Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 116 of 153
Found at i:36337412 original size:21 final size:18
Alignment explanation
Indices: 36337371--36337444 Score: 67
Period size: 19 Copynumber: 3.9 Consensus size: 18
36337361 ATTTTATTAC
36337371 TTTTATAATTTTATATTT
1 TTTTATAATTTTATATTT
36337389 TTTTATAATATTTATAAGTTT
1 TTTTATAAT-TTTAT-A-TTT
* * *
36337410 TTTTATGATTTTTTATAAT
1 TTTTATAATTTTATAT-TT
* *
36337429 TATTATAAGTTTATAT
1 TTTTATAATTTTATAT
36337445 CAATTTCAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
18 10 0.22
19 19 0.42
20 5 0.11
21 11 0.24
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (18 bp):
TTTTATAATTTTATATTT
Found at i:36337422 original size:31 final size:31
Alignment explanation
Indices: 36337379--36337440 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
36337369 ACTTTTATAA
36337379 TTTTATATTTTTTTATAA-TATTTATAAGTTT
1 TTTTATATTTTTTTATAATTA-TTATAAGTTT
36337410 TTTTATGA-TTTTTTATAATTATTATAAGTTT
1 TTTTAT-ATTTTTTTATAATTATTATAAGTTT
36337441 ATATCAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 26 0.90
32 3 0.10
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (31 bp):
TTTTATATTTTTTTATAATTATTATAAGTTT
Found at i:36337502 original size:22 final size:21
Alignment explanation
Indices: 36337453--36337513 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
36337443 ATCAATTTCA
* *
36337453 ATATTTTTTAAATTGTTAATG
1 ATATTTTTTATATTTTTAATG
36337474 ATATTTTTCT-TATTTTTAATG
1 ATATTTTT-TATATTTTTAATG
36337495 ATATTTTTTTATATTTTTA
1 ATA-TTTTTTATATTTTTA
36337514 TATGTTTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 21 0.60
22 14 0.40
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (21 bp):
ATATTTTTTATATTTTTAATG
Found at i:36337658 original size:16 final size:17
Alignment explanation
Indices: 36337569--36337683 Score: 67
Period size: 19 Copynumber: 6.4 Consensus size: 17
36337559 TTTATATTTT
36337569 TTTTTATAATTTATTAGAT-
1 TTTTTATAA-TT-TTA-ATA
36337588 TTTTTA-AATATTTAAGTTA
1 TTTTTATAAT-TTTAA--TA
36337607 TTTTTATAATATTT-ATAA
1 TTTTTATAAT-TTTAAT-A
*
36337625 GTTTCTATAAATTTTAATA
1 -TTTTTAT-AATTTTAATA
*
36337644 TTTTTATTA-TTTAATA
1 TTTTTATAATTTTAATA
* *
36337660 ATTTAATAATTTTAATGA
1 TTTTTATAATTTTAAT-A
36337678 TTTTTA
1 TTTTTA
36337684 ATAAAATTTT
Statistics
Matches: 77, Mismatches: 8, Indels: 23
0.71 0.07 0.21
Matches are distributed among these distances:
16 14 0.18
17 12 0.16
18 16 0.21
19 23 0.30
20 12 0.16
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (17 bp):
TTTTTATAATTTTAATA
Found at i:36337674 original size:9 final size:9
Alignment explanation
Indices: 36337634--36337687 Score: 51
Period size: 8 Copynumber: 6.2 Consensus size: 9
36337624 AGTTTCTATA
36337634 AATTTTAAT
1 AATTTTAAT
*
36337643 -ATTTTTAT
1 AATTTTAAT
*
36337651 TA-TTTAAT
1 AATTTTAAT
36337659 AA-TTTAAT
1 AATTTTAAT
36337667 AATTTTAAT
1 AATTTTAAT
*
36337676 GATTTTTAAT
1 -AATTTTAAT
36337686 AA
1 AA
36337688 AATTTTTATG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
8 21 0.57
9 8 0.22
10 8 0.22
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (9 bp):
AATTTTAAT
Found at i:36337685 original size:16 final size:15
Alignment explanation
Indices: 36337634--36337685 Score: 50
Period size: 17 Copynumber: 3.2 Consensus size: 15
36337624 AGTTTCTATA
36337634 AATTTTAATATTTTT
1 AATTTTAATATTTTT
* *
36337649 ATTATTTAATAATTTAAT
1 AAT-TTTAAT-ATTT-TT
36337667 AATTTTAATGATTTTT
1 AATTTTAAT-ATTTTT
36337683 AAT
1 AAT
36337686 AAAATTTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
15 2 0.07
16 10 0.34
17 14 0.48
18 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (15 bp):
AATTTTAATATTTTT
Found at i:36337685 original size:19 final size:19
Alignment explanation
Indices: 36337634--36337717 Score: 70
Period size: 21 Copynumber: 4.6 Consensus size: 19
36337624 AGTTTCTATA
36337634 AATTTTAAT-ATTTTT-AT
1 AATTTTAATGATTTTTAAT
* *
36337651 TA-TTTAAT-A-ATTTAAT
1 AATTTTAATGATTTTTAAT
36337667 AATTTTAATGATTTTTAAT
1 AATTTTAATGATTTTTAAT
*
36337686 AAAATTTTTATGATTTTTAAT
1 --AATTTTAATGATTTTTAAT
* *
36337707 AGTTTTTATGA
1 AATTTTAATGA
36337718 GAAAATATTA
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
15 3 0.05
16 10 0.18
17 7 0.13
18 1 0.02
19 16 0.29
21 18 0.33
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
AATTTTAATGATTTTTAAT
Found at i:36337693 original size:21 final size:21
Alignment explanation
Indices: 36337667--36337707 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
36337657 ATAATTTAAT
36337667 AATTTTAATGATTTTTAATAA
1 AATTTTAATGATTTTTAATAA
*
36337688 AATTTTTATGATTTTTAATA
1 AATTTTAATGATTTTTAATA
36337708 GTTTTTATGA
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:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
AATTTTAATGATTTTTAATAA
Found at i:36339669 original size:43 final size:44
Alignment explanation
Indices: 36339622--36339748 Score: 159
Period size: 45 Copynumber: 2.9 Consensus size: 44
36339612 TATATGGCAA
36339622 CTTGTCTG-CAAAATTGGTGGTTTATCCACAACCTACATGATAG
1 CTTGTCTGTCAAAATTGGTGGTTTATCCACAACCTACATGATAG
* * * **
36339665 CTTGTCTGTGAATATTGGTTGCTTCGTCCACAACCTACATGATAG
1 CTTGTCTGTCAAAATTGG-TGGTTTATCCACAACCTACATGATAG
* * *
36339710 CTTGTTTGTC-AATTTGTTGGTTTATCCACAACCTACATG
1 CTTGTCTGTCAAAATTGGTGGTTTATCCACAACCTACATG
36339749 GTAGTTTACT
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
43 27 0.39
44 11 0.16
45 31 0.45
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (44 bp):
CTTGTCTGTCAAAATTGGTGGTTTATCCACAACCTACATGATAG
Found at i:36339701 original size:88 final size:89
Alignment explanation
Indices: 36339585--36339748 Score: 215
Period size: 88 Copynumber: 1.9 Consensus size: 89
36339575 TTGCAAGGAG
* * *
36339585 GAATAATTGGTGGCTTCGCCCATAACCTATATGGCAACTTGTCTG-CAAAATTGGTGGTTTATCC
1 GAATAATTGGTGGCTTCGCCCACAACCTACATGACAACTTGTCTGTC-AAATTGGTGGTTTATCC
36339649 ACAACCTACATGATAGCTTGTCTGT
65 ACAACCTACATGATAGCTTGTCTGT
* * * * * * *
36339674 GAAT-ATTGGTTGCTTCGTCCACAACCTACATGATAGCTTGTTTGTCAATTTGTTGGTTTATCCA
1 GAATAATTGGTGGCTTCGCCCACAACCTACATGACAACTTGTCTGTCAAATTGGTGGTTTATCCA
36339738 CAACCTACATG
66 CAACCTACATG
36339749 GTAGTTTACT
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
88 59 0.92
89 5 0.08
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (89 bp):
GAATAATTGGTGGCTTCGCCCACAACCTACATGACAACTTGTCTGTCAAATTGGTGGTTTATCCA
CAACCTACATGATAGCTTGTCTGT
Found at i:36341147 original size:10 final size:10
Alignment explanation
Indices: 36341132--36341230 Score: 75
Period size: 10 Copynumber: 10.2 Consensus size: 10
36341122 AAAATAAAAG
36341132 AAATTATAAA
1 AAATTATAAA
36341142 AAATTAT--A
1 AAATTATAAA
*
36341150 AAATTAT-TA
1 AAATTATAAA
36341159 AAATATATAAA
1 AAAT-TATAAA
*
36341170 AAA-TATAATT
1 AAATTATAA-A
*
36341180 AAATTGATAGA
1 AAATT-ATAAA
*
36341191 AAGTTAT-AA
1 AAATTATAAA
36341200 AAATTATAAA
1 AAATTATAAA
*
36341210 AAATAAT-AA
1 AAATTATAAA
*
36341219 ATATTATAAA
1 AAATTATAAA
36341229 AA
1 AA
36341231 TCAAATTAAT
Statistics
Matches: 70, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
8 8 0.11
9 24 0.34
10 26 0.37
11 9 0.13
12 3 0.04
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (10 bp):
AAATTATAAA
Found at i:36341152 original size:9 final size:9
Alignment explanation
Indices: 36341132--36341231 Score: 85
Period size: 9 Copynumber: 10.4 Consensus size: 9
36341122 AAAATAAAAG
36341132 AAATTATAAA
1 AAATTAT-AA
36341142 AAATTAT-A
1 AAATTATAA
*
36341150 AAATTATTA
1 AAATTATAA
36341159 AAATATATAA
1 AAAT-TATAA
*
36341169 AAAATATAA
1 AAATTATAA
36341178 TTAAATTGATAGA
1 --AAATT-ATA-A
*
36341191 AAGTTATAA
1 AAATTATAA
36341200 AAATTATAAA
1 AAATTAT-AA
*
36341210 AAATAATAA
1 AAATTATAA
*
36341219 ATATTATAA
1 AAATTATAA
36341228 AAAT
1 AAAT
36341232 CAAATTAATT
Statistics
Matches: 74, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
8 8 0.11
9 29 0.39
10 25 0.34
11 8 0.11
12 3 0.04
13 1 0.01
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (9 bp):
AAATTATAA
Found at i:36341171 original size:19 final size:19
Alignment explanation
Indices: 36341132--36341231 Score: 50
Period size: 19 Copynumber: 5.2 Consensus size: 19
36341122 AAAATAAAAG
*
36341132 AAATTA-TAAAAAAT-TATA
1 AAATTATTAAAATATATA-A
36341150 AAATTATTAAAATATATAAA
1 AAATTATTAAAATATAT-AA
36341170 AAATATAATT-AAAT-TGATAGA
1 AAAT-T-ATTAAAATAT-ATA-A
* *
36341191 AAGTTATAAAAAT-TATAA
1 AAATTATTAAAATATATAA
* *
36341209 AAAATAAT-AAATATTATAA
1 AAATTATTAAAATA-TATAA
36341228 AAAT
1 AAAT
36341232 CAAATTAATT
Statistics
Matches: 64, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
17 4 0.06
18 11 0.17
19 20 0.31
20 14 0.22
21 12 0.19
22 3 0.05
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
AAATTATTAAAATATATAA
Found at i:36341231 original size:58 final size:58
Alignment explanation
Indices: 36341130--36341239 Score: 138
Period size: 58 Copynumber: 1.9 Consensus size: 58
36341120 ATAAAATAAA
* *
36341130 AGAAATTATAAAAAATTATAAAATTATTAAAATATATAAAAAAT-ATAATTAAATTGAT
1 AGAAATTATAAAAAATTATAAAAATAATAAAATATATAAAAAATCA-AATTAAATTGAT
36341188 AGAAAGTTAT-AAAAATTATAAAAAATAAT-AAATAT-TATAAAAATCAAATTAA
1 AGAAA-TTATAAAAAATTAT-AAAAATAATAAAATATATA-AAAAATCAAATTAA
36341240 TTCTAATAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
57 2 0.04
58 32 0.70
59 12 0.26
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.32
