Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 15 of 117
Found at i:4339822 original size:18 final size:18
Alignment explanation
Indices: 4339781--4339822 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4339771 TTTATTTCTC
* *
4339781 TTTTTTTTTTGTTAATAA
1 TTTTTTATTTGATAATAA
*
4339799 CTTTTTATTTGATAATAA
1 TTTTTTATTTGATAATAA
4339817 TTTTTT
1 TTTTTT
4339823 TACCGAATAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (18 bp):
TTTTTTATTTGATAATAA
Found at i:4340014 original size:29 final size:29
Alignment explanation
Indices: 4339965--4340038 Score: 78
Period size: 31 Copynumber: 2.5 Consensus size: 29
4339955 AGTTAATAAC
* * *
4339965 ATTTAATTTTTATTTATATAAATTA-AAAT
1 ATTTAATTTTAAATTAAAT-AATTACAAAT
4339994 ATTTAATTTTAAATTAAATAATTAGTCAAAT
1 ATTTAATTTTAAATTAAATAATTA--CAAAT
*
4340025 ATTTAATTTCAAAT
1 ATTTAATTTTAAAT
4340039 AAAGCATTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 5 0.13
29 16 0.42
31 17 0.45
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (29 bp):
ATTTAATTTTAAATTAAATAATTACAAAT
Found at i:4340050 original size:31 final size:31
Alignment explanation
Indices: 4339990--4340051 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
4339980 ATATAAATTA
* *
4339990 AAATATTTAATTTTAAATTAAATAATTAGTC
1 AAATATTTAATTTCAAATTAAACAATTAGTC
*
4340021 AAATATTTAATTTCAAA-TAAAGCATTTAGTC
1 AAATATTTAATTTCAAATTAAA-CAATTAGTC
4340052 CATCTAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (31 bp):
AAATATTTAATTTCAAATTAAACAATTAGTC
Found at i:4348013 original size:18 final size:20
Alignment explanation
Indices: 4347992--4348037 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
4347982 CTCAAACGAA
4347992 TTAATTAAAATTTTA-TA-T
1 TTAATTAAAATTTTATTATT
* * *
4348010 TTAAATATATTTTTATTATT
1 TTAATTAAAATTTTATTATT
4348030 TTAATTAA
1 TTAATTAA
4348038 TAAAATATAT
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
18 12 0.57
19 2 0.10
20 7 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTAATTAAAATTTTATTATT
Found at i:4348443 original size:11 final size:11
Alignment explanation
Indices: 4348410--4348448 Score: 55
Period size: 10 Copynumber: 3.6 Consensus size: 11
4348400 TATAAGTATG
4348410 AATTTTATATAA
1 AATTTTATAT-A
4348422 AATTTTA-ATA
1 AATTTTATATA
4348432 AATTTTATAT-
1 AATTTTATATA
4348442 AATTTTA
1 AATTTTA
4348449 AATTATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 4 0.15
12 7 0.27
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
AATTTTATATA
Found at i:4349492 original size:25 final size:24
Alignment explanation
Indices: 4349456--4349505 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
4349446 TATTAAAATT
* *
4349456 TAAATATTTATATCATATTTTATA
1 TAAAAATTTATATCATAATTTATA
*
4349480 TAAAAATTATATATTATAATTTATA
1 TAAAAATT-TATATCATAATTTATA
4349505 T
1 T
4349506 TAATATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
TAAAAATTTATATCATAATTTATA
Found at i:4349639 original size:26 final size:28
Alignment explanation
Indices: 4349588--4349639 Score: 81
Period size: 26 Copynumber: 1.9 Consensus size: 28
4349578 TATATTATTT
*
4349588 TAATATTTTATATTATATCATATTTATA
1 TAATATTTTATAATATATCATATTTATA
4349616 TAATATTTTA-AAT-TATCATATTTA
1 TAATATTTTATAATATATCATATTTA
4349640 CAGTTATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 11 0.48
27 2 0.09
28 10 0.43
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (28 bp):
TAATATTTTATAATATATCATATTTATA
Found at i:4353823 original size:23 final size:23
Alignment explanation
Indices: 4353772--4353824 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
4353762 ATAAATATTT
*
4353772 ATATTTAATATTTTTTAAAAATA
1 ATATTTAATATTTTTAAAAAATA
4353795 ATTATTATAA-ATTTTTAAAAAATA
1 A-TATT-TAATATTTTTAAAAAATA
4353819 ATATTT
1 ATATTT
4353825 CTTCTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 1 0.04
23 5 0.19
24 18 0.67
25 3 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
ATATTTAATATTTTTAAAAAATA
Found at i:4357689 original size:2 final size:2
Alignment explanation
Indices: 4357682--4357713 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4357672 ACTATACACA
4357682 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4357714 ACACACACAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4357718 original size:2 final size:2
Alignment explanation
Indices: 4357713--4357743 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4357703 CTCTCTCTCT
4357713 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
4357744 TTTCTAGCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:4364674 original size:3 final size:3
Alignment explanation
Indices: 4364666--4364691 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4364656 ACACCAACAA
4364666 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
4364692 AGTATAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4376737 original size:24 final size:24
Alignment explanation
Indices: 4376710--4376757 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
4376700 ATCATAATTA
*
4376710 ATTAAAATTAT-TATAATATTTTTT
1 ATTAAAATTATGT-GAATATTTTTT
*
4376734 ATTACAATTATGTGAATATTTTTT
1 ATTAAAATTATGTGAATATTTTTT
4376758 TTATTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (24 bp):
ATTAAAATTATGTGAATATTTTTT
Found at i:4385033 original size:17 final size:16
Alignment explanation
Indices: 4385002--4385041 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
4384992 AAGATTATGA
*
4385002 TAAAATATGATAAGAT
1 TAAATTATGATAAGAT
*
4385018 TATATTATGAATAAGAT
1 TAAATTATG-ATAAGAT
4385035 TAAATTA
1 TAAATTA
4385042 AATAATATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (16 bp):
TAAATTATGATAAGAT
Found at i:4385135 original size:17 final size:18
Alignment explanation
Indices: 4385115--4385152 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4385105 ATTATCTTTT
*
4385115 TTTAAA-AATTTATATAA
1 TTTAAATAATTGATATAA
*
4385132 TTTAAATTATTGATATAA
1 TTTAAATAATTGATATAA
4385150 TTT
1 TTT
4385153 TTAAGGGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTAAATAATTGATATAA
Found at i:4413709 original size:45 final size:45
Alignment explanation
Indices: 4413645--4413735 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
4413635 TTCTGTCAAA
4413645 ATTTCAAATATATCTATACAATCTATGCAATTTATATAATAAAAC
1 ATTTCAAATATATCTATACAATCTATGCAATTTATATAATAAAAC
* *
4413690 ATTTCAAATTTATCTATACAGTCTATGCAATTTATATAATAAAAC
1 ATTTCAAATATATCTATACAATCTATGCAATTTATATAATAAAAC
4413735 A
1 A
4413736 AAAGTAATCC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.38
Consensus pattern (45 bp):
ATTTCAAATATATCTATACAATCTATGCAATTTATATAATAAAAC
Found at i:4419382 original size:85 final size:85
Alignment explanation
Indices: 4419234--4419409 Score: 309
Period size: 85 Copynumber: 2.1 Consensus size: 85
4419224 CTATGACAAG
*
4419234 ATAAGATTGGTGTTGATAAATCAACATTAGCTTTTATCAACATCAACTTTATGTCAGCTTTGTAT
1 ATAA-ATTGGTGTTGACAAATCAACATTAGCTTTTATCAACATCAACTTTATGTCAGCTTTGTAT
*
4419299 TAAGTC-TACTTTATGTCTTTA
65 CAAGTCTTA-TTTATGTCTTTA
4419320 ATAAATTGGTGTTGACAAATCAACATTAGCTTTTATCAACATCAACTTTATGTCAGCTTTGTATC
1 ATAAATTGGTGTTGACAAATCAACATTAGCTTTTATCAACATCAACTTTATGTCAGCTTTGTATC
4419385 AAGTCTTATTTATGTCTTTA
66 AAGTCTTATTTATGTCTTTA
4419405 ATAAA
1 ATAAA
4419410 GTTGTAAAGC
Statistics
Matches: 87, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
85 81 0.93
86 6 0.07
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (85 bp):
ATAAATTGGTGTTGACAAATCAACATTAGCTTTTATCAACATCAACTTTATGTCAGCTTTGTATC
AAGTCTTATTTATGTCTTTA
Found at i:4422226 original size:25 final size:25
Alignment explanation
Indices: 4422188--4422241 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
4422178 TCTTCACCCT
4422188 AATACCAACCAAAACCAACCACACC
1 AATACCAACCAAAACCAACCACACC
* *
4422213 AATACTAACGAAAACCAACCACACC
1 AATACCAACCAAAACCAACCACACC
4422238 AATA
1 AATA
4422242 TTCACACCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.54, C:0.37, G:0.02, T:0.07
Consensus pattern (25 bp):
AATACCAACCAAAACCAACCACACC
Found at i:4423758 original size:15 final size:17
Alignment explanation
Indices: 4423729--4423760 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
4423719 CTTTTCCTCC
4423729 AAATTAGGATATTACAA
1 AAATTAGGATATTACAA
4423746 AAATT-GGAT-TTACAA
1 AAATTAGGATATTACAA
4423761 GGAAAATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (17 bp):
AAATTAGGATATTACAA
Found at i:4429900 original size:22 final size:24
Alignment explanation
Indices: 4429865--4429910 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
4429855 TAAAATTGTC
* *
4429865 TTTTATGATCAATTT-TGAAAATT
1 TTTTATCATCAATTTATCAAAATT
4429888 TTTTATCAT-AATTTATCAAAATT
1 TTTTATCATCAATTTATCAAAATT
4429911 ATTATAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (24 bp):
TTTTATCATCAATTTATCAAAATT
Found at i:4429946 original size:23 final size:24
Alignment explanation
Indices: 4429907--4429953 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
4429897 AATTTATCAA
4429907 AATTATTATAATATTTTTTATTAT
1 AATTATTATAATATTTTTTATTAT
*
4429931 AATTA-TATAATTTTTTTTATTAT
1 AATTATTATAATATTTTTTATTAT
4429954 TGATCAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (24 bp):
AATTATTATAATATTTTTTATTAT
Found at i:4429992 original size:55 final size:55
Alignment explanation
Indices: 4429884--4429992 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 55
4429874 CAATTTTGAA
* *** *
4429884 AATTTTTTATCATAATTTATCAAAATTATTATAATATTTTTTATTATAATTATAT
1 AATTTTTTATCATAATTGATCAAAATTATTATAATATTACATATCATAATTATAT
* *
4429939 AATTTTTT-TTATTATTGATCAAAATTATTATAATATTCACATATCATAATTATA
1 AATTTTTTATCATAATTGATCAAAATTATTATAATATT-ACATATCATAATTATA
