Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 57 of 214
Found at i:15923407 original size:13 final size:13
Alignment explanation
Indices: 15923391--15923447 Score: 60
Period size: 13 Copynumber: 4.0 Consensus size: 13
15923381 TCAATTTTGA
15923391 TTTTTTTTTCTTC
1 TTTTTTTTTCTTC
*
15923404 TTTTTTTTTAATTCC
1 TTTTTTTTT-CTT-C
15923419 GAATTTTTTTTTCTTC
1 ---TTTTTTTTTCTTC
15923435 TTTTTTTTTCTTC
1 TTTTTTTTTCTTC
15923448 AATACTAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 22 0.59
14 2 0.05
15 1 0.03
16 1 0.03
17 2 0.05
18 9 0.24
ACGTcount: A:0.07, C:0.14, G:0.02, T:0.77
Consensus pattern (13 bp):
TTTTTTTTTCTTC
Found at i:15923506 original size:12 final size:11
Alignment explanation
Indices: 15923489--15923544 Score: 60
Period size: 12 Copynumber: 4.7 Consensus size: 11
15923479 AATACAAACT
15923489 TTTTTTTTTGAA
1 TTTTTTTTT-AA
15923501 TTTTTTTTTCAAAA
1 TTTTTTTTT---AA
15923515 TTTTTTTTTAA
1 TTTTTTTTTAA
15923526 -TTTTTTTTATA
1 TTTTTTTTTA-A
15923537 TTTTTTTT
1 TTTTTTTT
15923545 ACAATACCGT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
10 9 0.23
11 3 0.08
12 16 0.41
14 11 0.28
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTTTTTTTAA
Found at i:15923506 original size:13 final size:12
Alignment explanation
Indices: 15923488--15923544 Score: 62
Period size: 13 Copynumber: 4.7 Consensus size: 12
15923478 GAATACAAAC
15923488 TTTTTTTTTTGAA
1 TTTTTTTTTT-AA
*
15923501 TTTTTTTTTCAAA
1 TTTTTTTTT-TAA
*
15923514 ATTTTTTTTTAA
1 TTTTTTTTTTAA
*
15923526 TTTTTTTTAT-A
1 TTTTTTTTTTAA
15923537 TTTTTTTT
1 TTTTTTTT
15923545 ACAATACCGT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
11 9 0.24
12 10 0.26
13 19 0.50
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (12 bp):
TTTTTTTTTTAA
Found at i:15923529 original size:10 final size:11
Alignment explanation
Indices: 15923516--15923545 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
15923506 TTTTCAAAAT
15923516 TTTTTTTTA-A
1 TTTTTTTTATA
15923526 TTTTTTTTATA
1 TTTTTTTTATA
15923537 TTTTTTTTA
1 TTTTTTTTA
15923546 CAATACCGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTTTATA
Found at i:15925822 original size:22 final size:22
Alignment explanation
Indices: 15925792--15925835 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15925782 TTTGGTATTT
15925792 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
15925814 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
15925836 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:15927348 original size:13 final size:12
Alignment explanation
Indices: 15927315--15927345 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
15927305 TAGTTTCTCG
*
15927315 AAAAAAACTCAA
1 AAAAAAATTCAA
15927327 AAAAAAATTCAA
1 AAAAAAATTCAA
15927339 AAAAAAA
1 AAAAAAA
15927346 ATTTGGTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.81, C:0.10, G:0.00, T:0.10
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:15927409 original size:14 final size:14
Alignment explanation
Indices: 15927385--15927424 Score: 73
Period size: 13 Copynumber: 2.9 Consensus size: 14
15927375 GGATATCAAG
15927385 TTGTGAAAAAAAAA
1 TTGTGAAAAAAAAA
15927399 TT-TGAAAAAAAAA
1 TTGTGAAAAAAAAA
15927412 TTGTGAAAAAAAA
1 TTGTGAAAAAAAA
15927425 GGAGAGCTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.23
Consensus pattern (14 bp):
TTGTGAAAAAAAAA
Found at i:15933569 original size:20 final size:20
Alignment explanation
Indices: 15933533--15933582 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
15933523 TCGTATCAGA
15933533 ATTGTAGCT-AAATTGAGCTC
1 ATTG-AGCTGAAATTGAGCTC
15933553 GATTGAGCTGAAA-TGAGCTC
1 -ATTGAGCTGAAATTGAGCTC
15933573 ATTTGAGCTG
1 A-TTGAGCTG
15933583 GTCGGAGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 1 0.04
20 19 0.70
21 7 0.26
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (20 bp):
ATTGAGCTGAAATTGAGCTC
Found at i:15938576 original size:20 final size:20
Alignment explanation
Indices: 15938553--15938599 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
15938543 GGGTTAAGAT
*
15938553 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
15938573 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
15938593 TGAGCTG
1 TGAGCTG
15938600 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:15940324 original size:48 final size:48
Alignment explanation
Indices: 15940269--15940374 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
15940259 TTGTCTTTTC
*
15940269 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
15940317 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
15940365 TTTCTTTTTC
1 TTTCTTTTTC
15940375 CACGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:15941464 original size:13 final size:14
Alignment explanation
Indices: 15941394--15941467 Score: 53
Period size: 14 Copynumber: 5.2 Consensus size: 14
15941384 CTCGCAAGAC
15941394 TTTTCACTTTTTTT
1 TTTTCACTTTTTTT
* *
15941408 TTCTT-TCTTCTTTT
1 TT-TTCACTTTTTTT
* *
15941422 TTTTAACTCGATTTTT
1 TTTTCACT--TTTTTT
* *
15941438 TTGTCACTTCTTTT
1 TTTTCACTTTTTTT
15941452 TTTTC-CTTTTTTT
1 TTTTCACTTTTTTT
15941465 TTT
1 TTT
15941468 GAAATTTTTT
Statistics
Matches: 45, Mismatches: 11, Indels: 9
0.69 0.17 0.14
Matches are distributed among these distances:
13 12 0.27
14 21 0.47
15 2 0.04
16 10 0.22
ACGTcount: A:0.07, C:0.16, G:0.03, T:0.74
Consensus pattern (14 bp):
TTTTCACTTTTTTT
Found at i:15942929 original size:20 final size:20
Alignment explanation
Indices: 15942906--15942952 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
15942896 GGGTTAAGAT
*
15942906 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
15942926 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
15942946 TGAGCTG
1 TGAGCTG
15942953 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:15943990 original size:12 final size:12
Alignment explanation
Indices: 15943958--15943995 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
15943948 CTTTTTTTTC
*
15943958 TTTTTTTTCG-A
1 TTTTTTTTTGAA
15943969 TTTTTTTTTGAA
1 TTTTTTTTTGAA
15943981 TTTTTTTTTGAA
1 TTTTTTTTTGAA
15943993 TTT
1 TTT
15943996 CTTCTCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 9 0.36
12 16 0.64
ACGTcount: A:0.13, C:0.03, G:0.08, T:0.76
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:15948129 original size:10 final size:10
Alignment explanation
Indices: 15948116--15948153 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
15948106 AAGAAGCTAA
15948116 ATTGAGCTCG
1 ATTGAGCTCG
15948126 ATTGAGCT-G
1 ATTGAGCTCG
15948135 ACTTGAGCTCG
1 A-TTGAGCTCG
*
15948146 AGTGAGCT
1 ATTGAGCT
15948154 GGAAACGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (10 bp):
ATTGAGCTCG
Found at i:15948140 original size:20 final size:20
Alignment explanation
Indices: 15948117--15948154 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15948107 AGAAGCTAAA
*
15948117 TTGAGCTCGATTGAGCTGAC
1 TTGAGCTCGAGTGAGCTGAC
15948137 TTGAGCTCGAGTGAGCTG
1 TTGAGCTCGAGTGAGCTG
15948155 GAAACGAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.29
Consensus pattern (20 bp):
TTGAGCTCGAGTGAGCTGAC
Found at i:15950839 original size:16 final size:15
Alignment explanation
Indices: 15950820--15950873 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 15
15950810 TTAACTTGAT
15950820 TTTTTTTTTGCTCACC
1 TTTTTTTTTGCTCA-C
15950836 TTTTTTTTTTGCTCGA-
1 -TTTTTTTTTGCTC-AC
15950852 TTTTTTTTT--TCAC
1 TTTTTTTTTGCTCAC
15950865 TTTTTTTTT
1 TTTTTTTTT
15950874 TGAATTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
12 1 0.03
13 11 0.31
15 9 0.26
17 13 0.37
18 1 0.03
ACGTcount: A:0.06, C:0.15, G:0.06, T:0.74
Consensus pattern (15 bp):
TTTTTTTTTGCTCAC
Found at i:15950839 original size:17 final size:16
Alignment explanation
Indices: 15950817--15950861 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
15950807 TTTTTAACTT
15950817 GATTTTTTTTTTGCTC
1 GATTTTTTTTTTGCTC
15950833 -ACCTTTTTTTTTTGCTC
1 GA--TTTTTTTTTTGCTC
15950850 GATTTTTTTTTT
1 GATTTTTTTTTT
15950862 CACTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.04
16 10 0.38
17 14 0.54
18 1 0.04
ACGTcount: A:0.07, C:0.13, G:0.09, T:0.71
Consensus pattern (16 bp):
GATTTTTTTTTTGCTC
Found at i:15950923 original size:13 final size:13
Alignment explanation
Indices: 15950852--15950928 Score: 64
Period size: 13 Copynumber: 5.5 Consensus size: 13
15950842 TTTTGCTCGA
* *
15950852 TTTTTTTTTTCAC
1 TTTTTTTTTTGAT
15950865 TTTTTTTTTTGAAT
1 TTTTTTTTTTG-AT
**
15950879 TTTTTTTTCAATCAAT
1 TTTTTTTT---TTGAT
*
15950895 TTTTTTTTTCGAAT
1 TTTTTTTTTTG-AT
15950909 TTTTTTTTTTGAT
1 TTTTTTTTTTGAT
15950922 TTTTTTT
1 TTTTTTT
15950929 GTTACTCCAA
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
13 21 0.40
14 21 0.40
16 10 0.19
17 1 0.02
ACGTcount: A:0.13, C:0.06, G:0.04, T:0.77
Consensus pattern (13 bp):
TTTTTTTTTTGAT
Found at i:15952685 original size:10 final size:10
Alignment explanation
Indices: 15952672--15952709 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
15952662 AAGAAGCTAA
15952672 ATTGAGCTCG
1 ATTGAGCTCG
15952682 ATTGAGCT-G
1 ATTGAGCTCG