Consensus pattern (58 bp):
AGAAATTATAAAAAATTATAAAAATAATAAAATATATAAAAAATCAAATTAAATTGAT
Found at i:36341310 original size:21 final size:21
Alignment explanation
Indices: 36341286--36341331 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
36341276 AAACATATTT
36341286 AAAA-TCTTATAAAAGCGTATA
1 AAAATTCTT-TAAAAGCGTATA
* *
36341307 AAAATTCTTTAAAATCTTATA
1 AAAATTCTTTAAAAGCGTATA
36341328 AAAA
1 AAAA
36341332 GTTCAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (21 bp):
AAAATTCTTTAAAAGCGTATA
Found at i:36341521 original size:17 final size:18
Alignment explanation
Indices: 36341494--36341531 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
36341484 GTTTGAATCG
36341494 TTTTTACTTTTTTAATAT
1 TTTTTACTTTTTTAATAT
*
36341512 TTTTTA-TTTTTTAATGT
1 TTTTTACTTTTTTAATAT
36341529 TTT
1 TTT
36341532 ATTTAATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (18 bp):
TTTTTACTTTTTTAATAT
Found at i:36342061 original size:43 final size:43
Alignment explanation
Indices: 36341996--36342093 Score: 160
Period size: 43 Copynumber: 2.3 Consensus size: 43
36341986 TGCAGGGAAC
* * *
36341996 ACACGCCCGTATGGTCAGGCCATGTGGCTCACACGGCCAATAA
1 ACACGCCTGTGTGGTCAAGCCATGTGGCTCACACGGCCAATAA
*
36342039 ACACGCCTGTGTGGTCAAGCCATGTGGCTTACACGGCCAATAA
1 ACACGCCTGTGTGGTCAAGCCATGTGGCTCACACGGCCAATAA
36342082 ACACGCCTGTGT
1 ACACGCCTGTGT
36342094 TTCAAGTCGT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.19
Consensus pattern (43 bp):
ACACGCCTGTGTGGTCAAGCCATGTGGCTCACACGGCCAATAA
Found at i:36343441 original size:26 final size:26
Alignment explanation
Indices: 36343379--36343464 Score: 102
Period size: 26 Copynumber: 3.3 Consensus size: 26
36343369 GGTAACTCCG
* **
36343379 AAGAGCCATTAATCAAGAAGCTC-TG
1 AAGAGCCATTAATCAGGAAGCTCACA
* *
36343404 GAGAGCCATTAATCAGGAAGCTTACA
1 AAGAGCCATTAATCAGGAAGCTCACA
* *
36343430 AAGAGCCTTTAATCGGGAAGCTCACA
1 AAGAGCCATTAATCAGGAAGCTCACA
36343456 AAGAGCCAT
1 AAGAGCCAT
36343465 ATATCGGGAC
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 20 0.40
26 30 0.60
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (26 bp):
AAGAGCCATTAATCAGGAAGCTCACA
Found at i:36343951 original size:21 final size:21
Alignment explanation
Indices: 36343927--36343969 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
36343917 GAATTTAATA
* *
36343927 TCAATTTAATATAATTCATAT
1 TCAATTCAATACAATTCATAT
*
36343948 TCAATTCAATCCAATTCATAT
1 TCAATTCAATACAATTCATAT
36343969 T
1 T
36343970 TTAAAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (21 bp):
TCAATTCAATACAATTCATAT
Found at i:36345422 original size:21 final size:21
Alignment explanation
Indices: 36345398--36345460 Score: 69
Period size: 19 Copynumber: 3.1 Consensus size: 21
36345388 GTTTTGATGA
36345398 TTTATTATATATTTATAATTT
1 TTTATTATATATTTATAATTT
* *
36345419 TTTA-CA-ATACTTATAATTT
1 TTTATTATATATTTATAATTT
*
36345438 TTTATTAT-TTTATTATAATTT
1 TTTATTATATAT-TTATAATTT
36345459 TT
1 TT
36345461 ATAAGTTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 16 0.47
20 3 0.09
21 15 0.44
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTATTATATATTTATAATTT
Found at i:36345462 original size:9 final size:9
Alignment explanation
Indices: 36345241--36345711 Score: 74
Period size: 10 Copynumber: 49.7 Consensus size: 9
36345231 ATTTTTAATG
*
36345241 TTTTTATGA
1 TTTTTATAA
*
36345250 TCTTTATAAA
1 TTTTTAT-AA
36345260 TTTTTTAGTAA
1 -TTTTTA-TAA
**
36345271 TTTGGATAA
1 TTTTTATAA
*
36345280 TATCTTATAA
1 T-TTTTATAA
*
36345290 TTTATTAGAA
1 TTT-TTATAA
36345300 TTTATTAT-A
1 TTT-TTATAA
36345309 TTATTTAT-A
1 TT-TTTATAA
36345318 TGTTTTAATGAA
1 T-TTTT-AT-AA
36345330 TTTTTATAA
1 TTTTTATAA
36345339 GTTTTTATAAAA
1 -TTTTTAT--AA
*
36345351 TTTTAAATATA
1 TTTT-TATA-A
36345362 TTTTT-TAA
1 TTTTTATAA
36345370 TATTTT-TAA
1 T-TTTTATAA
* *
36345379 TTTTCAATAG
1 TTTT-TATAA
* *
36345389 TTTTGATGA
1 TTTTTATAA
36345398 TTTATTAT-A
1 TTT-TTATAA
*
36345407 TATTTATAA
1 TTTTTATAA
*
36345416 TTTTTTACAA
1 -TTTTTATAA
**
36345426 TACTTATAA
1 TTTTTATAA
*
36345435 TTTTTTATTAT
1 -TTTTTA-TAA
36345446 TTTATTATAA
1 TTT-TTATAA
36345456 TTTTTATAA
1 TTTTTATAA
* *
36345465 GTTTATACCAA
1 -TTTTTA-TAA
***
36345476 TTCCAAT-A
1 TTTTTATAA
36345484 TTTTT-TAA
1 TTTTTATAA
* *
36345492 TTTTCAATAG
1 TTTT-TATAA
* *
36345502 TTTTAATGATT
1 TTTTTAT-A-A
36345513 TTTTTATAA
1 TTTTTATAA
* *
36345522 GTTATTAAGAA
1 -TT-TTTATAA
* *
36345533 TTTGTATATG
1 TTTTTATA-A
*
36345543 TTTTTAAAA
1 TTTTTATAA
** *
36345552 AATTTAAAA
1 TTTTTATAA
36345561 TATTTTGAT--
1 T-TTTT-ATAA
36345570 TTATTTATAAA
1 TT-TTTAT-AA
*
36345581 TTTATTA-GA
1 TTT-TTATAA
36345590 TTTTTAT-A
1 TTTTTATAA
36345598 TTTTTATAA
1 TTTTTATAA
* * *
36345607 TATATATGAG
1 TTTTTAT-AA
*
36345617 TTATTAT--
1 TTTTTATAA
36345624 TTTTTATAA
1 TTTTTATAA
*
36345633 TTTTAAT-A
1 TTTTTATAA
* *
36345641 -TTTAATGA
1 TTTTTATAA
36345649 TTTGTT-TATA
1 TTT-TTATA-A
* *
36345659 TTTTTTTTA
1 TTTTTATAA
36345668 TTTTTATAA
1 TTTTTATAA
36345677 TTTTTAATAA
1 TTTTT-ATAA
36345687 TTTTTATAA
1 TTTTTATAA
*
36345696 TTTTTTATGA
1 -TTTTTATAA
36345706 TTTTTA
1 TTTTTA
36345712 ATGTAAAAAT
Statistics
Matches: 337, Mismatches: 72, Indels: 106
0.65 0.14 0.21
Matches are distributed among these distances:
7 13 0.04
8 33 0.10
9 117 0.35
10 123 0.36
11 44 0.13
12 7 0.02
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:36345681 original size:19 final size:19
Alignment explanation
Indices: 36345653--36345711 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
36345643 TAATGATTTG
*
36345653 TTTAT-ATTTTTT-TTATT
1 TTTATAATTTTTTATAATT
*
36345670 TTTATAATTTTTAATAATT
1 TTTATAATTTTTTATAATT
*
36345689 TTTATAATTTTTTATGATT
1 TTTATAATTTTTTATAATT
36345708 TTTA
1 TTTA
36345712 ATGTAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
17 5 0.14
18 6 0.17
19 25 0.69
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTATAATTTTTTATAATT
Found at i:36346391 original size:9 final size:9
Alignment explanation
Indices: 36346340--36346402 Score: 51
Period size: 9 Copynumber: 7.0 Consensus size: 9
36346330 TTGAAAAAGC
36346340 TTAA-AAAA
1 TTAATAAAA
*
36346348 TT-ATAGAA
1 TTAATAAAA
36346356 TATAAT-AAA
1 T-TAATAAAA
*
36346365 TATAATAAAT
1 T-TAATAAAA
36346375 TCTAATAAAA
1 T-TAATAAAA
*
36346385 TTTATAAAA
1 TTAATAAAA
36346394 TTAATAAAA
1 TTAATAAAA
36346403 CATGTTAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
7 1 0.02
8 6 0.14
9 24 0.55
10 13 0.30
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (9 bp):
TTAATAAAA
Found at i:36346476 original size:29 final size:30
Alignment explanation
Indices: 36346422--36346538 Score: 105
Period size: 28 Copynumber: 3.9 Consensus size: 30
36346412 ATATAAATTT
* *
36346422 TATAATAATGTATAAAAATTCTTAAAAAAACA
1 TATAAAAAT-TATAAAAA-TCATAAAAAAACA
* *
36346454 TATAAAAATCATAAAAAT-ATAAAAAAATA
1 TATAAAAATTATAAAAATCATAAAAAAACA
* * * *
36346483 T-TTAAAATTATTAAAATCA-ATATAAACA
1 TATAAAAATTATAAAAATCATAAAAAAACA
*
36346511 TATAGAAATTATAAAAAATCATAAAAAA
1 TATAAAAATTAT-AAAAATCATAAAAAA
36346539 CTTGAATCGA
Statistics
Matches: 66, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
28 20 0.30
29 19 0.29
30 8 0.12
31 11 0.17
32 8 0.12
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (30 bp):
TATAAAAATTATAAAAATCATAAAAAAACA
Found at i:36348211 original size:17 final size:17
Alignment explanation
Indices: 36348191--36348232 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
36348181 AAAACTTTCA
36348191 AAAAAATAAAATAAAA-T
1 AAAAAATAAAA-AAAATT
*
36348208 AAAAATTAAAAAAAATT
1 AAAAAATAAAAAAAATT
36348225 AAAAAATA
1 AAAAAATA
36348233 GTATGAGCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAAAATAAAAAAAATT
Found at i:36352192 original size:14 final size:14
Alignment explanation
Indices: 36352173--36352206 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
36352163 TTGTTTGACT
*
36352173 GAAAATAGTTTCCG
1 GAAAATAATTTCCG
*
36352187 GAAAATAATTTCTG
1 GAAAATAATTTCCG
36352201 GAAAAT
1 GAAAAT
36352207 GACTTACTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.09, G:0.18, T:0.29
Consensus pattern (14 bp):
GAAAATAATTTCCG
Found at i:36355020 original size:25 final size:25
Alignment explanation
Indices: 36354986--36355036 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
36354976 AATGAGTCAA
*
36354986 TTGACACCACTATAAAAAAATTTTG
1 TTGACACCACTATAAAAAAAATTTG
36355011 TTGACACCACTATAAAAAAAATTTG
1 TTGACACCACTATAAAAAAAATTTG
36355036 T
1 T
36355037 ATTCGTATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (25 bp):
TTGACACCACTATAAAAAAAATTTG
Found at i:36359480 original size:43 final size:43
Alignment explanation
Indices: 36359416--36359653 Score: 352
Period size: 43 Copynumber: 5.5 Consensus size: 43
36359406 AAGTTCGGTT
* *
36359416 TAATGTAA-TGGCACTAAGTGTGCGATATAATTATAGCTTCCGC
1 TAAT-TAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
* * *
36359459 TAATTAATTGGCACTAAGTGTGCGATATAATTATAGATTTGGC
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
36359502 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
*
36359545 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGT
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
* * * **
36359588 TAATTAATTGGCACTAAGTGTGCGAAACCATTATAACTTCGAT
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
*
36359631 TAATTAATTAGCACTAAGTGTGC
