Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, 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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 65
Found at i:397007 original size:15 final size:15
Alignment explanation
Indices: 396966--397119 Score: 90
Period size: 15 Copynumber: 10.3 Consensus size: 15
396956 AAAAATATAA
*
396966 TATATATATAATATAAG
1 TATATATAT-ATA-AAC
*
396983 TTTATATATATAAAC
1 TATATATATATAAAC
396998 TATATTTATATTATAAAC
1 TATA--TATA-TATAAAC
*
397016 TATATA-ATTATTATAAG
1 TATATATA-TA-TA-AAC
*
397033 T-TATATATATAAAT
1 TATATATATATAAAC
* * *
397047 TATGTTTATATGAA-
1 TATATATATATAAAC
*
397061 T-TATATATATGAAC
1 TATATATATATAAAC
397075 --TATATATATAAAC
1 TATATATATATAAAC
*
397088 --TATATATGTAAAC
1 TATATATATATAAAC
*
397101 TATATATGTATAAAC
1 TATATATATATAAAC
397116 TATA
1 TATA
397120 AAAATTATAT
Statistics
Matches: 113, Mismatches: 14, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
13 34 0.30
14 4 0.04
15 35 0.31
16 13 0.12
17 16 0.14
18 11 0.10
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.45
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:397021 original size:20 final size:19
Alignment explanation
Indices: 396965--397020 Score: 71
Period size: 18 Copynumber: 2.9 Consensus size: 19
396955 AAAAAATATA
396965 ATATATATATAA-TATAAGTTT
1 ATATATATA-AACTAT-A-TTT
396986 ATATATATAAACTATATTT
1 ATATATATAAACTATATTT
397005 ATAT-TATAAACTATAT
1 ATATATATAAACTATAT
397021 AATTATTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
18 12 0.35
19 7 0.21
20 3 0.09
21 12 0.35
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (19 bp):
ATATATATAAACTATATTT
Found at i:397027 original size:18 final size:18
Alignment explanation
Indices: 396985--397043 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
396975 AATATAAGTT
396985 TATATA-TATAAACTATA
1 TATATATTATAAACTATA
*
397002 TTTATATTATAAACTATA
1 TATATATTATAAACTATA
**
397020 TA-ATTATTATAAGTTATA
1 TATA-TATTATAAACTATA
397038 TATATA
1 TATATA
397044 AATTATGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 6 0.17
18 28 0.80
19 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (18 bp):
TATATATTATAAACTATA
Found at i:397279 original size:19 final size:19
Alignment explanation
Indices: 397255--397316 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
397245 TTTTATTTGG
397255 GAATTTAGAGGGAAATTGA
1 GAATTTAGAGGGAAATTGA
*
397274 GAATTTAGAGGG-AATAGAA
1 GAATTTAGAGGGAAATTG-A
* *
397293 AAATTTGGAGGGAAATTGA
1 GAATTTAGAGGGAAATTGA
397312 GAATT
1 GAATT
397317 GAGATTTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 4 0.11
19 28 0.78
20 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.26
Consensus pattern (19 bp):
GAATTTAGAGGGAAATTGA
Found at i:397510 original size:2 final size:2
Alignment explanation
Indices: 397503--397684 Score: 77
Period size: 2 Copynumber: 96.0 Consensus size: 2
397493 TTTAATTTTC
* * * * * *
397503 TA TA TA TA TA TA TG TA TA TA TG TA TG TA TG TA TG TA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
397545 CTA TA TA TG TA TA AA CTA TA TA -A AA TA TA T- TG TT TA TA AA T-
1 -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
397586 TA TA -A TT TA TA T- TA -A TA -A TA TA TA TA TA TA TA TG TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
397624 TA TA -A CTA -A TA TA -A GTA -A TC TA TA AA T- TA TA TA TA TA T-
1 TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
397662 TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
397685 GAAACACTGT
Statistics
Matches: 131, Mismatches: 31, Indels: 36
0.66 0.16 0.18
Matches are distributed among these distances:
1 14 0.11
2 113 0.86
3 4 0.03
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (2 bp):
TA
Found at i:397658 original size:11 final size:11
Alignment explanation
Indices: 397644--397680 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
397634 ATAAGTAATC
*
397644 TATAAATTATA
1 TATATATTATA
397655 TATATATTATA
1 TATATATTATA
397666 TATATA-TATA
1 TATATATTATA
397676 TATAT
1 TATAT
397681 TATAGAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TATATATTATA
Found at i:398034 original size:2 final size:2
Alignment explanation
Indices: 398027--398185 Score: 77
Period size: 2 Copynumber: 81.5 Consensus size: 2
398017 TATATTAATA
* * * *
398027 AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT GT AT AT AA ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * * * *
398070 AT AT AT GT AT AA ACT AT AT A- AA AT AT AT AGT TT AT AA AT -T AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
* * *
398112 A- AT TT AT AT -T A- AT AT AGT AT AT AT AT TT AT GT AT A- ACT A-
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT
*
398151 AT AT A- AGT A- AT CT AT AT A- AT AT AT AT AT AT AT AT A
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
398186 GTTTATAGAA
Statistics
Matches: 116, Mismatches: 25, Indels: 32
0.67 0.14 0.18
Matches are distributed among these distances:
1 10 0.09
2 99 0.85
3 7 0.06
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:398076 original size:99 final size:99
Alignment explanation
Indices: 397967--398146 Score: 301
Period size: 99 Copynumber: 1.8 Consensus size: 99
397957 ATAAACCCTG
397967 AACTATATATGTATAAACTATA-AAAAGTATATAGTTTATAAAATATAATTTATATTAATAATA-
1 AACTATATATGTATAAACTATATAAAA-TATATAGTTTATAAAATATAATTTATATTAAT-ATAG
398030 TATATATATATATATATATATGTATGTATGTATATA
64 TATATATATATATATATATATGTATGTATGTATATA
*
398066 AACTATATATGTATAAACTATATAAAATATATAGTTTATAAATTATAATTTATATTAATATAGTA
1 AACTATATATGTATAAACTATATAAAATATATAGTTTATAAAATATAATTTATATTAATATAGTA
* *
398131 TATATATTTATGTATA
66 TATATATATATATATA
398147 ACTAATATAA
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
98 3 0.04
99 69 0.91
100 4 0.05
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (99 bp):
AACTATATATGTATAAACTATATAAAATATATAGTTTATAAAATATAATTTATATTAATATAGTA
TATATATATATATATATATGTATGTATGTATATA
Found at i:398173 original size:99 final size:97
Alignment explanation
Indices: 397971--398181 Score: 264
Period size: 99 Copynumber: 2.1 Consensus size: 97
397961 ACCCTGAACT
397971 ATATATGTATAAACTATAAAAAGTATATAGTTTATAAAATATAATTTATATTAATAATATATATA
1 ATATATGTATAAACTATAAAAAGTATATAGTTTATAAAATATAATTTATATTAATAATATATATA
* * *
398036 TATATATATATATATGTATGTATGTATATAAAC
66 TATATATATATATATATAAGTATCTATAT-AAC
*
398069 TATATATGTATAAACTATATAAAA-TATATAGTTTATAAATTATAATTTATATTAAT-ATAGTAT
1 -ATATATGTATAAACTATA-AAAAGTATATAGTTTATAAAATATAATTTATATTAATAATA-TAT
* * *
398132 ATATATTTATGTATAACTAATATAAGTAATCTATATAAT
63 ATATATATATATAT-A-T-ATATAAGT-ATCTATATAAC
*
398171 ATATATATATA
1 ATATATGTATA
398182 TATAGTTTAT
Statistics
Matches: 98, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
98 3 0.03
99 64 0.65
100 5 0.05
101 11 0.11
102 8 0.08
103 7 0.07
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.44
Consensus pattern (97 bp):
ATATATGTATAAACTATAAAAAGTATATAGTTTATAAAATATAATTTATATTAATAATATATATA
TATATATATATATATATAAGTATCTATATAAC
Found at i:398253 original size:7 final size:7
Alignment explanation
Indices: 398243--398330 Score: 63
Period size: 7 Copynumber: 12.6 Consensus size: 7
398233 AGTTTATAAA
398243 AAACCCT
1 AAACCCT
398250 AAACCCT
1 AAACCCT
* *
398257 ATACCAT
1 AAACCCT
*
398264 AAACTACT
1 AAAC-CCT
*
398272 -AACTCT
1 AAACCCT
*
398278 AACCCCT
1 AAACCCT
**
398285 AAACTGT
1 AAACCCT
*
398292 TAACCCT
1 AAACCCT
398299 AAATCCC-
1 AAA-CCCT
*
398306 AAACCCC
1 AAACCCT
398313 AAACCCT
1 AAACCCT
398320 AAACCCT
1 AAACCCT
398327 AAAC
1 AAAC
398331 ACTATGCATA
Statistics
Matches: 61, Mismatches: 16, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
6 5 0.08
7 52 0.85
8 4 0.07
ACGTcount: A:0.42, C:0.39, G:0.01, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:398404 original size:11 final size:13
Alignment explanation
Indices: 398375--398458 Score: 54
Period size: 13 Copynumber: 6.8 Consensus size: 13
398365 ATAGTATATG
398375 TATATATGTAAAC
1 TATATATGTAAAC
398388 TATATATGT-AAC
1 TATATATGTAAAC
*
398400 T-TATA-GTACA-
1 TATATATGTAAAC
* * *
398410 TGTATGTATAAAC
1 TATATATGTAAAC
**
398423 T-TATA-GTATATG
1 TATATATGTA-AAC
*
398435 TATACATGTAAAC
1 TATATATGTAAAC
398448 TATATATGTAA
1 TATATATGTAA
398459 CTTATAGTAC
Statistics
Matches: 52, Mismatches: 12, Indels: 14
0.67 0.15 0.18
Matches are distributed among these distances:
10 3 0.06
11 10 0.19
12 12 0.23
13 24 0.46
14 3 0.06
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (13 bp):
TATATATGTAAAC
Found at i:398444 original size:60 final size:60
Alignment explanation
Indices: 398364--398479 Score: 223
Period size: 60 Copynumber: 1.9 Consensus size: 60
398354 ATATGTAACC
*
398364 TATAGTATATGTATATATGTAAACTATATATGTAACTTATAGTACATGTATGTATAAACT
1 TATAGTATATGTATACATGTAAACTATATATGTAACTTATAGTACATGTATGTATAAACT
398424 TATAGTATATGTATACATGTAAACTATATATGTAACTTATAGTACATGTATGTATA
1 TATAGTATATGTATACATGTAAACTATATATGTAACTTATAGTACATGTATGTATA
398480 TTAGTGTACT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (60 bp):
TATAGTATATGTATACATGTAAACTATATATGTAACTTATAGTACATGTATGTATAAACT
Found at i:398555 original size:19 final size:21
Alignment explanation
Indices: 398476--398571 Score: 72
Period size: 21 Copynumber: 4.5 Consensus size: 21
398466 TACATGTATG
*
398476 TATATTAGTGTACTATATAGTT
1 TATATTAATGTAC-ATATAGTT
* * *
398498 TATACTTTAT-AACATATAGTA
1 TATA-TTAATGTACATATAGTT
* **
398519 TATAATTTATAAAC-TATAG-T
1 TAT-ATTAATGTACATATAGTT
398539 TATATTAATGTACTATATAGTT
1 TATATTAATGTAC-ATATAGTT
398561 TATATTAATGT
1 TATATTAATGT
398572 TAATTATCTT
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
19 7 0.12
20 3 0.05
21 25 0.42
22 22 0.37
23 3 0.05
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (21 bp):
TATATTAATGTACATATAGTT
Found at i:398603 original size:15 final size:15
Alignment explanation
