Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 86 of 109
Found at i:17296410 original size:11 final size:11
Alignment explanation
Indices: 17296394--17296419 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17296384 TAAAAAAATA
17296394 AAAATTAAACC
1 AAAATTAAACC
17296405 AAAATTAAACC
1 AAAATTAAACC
17296416 AAAA
1 AAAA
17296420 ATCAAACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATTAAACC
Found at i:17296420 original size:12 final size:12
Alignment explanation
Indices: 17296393--17296432 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
17296383 CTAAAAAAAT
17296393 AAAAATTAAACC
1 AAAAATTAAACC
17296405 -AAAATTAAACC
1 AAAAATTAAACC
* *
17296416 AAAAATCAAACT
1 AAAAATTAAACC
17296428 AAAAA
1 AAAAA
17296433 AATTAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 11 0.44
12 14 0.56
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAATTAAACC
Found at i:17296772 original size:43 final size:43
Alignment explanation
Indices: 17296712--17296844 Score: 182
Period size: 43 Copynumber: 3.1 Consensus size: 43
17296702 TTTTTTTTGA
*
17296712 AAAATG-TTCCTCAACAACTAAGGCTTTGAAACTTTTGAAAAAT
1 AAAATGCTCCCTC-ACAACTAAGGCTTTGAAACTTTTGAAAAAT
* *
17296755 AAAATGCTCCC-CTACAACTAAAGTTTTGAAACTTTTGAAAAAT
1 AAAATGCTCCCTC-ACAACTAAGGCTTTGAAACTTTTGAAAAAT
* *
17296798 AAAATGCTCCCTCATAACTGAGGCTTTGAAAC-TTTGAAAAAT
1 AAAATGCTCCCTCACAACTAAGGCTTTGAAACTTTTGAAAAAT
17296840 AAAAT
1 AAAAT
17296845 AATATCTTTC
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
42 15 0.19
43 61 0.76
44 4 0.05
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.29
Consensus pattern (43 bp):
AAAATGCTCCCTCACAACTAAGGCTTTGAAACTTTTGAAAAAT
Found at i:17298558 original size:15 final size:16
Alignment explanation
Indices: 17298533--17298562 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17298523 GCTTAAAATT
17298533 AATTCAAAGGATTATA
1 AATTCAAAGGATTATA
17298549 AATT-AAAGGATTAT
1 AATTCAAAGGATTAT
17298563 TTATTATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.50, C:0.03, G:0.13, T:0.33
Consensus pattern (16 bp):
AATTCAAAGGATTATA
Found at i:17299656 original size:3 final size:3
Alignment explanation
Indices: 17299648--17299697 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
17299638 GAGGATAGAA
17299648 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
17299696 AT
1 AT
17299698 ATCTTTATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:17300787 original size:3 final size:3
Alignment explanation
Indices: 17300777--17300968 Score: 99
Period size: 3 Copynumber: 67.3 Consensus size: 3
17300767 AAAAAAGGAT
17300777 ATA A-A ATA ATA ATA ATA ATA ATA ATA ACT- ATA ATA ACT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA A-TA ATA ATA
* * * *
17300821 ATA A-C ATA CT- ATA AT- ATA ATA ATA ATG ATA AT- ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
17300865 ATA GTA ATA ATA ATA AGGTA CT- ACA AT- ATAA ATA AT- ATA AT- ATA
1 ATA ATA ATA ATA ATA A--TA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
* * * * ** *
17300909 AT- ATG AT- ATG ATA ATA AT- ATA ATA CTA ATA CTA ATA GCA A-A AGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
17300953 ATA ATA ATA AAA ATA A
1 ATA ATA ATA ATA ATA A
17300969 AACCCAATTG
Statistics
Matches: 144, Mismatches: 25, Indels: 40
0.69 0.12 0.19
Matches are distributed among these distances:
2 24 0.17
3 114 0.79
4 4 0.03
5 2 0.01
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:17300931 original size:56 final size:55
Alignment explanation
Indices: 17300781--17300932 Score: 150
Period size: 56 Copynumber: 2.7 Consensus size: 55
17300771 AAGGATATAA
* * *
17300781 AATAATAATAATAATAATAATAACT-ATAATAACTATAATAATAACATACTATAATAT
1 AATAATAATGATAAT-ATAAT-AGTAATAATAA-TATAATAATAACATACTACAATAT
* **
17300838 AATAATAATGATAATATAATAGTAATAATAGTAATAATAATAAGGTACTACAATAT
1 AATAATAATGATAATATAATAGTAATAATAAT-ATAATAATAACATACTACAATAT
17300894 -A-AATAAT-ATAATATAATATGATATGATAATAATATAATA
1 AATAATAATGATAATATAATA-G-TA--ATAATAATATAATA
17300933 CTAATACTAA
Statistics
Matches: 82, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
53 11 0.13
54 7 0.09
55 6 0.07
56 37 0.45
57 21 0.26
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.34
Consensus pattern (55 bp):
AATAATAATGATAATATAATAGTAATAATAATATAATAATAACATACTACAATAT
Found at i:17302633 original size:21 final size:21
Alignment explanation
Indices: 17302607--17302646 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
17302597 TCAGCATATC
17302607 AATTTGCACATAAAGATAATA
1 AATTTGCACATAAAGATAATA
17302628 AATTTGCACATAAAGATAA
1 AATTTGCACATAAAGATAA
17302647 CTTGTAGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.53, C:0.10, G:0.10, T:0.28
Consensus pattern (21 bp):
AATTTGCACATAAAGATAATA
Found at i:17303039 original size:13 final size:13
Alignment explanation
Indices: 17303021--17303050 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
17303011 TGAATGCATG
17303021 AATACATGAATGC
1 AATACATGAATGC
17303034 AATACATGAATGC
1 AATACATGAATGC
17303047 AATA
1 AATA
17303051 AGGAGGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.23
Consensus pattern (13 bp):
AATACATGAATGC
Found at i:17306471 original size:75 final size:75
Alignment explanation
Indices: 17306411--17306565 Score: 197
Period size: 75 Copynumber: 2.1 Consensus size: 75
17306401 AAATAATAAT
* *
17306411 ATTAAATAAATAAAT-ATGCAAATAAATATAT-TAATAATCATACAATCACACAAAAAAATAAAT
1 ATTAAATAAAT-AATCATGCAAATAAAAATATAT-A-AACCATACAATCACACAAAAAAATAAAT
*
17306474 TAATAATCATGTA
63 TAATAATCATATA
* * * *
17306487 ATTAAATATATAATCATGCAAATAAAAATATATAAACCATGCAATTACACAAATAAATAAATTAA
1 ATTAAATAAATAATCATGCAAATAAAAATATATAAACCATACAATCACACAAAAAAATAAATTAA
*
17306552 TAATCATACA
66 TAATCATATA
17306562 ATTA
1 ATTA
17306566 GACATGCAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
75 42 0.61
76 26 0.38
77 1 0.01
ACGTcount: A:0.58, C:0.10, G:0.03, T:0.29
Consensus pattern (75 bp):
ATTAAATAAATAATCATGCAAATAAAAATATATAAACCATACAATCACACAAAAAAATAAATTAA
TAATCATATA
Found at i:17306499 original size:20 final size:20
Alignment explanation
Indices: 17306476--17306518 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
17306466 AAATAAATTA
* * *
17306476 ATAATCATGTAATTAAATAT
1 ATAATCATGCAAATAAAAAT
17306496 ATAATCATGCAAATAAAAAT
1 ATAATCATGCAAATAAAAAT
17306516 ATA
1 ATA
17306519 TAAACCATGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.33
Consensus pattern (20 bp):
ATAATCATGCAAATAAAAAT
Found at i:17306609 original size:56 final size:56
Alignment explanation
Indices: 17306536--17306659 Score: 160
Period size: 56 Copynumber: 2.2 Consensus size: 56
17306526 TGCAATTACA
* * *
17306536 CAAATAAATAA-ATTAATAATCATACAATTAGACATGCAATCAAATATATAATCATG
1 CAAAT-AATAATATTAATAATCATACAAATAAACATGCAATCAAATAAATAATCATG
* * * *
17306592 TAAATAATAATATTAATAATCATGCAAATAAACATGCAATTAACTAAATAATCATG
1 CAAATAATAATATTAATAATCATACAAATAAACATGCAATCAAATAAATAATCATG
*
17306648 CAACTAATAATA
1 CAAATAATAATA
17306660 CATAAATCAT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
55 5 0.09
56 53 0.91
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (56 bp):
CAAATAATAATATTAATAATCATACAAATAAACATGCAATCAAATAAATAATCATG
Found at i:17306733 original size:24 final size:24
Alignment explanation
Indices: 17306686--17306814 Score: 101
Period size: 24 Copynumber: 5.5 Consensus size: 24
17306676 AAATGCAAAA
* *
17306686 TAAATATATTAATAATTAAACAAT
1 TAAATATATTAATAATCATACAAT
* *
17306710 TAAATATATTAGTAATCATGCAAT
1 TAAATATATTAATAATCATACAAT
* *
17306734 CAAAT-TA--AATGTAATCATACAAA
1 TAAATATATTAA--TAATCATACAAT
*
17306757 TAAATATATTAATAATCATGC---
1 TAAATATATTAATAATCATACAAT
* *
17306778 -AAATATATTAATAAATCACACAAA
1 TAAATATATTAAT-AATCATACAAT
17306802 TAAATATATTAAT
1 TAAATATATTAAT
17306815 CATGCAAACA
Statistics
Matches: 83, Mismatches: 12, Indels: 19
0.73 0.11 0.17
Matches are distributed among these distances:
20 12 0.14
21 7 0.08
23 16 0.19
24 34 0.41
25 12 0.14
26 2 0.02
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (24 bp):
TAAATATATTAATAATCATACAAT
Found at i:17306762 original size:47 final size:44
Alignment explanation
Indices: 17306705--17306827 Score: 135
Period size: 47 Copynumber: 2.8 Consensus size: 44
17306695 TAATAATTAA
* * *
17306705 ACAATTAAATATATTAGTAATCATGCAATCAAATTAAATGTAATCAT
1 ACAAATAAATATATTA-TAATCATGCAATCAAATT-AAT-AAATCAC
*
17306752 ACAAATAAATATATTAATAATCATGCAAAT-ATATTAATAAATCAC
1 ACAAATAAATATATT-ATAATCATGC-AATCAAATTAATAAATCAC
*
17306797 ACAAATAAATATA-T-TAATCATGCAAACAAAT
1 ACAAATAAATATATTATAATCATGCAATCAAAT
17306828 ATATTAGGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
41 2 0.03
42 12 0.18
44 1 0.01
45 18 0.27
46 3 0.04
47 27 0.40
48 4 0.06
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.31
Consensus pattern (44 bp):
ACAAATAAATATATTATAATCATGCAATCAAATTAATAAATCAC
Found at i:17306783 original size:20 final size:20
Alignment explanation
Indices: 17306758--17306822 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 20
17306748 TCATACAAAT
17306758 AAATATATTAATAATCATGC
1 AAATATATTAATAATCATGC
**
17306778 AAATATATTAATAAATCACAC
1 AAATATATTAAT-AATCATGC
* *
