Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold414
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: 2018024
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 13
Found at i:1902514 original size:18 final size:18
Alignment explanation
Indices: 1902493--1902535 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
1902483 TATTAAAAAA
1902493 TATATAAAAATAATTTAT
1 TATATAAAAATAATTTAT
*
1902511 TATATAAAATTAATTTAT
1 TATATAAAAATAATTTAT
*
1902529 TAAATAA
1 TATATAA
1902536 TTTATTATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TATATAAAAATAATTTAT
Found at i:1902519 original size:27 final size:26
Alignment explanation
Indices: 1902456--1902548 Score: 80
Period size: 30 Copynumber: 3.4 Consensus size: 26
1902446 TTTAATTATA
** *
1902456 ATTATAATTATATATTAAAATTATATTT
1 ATTATAAAAATATA-TAAAAATA-ATTT
1902484 ATTA-AAAAATATATAAAAATAATTT
1 ATTATAAAAATATATAAAAATAATTT
* *
1902509 ATTATATAAAATTAATTTATTAAATAATTT
1 ATTATA-AAAA-T-ATATA-AAAATAATTT
1902539 ATTATAAAAA
1 ATTATAAAAA
1902549 ATAGTTAACC
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
25 8 0.15
26 8 0.15
27 11 0.20
28 5 0.09
29 8 0.15
30 15 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
ATTATAAAAATATATAAAAATAATTT
Found at i:1902647 original size:23 final size:24
Alignment explanation
Indices: 1902576--1902652 Score: 65
Period size: 23 Copynumber: 3.4 Consensus size: 24
1902566 TAATAAATTA
* *
1902576 TTTAATTAT-AATTT-AATAT-TT
1 TTTAATTTTAAATTTAAATATAAT
*
1902597 TTTAATATTAAATTTAAATATAA-
1 TTTAATTTTAAATTTAAATATAAT
* *
1902620 ATTAATTTTAAATTTAGAT-TAAT
1 TTTAATTTTAAATTTAAATATAAT
1902643 TTTAAATTTT
1 TTT-AATTTT
1902653 TTTGAGTTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
21 7 0.16
22 8 0.18
23 23 0.52
24 6 0.14
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (24 bp):
TTTAATTTTAAATTTAAATATAAT
Found at i:1902650 original size:17 final size:17
Alignment explanation
Indices: 1902597--1902651 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
1902587 TTTAATATTT
*
1902597 TTTAATATTAAATTTAAA
1 TTTAA-ATTAATTTTAAA
*
1902615 TATAAATTAATTTTAAA
1 TTTAAATTAATTTTAAA
*
1902632 TTTAGATTAATTTTAAA
1 TTTAAATTAATTTTAAA
1902649 TTT
1 TTT
1902652 TTTTGAGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
17 29 0.88
18 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
TTTAAATTAATTTTAAA
Found at i:1903656 original size:11 final size:11
Alignment explanation
Indices: 1903640--1903711 Score: 54
Period size: 12 Copynumber: 6.1 Consensus size: 11
1903630 AGATATAGTT
1903640 AATAATTTAAA
1 AATAATTTAAA
*
1903651 AATAATATAAA
1 AATAATTTAAA
*
1903662 AATTAATTAATAA
1 AA-TAATTTA-AA
*
1903675 AATATTTATAAA
1 AATAATT-TAAA
*
1903687 AATAATATATTAA
1 AATAAT-T-TAAA
*
1903700 AATATTTTAAA
1 AATAATTTAAA
1903711 A
1 A
1903712 TAAATTATTA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
11 16 0.33
12 17 0.35
13 15 0.31
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AATAATTTAAA
Found at i:1903687 original size:24 final size:23
Alignment explanation
Indices: 1903660--1903718 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 23
1903650 AAATAATATA
1903660 AAAATTAATTAATAAAATATTTAT
1 AAAATTAATTAATAAAATATTT-T
* *
1903684 AAAAATAATATATTAAAATATTTT
1 AAAATTAAT-TAATAAAATATTTT
*
1903708 AAAATAAATTA
1 AAAATTAATTA
1903719 TTATTTATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 2 0.07
24 16 0.53
25 12 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAATTAATTAATAAAATATTTT
Found at i:1905436 original size:2 final size:2
Alignment explanation
Indices: 1905429--1905470 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1905419 TTACTCTTAT
1905429 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1905471 AAGAAAAGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1906745 original size:8 final size:9
Alignment explanation
Indices: 1906721--1906754 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
1906711 TATTTAAACA
1906721 TATTATATT
1 TATTATATT
1906730 TATTATATT
1 TATTATATT
1906739 T-TTATATT
1 TATTATATT
*
1906747 TATGATAT
1 TATTATAT
1906755 ATAAGATATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (9 bp):
TATTATATT
Found at i:1914554 original size:26 final size:25
Alignment explanation
Indices: 1914501--1914554 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
1914491 AAGTTCATAG
*
1914501 TTTTCTCAAATAAAAAATGACAATT
1 TTTTCTCAAATAAAAAATGACAACT
* *
1914526 TTTTTTCAAATAAAAAATTGATAACT
1 TTTTCTCAAATAAAAAA-TGACAACT
1914552 TTT
1 TTT
1914555 CAAGTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (25 bp):
TTTTCTCAAATAAAAAATGACAACT
Found at i:1914642 original size:24 final size:24
Alignment explanation
Indices: 1914614--1914659 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1914604 GCAAACATTC
*
1914614 TTTTATTTTATATTATTATAATAA
1 TTTTATTTAATATTATTATAATAA
* *
1914638 TTTTATTTAATTTTTTTATAAT
1 TTTTATTTAATATTATTATAAT
1914660 TTTCAATTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTTATTTAATATTATTATAATAA
Found at i:1916145 original size:31 final size:31
Alignment explanation
Indices: 1916107--1916188 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 31
1916097 AGGGATAAGT
1916107 ATATTTTTTTATTAAATTTTAAAAAAAATAA
1 ATATTTTTTTATTAAATTTTAAAAAAAATAA
*
1916138 ATA---TTTT-TTAAATATT-AAAAAAATAA
1 ATATTTTTTTATTAAATTTTAAAAAAAATAA
* *
1916164 ATATACTTTTTTATAAAAATTTAAA
1 ATAT--TTTTTTATTAAATTTTAAA
1916189 GTGATAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
26 13 0.32
27 8 0.20
28 4 0.10
31 7 0.17
32 6 0.15
33 2 0.05
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (31 bp):
ATATTTTTTTATTAAATTTTAAAAAAAATAA
Found at i:1916164 original size:26 final size:28
Alignment explanation
Indices: 1916113--1916167 Score: 87
Period size: 26 Copynumber: 2.0 Consensus size: 28
1916103 AAGTATATTT
*
1916113 TTTTATTAAATTTTAAAAAAAATAAATA
1 TTTTATTAAATATTAAAAAAAATAAATA
1916141 TTTT-TTAAATATT-AAAAAAATAAATA
1 TTTTATTAAATATTAAAAAAAATAAATA
1916167 T
1 T
1916168 ACTTTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 14 0.54
27 8 0.31
28 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
TTTTATTAAATATTAAAAAAAATAAATA
Found at i:1918391 original size:19 final size:20
Alignment explanation
Indices: 1918344--1918415 Score: 83
Period size: 21 Copynumber: 3.5 Consensus size: 20
1918334 TTTTACAAAT
*
1918344 TGTATCGATACAATAAGTTAA
1 TGTATCGATAC-ATAAGTAAA
1918365 TGTATCGATACATAAGTAAA
1 TGTATCGATACATAAGTAAA
***
1918385 T-TATCGATACATGCTTGAAA
1 TGTATCGATACATAAGT-AAA
1918405 TGTATCGATAC
1 TGTATCGATAC
1918416 TAGACAATGT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
19 12 0.27
20 13 0.29
21 20 0.44
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATAAGTAAA
Found at i:1921107 original size:97 final size:97
Alignment explanation
Indices: 1920941--1921138 Score: 256
Period size: 97 Copynumber: 2.0 Consensus size: 97
1920931 CATCAGAGAT
* * *
1920941 ACTCCAACCTTATTCTTCCGAAAGAATATTCCAATCCCGTTTTTAAATTTGTCAAGATCTAAATC
1 ACTCCAACCCTATTCTTCCGAAAGAATATTCCAATCCCATTTTTAAACTTGTCAAGATCTAAATC
* * * * *
1921006 TTATTTTCACCTAAACTGTCATCGTCGGGGAC
66 TTATTCTCACCCAAACTATCATCGTCAGGAAC
* * *
1921038 ACTCCAACCCTATTTTTCCG-AGGAGATACTT-CAATCCCATTTTTAAACTTGTCAAGATTTAAA
1 ACTCCAACCCTATTCTTCCGAAAGA-ATA-TTCCAATCCCATTTTTAAACTTGTCAAGATCTAAA
*
1921101 TCTTATTCTCACCCAAATTATCATCGTCAGGAAC
64 TCTTATTCTCACCCAAACTATCATCGTCAGGAAC
1921135 ACTC
1 ACTC
1921139 TAATCCCATT
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
96 3 0.03
97 82 0.94
98 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (97 bp):
ACTCCAACCCTATTCTTCCGAAAGAATATTCCAATCCCATTTTTAAACTTGTCAAGATCTAAATC
TTATTCTCACCCAAACTATCATCGTCAGGAAC
Found at i:1921714 original size:20 final size:21
Alignment explanation
Indices: 1921689--1921742 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
1921679 TACATAAGTT
*
1921689 TTGTATCGATACATTTA-TCA
1 TTGTATCGATACATCTATTCA
1921709 TTGTATCGATACA-CTATTCA
1 TTGTATCGATACATCTATTCA
*
1921729 ATGTATCGATACAT
1 TTGTATCGATACAT
1921743 GCAGGCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 28 0.93
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (21 bp):
TTGTATCGATACATCTATTCA
Found at i:1922682 original size:20 final size:21
Alignment explanation
Indices: 1922637--1922682 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
1922627 TGTTAGCAGC
1922637 CTATG-TTCATGCATTTTGAG
1 CTATGTTTCATGCATTTTGAG
*
1922657 CTATGTTTCATGCATTTTTAG
1 CTATGTTTCATGCATTTTGAG
1922678 C-ATGT
1 CTATGT
1922683 CCAGCACCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.48
Consensus pattern (21 bp):
CTATGTTTCATGCATTTTGAG
Found at i:1927674 original size:13 final size:13
Alignment explanation
Indices: 1927656--1927681 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1927646 ACAAAGATCC
1927656 ATGTATCGATACA
1 ATGTATCGATACA
1927669 ATGTATCGATACA
1 ATGTATCGATACA
1927682 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1927677 original size:33 final size:33
Alignment explanation
Indices: 1927635--1927701 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1927625 AAAATTTCCA
***
1927635 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1927668 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1927701 A
1 A
1927702 TTTCCTTGGC
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:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1927745 original size:19 final size:18
Alignment explanation
Indices: 1927721--1927820 Score: 103
Period size: 19 Copynumber: 5.9 Consensus size: 18
