Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, 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: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 38 of 402
Found at i:7691395 original size:80 final size:81
Alignment explanation
Indices: 7691291--7691451 Score: 220
Period size: 80 Copynumber: 2.0 Consensus size: 81
7691281 ATTGTAGCAG
7691291 AAACAAAAAACAGAAACCAAAAATATACT-ACTGTAAAAATAGGAAACAAAAATAAA-AATATAT
1 AAACAAAAAACAGAAACCAAAAATATACTGA-TGTAAAAATAGGAAAC-AAAATAAATAATATAT
*
7691354 TGCAACAAGAAC-AGAAA
64 TACAACAAGAACAAGAAA
* * * * *
7691371 AAACCAAAAACAGAAACTAGAAATATATTGATGTAGAAATAGGAAACAAAATAAATAATATATTA
1 AAACAAAAAACAGAAACCAAAAATATACTGATGTAAAAATAGGAAACAAAATAAATAATATATTA
*
7691436 CAGCAAGAACAAGAAA
66 CAACAAGAACAAGAAA
7691452 CAAAAATATA
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
79 8 0.11
80 57 0.80
81 6 0.08
ACGTcount: A:0.63, C:0.11, G:0.11, T:0.16
Consensus pattern (81 bp):
AAACAAAAAACAGAAACCAAAAATATACTGATGTAAAAATAGGAAACAAAATAAATAATATATTA
CAACAAGAACAAGAAA
Found at i:7691495 original size:36 final size:36
Alignment explanation
Indices: 7691447--7691538 Score: 123
Period size: 36 Copynumber: 2.6 Consensus size: 36
7691437 AGCAAGAACA
* * *
7691447 AGAAA-CAAAAATATATTGCAGGAAGAACAGGAAAC
1 AGAAACCAGAAATACATTGCAGGAAAAACAGGAAAC
* * *
7691482 GGAAACCAGAAATACACTGCAGTAAAAACAGGAAAC
1 AGAAACCAGAAATACATTGCAGGAAAAACAGGAAAC
7691518 AGAAACCAGAAATACATTGCA
1 AGAAACCAGAAATACATTGCA
7691539 ACAGAAACAA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
35 4 0.08
36 44 0.92
ACGTcount: A:0.54, C:0.16, G:0.18, T:0.11
Consensus pattern (36 bp):
AGAAACCAGAAATACATTGCAGGAAAAACAGGAAAC
Found at i:7691547 original size:36 final size:36
Alignment explanation
Indices: 7691472--7691547 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
7691462 TTGCAGGAAG
* **
7691472 AACAGGAAACGGAAACCAGAAATACACTGCAGTAAA
1 AACAGGAAACAGAAACCAGAAATACACTGCAACAAA
* *
7691508 AACAGGAAACAGAAACCAGAAATACATTGCAACAGA
1 AACAGGAAACAGAAACCAGAAATACACTGCAACAAA
7691544 AACA
1 AACA
7691548 AAAAGTAGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.55, C:0.20, G:0.17, T:0.08
Consensus pattern (36 bp):
AACAGGAAACAGAAACCAGAAATACACTGCAACAAA
Found at i:7691558 original size:36 final size:36
Alignment explanation
Indices: 7691472--7691567 Score: 95
Period size: 36 Copynumber: 2.7 Consensus size: 36
7691462 TTGCAGGAAG
* * **
7691472 AACAGGAAACGGAAACCAGAAATACACTGCAGTAAA
1 AACAGAAAACAGAAACCAGAAATACACTGCAACAAA
* * *
7691508 AACAGGAAACAGAAACCAGAAATACATTGCAACAGA
1 AACAGAAAACAGAAACCAGAAATACACTGCAACAAA
* *
7691544 AACA-AAAAGTAGAAACCAAAAATA
1 AACAGAAAA-CAGAAACCAGAAATA
7691568 TATTATAGCA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
35 3 0.06
36 48 0.94
ACGTcount: A:0.58, C:0.18, G:0.16, T:0.08
Consensus pattern (36 bp):
AACAGAAAACAGAAACCAGAAATACACTGCAACAAA
Found at i:7693047 original size:26 final size:26
Alignment explanation
Indices: 7692939--7693066 Score: 105
Period size: 26 Copynumber: 4.8 Consensus size: 26
7692929 CCTAAAATTA
* * * * *
7692939 AAACCATAAATAAAACTCGAAGGTCA
1 AAACCCTAAATAAAACCCTAAAGTCG
** *
7692965 AAACCCTAAAATTAATTCCCTAAGGTCG
1 AAACCCT-AAA-TAAAACCCTAAAGTCG
* **
7692993 AAACCCTAAGTAAAACCCTATGGAT-G
1 AAACCCTAAATAAAACCCTAAAG-TCG
*
7693019 AAACCCTAAATAAAACCTTAAAGTCG
1 AAACCCTAAATAAAACCCTAAAGTCG
*
7693045 AAATCCTAAATAAAACCCTAAA
1 AAACCCTAAATAAAACCCTAAA
7693067 CATACCAAAA
Statistics
Matches: 82, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
25 1 0.01
26 57 0.70
27 6 0.07
28 18 0.22
ACGTcount: A:0.48, C:0.23, G:0.09, T:0.20
Consensus pattern (26 bp):
AAACCCTAAATAAAACCCTAAAGTCG
Found at i:7693066 original size:12 final size:12
Alignment explanation
Indices: 7692993--7693066 Score: 58
Period size: 12 Copynumber: 5.8 Consensus size: 12
7692983 CCTAAGGTCG
*
7692993 AAACCCTAAGTA
1 AAACCCTAAATA
* *
7693005 AAACCCTATGGATG
1 AAACCCTA--AATA
7693019 AAACCCTAAATA
1 AAACCCTAAATA
* *
7693031 AAACCTTAAAGTCG
1 AAACCCTAAA-T-A
*
7693045 AAATCCTAAATA
1 AAACCCTAAATA
7693057 AAACCCTAAA
1 AAACCCTAAA
7693067 CATACCAAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
12 28 0.60
13 2 0.04
14 17 0.36
ACGTcount: A:0.50, C:0.23, G:0.08, T:0.19
Consensus pattern (12 bp):
AAACCCTAAATA
Found at i:7694335 original size:43 final size:43
Alignment explanation
Indices: 7694265--7694425 Score: 182
Period size: 43 Copynumber: 3.7 Consensus size: 43
7694255 AACAAAATGA
* * *
7694265 ACTCTTCTATACATAGGCTT-AAGAACTTTAAATTAAGAAATTG
1 ACTCATCTATACAAAGG-TTAAACAACTTTAAATTAAGAAATTG
*
7694308 ACTCATCTATACAAAGGATAAACAACTTTAAATTAAGAAATTG
1 ACTCATCTATACAAAGGTTAAACAACTTTAAATTAAGAAATTG
* * * *
7694351 GCT-ATTCTATACATAGGTTAAATAACTTTAAATTAAGAAATGG
1 ACTCA-TCTATACAAAGGTTAAACAACTTTAAATTAAGAAATTG
* * * *
7694394 ACTCATTTATATAAATGTTAAACAAATTTAAA
1 ACTCATCTATACAAAGGTTAAACAACTTTAAA
7694426 ACTTTAAGTC
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 2 0.02
43 96 0.97
44 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.34
Consensus pattern (43 bp):
ACTCATCTATACAAAGGTTAAACAACTTTAAATTAAGAAATTG
Found at i:7694684 original size:18 final size:18
Alignment explanation
Indices: 7694658--7694710 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
7694648 ATTGTGGTGC
*
7694658 ATAGGTTCATAAGAATTT
1 ATAGATTCATAAGAATTT
* * *
7694676 ATAGATTCACAATACTTT
1 ATAGATTCATAAGAATTT
*
7694694 -CAGATTCATAAGAATTT
1 ATAGATTCATAAGAATTT
7694711 CATTTTCACA
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (18 bp):
ATAGATTCATAAGAATTT
Found at i:7694711 original size:17 final size:17
Alignment explanation
Indices: 7694663--7694712 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
7694653 GGTGCATAGG
*
7694663 TTCATAAGAATTTATAGA
1 TTCATAAGAATTT-CAGA
* * *
7694681 TTCACAATACTTTCAGA
1 TTCATAAGAATTTCAGA
7694698 TTCATAAGAATTTCA
1 TTCATAAGAATTTCA
7694713 TTTTCACAAG
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (17 bp):
TTCATAAGAATTTCAGA
Found at i:7694841 original size:17 final size:17
Alignment explanation
Indices: 7694821--7694876 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
7694811 TCATATTTAA
7694821 AAGAAATTTAGTTTCAC
1 AAGAAATTTAGTTTCAC
* *
7694838 AAGAATTTTAGATTT-GC
1 AAGAAATTTAG-TTTCAC
*
7694855 AAG-AATTTCAATTTCAC
1 AAGAAATTT-AGTTTCAC
7694872 AAGAA
1 AAGAA
7694877 TTTTTAGGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
16 7 0.23
17 19 0.63
18 4 0.13
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (17 bp):
AAGAAATTTAGTTTCAC
Found at i:7694877 original size:17 final size:18
Alignment explanation
Indices: 7694832--7694879 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
7694822 AGAAATTTAG
*
7694832 TTTCACAAGAATTTTAGA
1 TTTCACAAGAATTTCAGA
*
7694850 TTT-GCAAGAATTTCA-A
1 TTTCACAAGAATTTCAGA
7694866 TTTCACAAGAATTT
1 TTTCACAAGAATTT
7694880 TTAGGTTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 4 0.15
17 19 0.73
18 3 0.12
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (18 bp):
TTTCACAAGAATTTCAGA
Found at i:7694894 original size:35 final size:34
Alignment explanation
Indices: 7694821--7694905 Score: 107
Period size: 35 Copynumber: 2.5 Consensus size: 34
7694811 TCATATTTAA
* *
7694821 AAGAAATTTAGTTTCACAAGAATTTTAGATTTGC
1 AAGAAATTCAATTTCACAAGAATTTTAGATTTGC
* * *
7694855 AAGAATTTCAATTTCACAAGAATTTTTAGGTTTGT
1 AAGAAATTCAATTTCACAAGAA-TTTTAGATTTGC
*
7694890 AAGAAATTCAGTTTCA
1 AAGAAATTCAATTTCA
7694906 TGATGATTTC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
34 19 0.44
35 24 0.56
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (34 bp):
AAGAAATTCAATTTCACAAGAATTTTAGATTTGC
Found at i:7694967 original size:17 final size:17
Alignment explanation
Indices: 7694941--7695103 Score: 82
Period size: 17 Copynumber: 9.5 Consensus size: 17
7694931 TTAGAATCGT
7694941 AAGAATTTTCAGATTCAC
1 AAGAA-TTTCAGATTCAC
* *
7694959 AAGAATTTCATATTTGA-
1 AAGAATTTCAGA-TTCAC
* * *
7694976 AAGAATTTTAGTTTCGC
1 AAGAATTTCAGATTCAC
* *
7694993 AAAAACATTCAGATTCAC
1 AAGAA-TTTCAGATTCAC
*
7695011 AAGAAATTCA-ATTTCAC
1 AAGAATTTCAGA-TTCAC
* **
7695028 AAGAATTTCATA-TCTGT
1 AAGAATTTCAGATTC-AC
* * **
7695045 AAGAATTTTAGTTTTGC
1 AAGAATTTCAGATTCAC
*
7695062 AAGAACTTTCAAATTCAC
1 AAGAA-TTTCAGATTCAC
* *
7695080 AA-AAATTCAGATTCAT
1 AAGAATTTCAGATTCAC
7695096 AAGAATTT
1 AAGAATTT
7695104 TAGGGTCGTA
Statistics
Matches: 106, Mismatches: 30, Indels: 19
0.68 0.19 0.12
Matches are distributed among these distances:
16 16 0.15
17 59 0.56
18 31 0.29
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.35
Consensus pattern (17 bp):
AAGAATTTCAGATTCAC
Found at i:7694967 original size:52 final size:52
Alignment explanation
Indices: 7694911--7695020 Score: 132
Period size: 52 Copynumber: 2.1 Consensus size: 52
7694901 TTTCATGATG
* * **
7694911 ATTTCATATATGCAAA-AATTTTAGAATCGTAAGAATTTTCAGATTCACAAGA
1 ATTTCATATATG-AAAGAATTTTAGAATCGCAAAAACATTCAGATTCACAAGA
* **
7694963 ATTTCATATTTGAAAGAATTTTAGTTTCGCAAAAACATTCAGATTCACAAGA
1 ATTTCATATATGAAAGAATTTTAGAATCGCAAAAACATTCAGATTCACAAGA
*
7695015 AATTCA
1 ATTTCA
7695021 ATTTCACAAG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
51 3 0.06
52 46 0.94
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.35
Consensus pattern (52 bp):
ATTTCATATATGAAAGAATTTTAGAATCGCAAAAACATTCAGATTCACAAGA
Found at i:7694995 original size:69 final size:69
Alignment explanation
Indices: 7694954--7695103 Score: 198
Period size: 69 Copynumber: 2.2 Consensus size: 69
7694944 AATTTTCAGA
* *
7694954 TTCACAAGAATTTCATATTTGAAAGAATTTTAGTTTCGCAAAAACATTCAGATTCACAAGAAATT
1 TTCACAAGAATTTCATATCTGAAAGAATTTTAGTTTCGCAAAAACATTCAGAATCACAAGAAATT
7695019 CAAT
66 CAAT
* * * *
7695023 TTCACAAGAATTTCATATCTGTAAGAATTTTAGTTTTGCAAGAACTTTCA-AATTCACAA-AAAT
1 TTCACAAGAATTTCATATCTGAAAGAATTTTAGTTTCGCAAAAACATTCAGAA-TCACAAGAAAT
7695086 TCAGA-
65 TCA-AT
*
7695091 TTCATAAGAATTT
1 TTCACAAGAATTT
7695104 TAGGGTCGTA
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
68 20 0.28
69 52 0.72
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (69 bp):