17306799 AAATAAATATATTAATCATGC
1 AAATATAT-TAATAATCATGC
17306820 AAA
1 AAA
17306823 CAAATATATT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 12 0.32
21 22 0.59
22 3 0.08
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.31
Consensus pattern (20 bp):
AAATATATTAATAATCATGC
Found at i:17306801 original size:21 final size:20
Alignment explanation
Indices: 17306758--17306803 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
17306748 TCATACAAAT
**
17306758 AAATATATTAATAATCATGC
1 AAATATATTAATAATCACAC
17306778 AAATATATTAATAAATCACAC
1 AAATATATTAAT-AATCACAC
17306799 AAATA
1 AAATA
17306804 AATATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (20 bp):
AAATATATTAATAATCACAC
Found at i:17306815 original size:21 final size:21
Alignment explanation
Indices: 17306745--17306833 Score: 72
Period size: 21 Copynumber: 4.1 Consensus size: 21
17306735 AAATTAAATG
*
17306745 TAATCATACAAATAAATATAT
1 TAATCACACAAATAAATATAT
* *
17306766 TAATAATCATGCAAATATAT-TAAT
1 TAATCA-CA--CAAATAAATAT-AT
*
17306790 AAATCACACAAATAAATATAT
1 TAATCACACAAATAAATATAT
** *
17306811 TAATCATGCAAACAAATATAT
1 TAATCACACAAATAAATATAT
17306832 TA
1 TA
17306834 GGCAAATAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
21 34 0.64
22 2 0.04
23 3 0.06
24 14 0.26
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.31
Consensus pattern (21 bp):
TAATCACACAAATAAATATAT
Found at i:17308651 original size:3 final size:3
Alignment explanation
Indices: 17308643--17308667 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
17308633 TAAGTACAGT
17308643 AGC AGC AGC AGC AGC AGC AGC AGC A
1 AGC AGC AGC AGC AGC AGC AGC AGC A
17308668 ATGTCCACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.32, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:17309674 original size:29 final size:29
Alignment explanation
Indices: 17309621--17309676 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
17309611 TAATTGAACT
* *
17309621 AAAAATCATGCTTTAGATTTCTAAAAACA
1 AAAAATCATGCTTTAAAGTTCTAAAAACA
17309650 AAAAATCATGCTTTAAAAGTT-TAAAAA
1 AAAAATCATGCTTT-AAAGTTCTAAAAA
17309677 AGAAGTGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.30
Consensus pattern (29 bp):
AAAAATCATGCTTTAAAGTTCTAAAAACA
Found at i:17310105 original size:2 final size:2
Alignment explanation
Indices: 17310098--17310124 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17310088 GATATCAAAG
17310098 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
17310125 TATATATATA
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:17310207 original size:21 final size:21
Alignment explanation
Indices: 17310181--17310225 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
17310171 CACACATCAA
17310181 AATATTTCTTTTTTCTCTATT
1 AATATTTCTTTTTTCTCTATT
17310202 AATATTTCTTTTTTCTCTATT
1 AATATTTCTTTTTTCTCTATT
17310223 AAT
1 AAT
17310226 TATCTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.13, G:0.00, T:0.64
Consensus pattern (21 bp):
AATATTTCTTTTTTCTCTATT
Found at i:17316253 original size:2 final size:2
Alignment explanation
Indices: 17316242--17316272 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
17316232 AATAATAAAA
17316242 AT AT -T 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
17316273 TGAATCAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:17322523 original size:2 final size:2
Alignment explanation
Indices: 17322516--17322608 Score: 56
Period size: 2 Copynumber: 50.0 Consensus size: 2
17322506 TACTGCTGCT
* * *
17322516 TC TC TC TC TC -C TC TC TC TC TC CC TC TC CC TC TC -C T- TT TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * *
17322555 CC TC -C TC TC TC TC TC -C T- TT TC CC TC TC TC TC -C TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * *
17322593 TA TC CC TC TC TT TC TC
1 TC TC TC TC TC TC TC TC
17322609 CTTATCCCTA
Statistics
Matches: 68, Mismatches: 16, Indels: 14
0.69 0.16 0.14
Matches are distributed among these distances:
1 7 0.10
2 61 0.90
ACGTcount: A:0.01, C:0.53, G:0.00, T:0.46
Consensus pattern (2 bp):
TC
Found at i:17322560 original size:33 final size:33
Alignment explanation
Indices: 17322523--17322651 Score: 110
Period size: 33 Copynumber: 4.1 Consensus size: 33
17322513 GCTTCTCTCT
17322523 CTCCTCTCTCTCTCCCTCTCCCTCTCCTTTTCC
1 CTCCTCTCTCTCTCCCTCTCCCTCTCCTTTTCC
* *
17322556 CTCCTCTCTCTCTCCTTTTCCCTCT-C---T--
1 CTCCTCTCTCTCTCCCTCTCCCTCTCCTTTTCC
* ** *
17322583 CTCCTCTCTCTATCCCTCTCTTTCTCCTTATCC
1 CTCCTCTCTCTCTCCCTCTCCCTCTCCTTTTCC
* * * *
17322616 CT-ATCTCTCCTCTCTCTATCCCTTTCCTTTTCC
1 CTCCTCTCT-CTCTCCCTCTCCCTCTCCTTTTCC
17322649 CTC
1 CTC
17322652 TCGCTACTAC
Statistics
Matches: 73, Mismatches: 15, Indels: 15
0.71 0.15 0.15
Matches are distributed among these distances:
27 20 0.27
28 1 0.01
29 1 0.01
31 1 0.01
32 6 0.08
33 44 0.60
ACGTcount: A:0.03, C:0.51, G:0.00, T:0.46
Consensus pattern (33 bp):
CTCCTCTCTCTCTCCCTCTCCCTCTCCTTTTCC
Found at i:17322598 original size:21 final size:21
Alignment explanation
Indices: 17322517--17322638 Score: 116
Period size: 21 Copynumber: 6.1 Consensus size: 21
17322507 ACTGCTGCTT
*
17322517 CTCTCTCTCCTCTCTCTCTCC
1 CTCTCTCTCCTCTCTCTATCC
* *
17322538 CTCTCCCT-CTC-CT-TTTCC
1 CTCTCTCTCCTCTCTCTATCC
*
17322556 CTC-CTCT-CTCTCTCCTTTTCC
1 CTCTCTCTCCTCTCT-C-TATCC
17322577 CTCTCTCTCCTCTCTCTATCC
1 CTCTCTCTCCTCTCTCTATCC
*
17322598 CTCTCT-TTCTC-CT-TATCC
1 CTCTCTCTCCTCTCTCTATCC
*
17322616 CTATCTCTCCTCTCTCTATCC
1 CTCTCTCTCCTCTCTCTATCC
17322637 CT
1 CT
17322639 TTCCTTTTCC
Statistics
Matches: 85, Mismatches: 7, Indels: 18
0.77 0.06 0.16
Matches are distributed among these distances:
17 6 0.07
18 19 0.22
19 8 0.09
20 9 0.11
21 32 0.38
22 5 0.06
23 6 0.07
ACGTcount: A:0.03, C:0.52, G:0.00, T:0.45
Consensus pattern (21 bp):
CTCTCTCTCCTCTCTCTATCC
Found at i:17322601 original size:39 final size:39
Alignment explanation
Indices: 17322558--17322638 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
17322548 CCTTTTCCCT
* *
17322558 CCTCTCTCTCTCCTTTTCCCTCTCTCTCCTCTCTCTATC
1 CCTCTCTCTCTCCTTATCCCTATCTCTCCTCTCTCTATC
*
17322597 CCTCTCTTTCTCCTTATCCCTATCTCTCCTCTCTCTATC
1 CCTCTCTCTCTCCTTATCCCTATCTCTCCTCTCTCTATC
17322636 CCT
1 CCT
17322639 TTCCTTTTCC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.05, C:0.49, G:0.00, T:0.46
Consensus pattern (39 bp):
CCTCTCTCTCTCCTTATCCCTATCTCTCCTCTCTCTATC
Found at i:17322629 original size:60 final size:60
Alignment explanation
Indices: 17322517--17322631 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 60
17322507 ACTGCTGCTT
* *
17322517 CTCTCTCTCCTCTCTCTCTCCCTCTCCCTCTCCTTTTCCCTCCTCTCTCTCTCCTTTTCC
1 CTCTCTCTCCTCTCTCTATCCCTCTCCCTCTCCTTATCCCTCCTCTCTCTCTCCTTTTCC
** *
17322577 CTCTCTCTCCTCTCTCTATCCCTCTCTTTCTCCTTATCCCTATCTCTCCTCTCTC
1 CTCTCTCTCCTCTCTCTATCCCTCTCCCTCTCCTTATCCCT-CCTCT-CTCTCTC
17322632 TATCCCTTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
60 37 0.77
61 4 0.08
62 7 0.15
ACGTcount: A:0.03, C:0.52, G:0.00, T:0.45
Consensus pattern (60 bp):
CTCTCTCTCCTCTCTCTATCCCTCTCCCTCTCCTTATCCCTCCTCTCTCTCTCCTTTTCC
Found at i:17322665 original size:39 final size:39
Alignment explanation
Indices: 17322558--17322673 Score: 119
Period size: 39 Copynumber: 2.9 Consensus size: 39
17322548 CCTTTTCCCT
* * * *
17322558 CCTCTCTCTCTCCTTTTCCCTCTCTCTCCTCTCTCTATC
1 CCTCTCTTTCTCCCTATCCCTATCTCTCCTCTCTCTATC
*
17322597 CCTCTCTTTCTCCTTATCCCTATCTCTCCTCTCTCTATC
1 CCTCTCTTTCTCCCTATCCCTATCTCTCCTCTCTCTATC
* * *
17322636 CCTTTCCTTT-TCCCTCTCGCTA-CTACTCCTCCTCTCTA
1 CCTCT-CTTTCTCCCTATCCCTATCT-CTCCT-CTCTCTA
17322674 AATCCCTGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.03
39 54 0.81
40 11 0.16
ACGTcount: A:0.06, C:0.48, G:0.01, T:0.45
Consensus pattern (39 bp):
CCTCTCTTTCTCCCTATCCCTATCTCTCCTCTCTCTATC
Found at i:17322709 original size:18 final size:18
Alignment explanation
Indices: 17322682--17322716 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17322672 TAAATCCCTG
17322682 TCCCTATCCCTCTCTCTC
1 TCCCTATCCCTCTCTCTC
* *
17322700 TCCCTTTCCCTTTCTCT
1 TCCCTATCCCTCTCTCT
17322717 ATCGCGGCTG
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:0.03, C:0.51, G:0.00, T:0.46
Consensus pattern (18 bp):
TCCCTATCCCTCTCTCTC
Found at i:17333444 original size:34 final size:33
Alignment explanation
Indices: 17333368--17333452 Score: 82
Period size: 34 Copynumber: 2.5 Consensus size: 33
17333358 GATACCAAAA
* * *
17333368 AAGTCTTAAAACTTTTCAAATATCCATTTTTGAG
1 AAGTCTT-AAGCTTTTCAAAAATCCATTTCTGAG
**
17333402 AAACCTTAAGTCTTTTCAAAAATCCATTTCCT-AG
1 AAGTCTTAAG-CTTTTCAAAAATCCATTT-CTGAG
17333436 AAGTCTTAAAGCTTTTC
1 AAGTCTT-AAGCTTTTC
17333453 GAATACTCAT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
33 2 0.05
34 35 0.85
35 4 0.10
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (33 bp):
AAGTCTTAAGCTTTTCAAAAATCCATTTCTGAG
Found at i:17333944 original size:9 final size:9
Alignment explanation
Indices: 17333930--17333991 Score: 52
Period size: 9 Copynumber: 6.8 Consensus size: 9
17333920 AGATTAAATA
17333930 TATTTATTT
1 TATTTATTT
17333939 TATTTATTT
1 TATTTATTT
*
17333948 TATTTTATTA
1 TA-TTTATTT
* * *
17333958 TCTTTAATA
