Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold425
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: 711097
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
File 4 of 5
Found at i:491482 original size:17 final size:19
Alignment explanation
Indices: 491467--491547 Score: 80
Period size: 19 Copynumber: 4.4 Consensus size: 19
491457 AAGAAATATT
*
491467 AATATGTTATAAATATTTA
1 AATATATTATAAATATTTA
*
491486 AATATATTATAAAT-TATA
1 AATATATTATAAATATTTA
*
491504 TAA-ATA-TGT-AATATTTA
1 -AATATATTATAAATATTTA
*
491521 AATATATTATAAATTATATA
1 AATATATTATAAA-TATTTA
491541 AATATAT
1 AATATAT
491548 AATTTTTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
16 5 0.10
17 8 0.16
18 8 0.16
19 17 0.34
20 12 0.24
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
AATATATTATAAATATTTA
Found at i:491512 original size:39 final size:37
Alignment explanation
Indices: 491462--491568 Score: 141
Period size: 35 Copynumber: 2.9 Consensus size: 37
491452 AGAAAAAGAA
*
491462 ATATTAATATGTTATAAATATTTAAATATATTATAAATT
1 ATATAAATATG-TAT-AATATTTAAATATATTATAAATT
491501 ATATAAATATG--TAATATTTAAATATATTATAAATT
1 ATATAAATATGTATAATATTTAAATATATTATAAATT
*
491536 ATATAAATA--TATAATTTTTAAATATAATTATAA
1 ATATAAATATGTATAATATTTAAATAT-ATTATAA
491569 CATAAAAAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
35 45 0.71
36 8 0.13
39 10 0.16
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (37 bp):
ATATAAATATGTATAATATTTAAATATATTATAAATT
Found at i:491519 original size:35 final size:35
Alignment explanation
Indices: 491474--491594 Score: 158
Period size: 35 Copynumber: 3.5 Consensus size: 35
491464 ATTAATATGT
491474 TATA-AATATTTAAATATATTATAAATTATATAAA
1 TATATAATATTTAAATATATTATAAATTATATAAA
*
491508 TATGTAATATTTAAATATATTATAAATTATATAAA
1 TATATAATATTTAAATATATTATAAATTATATAAA
* *
491543 TATATAATTTTTAAATATAATTATAACA-TA-AAAAA
1 TATATAATATTTAAATAT-ATTATAA-ATTATATAAA
*
491578 TATATAAATATATAAAT
1 TATAT-AATATTTAAAT
491595 TATCAAATCT
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
34 3 0.04
35 55 0.71
36 18 0.23
37 1 0.01
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (35 bp):
TATATAATATTTAAATATATTATAAATTATATAAA
Found at i:492628 original size:11 final size:11
Alignment explanation
Indices: 492612--492636 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
492602 GACATGAAAA
492612 ATAATATAAAT
1 ATAATATAAAT
492623 ATAATATAAAT
1 ATAATATAAAT
492634 ATA
1 ATA
492637 TAAATATCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:493723 original size:78 final size:80
Alignment explanation
Indices: 493618--493807 Score: 244
Period size: 78 Copynumber: 2.4 Consensus size: 80
493608 ATATTATTAC
* *
493618 TTTTTTATGAC-TATATTGTTCATAATGAAAACATGCCTAAC-TTTTTTATTTATCATATTTATT
1 TTTTTTATGACTTA-ATTTTTCATAATGAAAACATGCATAACTTTTTTTATTTATCATATTTATT
493681 CTTT-AAAA-AAATAAT
65 -TTTAAAAATAAATAAT
* * * *
493696 TTTTTTATGACTTAATTTTTCACAATGAAAACATGTATAACTTTTTTTATTTATCATTTTTCTTT
1 TTTTTTATGACTTAATTTTTCATAATGAAAACATGCATAACTTTTTTTATTTATCATATTTATTT
493761 TTAAAAAATAAATAAT
66 TT-AAAAATAAATAAT
* * *
493777 TGTTTTATGATTTTATTTTTCATAATGAAAA
1 TTTTTTATGACTTAATTTTTCATAATGAAAA
493808 TATGTGAAAA
Statistics
Matches: 97, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
78 37 0.38
79 22 0.23
80 4 0.04
81 34 0.35
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.51
Consensus pattern (80 bp):
TTTTTTATGACTTAATTTTTCATAATGAAAACATGCATAACTTTTTTTATTTATCATATTTATTT
TTAAAAATAAATAAT
Found at i:493806 original size:81 final size:78
Alignment explanation
Indices: 493620--493812 Score: 244
Period size: 81 Copynumber: 2.4 Consensus size: 78
493610 ATTATTACTT
* * **
493620 TTTTATGACTATATTGTTCATAATGAAAACATGCCTAACTTTTTTATTTATCATATTTATTCTTT
1 TTTTATGACTTTATTTTTCATAATGAAAACATGTATAACTTTTTTATTTATCATATTTATTCTTT
*
493685 AAAAAAATAATTT
66 AAAAAAATAATTG
* * * *
493698 TTTTATGACTTAATTTTTCACAATGAAAACATGTATAACTTTTTTTATTTATCATTTTTCTT-TT
1 TTTTATGACTTTATTTTTCATAATGAAAACATGTATAAC-TTTTTTATTTATCATATTTATTCTT
493762 TAAAAAATAAATAATTG
65 T--AAAA-AAATAATTG
* *
493779 TTTTATGATTTTATTTTTCATAATGAAAATATGT
1 TTTTATGACTTTATTTTTCATAATGAAAACATGT
493813 GAAAACTTAT
Statistics
Matches: 98, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
78 36 0.37
79 20 0.20
80 4 0.04
81 38 0.39
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (78 bp):
TTTTATGACTTTATTTTTCATAATGAAAACATGTATAACTTTTTTATTTATCATATTTATTCTTT
AAAAAAATAATTG
Found at i:497790 original size:3 final size:3
Alignment explanation
Indices: 497778--497814 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
497768 AAAGCAGCAG
* *
497778 ATT ATG ATT ATT ATT ATT ATT ATT ATT ATT CTT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
497815 ATGTTACTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:497927 original size:2 final size:2
Alignment explanation
Indices: 497920--497944 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
497910 GCACCGTCCA
497920 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
497945 TGCCAAACAT
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:498939 original size:17 final size:17
Alignment explanation
Indices: 498918--498956 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
498908 TTTTAATATT
*
498918 TATAAAATTTTTAATTAA
1 TATAAAA-TTATAATTAA
498936 -ATAAAATTATAATTAA
1 TATAAAATTATAATTAA
498952 TATAA
1 TATAA
498957 TTTATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TATAAAATTATAATTAA
Found at i:499011 original size:43 final size:44
Alignment explanation
Indices: 498910--499027 Score: 111
Period size: 43 Copynumber: 2.7 Consensus size: 44
498900 CGTCGAGATT
* * * * *
498910 TTAATATT-TATAAAATTTTTAATTAAATAAAATTATAATTAATA
1 TTAA-ATTATATAAAATATTTAATAAAATAAATTTAAAATTAAAA
* *
498954 -TAATTTATTTTAAAATATTTAAT-AAATAAATTTAAAATTAAAA
1 TTAAATTA-TATAAAATATTTAATAAAATAAATTTAAAATTAAAA
498997 TTAAATTATATAAAA-A-TTATATAAAATAAAT
1 TTAAATTATATAAAATATTTA-ATAAAATAAAT
499028 AGAGATATAA
Statistics
Matches: 61, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
41 3 0.05
42 5 0.08
43 34 0.56
44 19 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (44 bp):
TTAAATTATATAAAATATTTAATAAAATAAATTTAAAATTAAAA
Found at i:499037 original size:17 final size:16
Alignment explanation
Indices: 499015--499123 Score: 64
Period size: 17 Copynumber: 6.6 Consensus size: 16
499005 TATAAAAATT
499015 ATATAAAATAAATAGA
1 ATATAAAATAAATAGA
* *
499031 GATATAACATAAATATA
1 -ATATAAAATAAATAGA
*
499048 ATATTAAAATATAATTAAA
1 ATA-TAAAATA-AA-TAGA
*
499067 ATATAATATAATATA-A
1 ATATAAAATAA-ATAGA
* *
499083 AAATAATATAAATATG-
1 ATATAAAATAAATA-GA
*
499099 ATA-AAAATATATA-A
1 ATATAAAATAAATAGA
499113 ATATATAAATA
1 ATATA-AAATA
499124 TTTATATAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 19
0.73 0.09 0.19
Matches are distributed among these distances:
14 3 0.04
15 12 0.16
16 21 0.28
17 23 0.31
18 9 0.12
19 6 0.08
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (16 bp):
ATATAAAATAAATAGA
Found at i:499059 original size:13 final size:13
Alignment explanation
Indices: 499041--499075 Score: 56
Period size: 11 Copynumber: 2.8 Consensus size: 13
499031 GATATAACAT
499041 AAATATAATATTA
1 AAATATAATATTA
499054 AAATAT-A-ATTA
1 AAATATAATATTA