Indices: 398553--398603 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
398543 TTAATGTACT
*
398553 ATATAGTTTATATTA
1 ATATAATTTATATTA
* *
398568 ATGTTAA-TTATCTTA
1 AT-ATAATTTATATTA
398583 ACTATAATTTATATTA
1 A-TATAATTTATATTA
398599 ATATA
1 ATATA
398604 GTATAATGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 17 0.61
16 11 0.39
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (15 bp):
ATATAATTTATATTA
Found at i:398622 original size:36 final size:42
Alignment explanation
Indices: 398582--398665 Score: 99
Period size: 43 Copynumber: 2.1 Consensus size: 42
398572 TAATTATCTT
398582 AACTATA-AT-TT-ATATTAA-TATAGT-ATAAT-GTTTATA
1 AACTATACATATTAATATTAATTATAGTAATAATAGTTTATA
* *
398618 AACTATACTATATTAATATTAATTATATTAATTATAGTTTATA
1 AACTATAC-ATATTAATATTAATTATAGTAATAATAGTTTATA
398661 AACTA
1 AACTA
398666 CTATATAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
36 7 0.18
38 2 0.05
39 2 0.05
40 7 0.18
41 5 0.13
42 4 0.10
43 12 0.31
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (42 bp):
AACTATACATATTAATATTAATTATAGTAATAATAGTTTATA
Found at i:398640 original size:65 final size:62
Alignment explanation
Indices: 398561--398725 Score: 162
Period size: 65 Copynumber: 2.6 Consensus size: 62
398551 CTATATAGTT
*
398561 TATATTAATGTTAATTATCTTAACTATAATTTATATTAATA-TAGTATAATGTTTATAA-ACTAT
1 TATATTAATATTAATTAT-TTAACTATAATTTATATTAATACTA-TATAA--TTTATAACA-TAT
398624 AC
61 AC
* * *
398626 TATATTAATATTAATTATATTAATTATAGTTTATA--AACTACTATATAATTTATAACATATAG
1 TATATTAATATTAATTAT-TTAACTATAATTTATATTAA-TACTATATAATTTATAACATATAC
* *
398688 TTTATTAATATTAA-T-TTTATACTATATTTTATATTAAT
1 TATATTAATATTAATTATTTA-ACTATAATTTATATTAAT
398726 TTTAATTACA
Statistics
Matches: 86, Mismatches: 8, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
59 3 0.03
60 12 0.14
61 2 0.02
62 26 0.30
63 3 0.03
64 7 0.08
65 33 0.38
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (62 bp):
TATATTAATATTAATTATTTAACTATAATTTATATTAATACTATATAATTTATAACATATAC
Found at i:398708 original size:29 final size:28
Alignment explanation
Indices: 398607--398729 Score: 85
Period size: 29 Copynumber: 4.3 Consensus size: 28
398597 TAATATAGTA
* *
398607 TAATGTTTATAAACTATACTATATTAATAT
1 TAAT-TTTAT-AACTATAGTTTATTAATAT
* * *
398637 TAATTATATTAATTATAGTTTATAAACTACT
1 TAATTTTA-TAACTATAGTTTATTAA-TA-T
*
398668 ATATAATTTATAACATATAGTTTATTAATAT
1 -TA-ATTTTATAAC-TATAGTTTATTAATAT
398699 TAATTTTAT-ACTATA--TT-TT-ATAT
1 TAATTTTATAACTATAGTTTATTAATAT
398722 TAATTTTA
1 TAATTTTA
398730 ATTACAAATT
Statistics
Matches: 77, Mismatches: 10, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
23 12 0.16
24 2 0.03
25 2 0.03
27 4 0.05
28 2 0.03
29 21 0.27
30 9 0.12
31 2 0.03
32 7 0.09
33 16 0.21
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.51
Consensus pattern (28 bp):
TAATTTTATAACTATAGTTTATTAATAT
Found at i:398729 original size:11 final size:11
Alignment explanation
Indices: 398695--398733 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
398685 TAGTTTATTA
398695 ATATTAATTTT
1 ATATTAATTTT
*
398706 ATACTATATTTT
1 ATATTA-ATTTT
398718 ATATTAATTTT
1 ATATTAATTTT
398729 A-ATTA
1 ATATTA
398734 CAAATTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 4 0.16
11 11 0.44
12 10 0.40
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
ATATTAATTTT
Found at i:398895 original size:20 final size:20
Alignment explanation
Indices: 398872--398917 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
398862 TATAGTACAT
* *
398872 GTATGTATAAACTATGTATA
1 GTATATATAAACTATATATA
398892 GTATATATAAACTATATATA
1 GTATATATAAACTATATATA
398912 -TATATA
1 GTATATA
398918 GCCTATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (20 bp):
GTATATATAAACTATATATA
Found at i:398900 original size:2 final size:2
Alignment explanation
Indices: 398888--398946 Score: 55
Period size: 2 Copynumber: 28.0 Consensus size: 2
398878 ATAAACTATG
* **
398888 TA TA GTA TA TA TA AA CTA TA TA TA TA TA TA GCC TA TA TA TA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA
*
398931 TA TG TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
398947 AACCATATAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 43 0.93
3 3 0.07
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (2 bp):
TA
Found at i:399011 original size:19 final size:18
Alignment explanation
Indices: 398970--399017 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
398960 AAATTATTTA
398970 TATAGTTTATAGAAACAC
1 TATAGTTTATAGAAACAC
*
398988 TATAGTTATATTAGTAAC-C
1 TATAGTT-TA-TAGAAACAC
399007 TATAGTTTATA
1 TATAGTTTATA
399018 AACAATAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 2 0.07
18 9 0.33
19 10 0.37
20 6 0.22
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (18 bp):
TATAGTTTATAGAAACAC
Found at i:399036 original size:34 final size:34
Alignment explanation
Indices: 398968--399051 Score: 100
Period size: 34 Copynumber: 2.4 Consensus size: 34
398958 GTAAATTATT
398968 TATATAGTTTATAGAAACACTATAGTTATATTAGTAAC
1 TATATAGTTTAT--AAACAC-ATAGTTATATTAGT-AC
*
399006 -CTATAGTTTATAAACA-ATAGTTTATATTAGTAC
1 TATATAGTTTATAAACACATAG-TTATATTAGTAC
399039 TATATAGTTTATA
1 TATATAGTTTATA
399052 CTTTATAACT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
33 6 0.14
34 21 0.50
35 5 0.12
37 10 0.24
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (34 bp):
TATATAGTTTATAAACACATAGTTATATTAGTAC
Found at i:399064 original size:20 final size:21
Alignment explanation
Indices: 399007--399091 Score: 65
Period size: 20 Copynumber: 4.2 Consensus size: 21
398997 ATTAGTAACC
* *
399007 TATAGTTTATAAACAATAGTT
1 TATAATTTATAAACTATAGTT
*
399028 TAT-A-TTAGTACTA-TATAGTT
1 TATAATTTA-TA-AACTATAGTT
*
399048 TATACTTTAT-AACTATAG--
1 TATAATTTATAAACTATAGTT
399066 TATAATTTATAAAACTATAGTT
1 TATAATTTAT-AAACTATAGTT
399088 TATA
1 TATA
399092 TTAATGTATA
Statistics
Matches: 49, Mismatches: 6, Indels: 17
0.68 0.08 0.24
Matches are distributed among these distances:
18 9 0.18
19 4 0.08
20 24 0.49
21 5 0.10
22 7 0.14
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.46
Consensus pattern (21 bp):
TATAATTTATAAACTATAGTT
Found at i:399105 original size:19 final size:19
Alignment explanation
Indices: 399081--399117 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
399071 TTTATAAAAC
399081 TATAGTTTATATTAATGTA
1 TATAGTTTATATTAATGTA
399100 TATAGTTTATATTAATGT
1 TATAGTTTATATTAATGT
399118 TAATTATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (19 bp):
TATAGTTTATATTAATGTA
Found at i:399214 original size:14 final size:14
Alignment explanation
Indices: 399154--399215 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
399144 GTATATAGTT
399154 TATAAACTATATTA
1 TATAAACTATATTA
*
399168 TATTAA-TATTAATTA
1 TATAAACTA-T-ATTA
*
399183 TATTAACTATAGTT-
1 TATAAACTATA-TTA
*
399197 TATAAACTATACTA
1 TATAAACTATATTA
399211 TATAA
1 TATAA
399216 TTTATAACAT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
13 3 0.08
14 22 0.55
15 13 0.32
16 2 0.05
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (14 bp):
TATAAACTATATTA
Found at i:399243 original size:66 final size:62
Alignment explanation
Indices: 399099--399262 Score: 176
Period size: 59 Copynumber: 2.6 Consensus size: 62
399089 ATATTAATGT
* * * * * *
399099 ATATAGTTTATATTAATGTTAATTATCTTAACTATAATT-T-ATATAGTATATAGTTTATAA
1 ATATAATTTATATTAATATTAATTATATTAACTATATTTATAATATACTATATAATTTATAA
399159 ACTAT-A-TTATATTAATATTAATTATATTAACTATAGTTTATAAACTATACTATATAATTTATA
1 A-TATAATTTATATTAATATTAATTATATTAACTATA-TTTAT-AA-TATACTATATAATTTATA
399222 A
62 A
*
399223 CATATAATTTATATTAATATTAATTTTA-TAGACTATATTT
1 -ATATAATTTATATTAATATTAATTATATTA-ACTATATTT
399263 TATATTAATA
Statistics
Matches: 87, Mismatches: 7, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
59 27 0.31
60 3 0.03
61 4 0.05
63 1 0.01
64 20 0.23
65 7 0.08
66 25 0.29
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (62 bp):
ATATAATTTATATTAATATTAATTATATTAACTATATTTATAATATACTATATAATTTATAA
Found at i:399265 original size:66 final size:64
Alignment explanation
Indices: 399106--399307 Score: 188
Period size: 66 Copynumber: 3.2 Consensus size: 64
399096 TGTATATAGT
* * * * *
399106 TTATATTAATGTTAATTATCTTAACTATA-ATT-T--A-TATAGTATATAGTTTATAAACTATA
1 TTATATTAATATTAATTATATTAACTATAGTTTATAAACTATACTATATAATTTATAAACTATA
399165 TTATATTAATATTAATTATATTAACTATAGTTTATAAACTATACTATATAATTTAT-AACATATA
1 TTATATTAATATTAATTATATTAACTATAGTTTATAAACTATACTATATAATTTATAAAC-TAT-
399229 A
64 A
* * * * *
399230 TTTATATTAATATTAATTTTA-TAGACTATATTTTATATTAA-TAGTAAT-TACAAATTATAAAC
1 -TTATATTAATATTAATTATATTA-ACTATAGTTTATA--AACTA-TACTATATAATTTATAAAC
399292 TATA
61 TATA
399296 TTATATTAATAT
1 TTATATTAATAT
399308 AAGTAAAAAA
Statistics
Matches: 120, Mismatches: 10, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
59 27 0.22
60 2 0.02
61 1 0.01
63 4 0.03
64 18 0.15
65 15 0.12
66 32 0.27
67 13 0.11
68 8 0.07
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (64 bp):
TTATATTAATATTAATTATATTAACTATAGTTTATAAACTATACTATATAATTTATAAACTATA
Found at i:400044 original size:18 final size:17
Alignment explanation
Indices: 400021--400056 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
400011 ACCAAATTTA
*
400021 TAATATACAAATTATAAT
1 TAATATAAAAATTA-AAT
400039 TAATATAAAAATTAAAT
1 TAATATAAAAATTAAAT
400056 T
1 T
400057 TCAAAAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
TAATATAAAAATTAAAT
Found at i:400220 original size:16 final size:16
Alignment explanation
Indices: 400201--400239 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
400191 TGAGTCAATT
*
400201 ACAGGTCAGGTTCATA
1 ACAGGTCAGGTTCAAA
*
400217 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTCAAA
400233 ACAGGTC
1 ACAGGTC
400240 GAGTAATACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (16 bp):