1 TATTTATTT
* *
17333967 AAATTATTT
1 TATTTATTT
*
17333976 TGTTTATTT
1 TATTTATTT
17333985 TATTTAT
1 TATTTAT
17333992 GTTAAAATTA
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
9 33 0.82
10 7 0.17
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (9 bp):
TATTTATTT
Found at i:17334011 original size:24 final size:24
Alignment explanation
Indices: 17333984--17334033 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
17333974 TTTGTTTATT
17333984 TTATTTATGTTAAAATTAAATGTA
1 TTATTTATGTTAAAATTAAATGTA
* *
17334008 TTATTTATTTTAATATTAAATGTA
1 TTATTTATGTTAAAATTAAATGTA
17334032 TT
1 TT
17334034 TATATATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (24 bp):
TTATTTATGTTAAAATTAAATGTA
Found at i:17334179 original size:34 final size:34
Alignment explanation
Indices: 17334093--17334179 Score: 88
Period size: 34 Copynumber: 2.6 Consensus size: 34
17334083 ATGGATTTTT
* * **
17334093 AAGAATGCAACATAATTTTTGAAAATCCATTTCC
1 AAGAATGCAATATAATTCTAAAAAATCCATTTCC
* *
17334127 AAAAATGC-ATTTACATTCTAAAAAATCCAGTTT-C
1 AAGAATGCAATATA-ATTCTAAAAAATCCA-TTTCC
17334161 AAGAATGCAATATAATTCT
1 AAGAATGCAATATAATTCT
17334180 CTCCATCATT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
33 3 0.07
34 32 0.76
35 7 0.17
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (34 bp):
AAGAATGCAATATAATTCTAAAAAATCCATTTCC
Found at i:17341516 original size:19 final size:20
Alignment explanation
Indices: 17341489--17341527 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
17341479 ATGCCTTATA
*
17341489 TATTTAATAA-ATAAATTTT
1 TATTAAATAATATAAATTTT
17341508 TATTAAATAATATAAATTTT
1 TATTAAATAATATAAATTTT
17341528 ATTTTAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTAAATAATATAAATTTT
Found at i:17341663 original size:2 final size:2
Alignment explanation
Indices: 17341656--17341690 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
17341646 GAATATGATC
17341656 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17341691 AAATACCCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:17341900 original size:2 final size:2
Alignment explanation
Indices: 17341895--17341920 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17341885 TACGCGCGCG
17341895 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
17341921 CATTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17349687 original size:172 final size:171
Alignment explanation
Indices: 17349378--17349689 Score: 387
Period size: 172 Copynumber: 1.8 Consensus size: 171
17349368 AAATCATATA
* * * *
17349378 CATCTCAATTCTTATATTCATAATGTAATATTCATCATTATCTCAATTCAAATAAAAAGTTAAAT
1 CATCTCAATTATTATATTCATAATATAATATTCATCATCATCTCAATTCAAATAAAAAGTCAAAT
* * * *
17349443 TCTTTATTGAGTATATGAAAAATTAACATCCTTAACGCAAAAGGGATTATAGTCCAAGCAAACAT
66 TCTCTATTAAGAATATGAAAAATTAACATCCTTAAC-CAAAAGGGATAATAGTCCAAGCAAACAT
*
17349508 GTTATATCACTATCAGGTTCACGCGTATTGACTTAGCATGCC
130 ATTATATCACTATCAGGTTCACGCGTATTGACTTAGCATGCC
* * ** * *
17349550 CATCTTAATTATTATATTCATAATATAATACTT-ATCATCATTTTTATTTAAATAAAAAGTCCAA
1 CATCTCAATTATTATATTCATAATATAATA-TTCATCATCATCTCAATTCAAATAAAAAGTCAAA
* * * *
17349614 TTCTCTATTAAGAATGTGAAAAATTGACATCCCTATAA-C-AAAGGGAATAATCGTCCAAGCATA
65 TTCTCTATTAAGAATATGAAAAATTAACAT-CCT-TAACCAAAAGGG-ATAATAGTCCAAGCAAA
17349677 CATATTATATCAC
127 CATATTATATCAC
17349690 CAACATATTT
Statistics
Matches: 117, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
171 6 0.05
172 103 0.88
173 5 0.04
174 3 0.03
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (171 bp):
CATCTCAATTATTATATTCATAATATAATATTCATCATCATCTCAATTCAAATAAAAAGTCAAAT
TCTCTATTAAGAATATGAAAAATTAACATCCTTAACCAAAAGGGATAATAGTCCAAGCAAACATA
TTATATCACTATCAGGTTCACGCGTATTGACTTAGCATGCC
Found at i:17351354 original size:15 final size:16
Alignment explanation
Indices: 17351324--17351357 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
17351314 GTATCTTAAA
*
17351324 ATTATAATTATTTTAT
1 ATTATAAATATTTTAT
17351340 ATTATAAAT-TTTTAT
1 ATTATAAATATTTTAT
17351355 ATT
1 ATT
17351358 TTCAAACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTATAAATATTTTAT
Found at i:17351428 original size:19 final size:18
Alignment explanation
Indices: 17351391--17351435 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
17351381 GTTCAAAATA
*
17351391 ATTTGTATATATATTTAAT
1 ATTT-TATATATATATAAT
17351410 ATTTTATATATAATATAAT
1 ATTTTATATAT-ATATAAT
*
17351429 CTTTTAT
1 ATTTTAT
17351436 TTTTCTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (18 bp):
ATTTTATATATATATAAT
Found at i:17351628 original size:24 final size:25
Alignment explanation
Indices: 17351590--17351637 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
17351580 AATATTTTAT
*
17351590 AAATTATTATCTTTAAACAACTATA
1 AAATTATTATATTTAAACAACTATA
* *
17351615 AAATTATTA-ATTTATATAACTAT
1 AAATTATTATATTTAAACAACTAT
17351638 TATAATTTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (25 bp):
AAATTATTATATTTAAACAACTATA
Found at i:17351710 original size:32 final size:32
Alignment explanation
Indices: 17351668--17351728 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
17351658 TTATATTTTT
* *
17351668 AAACAAAATAATGTTTGATTTTTAAAAATAAC
1 AAACAAAATAATGTTTAAATTTTAAAAATAAC
* *
17351700 AAACACAATAATTTTTAAATTTTAAAAAT
1 AAACAAAATAATGTTTAAATTTTAAAAAT
17351729 TAATCGTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.54, C:0.07, G:0.03, T:0.36
Consensus pattern (32 bp):
AAACAAAATAATGTTTAAATTTTAAAAATAAC
Found at i:17353641 original size:34 final size:34
Alignment explanation
Indices: 17353598--17353684 Score: 97
Period size: 34 Copynumber: 2.6 Consensus size: 34
17353588 TTTAAGAAAA
* *
17353598 TTTATTTTTTATTAAAATTTT-CATTTTTTATTT
1 TTTAATTTTTATTAAAATTTTACAATTTTTATTT
* * *
17353631 TTTGGATTTTTGTTAAAATTTTAGAATTTTTATTT
1 TTT-AATTTTTATTAAAATTTTACAATTTTTATTT
17353666 TTTAATTTTTCA-TAAAATT
1 TTTAATTTTT-ATTAAAATT
17353685 GTTTAATTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
33 3 0.07
34 28 0.64
35 13 0.30
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (34 bp):
TTTAATTTTTATTAAAATTTTACAATTTTTATTT
Found at i:17353742 original size:18 final size:19
Alignment explanation
Indices: 17353694--17353742 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
17353684 TGTTTAATTT
*
17353694 TTTTTATATTTTTGGAATG
1 TTTTTAGATTTTTGGAATG
*
17353713 -TTTGAGAGTTTTT-GAATG
1 TTTTTAGA-TTTTTGGAATG
17353731 TTTTTA-ATTTTT
1 TTTTTAGATTTTT
17353743 ATAAAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
17 5 0.20
18 11 0.44
19 9 0.36
ACGTcount: A:0.20, C:0.00, G:0.16, T:0.63
Consensus pattern (19 bp):
TTTTTAGATTTTTGGAATG
Found at i:17354061 original size:17 final size:17
Alignment explanation
Indices: 17354027--17354070 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
17354017 TTTCAAAAGC
* **
17354027 TTTAAAATTTTTTTAAA
1 TTTAAAATTTCTAAAAA
17354044 TTTAAAATTTCTAAAAA
1 TTTAAAATTTCTAAAAA
17354061 TTTCAAAATT
1 TTT-AAAATT
17354071 AAATTAGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTAAAATTTCTAAAAA
Found at i:17358366 original size:3 final size:3
Alignment explanation
Indices: 17358358--17358390 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
17358348 TGAAAACCAT
17358358 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17358391 ATGGCATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:17358505 original size:14 final size:15
Alignment explanation
Indices: 17358486--17358515 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
17358476 ATATATTTCA
17358486 TTATTTATTT-TTAT
1 TTATTTATTTATTAT
17358500 TTATTTATTTATTAT
1 TTATTTATTTATTAT
17358515 T
1 T
17358516 ATAAAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTATTTATTTATTAT
Found at i:17358601 original size:21 final size:22
Alignment explanation
Indices: 17358567--17358617 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
17358557 TAATATGTAT
* *
17358567 AAATATTAATAATAA-AATTTA
1 AAATAATAAAAATAATAATTTA
*
17358588 AAATAATAAAAATAATACTTTA
1 AAATAATAAAAATAATAATTTA
17358610 AAA-AATAA
1 AAATAATAA
17358618 TTTAAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATAATAAAAATAATAATTTA
Found at i:17358616 original size:12 final size:12
Alignment explanation
Indices: 17358587--17358629 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
17358577 AATAAAATTT
*
17358587 AAAATAA-TAAA
1 AAAATAATTTAA
*
17358598 AATAATACTTTAA
1 AA-AATAATTTAA
17358611 AAAATAATTTAA
1 AAAATAATTTAA
17358623 AAAATAA
1 AAAATAA
17358630 AAAAAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 2 0.07
12 20 0.74
13 5 0.19
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (12 bp):
AAAATAATTTAA
Found at i:17359226 original size:20 final size:18
Alignment explanation
Indices: 17359165--17359221 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 18
17359155 GTAAACACCG
17359165 TTTTGTATTTATTTTTTTA
1 TTTT-TATTTATTTTTTTA
* *
17359184 TTTTTCTTTCTTTCTTTTTA
1 TTTTTATTT-ATT-TTTTTA
17359204 TTTTTATTTATTTTTTTA
1 TTTTTATTTATTTTTTTA
17359222 AATTTAGCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 10 0.31
19 8 0.25
20 14 0.44
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTTTATTTATTTTTTTA
Found at i:17359396 original size:23 final size:23
Alignment explanation
Indices: 17359347--17359390 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
17359337 ATTTTGGGTT
* *
17359347 AAAAATATGATATTTGAATCTAA
1 AAAAATATGAGATTTGAATCCAA
*
17359370 AAAAATCTGAGATTTGAATCC
1 AAAAATATGAGATTTGAATCC
17359391 CGAAAAGCTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.32
Consensus pattern (23 bp):
AAAAATATGAGATTTGAATCCAA
Found at i:17365384 original size:21 final size:21
Alignment explanation
Indices: 17365360--17365414 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
17365350 TTAAAAGATT
* **
17365360 TTTTATATATTATTTTTGTTA
1 TTTTATATATTATTCTTAATA
17365381 TTTTA-ATTATTATTCTTAATA
1 TTTTATA-TATTATTCTTAATA
17365402 TTTATATATATTA
1 TTT-TATATATTA
17365415 AAAATGTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 1 0.04
21 19 0.68
22 7 0.25
23 1 0.04
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTATATATTATTCTTAATA
Found at i:17365578 original size:20 final size:21
Alignment explanation
Indices: 17365550--17365590 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
17365540 AAAAGGTTAT
*
17365550 AATTAAATAAAAATAATAAAA
1 AATTAAATAAAAATAAGAAAA
17365571 AATT-AATAAAAATAAGAAAA
1 AATTAAATAAAAATAAGAAAA
17365591 TAAAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (21 bp):
AATTAAATAAAAATAAGAAAA
Found at i:17365993 original size:9 final size:9
Alignment explanation
Indices: 17365981--17366005 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
17365971 ATTTTTTATA
17365981 TATTATTTT
1 TATTATTTT
17365990 TATTATTTT
1 TATTATTTT
17365999 TATTATT
1 TATTATT
17366006 ATTCTTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TATTATTTT
Found at i:17366005 original size:21 final size:22
Alignment explanation
Indices: 17365973--17366028 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
17365963 TTTTAAAGAT
* *
17365973 TTTTTATATATTATTTTTATTA
1 TTTTTATATATTATTCTTAATA
17365995 TTTTTAT-TATTATTCTTAATA
1 TTTTTATATATTATTCTTAATA
*
17366016 TTTATATATATTA
1 TTTTTATATATTA
17366029 AAAATGTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 18 0.60
22 12 0.40
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTTTATATATTATTCTTAATA
Found at i:17366399 original size:19 final size:19
Alignment explanation
Indices: 17366347--17366399 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
17366337 AATTTTTTTT
17366347 ATAATAA-A-AAATAAAAA
1 ATAATAATATAAATAAAAA
* *
17366364 TTAATTAAT-TAATTAAAAA
1 ATAA-TAATATAAATAAAAA
17366383 ATAATAATATAAATAAA
1 ATAATAATATAAATAAA
17366400 TAAAAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
17 3 0.11
18 7 0.25
19 18 0.64
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
ATAATAATATAAATAAAAA
Found at i:17371383 original size:13 final size:14
Alignment explanation
Indices: 17371358--17371391 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
17371348 TTTATCAATA
17371358 AATTTTTTATCTCT
1 AATTTTTTATCTCT
17371372 AATTTTTT-TCTCT
1 AATTTTTTATCTCT
*
17371385 TATTTTT
1 AATTTTT
17371392 ATGAGTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.71
Consensus pattern (14 bp):
AATTTTTTATCTCT
Found at i:17374791 original size:2 final size:2
Alignment explanation
Indices: 17374786--17374812 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17374776 ACGGAGAGAC
17374786 AT 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 AT A
17374813 ATGTAAGTAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17391171 original size:22 final size:22
Alignment explanation
Indices: 17391120--17391180 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
17391110 TATCTGGCCG
*
17391120 ATCTCAAAAAAATCTCTAGTCA
1 ATCTCAAAAAAATCTCTAGACA
*
17391142 ATCCCAAAAAAATCTCTA-ACAA
1 ATCTCAAAAAAATCTCTAGAC-A
* *
17391164 ATCTCAAATAGATCTCT
1 ATCTCAAAAAAATCTCT
17391181 TATGGGATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
21 1 0.03
22 32 0.97
ACGTcount: A:0.46, C:0.25, G:0.03, T:0.26
Consensus pattern (22 bp):
ATCTCAAAAAAATCTCTAGACA
Found at i:17393000 original size:23 final size:23
Alignment explanation
Indices: 17392957--17393001 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
17392947 ATAATTAAAA
*
17392957 TTATATATTATATTTTGATTTTG
1 TTATATATTATATTTTAATTTTG
*
17392980 TTATTTATTA-ATTTATAATTTT
1 TTATATATTATATTT-TAATTTT
17393002 ATATTTGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (23 bp):
TTATATATTATATTTTAATTTTG
Found at i:17393008 original size:29 final size:28
Alignment explanation
Indices: 17392964--17393022 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
17392954 AAATTATATA
** *
17392964 TTATATTTTGATTTTGTTATTTATTAAT
1 TTATATTTTGATTTTGAAATTTAATAAT
17392992 TTATAATTTT-ATATTTGAAATTTAATAAT
1 TTAT-ATTTTGAT-TTTGAAATTTAATAAT
17393021 TT
1 TT
17393023 TTTATTGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (28 bp):
TTATATTTTGATTTTGAAATTTAATAAT
Found at i:17394941 original size:13 final size:14
Alignment explanation
Indices: 17394903--17394943 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
17394893 TATCATTGTT
*
17394903 TAAAATATTAATT-
1 TAAAATATTTATTA
17394916 TAAAATATATTATTA
1 TAAAATAT-TTATTA
17394931 TAAAA-ATTTATTA
1 TAAAATATTTATTA
17394944 ATGAATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 14 0.56
14 6 0.24
15 5 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TAAAATATTTATTA
Found at i:17412660 original size:36 final size:36
Alignment explanation
Indices: 17412613--17412716 Score: 199
Period size: 36 Copynumber: 2.9 Consensus size: 36
17412603 CCAGTCTATT
*
17412613 GACTTCTTAAAATATAGTCCTTCACTAAGACTAATA
1 GACTTCTTAAAATATAGACCTTCACTAAGACTAATA
17412649 GACTTCTTAAAATATAGACCTTCACTAAGACTAATA
1 GACTTCTTAAAATATAGACCTTCACTAAGACTAATA
17412685 GACTTCTTAAAATATAGACCTTCACTAAGACT
1 GACTTCTTAAAATATAGACCTTCACTAAGACT
17412717 CTTCTTTAAG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
36 67 1.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (36 bp):
GACTTCTTAAAATATAGACCTTCACTAAGACTAATA
Found at i:17417249 original size:2 final size:2
Alignment explanation
Indices: 17417242--17417269 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17417232 CCCCCTTCCC
17417242 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
17417270 TGCACACTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:17428227 original size:14 final size:13
Alignment explanation
Indices: 17428208--17428237 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
17428198 TGTTAGTTTC
17428208 TTTTTTTTAAAAA
1 TTTTTTTTAAAAA
*
17428221 TTTTTTTTCAAAA
1 TTTTTTTTAAAAA
17428234 TTTT
1 TTTT
17428238 GTTATTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTTTTTAAAAA
Found at i:17440563 original size:167 final size:168
Alignment explanation
Indices: 17440287--17440619 Score: 659
Period size: 167 Copynumber: 2.0 Consensus size: 168
17440277 CCACGCCGAG
17440287 ACTATGACTGCTTAGAGGAGCTCAAAGCAGCCACCATGCAGCTTCTGAATTGCCATAGTGCTATC
1 ACTATGACTGCTTAGAGGAGCTCAAAGCAGCCACCATGCAGCTTCTGAATTGCCATAGTGCTATC
17440352 ATATATTTGTTTGAGGGCTTCATGGCTCTTCAATATAGGCTTGAGCTATTGGGACAATCCCCC-A
66 ATATATTTGTTTGAGGGCTTCATGGCTCTTCAATATAGGCTTGAGCTATTGGGACAATCCCCCTA
17440416 CAATGTAATAATCTTTCTAAAACATATGTGACTGTTAA
131 CAATGTAATAATCTTTCTAAAACATATGTGACTGTTAA
17440454 ACTATGACTGCTTAGAGGAGCTCAAAGCAGCCACCATGCAGCTTCTGAATTGCCATAGTGCTATC
1 ACTATGACTGCTTAGAGGAGCTCAAAGCAGCCACCATGCAGCTTCTGAATTGCCATAGTGCTATC
17440519 ATATATTTGTTTGAGGGCTTCATGGCTCTTCAATATAGGCTTGAGCTATTGGGACAATCCCCCTA
66 ATATATTTGTTTGAGGGCTTCATGGCTCTTCAATATAGGCTTGAGCTATTGGGACAATCCCCCTA
17440584 CAATGTAATAATCTTTCTAAAACATATGTGACTGTT
131 CAATGTAATAATCTTTCTAAAACATATGTGACTGTT
17440620 TTATCTTACT
Statistics
Matches: 165, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
167 128 0.78
168 37 0.22
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (168 bp):
ACTATGACTGCTTAGAGGAGCTCAAAGCAGCCACCATGCAGCTTCTGAATTGCCATAGTGCTATC
ATATATTTGTTTGAGGGCTTCATGGCTCTTCAATATAGGCTTGAGCTATTGGGACAATCCCCCTA
CAATGTAATAATCTTTCTAAAACATATGTGACTGTTAA
Found at i:17441970 original size:148 final size:149
Alignment explanation
Indices: 17441806--17442074 Score: 359
Period size: 148 Copynumber: 1.8 Consensus size: 149
17441796 TTTTATTGCA
* * * * **
17441806 TTGAAAAAGTATAAAATTATCAAAATATCCATATAA-AATATATTTTCGTAATTTTA-TTTTCTT
1 TTGAAAAAGTATAAAATTATCAAAATACCCATATAAGAAT-TATTTTCATAATTTGACCTTTCCA
* *
17441869 AGTTCAAAATTTT-AT-AAAACTTTTCATATCTTAATTTCATAATATTTCATTATTTTTGGTATA
65 AGTT-AAAATTTTCATGAAAA-TTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTATA
17441932 TTAGAAATCACAGTTATTACTC
128 TTAGAAATCACAGTTATTACTC
* * *
17441954 TTGAAAAA-TATGAAAATTATTAAAATACCCTTATAAGAATTATTTTTATAATTTGACCTTTCCA
1 TTGAAAAAGTAT-AAAATTATCAAAATACCCATATAAGAATTATTTTCATAATTTGACCTTTCCA
*
17442018 AGTTTAAATTTTCATGAAAATTTTCAGATCTTAATTTCATAATATTTCATGATTTTT
65 AGTTAAAATTTTCATGAAAATTTTCAGATCTTAATTTCATAATATTTCATGATTTTT
17442075 TGCATTTGAA
Statistics
Matches: 104, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
147 3 0.03
148 49 0.47
149 48 0.46
150 4 0.04
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (149 bp):