499065 AAATATAATAT
1 AAATATAATAT
499076 AATATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 10 0.50
12 2 0.10
13 8 0.40
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AAATATAATATTA
Found at i:499083 original size:40 final size:37
Alignment explanation
Indices: 499032--499137 Score: 106
Period size: 38 Copynumber: 2.8 Consensus size: 37
499022 ATAAATAGAG
* *
499032 ATATAACATAAATATAATATTAAAATATAATTAAAATAT
1 ATATAATATAAATATAATA-T-AAATATAATAAAAATAT
* *
499071 AATATAATATAAAAATAATATAAATATGATAAAAATAT
1 -ATATAATATAAATATAATATAAATATAATAAAAATAT
* *
499109 ATAAATATATAAATATTTATATAAA-ATAA
1 ATATA-ATATAAATA-TAATATAAATATAA
499138 AAATATTTTA
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
37 4 0.07
38 26 0.46
39 9 0.16
40 17 0.30
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (37 bp):
ATATAATATAAATATAATATAAATATAATAAAAATAT
Found at i:499088 original size:11 final size:11
Alignment explanation
Indices: 498999--499113 Score: 52
Period size: 11 Copynumber: 11.1 Consensus size: 11
498989 AATTAAAATT
*
498999 AAATTATATAA
1 AAATAATATAA
*
499010 AAATTATAT-A
1 AAATAATATAA
499020 AAATAA-ATAGA
1 AAATAATATA-A
* *
499031 GATATAACATAA
1 -AAATAATATAA
* *
499043 ATATAATATTA
1 AAATAATATAA
*
499054 AAAT-ATA-AT
1 AAATAATATAA
*
499063 TAA-AATAT-A
1 AAATAATATAA
*
499072 ATATAATATAA
1 AAATAATATAA
499083 AAATAATAT--
1 AAATAATATAA
499092 AAAT-ATGATAA
1 AAATAAT-ATAA
499103 AAAT-ATATAA
1 AAATAATATAA
499113 A
1 A
499114 TATATAAATA
Statistics
Matches: 81, Mismatches: 12, Indels: 23
0.70 0.10 0.20
Matches are distributed among these distances:
8 2 0.02
9 14 0.17
10 19 0.23
11 37 0.46
12 6 0.07
13 3 0.04
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (11 bp):
AAATAATATAA
Found at i:499109 original size:73 final size:73
Alignment explanation
Indices: 498986--499164 Score: 177
Period size: 73 Copynumber: 2.5 Consensus size: 73
498976 TAAATAAATT
* * * * *
498986 TAAAATTAAAAT-TAA-ATTATATAAAAATTATATAAAATAAATAGAGATATA-ACATAAATATA
1 TAAAATTAAAATATAATATAATATAAAAATAATATAAAATAAATAAAAATATATAAATAAATA-A
499048 ATATTAAAA
65 ATATTAAAA
* * *
499057 TATAATTAAAATATAATATAATATAAAAATAATAT-AAATATGATAAAAATATATAAATATATAA
1 TAAAATTAAAATATAATATAATATAAAAATAATATAAAATA-AATAAAAATATATAAATAAATAA
* *
499121 ATATTTATA
65 ATATTAAAA
* ** *
499130 TAAAATAAAAATATTTTATACAAATAAAAATAATA
1 TAAAATTAAAATATAATATA-ATATAAAAATAATA
499165 CGAACACGTA
Statistics
Matches: 88, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
71 11 0.12
72 8 0.09
73 49 0.56
74 20 0.23
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (73 bp):
TAAAATTAAAATATAATATAATATAAAAATAATATAAAATAAATAAAAATATATAAATAAATAAA
TATTAAAA
Found at i:499159 original size:20 final size:19
Alignment explanation
Indices: 499106--499161 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
499096 ATGATAAAAA
*
499106 TATATAAATATATAAATATT
1 TATATAAA-ATAAAAATATT
499126 TATATAAAATAAAAATATT
1 TATATAAAATAAAAATATT
499145 T-TATACAAATAAAAATA
1 TATATA-AAATAAAAATA
499162 ATACGAACAC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 4 0.12
19 22 0.65
20 8 0.24
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TATATAAAATAAAAATATT
Found at i:499407 original size:23 final size:22
Alignment explanation
Indices: 499378--499436 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
499368 AGATAAAGTA
* *
499378 AAAAATAATATAGACATAATAT
1 AAAAATAATATAAACATAACAT
*
499400 AGAGAATAAT-TAAAACATAACAT
1 A-AAAATAATAT-AAACATAACAT
499423 AAAAATAATATAAA
1 AAAAATAATATAAA
499437 TATGATACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (22 bp):
AAAAATAATATAAACATAACAT
Found at i:500021 original size:25 final size:24
Alignment explanation
Indices: 499960--500023 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 24
499950 ACATACATAC
* *
499960 ATATAAAAATAT-ACATGAAAGAA
1 ATATAAAAATATAATATGAAACAA
*
499983 A-AT-AAATTATTAATATGTAAACAA
1 ATATAAAAATA-TAATATG-AAACAA
500007 ATATAAAAATATAATAT
1 ATATAAAAATATAATAT
500024 TTCAAATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
21 5 0.16
22 3 0.09
23 5 0.16
24 6 0.19
25 8 0.25
26 5 0.16
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (24 bp):
ATATAAAAATATAATATGAAACAA
Found at i:500080 original size:4 final size:4
Alignment explanation
Indices: 500073--500104 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
500063 TTTTTTTCTT
500073 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
500105 AATCCTGCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:500513 original size:25 final size:24
Alignment explanation
Indices: 500452--500515 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 24
500442 ATACACGTGC
* *
500452 ATATAAAAATAT-ACATGAAATAA
1 ATATAAAAATATAATATGAAAAAA
*
500475 A-AT-AAATTATTAATATGTAAAAAA
1 ATATAAAAATA-TAATATG-AAAAAA
500499 ATATAAAAATATAATAT
1 ATATAAAAATATAATAT
500516 TTTAAATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
21 5 0.16
22 3 0.09
23 5 0.16
24 6 0.19
25 8 0.25
26 5 0.16
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (24 bp):
ATATAAAAATATAATATGAAAAAA
Found at i:501383 original size:37 final size:37
Alignment explanation
Indices: 501342--501418 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
501332 TTATACAAAA
* * *
501342 AAAT-AAAATCAATTAAGACATAATATGAACATAATAT
1 AAATAAAAAT-AATTAAAACATAATATAAAAATAATAT
*
501379 AAATAAAAATAATTAAAATATAATATAAAAATAATAT
1 AAATAAAAATAATTAAAACATAATATAAAAATAATAT
501416 AAA
1 AAA
501419 CATGATACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 30 0.86
38 5 0.14
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (37 bp):
AAATAAAAATAATTAAAACATAATATAAAAATAATAT
Found at i:501409 original size:22 final size:22
Alignment explanation
Indices: 501374--501418 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
501364 ATATGAACAT
501374 AATATAAATAAAAATAAT-TAA
1 AATATAAATAAAAATAATATAA
501395 AATATAATATAAAAATAATATAA
1 AATATAA-ATAAAAATAATATAA
501418 A
1 A
501419 CATGATACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
AATATAAATAAAAATAATATAA
Found at i:501412 original size:11 final size:11
Alignment explanation
Indices: 501377--501418 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
501367 TGAACATAAT
501377 ATAA-ATAAAA
1 ATAATATAAAA
501387 ATAAT-TAAAA
1 ATAATATAAAA
501397 TATAATATAAAA
1 -ATAATATAAAA
501409 ATAATATAAA
1 ATAATATAAA
501419 CATGATACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 9 0.31
11 15 0.52
12 5 0.17
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:501543 original size:24 final size:23
Alignment explanation
Indices: 501501--501615 Score: 69
Period size: 24 Copynumber: 5.0 Consensus size: 23
501491 TTTAATACTT
*
501501 TAAATATACGAAAAATAATATAAACA
1 TAAATATA--AAAATTAATATAAA-A
501527 T-AATATTAAAAATTAAT-TAAAA
1 TAAATA-TAAAAATTAATATAAAA
* *
501549 TAAAATACAAAAAATCAATATAAAA
1 T-AAATA-TAAAAATTAATATAAAA
* *
501574 TCAATATAAAAA-T-ATAAAAAA
1 TAAATATAAAAATTAATATAAAA
** *
501595 TATTTATAAATATT-ATATAAA
1 TAAATATAAAAATTAATATAAA
501616 TTTATAATAT
Statistics
Matches: 71, Mismatches: 13, Indels: 14
0.72 0.13 0.14
Matches are distributed among these distances:
21 15 0.21
22 9 0.13
23 9 0.13
24 25 0.35
25 10 0.14
26 3 0.04
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (23 bp):