ACAGGTCAGGTTCAAA
Found at i:403151 original size:116 final size:118
Alignment explanation
Indices: 402877--403121 Score: 377
Period size: 116 Copynumber: 2.1 Consensus size: 118
402867 CAACATAACC
* ** *
402877 GGTTAATTACTGGAAACATTATCAAGCACAATAACATATTAGGTAGTGCTTATATAATGTAATAG
1 GGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAACGCTTATATAACGTAATAG
** * * * *
402942 GTAGAGCCTTTTTAAAGCTGATGGGGCTTTGGAAATTTGACGATAACATAATC
66 GTAGAGCCTTTTTAAAGCTGATGGGGCTTTGGAAATCCGACCATAAAAAAATA
402995 GGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGG-AACGCTTATATAACGTAATAG
1 GGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAACGCTTATATAACGTAATAG
*
403059 GTAGCGCCTTTTT-AAGCTGATGGGGCTTTGGAAATCCGACCATAAAAAAATA
66 GTAGAGCCTTTTTAAAGCTGATGGGGCTTTGGAAATCCGACCATAAAAAAATA
403111 GGTTAATTACT
1 GGTTAATTACT
403122 TAATTTGTTA
Statistics
Matches: 116, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
116 44 0.38
117 30 0.26
118 42 0.36
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (118 bp):
GGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAACGCTTATATAACGTAATAG
GTAGAGCCTTTTTAAAGCTGATGGGGCTTTGGAAATCCGACCATAAAAAAATA
Found at i:407721 original size:64 final size:63
Alignment explanation
Indices: 407653--407832 Score: 209
Period size: 65 Copynumber: 2.8 Consensus size: 63
407643 TGGAACACTT
* ** * * *
407653 AGTGCATCGGTGCACCAAGTGTGCATCGATGCATAAAATGCATTCGATGTTTGA-AAATAGTCTG
1 AGTGCATCGATGCATGAA-TGTGCATCGATGCATAAAATGCATTCGATGTTTCATAAA-AATCCG
* *
407717 AGTGCATCGATGCATGACTTGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAATCCG
1 AGTGCATCGATGCATGA-ATGTGCATCGATGCATAAAATGCATTCGATG-TTTCATAAAAATCCG
* * *
407782 AGTGCATCGATGCATGGATAGTGCATCGGTGCATGAAATGCATTCGATGTT
1 AGTGCATCGATGCATGAAT-GTGCATCGATGCATAAAATGCATTCGATGTT
407833 CAATTAATTC
Statistics
Matches: 100, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
64 46 0.46
65 51 0.51
66 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (63 bp):
AGTGCATCGATGCATGAATGTGCATCGATGCATAAAATGCATTCGATGTTTCATAAAAATCCG
Found at i:407868 original size:20 final size:20
Alignment explanation
Indices: 407843--407900 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
407833 CAATTAATTC
407843 ATTGATGCATCGATGCATGG
1 ATTGATGCATCGATGCATGG
407863 ATTGATGCATCGATGCATGG
1 ATTGATGCATCGATGCATGG
*
407883 ATTGATGCATCGGTGCAT
1 ATTGATGCATCGATGCAT
407901 ACCTTTGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (20 bp):
ATTGATGCATCGATGCATGG
Found at i:407872 original size:65 final size:64
Alignment explanation
Indices: 407672--407881 Score: 232
Period size: 65 Copynumber: 3.2 Consensus size: 64
407662 GTGCACCAAG
* * * *
407672 TGTGCATCGATGCATAAAATGCATTCGATGTTTGA-AAATAGTCTGAGTGCATCGATGCAT-GAC
1 TGTGCATCGATGCATGAAATGCATTCGATGTTTCATAAA-AATCCGAGTGCATCGATGCATGGA-
407735 T
64 T
*
407736 TGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAATCCGAGTGCATCGATGCATGGAT
1 TGTGCATCGATGCATGAAATGCATTCGATG-TTTCATAAAAATCCGAGTGCATCGATGCATGGAT
* * ** *
407801 AGTGCATCGGTGCATGAAATGCATTCGATG-TTCA-ATTAATTC-ATTGATGCATCGATGCATGG
1 TGTGCATCGATGCATGAAATGCATTCGATGTTTCATAAAAATCCGA--G-TGCATCGATGCATGG
407863 AT
63 AT
407865 TGATGCATCGATGCATG
1 TG-TGCATCGATGCATG
407882 GATTGATGCA
Statistics
Matches: 127, Mismatches: 12, Indels: 13
0.84 0.08 0.09
Matches are distributed among these distances:
61 1 0.01
62 5 0.04
63 5 0.04
64 47 0.37
65 64 0.50
66 5 0.04
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (64 bp):
TGTGCATCGATGCATGAAATGCATTCGATGTTTCATAAAAATCCGAGTGCATCGATGCATGGAT
Found at i:410980 original size:13 final size:12
Alignment explanation
Indices: 410940--410981 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
410930 TTCACAAACA
410940 AGCTCGTTTATG
1 AGCTCGTTTATG
* *
410952 AGCTCATTTATA
1 AGCTCGTTTATG
410964 AGCTCGTTTTATG
1 AGCTCG-TTTATG
410977 AGCTC
1 AGCTC
410982 ATTCATTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (12 bp):
AGCTCGTTTATG
Found at i:411358 original size:23 final size:23
Alignment explanation
Indices: 411332--411398 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
411322 ACATATGCAT
411332 AACATATTCAT-AACATATAAACG
1 AACATATTCATGAACAT-TAAACG
* *
411355 AACACATTCATGAACATTAAATG
1 AACATATTCATGAACATTAAACG
* * *
411378 AACATGTTCACGAACAATAAA
1 AACATATTCATGAACATTAAA
411399 ATGTAATACC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
23 32 0.86
24 5 0.14
ACGTcount: A:0.51, C:0.18, G:0.07, T:0.24
Consensus pattern (23 bp):
AACATATTCATGAACATTAAACG
Found at i:415877 original size:25 final size:25
Alignment explanation
Indices: 415849--415917 Score: 120
Period size: 25 Copynumber: 2.8 Consensus size: 25
415839 TTCAACAAAT
*
415849 CTCTTCATCAAAAGGTCTTTCTTAA
1 CTCTTCATCGAAAGGTCTTTCTTAA
*
415874 CTCTTCATCGAAATGTCTTTCTTAA
1 CTCTTCATCGAAAGGTCTTTCTTAA
415899 CTCTTCATCGAAAGGTCTT
1 CTCTTCATCGAAAGGTCTT
415918 AACATTTCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.41
Consensus pattern (25 bp):
CTCTTCATCGAAAGGTCTTTCTTAA
Found at i:418781 original size:21 final size:21
Alignment explanation
Indices: 418733--418774 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
418723 TCCAACAAAT
418733 ATCTTCATCAAAAGGTCTTAA
1 ATCTTCATCAAAAGGTCTTAA
418754 ATCTTCATCAAAAGGTCTTAA
1 ATCTTCATCAAAAGGTCTTAA
418775 CCTTTCAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (21 bp):
ATCTTCATCAAAAGGTCTTAA
Found at i:422356 original size:22 final size:21
Alignment explanation
Indices: 422326--422388 Score: 72
Period size: 22 Copynumber: 3.0 Consensus size: 21
422316 TTTCATGAAA
* *
422326 AAAATGTTAAGCCCTTTCATC
1 AAAAGGTTAAGTCCTTTCATC
* *
422347 AAAAGAGTTAAGTCTTTTAATC
1 AAAAG-GTTAAGTCCTTTCATC
*
422369 AAAAGGTTAAGTTCTTTCAT
1 AAAAGGTTAAGTCCTTTCAT
422389 TGAAAGGTCT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 16 0.47
22 18 0.53
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (21 bp):
AAAAGGTTAAGTCCTTTCATC
Found at i:422919 original size:16 final size:16
Alignment explanation
Indices: 422900--422938 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
422890 ATTATTATAC
422900 TTTTATTTTGTAT-TAT
1 TTTTATTTT-TATCTAT
*
422916 TTTTATTTTTTTCTAT
1 TTTTATTTTTATCTAT
422932 TTTTATT
1 TTTTATT
422939 ACGATTACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 2 0.10
16 19 0.90
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTATTTTTATCTAT
Found at i:425241 original size:21 final size:22
Alignment explanation
Indices: 425194--425266 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
425184 ATGTTTAATA
*
425194 TTTTCATGAAAAA-ATGTTAAGCC
1 TTTTCAT-AAAAAGA-GTTAAGTC
*
425217 CTTTCATAAAAAGAGTTAAGTC
1 TTTTCATAAAAAGAGTTAAGTC
* *
425239 TTTTAATCAAAAG-GTTAAGT-
1 TTTTCATAAAAAGAGTTAAGTC
425259 TATTTCAT
1 T-TTTCAT
425267 TGAAAGATCT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.02
21 12 0.29
22 22 0.52
23 7 0.17
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.38
Consensus pattern (22 bp):
TTTTCATAAAAAGAGTTAAGTC
Found at i:430920 original size:20 final size:20
Alignment explanation
Indices: 430876--430917 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
430866 TACTATGATG
*
430876 GAATTTGATGTTAGAATGTT
1 GAATTTGATGTTAGAATGGT
*
430896 GAATTTGGTGTTAGAA-GGT
1 GAATTTGATGTTAGAATGGT
430915 GAA
1 GAA
430918 ATTGGATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (20 bp):
GAATTTGATGTTAGAATGGT
Found at i:430922 original size:19 final size:20
Alignment explanation
Indices: 430884--430922 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
430874 TGGAATTTGA
* *
430884 TGTTAGAATGTTGAATTTGG
1 TGTTAGAATGGTGAAATTGG
430904 TGTTAGAA-GGTGAAATTGG
1 TGTTAGAATGGTGAAATTGG
430923 ATCATTATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.38
Consensus pattern (20 bp):
TGTTAGAATGGTGAAATTGG
Found at i:432499 original size:49 final size:47
Alignment explanation
Indices: 432444--432541 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 47
432434 TGAAAATAAA
* * * * *
432444 ATATGAAAGTTCTGAAATGTGTCT-GAATGAAAAATAGATCATGAAAGTG
1 ATATGAAAGCTCTAAAATGTATCTCAAATG-AAAATAAAT-ATGAAA-TG
432493 ATATGAAAGCTCTAAAATGTATCTCAAATGAAAATAAATATGAAATG
1 ATATGAAAGCTCTAAAATGTATCTCAAATGAAAATAAATATGAAATG
432540 AT
1 AT
432542 TATTATGTCG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
47 4 0.09
48 6 0.14
49 29 0.67
50 4 0.09
ACGTcount: A:0.47, C:0.07, G:0.17, T:0.29
Consensus pattern (47 bp):
ATATGAAAGCTCTAAAATGTATCTCAAATGAAAATAAATATGAAATG
Found at i:436334 original size:2 final size:2
Alignment explanation
Indices: 436327--436353 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
436317 TATTGCTAAG
436327 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
436354 TTACTAATCG
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:437032 original size:20 final size:21
Alignment explanation
Indices: 437001--437041 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
436991 AGAGGGAGAG
437001 AGGGAAGAAGAATG-GGAGGGA
1 AGGGAAGAAGAA-GAGGAGGGA
437022 AGGGAAG-AGAAGAGGAGGGA
1 AGGGAAGAAGAAGAGGAGGGA
437042 GAGAAAGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.05
20 11 0.58
21 7 0.37
ACGTcount: A:0.44, C:0.00, G:0.54, T:0.02
Consensus pattern (21 bp):
AGGGAAGAAGAAGAGGAGGGA
Found at i:437051 original size:12 final size:12
Alignment explanation
Indices: 437022--437088 Score: 62
Period size: 12 Copynumber: 5.3 Consensus size: 12
437012 ATGGGAGGGA
437022 AGGGAAGAGAAGAGG
1 AGGG-AGAGAA-A-G
437037 AGGGAGAGAAAG
1 AGGGAGAGAAAG
*
437049 AGGCAGAGAAAG
1 AGGGAGAGAAAG
* *
437061 AGTGAGAGAGAG
1 AGGGAGAGAAAG
* *
437073 ATGGAGAGAGAG
1 AGGGAGAGAAAG
437085 AGGG
1 AGGG
437089 GTAGGGGAGA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
12 34 0.76
13 1 0.02
14 6 0.13
15 4 0.09
ACGTcount: A:0.45, C:0.01, G:0.51, T:0.03
Consensus pattern (12 bp):