TTCACAAGAATTTCATATCTGAAAGAATTTTAGTTTCGCAAAAACATTCAGAATCACAAGAAATT
CAAT
Found at i:7695415 original size:46 final size:44
Alignment explanation
Indices: 7695355--7695491 Score: 118
Period size: 47 Copynumber: 3.0 Consensus size: 44
7695345 AACTTAAGGA
7695355 TTCACATCAAAATTTCAAAGGTTTTCAATAAAAAATCTTTAGTGT
1 TTCACATCAAAATTTCAAA-GTTTTCAATAAAAAATCTTTAGTGT
* * *
7695400 TTCACATCCAAAATTTTCATTA-TTTCTCATTAGAAAAAT-TTTAGAGT
1 TTCACAT-CAAAA-TTTCA-AAGTTT-TCAATA-AAAAATCTTTAGTGT
* * *
7695447 TTCACATATAAAATTTCAAAGATTCTCAATTGAAAAA-CTTTAGTG
1 TTCACAT-CAAAATTTCAAAG-TTTTCAA-TAAAAAATCTTTAGTG
7695492 ATTATGCCTA
Statistics
Matches: 73, Mismatches: 10, Indels: 17
0.73 0.10 0.17
Matches are distributed among these distances:
45 8 0.11
46 27 0.37
47 31 0.42
48 7 0.10
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (44 bp):
TTCACATCAAAATTTCAAAGTTTTCAATAAAAAATCTTTAGTGT
Found at i:7696852 original size:11 final size:11
Alignment explanation
Indices: 7696818--7696873 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
7696808 AAAACATACA
*
7696818 TTTTTATCTTT
1 TTTTTTTCTTT
7696829 TTTTTTTCATTT
1 TTTTTTTC-TTT
7696841 TTTTTCTT-TTT
1 TTTTT-TTCTTT
*
7696852 TCTTTTTTCTTC
1 T-TTTTTTCTTT
*
7696864 TTTTGTTCTT
1 TTTTTTTCTT
7696874 CATGTTTCTG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
11 21 0.55
12 15 0.39
13 2 0.05
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.82
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:7696852 original size:17 final size:16
Alignment explanation
Indices: 7696826--7696873 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
7696816 CATTTTTATC
7696826 TTTT-TTTTTTCATTTT
1 TTTTCTTTTTTC-TTTT
7696842 TTTTCTTTTTTCTTTT
1 TTTTCTTTTTTCTTTT
7696858 TTCTTCTTTTGTTCTT
1 TT-TTCTTTT-TTCTT
7696874 CATGTTTCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.34
17 14 0.48
18 5 0.17
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.83
Consensus pattern (16 bp):
TTTTCTTTTTTCTTTT
Found at i:7696867 original size:8 final size:7
Alignment explanation
Indices: 7696818--7696867 Score: 50
Period size: 7 Copynumber: 6.9 Consensus size: 7
7696808 AAAACATACA
7696818 TTTTTATC
1 TTTTT-TC
7696826 TTTTTT-
1 TTTTTTC
7696832 TTTTCATT-
1 TTTT--TTC
7696840 TTTTTTC
1 TTTTTTC
7696847 TTTTTTC
1 TTTTTTC
7696854 TTTTTTC
1 TTTTTTC
7696861 TTCTTTT
1 TT-TTTT
7696868 GTTCTTCATG
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 6 0.16
7 17 0.45
8 15 0.39
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:7698310 original size:16 final size:16
Alignment explanation
Indices: 7698289--7698330 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
7698279 TGGTATAATG
*
7698289 TACATACAATG-ATGTT
1 TACATA-AATGCATGTA
7698305 TACATAAATGCATGTA
1 TACATAAATGCATGTA
7698321 TACAATAAAT
1 TAC-ATAAAT
7698331 AGTAAACACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 13 0.57
17 6 0.26
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (16 bp):
TACATAAATGCATGTA
Found at i:7698474 original size:16 final size:16
Alignment explanation
Indices: 7698444--7698497 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
7698434 GAAATAGCAT
*
7698444 AATGCATGAATGAATG
1 AATGCATGTATGAATG
* *
7698460 CATGTATGTATGAATG
1 AATGCATGTATGAATG
*
7698476 AATGCATGTATGCATG
1 AATGCATGTATGAATG
7698492 AATGCA
1 AATGCA
7698498 ATAAGAAGGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (16 bp):
AATGCATGTATGAATG
Found at i:7698474 original size:20 final size:20
Alignment explanation
Indices: 7698445--7698495 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
7698435 AAATAGCATA
7698445 ATGCATGAATGAATGCATGT
1 ATGCATGAATGAATGCATGT
*
7698465 ATGTATGAATGAATGCATGT
1 ATGCATGAATGAATGCATGT
7698485 ATGCATGAATG
1 ATGCATGAATG
7698496 CAATAAGAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.08, G:0.25, T:0.31
Consensus pattern (20 bp):
ATGCATGAATGAATGCATGT
Found at i:7701409 original size:15 final size:15
Alignment explanation
Indices: 7701389--7701438 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
7701379 ATTTCTATTT
*
7701389 TTTTTTACTTTTAAC
1 TTTTTTACTTTTGAC
7701404 TTTTTTTACTCTTTGAC
1 -TTTTTTACT-TTTGAC
* *
7701421 TTTTGTAATTTTGAC
1 TTTTTTACTTTTGAC
7701436 TTT
1 TTT
7701439 GACCTATGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 9 0.30
16 16 0.53
17 5 0.17
ACGTcount: A:0.16, C:0.12, G:0.06, T:0.66
Consensus pattern (15 bp):
TTTTTTACTTTTGAC
Found at i:7701409 original size:16 final size:17
Alignment explanation
Indices: 7701388--7701424 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
7701378 CATTTCTATT
7701388 TTTTTTTACT-TTTAAC
1 TTTTTTTACTCTTTAAC
*
7701404 TTTTTTTACTCTTTGAC
1 TTTTTTTACTCTTTAAC
7701421 TTTT
1 TTTT
7701425 GTAATTTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.14, C:0.14, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTTTTTACTCTTTAAC
Found at i:7701469 original size:12 final size:12
Alignment explanation
Indices: 7701449--7701495 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
7701439 GACCTATGCT
*
7701449 AAAAATAAAATC
1 AAAATTAAAATC
*
7701461 AAAATTAAAATT
1 AAAATTAAAATC
*
7701473 AAAACTAAAATC
1 AAAATTAAAATC
*
7701485 AAGATTAAAAT
1 AAAATTAAAAT
7701496 AAACTAAGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.23
Consensus pattern (12 bp):
AAAATTAAAATC
Found at i:7701481 original size:24 final size:24
Alignment explanation
Indices: 7701448--7701519 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
7701438 TGACCTATGC
*
7701448 TAAAAATAAAATCAAAATTAAAAT
1 TAAAACTAAAATCAAAATTAAAAT
*
7701472 TAAAACTAAAATCAAGATTAAAA-
1 TAAAACTAAAATCAAAATTAAAAT
* *
7701495 T-AAACTAAGATCAAAACTCAAAAT
1 TAAAACTAAAATCAAAA-TTAAAAT
7701519 T
1 T
7701520 TTTTTGGGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
22 13 0.32
23 6 0.15
24 22 0.54
ACGTcount: A:0.64, C:0.10, G:0.03, T:0.24
Consensus pattern (24 bp):
TAAAACTAAAATCAAAATTAAAAT
Found at i:7703504 original size:27 final size:26
Alignment explanation
Indices: 7703455--7703512 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
7703445 TATTGGGTAT
*
7703455 ATAAAATTATGATAAGATAAGATAAA
1 ATAATATTATGATAAGATAAGATAAA
* *
7703481 ATAATATTATGAATAAGATTAGATTAA
1 ATAATATTATG-ATAAGATAAGATAAA
7703508 ATAAT
1 ATAAT
7703513 GGCATCATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 10 0.36
27 18 0.64
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (26 bp):
ATAATATTATGATAAGATAAGATAAA
Found at i:7704536 original size:23 final size:21
Alignment explanation
Indices: 7704510--7704562 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
7704500 TCCAAAATTA
7704510 ATAAAATATTATTTTTTTTAAAT
1 ATAAAATATTA--TTTTTTAAAT
7704533 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
7704554 AT-AAATATT
1 ATAAAATATT
7704563 TAAATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.23
21 12 0.40
23 11 0.37
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:7704555 original size:14 final size:14
Alignment explanation
Indices: 7704547--7704586 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
7704537 AATATTATTT
7704547 TTTAAATATAAATA
1 TTTAAATATAAATA
7704561 TTTAAATATATAATTA
1 TTTAAATATA-AA-TA
*
7704577 TATAAATATA
1 TTTAAATATA
7704587 TAAATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
15 2 0.09
16 11 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTAAATATAAATA
Found at i:7704568 original size:8 final size:8
Alignment explanation
Indices: 7704552--7704592 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
7704542 TATTTTTTAA
7704552 ATATAAAT
1 ATATAAAT
*
7704560 ATTTAAAT
1 ATATAAAT
*
7704568 ATATAATT
1 ATATAAAT
7704576 ATATAAAT
1 ATATAAAT
7704584 ATATAAAT
1 ATATAAAT
7704592 A
1 A
7704593 AAAAATTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATATAAAT
Found at i:7704599 original size:24 final size:24
Alignment explanation
Indices: 7704552--7704600 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
7704542 TATTTTTTAA
* * *
7704552 ATATAAATATTTAAATATATAATT
1 ATATAAATATATAAATAAAAAATT
7704576 ATATAAATATATAAATAAAAAATT
1 ATATAAATATATAAATAAAAAATT
7704600 A
1 A
7704601 ATTTAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
ATATAAATATATAAATAAAAAATT
Found at i:7704857 original size:21 final size:21
Alignment explanation
Indices: 7704827--7704867 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
7704817 AGTGGGACAT
7704827 AAATAAAATATGCTAAAATGG
1 AAATAAAATATGCTAAAATGG
*
7704848 AAATATAATATGCTAAAATG
1 AAATAAAATATGCTAAAATG
7704868 ACCACTAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.56, C:0.05, G:0.12, T:0.27
Consensus pattern (21 bp):
AAATAAAATATGCTAAAATGG
Found at i:7720101 original size:17 final size:17
Alignment explanation
Indices: 7720065--7720099 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
7720055 CCTTAAATAG
*
7720065 ATAATAGATTTCTATAA
1 ATAATAGATTTATATAA
7720082 ATAATAGATTTATCATAA
1 ATAATAGATTTAT-ATAA
7720100 TATTAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (17 bp):
ATAATAGATTTATATAA
Found at i:7720177 original size:1 final size:1
Alignment explanation
Indices: 7720171--7720195 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
7720161 AGGAATTAAG
7720171 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
7720196 AAATTTGGAA
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:7721341 original size:3 final size:3
Alignment explanation
Indices: 7721333--7721374 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
7721323 ATAATGATTT
7721333 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7721375 AAAAAATCGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7721402 original size:22 final size:23
Alignment explanation
Indices: 7721376--7721419 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
7721366 TAATAATAAA
*
7721376 AAAAATCGATT-TTATTAAAATT
1 AAAAATCAATTATTATTAAAATT
7721398 AAAAATCAATTAATTATTAAAA
1 AAAAATCAATT-ATTATTAAAA
7721420 AACAAACAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
24 9 0.47
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (23 bp):