1927711 CAGTAGCTAA
1927721 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1927740 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1927755 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1927772 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1927787 TTA--TATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1927804 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1927821 TTGTTGAATT
Statistics
Matches: 69, Mismatches: 0, Indels: 25
0.73 0.00 0.27
Matches are distributed among these distances:
13 20 0.29
14 1 0.01
15 3 0.04
16 4 0.06
17 3 0.04
18 4 0.06
19 34 0.49
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1927761 original size:13 final size:13
Alignment explanation
Indices: 1927743--1927799 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
1927733 ACAATACTTA
1927743 TGTATCGATACAT
1 TGTATCGATACAT
1927756 TGTATCGATACAAAACTT
1 TGTATCGATAC---A--T
1927774 ATGTATCGATACAT
1 -TGTATCGATACAT
*
1927788 TATATCGATACA
1 TGTATCGATACA
1927800 AAACTTATGT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 22 0.59
14 1 0.03
16 2 0.05
18 1 0.03
19 11 0.30
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1927765 original size:32 final size:32
Alignment explanation
Indices: 1927724--1927818 Score: 172
Period size: 32 Copynumber: 3.0 Consensus size: 32
1927714 TAGCTAATTA
*
1927724 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1927756 TGTATCGATACAAAACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
*
1927788 TATATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1927819 AATTGTTGAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 61 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1927900 original size:21 final size:21
Alignment explanation
Indices: 1927876--1927932 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
1927866 CATTTTTAGG
1927876 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
1927897 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
1927918 ATGTATCGATACATT
1 ATGTATCGATACATT
1927933 TGGATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:1933825 original size:15 final size:15
Alignment explanation
Indices: 1933807--1933835 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1933797 CTAAAGCTAC
1933807 CACATCCAAAGCCAT
1 CACATCCAAAGCCAT
1933822 CACATCCAAAGCCA
1 CACATCCAAAGCCA
1933836 CAATCATGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.41, G:0.07, T:0.10
Consensus pattern (15 bp):
CACATCCAAAGCCAT
Found at i:1939740 original size:20 final size:20
Alignment explanation
Indices: 1939667--1939743 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 20
1939657 TTAAAAAAAA
* *
1939667 ATTGTATCGATACATTTACTT
1 ATTGTATCAATACA-TTACTC
* *
1939688 A-TGTATCAATACATGCAGTC
1 ATTGTATCAATACAT-TACTC
* * *
1939708 AATATATCGATACATTACTC
1 ATTGTATCAATACATTACTC
1939728 ATTGTATCAATACATT
1 ATTGTATCAATACATT
1939744 CTGGGTTTTT
Statistics
Matches: 43, Mismatches: 11, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
19 1 0.02
20 30 0.70
21 12 0.28
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (20 bp):
ATTGTATCAATACATTACTC
Found at i:1942363 original size:80 final size:78
Alignment explanation
Indices: 1942227--1942696 Score: 374
Period size: 80 Copynumber: 6.0 Consensus size: 78
1942217 TTTAGCCCCT
* * * * * *
1942227 TTTTTACTT-TCAAAATATTGAATTTTTCATCT-TAGGGATACTCTAACCCCATCATTTTTGAGG
1 TTTTTACTTCT-AAAACACTGAATTTATCATCTAT-GGGATACTCCAACCCCACCATTTCTGAGG
*
1942290 GGATACTCCAACCCA
64 GGATACTCCAACCCG
* *
1942305 TTTTTACTTCTAAAACATTGAATTTCATCATCTATGGGAATACTCCAACCCCACCATTTCCGAGG
1 TTTTTACTTCTAAAACACTGAATTT-ATCATCTATGGG-ATACTCCAACCCCACCATTTCTGAGG
*
1942370 GGATACTCCAATCCTG
64 GGATACTCCAA-CCCG
* * *
1942386 TTTTTACTTCTAAAACA-TAGAAATTT-TCATCACAAGGGATACTCCAACCCCACCATTTTTGAG
1 TTTTTACTTCTAAAACACT-G-AATTTATCATC-TATGGGATACTCCAACCCCACCATTTCTGAG
** *
1942449 GGGATACTTTAACCCC
63 GGGATACTCCAACCCG
* * * * *
1942465 ATTTT-C--C--AAACACTGAATTTTTCATATATGGGATACTCCAACCCCACCATTTCTAATGGG
1 TTTTTACTTCTAAAACACTGAATTTATCATCTATGGGATACTCCAACCCCACCATTTCTGAGGGG
*
1942525 ATACTTCAACCCTG
66 ATACTCCAACCC-G
** **** * * * *
1942539 TTTTTACTTCTAAAACACCAAAATTT-TCATCTCAAAAAATACTCTAACCTCATCATTTCTGAGA
1 TTTTTACTTCTAAAACA-CTGAATTTATCATCT-ATGGGATACTCCAACCCCACCATTTCTGAGG
*
1942603 GGATACTCCAACCTTG
64 GGATACTCCAACC-CG
**
1942619 TTTTTACTTCTAAAACACCT-AATTT-TACATCGCTA-GGGATACTTTAACCCCACCATCTTC-G
1 TTTTTACTTCTAAAACA-CTGAATTTAT-CAT--CTATGGGATACTCCAACCCCACCAT-TTCTG
1942680 AGGGGATACTCCAACCC
61 AGGGGATACTCCAACCC
1942697 TTATTTTCAC
Statistics
Matches: 319, Mismatches: 50, Indels: 45
0.77 0.12 0.11
Matches are distributed among these distances:
73 45 0.14
74 14 0.04
75 2 0.01
76 1 0.00
77 1 0.00
78 23 0.07
79 32 0.10
80 166 0.52
81 28 0.09
82 7 0.02
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (78 bp):
TTTTTACTTCTAAAACACTGAATTTATCATCTATGGGATACTCCAACCCCACCATTTCTGAGGGG
ATACTCCAACCCG
Found at i:1942540 original size:153 final size:158
Alignment explanation
Indices: 1942260--1942697 Score: 432
Period size: 153 Copynumber: 2.8 Consensus size: 158
1942250 TTTTCATCTT
* * *
1942260 AGGGATACTCTAACCCCATCATTTTTGAGGGGATACTCCAACCCATTTTTACTTCTAAAACATTG
1 AGGGATACTCCAACCCCACCATTTTTGAGGGGATACTCCAACCCATTTTTAC-TC-AAAACACTG
* * *
1942325 AATTTCATCATCTATGGGAATACTCCAACCCCACCATTTCCGAGGGGATACTCCAATCCTGTTTT
64 AATTTCATCATATATGGGAATACTCCAACCCCACCATTTCCAAGGGGATACTCCAACCCTGTTTT
*
1942390 TACTTCTAAAACA-TAGAAATTTTCATCACA
129 TACTTCTAAAACACCA-AAATTTTCATCACA
**
1942420 AGGGATACTCCAACCCCACCATTTTTGAGGGGATACTTTAACCCCA-TTTT-C-C-AAACACTGA
1 AGGGATACTCCAACCCCACCATTTTTGAGGGGATACTCCAA-CCCATTTTTACTCAAAACACTGA
* * * *
1942481 ATTT-TTCATATATGGG-ATACTCCAACCCCACCATTTCTAATGGGATACTTCAACCCTGTTTTT
65 ATTTCATCATATATGGGAATACTCCAACCCCACCATTTCCAAGGGGATACTCCAACCCTGTTTTT
*
1942544 ACTTCTAAAACACCAAAATTTTCATCTCA
130 ACTTCTAAAACACCAAAATTTTCATCACA
*** * * * * * **
1942573 AAAAATACTCTAACCTCATCATTTCTGAGAGGATACTCCAACCTTGTTTTTACTTCTAAAACACC
1 AGGGATACTCCAACCCCACCATTTTTGAGGGGATACTCCAACC-CATTTTTAC-TC-AAAACA-C
** ** *
1942638 T-AATTTTACATC-GCTA-GGG-ATACTTTAACCCCACCATCTT-CGAGGGGATACTCCAACCCT
62 TGAA-TTT-CATCATATATGGGAATACTCCAACCCCACCAT-TTCCAAGGGGATACTCCAACCCT
1942698 TATTTTCACC
Statistics
Matches: 229, Mismatches: 35, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
152 2 0.01
153 98 0.43
154 15 0.07
155 13 0.06
157 2 0.01
159 8 0.03
160 81 0.35
161 8 0.03
162 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (158 bp):
AGGGATACTCCAACCCCACCATTTTTGAGGGGATACTCCAACCCATTTTTACTCAAAACACTGAA
TTTCATCATATATGGGAATACTCCAACCCCACCATTTCCAAGGGGATACTCCAACCCTGTTTTTA
CTTCTAAAACACCAAAATTTTCATCACA
Found at i:1942582 original size:233 final size:233
Alignment explanation
Indices: 1942245--1942689 Score: 542
Period size: 233 Copynumber: 1.9 Consensus size: 233
1942235 TTCAAAATAT
* * * * *
1942245 TGAATTTTTCATCTTAGGGATACTCTAACCCCATCATTTTTGAGGGGATACTCCAACCCATTTTT
1 TGAATTTTTCATATTAGGGATACTCCAACCCCACCATTTCTAAGGGGATACTCCAACCCATTTTT
*** *** *
1942310 ACTTCTAAAACATTGAATTTCATCATCTATGGGAATACTCCAACCCCACCATTTCCGAGGGGATA
66 ACTTCTAAAACACAAAATTTCATCATCTATAAAAATACTCCAACCCCACCATTTCCGAGAGGATA
*
1942375 CTCCAATCC-TGTTTTTACTTCTAAAACATAGAAATTTT-CATCACAAGGGATACTCCAACCCCA
131 CTCCAA-CCTTGTTTTTACTTCTAAAACA-ACAAATTTTACATCACAAGGGATACTCCAACCCCA
* *
1942438 CCATTTTTGAGGGGATACTTTAACCCCATTTTCCAAACAC
194 CCATCTTCGAGGGGATACTTTAACCCCATTTTCCAAACAC
* * *
1942478 TGAATTTTTCATA-TATGGGATACTCCAACCCCACCATTTCTAATGGGATACTTCAACCCTGTTT
1 TGAATTTTTCATATTA-GGGATACTCCAACCCCACCATTTCTAAGGGGATACTCCAACCC-ATTT
* * * *
1942542 TTACTTCTAAAACACCAAAATTT--TCATCTCA-AAAAATACTCTAACCTCATCATTTCTGAGAG
64 TTACTTCTAAAACA-CAAAATTTCATCATCT-ATAAAAATACTCCAACCCCACCATTTCCGAGAG
* * * * **
1942604 GATACTCCAACCTTGTTTTTACTTCTAAAACACCTAATTTTACATCGCTAGGGATACTTTAACCC
127 GATACTCCAACCTTGTTTTTACTTCTAAAACAACAAATTTTACATCACAAGGGATACTCCAACCC
1942669 CACCATCTTCGAGGGGATACT
192 CACCATCTTCGAGGGGATACT
1942690 CCAACCCTTA
Statistics
Matches: 178, Mismatches: 28, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
232 10 0.06
233 145 0.81
234 18 0.10
235 5 0.03
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (233 bp):
TGAATTTTTCATATTAGGGATACTCCAACCCCACCATTTCTAAGGGGATACTCCAACCCATTTTT
ACTTCTAAAACACAAAATTTCATCATCTATAAAAATACTCCAACCCCACCATTTCCGAGAGGATA
CTCCAACCTTGTTTTTACTTCTAAAACAACAAATTTTACATCACAAGGGATACTCCAACCCCACC
ATCTTCGAGGGGATACTTTAACCCCATTTTCCAAACAC
Found at i:1943575 original size:21 final size:20
Alignment explanation
Indices: 1943544--1943610 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 20
1943534 AATCACATTT
1943544 TTGTCCAAATGTATCGATACA
1 TTGT-CAAATGTATCGATACA
*
1943565 TTGTTAGAATGTATCGATACA
1 TTGTCA-AATGTATCGATACA
*
1943586 TTACTCAAATGTATCGATACA
1 TT-GTCAAATGTATCGATACA
1943607 TTGT
1 TTGT
1943611 ATCGATACAC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 2 0.05
21 36 0.90
22 2 0.05
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (20 bp):
TTGTCAAATGTATCGATACA
Found at i:1943613 original size:13 final size:13
Alignment explanation
Indices: 1943595--1943619 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1943585 ATTACTCAAA
1943595 TGTATCGATACAT
1 TGTATCGATACAT
1943608 TGTATCGATACA
1 TGTATCGATACA
1943620 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1943672 original size:52 final size:52
Alignment explanation
Indices: 1943628--1943756 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
1943618 CACTGATCTT
* *