TTGAAAAAGTATAAAATTATCAAAATACCCATATAAGAATTATTTTCATAATTTGACCTTTCCAA
GTTAAAATTTTCATGAAAATTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTATATTA
GAAATCACAGTTATTACTC
Found at i:17453522 original size:168 final size:168
Alignment explanation
Indices: 17453244--17453577 Score: 659
Period size: 168 Copynumber: 2.0 Consensus size: 168
17453234 CACGGCCGAG
17453244 ACTATGACTGCTTAGAGGAGCTCAAAGCAGCCACCATGCAGCTTCTGAATTGCCATAGTGCTATC
1 ACTATGACTGCTTAGAGGAGCTCAAAGCAGCCACCATGCAGCTTCTGAATTGCCATAGTGCTATC
17453309 ATATATTTGTTTGAGGGCTTCATGGCTCTTCAATATAGGCTTGAGCTATTGGGACAATCCCCCCA
66 ATATATTTGTTTGAGGGCTTCATGGCTCTTCAATATAGGCTTGAGCTATTGGGACAATCCCCCCA
17453374 CAATGTAATAATCTTTCTAAAACATATGTGACTGTTAA
131 CAATGTAATAATCTTTCTAAAACATATGTGACTGTTAA
17453412 ACTATGACTGCTTAGAGGAGCTCAAAGCAGCCACCATGCAGCTTCTGAATTGCCATAGTGCTATC
1 ACTATGACTGCTTAGAGGAGCTCAAAGCAGCCACCATGCAGCTTCTGAATTGCCATAGTGCTATC
*
17453477 ATATATTTGTTTGAGGGCTTCATGGCTCTTCAATATAGGCTTGAGCTATTGGGACAATCCCCCTA
66 ATATATTTGTTTGAGGGCTTCATGGCTCTTCAATATAGGCTTGAGCTATTGGGACAATCCCCCCA
17453542 CAATGTAATAATCTTTCTAAAACATATGTGACTGTT
131 CAATGTAATAATCTTTCTAAAACATATGTGACTGTT
17453578 TTATCTTACT
Statistics
Matches: 165, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
168 165 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (168 bp):
ACTATGACTGCTTAGAGGAGCTCAAAGCAGCCACCATGCAGCTTCTGAATTGCCATAGTGCTATC
ATATATTTGTTTGAGGGCTTCATGGCTCTTCAATATAGGCTTGAGCTATTGGGACAATCCCCCCA
CAATGTAATAATCTTTCTAAAACATATGTGACTGTTAA
Found at i:17457712 original size:214 final size:214
Alignment explanation
Indices: 17457343--17457768 Score: 744
Period size: 214 Copynumber: 2.0 Consensus size: 214
17457333 TAAAAACTGT
*
17457343 CAAAGTATTAGAATATTTAGAAGTTTCTTTTCAACATAAATAATTTTTCATTCCTTAATTATTTT
1 CAAAGTATTAGAATATTTAGAAGTTTCTTTTCAACATAAAAAATTTTTCATTCCTTAATTATTTT
*
17457408 CTTTTATTTGAACAATTTTTCTTAATAAATAAAAGTATGTTTTTAGGAAATAAATGTATTTGTAA
66 CTTTTATTTGAACAATTTTTCTTAATAAATAAAAGTATGTTTTTAGAAAATAAATGTATTTGTAA
* * *
17457473 ATAATTATATTATTGCATGACTTTTAATAATTTTTATAAAAAACAAACAAAAAGTCTCCGAGGAT
131 ATAATTATATTATTACATGACTTTTAATAATTTTTATAAAAAACAAACAAAAAATCTCCGAAGAT
**
17457538 GGGATCCTAAAGAAATTAC
196 GAAATCCTAAAGAAATTAC
* * *
17457557 CAAAGTATTGGAATATTTAGAAGTTTGTTTTCAATATAAAAAATTTTTCATTCCTTAATTATTTT
1 CAAAGTATTAGAATATTTAGAAGTTTCTTTTCAACATAAAAAATTTTTCATTCCTTAATTATTTT
*
17457622 CTTTTATTTGAACAATTTTTCTTAATAAATAAAAGTATGTTTTTAGAAAATAAATGTATTTGTAG
66 CTTTTATTTGAACAATTTTTCTTAATAAATAAAAGTATGTTTTTAGAAAATAAATGTATTTGTAA
*
17457687 ATAATTATATTATTACATGACTTTTAATAATTTTTATAAAAAACAAACAAAAAATCTCTGAAGAT
131 ATAATTATATTATTACATGACTTTTAATAATTTTTATAAAAAACAAACAAAAAATCTCCGAAGAT
17457752 GAAATCCTAAAGAAATT
196 GAAATCCTAAAGAAATT
17457769 CGAGTAATAA
Statistics
Matches: 200, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
214 200 1.00
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (214 bp):
CAAAGTATTAGAATATTTAGAAGTTTCTTTTCAACATAAAAAATTTTTCATTCCTTAATTATTTT
CTTTTATTTGAACAATTTTTCTTAATAAATAAAAGTATGTTTTTAGAAAATAAATGTATTTGTAA
ATAATTATATTATTACATGACTTTTAATAATTTTTATAAAAAACAAACAAAAAATCTCCGAAGAT
GAAATCCTAAAGAAATTAC
Found at i:17464826 original size:188 final size:185
Alignment explanation
Indices: 17464312--17464915 Score: 590
Period size: 188 Copynumber: 3.3 Consensus size: 185
17464302 GGCACTTGGT
* ** *
17464312 AAGGGATAATTCAATGCGTTTTCTAGTAAAAAACGCCTTGAATAATCCCTTGAAAAATCCAAAAA
1 AAGGGATAATTCAAGGCGTTTTCTA-CCAAAAACACCTTGAATAAT-CCTTG-AAAAT-CAAAAA
* * * *
17464377 AAGTTAAAATGAAAGATCAAACTTACAATCTTATGGTTAATAAATGTATGTTCTAACCGATTGAG
62 AAGCTAAAA-GAAAGATCAAACCTACAATCTTATGATTAATAACTGTATGTTCTAACCGATTGAG
*
17464442 CTA-TTCTAATATTTTTATAACTT-AAATCTATTATTTAAACTAAGAATAATCTCCTCATAG
126 CTACTT-TAATATTTTTATAA-TTAAAAGCTATTATTTAAACTAAGAATAATCTCCTCATAG
* ** * * ** *
17464502 -A-GG-TAAGTC-A--TTTTTTGTA--AAAAATACCTTGAATAATTATTGAGACATCAAAAAAAG
1 AAGGGATAATTCAAGGCGTTTTCTACCAAAAACACCTTGAATAATCCTTGA-AAATCAAAAAAAG
* * * *
17464559 CTAAAAGGAATGATCAAACCTACAACCTTATAATTAA-CACTTGTATGTTCTAACCGATTGAGCT
65 CTAAAA-GAAAGATCAAACCTACAATCTTATGATTAATAAC-TGTATGTTCTAACCGATTGAGCT
* *
17464623 ACTCTAATATTTTTATAATTAAAAGCCATTATTTAAACTAAGAATAATCTCCTCATAG
128 ACTTTAATATTTTTATAATTAAAAGCTATTATTTAAACTAAGAATAATCTCCTCATAG
* * *
17464681 AAGGGATTATTCAAGGCGTTTTCTACCAAAAACGCCTTGAATAATCCTTGAAAATTCTAAAAAAT
1 AAGGGATAATTCAAGGCGTTTTCTACCAAAAACACCTTGAATAATCCTTGAAAA-TC-AAAAAAA
* * *
17464746 GCT-AGAGAAAGGGATCAAACCTACAATTTTATGATTAATAACTATATGCTT-TAACCGATTGAG
64 GCTAAAAGAAA--GATCAAACCTACAATCTTATGATTAATAACTGTATG-TTCTAACCGATTGAG
* * * *
17464809 CTACTTTAGTGTTTTTATAATTAAAAGGTATTATTTAAACTAAGAATAATC-CCTTCCA-AA
126 CTACTTTAATATTTTTATAATTAAAAGCTATTATTTAAACTAAGAATAATCTCC-T-CATAG
** * * * * *
17464869 AAAAGATTATTGAAGGCATTTTCTACCAAAAATACCTTCAATAATCC
1 AAGGGATAATTCAAGGCGTTTTCTACCAAAAACACCTTGAATAATCC
17464916 CCTTTCATTT
Statistics
Matches: 342, Mismatches: 52, Indels: 42
0.78 0.12 0.10
Matches are distributed among these distances:
178 3 0.01
179 113 0.33
180 8 0.02
181 18 0.05
182 4 0.01
183 1 0.00
184 6 0.02
185 6 0.02
186 6 0.02
187 31 0.09
188 139 0.41
189 7 0.02
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (185 bp):
AAGGGATAATTCAAGGCGTTTTCTACCAAAAACACCTTGAATAATCCTTGAAAATCAAAAAAAGC
TAAAAGAAAGATCAAACCTACAATCTTATGATTAATAACTGTATGTTCTAACCGATTGAGCTACT
TTAATATTTTTATAATTAAAAGCTATTATTTAAACTAAGAATAATCTCCTCATAG
Found at i:17464973 original size:61 final size:63
Alignment explanation
Indices: 17464896--17465013 Score: 152
Period size: 61 Copynumber: 1.9 Consensus size: 63
17464886 ATTTTCTACC
* *
17464896 AAAAATACCTTCAATAATCCCCTTTC-ATTTTTT-T-GGGATTATTCAATGTATTTTTTTTCCA
1 AAAAATACCTTCAATAA-CCCCATTCAATTTTTTGTAGGGATTATTCAAAGTATTTTTTTTCCA
* * *
17464957 AAAAATATCTTGAATAACCTCATTCAATTTTTTGTAAGGGATTATTCAAAGTATTTT
1 AAAAATACCTTCAATAACCCCATTCAATTTTTTGT-AGGGATTATTCAAAGTATTTT
17465014 CTAGCCAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
60 6 0.12
61 22 0.46
62 1 0.02
64 19 0.40
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.45
Consensus pattern (63 bp):
AAAAATACCTTCAATAACCCCATTCAATTTTTTGTAGGGATTATTCAAAGTATTTTTTTTCCA
Found at i:17465022 original size:64 final size:60
Alignment explanation
Indices: 17464886--17465038 Score: 150
Period size: 64 Copynumber: 2.5 Consensus size: 60
17464876 TATTGAAGGC
* *
17464886 ATTTTCTACC-AAAAATACCTTCAATAATCCCCTTTCATTTTTTTGGGATTATTCAATGT
1 ATTTTCTACCAAAAAATACCTTCAATAATCCCCATTCATTTTTTTGGGATTATTCAAAGT
* * * * *
17464945 ATTTTTTTTCCAAAAAATATCTTGAATAA-CCTCATTCAATTTTTTGTAAGGGATTATTCAAAGT
1 A-TTTTCTACCAAAAAATACCTTCAATAATCCCCATTC-ATTTTTT-T--GGGATTATTCAAAGT
* *
17465009 ATTTTCTAGCCAAAAACT-CCTTGAATAATC
1 ATTTTCTA-CCAAAAAATACCTTCAATAATC
17465039 TCCTTATAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 11
0.77 0.11 0.11
Matches are distributed among these distances:
59 1 0.01
60 13 0.17
61 22 0.29
62 1 0.01
63 14 0.19
64 24 0.32
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.42
Consensus pattern (60 bp):
ATTTTCTACCAAAAAATACCTTCAATAATCCCCATTCATTTTTTTGGGATTATTCAAAGT
Found at i:17466188 original size:24 final size:24
Alignment explanation
Indices: 17466148--17466194 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
17466138 AAACCAAATC
* *
17466148 ATATTATGATTATAAATA-AATTA
1 ATATTATAATTAAAAATATAATTA
17466171 ATATTAATAATTAAAAATATAATT
1 ATATT-ATAATTAAAAATATAATT
17466195 CAAAAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 11 0.55
25 4 0.20
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
ATATTATAATTAAAAATATAATTA
Found at i:17469289 original size:22 final size:22
Alignment explanation
Indices: 17469264--17469305 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
17469254 TCTATAGTTA
17469264 ATAAACACAAGCTTCATAAAAT
1 ATAAACACAAGCTTCATAAAAT
* *
17469286 ATAAGCACAGGCTTCATAAA
1 ATAAACACAAGCTTCATAAA
17469306 CACAAGCTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.19, G:0.10, T:0.21
Consensus pattern (22 bp):
ATAAACACAAGCTTCATAAAAT
Found at i:17469309 original size:15 final size:15
Alignment explanation
Indices: 17469286--17469320 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
17469276 TTCATAAAAT
* *
17469286 ATAAGCACAGGCTTC
1 ATAAACACAAGCTTC
17469301 ATAAACACAAGCTTC
1 ATAAACACAAGCTTC
17469316 ATAAA
1 ATAAA
17469321 TAAGAAGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.46, C:0.23, G:0.11, T:0.20
Consensus pattern (15 bp):
ATAAACACAAGCTTC
Found at i:17471498 original size:16 final size:16
Alignment explanation
Indices: 17471477--17471511 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
17471467 ATTTAAGCTC
*
17471477 ATACCAAATGTTAAGG
1 ATACCAAATGTTAAAG
*
17471493 ATACCAATTGTTAAAG
1 ATACCAAATGTTAAAG
17471509 ATA
1 ATA
17471512 TGTCATTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (16 bp):
ATACCAAATGTTAAAG
Found at i:17483897 original size:168 final size:168
Alignment explanation
Indices: 17483574--17483907 Score: 634
Period size: 169 Copynumber: 2.0 Consensus size: 168
17483564 CACGGCCGAG
17483574 ACTATGACTGCTTAGAGGAGCTCAAAGCAGCCACCATGCAGCTTCTGAATTGCCATAGTGCTATC
1 ACTATGACTGCTTAGAGGAGCTCAAAGCAGCCACCATGCAGCTTCTGAATTGCCATAGTGCTATC
