Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 284 of 292
Found at i:81957105 original size:12 final size:12
Alignment explanation
Indices: 81957088--81957112 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
81957078 CTAACAGCCC
81957088 CAGTATTAGGAG
1 CAGTATTAGGAG
81957100 CAGTATTAGGAG
1 CAGTATTAGGAG
81957112 C
1 C
81957113 CCTGATGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (12 bp):
CAGTATTAGGAG
Found at i:81969659 original size:21 final size:22
Alignment explanation
Indices: 81969635--81969677 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
81969625 AAATATATTG
*
81969635 AGTAAATTAATTT-TTTTAAAA
1 AGTAAATTAATTTCTATTAAAA
*
81969656 AGTAATTTAATTTCTATTAAAA
1 AGTAAATTAATTTCTATTAAAA
81969678 TAAATAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (22 bp):
AGTAAATTAATTTCTATTAAAA
Found at i:81973340 original size:21 final size:18
Alignment explanation
Indices: 81973315--81973354 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
81973305 TTTGATTTTT
81973315 TAATATATTCACATATTTAG
1 TAATATA-T-ACATATTTAG
81973335 TAA-ATATACATATTTAG
1 TAATATATACATATTTAG
81973352 TAA
1 TAA
81973355 ATAAATATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 13 0.65
18 1 0.05
19 3 0.15
20 3 0.15
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (18 bp):
TAATATATACATATTTAG
Found at i:81973345 original size:17 final size:17
Alignment explanation
Indices: 81973325--81973357 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
81973315 TAATATATTC
81973325 ACATATTTAGTAAATAT
1 ACATATTTAGTAAATAT
81973342 ACATATTTAGTAAATA
1 ACATATTTAGTAAATA
81973358 AATATTCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (17 bp):
ACATATTTAGTAAATAT
Found at i:81979917 original size:22 final size:23
Alignment explanation
Indices: 81979886--81979933 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
81979876 TAATAATTTT
* *
81979886 AATGAATTTTA-ACTTTTTTAAA
1 AATGAATTTTATAATTTTTAAAA
*
81979908 AATGATTTTTATAATTTTTAAAA
1 AATGAATTTTATAATTTTTAAAA
81979931 AAT
1 AAT
81979934 TAAAAAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (23 bp):
AATGAATTTTATAATTTTTAAAA
Found at i:81981481 original size:25 final size:25
Alignment explanation
Indices: 81981447--81981495 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
81981437 GTCAGGCAAA
81981447 TTGATTGATTCTTTCTACATCTGGT
1 TTGATTGATTCTTTCTACATCTGGT
81981472 TTGATTGATTCTTTCTACATCTGG
1 TTGATTGATTCTTTCTACATCTGG
81981496 CATAACTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.51
Consensus pattern (25 bp):
TTGATTGATTCTTTCTACATCTGGT
Found at i:81981914 original size:21 final size:21
Alignment explanation
Indices: 81981888--81981931 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
81981878 TTAAGAATTT
* *
81981888 TTGTTACTATATTTAATTTTA
1 TTGTTACAATAATTAATTTTA
81981909 TTGTTACAATAATTAATTTTA
1 TTGTTACAATAATTAATTTTA
81981930 TT
1 TT
81981932 TTATGTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (21 bp):
TTGTTACAATAATTAATTTTA
Found at i:81988500 original size:29 final size:30
Alignment explanation
Indices: 81988458--81988516 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
81988448 AACAAGACAT
*
81988458 ATTGGTTAAGTTCAAAG-ACCCTAATCCAG
1 ATTGGTTAAGTTCAAAGAACCCAAATCCAG
81988487 ATTGGTTAAGTTCAAAGAACCCAAATCCAG
1 ATTGGTTAAGTTCAAAGAACCCAAATCCAG
81988517 TCCCTGCCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (30 bp):
ATTGGTTAAGTTCAAAGAACCCAAATCCAG
Found at i:81991683 original size:30 final size:30
Alignment explanation
Indices: 81991647--81991709 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
81991637 TCACCTGCTA
81991647 CAAAATTTAGAATATTGATATTGTATTCAC
1 CAAAATTTAGAATATTGATATTGTATTCAC
81991677 CAAAATTTAGAATATTGATATTGTATTCAC
1 CAAAATTTAGAATATTGATATTGTATTCAC
81991707 CAA
1 CAA
81991710 TTATAGGAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (30 bp):
CAAAATTTAGAATATTGATATTGTATTCAC
Found at i:81991921 original size:27 final size:27
Alignment explanation
Indices: 81991867--81991921 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
81991857 TGGGCCCCAC
* **
81991867 CACAACCATTGGCGCCTCTGAGGTAGG
1 CACAACCATTGGCGCCTCAGAGAAAGG
* *
81991894 CACAATCATTTGCGCCTCAGAGAAAGG
1 CACAACCATTGGCGCCTCAGAGAAAGG
81991921 C
1 C
81991922 TCGATTAGTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.27, C:0.29, G:0.25, T:0.18
Consensus pattern (27 bp):
CACAACCATTGGCGCCTCAGAGAAAGG
Found at i:81995890 original size:33 final size:33
Alignment explanation
Indices: 81995850--81995919 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
81995840 TTTTTATCAC
*
81995850 TTAAAATTTTGTTTCTCAATTTAGTTAATTTAA
1 TTAAAATTTTATTTCTCAATTTAGTTAATTTAA
81995883 TTAAAATTTTATTTCTCAATTTAGTTAATTTAA
1 TTAAAATTTTATTTCTCAATTTAGTTAATTTAA
81995916 TTAA
1 TTAA
81995920 GATAATTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (33 bp):
TTAAAATTTTATTTCTCAATTTAGTTAATTTAA
Found at i:81999631 original size:27 final size:26
Alignment explanation
Indices: 81999576--81999633 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
81999566 AACTTAACAC
*
81999576 TTTTTTCCTAATTTGGTACCTAAGCT
1 TTTTTTCCTAATTTGATACCTAAGCT
**
81999602 TTTTTTCCTAATTTGATATTTAAGCT
1 TTTTTTCCTAATTTGATACCTAAGCT
81999628 TTTTTT
1 TTTTTT
81999634 TTATTCAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.19, C:0.14, G:0.09, T:0.59
Consensus pattern (26 bp):
TTTTTTCCTAATTTGATACCTAAGCT
Found at i:82001013 original size:8 final size:8
Alignment explanation
Indices: 82001000--82001026 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
82000990 TCCCAATATT
82001000 ATTTAAGA
1 ATTTAAGA
82001008 ATTTAAGA
1 ATTTAAGA
82001016 ATTTAAGA
1 ATTTAAGA
82001024 ATT
1 ATT
82001027 AATCAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (8 bp):
ATTTAAGA
Found at i:82002187 original size:19 final size:19
Alignment explanation
Indices: 82002163--82002200 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
82002153 TAAGGTTGGA
*
82002163 GGAATTATGAATATTTATT
1 GGAATTATGAATAATTATT
*
82002182 GGAATTATGGATAATTATT
1 GGAATTATGAATAATTATT
82002201 TCTGTTAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (19 bp):
GGAATTATGAATAATTATT
Found at i:82003555 original size:31 final size:30
Alignment explanation
Indices: 82003503--82003586 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 30
82003493 AATCATTTAA
* *
82003503 TTAAAAAATTATAATTT-AATCATTTAATTAT
1 TTAAAAAATT-T-ATTTAAATCACTAAATTAT
82003534 TTAAAACAATTTATTTAAATCACTAAATTAT
1 TTAAAA-AATTTATTTAAATCACTAAATTAT
* *
82003565 TTAAAAAAATTATTTAAGTCAC
1 TTAAAAAATTTATTTAAATCAC
82003587 ATTATCATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
30 18 0.38
31 25 0.53
32 4 0.09
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.43
Consensus pattern (30 bp):
TTAAAAAATTTATTTAAATCACTAAATTAT
Found at i:82003566 original size:17 final size:14
Alignment explanation
Indices: 82003528--82003581 Score: 65
Period size: 13 Copynumber: 3.7 Consensus size: 14
82003518 TTAATCATTT
82003528 AATTATTTAAAACA
1 AATTATTTAAAACA
*
82003542 ATTTATTTAAATCACTA
1 AATTATTTAAA--AC-A
82003559 AATTATTTAAAA-A
1 AATTATTTAAAACA
82003572 AATTATTTAA
1 AATTATTTAA
82003582 GTCACATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
13 11 0.31
14 10 0.29
15 1 0.03
16 2 0.06
17 11 0.31
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATTTAAAACA
Found at i:82012616 original size:17 final size:18
Alignment explanation
Indices: 82012550--82012629 Score: 60
Period size: 18 Copynumber: 4.6 Consensus size: 18
82012540 TGTACTATTT
*
82012550 ATTTTTAAAT-TTGTATGA
1 ATTTTTAAATATTTTAT-A
*
82012568 CTTTTTAAATTATTTTA-A
1 ATTTTTAAA-TATTTTATA
* * *
82012586 A-CTCTAATTATTTTA-A
1 ATTTTTAAATATTTTATA
*
82012602 GTTTTTAAATATTTTATA
1 ATTTTTAAATATTTTATA
82012620 ATTTTTAAAT
1 ATTTTTAAAT
82012630 TATTAGTTAC
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
16 8 0.17
17 15 0.32
18 19 0.40
19 1 0.02
20 4 0.09
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (18 bp):
ATTTTTAAATATTTTATA
Found at i:82012626 original size:18 final size:17
Alignment explanation
Indices: 82012569--82012629 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
82012559 TTTGTATGAC
82012569 TTTTTAAATTATTTTAAA
1 TTTTTAAA-TATTTTAAA
* * * *
82012587 -CTCTAATTATTTTAAG
1 TTTTTAAATATTTTAAA
82012603 TTTTTAAATATTTTATAA
1 TTTTTAAATATTTTA-AA
82012621 TTTTTAAAT
1 TTTTTAAAT
82012630 TATTAGTTAC
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
16 8 0.24
17 15 0.45