AAAAATCAATTATTATTAAAATT
Found at i:7722843 original size:16 final size:16
Alignment explanation
Indices: 7722805--7722946 Score: 89
Period size: 15 Copynumber: 9.1 Consensus size: 16
7722795 ATTCTTAATT
**
7722805 TTCAAAA-CCCTAAGT
1 TTCAAAACCCCTAAAA
7722820 TTCTAAAACCCCTAAAA
1 TTC-AAAACCCCTAAAA
* *
7722837 TTCAAAA-TCTTAAAA
1 TTCAAAACCCCTAAAA
*
7722852 TCCAAAA-CCCTAAAA
1 TTCAAAACCCCTAAAA
* *
7722867 -TCTGAGACCCCTAAAA
1 TTC-AAAACCCCTAAAA
* *
7722883 TTCAAAA-TCCTTAAA
1 TTCAAAACCCCTAAAA
*
7722898 TTC-AAACCCTTAAAA
1 TTCAAAACCCCTAAAA
* * **
7722913 TCCGAAACCTGTAAAA
1 TTCAAAACCCCTAAAA
7722929 TTCAAAACCCCTTAAAA
1 TTCAAAACCCC-TAAAA
7722946 T
1 T
7722947 ATGAAATCCC
Statistics
Matches: 95, Mismatches: 24, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
14 4 0.04
15 39 0.41
16 35 0.37
17 17 0.18
ACGTcount: A:0.46, C:0.26, G:0.04, T:0.25
Consensus pattern (16 bp):
TTCAAAACCCCTAAAA
Found at i:7722848 original size:47 final size:46
Alignment explanation
Indices: 7722807--7722935 Score: 136
Period size: 46 Copynumber: 2.8 Consensus size: 46
7722797 TCTTAATTTT
**
7722807 CAAAACCCTAAGTTTCTAAAACCCCTAAAATTCAAAATCTTAAAATC
1 CAAAACCCTAA-AATCTAAAACCCCTAAAATTCAAAATCTTAAAATC
* * *
7722854 CAAAACCCTAAAATCTGAGACCCCTAAAATTCAAAATCCTT-AAATT
1 CAAAACCCTAAAATCTAAAACCCCTAAAATTCAAAAT-CTTAAAATC
** **
7722900 C-AAACCCTTAAAATCCGAAACCTGTAAAATTCAAAA
1 CAAAACCC-TAAAATCTAAAACCCCTAAAATTCAAAA
7722936 CCCCTTAAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
45 6 0.08
46 51 0.72
47 14 0.20
ACGTcount: A:0.47, C:0.26, G:0.04, T:0.23
Consensus pattern (46 bp):
CAAAACCCTAAAATCTAAAACCCCTAAAATTCAAAATCTTAAAATC
Found at i:7722861 original size:31 final size:30
Alignment explanation
Indices: 7722824--7723105 Score: 106
Period size: 30 Copynumber: 9.4 Consensus size: 30
7722814 CTAAGTTTCT
*
7722824 AAAACCCCTAAAATTCAAAATCTTAAAATCC
1 AAAA-CCCTAAAATTCAAAACCTTAAAATCC
* * * * *
7722855 AAAACCCTAAAATCTGAGACCCCTAAAATTC
1 AAAACCCTAAAAT-TCAAAACCTTAAAATCC
* * *
7722886 AAAATCCTTAAATTCAAACCCTTAAAATCC
1 AAAACCCTAAAATTCAAAACCTTAAAATCC
* * **
7722916 GAAACCTGTAAAATTCAAAACCCCTTAAAATATG
1 AAAACC-CTAAAATTCAAAA--CCTTAAAAT-CC
* * *
7722950 AAATCCC-AAACCTT-TAAACTCTT-AAATCC
1 AAAACCCTAAA-ATTCAAAAC-CTTAAAATCC
* *
7722979 -AAACCCTTAAAATCCAAACCCTT-AAAT-C
1 AAAACCC-TAAAATTCAAAACCTTAAAATCC
* ** ** *
7723007 AAAACCCCAAACCTC-AAATTTTAAAATCG
1 AAAACCCTAAAATTCAAAACCTTAAAATCC
7723036 AAAA-CCTAAAATCTTC-AAA-CTCTAAAAT-C
1 AAAACCCTAAAA--TTCAAAACCT-TAAAATCC
* *
7723065 AAAACCCTAAACCTTTC-ATACCTTAAAA-CC
1 AAAACCCTAAA--ATTCAAAACCTTAAAATCC
7723095 -AAACCCTAAAA
1 AAAACCCTAAAA
7723106 CCCTCAAAAC
Statistics
Matches: 183, Mismatches: 47, Indels: 46
0.66 0.17 0.17
Matches are distributed among these distances:
27 4 0.02
28 19 0.10
29 33 0.18
30 65 0.36
31 41 0.22
32 6 0.03
33 11 0.06
34 4 0.02
ACGTcount: A:0.48, C:0.28, G:0.02, T:0.23
Consensus pattern (30 bp):
AAAACCCTAAAATTCAAAACCTTAAAATCC
Found at i:7722889 original size:23 final size:23
Alignment explanation
Indices: 7722825--7722891 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 23
7722815 TAAGTTTCTA
*
7722825 AAACCCCTAAAATTCAAAATCTT
1 AAACCCCTAAAATTCAAAATCTG
** **
7722848 AAAATCC-AAAACCCTAAAATCTG
1 AAACCCCTAAAATTC-AAAATCTG
*
7722871 AGACCCCTAAAATTCAAAATC
1 AAACCCCTAAAATTCAAAATC
7722892 CTTAAATTCA
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
22 5 0.16
23 22 0.69
24 5 0.16
ACGTcount: A:0.49, C:0.27, G:0.03, T:0.21
Consensus pattern (23 bp):
AAACCCCTAAAATTCAAAATCTG
Found at i:7722889 original size:46 final size:46
Alignment explanation
Indices: 7722825--7722944 Score: 145
Period size: 46 Copynumber: 2.6 Consensus size: 46
7722815 TAAGTTTCTA
*
7722825 AAACCCCTAAAATTCAAAAT-CTTAAAATCCAAAACCC-TAAAATCTG
1 AAACCCCTAAAATTCAAAATCCTT-AAATCC-AAACCCTTAAAATCCG
* *
7722871 AGACCCCTAAAATTCAAAATCCTTAAATTCAAACCCTTAAAATCCG
1 AAACCCCTAAAATTCAAAATCCTTAAATCCAAACCCTTAAAATCCG
** *
7722917 AAACCTGTAAAATTCAAAACCCCTTAAA
1 AAACCCCTAAAATTCAAAA-TCCTTAAA
7722945 ATATGAAATC
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
45 6 0.09
46 48 0.75
47 10 0.16
ACGTcount: A:0.47, C:0.27, G:0.03, T:0.23
Consensus pattern (46 bp):
AAACCCCTAAAATTCAAAATCCTTAAATCCAAACCCTTAAAATCCG
Found at i:7723011 original size:14 final size:14
Alignment explanation
Indices: 7722965--7723013 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
7722955 CCAAACCTTT
*
7722965 AAACTCTTAAATCC
1 AAACCCTTAAATCC
7722979 AAACCCTTAAAATCC
1 AAACCCTT-AAATCC
*
7722994 AAACCCTTAAATCA
1 AAACCCTTAAATCC
7723008 AAACCC
1 AAACCC
7723014 CAAACCTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 18 0.56
15 14 0.44
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (14 bp):
AAACCCTTAAATCC
Found at i:7732977 original size:616 final size:616
Alignment explanation
Indices: 7731804--7733032 Score: 1989
Period size: 616 Copynumber: 2.0 Consensus size: 616
7731794 GTAGATCGAT
* *
7731804 AACCATGGTACTATGACATTGTACAATATATCAAGTGTCAAAACTACCCAGAGTAGGCTTCAAAA
1 AACCATGGTACTATGACACTGTACAATATATCAAGTGTCAAAACTACCCAGAATAGGCTTCAAAA
** * *
7731869 AATGATAAGAGGATCATTCAAAGATTAGTAGTAGCTTTTGTGCTTGATGGAGAAATCCTGTATAA
66 AATGATAAGAGGATCATTCAAAGATTAACAGCAGCTTTTATGCTTGATGGAGAAATCCTGTATAA
*
7731934 AAAGAGTCGAGATCAAATTTTGCTAAGGTGCATCGATGCTATGGAAGCAAGAAGGATACTTAAAG
131 AAAAAGTCGAGATCAAATTTTGCTAAGGTGCATCGATGCTATGGAAGCAAGAAGGATACTTAAAG
* *
7731999 AAGTACACGAAAGAATTTATGGAACACATGCTAACGGGCATATGATGGCCAAACAGATTATGAGA
196 AAGTACACGAAAGAATTTATGAAACACATGCTAACAGGCATATGATGGCCAAACAGATTATGAGA
* *
7732064 GCTAGTTACTACTGGTCTACAATGAAAAATGATTGCATCAGTTATGCTAAAAAGTGTTAAAAATA
261 GCTAGTTACTACTGATCTACAATGAAAAATGATTGCATCAGTTATGCTAAAAAGTGTCAAAAATA
*
7732129 TCAAATTTATACAGATAAAATTCATTTCCCTCCAGTCTTGCTACACGTCTTGGCACCACCATGGC
326 TCAAATTTATACAGATAAAATTCATTTCCCTCCAGTCTCGCTACACGTCTTGGCACCACCATGGC
* *
7732194 TTTTTTCCATGTGAAGAATAGATGTGATCAGACCCATAACCCTAAAAGCTTCGAATGGGCATCGA
391 TTTTTTCCATGTGAAGAATAGATGTGATCAGACCCATAACCCCAAAAGCTTCAAATGGGCATCGA
* * *
7732259 TTTATCTTTGTGATAAGTGATTACTTTACAAAATTGGTAGAAGCAACTTCGTCTGCTAGTATTAC
456 TTTATCTTTGTGATAAGTGATTACTTTACAAAATGGGTAGAAGCAACTTCATATGCTAGTATTAC
* *
7732324 GTGATTAGTGGTCTGTAGATTTATAAAAAGAGAGATAATATGTCGGTATGGGCTCCCGA-AAAAG
521 GTGATCAGTGGTATGTAGATTTATAAAAAGAGAGATAATATGTC-GTATGGGCTCCCGAGAAAAG
7732388 ATCATCTCAGATAATGCTAGCAATTTGAACAA
585 ATCATCTCAGATAATGCTAGCAATTTGAACAA
** * *
7732420 AACCATGGTACTATGACACTGTACAATATATCAAGTGTCAAAACTACCTGGAATAGGTTTTAAAA
1 AACCATGGTACTATGACACTGTACAATATATCAAGTGTCAAAACTACCCAGAATAGGCTTCAAAA
* * *
7732485 AATGATAAGAGGATCATTCGAAGATTAACAGCAGGTTTTATGTTTGATGGAGAAATCCTGTATAA
66 AATGATAAGAGGATCATTCAAAGATTAACAGCAGCTTTTATGCTTGATGGAGAAATCCTGTATAA
*
7732550 AAAAAGTCGAGATCAAATTTTGCTAAGGTGCATCGATGCTATGGAAGCAAGAAGGATACTTGAAG
131 AAAAAGTCGAGATCAAATTTTGCTAAGGTGCATCGATGCTATGGAAGCAAGAAGGATACTTAAAG
* *
7732615 AAGTACACGAAA-AATTTTATGAAACATATGCTAACAGGCATATGATGGCCAAATAGATTATGAG
196 AAGTACACGAAAGAA-TTTATGAAACACATGCTAACAGGCATATGATGGCCAAACAGATTATGAG
* ** *
7732679 AGCTGGTTACTACTGATCTACAATGAAAAATGATTGCATCAGTTATGCTAGGAAGTGTCACAAAT
260 AGCTAGTTACTACTGATCTACAATGAAAAATGATTGCATCAGTTATGCTAAAAAGTGTCAAAAAT
* * *
7732744 GTCAAATTTATACAGATAAAATTCATTTCCTTCTAGTCTCGCTACACGTCTTGGCACCACCATGG
325 ATCAAATTTATACAGATAAAATTCATTTCCCTCCAGTCTCGCTACACGTCTTGGCACCACCATGG
** *
7732809 CTTTTTTTTATGT-AAGAAATAGATGTGATCGGACCCATAACCCCAAAAGCTTCAAATGGGCATC
390 CTTTTTTCCATGTGAAG-AATAGATGTGATCAGACCCATAACCCCAAAAGCTTCAAATGGGCATC
* * *
7732873 GATTTATCTTTGTGATAA-TCGATTACTTTACAAAATGGGTAGAAGCAGCTTTATATGCTAGTGT
454 GATTTATCTTTGTGATAAGT-GATTACTTTACAAAATGGGTAGAAGCAACTTCATATGCTAGTAT
* *
7732937 TATGTGATCAGTGGTATGTAGATTTATAAAATGAGAGATAATATGTCGTATGGGCTCCCGAGAAA
518 TACGTGATCAGTGGTATGTAGATTTATAAAAAGAGAGATAATATGTCGTATGGGCTCCCGAGAAA
*
7733002 GGATCATCTCAGATAATGCTAGCAATTTGAA
583 AGATCATCTCAGATAATGCTAGCAATTTGAA
7733033 TAATAAAATG
Statistics
Matches: 564, Mismatches: 45, Indels: 8
0.91 0.07 0.01
Matches are distributed among these distances:
615 20 0.04
616 544 0.96
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (616 bp):
AACCATGGTACTATGACACTGTACAATATATCAAGTGTCAAAACTACCCAGAATAGGCTTCAAAA
AATGATAAGAGGATCATTCAAAGATTAACAGCAGCTTTTATGCTTGATGGAGAAATCCTGTATAA
AAAAAGTCGAGATCAAATTTTGCTAAGGTGCATCGATGCTATGGAAGCAAGAAGGATACTTAAAG
AAGTACACGAAAGAATTTATGAAACACATGCTAACAGGCATATGATGGCCAAACAGATTATGAGA
GCTAGTTACTACTGATCTACAATGAAAAATGATTGCATCAGTTATGCTAAAAAGTGTCAAAAATA
TCAAATTTATACAGATAAAATTCATTTCCCTCCAGTCTCGCTACACGTCTTGGCACCACCATGGC
TTTTTTCCATGTGAAGAATAGATGTGATCAGACCCATAACCCCAAAAGCTTCAAATGGGCATCGA
TTTATCTTTGTGATAAGTGATTACTTTACAAAATGGGTAGAAGCAACTTCATATGCTAGTATTAC
GTGATCAGTGGTATGTAGATTTATAAAAAGAGAGATAATATGTCGTATGGGCTCCCGAGAAAAGA
TCATCTCAGATAATGCTAGCAATTTGAACAA
Found at i:7733687 original size:10 final size:10
Alignment explanation
Indices: 7733672--7733731 Score: 50
Period size: 11 Copynumber: 5.7 Consensus size: 10
7733662 TATTTTGCTT
7733672 AAAAAAAGGA
1 AAAAAAAGGA
*
7733682 AAAAAAAAGA
1 AAAAAAAGGA
*
7733692 AAAAAAA-TA
1 AAAAAAAGGA
7733701 TGAAAAAAAGAGA
1 --AAAAAAAG-GA
*
7733714 AAAAAATGGA
1 AAAAAAAGGA
7733724 TAAAAAAA
1 -AAAAAAA
7733732 ATAATTCAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
9 1 0.03
10 18 0.45
11 20 0.50
13 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (10 bp):
AAAAAAAGGA
Found at i:7733697 original size:22 final size:22
Alignment explanation
Indices: 7733672--7733719 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
7733662 TATTTTGCTT
7733672 AAAAAAAGGAAAAAAAAAGAAA
1 AAAAAAAGGAAAAAAAAAGAAA
* * *
7733694 AAAAATATGAAAAAAAGAGAAA
1 AAAAAAAGGAAAAAAAAAGAAA
7733716 AAAA
1 AAAA
7733720 TGGATAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.04
Consensus pattern (22 bp):
AAAAAAAGGAAAAAAAAAGAAA
Found at i:7733728 original size:22 final size:21
Alignment explanation
Indices: 7733672--7733731 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 21
7733662 TATTTTGCTT
*
7733672 AAAAAAA-GGAAAAAAAAAGA
1 AAAAAAATGGATAAAAAAAGA
7733692 AAAAAAAT--ATGAAAAAAAGA