TAAATATAAAAATTAATATAAAA
Found at i:501575 original size:11 final size:11
Alignment explanation
Indices: 501559--501584 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
501549 TAAAATACAA
501559 AAAATCAATAT
1 AAAATCAATAT
501570 AAAATCAATAT
1 AAAATCAATAT
501581 AAAA
1 AAAA
501585 ATATAAAAAA
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:0.08, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAATCAATAT
Found at i:501903 original size:26 final size:27
Alignment explanation
Indices: 501859--501913 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
501849 TAAATACTAT
*
501859 ATATTATAATATAAAAAA-TAATATAA
1 ATATGATAATATAAAAAATTAATATAA
** *
501885 ATATGATAATATATTAAATTTATATAA
1 ATATGATAATATAAAAAATTAATATAA
501912 AT
1 AT
501914 TAAATTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
ATATGATAATATAAAAAATTAATATAA
Found at i:501917 original size:15 final size:15
Alignment explanation
Indices: 501897--501944 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
501887 ATGATAATAT
501897 ATTAAATTTATATAA
1 ATTAAATTTATATAA
*
501912 ATTAAATTTTTAATAA
1 ATTAAATTTAT-ATAA
*
501928 AGTAAAATTTATATAA
1 A-TTAAATTTATATAA
501944 A
1 A
501945 CTTATTAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 10 0.36
16 10 0.36
17 8 0.29
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
ATTAAATTTATATAA
Found at i:501933 original size:16 final size:15
Alignment explanation
Indices: 501899--501944 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
501889 GATAATATAT
*
501899 TAAATTTATATAAAT
1 TAAATTTATATAAAG
*
501914 TAAATTTTTAATAAAG
1 TAAATTTAT-ATAAAG
501930 TAAAATTTATATAAA
1 T-AAATTTATATAAA
501945 CTTATTAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 8 0.31
16 11 0.42
17 7 0.27
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (15 bp):
TAAATTTATATAAAG
Found at i:501965 original size:2 final size:2
Alignment explanation
Indices: 501958--501984 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
501948 ATTAAACATC
501958 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
501985 AATACTTAAA
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:503003 original size:14 final size:15
Alignment explanation
Indices: 502984--503017 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
502974 TTATTTTAAA
502984 AATTTTAAAATTT-T
1 AATTTTAAAATTTAT
*
502998 AATTTTAATATTTAT
1 AATTTTAAAATTTAT
503013 AATTT
1 AATTT
503018 ATTTATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTTTAAAATTTAT
Found at i:503016 original size:21 final size:21
Alignment explanation
Indices: 502987--503030 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
502977 TTTTAAAAAT
502987 TTTAAAATTTTAATT-TTAATA
1 TTTAAAA-TTTAATTATTAATA
* *
503008 TTTATAATTTATTTATTAATA
1 TTTAAAATTTAATTATTAATA
503029 TT
1 TT
503031 AATTTAATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTAAAATTTAATTATTAATA
Found at i:503447 original size:29 final size:29
Alignment explanation
Indices: 503414--503498 Score: 95
Period size: 29 Copynumber: 2.9 Consensus size: 29
503404 TTTTATAATA
503414 AAATTTATAT-TTATAAATTAAAATTATAT
1 AAATTTATATATTATAAA-TAAAATTATAT
* *
503443 AAATTTATATATTATTAATAAATTTA-AT
1 AAATTTATATATTATAAATAAAATTATAT
*
503471 AATATTT-TATCATTAAAAATAAAATTAT
1 AA-ATTTATAT-ATTATAAATAAAATTAT
503499 TTAATACTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
28 7 0.15
29 34 0.72
30 6 0.13
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (29 bp):
AAATTTATATATTATAAATAAAATTATAT
Found at i:505769 original size:43 final size:42
Alignment explanation
Indices: 505629--505772 Score: 234
Period size: 42 Copynumber: 3.4 Consensus size: 42
505619 CTTTTGTGAT
*
505629 TTGGCATAGCCACCCAATTGCATATTTATTTATTTTCGTGAA
1 TTGGCATAGCCACCCAATTGCATATTTATTTATTTTCGTGGA
* *
505671 TTGACATAGCCACCAAATTGCATATTTATTTATTTTCGTGGA
1 TTGGCATAGCCACCCAATTGCATATTTATTTATTTTCGTGGA
505713 TTGGCATAGCCACCCAATTGCATATTTATTTATTTTTCGTGGA
1 TTGGCATAGCCACCCAATTGCATATTTATTTA-TTTTCGTGGA
* *
505756 TTGGTATAACCACCCAA
1 TTGGCATAGCCACCCAA
505773 ATTCTAACAA
Statistics
Matches: 94, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 69 0.73
43 25 0.27
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (42 bp):
TTGGCATAGCCACCCAATTGCATATTTATTTATTTTCGTGGA
Found at i:508148 original size:42 final size:42
Alignment explanation
Indices: 508098--508229 Score: 219
Period size: 42 Copynumber: 3.1 Consensus size: 42
508088 TATTATTTAC
508098 ATTTTTGTGGTTTGGCATAGCCACCCAATTGCATATTTATTT
1 ATTTTTGTGGTTTGGCATAGCCACCCAATTGCATATTTATTT
* *
508140 ATTTTTGTGGTTTGGCATAGCCACCAAATTACATATTTATTT
1 ATTTTTGTGGTTTGGCATAGCCACCCAATTGCATATTTATTT
* * *
508182 ATTTTCGTGGATTGACATAGCCACCCAATTGCATATTTATTT
1 ATTTTTGTGGTTTGGCATAGCCACCCAATTGCATATTTATTT
508224 ATTTTT
1 ATTTTT
508230 CGTGAATTGA
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 82 1.00
ACGTcount: A:0.24, C:0.16, G:0.14, T:0.45
Consensus pattern (42 bp):
ATTTTTGTGGTTTGGCATAGCCACCCAATTGCATATTTATTT
Found at i:508247 original size:43 final size:43
Alignment explanation
Indices: 508098--508248 Score: 202
Period size: 42 Copynumber: 3.6 Consensus size: 43
508088 TATTATTTAC
* *
508098 ATTTTT-GTGGTTTGGCATAGCCACCCAATTGCATATTTATTT
1 ATTTTTCGTGGATTGACATAGCCACCCAATTGCATATTTATTT
* * * *
508140 ATTTTT-GTGGTTTGGCATAGCCACCAAATTACATATTTATTT
1 ATTTTTCGTGGATTGACATAGCCACCCAATTGCATATTTATTT
508182 A-TTTTCGTGGATTGACATAGCCACCCAATTGCATATTTATTT
1 ATTTTTCGTGGATTGACATAGCCACCCAATTGCATATTTATTT
*
508224 ATTTTTCGTGAATTGACCA-AGCCAC
1 ATTTTTCGTGGATTGA-CATAGCCAC
508249 TCAAATATTA
Statistics
Matches: 99, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
41 4 0.04
42 74 0.75
43 19 0.19
44 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (43 bp):
ATTTTTCGTGGATTGACATAGCCACCCAATTGCATATTTATTT
Found at i:508263 original size:84 final size:84
Alignment explanation
Indices: 508098--508254 Score: 226
Period size: 84 Copynumber: 1.8 Consensus size: 84
508088 TATTATTTAC
* * * ** *
508098 ATTTTTGTGGTTTGGCATAGCCACCCAATTGCATATTTATTTATTTTTGTGGTTTGGCATAGCCA
1 ATTTTCGTGGATTGACATAGCCACCCAATTGCATATTTATTTATTTTTGTGAATTGCCATAGCCA
508163 CCAAATTACATATTTATTT
66 CCAAATTACATATTTATTT
508182 ATTTTCGTGGATTGACATAGCCACCCAATTGCATATTTATTTATTTTTCGTGAATTGACCA-AGC
1 ATTTTCGTGGATTGACATAGCCACCCAATTGCATATTTATTTATTTTT-GTGAATTG-CCATAGC
508246 CACTCAAAT
64 CAC-CAAAT
508255 ATTATTTATC
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
84 45 0.70
85 12 0.19
86 7 0.11
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (84 bp):
ATTTTCGTGGATTGACATAGCCACCCAATTGCATATTTATTTATTTTTGTGAATTGCCATAGCCA
CCAAATTACATATTTATTT
Found at i:509368 original size:25 final size:25
Alignment explanation
Indices: 509335--509448 Score: 105
Period size: 25 Copynumber: 4.6 Consensus size: 25
509325 AAAATACAAA
509335 ATAAT-TAAAATATTATACATATTAT
1 ATAATATAAAATATTATA-ATATTAT
* *
509360 ATAA-ATAAAATTTTAAAAT-TTAT
1 ATAATATAAAATATTATAATATTAT
*
509383 ATAAATATAAAATATTATAATTATAAT
1 AT-AATATAAAATATTATAA-TATTAT
*
509410 ATAATATAATAA-ATTAT-ATA-AAT
1 ATAATATAA-AATATTATAATATTAT
*
509433 ATAATATAAATTATTA
1 ATAATATAAAATATTA
509449 AATTTAATTA
Statistics
Matches: 76, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
22 1 0.01