17483639 ATATATTTGTTTGAGGGCTTCATGGCTCTTCAATATAGGCTTGAGCTATTGGGACAATCCCCCCA
66 ATATATTTGTTTGAGGGCTTCATGGCTCTTCAATATAGGCTTGAGCTATTGGGACAATCCCCCCA
17483704 CAATGTAATAATCTTTCTAAAACATATGTGACTGTTAA
131 CAATGTAATAATCTTTCTAAAACATATGTGACTGTTAA
17483742 ACTATGACTGCTTAGAGGAGCTCAAAGCAGCCACCATGCAGCTTCTGAAATTGCCATAGTGCTAT
1 ACTATGACTGCTTAGAGGAGCTCAAAGCAGCCACCATGCAGCTTCTG-AATTGCCATAGTGCTAT
* *
17483807 CATATATTTGTTTGAGGGCTTCATGGCTCTTCAATATAGGCTTGAGCTATTTGGACAATCCCCCT
65 CATATATTTGTTTGAGGGCTTCATGGCTCTTCAATATAGGCTTGAGCTATTGGGACAATCCCCCC
17483872 ACAATGTAATAATCTTTCT-AAACATATGTGACTGTT
130 ACAATGTAATAATCTTTCTAAAACATATGTGACTGTT
17483908 TTATCTTACT
Statistics
Matches: 163, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
168 64 0.39
169 99 0.61
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (168 bp):
ACTATGACTGCTTAGAGGAGCTCAAAGCAGCCACCATGCAGCTTCTGAATTGCCATAGTGCTATC
ATATATTTGTTTGAGGGCTTCATGGCTCTTCAATATAGGCTTGAGCTATTGGGACAATCCCCCCA
CAATGTAATAATCTTTCTAAAACATATGTGACTGTTAA
Found at i:17485380 original size:146 final size:146
Alignment explanation
Indices: 17485108--17485384 Score: 366
Period size: 146 Copynumber: 1.9 Consensus size: 146
17485098 ATTGCATTGA
* * **
17485108 AAAAATATAAAATTATCAAAATATCCATATAAAATATATTTTCGTAATTTGATTTTCTTGAGTTC
1 AAAAATATAAAATTATCAAAATACCCATATAAAATATATTTTCATAATTTGATTTTCTCAAGTTC
* * *
17485173 AATATTTTATAAAATTTTTCATATCTTAATTTCATAATATTTTATTATTTTTTGTATATTTGAAA
66 AATATTTTATAAAATTTTTCATATCTTAATTTCATAATATTTCATGATTTTTTGTACATTTGAAA
17485238 TCACAGTTATACCCTG
131 TCACAGTTATACCCTG
* * *
17485254 AAAAATATGAAATTATCAAAATACCCCTATAAGA-ATATTTTCATAATTTGACATTTT-TCAAGC
1 AAAAATATAAAATTATCAAAATACCCATATAAAATATATTTTCATAATTTG--ATTTTCTCAAG-
* *
17485317 TT-AA-ATTTTCATGAAAA-TTTTCATATCTTAATTTCATAATATTTCATGATTTTTTTTGCATT
63 TTCAATATTTT-AT-AAAATTTTTCATATCTTAATTTCATAATATTTCATGATTTTTTGTACATT
17485379 TGAAAT
126 TGAAAT
17485385 TATAACATTA
Statistics
Matches: 114, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
145 20 0.18
146 83 0.73
147 11 0.10
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (146 bp):
AAAAATATAAAATTATCAAAATACCCATATAAAATATATTTTCATAATTTGATTTTCTCAAGTTC
AATATTTTATAAAATTTTTCATATCTTAATTTCATAATATTTCATGATTTTTTGTACATTTGAAA
TCACAGTTATACCCTG
Found at i:17485397 original size:146 final size:145
Alignment explanation
Indices: 17485108--17485424 Score: 351
Period size: 146 Copynumber: 2.2 Consensus size: 145
17485098 ATTGCATTGA
* * * **
17485108 AAAAATATAAAATTATCAAAATATCCATATAAAATATATTTTCGTAATTTGATTTTCTTGAGTTC
1 AAAAATATGAAATTATCAAAATACCCATATAAAATATATTTTCATAATTTGATTTTCTCAAGTTC
* * *
17485173 AATATTTTATAAAATTTTTCATATCTTAATTTCATAATATTTTATTATTTTTTGTATATTTGAAA
66 AATATTTTATAAAATTTTTCATATCTTAATTTCATAATATTTCATGATTTTTTGTACATTTGAAA
* **
17485238 TCACAGTTATACCCT
131 TCAAACATATACCCT
* *
17485253 GAAAAATATGAAATTATCAAAATACCCCTATAAGA-ATATTTTCATAATTTGACATTTT-TCAAG
1 -AAAAATATGAAATTATCAAAATACCCATATAAAATATATTTTCATAATTTG--ATTTTCTCAAG
* *
17485316 CTT-AA-ATTTTCATGAAAA-TTTTCATATCTTAATTTCATAATATTTCATGATTTTTTTTGCAT
63 -TTCAATATTTT-AT-AAAATTTTTCATATCTTAATTTCATAATATTTCATGATTTTTTGTACAT
*
17485378 TTGAAATTATAACAT-TACCCT
125 TTGAAATCA-AACATATACCCT
*
17485399 AAAAAGTGTGAAATTA-CGAAAATACC
1 AAAAA-TATGAAATTATC-AAAATACC
17485425 TCTAATTACC
Statistics
Matches: 146, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
145 26 0.18
146 107 0.73
147 13 0.09
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.43
Consensus pattern (145 bp):
AAAAATATGAAATTATCAAAATACCCATATAAAATATATTTTCATAATTTGATTTTCTCAAGTTC
AATATTTTATAAAATTTTTCATATCTTAATTTCATAATATTTCATGATTTTTTGTACATTTGAAA
TCAAACATATACCCT
Found at i:17488062 original size:215 final size:214
Alignment explanation
Indices: 17487691--17488106 Score: 717
Period size: 215 Copynumber: 1.9 Consensus size: 214
17487681 AAATTATTAG
*
17487691 AATATTTAGAAGTTTCTTTTCAATATAAATAATTTTTCATTCCTTAATTATTTTCTTTTATTTGA
1 AATATTTAGAAGTTTCTTTTCAATATAAAAAATTTTTCATTCCTTAATTATTTTCTTTTATTTGA
*
17487756 ACAATTTTTCTTAATAAATAAAAGTATGTTTTTAGGAAATAAATGTATTTGTAAATAATTATATT
66 ACAATTTTTCTTAATAAATAAAAGTATGTTTTTAGAAAATAAATGTATTTGTAAATAATTATATT
* * * * *
17487821 ATTGCATGATTTTTAATAATTTTTATAAAAAAACAAACGAAAAGTCT-TCGAAAATGAGATCCTA
131 ATTACATGACTTTTAATAATTTTTAT-AAAAAACAAACAAAAAATCTCT-GAAAATGAAATCCTA
17487885 AAGAAATTACCAAAGTATTGA
194 AAGAAATTACCAAAGTATTGA
*
17487906 AATATTTAGAAGTTTGTTTTCAATATAAAAAATTTTTCATTCCTTAATTATTTTCTTTTATTTGA
1 AATATTTAGAAGTTTCTTTTCAATATAAAAAATTTTTCATTCCTTAATTATTTTCTTTTATTTGA
*
17487971 ACAATTTTTCTTAATAAATAAAAGTATGTTTTTAGAAAATAAATGTATTTGTAGATAATTATATT
66 ACAATTTTTCTTAATAAATAAAAGTATGTTTTTAGAAAATAAATGTATTTGTAAATAATTATATT
*
17488036 ATTACATGACTTTTAATAATTTTTATAAAAAACAAACAAAAAATCTCTGAAGATGAAATCCTAAA
131 ATTACATGACTTTTAATAATTTTTATAAAAAACAAACAAAAAATCTCTGAAAATGAAATCCTAAA
17488101 GAAATT
196 GAAATT
17488107 CGAGTAATAA
Statistics
Matches: 190, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
214 39 0.21
215 151 0.79
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.43
Consensus pattern (214 bp):
AATATTTAGAAGTTTCTTTTCAATATAAAAAATTTTTCATTCCTTAATTATTTTCTTTTATTTGA
ACAATTTTTCTTAATAAATAAAAGTATGTTTTTAGAAAATAAATGTATTTGTAAATAATTATATT
ATTACATGACTTTTAATAATTTTTATAAAAAACAAACAAAAAATCTCTGAAAATGAAATCCTAAA
GAAATTACCAAAGTATTGA
Found at i:17489519 original size:26 final size:27
Alignment explanation
Indices: 17489489--17489550 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
17489479 TTTATTTTTC
* *
17489489 ATATTTATGTA-ATTTTTT-GTAAATAT
1 ATATTTATATATATTTTTTAATAAA-AT
*
17489515 ATATTAATATATATTTTTTAAATAAAAT
1 ATATTTATATATATTTTTT-AATAAAAT
17489543 ATATTTAT
1 ATATTTAT
17489551 TTTAATTACT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 9 0.31
27 7 0.24
28 9 0.31
29 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (27 bp):
ATATTTATATATATTTTTTAATAAAAT
Found at i:17489613 original size:26 final size:24
Alignment explanation
Indices: 17489562--17489610 Score: 62
Period size: 27 Copynumber: 1.9 Consensus size: 24
17489552 TTAATTACTC
*
17489562 AAAAAAATTTTAATATTATTTAAT
1 AAAAAAATTTTAATATTATATAAT
17489586 AAAAAATATATTTAATAATTATATA
1 AAAAAA-AT-TTTAAT-ATTATATA
17489611 TAAGGCATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 2 0.10
26 6 0.29
27 7 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
AAAAAAATTTTAATATTATATAAT
Found at i:17496614 original size:3 final size:3
Alignment explanation
Indices: 17496568--17496601 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
17496558 GTTGTTGTTG
17496568 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
17496602 AACTACTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:17497850 original size:27 final size:27
Alignment explanation
Indices: 17497802--17497887 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 27
17497792 TATATTACAT
* *
17497802 TGCATTTATTACATTCATCGCATGTAA
1 TGCATTTATTGCATTCACCGCATGTAA
* * *
17497829 TGCATTTATTGCAATCACCGCATGCAC
1 TGCATTTATTGCATTCACCGCATGTAA
* * *
17497856 TGCATTTATTGTATTCACAGCATGTAT
1 TGCATTTATTGCATTCACCGCATGTAA
17497883 TGCAT
1 TGCAT
17497888 CCATTGTGTA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (27 bp):
TGCATTTATTGCATTCACCGCATGTAA
Found at i:17498187 original size:42 final size:42
Alignment explanation
Indices: 17498141--17498254 Score: 126
Period size: 42 Copynumber: 2.7 Consensus size: 42
17498131 GGGGGAACAT
17498141 TTTAAATTTTCAAAAGTTTCAAAGCCTCTAATAAAGAGAGCA
1 TTTAAATTTTCAAAAGTTTCAAAGCCTCTAATAAAGAGAGCA
* * * *
17498183 TTTAAATTTTTCAAAA-TTTCAAAG-CTTTCAATGAGGGGAGCA
1 TTTAAA-TTTTCAAAAGTTTCAAAGCCTCT-AATAAAGAGAGCA
* *
17498225 TTT-TATTTTCGAAAGTTTCCAAAGCCTCTA
1 TTTAAATTTTCAAAAGTTT-CAAAGCCTCTA
17498255 GTGGGGGGAG
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
40 8 0.13
41 7 0.12
42 33 0.55
43 12 0.20
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (42 bp):
TTTAAATTTTCAAAAGTTTCAAAGCCTCTAATAAAGAGAGCA
Found at i:17498380 original size:42 final size:41
Alignment explanation
Indices: 17498322--17498474 Score: 159
Period size: 42 Copynumber: 3.7 Consensus size: 41
17498312 TTCAAAGTGT
*
17498322 ATTTTATTTTCCAAAGTTTCAAAGGCTTCAATAGAGAGAGC
1 ATTTTATTTTCCAAAGTTTCAAAGGCTTCGATAGAGAGAGC
* * *
17498363 ATTTTATTTTTCTAAAGTTTCAAA-GCTTCTGGTGAAAGAGAGC
1 ATTTTA-TTTTCCAAAGTTTCAAAGGCTTC-GAT-AGAGAGAGC
* * *
17498406 ATTTTATTTTCCAAAGTTTCAAAGCCTTCGATAGGGGGAAGC
1 ATTTTATTTTCCAAAGTTTCAAAGGCTTCGATAGAGAG-AGC
* *
17498448 A-TTTATTTACTCAATGTTTC-AAGGCTT
1 ATTTTATTTTC-CAAAGTTTCAAAGGCTT
17498475 TCGTTAAGGT
Statistics
Matches: 93, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
41 28 0.30
42 47 0.51
43 18 0.19
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (41 bp):
ATTTTATTTTCCAAAGTTTCAAAGGCTTCGATAGAGAGAGC
Found at i:17498380 original size:61 final size:61
Alignment explanation
Indices: 17498266--17498380 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
17498256 TGGGGGGAGC
* * *
17498266 ATTTTCCAAAGTTTCAAAACCTTCAGTGATGGGGGCCATTTTATTTTTCAAAGTGTATTTT
1 ATTTTCCAAAGTTTCAAAACCTTCAATGATGAGAGCCATTTTATTTTTCAAAGTGTATTTT
**
17498327 ATTTTCCAAAGTTTCAAAGGCTTCAATAGA-GAGAG-CATTTTATTTTTCTAAAGT
1 ATTTTCCAAAGTTTCAAAACCTTCAAT-GATGAGAGCCATTTTATTTTTC-AAAGT