1 TAATTAATTGGCACTAAGTGTGC
36359654 AAGTTTGTTG
Statistics
Matches: 182, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
42 3 0.02
43 179 0.98
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (43 bp):
TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
Found at i:36359885 original size:45 final size:45
Alignment explanation
Indices: 36359821--36359943 Score: 141
Period size: 45 Copynumber: 2.8 Consensus size: 45
36359811 GGGGAAATAT
*
36359821 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGTCGGTGAGAT-A
1 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGTCGGTGAAATGA
36359865 CTATTCGGGCTTTCGAGCCTAGCAGGCTATAATG-CTGGTGAAATGA
1 -TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGTC-GGTGAAATGA
* * *
36359911 TA-TCGGGC-CTCGAGCCTAGTAGGCGA-AATGTCG
1 TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGTCG
36359944 ATGATTTGAG
Statistics
Matches: 70, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
42 5 0.07
43 16 0.23
44 11 0.16
45 37 0.53
46 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (45 bp):
TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGTCGGTGAAATGA
Found at i:36362512 original size:31 final size:31
Alignment explanation
Indices: 36362453--36362512 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
36362443 TATACATGAA
*
36362453 ATATATGGAAATGATGGTACATGATATATTG
1 ATATATGGAAATGATGATACATGATATATTG
* *
36362484 ATATATTGAAATGGATGATATATG-TATAT
1 ATATATGGAAAT-GATGATACATGATATAT
36362513 GATGAAACGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 16 0.64
32 9 0.36
ACGTcount: A:0.40, C:0.02, G:0.20, T:0.38
Consensus pattern (31 bp):
ATATATGGAAATGATGATACATGATATATTG
Found at i:36371165 original size:18 final size:18
Alignment explanation
Indices: 36371131--36371165 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36371121 AAATAAACAC
**
36371131 ATAATTATTCATTTAATT
1 ATAATTATTCAAATAATT
36371149 ATAATTATTCAAATAAT
1 ATAATTATTCAAATAAT
36371166 ATTATTTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (18 bp):
ATAATTATTCAAATAATT
Found at i:36375862 original size:18 final size:18
Alignment explanation
Indices: 36375828--36375862 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36375818 AAATAAACAC
**
36375828 ATAATTATTCATTTAATT
1 ATAATTATTCAAATAATT
36375846 ATAATTATTCAAATAAT
1 ATAATTATTCAAATAAT
36375863 ATTATTTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (18 bp):
ATAATTATTCAAATAATT
Found at i:36385439 original size:10 final size:10
Alignment explanation
Indices: 36385413--36385450 Score: 53
Period size: 9 Copynumber: 4.0 Consensus size: 10
36385403 TGTTACTTTC
36385413 TATTATTTTT
1 TATTATTTTT
36385423 T-TTATTTTT
1 TATTATTTTT
*
36385432 TA-TAATTTT
1 TATTATTTTT
36385441 TATTATTTTT
1 TATTATTTTT
36385451 GTCTTCTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 17 0.71
10 7 0.29
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TATTATTTTT
Found at i:36387378 original size:14 final size:15
Alignment explanation
Indices: 36387359--36387387 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
36387349 AACTGTTTTA
36387359 AATTAAACTA-TTTG
1 AATTAAACTACTTTG
36387373 AATTAAACTACTTTG
1 AATTAAACTACTTTG
36387388 TGTTGAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (15 bp):
AATTAAACTACTTTG
Found at i:36390866 original size:17 final size:17
Alignment explanation
Indices: 36390828--36390889 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
36390818 TATTTTCTCG
*
36390828 TAAAAATTAAAAAATATAT
1 TAAAAA-TATAAAAT-TAT
36390847 TAAAAATATAAAATTAT
1 TAAAAATATAAAATTAT
*
36390864 TAAAAAT-TGGAAA-TAT
1 TAAAAATAT-AAAATTAT
36390880 TAAAAATATA
1 TAAAAATATA
36390890 TATTAAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
16 11 0.29
17 14 0.37
18 7 0.18
19 6 0.16
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
TAAAAATATAAAATTAT
Found at i:36390928 original size:15 final size:15
Alignment explanation
Indices: 36390908--36390937 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
36390898 TTGTTATAAG
36390908 AGTTAGCCTTTGGTA
1 AGTTAGCCTTTGGTA
36390923 AGTTAGCCTTTGGTA
1 AGTTAGCCTTTGGTA
36390938 CATTGACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.40
Consensus pattern (15 bp):
AGTTAGCCTTTGGTA
Found at i:36391026 original size:15 final size:16
Alignment explanation
Indices: 36390997--36391029 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
36390987 CATGTGTCTC
36390997 TATTTTTTAAGTATTT
1 TATTTTTTAAGTATTT
36391013 TATTTTTTAA-TATTT
1 TATTTTTTAAGTATTT
36391028 TA
1 TA
36391030 CTATACCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TATTTTTTAAGTATTT
Found at i:36391156 original size:24 final size:24
Alignment explanation
Indices: 36391119--36391173 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 24
36391109 TTTTATTTTG
36391119 ATATAAACTTATAAAAATTATTAAAA
1 ATAT-AACTTATAAAAATTA-TAAAA
*
36391145 A-ATAACTTATAAATATTATAAAA
1 ATATAACTTATAAAAATTATAAAA
36391168 ATATAA
1 ATATAA
36391174 AAATAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 6 0.22
24 18 0.67
25 2 0.07
26 1 0.04
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (24 bp):
ATATAACTTATAAAAATTATAAAA
Found at i:36406097 original size:44 final size:44
Alignment explanation
Indices: 36406042--36406437 Score: 639
Period size: 44 Copynumber: 9.0 Consensus size: 44
36406032 GTAGATCACT
* *
36406042 GATAGCAGATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCTAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
*
36406086 GATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
*
36406130 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGTAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * *
36406174 GACAGCAGATTTGGTGTCTCTGTGTTGTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
36406218 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * *
36406262 AATAGCAGATTTGGCGTCTCTTTATTGTTAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* *
36406306 GACAGCAGATTTGGCGTCTCTGTGTTGTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * * *
36406350 GATAGCAGATTTGGCGTATCTGTATTTTCATAGAGCAAATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
*
36406394 GATAGTAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
36406438 CATTTCGGCT
Statistics
Matches: 321, Mismatches: 31, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 321 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (44 bp):
GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
Found at i:36408178 original size:15 final size:15
Alignment explanation
Indices: 36408132--36408182 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
36408122 ATGGAAATTA
*
36408132 TTATATTATATCATTT
1 TTATTTTATATCA-TT
36408148 TTATTACTTAT-T-ATT
1 TTATT--TTATATCATT
36408163 TTATTTTATATCATT
1 TTATTTTATATCATT
36408178 TTATT
1 TTATT
36408183 ATTAACTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
13 4 0.13
14 1 0.03
15 15 0.50
16 5 0.17
17 1 0.03
18 4 0.13
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATTTTATATCATT
Found at i:36408195 original size:29 final size:31
Alignment explanation
Indices: 36408132--36408193 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
36408122 ATGGAAATTA
* *
36408132 TTATATTATATCATTTTTATTACTTATTATT
1 TTATTTTATATCATTTTTATTACTTACTATT
36408163 TTATTTTATATCA-TTTTATTA-TTAACTATT
1 TTATTTTATATCATTTTTATTACTT-ACTATT
36408193 T
1 T
36408194 ATTATGTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 2 0.07
30 14 0.50
31 12 0.43
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (31 bp):
TTATTTTATATCATTTTTATTACTTACTATT
Found at i:36409992 original size:29 final size:29
Alignment explanation
Indices: 36409960--36410043 Score: 105
Period size: 29 Copynumber: 2.9 Consensus size: 29
36409950 AGCGAACATG
* *
36409960 TATGTGCGAACCTTAGGTGAGTGAACCCC
1 TATGTGCGAACCATAGGTGAGCGAACCCC
* * *
36409989 TATGGGCGAACCCTAAGTGAGCGAACCCC
1 TATGTGCGAACCATAGGTGAGCGAACCCC
* *
36410018 TATGTGTGAACCATAGGTGTGCGAAC
1 TATGTGCGAACCATAGGTGAGCGAAC
36410044 TCTTAGGTGC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (29 bp):
TATGTGCGAACCATAGGTGAGCGAACCCC
Found at i:36410129 original size:22 final size:23
Alignment explanation
Indices: 36410104--36410152 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
36410094 TATTACATGC
36410104 GAACCCTA-GGATTAT-GCTATGT
1 GAACCCTATGGATTATAG-TATGT
* *
36410126 GAACCTTATGGATTGTAGTATGT
1 GAACCCTATGGATTATAGTATGT
36410149 GAAC
1 GAAC
36410153 ACTGTATGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 7 0.30
23 15 0.65
24 1 0.04
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (23 bp):
GAACCCTATGGATTATAGTATGT
Found at i:36410336 original size:22 final size:21
Alignment explanation
Indices: 36410297--36410341 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
36410287 ACTTGTGAAT
*
36410297 CCTGAAAAAATATGATGCGAA
1 CCTGAAAAAATATGATGCAAA
* *
36410318 CCTGAGAAAAATTTTATGCAAA
1 CCTGA-AAAAATATGATGCAAA
36410340 CC
1 CC
36410342 ATATATGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (21 bp):
CCTGAAAAAATATGATGCAAA
Found at i:36411007 original size:6 final size:6
Alignment explanation
Indices: 36410996--36411035 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
36410986 TAAAACATTA
* * *
36410996 ATTTGC ATTTGC ATTTAC ATTTAC ATTTGC GTTTGC ATTT