18 10 0.30
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTTTAAATATTTTAAA
Found at i:82014548 original size:19 final size:19
Alignment explanation
Indices: 82014512--82014550 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
82014502 TTATGTGGTA
82014512 ATTTAAATAATTAGAAAAT
1 ATTTAAATAATTAGAAAAT
*
82014531 ATTTATATATATTA-AAAAT
1 ATTTAAATA-ATTAGAAAAT
82014550 A
1 A
82014551 ACAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (19 bp):
ATTTAAATAATTAGAAAAT
Found at i:82014786 original size:32 final size:34
Alignment explanation
Indices: 82014731--82014816 Score: 92
Period size: 32 Copynumber: 2.6 Consensus size: 34
82014721 ACTTGAAATC
* * *
82014731 AATTATTTGAAAG---TTTTCATTCAAGTTATTG
1 AATTATTTGAAAGTTTTTTTTATTCAAGTCATTA
*
82014762 AGTTATTT-AAA-TTTTTTTTATTCAAGTCATTA
1 AATTATTTGAAAGTTTTTTTTATTCAAGTCATTA
82014794 AATTATTTGAAAGTTTTTATTTA
1 AATTATTTGAAAGTTTTT-TTTA
82014817 AGTCGCTGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
30 3 0.07
31 7 0.16
32 22 0.50
33 3 0.07
34 5 0.11
35 4 0.09
ACGTcount: A:0.33, C:0.05, G:0.09, T:0.53
Consensus pattern (34 bp):
AATTATTTGAAAGTTTTTTTTATTCAAGTCATTA
Found at i:82016625 original size:21 final size:21
Alignment explanation
Indices: 82016567--82016627 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
82016557 CCATGTCTAC
82016567 TCCTTCC-TTTCTACTCTCGCTT
1 TCCTTCCATTTCT-CTCTC-CTT
*
82016589 TCCTTCCTTTTC-CTCTCCTT
1 TCCTTCCATTTCTCTCTCCTT
82016609 T-CTCTCCATTTCTCTCTCC
1 TCCT-TCCATTTCTCTCTCC
82016628 CAACAACCAC
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
19 2 0.06
20 11 0.31
21 11 0.31
22 7 0.20
23 4 0.11
ACGTcount: A:0.03, C:0.44, G:0.02, T:0.51
Consensus pattern (21 bp):
TCCTTCCATTTCTCTCTCCTT
Found at i:82030520 original size:12 final size:12
Alignment explanation
Indices: 82030503--82030527 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
82030493 CCTAAGGTGA
82030503 TTTTTTTTCTTT
1 TTTTTTTTCTTT
82030515 TTTTTTTTCTTT
1 TTTTTTTTCTTT
82030527 T
1 T
82030528 ATTTCAAGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:82031324 original size:13 final size:14
Alignment explanation
Indices: 82031300--82031330 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
82031290 ATTATTATTA
82031300 ATATTAATATATGT
1 ATATTAATATATGT
82031314 ATATT-ATATATGT
1 ATATTAATATATGT
82031327 ATAT
1 ATAT
82031331 ATTCATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:82031552 original size:12 final size:12
Alignment explanation
Indices: 82031531--82031623 Score: 58
Period size: 12 Copynumber: 8.1 Consensus size: 12
82031521 TTCTTAATAT
82031531 TATATT-TTATA
1 TATATTATTATA
82031542 TATATTATTATA
1 TATATTATTATA
82031554 TATATT-TTA-A
1 TATATTATTATA
82031564 TATTATTAGTTATA
1 TA-TATTA-TTATA
* *
82031578 T-TTTTCTT-TCA
1 TATATTATTAT-A
82031589 TACTATTA-TATA
1 TA-TATTATTATA
82031601 TATA-TA-TATA
1 TATATTATTATA
* *
82031611 TCTAATATTATA
1 TATATTATTATA
82031623 T
1 T
82031624 GGTATATTTC
Statistics
Matches: 66, Mismatches: 5, Indels: 21
0.72 0.05 0.23
Matches are distributed among these distances:
10 13 0.20
11 21 0.32
12 23 0.35
13 7 0.11
14 2 0.03
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (12 bp):
TATATTATTATA
Found at i:82031568 original size:20 final size:20
Alignment explanation
Indices: 82031543--82031581 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
82031533 TATTTTATAT
82031543 ATATTATTA-TATATATTTTA
1 ATATTATTAGT-TATATTTTA
82031563 ATATTATTAGTTATATTTT
1 ATATTATTAGTTATATTTT
82031582 TCTTTCATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
ATATTATTAGTTATATTTTA
Found at i:82031622 original size:45 final size:45
Alignment explanation
Indices: 82031524--82031655 Score: 119
Period size: 45 Copynumber: 2.9 Consensus size: 45
82031514 ATATAAGTTC
* * *
82031524 TTAATATTATA-TTTTATAT-ATATTATTATATATAT-TTTAATA
1 TTAATATTATATTTTTATTTCATACTATTATATATATATATAATA
* *
82031566 TTATTAGTTATATTTTTCTTTCATACTATTATATATATATAT-ATA
1 TTAATA-TTATATTTTTATTTCATACTATTATATATATATATAATA
* * *
82031611 TCTAATATTATATGGTATATTTCTAATACTATTATTTATATATAT
1 T-TAATATTATAT-TTTTATTTC--ATACTATTATATATATATAT
82031656 TTATATGTGT
Statistics
Matches: 72, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
42 5 0.07
43 5 0.07
44 6 0.08
45 25 0.35
46 12 0.17
48 19 0.26
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (45 bp):
TTAATATTATATTTTTATTTCATACTATTATATATATATATAATA
Found at i:82031631 original size:52 final size:49
Alignment explanation
Indices: 82031540--82031655 Score: 119
Period size: 48 Copynumber: 2.3 Consensus size: 49
82031530 TTATATTTTA
* * *
82031540 TATATATTATTATATATATTTTAATATTATTAGTTATATTTTTCTTTCATACTAT
1 TATATA-TA-TATATATATTCTAATATTATTAGGTATA--TTTC--TAATACTAT
82031595 TATATATATATATATA-TCTAATATTA-TATGGTATATTTCTAATACTAT
1 TATATATATATATATATTCTAATATTATTA-GGTATATTTCTAATACTAT
*
82031643 TATTTATATATAT
1 TATATATATATAT
82031656 TTATATGTGT
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
48 20 0.36
50 4 0.07
51 2 0.04
52 14 0.25
53 8 0.14
54 2 0.04
55 6 0.11
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (49 bp):
TATATATATATATATATTCTAATATTATTAGGTATATTTCTAATACTAT
Found at i:82041930 original size:40 final size:34
Alignment explanation
Indices: 82041828--82041995 Score: 189
Period size: 35 Copynumber: 4.7 Consensus size: 34
82041818 TCCATGGCAA
82041828 AGTGTGAAATGTAGGTATGGTATTATCCATACTG
1 AGTGTGAAATGTAGGTATGGTATTATCCATACTG
82041862 AGTGTGAAATGTAGGTATGGTATTATCCATACTG
1 AGTGTGAAATGTAGGTATGGTATTATCCATACTG
*
82041896 AGCTGTGAAATGTAGGTATGGTATTATCAAATCCATATTG
1 AG-TGTGAAATGTAGGTATGGTA-T-T---ATCCATACTG
* *
82041936 AGT-TAAGAAATGTAGGTATGGCATT-TCCCATACCG
1 AGTGT--GAAATGTAGGTATGGTATTAT-CCATACTG
82041971 AGT-TGAAAAATGTAGGTATGGTATT
1 AGTGTG--AAATGTAGGTATGGTATT
82041996 TCAATGGGAA
Statistics
Matches: 118, Mismatches: 5, Indels: 21
0.82 0.03 0.15
Matches are distributed among these distances:
33 1 0.01
34 37 0.31
35 47 0.40
36 1 0.01
37 1 0.01
38 2 0.02
39 2 0.02
40 27 0.23
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.34
Consensus pattern (34 bp):
AGTGTGAAATGTAGGTATGGTATTATCCATACTG
Found at i:82045235 original size:73 final size:71
Alignment explanation
Indices: 82045112--82045363 Score: 254
Period size: 73 Copynumber: 3.5 Consensus size: 71
82045102 ATTTTCCAAG
* * * * *
82045112 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTAATTTCAATTTAT
82045177 GTTTCAAA
66 -TTT-AAA
* * * **
82045185 AAAATCAACTCATATCGCGAGAAGTGAGTTGAACCTCGGGGCACGCTGAGGTAATTTCAATTCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTAATTTCAATTTAT
*
82045250 ATTAAA
66 TTTAAA
* * * * *
82045256 TCTATAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGCGGCACGCTAAGGTATTTTCAAAT
1 ---AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTAATTTC-AAT
*
82045321 TCTATTTT-GA
62 T-TATTTTAAA
* * *
82045331 AAAGTCAATTCATATTGCGAGAGGTGAGTTGAG
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAG
82045364 TCTTTTTAAT
Statistics
Matches: 148, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
71 3 0.02
72 31 0.21
73 55 0.37
74 51 0.34
75 5 0.03
76 3 0.02
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTAATTTCAATTTAT
TTTAAA
Found at i:82045286 original size:74 final size:71
Alignment explanation
Indices: 82045112--82045363 Score: 247
Period size: 74 Copynumber: 3.5 Consensus size: 71
82045102 ATTTTCCAAG
* * * * *
82045112 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATT-TA
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTAATTTCAATTCTA
82045176 TGTTTCAAA
66 ---TTCAAA
* * *
82045185 AAAATCAACTCATATCGCGAGAAGTGAGTTGAACCTCGGGGCACGCTGAGGTAATTTCAATTCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTAATTTCAATT-CT
82045250 ATT-AAA
65 ATTCAAA
* * * * *
82045256 TCTATAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGCGGCACGCTAAGGTATTTTCAAAT
1 ---AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTAATTTC-AAT
***
82045321 TCTATTTTGA
62 TCTATTCAAA
* * *
82045331 AAAGTCAATTCATATTGCGAGAGGTGAGTTGAG
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAG
82045364 TCTTTTTAAT
Statistics
Matches: 151, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
71 3 0.02
72 31 0.21
73 54 0.36
74 56 0.37
75 7 0.05
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTAATTTCAATTCTA
TTCAAA
Found at i:82045480 original size:67 final size:67
Alignment explanation
Indices: 82045402--82045586 Score: 273
Period size: 67 Copynumber: 2.7 Consensus size: 67
82045392 TTTTTTTAAT