23 22 0.29
24 6 0.08
25 27 0.36
26 13 0.17
27 7 0.09
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (25 bp):
ATAATATAAAATATTATAATATTAT
Found at i:509407 original size:16 final size:16
Alignment explanation
Indices: 509368--509419 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
509358 ATATAAATAA
* *
509368 AATTTTAAAATTTATAT
1 AATTATAAAATAT-TAT
*
509385 AAATATAAAATATTAT
1 AATTATAAAATATTAT
* *
509401 AATTATAATATAATAT
1 AATTATAAAATATTAT
509417 AAT
1 AAT
509420 AAATTATATA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
16 19 0.66
17 10 0.34
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTATAAAATATTAT
Found at i:509414 original size:5 final size:5
Alignment explanation
Indices: 509381--509441 Score: 56
Period size: 5 Copynumber: 12.2 Consensus size: 5
509371 TTTAAAATTT
* *
509381 ATATAA ATATA AAATA TTATA ATTATA ATATA ATATA ATA-A AT-T- ATATAA
1 ATAT-A ATATA ATATA ATATA A-TATA ATATA ATATA ATATA ATATA ATAT-A
509431 ATATA ATATA A
1 ATATA ATATA A
509442 ATTATTAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
3 2 0.04
4 4 0.09
5 27 0.59
6 13 0.28
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:509435 original size:8 final size:8
Alignment explanation
Indices: 509380--509435 Score: 51
Period size: 9 Copynumber: 6.5 Consensus size: 8
509370 TTTTAAAATT
509380 TATATAAA
1 TATATAAA
509388 TATA-AAA
1 TATATAAA
*
509395 TATTATAAT
1 TA-TATAAA
509404 TATAATATAA
1 TAT-ATA-AA
509414 TATAATAAA
1 TAT-ATAAA
509423 TTATATAAA
1 -TATATAAA
509432 TATA
1 TATA
509436 ATATAAATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
7 5 0.12
8 11 0.27
9 14 0.34
10 11 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TATATAAA
Found at i:509437 original size:23 final size:23
Alignment explanation
Indices: 509355--509441 Score: 83
Period size: 23 Copynumber: 3.9 Consensus size: 23
509345 TATTATACAT
* *
509355 ATTATATAAATAAAATTTTAA-AA
1 ATTATATAAATATAA-TATAATAA
* * *
509378 TTTATATAAATATAAAATATTATA
1 ATTATATAAATATAATATAATA-A
509402 A-T-TAT-AATATAATATAATAA
1 ATTATATAAATATAATATAATAA
509422 ATTATATAAATATAATATAA
1 ATTATATAAATATAATATAA
509442 ATTATTAAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
20 2 0.04
21 13 0.25
22 8 0.16
23 27 0.53
24 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTATATAAATATAATATAATAA
Found at i:509463 original size:19 final size:19
Alignment explanation
Indices: 509418--509461 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
509408 ATATAATATA
509418 ATAAATTATATAAATATAAT
1 ATAAATTAT-TAAATATAAT
*
509438 ATAAATTATTAAATTTAATT
1 ATAAATTATTAAATATAA-T
509458 ATAA
1 ATAA
509462 TTTTAATTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
ATAAATTATTAAATATAAT
Found at i:510994 original size:38 final size:35
Alignment explanation
Indices: 510932--511001 Score: 95
Period size: 38 Copynumber: 1.9 Consensus size: 35
510922 AAATTAATTT
510932 TATTTTAAAAAATAAAAATGAATTTATTATAAAAA
1 TATTTTAAAAAATAAAAATGAATTTATTATAAAAA
* *
510967 TATTTTAAAAATTATTAAAAATTAATTTTTTATAA
1 TATTTTAAAAA--A-TAAAAATGAATTTATTATAA
511002 TTATAGTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
35 11 0.37
37 1 0.03
38 18 0.60
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (35 bp):
TATTTTAAAAAATAAAAATGAATTTATTATAAAAA
Found at i:512586 original size:13 final size:13
Alignment explanation
Indices: 512564--512597 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
512554 ACTAAAATAA
512564 AAATTATAAATATT
1 AAATT-TAAATATT
*
512578 AAATTTAAATTTT
1 AAATTTAAATATT
512591 AAATTTA
1 AAATTTA
512598 TTAAATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AAATTTAAATATT
Found at i:512599 original size:22 final size:23
Alignment explanation
Indices: 512574--512616 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
512564 AAATTATAAA
512574 TATTAAAT-TTAAATTTTAAATT
1 TATTAAATATTAAATTTTAAATT
*
512596 TATTAAATATTAATTTTTAAA
1 TATTAAATATTAAATTTTAAA
512617 AATAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTAAATATTAAATTTTAAATT
Found at i:512603 original size:16 final size:14
Alignment explanation
Indices: 512570--512616 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 14
512560 ATAAAAATTA
*
512570 TAAATATTAA-ATT
1 TAAATATTAATTTT
*
512583 TAAATTTTAAATTTAT
1 TAAATATT-AATTT-T
512599 TAAATATTAATTTT
1 TAAATATTAATTTT
512613 TAAA
1 TAAA
512617 AATAATAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 7 0.25
14 7 0.25
15 6 0.21
16 8 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TAAATATTAATTTT
Found at i:514367 original size:17 final size:17
Alignment explanation
Indices: 514347--514397 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
514337 TATATAATAT
514347 AAATTATTAATCTATTA
1 AAATTATTAATCTATTA
514364 AAATTTATATAA--TA-T-
1 AAA-TTAT-TAATCTATTA
514379 AAATTATTAATCTATTA
1 AAATTATTAATCTATTA
514396 AA
1 AA
514398 TTTTATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
13 3 0.11
14 4 0.14
15 5 0.18
16 2 0.07
17 7 0.25
18 4 0.14
19 3 0.11
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATTATTAATCTATTA
Found at i:514367 original size:32 final size:32
Alignment explanation
Indices: 514331--514412 Score: 139
Period size: 32 Copynumber: 2.6 Consensus size: 32
514321 TTAATATGTA
*
514331 AAAATCTATATAATATAAATTATTAATCTATT
1 AAAATTTATATAATATAAATTATTAATCTATT
514363 AAAATTTATATAATATAAATTATTAATCTATT
1 AAAATTTATATAATATAAATTATTAATCTATT
*
514395 AAATTTTATATAA-ATAAA
1 AAAATTTATATAATATAAA
514413 AAAAACGAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
31 5 0.10
32 43 0.90
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (32 bp):
AAAATTTATATAATATAAATTATTAATCTATT
Found at i:514397 original size:16 final size:16
Alignment explanation
Indices: 514346--514399 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
514336 CTATATAATA
514346 TAAATTATTAATCTAT
1 TAAATTATTAATCTAT
514362 TAAAATTTATATAA--TA-
1 T-AAA-TTAT-TAATCTAT
514378 TAAATTATTAATCTAT
1 TAAATTATTAATCTAT
514394 TAAATT
1 TAAATT
514400 TTATATAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 3 0.09
14 4 0.12
15 5 0.16
16 8 0.25
17 5 0.16
18 4 0.12
19 3 0.09
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAATTATTAATCTAT
Found at i:515926 original size:13 final size:12
Alignment explanation
Indices: 515910--515947 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
515900 AAAAATAAAA
515910 AATATATATATTT
1 AATATATAT-TTT
*
515923 AATATATATTAT
1 AATATATATTTT
515935 AATA-ATATTTT
1 AATATATATTTT
515946 AA
1 AA
515948 ATTTTGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 8 0.35
12 6 0.26
13 9 0.39
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AATATATATTTT
Found at i:515970 original size:18 final size:17
Alignment explanation
Indices: 515914--516001 Score: 63
Period size: 18 Copynumber: 4.8 Consensus size: 17
515904 ATAAAAAATA
515914 TATATATTTAATATATATT
1 TATATATTTAATA-AT-TT
*
515933 ATAATAATATTTTA-AATTT
1 -T-AT-ATATTTAATAATTT
515952 TGATATATTTAATAATTT
1 T-ATATATTTAATAATTT
*
515970 TATTATATATTTAT-ATTT
1 TA-TATAT-TTAATAATTT
*
515988 TATATAATTAATAA
1 TATATATTTAATAA
516002 AAAATAAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
16 4 0.07
17 13 0.23
18 20 0.36
19 6 0.11
20 3 0.05
21 3 0.05
22 7 0.12