4429993 AAAATATCTC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
54 26 0.57
55 20 0.43
ACGTcount: A:0.40, C:0.06, G:0.01, T:0.53
Consensus pattern (55 bp):
AATTTTTTATCATAATTGATCAAAATTATTATAATATTACATATCATAATTATAT
Found at i:4431618 original size:20 final size:20
Alignment explanation
Indices: 4431593--4431665 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 20
4431583 AATATAAAAA
4431593 AAATAAATATTGTATTTTTT
1 AAATAAATATTGTATTTTTT
* *
4431613 AAATAAATTTTTATATTTGTATT
1 AAATAAA-TATTGTATTT-T-TT
4431636 ATAATCAAATAATTGT-TTATTTT
1 A-AAT-AAAT-ATTGTATT-TTTT
4431659 AAATAAA
1 AAATAAA
4431666 AATTTAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
20 7 0.17
21 11 0.26
22 4 0.10
23 6 0.14
24 7 0.17
25 7 0.17
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (20 bp):
AAATAAATATTGTATTTTTT
Found at i:4433595 original size:13 final size:13
Alignment explanation
Indices: 4433577--4433602 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4433567 TTTTATGTTA
4433577 TTATTATTATTTT
1 TTATTATTATTTT
4433590 TTATTATTATTTT
1 TTATTATTATTTT
4433603 CACTTTTAAT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTATTATTTT
Found at i:4444978 original size:13 final size:14
Alignment explanation
Indices: 4444957--4444990 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
4444947 TTTTAAGAAT
4444957 TTTTTTTTTATAA-
1 TTTTTTTTTATAAG
4444970 TTTTTTTTTATAAG
1 TTTTTTTTTATAAG
4444984 TTTTTTT
1 TTTTTTT
4444991 GTTCATCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (14 bp):
TTTTTTTTTATAAG
Found at i:4445704 original size:21 final size:21
Alignment explanation
Indices: 4445680--4445722 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
4445670 CCCATAAGAC
4445680 GTAAATATCTAGTGGTCTTAT
1 GTAAATATCTAGTGGTCTTAT
*
4445701 GTAAATCTCTAGTGGTCTTAT
1 GTAAATATCTAGTGGTCTTAT
4445722 G
1 G
4445723 AGGTATCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.42
Consensus pattern (21 bp):
GTAAATATCTAGTGGTCTTAT
Found at i:4445892 original size:17 final size:16
Alignment explanation
Indices: 4445870--4445906 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4445860 TCAAACTTAC
4445870 CTTTTAAGAATTCTTTT
1 CTTTTAAGAATT-TTTT
4445887 CTTTT-AGAATTTTTT
1 CTTTTAAGAATTTTTT
4445902 -TTTTA
1 CTTTTA
4445907 CAAATCTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.21
15 4 0.21
16 6 0.32
17 5 0.26
ACGTcount: A:0.22, C:0.08, G:0.05, T:0.65
Consensus pattern (16 bp):
CTTTTAAGAATTTTTT
Found at i:4447372 original size:48 final size:47
Alignment explanation
Indices: 4447282--4447372 Score: 105
Period size: 47 Copynumber: 1.9 Consensus size: 47
4447272 TTTAAATTTT
* *
4447282 AATAATATTTATTAAATAATAAAAATTTTATTAAATTTTTTAATAAA
1 AATAATATTTATAAAATAATAAAAAGTTTATTAAATTTTTTAATAAA
* *
4447329 AATAATTATTTA-AAAAT-ATATAAAAGTTTGTTAATTTTCTTTAA
1 AATAA-TATTTATAAAATAATA-AAAAGTTTATTAAATTT-TTTAA
4447373 ATTTACACAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
46 3 0.08
47 23 0.62
48 11 0.30
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (47 bp):
AATAATATTTATAAAATAATAAAAAGTTTATTAAATTTTTTAATAAA
Found at i:4456912 original size:55 final size:55
Alignment explanation
Indices: 4456805--4456912 Score: 153
Period size: 55 Copynumber: 2.0 Consensus size: 55
4456795 TTAAAAGATT
* * * *
4456805 TGATTTAAATGCAACGAGTCTATGATAATATGCAAAAGCGAAACACTAAAGTGGG
1 TGATTTAAATGCAACAAATCTATGATAATATGAAAAAGCGAAACACCAAAGTGGG
* * *
4456860 TGATTTAGATGCAGCAAATCTATGATAATATGAAAAAGCGAAACACCCAAGTG
1 TGATTTAAATGCAACAAATCTATGATAATATGAAAAAGCGAAACACCAAAGTG
4456913 AGCGATGGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (55 bp):
TGATTTAAATGCAACAAATCTATGATAATATGAAAAAGCGAAACACCAAAGTGGG
Found at i:4459926 original size:6 final size:6
Alignment explanation
Indices: 4459909--4459938 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
4459899 AATAAAATAT
*
4459909 TTCGAG TCCGAG TTCGAG TTCGAG TTCGAG
1 TTCGAG TTCGAG TTCGAG TTCGAG TTCGAG
4459939 CATGAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.20, G:0.33, T:0.30
Consensus pattern (6 bp):
TTCGAG
Found at i:4464928 original size:24 final size:23
Alignment explanation
Indices: 4464882--4464931 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
4464872 ATTATGTATT
*
4464882 ATTTTTATTTTTAAATATCTAAA
1 ATTTTTATTTTTAAAAATCTAAA
*
4464905 ATTTTTATTTTTAAAAATTTTAAA
1 ATTTTTATTTTTAAAAA-TCTAAA
4464929 ATT
1 ATT
4464932 ATTTTTTGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (23 bp):
ATTTTTATTTTTAAAAATCTAAA
Found at i:4473980 original size:15 final size:15
Alignment explanation
Indices: 4473956--4473993 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
4473946 CTTACATGGC
*
4473956 GGTGGCGGCGGTGGG
1 GGTGGGGGCGGTGGG
4473971 GGTGGGGGCGGTGGG
1 GGTGGGGGCGGTGGG
4473986 GGTGGGGG
1 GGTGGGGG
4473994 TGGGGGCGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.00, C:0.08, G:0.79, T:0.13
Consensus pattern (15 bp):
GGTGGGGGCGGTGGG
Found at i:4473991 original size:21 final size:21
Alignment explanation
Indices: 4473965--4474029 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
4473955 CGGTGGCGGC
4473965 GGTGGGGGTGGGGGCGGTGGG
1 GGTGGGGGTGGGGGCGGTGGG
* *
4473986 GGTGGGGGTGGGGGCGGAGGC
1 GGTGGGGGTGGGGGCGGTGGG
* * * *
4474007 GGAGGCGGCGGTGGCGGTGGG
1 GGTGGGGGTGGGGGCGGTGGG
4474028 GG
1 GG
4474030 ACATTCAGGT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.03, C:0.09, G:0.77, T:0.11
Consensus pattern (21 bp):
GGTGGGGGTGGGGGCGGTGGG
Found at i:4474641 original size:20 final size:21
Alignment explanation
Indices: 4474616--4474659 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
4474606 TTAATAAAAT
*
4474616 ATTAAAATTTTAATTTA-ATA
1 ATTAAAATTTAAATTTAGATA
4474636 ATTAAAATTTAAATTTAGATA
1 ATTAAAATTTAAATTTAGATA
4474657 ATT
1 ATT
4474660 TCAAATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
ATTAAAATTTAAATTTAGATA
Found at i:4475639 original size:18 final size:18
Alignment explanation
Indices: 4475616--4475651 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
4475606 AAAGGTTAAA
4475616 TTTTAATTT-TATATTATT
1 TTTTAATTTAT-TATTATT
4475634 TTTTAATTTATTATTATT
1 TTTTAATTTATTATTATT
4475652 GTTATAAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.94
19 1 0.06
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTAATTTATTATTATT
Found at i:4476199 original size:15 final size:16
Alignment explanation
Indices: 4476173--4476202 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4476163 ATGCTCCTCC
4476173 CAAGTGACTTTTTTAA
1 CAAGTGACTTTTTTAA
4476189 CAAGT-ACTTTTTTA
1 CAAGTGACTTTTTTA
4476203 TGGTGTAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (16 bp):
CAAGTGACTTTTTTAA
Found at i:4478469 original size:12 final size:12
Alignment explanation
Indices: 4478452--4478476 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4478442 GGTTTCAACT
4478452 TGTAGGAATCTC
1 TGTAGGAATCTC
4478464 TGTAGGAATCTC
1 TGTAGGAATCTC
4478476 T
1 T
4478477 TGATTGAGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (12 bp):
TGTAGGAATCTC
Found at i:4481923 original size:117 final size:117
Alignment explanation
Indices: 4481755--4481990 Score: 400
Period size: 117 Copynumber: 2.0 Consensus size: 117
4481745 TGAATTTTAC
* *
4481755 CTGAAAATGATAAGAACAAAAAAAATTGTACCACTTAATTCACCTGGGATTATCAAAAAGCTTTC
1 CTGAAAATGATAAGAACAAAAAAAATTATACCACTTAATTCACCTGAGATTATCAAAAAGCTTTC
4481820 TATTTTGAAAAAAGTTTTTGACTGCTTAGTTATCTGTTCGGATAACAAAGAT
66 TATTTTGAAAAAAGTTTTTGACTGCTTAGTTATCTGTTCGGATAACAAAGAT
* * ** *
4481872 CTGAAAATGATAAGAACAAAGAAAATTATACTACTTAATTCGTCTGAGATTATCAGAAAGCTTTC
1 CTGAAAATGATAAGAACAAAAAAAATTATACCACTTAATTCACCTGAGATTATCAAAAAGCTTTC
*
4481937 TATTTTGAAGAAAGTTTTTGACTGCTTAGTTATCTGTTCGGATAACAAAGAT
66 TATTTTGAAAAAAGTTTTTGACTGCTTAGTTATCTGTTCGGATAACAAAGAT
4481989 CT
1 CT
4481991 CCGAAGCTAA
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
117 111 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (117 bp):
CTGAAAATGATAAGAACAAAAAAAATTATACCACTTAATTCACCTGAGATTATCAAAAAGCTTTC
TATTTTGAAAAAAGTTTTTGACTGCTTAGTTATCTGTTCGGATAACAAAGAT
Found at i:4483740 original size:12 final size:13
Alignment explanation
Indices: 4483712--4483740 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4483702 GATAATGAGC
4483712 GAAAGAAGCTGTT
1 GAAAGAAGCTGTT
4483725 GAAAGAAGCT-TT
1 GAAAGAAGCTGTT
4483737 GAAA
1 GAAA
4483741 TCAGAGCTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.45, C:0.07, G:0.28, T:0.21
Consensus pattern (13 bp):
GAAAGAAGCTGTT
Found at i:4485652 original size:23 final size:23
Alignment explanation
Indices: 4485618--4485661 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
4485608 ATCGGAGACA
*
4485618 TGGAGACTTAAAATGCCAAACGT
1 TGGAGACCTAAAATGCCAAACGT
4485641 TGGAGACCTAAAATGCCAAAC
1 TGGAGACCTAAAATGCCAAAC
4485662 CAAATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.18
Consensus pattern (23 bp):
TGGAGACCTAAAATGCCAAACGT
Found at i:4504393 original size:32 final size:32
Alignment explanation
Indices: 4504357--4504425 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
4504347 TTTTTTTTGT
* *
4504357 TAGATAAATACAAAGGACAGTAAGACTAAAAA
1 TAGATAAATACAAAGGACAATAAAACTAAAAA
* * *
4504389 TAGATAAATATAAAGGACAATAAAATTAAAAG
1 TAGATAAATACAAAGGACAATAAAACTAAAAA
4504421 TAGAT
1 TAGAT
4504426 TAGGAAGTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.59, C:0.06, G:0.14, T:0.20
Consensus pattern (32 bp):
TAGATAAATACAAAGGACAATAAAACTAAAAA
Found at i:4505214 original size:2 final size:2
Alignment explanation
Indices: 4505202--4505235 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4505192 GAAGCGCCGG
*
