-CTTTTTC
* * *
1861629 TTCAAAGTCCACAACTTTGTGGTACCTTTT-
1 TTCAAAGTCCACAACTTCGTGGCACTTTTTC
*
1861659 TT-AAAGTCCATAACTTCGTGGCACTTTTTTC
1 TTCAAAGTCCACAACTTCGTGGCAC-TTTTTC
1861690 TTCAAAGTCCA
1 TTCAAAGTCCA
1861701 TAATTCTTTG
Statistics
Matches: 478, Mismatches: 93, Indels: 98
0.71 0.14 0.15
Matches are distributed among these distances:
26 3 0.01
27 60 0.13
28 43 0.09
29 80 0.17
30 57 0.12
31 26 0.05
32 164 0.34
35 1 0.00
36 34 0.07
37 2 0.00
38 1 0.00
39 7 0.01
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (31 bp):
TTCAAAGTCCACAACTTCGTGGCACTTTTTC
Found at i:1861833 original size:64 final size:65
Alignment explanation
Indices: 1861722--1861997 Score: 254
Period size: 64 Copynumber: 4.4 Consensus size: 65
1861712 CACCCTTTTT
* * * *
1861722 AAAGTCCATACAAGTCG-GTGACAACC-CTTTCTAAAGCCCACACAAGTCAGTGGCAACCTTTCA
1 AAAGCCCACACAAGTCGAGTGGCAACCTTTTTCTAAAGCCCACACAAGTCAGTGGCAACCTTTCA
* * * * * *
1861785 AAATCCCACACAAGTCGA-TGGCAACTTTTTTCTAAAGCCTATACAAGTCGGTGGCAACCCTTCA
1 AAAGCCCACACAAGTCGAGTGGCAACCTTTTTCTAAAGCCCACACAAGTCAGTGGCAACCTTTCA
* *
1861849 AAAGCCCACACCAA-TC-ATTGGCAACCCTTGTTCTAAA----ACACAAGTCAGTGGCAAACCTT
1 AAAGCCCACA-CAAGTCGAGTGGCAA-CCTTTTTCTAAAGCCCACACAAGTCAGTGGC-AACCTT
1861908 T-A
63 TCA
* * * * *
1861910 ACAAGCCCACACAAGT-TAGTGGCAACCCTTTTC-AAAGCCCACACAAGTCGGTAGCAACCCTCT
1 A-AAGCCCACACAAGTCGAGTGGCAACCTTTTTCTAAAGCCCACACAAGTCAGTGGCAA-CCTTT
1861973 CA
64 CA
*
1861975 AAAGCCCACACTAGTCG-GTGGCA
1 AAAGCCCACACAAGTCGAGTGGCA
1861998 TCTCTTTCTC
Statistics
Matches: 173, Mismatches: 24, Indels: 31
0.76 0.11 0.14
Matches are distributed among these distances:
60 3 0.02
61 24 0.14
62 23 0.13
63 23 0.13
64 85 0.49
65 15 0.09
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (65 bp):
AAAGCCCACACAAGTCGAGTGGCAACCTTTTTCTAAAGCCCACACAAGTCAGTGGCAACCTTTCA
Found at i:1862012 original size:32 final size:32
Alignment explanation
Indices: 1861709--1862012 Score: 194
Period size: 32 Copynumber: 9.6 Consensus size: 32
1861699 CATAATTCTT
* * * *
1861709 TGGC-ACCCTTTTTAAAGTCCATACAAGTCGG
1 TGGCAACCCTTTCTCAAGCCCACACAAGTCGG
* * *
1861740 TGACAACCCTTTCTAAAGCCCACACAAGTCAG
1 TGGCAACCCTTTCTCAAGCCCACACAAGTCGG
** * *
1861772 TGGCAA-CCTTTCAAAATCCCACACAAGTCGA
1 TGGCAACCCTTTCTCAAGCCCACACAAGTCGG
** * * *
1861803 TGGCAACTTTTTTCTAAAGCCTATACAAGTCGG
1 TGGCAAC-CCTTTCTCAAGCCCACACAAGTCGG
** **
1861836 TGGCAACCC-TTCAAAAGCCCACACCAA-TCAT
1 TGGCAACCCTTTCTCAAGCCCACA-CAAGTCGG
* *
1861867 TGGCAACCCTTGT-TCTAA---AACACAAGTCAG
1 TGGCAACCCTT-TCTC-AAGCCCACACAAGTCGG
* ** **
1861897 TGGCAAACCTTTAACAAGCCCACACAAGTTAG
1 TGGCAACCCTTTCTCAAGCCCACACAAGTCGG
1861929 TGGCAACCCTTT-TCAAAGCCCACACAAGTCGG
1 TGGCAACCCTTTCTC-AAGCCCACACAAGTCGG
* * ** *
1861961 TAGCAACCCTCTCAAAAGCCCACACTAGTCGG
1 TGGCAACCCTTTCTCAAGCCCACACAAGTCGG
* *
1861993 TGGCATCTCTTTCTCAAGCC
1 TGGCAACCCTTTCTCAAGCC
1862013 TAATGTCATT
Statistics
Matches: 212, Mismatches: 47, Indels: 27
0.74 0.16 0.09
Matches are distributed among these distances:
29 6 0.03
30 17 0.08
31 53 0.25
32 108 0.51
33 28 0.13
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.22
Consensus pattern (32 bp):
TGGCAACCCTTTCTCAAGCCCACACAAGTCGG
Found at i:1862143 original size:114 final size:114
Alignment explanation
Indices: 1861943--1862162 Score: 350
Period size: 114 Copynumber: 1.9 Consensus size: 114
1861933 AACCCTTTTC
* * *
1861943 AAAGCCCACACAAGTCGGTAGCAACCCTCTCAAAAGCCCACACTAGTCGGTGGCATCTCTTTCTC
1 AAAGCCCACACAAGTCGATAGAAACCCTCTCAAAAGCCCACACAAGTCGGTGGCATCTCTTTCTC
* *
1862008 AAGCCTAATGTCATTGGCCTTGAATTAACACATTGGCACTTGTTAAATT
66 AAGCCCAATGTCATTGGCCTTGAATCAACACATTGGCACTTGTTAAATT
* * *
1862057 AAAGCCCACACAAGTTGATGGAAACCCTCTCAAAAGCCCACACAAGTTGGTGGCATCTCTTTCTC
1 AAAGCCCACACAAGTCGATAGAAACCCTCTCAAAAGCCCACACAAGTCGGTGGCATCTCTTTCTC
* *
1862122 AAGCCCAGTGTCGTTGGCCTTGAATCAACACATTGGCACTT
66 AAGCCCAATGTCATTGGCCTTGAATCAACACATTGGCACTT
1862163 ATCAAATCTT
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 96 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (114 bp):
AAAGCCCACACAAGTCGATAGAAACCCTCTCAAAAGCCCACACAAGTCGGTGGCATCTCTTTCTC
AAGCCCAATGTCATTGGCCTTGAATCAACACATTGGCACTTGTTAAATT
Found at i:1862181 original size:58 final size:58
Alignment explanation
Indices: 1862116--1862225 Score: 166
Period size: 58 Copynumber: 1.9 Consensus size: 58
1862106 GTGGCATCTC
* * * *
1862116 TTTCTCAAGCCCAGTGTCGTTGGCCTTGAATCAACACATTGGCACTTATCAAATCTTT
1 TTTCTCAAGCCCAATGTCGCTGGCCATGAATCAACACATTGACACTTATCAAATCTTT
* *
1862174 TTTCTCAAGCCTAATGTCGCTGGCCATGAATCAACACATTGACACTTGTCAA
1 TTTCTCAAGCCCAATGTCGCTGGCCATGAATCAACACATTGACACTTATCAA
1862226 CACATTGAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 46 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (58 bp):
TTTCTCAAGCCCAATGTCGCTGGCCATGAATCAACACATTGACACTTATCAAATCTTT
Found at i:1862227 original size:18 final size:18
Alignment explanation
Indices: 1862204--1862243 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
1862194 TGGCCATGAA
*
1862204 TCAACACATTGACACTTG
1 TCAACACATTGAAACTTG
1862222 TCAACACATTGAAACTTG
1 TCAACACATTGAAACTTG
1862240 TCAA
1 TCAA
1862244 ATCTTCTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.28
Consensus pattern (18 bp):
TCAACACATTGAAACTTG
Found at i:1862318 original size:52 final size:52
Alignment explanation
Indices: 1862255--1862664 Score: 385
Period size: 52 Copynumber: 7.9 Consensus size: 52
1862245 TCTTCTTTCC
* *
1862255 TATCTTTAAGTCCAATGTCACTGGCCTTAAATCAGCACGTTGGCACTCTTCT
1 TATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACTCTTCT
* * *
1862307 TATCTCTAAGTCCAATGTCATTGGCCTTGAATCAGCACATTGGCACGCTTCT
1 TATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACTCTTCT
* * * *
1862359 TATCTCTAAGT-CAATGTCACTGGCCTTGAATCAACACATTAGCACTTTTCT
1 TATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACTCTTCT
* ** * ** * * *
1862410 CATCTTTAAGTCTGATATCGTTGGCCTTTAATTAGCATATTGGCAC-CTTTCAT
1 TATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACTC-TTC-T
* * * * *
1862463 TTTCTTTCAGTCTAATGTCACTGGCCTTGAATCAGCACATTAGCACTTTTCT
1 TATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACTCTTCT
* ** * ** * * *
1862515 CATCTTTAAGTCTGATATCGTTGGCCTTGAGTCAGCATATTGGCAGT-TTCAT
1 TATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACTCTTC-T
* * * * *
1862567 TTTCTTTAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGACACCCTTAT