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (17 bp):
TATATATTTAATAATTT
Found at i:515985 original size:28 final size:26
Alignment explanation
Indices: 515925--515996 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 26
515915 ATATATTTAA
*
515925 TATATATTATAATAATATTTTAAATTT
1 TATATATT-TAATAATTTTTTAAATTT
*
515952 TGATATATTTAATAATTTTATTATATATT
1 T-ATATATTTAATAATTTT-TTAAAT-TT
515981 TATAT-TTTATATAATT
1 TATATATTTA-ATAATT
515997 AATAAAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
27 14 0.36
28 22 0.56
29 3 0.08
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (26 bp):
TATATATTTAATAATTTTTTAAATTT
Found at i:516000 original size:35 final size:37
Alignment explanation
Indices: 515914--516001 Score: 108
Period size: 35 Copynumber: 2.4 Consensus size: 37
515904 ATAAAAAATA
515914 TATATATTTAATATATATTATAATAATATTTTAAATTT
1 TATATATTTAATA-ATATTATAATAATATTTTAAATTT
* * *
515952 TGATATATTTAATAATTTTATTAT-ATA-TTTATATTT
1 T-ATATATTTAATAATATTATAATAATATTTTAAATTT
*
515988 TATATAATTAATAA
1 TATATATTTAATAA
516002 AAAATAAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
35 12 0.27
36 9 0.20
37 3 0.07
38 9 0.20
39 12 0.27
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (37 bp):
TATATATTTAATAATATTATAATAATATTTTAAATTT
Found at i:517017 original size:16 final size:18
Alignment explanation
Indices: 516979--517018 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
516969 TTTCACCTAA
516979 TTATTT-TTTTATACTTT
1 TTATTTATTTTATACTTT
516996 TT-TTTATTTT-T-CTTT
1 TTATTTATTTTATACTTT
517011 TTATTTAT
1 TTATTTAT
517019 ATATTCTGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.29
16 9 0.43
17 6 0.29
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (18 bp):
TTATTTATTTTATACTTT
Found at i:522371 original size:21 final size:21
Alignment explanation
Indices: 522345--522398 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
522335 TAAAAATTAA
* **
522345 TTATTTATATTTTTTAAAATT
1 TTATTTATAATTAATAAAATT
522366 TTATTTATAATTAATAAAATT
1 TTATTTATAATTAATAAAATT
522387 TTAATTT-TAATT
1 TT-ATTTATAATT
522399 CTTGTATCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATTTATAATTAATAAAATT
Found at i:522475 original size:22 final size:22
Alignment explanation
Indices: 522450--522494 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
522440 TTTTTTATAA
* *
522450 ATTTTATATATATTTAATATTT
1 ATTTTATATAAAATTAATATTT
522472 ATTTTATATAAAATTAATATTT
1 ATTTTATATAAAATTAATATTT
522494 A
1 A
522495 AACATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTTTATATAAAATTAATATTT
Found at i:523148 original size:3 final size:3
Alignment explanation
Indices: 523140--523176 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
523130 ACTTATCCAA
*
523140 AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
523177 TGGGTTTTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:536032 original size:2 final size:2
Alignment explanation
Indices: 536025--536051 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
536015 CTTTGATAAT
536025 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
536052 GAGAATTCCT
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:536316 original size:2 final size:2
Alignment explanation
Indices: 536273--536297 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
536263 TTGCCTGGGT
536273 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 T
536298 CTGGTACAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:536817 original size:17 final size:18
Alignment explanation
Indices: 536791--536824 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
536781 AAATATATTC
536791 GTTAAATAT-AATAAAAA
1 GTTAAATATAAATAAAAA
*
536808 GTTAATTATAAATAAAA
1 GTTAAATATAAATAAAA
536825 GTAGGATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (18 bp):
GTTAAATATAAATAAAAA
Found at i:537151 original size:2 final size:2
Alignment explanation
Indices: 537144--537172 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
537134 ATTGTATACT
537144 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
537173 TCCTCTCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:537491 original size:15 final size:14
Alignment explanation
Indices: 537461--537487 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
537451 ATATTATTTA
537461 ATAATTTTATAAAT
1 ATAATTTTATAAAT
537475 ATAATTTTATAAA
1 ATAATTTTATAAA
537488 ATATTATCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAATTTTATAAAT
Found at i:537730 original size:2 final size:2
Alignment explanation
Indices: 537715--537750 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
537705 GTTCGTTATC
* *
537715 AT AT AT AC AA 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 AT AT
537751 TGTTTTTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:538992 original size:23 final size:24
Alignment explanation
Indices: 538948--538992 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
538938 TATTTAAAAA
*
538948 TTTTAAAATAAATATATAATTTAT
1 TTTTAAAATAAATAAATAATTTAT
* *
538972 TTTTAATA-AAATAAATCATTT
1 TTTTAAAATAAATAAATAATTT
538993 TACTAAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTTAAAATAAATAAATAATTTAT
Found at i:539080 original size:2 final size:2
Alignment explanation
Indices: 539073--539105 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
539063 TATCAAAATT
539073 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
539106 GCAAAACTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:539257 original size:2 final size:2
Alignment explanation
Indices: 539250--539280 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
539240 GTATATTTCA
539250 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 C
539281 CCTCATCACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:540830 original size:2 final size:2
Alignment explanation
Indices: 540823--540865 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
540813 GGTTTTTGAA
540823 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
540865 A
1 A
540866 CACACACACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:543574 original size:20 final size:21
Alignment explanation
Indices: 543536--543576 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
543526 TTTTTTAAAA
*
543536 TAAATATATATAATTTTATTT
1 TAAATATATATAATATTATTT
*
543557 TAAATA-ATTTAATATTATTT
1 TAAATATATATAATATTATTT
543577 AATTTATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TAAATATATATAATATTATTT
Found at i:544685 original size:2 final size:2
Alignment explanation
Indices: 544678--544714 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
544668 TTAGCTGCAT
544678 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
544715 CTTATTAGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:545873 original size:2 final size:2
Alignment explanation
Indices: 545866--545893 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
545856 AGAAGGTAAA
545866 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
545894 TCTTAGAGTT
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:546069 original size:18 final size:18
Alignment explanation
Indices: 546033--546071 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
546023 TTTTGGAGTT
546033 TTTATAAAAAAAATTATAA