*
82045402 TTTTCAAAGATCAAATCATATTGCGAGAGGTGAGTTAAGCCTTTAATTTTCGTTTTTCAAAATCT
1 TTTTCAAAGATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTAATTTTCGTTTTTCAAAATCT
82045467 AC
66 AC
* *
82045469 TTTTCAAAGATCAACTCATATTGCGAGAGGTAAGTTGAGCCTTTAATTTTCGTTTTTCAAAATCT
1 TTTTCAAAGATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTAATTTTCGTTTTTCAAAATCT
82045534 AC
66 AC
* * * *
82045536 TTTTCAAATTATTAACTCATGTTGCGAGAGGTGAATTGAA-CCTTTTAATTT
1 TTTTCAAA-GATCAACTCATATTGCGAGAGGTGAGTT-AAGCC-TTTAATTT
82045587 CTGCTTTTAA
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
67 72 0.68
68 25 0.24
69 9 0.08
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (67 bp):
TTTTCAAAGATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTAATTTTCGTTTTTCAAAATCT
AC
Found at i:82045593 original size:13 final size:13
Alignment explanation
Indices: 82045577--82045601 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82045567 TGAATTGAAC
82045577 CTTTTAATTTCTG
1 CTTTTAATTTCTG
82045590 CTTTTAATTTCT
1 CTTTTAATTTCT
82045602 ATGTTTCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.04, T:0.64
Consensus pattern (13 bp):
CTTTTAATTTCTG
Found at i:82046972 original size:14 final size:14
Alignment explanation
Indices: 82046953--82046992 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
82046943 CTCCCCTCTC
82046953 CCCCTCTCCTTTTT
1 CCCCTCTCCTTTTT
82046967 CCCCTCTCC-TTTT
1 CCCCTCTCCTTTTT
*
82046980 -CTCTCTCCTTTTT
1 CCCCTCTCCTTTTT
82046993 TTTCCTTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (14 bp):
CCCCTCTCCTTTTT
Found at i:82046987 original size:12 final size:13
Alignment explanation
Indices: 82046953--82046991 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
82046943 CTCCCCTCTC
82046953 CCCCTCTCCTTTTT
1 CCCCTCTCC-TTTT
82046967 CCCCTCTCCTTTT
1 CCCCTCTCCTTTT
*
82046980 -CTCTCTCCTTTT
1 CCCCTCTCCTTTT
82046992 TTTTCCTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 11 0.46
13 4 0.17
14 9 0.38
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (13 bp):
CCCCTCTCCTTTT
Found at i:82047565 original size:13 final size:14
Alignment explanation
Indices: 82047541--82047571 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
82047531 ATTATTATTA
82047541 ATATTAATATATGT
1 ATATTAATATATGT
82047555 ATATT-ATATATGT
1 ATATTAATATATGT
82047568 ATAT
1 ATAT
82047572 ATTCATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:82047793 original size:12 final size:12
Alignment explanation
Indices: 82047772--82047864 Score: 58
Period size: 12 Copynumber: 8.1 Consensus size: 12
82047762 TTCTTAATAT
82047772 TATATT-TTATA
1 TATATTATTATA
82047783 TATATTATTATA
1 TATATTATTATA
82047795 TATATT-TTA-A
1 TATATTATTATA
82047805 TATTATTAGTTATA
1 TA-TATTA-TTATA
* *
82047819 T-TTTTCTT-TCA
1 TATATTATTAT-A
82047830 TACTATTA-TATA
1 TA-TATTATTATA
82047842 TATA-TA-TATA
1 TATATTATTATA
* *
82047852 TCTAATATTATA
1 TATATTATTATA
82047864 T
1 T
82047865 GGTATATTTC
Statistics
Matches: 66, Mismatches: 5, Indels: 21
0.72 0.05 0.23
Matches are distributed among these distances:
10 13 0.20
11 21 0.32
12 23 0.35
13 7 0.11
14 2 0.03
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (12 bp):
TATATTATTATA
Found at i:82047809 original size:20 final size:20
Alignment explanation
Indices: 82047784--82047822 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
82047774 TATTTTATAT
82047784 ATATTATTA-TATATATTTTA
1 ATATTATTAGT-TATATTTTA
82047804 ATATTATTAGTTATATTTT
1 ATATTATTAGTTATATTTT
82047823 TCTTTCATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
ATATTATTAGTTATATTTTA
Found at i:82047863 original size:45 final size:45
Alignment explanation
Indices: 82047765--82047896 Score: 119
Period size: 45 Copynumber: 2.9 Consensus size: 45
82047755 ATATAAGTTC
* * *
82047765 TTAATATTATA-TTTTATAT-ATATTATTATATATAT-TTTAATA
1 TTAATATTATATTTTTATTTCATACTATTATATATATATATAATA
* *
82047807 TTATTAGTTATATTTTTCTTTCATACTATTATATATATATAT-ATA
1 TTAATA-TTATATTTTTATTTCATACTATTATATATATATATAATA
* * *
82047852 TCTAATATTATATGGTATATTTCTAATACTATTATTTATATATAT
1 T-TAATATTATAT-TTTTATTTC--ATACTATTATATATATATAT
82047897 TTATATGTGT
Statistics
Matches: 72, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
42 5 0.07
43 5 0.07
44 6 0.08
45 25 0.35
46 12 0.17
48 19 0.26
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (45 bp):
TTAATATTATATTTTTATTTCATACTATTATATATATATATAATA
Found at i:82047872 original size:52 final size:49
Alignment explanation
Indices: 82047781--82047896 Score: 119
Period size: 48 Copynumber: 2.3 Consensus size: 49
82047771 TTATATTTTA
* * *
82047781 TATATATTATTATATATATTTTAATATTATTAGTTATATTTTTCTTTCATACTAT
1 TATATA-TA-TATATATATTCTAATATTATTAGGTATA--TTTC--TAATACTAT
82047836 TATATATATATATATA-TCTAATATTA-TATGGTATATTTCTAATACTAT
1 TATATATATATATATATTCTAATATTATTA-GGTATATTTCTAATACTAT
*
82047884 TATTTATATATAT
1 TATATATATATAT
82047897 TTATATGTGT
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
48 20 0.36
50 4 0.07
51 2 0.04
52 14 0.25
53 8 0.14
54 2 0.04
55 6 0.11
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (49 bp):
TATATATATATATATATTCTAATATTATTAGGTATATTTCTAATACTAT
Found at i:82056136 original size:2 final size:2
Alignment explanation
Indices: 82056129--82056160 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
82056119 AATTCTAACA
82056129 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
82056161 CCTTTCTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82056845 original size:21 final size:21
Alignment explanation
Indices: 82056798--82056852 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
82056788 ACCATTGTTT
*
82056798 CTAATCTTACCGCTACAATAT
1 CTAATCTTACCGCTACAATAA
* * *
82056819 CCAATCTTACCGCTTCAGTAA
1 CTAATCTTACCGCTACAATAA
*
82056840 CTAATCTCACCGC
1 CTAATCTTACCGC
82056853 CACCGCTGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.35, G:0.07, T:0.29
Consensus pattern (21 bp):
CTAATCTTACCGCTACAATAA
Found at i:82057984 original size:26 final size:26
Alignment explanation
Indices: 82057937--82057986 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
82057927 GTACATTTAA
*
82057937 AATTTAGTCCTATTTTTATTTTAAAT
1 AATTTAGTCCAATTTTTATTTTAAAT
*
82057963 AATTTAGTTCAATTATTT-TTTTAA
1 AATTTAGTCCAATT-TTTATTTTAA
82057987 TTTTAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 18 0.86
27 3 0.14
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (26 bp):
AATTTAGTCCAATTTTTATTTTAAAT
Found at i:82057984 original size:31 final size:32
Alignment explanation
Indices: 82057949--82058008 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
82057939 TTTAGTCCTA
*
82057949 TTTTT-ATTTTAAATAATTTA-GTTCAATTATT
1 TTTTTAATTTTAAA-AATTTATGTCCAATTATT
82057980 TTTTTAATTTTAAAAATTTATGTCCAATT
1 TTTTTAATTTTAAAAATTTATGTCCAATT
82058009 TCTAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 11 0.42
32 15 0.58
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.58
Consensus pattern (32 bp):
TTTTTAATTTTAAAAATTTATGTCCAATTATT
Found at i:82065764 original size:22 final size:22
Alignment explanation
Indices: 82065739--82065787 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
82065729 AATTTTTATC
*
82065739 AAATACAAATATCAAATTAAAA
1 AAATACAAATACCAAATTAAAA
* *
82065761 AAATACATATACCACATTAAAA
1 AAATACAAATACCAAATTAAAA
82065783 AAATA
1 AAATA
82065788 ATGTCAAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.22
Consensus pattern (22 bp):
AAATACAAATACCAAATTAAAA
Found at i:82071333 original size:31 final size:31
Alignment explanation
Indices: 82071295--82071356 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
82071285 ATAAGGAAAA
82071295 AAAAATCAATCTTTCTGAAAAAATTACGATT
1 AAAAATCAATCTTTCTGAAAAAATTACGATT
*
82071326 AAAAATCAATCTTTCTGAAATAATTACGATT
1 AAAAATCAATCTTTCTGAAAAAATTACGATT
82071357 CTAATTCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (31 bp):
AAAAATCAATCTTTCTGAAAAAATTACGATT
Found at i:82071759 original size:2 final size:2
Alignment explanation
Indices: 82071752--82071778 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
82071742 TCTATCTATC
82071752 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
82071779 TTCTACAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:82075057 original size:13 final size:13
Alignment explanation
Indices: 82075039--82075091 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
82075029 AGTTCTTCAT
82075039 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
82075052 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