1943628 TGTATCGATACATGCAAGAAAATTTG-CTCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGTC-CAGATGTATCGATACACTATGAAA
*
1943680 TGTATCGATACATACAGGCAAATTTGTCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGTCCAGATGTATCGATACACTATGAAA
1943732 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1943757 TTATATTTCG
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
52 71 0.99
53 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGTCCAGATGTATCGATACACTATGAAA
Found at i:1952233 original size:21 final size:21
Alignment explanation
Indices: 1952200--1952239 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1952190 CAAAGCAGCT
* * *
1952200 AAACGTATTCAAAGGTATATC
1 AAACATATGCAAAGCTATATC
1952221 AAACATATGCAAAGCTATA
1 AAACATATGCAAAGCTATA
1952240 AAATTCTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.25
Consensus pattern (21 bp):
AAACATATGCAAAGCTATATC
Found at i:1953438 original size:15 final size:15
Alignment explanation
Indices: 1953418--1953449 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1953408 AGAAAATCTG
*
1953418 AAAAAAATGAAAAAA
1 AAAAAAAGGAAAAAA
1953433 AAAAAAAGGAAAAAA
1 AAAAAAAGGAAAAAA
1953448 AA
1 AA
1953450 GAAGGAATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (15 bp):
AAAAAAAGGAAAAAA
Found at i:1955903 original size:20 final size:20
Alignment explanation
Indices: 1955880--1955938 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 20
1955870 ATACACAATT
*
1955880 CAAAGTATCGATACATGTAG
1 CAAAGTATCGATACATGTAA
1955900 CAAAGTATCGATACATG-AA
1 CAAAGTATCGATACATGTAA
*
1955919 AAAGATGTATCGATACATGT
1 CAA-A-GTATCGATACATGT
1955939 CATTGGGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.09
20 18 0.53
21 13 0.38
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (20 bp):
CAAAGTATCGATACATGTAA
Found at i:1956004 original size:13 final size:13
Alignment explanation
Indices: 1955986--1956011 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1955976 TACACCAAGT
1955986 ATGTATCGATACA
1 ATGTATCGATACA
1955999 ATGTATCGATACA
1 ATGTATCGATACA
1956012 CCAAAAAATT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1956030 original size:34 final size:32
Alignment explanation
Indices: 1955968--1956032 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
1955958 TAGCCAAACT
**
1955968 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
1956000 TGTATCGATACACCAAAAAATTGTATCGATACA
1 TGTATCGATACACC-AAAAA-TGTATCGATACA
1956033 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:1956097 original size:20 final size:22
Alignment explanation
Indices: 1956066--1956109 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
1956056 GCTATATTTT
1956066 CAAATATGTATCGATACA-TCA
1 CAAATATGTATCGATACATTCA
1956087 CAAAT-TGTATCGATACATTCA
1 CAAATATGTATCGATACATTCA
1956108 CA
1 CA
1956110 CGGAAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (22 bp):
CAAATATGTATCGATACATTCA
Found at i:1957267 original size:13 final size:13
Alignment explanation
Indices: 1957249--1957287 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1957239 ACATTTTTCT
1957249 TTGTATCGATACA
1 TTGTATCGATACA
1957262 TTGTATCGATACA
1 TTGTATCGATACA
*
1957275 CTGTATCGATACA
1 TTGTATCGATACA
1957288 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1957452 original size:20 final size:20
Alignment explanation
Indices: 1957409--1957455 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
1957399 AAAACTTTTG
1957409 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1957430 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1957450 CAAAAT
1 CAAAAT
1957456 CAGCTTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1959901 original size:13 final size:13
Alignment explanation
Indices: 1959883--1959908 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1959873 TACACCAAGT
1959883 ATGTATCGATACA
1 ATGTATCGATACA
1959896 ATGTATCGATACA
1 ATGTATCGATACA
1959909 CCAAAAAATT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1959927 original size:34 final size:32
Alignment explanation
Indices: 1959865--1959929 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
1959855 TAGCCAAACT
**
1959865 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
1959897 TGTATCGATACACCAAAAAATTGTATCGATACA
1 TGTATCGATACACC-AAAAA-TGTATCGATACA
1959930 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:1959994 original size:20 final size:22
Alignment explanation
Indices: 1959963--1960006 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
1959953 GCTATATTTT
1959963 CAAATATGTATCGATACA-TCA
1 CAAATATGTATCGATACATTCA
1959984 CAAAT-TGTATCGATACATTCA
1 CAAATATGTATCGATACATTCA
1960005 CA
1 CA
1960007 CGGGAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (22 bp):
CAAATATGTATCGATACATTCA
Found at i:1964462 original size:22 final size:21
Alignment explanation
Indices: 1964419--1964463 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
1964409 TTAAAAAATT
*
1964419 AATTTAATTAATATAAATATA
1 AATTTAATTAATATAAACATA
* *
1964440 AATTTAATTTAATTTAAGCATA
1 AATTTAA-TTAATATAAACATA
1964462 AA
1 AA
1964464 AAGTTAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
AATTTAATTAATATAAACATA
Found at i:1964491 original size:17 final size:17
Alignment explanation
Indices: 1964469--1964550 Score: 80
Period size: 16 Copynumber: 5.0 Consensus size: 17
1964459 ATAAAAAGTT
1964469 AATAATTTAAACTTAAA
1 AATAATTTAAACTTAAA
* *
1964486 AATAATATAAACTT-GA
1 AATAATTTAAACTTAAA
* ** *
1964502 AATGACAT-AATTTAAA
1 AATAATTTAAACTTAAA
*
1964518 AATAATTTAAA-TTTAA
1 AATAATTTAAACTTAAA
1964534 AATAATTTAAACTTAAA
1 AATAATTTAAACTTAAA
1964551 TTAATAAAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
15 4 0.08
16 28 0.55
17 19 0.37
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.35
Consensus pattern (17 bp):
AATAATTTAAACTTAAA
Found at i:1964495 original size:22 final size:23
Alignment explanation
Indices: 1964444--1964495 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
1964434 AATATAAATT
* *
1964444 TAATTTAATTTAAGCATAAAAAG
1 TAATATAATTTAAACATAAAAAG
* *
1964467 TTA-ATAATTTAAACTTAAAAA-
1 TAATATAATTTAAACATAAAAAG
1964488 TAATATAA
1 TAATATAA
1964496 ACTTGAAATG
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
21 2 0.09
22 19 0.83
23 2 0.09
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (23 bp):
TAATATAATTTAAACATAAAAAG
Found at i:1964535 original size:16 final size:16
Alignment explanation
Indices: 1964469--1964571 Score: 73
Period size: 16 Copynumber: 6.4 Consensus size: 16
1964459 ATAAAAAGTT
* *
1964469 AATAATTTAAACTTAAA
1 AATAATATAAA-TTTAA
* *
1964486 AATAATATAAACTTGA
1 AATAATATAAATTTAA
* *
1964502 AATGACAT-AATTTAAA
1 AATAATATAAATTT-AA
*
1964518 AATAATTTAAATTTAA
1 AATAATATAAATTTAA
* *
1964534 AATAATTTAAACTTAA
1 AATAATATAAATTTAA
* * *
1964550 ATTAATAAAAATATAA
1 AATAATATAAATTTAA
1964566 AATAAT
1 AATAAT
1964572 CCAAACTTTA
Statistics
Matches: 66, Mismatches: 18, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
15 4 0.06
16 47 0.71
17 15 0.23
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (16 bp):
AATAATATAAATTTAA
Found at i:1964566 original size:22 final size:22
Alignment explanation
Indices: 1964524--1964566 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1964514 TAAAAATAAT
* *
1964524 TTAAATTTAAAATAATTTAAAC
1 TTAAATTTAAAAAAATATAAAC
1964546 TTAAA-TTAATAAAAATATAAA
1 TTAAATTTAA-AAAAATATAAA
1964567 ATAATCCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAAATTTAAAAAAATATAAAC
Found at i:1964567 original size:32 final size:32
Alignment explanation
Indices: 1964526--1964587 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
1964516 AAAATAATTT
* **
1964526 AAATTTAAAATAATTTAAACTTAAATTAATAA
1 AAATATAAAATAATCCAAACTTAAATTAATAA
*
1964558 AAATATAAAATAATCCAAACTTTAATTAAT
1 AAATATAAAATAATCCAAACTTAAATTAAT
1964588 TATAATTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (32 bp):
AAATATAAAATAATCCAAACTTAAATTAATAA
Found at i:1964568 original size:48 final size:49
Alignment explanation
Indices: 1964469--1964571 Score: 122
Period size: 48 Copynumber: 2.1 Consensus size: 49
1964459 ATAAAAAGTT
**
1964469 AATAATTTAAACTTAAAAATAATATAAACTTGAAATGACATAATTTAAA
1 AATAATTTAAACTTAAAAATAATATAAACTTGAAATGACATAAAATAAA
* * *
1964518 AATAATTTAAA-TTTAAAATAATTTAAACTT-AAATTA-ATAAAAATATAA
1 AATAATTTAAACTTAAAAATAATATAAACTTGAAATGACAT-AAAATA-AA
1964566 AATAAT
1 AATAAT
1964572 CCAAACTTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
46 2 0.04
47 9 0.19
48 25 0.53
49 11 0.23
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (49 bp):
AATAATTTAAACTTAAAAATAATATAAACTTGAAATGACATAAAATAAA
Found at i:1964769 original size:19 final size:19
Alignment explanation
Indices: 1964744--1964783 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1964734 AAAGATAAAG
*
1964744 TATTTTTATTATTATAATTA
1 TATTTTAATT-TTATAATTA
*
1964764 TATTTTAATTTTATATTTA
1 TATTTTAATTTTATAATTA
1964783 T
1 T
1964784 TAGCATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTTTAATTTTATAATTA
Found at i:1966450 original size:41 final size:39
Alignment explanation
Indices: 1966383--1966487 Score: 104
Period size: 41 Copynumber: 2.6 Consensus size: 39
1966373 TGTTGCACCC
* * **
1966383 AAGATTTTTAATTA-AATTTTCGAATTTCAATTAGAGCTAA
1 AAGATTTTTAATTAGACTTTT-TAATTTCAATTA-AAATAA
*
1966423 TAAGATTTTTAATTAGACTTTTTAATTTTAATTAAAATAA
1 -AAGATTTTTAATTAGACTTTTTAATTTCAATTAAAATAA
1966463 ATAGCATTTTTTAATTAGACTTTTT
1 A-AG-A-TTTTTAATTAGACTTTTT
1966488 CTAACCAATA
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
39 1 0.02
40 6 0.11