1 AAAAAAATGGAT-AAAAAAAGA
7733712 GAAAAAAATGGATAAAAAAA
1 -AAAAAAATGGATAAAAAAA
7733732 ATAATTCAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 1 0.03
20 16 0.47
21 8 0.24
22 7 0.21
23 2 0.06
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (21 bp):
AAAAAAATGGATAAAAAAAGA
Found at i:7734905 original size:109 final size:109
Alignment explanation
Indices: 7734753--7735401 Score: 853
Period size: 109 Copynumber: 6.0 Consensus size: 109
7734743 GTTATGGTTA
* * * * *
7734753 CTTTTATTTCTTTGACTTGCAGTTCAGTCTC-GATCATCATTAATCTTTGATTCATGGTTTAATC
1 CTTTTATTTCTTTGACTTGTAGTTCAGTCTCAG-TTATCTTTAATCTTTGACTCGTGGTTTAATC
*
7734817 CTGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCTAGTGG
65 CTGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCTAGTCG
*
7734862 CTTTTATTTCTTTGACTTGTAGTTCAGTCTCAGTTATCTTTAATTTTTGACTCGTGGTTTAAT-C
1 CTTTTATTTCTTTGACTTGTAGTTCAGTCTCAGTTATCTTTAATCTTTGACTCGTGGTTTAATCC
*
7734926 TCGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCATAGTCG
66 T-GATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCTAGTCG
7734971 CTTTTATTTCTTTGACTTGT-GATTCAGTCTCAGTTATCTTTAATCTTTGACTCGTGGTTTAATC
1 CTTTTATTTCTTTGACTTGTAG-TTCAGTCTCAGTTATCTTTAATCTTTGACTCGTGGTTTAATC
* * *
7735035 CTGATCATTCTTATAGTTTTTTGACTTACGGTTTAATCCTAGTCG
65 CTGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCTAGTCG
* * *
7735080 TTTTTATTTCTTTGACTTG-AGGTTCAGTCTCGGTTATCTTTAATCTTTGACTCGTGATTTAATC
1 CTTTTATTTCTTTGACTTGTA-GTTCAGTCTCAGTTATCTTTAATCTTTGACTCGTGGTTTAATC
* * * *
7735144 CCGATCATTCTTATAGCTTTTCGACTTACGATTTAATCCTAGTCA
65 CTGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCTAGTCG
* * ** * *
7735189 TTTTTATTTTTTTGACTTACAGTTCAGTCTCGGTTATCTTTAATCTTTGACTCATGGTTTAATCC
1 CTTTTATTTCTTTGACTTGTAGTTCAGTCTCAGTTATCTTTAATCTTTGACTCGTGGTTTAATCC
* * * **
7735254 CGATCATTCTTATAGCTTCTTGACTTAAGGTTTAATTTTAGTCG
66 TGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCTAGTCG
* * * *
7735298 CTTTTATTTCTCTGAC-T-TACGATTCAATCCCAGTTATCTTTAATTTTTGACTCGTGGTTTAAT
1 CTTTTATTTCTTTGACTTGTA-G-TTCAGTCTCAGTTATCTTTAATCTTTGACTCGTGGTTTAAT
* * * * *
7735361 CTTGATCATTTTTATAG-TTTTTGAATTACGGTTTAATCCTA
64 CCTGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCTA
7735402 ATCTCCTTAT
Statistics
Matches: 482, Mismatches: 49, Indels: 19
0.88 0.09 0.03
Matches are distributed among these distances:
107 1 0.00
108 24 0.05
109 452 0.94
110 5 0.01
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (109 bp):
CTTTTATTTCTTTGACTTGTAGTTCAGTCTCAGTTATCTTTAATCTTTGACTCGTGGTTTAATCC
TGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCTAGTCG
Found at i:7735068 original size:38 final size:36
Alignment explanation
Indices: 7735026--7735400 Score: 107
Period size: 36 Copynumber: 10.3 Consensus size: 36
7735016 TTTGACTCGT
7735026 GGTTTAATCCTGATCATTCTTATAGTTTTTTGACTTAC
1 GGTTTAATCCTGATCATTCTT-TA-TTTTTTGACTTAC
*
7735064 GGTTTAATCCT-AGTCGTT-TTTATTTCTTTGACTTGA-
1 GGTTTAATCCTGA-TCATTCTTTATTT-TTTGACTT-AC
* * * * * *
7735100 GGTTCAGT-CTCGGTTA-TCTTTAATCTTTGAC-T-C
1 GGTTTAATCCT-GATCATTCTTTATTTTTTGACTTAC
* * *
7735133 GTGATTTAATCCCGATCATTCTTATAGCTTTTCGACTTAC
1 G-G-TTTAATCCTGATCATTCTT-TA-TTTTTTGACTTAC
*
7735173 GATTTAATCCT-AGTCATT-TTTATTTTTTTGACTTAC
1 GGTTTAATCCTGA-TCATTCTTTA-TTTTTTGACTTAC
* * * * * * * * *
7735209 AGTTCAGT-CTCGGTTA-TCTTTAATCTTTGACTCAT
1 GGTTTAATCCT-GATCATTCTTTATTTTTTGACTTAC
* * * *
7735244 GGTTTAATCCCGATCATTCTTATAGCTTCTTGACTTAA
1 GGTTTAATCCTGATCATTCTT-TA-TTTTTTGACTTAC
* * ** *
7735282 GGTTTAAT-TTTAGTCGCT-TTTATTTCTCTGACTTAC
1 GGTTTAATCCTGA-TCATTCTTTATTT-TTTGACTTAC
* * * * * ***
7735318 GATTCAATCC-CAGTTA-TCTTTAATTTTTGACTCGT
1 GGTTTAATCCTGA-TCATTCTTTATTTTTTGACTTAC
* *
7735353 GGTTTAATCTTGATCATT-TTTATAGTTTTTGAATTAC
1 GGTTTAATCCTGATCATTCTTTAT--TTTTTGACTTAC
7735390 GGTTTAATCCT
1 GGTTTAATCCT
7735401 AATCTCCTTA
Statistics
Matches: 233, Mismatches: 73, Indels: 63
0.63 0.20 0.17
Matches are distributed among these distances:
33 1 0.00
34 2 0.01
35 61 0.26
36 81 0.35
37 32 0.14
38 53 0.23
39 1 0.00
40 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.49
Consensus pattern (36 bp):
GGTTTAATCCTGATCATTCTTTATTTTTTGACTTAC
Found at i:7735349 original size:327 final size:326
Alignment explanation
Indices: 7734754--7735401 Score: 983
Period size: 327 Copynumber: 2.0 Consensus size: 326
7734744 TTATGGTTAC
* * *
7734754 TTTTATTTCTTTGACTTGCAGTTCAGTCTCGATCATCATTAATCTTTGATTCATGGTTTAATCCT
1 TTTTATTTCTTTGACTTGCAGTTCAGTCTCGATCATCATTAATCTTTGACTCATGATTTAATCCC
* ** **
7734819 GATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCTAGTGGCTTTTATTTCTTTGACTTGTAG
66 GATCATTCTTATAGCTTCTCGACTTACGATTTAATCCTAGTCACTTTTATTTCTTTGACTTACAG
* * *
7734884 TTCAGTCTCAGTTATCTTTAATTTTTGACTCGTGGTTTAATCTCGATCATTCTTATAGCTTCTCG
131 TTCAGTCTCAGTTATCTTTAATCTTTGACTCATGGTTTAATCCCGATCATTCTTATAGCTTCTCG
* * ** * *
7734949 ACTTACGGTTTAATCATAGTCGCTTTTATTTCTTTGACTTGTGATTCAGTCTCAGTTATCTTTAA
196 ACTTAAGGTTTAATCATAGTCGCTTTTATTTCTCTGACTTACGATTCAATCCCAGTTATCTTTAA
*
7735014 TCTTTGACTCGTGGTTTAATCCTGATCATTCTTATAGTTTTTTGACTTACGGTTTAATCCTAGTC
261 TCTTTGACTCGTGGTTTAATCCTGATCATTCTTATAG-TTTTTGAATTACGGTTTAATCCTAGTC
7735079 GT
325 GT
* * * *
7735081 TTTTATTTCTTTGACTTG-AGGTTCAGTCTCGGTTATCTTTAATCTTTGACTCGTGATTTAATCC
1 TTTTATTTCTTTGACTTGCA-GTTCAGTCTCGATCATCATTAATCTTTGACTCATGATTTAATCC
* * *
7735145 CGATCATTCTTATAGCTTTTCGACTTACGATTTAATCCTAGTCATTTTTATTTTTTTGACTTACA
65 CGATCATTCTTATAGCTTCTCGACTTACGATTTAATCCTAGTCACTTTTATTTCTTTGACTTACA
* *
7735210 GTTCAGTCTCGGTTATCTTTAATCTTTGACTCATGGTTTAATCCCGATCATTCTTATAGCTTCTT
130 GTTCAGTCTCAGTTATCTTTAATCTTTGACTCATGGTTTAATCCCGATCATTCTTATAGCTTCTC
**
7735275 GACTTAAGGTTTAATTTTAGTCGCTTTTATTTCTCTGACTTACGATTCAATCCCAGTTATCTTTA
195 GACTTAAGGTTTAATCATAGTCGCTTTTATTTCTCTGACTTACGATTCAATCCCAGTTATCTTTA
* * *
7735340 ATTTTTGACTCGTGGTTTAATCTTGATCATTTTTATAGTTTTTGAATTACGGTTTAATCCTA
260 ATCTTTGACTCGTGGTTTAATCCTGATCATTCTTATAGTTTTTGAATTACGGTTTAATCCTA
7735402 ATCTCCTTAT
Statistics
Matches: 288, Mismatches: 32, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
326 24 0.08
327 264 0.92
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (326 bp):
TTTTATTTCTTTGACTTGCAGTTCAGTCTCGATCATCATTAATCTTTGACTCATGATTTAATCCC
GATCATTCTTATAGCTTCTCGACTTACGATTTAATCCTAGTCACTTTTATTTCTTTGACTTACAG
TTCAGTCTCAGTTATCTTTAATCTTTGACTCATGGTTTAATCCCGATCATTCTTATAGCTTCTCG
ACTTAAGGTTTAATCATAGTCGCTTTTATTTCTCTGACTTACGATTCAATCCCAGTTATCTTTAA
TCTTTGACTCGTGGTTTAATCCTGATCATTCTTATAGTTTTTGAATTACGGTTTAATCCTAGTCG
T
Found at i:7735432 original size:34 final size:34
Alignment explanation
Indices: 7735386--7735450 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
7735376 AGTTTTTGAA
* * *
7735386 TTACGGTTTAATCCTAATCTCCTTATTTTCTAAT
1 TTACGGTCTAATCCCAATCTCCTTATATTCTAAT
*
7735420 TTACGGTCTAATCCCAATCTCTTTATATTCT
1 TTACGGTCTAATCCCAATCTCCTTATATTCT
7735451 GACTCGCTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.06, T:0.48
Consensus pattern (34 bp):
TTACGGTCTAATCCCAATCTCCTTATATTCTAAT
Found at i:7735738 original size:68 final size:68
Alignment explanation
Indices: 7735442--7735739 Score: 216
Period size: 68 Copynumber: 4.4 Consensus size: 68
7735432 CCCAATCTCT
* * * **
7735442 TTATATTCTGACTCGCTG-TTCAATCCCGATCTCTTTAAATCCAAAAATCACAGTTTAATCTTGA
1 TTATTTTCTGACTCG-TGATTCAATCCCGATTTCTTT-AATCC-AAAATCGCAGTTTAATCTCAA
7735506 TTGACG
63 TTGACG
* * * *
7735512 TTA-TTT-TGACTCGTGCTTCAATCCCAATTTCTTTAATCCAAAATCGCAGGTTAATCTCGATT-
1 TTATTTTCTGACTCGTGATTCAATCCCGATTTCTTTAATCCAAAATCGCAGTTTAATCTCAATTG
*
7735574 ATTG
66 A-CG
* * * * * ** * * * *
7735578 TTATTTTTTGACTCGTGATTTAATCCCGATCTCTTTATTTTCTGACTTG-TGATTCAATC-CAAG
1 TTATTTTCTGACTCGTGATTCAATCCCGATTTCTTTA-ATCCAAAATCGCAG-TTTAATCTCAA-
7735641 TTGACG
63 TTGACG
** * * *
7735647 TTA--TTCTGACTCGCAATTCAATCCCGATTTTTTTAATCCAAAATCGTAGTTTAATATCAATTG
1 TTATTTTCTGACTCGTGATTCAATCCCGATTTCTTTAATCCAAAATCGCAGTTTAATCTCAATTG
**
7735710 TTG
66 ACG
*
7735713 TTATTTTCTGACTCGTGATTTAATCCC
1 TTATTTTCTGACTCGTGATTCAATCCC
7735740 AGTTAATCTC
Statistics
Matches: 174, Mismatches: 42, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
65 1 0.01
66 41 0.24
67 40 0.23
68 70 0.40
69 18 0.10
70 4 0.02
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.42
Consensus pattern (68 bp):
TTATTTTCTGACTCGTGATTCAATCCCGATTTCTTTAATCCAAAATCGCAGTTTAATCTCAATTG
ACG
Found at i:7735746 original size:45 final size:45
Alignment explanation
Indices: 7735697--7735784 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
7735687 AAATCGTAGT
7735697 TTAATATCAATTGTTGTTATTTTCTGACTCGTGATTTAATCCCAG
1 TTAATATCAATTGTTGTTATTTTCTGACTCGTGATTTAATCCCAG
* * *
7735742 TTAATCTCAATTGTTGTTATTTTTTGACTCGTGGTTTAATCCC
1 TTAATATCAATTGTTGTTATTTTCTGACTCGTGATTTAATCCC
7735785 GGTCTCTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.49
Consensus pattern (45 bp):
TTAATATCAATTGTTGTTATTTTCTGACTCGTGATTTAATCCCAG
Found at i:7735863 original size:180 final size:178
Alignment explanation
Indices: 7735561--7735920 Score: 540
Period size: 180 Copynumber: 2.0 Consensus size: 178
7735551 AAAATCGCAG
*
7735561 GTTAATCTCGATTATTGTTATTTTTTGACTCGTGATTTAATCCCGATCTCTTTATTTTCTGACTT
1 GTTAATCTCAATTATTGTTATTTTTTGACTCGTGATTTAATCCCGATCTCTTTATTTTCTGACTT
*
7735626 GTGATTCAATCCAAGTTGACGTTATTCTGACTCGCAATTCAATCCCGATTTTTTTAATCCAAAAT
66 GTAATTCAATCCAAGTTGACGTTATTCTGACTCGCAATTCAATCCCGATTTTTTTAATCCAAAAT
** *
7735691 CGTAGTTTAATATCAATTGTTGTTATTTTCTGACTCGTGATTTAATCCCA
131 CACAGTTTAATATCAATTATTGTT-TTTT-TGACTCGTGATTTAATCCCA
* * * *
7735741 GTTAATCTCAATTGTTGTTATTTTTTGACTCGTGGTTTAATCCCGGTCTCTTTATTTTTTGACTT
1 GTTAATCTCAATTATTGTTATTTTTTGACTCGTGATTTAATCCCGATCTCTTTATTTTCTGACTT
* * **
7735806 GTAATTCAATCCAAGTTGACGTTATTTTGACTCGCGATTCAATCTTGATTTTTTTAATCCAAAAT
66 GTAATTCAATCCAAGTTGACGTTATTCTGACTCGCAATTCAATCCCGATTTTTTTAATCCAAAAT
* ** * *
7735871 CACAGTTTAATCTTGATTATTGTTTTTTTTACTCGTGGTTTAATCCCA
131 CACAGTTTAATATCAATTATTGTTTTTTTGACTCGTGATTTAATCCCA
7735919 GT
1 GT
7735921 CTCTTTATAT
Statistics
Matches: 162, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
178 20 0.12