1 ATTTGC ATTTGC ATTTGC ATTTGC ATTTGC ATTTGC ATTT
36411036 CATCATATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.20, C:0.15, G:0.12, T:0.53
Consensus pattern (6 bp):
ATTTGC
Found at i:36411780 original size:31 final size:31
Alignment explanation
Indices: 36411745--36411812 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
36411735 CACTCTCAAA
36411745 ACAATTACCAAATCATAGATAAACCATAAAT
1 ACAATTACCAAATCATAGATAAACCATAAAT
36411776 ACAATTACCAAATCATAGATAAACCATAAAT
1 ACAATTACCAAATCATAGATAAACCATAAAT
36411807 A-AATTA
1 ACAATTA
36411813 TCTTAAACAG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 5 0.14
31 32 0.86
ACGTcount: A:0.56, C:0.18, G:0.03, T:0.24
Consensus pattern (31 bp):
ACAATTACCAAATCATAGATAAACCATAAAT
Found at i:36414114 original size:13 final size:13
Alignment explanation
Indices: 36414096--36414123 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
36414086 TCCTTACTGT
36414096 TGAATTTAACATA
1 TGAATTTAACATA
36414109 TGAATTTAACATA
1 TGAATTTAACATA
36414122 TG
1 TG
36414124 CAATCATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (13 bp):
TGAATTTAACATA
Found at i:36415645 original size:20 final size:20
Alignment explanation
Indices: 36415622--36415660 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
36415612 CTTAAATGGC
*
36415622 TTTTTTTAATATTTTTTATG
1 TTTTTATAATATTTTTTATG
36415642 TTTTTATAATATTTTTTAT
1 TTTTTATAATATTTTTTAT
36415661 AATTCATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTTATAATATTTTTTATG
Found at i:36415743 original size:9 final size:9
Alignment explanation
Indices: 36415711--36415830 Score: 54
Period size: 9 Copynumber: 13.0 Consensus size: 9
36415701 TAAAAATTAA
36415711 AATATATTTT
1 AATA-ATTTT
*
36415721 ATTAATTTT
1 AATAATTTT
*
36415730 -CTAATTTT
1 AATAATTTT
36415738 AATAATTAATT
1 AATAATT--TT
36415749 AA-AATTTT
1 AATAATTTT
36415757 -ATAAATTTT
1 AAT-AATTTT
36415766 -ATAATATTT
1 AATAAT-TTT
36415775 -ATAAGTTTTT
1 AATAA--TTTT
* *
36415785 TATTATTTT
1 AATAATTTT
*
36415794 TATAATTTT
1 AATAATTTT
*
36415803 TATAATTTT
1 AATAATTTT
*
36415812 ATATCAATTTC
1 A-AT-AATTTT
36415823 AAT-ATTTT
1 AATAATTTT
36415831 TTTAATTGTC
Statistics
Matches: 91, Mismatches: 8, Indels: 24
0.74 0.07 0.20
Matches are distributed among these distances:
7 1 0.01
8 16 0.18
9 46 0.51
10 14 0.15
11 14 0.15
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.59
Consensus pattern (9 bp):
AATAATTTT
Found at i:36415775 original size:18 final size:17
Alignment explanation
Indices: 36415716--36415814 Score: 83
Period size: 17 Copynumber: 5.5 Consensus size: 17
36415706 ATTAAAATAT
*
36415716 ATTTTATTAA-TTTTCTA
1 ATTTTA-TAATTTTTATA
* *
36415733 ATTTTAATAATTAATTAAA
1 ATTTT-ATAATT-TTTATA
*
36415752 ATTTTATAAATTTTATA
1 ATTTTATAATTTTTATA
36415769 ATATTTATAAGTTTTTTATTA
1 AT-TTTATAA--TTTTTA-TA
*
36415790 TTTTTATAATTTTTATA
1 ATTTTATAATTTTTATA
36415807 ATTTTATA
1 ATTTTATA
36415815 TCAATTTCAA
Statistics
Matches: 66, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
17 23 0.35
18 20 0.30
19 8 0.12
20 12 0.18
21 3 0.05
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (17 bp):
ATTTTATAATTTTTATA
Found at i:36415793 original size:10 final size:10
Alignment explanation
Indices: 36415753--36415821 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 10
36415743 TTAATTAAAA
*
36415753 TTTTATAA-A
1 TTTTATAATT
36415762 TTTTATAA-T
1 TTTTATAATT
*
36415771 ATTTATAAGTT
1 TTTTATAA-TT
*
36415782 TTTTATTA-T
1 TTTTATAATT
36415791 TTTTATAA-T
1 TTTTATAATT
36415800 TTTTATAATT
1 TTTTATAATT
*
36415810 TTATATCAATT
1 TTTTAT-AATT
36415821 T
1 T
36415822 CAATATTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
9 32 0.64
10 6 0.12
11 12 0.24
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:36415794 original size:29 final size:28
Alignment explanation
Indices: 36415753--36415821 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
36415743 TTAATTAAAA
36415753 TTTTATAAATTTTATAATATTTATAAGTT
1 TTTTATAAATTTTATAATATTTATAA-TT
* * *
36415782 TTTTATTATTTTTATAATTTTTATAATT
1 TTTTATAAATTTTATAATATTTATAATT
* *
36415810 TTATATCAATTT
1 TTTTATAAATTT
36415822 CAATATTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 11 0.32
29 23 0.68
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (28 bp):
TTTTATAAATTTTATAATATTTATAATT
Found at i:36415848 original size:19 final size:17
Alignment explanation
Indices: 36415817--36415852 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
36415807 ATTTTATATC
36415817 AATTTCAATATTTTTTT
1 AATTTCAATATTTTTTT
36415834 AATTGTCAATGATTTTTTT
1 AATT-TCAAT-ATTTTTTT
36415853 CTTATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 5 0.29
19 8 0.47
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61
Consensus pattern (17 bp):
AATTTCAATATTTTTTT
Found at i:36415894 original size:20 final size:21
Alignment explanation
Indices: 36415869--36415913 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
36415859 TTTAATGCTT
36415869 TTTTTATA-AGTTTTAAAGAA
1 TTTTTATATAGTTTTAAAGAA
* *
36415889 TTTTTATATGGTTTTATAGAA
1 TTTTTATATAGTTTTAAAGAA
36415910 TTTT
1 TTTT
36415914 AAATATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.58
Consensus pattern (21 bp):
TTTTTATATAGTTTTAAAGAA
Found at i:36416042 original size:16 final size:17
Alignment explanation
Indices: 36416021--36416056 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
36416011 TTCTATAAAT
*
36416021 TTTAAT-ATTTTTATTA
1 TTTAATAATTTTTATAA
36416037 TTTAATAATTTTTATAA
1 TTTAATAATTTTTATAA
36416054 TTT
1 TTT
36416057 CTTCTGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTAATAATTTTTATAA
Found at i:36416053 original size:9 final size:9
Alignment explanation
Indices: 36415937--36416056 Score: 59
Period size: 9 Copynumber: 12.8 Consensus size: 9
36415927 CACTTTAAAA
36415937 ATAATTTTTT
1 ATAA-TTTTT
*
36415947 CTAATTTATT
1 ATAATTT-TT
36415957 AT-ATATTTT
1 ATAAT-TTTT
36415966 A-AATTTTTT
1 ATAA-TTTTT
*
36415975 ATAATATTTA
1 ATAAT-TTTT
*
36415985 AGTTATTTTT
1 A-TAATTTTT
*
36415995 TTAAATTTTT
1 AT-AATTTTT
*
36416005 ATAAGTTTCT
1 ATAA-TTTTT
*
36416015 ATAAATTTT
1 ATAATTTTT
36416024 A-ATATTTTT
1 ATA-ATTTTT
* *
36416033 ATTA-TTTA
1 ATAATTTTT
36416041 ATAATTTTT
1 ATAATTTTT
36416050 ATAATTT
1 ATAATTT
36416057 CTTCTGATTT
Statistics
Matches: 82, Mismatches: 16, Indels: 25
0.67 0.13 0.20
Matches are distributed among these distances:
8 7 0.09
9 39 0.48
10 33 0.40
11 3 0.04
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (9 bp):
ATAATTTTT
Found at i:36416056 original size:26 final size:27
Alignment explanation
Indices: 36415992--36416056 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 27
36415982 TTAAGTTATT
*
36415992 TTTTTAAATTTTTATAAGTTTCTATAA
1 TTTTTAAATTTTTATAAGTTTCAATAA
* *
36416019 ATTTTAATATTTTTATTA-TTT-AATAA
1 TTTTTAA-ATTTTTATAAGTTTCAATAA
36416045 TTTTTATAATTT
1 TTTTTA-AATTT
36416057 CTTCTGATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
26 13 0.41
27 10 0.31
28 9 0.28
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (27 bp):
TTTTTAAATTTTTATAAGTTTCAATAA
Found at i:36416122 original size:19 final size:18
Alignment explanation
Indices: 36416091--36416127 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
36416081 TGATATATTT
*
36416091 TTTTTATATTTTTTATGA
1 TTTTTATAATTTTTATGA
36416109 TTTTTAGTAATTTTTATGA
1 TTTTTA-TAATTTTTATGA
36416128 GAAGATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (18 bp):
TTTTTATAATTTTTATGA
Found at i:36416625 original size:134 final size:133
Alignment explanation
Indices: 36416374--36417180 Score: 794
Period size: 134 Copynumber: 6.0 Consensus size: 133
36416364 TCAAAAAAAG
* * * * *
36416374 TCCAATTCCGAAGCTTGAGTGTCGCAGTATCCAACTTAAAAAAT-ATTTTTAAAACAAAAAAAAT
1 TCCAATTCCAAAGCTTAAGTGTCGAAGTATCCAACTTAAAAAATGTTTTTTAAAA-GAAAAAAAT
* * * *
36416438 GTAGTAT-TGAAAAAATCCCTTAAGAAAATGT-AAAAAATGTTTTTGTATTAAATTCACACCAAT
65 GTAAT-TGTGAAAAAAACCCTTAAGAAAATGTAAAAAAAAGTCTTTGTATTAAATTCACACCAAT
36416501 TGAGC
129 TGAGC
* * *
36416506 TCCAATTTCAAAGCTTAAGTGTCGAAGTATTCAACTTAAAAAATGTTCTTTAAAAAGAAAAAAAA
1 TCCAATTCCAAAGCTTAAGTGTCGAAGTATCCAACTTAAAAAATGTT-TTTTAAAAG-AAAAAAA
* * * * *
36416571 TTTAGTTGTGAAAAAAGCCTTTAAGAAAATGT-AAAAAAAGTCTTTATATTAAATTCACACCCAA
64 TGTAATTGTGAAAAAAACCCTTAAGAAAATGTAAAAAAAAGTCTTTGTATTAAATTCACA-CCAA
36416635 TTGAGC
128 TTGAGC
* * * *
36416641 TCCAATTTCAAAGCTTGAGTGTCGCAGTATCCAACTTACAAAATGTTATTTTAAAAGAAAAAAAT
1 TCCAATTCCAAAGCTTAAGTGTCGAAGTATCCAACTTAAAAAATGTT-TTTTAAAAGAAAAAAAT
* * * *
36416706 GTAATT-TAAAAAAAACCCTTAAGAAAATGT-CAAAAAAGTCTTTATATTAAATTCACACAAAAT
65 GTAATTGTGAAAAAAACCCTTAAGAAAATGTAAAAAAAAGTCTTTGTATTAAATTCACAC-CAAT
* *
36416769 TCAAC
129 TGAGC
* * * * * * * *
36416774 TCCAATTCCAAAACTTAAATATAGTAGTATCCAACTTAAAAAATATCTTTTTAAAAGAATAATAT
1 TCCAATTCCAAAGCTTAAGTGTCGAAGTATCCAACTTAAAAAATGT-TTTTTAAAAGAAAAAAAT
* * * * * *
36416839 TTAATTGTTAAAAAAATCCTTATGAAAATGTAAAAAAAAATATATTTTGTATTAAATTCACACTC
65 GTAATTGTGAAAAAAACCCTTAAGAAAATGT-AAAAAAAA-GT-CTTTGTATTAAATTCACAC-C
36416904 AATTGAGC
126 AATTGAGC
* * * * * * *
36416912 TCTAATTTCAAAACTTAAGTG-CCACGGTATCCAACTTAAAAGATG-TTTTTAAAAGAAAATAAT
1 TCCAATTCCAAAGCTTAAGTGTCGA-AGTATCCAACTTAAAAAATGTTTTTTAAAAGAAAAAAAT
* * * *
36416975 GTAATTGTGAAAAAAGCCCTTAA-AAATATGTCAAAAAAA-TCTTTGTAATAAATTCACACCTAT