82075065 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
82075078 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
82075091 T
1 T
82075092 TTGATTTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:82075656 original size:18 final size:18
Alignment explanation
Indices: 82075633--82075667 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
82075623 AACTTTTCTT
82075633 CCAGAAGTACTTTTGAAG
1 CCAGAAGTACTTTTGAAG
*
82075651 CCAGAAGTGCTTTTGAA
1 CCAGAAGTACTTTTGAA
82075668 AAGCAATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (18 bp):
CCAGAAGTACTTTTGAAG
Found at i:82076384 original size:14 final size:14
Alignment explanation
Indices: 82076335--82076388 Score: 51
Period size: 13 Copynumber: 4.1 Consensus size: 14
82076325 TATAATTTAG
*
82076335 TTTAGTTTTAATTT
1 TTTAGATTTAATTT
* *
82076349 TTTATA-TTACTTT
1 TTTAGATTTAATTT
*
82076362 TTT-GTTTTAATTT
1 TTTAGATTTAATTT
82076375 TTTAGATTT-ATTT
1 TTTAGATTTAATTT
82076388 T
1 T
82076389 AATAAAATAA
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
13 23 0.74
14 8 0.26
ACGTcount: A:0.20, C:0.02, G:0.06, T:0.72
Consensus pattern (14 bp):
TTTAGATTTAATTT
Found at i:82077259 original size:58 final size:58
Alignment explanation
Indices: 82077169--82077291 Score: 228
Period size: 58 Copynumber: 2.1 Consensus size: 58
82077159 ACTTTTAATA
*
82077169 ATATGTTTGTTGAGTGGTATTTTGTGTATCTTTTTAGATGGATTAATCCTGTGTATCT
1 ATATGATTGTTGAGTGGTATTTTGTGTATCTTTTTAGATGGATTAATCCTGTGTATCT
*
82077227 ATATGATTGTTGAGTGGTATTTTGTGTATCTTTTTAGATGGATTAATTCTGTGTATCT
1 ATATGATTGTTGAGTGGTATTTTGTGTATCTTTTTAGATGGATTAATCCTGTGTATCT
82077285 ATATGAT
1 ATATGAT
82077292 ACGATTATTA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.21, C:0.06, G:0.22, T:0.51
Consensus pattern (58 bp):
ATATGATTGTTGAGTGGTATTTTGTGTATCTTTTTAGATGGATTAATCCTGTGTATCT
Found at i:82083217 original size:6 final size:6
Alignment explanation
Indices: 82083206--82083235 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
82083196 GTGGTATTGC
82083206 TGGATT TGGATT TGGATT TGGATT TGGATT
1 TGGATT TGGATT TGGATT TGGATT TGGATT
82083236 AGTAGGGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
TGGATT
Found at i:82084133 original size:14 final size:14
Alignment explanation
Indices: 82084108--82084141 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
82084098 AAAGAATTAA
82084108 AGAAACAAAGAAAC
1 AGAAACAAAGAAAC
82084122 A-AAACAAAAGAAAC
1 AGAAAC-AAAGAAAC
82084136 AGAAAC
1 AGAAAC
82084142 GAAGCAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 10 0.56
15 4 0.22
ACGTcount: A:0.74, C:0.15, G:0.12, T:0.00
Consensus pattern (14 bp):
AGAAACAAAGAAAC
Found at i:82085184 original size:38 final size:39
Alignment explanation
Indices: 82085133--82085225 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 39
82085123 CGGATAGATT
*
82085133 CGATGAGGTACTGGGTACCAACT-TTACTTCG-ACTAGGC
1 CGATGAGGCACTGGGTACCAACTATTACTTCGAACTA-GC
* ** * *
82085171 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTACCAACTATTACTTCGAACTAGC
82085210 CGATGAGGCACTGGGT
1 CGATGAGGCACTGGGT
82085226 GCCATTTGGT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
38 19 0.41
39 23 0.50
40 4 0.09
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
CGATGAGGCACTGGGTACCAACTATTACTTCGAACTAGC
Found at i:82085213 original size:39 final size:39
Alignment explanation
Indices: 82085092--82085226 Score: 107
Period size: 39 Copynumber: 3.4 Consensus size: 39
82085082 GACCTCGAGT
* * *
82085092 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATA-GATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTC-GA-ACTATC
** ** *
82085133 CGATGAGGTACTGGGTACCAACT-TTACTTCG-ACTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
*
82085171 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
*
82085210 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
82085227 CCATTTGGTG
Statistics
Matches: 74, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
36 1 0.01
37 1 0.01
38 20 0.27
39 30 0.41
40 5 0.07
41 15 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
Found at i:82087832 original size:29 final size:29
Alignment explanation
Indices: 82087759--82087832 Score: 73
Period size: 28 Copynumber: 2.6 Consensus size: 29
82087749 TTAAAAATTC
* **
82087759 ATAAAA-AAATATAAAAATTTATATATTA
1 ATAAAACATATATAAAAATTTATATAAAA
*
82087787 ATAAAACATAT-TTAAAATTT-TATAAAA
1 ATAAAACATATATAAAAATTTATATAAAA
*
82087814 ATTTAAACATATATAAAAA
1 A-TAAAACATATATAAAAA
82087833 AATGAAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
27 6 0.16
28 23 0.62
29 8 0.22
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (29 bp):
ATAAAACATATATAAAAATTTATATAAAA
Found at i:82088508 original size:10 final size:9
Alignment explanation
Indices: 82088461--82088519 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
82088451 TTTATAATTT
82088461 TTTTTATAA
1 TTTTTATAA
*
82088470 GTTTTATAA
1 TTTTTATAA
*
82088479 GTTTATATAA
1 -TTTTTATAA
* *
82088489 -TATTAT-T
1 TTTTTATAA
82088496 TTTTTATAA
1 TTTTTATAA
*
82088505 TTTTAATAA
1 TTTTTATAA
82088514 TTTTTA
1 TTTTTA
82088520 AAAAAAATAT
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
8 9 0.24
9 21 0.57
10 7 0.19
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:82091110 original size:18 final size:19
Alignment explanation
Indices: 82091089--82091127 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
82091079 AAAAAACATT
82091089 TAAAAGATAAA-AAAATAA
1 TAAAAGATAAATAAAATAA
*
82091107 T-AAATATAAATAAAATAA
1 TAAAAGATAAATAAAATAA
82091125 TAA
1 TAA
82091128 GAGAAACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
17 8 0.44
18 9 0.50
19 1 0.06
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (19 bp):
TAAAAGATAAATAAAATAA
Found at i:82093195 original size:39 final size:35
Alignment explanation
Indices: 82093095--82093261 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
82093085 CATGGCAAAG
* *
82093095 TGTGAAATGTAGGTATGGTATCATCTATACTGAGT
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
*
82093130 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
82093165 TGTGAAATGTA-GTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTA-T-T---ATCCATACTGAGT
** * *
82093204 TAAGAAATGTAGGTATGGCATT-TCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTAT-CCATACTGAGT
***
82093239 TAAAAAAATGTAGGTATGGTATT
1 T-GTGAAATGTAGGTATGGTATT
82093262 TCAATGAGGA
Statistics
Matches: 114, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
34 9 0.08
35 55 0.48
36 20 0.18
38 1 0.01
39 22 0.19
40 7 0.06
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
Found at i:82093255 original size:36 final size:35
Alignment explanation
Indices: 82093193--82093263 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
82093183 ATTATCAAAT
* *
82093193 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
82093228 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
82093264 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:82095384 original size:6 final size:6
Alignment explanation
Indices: 82095373--82095399 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
82095363 ATATTATTAT
82095373 AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA
82095400 ATGCGTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:82096694 original size:17 final size:17
Alignment explanation
Indices: 82096660--82096713 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
82096650 GAAATTATGG
82096660 ATTTAAAAA-ATATATAT
1 ATTTAAAAATA-ATATAT
82096677 ATTTAAAAATAATATAT
1 ATTTAAAAATAATATAT
* *
82096694 A-ATAAATAATAAAATAT
1 ATTTAAA-AATAATATAT
82096711 ATT
1 ATT
82096714 GTTTAAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 4 0.13
17 26 0.84
18 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTTAAAAATAATATAT
Found at i:82096694 original size:19 final size:17
Alignment explanation
Indices: 82096660--82096693 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
82096650 GAAATTATGG
82096660 ATTTAAAAAATATATAT
1 ATTTAAAAAATATATAT
82096677 ATTT-AAAAATA-ATAT
1 ATTTAAAAAATATATAT
82096692 AT
1 AT
82096694 AATAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 7 0.41
17 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTTAAAAAATATATAT
Found at i:82097396 original size:31 final size:31
Alignment explanation
Indices: 82097328--82097398 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
82097318 TACTTGAATT
*
82097328 AAAATTAAAGTTTTATGTATATATTTGAACC