AGGGAGAGAAAG
Found at i:437847 original size:28 final size:28
Alignment explanation
Indices: 437796--437849 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
437786 GTGTTGTAGC
*
437796 ATTTATGCCACTGAACTTTCATTTTTAT
1 ATTTATGCCACTGAACTTACATTTTTAT
* * *
437824 ATTTATGGCATTGAACTTAGATTTTT
1 ATTTATGCCACTGAACTTACATTTTT
437850 GTTTCAATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.26, C:0.13, G:0.11, T:0.50
Consensus pattern (28 bp):
ATTTATGCCACTGAACTTACATTTTTAT
Found at i:438202 original size:17 final size:17
Alignment explanation
Indices: 438157--438208 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
438147 ATTTTAAAAT
438157 TTTAATTGTATTTAGT-A
1 TTTAATTGT-TTTAGTAA
438174 TTT-ATT-TTTTAGTAA
1 TTTAATTGTTTTAGTAA
438189 TTTAATTGTTTTAGTAA
1 TTTAATTGTTTTAGTAA
438206 TTT
1 TTT
438209 TATATTTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.19
15 5 0.16
16 6 0.19
17 15 0.47
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (17 bp):
TTTAATTGTTTTAGTAA
Found at i:439864 original size:50 final size:50
Alignment explanation
Indices: 439789--439887 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 50
439779 CTGGATCTGT
* * *
439789 CTGCATAGAATGCTCGCCCACTTCCT-TAGGTGGATCATGTTAAATCTTCG
1 CTGCATAGAACGCTCGCCCACTTCCTGT-GGTGGATCATGGTAAACCTTCG
*
439839 CTGCATAG-ACGCTGGCCCTACTTCCTGTGGTGGATCATGGTAAACCTTC
1 CTGCATAGAACGCTCGCCC-ACTTCCTGTGGTGGATCATGGTAAACCTTC
439888 ATCTCAAATG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
49 8 0.19
50 34 0.79
51 1 0.02
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.30
Consensus pattern (50 bp):
CTGCATAGAACGCTCGCCCACTTCCTGTGGTGGATCATGGTAAACCTTCG
Found at i:454236 original size:2 final size:2
Alignment explanation
Indices: 454229--454267 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
454219 GGATAATAAA
454229 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
454268 AAGATATAAT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:454412 original size:15 final size:17
Alignment explanation
Indices: 454377--454409 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
454367 AATGACATGA
454377 AATATATAATAAAATAT
1 AATATATAATAAAATAT
454394 AATATA-AATAATAATA
1 AATATATAATAA-AATA
454410 ATAAAGGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATATATAATAAAATAT
Found at i:454924 original size:20 final size:20
Alignment explanation
Indices: 454896--454934 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
454886 CCGCCTCACC
**
454896 GCCGCCGTTGGTCGGCGGCG
1 GCCGCCGTTCATCGGCGGCG
*
454916 GCCGTCGTTCATCGGCGGC
1 GCCGCCGTTCATCGGCGGC
454935 CAAACACGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.03, C:0.36, G:0.44, T:0.18
Consensus pattern (20 bp):
GCCGCCGTTCATCGGCGGCG
Found at i:456385 original size:24 final size:24
Alignment explanation
Indices: 456358--456415 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
456348 GTTGAAAAAT
* *
456358 AAATTTAAATTCAAACTCAAATTG
1 AAATTGAAATTCAAACTCAAATTA
* *
456382 AAATTGAAATTTAAACTCCAATTA
1 AAATTGAAATTCAAACTCAAATTA
456406 AAATTGAAAT
1 AAATTGAAAT
456416 GAATATGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (24 bp):
AAATTGAAATTCAAACTCAAATTA
Found at i:458685 original size:31 final size:31
Alignment explanation
Indices: 458643--458715 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
458633 AAAATTAAAT
*
458643 GTTTAGGTACTAAAATGGACCAAAACTTATA
1 GTTTAGGTACTAAAACGGACCAAAACTTATA
* **
458674 GTTTAGATACTAAAACGGTTCAAAACTTATA
1 GTTTAGGTACTAAAACGGACCAAAACTTATA
*
458705 ATTTAGGTACT
1 GTTTAGGTACT
458716 TAATGCATAG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (31 bp):
GTTTAGGTACTAAAACGGACCAAAACTTATA
Found at i:459642 original size:23 final size:20
Alignment explanation
Indices: 459576--459631 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
459566 ACAATAGGCA
*
459576 AAGGAAGTACCGATACCATC
1 AAGGTAGTACCGATACCATC
459596 AAGGTAGTACCGATACCATC
1 AAGGTAGTACCGATACCATC
459616 AAGGTAGTACCGATAC
1 AAGGTAGTACCGATAC
459632 TACCATGAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (20 bp):
AAGGTAGTACCGATACCATC
Found at i:459913 original size:20 final size:20
Alignment explanation
Indices: 459861--459905 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
459851 CAAAAAATAA
*
459861 ATCCCCAACGGCTCCAAAAC
1 ATCCCCAACGGTTCCAAAAC
459881 ATCCCCAACGGTTCCAAAAC
1 ATCCCCAACGGTTCCAAAAC
459901 ATCCC
1 ATCCC
459906 AGACGGTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.44, G:0.09, T:0.13
Consensus pattern (20 bp):
ATCCCCAACGGTTCCAAAAC
Found at i:460857 original size:70 final size:70
Alignment explanation
Indices: 460775--460916 Score: 221
Period size: 70 Copynumber: 2.0 Consensus size: 70
460765 TCCATAGCAA
* *
460775 TATAAAATAAAAACTAATAAATTTGAGTTTACAGTACAATAGAGATCCTAAATCATCCAAATAAT
1 TATAAAATAAAAACTAATAAATTTGAGTTTACAATACAAGAGAGATCCTAAATCATCCAAATAAT
460840 ACACT
66 ACACT
* * * * *
460845 TATAAAATAAAAAGTAATAAATTTGAGTTTACAATACAAGGGAGCTCCTAAATCATGCAAATTAT
1 TATAAAATAAAAACTAATAAATTTGAGTTTACAATACAAGAGAGATCCTAAATCATCCAAATAAT
460910 ACACT
66 ACACT
460915 TA
1 TA
460917 GTTTAAATTA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (70 bp):
TATAAAATAAAAACTAATAAATTTGAGTTTACAATACAAGAGAGATCCTAAATCATCCAAATAAT
ACACT
Found at i:461105 original size:25 final size:25
Alignment explanation
Indices: 461051--461106 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
461041 GGTCTCATAA
* * *
461051 GAACCTGCACACGGAAACACATTCT
1 GAACGTGCACACGGAAACAAATTCC
*
461076 GAACGTGCACACTGAAACAAATTCC
1 GAACGTGCACACGGAAACAAATTCC
461101 GAACGT
1 GAACGT
461107 TGAGCTTACG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.29, G:0.18, T:0.16
Consensus pattern (25 bp):
GAACGTGCACACGGAAACAAATTCC
Found at i:461670 original size:20 final size:20
Alignment explanation
Indices: 461647--461690 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
461637 CAGTATTGGT
* *
461647 ACTAACCTCTGGGTATCGAC
1 ACTAACCCCTGGATATCGAC
*
461667 ACTAACCCCTGGATATCGAT
1 ACTAACCCCTGGATATCGAC
461687 ACTA
1 ACTA
461691 CTAACTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.25
Consensus pattern (20 bp):
ACTAACCCCTGGATATCGAC
Found at i:468176 original size:54 final size:54
Alignment explanation
Indices: 468113--468246 Score: 173
Period size: 54 Copynumber: 2.5 Consensus size: 54
468103 ACGATAAAAC
* * *
468113 CAGAAGAGGTTTTC-GCATAAGGCGTGGGCACGGCTT-ATTCATTCTGAACTATTG
1 CAGAAGAGGTCTTCAG-ATAAGGCGTGGGCACGACTTAATT-ATTCTGAACTATCG
* *
468167 CAGAAGAGGTCTTCAGTTAAGGTGTGGGCACGACTTAATTATTCTGAACTATCG
1 CAGAAGAGGTCTTCAGATAAGGCGTGGGCACGACTTAATTATTCTGAACTATCG
* *
468221 CAGAAGAGGTCTTTAGTTAAGGCGTG
1 CAGAAGAGGTCTTCAGATAAGGCGTG
468247 TGCATGTCTT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
54 67 0.94
55 4 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (54 bp):
CAGAAGAGGTCTTCAGATAAGGCGTGGGCACGACTTAATTATTCTGAACTATCG
Found at i:476761 original size:7 final size:7
Alignment explanation
Indices: 476741--476799 Score: 50
Period size: 7 Copynumber: 8.0 Consensus size: 7
476731 TACTCTCTAA
476741 TTAAA-T
1 TTAAATT
*
476747 TTATATT
1 TTAAATT
476754 TTAAATT
1 TTAAATT
476761 TTAATTAATT
1 TT-A--AATT
476771 TTAAATT
1 TTAAATT
476778 TATAAATT
1 T-TAAATT
476786 ATTAAA-T
1 -TTAAATT
476793 TTAAATT
1 TTAAATT
476800 ACATAATCTC
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
6 9 0.20
7 16 0.36
8 11 0.25
9 2 0.05
10 6 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTAAATT
Found at i:476773 original size:24 final size:26
Alignment explanation
Indices: 476738--476799 Score: 74
Period size: 24 Copynumber: 2.4 Consensus size: 26
476728 ACATACTCTC
*
476738 TAATTAAATTTATATTT-TAAATT-T
1 TAATTAAATTTAAATTTATAAATTAT
*
476762 TAATTAATTTTAAATTTATAAATTAT
1 TAATTAAATTTAAATTTATAAATTAT
476788 TAAATTTAAATT
1 T-AA-TTAAATT
476800 ACATAATCTC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 15 0.48
25 6 0.19
26 2 0.06
27 2 0.06
28 6 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
TAATTAAATTTAAATTTATAAATTAT
Found at i:476829 original size:72 final size:73
Alignment explanation
Indices: 476712--476849 Score: 190
Period size: 72 Copynumber: 1.9 Consensus size: 73
476702 TTTTATTTTT
* * *
476712 TTATTAAATTTAAATTACATACTCTCTAATTAAATTTATATTTTAAAT-TTTAATTAATTTTAAA
1 TTATTAAATTTAAATTACATAATCTCTAATTAAATTTATAATTTAAATATTTAATTAAATTTAAA
476776 TTTATAAA
66 TTTATAAA
* * *
476784 TTATTAAATTTAAATTACATAATCTCTAATT-GATTTTTAAATTTAAATAGTTTATTTAAATTTA
1 TTATTAAATTTAAATTACATAATCTCTAATTAAATTTAT-AATTTAAATA-TTTAATTAAATTTA
476848 AA
64 AA
476850 ATACTTTATT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
71 5 0.09
72 38 0.67
74 14 0.25
ACGTcount: A:0.43, C:0.05, G:0.01, T:0.51
Consensus pattern (73 bp):
TTATTAAATTTAAATTACATAATCTCTAATTAAATTTATAATTTAAATATTTAATTAAATTTAAA
TTTATAAA
Found at i:476843 original size:19 final size:20
Alignment explanation
Indices: 476819--476860 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
476809 CTAATTGATT
*
476819 TTTAAATTT-AAATAGTTTA
1 TTTAAATTTAAAATACTTTA
476838 TTTAAATTTAAAATACTTTA
1 TTTAAATTTAAAATACTTTA
476858 TTT
1 TTT
476861 TTCTGTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
TTTAAATTTAAAATACTTTA
Found at i:479882 original size:20 final size:19
Alignment explanation
Indices: 479853--479891 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
479843 AAAATATCAA
479853 ATTTTAAAATCAATTTTTTT
1 ATTTTAAAAT-AATTTTTTT
* *
479873 ATTTTGAAATTATTTTTTT
1 ATTTTAAAATAATTTTTTT
479892 TGAGAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (19 bp):
ATTTTAAAATAATTTTTTT
Found at i:486302 original size:55 final size:55
Alignment explanation
Indices: 486181--486303 Score: 165
Period size: 55 Copynumber: 2.2 Consensus size: 55
486171 TGCATCAGCT
** *
486181 GTGTATCGGTACACAAAATACATTCAAAGTAGGGAGTGTATTGGTACATACAAGA