17498381 TTCAAAGCTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
60 13 0.28
61 32 0.68
62 2 0.04
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.41
Consensus pattern (61 bp):
ATTTTCCAAAGTTTCAAAACCTTCAATGATGAGAGCCATTTTATTTTTCAAAGTGTATTTT
Found at i:17498731 original size:6 final size:6
Alignment explanation
Indices: 17498706--17498818 Score: 104
Period size: 6 Copynumber: 18.7 Consensus size: 6
17498696 AAAAGCTCAA
* * * *
17498706 AATTTT CAATTTT GATTTTT AATTTT AATTTT GATTTT AATTTT -CTATT
1 AATTTT -AATTTT -AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
* * * * *
17498755 GATTTT AATTTT GATTTT GATTCT AATTTT GATTTT AATTTT AATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
17498803 AATTTT -ATATTT AATT
1 AATTTT AAT-TTT AATT
17498819 AAAGACAAAG
Statistics
Matches: 87, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
5 5 0.06
6 69 0.79
7 13 0.15
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (6 bp):
AATTTT
Found at i:17498745 original size:18 final size:18
Alignment explanation
Indices: 17498706--17498818 Score: 131
Period size: 18 Copynumber: 6.2 Consensus size: 18
17498696 AAAAGCTCAA
17498706 AATTTTCAATTTTGATTTTT
1 AATTTT-AATTTTGA-TTTT
17498726 AATTTTAATTTTGATTTT
1 AATTTTAATTTTGATTTT
* *
17498744 AATTTT-CTATTGATTTT
1 AATTTTAATTTTGATTTT
* *
17498761 AATTTTGATTTTGATTCT
1 AATTTTAATTTTGATTTT
* *
17498779 AATTTTGATTTTAATTTT
1 AATTTTAATTTTGATTTT
17498797 AATTTTAATTTT-ATATTT
1 AATTTTAATTTTGAT-TTT
17498815 AATT
1 AATT
17498819 AAAGACAAAG
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
17 17 0.20
18 52 0.63
19 8 0.10
20 6 0.07
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (18 bp):
AATTTTAATTTTGATTTT
Found at i:17499649 original size:5 final size:6
Alignment explanation
Indices: 17499632--17499656 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
17499622 CTGAATCACA
17499632 TGTTTT TGTTTT TGTTTT TGTTTT T
1 TGTTTT TGTTTT TGTTTT TGTTTT T
17499657 AATTTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (6 bp):
TGTTTT
Found at i:17499818 original size:20 final size:19
Alignment explanation
Indices: 17499783--17499855 Score: 87
Period size: 18 Copynumber: 3.8 Consensus size: 19
17499773 AATATATATT
17499783 TAATTGATTAATTATTTGCA
1 TAATT-ATTAATTATTTGCA
* *
17499803 TAATTATTAATATATTTACC
1 TAATTATTAAT-TATTTGCA
17499823 TAATTATT-ATTATTTGCA
1 TAATTATTAATTATTTGCA
*
17499841 TAATTAGT-ATTATTT
1 TAATTATTAATTATTT
17499856 ATTTGCATGA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
18 20 0.43
19 8 0.17
20 19 0.40
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.53
Consensus pattern (19 bp):
TAATTATTAATTATTTGCA
Found at i:17499900 original size:15 final size:17
Alignment explanation
Indices: 17499878--17499912 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
17499868 TATTAGCCTG
*
17499878 ATATTTTTTC-ATGATT
1 ATATTTTTACTATGATT
17499894 ATATTTTTACTATGATT
1 ATATTTTTACTATGATT
17499911 AT
1 AT
17499913 TGTAAAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (17 bp):
ATATTTTTACTATGATT
Found at i:17500835 original size:103 final size:103
Alignment explanation
Indices: 17500595--17500803 Score: 382
Period size: 103 Copynumber: 2.0 Consensus size: 103
17500585 AATCCGAATG
* *
17500595 TAACCACCCATCTAAGTGAGGTGTCCATTTTAATTGATGCCTCTGCTACACTTAATGAGAAAGTT
1 TAACCACCCATCTAAGTGGGGTGTCCATTTTAATTGATGCATCTGCTACACTTAATGAGAAAGTT
17500660 GACATTTAATAATGGTTACATTTGTAACTTTTATGATT
66 GACATTTAATAATGGTTACATTTGTAACTTTTATGATT
* *
17500698 TAACCACCCATCTAAGTGGGGTGTCCATTTTAATTGATGCATTTGCTACACTTAATGAGAACGTT
1 TAACCACCCATCTAAGTGGGGTGTCCATTTTAATTGATGCATCTGCTACACTTAATGAGAAAGTT
17500763 GACATTTAATAATGGTTACATTTGTAACTTTTATGATT
66 GACATTTAATAATGGTTACATTTGTAACTTTTATGATT
17500801 TAA
1 TAA
17500804 TTATTTTTTT
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (103 bp):
TAACCACCCATCTAAGTGGGGTGTCCATTTTAATTGATGCATCTGCTACACTTAATGAGAAAGTT
GACATTTAATAATGGTTACATTTGTAACTTTTATGATT
Found at i:17504169 original size:5 final size:5
Alignment explanation
Indices: 17504152--17504181 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
17504142 TAAATTTTTA
17504152 TTATT TATATT TTATT TTATT TTATT TTAT
1 TTATT T-TATT TTATT TTATT TTATT TTAT
17504182 GTTAATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:17509137 original size:2 final size:2
Alignment explanation
Indices: 17509132--17509170 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
17509122 AGGTAGTATC
17509132 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
17509171 ATGGATATCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:17513240 original size:29 final size:28
Alignment explanation
Indices: 17513145--17513255 Score: 75
Period size: 29 Copynumber: 3.8 Consensus size: 28
17513135 ATTTTATTAC
*
17513145 TTTAT-TTAAATAAATTTTTATACTTTTA
1 TTTATATTAAATAAATTTTTA-ATTTTTA
* * * * *
17513173 -TTACATCCAAATAAATCATTAAATTTTGA
1 TTTATAT-TAAATAAAT-TTTTAATTTTTA
*
17513202 TTTCTAATTAAATAAATTTTTAATTTTTAA
1 TTTAT-ATTAAATAAATTTTTAATTTTT-A
17513232 TTTATATTAAA-ATAATCTTTTAAT
1 TTTATATTAAATA-AAT-TTTTAAT
17513256 GTAAATTATT
Statistics
Matches: 62, Mismatches: 13, Indels: 14
0.70 0.15 0.16
Matches are distributed among these distances:
27 3 0.05
28 2 0.03
29 30 0.48
30 25 0.40
31 2 0.03
ACGTcount: A:0.41, C:0.06, G:0.01, T:0.52
Consensus pattern (28 bp):
TTTATATTAAATAAATTTTTAATTTTTA
Found at i:17513574 original size:21 final size:21
Alignment explanation
Indices: 17513530--17513574 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
17513520 GGCGTATTGA
*
17513530 TTTTCATTCTCATCTCTCCTT
1 TTTTCATTCTCATCTCTCCAT
*
17513551 TTTTC-TTCTCATACTTTCCAT
1 TTTTCATTCTCAT-CTCTCCAT
17513572 TTT
1 TTT
17513575 GATAACAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.11, C:0.29, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTCATTCTCATCTCTCCAT
Found at i:17513954 original size:13 final size:13
Alignment explanation
Indices: 17513936--17513973 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
17513926 ACTATTTAAA
17513936 ATATTTTATTTTT
1 ATATTTTATTTTT
17513949 ATATTTTAATTTTT
1 ATATTTT-ATTTTT
*
17513963 A-ATTATATTTT
1 ATATTTTATTTT
17513974 AAAATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 5 0.22
13 11 0.48
14 7 0.30
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
ATATTTTATTTTT
Found at i:17516432 original size:21 final size:23
Alignment explanation
Indices: 17516385--17516434 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
17516375 TTATTTTTTT
* * *
17516385 ATTTTTTATATTATTTTAATATG
1 ATTTTTAATATTATTTAAATATA
17516408 ATTTTTAATA-TATTTAAATA-A
1 ATTTTTAATATTATTTAAATATA
17516429 ATTTTT
1 ATTTTT
17516435 GTATAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 6 0.25
22 9 0.38
23 9 0.38
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
ATTTTTAATATTATTTAAATATA
Found at i:17516482 original size:19 final size:19
Alignment explanation
Indices: 17516458--17516502 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
17516448 ATTTTTATTT
17516458 TATAAAAATT-TAAAATATA
1 TATAAAAATTATAAAA-ATA
17516477 TATAAAAAATTAATAAAAATA
1 TAT-AAAAATT-ATAAAAATA
17516498 TATAA
1 TATAA
17516503 TTCGATTCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 3 0.13
20 9 0.39
21 6 0.26
22 5 0.22
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TATAAAAATTATAAAAATA
Found at i:17516498 original size:21 final size:20
Alignment explanation
Indices: 17516461--17516502 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
17516451 TTTATTTTAT
17516461 AAAAATTTAAAATATATATA
1 AAAAATTTAAAATATATATA
17516481 AAAAATTAATAAAA-ATATATA
1 AAAAATT--TAAAATATATATA
17516502 A
1 A
17516503 TTCGATTCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
21 8 0.40
22 5 0.25
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAATTTAAAATATATATA
Found at i:17516922 original size:21 final size:21
Alignment explanation
Indices: 17516896--17516960 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
17516886 TTCTTTGTCT
17516896 AAATTCATATTCTCTCTCTAA
1 AAATTCATATTCTCTCTCTAA
* **
17516917 AAATTCATACTCAATCTCTAA
1 AAATTCATATTCTCTCTCTAA
* * * *
17516938 AAATTTATTTTTTCTCTTTAA
1 AAATTCATATTCTCTCTCTAA
17516959 AA
1 AA
17516961 TCAAACTAAT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.37, C:0.18, G:0.00, T:0.45
Consensus pattern (21 bp):
AAATTCATATTCTCTCTCTAA
Found at i:17517970 original size:22 final size:24
Alignment explanation
Indices: 17517936--17517982 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
17517926 TTATTTGTAG
17517936 ATTGATTTAGG-TTTAAAAAGAGA
1 ATTGATTTAGGTTTTAAAAAGAGA
* *
17517959 ATTGGTTT-GGTTTTAAAGAGAGA
1 ATTGATTTAGGTTTTAAAAAGAGA
17517982 A
1 A
17517983 AATAAATGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (24 bp):
ATTGATTTAGGTTTTAAAAAGAGA
Found at i:17518216 original size:27 final size:27
Alignment explanation
Indices: 17518181--17518233 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
17518171 TACCCAATTT
*
17518181 TAATATATT-TAATATTTATAAAATTAA
1 TAATATATTCAAAT-TTTATAAAATTAA
* *
17518208 TAATGTATTCAAATTTTATTAAATTA