65 GTAATTGTGAAAAAAACCCTTAAGAAA-ATGTAAAAAAAAGTCTTTGTATTAAATTCACACC-AA
36417038 TTGAGC
128 TTGAGC
* * *
36417044 TCCAATTCCAAAAG-TTGAGTGTC-ATAATATCCAACTTAGAAAATAT-TTTTTTTAAAGAAAAA
1 TCCAATTCC-AAAGCTTAAGTGTCGA-AGTATCCAACTTA-AAAA-ATGTTTTTTAAAAGAAAAA
* * * **
36417106 AATTTAATTGTGAAAAAAACCTTTAAGAAAATGTCAAAAAAAAATCTTTGTATTAAATTTTCACC
62 AATGTAATTGTGAAAAAAACCCTTAAGAAAATGT-AAAAAAAAGTCTTTGTATTAAATTCACACC
36417171 TAATTGAGC
126 -AATTGAGC
36417180 T
1 T
36417181 ATTGTAGTTA
Statistics
Matches: 560, Mismatches: 92, Indels: 42
0.81 0.13 0.06
Matches are distributed among these distances:
131 1 0.00
132 89 0.16
133 120 0.21
134 141 0.25
135 81 0.14
136 70 0.12
137 1 0.00
138 57 0.10
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (133 bp):
TCCAATTCCAAAGCTTAAGTGTCGAAGTATCCAACTTAAAAAATGTTTTTTAAAAGAAAAAAATG
TAATTGTGAAAAAAACCCTTAAGAAAATGTAAAAAAAAGTCTTTGTATTAAATTCACACCAATTG
AGC
Found at i:36416713 original size:20 final size:20
Alignment explanation
Indices: 36416680--36416720 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
36416670 TCCAACTTAC
*
36416680 AAAATGTTATTTTAAAAGAAA
1 AAAATGTTAATTTAAAA-AAA
36416701 AAAATG-TAATTTAAAAAAA
1 AAAATGTTAATTTAAAAAAA
36416720 A
1 A
36416721 CCCTTAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (20 bp):
AAAATGTTAATTTAAAAAAA
Found at i:36417077 original size:270 final size:263
Alignment explanation
Indices: 36416398--36417180 Score: 882
Period size: 270 Copynumber: 2.9 Consensus size: 263
36416388 TTGAGTGTCG
* * * *
36416398 CAGTATCCAACTTAAAAAATATTTTTAAAACAAAAAAAATGTAGTATTGAAAAAATCCCTTAAGA
1 CAGTATCCAACTT-AAAAATGTTTTTAAAA-GAAAAAAATGTAAT-TTGAAAAAAACCCTTAAGA
* *
36416463 AAATGT-AAAAAATGTTTTTGTATTAAATTCACACCAATTGAGCTCCAATTTC-AAAGCTTAAGT
63 AAATGTCAAAAAA-GTCTTTGTATTAAATTCACACCAATTGAGCTCCAATTCCAAAAG-TTAAGT
* * * * * *
36416526 GTCGA-AGTATTCAACTTAAAAAATGTTCTTTAAAAAGAAAAAAAATTTAGTTGTGAAAAAAGCC
126 GTC-ATAGTATCCAACTTAAAAAATATT-TTTTAAAAG-AAAAAAATTTAATTGTTAAAAAAACC
* * * *
36416590 TTTAAGAAAATGT-AAAAAAAGTCTTTATATTAAATTCACACCCAATTGAGCTCCAATTTCAAAG
188 TTTAAGAAAATGTAAAAAAAAATCTTTGTATTAAATTCACACTCAATTGAGCTCCAATTTCAAAA
* * *
36416654 CTTGAGTGTCG
253 CTTAAGTGCCA
*
36416665 CAGTATCCAACTTACAAAATGTTATTTTAAAAGAAAAAAATGTAATTTAAAAAAAACCCTTAAGA
1 CAGTATCCAACTTA-AAAATG-T-TTTTAAAAGAAAAAAATGTAATTTGAAAAAAACCCTTAAGA
* * * * * * *
36416730 AAATGTCAAAAAAGTCTTTATATTAAATTCACACAAAATTCAACTCCAATTCCAAAACTTAAATA
63 AAATGTCAAAAAAGTCTTTGTATTAAATTCACAC-CAATTGAGCTCCAATTCCAAAAGTTAAGTG
* *
36416795 T-AGTAGTATCCAACTTAAAAAATATCTTTTTAAAAGAATAATATTTAATTGTTAAAAAAATCC-
127 TCA-TAGTATCCAACTTAAAAAATAT-TTTTTAAAAGAAAAAAATTTAATTGTTAAAAAAA-CCT
* * *
36416858 TTATGAAAATGTAAAAAAAAATATATTTTGTATTAAATTCACACTCAATTGAGCTCTAATTTCAA
189 TTAAGAAAATGT-AAAAAAAA-AT-CTTTGTATTAAATTCACACTCAATTGAGCTCCAATTTCAA
36416923 AACTTAAGTGCCA
251 AACTTAAGTGCCA
* * *
36416936 CGGTATCCAACTTAAAAGATGTTTTTAAAAGAAAATAATGTAATTGTGAAAAAAGCCCTTAA-AA
1 CAGTATCCAACTTAAAA-ATGTTTTTAAAAGAAAAAAATGTAATT-TGAAAAAAACCCTTAAGAA
* * * *
36417000 ATATGTCAAAAAAATCTTTGTAATAAATTCACACCTATTTGAGCTCCAATTCCAAAAGTTGAGTG
64 A-ATGTCAAAAAAGTCTTTGTATTAAATTCACACC-AATTGAGCTCCAATTCCAAAAGTTAAGTG
* * * *
36417065 TCATAATATCCAACTTAGAAAATATTTTTTTTAAAGAAAAAAATTTAATTGTGAAAAAAACCTTT
127 TCATAGTATCCAACTTAAAAAATA-TTTTTTAAAAGAAAAAAATTTAATTGTTAAAAAAACCTTT
36417130 AAGAAAATGTCAAAAAAAAATCTTTGTATTAAATTTTCAC-CT-AATTGAGCT
191 AAGAAAATGT-AAAAAAAAATCTTTGTATTAAA--TTCACACTCAATTGAGCT
36417181 ATTGTAGTTA
Statistics
Matches: 437, Mismatches: 56, Indels: 45
0.81 0.10 0.08
Matches are distributed among these distances:
266 2 0.00
267 90 0.21
268 88 0.20
269 50 0.11
270 144 0.33
271 63 0.14
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.32
Consensus pattern (263 bp):
CAGTATCCAACTTAAAAATGTTTTTAAAAGAAAAAAATGTAATTTGAAAAAAACCCTTAAGAAAA
TGTCAAAAAAGTCTTTGTATTAAATTCACACCAATTGAGCTCCAATTCCAAAAGTTAAGTGTCAT
AGTATCCAACTTAAAAAATATTTTTTAAAAGAAAAAAATTTAATTGTTAAAAAAACCTTTAAGAA
AATGTAAAAAAAAATCTTTGTATTAAATTCACACTCAATTGAGCTCCAATTTCAAAACTTAAGTG
CCA
Found at i:36417441 original size:19 final size:18
Alignment explanation
Indices: 36417421--36417548 Score: 91
Period size: 19 Copynumber: 6.7 Consensus size: 18
36417411 TAACTCTAAT
*
36417421 AAATTATAGAAAATTTTATA
1 AAATTATA-AAAATTATA-A
*
36417441 AAATTAATAAAACATTTTTAA
1 AAATT-ATAAAA-A-TTATAA
36417462 AAATT-TATAAAATGTATAA
1 AAATTATA-AAAAT-TATAA
36417481 AAATTATAAAAAATTATAA
1 AAATTAT-AAAAATTATAA
*
36417500 AAATTCATAAAAA-TATTA
1 AAATT-ATAAAAATTATAA
* *
36417518 AAATTGGTAGAAACTTAT-A
1 AAATT-ATA-AAAATTATAA
36417537 AAATTATAAAAA
1 AAATTATAAAAA
36417549 AAATCATAAA
Statistics
Matches: 91, Mismatches: 7, Indels: 23
0.75 0.06 0.19
Matches are distributed among these distances:
17 3 0.03
18 14 0.15
19 36 0.40
20 22 0.24
21 11 0.12
22 5 0.05
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.34
Consensus pattern (18 bp):
AAATTATAAAAATTATAA
Found at i:36417443 original size:10 final size:9
Alignment explanation
Indices: 36417430--36417547 Score: 60
Period size: 10 Copynumber: 12.4 Consensus size: 9
36417420 TAAATTATAG
36417430 AAAATTTTAT
1 AAAA-TTTAT
*
36417440 AAAATTAAT
1 AAAATTTAT
*
36417449 AAAACATTTTT
1 -AAA-ATTTAT
36417460 AAAAATTTAT
1 -AAAATTTAT
*
36417470 AAAATGTAT
1 AAAATTTAT
*
36417479 AAAAATTAT
1 AAAATTTAT
*
36417488 AAAAAATTAT
1 -AAAATTTAT
*
36417498 AAAAATTCAT
1 -AAAATTTAT
*
36417508 AAAA-ATATT
1 AAAATTTA-T
**
36417517 AAAATTGGT
1 AAAATTTAT
*
36417526 AGAAACTTAT
1 A-AAATTTAT
36417536 AAAA-TTAT
1 AAAATTTAT
36417544 AAAA
1 AAAA
36417548 AAAATCATAA
Statistics
Matches: 85, Mismatches: 17, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
8 9 0.11
9 33 0.39
10 35 0.41
11 8 0.09
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (9 bp):
AAAATTTAT
Found at i:36417479 original size:9 final size:8
Alignment explanation
Indices: 36417461--36417547 Score: 57
Period size: 9 Copynumber: 9.5 Consensus size: 8
36417451 AACATTTTTA
36417461 AAAATTTAT
1 AAAA-TTAT
36417470 AAAATGTAT
1 AAAAT-TAT
36417479 AAAAATTAT
1 -AAAATTAT
36417488 AAAAAATTAT
1 --AAAATTAT
36417498 AAAAATTCAT
1 -AAAATT-AT
*
36417508 AAAAATATT
1 AAAATTA-T
*
36417517 AAAATTGGT
1 AAAATT-AT
36417526 AGAAACTTAT
1 A-AAA-TTAT
36417536 AAAATTAT
1 AAAATTAT
36417544 AAAA
1 AAAA
36417548 AAAATCATAA
Statistics
Matches: 66, Mismatches: 4, Indels: 17
0.76 0.05 0.20
Matches are distributed among these distances:
8 10 0.15
9 33 0.50
10 21 0.32
11 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (8 bp):
AAAATTAT
Found at i:36424941 original size:26 final size:26
Alignment explanation
Indices: 36424912--36425019 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
36424902 TGGTACAAAT
*
36424912 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATATTCCA
36424938 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATATTCCA
*
36424964 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATATTCCA
* *
36424990 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATATTCCA
36425016 TGAT
1 TGAT
36425020 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATATTCCA
Found at i:36439676 original size:21 final size:21
Alignment explanation
Indices: 36439647--36439700 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 21
36439637 TTTTTACGTA
36439647 TTATATATTTTAAACTT-CTTAT
1 TTAT-TATTTTAAA-TTACTTAT
36439669 TTATTATTTTTAAATTAACTTAT
1 TTATTA-TTTTAAATT-ACTTAT
*
36439692 ATATTATTT
1 TTATTATTT
36439701 ATTTTGAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
21 4 0.14
22 14 0.50
23 10 0.36
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATTATTTTAAATTACTTAT
Found at i:36439792 original size:17 final size:15
Alignment explanation
Indices: 36439750--36439795 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 15
36439740 CTACTTATTC
36439750 CATATTATTTATTTTA
1 CATATTA-TTATTTTA
36439766 CAT-TT-TTATTTATA
1 CATATTATTATTT-TA
36439780 CATATTATCTATTTTA
1 CATATTAT-TATTTTA
36439796 AAATTATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
13 6 0.23
14 5 0.19
15 4 0.15
16 6 0.23
17 5 0.19
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (15 bp):
CATATTATTATTTTA
Found at i:36441037 original size:53 final size:53
Alignment explanation
Indices: 36440963--36441065 Score: 206
Period size: 53 Copynumber: 1.9 Consensus size: 53
36440953 TTAATTATTG
36440963 TTATTTACATTATTTTCAATATATAAGACAATGCTTAGAATTATTTATAATTC
1 TTATTTACATTATTTTCAATATATAAGACAATGCTTAGAATTATTTATAATTC
36441016 TTATTTACATTATTTTCAATATATAAGACAATGCTTAGAATTATTTATAA
1 TTATTTACATTATTTTCAATATATAAGACAATGCTTAGAATTATTTATAA
36441066 CTCCTCTCCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.47
Consensus pattern (53 bp):
TTATTTACATTATTTTCAATATATAAGACAATGCTTAGAATTATTTATAATTC
Found at i:36444101 original size:22 final size:21
Alignment explanation
Indices: 36444071--36444155 Score: 61
Period size: 19 Copynumber: 4.2 Consensus size: 21
36444061 TACAAATTAA
36444071 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
36444093 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
** *
36444114 ATCT--AAGATTGGATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
36444133 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
36444152 ATCT
1 ATCT
36444156 AAGATTGTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
19 36 0.62
21 10 0.17
22 12 0.21