1 TATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACTCTTCT
* * * ** *
1862619 CATCTTTAAGTCTAGTGTCACAAGCCTTGAATCTGCACATTGGCAC
1 TATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
1862665 ATTTGTCTAG
Statistics
Matches: 285, Mismatches: 67, Indels: 12
0.78 0.18 0.03
Matches are distributed among these distances:
51 47 0.16
52 197 0.69
53 41 0.14
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (52 bp):
TATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACTCTTCT
Found at i:1862503 original size:105 final size:105
Alignment explanation
Indices: 1862257--1862631 Score: 481
Period size: 104 Copynumber: 3.6 Consensus size: 105
1862247 TTCTTTCCTA
* * * * * **
1862257 TCTTTAAGTCCAATGTCACTGGCCTTAAATCAGCACGTTGGCACTCTTCTTATCTCTAAGTCCAA
1 TCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTAGCACTCTTCTCATCTTTAAGTCTGA
* * * *
1862322 TGTCATTGGCCTTGAATCAGCACATTGGCACGC-TTC-TTA
66 TATCGTTGGCCTTGAATCAGCATATTGGCAC-CTTTCATTT
* * *
1862361 TCTCTAAGT-CAATGTCACTGGCCTTGAATCAACACATTAGCACTTTTCTCATCTTTAAGTCTGA
1 TCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTAGCACTCTTCTCATCTTTAAGTCTGA
* *
1862425 TATCGTTGGCCTTTAATTAGCATATTGGCACCTTTCATTT
66 TATCGTTGGCCTTGAATCAGCATATTGGCACCTTTCATTT
* * *
1862465 TCTTTCAGTCTAATGTCACTGGCCTTGAATCAGCACATTAGCACTTTTCTCATCTTTAAGTCTGA
1 TCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTAGCACTCTTCTCATCTTTAAGTCTGA
* *
1862530 TATCGTTGGCCTTGAGTCAGCATATTGGCA-GTTTCATTT
66 TATCGTTGGCCTTGAATCAGCATATTGGCACCTTTCATTT
* * *
1862569 TCTTTAAGTCCAATGTCACTAGCCTTGAATCAGCACATT-GACACCCTTATCATCTTTAAGTCT
1 TCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTAG-CACTCTTCTCATCTTTAAGTCT
1862632 AGTGTCACAA
Statistics
Matches: 237, Mismatches: 30, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
102 1 0.00
103 76 0.32
104 80 0.34
105 80 0.34
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (105 bp):
TCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTAGCACTCTTCTCATCTTTAAGTCTGA
TATCGTTGGCCTTGAATCAGCATATTGGCACCTTTCATTT
Found at i:1867420 original size:32 final size:31
Alignment explanation
Indices: 1867335--1867436 Score: 159
Period size: 31 Copynumber: 3.3 Consensus size: 31
1867325 TCATTATATT
*
1867335 GATACATTCTGGGTTTTGACCCAAATATATC
1 GATACATTCTGGGTTTTGACCCAAATGTATC
* *
1867366 AATACATTCTAGGTTTTGACCCAAATGTATC
1 GATACATTCTGGGTTTTGACCCAAATGTATC
*
1867397 GATACATTCTGGGTTTTTGACCCAAATGTATT
1 GATACATTCTGGG-TTTTGACCCAAATGTATC
1867429 GATACATT
1 GATACATT
1867437 TTTCAATGTA
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
31 39 0.61
32 25 0.39
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (31 bp):
GATACATTCTGGGTTTTGACCCAAATGTATC
Found at i:1869124 original size:28 final size:28
Alignment explanation
Indices: 1869091--1869159 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
1869081 ATAAAATCGA
**
1869091 GGTTGGAGCATCCTTTAGAAAATAACAG
1 GGTTGGAGCATCCACTAGAAAATAACAG
* *
1869119 GGTTGGA-CTATCCACTCGAAAATAATAG
1 GGTTGGAGC-ATCCACTAGAAAATAACAG
*
1869147 GGTTGGAGTATCC
1 GGTTGGAGCATCC
1869160 CCGATGGTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (28 bp):
GGTTGGAGCATCCACTAGAAAATAACAG
Found at i:1869137 original size:107 final size:105
Alignment explanation
Indices: 1869011--1869236 Score: 285
Period size: 107 Copynumber: 2.1 Consensus size: 105
1869001 GATAAAAACG
* *
1869011 GGGTTAGAGTATCCCCTCGAAAACAACAAGGTTGGAGTATCCCCGATGGTGAAAAATCTA-TCTT
1 GGGTTGGAGTATCCACTCGAAAACAACAAGGTTGGAGTATCCCCGATGGTG-AAAAT-TAGTCTT
* * * *
1869075 TTGGAAATAAAATCGAGGTTGGAGCAT-CCTTTAGAAAATAACA
64 TTAGAAATAAAACCG-GGTTAGAGCATCCCCTTAG-AAATAACA
* * * * *
1869118 GGGTTGGACTATCCACTCGAAAATAATAGGGTTGGAGTATCCCCGATGGTGAAAATTAGTGTTTT
1 GGGTTGGAGTATCCACTCGAAAACAACAAGGTTGGAGTATCCCCGATGGTGAAAATTAGTCTTTT
* *
1869183 AGAAATAAAACCGGGTTAGAGTATCCCCTTAGAAATAACG
66 AGAAATAAAACCGGGTTAGAGCATCCCCTTAGAAATAACA
1869223 GGGTTGGAGTATCC
1 GGGTTGGAGTATCC
1869237 CCGATGGTGG
Statistics
Matches: 103, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
105 31 0.30
106 27 0.26
107 45 0.44
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (105 bp):
GGGTTGGAGTATCCACTCGAAAACAACAAGGTTGGAGTATCCCCGATGGTGAAAATTAGTCTTTT
AGAAATAAAACCGGGTTAGAGCATCCCCTTAGAAATAACA
Found at i:1869233 original size:28 final size:29
Alignment explanation
Indices: 1869181--1869238 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
1869171 AATTAGTGTT
1869181 TTAGAAATAAAACCGGGTTAGAGTATCCCC
1 TTAGAAAT-AAACCGGGTTAGAGTATCCCC
* *
1869211 TTAGAAAT-AACGGGGTTGGAGTATCCCC
1 TTAGAAATAAACCGGGTTAGAGTATCCCC
1869239 GATGGTGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 18 0.69
30 8 0.31
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (29 bp):
TTAGAAATAAACCGGGTTAGAGTATCCCC
Found at i:1869299 original size:80 final size:79
Alignment explanation
Indices: 1869146--1869586 Score: 371
Period size: 79 Copynumber: 5.6 Consensus size: 79
1869136 GAAAATAATA
*
1869146 GGGTTGGAGTATCCCCGATGGT-GAAAATTAGTGTTTTAGAAATAAAA-CCGGGTTAGAGTATCC
1 GGGTTGGAGTATCCCCGATGGTGGAAAATTAGTGTTTTAGAAATAAAATCGGGGTTAGAGTATCC
*
1869209 CCTTAGAAATAACG
66 CCCTAGAAATAACG
* * * *
1869223 GGGTTGGAGTATCCCCGATGGTGGAAAAATTGGTGCTTTAGAGATAAAATCGAGGTTAGAGTATC
1 GGGTTGGAGTATCCCCGATGGTGG-AAAATTAGTGTTTTAGAAATAAAATCGGGGTTAGAGTATC
*
1869288 CCCCTAGAAATAACA
65 CCCCTAGAAATAACG
** * * * *
1869303 GGACTAGAGTATCCTCAATGGTGGAAAATTAGTGTTTTAGAAATAAAA-CTGGGGTTGGAGTAT-
1 GGGTTGGAGTATCCCCGATGGTGGAAAATTAGTGTTTTAGAAATAAAATC-GGGGTTAGAGTATC
* *
1869366 CCCATTGAAAATAACG
65 CCCCTAG-AAATAACG
* * * ** ** * *
1869382 GGATTGAAATATCCCTAATGGTGGAAAAATCGGTGCTTTGGAGAA-AAAA-CTGGGGTTAGAGTA
1 GGGTTGGAGTATCCCCGATGGTGG-AAAATTAGTGTTTTAGA-AATAAAATC-GGGGTTAGAGTA
* * *
1869445 -CCTCCTCA-AAAAAATG
63 TCCCCCT-AGAAATAACG
* * * * * * *
1869461 GGGTTAGATTATCCCCGATGGTAGAAAATTAATTTTTTAAAAAT-AAATCGGGGTTGGAGTAT-C
1 GGGTTGGAGTATCCCCGATGGTGGAAAATTAGTGTTTTAGAAATAAAATCGGGGTTAGAGTATCC
* *
1869524 CCCTCAAAAATAATG
66 CCCT-AGAAATAACG
* * * **
1869539 GGGTTGGAGTAACCCCGATGATGAAAAATCGGTGTTTTAGAAATAAAA
1 GGGTTGGAGTATCCCCGATGGTGGAAAATTAGTGTTTTAGAAATAAAA
1869587 CATCAATGAA
Statistics
Matches: 286, Mismatches: 64, Indels: 26
0.76 0.17 0.07
Matches are distributed among these distances:
77 44 0.15
78 58 0.20
79 104 0.36
80 78 0.27
81 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCGATGGTGGAAAATTAGTGTTTTAGAAATAAAATCGGGGTTAGAGTATCC