41 25 0.45
42 23 0.42
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.49
Consensus pattern (39 bp):
AAGATTTTTAATTAGACTTTTTAATTTCAATTAAAATAA
Found at i:1966597 original size:41 final size:41
Alignment explanation
Indices: 1966486--1966597 Score: 129
Period size: 40 Copynumber: 2.8 Consensus size: 41
1966476 ATTAGACTTT
*
1966486 TTCTAACCAATA-GGAATTAATCTTGCCTTTTCAACCATCA
1 TTCTAACCAATATGGAATTAATCTTGACTTTTCAACCATCA
* * * * * *
1966526 TTCCAACCAACAT-GAATTAATCTTGGCTTTTCACCCTTGA
1 TTCTAACCAATATGGAATTAATCTTGACTTTTCAACCATCA
* *
1966566 TTCTAACTAATATGGAATTAATTTTGACTTTT
1 TTCTAACCAATATGGAATTAATCTTGACTTTT
1966598 TAAACGTTAT
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
40 43 0.73
41 16 0.27
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.39
Consensus pattern (41 bp):
TTCTAACCAATATGGAATTAATCTTGACTTTTCAACCATCA
Found at i:1976950 original size:2 final size:2
Alignment explanation
Indices: 1976943--1976979 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1976933 AAACCCGTAC
1976943 AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1976980 TTGTGTGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1977514 original size:96 final size:96
Alignment explanation
Indices: 1977346--1977537 Score: 357
Period size: 96 Copynumber: 2.0 Consensus size: 96
1977336 GTCGGATGCA
1977346 GAGCAAAGAATTGTGGTGTTGCTTGAGCCATGAATCTCATAATTACTTTATTTATCCAACTTGCC
1 GAGCAAAGAATTGTGGTGTTGCTTGAGCCATGAATCTCATAATTACTTTATTTATCCAACTTGCC
*
1977411 ACGCGTTTAGAAGAGGGTGCAATTATTACTT
66 ACACGTTTAGAAGAGGGTGCAATTATTACTT
* *
1977442 GAGCAAAGAATTGTGGTGTTGCTTGGGCCATGAATCTCATTATTACTTTATTTATCCAACTTGCC
1 GAGCAAAGAATTGTGGTGTTGCTTGAGCCATGAATCTCATAATTACTTTATTTATCCAACTTGCC
1977507 ACACGTTTAGAAGAGGGTGCAATTATTACTT
66 ACACGTTTAGAAGAGGGTGCAATTATTACTT
1977538 CTTATGAAAG
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 93 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (96 bp):
GAGCAAAGAATTGTGGTGTTGCTTGAGCCATGAATCTCATAATTACTTTATTTATCCAACTTGCC
ACACGTTTAGAAGAGGGTGCAATTATTACTT
Found at i:1979887 original size:82 final size:82
Alignment explanation
Indices: 1979766--1979927 Score: 279
Period size: 82 Copynumber: 2.0 Consensus size: 82
1979756 TTGGCATGAC
* * *
1979766 ACCTATTCCTACCGTCTGCCTGTGGCTTCTGAACCTGAATGAAAAACTTAGCCTTGCTACAAATC
1 ACCTATTCCTACCATCTGCCTGTGACTTCTGAACCTGAATGAAAAACTTAGCCTTGCCACAAATC
1979831 AAGTTCCTTTCCTAATA
66 AAGTTCCTTTCCTAATA
* *
1979848 ACCTATTCTTACCATCTGCCTGTGACTTCTGAACCTGAATGAACAACTTAGCCTTGCCACAAATC
1 ACCTATTCCTACCATCTGCCTGTGACTTCTGAACCTGAATGAAAAACTTAGCCTTGCCACAAATC
1979913 AAGTTCCTTTCCTAA
66 AAGTTCCTTTCCTAA
1979928 AAACAAGATT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 75 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.31
Consensus pattern (82 bp):
ACCTATTCCTACCATCTGCCTGTGACTTCTGAACCTGAATGAAAAACTTAGCCTTGCCACAAATC
AAGTTCCTTTCCTAATA
Found at i:1984451 original size:15 final size:15
Alignment explanation
Indices: 1984428--1984491 Score: 55
Period size: 14 Copynumber: 4.3 Consensus size: 15
1984418 TTTTTTTATT
* *
1984428 AAATTTAATAATTTA
1 AAATATAATAATATA
1984443 AAATATAAT--TATA
1 AAATATAATAATATA
1984456 CAAATATAATATATATA
1 -AAATATAATA-ATATA
1984473 AAATAATAA-AA-ATA
1 AAAT-ATAATAATATA
1984487 AAATA
1 AAATA
1984492 AGACATAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
13 4 0.10
14 16 0.38
15 9 0.21
16 5 0.12
17 8 0.19
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATATAATAATATA
Found at i:1984566 original size:25 final size:25
Alignment explanation
Indices: 1984534--1984597 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
1984524 AATTATTAAA
* *
1984534 ATAT-TAATATATATATAATATTTT
1 ATATATAATATATATATAATAATAT
*
1984558 TTATATAAT-TATAATATAATAATAT
1 ATATATAATATAT-ATATAATAATAT
1984583 ATATATAA-ATATATA
1 ATATATAATATATATA
1984598 AATTATCACA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
24 9 0.27
25 24 0.73
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
ATATATAATATATATATAATAATAT
Found at i:1984579 original size:14 final size:14
Alignment explanation
Indices: 1984538--1984590 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
1984528 ATTAAAATAT
1984538 TAATATATATATAA
1 TAATATATATATAA
* * *
1984552 TATTTTTTATATAA
1 TAATATATATATAA
1984566 T--TATA-ATATAA
1 TAATATATATATAA
1984577 TAATATATATATAA
1 TAATATATATATAA
1984591 ATATATAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
11 7 0.23
12 2 0.06
13 4 0.13
14 18 0.58
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TAATATATATATAA
Found at i:1985283 original size:25 final size:24
Alignment explanation
Indices: 1985255--1985331 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 24
1985245 CTAATATGAA
1985255 AATATAATATAAATATAATATATTT
1 AATATAATATAAATATAATAT-TTT
*
1985280 AATA-AATATTAAAAATAATATTTT
1 AATATAATA-TAAATATAATATTTT
* *
1985304 AA-ATAA-ATATA-AT-ATATTTA
1 AATATAATATAAATATAATATTTT
1985324 AATATAAT
1 AATATAAT
1985332 TAACACATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
20 8 0.18
21 6 0.13
22 3 0.07
23 2 0.04
24 11 0.24
25 15 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
AATATAATATAAATATAATATTTT
Found at i:1985284 original size:18 final size:18
Alignment explanation
Indices: 1985263--1985324 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 18
1985253 AAAATATAAT
1985263 ATAAATATAATATATTTA
1 ATAAATATAATATATTTA
1985281 ATAAATATTAAAAATAATATTTTAA
1 ATAAATA-T---AAT-ATA-TTT-A
1985306 ATAAATATAATATATTTA
1 ATAAATATAATATATTTA
1985324 A
1 A
1985325 ATATAATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
18 9 0.24
19 4 0.11
20 3 0.08
21 3 0.08
22 3 0.08
23 3 0.08
24 4 0.11
25 8 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAAATATAATATATTTA
Found at i:1986032 original size:3 final size:3
Alignment explanation
Indices: 1986026--1986128 Score: 109
Period size: 3 Copynumber: 34.7 Consensus size: 3
1986016 GCAACAACAT
* * * * * * *
1986026 ATC ATC ATC ATT ATC GTC ATC ATG AT- ATT ATG ATC ATC ATC CTC ATT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
1986073 GTC ATC TTT ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1986121 ATC ATC AT
1 ATC ATC AT
1986129 TATTATTATT
Statistics
Matches: 82, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
2 2 0.02
3 80 0.98
ACGTcount: A:0.30, C:0.27, G:0.04, T:0.39
Consensus pattern (3 bp):
ATC
Found at i:1986873 original size:16 final size:17
Alignment explanation
Indices: 1986840--1986873 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1986830 ATATTTTCTC
*
1986840 CATCTCTTAGGCTTTTG
1 CATCTCTTAAGCTTTTG
1986857 CATCTCTTAAG-TTTTG
1 CATCTCTTAAGCTTTTG
1986873 C
1 C
1986874 TTAGTAGAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.24, G:0.15, T:0.47
Consensus pattern (17 bp):
CATCTCTTAAGCTTTTG
Found at i:1987517 original size:146 final size:145
Alignment explanation
Indices: 1987186--1987532 Score: 477
Period size: 147 Copynumber: 2.4 Consensus size: 145
1987176 TTATGAAAGT
* * * *
1987186 AAAATTTTAAAAGCAAGATTTTCTCATTGTATCCTTTGAATGAAATCATCATATTCCCAATGAGA
1 AAAATCTTAAAAGCAAGATTTGCTCATTCT-TCCTTTGAATAAAATCATCATATTCCCAATGAGA
*
1987251 AAAGGCAACAATTATTAAAAAAATCAAAAAAATAAAAGGAAATTGATGAATTAAAAGAAGAAAAA
65 AAAGGCAACAATTATTAAAAAAATCAAAAAAATAAAAGAAAATTGATGAATT-AAAGAAGAAAAA
1987316 AAATTCAACTAAAGGCA
129 AAATTCAACTAAAGGCA
* *
1987333 AAAATCTTAAAAGCAGGATTTGCTCATTCTTCCCTTTGAATAAAATCATCATATTCCCAATGAGT
1 AAAATCTTAAAAGCAAGATTTGCTCATTCTT-CCTTTGAATAAAATCATCATATTCCCAATGAGA
* * *
1987398 AAAGGCAACAATTATTAGAAAAAT-AAAAAAATAAAA-AACAATTGATGAATT-GA-AAGAATAA
65 AAAGGCAACAATTATTAAAAAAATCAAAAAAATAAAAGAA-AATTGATGAATTAAAGAAGAAAAA
*
1987459 AAATTCAACTAACGGCA
129 AAATTCAACTAAAGGCA
* *
1987476 AAAATCTTTAAAAAAGCAAGATTTGATCATTCTTCCGTTTGAACAAAATCATCATAT
1 AAAATC-TT--AAAAGCAAGATTTGCTCATTCTTCC-TTTGAATAAAATCATCATAT
1987533 AAAATAAAAA
Statistics
Matches: 180, Mismatches: 14, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
143 29 0.16
144 3 0.02
145 3 0.02
146 65 0.36
147 80 0.44
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.27
Consensus pattern (145 bp):
AAAATCTTAAAAGCAAGATTTGCTCATTCTTCCTTTGAATAAAATCATCATATTCCCAATGAGAA
AAGGCAACAATTATTAAAAAAATCAAAAAAATAAAAGAAAATTGATGAATTAAAGAAGAAAAAAA
ATTCAACTAAAGGCA
Found at i:1990270 original size:20 final size:20
Alignment explanation
Indices: 1990247--1990284 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1990237 TTAAAATTAA
1990247 TTAATAATAAATA-AAAATAT
1 TTAAT-ATAAATATAAAATAT
*
1990267 TTAATTTAAATATAAAAT
1 TTAATATAAATATAAAAT
1990285 TATAAACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TTAATATAAATATAAAATAT
Found at i:1992126 original size:17 final size:17
Alignment explanation
Indices: 1992075--1992140 Score: 55
Period size: 17 Copynumber: 3.8 Consensus size: 17
1992065 TTGGATGAAA
* *
1992075 ATAATTAAAAAATATTTT
1 ATAATTTAAAAATA-ATT
1992093 ATAA--TAAATAATGAATT
1 ATAATTTAAA-AAT-AATT
1992110 ATAATTTAAAAATAATT
1 ATAATTTAAAAATAATT
* *
1992127 ATAAATTATAAATA
1 ATAATTTAAAAATA
1992141 TTTTATATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
16 3 0.08
17 25 0.62
18 8 0.20
19 4 0.10
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
ATAATTTAAAAATAATT
Found at i:1992169 original size:52 final size:49
Alignment explanation
Indices: 1992113--1992296 Score: 172
Period size: 44 Copynumber: 3.8 Consensus size: 49
1992103 ATGAATTATA
*
1992113 ATTTAAAAATAATTATAAATTATAAATATTTTATATTAAATCTTATATTACT
1 ATTT-AAAATAATTATAAA-TATAAAAATTTTATATTAAATCTTA-ATTACT
*
1992165 ATTTAAAA-AATTAT--AT-T--AAATTTTATATTAAATCTTGAATTATT