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:36444123 original size:19 final size:19
Alignment explanation
Indices: 36444088--36444185 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
36444078 AGATTACAAG
36444088 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
36444109 ATCATATCTAAGATTGGAT
1 ATCATATCTAAGATTGCAT
36444128 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
36444147 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
36444164 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
36444183 ATC
1 ATC
36444186 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 17 0.23
19 47 0.64
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:36450886 original size:14 final size:14
Alignment explanation
Indices: 36450867--36450894 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
36450857 CTTTGTACAC
36450867 TAGTCACAGGCTTT
1 TAGTCACAGGCTTT
36450881 TAGTCACAGGCTTT
1 TAGTCACAGGCTTT
36450895 GATTTGCGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (14 bp):
TAGTCACAGGCTTT
Found at i:36452417 original size:9 final size:9
Alignment explanation
Indices: 36452403--36452431 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
36452393 AAAATAAAGA
36452403 TTTTTTATT
1 TTTTTTATT
36452412 TTTTTTATT
1 TTTTTTATT
36452421 TTTTTTATT
1 TTTTTTATT
36452430 TT
1 TT
36452432 GAGTGATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTATT
Found at i:36453554 original size:16 final size:16
Alignment explanation
Indices: 36453530--36453560 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36453520 TGGTTTACAA
36453530 AGGAAGAGGAAGAAGG
1 AGGAAGAGGAAGAAGG
*
36453546 AGGAGGAGGAAGAAG
1 AGGAAGAGGAAGAAG
36453561 AGGGTGAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (16 bp):
AGGAAGAGGAAGAAGG
Found at i:36460275 original size:16 final size:16
Alignment explanation
Indices: 36460236--36460274 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
36460226 AAAACTATGG
36460236 TGTCTTTTGGGTTTCT
1 TGTCTTTTGGGTTTCT
36460252 TGTCTTTTGGGTTTCT
1 TGTCTTTTGGGTTTCT
36460268 TGT-TTTT
1 TGTCTTTT
36460275 TAAGGCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.00, C:0.10, G:0.23, T:0.67
Consensus pattern (16 bp):
TGTCTTTTGGGTTTCT
Found at i:36466396 original size:20 final size:20
Alignment explanation
Indices: 36466367--36466405 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
36466357 GGGTAAATTA
*
36466367 TTAGTCACTCAGGTTTCAAT
1 TTAGTCACTCAGCTTTCAAT
*
36466387 TTAGTGACTCAGCTTTCAA
1 TTAGTCACTCAGCTTTCAA
36466406 AAAATAACAA
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:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (20 bp):
TTAGTCACTCAGCTTTCAAT
Found at i:36468832 original size:31 final size:33
Alignment explanation
Indices: 36468776--36468840 Score: 107
Period size: 31 Copynumber: 2.0 Consensus size: 33
36468766 TCTAATCATA
36468776 ATAACTTATTAATACAAGAGTGTGACATGCATC
1 ATAACTTATTAATACAAGAGTGTGACATGCATC
*
36468809 ATAACTTGTTAATAC-A-AGTGTGACATGCATC
1 ATAACTTATTAATACAAGAGTGTGACATGCATC
36468840 A
1 A
36468841 AACCTTTTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 16 0.52
32 1 0.03
33 14 0.45
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (33 bp):
ATAACTTATTAATACAAGAGTGTGACATGCATC
Found at i:36469885 original size:18 final size:17
Alignment explanation
Indices: 36469862--36469907 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 17
36469852 CTTTTTATAC
36469862 TTTTTTTAATTATTCTAAT
1 TTTTTTTAATT-TT-TAAT
36469881 TTTTTTATAATTTTTAAT
1 TTTTTT-TAATTTTTAAT
36469899 TTTTTTTAA
1 TTTTTTTAA
36469908 AAATTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 3 0.12
18 10 0.38
19 8 0.31
20 5 0.19
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTTTAATTTTTAAT
Found at i:36474626 original size:11 final size:11
Alignment explanation
Indices: 36474610--36474634 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
36474600 GTATAAATAT
36474610 TTTTTAATTTA
1 TTTTTAATTTA
36474621 TTTTTAATTTA
1 TTTTTAATTTA
36474632 TTT
1 TTT
36474635 AAAAATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTAATTTA
Found at i:36484522 original size:16 final size:17
Alignment explanation
Indices: 36484488--36484527 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
36484478 ATAGAATTAG
36484488 AATTAGATTGAGAAAATT
1 AATTA-ATTGAGAAAATT
*
36484506 ATTTAATTGAG-AAATT
1 AATTAATTGAGAAAATT
36484522 AATTAA
1 AATTAA
36484528 ATTATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 10 0.50
17 6 0.30
18 4 0.20
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (17 bp):
AATTAATTGAGAAAATT
Found at i:36484530 original size:17 final size:18
Alignment explanation
Indices: 36484488--36484530 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
36484478 ATAGAATTAG
*
36484488 AATTAGATTGAGAAAATT
1 AATTAAATTGAGAAAATT
*
36484506 -ATTTAATTGAG-AAATT
1 AATTAAATTGAGAAAATT
36484522 AATTAAATT
1 AATTAAATT
36484531 ATTTAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.40
Consensus pattern (18 bp):
AATTAAATTGAGAAAATT
Found at i:36486930 original size:20 final size:20
Alignment explanation
Indices: 36486899--36487005 Score: 85
Period size: 20 Copynumber: 5.3 Consensus size: 20
36486889 TTGTATAGGA
* *
36486899 TAGAAATATTGGTAAATTTT
1 TAGAAATTTTGGTAAATCTT
* *
36486919 TAGAATTTTTGGTAAATCGT
1 TAGAAATTTTGGTAAATCTT
* *
36486939 TA-AATATTTTGATATAA-GTT
1 TAGAA-ATTTTGGTA-AATCTT
*
36486959 TAGAAATTTTGGTAAATCAT
1 TAGAAATTTTGGTAAATCTT
* *
36486979 TAGAAATATTAGTAAAAT-TT
1 TAGAAATTTTGGT-AAATCTT
36486999 TAGAAAT
1 TAGAAAT
36487006 ATCGTAAATC
Statistics
Matches: 68, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
19 4 0.06
20 56 0.82
21 8 0.12
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (20 bp):
TAGAAATTTTGGTAAATCTT
Found at i:36487001 original size:40 final size:40
Alignment explanation
Indices: 36486899--36487005 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
36486889 TTGTATAGGA
* * * *
36486899 TAGAAATATTGGTAAATTTTTAGAATTTTTGGTAAATCGT
1 TAGAAATATTAGTAAAATTTTAGAAATTTTGGTAAATCAT
* * *
36486939 T--AAATATTTTGATATAAGTTTAGAAATTTTGGTAAATCAT
1 TAGAAATA-TTAG-TAAAATTTTAGAAATTTTGGTAAATCAT
36486979 TAGAAATATTAGTAAAATTTTAGAAAT
1 TAGAAATATTAGTAAAATTTTAGAAAT
36487006 ATCGTAAATC
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
38 5 0.09
39 3 0.06
40 38 0.70
41 3 0.06
42 5 0.09
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (40 bp):
TAGAAATATTAGTAAAATTTTAGAAATTTTGGTAAATCAT
Found at i:36491516 original size:12 final size:12
Alignment explanation
Indices: 36491499--36491536 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
36491489 CTATCTCTTA
36491499 ACTTTGAAACAC
1 ACTTTGAAACAC
36491511 ACTTTGAAACAC
1 ACTTTGAAACAC
*
36491523 ACTTTGAATCAC
1 ACTTTGAAACAC
36491535 AC
1 AC
36491537 GATTTCGAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.39, C:0.26, G:0.08, T:0.26
Consensus pattern (12 bp):
ACTTTGAAACAC
Found at i:36493156 original size:13 final size:13
Alignment explanation
Indices: 36493138--36493163 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36493128 TTTCCAAAAT
36493138 ATTAATTAATTTA
1 ATTAATTAATTTA
36493151 ATTAATTAATTTA
1 ATTAATTAATTTA
36493164 CCTAATTAAA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTAATTAATTTA
Found at i:36494160 original size:26 final size:26
Alignment explanation
Indices: 36494124--36494204 Score: 108
Period size: 26 Copynumber: 3.1 Consensus size: 26
36494114 ATATTGTTCG
*
36494124 TTTAGCAGACCTTGAGCCAGTGATTA
1 TTTAGCAGACCTTGAGCCGGTGATTA
* *
36494150 TTTAGTAGACCTTGAGCCGGTGTTTA
1 TTTAGCAGACCTTGAGCCGGTGATTA
* * *
36494176 TTTAACCGACTTTGAGCCGGTGATTA
1 TTTAGCAGACCTTGAGCCGGTGATTA
36494202 TTT
1 TTT
36494205 GTGATTATTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.37
Consensus pattern (26 bp):
TTTAGCAGACCTTGAGCCGGTGATTA
Found at i:36502167 original size:27 final size:27
Alignment explanation
Indices: 36502129--36502182 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
36502119 TCCTTGTGCT
36502129 TTTTTTTACTGTTCTCTTCATTTACCA
1 TTTTTTTACTGTTCTCTTCATTTACCA
36502156 TTTTTTTACTGTTCTCTTCATTTACCA
1 TTTTTTTACTGTTCTCTTCATTTACCA
36502183 GCTTTAGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.15, C:0.22, G:0.04, T:0.59
Consensus pattern (27 bp):
TTTTTTTACTGTTCTCTTCATTTACCA
Found at i:36512762 original size:16 final size:15
Alignment explanation
Indices: 36512741--36512773 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
36512731 ATACTCCAAT
36512741 TTAATATTTTATATAA
1 TTAATATTTTA-ATAA
36512757 TTAATATTTTAATAA
1 TTAATATTTTAATAA
36512772 TT
1 TT
36512774 CAGTCGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTAATATTTTAATAA
Found at i:36512979 original size:30 final size:31
Alignment explanation
Indices: 36512945--36513003 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
36512935 TACCTATCTA
36512945 GTTAGATAAATTGTT-ATTTTAGTAACTCTT
1 GTTAGATAAATTGTTAATTTTAGTAACTCTT
*
36512975 GTTAGATAAATTGTTAATTTTAGTCACTC
1 GTTAGATAAATTGTTAATTTTAGTAACTC
36513004 CCTGTAGATG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 15 0.56
31 12 0.44
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.47
Consensus pattern (31 bp):
GTTAGATAAATTGTTAATTTTAGTAACTCTT
Found at i:36513012 original size:31 final size:30
Alignment explanation