1 GTGTATCGGTACACAAAATACATTCAAAGTAGGGAGTGTATCAGTACAGACAAGA
* * * * *
486236 GTGTACCGGTACACAAAATACATTCGATGTAGGGGGTGTATCAGTACAGACCAGA
1 GTGTATCGGTACACAAAATACATTCAAAGTAGGGAGTGTATCAGTACAGACAAGA
*
486291 GTGTATTGGTACA
1 GTGTATCGGTACA
486304 TCCCTTTGTA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (55 bp):
GTGTATCGGTACACAAAATACATTCAAAGTAGGGAGTGTATCAGTACAGACAAGA
Found at i:486665 original size:47 final size:48
Alignment explanation
Indices: 486613--486723 Score: 215
Period size: 48 Copynumber: 2.3 Consensus size: 48
486603 AAATATTTTT
486613 TTTATAAATTTAAAATAAAA-ATTAATTTTTTTATTTTCTATTTAAAC
1 TTTATAAATTTAAAATAAAACATTAATTTTTTTATTTTCTATTTAAAC
486660 TTTATAAATTTAAAATAAAACATTAATTTTTTTATTTTCTATTTAAAC
1 TTTATAAATTTAAAATAAAACATTAATTTTTTTATTTTCTATTTAAAC
486708 TTTATAAATTTAAAAT
1 TTTATAAATTTAAAAT
486724 TAATTAAAAT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 20 0.32
48 43 0.68
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (48 bp):
TTTATAAATTTAAAATAAAACATTAATTTTTTTATTTTCTATTTAAAC
Found at i:486739 original size:17 final size:18
Alignment explanation
Indices: 486713--486746 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
486703 TAAACTTTAT
*
486713 AAATTTAAAAT-TAATTA
1 AAATTGAAAATATAATTA
486730 AAATTGAAAATATAATT
1 AAATTGAAAATATAATT
486747 TAATTAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
AAATTGAAAATATAATTA
Found at i:488197 original size:22 final size:23
Alignment explanation
Indices: 488170--488214 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
488160 ATTTTCAGGA
* *
488170 AAAAGAAACGAAAA-AAACAAAG
1 AAAAGAAAAGAAAATAAAAAAAG
488192 AAAAGAAAAGAAAATAAAAAAAG
1 AAAAGAAAAGAAAATAAAAAAAG
488215 GCTAAAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.80, C:0.04, G:0.13, T:0.02
Consensus pattern (23 bp):
AAAAGAAAAGAAAATAAAAAAAG
Found at i:500019 original size:5 final size:5
Alignment explanation
Indices: 500009--500034 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
499999 GTCAGAACGC
500009 AGAAG AGAAG AGAAG AGAAG AGAAG A
1 AGAAG AGAAG AGAAG AGAAG AGAAG A
500035 AGAGTGAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
AGAAG
Found at i:500701 original size:18 final size:17
Alignment explanation
Indices: 500659--500702 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
500649 ACAATATTCT
*
500659 CAGTAATCTTATTCCCA
1 CAGTAATCCTATTCCCA
*
500676 CCGATAATCCTATTCCCA
1 CAG-TAATCCTATTCCCA
500694 CTAGTAATC
1 C-AGTAATC
500703 TTACATTTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 2 0.09
18 19 0.86
19 1 0.05
ACGTcount: A:0.30, C:0.32, G:0.07, T:0.32
Consensus pattern (17 bp):
CAGTAATCCTATTCCCA
Found at i:501450 original size:12 final size:12
Alignment explanation
Indices: 501433--501477 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
501423 AATCACGAAC
501433 AAGCTCGTTTAT
1 AAGCTCGTTTAT
*
501445 AAGCTCATTTAT
1 AAGCTCGTTTAT
*
501457 AAGCTTGTTTAT
1 AAGCTCGTTTAT
*
501469 GAGCTCGTT
1 AAGCTCGTT
501478 CATTTATGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (12 bp):
AAGCTCGTTTAT
Found at i:501714 original size:22 final size:22
Alignment explanation
Indices: 501683--501730 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
501673 TTTGAATATA
*
501683 TAAACGAACGATAAACAAACAC
1 TAAACCAACGATAAACAAACAC
**
501705 TAAACCAACGATAAATGAACAC
1 TAAACCAACGATAAACAAACAC
501727 TAAA
1 TAAA
501731 AGAACATGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.58, C:0.21, G:0.08, T:0.12
Consensus pattern (22 bp):
TAAACCAACGATAAACAAACAC
Found at i:505803 original size:44 final size:42
Alignment explanation
Indices: 505734--506061 Score: 194
Period size: 43 Copynumber: 7.6 Consensus size: 42
505724 TAAAACATAT
* *
505734 TTACCCTGTGCACAAAGCAAAGGAGCATGTAAAAATGGTAAGGTC
1 TTACCCT-TGCACAAAGCAAAGGAGCATGGAAAAAT-ATAAGG-C
* * * *
505779 TTACCCTTGCACATAGCAACGGAGCCTGGAAAACTATAAGGC
1 TTACCCTTGCACAAAGCAAAGGAGCATGGAAAAATATAAGGC
* * * * *
505821 TTACCCCTTGCACACAA-CAAAGGAACCTGGGGAAACTGTAAGGC
1 TTA-CCCTTGCACA-AAGCAAAGGAGCAT-GGAAAAATATAAGGC
* * * * * *
505865 TTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTGTAAGGC
1 TTACCCTTGCACAAAGCAAAGGAGCAT-GGAAAAATATAAGGC
* * * * *
505908 TTACCCTTGCACACAGCAAAGGAACCT-GAGAAACTGTAAGGC
1 TTACCCTTGCACAAAGCAAAGGAGCATGGA-AAAATATAAGGC
* * * * * *
505950 ATACCTTTGCACAAAGCAAAGGAGCCTGCGGTAAACTGTAAGGC
1 TTACCCTTGCACAAAGCAAAGGAGCAT--GGAAAAATATAAGGC
* * * * * *
505994 TTATCCTTGCACACAA-CAAAGGAACCTGGGGAAACTGTAAGGC
1 TTACCCTTGCACA-AAGCAAAGGAGCAT-GGAAAAATATAAGGC
* * *
506037 ATACCTTTGCACACAGCAAAGGAGC
1 TTACCCTTGCACAAAGCAAAGGAGC
506062 CTGCGGTAAC
Statistics
Matches: 244, Mismatches: 29, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.00
42 41 0.17
43 120 0.49
44 72 0.30
45 10 0.04
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (42 bp):
TTACCCTTGCACAAAGCAAAGGAGCATGGAAAAATATAAGGC
Found at i:505833 original size:43 final size:43
Alignment explanation
Indices: 505771--506064 Score: 394
Period size: 43 Copynumber: 6.8 Consensus size: 43
505761 TGTAAAAATG
* * * *
505771 GTAAGGTCTTACCCTTGCACATAGCAACGGAGCCT-GGAAAACT
1 GTAAGG-CTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACT
* *
505814 ATAAGGCTTACCCCTTGCACACAACAAAGGAACCTGGGGAAACT
1 GTAAGGCTTA-CCCTTGCACACAGCAAAGGAACCTGGGGAAACT
505858 GTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACT
1 GTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACT
*
505901 GTAAGGCTTACCCTTGCACACAGCAAAGGAACCT-GAGAAACT
1 GTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACT
* * * * *
505943 GTAAGGCATACCTTTGCACAAAGCAAAGGAGCCTGCGGTAAACT
1 GTAAGGCTTACCCTTGCACACAGCAAAGGAACCTG-GGGAAACT
* *
505987 GTAAGGCTTATCCTTGCACACAACAAAGGAACCTGGGGAAACT
1 GTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACT
* * *
506030 GTAAGGCATACCTTTGCACACAGCAAAGGAGCCTG
1 GTAAGGCTTACCCTTGCACACAGCAAAGGAACCTG
506065 CGGTAACGGT
Statistics
Matches: 220, Mismatches: 27, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
42 41 0.19
43 128 0.58
44 51 0.23
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (43 bp):
GTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACT
Found at i:508731 original size:20 final size:17
Alignment explanation
Indices: 508706--508764 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 17
508696 TCAAATTTTT
508706 GGTCAACAGTGGTCAATGTC
1 GGTCAACAGTGGTCAA---C
*
508726 GGTCAACAGTTGTCAAC
1 GGTCAACAGTGGTCAAC
508743 GGTCAACA---GTCAAC
1 GGTCAACAGTGGTCAAC
508757 GGTCAACA
1 GGTCAACA
508765 ATCGACCATT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
14 14 0.37
17 9 0.24
20 15 0.39
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (17 bp):
GGTCAACAGTGGTCAAC
Found at i:508754 original size:14 final size:14
Alignment explanation
Indices: 508737--508764 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
508727 GTCAACAGTT
508737 GTCAACGGTCAACA
1 GTCAACGGTCAACA
508751 GTCAACGGTCAACA
1 GTCAACGGTCAACA
508765 ATCGACCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.21, T:0.14
Consensus pattern (14 bp):
GTCAACGGTCAACA
Found at i:511424 original size:2 final size:2
Alignment explanation
Indices: 511417--511444 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
511407 ATCTGGTTTG
511417 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
511445 TACTGAAAGT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:511635 original size:30 final size:30
Alignment explanation
Indices: 511601--511659 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
511591 GGATATTATC
511601 TGGGTAGGCTGGAGTATGGAAGTACAACCA
1 TGGGTAGGCTGGAGTATGGAAGTACAACCA
*
511631 TGGGTAGGCTGGAGTATGGAGGTACAACC
1 TGGGTAGGCTGGAGTATGGAAGTACAACC
511660 CTGATCAAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.14, G:0.39, T:0.20
Consensus pattern (30 bp):
TGGGTAGGCTGGAGTATGGAAGTACAACCA
Found at i:511672 original size:30 final size:30
Alignment explanation
Indices: 511608--511672 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
511598 ATCTGGGTAG
* *
511608 GCTGGAGTATGGAAGTACAACCATGGGTAG
1 GCTGGAGTATGGAAGTACAACCATGGATAA
* *
511638 GCTGGAGTATGGAGGTACAACCCT-GATCAA
1 GCTGGAGTATGGAAGTACAACCATGGAT-AA
511668 GCTGG
1 GCTGG
511673 TAAATCCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 2 0.07
30 28 0.93
ACGTcount: A:0.28, C:0.17, G:0.35, T:0.20
Consensus pattern (30 bp):
GCTGGAGTATGGAAGTACAACCATGGATAA
Found at i:516922 original size:16 final size:16
Alignment explanation
Indices: 516901--516934 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
516891 ACAATTATGT
516901 GACATGAATGAATTTC
1 GACATGAATGAATTTC
516917 GACATGAATGAATTTC
1 GACATGAATGAATTTC
516933 GA
1 GA
516935 GGACGAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (16 bp):
GACATGAATGAATTTC
Found at i:520142 original size:12 final size:12
Alignment explanation
Indices: 520127--520162 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
520117 GATACATTAC
520127 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
520139 CTGATTTCTGAT
1 CTGAATTCTGTT
520151 CTGAATTCTGTT
1 CTGAATTCTGTT
520163 TTGATTTCCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:524486 original size:24 final size:24
Alignment explanation
Indices: 524436--524503 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
524426 ATTTTCGACT
* *
524436 TGAATTTTGTTCTGA-TACATTACC
1 TGAATTATGTTCTGATTTC-TTACC
* *
524460 TGAATTCTGTTCTGATTTCTTATC
1 TGAATTATGTTCTGATTTCTTACC
*
524484 TGAATTATGTTTTGATTTCT
1 TGAATTATGTTCTGATTTCT
524504 GATATCTCCG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
24 36 0.95
25 2 0.05
ACGTcount: A:0.21, C:0.13, G:0.13, T:0.53
Consensus pattern (24 bp):
TGAATTATGTTCTGATTTCTTACC
Found at i:526629 original size:17 final size:17
Alignment explanation