15952691 ACTTGAGCTCG
1 A-TTGAGCTCG
*
15952702 AGTGAGCT
1 ATTGAGCT
15952710 GGAAACGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (10 bp):
ATTGAGCTCG
Found at i:15952696 original size:20 final size:20
Alignment explanation
Indices: 15952673--15952710 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15952663 AGAAGCTAAA
*
15952673 TTGAGCTCGATTGAGCTGAC
1 TTGAGCTCGAGTGAGCTGAC
15952693 TTGAGCTCGAGTGAGCTG
1 TTGAGCTCGAGTGAGCTG
15952711 GAAACGAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.29
Consensus pattern (20 bp):
TTGAGCTCGAGTGAGCTGAC
Found at i:15953676 original size:23 final size:22
Alignment explanation
Indices: 15953624--15953676 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
15953614 TCCACGTCTT
*
15953624 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
15953646 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
15953669 TTTCTTTT
1 TTTCTTTT
15953677 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:15953701 original size:27 final size:27
Alignment explanation
Indices: 15953671--15953722 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
15953661 TTCTTCAATT
15953671 TCTTTTTCACTCTCAATCTCTTTTTGC
1 TCTTTTTCACTCTCAATCTCTTTTTGC
* **
15953698 TCTTTTTCATTCTCTTTCTCTTTTT
1 TCTTTTTCACTCTCAATCTCTTTTT
15953723 CCTCACTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.08, C:0.27, G:0.02, T:0.63
Consensus pattern (27 bp):
TCTTTTTCACTCTCAATCTCTTTTTGC
Found at i:15958595 original size:22 final size:22
Alignment explanation
Indices: 15958565--15958608 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15958555 TTTGGTATTT
15958565 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
15958587 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
15958609 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:15960120 original size:13 final size:12
Alignment explanation
Indices: 15960084--15960119 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
15960074 ATAGTAGTTT
15960084 CTCAAAAAAAAA
1 CTCAAAAAAAAA
15960096 CTCAAAAAAAAA
1 CTCAAAAAAAAA
*
15960108 TTCAAAAAAAAA
1 CTCAAAAAAAAA
15960120 AATTTGGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.75, C:0.14, G:0.00, T:0.11
Consensus pattern (12 bp):
CTCAAAAAAAAA
Found at i:15960184 original size:14 final size:15
Alignment explanation
Indices: 15960160--15960200 Score: 68
Period size: 14 Copynumber: 2.9 Consensus size: 15
15960150 GGATATCAAG
15960160 TTGTG-AAAAAAAAA
1 TTGTGAAAAAAAAAA
15960174 TT-TGAAAAAAAAAA
1 TTGTGAAAAAAAAAA
15960188 TTGTGAAAAAAAA
1 TTGTGAAAAAAAA
15960201 GAGAGCTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 2 0.08
14 13 0.52
15 10 0.40
ACGTcount: A:0.66, C:0.00, G:0.12, T:0.22
Consensus pattern (15 bp):
TTGTGAAAAAAAAAA
Found at i:15966373 original size:15 final size:14
Alignment explanation
Indices: 15966337--15966391 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
15966327 TCTATTGATC
15966337 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
15966351 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
15966365 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
15966380 GAAAGAAAAGAA
1 GAGA-AAAAGAA
15966392 TGAGGAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:15972467 original size:14 final size:14
Alignment explanation
Indices: 15972447--15972496 Score: 77
Period size: 13 Copynumber: 3.7 Consensus size: 14
15972437 ATCAAGTTGC
*
15972447 GAAAAAAACATT-T
1 GAAAAAAAAATTGT
15972460 GAAAAAAAAATTGT
1 GAAAAAAAAATTGT
15972474 G-AAAAAAAATTGT
1 GAAAAAAAAATTGT
15972487 GAAAAAAAAA
1 GAAAAAAAAA
15972497 GAGAGCTAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
13 24 0.71
14 10 0.29
ACGTcount: A:0.68, C:0.02, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAAAAAATTGT
Found at i:15973576 original size:18 final size:17
Alignment explanation
Indices: 15973562--15973603 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
15973552 CAAAGAGATT
15973562 GTGGAAAAGAAAGAGAA
1 GTGGAAAAGAAAGAGAA
* *
15973579 GTTGAAAAGAAA-CG-A
1 GTGGAAAAGAAAGAGAA
15973594 GTGGAAAAGA
1 GTGGAAAAGA
15973604 TGAAAGTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 10 0.45
16 1 0.05
17 11 0.50
ACGTcount: A:0.55, C:0.02, G:0.33, T:0.10
Consensus pattern (17 bp):
GTGGAAAAGAAAGAGAA
Found at i:15976123 original size:21 final size:21
Alignment explanation
Indices: 15976078--15976140 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
15976068 TTTGAACCAT
* * *
15976078 TACCAATTCGTACAAAATACCA
1 TACCATTTCGTAC-CAATTCCA
15976100 TACCATTTCGTACCAATTCCA
1 TACCATTTCGTACCAATTCCA
15976121 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
15976141 CAAATACCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
21 26 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:15978008 original size:20 final size:20
Alignment explanation
Indices: 15977983--15978027 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
15977973 GCGAAAATAC
*
15977983 AAAAGAAAAGAAAAATGAAA
1 AAAAGAAAAGAAAAATCAAA
*
15978003 AAAAG-AAAGAAAATTCAAA
1 AAAAGAAAAGAAAAATCAAA
15978022 AAAAGA
1 AAAAGA
15978028 GAATGAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.78, C:0.02, G:0.13, T:0.07
Consensus pattern (20 bp):
AAAAGAAAAGAAAAATCAAA
Found at i:15982104 original size:20 final size:21
Alignment explanation
Indices: 15982059--15982104 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
15982049 GCTCGTTTCC
*
15982059 AGCTCACTCGAGCTCAAGTCT
1 AGCTCACTCAAGCTCAAGTCT
*
15982080 A-CTCACTCAAGCTCAA-TTT
1 AGCTCACTCAAGCTCAAGTCT
15982099 AGCTCA
1 AGCTCA
15982105 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 3 0.14
20 18 0.82
21 1 0.05
ACGTcount: A:0.28, C:0.33, G:0.13, T:0.26
Consensus pattern (21 bp):
AGCTCACTCAAGCTCAAGTCT
Found at i:15983471 original size:20 final size:20
Alignment explanation
Indices: 15983448--15983494 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
15983438 GGGTTAAGAT
* *
15983448 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAA
* *
15983468 TGAGTTGACTTGAGCTCGAA
1 TGAGCTGAATTGAGCTCGAA
15983488 TGAGCTG
1 TGAGCTG
15983495 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:15986157 original size:21 final size:21
Alignment explanation
Indices: 15986112--15986174 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
15986102 TTTGAACCAC
* * *
15986112 TACCAATTCGTACCAAATACCA
1 TACCATTTCATACC-AATTCCA
*
15986134 TACCGTTTCATACCAATTCCA
1 TACCATTTCATACCAATTCCA
*
15986155 TACCATTTCGTACCAATTCC
1 TACCATTTCATACCAATTCC
15986175 CACATACCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
21 24 0.69
22 11 0.31
ACGTcount: A:0.32, C:0.33, G:0.05, T:0.30
Consensus pattern (21 bp):
TACCATTTCATACCAATTCCA
Found at i:15989230 original size:11 final size:12
Alignment explanation
Indices: 15989207--15989233 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
15989197 AAAAAAATCG
15989207 AAATTCAAAAAA
1 AAATTCAAAAAA
15989219 AAATTCAAAAAA
1 AAATTCAAAAAA
15989231 AAA
1 AAA
15989234 GAAAAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (12 bp):
AAATTCAAAAAA
Found at i:15989265 original size:9 final size:9
Alignment explanation
Indices: 15989251--15989285 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 9
15989241 AGAAGTGAGC
15989251 AAAAAAGAA
1 AAAAAAGAA
15989260 AAAAAAGTAA
1 AAAAAAG-AA
15989270 AAAAAAGAA
1 AAAAAAGAA
15989279 GAAAAAA
1 -AAAAAA
15989286 AAGTGAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:15989288 original size:22 final size:22
Alignment explanation
Indices: 15989226--15989294 Score: 79
Period size: 21 Copynumber: 3.2 Consensus size: 22
15989216 AAAAAATTCA
*
15989226 AAAAAAAAGAA-AAAAAGAAGT
1 AAAAAAAAGAAGAAAAAAAAGT
* **
15989247 GAGCAAAA-AAGAAAAAAAAGT
1 AAAAAAAAGAAGAAAAAAAAGT
15989268 AAAAAAAAGAAGAAAAAAAAGT
1 AAAAAAAAGAAGAAAAAAAAGT
*
15989290 GAAAA
1 AAAAA
15989295 GTCTTGCGAG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
20 2 0.05
21 19 0.50
22 17 0.45
ACGTcount: A:0.78, C:0.01, G:0.16, T:0.04
Consensus pattern (22 bp):
AAAAAAAAGAAGAAAAAAAAGT
Found at i:15989660 original size:22 final size:22
Alignment explanation
Indices: 15989609--15989674 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
15989599 GGTATTTGGG
* *
15989609 AATTGGTTCGAAATAGTATGG-
1 AATTGGTACGAAATGGTATGGT
15989630 AATTGGTACGAAATGGTATGGT
1 AATTGGTACGAAATGGTATGGT
* *
15989652 ATTTGGTACGAATTGGTAATGGT
1 AATTGGTACGAAATGGT-ATGGT
15989675 TGAAAAGGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 19 0.49
22 15 0.38
23 5 0.13
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (22 bp):
AATTGGTACGAAATGGTATGGT
Found at i:16011082 original size:27 final size:27
Alignment explanation
Indices: 16011043--16011220 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
16011033 ACATTGAGCC
* * * *
16011043 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * *
16011070 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
**
16011097 CGCACACTTAGTGCTACATAGTCAGGCT
1 CGCACACTTAGTGCTACATAGTCA-AAT
** * *
16011125 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