1 TTTATAAAAAAAA-TATAA
546052 TTTATAATAAAAAA-ATAA
1 TTTATAA-AAAAAATATAA
546070 TT
1 TT
546072 ACAGTTATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
19 7 0.37
20 6 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TTTATAAAAAAAATATAA
Found at i:548889 original size:43 final size:45
Alignment explanation
Indices: 548835--548940 Score: 107
Period size: 43 Copynumber: 2.4 Consensus size: 45
548825 TATAGTATCA
* * *
548835 AATTTAAATAAATATTTTTATTT-AATTTAA-TTTAATTTATTATTT
1 AATTT-AATAAATATTTTTATTTAAATATAAGGTTAA-ATATTATTT
548880 -ATTTAATAAAT-TTATTT-TTTAAATATAAGGTTAAATATTATTT
1 AATTTAATAAATATT-TTTATTTAAATATAAGGTTAAATATTATTT
*
548923 AATATAA-AAATATTTTTA
1 AATTTAATAAATATTTTTA
548941 ATATTATTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
42 5 0.10
43 31 0.61
44 15 0.29
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (45 bp):
AATTTAATAAATATTTTTATTTAAATATAAGGTTAAATATTATTT
Found at i:549606 original size:21 final size:21
Alignment explanation
Indices: 549567--549606 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
549557 ATTAGTTTAA
* * *
549567 TATATTGTTTGATTTATTTCC
1 TATATTATTTCATTAATTTCC
549588 TATATTATTTCATTAATTT
1 TATATTATTTCATTAATTT
549607 TGATCAAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.62
Consensus pattern (21 bp):
TATATTATTTCATTAATTTCC
Found at i:549850 original size:14 final size:14
Alignment explanation
Indices: 549815--549850 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
549805 GGGATAAGGG
*
549815 ATATATACATATAC
1 ATATATATATATAC
549829 ATATATATATATAC
1 ATATATATATATAC
549843 ATATATAT
1 ATATATAT
549851 TGAAAAGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATATATATATAC
Found at i:550080 original size:22 final size:24
Alignment explanation
Indices: 550037--550084 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
550027 TAACTTACAT
550037 TTGATACATTATTAGTATATAACA
1 TTGATACATTATTAGTATATAACA
550061 TTGATA-A-TATTA-TATCATAACA
1 TTGATACATTATTAGTAT-ATAACA
550083 TT
1 TT
550085 TTATTAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 3 0.13
22 13 0.57
23 1 0.04
24 6 0.26
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (24 bp):
TTGATACATTATTAGTATATAACA
Found at i:556269 original size:18 final size:20
Alignment explanation
Indices: 556248--556287 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
556238 ATAGTGAAAT
556248 TAAATAAATAT-AA-ATATA
1 TAAATAAATATGAAGATATA
*
556266 TAAATAATTATGAAGATATA
1 TAAATAAATATGAAGATATA
556286 TA
1 TA
556288 TAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 2 0.11
20 7 0.37
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (20 bp):
TAAATAAATATGAAGATATA
Found at i:557744 original size:2 final size:2
Alignment explanation
Indices: 557737--557767 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
557727 GACCACTGTT
557737 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
557768 GTATGTATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:560933 original size:23 final size:23
Alignment explanation
Indices: 560907--560957 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
560897 TTGAGTCAAT
*
560907 AAAAATTATTTTACTCTTTTTTC
1 AAAAATTATTTTACACTTTTTTC
* *
560930 AAAAATTGTTTTACACTTTTTTT
1 AAAAATTATTTTACACTTTTTTC
560953 AAAAA
1 AAAAA
560958 AAATGATCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (23 bp):
AAAAATTATTTTACACTTTTTTC
Found at i:564827 original size:14 final size:14
Alignment explanation
Indices: 564808--564849 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
564798 AAGATCATAG
564808 AAATTAAATTTTAA
1 AAATTAAATTTTAA
*
564822 AAATTAAATATTAA
1 AAATTAAATTTTAA
*
564836 AATTTAAAATTTTA
1 AAATT-AAATTTTA
564850 TGATAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 17 0.71
15 7 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATTAAATTTTAA
Found at i:565826 original size:5 final size:5
Alignment explanation
Indices: 565816--565841 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
565806 AAAGGTAGGG
565816 AAATA AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA A
565842 TTAGAAAGCA
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:566211 original size:3 final size:3
Alignment explanation
Indices: 566203--566229 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
566193 ATTTTTAAAG
566203 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
566230 AAGGTTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:567027 original size:2 final size:2
Alignment explanation
Indices: 567022--567066 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
567012 AAGCACACAC
567022 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
567064 AT A
1 AT A
567067 AAAGCTTAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:570112 original size:11 final size:12
Alignment explanation
Indices: 570083--570132 Score: 59
Period size: 11 Copynumber: 4.3 Consensus size: 12
570073 AATCGTAATG
570083 ATATTTTATATT
1 ATATTTTATATT
570095 ATATTTTA-ATT
1 ATATTTTATATT
*
570106 ATTTTTTATATT
1 ATATTTTATATT
* *
570118 TTA-TTCATATT
1 ATATTTTATATT
570129 ATAT
1 ATAT
570133 AATTAAATCG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
11 19 0.61
12 12 0.39
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (12 bp):
ATATTTTATATT
Found at i:570129 original size:23 final size:23
Alignment explanation
Indices: 570086--570130 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
570076 CGTAATGATA
*
570086 TTTTATATTATATTTTAATTATT
1 TTTTATATTATATTATAATTATT
*
570109 TTTTATATTTTATTCAT-ATTAT
1 TTTTATATTATATT-ATAATTAT
570131 ATAATTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTTATATTATATTATAATTATT
Found at i:570133 original size:18 final size:17
Alignment explanation
Indices: 570088--570138 Score: 50
Period size: 18 Copynumber: 3.0 Consensus size: 17
570078 TAATGATATT
570088 TTATATTATAT-TTTAA
1 TTATATTATATATTTAA
* * *
570104 TTATTTTTTATATTTTA
1 TTATATTATATATTTAA
*
570121 TTCATATTATATAATTAA
1 TT-ATATTATATATTTAA
570139 ATCGTATATA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
16 9 0.35
17 6 0.23
18 11 0.42
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TTATATTATATATTTAA
Found at i:570848 original size:2 final size:2
Alignment explanation
Indices: 570843--570874 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
570833 AAGTAATAAT
570843 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
570875 AAAGAAAATA
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:571948 original size:2 final size:2
Alignment explanation
Indices: 571941--571971 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
571931 GTAAGGATAA
*
571941 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
571972 ATGTATGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:581886 original size:22 final size:23
Alignment explanation
Indices: 581844--581890 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
581834 AAATAAATTT
*
581844 TTAGTAGTTTAAACTAAATTAAA
1 TTAGTAGTGTAAACTAAATTAAA
581867 TTAGTA-TGTAAA-TAATATTAAA
1 TTAGTAGTGTAAACTAA-ATTAAA
581889 TT
1 TT
581891 TTTTTATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 3 0.14
22 13 0.59
23 6 0.27
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.43