1 AAAATTAAAGTTTTATGTATATAATTGAACC
* * *
82097359 ACAATTAAAGTTTTATTTGTATAATT-ATACC
1 AAAATTAAAGTTTTATGTATATAATTGA-ACC
82097390 AAAATTAAA
1 AAAATTAAA
82097399 ATTTATATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 1 0.03
31 33 0.97
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (31 bp):
AAAATTAAAGTTTTATGTATATAATTGAACC
Found at i:82097542 original size:24 final size:26
Alignment explanation
Indices: 82097504--82097552 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 26
82097494 GCCAGAAAAA
82097504 AAAAATAAAACACTATAAATATATTG
1 AAAAATAAAACACTATAAATATATTG
82097530 AAAAA-AAAA-ACTATAAATATATT
1 AAAAATAAAACACTATAAATATATT
82097553 AATTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 14 0.61
25 4 0.17
26 5 0.22
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (26 bp):
AAAAATAAAACACTATAAATATATTG
Found at i:82098086 original size:2 final size:2
Alignment explanation
Indices: 82098079--82098109 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
82098069 TAATTTTAGG
82098079 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
82098110 TTTTTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:82098659 original size:42 final size:39
Alignment explanation
Indices: 82098551--82098662 Score: 102
Period size: 41 Copynumber: 2.8 Consensus size: 39
82098541 TTGTCCCTTT
* **
82098551 ATAATTTTTGATATTTCCTT-TTTTTTTTTTAATTTCTC
1 ATAATTTTTGGTGGTTCCTTCTTTTTTTTTTAATTTCTC
* *
82098589 ATGATTTTTGGTGGTTTC-TCAAATTTTTTTTTTATATTTCATC
1 ATAATTTTTGGTGGTTCCTTC---TTTTTTTTTTA-ATTTC-TC
* *
82098632 GTAATTTTTGGTGGTTCCTTCTGTTTTTTTT
1 ATAATTTTTGGTGGTTCCTTCTTTTTTTTTT
82098663 GGGTACTTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
37 1 0.02
38 13 0.22
41 20 0.34
42 5 0.09
43 17 0.29
44 2 0.03
ACGTcount: A:0.15, C:0.10, G:0.11, T:0.64
Consensus pattern (39 bp):
ATAATTTTTGGTGGTTCCTTCTTTTTTTTTTAATTTCTC
Found at i:82098662 original size:43 final size:41
Alignment explanation
Indices: 82098571--82098650 Score: 115
Period size: 43 Copynumber: 1.9 Consensus size: 41
82098561 ATATTTCCTT
* *
82098571 TTTTTTTTTTAATTTCTCATGATTTTTGGTGGTTTCTCAAA
1 TTTTTTTTTTAATTTCTCATAATTTTTGGTGGTTCCTCAAA
*
82098612 TTTTTTTTTTATATTTCATCGTAATTTTTGGTGGTTCCT
1 TTTTTTTTTTA-ATTTC-TCATAATTTTTGGTGGTTCCT
82098651 TCTGTTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 11 0.32
42 5 0.15
43 18 0.53
ACGTcount: A:0.15, C:0.10, G:0.12, T:0.62
Consensus pattern (41 bp):
TTTTTTTTTTAATTTCTCATAATTTTTGGTGGTTCCTCAAA
Found at i:82108253 original size:17 final size:17
Alignment explanation
Indices: 82108213--82108253 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
82108203 AAAATTAAAT
*
82108213 TATAATATAAAATATAA
1 TATAATTTAAAATATAA
82108230 TATAATTTAAATATATAA
1 TATAATTTAAA-ATATAA
82108248 -ATAATT
1 TATAATT
82108254 GATATGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TATAATTTAAAATATAA
Found at i:82111088 original size:55 final size:55
Alignment explanation
Indices: 82111003--82111112 Score: 193
Period size: 55 Copynumber: 2.0 Consensus size: 55
82110993 GCAATTCTCC
* *
82111003 AATATGACCAATGAGGGAATTGGCATGAAGGTAAATGCGTAAGGTTTGTCAAGTT
1 AATATGACCAATGAGGGAATTGGCACGAAGGTAAATGCATAAGGTTTGTCAAGTT
*
82111058 AATATGACCAATGAGGGAATTGGCACGAAGGTAAATGCATGAGGTTTGTCAAGTT
1 AATATGACCAATGAGGGAATTGGCACGAAGGTAAATGCATAAGGTTTGTCAAGTT
82111113 CAAGAACGAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.26
Consensus pattern (55 bp):
AATATGACCAATGAGGGAATTGGCACGAAGGTAAATGCATAAGGTTTGTCAAGTT
Found at i:82112141 original size:13 final size:13
Alignment explanation
Indices: 82112125--82112149 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82112115 AAACTTAATT
82112125 ATAATTATAGTTA
1 ATAATTATAGTTA
82112138 ATAATTATAGTT
1 ATAATTATAGTT
82112150 TTACCAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
ATAATTATAGTTA
Found at i:82112877 original size:117 final size:117
Alignment explanation
Indices: 82112663--82113608 Score: 1285
Period size: 117 Copynumber: 8.1 Consensus size: 117
82112653 CACTAATGAC
* * ** *
82112663 ATCGATATCTTCATTACTTTCAAAGAGTTCAAA-TTCTAGGATTCTACCTACAGGTGTGCCTATT
1 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTC-AAGATTCTACCTACAGGTGTGCCTATT
* *
82112727 CCTCCGTCAGGACCTAGTGGAAGTACATTAGATCCACCTCCTCCATCGTCAAT
65 CCTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
* * * *
82112780 ATTGACATCTTCATCACTTTTGAAAAGTTCAAATTTCAAGATTCTACCTATAGGTGTTCCTATTC
1 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCCTATTC
* * * *
82112845 CTCCGTCGGGACCTAGTGGAAGTACATCAGATCCGCCACCTCCATCGTCAAT
66 CTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
* * *
82112897 ATCGAAATTTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCATATTC
1 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCCTATTC
* * ** * *
82112962 CTCCGTCAGGACCTAATGAAAGTACATCAGATCTGCCACCTCCATCGTCAAT
66 CTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
* * * *
82113014 AACGACATCTTCATCACTTGTGAAGAGTTTAAATTTCAAGATTCTACCTACAGGTGTGGCTATTC
1 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCCTATTC
* * * *
82113079 CTCTGTCGGGACCTAGTGGAAGTACATCAGATCCGCCACCTCCACCGTCAAT
66 CTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
* * * **
82113131 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTTAGGATTATACCTACAGGTGTGGTTATTC
1 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCCTATTC
* *
82113196 CTCCGTCGGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAGT
66 CTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
*
82113248 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAGGATTCTACCTACAGGTGTGCCTATTC
1 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCCTATTC
* * * *
82113313 CTCCGCCGGGACCTAGTGGAAGTACATCAGATCCACCTCATCCACCGTCAGT
66 CTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
* * *
82113365 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTTAGGATTCTATCTACAGGTGTGCCTATTC
1 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCCTATTC
* *
82113430 CTCCATCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTTAAT
66 CTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
* * * *
82113482 ATTG--A----CATCACTTTTAAAGAGTTCAAATTTCAAGATTCTATCTACTGGTGTGCCTATTC
1 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCCTATTC
* * * ** *
82113541 CTCCGTCAAGACCTAGTGAAAGTACATCATATCCACCTCCTCCATTGTTAAT
66 CTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
* *
82113593 ATCAACATCTTTATCA
1 ATCGACATCTTCATCA
82113609 ATTTCAAAAA
Statistics
Matches: 746, Mismatches: 76, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
111 98 0.13
113 1 0.00
115 1 0.00
117 643 0.86
118 3 0.00
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (117 bp):
ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCCTATTC
CTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
Found at i:82115960 original size:47 final size:47
Alignment explanation
Indices: 82115921--82116046 Score: 185
Period size: 40 Copynumber: 2.8 Consensus size: 47
82115911 TGTCGACTAC
82115921 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
1 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
82115968 TGTTAAAGTTCCGGA-----T--GATGAAGTACTTTGTGTACTATAA
1 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
* *
82116008 TGTTAAAGTTCCGGATTTGTTCCGATGAAGCACTATGTG
1 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTG
82116047 CTTATCCCGG
Statistics
Matches: 70, Mismatches: 2, Indels: 14
0.81 0.02 0.16
Matches are distributed among these distances:
40 39 0.56
42 1 0.01
45 1 0.01
47 29 0.41
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (47 bp):
TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
Found at i:82123208 original size:11 final size:11
Alignment explanation
Indices: 82123192--82123219 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
82123182 TACTGTTAAA
82123192 GTTCCGGATTT
1 GTTCCGGATTT
82123203 GTTCCGGATTT
1 GTTCCGGATTT
82123214 GTTCCG
1 GTTCCG
82123220 ATGAAGTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.07, C:0.21, G:0.29, T:0.43
Consensus pattern (11 bp):
GTTCCGGATTT
Found at i:82133272 original size:10 final size:10
Alignment explanation
Indices: 82133241--82133273 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
82133231 GTAAATATTT
*
82133241 AATTTTTAAA
1 AATTTTAAAA
82133251 AA-TTTAAAA
1 AATTTTAAAA
82133260 AATTTTAAAA
1 AATTTTAAAA
82133270 AATT
1 AATT
82133274 AAAATTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
AATTTTAAAA