4505202 TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4505236 GATGTGTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:4515195 original size:21 final size:21
Alignment explanation
Indices: 4515171--4515222 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
4515161 CCATCATCCA
4515171 CATATCCTCCTCCACCAGCTG
1 CATATCCTCCTCCACCAGCTG
**
4515192 CATATCCTCCTCCACCTTCTG
1 CATATCCTCCTCCACCAGCTG
*
4515213 CATACCCTCC
1 CATATCCTCC
4515223 ACCTCCCCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.17, C:0.50, G:0.06, T:0.27
Consensus pattern (21 bp):
CATATCCTCCTCCACCAGCTG
Found at i:4515235 original size:27 final size:27
Alignment explanation
Indices: 4515197--4515249 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
4515187 AGCTGCATAT
* *
4515197 CCTCCTCCACCTTCTGCATACCCTCCA
1 CCTCCCCCACCTTCAGCATACCCTCCA
*
4515224 CCTCCCCCACCTTCAGCATATCCTCC
1 CCTCCCCCACCTTCAGCATACCCTCC
4515250 TCCTACATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.15, C:0.57, G:0.04, T:0.25
Consensus pattern (27 bp):
CCTCCCCCACCTTCAGCATACCCTCCA
Found at i:4522532 original size:15 final size:14
Alignment explanation
Indices: 4522496--4522546 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
4522486 AGCTATTGAA
*
4522496 TAATTTATTAATATT
1 TAATTT-TTAAAATT
4522511 T-ATTTTTAAGAATT
1 TAATTTTTAA-AATT
4522525 TAATTTTTTAAAATT
1 TAA-TTTTTAAAATT
4522540 TATATTT
1 TA-ATTT
4522547 GATATATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
13 4 0.13
14 8 0.26
15 11 0.35
16 8 0.26
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (14 bp):
TAATTTTTAAAATT
Found at i:4522532 original size:16 final size:16
Alignment explanation
Indices: 4522513--4522546 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
4522503 TTAATATTTA
4522513 TTTTTAAGAATTTA-AT
1 TTTTTAA-AATTTATAT
4522529 TTTTTAAAATTTATAT
1 TTTTTAAAATTTATAT
4522545 TT
1 TT
4522547 GATATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTTTAAAATTTATAT
Found at i:4533710 original size:1 final size:1
Alignment explanation
Indices: 4533704--4533728 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
4533694 CTGCTATATG
4533704 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
4533729 AAGGAAGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4536854 original size:30 final size:30
Alignment explanation
Indices: 4536820--4536876 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
4536810 TAACATTAGC
*
4536820 TATTGACAATTAACACCTATGAGATAGAGA
1 TATTGACAATTAACACCTATAAGATAGAGA
*
4536850 TATTGACAATTAACACTTATAAGATAG
1 TATTGACAATTAACACCTATAAGATAG
4536877 TGACAGGACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (30 bp):
TATTGACAATTAACACCTATAAGATAGAGA
Found at i:4540222 original size:21 final size:21
Alignment explanation
Indices: 4540152--4540225 Score: 60
Period size: 21 Copynumber: 3.4 Consensus size: 21
4540142 TTAAAAATAA
* *
4540152 TAATTATTAATTAAATTTTAT
1 TAATTAATAAATAAATTTTAT
**
4540173 TAATTAAT-AATAACATACATAAAT
1 TAATTAATAAATAA-AT---TTTAT
*
4540197 AAATTAATAAATAAATTTTAT
1 TAATTAATAAATAAATTTTAT
4540218 TAATTAAT
1 TAATTAAT
4540226 CATTAATTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
20 4 0.10
21 19 0.47
24 12 0.30
25 5 0.12
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
TAATTAATAAATAAATTTTAT
Found at i:4540244 original size:24 final size:24
Alignment explanation
Indices: 4540210--4540256 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
4540200 TTAATAAATA
*
4540210 AATTTTATTAATTAATCATTAATT
1 AATTTTATTAATAAATCATTAATT
* *
4540234 AATTTTTTTAATAAATTATTAAT
1 AATTTTATTAATAAATCATTAAT
4540257 AAAAAGGTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
AATTTTATTAATAAATCATTAATT
Found at i:4544333 original size:128 final size:126
Alignment explanation
Indices: 4543983--4544352 Score: 366
Period size: 128 Copynumber: 2.9 Consensus size: 126
4543973 TTTAATAGAG
* * * *
4543983 ATATTTTAGTAATTTAATATATAATTAGTTTTATATTATATTAAAATTTAACATATAATTTTATA
1 ATATTTTAGTAATTTAATATGT-ATTAATTTTATATTATATTAAAATTTAATATATAATTTAATA
* * ** * *
4544048 GGATTATTATAATAAATTTCAAACAAAATACCACATATCAAATTTTTATAAAAAATGACAAAA
65 GGA-TATTATAATAATTTTAAAACAAAATGTCACATGTCAAATTTTTATAAAAAATAACAAAA
* * * * * * *
4544111 ATATTTTAATAAGTTAATAAGTAGTTAATTTTATATCATATTAAAATTTCATATGTAATTGAATA
1 ATATTTTAGTAATTTAATATGTA-TTAATTTTATATTATATTAAAATTTAATATATAATTTAATA
** * * * * *
4544176 TAAATATTATAATAATTTTTAAATAAAATGTCACATGTCAAATTTTTATAAAGTAATAATAATA
65 -GGATATTATAATAATTTTAAAACAAAATGTCACATGTCAAATTTTTATAAA-AAATAACAAAA
* * * *
4544240 GTATTTTCGTAATTTAATGTGTGATTAATTTTATATTATATTAAAGA-TTAATAAATAATTTAAT
1 ATATTTTAGTAATTTAATATGT-ATTAATTTTATATTATATTAAA-ATTTAATATATAATTTAAT
** * *
4544304 AGGGCATTATAATAATTTTAAAACAAAATGGT-ATATGTCAACTTTTTAT
64 AGGATATTATAATAATTTTAAAACAAAAT-GTCACATGTCAAATTTTTAT
4544353 GAATCACTCG
Statistics
Matches: 194, Mismatches: 42, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
127 1 0.01
128 131 0.68
129 60 0.31
130 2 0.01
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (126 bp):
ATATTTTAGTAATTTAATATGTATTAATTTTATATTATATTAAAATTTAATATATAATTTAATAG
GATATTATAATAATTTTAAAACAAAATGTCACATGTCAAATTTTTATAAAAAATAACAAAA
Found at i:4544577 original size:36 final size:36
Alignment explanation
Indices: 4544504--4544577 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 36
4544494 TTATTTTTAT
* * *
4544504 AATTATGATAAAAAAGATATTATAATAATTTTGACA
1 AATTATAATAAAAAAGATATTATAATAATTATAACA
* * *
4544540 AATTATAATAAAAATGATATTTTCATAATTATAACA
1 AATTATAATAAAAAAGATATTATAATAATTATAACA
4544576 AA
1 AA
4544578 AGAACATTAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.36
Consensus pattern (36 bp):
AATTATAATAAAAAAGATATTATAATAATTATAACA
Found at i:4544667 original size:13 final size:13
Alignment explanation
Indices: 4544627--4544668 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
4544617 GTATTTCTAT
4544627 AATTATTATAGT-
1 AATTATTATAGTA
* **
4544639 GATTATTATAAAA
1 AATTATTATAGTA
4544652 AATTATTATAGTA
1 AATTATTATAGTA
4544665 AATT
1 AATT
4544669 TAAACACATG
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
12 9 0.39
13 14 0.61
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (13 bp):
AATTATTATAGTA
Found at i:4548210 original size:33 final size:33
Alignment explanation
Indices: 4548173--4548240 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
4548163 TATATATAAT
*
4548173 TAAATTAAATTTAAAAATTTTAAAAAATTTATA
1 TAAATTAAATGTAAAAATTTTAAAAAATTTATA
* * *
4548206 TAAATTAAGTGTATAAATTTTGAAAAATTTATA
1 TAAATTAAATGTAAAAATTTTAAAAAATTTATA
4548239 TA
1 TA
4548241 TATATATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (33 bp):
TAAATTAAATGTAAAAATTTTAAAAAATTTATA
Found at i:4548700 original size:13 final size:13
Alignment explanation
Indices: 4548684--4548708 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4548674 TTATTTTTGT
4548684 TTTTAATATATTA
1 TTTTAATATATTA
4548697 TTTTAATATATT
1 TTTTAATATATT
4548709 TAAATAAATT
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:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTAATATATTA
Found at i:4549575 original size:12 final size:13
Alignment explanation
Indices: 4549555--4549588 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
4549545 TTATAAATTT
4549555 AAATATTTTATTA
1 AAATATTTTATTA
4549568 AAAT-TTTTATTA
1 AAATATTTTATTA
*
4549580 AATTATTTT
1 AAATATTTT
4549589 TAGGAATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
AAATATTTTATTA
Found at i:4550028 original size:22 final size:21
Alignment explanation
Indices: 4549994--4550034 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
4549984 TTTATTAATC
*
4549994 ATATTTTAGTATATAATATAT
1 ATATTTTAATATATAATATAT
*
4550015 ATATATTTAATATATGATAT
1 ATAT-TTTAATATATAATAT
4550035 TGATCCAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (21 bp):
ATATTTTAATATATAATATAT
Found at i:4550979 original size:14 final size:14
Alignment explanation
Indices: 4550928--4550985 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
4550918 ATTTATGCAA
* *
4550928 TAATTTTTAAAAAT
1 TAATATTTAAAATT
4550942 TAATATTTAATAAATT
1 TAATATTT-A-AAATT
*
4550958 TAAAATTTAAAATT
1 TAATATTTAAAATT
* *
4550972 TATTATTTTAAATT
1 TAATATTTAAAATT
4550986 ATTTTAGTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
14 23 0.64
15 2 0.06
16 11 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATATTTAAAATT
Found at i:4554318 original size:17 final size:17
Alignment explanation
Indices: 4554278--4554318 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
4554268 ATTATAAGAT
4554278 AATTTATTTATTTGTTAA
1 AATTTA-TTATTTGTTAA
4554296 AA-TTATTATTT-TTAA
1 AATTTATTATTTGTTAA
4554311 AAGTTTAT
1 AA-TTTAT
4554319 ATAATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.29
16 6 0.29
17 7 0.33
18 2 0.10
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (17 bp):
AATTTATTATTTGTTAA
Found at i:4555846 original size:12 final size:12
Alignment explanation
Indices: 4555825--4555854 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4555815 TGTGTGTGTA
4555825 TATATATATATT
1 TATATATATATT
*
4555837 TATATTTATATT
1 TATATATATATT
4555849 TATATA
1 TATATA
4555855 AGGAGAGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATATATATT
Found at i:4558573 original size:196 final size:195
Alignment explanation
Indices: 4558239--4558630 Score: 739
Period size: 196 Copynumber: 2.0 Consensus size: 195
4558229 AAAGAGTAAT
4558239 AGTGCTGCATTGGCTAGTTCATTCTGCAATGATAGGAACAAAAGGAGGATAAATATTCCCAGTAA
1 AGTGCTGCATTGGCTAGTTCATTCTGCAATGATAGGAACAAAAGGAGGATAAATATTCCCAGTAA
*
4558304 TTGTCTTTGCAGTGTAAACAATACTGTAAATATGTCATTGGTTGGCGGTTTCAGAAGTTGCACTT
66 TTGTCTTTGCAGTGTAAACAATACTGTAAATATGTCATTGGTTGGCGGTTTCAGAAGTTGCACTA