179 4 0.02
180 138 0.85
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.47
Consensus pattern (178 bp):
GTTAATCTCAATTATTGTTATTTTTTGACTCGTGATTTAATCCCGATCTCTTTATTTTCTGACTT
GTAATTCAATCCAAGTTGACGTTATTCTGACTCGCAATTCAATCCCGATTTTTTTAATCCAAAAT
CACAGTTTAATATCAATTATTGTTTTTTTGACTCGTGATTTAATCCCA
Found at i:7736391 original size:14 final size:13
Alignment explanation
Indices: 7736358--7736401 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
7736348 ATTCATTATT
7736358 AAAAAAATAAAAA
1 AAAAAAATAAAAA
*
7736371 GACAAAACATAACAAA
1 -A-AAAAAATAA-AAA
7736387 AAAAAAATAAAAA
1 AAAAAAATAAAAA
7736400 AA
1 AA
7736402 GAGGGGATGG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 5 0.19
14 9 0.35
15 9 0.35
16 3 0.12
ACGTcount: A:0.84, C:0.07, G:0.02, T:0.07
Consensus pattern (13 bp):
AAAAAAATAAAAA
Found at i:7737457 original size:19 final size:18
Alignment explanation
Indices: 7737435--7737488 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
7737425 GAATTTTCTA
7737435 ATTTTTTTTATATATTATT
1 ATTTTTTTTATAT-TTATT
*
7737454 ATTTTTGTTAT-TTTAAGTT
1 ATTTTTTTTATATTT-A-TT
7737473 -TTTTTTTTATATTTAT
1 ATTTTTTTTATATTTAT
7737489 GCATGATAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
17 3 0.10
18 12 0.40
19 15 0.50
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (18 bp):
ATTTTTTTTATATTTATT
Found at i:7737839 original size:16 final size:15
Alignment explanation
Indices: 7737813--7737863 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 15
7737803 TTTAAATTCA
7737813 AAACCCTAAAATCCG
1 AAACCCTAAAATCCG
* *
7737828 AAACCTCTAAAATTCA
1 AAACC-CTAAAATCCG
7737844 AAACCCCATAAAATCCG
1 AAA-CCC-TAAAATCCG
7737861 AAA
1 AAA
7737864 TCCCAAACCT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 5 0.17
16 12 0.41
17 12 0.41
ACGTcount: A:0.51, C:0.29, G:0.04, T:0.16
Consensus pattern (15 bp):
AAACCCTAAAATCCG
Found at i:7737868 original size:17 final size:16
Alignment explanation
Indices: 7737813--7737868 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
7737803 TTTAAATTCA
7737813 AAACCC-TAAAATCCG
1 AAACCCATAAAATCCG
* *
7737828 AAACCTC-TAAAATTCA
1 AAACC-CATAAAATCCG
7737844 AAACCCCATAAAATCCG
1 AAA-CCCATAAAATCCG
7737861 AAATCCCA
1 AAA-CCCA
7737869 AACCTTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
15 5 0.15
16 12 0.36
17 16 0.48
ACGTcount: A:0.48, C:0.32, G:0.04, T:0.16
Consensus pattern (16 bp):
AAACCCATAAAATCCG
Found at i:7737900 original size:14 final size:14
Alignment explanation
Indices: 7737881--7737917 Score: 65
Period size: 15 Copynumber: 2.6 Consensus size: 14
7737871 CCTTTAAATT
7737881 CTTAAATCCAAACC
1 CTTAAATCCAAACC
7737895 CTTAAAATCCAAACC
1 CTT-AAATCCAAACC
7737910 CTTAAATC
1 CTTAAATC
7737918 AAAATCCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.24
Consensus pattern (14 bp):
CTTAAATCCAAACC
Found at i:7737929 original size:58 final size:59
Alignment explanation
Indices: 7737821--7738016 Score: 165
Period size: 58 Copynumber: 3.3 Consensus size: 59
7737811 CAAAACCCTA
*
7737821 AAATCCGAAA-CCTCTAAAAT-TCAAAACCCCATAAAATCCGAAATCCCAAACCTTTAAATTCTT
1 AAATCC-AAACCCT-TAAAATCTC-AAA-CCC-TAAAAT-CAAAATCCCAAACCTTTAAATTCTT
* *
7737884 AAATCCAAACCCTTAAAATC-CAAACCCTTAAATCAAAATCCCAAACC-TCAAATT-TT
1 AAATCCAAACCCTTAAAATCTCAAACCCTAAAATCAAAATCCCAAACCTTTAAATTCTT
* * ** * *
7737940 AAAATCAAAACCC-TAAAATCTTCAAACTCTAAAATCAAAATCTTAAACCTTT-TATACCTT
1 -AAATCCAAACCCTTAAAATC-TCAAACCCTAAAATCAAAATCCCAAACCTTTAAAT-TCTT
*
7738000 AAAACCAAA-CCTTAAAA
1 AAATCCAAACCCTTAAAA
7738017 CCTTTAAAAT
Statistics
Matches: 111, Mismatches: 13, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
56 9 0.08
57 17 0.15
58 40 0.36
59 18 0.16
60 5 0.05
61 3 0.03
62 10 0.09
63 9 0.08
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.24
Consensus pattern (59 bp):
AAATCCAAACCCTTAAAATCTCAAACCCTAAAATCAAAATCCCAAACCTTTAAATTCTT
Found at i:7737936 original size:20 final size:20
Alignment explanation
Indices: 7737898--7737959 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
7737888 CCAAACCCTT
*
7737898 AAAATCCAAACCCTTAAATC
1 AAAATCCAAACCCTCAAATC
*
7737918 AAAATCCCAAA-CCTCAAATTTT
1 AAAAT-CCAAACCCTCAAA--TC
* *
7737940 AAAATCAAAACCCTAAAATC
1 AAAATCCAAACCCTCAAATC
7737960 TTCAAACTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
20 12 0.36
21 9 0.27
22 12 0.36
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAATCCAAACCCTCAAATC
Found at i:7737958 original size:14 final size:14
Alignment explanation
Indices: 7737884--7737979 Score: 52
Period size: 14 Copynumber: 6.6 Consensus size: 14
7737874 TTAAATTCTT
*
7737884 AAATCCAAACCCTTA
1 AAATCAAAACCC-TA
* *
7737899 AAATCCAAACCCTT
1 AAATCAAAACCCTA
7737913 AAATCAAAATCCC-A
1 AAATCAAAA-CCCTA
* ***
7737927 AACCTC-AAATTTTA
1 AA-ATCAAAACCCTA
7737941 AAATCAAAACCCTA
1 AAATCAAAACCCTA
* *
7737955 AAATCTTCAAACTCTA
1 AAATC--AAAACCCTA
7737971 AAATCAAAA
1 AAATCAAAA
7737980 TCTTAAACCT
Statistics
Matches: 61, Mismatches: 14, Indels: 13
0.69 0.16 0.15
Matches are distributed among these distances:
13 2 0.03
14 30 0.49
15 17 0.28
16 12 0.20
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (14 bp):
AAATCAAAACCCTA
Found at i:7744480 original size:18 final size:18
Alignment explanation
Indices: 7744457--7744491 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7744447 AGGCTAATGA
*
7744457 AGGAGGTGATTCAGAAGC
1 AGGAGGTGATGCAGAAGC
7744475 AGGAGGTGATGCAGAAG
1 AGGAGGTGATGCAGAAG
7744492 AAATTCTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.43, T:0.14
Consensus pattern (18 bp):
AGGAGGTGATGCAGAAGC
Found at i:7752406 original size:24 final size:24
Alignment explanation
Indices: 7752365--7752411 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
7752355 TTTTATATTT
*
7752365 AATTTAAATAATTCAATTTGATTC
1 AATTTAAATAATTCAATTAGATTC
** *
7752389 AATTTAAATGTTTTAATTAGATT
1 AATTTAAATAATTCAATTAGATT
7752412 GACTCATTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.49
Consensus pattern (24 bp):
AATTTAAATAATTCAATTAGATTC
Found at i:7752641 original size:8 final size:9
Alignment explanation
Indices: 7752620--7752648 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
7752610 GAATTAATTA
7752620 AAAAATGAC
1 AAAAATGAC
7752629 AAAAATGAC
1 AAAAATGAC
7752638 AAAAAT-AC
1 AAAAATGAC
7752646 AAA
1 AAA
7752649 GGCAAATGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.25
9 15 0.75
ACGTcount: A:0.72, C:0.10, G:0.07, T:0.10
Consensus pattern (9 bp):
AAAAATGAC
Found at i:7755885 original size:25 final size:25
Alignment explanation
Indices: 7755857--7755915 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
7755847 TCAGTACCAA
*
7755857 GGCCAAGCCACCTTAGTAGCTATTT
1 GGCCAAGCCACCTTAGCAGCTATTT
7755882 GGCCAAGCCACCTTAGCAGCTATTT
1 GGCCAAGCCACCTTAGCAGCTATTT
*
7755907 TGCCAAGCC
1 GGCCAAGCC
7755916 TCATTTGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (25 bp):
GGCCAAGCCACCTTAGCAGCTATTT
Found at i:7760032 original size:18 final size:17
Alignment explanation
Indices: 7759997--7760044 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
7759987 TAAGTAGTAA
*
7759997 GAAAGAGAAGAATA-AAT
1 GAAA-AGAAGAAAAGAAT
7760014 GAAAAGAATGAAAAGAAT
1 GAAAAGAA-GAAAAGAAT
7760032 GAAAAGAAGAAAA
1 GAAAAGAAGAAAA
7760045 AAGATAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 4 0.14
17 13 0.46
18 11 0.39
ACGTcount: A:0.69, C:0.00, G:0.23, T:0.08
Consensus pattern (17 bp):
GAAAAGAAGAAAAGAAT
Found at i:7760045 original size:9 final size:9
Alignment explanation
Indices: 7760011--7760044 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
7760001 GAGAAGAATA
7760011 AATGAAAAG
1 AATGAAAAG
7760020 AATGAAAAG
1 AATGAAAAG
7760029 AATGAAAAG
1 AATGAAAAG
7760038 AA-GAAAA
1 AATGAAAA
7760045 AAGATAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.20
9 20 0.80
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.09
Consensus pattern (9 bp):
AATGAAAAG
Found at i:7760056 original size:13 final size:13
Alignment explanation
Indices: 7760038--7760069 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
7760028 GAATGAAAAG
7760038 AAGAAAAAAGATA
1 AAGAAAAAAGATA
7760051 AAG-AAAAAGATA
1 AAGAAAAAAGATA
7760063 AA-AAAAA
1 AAGAAAAA
7760070 TCCATCCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 15 0.83
13 3 0.17
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.06
Consensus pattern (13 bp):
AAGAAAAAAGATA
Found at i:7762543 original size:150 final size:148
Alignment explanation
Indices: 7762269--7762715 Score: 539
Period size: 149 Copynumber: 3.0 Consensus size: 148
7762259 AGCATATAAC
* *
7762269 ATGCACCTTAGAGATGAGAATCTAGGGTAAAAAGTGAATGAAGCTTCAGTTAGAATCTCAAGTAA
1 ATGCACCTTAGAGATGAGAATCTAGGGTAAAAAGTGAATGAAGCTTCAGTTAGAATATCCAGTAA
*
7762334 AAAAGAAGATAGAATTCAAGAAAGTAAAATGTTAAAGTTGAAGTCAAATGTTTCTAAAAAAAGAA
66 AAAAGAAGATAGAATTCAAGAAAGTAGAATGTTAAAGTTGAAGTCAAATGTTT-TAAAAAAAG-A
7762399 ATAGCAAAGAAAGAAAGACT
129 ATAGCAAAGAAAGAAAGACT
* * * * *
7762419 -TGCACATTAGAGATGAGAGT-TTGGGATAAAAAAATGAATGAAGCTTCAATTAGAATATCCAGT
1 ATGCACCTTAGAGATGAGAATCTAGGG-T-AAAAAGTGAATGAAGCTTCAGTTAGAATATCCAGT
* ** *
7762482 AAAAAAGAAGATAGAATTCAAGAAAGTAGCATACTAAAATTGAAGTCAAATGTTTTAAAAAAA-A
64 AAAAAAGAAGATAGAATTCAAGAAAGTAGAATGTTAAAGTTGAAGTCAAATGTTTTAAAAAAAGA
* *
7762546 GT-GCAAAAAAAGAAAGA-T
129 ATAGCAAAGAAAGAAAGACT
* * * *
7762564 ACGCACCTTGGAGATGATAATCTAGGGTAAAAAGTGAATGAAGCTTTAGTTAG-A-ATCCTAGGT
1 ATGCACCTTAGAGATGAGAATCTAGGGTAAAAAGTGAATGAAGCTTCAGTTAGAATATCC-A-GT
* ***
7762627 AAAAAAAAAAGAAGATAGAATTCAAGAAAGTAGAATGTTAAAGTTGAAGTCAAGTGTTTCCTAAA
64 ----AAAAAAGAAGATAGAATTCAAGAAAGTAGAATGTTAAAGTTGAAGTCAAATGTTTTAAAAA
*
7762692 AAGAACGAGCAAAGAAAGAAAGAC
125 AAGAA-TAGCAAAGAAAGAAAGAC
7762716 ACATGATTTT
Statistics
Matches: 249, Mismatches: 34, Indels: 25
0.81 0.11 0.08
Matches are distributed among these distances:
143 4 0.02
144 2 0.01
145 25 0.10
146 30 0.12
147 6 0.02
148 4 0.02
149 82 0.33
150 82 0.33
152 14 0.06
ACGTcount: A:0.49, C:0.09, G:0.20, T:0.22
Consensus pattern (148 bp):
ATGCACCTTAGAGATGAGAATCTAGGGTAAAAAGTGAATGAAGCTTCAGTTAGAATATCCAGTAA