Consensus pattern (23 bp):
TTAGTAGTGTAAACTAAATTAAA
Found at i:585159 original size:27 final size:27
Alignment explanation
Indices: 585119--585189 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
585109 ATAAAATATA
*
585119 ATATTAAATAATTAAAATTT-TTAATTTT
1 ATATTAAA-AATTAAAATTTGAT-ATTTT
* *
585147 ATATTTAAAATTATAATTTGATATTTT
1 ATATTAAAAATTAAAATTTGATATTTT
*
585174 AAATTAAAAATTAAAA
1 ATATTAAAAATTAAAA
585190 AATAAAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 28 0.78
28 8 0.22
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (27 bp):
ATATTAAAAATTAAAATTTGATATTTT
Found at i:585165 original size:20 final size:20
Alignment explanation
Indices: 585100--585179 Score: 65
Period size: 20 Copynumber: 3.9 Consensus size: 20
585090 ATTAAAAGTT
585100 ATTTT-TATTATAAAA-TATA
1 ATTTTATATT-TAAAATTATA
* * *
585119 ATATTAAATAATTAAAATTTTTA
1 AT-TT-TATATTTAAAA-TTATA
585142 ATTTTATATTTAAAATTATA
1 ATTTTATATTTAAAATTATA
* *
585162 ATTTGATATTTTAAATTA
1 ATTTTATATTTAAAATTA
585180 AAAATTAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
19 2 0.04
20 22 0.46
21 14 0.29
22 5 0.10
23 5 0.10
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (20 bp):
ATTTTATATTTAAAATTATA
Found at i:586024 original size:23 final size:21
Alignment explanation
Indices: 585986--586037 Score: 74
Period size: 19 Copynumber: 2.6 Consensus size: 21
585976 TAATTTTAAA
585986 AATTAAAATAATTAATT--TT
1 AATTAAAATAATTAATTAATT
586005 -ATATAAAATAATTAATTAATT
1 AAT-TAAAATAATTAATTAATT
586026 AATTAAAATAAT
1 AATTAAAATAAT
586038 CAAAATCGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 2 0.07
19 14 0.48
21 11 0.38
22 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTAAAATAATTAATTAATT
Found at i:589288 original size:23 final size:23
Alignment explanation
Indices: 589245--589288 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
589235 TTGGACAATA
* *
589245 ATTTAAAATTTATGTATATTTTT
1 ATTTAAAATTTATATAAATTTTT
589268 ATTT-AAATTTATATCAAATTT
1 ATTTAAAATTTATAT-AAATTT
589289 AATTTGATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
ATTTAAAATTTATATAAATTTTT
Found at i:589979 original size:17 final size:16
Alignment explanation
Indices: 589957--589988 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
589947 ATTTAAAAAA
589957 TTTATATTAATATATAT
1 TTTATATTAA-ATATAT
589974 TTTATATTAAATATA
1 TTTATATTAAATATA
589989 AATAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTATATTAAATATAT
Found at i:592851 original size:41 final size:42
Alignment explanation
Indices: 592803--592886 Score: 118
Period size: 41 Copynumber: 2.0 Consensus size: 42
592793 TTTACACTTC
* *
592803 ACCCTGGGGGCGGTTA-GTATTAAGTGGCATTAA-CTTTTTTA
1 ACCCTGGGGGCAG-TAGGTATTAAGTAGCATTAACCTTTTTTA
*
592844 ACCCTGGGGGCAGTAGGTATTTAGTAGCATTAACCTTTTTTA
1 ACCCTGGGGGCAGTAGGTATTAAGTAGCATTAACCTTTTTTA
592886 A
1 A
592887 GTATCTTTGG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 2 0.05
41 27 0.71
42 9 0.24
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (42 bp):
ACCCTGGGGGCAGTAGGTATTAAGTAGCATTAACCTTTTTTA
Found at i:592948 original size:52 final size:52
Alignment explanation
Indices: 592861--592965 Score: 167
Period size: 52 Copynumber: 2.0 Consensus size: 52
592851 GGGCAGTAGG
*
592861 TATTTAGTAGCATTAACCTTTTTTAAGTATCTTTGGCTTCTAAATCTTTGAA
1 TATTAAGTAGCATTAACCTTTTTTAAGTATCTTTGGCTTCTAAATCTTTGAA
* *
592913 TATTAAGTTGCATTAA-CTTTTTTCAAGTATCTTTGGCTTCTACATCTTTGAA
1 TATTAAGTAGCATTAACCTTTTTT-AAGTATCTTTGGCTTCTAAATCTTTGAA
592965 T
1 T
592966 CTGATAGACT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
51 7 0.14
52 42 0.86
ACGTcount: A:0.26, C:0.14, G:0.11, T:0.49
Consensus pattern (52 bp):
TATTAAGTAGCATTAACCTTTTTTAAGTATCTTTGGCTTCTAAATCTTTGAA
Found at i:595903 original size:27 final size:29
Alignment explanation
Indices: 595863--595917 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
595853 CGTGACAGCG
* *
595863 TAAATTATGTTATTTAATTTTTTTATTTT
1 TAAATTATGTTATTTAATATTTATATTTT
595892 TAAA-TAT-TTATTTAATATTTATATTT
1 TAAATTATGTTATTTAATATTTATATTT
595918 AATATAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 17 0.71
28 3 0.12
29 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (29 bp):
TAAATTATGTTATTTAATATTTATATTTT
Found at i:595964 original size:23 final size:24
Alignment explanation
Indices: 595912--595972 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 24
595902 TTTAATATTT
*
595912 ATATTTAATATAAAATTAAATATA
1 ATATATAATATAAAATTAAATATA
* **
595936 AT-TATAATATATAATTATTTA-A
1 ATATATAATATAAAATTAAATATA
595958 ATATATAA-A-AAAATT
1 ATATATAATATAAAATT
595973 TAAAAACATT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 5 0.16
22 4 0.13
23 20 0.65
24 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
ATATATAATATAAAATTAAATATA
Found at i:598309 original size:18 final size:19
Alignment explanation
Indices: 598288--598328 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
598278 TGTTAATGCA
598288 TTAAATA-TAAAATAT-TTT
1 TTAAATATTAAAAT-TGTTT
*
598306 TTAATTATTAAAATTGTTT
1 TTAAATATTAAAATTGTTT
598325 TTAA
1 TTAA
598329 CTTCACAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TTAAATATTAAAATTGTTT
Found at i:599841 original size:21 final size:21
Alignment explanation
Indices: 599815--599857 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
599805 ACCATATCCG
599815 ACACTTACTCTCTGACTGAGT
1 ACACTTACTCTCTGACTGAGT
599836 ACACTTACTCTCTGACTGAGT
1 ACACTTACTCTCTGACTGAGT
599857 A
1 A
599858 ACATAGGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.33
Consensus pattern (21 bp):
ACACTTACTCTCTGACTGAGT
Found at i:609750 original size:2 final size:2
Alignment explanation
Indices: 609743--609770 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
609733 AAGGAACCAC
609743 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
609771 TGGCATTATT
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:614754 original size:15 final size:15
Alignment explanation
Indices: 614734--614778 Score: 81
Period size: 15 Copynumber: 3.0 Consensus size: 15
614724 ATCTTTCGAT
614734 GACGTAGATGGGATA
1 GACGTAGATGGGATA
614749 GACGTAGATGGGATA
1 GACGTAGATGGGATA
*
614764 GACATAGATGGGATA
1 GACGTAGATGGGATA
614779 CTGGGTGAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.36, C:0.07, G:0.38, T:0.20
Consensus pattern (15 bp):
GACGTAGATGGGATA
Found at i:618061 original size:2 final size:2
Alignment explanation
Indices: 618054--618080 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
618044 CTTTCAAATG
618054 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
618081 TAAATGGTAC
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:618923 original size:3 final size:3
Alignment explanation
Indices: 618917--618963 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
618907 TGATATTTCT
618917 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
618964 GGGCATTCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:621904 original size:36 final size:35
Alignment explanation
Indices: 621840--621910 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 35
621830 GCGTTATCTG
*
621840 ATTTAAATTATAATTTAATAATAAAAATATTTTAA
1 ATTTAAATTATAATTTAAAAATAAAAATATTTTAA
621875 ATTTAAATT-TAATTATAAAATATAAAAATATTTTAA