Found at i:82133288 original size:18 final size:19
Alignment explanation
Indices: 82133241--82133308 Score: 68
Period size: 18 Copynumber: 3.5 Consensus size: 19
82133231 GTAAATATTT
82133241 AATTTTTAAAAATTTAAAA
1 AATTTTTAAAAATTTAAAA
*
82133260 AA-TTTTAAAAAATT-AAA
1 AATTTTTAAAAATTTAAAA
* *
82133277 ATTTATTTAAAAAGTATAAAA
1 AATT-TTTAAAAA-TTTAAAA
82133298 ATATTTTTAAA
1 A-ATTTTTAAA
82133309 TTAATTAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
17 4 0.10
18 12 0.31
19 10 0.26
20 1 0.03
21 10 0.26
22 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (19 bp):
AATTTTTAAAAATTTAAAA
Found at i:82133893 original size:24 final size:25
Alignment explanation
Indices: 82133837--82133893 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
82133827 TGTTTTTCTT
* **
82133837 TTAATTTAATAATCCTATTTTTATA
1 TTAATTTAATAATCCTAGTTGAATA
82133862 TTAATTTAATAATCCT-GTTGAATA
1 TTAATTTAATAATCCTAGTTGAATA
*
82133886 TTACTTTA
1 TTAATTTA
82133894 TAAGCAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.53
Consensus pattern (25 bp):
TTAATTTAATAATCCTAGTTGAATA
Found at i:82134080 original size:12 final size:13
Alignment explanation
Indices: 82134063--82134104 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
82134053 ACAATGAGAC
82134063 AATATAATATTA-
1 AATATAATATTAT
82134075 AATATAATA-TAT
1 AATATAATATTAT
* *
82134087 GATATAATATTTT
1 AATATAATATTAT
82134100 AATAT
1 AATAT
82134105 TATCTTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
11 2 0.08
12 17 0.68
13 6 0.24
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (13 bp):
AATATAATATTAT
Found at i:82135339 original size:31 final size:31
Alignment explanation
Indices: 82135291--82135349 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
82135281 AATAGTACAC
* **
82135291 GAGGAAAATATCCAGTTTTTGTGTAAAAGAA
1 GAGGAAAATATCAAGTTTGGGTGTAAAAGAA
82135322 GAGG-AAATATCTAAGTTTGGGTGTAAAA
1 GAGGAAAATATC-AAGTTTGGGTGTAAAA
82135350 ATGGAAGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.29
Consensus pattern (31 bp):
GAGGAAAATATCAAGTTTGGGTGTAAAAGAA
Found at i:82137695 original size:34 final size:33
Alignment explanation
Indices: 82137650--82137714 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 33
82137640 AAAATTTTAT
82137650 CAAAATCATGTGTCAATAACATGGAAATAATTAC
1 CAAAATCATGTGTCAATAACATGGAAA-AATTAC
* *
82137684 CAAAATTATGTGTCAATGACATGGAAAAATT
1 CAAAATCATGTGTCAATAACATGGAAAAATT
82137715 TGCACAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 4 0.14
34 25 0.86
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28
Consensus pattern (33 bp):
CAAAATCATGTGTCAATAACATGGAAAAATTAC
Found at i:82138601 original size:18 final size:16
Alignment explanation
Indices: 82138576--82138628 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
82138566 CAAATTGCAT
82138576 TTTTTTATAATATTTAC
1 TTTTTTATAATATTT-C
*
82138593 TTTTATTATCAT-TATTC
1 TTTT-TTATAATAT-TTC
82138610 TTTTTTATAATATTT-
1 TTTTTTATAATATTTC
82138625 TTTT
1 TTTT
82138629 AATTCATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
15 4 0.13
16 8 0.26
17 11 0.35
18 8 0.26
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTTATAATATTTC
Found at i:82138628 original size:15 final size:15
Alignment explanation
Indices: 82138575--82138628 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
82138565 CCAAATTGCA
82138575 TTTTTTTATAATATT
1 TTTTTTTATAATATT
*
82138590 TACTTTTATTATCATTATT
1 T--TTTT-TTAT-AATATT
*
82138609 CTTTTTTATAATATT
1 TTTTTTTATAATATT
82138624 TTTTT
1 TTTTT
82138629 AATTCATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
15 10 0.32
16 4 0.13
17 8 0.26
18 4 0.13
19 5 0.16
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTTTATAATATT
Found at i:82147019 original size:17 final size:19
Alignment explanation
Indices: 82146985--82147022 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
82146975 AAACCTTGAA
82146985 TTTTCTCTTTTCTTCTTTC
1 TTTTCTCTTTTCTTCTTTC
82147004 TTTTCTC-TTT-TTCTTTC
1 TTTTCTCTTTTCTTCTTTC
82147021 TT
1 TT
82147023 CCTTCCCCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCTCTTTTCTTCTTTC
Found at i:82150816 original size:53 final size:53
Alignment explanation
Indices: 82150736--82150842 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
82150726 CATTATCATT
* *
82150736 TCTCATGAAAGTTTTATCTTGTAAATTCTACCAAAAAGTATGAAAACCAAGGA
1 TCTCATGAAAGTTCTATATTGTAAATTCTACCAAAAAGTATGAAAACCAAGGA
82150789 TCTCATGAAAGTTCTATATTGTAAATTCTACCAAAAAGTATGAAAACCAAGGA
1 TCTCATGAAAGTTCTATATTGTAAATTCTACCAAAAAGTATGAAAACCAAGGA
82150842 T
1 T
82150843 ACGTGTCGAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (53 bp):
TCTCATGAAAGTTCTATATTGTAAATTCTACCAAAAAGTATGAAAACCAAGGA
Found at i:82153281 original size:23 final size:23
Alignment explanation
Indices: 82153232--82153283 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
82153222 GCCAAATTTT
*
82153232 AAAATTTAAAAAATAAAAAAACT
1 AAAATTTAAAAAATAAAAAAACA
* * **
82153255 AAAATTTTATAAATAAAAGTACA
1 AAAATTTAAAAAATAAAAAAACA
82153278 AAAATT
1 AAAATT
82153284 AAATTTAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATTTAAAAAATAAAAAAACA
Found at i:82160491 original size:20 final size:21
Alignment explanation
Indices: 82160468--82160506 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
82160458 TAAGATTCAG
*
82160468 AATTTGAG-TTTAAAGTTTTA
1 AATTTGAGATTCAAAGTTTTA
*
82160488 AATTTTAGATTCAAAGTTT
1 AATTTGAGATTCAAAGTTT
82160507 GAGGTTCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.49
Consensus pattern (21 bp):
AATTTGAGATTCAAAGTTTTA
Found at i:82160613 original size:31 final size:32
Alignment explanation
Indices: 82160552--82160621 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
82160542 AACAATTTAA
*
82160552 ATAAAAAATTATTAAAATTATGTATTAATAAT
1 ATAAAAAATTATTAAAATTATCTATTAATAAT
*
82160584 ATAAAAATTTATTAAAA-TATCT-TTAAATAAT
1 ATAAAAAATTATTAAAATTATCTATT-AATAAT
*
82160615 TTAAAAA
1 ATAAAAA
82160622 GCTATAAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 2 0.06
31 16 0.47
32 16 0.47
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (32 bp):
ATAAAAAATTATTAAAATTATCTATTAATAAT
Found at i:82162970 original size:24 final size:25
Alignment explanation
Indices: 82162943--82162993 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
82162933 TCAAATTGTA
* *
82162943 AATGAAT-TTTTTTTAAAATAATTT
1 AATGAATATTTTTTAAAAAAAATTT
*
82162967 AATGCATATTTTTTAAAAAAAATTT
1 AATGAATATTTTTTAAAAAAAATTT
82162992 AA
1 AA
82162994 CAGTTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (25 bp):
AATGAATATTTTTTAAAAAAAATTT
Found at i:82164933 original size:30 final size:29
Alignment explanation
Indices: 82164873--82164937 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
82164863 TGACATTCAG
** ** *
82164873 AATTAATTTTTTAAAATGTTGGAGGGTTT
1 AATTAATTTTTTAAAAAATTAAAGGATTT
82164902 AATTAATTTTTTTAAAAAATTAAAGGATTT
1 AATTAA-TTTTTTAAAAAATTAAAGGATTT
82164932 AATTAA
1 AATTAA
82164938 AACTTCTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 6 0.20
30 24 0.80
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (29 bp):
AATTAATTTTTTAAAAAATTAAAGGATTT
Found at i:82172864 original size:18 final size:17
Alignment explanation
Indices: 82172825--82172863 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
82172815 CCTAAAGGTG
*
82172825 ATTTTATCTTCTTTATT
1 ATTTTATCTTATTTATT
82172842 ATTTTACTCTTATTT-TT
1 ATTTTA-TCTTATTTATT
82172859 ATTTT
1 ATTTT
82172864 TTATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTATCTTATTTATT
Found at i:82173115 original size:29 final size:29
Alignment explanation
Indices: 82173059--82173115 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
82173049 TCTCTTCTTT
* *
82173059 TTTCATTTATTTTTCGTATTTACCTTAGA
1 TTTCATTTATTTTGCGTATTTAACTTAGA
*
82173088 TTTCATATTATTTTGC-TATTTAATTTAG
1 TTTCAT-TTATTTTGCGTATTTAACTTAG
82173116 CTTTAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.60
Consensus pattern (29 bp):
TTTCATTTATTTTGCGTATTTAACTTAGA
Found at i:82173375 original size:11 final size:11
Alignment explanation
Indices: 82173357--82173386 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
82173347 GTGTATATTG
82173357 TATATATTATA
1 TATATATTATA
*
82173368 TTTATATTATA
1 TATATATTATA
82173379 TATATATT
1 TATATATT
82173387 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:82177625 original size:12 final size:12
Alignment explanation
Indices: 82177608--82177643 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
82177598 AACATTTTGA
82177608 CATTCATGCATT