CCCTAGAAATAACG
Found at i:1869350 original size:158 final size:157
Alignment explanation
Indices: 1869152--1869586 Score: 493
Period size: 158 Copynumber: 2.8 Consensus size: 157
1869142 AATAGGGTTG
* *
1869152 GAGTATCCCCGATGGTGAAAATTAGTGTTTTAGAAATAAAACCGGGTTAGAGTATCCCCTTAGAA
1 GAGTATCCCCGATGGTGAAAATTAGTGTTTTAGAAATAAAACGGGGTTGGAGTATCCCCTTAGAA
* *
1869217 ATAACGGGGTTGGAGTATCCCCGATGGTGGAAAAATTGGTGCTTTAGAGATAAAATC-GAGGTTA
66 ATAACGGGGTTGGAGTATCCCCGATGGTGGAAAAATCGGTGCTTTAGAGATAAAAACTGAGGTTA
*
1869281 GAGTATCCCCCT-AGAAATAACAGGACTA
131 GAGTA-CCCCCTCA-AAAAAACAGGACTA
* * *
1869309 GAGTATCCTCAATGGTGGAAAATTAGTGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCATT-G
1 GAGTATCCCCGATGGT-GAAAATTAGTGTTTTAGAAATAAAAC-GGGGTTGGAGTATCCCCTTAG
* * * ** * *
1869373 AAAATAACGGGATTGAAATATCCCTAATGGTGGAAAAATCGGTGCTTTGGAGA-AAAAACTGGGG
64 -AAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAAATCGGTGCTTTAGAGATAAAAACTGAGG
* ** **
1869437 TTAGAGTACCTCCTCAAAAAAATGGGGTTA
128 TTAGAGTACCCCCTCAAAAAAACAGGACTA
* * * * * * *
1869467 GATTATCCCCGATGGTAGAAAATTAATTTTTTAAAAATAAATCGGGGTTGGAGTATCCCCTCAAA
1 GAGTATCCCCGATGGT-GAAAATTAGTGTTTTAGAAATAAAACGGGGTTGGAGTATCCCCTTAGA
* * * * *
1869532 AATAATGGGGTTGGAGTAACCCCGATGAT-GAAAAATCGGTGTTTTAGAAATAAAA
65 AATAACGGGGTTGGAGTATCCCCGATGGTGGAAAAATCGGTGCTTTAGAGATAAAA
1869587 CATCAATGAA
Statistics
Matches: 229, Mismatches: 42, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
156 18 0.08
157 57 0.25
158 81 0.35
159 73 0.32
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (157 bp):
GAGTATCCCCGATGGTGAAAATTAGTGTTTTAGAAATAAAACGGGGTTGGAGTATCCCCTTAGAA
ATAACGGGGTTGGAGTATCCCCGATGGTGGAAAAATCGGTGCTTTAGAGATAAAAACTGAGGTTA
GAGTACCCCCTCAAAAAAACAGGACTA
Found at i:1869545 original size:28 final size:30
Alignment explanation
Indices: 1869499--1869554 Score: 89
Period size: 28 Copynumber: 1.9 Consensus size: 30
1869489 TTAATTTTTT
*
1869499 AAAAATAAATCGGGGTTGGAGTATCCCCTC
1 AAAAATAAATCGGGGTTGGAGTAACCCCTC
1869529 AAAAAT-AAT-GGGGTTGGAGTAACCCC
1 AAAAATAAATCGGGGTTGGAGTAACCCC
1869555 GATGATGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 16 0.64
29 3 0.12
30 6 0.24
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (30 bp):
AAAAATAAATCGGGGTTGGAGTAACCCCTC
Found at i:1871966 original size:20 final size:18
Alignment explanation
Indices: 1871941--1872006 Score: 50
Period size: 20 Copynumber: 3.7 Consensus size: 18
1871931 TGCCTGAATA
1871941 TATCGATACATTGAGAAATG
1 TATCGATACATT-A-AAATG
1871961 TATCG--ACA-T-AAATG
1 TATCGATACATTAAAATG
**
1871975 TATCGATACATTTACTTATG
1 TATCGATACA-TTA-AAATG
1871995 TATCGATACATT
1 TATCGATACATT
1872007 TCCTTGGCAG
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
14 10 0.26
16 3 0.08
17 1 0.03
18 4 0.11
19 2 0.05
20 18 0.47
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (18 bp):
TATCGATACATTAAAATG
Found at i:1876410 original size:51 final size:51
Alignment explanation
Indices: 1876350--1876537 Score: 188
Period size: 51 Copynumber: 3.6 Consensus size: 51
1876340 ATTTGCCTGC
**
1876350 ATGTATCGATACATTGAAT-AATGTATCGATACATCTAGGTAAAATTCCCAG
1 ATGTATCGATACAAAG-ATCAATGTATCGATACATCTAGGTAAAATTCCCAG
* * * ** *
1876401 ATGTATCGATAGAAAGATCAATGTATCGATACAATGTATCG-ATGCATT--GAG
1 ATGTATCGATACAAAGATCAATGTATCGATAC-ATCTA-GGTA-AAATTCCCAG
**
1876452 TAATGTATCGATACATTGAAT-AATGTATCGATACATCTAGGTAAAATTCCCAG
1 --ATGTATCGATACAAAG-ATCAATGTATCGATACATCTAGGTAAAATTCCCAG
1876505 ATGTATCGATACAAAGATCAATGTATCGATACA
1 ATGTATCGATACAAAGATCAATGTATCGATACA
1876538 ATGTATCGAT
Statistics
Matches: 108, Mismatches: 18, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
50 4 0.04
51 60 0.56
52 10 0.09
53 32 0.30
54 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.30
Consensus pattern (51 bp):
ATGTATCGATACAAAGATCAATGTATCGATACATCTAGGTAAAATTCCCAG
Found at i:1876437 original size:13 final size:13
Alignment explanation
Indices: 1876419--1876443 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1876409 ATAGAAAGAT
1876419 CAATGTATCGATA
1 CAATGTATCGATA
1876432 CAATGTATCGAT
1 CAATGTATCGAT
1876444 GCATTGAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1876458 original size:20 final size:20
Alignment explanation
Indices: 1876433--1876487 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
1876423 GTATCGATAC
* *
1876433 AATGTATCGATGCATTGAGT
1 AATGTATCGATACATTGAAT
1876453 AATGTATCGATACATTGAAT
1 AATGTATCGATACATTGAAT
1876473 AATGTATCGATACAT
1 AATGTATCGATACAT
1876488 CTAGGTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTGAAT
Found at i:1876530 original size:104 final size:104
Alignment explanation
Indices: 1876350--1876572 Score: 437
Period size: 104 Copynumber: 2.1 Consensus size: 104
1876340 ATTTGCCTGC
*
1876350 ATGTATCGATACATTGAATAATGTATCGATACATCTAGGTAAAATTCCCAGATGTATCGATAGAA
1 ATGTATCGATACATTGAATAATGTATCGATACATCTAGGTAAAATTCCCAGATGTATCGATACAA
1876415 AGATCAATGTATCGATACAATGTATCGATGCATTGAGTA
66 AGATCAATGTATCGATACAATGTATCGATGCATTGAGTA
1876454 ATGTATCGATACATTGAATAATGTATCGATACATCTAGGTAAAATTCCCAGATGTATCGATACAA
1 ATGTATCGATACATTGAATAATGTATCGATACATCTAGGTAAAATTCCCAGATGTATCGATACAA
1876519 AGATCAATGTATCGATACAATGTATCGATGCATTGAGTA
66 AGATCAATGTATCGATACAATGTATCGATGCATTGAGTA
1876558 ATGTATCGATACATT
1 ATGTATCGATACATT
1876573 TTCTTGGCAG
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 118 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (104 bp):
ATGTATCGATACATTGAATAATGTATCGATACATCTAGGTAAAATTCCCAGATGTATCGATACAA
AGATCAATGTATCGATACAATGTATCGATGCATTGAGTA
Found at i:1876541 original size:13 final size:13
Alignment explanation
Indices: 1876523--1876547 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1876513 ATACAAAGAT
1876523 CAATGTATCGATA
1 CAATGTATCGATA
1876536 CAATGTATCGAT
1 CAATGTATCGAT
1876548 GCATTGAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1876629 original size:19 final size:18
Alignment explanation
Indices: 1876605--1876666 Score: 55
Period size: 19 Copynumber: 3.7 Consensus size: 18
1876595 AGCGATACAT
1876605 TGTATCGATACAACACTAA
1 TGTATCGATACAACACT-A
1876624 TGTATCG----AACA-T-
1 TGTATCGATACAACACTA
*
1876636 TGTATCGGTACAACACTTA
1 TGTATCGATACAACAC-TA
1876655 TGTATCGATACA
1 TGTATCGATACA
1876667 TTTACTGCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 14
0.70 0.02 0.28
Matches are distributed among these distances:
12 7 0.20
14 1 0.03