1 ATTTAAATTATAATT-TAAAA-ATAAAAATATTTTAA
621911 TATTATTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
34 5 0.15
35 13 0.39
36 15 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (35 bp):
ATTTAAATTATAATTTAAAAATAAAAATATTTTAA
Found at i:621907 original size:29 final size:29
Alignment explanation
Indices: 621875--621930 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
621865 AATATTTTAA
621875 ATTTAAAT-TTAATTATAAAATA-TAAAAAT
1 ATTTAAATATT-ATTAT-AAATAGTAAAAAT
*
621904 ATTTTAATATTATTATAAATAGTAAAA
1 ATTTAAATATTATTATAAATAGTAAAA
621931 TAAAATTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 5 0.21
29 17 0.71
30 2 0.08
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (29 bp):
ATTTAAATATTATTATAAATAGTAAAAAT
Found at i:621930 original size:36 final size:35
Alignment explanation
Indices: 621860--621932 Score: 87
Period size: 36 Copynumber: 2.0 Consensus size: 35
621850 TAATTTAATA
*
621860 ATAAAAATATTTTAAATTTAAATTTAATTATAAAAT
1 ATAAAAATATTTTAAATTT-AATTTAAATATAAAAT
621896 ATAAAAATATTTT-AATATT-ATTATAAATAGTAAAAT
1 ATAAAAATATTTTAAAT-TTAATT-TAAATA-TAAAAT
621932 A
1 A
621933 AAATTTTGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
34 3 0.09
35 8 0.24
36 22 0.67
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (35 bp):
ATAAAAATATTTTAAATTTAATTTAAATATAAAAT
Found at i:622225 original size:2 final size:2
Alignment explanation
Indices: 622220--622246 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
622210 ATACTAAGGC
622220 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
622247 TCAGACTTTG
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:625522 original size:21 final size:25
Alignment explanation
Indices: 625482--625536 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 25
625472 TCAGAAGGTC
625482 TTTATTTT-GTTCATTTTCT-CT-T
1 TTTATTTTGGTTCATTTTCTCCTCT
625504 TTTATTTTGGTT-A-TTTCTCCTCT
1 TTTATTTTGGTTCATTTTCTCCTCT
625527 TTT-TTTTGGT
1 TTTATTTTGGT
625537 GGGGTTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.17
22 18 0.60
23 7 0.23
ACGTcount: A:0.07, C:0.13, G:0.09, T:0.71
Consensus pattern (25 bp):
TTTATTTTGGTTCATTTTCTCCTCT
Found at i:627934 original size:19 final size:19
Alignment explanation
Indices: 627884--627936 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 19
627874 TTATTTTTTA
*
627884 TTTAAAATAT-ATTTTAAT
1 TTTAAAATATAATTTAAAT
*
627902 TTTTAAATAATAATTTAAAT
1 TTTAAAAT-ATAATTTAAAT
*
627922 TTTAAAATTTAATTT
1 TTTAAAATATAATTT
627937 CAATCAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 7 0.24
19 8 0.28
20 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTAAAATATAATTTAAAT
Found at i:634563 original size:19 final size:20
Alignment explanation
Indices: 634529--634579 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
634519 AATATAGTAT
*
634529 ATATAAT-TAAAAATA-TAA
1 ATATAATATATAAATATTAA
634547 ATATAATATATAAATATTAA
1 ATATAATATATAAATATTAA
*
634567 A-ATATTATATAAA
1 ATATAATATATAAA
634580 AAATGATATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 7 0.24
19 18 0.62
20 4 0.14
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATATAATATATAAATATTAA
Found at i:634734 original size:8 final size:7
Alignment explanation
Indices: 634695--634733 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
634685 ATACAATTAT
634695 AATATAA
1 AATATAA
634702 AATATAA
1 AATATAA
634709 AATATAA
1 AATATAA
*
634716 AA-ATAT
1 AATATAA
634722 AATAT-A
1 AATATAA
634728 AATATA
1 AATATA
634734 TGAATATTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 10 0.36
7 18 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
AATATAA
Found at i:635860 original size:12 final size:11
Alignment explanation
Indices: 635843--635881 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
635833 ATTTTTTATT
635843 TAAAATTAATTA
1 TAAAATTAA-TA
635855 TAAAATT-ATA
1 TAAAATTAATA
635865 TAAATATTAATA
1 TAAA-ATTAATA
635877 TAAAA
1 TAAAA
635882 ATATTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 6 0.24
11 5 0.20
12 14 0.56
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAAATTAATA
Found at i:635868 original size:22 final size:22
Alignment explanation
Indices: 635838--635881 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
635828 AAATAATTTT
*
635838 TTATTTAAA-ATTAATTATAAAA
1 TTATATAAATATTAA-TATAAAA
635860 TTATATAAATATTAATATAAAA
1 TTATATAAATATTAATATAAAA
635882 ATATTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TTATATAAATATTAATATAAAA
Found at i:637112 original size:20 final size:20
Alignment explanation
Indices: 637089--637140 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
637079 GTAACATTAA
*
637089 TTATAATTTTTGTAGTG-TTT
1 TTATAATTTTT-TAATGATTT
637109 TTATAATATTTTTAATGATTT
1 TTATAAT-TTTTTAATGATTT
*
637130 TTATAGTTTTT
1 TTATAATTTTT
637141 ATGTGATTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (20 bp):
TTATAATTTTTTAATGATTT
Found at i:638544 original size:4 final size:4
Alignment explanation
Indices: 638535--638573 Score: 64
Period size: 4 Copynumber: 10.2 Consensus size: 4
638525 TTAGCAACAA
638535 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA- AAA- AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
638574 GCTAATCACA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 6 0.18
4 28 0.82
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:641824 original size:21 final size:23
Alignment explanation
Indices: 641798--641840 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
641788 TGACTTTGCA
*
641798 AAAAATTTAA-AAAA-AAAGGAG
1 AAAAATGTAACAAAAGAAAGGAG
641819 AAAAATGTAACAAAAGAAAGGA
1 AAAAATGTAACAAAAGAAAGGA
641841 AAAGATAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 4 0.21
23 6 0.32
ACGTcount: A:0.70, C:0.02, G:0.16, T:0.12
Consensus pattern (23 bp):
AAAAATGTAACAAAAGAAAGGAG
Found at i:643267 original size:2 final size:2
Alignment explanation
Indices: 643260--643294 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
643250 TGATAACAAG
643260 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 A
643295 ATAAAAGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:645802 original size:18 final size:18
Alignment explanation
Indices: 645764--645800 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
645754 AAGCTCAGTG
*
645764 AATCAATATTTCATTTAA
1 AATCAAAATTTCATTTAA
645782 AATCAAAATTT-ATTTAA
1 AATCAAAATTTCATTTAA
645799 AA
1 AA
645801 ATAAATCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (18 bp):
AATCAAAATTTCATTTAA
Found at i:646103 original size:5 final size:5
Alignment explanation
Indices: 646060--646101 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
646050 TTGAAACAAG
646060 AAGAA GAAGAA GAAGAA AAGAA AAGAA AAGAA AA-AA AA-AA AA
1 AAGAA -AAGAA -AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AA
646102 AACACTATGG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 8 0.22
5 17 0.47
6 11 0.31
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:646634 original size:2 final size:2
Alignment explanation
Indices: 646627--646659 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
646617 TATCAGACAA
646627 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 A
646660 CACATATGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.