1 ATTTAAAATAATTATAAATATAAAAATTTTATATTAAATCTT-AATTACT
* * *
1992209 AATTAAAAATAA-TAAAATATATAAAAATATTTATGTTAAATCTTAATTTACT
1 -ATTTAAAATAATTATAA-ATATAAAAAT-TTTATATTAAATCTTAA-TTACT
*
1992261 ATTTAAAAT--TTATAAA-ATAAAAATATTATATTAAAT
1 ATTTAAAATAATTATAAATATAAAAATTTTATATTAAAT
1992297 AAAAATTTAT
Statistics
Matches: 110, Mismatches: 10, Indels: 29
0.74 0.07 0.19
Matches are distributed among these distances:
44 23 0.21
45 10 0.09
46 3 0.03
47 11 0.10
48 11 0.10
49 2 0.02
50 10 0.09
51 18 0.16
52 22 0.20
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (49 bp):
ATTTAAAATAATTATAAATATAAAAATTTTATATTAAATCTTAATTACT
Found at i:1992242 original size:96 final size:96
Alignment explanation
Indices: 1992088--1992268 Score: 253
Period size: 96 Copynumber: 1.9 Consensus size: 96
1992078 ATTAAAAAAT
*
1992088 ATTTTATAATAAATAATGAATTATAATTTAAAAATAATTATAAATTATAAATATTTTATATTAAA
1 ATTTTATAATAAATAATGAATTATAATTTAAAAATAATTATAAATTATAAAAATTTTATATTAAA
1992153 TCTT-ATATTACTATTTAAAAAATTATATTAA
66 TCTTAAT-TTACTATTTAAAAAATTATATTAA
* ** *
1992184 ATTTTATATTAAATCTTGAATTATTAA-TTAAAAATAA-TA-AAATATATAAAAATATTTATGTT
1 ATTTTATAATAAATAATGAATTA-TAATTTAAAAATAATTATAAAT-TATAAAAAT-TTTATATT
1992246 AAATCTTAATTTACTATTTAAAA
63 AAATCTTAATTTACTATTTAAAA
1992269 TTTATAAAAT
Statistics
Matches: 76, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
94 4 0.05
95 10 0.13
96 57 0.75
97 5 0.07
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (96 bp):
ATTTTATAATAAATAATGAATTATAATTTAAAAATAATTATAAATTATAAAAATTTTATATTAAA
TCTTAATTTACTATTTAAAAAATTATATTAA
Found at i:1992306 original size:17 final size:16
Alignment explanation
Indices: 1992265--1992330 Score: 80
Period size: 17 Copynumber: 4.0 Consensus size: 16
1992255 TTTACTATTT
*
1992265 AAAATTTA-TAAAATA
1 AAAATTTATTTAAATA
1992280 AAAATATTATATTAAATA
1 AAAAT-TTAT-TTAAATA
*
1992298 AAAATTTATTTATATTA
1 AAAATTTATTTA-AATA
1992315 AAAATTTATTTAAATA
1 AAAATTTATTTAAATA
1992331 TATAATTAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
15 5 0.11
16 9 0.20
17 19 0.43
18 11 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAATTTATTTAAATA
Found at i:1992312 original size:21 final size:19
Alignment explanation
Indices: 1992275--1992316 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
1992265 AAAATTTATA
1992275 AAATAAAAATA-TTATATT
1 AAATAAAAATATTTATATT
1992293 AAATAAAAATTTATTTATATT
1 AAATAAAAA--TATTTATATT
1992314 AAA
1 AAA
1992317 AATTTATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.43
20 2 0.10
21 10 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATAAAAATATTTATATT
Found at i:1992337 original size:17 final size:17
Alignment explanation
Indices: 1992264--1992337 Score: 66
Period size: 17 Copynumber: 4.4 Consensus size: 17
1992254 ATTTACTATT
*
1992264 TAAAATTTA-TAAAATA
1 TAAAATTTATTTAAATA
1992280 -AAAATATTATATTAAATA
1 TAAAAT-TTAT-TTAAATA
*
1992298 -AAAATTTATTTATAT-
1 TAAAATTTATTTAAATA
1992313 TAAAAATTTATTTAAATA
1 T-AAAATTTATTTAAATA
*
1992331 TATAATT
1 TAAAATT
1992338 AAAACTTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
15 5 0.10
16 8 0.17
17 23 0.48
18 12 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAAATTTATTTAAATA
Found at i:1992390 original size:28 final size:29
Alignment explanation
Indices: 1992311--1992390 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
1992301 ATTTATTTAT
* *
1992311 ATTAAAAATTTATTTAAATATATAATTAAAA
1 ATTAAAAATTTATTT-TACATA-AATTAAAA
* * *
1992342 CTT-AAAAGTTCTTTTACATAAATTAAAA
1 ATTAAAAATTTATTTTACATAAATTAAAA
1992370 ATTAAAAATTTATTTTA-ATAA
1 ATTAAAAATTTATTTTACATAA
1992391 CAATTATTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
28 14 0.35
29 15 0.38
30 9 0.22
31 2 0.05
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (29 bp):
ATTAAAAATTTATTTTACATAAATTAAAA
Found at i:1992712 original size:13 final size:14
Alignment explanation
Indices: 1992694--1992726 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
1992684 TATTTATATA
1992694 ATAAAAATATT-TT
1 ATAAAAATATTATT
1992707 ATAAAAATATTATT
1 ATAAAAATATTATT
1992721 ATAAAA
1 ATAAAA
1992727 CTAATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
ATAAAAATATTATT
Found at i:1992976 original size:2 final size:2
Alignment explanation
Indices: 1992969--1993000 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1992959 TGATCAAGAA
1992969 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1993001 TTGCTACAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1994175 original size:21 final size:19
Alignment explanation
Indices: 1994151--1994189 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
1994141 TATTTAATCC
1994151 AATAATAATTCTATTTTTTTT
1 AATAATAA-T-TATTTTTTTT
*
1994172 AATAGTAATTATTTTTTT
1 AATAATAATTATTTTTTT
1994190 ATTAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 1 0.06
21 7 0.41
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
AATAATAATTATTTTTTTT
Found at i:1994876 original size:17 final size:17
Alignment explanation
Indices: 1994829--1994876 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
1994819 TGATAGTTTT
* *
1994829 TTTTGTTTTGTTTTGTAC
1 TTTT-TTTTGTTTTGAAA
1994847 TTTTTTTAT-TTTTGAAA
1 TTTTTTT-TGTTTTGAAA
1994864 TTTTTTTTGTTTT
1 TTTTTTTTGTTTT
1994877 ATTTTGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 1 0.04
17 20 0.77
18 5 0.19
ACGTcount: A:0.10, C:0.02, G:0.10, T:0.77
Consensus pattern (17 bp):
TTTTTTTTGTTTTGAAA
Found at i:1994881 original size:22 final size:22
Alignment explanation
Indices: 1994850--1994891 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
1994840 TTTGTACTTT
1994850 TTTTATTTTTGAAATTTTTTTTG
1 TTTTATTTTTG-AATTTTTTTTG
*
1994873 TTTTA-TTTTGTATTTTTTT
1 TTTTATTTTTGAATTTTTTT
1994892 AACATATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 5 0.28
23 5 0.28
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (22 bp):
TTTTATTTTTGAATTTTTTTTG
Found at i:1994908 original size:38 final size:38
Alignment explanation
Indices: 1994825--1994910 Score: 93
Period size: 39 Copynumber: 2.2 Consensus size: 38
1994815 TTCTTGATAG
* ** *
1994825 TTTTTTTTGTTTTGTTTTGTACTTTTTTTATTTTTGAAA
1 TTTTTTTTGTTTTATTTTGTACTTTTTTTACATAT-AAA
*
1994864 TTTTTTTTGTTTTATTTTGTA-TTTTTTTAACATATAAT
1 TTTTTTTTGTTTTATTTTGTACTTTTTTT-ACATATAAA
1994902 TATTTTTTT
1 T-TTTTTTT
1994911 AATTTTTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
38 10 0.25
39 30 0.75
ACGTcount: A:0.16, C:0.02, G:0.07, T:0.74
Consensus pattern (38 bp):
TTTTTTTTGTTTTATTTTGTACTTTTTTTACATATAAA
Found at i:1994961 original size:15 final size:15
Alignment explanation
Indices: 1994941--1994970 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1994931 AGCCTCCTCC
*
1994941 ATTATTTTGATGGAG
1 ATTATTTTGAGGGAG
1994956 ATTATTTTGAGGGAG
1 ATTATTTTGAGGGAG
1994971 GCAATGACAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (15 bp):
ATTATTTTGAGGGAG
Found at i:1995276 original size:21 final size:21
Alignment explanation
Indices: 1995235--1995277 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1995225 TTAATTTTGT
*
1995235 AATTTATTATTATTATGATTA
1 AATTTATTATTATTATAATTA
*
1995256 AATTTAATT-TTATTTTAATTA
1 AATTT-ATTATTATTATAATTA
1995277 A
1 A
1995278 TCTTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
AATTTATTATTATTATAATTA
Found at i:1995469 original size:21 final size:20
Alignment explanation
Indices: 1995445--1995558 Score: 60
Period size: 20 Copynumber: 5.8 Consensus size: 20
1995435 TTTTTATTTG
1995445 TTTTGATAGTTTTTTTTTCAT
1 TTTTGATAGTTTTTTTTTC-T
1995466 TTTT--TA-TTTTTTTATGTCT
1 TTTTGATAGTTTTTTT-T-TCT
*** *
1995485 AAGT-ATAATT-TTTTTTC-
1 TTTTGATAGTTTTTTTTTCT
* * *
1995502 TTTTGTTAATTTTTTTTTGT
1 TTTTGATAGTTTTTTTTTCT
**
1995522 TTTTGATAGTTTTTTTTAAAT
1 TTTTGATAGTTTTTTTT-TCT
*
1995543 TTTTTATAGTTTTTTT
1 TTTTGATAGTTTTTTT
1995559 GTTTTGTGTA
Statistics
Matches: 72, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
17 1 0.01
18 14 0.19
19 12 0.17
20 23 0.32
21 22 0.31
ACGTcount: A:0.17, C:0.03, G:0.08, T:0.73
Consensus pattern (20 bp):
TTTTGATAGTTTTTTTTTCT
Found at i:1997424 original size:17 final size:17
Alignment explanation
Indices: 1997402--1997440 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
1997392 GGCAGCAAGT
*
1997402 AAAAAAAAAA-TAACAA
1 AAAAAAAAAAGAAACAA
*
1997418 AAAAAAAAAAGAAAGAA
1 AAAAAAAAAAGAAACAA
1997435 AAAAAA
1 AAAAAA
1997441 GGAAAAAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.90, C:0.03, G:0.05, T:0.03
Consensus pattern (17 bp):
AAAAAAAAAAGAAACAA
Found at i:1997441 original size:13 final size:13
Alignment explanation
Indices: 1997402--1997448 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
1997392 GGCAGCAAGT
*
1997402 AAAAAAAAAATAAC
1 AAAAAAAAAA-AAG
1997416 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
*
1997429 AAAGAAAAAAAAGG
1 AAA-AAAAAAAAAG
1997443 AAAAAA
1 AAAAAA
1997449 CCAAGGCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
13 8 0.27
14 22 0.73
ACGTcount: A:0.87, C:0.02, G:0.09, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:1997911 original size:45 final size:45
Alignment explanation
Indices: 1997862--1997956 Score: 181
Period size: 45 Copynumber: 2.1 Consensus size: 45
1997852 TGAAGAGCAT
*
1997862 TTGTGCTATGTTATCTTTGTTACTTTGAGCTGATTTGTGGGATTA
1 TTGTGCTATGTTATCTTTGTTACTTTGAGCTGATTTGAGGGATTA
1997907 TTGTGCTATGTTATCTTTGTTACTTTGAGCTGATTTGAGGGATTA
1 TTGTGCTATGTTATCTTTGTTACTTTGAGCTGATTTGAGGGATTA
1997952 TTGTG
1 TTGTG
1997957 TGTTTTGATG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.16, C:0.08, G:0.25, T:0.51