15 4 0.11
16 4 0.11
18 1 0.03
19 18 0.51
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (18 bp):
TGTATCGATACAACACTA
Found at i:1876639 original size:31 final size:32
Alignment explanation
Indices: 1876597--1876668 Score: 119
Period size: 31 Copynumber: 2.3 Consensus size: 32
1876587 AGCTTCATAG
1876597 CGATACATTGTATCGATACAACACTAATGTAT
1 CGATACATTGTATCGATACAACACTAATGTAT
* *
1876629 CGA-ACATTGTATCGGTACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTAATGTAT
1876660 CGATACATT
1 CGATACATT
1876669 TACTGCTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 29 0.78
32 8 0.22
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTAATGTAT
Found at i:1877631 original size:52 final size:49
Alignment explanation
Indices: 1877364--1877828 Score: 303
Period size: 49 Copynumber: 9.8 Consensus size: 49
1877354 CGAAGAATGA
* * * *
1877364 CAATGTGCTGATTCATGGCCAGCAACATTAGATTTAAAGA-AGAA--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATA-AAGGTGC
** * * * * *
1877411 CAATGTGCTGAGACAAGGCCAGTGACTTTGGGCTTAGGAATGTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA--AA-GATAAAGGTGC
* * * ** * *
1877463 CAATATGCTGATTCAAGGCCAACGATATCAGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGC
* *
1877512 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTGAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGC
* * ** *
1877561 CAATATGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGGTTGAGGTGT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA---TAAAGGTGC
* * * * * * *
1877613 CGATGTGCTGATTTAAGGCCAACGACATCGGTCTTCAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGC
* * *
1877662 CAATATGCTGATTCAAGGCCAGCGATATTGGA--T-----T---CGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGC
* *
1877701 CAATGTGCTGATTCAAGGCCAGTGACATTGGGC-T-----T----GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGC
* * * *
1877740 CAATGTGCTGATTCAAGGCCAACAACATTGGTCTTAAAGACAAA-GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGC
* *
1877788 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA-AAGA
1877829 AGACGCCACC
Statistics
Matches: 327, Mismatches: 71, Indels: 38
0.75 0.16 0.09
Matches are distributed among these distances:
39 65 0.20
40 3 0.01
42 1 0.00
47 28 0.09
48 35 0.11
49 122 0.37
50 5 0.02
51 1 0.00
52 67 0.20
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGC
Found at i:1877659 original size:101 final size:98
Alignment explanation
Indices: 1877454--1877693 Score: 318
Period size: 101 Copynumber: 2.4 Consensus size: 98
1877444 TTAGGAATGT
* * **
1877454 TAAAGATGCCAATATGCTGATTCAAGGCCAACGATATCAGACTTAAAGATGAAGATGCCAATGTG
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTG
* * *
1877519 CTGATTCAAGGCCAGCGACATTGGTCTTGAAGA
66 CTGATTCAAGGCCAACGACATCGGTCTTCAAGA
* * * * * *
1877552 TAAAGGTGCCAATATGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGGTTGAGGTGTCGAT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGATGCCAAT
*
1877617 GTGCTGATTTAAGGCCAACGACATCGGTCTTCAAGA
63 GTGCTGATTCAAGGCCAACGACATCGGTCTTCAAGA
*
1877653 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1877694 TTCGTGCCAA
Statistics
Matches: 122, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 44 0.36
99 1 0.01
101 77 0.63
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (98 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTG
CTGATTCAAGGCCAACGACATCGGTCTTCAAGA
Found at i:1877712 original size:39 final size:39
Alignment explanation
Indices: 1877658--1877770 Score: 156
Period size: 39 Copynumber: 2.9 Consensus size: 39
1877648 CAAGATGAAG
* *
1877658 GTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGATT
* *
1877696 CGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGGCTT
1 -GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGATT
* *
1877736 GTGCCAATGTGCTGATTCAAGGCCAACAACATTGG
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
1877771 TCTTAAAGAC
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 62 0.94
40 4 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGATT
Found at i:1877818 original size:48 final size:49
Alignment explanation
Indices: 1877736--1877828 Score: 134
Period size: 48 Copynumber: 1.9 Consensus size: 49
1877726 CATTGGGCTT
* *
1877736 GTGCCAATGTGCTGATTCAAGGCCAACAACATTGGTCTTA-AAGACAAA
1 GTGCCAATATGCTGATTCAAGGCCAACAACATTGGACTTAGAAGACAAA
* * *
1877784 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 GTGCCAATATGCTGATTCAAGGCCAACAACATTGGACTTAGAAGA
1877829 AGACGCCACC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 35 0.90
49 4 0.10
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (49 bp):
GTGCCAATATGCTGATTCAAGGCCAACAACATTGGACTTAGAAGACAAA
Found at i:1877932 original size:57 final size:56
Alignment explanation
Indices: 1877845--1877969 Score: 153
Period size: 57 Copynumber: 2.2 Consensus size: 56
1877835 CACCAACTTG
* * *
1877845 TGTGGGCTTTTGAAAGGGTTGCACCAACTTGTGTGCTTTTG-AAGGTTGCCATTGACT
1 TGTGGGC-TTTGAAAGGGGTGCACCAACTTGTGGGCTTTTGAAAGG-TGCCACTGACT
* *
1877902 TGTGGGCTTTGAAAGGGGTGCCACCGACTTGTGGGTTTTTGAAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGGTG-CACCAACTTGTGGGCTTTTG--AAAGGTGCCACTGACT
1877961 TGTGGGCTT
1 TGTGGGCTT
1877970 AAAAAGAGAA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
56 12 0.20
57 24 0.41
59 19 0.32
60 4 0.07
ACGTcount: A:0.18, C:0.16, G:0.33, T:0.34
Consensus pattern (56 bp):
TGTGGGCTTTGAAAGGGGTGCACCAACTTGTGGGCTTTTGAAAGGTGCCACTGACT
Found at i:1877945 original size:30 final size:30
Alignment explanation
Indices: 1877845--1877969 Score: 132
Period size: 29 Copynumber: 4.3 Consensus size: 30
1877835 CACCAACTTG
* *
1877845 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGCTTTTGAAAGGGGTGCCACCGACT
* * **
1877874 TGTGTGCTTTTG-AA-GGTTGCCATTGACT
1 TGTGGGCTTTTGAAAGGGGTGCCACCGACT
1877902 TGTGGGC-TTTGAAAGGGGTGCCACCGACT
1 TGTGGGCTTTTGAAAGGGGTGCCACCGACT
* ** *
1877931 TGTGGGTTTTTGAAAAAGGTGCCACTGACT
1 TGTGGGCTTTTGAAAGGGGTGCCACCGACT
1877961 TGTGGGCTT
1 TGTGGGCTT
1877970 AAAAAGAGAA
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
27 9 0.11
28 15 0.19
29 28 0.35
30 27 0.34
ACGTcount: A:0.18, C:0.16, G:0.33, T:0.34
Consensus pattern (30 bp):
TGTGGGCTTTTGAAAGGGGTGCCACCGACT
Found at i:1878019 original size:27 final size:27
Alignment explanation
Indices: 1877983--1878089 Score: 169