4558369 GCAGTGTTGGACTAGAGTTATGGCAGCCATAAAAAAAGGAAGTTTCACTTGCAGATGGCAGCAGA
131 GCAGTGTTGGACTAGAGTTATGGCAGCCAT-AAAAAAGGAAGTTTCACTTGCAGATGGCAGCAGA
4558434 G
195 G
*
4558435 AGTGCTGCATTGGCTAGTTCGTTCTGCAATGATAGGAACAAAAGGAGGATAAATATTCCCAGTAA
1 AGTGCTGCATTGGCTAGTTCATTCTGCAATGATAGGAACAAAAGGAGGATAAATATTCCCAGTAA
4558500 TTGTCTTTGCAGTGTAAACAATACTGTAAATATGTCATTGGTTGGCGGTTTCAGAAGTTGCACTA
66 TTGTCTTTGCAGTGTAAACAATACTGTAAATATGTCATTGGTTGGCGGTTTCAGAAGTTGCACTA
* *
4558565 GCAGTGTTGGACTAGAGTTATGGCAGCTATAAGAAAGGAAGTTTCACTTGCAGATGGCAGCAGAG
131 GCAGTGTTGGACTAGAGTTATGGCAGCCATAAAAAAGGAAGTTTCACTTGCAGATGGCAGCAGAG
4558630 A
1 A
4558631 ATGTCACATT
Statistics
Matches: 192, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
195 35 0.18
196 157 0.82
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.29
Consensus pattern (195 bp):
AGTGCTGCATTGGCTAGTTCATTCTGCAATGATAGGAACAAAAGGAGGATAAATATTCCCAGTAA
TTGTCTTTGCAGTGTAAACAATACTGTAAATATGTCATTGGTTGGCGGTTTCAGAAGTTGCACTA
GCAGTGTTGGACTAGAGTTATGGCAGCCATAAAAAAGGAAGTTTCACTTGCAGATGGCAGCAGAG
Found at i:4561474 original size:38 final size:38
Alignment explanation
Indices: 4561423--4561500 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
4561413 AATTGACATT
*
4561423 TGGCCATCCCTACACAGAGAACTACAGAGAATTAAAGC
1 TGGCCATCCCTACACAAAGAACTACAGAGAATTAAAGC
* *
4561461 TGGCCATCCCTACACAAAGAACTATATAGAATTAAAGC
1 TGGCCATCCCTACACAAAGAACTACAGAGAATTAAAGC
4561499 TG
1 TG
4561501 TTTTTCTGCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.19
Consensus pattern (38 bp):
TGGCCATCCCTACACAAAGAACTACAGAGAATTAAAGC
Found at i:4571869 original size:19 final size:21
Alignment explanation
Indices: 4571834--4571883 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
4571824 GAAATTAATA
4571834 TTATAATATTATTTTATTTAT
1 TTATAATATTATTTTATTTAT
4571855 TTATAAT-TT-TTTTATTTA-
1 TTATAATATTATTTTATTTAT
*
4571873 ATATAATATTA
1 TTATAATATTA
4571884 ACAAATCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 6 0.23
19 11 0.42
20 2 0.08
21 7 0.27
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTATAATATTATTTTATTTAT
Found at i:4572998 original size:32 final size:32
Alignment explanation
Indices: 4572932--4573006 Score: 98
Period size: 32 Copynumber: 2.4 Consensus size: 32
4572922 ATAGATCTTT
* *
4572932 AATTTATATATTTATATTATGTAAAATATTAA
1 AATTTATATATTTATATTATATAAAATATAAA
***
4572964 AATTTATATATTTATATTATATTTTATATAAA
1 AATTTATATATTTATATTATATAAAATATAAA
4572996 AA-TTATATATT
1 AATTTATATATT
4573007 ATAATTTATA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
31 9 0.24
32 29 0.76
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (32 bp):
AATTTATATATTTATATTATATAAAATATAAA
Found at i:4573124 original size:13 final size:13
Alignment explanation
Indices: 4573088--4573139 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
4573078 AAAATTTTAA
4573088 ATATTATTATTTTT
1 ATATTA-TATTTTT
* *
4573102 ACATTTTATTTTT
1 ATATTATATTTTT
*
4573115 ATATTATATTATT
1 ATATTATATTTTT
*
4573128 ATATCATATTTT
1 ATATTATATTTT
4573140 AGATTATCGA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 27 0.87
14 4 0.13
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (13 bp):
ATATTATATTTTT
Found at i:4575024 original size:21 final size:22
Alignment explanation
Indices: 4575000--4575040 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4574990 TGGTTTACTA
*
4575000 TCTA-CTAAGGCAATTGACTTC
1 TCTACCTAAGACAATTGACTTC
*
4575021 TCTACCTAAGACATTTGACT
1 TCTACCTAAGACAATTGACT
4575041 GCTTGCTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (22 bp):
TCTACCTAAGACAATTGACTTC
Found at i:4576788 original size:3 final size:3
Alignment explanation
Indices: 4576780--4576817 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4576770 TTTAATTAAC
4576780 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
4576818 CAAACCAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4584257 original size:18 final size:20
Alignment explanation
Indices: 4584220--4584263 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
4584210 GATACTACTG
*
4584220 TATTAATATTTAAATTTTAT
1 TATTAATATTTAAATCTTAT
4584240 TATTAAT-TTT-AATCTTAT
1 TATTAATATTTAAATCTTAT
*
4584258 CATTAA
1 TATTAA
4584264 AAAAACTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 12 0.55
19 3 0.14
20 7 0.32
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTAATATTTAAATCTTAT
Found at i:4584610 original size:13 final size:13
Alignment explanation
Indices: 4584567--4584604 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
4584557 ATTTATGTCT
4584567 TTATATATATGTGAA
1 TTATATATAT-T-AA
4584582 TTATATATATTAA
1 TTATATATATTAA
4584595 TTATATATAT
1 TTATATATAT
4584605 ATATTAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 12 0.52
14 1 0.04
15 10 0.43
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (13 bp):
TTATATATATTAA
Found at i:4584731 original size:29 final size:29
Alignment explanation
Indices: 4584641--4584733 Score: 102
Period size: 29 Copynumber: 3.2 Consensus size: 29
4584631 ATAAAAAAAT
*
4584641 TATATATAATTTTTATAAACTTAATTTTTAT-
1 TATATATAATTTTTAT---TTTAATTTTTATA
* *
4584672 TTTATATAATTTTTAATTTTAA--TTTGTA
1 TATATATAATTTTT-ATTTTAATTTTTATA
4584700 TATATATAATTTTTATTTTAATTTTTATA
1 TATATATAATTTTTATTTTAATTTTTATA
4584729 TATAT
1 TATAT
4584734 GTAAATTGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
27 11 0.21
28 13 0.25
29 14 0.26
31 13 0.25
32 2 0.04
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (29 bp):
TATATATAATTTTTATTTTAATTTTTATA
Found at i:4588836 original size:6 final size:6
Alignment explanation
Indices: 4588818--4588852 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
4588808 TTTATTTATC
4588818 ATATTT A-ATTT ATATTT ATATTT ATATTTT ATATT
1 ATATTT ATATTT ATATTT ATATTT ATA-TTT ATATT
4588853 AAAATACTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 16 0.59
7 6 0.22
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
ATATTT
Found at i:4588850 original size:13 final size:13
Alignment explanation
Indices: 4588810--4588852 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
4588800 ATATGTAATT
4588810 TATTTATCATATTTA
1 TATTTAT-AT-TTTA
4588825 -ATTTATA-TTTA
1 TATTTATATTTTA
4588836 TATTTATATTTTA
1 TATTTATATTTTA
4588849 TATT
1 TATT
4588853 AAAATACTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.15
12 7 0.27
13 9 0.35
14 6 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (13 bp):
TATTTATATTTTA
Found at i:4588850 original size:19 final size:17
Alignment explanation
Indices: 4588800--4588852 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
4588790 TGAAAGTCAC
*
4588800 ATATGTAATTTAT-TTAT
1 ATATTTAATTTATATT-T
4588817 CATATTTAATTTATATTT
1 -ATATTTAATTTATATTT
4588835 ATATTTATATTTTATATT
1 ATATTTA-A-TTTATATT
4588853 AAAATACTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
17 7 0.23
18 14 0.45
19 10 0.32
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
ATATTTAATTTATATTT
Found at i:4589459 original size:53 final size:53
Alignment explanation
Indices: 4589373--4589580 Score: 362
Period size: 53 Copynumber: 3.9 Consensus size: 53
4589363 AGTTTGCTGT
* * *
4589373 TGGGCTACCTTAAGAAGTTTCCAATTTTGGCCTGTCTGTGAAAGAGGTCTCAA
1 TGGGCTAACTTAAGAAGTTTCCAATTTCGGCCTGTCTGGGAAAGAGGTCTCAA
*
4589426 TGGGCTAACTTAAGAAGTTTCCAATTTCTGCCTGTCTGGGAAAGAGGTCTCAA
1 TGGGCTAACTTAAGAAGTTTCCAATTTCGGCCTGTCTGGGAAAGAGGTCTCAA
*
4589479 TGGTCTAACTTAAGAAGTTTCCAATTTCGGCCTGTCTGGGAAAGAGGTCTCAA
1 TGGGCTAACTTAAGAAGTTTCCAATTTCGGCCTGTCTGGGAAAGAGGTCTCAA
*
4589532 TGGGCTCACTTAAGAAGTTTCCAATTTCGGCCTGTCTGGGAAAGAGGTC
1 TGGGCTAACTTAAGAAGTTTCCAATTTCGGCCTGTCTGGGAAAGAGGTC
4589581 CCAAATGGAA
Statistics
Matches: 147, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 147 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (53 bp):
TGGGCTAACTTAAGAAGTTTCCAATTTCGGCCTGTCTGGGAAAGAGGTCTCAA
Found at i:4599586 original size:201 final size:199
Alignment explanation
Indices: 4599122--4599670 Score: 699
Period size: 201 Copynumber: 2.7 Consensus size: 199
4599112 AAGAAAAAGG
* * *
4599122 AATTTTATTATATTGAAGATTTTCTATAAATA-TTCAAATACACTGGCAGTATTTAAAAAAATCT
1 AATTTTATTGTATTGAA-ATTTTTTATAAATACTT-AAATACACTGGTAGTATTTAAAAAAATCT
* * * *
4599186 TTTCACCTAGAGATTTCGTAAAACATCACTACTCAGAATACTTTTAGAGTCTCATCATTGGATGA
64 TTTCACCTAGAGATTTCAT-AAGCATCACTACTCAGAATACCTTT-GAGTCTCATCATTGGATAA
*
4599251 AATTTCTTTTTTCTTATTTTTTTACTATTACTTTTAATAAACAAATTAATTTTTATTTAATACTA
127 AATTT-TTTTTTCTTATTTTATTACTATTACTTTTAATAAACAAATTAATTTTTATTTAATACTA
*
4599316 ACAAAAATT
191 ACAAAAATA
** * * *
4599325 TTTTTTATTGTATTAGAAAATTTTTATAAATACTCAAAAACACTGGTAGTATTTAAAAAAATCTT
1 AATTTTATTGTATT-GAAATTTTTTATAAATACTTAAATACACTGGTAGTATTTAAAAAAATCTT
* * * * *
4599390 ATCACCTAGAGATTTCATAAGCATCATTACTCATAATACCTTTGAATCCCATCATTGGATAAAAT
65 TTCACCTAGAGATTTCATAAGCATCACTACTCAGAATACCTTTGAGTCTCATCATTGGATAAAAT
* * * ** * *
4599455 TTTTTTTTTTTATTTATATTATTATTATTTTTAATAAATTAATTAATTTTTATTTATTATTAACA
130 TTTTTTTTCTTATTT-TATTACTATTACTTTTAATAAACAAATTAATTTTTATTTAATACTAACA
4599520 AAAA-A
194 AAAATA
* *
4599525 AATTTTATTGTATTGAAATTTTTTTATAAATACTTAAATACACTAGTAGTATTTAAAAAAAATTT
1 AATTTTATTGTATTGAAA-TTTTTTATAAATACTTAAATACACTGGTAGTATTT-AAAAAAATCT
* * * * *
4599590 TTTCACTTAAAGATTTCATAGGCATCACTACTCGGAGTACCTTTGAGTCTCATCATTGGATAAAA
64 TTTCACCTAGAGATTTCATAAGCATCACTACTCAGAATACCTTTGAGTCTCATCATTGGATAAAA
4599655 -TTTTTTTTCTTATTTT
129 TTTTTTTTTCTTATTTT
4599671 TTATTAATTT
Statistics
Matches: 297, Mismatches: 44, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
199 5 0.02
200 69 0.23
201 131 0.44
202 21 0.07
203 67 0.23
204 4 0.01
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (199 bp):