Indices: 526607--526643 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
526597 TTGATTGTTA
*
526607 ACCGTTGACCTGCGTTG
1 ACCGTTGACCGGCGTTG
*
526624 ACCGTTGATCGGCGTTG
1 ACCGTTGACCGGCGTTG
526641 ACC
1 ACC
526644 ACTGTTGACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.14, C:0.30, G:0.30, T:0.27
Consensus pattern (17 bp):
ACCGTTGACCGGCGTTG
Found at i:528955 original size:12 final size:12
Alignment explanation
Indices: 528940--528975 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
528930 GATACATTAA
528940 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
528952 CTGATTTCTGAT
1 CTGAATTCTGTT
528964 CTGAATTCTGTT
1 CTGAATTCTGTT
528976 TTGATATCTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:528967 original size:24 final size:24
Alignment explanation
Indices: 528917--528987 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
528907 ATTTTCGACT
* * *
528917 TGAATTTTGTTCTGATA-CATTAAC
1 TGAATTCTGTTCTGATATC-TGATC
*
528941 TGAATTCTGTTCTGATTTCTGATC
1 TGAATTCTGTTCTGATATCTGATC
*
528965 TGAATTCTGTTTTGATATCTGAT
1 TGAATTCTGTTCTGATATCTGAT
528988 ATCTCCGTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
24 39 0.98
25 1 0.03
ACGTcount: A:0.23, C:0.13, G:0.15, T:0.49
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATCTGATC
Found at i:533416 original size:12 final size:12
Alignment explanation
Indices: 533401--533436 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
533391 GATACATTAA
533401 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
533413 CTGATTTCTGAT
1 CTGAATTCTGTT
533425 CTGAATTCTGTT
1 CTGAATTCTGTT
533437 TTGATATCTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:533428 original size:24 final size:24
Alignment explanation
Indices: 533378--533448 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
533368 ATTTTCGACT
* * *
533378 TGAATTTTGTTCTGATA-CATTAAC
1 TGAATTCTGTTCTGATATC-TGATC
*
533402 TGAATTCTGTTCTGATTTCTGATC
1 TGAATTCTGTTCTGATATCTGATC
*
533426 TGAATTCTGTTTTGATATCTGAT
1 TGAATTCTGTTCTGATATCTGAT
533449 ATCTCCGTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
24 39 0.98
25 1 0.03
ACGTcount: A:0.23, C:0.13, G:0.15, T:0.49
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATCTGATC
Found at i:537890 original size:24 final size:24
Alignment explanation
Indices: 537840--537907 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
537830 ATTTTCGACT
* *
537840 TGAATTTTGTTCTGA-TACATTACC
1 TGAATTCTGTTCTGATTTC-TTACC
*
537864 TGAATTCTGTTCTGATTTCTTATC
1 TGAATTCTGTTCTGATTTCTTACC
*
537888 TGAATTCTGTTTTGATTTCT
1 TGAATTCTGTTCTGATTTCT
537908 GATATCTCCG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 37 0.95
25 2 0.05
ACGTcount: A:0.19, C:0.15, G:0.13, T:0.53
Consensus pattern (24 bp):
TGAATTCTGTTCTGATTTCTTACC
Found at i:542351 original size:24 final size:24
Alignment explanation
Indices: 542301--542368 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
542291 ATTTTCGACT
* *
542301 TGAATTTTGTTCTGA-TACATTACC
1 TGAATTCTGTTCTGATTTC-TTACC
*
542325 TGAATTCTGTTCTGATTTCTTATC
1 TGAATTCTGTTCTGATTTCTTACC
*
542349 TGAATTCTGTTTTGATTTCT
1 TGAATTCTGTTCTGATTTCT
542369 GATATCTCCG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 37 0.95
25 2 0.05
ACGTcount: A:0.19, C:0.15, G:0.13, T:0.53
Consensus pattern (24 bp):
TGAATTCTGTTCTGATTTCTTACC
Found at i:546800 original size:24 final size:24
Alignment explanation
Indices: 546750--546817 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
546740 ATTTTCGACT
* *
546750 TGAATTTTGTTCTGA-TACATTACC
1 TGAATTCTGTTCTGATTTC-TTACC
*
546774 TGAATTCTGTTCTGATTTCTTATC
1 TGAATTCTGTTCTGATTTCTTACC
*
546798 TGAATTCTGTTTTGATTTCT
1 TGAATTCTGTTCTGATTTCT
546818 GATATCTCCG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 37 0.95
25 2 0.05
ACGTcount: A:0.19, C:0.15, G:0.13, T:0.53
Consensus pattern (24 bp):
TGAATTCTGTTCTGATTTCTTACC
Found at i:548953 original size:17 final size:17
Alignment explanation
Indices: 548931--548967 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
548921 TTGATTGTTA
*
548931 ACCGTTGACCTGCGTTG
1 ACCGTTGACCGGCGTTG
548948 ACCGTTGACCGGCGTTG
1 ACCGTTGACCGGCGTTG
548965 ACC
1 ACC
548968 ACTGTTGACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.14, C:0.32, G:0.30, T:0.24
Consensus pattern (17 bp):
ACCGTTGACCGGCGTTG
Found at i:549020 original size:32 final size:32
Alignment explanation
Indices: 548946--549020 Score: 75
Period size: 32 Copynumber: 2.3 Consensus size: 32
548936 TGACCTGCGT
548946 TGACCGTTGACCGGCGTTGACCACTGTTGACCA
1 TGACCGTTGACCGGCGTTGACCACTGTTGA-CA
* * *
548979 -GAACTTTGACCGGCGTTGATCGAGC-GTTGA-A
1 TGACCGTTGACCGGCGTTGA-CCA-CTGTTGACA
549010 TGACCGTTGAC
1 TGACCGTTGAC
549021 TTTGATCGAG
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
31 1 0.03
32 25 0.74
33 7 0.21
34 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.29, T:0.25
Consensus pattern (32 bp):
TGACCGTTGACCGGCGTTGACCACTGTTGACA
Found at i:553137 original size:22 final size:20
Alignment explanation
Indices: 553101--553150 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
553091 ACTGTTGACC
553101 GTTGACCGACTTTGACCACT
1 GTTGACCGACTTTGACCACT
**
553121 GTTGACCAGAACTTTGACCGGT
1 GTTGACC-G-ACTTTGACCACT
553143 GTTGACCG
1 GTTGACCG
553151 GGCGTTGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 2 0.08
22 17 0.65
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.28
Consensus pattern (20 bp):
GTTGACCGACTTTGACCACT
Found at i:557422 original size:22 final size:20
Alignment explanation
Indices: 557382--557423 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
557372 AAAATGTTTT
*
557382 ACTGTTGACCGGCTTTGACC
1 ACTGTTGACCGACTTTGACC
557402 ACTGTTGACCAGAACTTTGACC
1 ACTGTTGACC-G-ACTTTGACC
557424 GGCGTTGACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (20 bp):
ACTGTTGACCGACTTTGACC
Found at i:558044 original size:41 final size:41
Alignment explanation
Indices: 557998--558109 Score: 133
Period size: 41 Copynumber: 2.7 Consensus size: 41
557988 TAAATACCCC
557998 AAGAAATACTAGTTTTGCTTGGAAAATTTGTAGATGTTCAT
1 AAGAAATACTAGTTTTGCTTGGAAAATTTGTAGATGTTCAT
* * *
558039 AAGAAA-AGGC-A-TATTGATCT-GATAAATTTATAGATGTTCAT
1 AAGAAATA--CTAGTTTTGCT-TGGA-AAATTTGTAGATGTTCAT
558080 AAGAAATACTAGTTTTGCTTGGAAAATTTG
1 AAGAAATACTAGTTTTGCTTGGAAAATTTG
558110 GATAACCGAT
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
40 9 0.16
41 39 0.68
42 9 0.16
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.37
Consensus pattern (41 bp):
AAGAAATACTAGTTTTGCTTGGAAAATTTGTAGATGTTCAT
Found at i:558929 original size:29 final size:24
Alignment explanation
Indices: 558879--558974 Score: 129
Period size: 24 Copynumber: 4.0 Consensus size: 24
558869 GATACATTAC
* * * *
558879 CTGAATTTTGTTCTGATTTCTGAT
1 CTGAATTCTGTTTTGGTATCTGAT
*
558903 CTGAATTTTGTTTTGGTATCTGAT
1 CTGAATTCTGTTTTGGTATCTGAT
558927 CTGAATTCTGTTTTGGTATCTGAT
1 CTGAATTCTGTTTTGGTATCTGAT
* *
558951 CTGAATTCTGTTTTGATTTCTGAT
1 CTGAATTCTGTTTTGGTATCTGAT
558975 ATCTCCATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 66 1.00
ACGTcount: A:0.17, C:0.11, G:0.19, T:0.53
Consensus pattern (24 bp):
CTGAATTCTGTTTTGGTATCTGAT
Found at i:563477 original size:24 final size:24
Alignment explanation
Indices: 563450--563521 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
563440 GGTACATTAC
* *
563450 CTGAATTTTGTTCTGATTTCTGAT
1 CTGAATTATGTTTTGATTTCTGAT
* * *
563474 CTGAATTACGTTTTGGTATCTGAT
1 CTGAATTATGTTTTGATTTCTGAT
*
563498 CTGAATTCTGTTTTGATTTCTGAT
1 CTGAATTATGTTTTGATTTCTGAT
563522 ATCTCCGTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.51
Consensus pattern (24 bp):
CTGAATTATGTTTTGATTTCTGAT
Found at i:568029 original size:24 final size:24
Alignment explanation
Indices: 567965--568073 Score: 89
Period size: 24 Copynumber: 4.5 Consensus size: 24
567955 AAATATTTTA
*
567965 TCTGATTTCCGA-CTTGAATTTTGT
1 TCTGATTTCTGATC-TGAATTTTGT
* * *
567989 TCTGA-TACATTACCTGAATTTTGT
1 TCTGATTTC-TGATCTGAATTTTGT
*
568013 TCTGATTTCTGATCTGAATTATGT
1 TCTGATTTCTGATCTGAATTTTGT
* * *
568037 T-TTAGTATCTGATCTGAATTCTGT
1 TCTGA-TTTCTGATCTGAATTTTGT
*
568061 TTTGATTTCTGAT
1 TCTGATTTCTGAT
568074 ATCTCCATTT
Statistics
Matches: 68, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
23 4 0.06
24 59 0.87
25 5 0.07
ACGTcount: A:0.20, C:0.14, G:0.16, T:0.50
Consensus pattern (24 bp):
TCTGATTTCTGATCTGAATTTTGT
Found at i:572543 original size:24 final size:24
Alignment explanation
Indices: 572516--572586 Score: 97
Period size: 24 Copynumber: 3.0 Consensus size: 24
572506 ACATTACCTA
* *
572516 AATTTTGTTCTGATTTCTGATATG
1 AATTCTGTTTTGATTTCTGATATG
* * *
572540 AATTCTGTTTTGGTATCTGATCTG
1 AATTCTGTTTTGATTTCTGATATG
572564 AATTCTGTTTTGATTTCTGATAT
1 AATTCTGTTTTGATTTCTGATAT
572587 CTCCATTTAC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.20, C:0.10, G:0.17, T:0.54
Consensus pattern (24 bp):
AATTCTGTTTTGATTTCTGATATG
Found at i:575707 original size:17 final size:17
Alignment explanation
Indices: 575685--575724 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
575675 TATTTGACTG
*
575685 TTGACCGTTAACCTGCA
1 TTGACCGTTAACCGGCA
* *
575702 TTGACCGTTGACCGGCG
1 TTGACCGTTAACCGGCA
575719 TTGACC
1 TTGACC
575725 ACTGTTGACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.17, C:0.30, G:0.25, T:0.28
Consensus pattern (17 bp):
TTGACCGTTAACCGGCA
Found at i:578712 original size:24 final size:25
Alignment explanation
Indices: 578684--578740 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
578674 AAATATTTTA
*
578684 TCTGATTTCCA-ACTTGAATTTTGT
1 TCTGATTTCCATACCTGAATTTTGT
*
578708 TCTGA--TACATTACCTGAATTTTGT
1 TCTGATTTCCA-TACCTGAATTTTGT
578732 TCTGATTTC
1 TCTGATTTC
578741 TGATCTGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
22 3 0.12
24 22 0.85
26 1 0.04
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (25 bp):