Consensus pattern (45 bp):
TTGTGCTATGTTATCTTTGTTACTTTGAGCTGATTTGAGGGATTA
Found at i:1999404 original size:33 final size:33
Alignment explanation
Indices: 1999367--1999436 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1999357 TTCAACGATT
1999367 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1999400 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1999433 TGTA
1 TGTA
1999437 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1999405 original size:13 final size:13
Alignment explanation
Indices: 1999387--1999411 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1999377 CATAAAATGT
1999387 TGTATCGATACAA
1 TGTATCGATACAA
1999400 TGTATCGATACA
1 TGTATCGATACA
1999412 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:1999494 original size:13 final size:13
Alignment explanation
Indices: 1999476--1999500 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1999466 ATTACTCACA
1999476 TGTATCGATACAT
1 TGTATCGATACAT
1999489 TGTATCGATACA
1 TGTATCGATACA
1999501 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1999565 original size:52 final size:52
Alignment explanation
Indices: 1999509--1999637 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
1999499 CACTGATCTT
*
1999509 TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
1999561 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
1999613 TGTATCGATACATGCAAATAAATTT
1 TGTATCGATACATGCAGACAAATTT
1999638 TCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2007950 original size:33 final size:34
Alignment explanation
Indices: 2007907--2008140 Score: 296
Period size: 33 Copynumber: 6.8 Consensus size: 34
2007897 GCATTTTTTC
* *
2007907 TTTAAAGCCCACAACTCCGCGGCACCTTGTTCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCCT
*
2007941 TTT-AAGCCCACAACTCCGTGGCACTCTTTTTCTCT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTCTTC-CT
2007976 TTTCAAAGCCCACAACTCCGTGGCACCTTCTT-CT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTCTTCCT
2008010 TTTCAAAGCCCACAACTCCGTGGCACCTTCTT-CT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTCTTCCT
** * *
2008044 TTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCTT
1 TTTAAAGCCCACAACTCCGTGGCAC-C-TTCTTCCT
*
2008080 TTTCAAAGCCCACAACTCCGTGGCACCTT-TTTCT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTCTTCCT
*
2008114 TTTAAAGCCCACAACTCTGTGGCACCT
1 TTTAAAGCCCACAACTCCGTGGCACCT
2008141 ACAACTTTGT
Statistics
Matches: 180, Mismatches: 12, Indels: 17
0.86 0.06 0.08
Matches are distributed among these distances:
33 63 0.35
34 55 0.31
35 11 0.06
36 10 0.06
37 41 0.23
ACGTcount: A:0.21, C:0.35, G:0.12, T:0.32
Consensus pattern (34 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTCTTCCT
Found at i:2007992 original size:70 final size:67
Alignment explanation
Indices: 2007875--2008355 Score: 365
Period size: 70 Copynumber: 7.2 Consensus size: 67
2007865 TCAAATACCT
* * * * * * *
2007875 TTTTAACGTCCACGACTCAGTGGCA-TTTTTTC-TTTAAAGCCCACAACTCCGCGGCACCTTGTT
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTCTT
2007938 CC
66 CC
2007940 TTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACAACTCCGTGGCACCT
1 TTTTAAAGCCCACAACTCCGTGGCAC-C-TTTT-TCTTTT-AAAGCCCACAACTCCGTGGCACCT
2008004 TCTT-C
62 TCTTCC
* **
2008009 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTT
1 TTTT-AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCAC-C-TT
* *
2008074 TTTCT
63 CTTCC
* *
2008079 TTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACCTAC-
1 TTTT-AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTCT
**
2008143 AAC
65 TCC
* * ** * *
2008146 TTTGT---G-GCAC-TCT-C-TTTC-CC---TT-TTTA-AAGCCCACAACTCCGTGGCATCTT-T
1 TTT-TAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTCT
*
2008197 TTC
65 TCC
* *
2008200 TGTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACGCCGTGGCA-C
1 T-TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT-AAAGCCCACAACTCCGTGGCACC
* *
2008264 TTTTTTC
61 TTCTTCC
* *
2008271 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCATCTT
1 TTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTAAAGCCCACAACTCCGTGGCA-CCT
*
2008335 TCTCCC
62 TCTTCC
*
2008341 TTCCTAAAGCCCACA
1 TT-TTAAAGCCCACA
2008356 CAAGTCGGTG
Statistics
Matches: 337, Mismatches: 44, Indels: 64
0.76 0.10 0.14
Matches are distributed among these distances:
54 24 0.07
55 5 0.01
56 2 0.01
57 1 0.00
58 3 0.01
59 4 0.01
60 2 0.01
61 3 0.01
62 3 0.01
63 4 0.01
64 17 0.05
65 4 0.01
66 2 0.01
67 27 0.08
68 29 0.09
69 19 0.06
70 132 0.39
71 56 0.17
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.34
Consensus pattern (67 bp):
TTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTCTT
CC
Found at i:2008052 original size:104 final size:103
Alignment explanation
Indices: 2007907--2008140 Score: 373
Period size: 104 Copynumber: 2.3 Consensus size: 103
2007897 GCATTTTTTC
* *
2007907 TTTAAAGCCCACAACTCCGCGGCACCTTGTTCCTTTTAAGCCCACAACTCCGTGGCACTC-TTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
2007971 TCTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCT
66 TCT-TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCT
**
2008010 TTTCAAAGCCCACAACTCCGTGGCACCTTCTT-CTTTTAAAGCCCACAACTTTGTGGCACTCTTT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTCTTCCTTTT-AAGCCCACAACTCCGTGGCACTCTTT
*
2008074 TTTCTTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT
64 TTTCTTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCT
*
2008114 TTTAAAGCCCACAACTCTGTGGCACCT
1 TTTAAAGCCCACAACTCCGTGGCACCT
2008141 ACAACTTTGT
Statistics
Matches: 122, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
103 31 0.25
104 84 0.69
105 7 0.06
ACGTcount: A:0.21, C:0.35, G:0.12, T:0.32
Consensus pattern (103 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTCTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
TCTTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCT
Found at i:2008200 original size:87 final size:88
Alignment explanation
Indices: 2008054--2008226 Score: 296
Period size: 87 Copynumber: 2.0 Consensus size: 88
2008044 TTTAAAGCCC
**
2008054 ACAACTTTGTGGCACTCTTTTTTCTTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTA
1 ACAACTTTGTGGCACTCTTTTCCCTTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTA
2008118 AAGCCCACAACTCTGTGGCACCT
66 AAGCCCACAACTCTGTGGCACCT
*
2008141 ACAACTTTGTGGCACTCTCTTTCCCTTTTT-AAAGCCCACAACTCCGTGGCATCTTTTTCTGTTT
1 ACAACTTTGTGGCACTCT-TTTCCCTTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
2008205 AAAGCCCACAACTCTGTGGCAC
65 AAAGCCCACAACTCTGTGGCAC
2008227 TCTTTTTCCC
Statistics
Matches: 81, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
87 47 0.58
88 34 0.42
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.35
Consensus pattern (88 bp):
ACAACTTTGTGGCACTCTTTTCCCTTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTA
AAGCCCACAACTCTGTGGCACCT
Found at i:2008246 original size:71 final size:69
Alignment explanation
Indices: 2008141--2008335 Score: 295
Period size: 71 Copynumber: 2.8 Consensus size: 69
2008131 TGTGGCACCT
* *
2008141 ACAACTTTGTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCCGTGGCATCTTTTTCTGTTTA
1 ACAACTCTGTGGCACTCTTTTTCCC-TTTTAAAGCCCACAACTCCGTGGCATCTTTTTCT-TTTA
2008206 AAGCCC
64 AAGCCC
*
2008212 ACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACGCCGTGGCA-CTTTTTTCTTTTA
1 ACAACTCTGTGGCACTCTTTTTCCCTTTT-AAAGCCCACAACTCCGTGGCATC-TTTTTCTTTTA
2008276 AAGCCC
64 AAGCCC
* *
2008282 ACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCATCTTT
1 ACAACTCTGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCATCTTT
2008336 CTCCCTTCCT
Statistics
Matches: 115, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
68 21 0.18
69 1 0.01
70 43 0.37
71 50 0.43
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.35
Consensus pattern (69 bp):
ACAACTCTGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCATCTTTTTCTTTTAAA
GCCC
Found at i:2008282 original size:191 final size:191
Alignment explanation
Indices: 2007958--2008330 Score: 524
Period size: 191 Copynumber: 1.9 Consensus size: 191
2007948 CCACAACTCC
* *
2007958 GTGGCACTCTTTTTCTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCAC
1 GTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCAC
***
2008023 AACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCTTTTTCAAAG
66 AACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACGCCGTGGCAC-CTTTTTTCTTTTTCAAAG
*
2008088 CCCACAACTCCGTGGCAC-CTTTTT-CTTTTAAAGCCCACAACTCTGTGGCACCTACAACTTT
130 CCCACAACTCCGTGGCACTCTTTTTCCTTTT-AAGCCCACAACTCCGTGGCACCTACAACTTT
* * *
2008149 GTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCCGTGGCATCTTTTTCTGTTT-AAAGCCCA
1 GTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCT-TTTCAAAGCCCA
* *
2008213 CAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACGCCGTGGCA-CTTTTTTC-TTTT-
65 CAACTCCGTGGCAC-CTTCTT--CTTTT-AAAGCCCACAACGCCGTGGCACCTTTTTTCTTTTTC
*
2008275 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA
126 AAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTAAGCCCACAACTCCGTGGCA
2008331 TCTTTCTCCC
Statistics
Matches: 162, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
191 90 0.56
192 18 0.11
193 26 0.16
194 10 0.06
195 18 0.11
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (191 bp):
GTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCAC
AACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACGCCGTGGCACCTTTTTTCTTTTTCAAAGC
CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCTACAACTTT
Found at i:2008288 original size:158 final size:157
Alignment explanation
Indices: 2008008--2008296 Score: 488
Period size: 158 Copynumber: 1.8 Consensus size: 157
2007998 GCACCTTCTT
*
2008008 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTT
1 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCTGTGGCACTCTT
* * * *
2008073 TTTTCTTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCA
66 TTTCCCTTTTCAAAGCCCACAACGCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCA
2008138 CCTACAACTTTGTGGCACTCTCTTTCC
131 CCTACAACTTTGTGGCACTCTCTTTCC
* * *
2008165 CTTTTTAAAGCCCACAACTCCGTGGCATCTTTTTCTGTTTAAAGCCCACAACTCTGTGGCACTCT
1 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCT-TTTAAAGCCCACAACTCTGTGGCACTCT
*
2008230 TTTTCCCTTTTCAAAGCCCACAACGCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGC
65 TTTTCCCTTTTCAAAGCCCACAACGCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGC
2008295 AC
130 AC
2008297 TCTTTTTCCC
Statistics
Matches: 122, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
157 33 0.27
158 89 0.73
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.34
Consensus pattern (157 bp):
CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCTGTGGCACTCTT
TTTCCCTTTTCAAAGCCCACAACGCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCA
CCTACAACTTTGTGGCACTCTCTTTCC
Found at i:2008335 original size:104 final size:104
Alignment explanation
Indices: 2008167--2008355 Score: 283
Period size: 104 Copynumber: 1.8 Consensus size: 104
2008157 CTCTTTCCCT
** *
2008167 TTTTAAAGCCCACAACTCCGTGGCATCTTTTTCTGTTTAAAGCCCACAACTCTGTGGCACTCTTT
1 TTTTAAAGCCCACAACTCCGTGGCATCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTT
* *
2008232 TTCCCTT-TTCAAAGCCCACAACGCCGTGGCACTTTTTTC
66 CTCCCTTCCT-AAAGCCCACAACGCCGTGGCACTTTTTTC
* *
2008271 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA-TCTT
1 TTTTAAAGCCCACAACTCCGTGGCA-TCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTT
2008335 TCTCCCTTCCTAAAGCCCACA
65 TCTCCCTTCCTAAAGCCCACA
2008356 CAAGTCGGTG
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
104 46 0.61
105 30 0.39
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (104 bp):
TTTTAAAGCCCACAACTCCGTGGCATCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTT
CTCCCTTCCTAAAGCCCACAACGCCGTGGCACTTTTTTC
Found at i:2008341 original size:34 final size:35
Alignment explanation
Indices: 2008149--2008355 Score: 253
Period size: 34 Copynumber: 5.9 Consensus size: 35
2008139 CTACAACTTT
*
2008149 GTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCC
1 GTGGCA-TCTTTTTCCC-TTTTAAAGCCCACAACTCC
*
2008186 GTGGCATCTTTTT--CTGTTTAAAGCCCACAACTCT
1 GTGGCATCTTTTTCCCT-TTTAAAGCCCACAACTCC
*
2008220 GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACGCC
1 GTGGCA-TCTTTTTCCCTTTT-AAAGCCCACAACTCC
*
2008257 GTGGCA-CTTTTT-TCTTTTAAAGCCCACAACTCC
1 GTGGCATCTTTTTCCCTTTTAAAGCCCACAACTCC
*
2008290 GTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCC
1 GTGGCA-TCTTTTTCCCTTTTAAAGCCCACAACTCC
* *
2008325 GTGGCATCTTTCTCCCTTCCTAAAGCCCACA
1 GTGGCATCTTTTTCCCTT-TTAAAGCCCACA
2008356 CAAGTCGGTG
Statistics
Matches: 149, Mismatches: 11, Indels: 21
0.82 0.06 0.12
Matches are distributed among these distances:
33 21 0.14
34 40 0.27
35 39 0.26
36 22 0.15
37 27 0.18
ACGTcount: A:0.19, C:0.34, G:0.13, T:0.34
Consensus pattern (35 bp):
GTGGCATCTTTTTCCCTTTTAAAGCCCACAACTCC
Found at i:2008376 original size:104 final size:102
Alignment explanation
Indices: 2008167--2008388 Score: 252
Period size: 104 Copynumber: 2.1 Consensus size: 102
2008157 CTCTTTCCCT
** *
2008167 TTTTAAAGCCCACAACTCCGTGGCATCTTTTTCTGTTTAAAGCCCACAACTCTGTGGCACTCTTT
1 TTTTAAAGCCCACAACTCCGTGGCATCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTT
* * * *
2008232 TTCCCTTTTCAAAGCCCACAACGCCGTGGCACTTTTTTC
66 CTCCCTTCTCAAAGCCCACAAAGCCGTGGCAC--TCTTC
* *
2008271 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA-TCTT
1 TTTTAAAGCCCACAACTCCGTGGCA-TCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTT
*
2008335 TCTCCCTTC-CTAAAGCCCACACAAGTCGGTGGCAAC-CTTC
65 TCTCCCTTCTC-AAAGCCCACA-AAG-CCGTGGC-ACTCTTC
**
2008375 TTCCAAAGCCCACA
1 TTTTAAAGCCCACA
2008389 CAAGTCGGTG
Statistics
Matches: 101, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
103 1 0.01
104 61 0.60
105 31 0.31
106 6 0.06
107 2 0.02
ACGTcount: A:0.22, C:0.34, G:0.13, T:0.31
Consensus pattern (102 bp):
TTTTAAAGCCCACAACTCCGTGGCATCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTT
CTCCCTTCTCAAAGCCCACAAAGCCGTGGCACTCTTC
Found at i:2008383 original size:33 final size:35
Alignment explanation
Indices: 2008340--2008409 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
2008330 ATCTTTCTCC
2008340 CTTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
2008374 CTTCC-AAAGCCCACACAAGTCGGTGGCAACCCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
2008408 CT
1 CT
2008410 AAGCCCAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 24 0.69
34 11 0.31
ACGTcount: A:0.26, C:0.37, G:0.17, T:0.20
Consensus pattern (35 bp):
CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
Found at i:2008527 original size:49 final size:49
Alignment explanation
Indices: 2008409--2009277 Score: 1065
Period size: 49 Copynumber: 17.8 Consensus size: 49
2008399 GCAACCCTTC
*
2008409 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* *
2008461 TAAGTCCAATGTAGCTGGCCTT-AACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAA-TCAGCATATTGGCACCTTCATCTT
* *
2008510 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C-T-TT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
2008553 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * * *
2008602 TAAGTCCAATGTAGTTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
2008651 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
2008700 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
2008749 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* * *
2008801 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
2008850 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
2008899 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
2008948 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
2008997 GAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
2009040 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
2009089 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
2009132 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC--CTT-CATCTT
* * ** *
2009184 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC----T-TCATCTT
* * * * *
2009239 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
2009278 TCTTTATCAC
Statistics
Matches: 711, Mismatches: 74, Indels: 61
0.84 0.09 0.07
Matches are distributed among these distances:
43 116 0.16
44 1 0.00
45 3 0.00
47 1 0.00
48 1 0.00
49 427 0.60
50 7 0.01
51 4 0.01
52 113 0.16
53 1 0.00
55 36 0.05
56 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:2009043 original size:340 final size:341
Alignment explanation
Indices: 2008407--2009385 Score: 1200
Period size: 340 Copynumber: 2.8 Consensus size: 341
2008397 TGGCAACCCT
2008407 TCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATG
1 TCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATG
*
2008472 TAGCTGGCCTTAACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATC
66 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATC
2008537 AGCACATTGGCA----C-T-TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
131 AGCACATTGGCATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * * * * * *
2008596 TATCTTTAAGTCCAATGTAGTTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAAT
196 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC-TTAAGTCCAAT
* *
2008661 ATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAAT
260 GTAGCTGGCCTTGAATCAGCACATTGGCA-C--CA-CTTTAAGTCCAATATAGCTGGCCTTGAAT
*
2008726 CAGCATATTGGCACCTTTATC
321 CAGCATATTGGCACCTTCATC
2008747 TCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATG
1 TCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATG
* *
2008812 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATC
66 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATC
* * * *
2008877 AGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
131 AGCACATTGGCATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
2008942 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTGAAGTCCAAT
196 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT-AAGTCCAAT
* *
2009007 GTAGCTGGCCTTGACTCAGCACATTGGCA-C-CTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
260 GTAGCTGGCCTTGAATCAGCACATTGGCACCACTTTAAGTCCAATATAGCTGGCCTTGAATCAGC
*
2009070 ATATTGGCATCTTCATC
325 ATATTGGCACCTTCATC
* * * * *
2009087 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-------C--CTTTAAGTCCAATA
1 TCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATG
* * * *
2009143 TAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGA
66 TAGCTGGCCTTGACTCAGCACATTGGCAC--CTT-CATCTTTAAGTCCAATGTAGCTGGCCTTGA
* * * * * * *
2009208 ATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATAT
128 ATCAGCACATTGGCAT-C----T-TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
2009273 TGGCATCTTTATCACTTTTCTCATCATCATTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
187 TGG---------CAC----CT--TCATC--TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
*