AATTTTATTGTATTGAAATTTTTTATAAATACTTAAATACACTGGTAGTATTTAAAAAAATCTTT
TCACCTAGAGATTTCATAAGCATCACTACTCAGAATACCTTTGAGTCTCATCATTGGATAAAATT
TTTTTTTCTTATTTTATTACTATTACTTTTAATAAACAAATTAATTTTTATTTAATACTAACAAA
AATA
Found at i:4599763 original size:17 final size:17
Alignment explanation
Indices: 4599741--4599775 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4599731 TATCTAAAAT
4599741 TTTATTATATT-TTATTA
1 TTTATTA-ATTATTATTA
4599758 TTTATTAATTATTATTA
1 TTTATTAATTATTATTA
4599775 T
1 T
4599776 AAAACAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTATTAATTATTATTA
Found at i:4604246 original size:18 final size:19
Alignment explanation
Indices: 4604209--4604246 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4604199 AGATTCTTCT
4604209 GAATCTATCTCATCAGTTG
1 GAATCTATCTCATCAGTTG
4604228 GAATC-ATCTACATCA-TTG
1 GAATCTATCT-CATCAGTTG
4604246 G
1 G
4604247 TTTGTACCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (19 bp):
GAATCTATCTCATCAGTTG
Found at i:4608031 original size:15 final size:15
Alignment explanation
Indices: 4608011--4608069 Score: 73
Period size: 15 Copynumber: 3.9 Consensus size: 15
4608001 AATTCACATA
4608011 TATATATATATAATT
1 TATATATATATAATT
*
4608026 TATATATATATAAAT
1 TATATATATATAATT
*
4608041 TATATATAAATTAATT
1 TATATATATA-TAATT
* *
4608057 CACATATATATAA
1 TATATATATATAA
4608070 AAATTAAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
15 26 0.70
16 11 0.30
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
TATATATATATAATT
Found at i:4608068 original size:2 final size:2
Alignment explanation
Indices: 4608008--4608048 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
4607998 CTGAATTCAC
* *
4608008 AT AT AT AT AT AT AT A- AT TT AT AT AT AT AT AA AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4608048 A
1 A
4608049 AATTAATTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4608591 original size:3 final size:3
Alignment explanation
Indices: 4608578--4608614 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
4608568 AACTAAATTG
4608578 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4608615 TTGGTTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:4608961 original size:62 final size:63
Alignment explanation
Indices: 4608838--4608961 Score: 151
Period size: 62 Copynumber: 2.0 Consensus size: 63
4608828 TTGAAGTTTT
* * * **
4608838 TTGGATTAAGGGTTTCTGGCGATTAAGAGTAGTTTAAATCTTTGGGTATTAGGTTTGAAGTTC
1 TTGGATTAAGGGTTTCTGGCAATTAAGAGTAGTTTAAATCTTTGAGTATTAAGTTCAAAGTTC
* * * * *
4608901 TTGGATTAA-GGTTTCTGGCAATTTAGAGTAGTTTGAATTTTTTAGTTTTAAGTTCAAAGTT
1 TTGGATTAAGGGTTTCTGGCAATTAAGAGTAGTTTAAATCTTTGAGTATTAAGTTCAAAGTT
4608962 TTAGGTTAGG
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
62 42 0.82
63 9 0.18
ACGTcount: A:0.25, C:0.06, G:0.25, T:0.44
Consensus pattern (63 bp):
TTGGATTAAGGGTTTCTGGCAATTAAGAGTAGTTTAAATCTTTGAGTATTAAGTTCAAAGTTC
Found at i:4610432 original size:3 final size:3
Alignment explanation
Indices: 4610424--4610476 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
4610414 CCTTTACATG
4610424 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4610472 ATA AT
1 ATA AT
4610477 TTAAAATTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4611582 original size:3 final size:3
Alignment explanation
Indices: 4611574--4611600 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4611564 TAGTTTACAT
4611574 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
4611601 TATTATTCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4612555 original size:13 final size:13
Alignment explanation
Indices: 4612537--4612561 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4612527 TAGTAGTAAA
4612537 AGTAGTAGTTAGC
1 AGTAGTAGTTAGC
4612550 AGTAGTAGTTAG
1 AGTAGTAGTTAG
4612562 TAGCAGTAGC
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:0.32, C:0.04, G:0.32, T:0.32
Consensus pattern (13 bp):
AGTAGTAGTTAGC
Found at i:4612558 original size:16 final size:16
Alignment explanation
Indices: 4612537--4612570 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
4612527 TAGTAGTAAA
4612537 AGTAG-TAGTTAGCAGT
1 AGTAGTTAG-TAGCAGT
4612553 AGTAGTTAGTAGCAGT
1 AGTAGTTAGTAGCAGT
4612569 AG
1 AG
4612571 CAGCACCAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.32, C:0.06, G:0.32, T:0.29
Consensus pattern (16 bp):
AGTAGTTAGTAGCAGT
Found at i:4613996 original size:19 final size:20
Alignment explanation
Indices: 4613965--4614003 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
4613955 GAACAATTAC
4613965 AATAAATAATTATAAATAAA
1 AATAAATAATTATAAATAAA
*
4613985 AATAAA-AATTATAATTAAA
1 AATAAATAATTATAAATAAA
4614004 TAAATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AATAAATAATTATAAATAAA
Found at i:4614026 original size:15 final size:15
Alignment explanation
Indices: 4613990--4614028 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
4613980 ATAAAAATAA
* *
4613990 AAATTATAATTAAAT
1 AAATTTTAAATAAAT
4614005 AAA-TTTAAATAAAT
1 AAATTTTAAATAAAT
4614019 AAATTTTAAA
1 AAATTTTAAA
4614029 ATGAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATTTTAAATAAAT
Found at i:4614130 original size:28 final size:31
Alignment explanation
Indices: 4614081--4614143 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 31
4614071 AAAAAAATTA
*
4614081 AAATAATAAAATATTAATTTAA-CTTAATAAT
1 AAATAATAAAATATTAATTTAATCATAA-AAT
4614112 AAATAAT-AAAT-TTAA-TTAATCATAAAAT
1 AAATAATAAAATATTAATTTAATCATAAAAT
4614140 AAAT
1 AAAT
4614144 TTATTCAGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 11 0.37
29 8 0.27
30 4 0.13
31 7 0.23
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (31 bp):
AAATAATAAAATATTAATTTAATCATAAAAT
Found at i:4614141 original size:24 final size:25
Alignment explanation
Indices: 4614082--4614141 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 25
4614072 AAAAAATTAA
*
4614082 AATAATAAAAT-ATTAATTTAACTT
1 AATAATAAAATAATAAATTTAACTT
4614106 AATAAT-AAATAATAAATTTAA-TT
1 AATAATAAAATAATAAATTTAACTT
*
4614129 AATCATAAAATAA
1 AATAATAAAATAA
4614142 ATTTATTCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 11 0.34
24 21 0.66
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (25 bp):
AATAATAAAATAATAAATTTAACTT
Found at i:4619334 original size:17 final size:15
Alignment explanation
Indices: 4619312--4619372 Score: 68
Period size: 15 Copynumber: 3.9 Consensus size: 15
4619302 CCTGATTCCC
4619312 ATATATATATAGATATT
1 ATATATATATA-A-ATT
4619329 ATATATATATAAATT
1 ATATATATATAAATT
* *
4619344 ATATATAAATTAATT
1 ATATATATATAAATT
*
4619359 CACATATATATAAA
1 -ATATATATATAAA
4619373 AATTAAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
15 16 0.42
16 11 0.29
17 11 0.29
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (15 bp):
ATATATATATAAATT
Found at i:4619882 original size:3 final size:3
Alignment explanation
Indices: 4619869--4619911 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
4619859 AACTAAATTG
4619869 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4619912 TTGGTTATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:4620258 original size:62 final size:63
Alignment explanation
Indices: 4620135--4620258 Score: 151
Period size: 62 Copynumber: 2.0 Consensus size: 63
4620125 TTGAAGTTTT
* * * **
4620135 TTGGATTAAGGGTTTCTGGCGATTAAGAGTAGTTTAAATCTTTGGGTATTAGGTTTGAAGTTC
1 TTGGATTAAGGGTTTCTGGCAATTAAGAGTAGTTTAAATCTTTGAGTATTAAGTTCAAAGTTC
* * * * *
4620198 TTGGATTAA-GGTTTCTGGCAATTTAGAGTAGTTTGAATTTTTTAGTTTTAAGTTCAAAGTT
1 TTGGATTAAGGGTTTCTGGCAATTAAGAGTAGTTTAAATCTTTGAGTATTAAGTTCAAAGTT
4620259 TTAGGTTTAG
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
62 42 0.82
63 9 0.18
ACGTcount: A:0.25, C:0.06, G:0.25, T:0.44
Consensus pattern (63 bp):
TTGGATTAAGGGTTTCTGGCAATTAAGAGTAGTTTAAATCTTTGAGTATTAAGTTCAAAGTTC
Found at i:4621732 original size:3 final size:3
Alignment explanation
Indices: 4621724--4621758 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4621714 CCTTTACATG
4621724 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
4621759 TTAAAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4622867 original size:3 final size:3
Alignment explanation
Indices: 4622859--4622891 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
4622849 TAGTTTACAT
4622859 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4622892 TATTATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4625092 original size:18 final size:19
Alignment explanation
Indices: 4625063--4625123 Score: 62
Period size: 18 Copynumber: 3.5 Consensus size: 19
4625053 ATGAACATAT
* *
4625063 ATAAAAAAATAATTTATAA
1 ATAAATAAATAAATTATAA
4625082 AT-AATAAATAAATTAT-A
1 ATAAATAAATAAATTATAA
4625099 AT---TAAATAAATT-TAA
1 ATAAATAAATAAATTATAA
4625114 ATAAATAAAT
1 ATAAATAAAT
4625124 TTTAAATGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
14 1 0.03
15 13 0.36
17 3 0.08
18 17 0.47
19 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
ATAAATAAATAAATTATAA
Found at i:4625099 original size:14 final size:14
Alignment explanation
Indices: 4625082--4625124 Score: 61
Period size: 14 Copynumber: 3.0 Consensus size: 14
4625072 TAATTTATAA
4625082 ATAATAAATAAATT
1 ATAATAAATAAATT
4625096 ATAATTAAATAAATT
1 ATAA-TAAATAAATT
4625111 -TAAATAAATAAATT
1 AT-AATAAATAAATT
4625125 TTAAATGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAATAAATAAATT
Found at i:4625099 original size:25 final size:24
Alignment explanation
Indices: 4625063--4625135 Score: 66
Period size: 25 Copynumber: 3.1 Consensus size: 24
4625053 ATGAACATAT
4625063 ATAAA-AAA-ATAATTTATAAATA
1 ATAAATAAATATAATTTATAAATA
*