Indices: 36512945--36513012 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 30
36512935 TACCTATCTA
*
36512945 GTTAGATAAATTGTTATTTTAGTAACTCTT
1 GTTAGATAAATTGTTATTTTAGTAACTCCT
*
36512975 GTTAGATAAATTGTTAATTTTAGTCACTCCCT
1 GTTAGATAAATTGTT-ATTTTAGTAACT-CCT
36513007 G-TAGAT
1 GTTAGAT
36513013 GAGTTGTCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 15 0.44
31 16 0.47
32 3 0.09
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (30 bp):
GTTAGATAAATTGTTATTTTAGTAACTCCT
Found at i:36518932 original size:75 final size:74
Alignment explanation
Indices: 36518794--36518966 Score: 249
Period size: 75 Copynumber: 2.3 Consensus size: 74
36518784 ATCTGTAAAA
* * * *
36518794 CTCTCGCAATATGAGTT-AATTTTTGACAAACAGAAATTGAAATTACCTCAACGTGTCCCGAGGC
1 CTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAATACCTCAACGTGTCCCGAGGC
36518858 TCAACTCAC
66 TCAACTCAC
* * * *
36518867 CTTTTGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGG
1 CTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA-TTAAAAATACCTCAACGTGTCCCGAGG
36518932 CTCAACTCAC
65 CTCAACTCAC
*
36518942 CTCTCGTAATATGAGTTGATTTTTT
1 CTCTCGCAATATGAGTTGATTTTTT
36518967 TTTACGAACA
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
73 15 0.17
74 17 0.20
75 55 0.63
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (74 bp):
CTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAATACCTCAACGTGTCCCGAGGC
TCAACTCAC
Found at i:36519028 original size:92 final size:91
Alignment explanation
Indices: 36518890--36519057 Score: 241
Period size: 92 Copynumber: 1.8 Consensus size: 91
36518880 AGTTGATTTT
* * *
36518890 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATG
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
*
36518955 AGTTGATTTTTTTTTACGAACAGAGA
66 AGTTAATTTTTTTTTACGAACAGAGA
* *
36518981 TTGAAGAACAGAAA-TTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAAT
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGC--GTG-GCCTGAGGCTCAACTCACCTCTCGCAAT
36519044 ATGAGTTAATTTTT
63 ATGAGTTAATTTTT
36519058 GACAAACAGA
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
90 14 0.21
91 13 0.19
92 39 0.57
93 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (91 bp):
TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTAATTTTTTTTTACGAACAGAGA
Found at i:36519174 original size:70 final size:71
Alignment explanation
Indices: 36519020--36519199 Score: 245
Period size: 70 Copynumber: 2.5 Consensus size: 71
36519010 CATGTGAGCC
* * * * *
36519020 GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGA-AAACAAAAATTAAAAGTACCTCAA
36519085 CGTGTCCT
64 CGTGTCCT
* * *
36519093 GAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAACAAAAATTAAAAGTACCTTAATG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAGTACCTCAACG
*
36519157 TGTCTT
66 TGTCCT
*
36519163 GAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
36519200 CCTTGAAAAG
Statistics
Matches: 96, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
70 60 0.62
72 5 0.05
73 31 0.32
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (71 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAGTACCTCAACG
TGTCCT
Found at i:36527339 original size:16 final size:15
Alignment explanation
Indices: 36527318--36527365 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
36527308 GATGTGAATA
36527318 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
36527334 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
36527349 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
36527365 A
1 A
36527366 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:36527348 original size:8 final size:8
Alignment explanation
Indices: 36527314--36527365 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
36527304 TAATGATGTG
*
36527314 AATAATAA
1 AATATTAA
36527322 AATATATAA
1 AATAT-TAA
36527331 AATA-TAA
1 AATATTAA
36527338 AATATTAA
1 AATATTAA
*
36527346 AATATCAA
1 AATATTAA
*
36527354 AATATTAG
1 AATATTAA
36527362 AATA
1 AATA
36527366 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:36527628 original size:23 final size:24
Alignment explanation
Indices: 36527600--36527733 Score: 75
Period size: 25 Copynumber: 5.5 Consensus size: 24
36527590 AAAAAAATAT
36527600 ATATATAAATAATATAATATTAAAG
1 ATATAT-AATAATATAATATTAAAG
* * * *
36527625 ATATATACATAAAATAGTATAAAAT
1 ATATATA-ATAATATAATATTAAAG
36527650 ATATATATACGTAATATAGA-ATTTAAA-
1 ATATATA-A--TAATATA-ATA-TTAAAG
** *
36527677 ATATA-CCTAATAT-AT-TAAAAG
1 ATATATAATAATATAATATTAAAG
36527698 A-ATATATATAATATAATATT-AAG
1 ATATATA-ATAATATAATATTAAAG
*
36527721 AAATATAATAATA
1 ATATATAATAATA
36527734 ACAAAAAAGG
Statistics
Matches: 83, Mismatches: 14, Indels: 26
0.67 0.11 0.21
Matches are distributed among these distances:
20 7 0.08
21 2 0.02
22 6 0.07
23 18 0.22
24 7 0.08
25 27 0.33
27 12 0.14
28 4 0.05
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.35
Consensus pattern (24 bp):
ATATATAATAATATAATATTAAAG
Found at i:36527636 original size:25 final size:25
Alignment explanation
Indices: 36527600--36527733 Score: 86
Period size: 23 Copynumber: 5.6 Consensus size: 25
36527590 AAAAAAATAT
*
36527600 ATATATAAATAATATAATATTAAAG
1 ATATATACATAATATAATATTAAAG
* * * *
36527625 ATATATACATAAAATAGTATAAAATAT
1 ATATATACATAATATAATAT-TAA-AG
* *
36527652 ATATATACGTAATATAGA-ATTTAA-
1 ATATATACATAATATA-ATATTAAAG
* *
36527676 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATACATAATATAATATTAAAG
*
36527698 A-ATATATATAATATAATATT-AAG
1 ATATATACATAATATAATATTAAAG
*
36527721 AAATATA-ATAATA
1 ATATATACATAATA
36527734 ACAAAAAAGG
Statistics
Matches: 85, Mismatches: 16, Indels: 18
0.71 0.13 0.15
Matches are distributed among these distances:
21 4 0.05
22 12 0.14
23 24 0.28
24 7 0.08
25 18 0.21
26 3 0.04
27 17 0.20
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATACATAATATAATATTAAAG
Found at i:36527655 original size:27 final size:27
Alignment explanation
Indices: 36527521--36527668 Score: 101
Period size: 25 Copynumber: 5.6 Consensus size: 27
36527511 AATATTAAAA
* * *
36527521 ATATGTACATAATATAGTGTTAAA-A-
1 ATATATACATAATATAGTATAAAATAT
* *
36527546 ATACATACATAATATAGT-TAAGATAT
1 ATATATACATAATATAGTATAAAATAT
* * * *
36527572 ATACATAAGATAACAT-GTAAAAAAATAT
1 ATATAT-ACATAATATAGT-ATAAAATAT
* * * *
36527600 ATATATAAATAATATAATAT-TAA-AG
1 ATATATACATAATATAGTATAAAATAT
*
36527625 ATATATACATAAAATAGTATAAAATAT
1 ATATATACATAATATAGTATAAAATAT
*
36527652 ATATATACGTAATATAG
1 ATATATACATAATATAG
36527669 AATTTAAAAT
Statistics
Matches: 93, Mismatches: 22, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
24 3 0.03
25 35 0.38
26 12 0.13
27 31 0.33
28 12 0.13
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (27 bp):
ATATATACATAATATAGTATAAAATAT
Found at i:36528302 original size:30 final size:30
Alignment explanation
Indices: 36528268--36528336 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
36528258 TGGAGCAAGT
36528268 GTGGCTAGTGGAGTTGGTGGTGGAAAAGGA
1 GTGGCTAGTGGAGTTGGTGGTGGAAAAGGA
*
36528298 GTGGCTAGTGGAGTTGGTGGTGGAAAAGGT
1 GTGGCTAGTGGAGTTGGTGGTGGAAAAGGA
36528328 GTGGCTAGT
1 GTGGCTAGT
36528337 TGAGAAAAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.20, C:0.04, G:0.49, T:0.26
Consensus pattern (30 bp):
GTGGCTAGTGGAGTTGGTGGTGGAAAAGGA
Found at i:36531769 original size:22 final size:21
Alignment explanation
Indices: 36531732--36531778 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
36531722 TAATTTTTTT
*
36531732 AAATAATTACTATTATTTAATA
1 AAATAATTACTATTATTCAA-A
* *
36531754 AAATAATTATTTTTATTCAAA
1 AAATAATTACTATTATTCAAA
36531775 AAAT
1 AAAT
36531779 TAGAAACCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (21 bp):
AAATAATTACTATTATTCAAA
Found at i:36535181 original size:31 final size:31
Alignment explanation
Indices: 36535120--36535183 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
36535110 ATTTTCATCC
* *
36535120 AATTAAGTCTTTGAATTTAGTTTTAAGATTT
1 AATTAAGTATTTGAATTTAGATTTAAGATTT
* *
36535151 AATTTAGTATTTGAATTT-GATTTATTGATTT
1 AATTAAGTATTTGAATTTAGATTTA-AGATTT
36535182 AA
1 AA
36535184 AATTGATACT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 5 0.18
31 23 0.82
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (31 bp):
AATTAAGTATTTGAATTTAGATTTAAGATTT
Found at i:36543648 original size:20 final size:20
Alignment explanation
Indices: 36543623--36543661 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
36543613 TTTTTTTGTT
*
36543623 GTTTTTTTCTTAAAAAAAAG
1 GTTTTTTTCATAAAAAAAAG
*
36543643 GTTTTTTTGATAAAAAAAA
1 GTTTTTTTCATAAAAAAAA
36543662 AGAGAAAATA
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:0.44, C:0.03, G:0.10, T:0.44
Consensus pattern (20 bp):
GTTTTTTTCATAAAAAAAAG
Found at i:36543697 original size:40 final size:40
Alignment explanation
Indices: 36543652--36543769 Score: 114
Period size: 40 Copynumber: 3.0 Consensus size: 40
36543642 GGTTTTTTTG
* *
36543652 ATAAAAA-AAAAGAGAAAAT-AAAGTATGGTTTTAATTAATA
1 ATAAAAACAAAAGAG--AATGAAAGAATAGTTTTAATTAATA
* * *
36543692 ATAAAAACAAAATAGTATGAGAGAATAGTTTTAATTAATA
1 ATAAAAACAAAAGAGAATGAAAGAATAGTTTTAATTAATA
* * * **
36543732 ATAAAAACAAAATAGTACGGGAGAATAGTTTTAATTAA
1 ATAAAAACAAAAGAGAATGAAAGAATAGTTTTAATTAA
36543770 ATATGGTGGT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
39 2 0.03
40 61 0.88
41 6 0.09