1 CATTCATGCATT
82177620 CATTCATGCATT
1 CATTCATGCATT
*
82177632 CATTCATACATT
1 CATTCATGCATT
82177644 GCATATCCCA
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:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:82186213 original size:72 final size:72
Alignment explanation
Indices: 82186091--82186466 Score: 397
Period size: 72 Copynumber: 5.2 Consensus size: 72
82186081 AAGCCTTTTT
* * * * * * *
82186091 ATTTTTGTTTTTCAAAATCAACTCATATTACTAGAGGTGAGTCGAACCTCAGGTCACGCTGAGGT
1 ATTTTTGTGTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
82186156 ATTTTCA
66 ATTTTCA
* **
82186163 ATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
1 ATTTTTGTGTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
*
82186228 AATTTCA
66 ATTTTCA
* ** * * * * *
82186235 ATTTCTGTTGTCAAAAAAATCAACTCGTATTGCAAGCGGCGAGTTGAGCCTCAGGTCACACGCCG
1 ATTTTTG-TGT-TTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTG
82186300 AGGTATTTTCA
62 AGGTATTTTCA
*
82186311 A-TTTT-TG---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGT
1 ATTTTTGTGTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
*
82186371 AATTTCA
66 ATTTTCA
* * ** * *
82186378 ATTTCTGT-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTTTGTGTTT-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
82186442 TATTTTCA
65 TATTTTCA
*
82186450 ATTTCTGT-TTTCAAAAA
1 ATTTTTGTGTTT-AAAAA
82186467 AAAAAAAAAT
Statistics
Matches: 255, Mismatches: 39, Indels: 20
0.81 0.12 0.06
Matches are distributed among these distances:
67 18 0.07
68 3 0.01
69 37 0.15
72 137 0.54
73 5 0.02
74 34 0.13
75 3 0.01
76 18 0.07
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (72 bp):
ATTTTTGTGTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
ATTTTCA
Found at i:82186361 original size:143 final size:139
Alignment explanation
Indices: 82186180--82186453 Score: 404
Period size: 143 Copynumber: 1.9 Consensus size: 139
82186170 TGTTTTAATT
82186180 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
* *** *
82186245 TCAAAAAAATCAACTCGTATTGCAAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
66 TC--AAAAATCAACTCATATTGCAAGAAACGAGTTGAGCCTCAAG--ACACGCCGAGGTATTTTC
82186310 AATTTTTGAAAAA
127 AATTTTTGAAAAA
* *
82186323 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
* * * **
82186388 TCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
66 TCAAAAATCAACTCATATTGCAAGAAACGAGTTGAGCCTCAAGACACGCCGAGGTATTTTCAATT
82186453 T
131 T
82186454 CTGTTTTCAA
Statistics
Matches: 119, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
139 21 0.18
141 33 0.28
143 65 0.55
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.30
Consensus pattern (139 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
TCAAAAATCAACTCATATTGCAAGAAACGAGTTGAGCCTCAAGACACGCCGAGGTATTTTCAATT
TTTGAAAAA
Found at i:82187258 original size:15 final size:16
Alignment explanation
Indices: 82187238--82187267 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
82187228 AACCCAACCC
82187238 CCAAAAAA-AAAAAAT
1 CCAAAAAAGAAAAAAT
82187253 CCAAAAAAGAAAAAA
1 CCAAAAAAGAAAAAA
82187268 CCTAATCTTA
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:0.80, C:0.13, G:0.03, T:0.03
Consensus pattern (16 bp):
CCAAAAAAGAAAAAAT
Found at i:82187572 original size:18 final size:17
Alignment explanation
Indices: 82187533--82187571 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
82187523 CCTAAAGGTG
*
82187533 ATTTTATCTTCTTTATT
1 ATTTTATCTTATTTATT
82187550 ATTTTACTCTTATTT-TT
1 ATTTTA-TCTTATTTATT
82187567 ATTTT
1 ATTTT
82187572 TTATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTATCTTATTTATT
Found at i:82187857 original size:29 final size:29
Alignment explanation
Indices: 82187801--82187857 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
82187791 TCTCTTCTTT
* *
82187801 TTTCATTTATTTTTCGTATTTACCTTAGA
1 TTTCATTTATTTTGCGTATTTAACTTAGA
*
82187830 TTTCATATTATTTTGC-TATTTAATTTAG
1 TTTCAT-TTATTTTGCGTATTTAACTTAG
82187858 CTTTAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.60
Consensus pattern (29 bp):
TTTCATTTATTTTGCGTATTTAACTTAGA
Found at i:82188112 original size:14 final size:14
Alignment explanation
Indices: 82188093--82188125 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
82188083 ATCATATGTG
82188093 TATATTGTATATAT-
1 TATATT-TATATATA
82188107 TATATTTATATATA
1 TATATTTATATATA
82188121 TATAT
1 TATAT
82188126 ATTCTTAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
TATATTTATATATA
Found at i:82189871 original size:21 final size:21
Alignment explanation
Indices: 82189847--82189886 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
82189837 ACCTTTTCTA
82189847 AAGTTAAAAG-TCAAAACTATT
1 AAGTTAAAAGAT-AAAACTATT
82189868 AAGTTAAAAGATAAAACTA
1 AAGTTAAAAGATAAAACTA
82189887 CGTTGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.57, C:0.07, G:0.10, T:0.25
Consensus pattern (21 bp):
AAGTTAAAAGATAAAACTATT
Found at i:82192866 original size:23 final size:23
Alignment explanation
Indices: 82192836--82192893 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
82192826 GTGGATTCCT
82192836 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
82192859 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
82192882 CCCAAACACACC
1 CCCAAACACACC
82192894 CGGAATATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.47, C:0.43, G:0.03, T:0.07
Consensus pattern (23 bp):
CCCAAACACACCAGAATATCCAA
Found at i:82193750 original size:9 final size:9
Alignment explanation
Indices: 82193738--82193771 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
82193728 TGTTTTTCTT
82193738 TTTTATTTC
1 TTTTATTTC
82193747 TTTTATTTC
1 TTTTATTTC
*
82193756 ATTTATTTC
1 TTTTATTTC
82193765 -TTTATTT
1 TTTTATTT
82193772 TATTTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTATTTC
Found at i:82193762 original size:18 final size:18
Alignment explanation
Indices: 82193739--82193788 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
82193729 GTTTTTCTTT
82193739 TTTATTTCTTTTATTTCA
1 TTTATTTCTTTTATTTCA
*
82193757 TTTATTTC-TTTATTTTA
1 TTTATTTCTTTTATTTCA
* *
82193774 TTTTTTTATTTTATT
1 TTTATTTCTTTTATT
82193789 ATTAAACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTATTTCTTTTATTTCA
Found at i:82193775 original size:13 final size:13
Alignment explanation
Indices: 82193757--82193788 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
82193747 TTTTATTTCA
82193757 TTTATTTCTTTAT
1 TTTATTTCTTTAT
*
82193770 TTTATTTTTTTAT
1 TTTATTTCTTTAT
82193783 TTTATT
1 TTTATT
82193789 ATTAAACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTATTTCTTTAT
Found at i:82193939 original size:15 final size:16
Alignment explanation
Indices: 82193910--82193948 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
82193900 TAAAATAATA
82193910 TTAA-TATAATATATT
1 TTAATTATAATATATT
82193925 TTAATTATAAT-TATT
1 TTAATTATAATATATT
*
82193940 TTACTTATA
1 TTAATTATA
82193949 TAATAAGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
TTAATTATAATATATT
Found at i:82193952 original size:17 final size:17
Alignment explanation
Indices: 82193913--82193953 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
82193903 AATAATATTA
82193913 ATATAATATATTTTAAT
1 ATATAATATATTTTAAT
*
82193930 -TATAAT-TATTTTACTT
1 ATATAATATATTTTA-AT
82193946 ATATAATA
1 ATATAATA
82193954 AGTAAATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
15 7 0.35
16 7 0.35
17 6 0.30
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATAATATATTTTAAT
Found at i:82199308 original size:20 final size:19
Alignment explanation
Indices: 82199279--82199327 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
82199269 AATAAATATT
82199279 TTTAAAATATA-ATAATAAA
1 TTTAAAATATATATAA-AAA
*
82199298 TTTAAAGATATATATAAAAT
1 TTTAAA-ATATATATAAAAA
82199318 TTTAAAATAT
1 TTTAAAATAT
82199328 TGTTGACGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 10 0.37
20 13 0.48
21 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
TTTAAAATATATATAAAAA
Found at i:82200019 original size:31 final size:31
Alignment explanation
Indices: 82199984--82200046 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
82199974 TTGGTACTCT
* *
82199984 AGTTTAATTTCAATATTTAATTTGATACTTA
1 AGTTTAATTTCAATATTCAATTGGATACTTA
** *
82200015 AGTTTGGTTTCAATATTCAATTGGATATTTA
1 AGTTTAATTTCAATATTCAATTGGATACTTA
82200046 A
1 A
82200047 AAGAATTGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.49
Consensus pattern (31 bp):
AGTTTAATTTCAATATTCAATTGGATACTTA