TCTGATTTCCATACCTGAATTTTGT
Found at i:578748 original size:24 final size:24
Alignment explanation
Indices: 578698--578792 Score: 86
Period size: 24 Copynumber: 4.0 Consensus size: 24
578688 ATTTCCAACT
* * *
578698 TGAATTTTGTTCTGA-TACATTACC
1 TGAATTTTGTTCTGATTTC-TGATC
578722 TGAATTTTGTTCTGATTTCTGATC
1 TGAATTTTGTTCTGATTTCTGATC
* * *
578746 TGAATTATGTT-TTAGTATCTGATC
1 TGAATTTTGTTCTGA-TTTCTGATC
* *
578770 TGAATTCTGTTTTGATTTCTGAT
1 TGAATTTTGTTCTGATTTCTGAT
578793 ATCTCTGTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
23 2 0.03
24 53 0.90
25 4 0.07
ACGTcount: A:0.21, C:0.12, G:0.16, T:0.52
Consensus pattern (24 bp):
TGAATTTTGTTCTGATTTCTGATC
Found at i:583001 original size:24 final size:24
Alignment explanation
Indices: 582974--583046 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
582964 ATACATTACC
* *
582974 TGAATTTTGTTCTGATTTCTGATA
1 TGAATTCTGTTTTGATTTCTGATA
* * *
582998 TGAATTCTGTTTTGGTATCTGATC
1 TGAATTCTGTTTTGATTTCTGATA
583022 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTTTGATTTCTGATA
583046 T
1 T
583047 CTCCATTTAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.19, C:0.10, G:0.18, T:0.53
Consensus pattern (24 bp):
TGAATTCTGTTTTGATTTCTGATA
Found at i:586182 original size:17 final size:17
Alignment explanation
Indices: 586144--586185 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
586134 ATATTTGACT
586144 GTTGACCGTTGACCTGC
1 GTTGACCGTTGACCTGC
*
586161 ATTGACCGTTGACC-GAC
1 GTTGACCGTTGACCTG-C
586178 GTTGACCG
1 GTTGACCG
586186 AGCGTTGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 1 0.05
17 21 0.95
ACGTcount: A:0.17, C:0.29, G:0.29, T:0.26
Consensus pattern (17 bp):
GTTGACCGTTGACCTGC
Found at i:589195 original size:24 final size:24
Alignment explanation
Indices: 589168--589239 Score: 108
Period size: 24 Copynumber: 3.0 Consensus size: 24
589158 GATACATTAC
* *
589168 CTGAATTATGTTATGATTTCTGAT
1 CTGAATTCTGTTTTGATTTCTGAT
* *
589192 CTGAATTCTGTTTTGGTATCTGAT
1 CTGAATTCTGTTTTGATTTCTGAT
589216 CTGAATTCTGTTTTGATTTCTGAT
1 CTGAATTCTGTTTTGATTTCTGAT
589240 ATCTCCGTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.19, C:0.11, G:0.18, T:0.51
Consensus pattern (24 bp):
CTGAATTCTGTTTTGATTTCTGAT
Found at i:589197 original size:48 final size:48
Alignment explanation
Indices: 589145--589239 Score: 111
Period size: 48 Copynumber: 2.0 Consensus size: 48
589135 ATTTCCGACT
* *
589145 TGAATTTTGTTCTGATA-CATTACCTGAATTATGTTATGATTTCTGATC
1 TGAATTCTGTTCTGATATC-TGACCTGAATTATGTTATGATTTCTGATC
* * * * *
589193 TGAATTCTGTTTTGGTATCTGATCTGAATTCTGTTTTGATTTCTGAT
1 TGAATTCTGTTCTGATATCTGACCTGAATTATGTTATGATTTCTGAT
589240 ATCTCCGTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
48 38 0.97
49 1 0.03
ACGTcount: A:0.21, C:0.12, G:0.17, T:0.51
Consensus pattern (48 bp):
TGAATTCTGTTCTGATATCTGACCTGAATTATGTTATGATTTCTGATC
Found at i:591380 original size:17 final size:17
Alignment explanation
Indices: 591358--591398 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
591348 ATGTTTGACT
*
591358 GTTGACCGTTGACCTGC
1 GTTGACCGTTGACCGGC
*
591375 GTTGACCGTTGATCGGC
1 GTTGACCGTTGACCGGC
591392 GTTGACC
1 GTTGACC
591399 ACTGTTGACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.12, C:0.27, G:0.32, T:0.29
Consensus pattern (17 bp):
GTTGACCGTTGACCGGC
Found at i:593766 original size:24 final size:24
Alignment explanation
Indices: 593698--593766 Score: 93
Period size: 24 Copynumber: 2.9 Consensus size: 24
593688 ACATTAACTT
* *
593698 AATTCTGTTCTAATTTCTGATCTG
1 AATTCTGTTTTGATTTCTGATCTG
* *
593722 AATTCTGTTTTGGTATCTGATCTG
1 AATTCTGTTTTGATTTCTGATCTG
*
593746 AATTCTGTTTTGATTTATGAT
1 AATTCTGTTTTGATTTCTGAT
593767 ATCTCCTGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.20, C:0.12, G:0.16, T:0.52
Consensus pattern (24 bp):
AATTCTGTTTTGATTTCTGATCTG
Found at i:597411 original size:48 final size:48
Alignment explanation
Indices: 597355--597459 Score: 124
Period size: 48 Copynumber: 2.2 Consensus size: 48
597345 AAATATTTTA
* *
597355 TCTGATTTCCGA-CTTGAATTTTGTTCTGGTA-CATTACCTGAATTCTGT
1 TCTGATTTCCGATC-TGAATTCTGTTCTGGTATC-TGACCTGAATTCTGT
* * *
597403 TCTGATTTCTGATCTGAATTCTGTTTTGGTATCTGATCTGAATTCTGT
1 TCTGATTTCCGATCTGAATTCTGTTCTGGTATCTGACCTGAATTCTGT
*
597451 TTTGATTTC
1 TCTGATTTC
597460 TGACGTCTCC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
48 47 0.96
49 2 0.04
ACGTcount: A:0.17, C:0.16, G:0.17, T:0.50
Consensus pattern (48 bp):
TCTGATTTCCGATCTGAATTCTGTTCTGGTATCTGACCTGAATTCTGT
Found at i:597412 original size:12 final size:12
Alignment explanation
Indices: 597392--597461 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
597382 GGTACATTAC
597392 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
597404 CTGATTTCTGAT
1 CTGAATTCTGTT
597416 CTGAATTCTGTT
1 CTGAATTCTGTT
* * *
597428 TTG-GTATCTGAT
1 CTGAAT-TCTGTT
597440 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
597452 TTGATTTCTG
1 CTGAATTCTG
597462 ACGTCTCCGT
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 1 0.02
12 42 0.95
13 1 0.02
ACGTcount: A:0.16, C:0.14, G:0.19, T:0.51
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:597419 original size:24 final size:24
Alignment explanation
Indices: 597392--597462 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
597382 GGTACATTAC
*
597392 CTGAATTCTGTTCTGATTTCTGAT
1 CTGAATTCTGTTTTGATTTCTGAT
* *
597416 CTGAATTCTGTTTTGGTATCTGAT
1 CTGAATTCTGTTTTGATTTCTGAT
597440 CTGAATTCTGTTTTGATTTCTGA
1 CTGAATTCTGTTTTGATTTCTGA
597463 CGTCTCCGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.17, C:0.14, G:0.18, T:0.51
Consensus pattern (24 bp):
CTGAATTCTGTTTTGATTTCTGAT
Found at i:597630 original size:2 final size:2
Alignment explanation
Indices: 597623--597654 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
597613 GATGGGGGTG
597623 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
597655 ATTATATGTT
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):
TA
Found at i:601973 original size:24 final size:24
Alignment explanation
Indices: 601900--601973 Score: 85
Period size: 24 Copynumber: 3.1 Consensus size: 24
601890 TAGATACATT
* * *
601900 ATCTGAATTCTGTTCTGATTTCTG
1 ATCTGAATTTTGTTTTGATTTATG
* *
601924 ATCTGAATTTTGTTTTGGTATATG
1 ATCTGAATTTTGTTTTGATTTATG
* *
601948 ATCTGAATTTTATTTTGATTTTTG
1 ATCTGAATTTTGTTTTGATTTATG
601972 AT
1 AT
601974 ATCTCCGTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.20, C:0.08, G:0.16, T:0.55
Consensus pattern (24 bp):
ATCTGAATTTTGTTTTGATTTATG
Found at i:602891 original size:12 final size:12
Alignment explanation
Indices: 602873--602947 Score: 90
Period size: 10 Copynumber: 6.8 Consensus size: 12
602863 TATTCTATAT
602873 GATTTGGAGATC
1 GATTTGGAGATC
*
602885 AATTT-G-GATC
1 GATTTGGAGATC
602895 GATTTGGAGATC
1 GATTTGGAGATC
602907 GATTT-G-GATC
1 GATTTGGAGATC
602917 GATTTGGAGATC
1 GATTTGGAGATC
*
602929 AATTT-G-GATC
1 GATTTGGAGATC
602939 GATTTGGAG
1 GATTTGGAG
602948 CCTTGAGATG
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
10 25 0.47
11 6 0.11
12 22 0.42
ACGTcount: A:0.25, C:0.08, G:0.31, T:0.36
Consensus pattern (12 bp):
GATTTGGAGATC
Found at i:602901 original size:22 final size:22
Alignment explanation
Indices: 602873--602947 Score: 141
Period size: 22 Copynumber: 3.4 Consensus size: 22
602863 TATTCTATAT
602873 GATTTGGAGATCAATTTGGATC
1 GATTTGGAGATCAATTTGGATC
*
602895 GATTTGGAGATCGATTTGGATC
1 GATTTGGAGATCAATTTGGATC
602917 GATTTGGAGATCAATTTGGATC
1 GATTTGGAGATCAATTTGGATC
602939 GATTTGGAG
1 GATTTGGAG
602948 CCTTGAGATG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.25, C:0.08, G:0.31, T:0.36
Consensus pattern (22 bp):
GATTTGGAGATCAATTTGGATC
Found at i:605350 original size:12 final size:12
Alignment explanation
Indices: 605333--605365 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
605323 TATTCTATAT
605333 GATTTGGAGATC
1 GATTTGGAGATC
605345 GATTTGGAGATC
1 GATTTGGAGATC
*
605357 AATTTGGAG
1 GATTTGGAG
605366 CCTTGAGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.27, C:0.06, G:0.33, T:0.33
Consensus pattern (12 bp):
GATTTGGAGATC
Found at i:605609 original size:807 final size:806
Alignment explanation
Indices: 602917--606750 Score: 6584
Period size: 804 Copynumber: 4.8 Consensus size: 806
602907 GATTTGGATC
*
602917 GATTTGGAGATCAATTTGGATCGATTTGGAGCCTTGAGATGTTAAAAGGGTTGATTTACAAGTTT
1 GATTTGGAGATCAATTTGGATCAATTTGGAGCCTTGAGATGTTAAAAGGGTTGATTTACAAGTTT
*
602982 TGAGAATTGTGGGACATTATTGCATAAATGTGATAGTTGGAGTGTTGAATATTAAATTTTAATAT
66 TGAGAATTGTGGGACATTATTGCATAAATGTGATAGTTGGAGTGTTGAATGTTAAATTTTAATAT
*
603047 TTGAAATGCTGGAATTTTAAGTTAGAAAGTTGATTGGAACCAAATTGCAAATTTGGTAGAGTTGA
131 TTGAAATGCTGGAATTTTAAGTTAGAAAGTTGATTGGAACCAAATTGCAAATTTGGTAAAGTTGA
* * * *
603112 GGGTGGATTTTGGAAGGTCTTGATATTATAAGGACTTGATTTCAAGTTTTTAAAATGTGAAAGTA
196 GGGTGGATTTCGGAAGGTCTTGATATTATAGGGACTTGATTTCAAGTTTATGAAATGTGAAAGTA
603177 TCATTTGGGTAAAATATTGCAATGCTGGAAATTTTTTTATAAACTTATTTTTGAGTTTAAACT-T
261 TCATTTGGGTAAAATATTGCAATGCTGG-AATTTTTTTATAAACTTATTTTTGAGTTTAAA-TAT
* *
603241 TGAGTTGGGATCAAATTTCAAGTTTATTAAGATGGGTGGTTGAATTCGAAAAGTCTAACAAAGTT
324 TGAGTTGGGATCAAATTTCAAGTTTATAAAGATGGATGGTTGAATTCGAAAAGTCTAACAAAGTT
* * *
603306 TAAGATAAAATTGCAAGTTTTTAAATACTAAAGTATTGATTTGAGTATTTTATTTAGGTGCTGGA
389 TAGGATAAAATTGCAAGTTTTTGAATACTAAAGTATTGATTTGAGTATTTTATTAAGGTGCTGGA
* *
603371 AATTTTATTAATTATTGTGAAATAATCATAATGGCGAAGGCTATTATGAATTTAATGGAAAAGTT
454 AATTTTAGTAATTATTGTGAAATAATCATAATGGCGAAGGCTATTATGAATTTAATGGAAAACTT
* *
603436 AAGGTGGATTCTATAAAGAATTCATAATTAGTGGCTTGATTGTGTAATTGATAAAAGTTCAAGGG
519 AAGGTGGATTCTATAAAGAATTCATAATTAGTGGCCTGATTGTGCAATTGATAAAAGTTCAAGGG
*
603501 TTGGTGATGAAAATAAGTAATTATGTATTAGAATAAGTATTGATTTAGTTTTGTGATGGTTAGAA
584 TTGGTGATGAAAATAAGTAGTTATGTATTAGAATAAGTATTGATTTAGTTTTGTGATGGTTAGAA
* * *