Period size: 27 Copynumber: 4.0 Consensus size: 27
1877973 AAGAGAAAGA
* *
1877983 TGCCATGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTATGGACTTAAAAGGG
*
1878010 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTATGGACTTAAAAGGG
* *
1878037 TGCCATGGAGTTATGCACTTAAAAGGG
1 TGCCACGGAGTTATGGACTTAAAAGGG
1878064 TGCCACGGAGTTATGGACTTAAAAGG
1 TGCCACGGAGTTATGGACTTAAAAGG
1878090 AAAAAAAGTG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.24
Consensus pattern (27 bp):
TGCCACGGAGTTATGGACTTAAAAGGG
Found at i:1878047 original size:54 final size:54
Alignment explanation
Indices: 1877983--1878089 Score: 187
Period size: 54 Copynumber: 2.0 Consensus size: 54
1877973 AAGAGAAAGA
* * *
1877983 TGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCATGGAGTTATGCACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGG
1878037 TGCCATGGAGTTATGCACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGG
1 TGCCATGGAGTTATGCACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGG
1878090 AAAAAAAGTG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.24
Consensus pattern (54 bp):
TGCCATGGAGTTATGCACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGG
Found at i:1878101 original size:34 final size:34
Alignment explanation
Indices: 1878057--1878523 Score: 594
Period size: 34 Copynumber: 14.0 Consensus size: 34
1878047 TTATGCACTT
* * *
1878057 AAAAGGGTGCCACGGAGTTATGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* * *
1878091 AAAAAAGTGCCACAGAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGA
* *
1878126 AAAA-AGATGCCACAGAGTTGTGGACTTAAAAGGA
1 AAAAGAG-TGCCACGGAGTTGTGGGCTTAAAAGGA
*
1878160 AAAATAGTGCCACGGAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* * *
1878194 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAAG-
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* * *
1878227 AAAA-TGTGCCATGGAGTTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
**
1878260 AAAAGAGTGCCATAGAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* *
1878294 GAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGG
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
**
1878328 AAAAGAGTGCCACAAAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* *
1878362 GAAAGAGTGCCACAGAGTTGTGGGCTTAAAA-G-
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
*
1878394 ----G-GTGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
*
1878423 AAAAGAATGCCACGGAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* * *
1878457 AAAAGAGTGCCATGGAGTTATGGGCTTAAAAGGG
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
1878491 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGG
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGG
1878524 GTGCCATGCA
Statistics
Matches: 381, Mismatches: 40, Indels: 24
0.86 0.09 0.05
Matches are distributed among these distances:
27 23 0.06
28 2 0.01
32 25 0.07
33 10 0.03
34 290 0.76
35 31 0.08
ACGTcount: A:0.37, C:0.11, G:0.33, T:0.19
Consensus pattern (34 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
Found at i:1878358 original size:27 final size:27
Alignment explanation
Indices: 1878328--1878420 Score: 87
Period size: 27 Copynumber: 3.2 Consensus size: 27
1878318 CTTAAAAGGG
*
1878328 AAAAGAGTGCCACAAAGTTGTGGGCTT
1 AAAAGAGTGCCACAGAGTTGTGGGCTT
1878355 AAAAGGAGAAAGAGTGCCACAGAGTTGTGGGCTT
1 ---A--A-A-AGAGTGCCACAGAGTTGTGGGCTT
* * *
1878389 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGAGTGCCACAGAGTTGTGGGCTT
1878416 AAAAG
1 AAAAG
1878421 GAAAAAGAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
27 26 0.47
28 1 0.02
29 1 0.02
30 1 0.02
31 1 0.02
32 1 0.02
33 1 0.02
34 23 0.42
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.19
Consensus pattern (27 bp):
AAAAGAGTGCCACAGAGTTGTGGGCTT
Found at i:1878421 original size:27 final size:27
Alignment explanation
Indices: 1878363--1878421 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
1878353 TTAAAAGGAG
* *
1878363 AAAGAGTGCCACAGAGTTGTGGGCTTA
1 AAAGGGTGCCACAGAGTTGTGGACTTA
*
1878390 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACAGAGTTGTGGACTTA
1878417 AAAGG
1 AAAGG
1878422 AAAAAGAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.36, T:0.20
Consensus pattern (27 bp):
AAAGGGTGCCACAGAGTTGTGGACTTA
Found at i:1878428 original size:61 final size:61
Alignment explanation
Indices: 1878328--1878544 Score: 245
Period size: 61 Copynumber: 3.4 Consensus size: 61
1878318 CTTAAAAGGG
* ** * * *
1878328 AAAAGAGTGCCACAAAGTTGTGGGCTTAAAAGGAGAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
*
1878389 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
* * * *
1878450 AAAAGGAAAAAGAGTGCCATGGAGTTATGGGCTTAAAAGGGAAAAGAGTGCCACGGAGTTGTGGG
1 AAAA-G-----G-GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGG
1878515 CTT
59 CTT
* * *
1878518 AAAAGGGTGCCATGCAGTCGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
1878545 TGAGAAGAGA
Statistics
Matches: 133, Mismatches: 16, Indels: 14
0.82 0.10 0.09
Matches are distributed among these distances:
61 75 0.56
62 2 0.02
67 2 0.02
68 54 0.41
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (61 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
Found at i:1878449 original size:129 final size:129
Alignment explanation
Indices: 1878133--1878529 Score: 541
Period size: 129 Copynumber: 3.0 Consensus size: 129
1878123 AGAAAAAAGA
*
1878133 TGCCACAGAGTTGTGGACTTAAAAGGAAAAATAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAA
1 TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAA
* * * *
1878198 GGGTGCCACGGAGTTGTGGACTTAAAA--AGAAA-ATGTGCCATGGAGTTGTGGACTTAAAAGGA
66 GAGTGCCACGGAGTTGTGGGCTTAAAAGGAGAAAGA-GTGCCACGGAGTTGTGGGCTTAAAA-G-
1878260 AAAAGAG
128 ----G-G
* * * *
1878267 TGCCATAGAGTTGTGGGCTTAAAAGGAGAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGAAAA
1 TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAA
** *
1878332 GAGTGCCACAAAGTTGTGGGCTTAAAAGGAGAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGG
66 GAGTGCCACGGAGTTGTGGGCTTAAAAGGAGAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGG
* *
1878396 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGGCTTAAAAGGAAAAA
1 TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAA
* *
1878461 GAGTGCCATGGAGTTATGGGCTTAAAAGG-GAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGG
66 GAGTGCCACGGAGTTGTGGGCTTAAAAGGAG-AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGG
1878525 TGCCA
1 TGCCA
1878530 TGCAGTCGTG
Statistics
Matches: 236, Mismatches: 23, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
128 1 0.00
129 122 0.52
130 1 0.00
134 83 0.35
135 1 0.00
136 27 0.11
137 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.34, T:0.20
Consensus pattern (129 bp):
TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAA
GAGTGCCACGGAGTTGTGGGCTTAAAAGGAGAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGG
Found at i:1878488 original size:95 final size:96
Alignment explanation
Indices: 1878097--1878487 Score: 439
Period size: 95 Copynumber: 4.0 Consensus size: 96
1878087 AGGAAAAAAA
* *
1878097 GTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAA-AGATGCCACAGAGTTGTGGACTTAAAAGGAA
1 GTGCCACGGAGTTGTGGAC-TTAAAAAGAAAAAGA-ATGCCACAGAGTTGTGGACTTAAAAGGAA
* *
1878161 AAATAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGG
64 AAAGAGTGCCACAGAGTTGTGGGCTT------AAAAAGG
* **
1878200 GTGCCACGGAGTTGTGGACTTAAAAAGAAAATG--TGCCATGGAGTTGTGGACTTAAAAGGAAAA
1 GTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGAATGCCACAGAGTTGTGGACTTAAAAGGAAAA
*
1878263 AGAGTGCCATAGAGTTGTGGGCTTAAAAGGAGAAAG
66 AGAGTGCCACAGAGTTGTGGGCTTAAAA--AG---G
* * * * * * *
1878299 AGTGCCACGGAGTTGTGGGCTTAAAAGGGAAAAGAGTGCCACAAAGTTGTGGGCTTAAAAGGAGA
1 -GTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGAATGCCACAGAGTTGTGGACTTAAAAGGAAA
1878364 AAGAGTGCCACAGAGTTGTGGGCTT-AAAAGG
65 AAGAGTGCCACAGAGTTGTGGGCTTAAAAAGG
* * *
1878395 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGGCTTAAAAGGAAAA
1 GTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGAATGCCACAGAGTTGTGGACTTAAAAGGAAAA
** *
1878460 AGAGTGCCATGGAGTTATGGGCTTAAAA
66 AGAGTGCCACAGAGTTGTGGGCTTAAAA
1878488 GGGAAAAGAG
Statistics
Matches: 251, Mismatches: 27, Indels: 27
0.82 0.09 0.09
Matches are distributed among these distances:
94 4 0.02
95 80 0.32
96 6 0.02
99 3 0.01
100 78 0.31
101 3 0.01
102 60 0.24
103 17 0.07
ACGTcount: A:0.36, C:0.12, G:0.32, T:0.20
Consensus pattern (96 bp):
GTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGAATGCCACAGAGTTGTGGACTTAAAAGGAAAA
AGAGTGCCACAGAGTTGTGGGCTTAAAAAGG
Found at i:1878560 original size:31 final size:31
Alignment explanation
Indices: 1878525--1878838 Score: 386
Period size: 31 Copynumber: 10.0 Consensus size: 31
1878515 CTTAAAAGGG
1878525 TGCCA-TGCAGTCGTGGACTTTG-AGAAGAGA
1 TGCCACTG-AGTCGTGGACTTTGAAGAAGAGA
* *
1878555 TTGCCACTAAGTCGTGGACTTTGAAGAAAAGA
1 -TGCCACTGAGTCGTGGACTTTGAAGAAGAGA
*
1878587 TGCCACTGAGTCGTGGACTTTG-GGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAGAGA
* * * *
1878617 TGCCATTGAGTCGTGGACTTGGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAGAGA
1878648 TGCCACTGAGTCGTGGACTTTG-AGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAGAGA
* *
1878678 TGCCACTGAGTCGTGGACTTTAAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAG--AAGAGA
* *
1878711 TGCCACTGAGTCGTGGACTTGGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAG--AAGAGA
*
1878744 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAGAGA
*
1878775 TGCCACTAAGTCGTGGACTTTGGGAA-AAGAGA
1 TGCCACTGAGTCGTGGACTTT--GAAGAAGAGA
* *
1878807 TGCCACTGAGTTGTGGACTTCGAAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAGAGA
1878838 T
1 T
1878839 TTGAAGAATT
Statistics
Matches: 250, Mismatches: 24, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
30 56 0.22
31 100 0.40
32 31 0.12
33 63 0.25
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.23
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAGAGA
Found at i:1878651 original size:61 final size:61
Alignment explanation
Indices: 1878525--1878833 Score: 406
Period size: 61 Copynumber: 4.9 Consensus size: 61
1878515 CTTAAAAGGG
* * *
1878525 TGCCA-TGCAGTCGTGGACTTTGAGAAGAGATTGCCACTAAGTCGTGGACTTTGAAGAAAAGA
1 TGCCACTG-AGTCGTGGACTTTGGGAAGAGA-TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
* *
1878587 TGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCATTGAGTCGTGGACTTGGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAA
* *
1878648 TGCCACTGAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTAAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTGAAG-AAAAA-A
* *
1878711 TGCCACTGAGTCGTGGAC-TTGGAAGAAAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGG--G--AAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAA
* * *
1878775 TGCCACTAAGTCGTGGACTTTGGGAAAAGAGATGCCACTGAGTTGTGGACTTCGAAGAA
1 TGCCACTGAGTCGTGGACTTTGGG--AAGAGATGCCACTGAGTCGTGGACTTTGAAGAA
1878834 GAGATTTGAA
Statistics
Matches: 222, Mismatches: 17, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
61 78 0.35
62 34 0.15
63 54 0.24
64 19 0.09
65 8 0.04
66 29 0.13
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (61 bp):
TGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAA
Found at i:1879835 original size:18 final size:18
Alignment explanation
Indices: 1879814--1879848 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1879804 TTCACTGAGA
1879814 TTTTCTG-TTTTGTTTTTT
1 TTTTCTGCTTTT-TTTTTT
1879832 TTTTCTGCTTTTTTTTT
1 TTTTCTGCTTTTTTTTT
1879849 GTTGGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.83
Consensus pattern (18 bp):
TTTTCTGCTTTTTTTTTT
Found at i:1887254 original size:20 final size:20
Alignment explanation
Indices: 1887201--1887255 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
1887191 AAATTCCTAG
**
1887201 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
1887221 ATGTATCGATACATTGAAT-A
1 ATGTATCGATACATTG-ATCA
1887241 ATGTATCGATACATT
1 ATGTATCGATACATT
1887256 TCCTTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:1889455 original size:51 final size:52
Alignment explanation
Indices: 1889391--1889510 Score: 197
Period size: 51 Copynumber: 2.3 Consensus size: 52
1889381 TCTGGGAAGA
*
1889391 AAATGTATCGATACATTTTTTATTGTATCGATACATTTTGGG-TTTTGACCC
1 AAATGTATCGATACATTTTTTATAGTATCGATACATTTTGGGTTTTTGACCC
* *
1889442 AATTGTATCGATACATTTTTTATAGTATCGATACATTTTGGGTTTTTGATCC
1 AAATGTATCGATACATTTTTTATAGTATCGATACATTTTGGGTTTTTGACCC
*
1889494 AAATGTATCAATACATT
1 AAATGTATCGATACATT
1889511 CTTCAATAGA
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
51 40 0.63
52 23 0.37
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.45
Consensus pattern (52 bp):