4625085 ATAAATAAATTATAATTAAATAAAT-
1 ATAAATAAA-TATAATT-TATAAATA
*
4625110 TTAAATAAATA-AATTT-TAAATGA
1 ATAAATAAATATAATTTATAAAT-A
4625133 ATA
1 ATA
4625136 TAAACAAACC
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
21 5 0.12
22 5 0.12
23 9 0.22
24 2 0.05
25 14 0.34
26 6 0.15
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (24 bp):
ATAAATAAATATAATTTATAAATA
Found at i:4625127 original size:15 final size:15
Alignment explanation
Indices: 4625084--4625135 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
4625074 ATTTATAAAT
*
4625084 AATAAATAAATTATA
1 AATAAATAAATTTTA
*
4625099 ATTAAATAAA-TTTA
1 AATAAATAAATTTTA
4625113 AATAAATAAATTTTA
1 AATAAATAAATTTTA
*
4625128 AATGAATA
1 AATAAATA
4625136 TAAACAAACC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 12 0.38
15 20 0.62
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (15 bp):
AATAAATAAATTTTA
Found at i:4625202 original size:24 final size:26
Alignment explanation
Indices: 4625168--4625246 Score: 67
Period size: 27 Copynumber: 3.1 Consensus size: 26
4625158 AACGAATCTT
4625168 AAAATAAAA-TTA-AAATAAATAATA
1 AAAATAAAATTTATAAATAAATAATA
* *
4625192 AAAATATAATTTTATTAATAAATAATA
1 AAAATA-AAATTTATAAATAAATAATA
* *
4625219 AATAA-ATAAATTT-TAAATTAATCATA
1 AA-AATA-AAATTTATAAATAAATAATA
4625245 AA
1 AA
4625247 TAAATTTATT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
24 6 0.13
25 2 0.04
26 15 0.33
27 20 0.44
28 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (26 bp):
AAAATAAAATTTATAAATAAATAATA
Found at i:4625211 original size:27 final size:28
Alignment explanation
Indices: 4625181--4625251 Score: 87
Period size: 26 Copynumber: 2.6 Consensus size: 28
4625171 ATAAAATTAA
4625181 AATAAATAAT-AA-AAATATAATTTTATT
1 AATAAATAATAAATAAATA-AATTTTATT
4625208 AATAAATAATAAATAAATAAATTTTA--
1 AATAAATAATAAATAAATAAATTTTATT
* *
4625234 AATTAATCATAAATAAAT
1 AATAAATAATAAATAAAT
4625252 TTATTCGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
26 16 0.40
27 10 0.25
28 9 0.22
29 5 0.12
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (28 bp):
AATAAATAATAAATAAATAAATTTTATT
Found at i:4625280 original size:34 final size:35
Alignment explanation
Indices: 4625225--4625327 Score: 95
Period size: 38 Copynumber: 2.9 Consensus size: 35
4625215 AATAAATAAA
* *
4625225 TAAATTTTAAATTAAT-CATAAATAA-ATTTAT-TCG
1 TAAATTTT-AATAAATAAATAAATAATATTTATAT-G
*
4625259 TAAATTTTAATAAATAAATAAATAATTATTTATATT
1 TAAATTTTAATAAATAAATAAATAA-TATTTATATG
* *
4625295 TAATTCATTTAATAAATATATAAATAATATTTA
1 TAAAT--TTTAATAAATAAATAAATAATATTTA
4625328 AAATTATTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
33 6 0.10
34 16 0.28
36 10 0.17
37 7 0.12
38 19 0.33
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (35 bp):
TAAATTTTAATAAATAAATAAATAATATTTATATG
Found at i:4625348 original size:41 final size:39
Alignment explanation
Indices: 4625259--4625355 Score: 110
Period size: 38 Copynumber: 2.4 Consensus size: 39
4625249 AATTTATTCG
4625259 TAAATTTTAATAAATAAATAAATAATTATTTATATTTAAT
1 TAAA-TTTAATAAATAAATAAATAATTATTTATATTTAAT
* *
4625299 T-CATTTAATAAATATATAAATAA-TATTTAAAATTATTT-AT
1 TAAATTTAATAAATAAATAAATAATTATTT---A-TATTTAAT
4625339 TAAATTTAATAAATAAA
1 TAAATTTAATAAATAAA
4625356 CATGAATGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
37 5 0.10
38 19 0.40
39 1 0.02
40 5 0.10
41 18 0.38
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (39 bp):
TAAATTTAATAAATAAATAAATAATTATTTATATTTAAT
Found at i:4633119 original size:29 final size:30
Alignment explanation
Indices: 4633069--4633138 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
4633059 AAATATTATC
*
4633069 TAAATTATAAGAAATATTTAATGA-AATATA
1 TAAATTATAAAAAATATTTAAT-ATAATATA
* *
4633099 TAAATTTTAAAAAAT-TTTAATATAATATT
1 TAAATTATAAAAAATATTTAATATAATATA
4633128 TAAATTATAAA
1 TAAATTATAAA
4633139 TCTATTAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.03
29 21 0.60
30 13 0.37
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (30 bp):
TAAATTATAAAAAATATTTAATATAATATA
Found at i:4648467 original size:448 final size:442
Alignment explanation
Indices: 4645422--4649455 Score: 4638
Period size: 445 Copynumber: 9.0 Consensus size: 442
4645412 TCATGTTTGA
* ***
4645422 GATATTTATAACATACTAATAATATAAGACACTTAATAAAAATCTAATACAATAATATACGACAT
1 GATATTTATAACATACCAATAATATAAGACACTTAA-AAAAATCTAATACAATAATAGGTGACAT
* * * * *
4645487 TTAATAACTTTAAAATTC-AAATTTCAATACATATAATCATTTTCTTTATTCTTTTAACTAGTAC
65 TTAATAAATTTAAAATTCAAAATTT-AACAAATATAATCATTTTCTCTATTC-TTTAACTACTAC
* * * * ** *
4645551 ATTCTTTTAAACAAAATGTAAAAACTAGTATATAAAGAGATTTTTAAAAAAAAAT-TTCATAAGC
128 ATTCTTATAAACAAAATGTAAAAACTAATATCTAATGAGATTTTT---AAAAAATCTTCACGAGT
** * * * *
4645615 TTTTATTGAATTTATAATTTATCGTATTTTTTTTGCTTTGCTAATTATGTCAAGTACACATTAAG
190 TTTTATTGAATTTATAATTTATTATATTTTTTTCGTTTTGCTAATTATGTCAAGTACACGTCAAG
** * *
4645680 GTGCATATATTGCTAGCTCAAAAAGCTAAATTTAAAATTTTTATCTTGAATTTATTTATTTTATT
255 GTGCATATATCACTAGCTCAAAAAGCTAAACTCAAAATTTTTATCTTGAATTTATTTATTTTATT
* * * * *
4645745 AAAAGAAACATATAAACTATGTCAAGTACATCTCAATATGTTATGTAAACCTAAATACCAAGTAT
320 AAAAGAAACATACATATTATGTCAAGTACATCTCAATGTATTATGTAAACCTAAATACCAAGTAT
* * * *
4645810 AATTATAGA-TTTTCATCTCATAAGAAAATGATAGATACATATCTACTACCTCAAATAT
385 AATTATGGAGTTTT-ACCTCATAAGAAAATGATAGATACATATCTACTACCTCGAATAC
* *
4645868 GATATTTAAAACAT-CCTAATAATAT-AGAACACTTAAAAAAATCTAATACAATAATAGGCGACA
1 GATATTTATAACATACC-AATAATATAAG-ACACTTAAAAAAATCTAATACAATAATAGGTGACA
* ** * * *
4645931 TTTAATAAATTTAAAATTTAAAATTTAAC--ACGTAATCATTTTATCTATTATTTAACTACTTCA
64 TTTAATAAATTTAAAATTCAAAATTTAACAAATATAATCATTTTCTCTATTCTTTAACTACTACA
* * * * *
4645994 TTCTTGTAAACAAAATATTAAAACTAATATCTAATGAGATTTTTGAAAAAATAAGCTTCATGAAA
129 TTCTTATAAACAAAATGTAAAAACTAATATCTAATGAGATTTTT-AAAAAAT---CTTCACG-AG
* * * ** * *
4646059 TTTTTATTGAATTTATAATTTATCATATTTTTTTCATTATATTAATTATGTTAAGTACATGTCAA
189 TTTTTATTGAATTTATAATTTATTATATTTTTTTCGTTTTGCTAATTATGTCAAGTACACGTCAA
* * * * * *
4646124 GGTGCATATATCA-TAAGCTAAAAAAGCTAAATTCAAAATTTTTAACTTAAATATGTTTATTTTA
254 GGTGCATATATCACT-AGCTCAAAAAGCTAAACTCAAAATTTTTATCTTGAATTTATTTATTTTA
* * * * * * *
4646188 TTAAAAGAAATATACATATTATATCAAGTACATCTCTATATATTATATAAACCTAAACACCAAAT
318 TTAAAAGAAACATACATATTATGTCAAGTACATCTCAATGTATTATGTAAACCTAAATACCAAGT
* * * * * *
4646253 ATAATCAT-GAATTTTCACCTTATAAGGAAATGATAGATACATCTCTACTACCTCAAATAC
383 ATAATTATGGAGTTTT-ACCTCATAAGAAAATGATAGATACATATCTACTACCTCGAATAC
* *
4646313 GATATTTATAACATACCAATAATATAAGACACTTAAAAAAATTCGAATACAATAATAGATGACAT
1 GATATTTATAACATACCAATAATATAAGACACTTAAAAAAA-TCTAATACAATAATAGGTGACAT
* * *
4646378 TTAATAAATTTAAAATTCAAAATTTGACAAAGATAATCATTTTCTCTGTTCTTTAACTACTA-AG
65 TTAATAAATTTAAAATTCAAAATTTAACAAATATAATCATTTTCTCTATTCTTTAACTACTACA-
* * *
4646442 TTATTGTAAACAAAATGTAAAAACTAATATCTAATGAGATTTTTAAAAAATAATCTTCATGAGTT
129 TTCTTATAAACAAAATGTAAAAACTAATATCTAATGAGATTTTT--AAAA-AATCTTCACGAGTT
* * * *
4646507 TTTATTGAA-TTATAATTTATTGTATTTTTTTCGTTTTACTAATTATGTTAAGTACACGTTAAGG
191 TTTATTGAATTTATAATTTATTATATTTTTTTCGTTTTGCTAATTATGTCAAGTACACGTCAAGG
* *
4646571 TGCATATATCACTAACTCAAAAAGCTAAACTCAAAATTTTTATCTTGAATTTGTTTATTTTATTA
256 TGCATATATCACTAGCTCAAAAAGCTAAACTCAAAATTTTTATCTTGAATTTATTTATTTTATTA
* * *
4646636 AAAGAAACATACATATTCTGTTAAGTACATTTCAATGTATTATGTAAACCTAAATACCAAGTATA
321 AAAGAAACATACATATTATGTCAAGTACATCTCAATGTATTATGTAAACCTAAATACCAAGTATA
* * * * * *
4646701 ATTGTGGAGTTTTACTTCATAAGAAAATGGTAGATACATATCTATTAACTTGAATAC
386 ATTATGGAGTTTTACCTCATAAGAAAATGATAGATACATATCTACTACCTCGAATAC
* * * * * * *
4646758 GGTATTTAAAATATACAAATAATATAAGACACTTAAAAAAATATAATATAATAATATGTGACATT
1 GATATTTATAACATACCAATAATATAAGACACTTAAAAAAATCTAATACAATAATAGGTGACATT
* * *
4646823 TAATAAATTTAAAATTCAAATTTTAACACAA-ATAATCATTTTCTCTATTCTTTACCTGCTACAT
66 TAATAAATTTAAAATTCAAAATTTAACA-AATATAATCATTTTCTCTATTCTTTAACTACTACAT
* * *
4646887 TCTTATAAACATAATGTAAAAACTAATATCTAATAAGAATTTTAAAAAATATGCTTCACGAGTTT
130 TCTTATAAACAAAATGTAAAAACTAATATCTAATGAG-ATTTTTAAAAA-AT-CTTCACGAGTTT
* * * * * ** *
4646952 GTATTGAATTTATAATTTATCATATTCTTTTCGTTTTGCTAATTATGTCAATTGCATATCATGGT
192 TTATTGAATTTATAATTTATTATATTTTTTTCGTTTTGCTAATTATGTCAAGTACACGTCAAGGT
* * *
4647017 GCATATATCACCAGCTAAAAAAACTAAACTCAAAAATTTTTATCTTGAATTTATTTATTTTATTA
257 GCATATATCACTAGCTCAAAAAGCTAAACTC-AAAATTTTTATCTTGAATTTATTTATTTTATTA
** * **
4647082 AAA-AAACATACATATTACATCAAGTACATCTCAATGTATCATGTAAATATAAATACCAAGTATA
321 AAAGAAACATACATATTATGTCAAGTACATCTCAATGTATTATGTAAACCTAAATACCAAGTATA
* * * * * * *
4647146 ATTATGAAGTTTTACCTCATAAGGAAATGACAGGTACATATATGCTACCTCGAATAT
386 ATTATGGAGTTTTACCTCATAAGAAAATGATAGATACATATCTACTACCTCGAATAC
* * * *
4647203 GGTATTTATAACATACAAATAATATAAGACACTTTAAAAAAATCTAATGCAATAACGTA--TGGC
1 GATATTTATAACATACCAATAATATAAGACAC-TTAAAAAAATCTAATACAATAA--TAGGTGAC
* * * * *
4647266 ATTAAATAAATTTAAAATT-TAAATTTCAACACATATAATCATTTTCTCTATTC-TTAATTATTA
63 ATTTAATAAATTTAAAATTCAAAATTT-AACAAATATAATCATTTTCTCTATTCTTTAACTACTA
** *
4647329 CATTCTTATAAACAAAATGTAAAAGTTAATAACTAATGAGATTTTTTTAAAAAATAATCTTCACG
127 CATTCTTATAAACAAAATGTAAAAACTAATATCTAATGAGA--TTTTT--AAAA-AATCTTCACG
* * * * *
4647394 AGTTTTTATTGAATTTATAATTTATTGTATTTTTTTTTTGTTTTACTAATTATGTCAATTACATG
187 AGTTTTTATTGAATTTATAATTTA-T-TATATTTTTTTCGTTTTGCTAATTATGTCAAGTACACG
* ** * ** *
4647459 TCAAGGTGCATTTATCACCGGTTCAAAAAGCTAAACTCAAAATTTTTATAGTGCATTTATTTATT
250 TCAAGGTGCATATATCACTAGCTCAAAAAGCTAAACTCAAAATTTTTATCTTGAATTTATTTATT
* * * * * *
4647524 TTATTAAAATAAACATATATATTATGTCAAGTACATATCAATGTATCATATAAATCTAAATACCA
315 TTATTAAAAGAAACATACATATTATGTCAAGTACATCTCAATGTATTATGTAAACCTAAATACCA
* * *
4647589 AGTATAATTTTGGAGTTTTACCTCATAAGAAAATGATAGATACATATCTATTACCTCGAATAA