16011152 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
* *
16011179 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
16011206 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
16011221 GTACAATTTA
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 99 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:16011156 original size:82 final size:81
Alignment explanation
Indices: 16011064--16011219 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
16011054 TGCTATATAA
* * * **
16011064 TCAACTCGCACACTTAGTGCCA-CGTAATCAAATCGCACACTTAGTGCTACATAGTCAGGCTCGC
1 TCAACTCGCACACTTAGTG-CATCATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGC
16011128 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
16011146 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCAC
1 TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
*
16011211 CCTTAGTGC
66 ACTTAGTGC
16011220 TGTACAATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:16017738 original size:27 final size:27
Alignment explanation
Indices: 16017707--16017884 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
16017697 TAAATTGTGC
16017707 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
16017734 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
16017760 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
16017788 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
16017816 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
16017843 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
16017870 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16017885 GACTCAATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:16017821 original size:82 final size:81
Alignment explanation
Indices: 16017708--16017863 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
16017698 AAATTGTGCA
*
16017708 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
16017772 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
16017789 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
16017854 TGCGAGTTGA
65 TGCGAATTGA
16017864 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:16017875 original size:82 final size:81
Alignment explanation
Indices: 16017706--16017884 Score: 234
Period size: 82 Copynumber: 2.2 Consensus size: 81
16017696 TTAAATTGTG
*
16017706 CAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGT
1 CAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGT
*
16017771 GTGCGAATTGACCATG
66 GTGCGAATTGACCATA
* ** *
16017787 CGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACTAA
1 CAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACTAA
* **
16017851 GTGTGCGAGTTGATTATA
64 GTGTGCGAATTGACCATA
* *
16017869 TAGCACTGAGTGTGCG
1 CAGCACTAAGTGTGCG
16017885 GACTCAATAT
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
81 17 0.20
82 67 0.80
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
CAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGT
GTGCGAATTGACCATA
Found at i:16025873 original size:27 final size:27
Alignment explanation
Indices: 16025842--16026019 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
16025832 TAAATTGTGC
16025842 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
16025869 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
16025895 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
16025923 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
16025951 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
16025978 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
16026005 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16026020 GACTCAATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:16025956 original size:82 final size:81
Alignment explanation
Indices: 16025843--16025998 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
16025833 AAATTGTGCA
*
16025843 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
16025907 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
16025924 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
16025989 TGCGAGTTGA
65 TGCGAATTGA
16025999 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:16026010 original size:82 final size:81
Alignment explanation
Indices: 16025841--16026019 Score: 234
Period size: 82 Copynumber: 2.2 Consensus size: 81
16025831 TTAAATTGTG
*
16025841 CAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGT
1 CAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGT
*
16025906 GTGCGAATTGACCATG
66 GTGCGAATTGACCATA
* ** *
16025922 CGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACTAA
1 CAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACTAA
* **
16025986 GTGTGCGAGTTGATTATA
64 GTGTGCGAATTGACCATA
* *
16026004 TAGCACTGAGTGTGCG
1 CAGCACTAAGTGTGCG
16026020 GACTCAATAT
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
81 17 0.20
82 67 0.80
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
CAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGT
GTGCGAATTGACCATA
Found at i:16036006 original size:98 final size:98
Alignment explanation
Indices: 16035888--16036065 Score: 231
Period size: 98 Copynumber: 1.8 Consensus size: 98
16035878 ACATCTAAGT
* *
16035888 CGATGTCATGTCCAAGACAGGTCTTACA-TAGACT-TCCATAC-ACCGAG-GCTGATGCCATGTC
1 CGATGCCATGTCCAAGACAGGTCTTACACT-GACTCT-CAT-CGACCG-GTGCCGATGCCATGTC
*
16035949 CCAGATAGGTCTTACACTAGATTGCGTATCTTGAGGC
62 CCAGACAGGTCTTACACTAGATTGCGTATCTTGAGGC
* *
16035986 CGATGCCATGTCCCAA-ACAGGTCTTACACTGGCTCTCATCGATCGGTGCCGATGCCATGTCCCA
1 CGATGCCATGT-CCAAGACAGGTCTTACACTGACTCTCATCGACCGGTGCCGATGCCATGTCCCA
16036050 GACAGGTCTTACACTA
65 GACAGGTCTTACACTA
16036066 CCACACACAT
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
97 2 0.03
98 62 0.89
99 6 0.09
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (98 bp):
CGATGCCATGTCCAAGACAGGTCTTACACTGACTCTCATCGACCGGTGCCGATGCCATGTCCCAG
ACAGGTCTTACACTAGATTGCGTATCTTGAGGC
Found at i:16040736 original size:27 final size:27
Alignment explanation
Indices: 16040706--16040880 Score: 190
Period size: 27 Copynumber: 6.4 Consensus size: 27
16040696 ATTGTACAGG
*
16040706 ACTAAGTGTGCGATTTGACTATGTTGC
1 ACTAAGTGTGCGATTTGACTATGTAGC
** *
16040733 ACTAAGTGTGCGAAATGAATATG-ATGC
1 ACTAAGTGTGCGATTTGACTATGTA-GC
* * **
16040760 ACTAAGTGTGCGAATTGACCATGCGGC
1 ACTAAGTGTGCGATTTGACTATGTAGC
16040787 ACTAAGTGTGCGAGTTTGACTATGTAGC
1 ACTAAGTGTGCGA-TTTGACTATGTAGC
* * *
16040815 ACTAAGTGTGCGATTTGATTACGTAGA
1 ACTAAGTGTGCGATTTGACTATGTAGC
* * *
16040842 ACTAAGTGTGCGAGTTGATTATATAGC
1 ACTAAGTGTGCGATTTGACTATGTAGC
*
16040869 ACTGAGTGTGCG
1 ACTAAGTGTGCG
16040881 GACTCAATAT
Statistics
Matches: 125, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.30
Consensus pattern (27 bp):
ACTAAGTGTGCGATTTGACTATGTAGC
Found at i:16040846 original size:82 final size:81
Alignment explanation
Indices: 16040706--16040859 Score: 220
Period size: 82 Copynumber: 1.9 Consensus size: 81
16040696 ATTGTACAGG
* * *
16040706 ACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGC
1 ACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGAACTAAGTGTGC
16040771 GAATTGACCATGCGGC
66 GAATTGACCATGCGGC
** *
16040787 ACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGAACTAAGTGT
1 ACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GAACTAAGTGT
*
16040851 GCGAGTTGA
64 GCGAATTGA
16040860 TTATATAGCA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
81 14 0.22
82 50 0.78
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (81 bp):
ACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGAACTAAGTGTGC
GAATTGACCATGCGGC
Found at i:16040871 original size:82 final size:81
Alignment explanation
Indices: 16040700--16040880 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
16040690 GATTAAATTG
* * * *
16040700 TACAGGACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGAACTAA
16040765 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
16040781 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGAACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GAACT
* **
16040845 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
16040863 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
16040881 GACTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGAACTAA
GTGTGCGAATTGACCA
Found at i:16048233 original size:27 final size:27
Alignment explanation
Indices: 16048202--16048379 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
16048192 TAAATTGTAC
16048202 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
16048229 TGCACTAAGTGTACGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
16048255 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
16048283 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
16048311 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
16048338 AGCACTAAGTGTGAGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
16048365 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16048380 GACTCAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:16048370 original size:82 final size:81
Alignment explanation