1 TAATATATTCAAATTTTATAAAATTA
17518234 TTTTTATATC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 19 0.86
28 3 0.14
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (27 bp):
TAATATATTCAAATTTTATAAAATTAA
Found at i:17518286 original size:18 final size:18
Alignment explanation
Indices: 17518244--17518278 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17518234 TTTTTATATC
* *
17518244 AAATAATAATTTATTAAT
1 AAATATTAATATATTAAT
17518262 AAATATTAATATATTAA
1 AAATATTAATATATTAA
17518279 ATAATATTTT
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATATTAATATATTAAT
Found at i:17525325 original size:12 final size:12
Alignment explanation
Indices: 17525308--17525334 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17525298 TCTCTTTTAT
17525308 CATACAAATATA
1 CATACAAATATA
17525320 CATACAAATATA
1 CATACAAATATA
17525332 CAT
1 CAT
17525335 GTCGAAGCTG
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:0.56, C:0.19, G:0.00, T:0.26
Consensus pattern (12 bp):
CATACAAATATA
Found at i:17526726 original size:16 final size:16
Alignment explanation
Indices: 17526701--17526738 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
17526691 AGTTCGAATC
*
17526701 TAAAACAATTTAAATT
1 TAAAATAATTTAAATT
17526717 TAAAATAATTTAAATT
1 TAAAATAATTTAAATT
*
17526733 TGAAAT
1 TAAAAT
17526739 TGTTTTAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (16 bp):
TAAAATAATTTAAATT
Found at i:17530190 original size:20 final size:20
Alignment explanation
Indices: 17530165--17530231 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
17530155 AAAATTTGAA
17530165 ATTTTTTATTTTCAATATTT
1 ATTTTTTATTTTCAATATTT
*
17530185 ATTTTTTA-TTTAAAGTATTT
1 ATTTTTTATTTTCAA-TATTT
* * * * *
17530205 ATGTGTCATTTTCATTTTTT
1 ATTTTTTATTTTCAATATTT
17530225 ATTTTTT
1 ATTTTTT
17530232 TAATTTGATA
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
19 5 0.14
20 26 0.74
21 4 0.11
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.69
Consensus pattern (20 bp):
ATTTTTTATTTTCAATATTT
Found at i:17530859 original size:14 final size:14
Alignment explanation
Indices: 17530824--17530870 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
17530814 ATTTATGAAT
*
17530824 AATAGATAAA-TTA
1 AATAAATAAATTTA
17530837 TAATCAAATAAATTTA
1 -AAT-AAATAAATTTA
17530853 AATAAATAAATCTTA
1 AATAAATAAAT-TTA
17530868 AAT
1 AAT
17530871 GAACCAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 11 0.38
15 15 0.52
16 3 0.10
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (14 bp):
AATAAATAAATTTA
Found at i:17531532 original size:27 final size:30
Alignment explanation
Indices: 17531502--17531563 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
17531492 ACTATGAAAT
*
17531502 TATTTAAAT-A-TTTTTATAT-TTTAATTA
1 TATTTAAATAAGTTTTTATATGTTGAATTA
*
17531529 TATTTAAATAAGTTTTTATATGTTGATTTA
1 TATTTAAATAAGTTTTTATATGTTGAATTA
17531559 TATTT
1 TATTT
17531564 TTTAGATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 9 0.30
28 1 0.03
29 9 0.30
30 11 0.37
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (30 bp):
TATTTAAATAAGTTTTTATATGTTGAATTA
Found at i:17531668 original size:22 final size:22
Alignment explanation
Indices: 17531612--17531670 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
17531602 TTAATATATG
* *
17531612 TTAATAAAATTTATGAT-AATTT
1 TTAATATAA-TTATGTTCAATTT
*
17531634 TTAATTTAATTATGTTCAATTT
1 TTAATATAATTATGTTCAATTT
17531656 TT-ATATAAGTTATGT
1 TTAATATAA-TTATGT
17531671 AACTTTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 11 0.35
22 20 0.65
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (22 bp):
TTAATATAATTATGTTCAATTT
Found at i:17531818 original size:30 final size:29
Alignment explanation
Indices: 17531782--17531911 Score: 104
Period size: 30 Copynumber: 4.8 Consensus size: 29
17531772 AACTATTTTA
17531782 TTATATTTAAATGAAATTTTAATTTTTAAT
1 TTATATTTAAAT-AAATTTTAATTTTTAAT
*
17531812 TTATATTCAAAT-AA----AA-TTTTAAT
1 TTATATTTAAATAAATTTTAATTTTTAAT
*
17531835 TTGA-ATTTAAATAAATTTTTAATTCTTAAT
1 TT-ATATTTAAATAAA-TTTTAATTTTTAAT
*
17531865 TTATATTCAAATAAA----AA-TTTTAAT
1 TTATATTTAAATAAATTTTAATTTTTAAT
*
17531889 TTATATGTAAATAAAATTTTAAT
1 TTATATTTAAAT-AAATTTTAAT
17531912 ATGAATTATT
Statistics
Matches: 78, Mismatches: 7, Indels: 30
0.68 0.06 0.26
Matches are distributed among these distances:
23 16 0.21
24 21 0.27
25 5 0.06
28 2 0.03
29 5 0.06
30 29 0.37
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (29 bp):
TTATATTTAAATAAATTTTAATTTTTAAT
Found at i:17531829 original size:24 final size:24
Alignment explanation
Indices: 17531802--17531908 Score: 94
Period size: 24 Copynumber: 4.2 Consensus size: 24
17531792 ATGAAATTTT
17531802 AATTTTTAATTTATATTCAAATAA
1 AATTTTTAATTTATATTCAAATAA
*
17531826 AA-TTTTAATTTGA-ATTTAAATAAA
1 AATTTTTAATTT-ATATTCAAAT-AA
*
17531850 TTTTTAATTCTTAATTTATATTCAAATAA
1 -----AATTTTTAATTTATATTCAAATAA
*
17531879 AAATTTTAATTTATATGT-AAATAA
1 AATTTTTAATTTATAT-TCAAATAA
17531903 AATTTT
1 AATTTT
17531909 AATATGAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
23 16 0.24
24 30 0.45
25 1 0.01
29 5 0.07
30 15 0.22
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (24 bp):
AATTTTTAATTTATATTCAAATAA
Found at i:17531835 original size:23 final size:24
Alignment explanation
Indices: 17531805--17531911 Score: 105
Period size: 23 Copynumber: 4.3 Consensus size: 24
17531795 AAATTTTAAT
17531805 TTTTAATTTATATTCAAAT-AAAA
1 TTTTAATTTATATTCAAATAAAAA
*
17531828 TTTTAATTTGA-ATTTAAATAAATTTTTAA
1 TTTTAATTT-ATATTCAAATAAA-----AA
17531857 TTCTTAATTTATATTCAAATAAAAA
1 TT-TTAATTTATATTCAAATAAAAA
17531882 TTTTAATTTATATGT-AAAT-AAAA
1 TTTTAATTTATAT-TCAAATAAAAA
17531905 TTTTAAT
1 TTTTAAT
17531912 ATGAATTATT
Statistics
Matches: 72, Mismatches: 2, Indels: 20
0.77 0.02 0.21
Matches are distributed among these distances:
23 27 0.38
24 18 0.25
25 5 0.07
29 5 0.07
30 17 0.24
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTTAATTTATATTCAAATAAAAA
Found at i:17531855 original size:53 final size:53
Alignment explanation
Indices: 17531782--17531911 Score: 192
Period size: 53 Copynumber: 2.4 Consensus size: 53
17531772 AACTATTTTA
*
17531782 TTATATTTAAATGAAATTTTAATTTTTAATTTATATTCAAAT-AAAATTTTAAT
1 TTATATTTAAAT-AAATTTTAATTCTTAATTTATATTCAAATAAAAATTTTAAT
17531835 TTGA-ATTTAAATAAATTTTTAATTCTTAATTTATATTCAAATAAAAATTTTAAT
1 TT-ATATTTAAATAAA-TTTTAATTCTTAATTTATATTCAAATAAAAATTTTAAT
*
17531889 TTATATGTAAATAAAATTTTAAT
1 TTATATTTAAAT-AAATTTTAAT
17531912 ATGAATTATT
Statistics
Matches: 70, Mismatches: 2, Indels: 9
0.86 0.02 0.11
Matches are distributed among these distances:
52 3 0.04
53 36 0.51
54 28 0.40
55 3 0.04
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (53 bp):
TTATATTTAAATAAATTTTAATTCTTAATTTATATTCAAATAAAAATTTTAAT
Found at i:17535187 original size:1 final size:1
Alignment explanation
Indices: 17535181--17535212 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
17535171 GGGAATTCCC
*
17535181 TTTTTTTTTTTTTTTTTTTTTTTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
17535213 AGGGTTTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:17543066 original size:2 final size:2
Alignment explanation
Indices: 17543059--17543083 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17543049 ACATCTTCTT
17543059 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
17543084 GGAGGCTGGA
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:17545808 original size:21 final size:21
Alignment explanation
Indices: 17545784--17545828 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
17545774 AAGGTTGTCA
17545784 AATTATCAAAGATTAA-ATTTT
1 AATTATCAAA-ATTAAGATTTT
* *
17545805 AATTATTAAAATTAAGCTTTT
1 AATTATCAAAATTAAGATTTT
17545826 AAT
1 AAT
17545829 AATTTATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (21 bp):
AATTATCAAAATTAAGATTTT
Found at i:17548393 original size:16 final size:16
Alignment explanation
Indices: 17548363--17548411 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
17548353 TTTGAGTTCA
*
17548363 AATCATTTCATATTTG
1 AATCAATTCATATTTG
* *
17548379 AATTAATTCAAATTTG
1 AATCAATTCATATTTG
17548395 AATCAATTCATATTTG
1 AATCAATTCATATTTG
17548411 A
1 A
17548412 GTTGAATGAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (16 bp):
AATCAATTCATATTTG
Found at i:17551515 original size:24 final size:24
Alignment explanation
Indices: 17551488--17551534 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
17551478 CTGAGGCAAC
*
17551488 CTATG-TTGGAGTGCAAGGTTAAGG
1 CTATGATT-GAGTGCAAGCTTAAGG
*
17551512 CTATGATTGATTGCAAGCTTAAG
1 CTATGATTGAGTGCAAGCTTAAG
17551535 TGAGGGGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.32
Consensus pattern (24 bp):
CTATGATTGAGTGCAAGCTTAAGG
Found at i:17552170 original size:21 final size:21
Alignment explanation
Indices: 17552146--17552185 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
17552136 TAATGATGAT
*
17552146 AGTAAAATTAATTATTATAAC
1 AGTAAAATTAAGTATTATAAC
17552167 AGTAAAATTAAGTATTATA
1 AGTAAAATTAAGTATTATA
17552186 GCAATGAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.38
Consensus pattern (21 bp):
AGTAAAATTAAGTATTATAAC
Done.