AAATGTATCGATACATTTTTTATAGTATCGATACATTTTGGGTTTTTGACCC
Found at i:1891203 original size:28 final size:28
Alignment explanation
Indices: 1891171--1891229 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
1891161 TTTCCAAATA
1891171 TTTTTCCTCAAATCTTCATGAAATTTTC
1 TTTTTCCTCAAATCTTCATGAAATTTTC
1891199 TTTTTCCTCAAATCTTCATGAAATTTTC
1 TTTTTCCTCAAATCTTCATGAAATTTTC
1891227 TTT
1 TTT
1891230 CCTGAAAGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.24, C:0.20, G:0.03, T:0.53
Consensus pattern (28 bp):
TTTTTCCTCAAATCTTCATGAAATTTTC
Found at i:1892335 original size:13 final size:13
Alignment explanation
Indices: 1892317--1892343 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1892307 ACAAACAGTA
1892317 AATGTATCGATAC
1 AATGTATCGATAC
1892330 AATGTATCGATAC
1 AATGTATCGATAC
1892343 A
1 A
1892344 TAAGTTTTGT
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:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1892476 original size:20 final size:21
Alignment explanation
Indices: 1892437--1892479 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
1892427 TTTGAAAATT
*
1892437 TTACCCAGATGTATTAATACA
1 TTACCCAGATGTATCAATACA
*
1892458 TTACCCA-ATGTATCGATACA
1 TTACCCAGATGTATCAATACA
1892478 TT
1 TT
1892480 CAGGCATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (21 bp):
TTACCCAGATGTATCAATACA
Found at i:1894818 original size:51 final size:51
Alignment explanation
Indices: 1894762--1894999 Score: 293
Period size: 51 Copynumber: 4.6 Consensus size: 51
1894752 TTAAGTTTCT
* *
1894762 CAATTTTTCATAATCGGGGGTACTCCAACCCC-AGTTTTA-TTTCTAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGA-TTTTATTTTC-AAAACAC
* * *
1894813 TAATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTTCGAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* * *
1894864 CAGTTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* * * * *
1894915 CAA-TTTTCTATAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAATAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACAC
*
1894967 CAATTTTTCACAATTGGGGATACTCCAACCCCG
1 CAATTTTTCACAATCGGGGATACTCCAACCCCG
1895000 TTAATCATCG
Statistics
Matches: 159, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
50 4 0.03
51 116 0.73
52 34 0.21
53 5 0.03
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
Found at i:1895012 original size:27 final size:28
Alignment explanation
Indices: 1894982--1895054 Score: 105
Period size: 27 Copynumber: 2.6 Consensus size: 28
1894972 TTTCACAATT
*
1894982 GGGGATACTCCAACCCCGTTA-AT-CATC
1 GGGGATACTCCAACCCCGTTATATCCA-A
*
1895009 GGGGATACTCCAACCCCGTTATTTCCAA
1 GGGGATACTCCAACCCCGTTATATCCAA
1895037 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1895055 GTTTTATTCC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
27 21 0.50
28 19 0.45
29 2 0.05
ACGTcount: A:0.25, C:0.34, G:0.21, T:0.21
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATATCCAA
Found at i:1895089 original size:79 final size:79
Alignment explanation
Indices: 1895006--1895526 Score: 819
Period size: 79 Copynumber: 6.6 Consensus size: 79
1894996 CCCGTTAATC
* *
1895006 ATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGGTTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
*
1895071 ATTGATTTCTCATA
66 ATTGATTTCTCACA
*
1895085 ATCGGGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
* *
1895150 ATTCATTTC-CTATA
66 ATTGATTTCTC-ACA
* *
1895164 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAAACCCTGGCTTTATTTCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCC-AACCCCGGCTTTATTCCTAAAA
1895229 TATTGATTTCTCACA
65 TATTGATTTCTCACA
* * * * * * *
1895244 ATTGGGAATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
1895309 ATTGATTTCTCACA
66 ATTGATTTCTCACA
* *
1895323 ATCGGGGATACTCCAACCTCGTTATTTCCGAGGAGATACTCCAACCCCGGCTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
1895388 ATTGATTTCTCACA
66 ATTGATTTCTCACA
* *
1895402 ATCAGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
1895467 ATTGATTTCTCACA
66 ATTGATTTCTCACA
** *
1895481 ATCGGGGATACTCCAACCCCGTTATTTTTGCGGGGATACTCCAACC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACC
1895527 TCGTTATTTT
Statistics
Matches: 406, Mismatches: 33, Indels: 6
0.91 0.07 0.01
Matches are distributed among these distances:
78 1 0.00
79 335 0.83
80 69 0.17
81 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
ATTGATTTCTCACA
Found at i:1895120 original size:107 final size:107
Alignment explanation
Indices: 1894930--1895133 Score: 257
Period size: 107 Copynumber: 1.9 Consensus size: 107
1894920 TTCTATAATC
* * * *
1894930 GGGGATACTCCAACTCTGATTTTATTTCCAAAAATACCAATTTTTCACAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAATACCAATTTCTCACAATCGGGGATACTCCAA
**
1894995 CCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCAA
66 CCCCGTTAATCAGAGGGGATACTCCAACCCCGTTATTTCCAA
* * *** *
1895037 GGGGATACTCCAACCCCGGTTTTA-TTCCTAAAATATTGATTTCTCATAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAATACCAATTTCTCACAATCGGGGATACTCCAA
* * *
1895101 CCTCGTTATTTCCGAGGGGATACTCCAACCCCG
66 CCCCGTTA-ATCAGAGGGGATACTCCAACCCCG
1895134 GCTTTATTCC
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
106 40 0.49
107 41 0.51
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.29
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAAATACCAATTTCTCACAATCGGGGATACTCCAA
CCCCGTTAATCAGAGGGGATACTCCAACCCCGTTATTTCCAA
Found at i:1895297 original size:238 final size:237
Alignment explanation
Indices: 1895006--1895529 Score: 861
Period size: 238 Copynumber: 2.2 Consensus size: 237
1894996 CCCGTTAATC
* * * *
1895006 ATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGGTTTTATTCCTAAAAT
1 ATCGGGAATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTCCTAAAAT
* *
1895071 ATTGATTTCTCATAATCGGGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAACCCCGGC
66 ATTGATTTCTCACAATCGGGGATACTCCAACCTCGTTATTTCCGAGGAGATACTCCAACCCCGGC
* *
1895136 TTTATTCCTAAAATATTCATTTC-CTATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGA
131 TTTATTCCTAAAATATTCATTTCTC-ACAATCAGGGATACTCCAACCCCGTTATTTCCGAGGGGA
* *
1895200 TACTCCAAACCCTGGCTTTATTTCTAAAATATTGATTTCTCACA
195 TACTCC-AACCCCGGCTTTATTCCTAAAATATTGATTTCTCACA
* * *
1895244 ATTGGGAATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAAT
1 ATCGGGAATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTCCTAAAAT
1895309 ATTGATTTCTCACAATCGGGGATACTCCAACCTCGTTATTTCCGAGGAGATACTCCAACCCCGGC
66 ATTGATTTCTCACAATCGGGGATACTCCAACCTCGTTATTTCCGAGGAGATACTCCAACCCCGGC
*
1895374 TTTATTCCTAAAATATTGATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCCGAGGGGAT
131 TTTATTCCTAAAATATTCATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCCGAGGGGAT
*
1895439 ACTCCAACCCCGGTTTTATTCCTAAAATATTGATTTCTCACA
196 ACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACA
* * *
1895481 ATCGGGGATACTCCAACCCCGTTATTTTTGCGGGGATACTCCAACCTCG
1 ATCGGGAATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCG
1895530 TTATTTTTGA
Statistics
Matches: 265, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
237 78 0.29
238 186 0.70
239 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (237 bp):
ATCGGGAATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTCCTAAAAT
ATTGATTTCTCACAATCGGGGATACTCCAACCTCGTTATTTCCGAGGAGATACTCCAACCCCGGC
TTTATTCCTAAAATATTCATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCCGAGGGGAT
ACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACA
Found at i:1895523 original size:28 final size:28
Alignment explanation
Indices: 1895483--1895555 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
1895473 TTCTCACAAT
1895483 CGGGGATACTCCAACCCCGTTATTTTTG
1 CGGGGATACTCCAACCCCGTTATTTTTG
*
1895511 CGGGGATACTCCAACCTCGTTATTTTTG
1 CGGGGATACTCCAACCCCGTTATTTTTG
**
1895539 AAGGGATACTCCAACCC
1 CGGGGATACTCCAACCC
1895556 TGATTTTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (28 bp):
CGGGGATACTCCAACCCCGTTATTTTTG
Found at i:1895596 original size:107 final size:107
Alignment explanation
Indices: 1895406--1895608 Score: 248
Period size: 107 Copynumber: 1.9 Consensus size: 107
1895396 CTCACAATCA
* * * ***
1895406 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTCCTAAAATATTG
1 GGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCGATTTTATTCCTAAAACACCA
*
1895471 ATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTTGCG
66 ATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTTTGCG
* ** * *
1895513 GGGATACTCCAACCTCGTTATTTTTGAAGGGATACTCCAACCCTGATTTTATT-TTCAAAACACC
1 GGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCGATTTTATTCCT-AAAACACC
* *
1895577 AATTT-TCTATAATTAGGGATACTCCAACCCCG
65 AATTTCTC-ACAATCAGGGATACTCCAACCCCG
1895609 ATTTTATTTC
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
106 3 0.04
107 77 0.96
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (107 bp):
GGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCGATTTTATTCCTAAAACACCA
ATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTTTGCG
Found at i:1895605 original size:51 final size:51
Alignment explanation
Indices: 1895540--1895659 Score: 152
Period size: 51 Copynumber: 2.4 Consensus size: 51
1895530 TTATTTTTGA
* * * *
1895540 AGGGATACTCCAACCCTGATTTTATTTTCA-AAACACCAATTTTCTATAATT
1 AGGGATACTCCAACCCCGATTTTATTTCCAGAAA-ACCAATTTTCCATAATC
* *
1895591 AGGGATACTCCAACCCCGATTTTATTTCCAGAAAATCGATTTTCCATAATC
1 AGGGATACTCCAACCCCGATTTTATTTCCAGAAAACCAATTTTCCATAATC
* *
1895642 AGGGGTACTCCAGCCCCG
1 AGGGATACTCCAACCCCG
1895660 TCGTCATCTC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 57 0.95
52 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (51 bp):
AGGGATACTCCAACCCCGATTTTATTTCCAGAAAACCAATTTTCCATAATC
Found at i:1903784 original size:13 final size:13
Alignment explanation
Indices: 1903766--1903790 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1903756 CATAAAGTGT
1903766 TGTATCGATACAA
1 TGTATCGATACAA
1903779 TGTATCGATACA
1 TGTATCGATACA
1903791 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1903788 original size:33 final size:33
Alignment explanation
Indices: 1903746--1903812 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1903736 TTCAACGATT
1903746 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1903779 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1903812 T
1 T
1903813 TTAAGCTACT
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:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1903875 original size:21 final size:20
Alignment explanation
Indices: 1903829--1903885 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
1903819 TACTGCCAAA
1903829 AAATGTATCGATACATTACT
1 AAATGTATCGATACATTACT
*
1903849 CAAATGTATCGATACATTTGAGT
1 -AAATGTATCGATACA-TT-ACT
1903872 -AATGTATCGATACA
1 AAATGTATCGATACA
1903886 CTGATCTTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
21 29 0.88
22 2 0.06
23 2 0.06
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (20 bp):
AAATGTATCGATACATTACT
Found at i:1903987 original size:52 final size:52
Alignment explanation
Indices: 1903873--1904023 Score: 193
Period size: 52 Copynumber: 2.9 Consensus size: 52
1903863 CATTTGAGTA
* *
1903873 ATGTATCGATACACTGATCT--TTGTATCGATACATGCAGGC-AATTTGCCCAG
1 ATGTATCGATACACT-AT-TAAATGTATCGATACATGCAGGCAAATTTTCCCAG
* *
1903924 ATGTATCGATACA-TTTTAAAATGTATCGATAAATGCAGGCAAATTTTCCCAG
1 ATGTATCGATACACTATT-AAATGTATCGATACATGCAGGCAAATTTTCCCAG
* *
1903976 ATGTATCGATACACTATTAAATGTATCGATACATGCAAGCAACTTTTC
1 ATGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAATTTTC
1904024 ATATTTCGGG
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 1 0.01
51 31 0.36
52 50 0.57
53 3 0.03
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (52 bp):
ATGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAATTTTCCCAG
Found at i:1910576 original size:8 final size:8
Alignment explanation
Indices: 1910555--1910592 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
1910545 TTTTCTTTTC
1910555 CAAAAACAA
1 CAAAAA-AA
*
1910564 AAAAAAAA
1 CAAAAAAA
1910572 CAAAAAAA
1 CAAAAAAA
1910580 CAAAAAAA
1 CAAAAAAA
1910588 CAAAA
1 CAAAA
1910593 CAGAAAATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 22 0.81
9 5 0.19
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:1910576 original size:16 final size:16
Alignment explanation
Indices: 1910557--1910599 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 16
1910547 TTCTTTTCCA
1910557 AAAACAAAAAAAAAAC
1 AAAACAAAAAAAAAAC
1910573 AAAA-AAACAAAAAAAC
1 AAAACAAA-AAAAAAAC
1910589 AAAACAGAAAA
1 AAAACA-AAAA
1910600 TCTCGGTGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 3 0.12
16 16 0.67
17 3 0.12
18 2 0.08
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (16 bp):
AAAACAAAAAAAAAAC
Done.