2009338 TTGGCATCTTCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
235 TTGGCATCTTCATC-TTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
2009386 GTTGACATCC
Statistics
Matches: 560, Mismatches: 45, Indels: 51
0.85 0.07 0.08
Matches are distributed among these distances:
331 40 0.07
333 3 0.01
334 40 0.07
335 1 0.00
339 1 0.00
340 258 0.46
342 1 0.00
344 1 0.00
345 3 0.01
346 122 0.22
349 3 0.01
353 2 0.00
355 5 0.01
357 78 0.14
358 2 0.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (341 bp):
TCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATG
TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATC
AGCACATTGGCATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTAAGTCCAATG
TAGCTGGCCTTGAATCAGCACATTGGCACCACTTTAAGTCCAATATAGCTGGCCTTGAATCAGCA
TATTGGCACCTTCATC
Found at i:2009258 original size:55 final size:55
Alignment explanation
Indices: 2009129--2009504 Score: 302
Period size: 55 Copynumber: 6.7 Consensus size: 55
2009119 ACATTGGCAC
* *
2009129 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--CATTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * **
2009181 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * * *
2009236 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-A-C---ATC-CTTTT-TC-TCAT
* *
2009300 CATTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAT-C----T-TCAT
1 C--TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * **
2009351 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * * * * * * *
2009406 CTTTAGGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATC-CT-T---TTTCTCAT
*
2009466 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
2009505 GCACCTTCAT
Statistics
Matches: 254, Mismatches: 45, Indels: 42
0.74 0.13 0.12
Matches are distributed among these distances:
49 36 0.14
50 1 0.00
51 5 0.02
52 37 0.15
53 1 0.00
54 7 0.03
55 69 0.27
56 2 0.01
57 2 0.01
58 2 0.01
60 42 0.17
61 3 0.01
62 5 0.02
63 3 0.01
64 5 0.02
65 1 0.00
66 33 0.13
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
Found at i:2009418 original size:170 final size:164
Alignment explanation
Indices: 2009129--2009515 Score: 648
Period size: 170 Copynumber: 2.3 Consensus size: 164
2009119 ACATTGGCAC
*
2009129 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTTCAAT
2009194 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
63 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
2009259 ATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCAT
128 ATGAATCAACATATTGGCATCTTTATCAC-TTT-T--TCAT
*
2009300 CATTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATG
1 C--TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATG
*
2009365 TAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCA
64 TAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCA
2009430 TGAATCAACATATTGGCATCTTTATCACTTTTTCAT
129 TGAATCAACATATTGGCATCTTTATCACTTTTTCAT
* *
2009466 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
2009516 ATCTCTAAAA
Statistics
Matches: 209, Mismatches: 5, Indels: 11
0.93 0.02 0.05
Matches are distributed among these distances:
164 47 0.22
166 5 0.02
168 1 0.00
169 3 0.01
170 109 0.52
171 6 0.03
173 38 0.18
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.37
Consensus pattern (164 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
AATCAACATATTGGCATCTTTATCACTTTTTCAT
Found at i:2009468 original size:60 final size:61
Alignment explanation
Indices: 2009397--2009516 Score: 161
Period size: 60 Copynumber: 2.0 Consensus size: 61
2009387 TTGACATCCT
* * * *
2009397 TTTTCTCATCTTTAGGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCAC
1 TTTTCTCATCTTTAAGCCCAATATCGCTGGCCATGAATCAACATATTGGCACCTTCATCAC
* * * *
2009458 TTTT-TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCA
1 TTTTCTCATCTTTAAGCCCAATATCGCTGGCCATGAATCAACATATTGGCACCTTCATCA
2009517 TCTCTAAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
60 47 0.92
61 4 0.08
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.38
Consensus pattern (61 bp):
TTTTCTCATCTTTAAGCCCAATATCGCTGGCCATGAATCAACATATTGGCACCTTCATCAC
Found at i:2010351 original size:33 final size:33
Alignment explanation
Indices: 2010314--2010383 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
2010304 TTCAACGATT
2010314 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2010347 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2010380 TGTA
1 TGTA
2010384 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2010352 original size:13 final size:13
Alignment explanation
Indices: 2010334--2010358 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2010324 CATAAAATGT
2010334 TGTATCGATACAA
1 TGTATCGATACAA
2010347 TGTATCGATACA
1 TGTATCGATACA
2010359 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:2010441 original size:13 final size:13
Alignment explanation
Indices: 2010423--2010447 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2010413 ATTACTCACA
2010423 TGTATCGATACAT
1 TGTATCGATACAT
2010436 TGTATCGATACA
1 TGTATCGATACA
2010448 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2010512 original size:52 final size:52
Alignment explanation
Indices: 2010456--2010584 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
2010446 CACTGATCTT
*
2010456 TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
2010508 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
2010560 TGTATCGATACATGCAAATAAATTT
1 TGTATCGATACATGCAGACAAATTT
2010585 TCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2017273 original size:37 final size:37
Alignment explanation
Indices: 2017230--2017300 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
2017220 TATTGAAATC
2017230 ATATTTATATTAAATAATAAAATATAAAAATAAAAAG
1 ATATTTATATTAAATAATAAAATATAAAAATAAAAAG
* * * *
2017267 ATATTTATGTTATATTATAAAATATTAAAATAAA
1 ATATTTATATTAAATAATAAAATATAAAAATAAA
2017301 TTAATAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (37 bp):
ATATTTATATTAAATAATAAAATATAAAAATAAAAAG
Found at i:2017394 original size:16 final size:16
Alignment explanation
Indices: 2017373--2017447 Score: 73
Period size: 16 Copynumber: 4.7 Consensus size: 16
2017363 TTTAGATCAG
*
2017373 TCTCGGGTTTGGGTTT
1 TCTCGGGTTCGGGTTT
*
2017389 TCTCGGGTTCAGGTTT
1 TCTCGGGTTCGGGTTT
*
2017405 TTTCGGGTTCGGGTTCT
1 TCTCGGGTTCGGGTT-T
*
2017422 T-TCGGGTTTGGGCTTT
1 TCTCGGGTTCGGG-TTT
*
2017438 T-TCGAGTTCG
1 TCTCGGGTTCG
2017448 AGCTATTCGG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
16 46 0.92
17 4 0.08
ACGTcount: A:0.03, C:0.16, G:0.35, T:0.47
Consensus pattern (16 bp):
TCTCGGGTTCGGGTTT
Found at i:2017439 original size:32 final size:32
Alignment explanation
Indices: 2017375--2017463 Score: 85
Period size: 32 Copynumber: 2.8 Consensus size: 32
2017365 TAGATCAGTC
* ** *
2017375 TCGGGTTTGGGTT-TTCTCGGGTTCAGGTTTTT
1 TCGGGTTCGGGTTCTT-TCGGGTTTGGGCTTTT
2017407 TCGGGTTCGGGTTCTTTCGGGTTTGGGCTTTT
1 TCGGGTTCGGGTTCTTTCGGGTTTGGGCTTTT
* *
2017439 TCGAGTTCGAG--CTATTCGGGTTTGG
1 TCGGGTTCGGGTTCT-TTCGGGTTTGG
2017464 ATAATTTCGA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
30 2 0.04
31 11 0.22
32 34 0.69
33 2 0.04
ACGTcount: A:0.04, C:0.15, G:0.36, T:0.45
Consensus pattern (32 bp):
TCGGGTTCGGGTTCTTTCGGGTTTGGGCTTTT
Found at i:2017658 original size:24 final size:25
Alignment explanation
Indices: 2017629--2017690 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
2017619 CCTCTCTTAT
* *
2017629 TTATTATTT-TTAATATATTTTTAA
1 TTATTATTTATAAATATAATTTTAA
2017653 TTATTATTTAGTAAATATAATTTTAA
1 TTATTATTTA-TAAATATAATTTTAA
*
2017679 TATATAATTTAT
1 T-TATTATTTAT
2017691 TATTTAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 9 0.28
26 15 0.47
27 8 0.25
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
TTATTATTTATAAATATAATTTTAA
Found at i:2017738 original size:18 final size:18
Alignment explanation
Indices: 2017673--2017740 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
2017663 GTAAATATAA
2017673 TTTTAATATATAATTTAT
1 TTTTAATATATAATTTAT
* *
2017691 TATTTAATATA-AAATAAT
1 T-TTTAATATATAATTTAT
*
2017709 TTTT--T-GATAATTTAT
1 TTTTAATATATAATTTAT
2017724 TTTTAATATATAATTTA
1 TTTTAATATATAATTTA
2017741 ATATTTTATA
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
14 1 0.03
15 10 0.26
17 4 0.10
18 15 0.38
19 9 0.23
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (18 bp):
TTTTAATATATAATTTAT
Found at i:2017752 original size:33 final size:31
Alignment explanation
Indices: 2017681--2017757 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 31
2017671 AATTTTAATA
*
2017681 TATAATTTATTATTTAATATAAAATAATTTTT
1 TATAATTTATT-TTTAATATAAAATAATATTT
*
2017713 TGATAATTTATTTTTAATATATAATTTAATATTT
1 T-ATAATTTATTTTTAATATA-AA-ATAATATTT
2017747 TATAA-TTATTT
1 TATAATTTATTT
2017758 AACATAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
32 16 0.40
33 16 0.40
34 8 0.20
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (31 bp):
TATAATTTATTTTTAATATAAAATAATATTT
Found at i:2017888 original size:33 final size:30
Alignment explanation
Indices: 2017822--2017891 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 30
2017812 TAAATTTAAA
* *
2017822 TTATTATTTAATAATAAATTTATTTATTTT
1 TTATTATTTAATAATAAATTTATTAATTAT
2017852 TTATTATTTGATATAAATATAATTT-TTAATTAT
1 TTATTATTT-A-AT-AATA-AATTTATTAATTAT
2017885 TTATTAT
1 TTATTAT
2017892 ATACACTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 9 0.26
31 1 0.03
32 2 0.06
33 17 0.50
34 5 0.15
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (30 bp):
TTATTATTTAATAATAAATTTATTAATTAT
Done.