380 AGTATAATTATGGAGTTTTACCTCATAAGAAAATGATAGATACATATCTACTACCTCGAATAC
* * * **
4647652 GGTATTTATAACATACCAATAATATAAGACATTTAAAAAAAAT-TAATACAATAATGGGTGATGT
1 GATATTTATAACATACCAATAATATAAGACACTT-AAAAAAATCTAATACAATAATAGGTGACAT
* * * *
4647716 TTAATAAATTTAAAATTCAAATTTTAACATATAGAATCATTTTCTCTATTCTTTAACTACTAAAT
65 TTAATAAATTTAAAATTCAAAATTTAACAAATATAATCATTTTCTCTATTCTTTAACTACTACAT
* * * * *
4647781 TCTTATAAACAAAATGT-AAAACAAATATTTAATAAGA-TTTTAAAATATATCTTCACCAATTTT
130 TCTTATAAACAAAATGTAAAAACTAATATCTAATGAGATTTTTAAAA-A-ATCTTCACGAGTTTT
* * * * * * *
4647844 TGTTGAATTTATAATTTATTGTATTTTTCTCGTTTTGCTAATTATATTAACTACATC-TTAAGGT
193 TATTGAATTTATAATTTATTATATTTTTTTCGTTTTGCTAATTATGTCAAGTACA-CGTCAAGGT
* * * * * *
4647908 GTATGTATCACCAGCTCAAAAAAGCTAAATTCAATATTTTTATCTTAAATTTATTTATTTTATTA
257 GCATATATCACTAGCTC-AAAAAGCTAAACTCAAAATTTTTATCTTGAATTTATTTATTTTATTA
*
4647973 CAAA-AAACAAACATATTATGTCAAGTACATCTCAATGTATTATGTAAACCTAAATACCAAGTAT
321 -AAAGAAACATACATATTATGTCAAGTACATCTCAATGTATTATGTAAACCTAAATACCAAGTAT
* * *
4648037 AATTATGGA-TTTTCACCTCATAAGCAAAATGATTA-ATACATCTCTACTACTTCAAATAC
385 AATTATGGAGTTTT-ACCTCATAAG-AAAATGA-TAGATACATATCTACTACCTCGAATAC
* ** **
4648096 GGTATTTATAACATACCAATAGCATAAGACACTTAAAAAACATCTAATATGATAATAGGTGACAT
1 GATATTTATAACATACCAATAATATAAGACACTTAAAAAA-ATCTAATACAATAATAGGTGACAT
* * * *
4648161 TTAATAAATTTAAAATTCAAAATTTGACAAATATAATCATTTTCTCTATTATTTAATTACTACGT
65 TTAATAAATTTAAAATTCAAAATTTAACAAATATAATCATTTTCTCTATTCTTTAACTACTACAT
* * * * * *
4648226 TATTGTAAATAAAATGTAAAAACTAATATCTAATGTGAATTTTTTAAAAATCTTTACGAGTTTTT
130 TCTTATAAACAAAATGTAAAAACTAATATCTAATGAG-ATTTTTAAAAAATCTTCACGAGTTTTT
*
4648291 ATTGAATTTATAACTTATCATATATATTTTTTTCGTTTTGCTAATTATGTCAAGTACACGTCAAT
194 ATTGAATTTATAA-TT-T-AT-TATATTTTTTTCGTTTTGCTAATTATGTCAAGTACACGTCAAG
* * * * *
4648356 GTGCATTTATCACCAACTCAAAAAGCTACACTCAAAA-TTTTATCTTGAATTTGTTTATTTTATT
255 GTGCATATATCACTAGCTCAAAAAGCTAAACTCAAAATTTTTATCTTGAATTTATTTATTTTATT
* * *
4648420 AAAAGAAACATACATTTTATGTCAAGTACATCTAAATGTATTATGTAAACCTAAATACCATGTAT
320 AAAAGAAACATACATATTATGTCAAGTACATCTCAATGTATTATGTAAACCTAAATACCAAGTAT
* * * *
4648485 AATTGTGGAGTTTTACCTCATAAGGAAATGATAGATACATATCTACTATCTCGAATAT
385 AATTATGGAGTTTTACCTCATAAGAAAATGATAGATACATATCTACTACCTCGAATAC
* *
4648543 GATATTTATAACATACCAATAATATAAAACACTTAAAAAAATTTCTAATACAATAATAGGTGATA
1 GATATTTATAACATACCAATAATATAAGACACTTAAAAAAA--TCTAATACAATAATAGGTGACA
* * * * *
4648608 TTTGATAAATTTAAAATTC-AAATTTCAACACATATGATCATTTTATCTATTATTTAACTACTAC
64 TTTAATAAATTTAAAATTCAAAATTT-AACAAATATAATCATTTTCTCTATTCTTTAACTACTAC
4648672 ATTCTTATAAACAAAATGTAAAAACTAATATCTAATGAGATTTTTTTAAAAAATAATCTTCAC-A
128 ATTCTTATAAACAAAATGTAAAAACTAATATCTAATGAGA--TTTTT--AAAA-AATCTTCACGA
* *
4648736 TATTTTTATTGAATTTATAATTTATCATA-TTTTTTCGTTTTGCTAATTATGTCAAGTACACGTC
188 -GTTTTTATTGAATTTATAATTTATTATATTTTTTTCGTTTTGCTAATTATGTCAAGTACACGTC
* * * *
4648800 AAGGTGTACATATCACTAACTCAAAAAGCTAAACTCAAAATTTTTATATTGAATTTATTTATTTT
252 AAGGTGCATATATCACTAGCTCAAAAAGCTAAACTCAAAATTTTTATCTTGAATTTATTTATTTT
* * * * * *
4648865 ATTAAAAGAAACATACATGTTATATAAAATACATCTCAATGTATTATTTAAATCTAAATACCAAG
317 ATTAAAAGAAACATACATATTATGTCAAGTACATCTCAATGTATTATGTAAACCTAAATACCAAG
* * *
4648930 TATAATTGTGGAGGTTTACCTCATACGAAAATGATAGATACATATCTACTACCTCGAATAC
382 TATAATTATGGAGTTTTACCTCATAAGAAAATGATAGATACATATCTACTACCTCGAATAC
* * * * *
4648991 TATATTTATAACATACCAATAATATAAGATACTTAAGAAAATTCTAATATAATAATGGGTGACAT
1 GATATTTATAACATACCAATAATATAAGACACTTAA-AAAAATCTAATACAATAATAGGTGACAT
* * *
4649056 TTAATAAATTTAAAATTC-AAATTTCAACATATATAATCATTTTTTCTATTCTTTAACTACTATA
65 TTAATAAATTTAAAATTCAAAATTT-AACAAATATAATCATTTTCTCTATTCTTTAACTACTACA
** * * ** *
4649120 TTCTTATAGGCAAAATGTAAAAACAAATATCTAATAAGATTTAAAAAATAATAATCTTTACGAGT
129 TTCTTATAAACAAAATGTAAAAACTAATATCTAATGAGATTT--TTAA-AA-AATCTTCACGAG-
* * * * * *
4649185 TTTTTATTGAATTTATAATTTATTGTTTTTTTTTTCATTTTGCTAATTATGTAAAATACACGTTA
189 TTTTTATTGAATTTATAATTTATT-ATATTTTTTTCGTTTTGCTAATTATGTCAAGTACACGTCA
* * ** *
4649250 AGGTGCATGTATCACTAGCTCAAAAAGTTAATTTCAAAATTTTTATCTTGAATTTGTTTATTTTA
253 AGGTGCATATATCACTAGCTCAAAAAGCTAAACTCAAAATTTTTATCTTGAATTTATTTATTTTA
* * * * *
4649315 CTAAAATAAACACACATATTATGTCAAGTACATATCAATGTATTATGTAAACCTAAATACTAAGT
318 TTAAAAGAAACATACATATTATGTCAAGTACATCTCAATGTATTATGTAAACCTAAATACCAAGT
* * * * * *
4649380 ATAATTGTGAATTTTTACTTCATAAGAAAATGATTGATACATAT-TACCTATCTCGAATA-
383 ATAATTATGGAGTTTTACCTCATAAGAAAATGATAGATACATATCTA-CTACCTCGAATAC
* *
4649439 TAGTATCTATAACATAC
1 GA-TATTTATAACATAC
4649456 TAATTATTAG
Statistics
Matches: 3073, Mismatches: 430, Indels: 167
0.84 0.12 0.05
Matches are distributed among these distances:
440 7 0.00
442 101 0.03
443 148 0.05
444 225 0.07
445 882 0.29
446 261 0.08
447 319 0.10
448 566 0.18
449 478 0.16
450 54 0.02
451 6 0.00
452 26 0.01
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (442 bp):
GATATTTATAACATACCAATAATATAAGACACTTAAAAAAATCTAATACAATAATAGGTGACATT
TAATAAATTTAAAATTCAAAATTTAACAAATATAATCATTTTCTCTATTCTTTAACTACTACATT
CTTATAAACAAAATGTAAAAACTAATATCTAATGAGATTTTTAAAAAATCTTCACGAGTTTTTAT
TGAATTTATAATTTATTATATTTTTTTCGTTTTGCTAATTATGTCAAGTACACGTCAAGGTGCAT
ATATCACTAGCTCAAAAAGCTAAACTCAAAATTTTTATCTTGAATTTATTTATTTTATTAAAAGA
AACATACATATTATGTCAAGTACATCTCAATGTATTATGTAAACCTAAATACCAAGTATAATTAT
GGAGTTTTACCTCATAAGAAAATGATAGATACATATCTACTACCTCGAATAC
Found at i:4651473 original size:19 final size:19
Alignment explanation
Indices: 4651449--4651485 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4651439 AGTAGATAAA
4651449 AAATTAAAAAATTAAAAAT
1 AAATTAAAAAATTAAAAAT
* *
4651468 AAATTAAGAATTTAAAAA
1 AAATTAAAAAATTAAAAA
4651486 GTATAATTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (19 bp):
AAATTAAAAAATTAAAAAT
Found at i:4654602 original size:79 final size:80
Alignment explanation
Indices: 4654519--4654667 Score: 246
Period size: 80 Copynumber: 1.9 Consensus size: 80
4654509 TTCAAAAGCA
* *
4654519 AATTTTTTTC-AAAAAATATTTATAAAGTAATTAAACCTTTCAACAAACAATTTGTTGTTTAATT
1 AATTTTTTTCGAAAAAATATTTATAAAGCAATTAAACCTTTCAACAAACAATTTCTTGTTTAATT
4654583 TTTTTTTGGCCAAAC
66 TTTTTTTGGCCAAAC
* * *
4654598 AATTTTTTTCGGAAAAATATTTATAAAGCAATTAAACTTTTCAACAAACAATTTCTTGTTTTATT
1 AATTTTTTTCGAAAAAATATTTATAAAGCAATTAAACCTTTCAACAAACAATTTCTTGTTTAATT
4654663 TTTTT
66 TTTTT
4654668 GGCCAATCGA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
79 10 0.16
80 54 0.84
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (80 bp):
AATTTTTTTCGAAAAAATATTTATAAAGCAATTAAACCTTTCAACAAACAATTTCTTGTTTAATT
TTTTTTTGGCCAAAC
Found at i:4673018 original size:37 final size:36
Alignment explanation
Indices: 4672970--4673047 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
4672960 AAATACAAAA
* *
4672970 TTTATAAGTAATAATACTAAATAAATATATTTTAAAT
1 TTTATAAGTAATAATA-TAAATAAAAATATTTGAAAT
* * *
4673007 TTTATATGTAATAATATTAATAAAAATATTTGACAT
1 TTTATAAGTAATAATATAAATAAAAATATTTGAAAT
4673043 TTTAT
1 TTTAT
4673048 TTTAATTTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 21 0.58
37 15 0.42
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (36 bp):
TTTATAAGTAATAATATAAATAAAAATATTTGAAAT
Found at i:4673419 original size:71 final size:70
Alignment explanation
Indices: 4673344--4673497 Score: 184
Period size: 71 Copynumber: 2.2 Consensus size: 70
4673334 AAATGCGACT
* * * * * *
4673344 TTTGTTAAAATTTCATAATTTTGAAAATAAA-TTTCAAAATCCTTTACATTTATTATCTTAAAAA
1 TTTGTTAAAATTT-AAAATTTTAAAAATAAAGATTCAAAACCCATTACATTT-TTATATTAAAAA
4673408 CGTAATA
64 CGTAATA
* * *
4673415 TTTGTTAAAAGTTTAAAATTTTAAAAATAAAGATTCAACACCCATTACGTTTTTATATTAAAAGC
1 TTTGTTAAAA-TTTAAAATTTTAAAAATAAAGATTCAAAACCCATTACATTTTTATATTAAAAAC
4673480 GTAATA
65 GTAATA
*
4673486 TTTATTAAAATT
1 TTTGTTAAAATT
4673498 ATAACTAAGA
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
70 2 0.03
71 51 0.72
72 18 0.25
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (70 bp):
TTTGTTAAAATTTAAAATTTTAAAAATAAAGATTCAAAACCCATTACATTTTTATATTAAAAACG
TAATA
Found at i:4677821 original size:17 final size:16
Alignment explanation
Indices: 4677799--4677849 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
4677789 ACATTTTTTA
4677799 TATCTTATTTATTTATT
1 TATCTT-TTTATTTATT
4677816 TATCTTTTT-TTATATTT
1 TATCTTTTTATT-TA-TT
4677833 TAGTC-TTTTATTTATT
1 TA-TCTTTTTATTTATT
4677849 T
1 T
4677850 GGTTTTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
15 2 0.07
16 8 0.27
17 16 0.53
18 4 0.13
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.73
Consensus pattern (16 bp):
TATCTTTTTATTTATT
Found at i:4677830 original size:29 final size:29
Alignment explanation
Indices: 4677792--4677847 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
4677782 ATTTCCTACA
*
4677792 TTTTTTATATCTTA-TTTATTTATTTATCT
1 TTTTTTATATCTTAGTCT-TTTATTTATCT
*
4677821 TTTTTTATATTTTAGTCTTTTATTTAT
1 TTTTTTATATCTTAGTCTTTTATTTAT
4677848 TTGGTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 22 0.92
30 2 0.08
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (29 bp):
TTTTTTATATCTTAGTCTTTTATTTATCT
Found at i:4678425 original size:14 final size:15
Alignment explanation
Indices: 4678406--4678452 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
4678396 GACTTCAAGA
*
4678406 ATTTTATTTTAT-TT
1 ATTTTATTATATATT
4678420 ATTTTATTATATATT
1 ATTTTATTATATATT
*
4678435 ATTTT-TTAAATA-T
1 ATTTTATTATATATT
4678448 ATTTT
1 ATTTT
4678453 TATAAAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
13 6 0.20
14 17 0.57
15 7 0.23
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTTATTATATATT
Found at i:4678615 original size:108 final size:108
Alignment explanation
Indices: 4678468--4678665 Score: 249
Period size: 110 Copynumber: 1.8 Consensus size: 108
4678458 AAACATATTT