AAAAGAAGATAGAATTCAAGAAAGTAGAATGTTAAAGTTGAAGTCAAATGTTTTAAAAAAAGAAT
AGCAAAGAAAGAAAGACT
Found at i:7762659 original size:149 final size:145
Alignment explanation
Indices: 7762271--7762715 Score: 538
Period size: 150 Copynumber: 3.0 Consensus size: 145
7762261 CATATAACAT
*
7762271 GCACCTTAGAGATGAGAATCTAGGGTAAAAAGTGAATGAAGCTTCAGTTAGAATCTCAAGTAAAA
1 GCACCTTAGAGATGAGAATCTAGGGTAAAAAGTGAATGAAGCTTCAGTTAGAATC-CTAGTAAAA
* *
7762336 AAGAAGATAGAATTCAAGAAAGTAAAATGTTAAAGTTGAAGTCAAATGTTTCTAAAAAAAGAAAT
65 AAGAAGATAGAATTCAAGAAAGTAGAATGTTAAAGTTGAAGTCAAATGTTTCT-AAAAAA-AAGT
*
7762401 AGCAAAGAAAGAAAGACTT
128 -GCAAAGAAAGAAAGACTC
* * * * *
7762420 GCACATTAGAGATGAGAGT-TTGGGATAAAAAAATGAATGAAGCTTCAATTAGAATATCC-AGTA
1 GCACCTTAGAGATGAGAATCTAGGG-T-AAAAAGTGAATGAAGCTTCAGTTAG-A-ATCCTAGTA
* ** *
7762483 AAAAAGAAGATAGAATTCAAGAAAGTAGCATACTAAAATTGAAGTCAAATGTTT-TAAAAAAAAG
62 AAAAAGAAGATAGAATTCAAGAAAGTAGAATGTTAAAGTTGAAGTCAAATGTTTCTAAAAAAAAG
*
7762547 TGCAAAAAAAGAAAGA-TAC
127 TGCAAAGAAAGAAAGACT-C
* * *
7762566 GCACCTTGGAGATGATAATCTAGGGTAAAAAGTGAATGAAGCTTTAGTTAGAATCCTAGGTAAAA
1 GCACCTTAGAGATGAGAATCTAGGGTAAAAAGTGAATGAAGCTTCAGTTAGAATCCTA-GT----
*
7762631 AAAAAAGAAGATAGAATTCAAGAAAGTAGAATGTTAAAGTTGAAGTCAAGTGTTTCCTAAAAAGA
61 AAAAAAGAAGATAGAATTCAAGAAAGTAGAATGTTAAAGTTGAAGTCAAATGTTT-CTAAAAA-A
* *
7762696 ACGAGCAAAGAAAGAAAGAC
124 AAGTGCAAAGAAAGAAAGAC
7762716 ACATGATTTT
Statistics
Matches: 251, Mismatches: 29, Indels: 28
0.81 0.09 0.09
Matches are distributed among these distances:
143 4 0.02
144 2 0.01
145 25 0.10
146 30 0.12
147 7 0.03
148 10 0.04
149 69 0.27
150 76 0.30
151 8 0.03
152 20 0.08
ACGTcount: A:0.49, C:0.09, G:0.20, T:0.22
Consensus pattern (145 bp):
GCACCTTAGAGATGAGAATCTAGGGTAAAAAGTGAATGAAGCTTCAGTTAGAATCCTAGTAAAAA
AGAAGATAGAATTCAAGAAAGTAGAATGTTAAAGTTGAAGTCAAATGTTTCTAAAAAAAAGTGCA
AAGAAAGAAAGACTC
Found at i:7763777 original size:63 final size:64
Alignment explanation
Indices: 7763614--7763767 Score: 204
Period size: 64 Copynumber: 2.4 Consensus size: 64
7763604 TCATATTCAT
* * * *
7763614 ATCATGAGAAAGACATTTGATCTGTATGCTACAAAAAAATTGCATTTGCATCACTTACATATGC
1 ATCATAAGAAAGACATTTGATCTGTATGCTACAAAAAAAATGCATTTGCATAACTTACATATAC
* * * * *
7763678 ATTATAAGAAAGACATGTGATTTGCATGCTACAAAAAAAATGCATTTGCGTAACTTGA-AT-TAC
1 ATCATAAGAAAGACATTTGATCTGTATGCTACAAAAAAAATGCATTTGCATAACTT-ACATATAC
7763741 ATCATAAGAAAGACATTTGATCTGTAT
1 ATCATAAGAAAGACATTTGATCTGTAT
7763768 ATTGTAAAAA
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
63 25 0.33
64 50 0.66
65 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (64 bp):
ATCATAAGAAAGACATTTGATCTGTATGCTACAAAAAAAATGCATTTGCATAACTTACATATAC
Found at i:7763864 original size:41 final size:41
Alignment explanation
Indices: 7763819--7763896 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
7763809 TTCGCATTCG
* *
7763819 TATCTACATCATGAGAAAGGCATTCACAGTTGCATCACTTT
1 TATCTACATCATGAGAAAGACATTCACAGTTACATCACTTT
* *
7763860 TATCTATATCATGAGAAAGACATTCACATTTACATCA
1 TATCTACATCATGAGAAAGACATTCACAGTTACATCA
7763897 ATGGCATTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.32
Consensus pattern (41 bp):
TATCTACATCATGAGAAAGACATTCACAGTTACATCACTTT
Found at i:7764234 original size:11 final size:10
Alignment explanation
Indices: 7764212--7764250 Score: 60
Period size: 11 Copynumber: 3.7 Consensus size: 10
7764202 TAGAAATTTG
7764212 AAGAAAAAAA
1 AAGAAAAAAA
7764222 AAGAAAGAAAA
1 AAGAAA-AAAA
7764233 AAGAAAAAAAA
1 AAG-AAAAAAA
7764244 AAGAAAA
1 AAGAAAA
7764251 GCTGAATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.37
11 14 0.52
12 3 0.11
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:7765937 original size:79 final size:80
Alignment explanation
Indices: 7765770--7765941 Score: 240
Period size: 80 Copynumber: 2.2 Consensus size: 80
7765760 GATTCAAACA
* *
7765770 ATTTGTAAGACCTCTAGGCAGAACATTTAAATTTTTAAGTTTCAATGCCTCTAATTAGAGGAGTT
1 ATTTGTAAGACCTCCAGGCAGAACATTTAAATTTTAAAGTTTCAATGCCTCTAATTAGAGGAGTT
7765835 ATCACAAATGTCAAG
66 ATCACAAATGTCAAG
** ** * *
7765850 ATCCGTAAGACCTCCAGGCAGAATGTTTAAATTTTAAAGTTTTAATGCCTCTGATT-GAGGAGCT
1 ATTTGTAAGACCTCCAGGCAGAACATTTAAATTTTAAAGTTTCAATGCCTCTAATTAGAGGAG-T
*
7765914 T-TCGCAAATGTCAAG
65 TATCACAAATGTCAAG
7765929 ATTTGTAAGACCT
1 ATTTGTAAGACCT
7765942 TTGGGCCAAA
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 30 0.38
80 50 0.62
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (80 bp):
ATTTGTAAGACCTCCAGGCAGAACATTTAAATTTTAAAGTTTCAATGCCTCTAATTAGAGGAGTT
ATCACAAATGTCAAG
Found at i:7765959 original size:79 final size:80
Alignment explanation
Indices: 7765774--7765973 Score: 219
Period size: 80 Copynumber: 2.5 Consensus size: 80
7765764 CAAACAATTT
* *** *
7765774 GTAAGACCTCTAGGCAGAACATTTAAATTTTTAAGTTTCAATGCCTCTAATTAGAGGAGTTATCA
1 GTAAGACCTCCAGGCAGAATGCTTAAATTTTAAAGTTTCAATGCCTCTAATTAGAGGAGTTATCA
7765839 CAAATGTCAAGATCC
66 CAAATGTCAAGATCC
* * *
7765854 GTAAGACCTCCAGGCAGAATGTTTAAATTTTAAAGTTTTAATGCCTCTGATT-GAGGAGCTT-TC
1 GTAAGACCTCCAGGCAGAATGCTTAAATTTTAAAGTTTCAATGCCTCTAATTAGAGGAG-TTATC
* **
7765917 GCAAATGTCAAGATTT
65 ACAAATGTCAAGATCC
*** *
7765933 GTAAGACCTTTGGGCCA-AATGCTTAAATTTCAAAG-TTCAAT
1 GTAAGACCTCCAGG-CAGAATGCTTAAATTTTAAAGTTTCAAT
7765974 ACTTTTGATC
Statistics
Matches: 103, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 5 0.05
79 48 0.47
80 50 0.49
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Consensus pattern (80 bp):
GTAAGACCTCCAGGCAGAATGCTTAAATTTTAAAGTTTCAATGCCTCTAATTAGAGGAGTTATCA
CAAATGTCAAGATCC
Found at i:7766316 original size:27 final size:26
Alignment explanation
Indices: 7766277--7766332 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
7766267 TCAAATGGTC
*
7766277 AAAATAAAAAAAAAACCAAAATAAAAA
1 AAAATAAAAAAAAAAACAAAA-AAAAA
* * *
7766304 AAAATCAAGAAAAAAACATAAAAAAA
1 AAAATAAAAAAAAAAACAAAAAAAAA
7766330 AAA
1 AAA
7766333 CTATGAATCG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.84, C:0.07, G:0.02, T:0.07
Consensus pattern (26 bp):
AAAATAAAAAAAAAAACAAAAAAAAA
Found at i:7766686 original size:9 final size:9
Alignment explanation
Indices: 7766672--7766717 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
7766662 AATTTCAAAT
7766672 TTATTTTTA
1 TTATTTTTA
7766681 TTA-TTTTA
1 TTATTTTTA
*
7766689 TTATTGTTA
1 TTATTTTTA
*
7766698 TTGTTTTTA
1 TTATTTTTA
7766707 TT-TTCTTTA
1 TTATT-TTTA
7766716 TT
1 TT
7766718 TATTGAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 10 0.31
9 22 0.69
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.76
Consensus pattern (9 bp):
TTATTTTTA
Found at i:7768369 original size:2 final size:2
Alignment explanation
Indices: 7768364--7768390 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7768354 TTATCTCCTT
7768364 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
7768391 TGCTAGATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7768469 original size:16 final size:17
Alignment explanation
Indices: 7768416--7768469 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 17
7768406 TTGTTTATGC
* *
7768416 ATATTTAAATTTAA-AA
1 ATATTTAAAATAAAGAA
* *
7768432 AT-TTTAAAATAAATAT
1 ATATTTAAAATAAAGAA
7768448 ATATTTAAAA-AAAGAA
1 ATATTTAAAATAAAGAA
7768464 ATATTT
1 ATATTT
7768470 TTTTAATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
15 9 0.29
16 15 0.48
17 7 0.23
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
ATATTTAAAATAAAGAA
Found at i:7772948 original size:18 final size:17
Alignment explanation
Indices: 7772915--7772947 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7772905 TGAAAGAATG
7772915 TTTTTCTTTTATTTTTC
1 TTTTTCTTTTATTTTTC
7772932 TTTTTGCTTTT-TTTTT
1 TTTTT-CTTTTATTTTT
7772948 TTTAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.03, C:0.09, G:0.03, T:0.85
Consensus pattern (17 bp):
TTTTTCTTTTATTTTTC
Found at i:7774423 original size:2 final size:2
Alignment explanation
Indices: 7774416--7774448 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
7774406 TCTCTTTACA
*
7774416 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7774449 TTTACATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7775062 original size:19 final size:19
Alignment explanation
Indices: 7775040--7775076 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7775030 GACTGGGTTC
7775040 TTTTGTTTTGTTTGGTTTT
1 TTTTGTTTTGTTTGGTTTT
* *
7775059 TTTTTTTTTTTTTGGTTT
1 TTTTGTTTTGTTTGGTTT
7775077 GTTTGTTATA
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:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (19 bp):
TTTTGTTTTGTTTGGTTTT
Found at i:7775188 original size:25 final size:25
Alignment explanation
Indices: 7775160--7775207 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
7775150 AATTAAGCGC
7775160 TTAATATTTTATTACAATCAATTTT
1 TTAATATTTTATTACAATCAATTTT
*
7775185 TTAATATTTTATTATAATCAATT
1 TTAATATTTTATTACAATCAATT
7775208 AAATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (25 bp):
TTAATATTTTATTACAATCAATTTT
Found at i:7775206 original size:29 final size:26
Alignment explanation
Indices: 7775160--7775222 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 26
7775150 AATTAAGCGC
*
7775160 TTAATATTTTATTACAA-TCAATTTT
1 TTAATATTTTATTACAATTAAATTTT
7775185 TTAATATTTTATTATAATCAATTAAATTTT
1 TTAATATTTTA-T-T-A-CAATTAAATTTT
7775215 TT-ATATTT
1 TTAATATTT
7775223 AATTTTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 11 0.34
26 1 0.03
27 1 0.03
28 1 0.03
29 9 0.28
30 9 0.28
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (26 bp):
TTAATATTTTATTACAATTAAATTTT
Found at i:7775236 original size:29 final size:30
Alignment explanation
Indices: 7775160--7775239 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 30
7775150 AATTAAGCGC
* *
7775160 TTAATATTTTATTACAATCAATTTTTTAATAT
1 TTAAT-TTTTATTA-ATTAAATTTTTTAATAT
* * * *
7775192 TTTATTATAATCAATTAAATTTTTT-ATAT
1 TTAATTTTTATTAATTAAATTTTTTAATAT
7775221 TTAATTTTTATTAATTAAA
1 TTAATTTTTATTAATTAAA
7775240 CCTAAATTGA
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
29 19 0.50
30 10 0.26
31 5 0.13
32 4 0.11