ACGTcount: A:0.56, C:0.03, G:0.14, T:0.28
Consensus pattern (40 bp):
ATAAAAACAAAAGAGAATGAAAGAATAGTTTTAATTAATA
Found at i:36543943 original size:39 final size:39
Alignment explanation
Indices: 36543868--36543981 Score: 183
Period size: 39 Copynumber: 2.9 Consensus size: 39
36543858 ATAAAGTATG
36543868 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
1 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAATA
* *
36543908 GTTTTAATTAATAATAAAATAAAATAGTATGGGGGAGTA
1 GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAATA
* *
36543947 GTTTTAATTAATAATAAACCAAAGTAGTATGGGGG
1 GTTTTAATTAATAATAAAACAAAATAGTATGGGGG
36543982 GAGTGGAATC
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 54 0.78
40 15 0.22
ACGTcount: A:0.46, C:0.03, G:0.20, T:0.32
Consensus pattern (39 bp):
GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAATA
Found at i:36547735 original size:30 final size:27
Alignment explanation
Indices: 36547694--36547749 Score: 67
Period size: 30 Copynumber: 2.0 Consensus size: 27
36547684 AAACTGCTAC
36547694 TTTTTCTTTTTACTGTTCTTGCTTTTTT
1 TTTTTCTTTTTACTGTTCTTG-TTTTTT
* *
36547722 TTTTTGCTATTTTATTGTTGTTGTTTTT
1 TTTTT-CT-TTTTACTGTTCTTGTTTTT
36547750 CACTATTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.21
29 7 0.29
30 12 0.50
ACGTcount: A:0.05, C:0.09, G:0.11, T:0.75
Consensus pattern (27 bp):
TTTTTCTTTTTACTGTTCTTGTTTTTT
Found at i:36547767 original size:11 final size:11
Alignment explanation
Indices: 36547751--36547792 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
36547741 GTTGTTTTTC
36547751 ACTATTTTGCT
1 ACTATTTTGCT
**
36547762 ACTATTTCACT
1 ACTATTTTGCT
*
36547773 ACTATGTTGCT
1 ACTATTTTGCT
36547784 ACTATTTTG
1 ACTATTTTG
36547793 TTGCTATTGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.50
Consensus pattern (11 bp):
ACTATTTTGCT
Found at i:36547841 original size:17 final size:19
Alignment explanation
Indices: 36547808--36547842 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
36547798 ATTGTTTGTA
36547808 TATTGTATAACTTTTGTTT
1 TATTGTATAACTTTTGTTT
36547827 TATTGT-TAA-TTTTGTT
1 TATTGTATAACTTTTGTT
36547843 ACTATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.20, C:0.03, G:0.11, T:0.66
Consensus pattern (19 bp):
TATTGTATAACTTTTGTTT
Found at i:36553460 original size:21 final size:22
Alignment explanation
Indices: 36553431--36553477 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
36553421 CAGAAGGAGT
*
36553431 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
36553453 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
36553474 GAGT
1 GAGT
36553478 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:36565459 original size:23 final size:25
Alignment explanation
Indices: 36565433--36565485 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
36565423 TTTTCTATAT
* *
36565433 CTTATGGTCATTTCGGTAC-TTA-A
1 CTTATCGTCATTTCGGAACTTTAGA
*
36565456 CTTACCGTCATTTCGGAACTTTAGA
1 CTTATCGTCATTTCGGAACTTTAGA
36565481 CTTAT
1 CTTAT
36565486 ATCGACACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 16 0.67
24 3 0.12
25 5 0.21
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.42
Consensus pattern (25 bp):
CTTATCGTCATTTCGGAACTTTAGA
Found at i:36577054 original size:36 final size:36
Alignment explanation
Indices: 36577014--36577082 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
36577004 TGCGTCGATG
* *
36577014 CCCTCCTGGTGGATCTCCTACTTACAGCTCTGGATA
1 CCCTCCTGGTGGATCTCCCACTTACAGCACTGGATA
*
36577050 CCCTCCTGGTGGATCTCCCACTTTCAGCACTGG
1 CCCTCCTGGTGGATCTCCCACTTACAGCACTGG
36577083 GAGCCAGTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.14, C:0.36, G:0.20, T:0.29
Consensus pattern (36 bp):
CCCTCCTGGTGGATCTCCCACTTACAGCACTGGATA
Found at i:36585411 original size:26 final size:26
Alignment explanation
Indices: 36585382--36585434 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
36585372 TCTTAGAAGA
36585382 AAGCCTGTGGAAAATACCTAAATGAT
1 AAGCCTGTGGAAAATACCTAAATGAT
36585408 AAGCCTGTGGAAAATACCTAAATGAT
1 AAGCCTGTGGAAAATACCTAAATGAT
36585434 A
1 A
36585435 TACATTCAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.23
Consensus pattern (26 bp):
AAGCCTGTGGAAAATACCTAAATGAT
Found at i:36589237 original size:11 final size:11
Alignment explanation
Indices: 36589221--36589260 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
36589211 GTTTTCTTTA
36589221 CTATTTTCTTG
1 CTATTTTCTTG
36589232 CTATTTTCTTG
1 CTATTTTCTTG
* * *
36589243 TTCTTTTCTTA
1 CTATTTTCTTG
36589254 CTATTTT
1 CTATTTT
36589261 ACTACAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.10, C:0.17, G:0.05, T:0.68
Consensus pattern (11 bp):
CTATTTTCTTG
Found at i:36599280 original size:21 final size:21
Alignment explanation
Indices: 36599241--36599281 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
36599231 ATTTTCCTGT
*
36599241 AAAAGATTGAAGGAAATAAAG
1 AAAAGATTGAAAGAAATAAAG
* *
36599262 AAAAGATTTAAAGATATAAA
1 AAAAGATTGAAAGAAATAAA
36599282 AAGTCAGATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (21 bp):
AAAAGATTGAAAGAAATAAAG
Found at i:36601562 original size:3 final size:3
Alignment explanation
Indices: 36601554--36601596 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
36601544 TACTGCATTC
*
36601554 ATG ATG ATG ATG ATG ATG AT- ATT ATG ATG ATG ATG ATG -TG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
36601597 GCTTCAGTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.37
Consensus pattern (3 bp):
ATG
Found at i:36608088 original size:29 final size:29
Alignment explanation
Indices: 36608056--36608125 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
36608046 AATAAAAATC
*
36608056 AATAAAAATTATATAAAT-TATTAAATTTT
1 AATAAAAATTATAAAAATAT-TTAAATTTT
* *
36608085 AATAAAAGAATATAAAAATATTTAATTTTT
1 AATAAAA-ATTATAAAAATATTTAAATTTT
*
36608115 ATTAAAAATTA
1 AATAAAAATTA
36608126 GGAAACAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
29 10 0.29
30 23 0.68
31 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (29 bp):
AATAAAAATTATAAAAATATTTAAATTTT
Found at i:36608307 original size:10 final size:10
Alignment explanation
Indices: 36608278--36608332 Score: 60
Period size: 10 Copynumber: 5.6 Consensus size: 10
36608268 AAAAGAAGCA
36608278 TTTTA-TAAT
1 TTTTATTAAT
36608287 TTTTATATAAT
1 TTTTAT-TAAT
36608298 TTTTATTAAT
1 TTTTATTAAT
* *
36608308 TTTTTTTATT
1 TTTTATTAAT
*
36608318 TTTTA-TCAT
1 TTTTATTAAT
36608327 TTTTAT
1 TTTTAT
36608333 CACATTTCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
9 12 0.32
10 16 0.42
11 10 0.26
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTATTAAT
Found at i:36612849 original size:31 final size:29
Alignment explanation
Indices: 36612780--36612850 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 29
36612770 AAATCCTAAT
*
36612780 TTAAAAA-AATTCAAAGAAATATATAAAA
1 TTAAAAATATTTCAAAGAAATATATAAAA
36612808 TTACATAAATATTTCAAA-AAATATAATATTAAA
1 TTA-A-AAATATTTCAAAGAAATAT-ATA--AAA
36612841 TTAAAAATAT
1 TTAAAAATAT
36612851 AAAAATAAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
28 3 0.08
29 1 0.03
30 9 0.25
31 16 0.44
32 1 0.03
33 6 0.17
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (29 bp):
TTAAAAATATTTCAAAGAAATATATAAAA
Found at i:36614960 original size:14 final size:15
Alignment explanation
Indices: 36614941--36614971 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
36614931 TAATTAAAAC
36614941 AATAAAGT-AAATAA
1 AATAAAGTAAAATAA
36614955 AATAAAGTAAAATAA
1 AATAAAGTAAAATAA
36614970 AA
1 AA
36614972 GAAACTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (15 bp):
AATAAAGTAAAATAA
Found at i:36615016 original size:16 final size:15
Alignment explanation
Indices: 36614978--36615022 Score: 58
Period size: 16 Copynumber: 3.1 Consensus size: 15
36614968 AAAAGAAACT
*
36614978 AAAGAAATAA-AAGA
1 AAAGAAAAAAGAAGA
36614992 AAA-AAAAAAGAAGTA
1 AAAGAAAAAAGAAG-A
36615007 AAAGAAAAAAGAAGA
1 AAAGAAAAAAGAAGA
36615022 A
1 A
36615023 GAGCGGAAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.19
14 6 0.22
15 6 0.22
16 10 0.37
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (15 bp):
AAAGAAAAAAGAAGA
Found at i:36615023 original size:19 final size:20
Alignment explanation
Indices: 36614959--36615016 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
36614949 AAATAAAATA
*
36614959 AAGTAAAATAAAAGAAACTAAAG
1 AAGTAAAAGAAAA-AAA--AAAG
*
36614982 AAATAAAAGAAAAAAAAAAG
1 AAGTAAAAGAAAAAAAAAAG
36615002 AAGTAAAAGAAAAAA
1 AAGTAAAAGAAAAAA
36615017 GAAGAAGAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.56
22 3 0.09
23 11 0.34
ACGTcount: A:0.78, C:0.02, G:0.12, T:0.09
Consensus pattern (20 bp):
AAGTAAAAGAAAAAAAAAAG
Found at i:36615929 original size:44 final size:44
Alignment explanation
Indices: 36615879--36615970 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
36615869 TGCTCAGGGA
*
36615879 TACTTCGACCTT-GAGTTGATAAGGCA-CTATAAGTGTCGTACTGT
1 TACTTCGA-CTTCGAGTCGATAAGGCACCT-TAAGTGTCGTACTGT
* **
36615923 TACTTCGACTTCGAGTCGATGAGGCACCTTGTGTGTCGTACTGT
1 TACTTCGACTTCGAGTCGATAAGGCACCTTAAGTGTCGTACTGT
36615967 TACT
1 TACT
36615971 GTTATTTCGG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 3 0.07
44 37 0.88
45 2 0.05
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (44 bp):
TACTTCGACTTCGAGTCGATAAGGCACCTTAAGTGTCGTACTGT
Done.