Indices: 16048199--16048379 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
16048189 GATTAAATTG
* *
16048199 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTACGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAATGAATACGATGCACTAA
*
16048264 GTGTGCGAATTGACCA
66 GTGTGAGAATTGACCA
* * * ** *
16048280 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTACGAAATGAATACGAT-GCACT
* **
16048344 AAGTGTGAGAGTTGATTA
64 AAGTGTGAGAATTGACCA
* *
16048362 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
16048380 GACTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAATGAATACGATGCACTAA
GTGTGAGAATTGACCA
Found at i:16051529 original size:93 final size:93
Alignment explanation
Indices: 16051370--16051540 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
16051360 GCCCCTAAGT
* *
16051370 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16051435 CGAGTTCGGATGCCTGGTTACATCTCAC
66 CGAGTTCGGATGCCTGGTTACATCTCAC
* * *
16051463 GAACTTGGACTTAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16051528 CGAGTTCGGATGC
66 CGAGTTCGGATGC
16051541 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTGGTTACATCTCAC
Found at i:16051537 original size:46 final size:46
Alignment explanation
Indices: 16051365--16051537 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
16051355 AACCCGCCCC
* * *
16051365 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* **
16051411 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTGGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CAT--TCGCATCCA
* * * *
16051459 TCA-CGAACTTGGACTTAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
16051504 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
16051538 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 4 0.04
46 59 0.57
47 27 0.26
48 4 0.04
49 1 0.01
50 4 0.04
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:16063651 original size:46 final size:44
Alignment explanation
Indices: 16063595--16063761 Score: 203
Period size: 46 Copynumber: 3.7 Consensus size: 44
16063585 TCGAGGCTGG
16063595 TGCATGTCCCAGACATGTCTTACACTAGCTGTCGTCTCAATGCCGA
1 TGCATGTCCCAGACATGTCTTACACTAGCT-TC-TCTCAATGCCGA
*
16063641 TGCATGTCCCAAACATGTCTTACACTAGCTCTCATCTCAATGCCGA
1 TGCATGTCCCAGACATGTCTTACACTAGCT-TC-TCTCAATGCCGA
* *
16063687 TGCATATCCCAGACATGTCTTACACTGGC-TCTCAT-AATGTGGCCGA
1 TGCATGTCCCAGACATGTCTTACACTAGCTTCTC-TCAA--T-GCCGA
* *
16063733 TTCATGTCCTAGACATGTCTTACACTAGC
1 TGCATGTCCCAGACATGTCTTACACTAGC
16063762 ACACAATCAC
Statistics
Matches: 107, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
43 4 0.04
44 3 0.03
45 1 0.01
46 99 0.93
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (44 bp):
TGCATGTCCCAGACATGTCTTACACTAGCTTCTCTCAATGCCGA
Found at i:16067534 original size:22 final size:21
Alignment explanation
Indices: 16067493--16067534 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
16067483 GAGAAAGTGA
*
16067493 AATTAAATTGAGTTGCGAATG
1 AATTAAATTGAATTGCGAATG
16067514 AATTGAAATTGAAATTG-GAAT
1 AATT-AAATTG-AATTGCGAAT
16067535 TGGATAGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 4 0.22
22 10 0.56
23 4 0.22
ACGTcount: A:0.43, C:0.02, G:0.21, T:0.33
Consensus pattern (21 bp):
AATTAAATTGAATTGCGAATG
Found at i:16069278 original size:26 final size:26
Alignment explanation
Indices: 16069249--16069382 Score: 259
Period size: 26 Copynumber: 5.2 Consensus size: 26
16069239 TGATACAAAT
16069249 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
16069275 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16069301 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16069327 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16069353 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16069379 TGAT
1 TGAT
16069383 TGGAATTTCA
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:16076337 original size:26 final size:26
Alignment explanation
Indices: 16076308--16076389 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
16076298 TGATACAAAT
16076308 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
16076334 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16076360 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16076386 TGAT
1 TGAT
16076390 TGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:16077930 original size:26 final size:25
Alignment explanation
Indices: 16077878--16077930 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 25
16077868 TTTACAGTTT
16077878 TACCCCTAGTAGGTAAATTACCGAAA
1 TACCCCTAG-AGGTAAATTACCGAAA
*
16077904 TACCCCTAG-GGTTAAATTGACCTAAA
1 TACCCCTAGAGG-TAAATT-ACCGAAA
16077930 T
1 T
16077931 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.08
25 6 0.25
26 16 0.67
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (25 bp):
TACCCCTAGAGGTAAATTACCGAAA
Found at i:16081134 original size:25 final size:25
Alignment explanation
Indices: 16081105--16081156 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
16081095 AAGAATAATT
** *
16081105 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCCGATATTGCATAATAAA
*
16081130 TGAATATCCGATATTGCATAGTAAA
1 TGAATATCCGATATTGCATAATAAA
16081155 TG
1 TG
16081157 TCAAGCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (25 bp):
TGAATATCCGATATTGCATAATAAA
Found at i:16082775 original size:42 final size:42
Alignment explanation
Indices: 16082675--16082819 Score: 152
Period size: 43 Copynumber: 3.4 Consensus size: 42
16082665 AGCTCGTACA
* * * * *
16082675 ATGCCAATGTCCCAAACATGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACAGGGTCTTACACGAAATCAAATA-CG
16082718 ATGCC-ACTGTCCCAGACAGGGTCTTACACGAAATCAAATACG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACACGAAATCAAATACG
*
16082760 ATGCCAACGTCCCAGAC-GTGGTCTTACACATAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACAG-GGTCTTACAC-GAAATCA-AA-TACG
*
16082804 ATGCCAACATCCCAGA
1 ATGCCAACGTCCCAGA
16082820 TGTAGTCTTC
Statistics
Matches: 89, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.01
42 27 0.30
43 41 0.46
44 19 0.21
45 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACGAAATCAAATACG
Found at i:16086377 original size:47 final size:47
Alignment explanation
Indices: 16086326--16086766 Score: 675
Period size: 47 Copynumber: 9.4 Consensus size: 47
16086316 GATGTACAAG
* *
16086326 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * *
16086373 GTGTGTATATGTTATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
16086420 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
16086467 GTGTATATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
16086514 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
16086561 GTGTATATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * *
16086608 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * *
16086655 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* ** *
16086702 GTGTATATATGAGATAAAACCTAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
16086749 GTGAATAAATGTGATAAG
1 GTGTATATATGTGATAAG
16086767 TCCCGAAGGG
Statistics
Matches: 365, Mismatches: 29, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 365 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
Found at i:16086503 original size:22 final size:22
Alignment explanation
Indices: 16086475--16086597 Score: 68
Period size: 22 Copynumber: 5.3 Consensus size: 22
16086465 AAGTGTATAT
16086475 ATGTGATAAGGCCAAATGGCCA
1 ATGTGATAAGGCCAAATGGCCA
* ** *
16086497 ATGTGATGAATGTGAAAGTGTG-TA
1 ATGTGAT-AAGGCCAAA-TG-GCCA
* *
16086521 TATGTGATAAGGCCTAATGGCCG
1 -ATGTGATAAGGCCAAATGGCCA
* ** ***
16086544 ATGTGATGAATGTGAAAGTGTATA
1 ATGTGAT-AAGGCCAAA-TGGCCA
16086568 TATGTGATAAGGCCAAATGGCCA
1 -ATGTGATAAGGCCAAATGGCCA
16086591 ATGTGAT
1 ATGTGAT
16086598 GAATGTGAAA
Statistics
Matches: 69, Mismatches: 24, Indels: 16
0.63 0.22 0.15
Matches are distributed among these distances:
22 22 0.32
23 16 0.23
24 16 0.23
25 15 0.22
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCAAATGGCCA
Found at i:16090332 original size:40 final size:40
Alignment explanation
Indices: 16090225--16090441 Score: 253
Period size: 40 Copynumber: 5.5 Consensus size: 40
16090215 CGGATGATAA
* * *
16090225 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-T
* *
16090265 CCGGGCTAAG-CCCGAAGGCAATT-GTGCGAGTTATTATAC
1 CCGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATAT
* * *
16090304 CCGGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
*
16090344 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* * * *
16090384 CCGGGCTATGTCCCGAAGCCATTCGAGCGAGTAACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
16090424 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
16090442 TACTTGGCTT
Statistics
Matches: 153, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
39 43 0.28
40 110 0.72
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:16090391 original size:80 final size:79
Alignment explanation
Indices: 16090225--16090441 Score: 244
Period size: 79 Copynumber: 2.7 Consensus size: 79
16090215 CGGATGATAA
* * * * *
16090225 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAG-CCCGAAGGCAATTG