Found at i:82202741 original size:32 final size:33
Alignment explanation
Indices: 82202705--82202766 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 33
82202695 AAAATTATCT
82202705 TAAATATAATAAATATTTT-TTATATTAAAAAA
1 TAAATATAATAAATATTTTATTATATTAAAAAA
*
82202737 TAAATATAATAAATATTTTATTGTATTAAA
1 TAAATATAATAAATATTTTATTATATTAAA
82202767 TATAATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 19 0.68
33 9 0.32
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (33 bp):
TAAATATAATAAATATTTTATTATATTAAAAAA
Found at i:82204820 original size:15 final size:16
Alignment explanation
Indices: 82204800--82204831 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
82204790 AAGCCAATAC
82204800 TCTAAAAGAAA-TAAT
1 TCTAAAAGAAATTAAT
82204815 TCTAAAAGAAATTAAT
1 TCTAAAAGAAATTAAT
82204831 T
1 T
82204832 TACAGAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (16 bp):
TCTAAAAGAAATTAAT
Found at i:82207020 original size:9 final size:9
Alignment explanation
Indices: 82207008--82207223 Score: 59
Period size: 9 Copynumber: 23.0 Consensus size: 9
82206998 AAAAATCAGA
82207008 AAAAATTAT
1 AAAAATTAT
*
82207017 AAAAAAAATAT
1 --AAAAATTAT
*
82207028 TAAAATTAAT
1 AAAAATT-AT
*
82207038 ACAAACTTAT
1 A-AAAATTAT
* *
82207048 TAAGATTAT
1 AAAAATTAT
82207057 AAAAACTTAT
1 AAAAA-TTAT
*
82207067 AAATATTAT
1 AAAAATTAT
* *
82207076 -AGAATGTAA
1 AAAAAT-TAT
* *
82207085 AAAAAATCT
1 AAAAATTAT
82207094 AATAAATTAT
1 AA-AAATTAT
*
82207104 AAAAATTTT
1 AAAAATTAT
*
82207113 ATGAAATTAAT
1 A-AAAATT-AT
*
82207124 AAAACTTATTT
1 AAAAATTA--T
82207135 AAAATATT-T
1 AAAA-ATTAT
*
82207144 -AAAATTAA
1 AAAAATTAT
*
82207152 AAAAACATAT
1 AAAAA-TTAT
* *
82207162 TATAATT-T
1 AAAAATTAT
*
82207170 GAAAAATTTT
1 -AAAAATTAT
82207180 AATAAATTAT
1 AA-AAATTAT
82207190 AAAAA-T-T
1 AAAAATTAT
*
82207197 AAAACTTAT
1 AAAAATTAT
*
82207206 ATAAATT-T
1 AAAAATTAT
82207214 ATAAAATTAT
1 A-AAAATTAT
82207224 TTAAAAAATC
Statistics
Matches: 145, Mismatches: 39, Indels: 43
0.64 0.17 0.19
Matches are distributed among these distances:
7 8 0.06
8 11 0.08
9 58 0.40
10 46 0.32
11 20 0.14
12 2 0.01
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.36
Consensus pattern (9 bp):
AAAAATTAT
Found at i:82207064 original size:19 final size:19
Alignment explanation
Indices: 82207009--82207076 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 19
82206999 AAAATCAGAA
**
82207009 AAAATTATAAAAAAAATATT
1 AAAATTAT-AAAAACTTATT
*
82207029 AAAATTAATACAAACTTATT
1 AAAATT-ATAAAAACTTATT
*
82207049 AAGATTATAAAAACTTA-T
1 AAAATTATAAAAACTTATT
82207067 AAATATTATA
1 AAA-ATTATA
82207077 GAATGTAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 3 0.08
19 16 0.40
20 19 0.47
21 2 0.05
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (19 bp):
AAAATTATAAAAACTTATT
Found at i:82207126 original size:67 final size:66
Alignment explanation
Indices: 82207052--82207194 Score: 154
Period size: 67 Copynumber: 2.2 Consensus size: 66
82207042 ACTTATTAAG
* *
82207052 ATTATAAAAACTTA-T-AAATATTATAGAATGTAAAAAAA-ATCTAATAAATTAT-AAAAATTTT
1 ATTATAAAAACTTATTAAAATATT-TAAAAT-TAAAAAAACATATAAT-AATT-TGAAAAATTTT
82207113 -ATGAA
62 AAT-AA
*
82207118 ATTA-ATAAAACTTATTTAAAATATTTAAAATTAAAAAAACATATTATAATTTGAAAAATTTTAA
1 ATTATA-AAAACTTA-TTAAAATATTTAAAATTAAAAAAACATATAATAATTTGAAAAATTTTAA
82207182 TAA
64 TAA
82207185 ATTATAAAAA
1 ATTATAAAAA
82207195 TTAAAACTTA
Statistics
Matches: 66, Mismatches: 3, Indels: 15
0.79 0.04 0.18
Matches are distributed among these distances:
65 1 0.02
66 13 0.20
67 31 0.47
68 14 0.21
69 7 0.11
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (66 bp):
ATTATAAAAACTTATTAAAATATTTAAAATTAAAAAAACATATAATAATTTGAAAAATTTTAATA
A
Found at i:82207223 original size:18 final size:17
Alignment explanation
Indices: 82207178--82207229 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
82207168 TTGAAAAATT
82207178 TTAATAAATTATA-AAAA
1 TTAA-AAATTATATAAAA
* *
82207195 TTAAAACTTATATAAAT
1 TTAAAAATTATATAAAA
*
82207212 TTATAAAATTATTTAAAA
1 TTA-AAAATTATATAAAA
82207230 AATCATAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 7 0.25
17 10 0.36
18 11 0.39
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAAAAATTATATAAAA
Found at i:82207622 original size:17 final size:17
Alignment explanation
Indices: 82207597--82207642 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
82207587 GTCTAGTTCA
*
82207597 ATTTTTTTATATTTTTT
1 ATTTATTTATATTTTTT
*
82207614 ATTTATTTATAATTTTT
1 ATTTATTTATATTTTTT
**
82207631 ATAAATTTATAT
1 ATTTATTTATAT
82207643 AATTAAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTATTTATATTTTTT
Found at i:82207634 original size:9 final size:9
Alignment explanation
Indices: 82207600--82207811 Score: 73
Period size: 10 Copynumber: 22.8 Consensus size: 9
82207590 TAGTTCAATT
82207600 TTTTTAT-A
1 TTTTTATAA
*
82207608 TTTTT-TAT
1 TTTTTATAA
82207616 TTATTTATAA
1 TT-TTTATAA
82207626 TTTTTATAAA
1 TTTTTAT-AA
*
82207636 TTTATATAA
1 TTTTTATAA
** *
82207645 -TTAAAT-T
1 TTTTTATAA
82207652 TTTTTATAA
1 TTTTTATAA
* *
82207661 -ATTTATGA
1 TTTTTATAA
* *
82207669 TTTCATAGAA
1 TTT-TTATAA
*
82207679 TTTTAATACA
1 TTTTTATA-A
82207689 TTTTTATAAA
1 TTTTTAT-AA
* *
82207699 ATTTTAAACA
1 TTTTTATA-A
82207709 TGTTTTACTAA
1 T-TTTTA-TAA
*
82207720 -TTTTACAAA
1 TTTTTA-TAA
82207729 TTTTTATAA
1 TTTTTATAA
* *
82207738 TCTGTTA-GA
1 T-TTTTATAA
82207747 TTTTTAT-A
1 TTTTTATAA
82207755 TTTTTATAA
1 TTTTTATAA
82207764 TATTTATATAA
1 T-TTT-TATAA
82207775 TATTTTATAA
1 T-TTTTATAA
82207785 CTTTTT-TAA
1 -TTTTTATAA
*
82207794 GTTTATATAAA
1 -TTTTTAT-AA
82207805 TTTTTAT
1 TTTTTAT
82207812 TTTTTAATAT
Statistics
Matches: 152, Mismatches: 30, Indels: 42
0.68 0.13 0.19
Matches are distributed among these distances:
7 1 0.01
8 34 0.22
9 36 0.24
10 60 0.39
11 20 0.13
12 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (9 bp):
TTTTTATAA
Found at i:82207768 original size:11 final size:11
Alignment explanation
Indices: 82207752--82207784 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
82207742 TTAGATTTTT
82207752 ATATTTTTATA
1 ATATTTTTATA
*
82207763 ATATTTATATA
1 ATATTTTTATA
82207774 ATA-TTTTATA
1 ATATTTTTATA
82207784 A
1 A
82207785 CTTTTTTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
ATATTTTTATA
Found at i:82207768 original size:19 final size:19
Alignment explanation
Indices: 82207746--82207817 Score: 62
Period size: 19 Copynumber: 3.8 Consensus size: 19
82207736 AATCTGTTAG
82207746 ATTTTTATATTTTTATAAT
1 ATTTTTATATTTTTATAAT
*
82207765 ATTTATATAATATTTTATAACT
1 ATTTTTAT-AT-TTTTATAA-T
*
82207787 -TTTTTA-AGTTTATATAA-
1 ATTTTTATA-TTTTTATAAT
82207804 ATTTTTAT-TTTTTA
1 ATTTTTATATTTTTA
82207818 ATATTTAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
17 5 0.12
18 6 0.14
19 15 0.35
20 3 0.07
21 13 0.30
22 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (19 bp):
ATTTTTATATTTTTATAAT
Found at i:82207841 original size:27 final size:27
Alignment explanation
Indices: 82207748--82207852 Score: 90
Period size: 25 Copynumber: 3.8 Consensus size: 27
82207738 TCTGTTAGAT
*
82207748 TTTTATATTTTTATAATATTTATATAATA
1 TTTTA-ATTTTTTTAATATTTATATAA-A
* *
82207777 TTTTATAACTTTTTTAA-GTTTATATAAA
1 -TTT-TAATTTTTTTAATATTTATATAAA
*
82207805 TTTTTA-TTTTTTAATATTTA-ATAAA
1 TTTTAATTTTTTTAATATTTATATAAA
* *
82207830 TTTCTGATTTTTTTAATTTTTAT
1 TTT-TAATTTTTTTAATATTTAT
82207853 GAGAAAAAAC
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
25 16 0.25
26 8 0.13
27 16 0.25
28 1 0.02
29 9 0.14
30 11 0.17
31 2 0.03
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (27 bp):
TTTTAATTTTTTTAATATTTATATAAA
Found at i:82208010 original size:42 final size:42
Alignment explanation
Indices: 82207948--82208032 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
82207938 AATGACAAAG
*
82207948 AATGTTAATAGAGAAGCTTAGATGATTATTTTAACTAACAAC
1 AATGTTAATAGAGAAACTTAGATGATTATTTTAACTAACAAC
82207990 AATGTTAATAGAGAAACTTAGATGATTATTTTAACTAACAAC
1 AATGTTAATAGAGAAACTTAGATGATTATTTTAACTAACAAC
82208032 A
1 A
82208033 TGAGCTTAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (42 bp):
AATGTTAATAGAGAAACTTAGATGATTATTTTAACTAACAAC
Found at i:82214183 original size:15 final size:15
Alignment explanation
Indices: 82214145--82214173 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
82214135 GATCTTACAT
82214145 ATATAATAAAATTAA
1 ATATAATAAAATTAA
82214160 ATATAATAAAATTA
1 ATATAATAAAATTA
82214174 TATTATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
ATATAATAAAATTAA
Done.