603566 TATCATGAATTTGATATAAGGAATTTGAATTCATGCATGAAATTAAATGAAAATTAGGCCCTAGA
649 TAGCATGAATTTGATATAAGGAAGTTGAATTCATGCATGAAATTAAATGGAAATTAGGCCCTAGA
*
603631 AGACTAGGTATATTCGAACATTACGAAAAAAATGAGGGAAAAATATTGTAAATTTTCATATGGTC
714 AGACTAGGTATATTCGACCATTACGAAAAAAATGAGGGAAAAATATTGTAAATTTTCATATGGTC
* *
603696 TAGAATTGATAGT-AGAAACATTCTATAT
779 TAGAATTGATA-TCTGAAATATTCTATAT
*
603724 GATTTGGAGATCAATTTGGATCAATTTGGAGCCTTGAGATGTTAAAAGGATTGATTTACAAGTTT
1 GATTTGGAGATCAATTTGGATCAATTTGGAGCCTTGAGATGTTAAAAGGGTTGATTTACAAGTTT
*
603789 TGAGAATTGTGGGACATTTTTGCATAAATGTGATAGTTGGAGTGTTGAATGTTAAATTTTAATAT
66 TGAGAATTGTGGGACATTATTGCATAAATGTGATAGTTGGAGTGTTGAATGTTAAATTTTAATAT
*
603854 TTGAAATGCTGGAATTTTAAGTTAGAAAGTTGATTGGAAGCAAATTGCAAATTTGGTAAAGTTGA
131 TTGAAATGCTGGAATTTTAAGTTAGAAAGTTGATTGGAACCAAATTGCAAATTTGGTAAAGTTGA
603919 GGGTGGATTTCGGAAGGTCTTGATATTATAGGGACTTGATTTCAAGTTTATGAAATGTGAAAGTA
196 GGGTGGATTTCGGAAGGTCTTGATATTATAGGGACTTGATTTCAAGTTTATGAAATGTGAAAGTA
* * *
603984 TCATTTGGGTAAAATATTGCAATGTTGTAATTTTTTTATAAACTAATTTTTGAGTTTAAATATTG
261 TCATTTGGGTAAAATATTGCAATGCTGGAATTTTTTTATAAACTTATTTTTGAGTTTAAATATTG
*
604049 AGCTGGGATCAAATTTCAAGTTTATAAAGATAGG-TGGTTGAATTCGAAAAGTCTAACAAAGTTT
326 AGTTGGGATCAAATTTCAAGTTTATAAAGAT-GGATGGTTGAATTCGAAAAGTCTAACAAAGTTT
604113 AGGATAAAATTGCAAGTTTTTGAATACTAAAGTATTGATTTGAGTATTTTATTAAGGTGCTGGAA
390 AGGATAAAATTGCAAGTTTTTGAATACTAAAGTATTGATTTGAGTATTTTATTAAGGTGCTGGAA
* *
604178 ATTTTAGTAATTATTGTGAAATAATCATAATGGCGAAGGTTATTATGAATTTAATGG-AAACTTT
455 ATTTTAGTAATTATTGTGAAATAATCATAATGGCGAAGGCTATTATGAATTTAATGGAAAACTTA
* * * *
604242 AGGTTGATTCTATAAAGAATTCATAATTAGTGGTCTGATTGTGGAATTGACAAAAGTTCAAGGGT
520 AGGTGGATTCTATAAAGAATTCATAATTAGTGGCCTGATTGTGCAATTGATAAAAGTTCAAGGGT
* * *
604307 TGGTGCTGAAAATAAGTAGTTACGTATTAGAATAAGTATTGATTTAGTTTTGTGATGGCTAGAAT
585 TGGTGATGAAAATAAGTAGTTATGTATTAGAATAAGTATTGATTTAGTTTTGTGATGGTTAGAAT
* *
604372 AGCATTAATTTGATATAAGGAAGTTGAATTCATGCTTGAAATTAAATGGAAATTAGGCCCTAGAA
650 AGCATGAATTTGATATAAGGAAGTTGAATTCATGCATGAAATTAAATGGAAATTAGGCCCTAGAA
*
604437 GACTAGGTATATTCGACCATTACGAAAAAAATGAGGG-AAAATATTGTAAATTTTGATATGGTCT
715 GACTAGGTATATTCGACCATTACGAAAAAAATGAGGGAAAAATATTGTAAATTTTCATATGGTCT
604501 AGAATTGATATCTGAAATATTCTATAT
780 AGAATTGATATCTGAAATATTCTATAT
604528 GATTTGGAGATCAATTTGGATCAATTTGGAGCCTTGAGATGTTAAAAGGGTTGATTTACAAGTTT
1 GATTTGGAGATCAATTTGGATCAATTTGGAGCCTTGAGATGTTAAAAGGGTTGATTTACAAGTTT
*
604593 TGAGAATTATGGGACATTATTGCATAAATGTGATAGTTGGAGTGTTGAATGTTAAATTTTAATAT
66 TGAGAATTGTGGGACATTATTGCATAAATGTGATAGTTGGAGTGTTGAATGTTAAATTTTAATAT
*
604658 TTGAAATGCTGGAATTTTAAGTTAGAAAGTTGATTGGAACCAAATTGCAAATTTGGTAAAATTGA
131 TTGAAATGCTGGAATTTTAAGTTAGAAAGTTGATTGGAACCAAATTGCAAATTTGGTAAAGTTGA
*
604723 GGGTGGATTTCGAAAGGTCTTGATATTATAGGGACTTGATTTCAAGTTTATGAAATGTGAAAGTA
196 GGGTGGATTTCGGAAGGTCTTGATATTATAGGGACTTGATTTCAAGTTTATGAAATGTGAAAGTA
*
604788 TCATTTGGGTAAAATATTTCAATGCTGGAATTTTTTT-TAAACTTATTTTTGAGTTTAAATATTG
261 TCATTTGGGTAAAATATTGCAATGCTGGAATTTTTTTATAAACTTATTTTTGAGTTTAAATATTG
*
604852 AGTTGGGATCAAGTTTCAAGTTTATAAAGATGGATGGTTGAATTCGAAAAGTCTAACAAAGTTTA
326 AGTTGGGATCAAATTTCAAGTTTATAAAGATGGATGGTTGAATTCGAAAAGTCTAACAAAGTTTA
604917 GGATAAAATTGCAAGTTTTTGAATACTAAAGTATTGATTTGAGTATTTTATTAAGGTGCTGGAAA
391 GGATAAAATTGCAAGTTTTTGAATACTAAAGTATTGATTTGAGTATTTTATTAAGGTGCTGGAAA
* * * *
604982 TCTTAGTAATTATTGTGAAATATTCATAATGGTGAAGGCTATTATGAATTTAATGGAAAACATAA
456 TTTTAGTAATTATTGTGAAATAATCATAATGGCGAAGGCTATTATGAATTTAATGGAAAACTTAA
605047 GGTGGATTCTATAAAGAATTCATAATTAGTGGCCTGATTGTGCAATTGATAAAAGTTCAAGGGTT
521 GGTGGATTCTATAAAGAATTCATAATTAGTGGCCTGATTGTGCAATTGATAAAAGTTCAAGGGTT
*
605112 GATGATGAAAATAAGTAGTTATGTATTAGAATAAGTATTGATTTAGTTTTGTGATGGTTAGAATA
586 GGTGATGAAAATAAGTAGTTATGTATTAGAATAAGTATTGATTTAGTTTTGTGATGGTTAGAATA
* * *
605177 TCATGAATTTGATATAAAGAAGTTGAATTCATGCATGAAATTAAATGGAAATTATGCCCTAGAAG
651 GCATGAATTTGATATAAGGAAGTTGAATTCATGCATGAAATTAAATGGAAATTAGGCCCTAGAAG
605242 ACTAGGTATATTCGACCATTACGAAAAAAATGAGGGAAAAATATTGTAAATTTTCATATGGTCTA
716 ACTAGGTATATTCGACCATTACGAAAAAAATGAGGGAAAAATATTGTAAATTTTCATATGGTCTA
*
605307 GATTTGATATCTGAAATATTCTATAT
781 GAATTGATATCTGAAATATTCTATAT
*
605333 GATTTGGAGATCGATTTGGAGATCAATTTGGAGCCTTGAGATGTTAAAAGGGTTGATTTACAAGT
1 GATTTGGAGATCAATTT-G-GATCAATTTGGAGCCTTGAGATGTTAAAAGGGTTGATTTACAAGT
605398 TTTGAGAATTGTGGGACATTATTGCATAAATGTGATAGTTGGAGTGTTGAATGTTAAATTTTAAT
64 TTTGAGAATTGTGGGACATTATTGCATAAATGTGATAGTTGGAGTGTTGAATGTTAAATTTTAAT
* * *
605463 ATTTGAAATGCTAGAATTTTAAGTTTGAAAGTTGATTGGAACTAAATTGCAAATTTGGTAAAGTT
129 ATTTGAAATGCTGGAATTTTAAGTTAGAAAGTTGATTGGAACCAAATTGCAAATTTGGTAAAGTT
* *
605528 GAGGGTGGATTTCGGAAGGTCTTGATATTACAGGGACTTGATTTAAAGTTTATGAAATGTGAAAG
194 GAGGGTGGATTTCGGAAGGTCTTGATATTATAGGGACTTGATTTCAAGTTTATGAAATGTGAAAG
605593 TATCATTTGGGTAAAATATTGCAATGCTGGAATTTTTTTTATAAACTTATTTTTGAGTTTAAATA
259 TATCATTTGGGTAAAATATTGCAATGCTGGAA-TTTTTTTATAAACTTATTTTTGAGTTTAAATA
*
605658 TTGAGTTGGGATCAAATTTCAAGTTTATAAAGAT-GAGTGGTTGAATTCAAAAAGTCTAACAAAG
323 TTGAGTTGGGATCAAATTTCAAGTTTATAAAGATGGA-TGGTTGAATTCGAAAAGTCTAACAAAG
*
605722 TTTAGGATAAAATTGCAAGTTTTTTAATACTAAAGTATTGATTTGAGTATTTTATTAAGGTGCTG
387 TTTAGGATAAAATTGCAAGTTTTTGAATACTAAAGTATTGATTTGAGTATTTTATTAAGGTGCTG
* *
605787 GAAATTTTAGTAAATATTGTGAAATAATCATAATGGCGAAGGCTATTACGAATTTAATGGAAAAC
452 GAAATTTTAGTAATTATTGTGAAATAATCATAATGGCGAAGGCTATTATGAATTTAATGGAAAAC
* *
605852 TTAAGGTGGATTCTATATAGAATTCATAATTAGTGGCTTGATTGTGCAATTGATAAATA-TTCAA
517 TTAAGGTGGATTCTATAAAGAATTCATAATTAGTGGCCTGATTGTGCAATTGATAAA-AGTTCAA
* *
605916 GGGTTGGTGCTGAAAATAAGTAGTTATGTATTAGAATAAGTATTGATTTAGTTTCGTGATGGTTA
581 GGGTTGGTGATGAAAATAAGTAGTTATGTATTAGAATAAGTATTGATTTAGTTTTGTGATGGTTA
*
605981 GAATAGCATGAATTTGATATAAGGAAGTTGAATTCATGCTTGAAATTAAATGGAAATTAGGCCCT
646 GAATAGCATGAATTTGATATAAGGAAGTTGAATTCATGCATGAAATTAAATGGAAATTAGGCCCT
* *
606046 AGAAGACTAGGTATATTCGGCCATTACGAAAAAAATGAGGGGAAAATATTGTAAATTTTCATATG
711 AGAAGACTAGGTATATTCGACCATTACGAAAAAAATGAGGGAAAAATATTGTAAATTTTCATATG
*
606111 GTCTAGAATTGATATATGAAATATTCTATAT
776 GTCTAGAATTGATATCTGAAATATTCTATAT
606142 GATTT-G-G----A----GATCAATTTGGAGCCTTGAGATGTTAAAAGGGTTGATTTACAAGTTT
1 GATTTGGAGATCAATTTGGATCAATTTGGAGCCTTGAGATGTTAAAAGGGTTGATTTACAAGTTT
*
606197 TGAGAATTGTGGGACATTATTGCATAAATGTGATAGTTGGAGTGCTGAATGTTAAATTTTAATAT
66 TGAGAATTGTGGGACATTATTGCATAAATGTGATAGTTGGAGTGTTGAATGTTAAATTTTAATAT
*
606262 TTGAAATGCTGGAATTTTAAGTTAGAATGTTGATTGGAACCAAATTGCAAATTTGGTAAAGTTGA
131 TTGAAATGCTGGAATTTTAAGTTAGAAAGTTGATTGGAACCAAATTGCAAATTTGGTAAAGTTGA
* *
606327 GGGTGGATTTTGGAAGGTCTTGATATTAGAGGGACTTGATTTCAAGTTTATGAAATGTGAAAGTA
196 GGGTGGATTTCGGAAGGTCTTGATATTATAGGGACTTGATTTCAAGTTTATGAAATGTGAAAGTA
606392 TCATTTGGGTAAAATATTGCAATGCTGGAACTTTTTTTATAAACTTATTTTTGAGTTTAAATATT
261 TCATTTGGGTAAAATATTGCAATGCTGGAA-TTTTTTTATAAACTTATTTTTGAGTTTAAATATT
* *
606457 GAGTTGGGATCAAGTTTCAAGTTTATAAAGATGGGTGGTTGAATTCGAAAAGTCTAACAAAGTTT
325 GAGTTGGGATCAAATTTCAAGTTTATAAAGATGGATGGTTGAATTCGAAAAGTCTAACAAAGTTT
* * * *
606522 AGGAAAAAATTGTAAATTTTTTAATACTAAAGTATTGATTTGAGTATTTTATTAAGGTGCTGGAA
390 AGGATAAAATTGCAAGTTTTTGAATACTAAAGTATTGATTTGAGTATTTTATTAAGGTGCTGGAA
* *
606587 ATTTTAGTAATTATTGTAAAATAATCATAAT------GGCTATTATGAATTTAATGGAAAAGTTA
455 ATTTTAGTAATTATTGTGAAATAATCATAATGGCGAAGGCTATTATGAATTTAATGGAAAACTTA
* * * *
606646 AGGCGAATTCTATAAAAAATTCATAATTAGAT-GCCTGTTTGTGCAATTGATAAAAGTTCAAGGG
520 AGGTGGATTCTATAAAGAATTCATAATTAG-TGGCCTGATTGTGCAATTGATAAAAGTTCAAGGG
606710 TTGGTGATGAAAATAAGTAGTTATGTATTAGAATAAGTATT
584 TTGGTGATGAAAATAAGTAGTTATGTATTAGAATAAGTATT
606751 TTGAGAAGTT
Statistics
Matches: 2881, Mismatches: 131, Indels: 46
0.94 0.04 0.02
Matches are distributed among these distances:
790 1 0.00
791 120 0.04
792 1 0.00
797 449 0.16
798 1 0.00
802 2 0.00
803 205 0.07
804 561 0.19
805 291 0.10
806 211 0.07
807 542 0.19
808 10 0.00
809 486 0.17
810 1 0.00
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (806 bp):
GATTTGGAGATCAATTTGGATCAATTTGGAGCCTTGAGATGTTAAAAGGGTTGATTTACAAGTTT
TGAGAATTGTGGGACATTATTGCATAAATGTGATAGTTGGAGTGTTGAATGTTAAATTTTAATAT
TTGAAATGCTGGAATTTTAAGTTAGAAAGTTGATTGGAACCAAATTGCAAATTTGGTAAAGTTGA
GGGTGGATTTCGGAAGGTCTTGATATTATAGGGACTTGATTTCAAGTTTATGAAATGTGAAAGTA
TCATTTGGGTAAAATATTGCAATGCTGGAATTTTTTTATAAACTTATTTTTGAGTTTAAATATTG
AGTTGGGATCAAATTTCAAGTTTATAAAGATGGATGGTTGAATTCGAAAAGTCTAACAAAGTTTA
GGATAAAATTGCAAGTTTTTGAATACTAAAGTATTGATTTGAGTATTTTATTAAGGTGCTGGAAA
TTTTAGTAATTATTGTGAAATAATCATAATGGCGAAGGCTATTATGAATTTAATGGAAAACTTAA
GGTGGATTCTATAAAGAATTCATAATTAGTGGCCTGATTGTGCAATTGATAAAAGTTCAAGGGTT
GGTGATGAAAATAAGTAGTTATGTATTAGAATAAGTATTGATTTAGTTTTGTGATGGTTAGAATA
GCATGAATTTGATATAAGGAAGTTGAATTCATGCATGAAATTAAATGGAAATTAGGCCCTAGAAG
ACTAGGTATATTCGACCATTACGAAAAAAATGAGGGAAAAATATTGTAAATTTTCATATGGTCTA
GAATTGATATCTGAAATATTCTATAT
Found at i:607597 original size:12 final size:12
Alignment explanation
Indices: 607580--607605 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
607570 TTTATCTTAC
607580 CTTGATTTATTA
1 CTTGATTTATTA
607592 CTTGATTTATTA
1 CTTGATTTATTA
607604 CT
1 CT
607606 GTCTCACTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.12, G:0.08, T:0.58
Consensus pattern (12 bp):
CTTGATTTATTA
Found at i:608502 original size:21 final size:21
Alignment explanation
Indices: 608476--608562 Score: 63
Period size: 21 Copynumber: 4.2 Consensus size: 21
608466 TGATCATAAT
608476 ATCAATATCATAGACTGTCAC
1 ATCAATATCATAGACTGTCAC
* * * * *
608497 ATCAATATAATAAATTATCAT
1 ATCAATATCATAGACTGTCAC
* *
608518 ATTAATATTC-T-GAACTGCCAC
1 ATCAATA-TCATAG-ACTGTCAC
*
608539 ATCAATATTATA-ACTGTCAC
1 ATCAATATCATAGACTGTCAC
608559 ATCA
1 ATCA
608563 GATGTAAAAT
Statistics
Matches: 47, Mismatches: 15, Indels: 9
0.66 0.21 0.13
Matches are distributed among these distances:
20 12 0.26
21 34 0.72
22 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (21 bp):
ATCAATATCATAGACTGTCAC
Done.