1 CCGGGCTAATTCCCGAAGGCATTCGTGCGAGT-AATTATTCCGGGCTAAGTCCCGAAGGCAATTG
*
16090289 TGCGAGTTATTATAC
65 TGCGAGTTACTATAC
*
16090304 CCGGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATGTCCGGGCTAAGTCCCGAAGGC-ATTG
1 CCGGGCTAATTCCCGAAGGCATTCGTGCGAGTAATTAT-TCCGGGCTAAGTCCCGAAGGCAATT-
*
16090368 GTGCGAGTTACTATAT
64 GTGCGAGTTACTATAC
* * * * *
16090384 CCGGGCT-ATGTCCCGAAGCCATTCGAGCGAGTAACTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAT-TCCCGAAGGCATTCGTGCGAGTAATTAT-TCCGGGCTAAGTCCCGAAGG
16090442 TACTTGGCTT
Statistics
Matches: 119, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
78 3 0.03
79 59 0.50
80 57 0.48
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAATTCCCGAAGGCATTCGTGCGAGTAATTATTCCGGGCTAAGTCCCGAAGGCAATTGT
GCGAGTTACTATAC
Found at i:16090437 original size:119 final size:119
Alignment explanation
Indices: 16090225--16090441 Score: 287
Period size: 119 Copynumber: 1.8 Consensus size: 119
16090215 CGGATGATAA
* * *
16090225 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAATTGT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAATTGA
* * *
16090290 GCGAGTTATTATACCCGGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATGT
66 GCGAGTAACTATACCCGGGCTAAATCCCGAAGGCATTCGTGCGAGTTATTATGT
* * *
16090344 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT-ATATCCGGGCTATGTCCCGAA-GCCATT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAAT-TCCGGGCTAAG-CCCGAAGGCAATT
* *
16090407 CGAGCGAGTAACTATATCC-GGTTAAATCCCGAAGG
64 -GAGCGAGTAACTATACCCGGGCTAAATCCCGAAGG
16090442 TACTTGGCTT
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
118 2 0.02
119 62 0.74
120 20 0.24
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAATTGA
GCGAGTAACTATACCCGGGCTAAATCCCGAAGGCATTCGTGCGAGTTATTATGT
Found at i:16101777 original size:25 final size:25
Alignment explanation
Indices: 16101748--16101799 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
16101738 AAGAATAATT
*
16101748 TGAATATCCGATATTGCCTAATAAA
1 TGAATATACGATATTGCCTAATAAA
* *
16101773 TGAATATACGATATTGCTTAGTAAA
1 TGAATATACGATATTGCCTAATAAA
16101798 TG
1 TG
16101800 TCAAGCCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (25 bp):
TGAATATACGATATTGCCTAATAAA
Found at i:16103552 original size:23 final size:23
Alignment explanation
Indices: 16103501--16103584 Score: 93
Period size: 23 Copynumber: 3.8 Consensus size: 23
16103491 GCTTTGCCGA
* * *
16103501 TCAGGAACTTTTTGTGTCGTATA
1 TCAGGCACTTTATGTGTCGTATT
16103524 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
* **
16103547 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACTTTATGTGTCGTATT
16103569 T-AGGCAC-TTATGTGTC
1 TCAGGCACTTTATGTGTC
16103585 ATATACTGAT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
20 7 0.13
21 6 0.11
22 3 0.06
23 37 0.70
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:16106459 original size:11 final size:11
Alignment explanation
Indices: 16106443--16106467 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16106433 ATATCTAGAA
16106443 TTCTCTTCATT
1 TTCTCTTCATT
16106454 TTCTCTTCATT
1 TTCTCTTCATT
16106465 TTC
1 TTC
16106468 ATCAGCTGAA
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:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTCTTCATT
Found at i:16107783 original size:17 final size:17
Alignment explanation
Indices: 16107761--16107794 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
16107751 AAATGTCAAG
16107761 CCAAATATAAAAAAAAT
1 CCAAATATAAAAAAAAT
*
16107778 CCAAATATAAGAAAAAT
1 CCAAATATAAAAAAAAT
16107795 ATGTTATAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.12, G:0.03, T:0.18
Consensus pattern (17 bp):
CCAAATATAAAAAAAAT
Found at i:16109084 original size:21 final size:21
Alignment explanation
Indices: 16109054--16109102 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
16109044 TATCACAAAC
16109054 CACATA-ATTCATATACATTT-
1 CACATATATTCA-ATACATTTG
* *
16109074 CCCATATATTCAATTCATTTG
1 CACATATATTCAATACATTTG
16109095 CACATATA
1 CACATATA
16109103 GCACATTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.37, C:0.22, G:0.02, T:0.39
Consensus pattern (21 bp):
CACATATATTCAATACATTTG
Found at i:16109400 original size:42 final size:42
Alignment explanation
Indices: 16109301--16109451 Score: 146
Period size: 43 Copynumber: 3.5 Consensus size: 42
16109291 AATGGCAATA
* * *
16109301 TCCCAGATGTGGTCTTACATGTAATCAAATATCGATGCC-ACTG
1 TCCCAGACGTGGTCTTACACGAAATCAAATA-CGATGCCAAC-G
*
16109344 TCCTAGACAG-GGTCTTACACGAAATCAAATACGATGCCAACG
1 TCCCAGAC-GTGGTCTTACACGAAATCAAATACGATGCCAACG
* *
16109386 TCCCAGACGTGGTCTTACACATAAATCATAAGT-CGATGTCAACG
1 TCCCAGACGTGGTCTTACAC-GAAATCA-AA-TACGATGCCAACG
* **
16109430 TCCCAGATGTATTCTTACACGA
1 TCCCAGACGTGGTCTTACACGA
16109452 TAACACATAT
Statistics
Matches: 91, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
41 1 0.01
42 25 0.27
43 34 0.37
44 30 0.33
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (42 bp):
TCCCAGACGTGGTCTTACACGAAATCAAATACGATGCCAACG
Found at i:16110714 original size:18 final size:18
Alignment explanation
Indices: 16110693--16110727 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16110683 TCTCAAGTGG
16110693 TAGTCGATTATCAACTCA
1 TAGTCGATTATCAACTCA
**
16110711 TAGTCTTTTATCAACTC
1 TAGTCGATTATCAACTC
16110728 TAACCATGGT
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:0.29, C:0.23, G:0.09, T:0.40
Consensus pattern (18 bp):
TAGTCGATTATCAACTCA
Found at i:16111857 original size:9 final size:10
Alignment explanation
Indices: 16111828--16111857 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
16111818 TGCAGCTACA
16111828 CTTTCAACTC
1 CTTTCAACTC
16111838 CTTTCAACTC
1 CTTTCAACTC
16111848 CTTT-AACTC
1 CTTTCAACTC
16111857 C
1 C
16111858 ATCAGAGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.30
10 14 0.70
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (10 bp):
CTTTCAACTC
Found at i:16115533 original size:25 final size:26
Alignment explanation
Indices: 16115504--16115554 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
16115494 CTTATTTCAT
16115504 TAAATAAAAAAT-TTTAAAAATATAA
1 TAAATAAAAAATATTTAAAAATATAA
* *
16115529 TAAATCAAATATATTTAAAAATATAA
1 TAAATAAAAAATATTTAAAAATATAA
16115555 AAACAAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (26 bp):
TAAATAAAAAATATTTAAAAATATAA
Found at i:16120709 original size:93 final size:93
Alignment explanation
Indices: 16120600--16120770 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
16120590 GCCCATAAGC
* * *
16120600 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTTAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
16120664 ATGAGTTCGGATGCCTAGTTACATCTCAT
65 ACGAGTTCGGATGCCTAGTTACATCTCAT
*
16120693 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16120758 CGAGTTCGGATGC
66 CGAGTTCGGATGC
16120771 TCAATCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAT
Found at i:16120765 original size:46 final size:46
Alignment explanation
Indices: 16120592--16120767 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
16120582 TGTAACCCGC
* * *
16120592 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* * *
16120638 CCATAAGTTAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
16120688 -C-TCA-TGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
16120731 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
16120768 TGCTCAATCA
Statistics
Matches: 107, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 59 0.55
47 27 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:16129823 original size:7 final size:8
Alignment explanation
Indices: 16129797--16129827 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
16129787 TATATATATA
16129797 TTTATAAT
1 TTTATAAT
16129805 TTTATAAT
1 TTTATAAT
16129813 TTTATAAT
1 TTTATAAT
16129821 TTATATA
1 TT-TATA
16129828 TTATATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTTATAAT
Found at i:16129831 original size:7 final size:7
Alignment explanation
Indices: 16129786--16129850 Score: 55
Period size: 7 Copynumber: 9.3 Consensus size: 7
16129776 TTTAGTTCTT
16129786 TTATATA
1 TTATATA
16129793 -TATAT-
1 TTATATA
16129798 TTATA-A
1 TTATATA
*
16129804 TTTTATAA
1 TTATAT-A
*
16129812 TTTTATAA
1 TTATAT-A
16129820 TTTATATA
1 -TTATATA
16129828 TTATATA
1 TTATATA
16129835 TTATATA
1 TTATATA
*
16129842 TTACATA
1 TTATATA
16129849 TT
1 TT
16129851 GTAAATTTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
6 13 0.26
7 22 0.44
8 10 0.20
9 5 0.10
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (7 bp):
TTATATA
Found at i:16129834 original size:16 final size:16
Alignment explanation
Indices: 16129791--16129844 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
16129781 TTCTTTTATA
16129791 TATATATT-TATAATT
1 TATATATTATATAATT
*
16129806 T-TATAATTTTATAATT
1 TATAT-ATTATATAATT
16129822 TATATATTATAT-A-T
1 TATATATTATATAATT
16129836 TATATATTA
1 TATATATTA
16129845 CATATTGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
14 13 0.37
15 5 0.14
16 14 0.40
17 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATATATTATATAATT
Found at i:16130470 original size:31 final size:33
Alignment explanation
Indices: 16130426--16130487 Score: 76
Period size: 31 Copynumber: 1.9 Consensus size: 33
16130416 ACTTATATGC
* *
16130426 TACGCCAACAAATAATTTTAAAATT-ATAAAATA
1 TACGCCAACAAAT-ATATAAAAATTCATAAAATA
16130459 TACG-CAA-AAATATATAAAAATTCATAAAA
1 TACGCCAACAAATATATAAAAATTCATAAAA
16130488 ATAAAAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
30 9 0.35
31 10 0.38
32 3 0.12
33 4 0.15
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.27
Consensus pattern (33 bp):
TACGCCAACAAATATATAAAAATTCATAAAATA
Found at i:16146080 original size:39 final size:39
Alignment explanation
Indices: 16145963--16146172 Score: 325
Period size: 39 Copynumber: 5.3 Consensus size: 39
16145953 GCTCCTCGTT
* *
16145963 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
16146003 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
16146043 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
16146082 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
16146121 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
16146160 CAAATGCCTTCGG
1 CAAATGCCTTCGG
16146173 ATCTTAGTCC
Statistics
Matches: 162, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
39 114 0.70
40 46 0.28
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:16146208 original size:78 final size:80
Alignment explanation
Indices: 16145963--16146224 Score: 321
Period size: 78 Copynumber: 3.3 Consensus size: 80
16145953 GCTCCTCGTT
* * *
16145963 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGACTTAGCCC
16146026 GGAT-TTAGTAAC-TCGCA
63 GGATATTAGT-ACTTCGCA
*
16146043 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGACTTAGCCCGGA
16146107 -ATTAGTA-TCTCGCA
66 TATTAGTACT-TCGCA
*
16146121 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGA-CTTAGCCCGG
*
16146185 ATATT-GTCACTTAGCA
65 ATATTAGT-ACTTCGCA
*
16146201 C-AA-GCCTTCGGGAATTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16146225 CATCATTCAA
Statistics
Matches: 164, Mismatches: 8, Indels: 21
0.85 0.04 0.11
Matches are distributed among these distances:
77 1 0.01
78 85 0.52
79 53 0.32
80 24 0.15
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGACTTAGCCCGGA
TATTAGTACTTCGCA
Found at i:16149420 original size:23 final size:22
Alignment explanation
Indices: 16149394--16149437 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
16149384 CCCCATGCAA
16149394 TGCAACATA-ATATCATACATGGG
1 TGCAACATACATAT-A-ACATGGG
16149417 TGCAACATACATATAACATGG
1 TGCAACATACATATAACATGG
16149438 CATGCTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
23 10 0.50
24 4 0.20
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (22 bp):
TGCAACATACATATAACATGGG
Found at i:16149553 original size:27 final size:27
Alignment explanation
Indices: 16149477--16149660 Score: 189
Period size: 27 Copynumber: 6.8 Consensus size: 27
16149467 GAAAAAATCT
* * *
16149477 GTCATTTTACCTTACCG-GGGTATTACA
1 GTCATTTTACCCTA-TGAGGGTATTTCA
*
16149504 GTCATTTTACCCTA-CAGGGGTATTTCA
1 GTCATTTTACCCTATGA-GGGTATTTCA
*
16149531 GTCATTTTACCCTATG-GGAGTATTT-T
1 GTCATTTTACCCTATGAGG-GTATTTCA
**
16149557 GATCATTTTACCCTATGAGGGTATTTTG
1 G-TCATTTTACCCTATGAGGGTATTTCA
**
16149585 GTCATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCA
16149612 GTCATTTTACCCTATGAGGGTATTTC-
1 GTCATTTTACCCTATGAGGGTATTTCA
* *
16149638 GATCATTTTACCATATAAGGGTA
1 G-TCATTTTACCCTATGAGGGTA
16149661 AAATATCATT
Statistics
Matches: 140, Mismatches: 9, Indels: 16
0.85 0.05 0.10
Matches are distributed among these distances:
26 4 0.03
27 133 0.95
28 3 0.02
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCA
Found at i:16149616 original size:81 final size:81
Alignment explanation
Indices: 16149504--16149660 Score: 228
Period size: 81 Copynumber: 1.9 Consensus size: 81
16149494 GGGTATTACA
*
16149504 GTCATTTTACCCTACAGGGGTATTTCAGTCATTTTACCCTATG-GGAGTATTTTGATCATTTTAC
1 GTCATTTTACCCTACAGGGGTATTTCAGTCATTTTACCCTATGAGG-GTATTTCGATCATTTTAC
* *
16149568 CCTATGAGGGTATTTTG
65 CATATAAGGGTATTTTG
* **
16149585 GTCATTTTACCCTA-TGAGGGTATTTTGGTCATTTTACCCTATGAGGGTATTTCGATCATTTTAC
1 GTCATTTTACCCTACAG-GGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTAC
16149649 CATATAAGGGTA
65 CATATAAGGGTA
16149661 AAATATCATT
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 1 0.01
81 65 0.96
82 2 0.03
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (81 bp):
GTCATTTTACCCTACAGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACC
ATATAAGGGTATTTTG
Found at i:16149702 original size:27 final size:27
Alignment explanation
Indices: 16149640--16149900 Score: 328
Period size: 27 Copynumber: 9.7 Consensus size: 27
16149630 GGTATTTCGA
* * * * *
16149640 TCATTTTACCATATAAGGGTAAAAT-A
1 TCATTTTATCACAAAAGGGCAAAATCG
16149666 TCATTTTATCACAAAAGGGCAAAATCG
1 TCATTTTATCACAAAAGGGCAAAATCG
16149693 TCATTTTATCACAAAAGGGCAAAATCG
1 TCATTTTATCACAAAAGGGCAAAATCG
* *
16149720 TCATTTTATTACATAAA-GGAAAAATCG
1 TCATTTTATCACA-AAAGGGCAAAATCG
* *
16149747 TCATTTTATCACAAAAGGGAAAAATCA
1 TCATTTTATCACAAAAGGGCAAAATCG
*
16149774 TCATTTTATCACAAAAAGGCAAAATCG
1 TCATTTTATCACAAAAGGGCAAAATCG
* * * *
16149801 TCATTTTCTCACAAAAAGGAAAAATCA
1 TCATTTTATCACAAAAGGGCAAAATCG
*
16149828 TCATTTTATCACAAAAAGGCAAAATCG
1 TCATTTTATCACAAAAGGGCAAAATCG
* * *
16149855 TCATTTTATGACATAGGGGCAAAATCG
1 TCATTTTATCACAAAAGGGCAAAATCG
16149882 TCATTTTATCACATAAAGG
1 TCATTTTATCACA-AAAGG
16149901 TTCAAGTATG
Statistics
Matches: 206, Mismatches: 25, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
26 24 0.12
27 176 0.85
28 6 0.03
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.29
Consensus pattern (27 bp):
TCATTTTATCACAAAAGGGCAAAATCG
Found at i:16149771 original size:81 final size:81
Alignment explanation
Indices: 16149640--16149900 Score: 380
Period size: 81 Copynumber: 3.2 Consensus size: 81
16149630 GGTATTTCGA
* * * *
16149640 TCATTTTACCATATAAGGGTAAAAT-ATCATTTTATCACAAAAGGGCAAAATCGTCATTTTATCA
1 TCATTTTATCACATAAAGGAAAAATCATCATTTTATCACAAAAGGGCAAAATCGTCATTTTATCA
16149704 CAAAAGGGCAAAATCG
66 CAAAAGGGCAAAATCG
* * * *
16149720 TCATTTTATTACATAAAGGAAAAATCGTCATTTTATCACAAAAGGGAAAAATCATCATTTTATCA
1 TCATTTTATCACATAAAGGAAAAATCATCATTTTATCACAAAAGGGCAAAATCGTCATTTTATCA
*
16149785 CAAAAAGGCAAAATCG
66 CAAAAGGGCAAAATCG
* * * *
16149801 TCATTTTCTCACAAAAAGGAAAAATCATCATTTTATCACAAAAAGGCAAAATCGTCATTTTATGA
1 TCATTTTATCACATAAAGGAAAAATCATCATTTTATCACAAAAGGGCAAAATCGTCATTTTATCA
* *
16149866 CATAGGGGCAAAATCG
66 CAAAAGGGCAAAATCG
16149882 TCATTTTATCACATAAAGG
1 TCATTTTATCACATAAAGG
16149901 TTCAAGTATG
Statistics
Matches: 158, Mismatches: 22, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 20 0.13
81 138 0.87
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.29
Consensus pattern (81 bp):
TCATTTTATCACATAAAGGAAAAATCATCATTTTATCACAAAAGGGCAAAATCGTCATTTTATCA
CAAAAGGGCAAAATCG
Found at i:16154709 original size:26 final size:26
Alignment explanation
Indices: 16154673--16154753 Score: 135
Period size: 26 Copynumber: 3.0 Consensus size: 26
16154663 ACTACTGTTG
16154673 CTACTGTTACAATAATCTCCTATTAC
1 CTACTGTTACAATAATCTCCTATTAC
16154699 CTACTGTTACAATAATCTCCTATTATTAC
1 CTACTGTTACAATAATCTCC---TATTAC
16154728 CTACTGTTACAATAATCTCCTATTAC
1 CTACTGTTACAATAATCTCCTATTAC
16154754 ATTCACTGTA
Statistics
Matches: 52, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
26 26 0.50
29 26 0.50
ACGTcount: A:0.31, C:0.26, G:0.04, T:0.40
Consensus pattern (26 bp):
CTACTGTTACAATAATCTCCTATTAC
Found at i:16154735 original size:29 final size:29
Alignment explanation
Indices: 16154673--16154752 Score: 139
Period size: 29 Copynumber: 2.9 Consensus size: 29
16154663 ACTACTGTTG
16154673 CTACTGTTACAATAATCTCC---TATTAC
1 CTACTGTTACAATAATCTCCTATTATTAC
16154699 CTACTGTTACAATAATCTCCTATTATTAC
1 CTACTGTTACAATAATCTCCTATTATTAC
16154728 CTACTGTTACAATAATCTCCTATTA
1 CTACTGTTACAATAATCTCCTATTA
16154753 CATTCACTGT
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
26 20 0.39
29 31 0.61
ACGTcount: A:0.31, C:0.25, G:0.04, T:0.40
Consensus pattern (29 bp):
CTACTGTTACAATAATCTCCTATTATTAC
Found at i:16158310 original size:15 final size:16
Alignment explanation
Indices: 16158285--16158314 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16158275 GAAAAAACAG
16158285 AAAAATAAATAAAAAC
1 AAAAATAAATAAAAAC
16158301 AAAAAT-AATAAAAA
1 AAAAATAAATAAAAA
16158315 GTCCTTTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAAATAAATAAAAAC
Found at i:16158310 original size:19 final size:18
Alignment explanation
Indices: 16158277--16158312 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
16158267 CTGGTCCAGA
*
16158277 AAAAACAGAAAAATAAAT
1 AAAAACAAAAAAATAAAT
16158295 AAAAACAAAAATAATAAA
1 AAAAACAAAAA-AATAAA
16158313 AAGTCCTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.81, C:0.06, G:0.03, T:0.11
Consensus pattern (18 bp):
AAAAACAAAAAAATAAAT
Found at i:16158419 original size:17 final size:17
Alignment explanation
Indices: 16158397--16158436 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
16158387 TACCTAAACT
16158397 ACCCAATACCCGGTTAC