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (30 bp):
TTAATTTTTATTAATTAAATTTTTTAATAT
Found at i:7782404 original size:23 final size:23
Alignment explanation
Indices: 7782374--7782418 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
7782364 GTGCTTTCAT
7782374 GTTCTAATTATACTCTTATTTAA
1 GTTCTAATTATACTCTTATTTAA
7782397 GTTCTAATTATACTCTTATTTA
1 GTTCTAATTATACTCTTATTTA
7782419 TACATACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.29, C:0.13, G:0.04, T:0.53
Consensus pattern (23 bp):
GTTCTAATTATACTCTTATTTAA
Found at i:7782739 original size:28 final size:29
Alignment explanation
Indices: 7782699--7782776 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 29
7782689 GAATTTGTTT
*
7782699 AATTATAATAAATTATTTATTATGATA-TTG
1 AATTAT-A-AAATTATTTATTATAATATTTG
* * *
7782729 AATTTTAAAATT-TTTAATGTAATATTTG
1 AATTATAAAATTATTTATTATAATATTTG
* *
7782757 AATTATAAATTTATTAATTA
1 AATTATAAAATTATTTATTA
7782777 AAATGATATT
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
27 9 0.24
28 18 0.49
29 5 0.14
30 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (29 bp):
AATTATAAAATTATTTATTATAATATTTG
Found at i:7783677 original size:16 final size:17
Alignment explanation
Indices: 7783659--7783719 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 17
7783649 ATTTCTTTAT
7783659 TAATTTTTTTATATAT-
1 TAATTTTTTTATATATA
*
7783675 TAAAATTTTTTATTATGATTA
1 T-AATTTTTTTA-TAT-A-TA
*
7783696 TAATTTTTTTGATACATA
1 TAATTTTTTT-ATATATA
7783714 TAATTT
1 TAATTT
7783720 CATCAAAGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
16 1 0.03
17 9 0.25
18 11 0.31
19 2 0.06
20 11 0.31
21 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (17 bp):
TAATTTTTTTATATATA
Found at i:7783683 original size:18 final size:20
Alignment explanation
Indices: 7783660--7783705 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 20
7783650 TTTCTTTATT
7783660 AATTTTTTTA-TAT-ATTAA
1 AATTTTTTTATTATGATTAA
*
7783678 AA-TTTTTTATTATGATTAT
1 AATTTTTTTATTATGATTAA
7783697 AATTTTTTT
1 AATTTTTTT
7783706 GATACATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.29
18 5 0.21
19 6 0.25
20 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
AATTTTTTTATTATGATTAA
Found at i:7783690 original size:20 final size:18
Alignment explanation
Indices: 7783660--7783705 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
7783650 TTTCTTTATT
7783660 AATTTTTTTATAT-ATTAA
1 AATTTTTTT-TATGATTAA
*
7783678 AATTTTTTATTATGATTAT
1 AATTTTTT-TTATGATTAA
7783697 AATTTTTTT
1 AATTTTTTT
7783706 GATACATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
AATTTTTTTTATGATTAA
Found at i:7786854 original size:14 final size:14
Alignment explanation
Indices: 7786835--7786861 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7786825 ACCCAGTAGC
7786835 AAAAAAAAATTCAA
1 AAAAAAAAATTCAA
7786849 AAAAAAAAATTCA
1 AAAAAAAAATTCA
7786862 GTGATTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAAAAAAATTCAA
Found at i:7786999 original size:10 final size:10
Alignment explanation
Indices: 7786984--7787022 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
7786974 GAAAGAGAGG
7786984 AAAAAAAG-A
1 AAAAAAAGAA
7786993 AAAAAAAGAA
1 AAAAAAAGAA
*
7787003 AAAAAAAGGA
1 AAAAAAAGAA
*
7787013 AAAGAAAGAA
1 AAAAAAAGAA
7787023 GAGAAGCCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:7787009 original size:20 final size:20
Alignment explanation
Indices: 7786984--7787022 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7786974 GAAAGAGAGG
7786984 AAAAAAAGAAAAAAAAGAAA
1 AAAAAAAGAAAAAAAAGAAA
* *
7787004 AAAAAAGGAAAAGAAAGAA
1 AAAAAAAGAAAAAAAAGAA
7787023 GAGAAGCCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (20 bp):
AAAAAAAGAAAAAAAAGAAA
Found at i:7787139 original size:22 final size:23
Alignment explanation
Indices: 7787114--7787164 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
7787104 GGAGAAAGAG
*
7787114 AATAAAAAAAGA-GAAGAAGAAA
1 AATAAAAAAAGAGGAAAAAGAAA
* *
7787136 AATAAGAAAGGAGGAAAAAGAAA
1 AATAAAAAAAGAGGAAAAAGAAA
7787159 AA-AAAA
1 AATAAAA
7787165 GGTTTGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (23 bp):
AATAAAAAAAGAGGAAAAAGAAA
Found at i:7787154 original size:33 final size:33
Alignment explanation
Indices: 7787077--7787158 Score: 80
Period size: 33 Copynumber: 2.5 Consensus size: 33
7787067 CGACATCTAG
*
7787077 AGGAGAAAAAAAGAAAGAAGAAGAAAGGGAGAA
1 AGGAGAAAAAAAGAAAGAAGAAGAAAGGAAGAA
**
7787110 A-GAGAATAAAAA-AAGAGAAGAAGAAAAATAAGAA
1 AGGAGAA-AAAAAGAA-AGAAGAAG-AAAGGAAGAA
*
7787144 AGGAG-GAAAAAGAAA
1 AGGAGAAAAAAAGAAA
7787159 AAAAAAGGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
32 7 0.17
33 20 0.50
34 10 0.25
35 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (33 bp):
AGGAGAAAAAAAGAAAGAAGAAGAAAGGAAGAA
Found at i:7787499 original size:3 final size:3
Alignment explanation
Indices: 7787491--7787536 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
7787481 ATAAATTTTA
7787491 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7787537 TTGGAAAACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:7802903 original size:50 final size:50
Alignment explanation
Indices: 7802793--7803095 Score: 270
Period size: 50 Copynumber: 6.1 Consensus size: 50
7802783 GACTTTTATC
* * * * * * * *
7802793 TGAGAGTTTTTAAAGTTGTTAAG-CTTTTTTTTAAGGAACCTTTCCTAGA
1 TGAGAATTTTTAAAGTTGTTGAGCCTTTGTTTAAAGGAGCTTTTCCAATA
* * * *
7802842 GGAGAATTTTTAAAGTTATTGAGCCTTTGTTTAAATGAGCTTTTCCCATA
1 TGAGAATTTTTAAAGTTGTTGAGCCTTTGTTTAAAGGAGCTTTTCCAATA
* * * * * * *
7802892 TGAGAATTTTTAAAATTGTTGAACCATTGCTTAAAGTAG-TTTTTCAAGA
1 TGAGAATTTTTAAAGTTGTTGAGCCTTTGTTTAAAGGAGCTTTTCCAATA
* * * *
7802941 TGAGAATTTTTAAAGTTATCGAGCTTTTGTTTAGAGGAGCTTTTCTCAATA
1 TGAGAATTTTTAAAGTTGTTGAGCCTTTGTTTAAAGGAGCTTTTC-CAATA
* * * *
7802992 TGAGAAGTTTTTAAAGTTGTTAAGCCTTTGTTTAAAAGATCTTTT-CAACA
1 TGAGAA-TTTTTAAAGTTGTTGAGCCTTTGTTTAAAGGAGCTTTTCCAATA
* * * * *
7803042 TGAGAAATTTTTAATGTTGTCGAACATTTGTTTAAAGGAGCTTTTTCAATA
1 TGAG-AATTTTTAAAGTTGTTGAGCCTTTGTTTAAAGGAGCTTTTCCAATA
7803093 TGA
1 TGA
7803096 AAAGTTTTGC
Statistics
Matches: 199, Mismatches: 49, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
49 56 0.28
50 93 0.47
51 19 0.10
52 31 0.16
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.43
Consensus pattern (50 bp):
TGAGAATTTTTAAAGTTGTTGAGCCTTTGTTTAAAGGAGCTTTTCCAATA
Found at i:7805213 original size:13 final size:13
Alignment explanation
Indices: 7805197--7805221 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7805187 TTGTCAAAAT
7805197 ATCATGCAAATAA
1 ATCATGCAAATAA
7805210 ATCATGCAAATA
1 ATCATGCAAATA
7805222 TCATAATAAA
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:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (13 bp):
ATCATGCAAATAA
Found at i:7805590 original size:21 final size:20
Alignment explanation
Indices: 7805548--7805594 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
7805538 AATAAATAAG
7805548 AAAAAAAAAGAAAAAACCAAA
1 AAAAAAAAAGAAAAAA-CAAA
*
7805569 AAAATAAAAGAAAAAGA-AAA
1 AAAAAAAAAGAAAAA-ACAAA
7805589 AAAAAA
1 AAAAAA
7805595 GAAACCTGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 8 0.35
21 14 0.61
22 1 0.04
ACGTcount: A:0.87, C:0.04, G:0.06, T:0.02
Consensus pattern (20 bp):
AAAAAAAAAGAAAAAACAAA
Found at i:7806969 original size:85 final size:86
Alignment explanation
Indices: 7806821--7807000 Score: 213
Period size: 85 Copynumber: 2.1 Consensus size: 86
7806811 TCCCCTTTAA
* * * **
7806821 CAAAGGTTTTGAAACTTTAGAAAATTTAAAATGCTCTTTTCACTAAAGGCTTCAAAACTTTGAAA
1 CAAAGGCTTCGAAACTTTAAAAAATTTAAAATGCTCCCTTCACTAAAGGCTTCAAAACTTTGAAA
**
7806886 ATTTTAAAATGCTTCCCTT-AC
66 AACTTAAAATGC-TCCCTTCAC
* * *
7806907 CAAAGGCTTCGAAAGTTTAAAAAATTTTAAAA-GCTCCCTT-ACTAAAGTCTTTAAAACTTTGAA
1 CAAAGGCTTCGAAACTTTAAAAAA-TTTAAAATGCTCCCTTCACTAAAGGCTTCAAAACTTTGAA
*
7806970 AAACTTAAAATTCTCCCTTCAC
65 AAACTTAAAATGCTCCCTTCAC
*
7806992 TAAAGGCTT
1 CAAAGGCTT
7807001 TAAAACCTCA
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
84 6 0.08
85 41 0.51
86 26 0.32
87 7 0.09
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (86 bp):
CAAAGGCTTCGAAACTTTAAAAAATTTAAAATGCTCCCTTCACTAAAGGCTTCAAAACTTTGAAA
AACTTAAAATGCTCCCTTCAC
Found at i:7806972 original size:42 final size:43
Alignment explanation
Indices: 7806832--7807006 Score: 187
Period size: 43 Copynumber: 4.1 Consensus size: 43
7806822 AAAGGTTTTG
**
7806832 AAACTTT-AGAAAATTTAAAATGCTCTTTTCACTAAAGGCTTCA
1 AAACTTTGA-AAAATTTAAAATGCTCCCTTCACTAAAGGCTTCA
* * *
7806875 AAACTTTGAAAATTTTAAAATGCTTCCCTT-ACCAAAGGCTTCG
1 AAACTTTGAAAAATTTAAAATGC-TCCCTTCACTAAAGGCTTCA
* * * *
7806918 AAAGTTTAAAAAATTTTAAAA-GCTCCCTT-ACTAAAGTCTTTA
1 AAACTTTGAAAAA-TTTAAAATGCTCCCTTCACTAAAGGCTTCA
* * *
7806960 AAACTTTGAAAAACTTAAAATTCTCCCTTCACTAAAGGCTTTA
1 AAACTTTGAAAAATTTAAAATGCTCCCTTCACTAAAGGCTTCA
7807003 AAAC
1 AAAC
7807007 CTCAACAAAA
Statistics
Matches: 110, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
41 6 0.05
42 33 0.30
43 59 0.54
44 12 0.11
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (43 bp):
AAACTTTGAAAAATTTAAAATGCTCCCTTCACTAAAGGCTTCA
Found at i:7807936 original size:19 final size:19
Alignment explanation
Indices: 7807912--7807951 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
7807902 CCAATTTGAT
7807912 ATCAAATGTAATCCATCAC
1 ATCAAATGTAATCCATCAC
7807931 ATCAAATGTAATCCATCAC
1 ATCAAATGTAATCCATCAC
7807950 AT
1 AT
7807952 TTTCTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.25, G:0.05, T:0.28
Consensus pattern (19 bp):
ATCAAATGTAATCCATCAC
Found at i:7809120 original size:59 final size:59
Alignment explanation
Indices: 7809057--7809191 Score: 202
Period size: 59 Copynumber: 2.3 Consensus size: 59
7809047 TTTGTTATAA
7809057 ATTTGTTGAAATTTGTTTGGGTTATGGTTACCAATATGTTAAGTTTTTGCTAGTTATT-T
1 ATTTGTTGAAATTTGTTTGGGTTATGGTTACCAATATGTTAAGTTTTTGCTAGTT-TTAT
* * * *
7809116 ATTTG-TGAAAATTTATTTGGGTTTTGGTTACCAATTTGTTAAGTTTTTGTTAGTTTTAT
1 ATTTGTTG-AAATTTGTTTGGGTTATGGTTACCAATATGTTAAGTTTTTGCTAGTTTTAT
7809175 ATTTGTTGAAATTTGTT
1 ATTTGTTGAAATTTGTT
7809192 GTTATTTGTT