* *
4678468 AAATAAAAGCCTTATCAACAAATTGGAAGGCAATCATTTT-TGT-AAAAACAAGATTTTACCAAT
1 AAATAAAAGCCTTACCAACAAATTGGAAGGCAATCATTTTATGTCAAAAACAAGATTTTACCAAC
*
4678531 ATATTGAAAAATCTTATAATATTTTTTTTATTTCAAAAAAATAA
66 ATATTGAAAAACCTTATAAT-TTTTTTTTATTTCAAAAAAATAA
* * * * * *
4678575 AAATAAAAAGCCTTACCAACATATTTGAGGGCCAAT-ATTTTATTTCTAAAATAAGATTTTACCA
1 AAAT-AAAAGCCTTACCAACAAATTGGAAGG-CAATCATTTTATGTCAAAAACAAGATTTTACCA
* *
4678639 ACATATTGGAAAGCCTTATAATTTTTT
64 ACATATTGAAAAACCTTATAATTTTTT
4678666 AAAAAATCAA
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
107 4 0.05
108 27 0.36
109 11 0.14
110 34 0.45
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (108 bp):
AAATAAAAGCCTTACCAACAAATTGGAAGGCAATCATTTTATGTCAAAAACAAGATTTTACCAAC
ATATTGAAAAACCTTATAATTTTTTTTTATTTCAAAAAAATAA
Found at i:4685222 original size:84 final size:83
Alignment explanation
Indices: 4685112--4685791 Score: 428
Period size: 84 Copynumber: 8.1 Consensus size: 83
4685102 ACCTTGAGGT
* * * * *
4685112 GTAATCTTTAAGTTTTTTGGGTAAGATTTGTAAATCTTTTGAGCTGAATTTATTTTAGAATCAAG
1 GTAATCTCTAAGTTTTTT-GGTAAGATTCGTAAGTCTTTTGAGCTAAATTTATTTTAGAATCTAG
* *
4685177 ATTTATAAGACCTCTGGAC
65 ATTTGTAAGACCTCTGAAC
* * * * * * * *
4685196 GTAATCTCTAAATTTTTTGTGTAAGATTCATAAGTTTTTTTAGTTGAATCTATTTTA-AAGT-TT
1 GTAATCTCTAAGTTTTTTG-GTAAGATTCGTAAGTCTTTTGAGCTAAATTTATTTTAGAA-TCTA
* * *
4685259 GATTTATAAGA-CTTTGAGAT
64 GATTTGTAAGACCTCTGA-AC
* * * * * * * * * *
4685279 GTAATCTTTAAGTCCTCTAGGTAAGATTCGTAAGTCTTTCGAACTGATTTTATTTTAAAATTTAG
1 GTAATCTCTAAGT-TTTTTGGTAAGATTCGTAAGTCTTTTGAGCTAAATTTATTTTAGAATCTAG
* * * *
4685344 -TTTGTAAGACATCCGGAT
65 ATTTGTAAGACCTCTGAAC
* * * * * * * * *
4685362 GTAATCTTTAAGATCTTTGGGTAAAATTCATAAGTTTTTTGAGCTAAATCTATTTTAAAATCGAG
1 GTAATCTCTAAG-TTTTTTGGTAAGATTCGTAAGTCTTTTGAGCTAAATTTATTTTAGAATCTAG
* *
4685427 ATTTGTAAGACCTTTAAAC
65 ATTTGTAAGACCTCTGAAC
* * *
4685446 GTAATCTCTAAGTTTTTTAAGCAAGATTCGTAAGT-TTTTCAAGCTAAATTTATTTTA-AAGT-T
1 GTAATCTCTAAGTTTTTT-GGTAAGATTCGTAAGTCTTTT-GAGCTAAATTTATTTTAGAA-TCT
* * *
4685508 TGGTTTGTAAAACCTCTGAAC
63 AGATTTGTAAGACCTCTGAAC
* * * * ** * * * *
4685529 GTAATCTCTAAGTCTTTCGGACAACATTCGTAAGTCTTTCAAACTAAATCTATTTTAGAGTCAAG
1 GTAATCTCTAAGTTTTTTGG-TAAGATTCGTAAGTCTTTTGAGCTAAATTTATTTTAGAATCTAG
*
4685594 ATTTGTAAGACCT-TCGAAG
65 ATTTGTAAGACCTCT-GAAC
* * ** * *
4685613 GTAATCTCTTAGTTTTTCAGGTAAGATTTATAAGTCTTTTGAGCTAAATTTATTTTAGAGTCGAG
1 GTAATCTCTAAGTTTTT-TGGTAAGATTCGTAAGTCTTTTGAGCTAAATTTATTTTAGAATCTAG
*
4685678 ATTTGTAAGACCT-TCAAAC
65 ATTTGTAAGACCTCT-GAAC
* * * * * * * * *
4685697 ATAATCTCTAAGTCTTTCGAGCAAGATTCGTAAATCTTTTGAGCTAGATCTGTTTTA-AAGTCAA
1 GTAATCTCTAAGTTTTTTG-GTAAGATTCGTAAGTCTTTTGAGCTAAATTTATTTTAGAA-TCTA
* *
4685761 GATTTGTAAAACCTTCCG-AC
64 GATTTGTAAGACC-TCTGAAC
*
4685781 ATAATCTCTAA
1 GTAATCTCTAA
4685792 TACCTCAAGG
Statistics
Matches: 465, Mismatches: 109, Indels: 44
0.75 0.18 0.07
Matches are distributed among these distances:
82 5 0.01
83 191 0.41
84 266 0.57
85 3 0.01
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.41
Consensus pattern (83 bp):
GTAATCTCTAAGTTTTTTGGTAAGATTCGTAAGTCTTTTGAGCTAAATTTATTTTAGAATCTAGA
TTTGTAAGACCTCTGAAC
Found at i:4685452 original size:167 final size:168
Alignment explanation
Indices: 4685049--4685775 Score: 537
Period size: 167 Copynumber: 4.4 Consensus size: 168
4685039 AGTCCTTCAA
* * * * ** * **
4685049 GTAAGATTCATAAGTTTTTCAAGCTGAATCTGTTTTAAAGT-TTGGTTTGTGAA-ACC-TTGAGG
1 GTAAAATTCATAAGTTTTTTAAGCTAAATCTATTTTAAAGTCAAGATTTGT-AAGACCTTTGAAA
* * * * * * * **
4685111 TGTAATCTTTAAGTTTTTTGGGTAAGATTTGTAAATCTTTTGAGCTGAATTTATTTTAGAATCAA
65 CGTAATCTTTAAGTTTTTTAGGTAAGATTCGTAAGTCTTTCGAACTGAATTTATTTTAAAATTTA
* * *
4685176 GATTTATAAGACCTCTGGACGTAATCTCTAA-ATTTTTTGT
130 G-TTTGTAAGACCTCTGGACGTAATCTCTAAGA-TCTTTGG
* * * * ** * * *
4685216 GTAAGATTCATAAGTTTTTTTAGTTGAATCTATTTTAAAGT-TTGATTTATAAGA-CTTTGAGAT
1 GTAAAATTCATAAGTTTTTTAAGCTAAATCTATTTTAAAGTCAAGATTTGTAAGACCTTTGAAAC
** * *
4685279 GTAATCTTTAAGTCCTCTAGGTAAGATTCGTAAGTCTTTCGAACTGATTTTATTTTAAAATTTAG
66 GTAATCTTTAAGTTTTTTAGGTAAGATTCGTAAGTCTTTCGAACTGAATTTATTTTAAAATTTAG
* * * *
4685344 TTTGTAAGACATCCGGATGTAATCTTTAAGATCTTTGG
131 TTTGTAAGACCTCTGGACGTAATCTCTAAGATCTTTGG
* * *
4685382 GTAAAATTCATAAGTTTTTTGAGCTAAATCTATTTTAAAATCGAGATTTGTAAGACCTTT-AAAC
1 GTAAAATTCATAAGTTTTTTAAGCTAAATCTATTTTAAAGTCAAGATTTGTAAGACCTTTGAAAC
* * * * * * *
4685446 GTAATCTCTAAGTTTTTTAAGCAAGATTCGTAAGTTTTTC-AAGCTAAATTTATTTTAAAGTTTG
66 GTAATCTTTAAGTTTTTTAGGTAAGATTCGTAAGTCTTTCGAA-CTGAATTTATTTTAAAATTTA
* * *
4685510 GTTTGTAAAACCTCTGAACGTAATCTCTAAG-TCTTTCG
130 GTTTGTAAGACCTCTGGACGTAATCTCTAAGATCTTTGG
* * * * * *
4685548 G-ACAACATTCGTAAGTCTTTCAAACTAAATCTATTTTAGAGTCAAGATTTGTAAGACCTTCG-A
1 GTA-AA-ATTCATAAGTTTTTTAAGCTAAATCTATTTTAAAGTCAAGATTTGTAAGACCTTTGAA
* * ** * * * * * *
4685611 AGGTAATCTCTT-AGTTTTTCAGGTAAGATTTATAAGTCTTTTGAGCTAAATTTATTTTAGAGTC
64 ACGTAATCT-TTAAGTTTTTTAGGTAAGATTCGTAAGTCTTTCGAACTGAATTTATTTTAAAATT
* ** * *
4685675 GAGATTTGTAAGACCT-TCAAACATAATCTCTAAG-TCTTTCGA
128 TAG-TTTGTAAGACCTCT-GGACGTAATCTCTAAGATCTTT-GG
* * * * * * * * *
4685717 GCAAGATTCGTAAATCTTTTGAGCTAGATCTGTTTTAAAGTCAAGATTTGTAAAACCTT
1 GTAAAATTCATAAGTTTTTTAAGCTAAATCTATTTTAAAGTCAAGATTTGTAAGACCTT
4685776 CCGACATAAT
Statistics
Matches: 454, Mismatches: 91, Indels: 29
0.79 0.16 0.05
Matches are distributed among these distances:
165 1 0.00
166 79 0.17
167 289 0.64
168 82 0.18
169 2 0.00
170 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (168 bp):
GTAAAATTCATAAGTTTTTTAAGCTAAATCTATTTTAAAGTCAAGATTTGTAAGACCTTTGAAAC
GTAATCTTTAAGTTTTTTAGGTAAGATTCGTAAGTCTTTCGAACTGAATTTATTTTAAAATTTAG
TTTGTAAGACCTCTGGACGTAATCTCTAAGATCTTTGG
Found at i:4685602 original size:40 final size:40
Alignment explanation
Indices: 4685558--4685769 Score: 106
Period size: 40 Copynumber: 5.1 Consensus size: 40
4685548 GACAACATTC
*
4685558 GTAAGTCTTTCAAACTAAATCTATTTTAGAGTCAAGATTT
1 GTAAGTCTTTCAAGCTAAATCTATTTTAGAGTCAAGATTT
* * * *
4685598 GTAAGACCTTCGAAGGTAATCTCTTAGTTTTTCAG-GT-AAGATTT
1 GTAAGTCTTTC-AAGCTAA-ATC-TA--TTTT-AGAGTCAAGATTT
* ** * *
4685642 ATAAGTCTTTTGAGCTAAATTTATTTTAGAGTCGAGATTT
1 GTAAGTCTTTCAAGCTAAATCTATTTTAGAGTCAAGATTT
* * * * * *
4685682 GTAAGACCTTCAAACATAATCTCTAAGTCTTTCGAG-CAAGATTC
1 GTAAGTCTTTCAAGC-TAA-ATCT-A-T-TTTAGAGTCAAGATTT
* ** * * *
4685726 GTAAATCTTTTGAGCTAGATCTGTTTTAAAGTCAAGATTT
1 GTAAGTCTTTCAAGCTAAATCTATTTTAGAGTCAAGATTT
4685766 GTAA
1 GTAA
4685770 AACCTTCCGA
Statistics
Matches: 121, Mismatches: 37, Indels: 28
0.65 0.20 0.15
Matches are distributed among these distances:
38 2 0.02
39 11 0.09
40 36 0.30
41 10 0.08
42 8 0.07
43 10 0.08
44 30 0.25
45 12 0.10
46 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.39
Consensus pattern (40 bp):
GTAAGTCTTTCAAGCTAAATCTATTTTAGAGTCAAGATTT
Found at i:4685847 original size:22 final size:22
Alignment explanation
Indices: 4685822--4685867 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
4685812 AAGTTCTCTG
4685822 AGCATGATC-TATAAAACCTTTT
1 AGCATGATCTTATAAAA-CTTTT
*
4685844 AGCATGATCTTTTAAAACTTTT
1 AGCATGATCTTATAAAACTTTT
4685866 AG
1 AG
4685868 GTATTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (22 bp):
AGCATGATCTTATAAAACTTTT
Found at i:4687128 original size:20 final size:22
Alignment explanation
Indices: 4687100--4687139 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
4687090 AGCCTCATAA
4687100 TTTAAAAAAA-AA-AATCAAGT
1 TTTAAAAAAACAATAATCAAGT
*
4687120 TTTACAAAAACAATAATCAA
1 TTTAAAAAAACAATAATCAA
4687140 ATAATATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (22 bp):
TTTAAAAAAACAATAATCAAGT
Found at i:4687137 original size:22 final size:20
Alignment explanation
Indices: 4687100--4687139 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
4687090 AGCCTCATAA
4687100 TTTAAAAAAAAAAATCAAGT
1 TTTAAAAAAAAAAATCAAGT
*
4687120 TTTACAAAAACAATAATCAA
1 TTTA-AAAAA-AAAAATCAA
4687140 ATAATATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 5 0.29
22 8 0.47
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (20 bp):
TTTAAAAAAAAAAATCAAGT
Found at i:4688804 original size:16 final size:17
Alignment explanation
Indices: 4688766--4688811 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
4688756 GATTTAATGA
*
4688766 TATATTTAT-AATTTTT
1 TATATTAATAAATTTTT
4688782 TACTATTAATAAATTTTT
1 TA-TATTAATAAATTTTT
*
4688800 T-TATTCATAAAT
1 TATATTAATAAAT
4688812 ATAAGTCACT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 12 0.46
17 6 0.23
18 8 0.31
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (17 bp):
TATATTAATAAATTTTT
Found at i:4689636 original size:10 final size:11
Alignment explanation
Indices: 4689609--4689642 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
4689599 ATCCAATGTA
4689609 ATCAAAATTAT
1 ATCAAAATTAT
*
4689620 ATAAAAATT-T
1 ATCAAAATTAT
4689630 ATCAAAATTAT
1 ATCAAAATTAT
4689641 AT
1 AT
4689643 TAATGATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (11 bp):
ATCAAAATTAT
Found at i:4689687 original size:21 final size:20
Alignment explanation
Indices: 4689662--4689767 Score: 61
Period size: 21 Copynumber: 5.1 Consensus size: 20
4689652 TCAAAATATG
4689662 ATTTTGATATAATTATGATA
1 ATTTTGATATAATTATGATA
* *
4689682 ACTTTT-ACTATAATTTTGGTA
1 A-TTTTGA-TATAATTATGATA
* * *
4689703 ATATTTGATATGATTTTAATA
1 AT-TTTGATATAATTATGATA
* * *
4689724 ATATTTTATATAATTTTGATG
1 AT-TTTGATATAATTATGATA
* * *
4689745 ATATTTAATATGATTTTGATA
1 AT-TTTGATATAATTATGATA
4689766 AT
1 AT
4689768 AATTTGTACC
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
20 3 0.04
21 66 0.94
22 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (20 bp):
ATTTTGATATAATTATGATA
Done.