1 ACCCAATACCCGGTTAC
16158414 ACCCAATACCCGGTTAC
1 ACCCAATACCCGGTTAC
16158431 ACCCAA
1 ACCCAA
16158437 CCCACAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.33, C:0.42, G:0.10, T:0.15
Consensus pattern (17 bp):
ACCCAATACCCGGTTAC
Found at i:16159389 original size:21 final size:20
Alignment explanation
Indices: 16159365--16159427 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
16159355 ATAGTATATA
16159365 TATTATTTTTTATTTATACAT
1 TATTATTTTTTATTTATA-AT
*
16159386 TATTCATTATATTATTTAT-AT
1 TATT-ATT-TTTTATTTATAAT
*
16159407 TATTATAGATTTTATTTATAA
1 TATTAT--TTTTTATTTATAA
16159428 ATTTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
20 2 0.06
21 19 0.56
22 4 0.12
23 9 0.26
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (20 bp):
TATTATTTTTTATTTATAAT
Found at i:16159459 original size:21 final size:19
Alignment explanation
Indices: 16159422--16159475 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
16159412 TAGATTTTAT
* *
16159422 TTATAAATTTTATTATACA
1 TTATATATTTTATTATAAA
16159441 TTATATATTTTACTATATAAA
1 TTATATATTTTA-T-TATAAA
* *
16159462 TTACATTTTTTATT
1 TTATATATTTTATT
16159476 TTATTATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 12 0.41
20 2 0.07
21 15 0.52
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATATATTTTATTATAAA
Found at i:16159475 original size:26 final size:24
Alignment explanation
Indices: 16159437--16159504 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 24
16159427 AATTTTATTA
16159437 TACATTATATATTTTACTATATAAAT
1 TACATTATATATTTTA-T-TATAAAT
* *
16159463 TACATTTTTTATTTTATTATAAAT
1 TACATTATATATTTTATTATAAAT
16159487 T--ATGTAT-TATTTTATTAT
1 TACAT-TATATATTTTATTAT
16159505 TCATTAATTG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
22 13 0.34
23 2 0.05
24 8 0.21
25 1 0.03
26 14 0.37
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.59
Consensus pattern (24 bp):
TACATTATATATTTTATTATAAAT
Found at i:16166757 original size:27 final size:27
Alignment explanation
Indices: 16166727--16166904 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
16166717 ATATTGAGTC
* * * *
16166727 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
16166754 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16166781 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
16166809 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
16166836 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
16166863 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16166890 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16166905 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:16166866 original size:82 final size:81
Alignment explanation
Indices: 16166748--16166903 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
16166738 TGCTATATAA
* *
16166748 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
16166813 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
16166830 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
16166894 CACTTAGTGC
65 CACTTAGTGC
16166904 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:16167405 original size:12 final size:12
Alignment explanation
Indices: 16167388--16167413 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16167378 ATGGCATACT
16167388 TATGTATATATA
1 TATGTATATATA
16167400 TATGTATATATA
1 TATGTATATATA
16167412 TA
1 TA
16167414 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:16174866 original size:27 final size:27
Alignment explanation
Indices: 16174836--16175013 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
16174826 ATATTGAGTC
* * * *
16174836 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
16174863 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16174890 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
16174918 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
16174945 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
16174972 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16174999 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16175014 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:16174975 original size:82 final size:81
Alignment explanation
Indices: 16174857--16175012 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
16174847 TGCTATATAA
* *
16174857 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
16174922 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
16174939 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
16175003 CACTTAGTGC
65 CACTTAGTGC
16175013 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:16175511 original size:12 final size:12
Alignment explanation
Indices: 16175494--16175519 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16175484 ATGGCATACT
16175494 TATGTATATATA
1 TATGTATATATA
16175506 TATGTATATATA
1 TATGTATATATA
16175518 TA
1 TA
16175520 CTTCGAATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:16180773 original size:38 final size:38
Alignment explanation
Indices: 16180723--16180799 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
16180713 GATGATTAAC
16180723 ATATATTAGACTAAATGCAATGATCCTTAATGCAAATT
1 ATATATTAGACTAAATGCAATGATCCTTAATGCAAATT
16180761 ATATATTAGACTAAATGCAATGATCCTTAATGCAAATT
1 ATATATTAGACTAAATGCAATGATCCTTAATGCAAATT
16180799 A
1 A
16180800 ACCTAAGTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (38 bp):
ATATATTAGACTAAATGCAATGATCCTTAATGCAAATT
Found at i:16185911 original size:40 final size:40
Alignment explanation
Indices: 16185834--16185977 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
16185824 TACTCGAATG
* *
16185834 ATATCC-GGCTAAGTCCCGAAAGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
16185874 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
16185914 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
16185954 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
16185978 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
39 1 0.01
40 67 0.74
41 21 0.23
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:16199489 original size:76 final size:78
Alignment explanation
Indices: 16199288--16199559 Score: 409
Period size: 76 Copynumber: 3.6 Consensus size: 78
16199278 AACATTCACA
*
16199288 TTAACTAAATTCAA-AACTTATTCATGTATAT-CACATATATCCGAAC-TT-TATATAT-AA-AT
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
16199347 AACATACATACTT
66 AACATACATACTT
16199360 TTAACTAAATTCAGAGAA-TTCATTCATGTATATACATATATATCCGAACTTTATATATATAAAT
1 TTAACTAAATTCA-AGAACTT-ATTCATGTATATACATATATATCCGAACTTTATATATATAAAT
*
16199424 ATAACATACATACTG
64 ATAACATACATACTT
* *
16199439 TTAACT-AATTCAAGAA-TTATTCATGTATATACATATATATTCGAGCTTTATATATATAAATAT
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
16199502 AACATACATACTT
66 AACATACATACTT
*
16199515 TTAACTAAATTCAAGAACTTATACATGTATATACATATATTATCC
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATA-TATCC
16199560 ACTATTAGTT
Statistics
Matches: 182, Mismatches: 7, Indels: 15
0.89 0.03 0.07
Matches are distributed among these distances:
72 13 0.07
73 3 0.02
74 14 0.08
75 14 0.08
76 63 0.35
77 23 0.13
78 28 0.15
79 24 0.13
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (78 bp):
TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
AACATACATACTT
Found at i:16210239 original size:78 final size:78
Alignment explanation
Indices: 16210144--16210421 Score: 470
Period size: 78 Copynumber: 3.6 Consensus size: 78
16210134 AACTAATAGT
*
16210144 GGATAATATATGTATATACATGTATAAGTTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTA
1 GGAT-ATATATGTATATACATGAATAAGTTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTA
*
16210209 TATATATAAAGCTC
65 TATATATAAAGTTC
* * *
16210223 GAATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAACAGTATGTATGTTATATTTAT
1 GGATATATATGTATATACATGAATAAGTTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
16210288 ATATATAAAGTTC
66 ATATATAAAGTTC
16210301 GGATATATATGTATATACATGAATGAA-TTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTA
1 GGATATATATGTATATACATGAAT-AAGTTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTA
16210365 TATATATAAAGTTC
65 TATATATAAAGTTC
*
16210379 GGATATATGTGTATATACATGAATAAGTT-TTGAATTTAGTTAA
1 GGATATATATGTATATACATGAATAAGTTCTTGAATTTAGTTAA
16210422 TGTTGAATGT
Statistics
Matches: 189, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
77 16 0.08
78 168 0.89
79 5 0.03
ACGTcount: A:0.38, C:0.04, G:0.14, T:0.43
Consensus pattern (78 bp):
GGATATATATGTATATACATGAATAAGTTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
ATATATAAAGTTC
Found at i:16211223 original size:41 final size:41
Alignment explanation
Indices: 16211169--16211273 Score: 149
Period size: 41 Copynumber: 2.6 Consensus size: 41
16211159 AGTTTTAAAA
* * **
16211169 CCTAGTAGGCTAAGTGCTGGTGATCTGAATTAGG-TTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGCTT-TAAG
16211210 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGCTTTAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGCTTTAAG
*
16211251 CCTAACAGGCTAAGTGCCGGTGA
1 CCTAGCAGGCTAAGTGCCGGTGA