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
58 4 0.06
59 62 0.91
60 2 0.03
ACGTcount: A:0.22, C:0.04, G:0.19, T:0.55
Consensus pattern (59 bp):
ATTTGTTGAAATTTGTTTGGGTTATGGTTACCAATATGTTAAGTTTTTGCTAGTTTTAT
Found at i:7812234 original size:18 final size:19
Alignment explanation
Indices: 7812213--7812260 Score: 82
Period size: 18 Copynumber: 2.6 Consensus size: 19
7812203 CTACAAGCAT
7812213 GGATTGAAGCTATTGG-AA
1 GGATTGAAGCTATTGGAAA
7812231 GGATTGAAGCTATTGGAAA
1 GGATTGAAGCTATTGGAAA
7812250 GG-TTGAAGCTA
1 GGATTGAAGCTA
7812261 CATAAGCTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 25 0.86
19 4 0.14
ACGTcount: A:0.33, C:0.06, G:0.33, T:0.27
Consensus pattern (19 bp):
GGATTGAAGCTATTGGAAA
Found at i:7812686 original size:11 final size:11
Alignment explanation
Indices: 7812672--7812707 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
7812662 TATAGATGTT
7812672 ATGGATATTTG
1 ATGGATATTTG
*
7812683 ATGGATGTTTG
1 ATGGATATTTG
7812694 ATGGATATTTG
1 ATGGATATTTG
7812705 ATG
1 ATG
7812708 ATGTATTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (11 bp):
ATGGATATTTG
Found at i:7812716 original size:12 final size:14
Alignment explanation
Indices: 7812699--7812730 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
7812689 GTTTGATGGA
7812699 TATTTGATG-ATG-
1 TATTTGATGAATGT
7812711 TATTTGATGAATGT
1 TATTTGATGAATGT
7812725 TATTTG
1 TATTTG
7812731 GATTTGATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.50
13 3 0.17
14 6 0.33
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.53
Consensus pattern (14 bp):
TATTTGATGAATGT
Found at i:7813029 original size:20 final size:20
Alignment explanation
Indices: 7813004--7813056 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
7812994 TGCTAATGAA
*
7813004 ATTTTTATTATTATCAATGG
1 ATTTTTATTATTATCAATAG
**
7813024 ATTTTTATTATTATTGATAG
1 ATTTTTATTATTATCAATAG
*
7813044 AATTTTATTATTA
1 ATTTTTATTATTA
7813057 CTGACAGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (20 bp):
ATTTTTATTATTATCAATAG
Found at i:7817200 original size:34 final size:34
Alignment explanation
Indices: 7817174--7817242 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
7817164 ATGCTAATGC
*
7817174 AAATAATCAAATAAATTAGTACACATGAAAAATCA
1 AAATAA-CAAATAAACTAGTACACATGAAAAATCA
*
7817209 AAATAACAAATAAACTAGTACACATAAAAAATCA
1 AAATAACAAATAAACTAGTACACATGAAAAATCA
7817243 TAGGCTACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 26 0.81
35 6 0.19
ACGTcount: A:0.62, C:0.13, G:0.04, T:0.20
Consensus pattern (34 bp):
AAATAACAAATAAACTAGTACACATGAAAAATCA
Found at i:7818021 original size:22 final size:24
Alignment explanation
Indices: 7817973--7818024 Score: 72
Period size: 22 Copynumber: 2.2 Consensus size: 24
7817963 AACAAGATAT
7817973 ATCATGCAATAAATATAATAAAAAA
1 ATCATGCAATAAATAT-ATAAAAAA
*
7817998 ATCATGCAAT-AATAT-TAAATAA
1 ATCATGCAATAAATATATAAAAAA
7818020 ATCAT
1 ATCAT
7818025 ATTCATGCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 11 0.42
24 5 0.19
25 10 0.38
ACGTcount: A:0.58, C:0.10, G:0.04, T:0.29
Consensus pattern (24 bp):
ATCATGCAATAAATATATAAAAAA
Found at i:7818799 original size:7 final size:7
Alignment explanation
Indices: 7818783--7818812 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
7818773 AAAGTCCCTG
7818783 AAACAAA
1 AAACAAA
*
7818790 AAAAAAA
1 AAACAAA
7818797 AAACAAA
1 AAACAAA
7818804 AAACAAA
1 AAACAAA
7818811 AA
1 AA
7818813 TTTCCCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (7 bp):
AAACAAA
Found at i:7821285 original size:41 final size:41
Alignment explanation
Indices: 7821228--7821305 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
7821218 TTCTAACTGT
**
7821228 ATCCTAAATTAGCCAAACGTGTACCAATTTATTTTCTCTGA
1 ATCCTAAATTAGCCAAACGTGTACCAATGCATTTTCTCTGA
7821269 ATCCTAAATTAGCCAAACGTGTACCAATGCATTTTCT
1 ATCCTAAATTAGCCAAACGTGTACCAATGCATTTTCT
7821306 TCATTAATGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (41 bp):
ATCCTAAATTAGCCAAACGTGTACCAATGCATTTTCTCTGA
Found at i:7823759 original size:16 final size:18
Alignment explanation
Indices: 7823732--7823764 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7823722 AATATATGAA
7823732 AATTATAAA-TTTGATAC
1 AATTATAAATTTTGATAC
7823749 AATTA-AAATTTTGATA
1 AATTATAAATTTTGATA
7823765 AAAATTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (18 bp):
AATTATAAATTTTGATAC
Found at i:7824862 original size:3 final size:3
Alignment explanation
Indices: 7824854--7824886 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
7824844 TTTCCAGGTG
7824854 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7824887 TTACTTTCCT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:7830921 original size:12 final size:11
Alignment explanation
Indices: 7830893--7830926 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
7830883 TTTTAAATCG
7830893 TATTATTTTTA
1 TATTATTTTTA
7830904 TA-T-TTTTTA
1 TATTATTTTTA
7830913 TATTATTTTTA
1 TATTATTTTTA
7830924 TAT
1 TAT
7830927 CATATCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.38
10 2 0.10
11 11 0.52
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TATTATTTTTA
Found at i:7833363 original size:100 final size:100
Alignment explanation
Indices: 7833033--7833396 Score: 365
Period size: 102 Copynumber: 3.6 Consensus size: 100
7833023 AAGAGTCATC
* * * *
7833033 AAATCTT-TCAATAGTTTGATAAAATTTAATTCAAAATTTAAATCATCCAATAATTTAGTAAGAC
1 AAATCTTCT-AATAATTTGATAAAACTTAATTCAAAATTGAAATCCTCCAATAATTTAGTAAGA-
**
7833097 TGCAAATTTTATTATTATTTTTTACAAAAATTTTATT
64 TAAAAATTTTATTATTATTTTTTACAAAAATTTTATT
* * * * * * *
7833134 AATTTTTCCT-ATAATTTAATAAGATTTAATTCAAAATTGAAAATCCTCTAATAATTTAGTAGGA
1 AAATCTT-CTAATAATTTGATAAAACTTAATTCAAAATTG-AAATCCTCCAATAATTTAGTAAGA
** *
7833198 TTGAAATTTTCATTTTTATTTTTTACAAAAATTTTATT
64 TAAAAATTTT-ATTATTATTTTTTACAAAAATTTTATT
* * * * *
7833236 AAGTCTTCTAATAATTTGATAAGACTTAATTCAAGATTGAAATCCTCCAATAGTTTGGTAAGATA
1 AAATCTTCTAATAATTTGATAAAACTTAATTCAAAATTGAAATCCTCCAATAATTTAGTAAGAT-
** *
7833301 AAAAATTTTATTATTA-ACTTTACAAAAATTTCATT
65 AAAAATTTTATTATTATTTTTTACAAAAATTTTATT
* * * * * * * *
7833336 AAATCCTCTAATAATTTGGTAAAACTTAATTTAAGATTTAAATTCTCTAATAGTTTAGTAA
1 AAATCTTCTAATAATTTGATAAAACTTAATTCAAAATTGAAATCCTCCAATAATTTAGTAA
7833397 AAATCATAAT
Statistics
Matches: 221, Mismatches: 36, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
100 68 0.31
101 67 0.30
102 85 0.38
103 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.43
Consensus pattern (100 bp):
AAATCTTCTAATAATTTGATAAAACTTAATTCAAAATTGAAATCCTCCAATAATTTAGTAAGATA
AAAATTTTATTATTATTTTTTACAAAAATTTTATT
Found at i:7834417 original size:14 final size:14
Alignment explanation
Indices: 7834396--7834434 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
7834386 ATGTTTAGGG
7834396 TTGA-GTTGCTTCC
1 TTGAGGTTGCTTCC
7834409 TTGAGGTTGCTTCC
1 TTGAGGTTGCTTCC
* *
7834423 CTGAGATTGCTT
1 TTGAGGTTGCTT
7834435 GTTGATTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.10, C:0.21, G:0.26, T:0.44
Consensus pattern (14 bp):
TTGAGGTTGCTTCC
Found at i:7842959 original size:97 final size:101
Alignment explanation
Indices: 7842726--7842976 Score: 303
Period size: 97 Copynumber: 2.5 Consensus size: 101
7842716 TAAAAAATAG
* * * *
7842726 TCATTAAATCTTTTAATAGTTTGGTAAAATTTAATTCAAGATTTAAATTCTCCAATAGTTTAATA
1 TCATTAAATCATCTAATAATTTGGTAAAATTTAATTCAAGATTTAAATCCTCCAATAGTTTAATA
7842791 GAATTGAAAATTTTTATTATTATTTTTTACAAAAATT
66 GAATT-AAAATTTTTATTATTATTTTTTACAAAAATT
* * * * * ** *
7842828 TCATTAAGTCCTCCAATAATTTGGTAAAACTTAATTTAAGATTTAAATCCTTTAATAGTTTAGTA
1 TCATTAAATCATCTAATAATTTGGTAAAATTTAATTCAAGATTTAAATCCTCCAATAGTTTAATA
* * *
7842893 GGA-T-AAATTTTT-TTTTTA-TTTTTATAAAAATT
66 GAATTAAAATTTTTATTATTATTTTTTACAAAAATT
* * *
7842925 TTATTAAATCATCTAATAATTTGATAAGATTTAATTCAAGATTTAAATCCTC
1 TCATTAAATCATCTAATAATTTGGTAAAATTTAATTCAAGATTTAAATCCTC
7842977 AAACAATTTG
Statistics
Matches: 126, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
97 56 0.44
98 5 0.04
99 8 0.06
101 1 0.01
102 56 0.44
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.46
Consensus pattern (101 bp):
TCATTAAATCATCTAATAATTTGGTAAAATTTAATTCAAGATTTAAATCCTCCAATAGTTTAATA
GAATTAAAATTTTTATTATTATTTTTTACAAAAATT
Found at i:7843127 original size:4 final size:4
Alignment explanation
Indices: 7843118--7843161 Score: 52
Period size: 4 Copynumber: 10.0 Consensus size: 4
7843108 ATCTATAATC
7843118 AAAT AAAT AATAT ACAAT AACAT AAAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AA-AT A-AAT AA-AT -AAAT AAAT AAAT AAAT AAAT
7843162 CAATTATTGG
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
4 23 0.64
5 10 0.28
6 3 0.08
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:7844481 original size:6 final size:6
Alignment explanation
Indices: 7844432--7844483 Score: 59
Period size: 6 Copynumber: 8.5 Consensus size: 6
7844422 TGACCTATTC
* * * *
7844432 TAAAAA TAAAAT TAGAAT TAAAAT TAAAAC TAAAACT AAAAAT TAAAAT
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAA-T TAAAAT TAAAAT
7844481 TAA
1 TAA
7844484 GGTTAAAATC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
6 34 0.89
7 4 0.11
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (6 bp):
TAAAAT
Found at i:7847040 original size:82 final size:82
Alignment explanation
Indices: 7846903--7847066 Score: 265
Period size: 82 Copynumber: 2.0 Consensus size: 82
7846893 TTAAAGATAC
* * *
7846903 CACTTCAATAATTAGAGGCTAGGATACCAACATACGGTACTCCAATAATAATTCAATATGAAACA
1 CACTTCAATAATTAGAGGCTAGGATACCAACATACGATACCCCAATAACAATTCAATATGAAACA
7846968 CTCTCAAGCAAAAAATT
66 CTCTCAAGCAAAAAATT
* * *
7846985 CACTTGAATAATTAGAGGCTAGGATACCAACATATGATACCCCAATAACACTTCAATATGAAACA
1 CACTTCAATAATTAGAGGCTAGGATACCAACATACGATACCCCAATAACAATTCAATATGAAACA
*
7847050 CTCTCAAGTAAAAAATT
66 CTCTCAAGCAAAAAATT
7847067 ATATCGAAAG
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 75 1.00
ACGTcount: A:0.44, C:0.21, G:0.11, T:0.24
Consensus pattern (82 bp):
CACTTCAATAATTAGAGGCTAGGATACCAACATACGATACCCCAATAACAATTCAATATGAAACA
CTCTCAAGCAAAAAATT
Done.