16211274 ATCTATTTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 56 0.97
42 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.25
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGCTTTAAG
Found at i:16211541 original size:36 final size:35
Alignment explanation
Indices: 16211453--16211561 Score: 105
Period size: 34 Copynumber: 3.1 Consensus size: 35
16211443 TATATATATG
* *
16211453 TATGCATTTGGCATATGTGGATT-ATAAGTAT-ATA
1 TATGCATTTGGCACATGT-AATTGATAAGTATAATA
* *
16211487 TGTGCATTCGGCACATGTAATTGATAAGTATAAATA
1 TATGCATTTGGCACATGTAATTGATAAGTAT-AATA
* * *
16211523 TATGCTTTTGGCACATGTATTTGAATAATTATATATA
1 TATGCATTTGGCACATGTAATTG-ATAAGTATA-ATA
16211560 TA
1 TA
16211562 AATGCATTCA
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
33 3 0.05
34 23 0.38
36 23 0.38
37 12 0.20
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.40
Consensus pattern (35 bp):
TATGCATTTGGCACATGTAATTGATAAGTATAATA
Found at i:16212424 original size:27 final size:27
Alignment explanation
Indices: 16212373--16212474 Score: 93
Period size: 27 Copynumber: 3.8 Consensus size: 27
16212363 AGGCTATTCC
* * **
16212373 TTCATAATCCGCCACAATGAAATTTCT
1 TTCATAATTCGCCACAAAGGCATTTCT
* * *
16212400 TTCTTGATTCGCCACAAAGGCATTTTT
1 TTCATAATTCGCCACAAAGGCATTTCT
16212427 TTCATAATTCGCCACAAAGG--TGTTCAT
1 TTCATAATTCGCCACAAAGGCAT-TTC-T
16212454 TTCAT-ATTGCGCCACAAAGGC
1 TTCATAATT-CGCCACAAAGGC
16212475 CTTCTTTTAA
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
25 1 0.02
26 5 0.08
27 55 0.90
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (27 bp):
TTCATAATTCGCCACAAAGGCATTTCT
Found at i:16225194 original size:16 final size:17
Alignment explanation
Indices: 16225173--16225207 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
16225163 TGTGCATTGT
16225173 ATGAGAT-TGATATGTG
1 ATGAGATATGATATGTG
16225189 ATGAGATGATGATATGTG
1 ATGAGAT-ATGATATGTG
16225207 A
1 A
16225208 CATGTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
18 10 0.59
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (17 bp):
ATGAGATATGATATGTG
Found at i:16234912 original size:13 final size:13
Alignment explanation
Indices: 16234896--16234921 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16234886 TTTAATTTAT
16234896 TTTTGAATTGTTA
1 TTTTGAATTGTTA
16234909 TTTTGAATTGTTA
1 TTTTGAATTGTTA
16234922 ATATATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (13 bp):
TTTTGAATTGTTA
Found at i:16237235 original size:42 final size:42
Alignment explanation
Indices: 16237176--16237260 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 42
16237166 AGCAAATAAT
*
16237176 TATACTTATCAACCACATGTACCGAATGCACACACATATATA
1 TATACTTATCAACCACATATACCGAATGCACACACATATATA
* ** * *
16237218 TATACTTAT-AATTCACATATGTCGAATGCATACATATATATA
1 TATACTTATCAA-CCACATATACCGAATGCACACACATATATA
16237260 T
1 T
16237261 CCAACAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
41 2 0.06
42 34 0.94
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (42 bp):
TATACTTATCAACCACATATACCGAATGCACACACATATATA
Found at i:16269780 original size:40 final size:40
Alignment explanation
Indices: 16269725--16269953 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
16269715 TTATTGTATA
* * *
16269725 AATGCACATACGTGCCCCTATTTGTACTCCGGTACCCTTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* * ** *
16269765 AATGCCCATATGTGCCTTTGTTTGTACTTCGGTACCCCTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* * * *
16269805 AATGCACATATGTGGCCCTGTTTGTACTTCAGTACCCTTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* ** * *
16269845 AATGCACATATGTGCCCCTGTTCATACTTTGATACCCCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* * *
16269885 AATGCACATACATGCCCCTATTTGTACTTCAGTACCCCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
16269925 AATGCACATACGTGCCCCTGTTTGTACTT
1 AATGCACATACGTGCCCCTGTTTGTACTT
16269954 TAATACTCCT
Statistics
Matches: 157, Mismatches: 32, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 157 1.00
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (40 bp):
AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
Found at i:16269902 original size:20 final size:20
Alignment explanation
Indices: 16269879--16269944 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
16269869 TACTTTGATA
16269879 CCCCTGAATGCACATACATG
1 CCCCTGAATGCACATACATG
* * * *
16269899 CCCCT-ATTTGTAC-TTCAGTA
1 CCCCTGA-ATGCACATACA-TG
*
16269919 CCCCTGAATGCACATACGTG
1 CCCCTGAATGCACATACATG
16269939 CCCCTG
1 CCCCTG
16269945 TTTGTACTTT
Statistics
Matches: 33, Mismatches: 9, Indels: 8
0.66 0.18 0.16
Matches are distributed among these distances:
19 4 0.12
20 26 0.79
21 3 0.09
ACGTcount: A:0.23, C:0.36, G:0.15, T:0.26
Consensus pattern (20 bp):
CCCCTGAATGCACATACATG
Found at i:16269954 original size:80 final size:80
Alignment explanation
Indices: 16269725--16269976 Score: 324
Period size: 80 Copynumber: 3.1 Consensus size: 80
16269715 TTATTGTATA
* * * **
16269725 AATGCACATACGTGCCCCTATTTGTACTCCGGTACCCTTGAATGCCCATATGTGCCTTTGTTTGT
1 AATGCACATACGTGCCCCTATTTGTACTTCAGTACCCTTGAATGCACATATGTGCCCCTGTTTGT
* * *
16269790 ACTTCGGTACCCCTA
66 ACTTTGATACCCCTG
* * * **
16269805 AATGCACATATGTGGCCCTGTTTGTACTTCAGTACCCTTGAATGCACATATGTGCCCCTGTTCAT
1 AATGCACATACGTGCCCCTATTTGTACTTCAGTACCCTTGAATGCACATATGTGCCCCTGTTTGT
16269870 ACTTTGATACCCCTG
66 ACTTTGATACCCCTG
* * *
16269885 AATGCACATACATGCCCCTATTTGTACTTCAGTACCCCTGAATGCACATACGTGCCCCTGTTTGT
1 AATGCACATACGTGCCCCTATTTGTACTTCAGTACCCTTGAATGCACATATGTGCCCCTGTTTGT
* *
16269950 ACTTTAATACTCCTG
66 ACTTTGATACCCCTG
*
16269965 AAGGCAACATAC
1 AATGC-ACATAC
16269977 TTGCTGTTGA
Statistics
Matches: 147, Mismatches: 24, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
80 141 0.96
81 6 0.04
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (80 bp):
AATGCACATACGTGCCCCTATTTGTACTTCAGTACCCTTGAATGCACATATGTGCCCCTGTTTGT
ACTTTGATACCCCTG
Found at i:16278231 original size:40 final size:38
Alignment explanation
Indices: 16278165--16278315 Score: 167
Period size: 40 Copynumber: 3.8 Consensus size: 38
16278155 AATTATTGTA
* *
16278165 TGAATGCACATATGTGCCCCTATTTGTACTTCGATAGCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTT-GATA-CCC
* ** *
16278205 TGAATGCACACACGTGCTTCTGTTTGTACTATGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACT-TGATA-CCC
*
16278245 TGAATGAACATACGTGCCCCTGTTTGTACCTTGATACCC
1 TGAATGCACATACGTGCCCCTGTTTGTA-CTTGATACCC
* *
16278284 TTGAATGCGCATATGTGCCCCTGTTTGTACTT
1 -TGAATGCACATACGTGCCCCTGTTTGTACTT
16278316 CGGTACTCCT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 6 0.06
40 84 0.90
41 3 0.03
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (38 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTGATACCC
Found at i:16278321 original size:80 final size:80
Alignment explanation
Indices: 16278165--16278314 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
16278155 AATTATTGTA
* * **
16278165 TGAATGCACATATGTGCCCCTATTTGTACTTCGATAGCCCTGAATGCACACACGTGCTTCTGTTT
1 TGAATGAACATACGTGCCCCTATTTGTACTTCGATAGCCCTGAATGCACACACGTGCCCCTGTTT
16278230 GTACTATGGTACCCC
66 GTACTATGGTACCCC
* * * *
16278245 TGAATGAACATACGTGCCCCTGTTTGTACCTT-GATA-CCCTTGAATGCGCATATGTGCCCCTGT
1 TGAATGAACATACGTGCCCCTATTTGTA-CTTCGATAGCCC-TGAATGCACACACGTGCCCCTGT
16278308 TTGTACT
64 TTGTACT
16278315 TCGGTACTCC
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 54 0.90
81 3 0.05
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (80 bp):
TGAATGAACATACGTGCCCCTATTTGTACTTCGATAGCCCTGAATGCACACACGTGCCCCTGTTT
GTACTATGGTACCCC
Found at i:16280858 original size:20 final size:20
Alignment explanation
Indices: 16280833--16280881 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
16280823 TGAGTTATTT
16280833 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
16280853 AAGTAAG-ACAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
16280873 AAG-AAGCAA
1 AAGTAAGCAA
16280882 ATACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.08, G:0.22, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:16283067 original size:15 final size:15
Alignment explanation
Indices: 16283047--16283079 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
16283037 CTGATCAGTT
16283047 TTAACGTAGCTTAAG
1 TTAACGTAGCTTAAG
16283062 TTAACGTAGCTTAAG
1 TTAACGTAGCTTAAG
16283077 TTA
1 TTA
16283080 CTTCCACACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (15 bp):
TTAACGTAGCTTAAG
Found at i:16289676 original size:2 final size:2
Alignment explanation
Indices: 16289669--16289693 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16289659 TAGTATTAGC
16289669 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
16289694 CAGGATCGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16292771 original size:9 final size:9
Alignment explanation
Indices: 16292757--16292787 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
16292747 GTTAAACGAA
16292757 TCGAGTTAT
1 TCGAGTTAT
*
16292766 TCGAGTTAA
1 TCGAGTTAT
16292775 TCGAGTTAT
1 TCGAGTTAT
16292784 TCGA
1 TCGA
16292788 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Done.